Mercurial > repos > sanbi-uwc > vcf_snps_utils
annotate test-data/test.vcf @ 9:75abce7d0d52 draft default tip
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit b09e42709ad92b22ab549bdc03e35c6990eb7688
| author | sanbi-uwc |
|---|---|
| date | Thu, 23 Aug 2018 06:39:58 -0400 |
| parents | a074dbf35f0c |
| children |
| rev | line source |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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changeset
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1 ##fileformat=VCFv4.2 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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2 ##fileDate=20180615 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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3 ##source=freeBayes v1.2.0-dirty |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
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4 ##reference=reference/ref.fa |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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5 ##contig=<ID=NC_000962,length=4411532> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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6 ##phasing=none |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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7 ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of samples with data"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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8 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total read depth at the locus"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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diff
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9 ##INFO=<ID=DPB,Number=1,Type=Float,Description="Total read depth per bp at the locus; bases in reads overlapping / bases in haplotype"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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10 ##INFO=<ID=AC,Number=A,Type=Integer,Description="Total number of alternate alleles in called genotypes"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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11 ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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12 ##INFO=<ID=AF,Number=A,Type=Float,Description="Estimated allele frequency in the range (0,1]"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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13 ##INFO=<ID=RO,Number=1,Type=Integer,Description="Count of full observations of the reference haplotype."> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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14 ##INFO=<ID=AO,Number=A,Type=Integer,Description="Count of full observations of this alternate haplotype."> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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15 ##INFO=<ID=PRO,Number=1,Type=Float,Description="Reference allele observation count, with partial observations recorded fractionally"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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16 ##INFO=<ID=PAO,Number=A,Type=Float,Description="Alternate allele observations, with partial observations recorded fractionally"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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17 ##INFO=<ID=QR,Number=1,Type=Integer,Description="Reference allele quality sum in phred"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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18 ##INFO=<ID=QA,Number=A,Type=Integer,Description="Alternate allele quality sum in phred"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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19 ##INFO=<ID=PQR,Number=1,Type=Float,Description="Reference allele quality sum in phred for partial observations"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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20 ##INFO=<ID=PQA,Number=A,Type=Float,Description="Alternate allele quality sum in phred for partial observations"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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21 ##INFO=<ID=SRF,Number=1,Type=Integer,Description="Number of reference observations on the forward strand"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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22 ##INFO=<ID=SRR,Number=1,Type=Integer,Description="Number of reference observations on the reverse strand"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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23 ##INFO=<ID=SAF,Number=A,Type=Integer,Description="Number of alternate observations on the forward strand"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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24 ##INFO=<ID=SAR,Number=A,Type=Integer,Description="Number of alternate observations on the reverse strand"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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25 ##INFO=<ID=SRP,Number=1,Type=Float,Description="Strand balance probability for the reference allele: Phred-scaled upper-bounds estimate of the probability of observing the deviation between SRF and SRR given E(SRF/SRR) ~ 0.5, derived using Hoeffding's inequality"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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26 ##INFO=<ID=SAP,Number=A,Type=Float,Description="Strand balance probability for the alternate allele: Phred-scaled upper-bounds estimate of the probability of observing the deviation between SAF and SAR given E(SAF/SAR) ~ 0.5, derived using Hoeffding's inequality"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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diff
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27 ##INFO=<ID=AB,Number=A,Type=Float,Description="Allele balance at heterozygous sites: a number between 0 and 1 representing the ratio of reads showing the reference allele to all reads, considering only reads from individuals called as heterozygous"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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diff
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28 ##INFO=<ID=ABP,Number=A,Type=Float,Description="Allele balance probability at heterozygous sites: Phred-scaled upper-bounds estimate of the probability of observing the deviation between ABR and ABA given E(ABR/ABA) ~ 0.5, derived using Hoeffding's inequality"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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29 ##INFO=<ID=RUN,Number=A,Type=Integer,Description="Run length: the number of consecutive repeats of the alternate allele in the reference genome"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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30 ##INFO=<ID=RPP,Number=A,Type=Float,Description="Read Placement Probability: Phred-scaled upper-bounds estimate of the probability of observing the deviation between RPL and RPR given E(RPL/RPR) ~ 0.5, derived using Hoeffding's inequality"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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31 ##INFO=<ID=RPPR,Number=1,Type=Float,Description="Read Placement Probability for reference observations: Phred-scaled upper-bounds estimate of the probability of observing the deviation between RPL and RPR given E(RPL/RPR) ~ 0.5, derived using Hoeffding's inequality"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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32 ##INFO=<ID=RPL,Number=A,Type=Float,Description="Reads Placed Left: number of reads supporting the alternate balanced to the left (5') of the alternate allele"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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33 ##INFO=<ID=RPR,Number=A,Type=Float,Description="Reads Placed Right: number of reads supporting the alternate balanced to the right (3') of the alternate allele"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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34 ##INFO=<ID=EPP,Number=A,Type=Float,Description="End Placement Probability: Phred-scaled upper-bounds estimate of the probability of observing the deviation between EL and ER given E(EL/ER) ~ 0.5, derived using Hoeffding's inequality"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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35 ##INFO=<ID=EPPR,Number=1,Type=Float,Description="End Placement Probability for reference observations: Phred-scaled upper-bounds estimate of the probability of observing the deviation between EL and ER given E(EL/ER) ~ 0.5, derived using Hoeffding's inequality"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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36 ##INFO=<ID=DPRA,Number=A,Type=Float,Description="Alternate allele depth ratio. Ratio between depth in samples with each called alternate allele and those without."> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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37 ##INFO=<ID=ODDS,Number=1,Type=Float,Description="The log odds ratio of the best genotype combination to the second-best."> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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38 ##INFO=<ID=GTI,Number=1,Type=Integer,Description="Number of genotyping iterations required to reach convergence or bailout."> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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39 ##INFO=<ID=TYPE,Number=A,Type=String,Description="The type of allele, either snp, mnp, ins, del, or complex."> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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40 ##INFO=<ID=CIGAR,Number=A,Type=String,Description="The extended CIGAR representation of each alternate allele, with the exception that '=' is replaced by 'M' to ease VCF parsing. Note that INDEL alleles do not have the first matched base (which is provided by default, per the spec) referred to by the CIGAR."> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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41 ##INFO=<ID=NUMALT,Number=1,Type=Integer,Description="Number of unique non-reference alleles in called genotypes at this position."> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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42 ##INFO=<ID=MEANALT,Number=A,Type=Float,Description="Mean number of unique non-reference allele observations per sample with the corresponding alternate alleles."> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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43 ##INFO=<ID=LEN,Number=A,Type=Integer,Description="allele length"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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44 ##INFO=<ID=MQM,Number=A,Type=Float,Description="Mean mapping quality of observed alternate alleles"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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45 ##INFO=<ID=MQMR,Number=1,Type=Float,Description="Mean mapping quality of observed reference alleles"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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46 ##INFO=<ID=PAIRED,Number=A,Type=Float,Description="Proportion of observed alternate alleles which are supported by properly paired read fragments"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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47 ##INFO=<ID=PAIREDR,Number=1,Type=Float,Description="Proportion of observed reference alleles which are supported by properly paired read fragments"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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48 ##INFO=<ID=MIN_DP,Number=1,Type=Integer,Description="Minimum depth in gVCF output block."> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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49 ##INFO=<ID=END,Number=1,Type=Integer,Description="Last position (inclusive) in gVCF output record."> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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50 ##filter=/net/datasrv3hs.sanbi.ac.za/datastore/cip0/software/conda/envs/__snippy@3.2/bin/snippy-vcf_filter --minqual 10 --mincov 10 --minfrac 0.9 snps.raw.vcf |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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51 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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52 ##FORMAT=<ID=GQ,Number=1,Type=Float,Description="Genotype Quality, the Phred-scaled marginal (or unconditional) probability of the called genotype"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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53 ##FORMAT=<ID=GL,Number=G,Type=Float,Description="Genotype Likelihood, log10-scaled likelihoods of the data given the called genotype for each possible genotype generated from the reference and alternate alleles given the sample ploidy"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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54 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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55 ##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Number of observation for each allele"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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56 ##FORMAT=<ID=RO,Number=1,Type=Integer,Description="Reference allele observation count"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
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57 ##FORMAT=<ID=QR,Number=1,Type=Integer,Description="Sum of quality of the reference observations"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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58 ##FORMAT=<ID=AO,Number=A,Type=Integer,Description="Alternate allele observation count"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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59 ##FORMAT=<ID=QA,Number=A,Type=Integer,Description="Sum of quality of the alternate observations"> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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60 ##FORMAT=<ID=MIN_DP,Number=1,Type=Integer,Description="Minimum depth in gVCF output block."> |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
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61 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT snps |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
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62 NC_000962 1849 . C A 1972.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1X;DP=63;DPB=63;DPRA=0;EPP=3.32051;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=454.238;PAIRED=0.793651;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2189;QR=0;RO=0;RPL=30;RPP=3.32051;RPPR=0;RPR=33;RUN=1;SAF=35;SAP=4.69922;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:519:0,519:0:0:519:17602:-1583.73,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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63 NC_000962 1977 . A G 2042.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=1X;DP=69;DPB=69;DPRA=0;EPP=3.79707;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=470.384;PAIRED=0.884058;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2267;QR=0;RO=0;RPL=36;RPP=3.29354;RPPR=0;RPR=33;RUN=1;SAF=35;SAP=3.04177;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:390:0,390:0:0:390:13160:-1184.1,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
64 NC_000962 4013 . T C 1817.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=59;CIGAR=1X;DP=59;DPB=59;DPRA=0;EPP=4.81373;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=418.398;PAIRED=0.983051;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2016;QR=0;RO=0;RPL=28;RPP=3.34154;RPPR=0;RPR=31;RUN=1;SAF=29;SAP=3.0471;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:539:0,539:0:0:539:18960:-1705.73,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
65 NC_000962 7362 . G C 3375.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=13.359;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=777.126;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3750;QR=0;RO=0;RPL=46;RPP=10.0725;RPPR=0;RPR=65;RUN=1;SAF=62;SAP=6.31642;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:639:0,639:0:0:639:22701:-2042.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
66 NC_000962 7585 . G C 3420.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=9.29206;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=787.537;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3798;QR=0;RO=0;RPL=57;RPP=3.08785;RPPR=0;RPR=55;RUN=1;SAF=48;SAP=7.97367;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:511:0,511:0:0:511:18091:-1627.5,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
67 NC_000962 9304 . G A 4077.95 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1X;DP=136;DPB=136;DPRA=0;EPP=4.60697;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=938.984;PAIRED=0.970588;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4529;QR=0;RO=0;RPL=67;RPP=3.07417;RPPR=0;RPR=69;RUN=1;SAF=82;SAP=15.5282;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:413:0,413:0:0:413:13949:-1255.04,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
68 NC_000962 11820 . C G 2421.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1X;DP=82;DPB=82;DPRA=0;EPP=10.7579;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=557.599;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2728;QR=36;RO=1;RPL=38;RPP=3.68051;RPPR=5.18177;RPR=43;RUN=1;SAF=43;SAP=3.68051;SAR=38;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:462:0,462:0:0:462:16757:-1507.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
69 NC_000962 11879 . A G 3060.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=5.18177;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=704.675;PAIRED=0.99;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3398;QR=0;RO=0;RPL=39;RPP=13.5202;RPPR=0;RPR=61;RUN=1;SAF=58;SAP=8.56927;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:386:0,386:0:0:386:13563:-1220.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
70 NC_000962 14785 . T C 2890.35 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=4.13032;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=665.528;PAIRED=0.978947;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3209;QR=0;RO=0;RPL=38;RPP=11.2619;RPPR=0;RPR=57;RUN=1;SAF=36;SAP=15.102;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:535:0,535:0:0:535:19279:-1734.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
71 NC_000962 14861 . G T 3713.47 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=5.25601;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=855.058;PAIRED=0.991453;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4124;QR=0;RO=0;RPL=58;RPP=3.02886;RPPR=0;RPR=59;RUN=1;SAF=44;SAP=18.6189;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:562:0,562:0:0:562:19683:-1770.74,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
72 NC_000962 15117 . C G 2722.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=7.84676;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=626.791;PAIRED=0.988636;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3022;QR=0;RO=0;RPL=45;RPP=3.109;RPPR=0;RPR=43;RUN=1;SAF=50;SAP=6.56362;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:436:0,436:0:0:436:15412:-1386.65,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
73 NC_000962 16119 . C A 2218.35 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=71;CIGAR=1X;DP=71;DPB=71;DPRA=0;EPP=5.48761;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=510.793;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2462;QR=0;RO=0;RPL=39;RPP=4.50892;RPPR=0;RPR=32;RUN=1;SAF=33;SAP=3.7749;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:472:0,471:0:0:471:16301:-1466.29,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
74 NC_000962 17654 . TGCT GGCC 3258.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X2M1X;DP=113;DPB=114;DPRA=0;EPP=3.72096;EPPR=0;GTI=0;LEN=4;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=750.353;PAIRED=0.990909;PAIREDR=0;PAO=4;PQA=118;PQR=0;PRO=0;QA=3503;QR=0;RO=0;RPL=50;RPP=4.98437;RPPR=0;RPR=60;RUN=1;SAF=52;SAP=3.72096;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:370:0,362:0:0:362:11711:-1101.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
75 NC_000962 21795 . G A 3457.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=31.7304;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=796.021;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3839;QR=0;RO=0;RPL=76;RPP=28.8603;RPPR=0;RPR=39;RUN=1;SAF=29;SAP=64.3591;SAR=86;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:515:0,515:0:0:515:17683:-1590.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
76 NC_000962 25610 . G C 3129.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=7.10269;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=720.626;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3475;QR=0;RO=0;RPL=40;RPP=15.0369;RPPR=0;RPR=64;RUN=1;SAF=57;SAP=5.09825;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:467:0,467:0:0:467:15932:-1433.46,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
77 NC_000962 26959 . C G 2900.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=7.94546;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=667.8;PAIRED=0.989899;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3220;QR=0;RO=0;RPL=54;RPP=4.78696;RPPR=0;RPR=45;RUN=1;SAF=54;SAP=4.78696;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:437:0,437:0:0:437:15091:-1357.76,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
78 NC_000962 28366 . ATTAC ATAC 2890.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1M1D3M;DP=97;DPB=78.2;DPRA=0;EPP=3.84193;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=665.531;PAIRED=1;PAIREDR=0;PAO=0.5;PQA=16;PQR=16;PRO=0.5;QA=3212;QR=0;RO=0;RPL=53;RPP=6.33681;RPPR=0;RPR=41;RUN=1;SAF=53;SAP=6.33681;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:459:0,450:0:0:450:15557:-1399.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
79 NC_000962 29964 . T C 3130.57 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=11.2045;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=720.84;PAIRED=0.981132;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3516;QR=36;RO=1;RPL=45;RPP=8.25461;RPPR=5.18177;RPR=61;RUN=1;SAF=56;SAP=3.74778;SAR=50;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:107:1,106:1:36:106:3516:-313.057,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
80 NC_000962 34044 . T C 2528.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=84;CIGAR=1X;DP=85;DPB=85;DPRA=0;EPP=3.94093;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=582.255;PAIRED=0.988095;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2847;QR=36;RO=1;RPL=40;RPP=3.42391;RPPR=5.18177;RPR=44;RUN=1;SAF=33;SAP=11.386;SAR=51;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:587:0,587:0:0:587:20255:-1822.28,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
81 NC_000962 35608 . C T 2980.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=4.82359;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=686.235;PAIRED=0.989691;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3309;QR=0;RO=0;RPL=46;RPP=3.56996;RPPR=0;RPR=51;RUN=1;SAF=73;SAP=56.7598;SAR=24;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:555:0,555:0:0:555:19174:-1724.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
82 NC_000962 36008 . G C 3382.43 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=3.96888;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=778.832;PAIRED=0.981982;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3756;QR=0;RO=0;RPL=49;RPP=6.31642;RPPR=0;RPR=62;RUN=1;SAF=63;SAP=7.41193;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:432:0,432:0:0:432:14804:-1331.99,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
83 NC_000962 37031 . C G 3007.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=3.0318;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=692.459;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3339;QR=0;RO=0;RPL=53;RPP=3.54779;RPPR=0;RPR=48;RUN=1;SAF=48;SAP=3.54779;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:541:0,541:0:0:541:18343:-1650.41,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
84 NC_000962 37305 . C G 3091.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=6.07591;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=711.935;PAIRED=0.990196;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3433;QR=0;RO=0;RPL=44;RPP=7.18293;RPPR=0;RPR=58;RUN=1;SAF=47;SAP=4.37279;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:481:0,481:0:0:481:16801:-1511.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
85 NC_000962 37334 . A T 3576.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=9.18185;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=823.576;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3972;QR=0;RO=0;RPL=58;RPP=3.08649;RPPR=0;RPR=56;RUN=1;SAF=56;SAP=3.08649;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:556:0,556:0:0:556:19991:-1798.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
86 NC_000962 39158 . C G 3654.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=7.18621;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=841.391;PAIRED=0.991453;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4058;QR=0;RO=0;RPL=62;RPP=3.91972;RPPR=0;RPR=55;RUN=1;SAF=64;SAP=5.25601;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:376:0,376:0:0:376:13576:-1221.33,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
87 NC_000962 42281 . C A 5268.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=171;CIGAR=1X;DP=172;DPB=172;DPRA=0;EPP=4.03889;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1213.01;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=5892;QR=36;RO=1;RPL=94;RPP=6.68022;RPPR=5.18177;RPR=77;RUN=1;SAF=54;SAP=53.4113;SAR=117;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:462:0,462:0:0:462:16141:-1452.26,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
88 NC_000962 42967 . G C 4033.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=133;CIGAR=1X;DP=135;DPB=135;DPRA=0;EPP=3.81032;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=928.76;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4482;QR=0;RO=0;RPL=74;RPP=6.68384;RPPR=0;RPR=59;RUN=1;SAF=87;SAP=30.4558;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:493:0,493:0:0:493:16954:-1525.41,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
89 NC_000962 44768 . A G 3288.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=3.49937;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=757.095;PAIRED=0.981982;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3651;QR=0;RO=0;RPL=46;RPP=10.0725;RPPR=0;RPR=65;RUN=1;SAF=53;SAP=3.49937;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:474:0,474:0:0:474:16661:-1498.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
90 NC_000962 48503 . T C 3562.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=6.14687;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=820.27;PAIRED=0.991453;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3996;QR=36;RO=1;RPL=54;RPP=4.51363;RPPR=5.18177;RPR=63;RUN=1;SAF=68;SAP=9.71031;SAR=49;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:519:0,519:0:0:519:18372:-1652.74,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
91 NC_000962 49360 . C T 5025.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=161;CIGAR=1X;DP=161;DPB=161;DPRA=0;EPP=15.9717;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1157.08;PAIRED=0.993789;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5582;QR=0;RO=0;RPL=100;RPP=23.5246;RPPR=0;RPR=61;RUN=1;SAF=91;SAP=8.95825;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:461:0,461:0:0:461:15637:-1407.1,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
92 NC_000962 49690 . GCCCTG GCTG 4022.66 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=137;CIGAR=1M2D3M;DP=139;DPB=92.8333;DPRA=0;EPP=4.29416;EPPR=0;GTI=0;LEN=2;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=926.252;PAIRED=0.963504;PAIREDR=0;PAO=0.5;PQA=16;PQR=16;PRO=0.5;QA=4471;QR=0;RO=0;RPL=65;RPP=3.78696;RPPR=0;RPR=72;RUN=1;SAF=70;SAP=3.15295;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:460:0,458:0:0:458:15479:-1392.56,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
93 NC_000962 50557 . T C 3711.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=125;DPB=125;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=854.548;PAIRED=0.983871;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4125;QR=0;RO=0;RPL=70;RPP=7.49334;RPPR=0;RPR=54;RUN=1;SAF=88;SAP=50.3624;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:486:1,485:1:24:485:17092:-1535.29,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
94 NC_000962 51949 . A G 3087.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=26.4235;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=710.975;PAIRED=0.980198;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3432;QR=0;RO=0;RPL=57;RPP=6.64375;RPPR=0;RPR=44;RUN=1;SAF=46;SAP=4.75178;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:525:0,525:0:0:525:18378:-1653.43,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
95 NC_000962 54394 . A G 3162.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=5.96022;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=728.154;PAIRED=0.990566;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3514;QR=0;RO=0;RPL=54;RPP=3.09224;RPPR=0;RPR=52;RUN=1;SAF=55;SAP=3.33807;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:557:0,557:0:0:557:19613:-1764.46,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
96 NC_000962 57298 . C G 3453.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=3.08391;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=795.199;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3875;QR=36;RO=1;RPL=57;RPP=3.30474;RPPR=5.18177;RPR=61;RUN=1;SAF=53;SAP=5.66023;SAR=65;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:452:0,452:0:0:452:15105:-1359.11,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
97 NC_000962 62049 . A G 2854.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=4.48875;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=657.237;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3169;QR=0;RO=0;RPL=39;RPP=8.9241;RPPR=0;RPR=55;RUN=1;SAF=38;SAP=10.4949;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:409:0,409:0:0:409:13566:-1220.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
98 NC_000962 63146 . G T 1793.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=58;CIGAR=1X;DP=58;DPB=58;DPRA=0;EPP=3.60933;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=413.009;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1990;QR=0;RO=0;RPL=32;RPP=4.35811;RPPR=0;RPR=26;RUN=1;SAF=23;SAP=8.40154;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:630:1,629:1:35:629:22526:-2022.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
99 NC_000962 65150 . C T 2705.01 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=3.23494;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=622.851;PAIRED=0.988506;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3003;QR=0;RO=0;RPL=41;RPP=3.63429;RPPR=0;RPR=46;RUN=1;SAF=40;SAP=4.23331;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:593:0,593:0:0:593:20005:-1799.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
100 NC_000962 68337 . TCA TCCA 2307.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1M1I2M;DP=82;DPB=108.333;DPRA=0;EPP=3.69747;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=531.427;PAIRED=0.974684;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2601;QR=36;RO=1;RPL=41;RPP=3.25768;RPPR=5.18177;RPR=38;RUN=1;SAF=36;SAP=4.35716;SAR=43;SRF=0;SRP=5.18177;SRR=1;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:510:0,504:0:0:504:16560:-1489.83,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
101 NC_000962 69989 . G A 2252.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=73;CIGAR=1X;DP=73;DPB=73;DPRA=0;EPP=3.75395;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=518.656;PAIRED=0.972603;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2500;QR=0;RO=0;RPL=38;RPP=3.27802;RPPR=0;RPR=35;RUN=1;SAF=40;SAP=4.46786;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:467:0,466:0:0:466:15641:-1407.02,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
102 NC_000962 70267 . G T 1556.19 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=50;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=7.35324;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=358.326;PAIRED=0.98;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1726;QR=0;RO=0;RPL=26;RPP=3.18402;RPPR=0;RPR=24;RUN=1;SAF=22;SAP=4.57376;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:527:0,527:0:0:527:18465:-1661.19,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
103 NC_000962 70816 . A G 3778.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=125;DPB=125;DPRA=0;EPP=10.015;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=870.126;PAIRED=0.983871;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4199;QR=0;RO=0;RPL=70;RPP=7.49334;RPPR=0;RPR=54;RUN=1;SAF=76;SAP=16.7396;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:510:0,510:0:0:510:17572:-1581,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
104 NC_000962 71336 . G C 3049.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=3.0318;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=702.195;PAIRED=0.990099;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3386;QR=0;RO=0;RPL=52;RPP=3.2038;RPPR=0;RPR=49;RUN=1;SAF=50;SAP=3.0318;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:331:0,331:0:0:331:11257:-1012.93,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
105 NC_000962 75233 . C A 2813.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=13.3073;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=647.912;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3124;QR=0;RO=0;RPL=53;RPP=6.95631;RPPR=0;RPR=40;RUN=1;SAF=42;SAP=4.90158;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:458:0,458:0:0:458:15777:-1419.48,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
106 NC_000962 75940 . G C 4126.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=134;CIGAR=1X;DP=134;DPB=134;DPRA=0;EPP=7.15878;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=950.142;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4583;QR=0;RO=0;RPL=75;RPP=7.15878;RPPR=0;RPR=59;RUN=1;SAF=64;SAP=3.59368;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:0,509:0:0:509:17767:-1598.47,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
107 NC_000962 76700 . G A 3024.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=4.78696;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=696.395;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3358;QR=0;RO=0;RPL=47;RPP=3.55865;RPPR=0;RPR=52;RUN=1;SAF=47;SAP=3.55865;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:99:0,99:0:0:99:3358:-302.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
108 NC_000962 78973 . GGGCATCCG GG 10319.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=369;CIGAR=1M7D1M;DP=369;DPB=84.1111;DPRA=0;EPP=31.0276;EPPR=0;GTI=0;LEN=7;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2376.25;PAIRED=0.875339;PAIREDR=0;PAO=9.5;PQA=250.5;PQR=250.5;PRO=9.5;QA=11467;QR=0;RO=0;RPL=166;RPP=11.0665;RPPR=0;RPR=203;RUN=1;SAF=217;SAP=27.8734;SAR=152;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:369:0,369:0:0:369:11467:-1031.99,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
109 NC_000962 79480 . T C 1937.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=65;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=3.31097;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=446.101;PAIRED=0.492308;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2152;QR=0;RO=0;RPL=25;RPP=10.5269;RPPR=0;RPR=40;RUN=1;SAF=35;SAP=3.84548;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:398:0,398:0:0:398:13883:-1249.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
110 NC_000962 87468 . C T 2741.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=12.8806;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=631.347;PAIRED=0.988636;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3048;QR=0;RO=0;RPL=43;RPP=3.109;RPPR=0;RPR=45;RUN=1;SAF=43;SAP=3.109;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:436:0,436:0:0:436:15545:-1398.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
111 NC_000962 92199 . T G 4209.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1X;DP=136;DPB=136;DPRA=0;EPP=3.5851;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=969.204;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4675;QR=0;RO=0;RPL=66;RPP=3.26577;RPPR=0;RPR=70;RUN=1;SAF=49;SAP=26.0662;SAR=87;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:383:0,382:0:0:382:13003:-1169.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
112 NC_000962 94388 . G A 4658.97 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=149;CIGAR=1X;DP=150;DPB=150;DPRA=0;EPP=4.77371;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1072.77;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=5205;QR=27;RO=1;RPL=73;RPP=3.14146;RPPR=5.18177;RPR=76;RUN=1;SAF=75;SAP=3.02487;SAR=74;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:519:0,519:0:0:519:17521:-1576.52,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
113 NC_000962 96894 . C T 3363.57 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=109;DPB=109;DPRA=0;EPP=3.50834;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=774.49;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3735;QR=0;RO=0;RPL=65;RPP=11.7958;RPPR=0;RPR=44;RUN=1;SAF=38;SAP=24.7051;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:524:0,524:0:0:524:18616:-1674.83,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
114 NC_000962 97350 . A C 1961.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=66;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=5.11597;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=451.749;PAIRED=0.984848;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2217;QR=36;RO=1;RPL=43;RPP=16.1707;RPPR=5.18177;RPR=23;RUN=1;SAF=34;SAP=3.1419;SAR=32;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:622:1,621:1:34:621:21948:-1971.03,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
115 NC_000962 98718 . C T 3056.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=11.5259;EPPR=7.35324;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=703.896;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3466;QR=68;RO=2;RPL=55;RPP=4.37279;RPPR=7.35324;RPR=47;RUN=1;SAF=50;SAP=3.09546;SAR=52;SRF=0;SRP=7.35324;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:104:2,102:2:68:102:3466:-305.698,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
116 NC_000962 99162 . TCGGTGTGCGC TC 1335.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=50;CIGAR=1M9D1M;DP=50;DPB=9.09091;DPRA=0;EPP=4.57376;EPPR=0;GTI=0;LEN=9;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=307.519;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1481;QR=0;RO=0;RPL=25;RPP=3.0103;RPPR=0;RPR=25;RUN=1;SAF=31;SAP=9.26414;SAR=19;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:271:0,267:0:0:267:8409:-756.493,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
117 NC_000962 101539 . C T 4678.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=153;CIGAR=1X;DP=153;DPB=153;DPRA=0;EPP=3.36512;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1077.34;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5197;QR=0;RO=0;RPL=82;RPP=4.72761;RPPR=0;RPR=71;RUN=1;SAF=83;SAP=5.40885;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:428:0,428:0:0:428:14254:-1282.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
118 NC_000962 105045 . G C 776.224 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=25;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=5.18177;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=178.732;PAIRED=0.56;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=859;QR=0;RO=0;RPL=0;RPP=57.2971;RPPR=0;RPR=25;RUN=1;SAF=10;SAP=5.18177;SAR=15;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:20:0,20:0:0:20:714:-64.5794,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
119 NC_000962 105139 . C A 2209.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=73;CIGAR=1X;DP=73;DPB=73;DPRA=0;EPP=8.03741;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=508.711;PAIRED=0.534247;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2452;QR=0;RO=0;RPL=31;RPP=6.60959;RPPR=0;RPR=42;RUN=1;SAF=27;SAP=13.7487;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:552:0,552:0:0:552:20057:-1804.16,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
120 NC_000962 105736 . T C 3250.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=3.74778;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=748.378;PAIRED=0.981132;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3609;QR=0;RO=0;RPL=52;RPP=3.09224;RPPR=0;RPR=54;RUN=1;SAF=50;SAP=3.74778;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:562:0,562:0:0:562:19640:-1766.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
121 NC_000962 116000 . T G 3530.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=13.7928;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=813.006;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3921;QR=0;RO=0;RPL=56;RPP=3.30981;RPPR=0;RPR=60;RUN=1;SAF=60;SAP=3.30981;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:484:0,484:0:0:484:15730:-1415.45,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
122 NC_000962 122109 . A G 2847.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=4.86177;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=655.635;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3164;QR=0;RO=0;RPL=44;RPP=4.13032;RPPR=0;RPR=51;RUN=1;SAF=50;SAP=3.58174;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:456:0,456:0:0:456:15354:-1381.5,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
123 NC_000962 122205 . T C 3860.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=129;CIGAR=1X;DP=130;DPB=130;DPRA=0;EPP=3.1618;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=888.844;PAIRED=0.976744;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4327;QR=36;RO=1;RPL=65;RPP=3.02713;RPPR=5.18177;RPR=64;RUN=1;SAF=62;SAP=3.43113;SAR=67;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:504:0,504:0:0:504:17789:-1600.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
124 NC_000962 123454 . C T 2636.66 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=85;CIGAR=1X;DP=85;DPB=85;DPRA=0;EPP=3.03585;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=607.113;PAIRED=0.988235;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2927;QR=0;RO=0;RPL=35;RPP=8.75832;RPPR=0;RPR=50;RUN=1;SAF=41;SAP=3.24022;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:557:0,557:0:0:557:19979:-1797.28,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
125 NC_000962 123520 . T C 2850.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=6.40913;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=656.408;PAIRED=0.967391;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3165;QR=0;RO=0;RPL=48;RPP=3.38795;RPPR=0;RPR=44;RUN=1;SAF=42;SAP=4.52089;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:556:0,556:0:0:556:19571:-1760.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
126 NC_000962 125830 . GAAAAGT GAAAAAGT 1768.01 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=60;CIGAR=1M1I6M;DP=63;DPB=71.8571;DPRA=0;EPP=3.58936;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=407.099;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1964;QR=0;RO=0;RPL=29;RPP=3.15506;RPPR=0;RPR=31;RUN=1;SAF=29;SAP=3.15506;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:420:0,415:0:0:415:14606:-1313.75,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
127 NC_000962 131174 . TGGTGC TGGGTGC 13269.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=437;CIGAR=1M1I5M;DP=445;DPB=518.333;DPRA=0;EPP=6.11595;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3055.42;PAIRED=0.90389;PAIREDR=0;PAO=0.5;PQA=1;PQR=1;PRO=0.5;QA=14751;QR=0;RO=0;RPL=186;RPP=24.0045;RPPR=0;RPR=251;RUN=1;SAF=225;SAP=3.85007;SAR=212;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:445:0,437:0:0:437:14751:-1326.95,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
128 NC_000962 132417 . C G 3633.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X;DP=122;DPB=122;DPRA=0;EPP=13.2625;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=836.623;PAIRED=0.967213;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4035;QR=0;RO=0;RPL=71;RPP=10.1299;RPPR=0;RPR=51;RUN=1;SAF=58;SAP=3.65106;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:269:0,269:0:0:269:9760:-878.17,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
129 NC_000962 133839 . C T 2239.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=73;CIGAR=1X;DP=73;DPB=73;DPRA=0;EPP=3.27802;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=515.756;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2486;QR=0;RO=0;RPL=29;RPP=9.70319;RPPR=0;RPR=44;RUN=1;SAF=44;SAP=9.70319;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:465:0,465:0:0:465:16653:-1498.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
130 NC_000962 135329 . C T 1940.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=64;CIGAR=1X;DP=64;DPB=64;DPRA=0;EPP=3.14602;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=446.771;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2153;QR=0;RO=0;RPL=42;RPP=16.582;RPPR=0;RPR=22;RUN=1;SAF=25;SAP=9.66043;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:434:0,434:0:0:434:14658:-1318.86,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
131 NC_000962 139297 . G T 2354.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=78;CIGAR=1X;DP=78;DPB=78;DPRA=0;EPP=3.12166;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=542.069;PAIRED=0.974359;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2613;QR=0;RO=0;RPL=36;RPP=4.01252;RPPR=0;RPR=42;RUN=1;SAF=40;SAP=3.12166;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:484:0,484:0:0:484:16849:-1515.86,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
132 NC_000962 141623 . G A 3766.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=3.64073;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=867.254;PAIRED=0.983871;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4222;QR=36;RO=1;RPL=66;RPP=4.13106;RPPR=5.18177;RPR=58;RUN=1;SAF=67;SAP=4.76149;SAR=57;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:592:0,592:0:0:592:21384:-1923.67,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
133 NC_000962 143207 . T C 4458.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=144;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=16.582;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1026.58;PAIRED=0.986111;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4952;QR=0;RO=0;RPL=63;RPP=7.89611;RPPR=0;RPR=81;RUN=1;SAF=72;SAP=3.0103;SAR=72;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:503:1,502:1:34:502:17875:-1604.71,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
134 NC_000962 144699 . C A 5271.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=166;CIGAR=1X;DP=166;DPB=166;DPRA=0;EPP=4.89399;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1213.83;PAIRED=0.993976;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5856;QR=0;RO=0;RPL=78;RPP=4.31842;RPPR=0;RPR=88;RUN=1;SAF=75;SAP=6.35908;SAR=91;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:542:0,542:0:0:542:18983:-1707.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
135 NC_000962 146087 . T C 3487.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=4.22937;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=803.072;PAIRED=0.991228;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3873;QR=0;RO=0;RPL=56;RPP=3.08649;RPPR=0;RPR=58;RUN=1;SAF=51;SAP=5.75321;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:518:0,518:0:0:518:18224:-1639.48,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
136 NC_000962 146236 . C G 3560.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=3.67278;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=819.858;PAIRED=0.983051;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3954;QR=0;RO=0;RPL=56;RPP=3.67278;RPPR=0;RPR=62;RUN=1;SAF=62;SAP=3.67278;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:429:0,429:0:0:429:14646:-1317.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
137 NC_000962 147262 . G T 3233.09 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=105;CIGAR=1X;DP=105;DPB=105;DPRA=0;EPP=8.98702;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=744.446;PAIRED=0.990476;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3590;QR=0;RO=0;RPL=58;RPP=5.51266;RPPR=0;RPR=47;RUN=1;SAF=59;SAP=6.50534;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:585:0,585:0:0:585:20650:-1857.71,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
138 NC_000962 154283 . T C 5026.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=165;CIGAR=1X;DP=165;DPB=165;DPRA=0;EPP=4.60271;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1157.3;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5583;QR=0;RO=0;RPL=84;RPP=3.12874;RPPR=0;RPR=81;RUN=1;SAF=85;SAP=3.33931;SAR=80;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:560:0,560:0:0:560:18936:-1703.71,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
139 NC_000962 162151 . GTTTTTCG GTTTTCG 2359.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1M1D6M;DP=81;DPB=72.625;DPRA=0;EPP=3.03779;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=543.4;PAIRED=1;PAIREDR=0;PAO=1.5;PQA=42;PQR=42;PRO=1.5;QA=2622;QR=0;RO=0;RPL=38;RPP=3.25768;RPPR=0;RPR=41;RUN=1;SAF=46;SAP=7.6556;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:431:0,415:0:0:415:13616:-1224.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
140 NC_000962 163705 . CC TT 2667.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=2X;DP=97;DPB=97.5;DPRA=0;EPP=8.26386;EPPR=0;GTI=0;LEN=2;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=614.206;PAIRED=1;PAIREDR=0;PAO=1;PQA=21;PQR=0;PRO=0;QA=2943;QR=0;RO=0;RPL=42;RPP=4.90158;RPPR=0;RPR=51;RUN=1;SAF=62;SAP=25.4488;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:242:0,240:0:0:240:8555:-769.702,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
141 NC_000962 177857 . G A 2821.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=3.03416;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=649.78;PAIRED=0.978022;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3133;QR=0;RO=0;RPL=45;RPP=3.03416;RPPR=0;RPR=46;RUN=1;SAF=48;SAP=3.60686;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:477:0,477:0:0:477:16266:-1463.52,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
142 NC_000962 182824 . G A 4974.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=160;CIGAR=1X;DP=160;DPB=160;DPRA=0;EPP=3.87889;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1145.48;PAIRED=0.9875;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5526;QR=0;RO=0;RPL=69;RPP=9.579;RPPR=0;RPR=91;RUN=1;SAF=91;SAP=9.579;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:459:0,459:0:0:459:15617:-1405.14,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
143 NC_000962 183091 . C G 3393.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=4.56684;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=781.326;PAIRED=0.99115;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3768;QR=0;RO=0;RPL=46;RPP=11.4848;RPPR=0;RPR=67;RUN=1;SAF=51;SAP=5.3355;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:430:0,430:0:0:430:14524:-1306.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
144 NC_000962 188800 . T C 2598.57 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=85;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=3.24022;EPPR=7.35324;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=598.342;PAIRED=0.988235;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2929;QR=42;RO=2;RPL=52;RPP=12.2327;RPPR=7.35324;RPR=33;RUN=1;SAF=33;SAP=12.2327;SAR=52;SRF=0;SRP=7.35324;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:443:0,443:0:0:443:15434:-1388.63,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
145 NC_000962 190816 . A C 4260.52 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=141;CIGAR=1X;DP=141;DPB=141;DPRA=0;EPP=11.1572;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=981.02;PAIRED=0.992908;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4732;QR=0;RO=0;RPL=64;RPP=5.61299;RPPR=0;RPR=77;RUN=1;SAF=86;SAP=17.8102;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:1,508:1:34:508:18082:-1623.31,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
146 NC_000962 194305 . CCA CGGCA 2241.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=78;CIGAR=1M2I2M;DP=81;DPB=135;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=2;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=516.199;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2491;QR=0;RO=0;RPL=47;RPP=10.1372;RPPR=0;RPR=31;RUN=1;SAF=48;SAP=12.0303;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:431:0,423:0:0:423:14294:-1285.86,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
147 NC_000962 194681 . G C 3076.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=4.75178;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=708.354;PAIRED=0.990099;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3418;QR=0;RO=0;RPL=49;RPP=3.2038;RPPR=0;RPR=52;RUN=1;SAF=51;SAP=3.0318;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:406:0,406:0:0:406:14044:-1263.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
148 NC_000962 195682 . C G 1542.43 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=52;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=7.18621;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=355.157;PAIRED=0.980769;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1714;QR=0;RO=0;RPL=26;RPP=3.0103;RPPR=0;RPR=26;RUN=1;SAF=35;SAP=16.5402;SAR=17;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:444:0,444:0:0:444:15748:-1416.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
149 NC_000962 196642 . C T 2409.94 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=78;CIGAR=1X;DP=78;DPB=78;DPRA=0;EPP=3.12166;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=554.91;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2675;QR=0;RO=0;RPL=36;RPP=4.01252;RPPR=0;RPR=42;RUN=1;SAF=34;SAP=5.79424;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:726:0,726:0:0:726:26065:-2344.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
150 NC_000962 199470 . T G 2482.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=4.74748;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=571.696;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2756;QR=0;RO=0;RPL=50;RPP=13.8677;RPPR=0;RPR=30;RUN=1;SAF=46;SAP=6.91895;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:521:0,520:0:0:520:17997:-1618.87,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
151 NC_000962 203038 . T C 2373.94 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=78;CIGAR=1X;DP=78;DPB=78;DPRA=0;EPP=3.12166;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=546.619;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2635;QR=0;RO=0;RPL=39;RPP=3.0103;RPPR=0;RPR=39;RUN=1;SAF=37;SAP=3.45573;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:533:0,533:0:0:533:18833:-1694.28,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
152 NC_000962 204094 . G T 3432.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=3.08926;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=790.43;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3812;QR=0;RO=0;RPL=65;RPP=10.9066;RPPR=0;RPR=45;RUN=1;SAF=51;SAP=4.2737;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:504:0,504:0:0:504:17531:-1577.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
153 NC_000962 206339 . T C 953.382 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=32;CIGAR=1X;DP=34;DPB=34;DPRA=0;EPP=9.79615;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=204.607;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1060;QR=0;RO=0;RPL=18;RPP=4.09604;RPPR=0;RPR=14;RUN=1;SAF=3;SAP=48.8827;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:439:1,438:1:25:438:15238:-1368.52,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
154 NC_000962 206481 . CGGG GGGT 539.264 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=20;CIGAR=1X2M1X;DP=21;DPB=21.25;DPRA=0;EPP=3.44459;EPPR=5.18177;GTI=0;LEN=4;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=124.17;PAIRED=1;PAIREDR=1;PAO=1;PQA=32;PQR=0;PRO=0;QA=594;QR=27;RO=1;RPL=16;RPP=18.6449;RPPR=5.18177;RPR=4;RUN=1;SAF=13;SAP=6.91895;SAR=7;SRF=0;SRP=5.18177;SRR=1;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:242:8,232:8:253:232:8004:-704.976,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
155 NC_000962 213147 . C A 3021.68 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=98;DPB=98;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=695.767;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3355;QR=0;RO=0;RPL=51;RPP=3.36483;RPPR=0;RPR=47;RUN=1;SAF=58;SAP=10.1895;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:488:0,488:0:0:488:16514:-1485.84,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
156 NC_000962 213281 . C T 2966.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=3.8246;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=683.128;PAIRED=0.979167;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3294;QR=0;RO=0;RPL=49;RPP=3.10078;RPPR=0;RPR=47;RUN=1;SAF=64;SAP=26.1727;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:526:0,526:0:0:526:18002:-1619.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
157 NC_000962 215977 . C T 3980.65 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=130;CIGAR=1X;DP=133;DPB=133;DPRA=0;EPP=3.27756;EPPR=5.18177;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=916.578;PAIRED=0.984615;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4460;QR=36;RO=1;RPL=68;RPP=3.61163;RPPR=5.18177;RPR=62;RUN=1;SAF=67;SAP=3.27756;SAR=63;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:382:0,382:0:0:382:12627:-1136.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
158 NC_000962 217201 . T C 3399.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=6.31642;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=782.774;PAIRED=0.981982;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3775;QR=0;RO=0;RPL=59;RPP=3.96888;RPPR=0;RPR=52;RUN=1;SAF=62;SAP=6.31642;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:517:1,516:1:31:516:18040:-1619.95,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
159 NC_000962 222925 . G A 5217.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=168;CIGAR=1X;DP=168;DPB=168;DPRA=0;EPP=3.062;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1201.41;PAIRED=0.994048;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5796;QR=0;RO=0;RPL=100;RPP=16.2459;RPPR=0;RPR=68;RUN=1;SAF=79;SAP=4.30284;SAR=89;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:425:0,425:0:0:425:14505:-1305.11,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
160 NC_000962 223942 . T C 3946.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=130;CIGAR=1X;DP=130;DPB=130;DPRA=0;EPP=3.61163;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=908.726;PAIRED=0.984615;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4383;QR=0;RO=0;RPL=60;RPP=4.68066;RPPR=0;RPR=70;RUN=1;SAF=64;SAP=3.07711;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:388:0,388:0:0:388:13358:-1201.92,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
161 NC_000962 225323 . T C 1830.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=60;CIGAR=1X;DP=60;DPB=60;DPRA=0;EPP=3.15506;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=421.499;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2031;QR=0;RO=0;RPL=32;RPP=3.58936;RPPR=0;RPR=28;RUN=1;SAF=15;SAP=35.5824;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:397:0,397:0:0:397:13291:-1195.99,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
162 NC_000962 227098 . T C 4103.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=135;CIGAR=1X;DP=135;DPB=135;DPRA=0;EPP=3.15506;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=944.763;PAIRED=0.985185;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4557;QR=0;RO=0;RPL=70;RPP=3.41242;RPPR=0;RPR=65;RUN=1;SAF=77;SAP=8.81698;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:553:0,553:0:0:553:19147:-1722.72,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
163 NC_000962 230170 . C T 3563.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=5.70592;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=820.471;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3957;QR=0;RO=0;RPL=55;RPP=3.68421;RPPR=0;RPR=61;RUN=1;SAF=63;SAP=4.88226;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:573:0,573:0:0:573:20306:-1826.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
164 NC_000962 230576 . GTC GTTC 1435.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=50;CIGAR=1M1I2M;DP=55;DPB=71.6667;DPRA=0;EPP=7.35324;EPPR=3.0103;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=330.518;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=1644;QR=49;RO=2;RPL=26;RPP=3.18402;RPPR=3.0103;RPR=24;RUN=1;SAF=22;SAP=4.57376;SAR=28;SRF=0;SRP=7.35324;SRR=2;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:403:0,395:0:0:395:13285:-1194.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
165 NC_000962 231114 . C G 2357.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=77;CIGAR=1X;DP=77;DPB=77;DPRA=0;EPP=3.26411;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=542.895;PAIRED=0.987013;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2617;QR=0;RO=0;RPL=35;RPP=4.39215;RPPR=0;RPR=42;RUN=1;SAF=37;SAP=3.26411;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:535:0,535:0:0:535:18971:-1706.65,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
166 NC_000962 234477 . T G 1450.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=48;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=11.8771;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=334.08;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1609;QR=0;RO=0;RPL=23;RPP=3.19126;RPPR=0;RPR=25;RUN=1;SAF=30;SAP=9.52472;SAR=18;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:224:0,224:0:0:224:7553:-679.774,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
167 NC_000962 234496 . CCT CGTCT 948.991 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=33;CIGAR=1M2I2M;DP=34;DPB=56;DPRA=0;EPP=3.0761;EPPR=0;GTI=0;LEN=2;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=218.513;PAIRED=0.939394;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1054;QR=0;RO=0;RPL=13;RPP=6.23461;RPPR=0;RPR=20;RUN=1;SAF=17;SAP=3.0761;SAR=16;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:217:0,213:0:0:213:7259:-652.956,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
168 NC_000962 240776 . T C 4193.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=135;CIGAR=1X;DP=135;DPB=135;DPRA=0;EPP=6.62942;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=965.684;PAIRED=0.985185;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4658;QR=0;RO=0;RPL=71;RPP=3.79846;RPPR=0;RPR=64;RUN=1;SAF=67;SAP=3.02638;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:135:0,135:0:0:135:4658:-419.391,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
169 NC_000962 249522 . T C 4376.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=144;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=10.3089;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1007.75;PAIRED=0.972222;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4861;QR=0;RO=0;RPL=79;RPP=5.96592;RPPR=0;RPR=65;RUN=1;SAF=80;SAP=6.8707;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:373:0,373:0:0:373:12508:-1125.48,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
170 NC_000962 251574 . TG TA 2963.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1M1X;DP=98;DPB=99;DPRA=0;EPP=3.03269;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=682.344;PAIRED=0.989691;PAIREDR=0;PAO=1;PQA=34;PQR=34;PRO=1;QA=3293;QR=0;RO=0;RPL=58;RPP=11.0918;RPPR=0;RPR=39;RUN=1;SAF=24;SAP=56.7598;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:98:0,97:0:0:97:3293:-296.338,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
171 NC_000962 251575 . G A 13732.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=444;CIGAR=1X;DP=444;DPB=444;DPRA=0;EPP=5.3774;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3161.98;PAIRED=0.916667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15263;QR=0;RO=0;RPL=224;RPP=3.08855;RPPR=0;RPR=220;RUN=1;SAF=149;SAP=107.261;SAR=295;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:444:0,444:0:0:444:15263:-1373.23,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
172 NC_000962 261869 . T C 3858.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=5.49198;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=888.354;PAIRED=0.992063;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4287;QR=0;RO=0;RPL=65;RPP=3.28604;RPPR=0;RPR=61;RUN=1;SAF=74;SAP=11.3515;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:395:0,395:0:0:395:13929:-1253.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
173 NC_000962 262268 . A T 4550.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=147;CIGAR=1X;DP=147;DPB=147;DPRA=0;EPP=3.02507;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1047.71;PAIRED=0.979592;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5054;QR=0;RO=0;RPL=67;RPP=5.50675;RPPR=0;RPR=80;RUN=1;SAF=64;SAP=8.34296;SAR=83;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:502:0,502:0:0:502:18154:-1633.05,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
174 NC_000962 262782 . G A 3862.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=4.13106;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=889.446;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4290;QR=0;RO=0;RPL=66;RPP=4.13106;RPPR=0;RPR=58;RUN=1;SAF=60;SAP=3.29049;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:124:0,124:0:0:124:4290:-386.282,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
175 NC_000962 264129 . G A 2102.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=67;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=5.63551;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=484.067;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2333;QR=0;RO=0;RPL=38;RPP=5.63551;RPPR=0;RPR=29;RUN=1;SAF=36;SAP=3.82055;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:566:0,566:0:0:566:19824:-1783.51,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
176 NC_000962 265554 . A C 2708.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=4.20583;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=623.682;PAIRED=0.988764;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3007;QR=0;RO=0;RPL=47;RPP=3.62026;RPPR=0;RPR=42;RUN=1;SAF=59;SAP=23.5295;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:554:0,554:0:0:554:19329:-1739,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
177 NC_000962 267751 . G C 3384.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=14.1779;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=779.389;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3761;QR=0;RO=0;RPL=51;RPP=4.94911;RPPR=0;RPR=61;RUN=1;SAF=51;SAP=4.94911;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:498:0,498:0:0:498:17919:-1611.98,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
178 NC_000962 270430 . G C 5440.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=180;CIGAR=1X;DP=180;DPB=180;DPRA=0;EPP=30.8051;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1252.8;PAIRED=0.983333;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6044;QR=0;RO=0;RPL=85;RPP=4.21667;RPPR=0;RPR=95;RUN=1;SAF=109;SAP=20.4303;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:428:0,428:0:0:428:14771:-1329,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
179 NC_000962 273777 . C T 4938.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=160;CIGAR=1X;DP=160;DPB=160;DPRA=0;EPP=6.48466;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1137.19;PAIRED=0.99375;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5486;QR=0;RO=0;RPL=88;RPP=6.48466;RPPR=0;RPR=72;RUN=1;SAF=88;SAP=6.48466;SAR=72;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:498:0,498:0:0:498:17237:-1550.86,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
180 NC_000962 278021 . T C 2855.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=12.4515;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=657.457;PAIRED=0.98913;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3170;QR=0;RO=0;RPL=40;RPP=6.40913;RPPR=0;RPR=52;RUN=1;SAF=38;SAP=9.05266;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:500:0,500:0:0:500:17548:-1578.75,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
181 NC_000962 278681 . C G 3150.37 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=4.04333;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=725.399;PAIRED=0.990291;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3498;QR=0;RO=0;RPL=51;RPP=3.03138;RPPR=0;RPR=52;RUN=1;SAF=53;SAP=3.20004;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:475:0,475:0:0:475:16322:-1468.58,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
182 NC_000962 282892 . C T 2752.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=22.3561;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=633.833;PAIRED=0.988636;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3056;QR=0;RO=0;RPL=51;RPP=7.84676;RPPR=0;RPR=37;RUN=1;SAF=75;SAP=97.8642;SAR=13;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:400:0,400:0:0:400:14006:-1260.15,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
183 NC_000962 283610 . GCGCT ACGCC 3520.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X3M1X;DP=132;DPB=133.4;DPRA=0;EPP=31.4886;EPPR=0;GTI=0;LEN=5;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=766.949;PAIRED=1;PAIREDR=0;PAO=3.5;PQA=114;PQR=0;PRO=0;QA=3883;QR=0;RO=0;RPL=47;RPP=16.9647;RPPR=0;RPR=75;RUN=1;SAF=52;SAP=8.77716;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:347:0,346:0:0:346:11012:-1052.52,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
184 NC_000962 285772 . A C 5445.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=177;CIGAR=1X;DP=177;DPB=177;DPRA=0;EPP=4.49475;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1253.84;PAIRED=0.988701;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6049;QR=0;RO=0;RPL=87;RPP=3.12071;RPPR=0;RPR=90;RUN=1;SAF=66;SAP=27.8534;SAR=111;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:420:0,420:0:0:420:14999:-1349.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
185 NC_000962 285871 . A G 6165.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=200;CIGAR=1X;DP=200;DPB=200;DPRA=0;EPP=10.3499;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1419.56;PAIRED=0.995;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6849;QR=0;RO=0;RPL=86;RPP=11.5225;RPPR=0;RPR=114;RUN=1;SAF=91;SAP=6.52809;SAR=109;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:388:0,388:0:0:388:13320:-1198.42,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
186 NC_000962 288260 . C T 3520.99 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=9.18185;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=810.738;PAIRED=0.95614;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3910;QR=0;RO=0;RPL=53;RPP=4.22937;RPPR=0;RPR=61;RUN=1;SAF=53;SAP=4.22937;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:482:0,482:0:0:482:16513:-1485.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
187 NC_000962 293029 . G A 4747.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=155;CIGAR=1X;DP=157;DPB=157;DPRA=0;EPP=4.70545;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1093.09;PAIRED=0.993548;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=5308;QR=32;RO=1;RPL=96;RPP=22.1893;RPPR=5.18177;RPR=59;RUN=1;SAF=74;SAP=3.69677;SAR=81;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:157:1,155:1:32:155:5308:-474.721,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
188 NC_000962 293628 . ACCCCCGA ACCCCCCGA 1513.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=51;CIGAR=1M1I7M;DP=53;DPB=59.5;DPRA=0;EPP=15.3153;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=348.455;PAIRED=0.980392;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1681;QR=0;RO=0;RPL=33;RPP=12.5903;RPPR=0;RPR=18;RUN=1;SAF=7;SAP=61.2994;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:328:0,321:0:0:321:10255:-922.59,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
189 NC_000962 296312 . C T 2873.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=3.60686;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=661.587;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3190;QR=0;RO=0;RPL=52;RPP=7.04303;RPPR=0;RPR=39;RUN=1;SAF=47;SAP=3.22506;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:567:0,567:0:0:567:19796:-1781.04,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
190 NC_000962 304923 . A G 2876.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=10.4949;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=662.422;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3194;QR=0;RO=0;RPL=42;RPP=5.32038;RPPR=0;RPR=52;RUN=1;SAF=44;SAP=3.84193;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:527:0,527:0:0:527:18471:-1661.84,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
191 NC_000962 305188 . G T 3210.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=739.276;PAIRED=0.990385;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3565;QR=0;RO=0;RPL=46;RPP=6.01695;RPPR=0;RPR=58;RUN=1;SAF=44;SAP=8.35546;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:514:0,514:0:0:514:18069:-1625.55,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
192 NC_000962 305763 . G A 14969.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=491;CIGAR=1X;DP=491;DPB=491;DPRA=0;EPP=6.72967;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3446.84;PAIRED=0.922607;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16637;QR=0;RO=0;RPL=218;RPP=16.3885;RPPR=0;RPR=273;RUN=1;SAF=158;SAP=138.451;SAR=333;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:491:0,491:0:0:491:16637:-1496.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
193 NC_000962 310973 . G A 3165.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=4.04333;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=728.914;PAIRED=0.980583;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3515;QR=0;RO=0;RPL=47;RPP=4.71796;RPPR=0;RPR=56;RUN=1;SAF=63;SAP=14.1628;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:475:0,475:0:0:475:16085:-1447.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
194 NC_000962 311613 . G T 3965.37 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=10.5506;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=913.06;PAIRED=0.976378;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4404;QR=0;RO=0;RPL=60;RPP=3.84811;RPPR=0;RPR=67;RUN=1;SAF=65;SAP=3.16418;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:497:0,497:0:0:497:17070:-1535.79,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
195 NC_000962 325505 . T C 3886.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=6.33537;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=894.854;PAIRED=0.976562;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4316;QR=0;RO=0;RPL=66;RPP=3.28173;RPPR=0;RPR=62;RUN=1;SAF=51;SAP=14.4784;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:485:0,485:0:0:485:17253:-1552.1,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
196 NC_000962 333892 . G C 1770.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=58;CIGAR=1X;DP=58;DPB=58;DPRA=0;EPP=21.1309;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=407.618;PAIRED=0.982759;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1964;QR=0;RO=0;RPL=29;RPP=3.0103;RPPR=0;RPR=29;RUN=1;SAF=15;SAP=32.3626;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:201:1,199:1:33:199:6763:-605.424,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
197 NC_000962 335971 . A G 703.301 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=23;CIGAR=1X;DP=23;DPB=23;DPRA=0;EPP=37.093;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=161.941;PAIRED=0.913043;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=778;QR=0;RO=0;RPL=3;RPP=30.2953;RPPR=0;RPR=20;RUN=1;SAF=22;SAP=44.6459;SAR=1;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:95:0,95:0:0:95:3391:-305.362,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
198 NC_000962 336005 . G A 761.808 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=25;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=5.18177;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=175.413;PAIRED=0.96;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=843;QR=0;RO=0;RPL=9;RPP=7.26639;RPPR=0;RPR=16;RUN=1;SAF=22;SAP=34.3664;SAR=3;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:201:0,201:0:0:201:7194:-647.419,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
199 NC_000962 336050 . ATAG GTAC 901.201 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=30;CIGAR=1X2M1X;DP=30;DPB=30;DPRA=0;EPP=26.4622;EPPR=0;GTI=0;LEN=4;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=207.509;PAIRED=0.933333;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=998;QR=0;RO=0;RPL=22;RPP=17.1973;RPPR=0;RPR=8;RUN=1;SAF=28;SAP=51.9408;SAR=2;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:70:0,70:0:0:70:2192:-208.814,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
200 NC_000962 336074 . T C 732.986 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=24;CIGAR=1X;DP=24;DPB=24;DPRA=0;EPP=26.1727;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=168.776;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=811;QR=0;RO=0;RPL=20;RPP=26.1727;RPPR=0;RPR=4;RUN=1;SAF=22;SAP=39.2015;SAR=2;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:31:0,31:0:0:31:990:-89.3904,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
201 NC_000962 336081 . AC GT 651.948 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=22;CIGAR=2X;DP=22;DPB=22;DPRA=0;EPP=34.9902;EPPR=0;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=150.116;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=721;QR=0;RO=0;RPL=22;RPP=50.7827;RPPR=0;RPR=0;RUN=1;SAF=20;SAP=34.9902;SAR=2;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:11:0,11:0:0:11:336:-30.6874,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
202 NC_000962 336113 . G A 441.592 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=14;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=18.5208;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=101.68;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=487;QR=0;RO=0;RPL=14;RPP=33.4109;RPPR=0;RPR=0;RUN=1;SAF=12;SAP=18.5208;SAR=2;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:14:0,14:0:0:14:487:-44.1592,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
203 NC_000962 336380 . A T 538.767 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=17;CIGAR=1X;DP=17;DPB=17;DPRA=0;EPP=4.1599;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=124.056;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=595;QR=0;RO=0;RPL=0;RPP=39.9253;RPPR=0;RPR=17;RUN=1;SAF=10;SAP=4.1599;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:129:0,129:0:0:129:4639:-417.593,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
204 NC_000962 336400 . CAGCGA GAGGGG 537.727 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=18;CIGAR=1X2M1X1M1X;DP=18;DPB=18;DPRA=0;EPP=3.49285;EPPR=0;GTI=0;LEN=6;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=123.816;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=594;QR=0;RO=0;RPL=18;RPP=42.0968;RPPR=0;RPR=0;RUN=1;SAF=10;SAP=3.49285;SAR=8;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:109:0,109:0:0:109:3953:-364.083,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
205 NC_000962 336480 . A G 639.445 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=21;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=20.4855;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=147.238;PAIRED=0.904762;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=707;QR=0;RO=0;RPL=0;RPP=48.6112;RPPR=0;RPR=21;RUN=1;SAF=17;SAP=20.4855;SAR=4;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:21:0,21:0:0:21:707:-63.9445,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
206 NC_000962 336504 . G T 2224.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=72;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=4.9405;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=512.235;PAIRED=0.680556;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2469;QR=0;RO=0;RPL=4;RPP=126.543;RPPR=0;RPR=68;RUN=1;SAF=40;SAP=4.9405;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:286:0,286:0:0:286:9062:-815.59,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
207 NC_000962 336535 . TGTTGG GGGTGT 1926 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1X1M1X2M1X;DP=63;DPB=63.3333;DPRA=0;EPP=5.80219;EPPR=0;GTI=0;LEN=6;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=443.478;PAIRED=0.603175;PAIREDR=0;PAO=2;PQA=72;PQR=0;PRO=0;QA=2065;QR=0;RO=0;RPL=30;RPP=3.32051;RPPR=0;RPR=33;RUN=1;SAF=29;SAP=3.872;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:179:0,172:0:0:172:5497:-499.853,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
208 NC_000962 336546 . T G 1878.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=60;CIGAR=1X;DP=60;DPB=60;DPRA=0;EPP=3.15506;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=432.48;PAIRED=0.616667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2084;QR=0;RO=0;RPL=37;RPP=10.1038;RPPR=0;RPR=23;RUN=1;SAF=28;SAP=3.58936;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:168:0,168:0:0:168:5946:-535.147,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
209 NC_000962 336557 . CGGTTACA CTGGCTATGGCA 1171.43 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=39;CIGAR=1M1I2M1X2M3I2M;DP=40;DPB=59.5;DPRA=0;EPP=5.73856;EPPR=0;GTI=0;LEN=12;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=269.731;PAIRED=0.589744;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1301;QR=0;RO=0;RPL=25;RPP=9.74743;RPPR=0;RPR=14;RUN=1;SAF=17;SAP=4.40227;SAR=22;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:83:0,82:0:0:82:2839:-255.439,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
210 NC_000962 336590 . GAT CAG 1433.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=46;CIGAR=1X1M1X;DP=46;DPB=46.6667;DPRA=0;EPP=4.70971;EPPR=0;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=330.146;PAIRED=0.717391;PAIREDR=0;PAO=2;PQA=64;PQR=0;PRO=0;QA=1526;QR=0;RO=0;RPL=30;RPP=12.2627;RPPR=0;RPR=16;RUN=1;SAF=16;SAP=12.2627;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:160:0,160:0:0:160:5743:-522.992,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
211 NC_000962 336611 . G C 1103.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=36;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=3.25157;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=254.129;PAIRED=0.722222;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1223;QR=0;RO=0;RPL=26;RPP=18.4519;RPPR=0;RPR=10;RUN=1;SAF=15;SAP=5.18177;SAR=21;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:141:0,141:0:0:141:4757:-428.268,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
212 NC_000962 336617 . GGGT CGGC 937.562 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=32;CIGAR=1X2M1X;DP=33;DPB=33;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=4;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=215.882;PAIRED=0.78125;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1042;QR=0;RO=0;RPL=21;RPP=9.79615;RPPR=0;RPR=11;RUN=1;SAF=11;SAP=9.79615;SAR=21;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:119:0,119:0:0:119:3871:-359.829,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
213 NC_000962 336728 . G A 392.212 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=12;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=21.1059;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=90.3101;PAIRED=0.916667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=432;QR=0;RO=0;RPL=0;RPP=29.068;RPPR=0;RPR=12;RUN=1;SAF=1;SAP=21.1059;SAR=11;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:87:0,87:0:0:87:2562:-230.796,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
214 NC_000962 338561 . G A 349.854 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=11;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=26.8965;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=80.5568;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=385;QR=0;RO=0;RPL=0;RPP=26.8965;RPPR=0;RPR=11;RUN=1;SAF=11;SAP=26.8965;SAR=0;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:11:0,11:0:0:11:385:-34.9854,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
215 NC_000962 338618 . C G 703.019 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=26;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=8.35546;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=161.876;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=778;QR=0;RO=0;RPL=17;RPP=8.35546;RPPR=0;RPR=9;RUN=1;SAF=26;SAP=59.4686;SAR=0;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:26:0,26:0:0:26:778:-70.3019,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
216 NC_000962 338844 . AC GT 2597.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=84;CIGAR=2X;DP=87;DPB=87.5;DPRA=0;EPP=11.386;EPPR=0;GTI=0;LEN=2;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=598.072;PAIRED=0.678571;PAIREDR=0;PAO=1;PQA=32;PQR=0;PRO=0;QA=2854;QR=0;RO=0;RPL=23;RPP=40.3389;RPPR=0;RPR=61;RUN=1;SAF=66;SAP=62.5707;SAR=18;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:302:0,302:0:0:302:10274:-936.896,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
217 NC_000962 340132 . G A 1515.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=49;CIGAR=1X;DP=49;DPB=49;DPRA=0;EPP=6.59988;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=349.002;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1681;QR=0;RO=0;RPL=25;RPP=3.05462;RPPR=0;RPR=24;RUN=1;SAF=12;SAP=30.7077;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:482:0,482:0:0:482:17522:-1576.23,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
218 NC_000962 340372 . T C 759.063 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=25;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=13.5202;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=174.781;PAIRED=0.96;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=840;QR=0;RO=0;RPL=18;RPP=13.5202;RPPR=0;RPR=7;RUN=1;SAF=0;SAP=57.2971;SAR=25;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:283:0,283:0:0:283:9430:-848.647,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
219 NC_000962 341266 . G A 3691.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X;DP=122;DPB=122;DPRA=0;EPP=13.2625;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=850.096;PAIRED=0.983607;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4100;QR=0;RO=0;RPL=67;RPP=5.57335;RPPR=0;RPR=55;RUN=1;SAF=66;SAP=4.7902;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:504:0,504:0:0:504:17353:-1561.19,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
220 NC_000962 342146 . A C 3410.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=7.41193;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=785.258;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3787;QR=0;RO=0;RPL=52;RPP=3.96888;RPPR=0;RPR=59;RUN=1;SAF=51;SAP=4.59489;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:413:0,413:0:0:413:14300:-1286.66,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
221 NC_000962 346275 . C G 4380.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=145;CIGAR=1X;DP=145;DPB=145;DPRA=0;EPP=4.82236;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1008.57;PAIRED=0.993103;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4865;QR=0;RO=0;RPL=76;RPP=3.74411;RPPR=0;RPR=69;RUN=1;SAF=79;SAP=5.54119;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:438:0,438:0:0:438:15410:-1386.44,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
222 NC_000962 353309 . G A 3971.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=914.516;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4411;QR=0;RO=0;RPL=64;RPP=3.0103;RPPR=0;RPR=64;RUN=1;SAF=74;SAP=9.79615;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:403:0,403:0:0:403:13620:-1225.56,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
223 NC_000962 353365 . G A 4220.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=139;CIGAR=1X;DP=139;DPB=139;DPRA=0;EPP=3.40085;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=971.702;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4687;QR=0;RO=0;RPL=70;RPP=3.02592;RPPR=0;RPR=69;RUN=1;SAF=76;SAP=5.65044;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:450:0,450:0:0:450:14783:-1330.18,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
224 NC_000962 356528 . A G 3070.27 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=3.54779;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=706.956;PAIRED=0.990099;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3409;QR=0;RO=0;RPL=48;RPP=3.54779;RPPR=0;RPR=53;RUN=1;SAF=72;SAP=42.7633;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:406:1,405:1:38:405:14247:-1278.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
225 NC_000962 363464 . G A 3585.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=4.20835;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=825.65;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3982;QR=0;RO=0;RPL=54;RPP=4.20835;RPPR=0;RPR=62;RUN=1;SAF=58;SAP=3.0103;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:483:0,483:0:0:483:16802:-1511.63,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
226 NC_000962 364854 . C G 3368.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=4.98437;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=775.537;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3740;QR=0;RO=0;RPL=42;RPP=16.355;RPPR=0;RPR=68;RUN=1;SAF=62;SAP=6.87947;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:531:0,531:0:0:531:18336:-1649.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
227 NC_000962 372913 . A C 2050.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=1X;DP=69;DPB=69;DPRA=0;EPP=3.04177;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=472.039;PAIRED=0.985507;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2275;QR=0;RO=0;RPL=42;RPP=10.0912;RPPR=0;RPR=27;RUN=1;SAF=23;SAP=19.6583;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:541:0,541:0:0:541:19117:-1719.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
228 NC_000962 373282 . TAAGT TAGT 15354.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=505;CIGAR=1M1D3M;DP=506;DPB=405.4;DPRA=0;EPP=16.9808;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3535.45;PAIRED=0.90495;PAIREDR=0;PAO=1;PQA=16;PQR=16;PRO=1;QA=17068;QR=0;RO=0;RPL=272;RPP=9.55052;RPPR=0;RPR=233;RUN=1;SAF=185;SAP=81.3768;SAR=320;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:506:0,505:0:0:505:17068:-1535.42,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
229 NC_000962 374353 . A G 2736.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=5.96253;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=630.103;PAIRED=0.966292;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3038;QR=0;RO=0;RPL=50;RPP=5.96253;RPPR=0;RPR=39;RUN=1;SAF=40;SAP=4.98658;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:699:0,698:0:0:698:24716:-2223.05,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
230 NC_000962 376774 . T C 4355.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=145;CIGAR=1X;DP=145;DPB=145;DPRA=0;EPP=9.61457;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1002.99;PAIRED=0.97931;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4838;QR=0;RO=0;RPL=74;RPP=3.14508;RPPR=0;RPR=71;RUN=1;SAF=56;SAP=19.3188;SAR=89;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:374:0,374:0:0:374:12368:-1112.99,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
231 NC_000962 377014 . C T 2767.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=3.22506;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=637.352;PAIRED=0.978022;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3073;QR=0;RO=0;RPL=48;RPP=3.60686;RPPR=0;RPR=43;RUN=1;SAF=30;SAP=25.942;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:489:0,489:0:0:489:17077:-1536.4,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
232 NC_000962 379528 . G T 2461.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=3.98746;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=566.716;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2732;QR=0;RO=0;RPL=35;RPP=5.72464;RPPR=0;RPR=45;RUN=1;SAF=62;SAP=55.5599;SAR=18;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:449:0,448:0:0:448:15820:-1423.06,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
233 NC_000962 383716 . C T 3160.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=105;CIGAR=1X;DP=105;DPB=105;DPRA=0;EPP=6.50534;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=727.67;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3509;QR=0;RO=0;RPL=56;RPP=4.02365;RPPR=0;RPR=49;RUN=1;SAF=49;SAP=4.02365;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:235:0,235:0:0:235:7406:-666.587,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
234 NC_000962 384380 . A C 2848.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=3.58174;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=655.997;PAIRED=0.989474;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3163;QR=0;RO=0;RPL=47;RPP=3.03316;RPPR=0;RPR=48;RUN=1;SAF=50;SAP=3.58174;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:446:0,445:0:0:445:15639:-1406.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
235 NC_000962 386432 . C G 4374.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=149;CIGAR=1X;DP=149;DPB=149;DPRA=0;EPP=4.19076;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1007.34;PAIRED=0.979866;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4859;QR=0;RO=0;RPL=75;RPP=3.02487;RPPR=0;RPR=74;RUN=1;SAF=87;SAP=12.1188;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:439:0,439:0:0:439:15091:-1357.79,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
236 NC_000962 390828 . T C 3888.95 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=129;CIGAR=1X;DP=129;DPB=129;DPRA=0;EPP=3.83512;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=895.463;PAIRED=0.992248;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4319;QR=0;RO=0;RPL=64;RPP=3.02713;RPPR=0;RPR=65;RUN=1;SAF=65;SAP=3.02713;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:449:0,449:0:0:449:15253:-1372.36,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
237 NC_000962 391853 . A G 3590.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=3.30474;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=826.697;PAIRED=0.991525;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3987;QR=0;RO=0;RPL=54;RPP=4.85053;RPPR=0;RPR=64;RUN=1;SAF=57;SAP=3.30474;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:500:0,500:0:0:500:17202:-1547.68,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
238 NC_000962 392261 . T C 2806.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=3.38795;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=646.267;PAIRED=0.98913;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3116;QR=0;RO=0;RPL=48;RPP=3.38795;RPPR=0;RPR=44;RUN=1;SAF=42;SAP=4.52089;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:493:1,492:1:26:492:17294:-1553.24,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
239 NC_000962 396199 . T C 2697.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=23.5295;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=621.194;PAIRED=0.977528;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2995;QR=0;RO=0;RPL=46;RPP=3.22989;RPPR=0;RPR=43;RUN=1;SAF=43;SAP=3.22989;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:667:1,666:1:27:666:24116:-2166.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
240 NC_000962 403980 . G A 3102.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=3.54779;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=714.337;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3447;QR=0;RO=0;RPL=53;RPP=3.54779;RPPR=0;RPR=48;RUN=1;SAF=34;SAP=26.4235;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:471:1,470:1:35:470:15781:-1416.46,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
241 NC_000962 404326 . T C 2627.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=90;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=3.10681;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=604.958;PAIRED=0.988889;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2919;QR=0;RO=0;RPL=45;RPP=3.0103;RPPR=0;RPR=45;RUN=1;SAF=47;SAP=3.39634;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:0,509:0:0:509:17596:-1583.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
242 NC_000962 414486 . C T 3110.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=3.03138;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=716.277;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3454;QR=0;RO=0;RPL=54;RPP=3.53736;RPPR=0;RPR=49;RUN=1;SAF=50;SAP=3.20004;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:423:0,423:0:0:423:15224:-1369.55,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
243 NC_000962 416827 . GGCCGCCGG GGCCGG 1491.66 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=52;CIGAR=1M3D5M;DP=54;DPB=36.8889;DPRA=0;EPP=3.17734;EPPR=0;GTI=0;LEN=3;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=343.468;PAIRED=1;PAIREDR=0;PAO=1;PQA=25;PQR=25;PRO=1;QA=1658;QR=0;RO=0;RPL=26;RPP=3.0103;RPPR=0;RPR=26;RUN=1;SAF=29;SAP=4.51363;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:461:0,451:0:0:451:14244:-1281.56,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
244 NC_000962 420008 . A G 3304.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=3.32615;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=760.821;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3669;QR=0;RO=0;RPL=67;RPP=14.3809;RPPR=0;RPR=43;RUN=1;SAF=66;SAP=12.5648;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:503:0,503:0:0:503:17749:-1596.79,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
245 NC_000962 424320 . TCCTA TCCCTA 2099.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=72;CIGAR=1M1I4M;DP=80;DPB=94.8;DPRA=0;EPP=4.09604;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=432.383;PAIRED=0.986111;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2333;QR=0;RO=0;RPL=32;RPP=4.9405;RPPR=0;RPR=40;RUN=1;SAF=19;SAP=37.8745;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:483:0,466:0:0:466:15546:-1398.55,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
246 NC_000962 424981 . G A 899.048 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=30;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=44.7026;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=207.013;PAIRED=0.933333;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=998;QR=0;RO=0;RPL=11;RPP=7.64277;RPPR=0;RPR=19;RUN=1;SAF=16;SAP=3.29983;SAR=14;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:508:0,508:0:0:508:17390:-1564.61,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
247 NC_000962 425871 . C G 1983.53 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=65;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=3.84548;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=456.725;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2201;QR=0;RO=0;RPL=29;RPP=4.64726;RPPR=0;RPR=36;RUN=1;SAF=32;SAP=3.04371;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:416:1,415:1:32:415:14703:-1319.59,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
248 NC_000962 426968 . G C 497.196 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=17;CIGAR=1X;DP=17;DPB=17;DPRA=0;EPP=31.7504;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=114.484;PAIRED=0.764706;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=549;QR=0;RO=0;RPL=17;RPP=39.9253;RPPR=0;RPR=0;RUN=1;SAF=1;SAP=31.7504;SAR=16;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:17:0,17:0:0:17:549:-49.7196,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
249 NC_000962 427098 . T A 418.795 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=15;CIGAR=1X;DP=15;DPB=15;DPRA=0;EPP=6.62942;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=96.4311;PAIRED=0.4;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=462;QR=0;RO=0;RPL=0;RPP=35.5824;RPPR=0;RPR=15;RUN=1;SAF=5;SAP=6.62942;SAR=10;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:15:0,15:0:0:15:462:-41.8795,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
250 NC_000962 428698 . C T 1740.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=57;CIGAR=1X;DP=57;DPB=57;DPRA=0;EPP=3.9627;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=400.785;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1931;QR=0;RO=0;RPL=29;RPP=3.0484;RPPR=0;RPR=28;RUN=1;SAF=29;SAP=3.0484;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:371:0,371:0:0:371:12967:-1166.65,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
251 NC_000962 432536 . C T 1243.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=42;CIGAR=1X;DP=43;DPB=43;DPRA=0;EPP=13.1438;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=286.325;PAIRED=0.97619;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1381;QR=0;RO=0;RPL=15;RPP=10.4553;RPPR=0;RPR=27;RUN=1;SAF=27;SAP=10.4553;SAR=15;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:639:0,639:0:0:639:22516:-2025.56,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
252 NC_000962 441823 . C T 3493.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=9.29206;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=804.518;PAIRED=0.991071;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3880;QR=0;RO=0;RPL=63;RPP=6.81038;RPPR=0;RPR=49;RUN=1;SAF=50;SAP=5.80219;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:362:0,362:0:0:362:12441:-1119.53,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
253 NC_000962 445780 . C T 5559.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=178;CIGAR=1X;DP=178;DPB=178;DPRA=0;EPP=10.0371;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1280.12;PAIRED=0.988764;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6176;QR=0;RO=0;RPL=77;RPP=10.0371;RPPR=0;RPR=101;RUN=1;SAF=106;SAP=17.1127;SAR=72;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:446:0,446:0:0:446:15719:-1414.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
254 NC_000962 454295 . T C 3518.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=18.3566;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=810.126;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3907;QR=0;RO=0;RPL=54;RPP=5.21827;RPPR=0;RPR=65;RUN=1;SAF=90;SAP=70.9099;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:318:0,316:0:0:316:10590:-952.63,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
255 NC_000962 454333 . T G 4157.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=139;CIGAR=1X;DP=139;DPB=139;DPRA=0;EPP=3.02592;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=957.211;PAIRED=0.992806;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4617;QR=0;RO=0;RPL=64;RPP=4.90057;RPPR=0;RPR=75;RUN=1;SAF=79;SAP=8.64988;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:358:0,358:0:0:358:11948:-1075.16,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
256 NC_000962 456594 . T C 4504.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=147;CIGAR=1X;DP=147;DPB=147;DPRA=0;EPP=8.34296;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1037.16;PAIRED=0.993197;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5003;QR=0;RO=0;RPL=75;RPP=3.14325;RPPR=0;RPR=72;RUN=1;SAF=99;SAP=41.4321;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:426:1,425:1:22:425:14888:-1337.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
257 NC_000962 457452 . T G 3790.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=129;CIGAR=1X;DP=129;DPB=129;DPRA=0;EPP=4.37378;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=872.695;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4209;QR=0;RO=0;RPL=66;RPP=3.1618;RPPR=0;RPR=63;RUN=1;SAF=78;SAP=15.2816;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:347:0,347:0:0:347:11934:-1073.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
258 NC_000962 459399 . A C 2759 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=4.48875;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=635.284;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3063;QR=0;RO=0;RPL=44;RPP=3.84193;RPPR=0;RPR=50;RUN=1;SAF=45;SAP=3.37991;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:322:0,322:0:0:322:11085:-997.457,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
259 NC_000962 460413 . C T 5687.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=184;CIGAR=1X;DP=185;DPB=185;DPRA=0;EPP=5.32339;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1309.51;PAIRED=0.983696;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6321;QR=0;RO=0;RPL=94;RPP=3.19912;RPPR=0;RPR=90;RUN=1;SAF=79;SAP=10.9881;SAR=105;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:495:0,495:0:0:495:17566:-1580.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
260 NC_000962 465300 . C T 4181.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=135;CIGAR=1X;DP=135;DPB=135;DPRA=0;EPP=4.31318;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=962.78;PAIRED=0.985185;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4644;QR=0;RO=0;RPL=70;RPP=3.41242;RPPR=0;RPR=65;RUN=1;SAF=94;SAP=48.193;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:422:0,422:0:0:422:14518:-1306.29,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
261 NC_000962 467497 . CGGGTGA CGGGGTGA 2080.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=72;CIGAR=1M1I6M;DP=77;DPB=87.2857;DPRA=0;EPP=3.0103;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=479.082;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2339;QR=27;RO=1;RPL=32;RPP=4.9405;RPPR=5.18177;RPR=40;RUN=1;SAF=32;SAP=4.9405;SAR=40;SRF=1;SRP=5.18177;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:320:0,305:0:0:305:10131:-911.412,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
262 NC_000962 467508 . CGC CGGC 2185.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=76;CIGAR=1M1I2M;DP=78;DPB=103.333;DPRA=0;EPP=10.3247;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=503.137;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2448;QR=20;RO=1;RPL=35;RPP=4.03889;RPPR=5.18177;RPR=41;RUN=1;SAF=35;SAP=4.03889;SAR=41;SRF=0;SRP=5.18177;SRR=1;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:337:0,332:0:0:332:10857:-976.765,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
263 NC_000962 467516 . G C 2865.72 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=14.4341;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=659.856;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3184;QR=0;RO=0;RPL=43;RPP=3.86001;RPPR=0;RPR=49;RUN=1;SAF=48;SAP=3.38795;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:362:0,362:0:0:362:12247:-1102.07,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
264 NC_000962 467526 . C G 2829.65 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=18.6264;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=651.551;PAIRED=0.989362;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3144;QR=0;RO=0;RPL=41;RPP=6.33681;RPPR=0;RPR=53;RUN=1;SAF=45;SAP=3.37991;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:395:0,395:0:0:395:13662:-1229.28,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
265 NC_000962 467546 . G C 2895.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=15.102;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=666.77;PAIRED=0.989474;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3215;QR=0;RO=0;RPL=45;RPP=3.58174;RPPR=0;RPR=50;RUN=1;SAF=44;SAP=4.13032;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:440:0,440:0:0:440:15196:-1367.3,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
266 NC_000962 467557 . A C 2923.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=7.44372;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=673.189;PAIRED=0.989583;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3246;QR=0;RO=0;RPL=43;RPP=5.27225;RPPR=0;RPR=53;RUN=1;SAF=52;SAP=4.45795;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:460:0,460:0:0:460:16069:-1445.71,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
267 NC_000962 467564 . A C 2742.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=90;DPB=90;DPRA=0;EPP=8.49998;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=631.554;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3049;QR=0;RO=0;RPL=45;RPP=3.0347;RPPR=0;RPR=44;RUN=1;SAF=47;SAP=3.62026;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:490:0,490:0:0:490:17151:-1543.06,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
268 NC_000962 467585 . G C 2895.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=4.13032;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=666.766;PAIRED=0.989474;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3215;QR=0;RO=0;RPL=49;RPP=3.21602;RPPR=0;RPR=46;RUN=1;SAF=51;SAP=4.13032;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:520:0,520:0:0:520:18412:-1656.45,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
269 NC_000962 467590 . T C 2816.53 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=5.83555;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=648.53;PAIRED=0.978495;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3130;QR=0;RO=0;RPL=50;RPP=4.15441;RPPR=0;RPR=43;RUN=1;SAF=49;SAP=3.59403;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:0,509:0:0:509:18083:-1626.86,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
270 NC_000962 467621 . T G 3018.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=3.20771;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=694.936;PAIRED=0.959596;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3351;QR=0;RO=0;RPL=49;RPP=3.03223;RPPR=0;RPR=50;RUN=1;SAF=58;SAP=9.34924;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:517:0,517:0:0:517:18388:-1654.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
271 NC_000962 467638 . G T 3054.97 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=3.03223;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=703.433;PAIRED=0.969697;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3392;QR=0;RO=0;RPL=48;RPP=3.20771;RPPR=0;RPR=51;RUN=1;SAF=55;SAP=5.66432;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:521:0,521:0:0:521:18891:-1699.45,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
272 NC_000962 475178 . T C 2700.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=3.03416;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=621.815;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2998;QR=0;RO=0;RPL=52;RPP=7.04303;RPPR=0;RPR=39;RUN=1;SAF=43;SAP=3.60686;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:479:0,479:0:0:479:16140:-1452.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
273 NC_000962 477234 . T G 4197.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1X;DP=136;DPB=136;DPRA=0;EPP=4.03217;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=966.509;PAIRED=0.977941;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4662;QR=0;RO=0;RPL=75;RPP=6.13977;RPPR=0;RPR=61;RUN=1;SAF=49;SAP=26.0662;SAR=87;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:369:0,369:0:0:369:12113:-1090.07,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
274 NC_000962 483935 . T G 1706.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=58;CIGAR=1X;DP=58;DPB=58;DPRA=0;EPP=15.1406;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=392.908;PAIRED=0.965517;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1893;QR=0;RO=0;RPL=35;RPP=8.40154;RPPR=0;RPR=23;RUN=1;SAF=31;SAP=3.60933;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:608:0,608:0:0:608:21210:-1908.04,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
275 NC_000962 484596 . C T 1445.53 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=47;CIGAR=1X;DP=47;DPB=47;DPRA=0;EPP=10.8184;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=332.845;PAIRED=0.957447;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1603;QR=0;RO=0;RPL=25;RPP=3.42611;RPPR=0;RPR=22;RUN=1;SAF=19;SAP=6.75262;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:762:0,762:0:0:762:26537:-2387.47,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
276 NC_000962 485810 . CAAATG CAATG 406.718 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=14;CIGAR=1M1D4M;DP=15;DPB=12.5;DPRA=0;EPP=12.937;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=89.107;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=451;QR=0;RO=0;RPL=6;RPP=3.63072;RPPR=0;RPR=8;RUN=1;SAF=7;SAP=3.0103;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:785:0,782:0:0:782:28208:-2537.11,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
277 NC_000962 489935 . G C 2041.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=71;CIGAR=1X;DP=74;DPB=74;DPRA=0;EPP=4.50892;EPPR=3.73412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=470.092;PAIRED=0.985915;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2362;QR=93;RO=3;RPL=32;RPP=4.50892;RPPR=3.73412;RPR=39;RUN=1;SAF=55;SAP=49.5287;SAR=16;SRF=1;SRP=3.73412;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:591:1,590:1:35:590:20901:-1876.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
278 NC_000962 491742 . T C 2333.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=76;CIGAR=1X;DP=76;DPB=76;DPRA=0;EPP=7.12467;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=537.303;PAIRED=0.973684;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2590;QR=0;RO=0;RPL=39;RPP=3.12459;RPPR=0;RPR=37;RUN=1;SAF=49;SAP=16.8392;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:601:0,601:0:0:601:21130:-1900.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
279 NC_000962 492150 . G C 3600.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=3.08391;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=828.97;PAIRED=0.974576;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3998;QR=0;RO=0;RPL=58;RPP=3.08391;RPPR=0;RPR=60;RUN=1;SAF=56;SAP=3.67278;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:434:0,434:0:0:434:14920:-1342.43,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
280 NC_000962 497491 . G A 2965.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=3.37991;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=682.927;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3293;QR=0;RO=0;RPL=42;RPP=5.32038;RPPR=0;RPR=52;RUN=1;SAF=51;SAP=4.48875;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:464:0,464:0:0:464:16618:-1494.96,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
281 NC_000962 498531 . A G 3852.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=130;DPB=130;DPRA=0;EPP=4.70676;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=887.023;PAIRED=0.992188;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4318;QR=36;RO=1;RPL=58;RPP=5.45321;RPPR=5.18177;RPR=70;RUN=1;SAF=53;SAP=11.2212;SAR=75;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:507:1,505:1:35:505:18022:-1617.76,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
282 NC_000962 498557 . C A 3757.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=125;DPB=125;DPRA=0;EPP=3.0103;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=865.104;PAIRED=0.991935;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4208;QR=32;RO=1;RPL=58;RPP=4.13106;RPPR=5.18177;RPR=66;RUN=1;SAF=44;SAP=25.7057;SAR=80;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:476:0,475:0:0:475:16141:-1452.08,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
283 NC_000962 502589 . C G 2929 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=5.32038;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=674.426;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3252;QR=0;RO=0;RPL=49;RPP=3.37991;RPPR=0;RPR=45;RUN=1;SAF=61;SAP=21.1213;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:490:0,490:0:0:490:16108:-1449.45,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
284 NC_000962 503354 . G C 4503.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=145;CIGAR=1X;DP=145;DPB=145;DPRA=0;EPP=8.41652;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1036.94;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5002;QR=0;RO=0;RPL=88;RPP=17.4019;RPPR=0;RPR=57;RUN=1;SAF=63;SAP=8.41652;SAR=82;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:597:0,597:0:0:597:21242:-1910.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
285 NC_000962 505974 . G A 3588.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=6.67934;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=826.272;PAIRED=0.974138;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3985;QR=0;RO=0;RPL=52;RPP=5.70592;RPPR=0;RPR=64;RUN=1;SAF=63;SAP=4.88226;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:482:0,482:0:0:482:16081:-1446.96,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
286 NC_000962 507028 . GCCCCCCGGGGCCGCA GCCCCCGGGGCCGCA 2838.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1M1D14M;DP=103;DPB=97.125;DPRA=0;EPP=3.37221;EPPR=0;GTI=0;LEN=1;MEANALT=5;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=653.612;PAIRED=1;PAIREDR=0;PAO=1.5;PQA=23;PQR=23;PRO=1.5;QA=3155;QR=0;RO=0;RPL=44;RPP=4.45795;RPPR=0;RPR=52;RUN=1;SAF=66;SAP=32.3252;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:419:0,414:0:0:414:13732:-1235.33,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
287 NC_000962 513257 . T C 4316.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=141;CIGAR=1X;DP=141;DPB=141;DPRA=0;EPP=4.25774;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=993.85;PAIRED=0.978723;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4794;QR=0;RO=0;RPL=72;RPP=3.1489;RPPR=0;RPR=69;RUN=1;SAF=71;SAP=3.0257;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:478:0,478:0:0:478:17100:-1538.33,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
288 NC_000962 515527 . G A 3369.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=4.59489;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=775.935;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3742;QR=0;RO=0;RPL=57;RPP=3.18637;RPPR=0;RPR=54;RUN=1;SAF=47;SAP=8.66395;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:390:0,390:0:0:390:13471:-1212.02,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
289 NC_000962 517358 . T C 4511.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=149;CIGAR=1X;DP=149;DPB=149;DPRA=0;EPP=3.02487;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1038.81;PAIRED=0.993289;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5011;QR=0;RO=0;RPL=80;RPP=4.77371;RPPR=0;RPR=69;RUN=1;SAF=91;SAP=18.881;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:377:1,376:1:36:376:13061:-1171.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
290 NC_000962 518987 . C T 3135.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=5.09825;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=721.876;PAIRED=0.980769;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3484;QR=0;RO=0;RPL=53;RPP=3.09382;RPPR=0;RPR=51;RUN=1;SAF=48;SAP=4.34659;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:403:0,403:0:0:403:13318:-1198.48,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
291 NC_000962 524891 . C A 3251.09 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=6.44001;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=748.591;PAIRED=0.971963;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3610;QR=0;RO=0;RPL=62;RPP=8.8753;RPPR=0;RPR=45;RUN=1;SAF=44;SAP=10.3365;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:357:0,357:0:0:357:12557:-1129.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
292 NC_000962 533547 . C G 4308.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=142;CIGAR=1X;DP=142;DPB=142;DPRA=0;EPP=7.96493;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=992.002;PAIRED=0.985915;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4785;QR=0;RO=0;RPL=67;RPP=3.98899;RPPR=0;RPR=75;RUN=1;SAF=77;SAP=5.21236;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:403:0,403:0:0:403:14222:-1279.53,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
293 NC_000962 541201 . A G 1836.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=62;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=3.15039;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=422.946;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2038;QR=0;RO=0;RPL=27;RPP=5.25182;RPPR=0;RPR=35;RUN=1;SAF=33;SAP=3.57068;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:660:0,660:0:0:660:23919:-2151.52,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
294 NC_000962 542014 . C G 2004.18 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=66;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=6.30041;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=461.479;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2224;QR=0;RO=0;RPL=23;RPP=16.1707;RPPR=0;RPR=43;RUN=1;SAF=47;SAP=28.8048;SAR=19;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:662:0,662:0:0:662:24086:-2166.5,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
295 NC_000962 542514 . C G 3306.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=5.46589;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=761.435;PAIRED=0.981308;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3672;QR=0;RO=0;RPL=61;RPP=7.57648;RPPR=0;RPR=46;RUN=1;SAF=63;SAP=10.3365;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:0,509:0:0:509:18276:-1644.14,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
296 NC_000962 546357 . A G 2385.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=549.313;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2648;QR=0;RO=0;RPL=37;RPP=3.98746;RPPR=0;RPR=43;RUN=1;SAF=31;SAP=11.8048;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:543:0,543:0:0:543:19215:-1728.61,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
297 NC_000962 549363 . C G 2311.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=78;CIGAR=1X;DP=78;DPB=78;DPRA=0;EPP=10.1372;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=532.329;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2566;QR=0;RO=0;RPL=39;RPP=3.0103;RPPR=0;RPR=39;RUN=1;SAF=42;SAP=4.01252;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:569:0,569:0:0:569:19887:-1789.12,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
298 NC_000962 551044 . T C 2924.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=4.13032;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=673.39;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3247;QR=0;RO=0;RPL=57;RPP=11.2619;RPPR=0;RPR=38;RUN=1;SAF=48;SAP=3.03316;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:470:0,470:0:0:470:16397:-1475.28,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
299 NC_000962 551525 . A C 4223.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=139;CIGAR=1X;DP=139;DPB=139;DPRA=0;EPP=20.0228;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=972.518;PAIRED=0.992806;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4691;QR=0;RO=0;RPL=72;RPP=3.40085;RPPR=0;RPR=67;RUN=1;SAF=64;SAP=4.90057;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:470:0,470:0:0:470:16662:-1498.99,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
300 NC_000962 555991 . A G 3401.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=3.17734;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=783.198;PAIRED=0.974359;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3777;QR=0;RO=0;RPL=59;RPP=3.02886;RPPR=0;RPR=58;RUN=1;SAF=55;SAP=3.91972;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:420:0,420:0:0:420:14957:-1345.6,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
301 NC_000962 561776 . CC TT 2797.66 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=2X;DP=92;DPB=93.5;DPRA=0;EPP=3.86001;EPPR=0;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=644.184;PAIRED=0.978261;PAIREDR=0;PAO=3;PQA=100;PQR=0;PRO=0;QA=3006;QR=0;RO=0;RPL=41;RPP=5.3706;RPPR=0;RPR=51;RUN=1;SAF=60;SAP=21.515;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:381:0,381:0:0:381:13675:-1257.49,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
302 NC_000962 565655 . A G 2222.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=72;CIGAR=1X;DP=73;DPB=73;DPRA=0;EPP=12.7819;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=511.817;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2470;QR=0;RO=0;RPL=41;RPP=6.02623;RPPR=0;RPR=31;RUN=1;SAF=38;SAP=3.49285;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:639:0,639:0:0:639:22217:-1998.81,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
303 NC_000962 572591 . C T 2924.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=11.4393;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=673.394;PAIRED=0.978495;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3247;QR=0;RO=0;RPL=44;RPP=3.59403;RPPR=0;RPR=49;RUN=1;SAF=31;SAP=25.4488;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:450:0,450:0:0:450:15417:-1387.14,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
304 NC_000962 573262 . A G 4594.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=152;CIGAR=1X;DP=152;DPB=152;DPRA=0;EPP=8.7247;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1057.88;PAIRED=0.986842;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5103;QR=0;RO=0;RPL=80;RPP=3.9246;RPPR=0;RPR=72;RUN=1;SAF=72;SAP=3.9246;SAR=80;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:430:0,430:0:0:430:15077:-1356.48,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
305 NC_000962 575907 . C T 4295.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=138;CIGAR=1X;DP=138;DPB=138;DPRA=0;EPP=3.07324;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=989.084;PAIRED=0.963768;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4771;QR=0;RO=0;RPL=76;RPP=6.09442;RPPR=0;RPR=62;RUN=1;SAF=74;SAP=4.58383;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:293:0,293:0:0:293:9587:-862.766,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
306 NC_000962 580772 . TGGGGGCACCACCCGCTTGCGGGGGAG AGG 1477.13 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=50;CIGAR=1X1M24D1M;DP=52;DPB=6.66667;DPRA=0;EPP=3.18402;EPPR=5.18177;GTI=0;LEN=3;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=340.122;PAIRED=0.98;PAIREDR=1;PAO=0.5;PQA=16;PQR=16;PRO=0.5;QA=1669;QR=28;RO=1;RPL=13;RPP=28.0257;RPPR=5.18177;RPR=37;RUN=1;SAF=25;SAP=3.0103;SAR=25;SRF=1;SRP=5.18177;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:73:3,70:3:106:70:2303:-215.982,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
307 NC_000962 583171 . A C 6111.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=197;CIGAR=1X;DP=197;DPB=197;DPRA=0;EPP=6.9895;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1407.32;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6790;QR=0;RO=0;RPL=107;RPP=6.19586;RPPR=0;RPR=90;RUN=1;SAF=98;SAP=3.02132;SAR=99;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:375:1,374:1:37:374:12865:-1153.84,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
308 NC_000962 584171 . T C 3816.13 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=4.11327;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=878.697;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4238;QR=0;RO=0;RPL=68;RPP=4.73369;RPPR=0;RPR=58;RUN=1;SAF=35;SAP=57.0558;SAR=91;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:408:0,408:0:0:408:14361:-1292.05,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
309 NC_000962 590436 . T C 4242.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=139;CIGAR=1X;DP=142;DPB=142;DPRA=0;EPP=3.02592;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=976.82;PAIRED=0.978417;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4751;QR=36;RO=1;RPL=67;RPP=3.40085;RPPR=5.18177;RPR=72;RUN=1;SAF=60;SAP=8.64988;SAR=79;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:518:0,518:0:0:518:17872:-1607.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
310 NC_000962 597816 . A G 3289.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=14.3809;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=757.51;PAIRED=0.981818;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3653;QR=0;RO=0;RPL=63;RPP=8.06391;RPPR=0;RPR=47;RUN=1;SAF=58;SAP=3.72096;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:696:1,695:1:29:695:25011:-2246.87,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
311 NC_000962 598475 . G A 2114.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=1X;DP=69;DPB=69;DPRA=0;EPP=3.29354;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=486.958;PAIRED=0.985507;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2347;QR=0;RO=0;RPL=39;RPP=5.55942;RPPR=0;RPR=30;RUN=1;SAF=15;SAP=50.8771;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:550:0,550:0:0:550:18031:-1622.41,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
312 NC_000962 599868 . A G 2361.35 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=77;CIGAR=1X;DP=77;DPB=77;DPRA=0;EPP=37.5565;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=543.72;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2621;QR=0;RO=0;RPL=24;RPP=26.7273;RPPR=0;RPR=53;RUN=1;SAF=60;SAP=55.1538;SAR=17;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:592:0,592:0:0:592:21315:-1917.4,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
313 NC_000962 605150 . G A 3902.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=125;CIGAR=1X;DP=125;DPB=125;DPRA=0;EPP=3.86152;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=898.563;PAIRED=0.984;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4334;QR=0;RO=0;RPL=73;RPP=10.6713;RPPR=0;RPR=52;RUN=1;SAF=67;SAP=4.41741;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:489:0,489:0:0:489:17078:-1536.52,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
314 NC_000962 610120 . T G 2531.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=84;CIGAR=1X;DP=84;DPB=84;DPRA=0;EPP=3.42391;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=582.877;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2810;QR=0;RO=0;RPL=44;RPP=3.42391;RPPR=0;RPR=40;RUN=1;SAF=48;SAP=6.73282;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:411:0,411:0:0:411:14382:-1294.01,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
315 NC_000962 611048 . T G 3277.19 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=3.19295;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=754.601;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3639;QR=0;RO=0;RPL=70;RPP=25.1106;RPPR=0;RPR=37;RUN=1;SAF=53;SAP=3.03059;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:543:0,542:0:0:542:19346:-1740.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
316 NC_000962 618480 . A G 3142.27 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=3.20004;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=723.534;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3529;QR=36;RO=1;RPL=52;RPP=3.03138;RPPR=5.18177;RPR=51;RUN=1;SAF=51;SAP=3.03138;SAR=52;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:498:1,497:1:35:497:17597:-1579.5,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
317 NC_000962 620625 . A G 3357.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=3.98647;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=773.031;PAIRED=0.990826;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3731;QR=0;RO=0;RPL=61;RPP=6.37708;RPPR=0;RPR=48;RUN=1;SAF=59;SAP=4.62396;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:357:0,357:0:0:357:12333:-1109.74,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
318 NC_000962 621598 . C T 4536.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=145;CIGAR=1X;DP=145;DPB=145;DPRA=0;EPP=6.37983;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1044.6;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5039;QR=0;RO=0;RPL=70;RPP=3.38469;RPPR=0;RPR=75;RUN=1;SAF=82;SAP=8.41652;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:430:0,430:0:0:430:15056:-1354.55,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
319 NC_000962 623472 . A G 313.536 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=11;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=3.20771;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=72.1944;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=345;QR=0;RO=0;RPL=5;RPP=3.20771;RPPR=0;RPR=6;RUN=1;SAF=9;SAP=12.6832;SAR=2;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:239:0,239:0:0:239:7996:-719.647,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
320 NC_000962 623508 . C G 8111.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=258;CIGAR=1X;DP=258;DPB=258;DPRA=0;EPP=17.8571;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1867.76;PAIRED=0.569767;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9014;QR=0;RO=0;RPL=130;RPP=3.04397;RPPR=0;RPR=128;RUN=1;SAF=132;SAP=3.3133;SAR=126;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:258:0,258:0:0:258:9014:-811.159,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
321 NC_000962 627485 . G A 4144.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=134;CIGAR=1X;DP=134;DPB=134;DPRA=0;EPP=4.04742;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=954.288;PAIRED=0.977612;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4603;QR=0;RO=0;RPL=63;RPP=4.04742;RPPR=0;RPR=71;RUN=1;SAF=64;SAP=3.59368;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:293:0,293:0:0:293:10268:-923.892,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
322 NC_000962 628864 . T C 4567.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=147;CIGAR=1X;DP=147;DPB=147;DPRA=0;EPP=4.20683;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1051.65;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5073;QR=0;RO=0;RPL=77;RPP=3.73412;RPPR=0;RPR=70;RUN=1;SAF=75;SAP=3.14325;SAR=72;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:500:0,500:0:0:500:17354:-1561.38,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
323 NC_000962 630722 . G C 4775.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=157;CIGAR=1X;DP=158;DPB=158;DPRA=0;EPP=4.13061;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1099.59;PAIRED=0.974522;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=5340;QR=32;RO=1;RPL=92;RPP=13.0931;RPPR=5.18177;RPR=65;RUN=1;SAF=71;SAP=6.12228;SAR=86;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:310:0,310:0:0:310:10660:-959.188,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
324 NC_000962 637319 . G A 3913.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=125;CIGAR=1X;DP=125;DPB=125;DPRA=0;EPP=4.41741;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=901.048;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4346;QR=0;RO=0;RPL=66;RPP=3.86152;RPPR=0;RPR=59;RUN=1;SAF=43;SAP=29.4328;SAR=82;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:533:0,533:0:0:533:19054:-1714.13,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
325 NC_000962 640954 . A G 3636.13 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=5.66023;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=837.249;PAIRED=0.991525;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4038;QR=0;RO=0;RPL=64;RPP=4.85053;RPPR=0;RPR=54;RUN=1;SAF=57;SAP=3.30474;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:451:0,451:0:0:451:15968:-1436.63,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
326 NC_000962 648002 . T G 2665.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=613.733;PAIRED=0.988636;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2959;QR=0;RO=0;RPL=35;RPP=11.0053;RPPR=0;RPR=53;RUN=1;SAF=45;SAP=3.109;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:637:0,637:0:0:637:22808:-2051.75,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
327 NC_000962 648856 . T C 3293.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=108;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=8.15749;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=758.343;PAIRED=0.990741;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3657;QR=0;RO=0;RPL=53;RPP=3.09072;RPPR=0;RPR=55;RUN=1;SAF=57;SAP=3.73412;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:431:0,431:0:0:431:14908:-1341.39,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
328 NC_000962 655986 . T G 3410.35 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=4.2737;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=785.263;PAIRED=0.990909;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3787;QR=0;RO=0;RPL=64;RPP=9.40627;RPPR=0;RPR=46;RUN=1;SAF=51;SAP=4.2737;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:540:0,540:0:0:540:18850:-1695.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
329 NC_000962 657081 . C T 2670.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=86;CIGAR=1X;DP=86;DPB=86;DPRA=0;EPP=15.2311;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=614.98;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2965;QR=0;RO=0;RPL=44;RPP=3.1113;RPPR=0;RPR=42;RUN=1;SAF=50;SAP=7.95924;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:548:0,548:0:0:548:18560:-1669.92,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
330 NC_000962 657142 . C T 1976.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=66;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=25.2514;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=455.057;PAIRED=0.984848;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2196;QR=0;RO=0;RPL=35;RPP=3.53672;RPPR=0;RPR=31;RUN=1;SAF=35;SAP=3.53672;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:549:0,549:0:0:549:19854:-1785.95,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
331 NC_000962 658644 . C A 3548.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=3.18024;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=817.158;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3941;QR=0;RO=0;RPL=61;RPP=3.93554;RPPR=0;RPR=54;RUN=1;SAF=64;SAP=6.20142;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:479:0,479:0:0:479:16388:-1474.51,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
332 NC_000962 659341 . T C 2926.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=3.8246;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=673.813;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3249;QR=0;RO=0;RPL=51;RPP=3.8246;RPPR=0;RPR=45;RUN=1;SAF=60;SAP=16.0391;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:431:0,431:0:0:431:15267:-1373.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
333 NC_000962 662911 . T C 3971.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=129;CIGAR=1X;DP=129;DPB=129;DPRA=0;EPP=4.37378;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=914.524;PAIRED=0.992248;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4411;QR=0;RO=0;RPL=75;RPP=10.4337;RPPR=0;RPR=54;RUN=1;SAF=70;SAP=5.04711;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:473:0,473:0:0:473:15945:-1434.66,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
334 NC_000962 665293 . A G 2372.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=3.03779;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=546.202;PAIRED=0.974684;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2633;QR=0;RO=0;RPL=31;RPP=10.954;RPPR=0;RPR=48;RUN=1;SAF=46;SAP=7.6556;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:561:0,561:0:0:561:19219:-1729.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
335 NC_000962 669033 . T A 4100.37 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=133;CIGAR=1X;DP=133;DPB=133;DPRA=0;EPP=14.9126;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=944.145;PAIRED=0.984962;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4554;QR=0;RO=0;RPL=66;RPP=3.02663;RPPR=0;RPR=67;RUN=1;SAF=72;SAP=4.98585;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:418:0,418:0:0:418:14628:-1316.12,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
336 NC_000962 669398 . T C 2683.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=4.52089;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=617.885;PAIRED=0.98913;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2979;QR=0;RO=0;RPL=55;RPP=10.6577;RPPR=0;RPR=37;RUN=1;SAF=33;SAP=18.9659;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:402:0,402:0:0:402:14383:-1293.98,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
337 NC_000962 670545 . G A 4420.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=142;CIGAR=1X;DP=142;DPB=142;DPRA=0;EPP=3.98899;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1017.88;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4910;QR=0;RO=0;RPL=73;RPP=3.25497;RPPR=0;RPR=69;RUN=1;SAF=78;SAP=6.00754;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:279:0,279:0:0:279:9012:-811.078,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
338 NC_000962 671385 . C G 3498.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=3.91972;EPPR=7.35324;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=805.651;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3953;QR=64;RO=2;RPL=56;RPP=3.47429;RPPR=7.35324;RPR=61;RUN=1;SAF=57;SAP=3.17734;SAR=60;SRF=0;SRP=7.35324;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:462:0,462:0:0:462:15948:-1434.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
339 NC_000962 672491 . C G 670.909 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=22;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=4.58955;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=154.483;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=742;QR=0;RO=0;RPL=8;RPP=6.56362;RPPR=0;RPR=14;RUN=1;SAF=13;SAP=4.58955;SAR=9;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:210:0,210:0:0:210:7060:-635.413,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
340 NC_000962 672512 . ACCGGTGCCGCCGGTGCCGCCGGTGCCGC ACCGGTGCCGCCGGTGCCGC 1587.53 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=60;CIGAR=1M9D19M;DP=63;DPB=48.3448;DPRA=0;EPP=5.32654;EPPR=0;GTI=0;LEN=9;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=365.541;PAIRED=0.783333;PAIREDR=0;PAO=19.5;PQA=66;PQR=66;PRO=19.5;QA=1764;QR=0;RO=0;RPL=26;RPP=5.32654;RPPR=0;RPR=34;RUN=1;SAF=60;SAP=133.299;SAR=0;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:63:0,60:0:0:60:1764:-158.753,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
341 NC_000962 672721 . TGCCGCCGCCGCCGCCGGCGCCGCCGGT TGCCGCCGCCGCCGCCGCCGGCGCCGCCGGT 2234.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=77;CIGAR=1M3I27M;DP=80;DPB=89.5714;DPRA=0;EPP=4.39215;EPPR=9.52472;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=514.58;PAIRED=0.909091;PAIREDR=1;PAO=4.5;PQA=102;PQR=23;PRO=1.5;QA=2499;QR=94;RO=3;RPL=42;RPP=4.39215;RPPR=3.73412;RPR=35;RUN=1;SAF=77;SAP=170.214;SAR=0;SRF=2;SRP=3.73412;SRR=1;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:80:3,77:3:94:77:2499:-223.479,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
342 NC_000962 673238 . A G 816.724 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=26;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=11.3621;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=188.058;PAIRED=0.961538;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=904;QR=0;RO=0;RPL=18;RPP=11.3621;RPPR=0;RPR=8;RUN=1;SAF=0;SAP=59.4686;SAR=26;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:232:0,232:0:0:232:8274:-744.518,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
343 NC_000962 673564 . C T 599.031 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=19;CIGAR=1X;DP=19;DPB=19;DPRA=0;EPP=22.325;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=137.932;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=662;QR=0;RO=0;RPL=3;RPP=22.325;RPPR=0;RPR=16;RUN=1;SAF=19;SAP=44.2683;SAR=0;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:119:0,119:0:0:119:3749:-337.592,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
344 NC_000962 677500 . T G 11997.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=382;CIGAR=1X;DP=382;DPB=382;DPRA=0;EPP=9.58156;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2762.62;PAIRED=0.866492;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13335;QR=0;RO=0;RPL=210;RPP=11.2187;RPPR=0;RPR=172;RUN=1;SAF=206;SAP=8.12633;SAR=176;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:382:0,382:0:0:382:13335:-1199.79,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
345 NC_000962 683829 . C T 3614.03 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=120;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=8.87328;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=832.16;PAIRED=0.983333;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4049;QR=32;RO=1;RPL=57;RPP=3.66174;RPPR=5.18177;RPR=63;RUN=1;SAF=62;SAP=3.29983;SAR=58;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:481:0,481:0:0:481:17003:-1529.68,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
346 NC_000962 685461 . C G 3920.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=130;CIGAR=1X;DP=131;DPB=131;DPRA=0;EPP=3.07711;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=902.672;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4356;QR=0;RO=0;RPL=71;RPP=5.41562;RPPR=0;RPR=59;RUN=1;SAF=69;SAP=4.07933;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:514:0,514:0:0:514:17845:-1605.45,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
347 NC_000962 685608 . T C 3072.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=3.7767;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=707.579;PAIRED=0.980392;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3412;QR=0;RO=0;RPL=58;RPP=7.18293;RPPR=0;RPR=44;RUN=1;SAF=40;SAP=13.3141;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:558:0,558:0:0:558:19767:-1778.31,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
348 NC_000962 686264 . G A 3242.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=3.33807;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=746.585;PAIRED=0.981132;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3603;QR=0;RO=0;RPL=61;RPP=8.25461;RPPR=0;RPR=45;RUN=1;SAF=38;SAP=21.4473;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:543:0,542:0:0:542:19181:-1725.36,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
349 NC_000962 686972 . T C 1530.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=51;CIGAR=1X;DP=51;DPB=51;DPRA=0;EPP=4.07475;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=352.518;PAIRED=0.960784;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1698;QR=0;RO=0;RPL=25;RPP=3.05288;RPPR=0;RPR=26;RUN=1;SAF=17;SAP=15.3153;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:536:0,536:0:0:536:19065:-1715.06,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
350 NC_000962 688792 . TGGGGCGGA TGGGGGCGGA 1836.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=61;CIGAR=1M1I8M;DP=61;DPB=67.7778;DPRA=0;EPP=13.2981;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=422.962;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2038;QR=0;RO=0;RPL=25;RPP=7.31765;RPPR=0;RPR=36;RUN=1;SAF=30;SAP=3.0459;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:438:0,419:0:0:419:14354:-1291.15,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
351 NC_000962 690450 . A C 4711.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=154;CIGAR=1X;DP=154;DPB=154;DPRA=0;EPP=9.83493;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1084.8;PAIRED=0.993506;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5233;QR=0;RO=0;RPL=88;RPP=9.83493;RPPR=0;RPR=66;RUN=1;SAF=60;SAP=19.3104;SAR=94;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:442:0,442:0:0:442:15143:-1362.53,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
352 NC_000962 690465 . T G 4518.72 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=149;CIGAR=1X;DP=150;DPB=150;DPRA=0;EPP=3.72441;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1040.47;PAIRED=0.993289;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5022;QR=0;RO=0;RPL=83;RPP=7.22208;RPPR=0;RPR=66;RUN=1;SAF=56;SAP=22.9616;SAR=93;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:436:0,436:0:0:436:15669:-1409.62,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
353 NC_000962 694531 . A G 3085.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=3.79203;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=710.474;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3426;QR=0;RO=0;RPL=57;RPP=7.26639;RPPR=0;RPR=43;RUN=1;SAF=46;SAP=4.40004;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:376:0,376:0:0:376:12491:-1123.97,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
354 NC_000962 696917 . G T 3960.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=7.42218;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=912.021;PAIRED=0.992063;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4399;QR=0;RO=0;RPL=59;RPP=4.11327;RPPR=0;RPR=67;RUN=1;SAF=52;SAP=11.3515;SAR=74;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:596:0,596:0:0:596:21259:-1912.43,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
355 NC_000962 698968 . G A 4889.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=158;CIGAR=1X;DP=158;DPB=158;DPRA=0;EPP=3.88988;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1125.81;PAIRED=0.981013;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5431;QR=0;RO=0;RPL=74;RPP=4.38465;RPPR=0;RPR=84;RUN=1;SAF=71;SAP=6.52863;SAR=87;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:410:0,410:0:0:410:13495:-1214.31,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
356 NC_000962 699840 . A C 3377.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=3.70827;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=777.687;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3786;QR=32;RO=1;RPL=47;RPP=9.29206;RPPR=5.18177;RPR=65;RUN=1;SAF=56;SAP=3.0103;SAR=56;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:426:0,426:0:0:426:15498:-1394.17,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
357 NC_000962 705206 . T G 5046.72 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=163;CIGAR=1X;DP=163;DPB=163;DPRA=0;EPP=11.3365;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1162.05;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5606;QR=0;RO=0;RPL=92;RPP=8.88527;RPPR=0;RPR=71;RUN=1;SAF=93;SAP=10.0576;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:394:0,394:0:0:394:13913:-1251.79,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
358 NC_000962 707334 . T C 5411.03 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=174;CIGAR=1X;DP=174;DPB=174;DPRA=0;EPP=17.4369;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1245.94;PAIRED=0.994253;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6011;QR=0;RO=0;RPL=81;RPP=4.80738;RPPR=0;RPR=93;RUN=1;SAF=75;SAP=10.1986;SAR=99;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:410:0,409:0:0:409:14263:-1282.97,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
359 NC_000962 712693 . A G 3645.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=120;CIGAR=1X;DP=120;DPB=120;DPRA=0;EPP=7.64277;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=839.328;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4048;QR=0;RO=0;RPL=61;RPP=3.08268;RPPR=0;RPR=59;RUN=1;SAF=73;SAP=15.2429;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:349:0,349:0:0:349:12063:-1085.38,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
360 NC_000962 713310 . T C 5409.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=176;CIGAR=1X;DP=176;DPB=176;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1245.55;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6009;QR=0;RO=0;RPL=93;RPP=4.24409;RPPR=0;RPR=83;RUN=1;SAF=89;SAP=3.05965;SAR=87;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:374:1,373:1:29:373:13241:-1188.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
361 NC_000962 721373 . T G 4438.65 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=146;CIGAR=1X;DP=146;DPB=146;DPRA=0;EPP=5.15203;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1022.04;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4930;QR=0;RO=0;RPL=74;RPP=3.06979;RPPR=0;RPR=72;RUN=1;SAF=57;SAP=18.2404;SAR=89;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:450:0,450:0:0:450:15864:-1427.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
362 NC_000962 725190 . G A 1538.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=49;CIGAR=1X;DP=49;DPB=49;DPRA=0;EPP=40.2799;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=354.189;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1706;QR=0;RO=0;RPL=35;RPP=22.5536;RPPR=0;RPR=14;RUN=1;SAF=18;SAP=10.4997;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:385:0,385:0:0:385:13084:-1177.28,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
363 NC_000962 731014 . TA TG 2141.37 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=68;CIGAR=1M1X;DP=71;DPB=73;DPRA=0;EPP=3.0103;EPPR=7.35324;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=493.069;PAIRED=0.970588;PAIREDR=1;PAO=4;PQA=132;PQR=0;PRO=0;QA=2318;QR=70;RO=2;RPL=31;RPP=4.1599;RPPR=7.35324;RPR=37;RUN=1;SAF=39;SAP=6.20364;SAR=29;SRF=2;SRP=7.35324;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:71:2,68:2:70:68:2318:-214.137,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
364 NC_000962 731015 . A G 15665.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=502;CIGAR=1X;DP=502;DPB=502;DPRA=0;EPP=29.3275;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3607.11;PAIRED=0.868526;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17412;QR=0;RO=0;RPL=280;RPP=17.5618;RPPR=0;RPR=222;RUN=1;SAF=216;SAP=24.2059;SAR=286;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:502:0,502:0:0:502:17412:-1566.55,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
365 NC_000962 732491 . T C 2538.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=83;DPB=83;DPRA=0;EPP=3.24576;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=584.529;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2818;QR=0;RO=0;RPL=46;RPP=5.12945;RPPR=0;RPR=37;RUN=1;SAF=40;SAP=3.24576;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:479:0,479:0:0:479:16634:-1496.56,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
366 NC_000962 738522 . T G 3327.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=3.51765;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=766.199;PAIRED=0.990654;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3695;QR=0;RO=0;RPL=53;RPP=3.03059;RPPR=0;RPR=54;RUN=1;SAF=59;SAP=5.46589;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:531:0,531:0:0:531:18739:-1685.83,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
367 NC_000962 754186 . A G 1889.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=62;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=11.9764;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=434.971;PAIRED=0.967742;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2096;QR=0;RO=0;RPL=26;RPP=6.51267;RPPR=0;RPR=36;RUN=1;SAF=33;SAP=3.57068;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:303:0,303:0:0:303:10553:-949.578,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
368 NC_000962 757139 . C A 2930.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=98;DPB=98;DPRA=0;EPP=3.09893;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=674.842;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3254;QR=0;RO=0;RPL=49;RPP=3.0103;RPPR=0;RPR=49;RUN=1;SAF=57;SAP=8.68272;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:466:0,466:0:0:466:15956:-1435.66,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
369 NC_000962 757182 . A G 2748.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=90;CIGAR=1X;DP=90;DPB=90;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=632.795;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3051;QR=0;RO=0;RPL=51;RPP=6.48466;RPPR=0;RPR=39;RUN=1;SAF=48;SAP=3.87889;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:438:0,438:0:0:438:15395:-1385.06,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
370 NC_000962 763031 . T C 3248.18 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=3.51765;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=747.921;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3609;QR=0;RO=0;RPL=49;RPP=4.65412;RPPR=0;RPR=58;RUN=1;SAF=32;SAP=40.5342;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:475:0,475:0:0:475:17017:-1530.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
371 NC_000962 767414 . G A 2144.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=1X;DP=69;DPB=69;DPRA=0;EPP=10.0912;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=493.8;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2380;QR=0;RO=0;RPL=25;RPP=14.3712;RPPR=0;RPR=44;RUN=1;SAF=45;SAP=16.8888;SAR=24;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:511:0,510:0:0:510:18140:-1631.67,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
372 NC_000962 773497 . C A 3553.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=8.97265;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=818.281;PAIRED=0.991525;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3950;QR=0;RO=0;RPL=51;RPP=7.72129;RPPR=0;RPR=67;RUN=1;SAF=65;SAP=5.66023;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:499:0,499:0:0:499:17531:-1577.11,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
373 NC_000962 773651 . TGGGGGGTGCC TGGGGGTGCC 9270.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=342;CIGAR=1M1D9M;DP=343;DPB=312.727;DPRA=0;EPP=18.8836;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2134.5;PAIRED=0.918129;PAIREDR=0;PAO=3;PQA=57.5;PQR=57.5;PRO=3;QA=10304;QR=0;RO=0;RPL=170;RPP=3.0357;RPPR=0;RPR=172;RUN=1;SAF=156;SAP=8.7247;SAR=186;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:343:0,342:0:0:342:10304:-927.002,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
374 NC_000962 775639 . T C 3588.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=19.5724;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=826.277;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3985;QR=0;RO=0;RPL=73;RPP=17.4377;RPPR=0;RPR=45;RUN=1;SAF=33;SAP=52.7701;SAR=85;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:447:0,447:0:0:447:15514:-1395.76,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
375 NC_000962 776100 . G A 2834.57 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=652.683;PAIRED=0.978261;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3147;QR=0;RO=0;RPL=54;RPP=9.05266;RPPR=0;RPR=38;RUN=1;SAF=34;SAP=16.6056;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:462:0,462:0:0:462:16117:-1450.03,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
376 NC_000962 776182 . C T 2206.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=73;CIGAR=1X;DP=73;DPB=73;DPRA=0;EPP=5.41974;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=508.085;PAIRED=0.958904;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2449;QR=0;RO=0;RPL=40;RPP=4.46786;RPPR=0;RPR=33;RUN=1;SAF=35;SAP=3.27802;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:668:1,667:1:29:667:23336:-2096.58,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
377 NC_000962 779615 . G C 3890.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=3.84811;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=895.876;PAIRED=0.992126;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4321;QR=0;RO=0;RPL=73;RPP=9.18275;RPPR=0;RPR=54;RUN=1;SAF=65;SAP=3.16418;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,480:0:0:480:16557:-1489.67,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
378 NC_000962 780630 . C A 3067.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=98;DPB=98;DPRA=0;EPP=5.22609;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=706.328;PAIRED=0.989796;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3406;QR=0;RO=0;RPL=46;RPP=3.80798;RPPR=0;RPR=52;RUN=1;SAF=48;SAP=3.09893;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:98:0,98:0:0:98:3406:-306.754,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
379 NC_000962 781301 . C T 3481.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=4.56684;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=801.623;PAIRED=0.99115;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3906;QR=36;RO=1;RPL=46;RPP=11.4848;RPPR=5.18177;RPR=67;RUN=1;SAF=47;SAP=9.94748;SAR=66;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:484:0,484:0:0:484:16727:-1504.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
380 NC_000962 781395 . T C 2911.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=3.56996;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=670.294;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3232;QR=0;RO=0;RPL=58;RPP=11.0918;RPPR=0;RPR=39;RUN=1;SAF=41;SAP=8.04722;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:384:0,384:0:0:384:13182:-1186.06,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
381 NC_000962 786965 . C T 3500.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=7.97367;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=805.965;PAIRED=0.991071;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3887;QR=0;RO=0;RPL=54;RPP=3.32051;RPPR=0;RPR=58;RUN=1;SAF=58;SAP=3.32051;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:493:0,493:0:0:493:16922:-1522.47,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
382 NC_000962 791249 . C T 3175.57 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=3.35092;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=731.203;PAIRED=0.970588;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3526;QR=0;RO=0;RPL=46;RPP=5.13919;RPPR=0;RPR=56;RUN=1;SAF=37;SAP=19.7008;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:544:0,544:0:0:544:18097:-1628.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
383 NC_000962 797736 . C T 2985.68 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=3.55865;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=687.479;PAIRED=0.979798;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3315;QR=0;RO=0;RPL=59;RPP=10.9285;RPPR=0;RPR=40;RUN=1;SAF=45;SAP=4.78696;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:586:0,586:0:0:586:20556:-1849.2,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
384 NC_000962 798355 . G C 2395.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=10.954;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=551.595;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2659;QR=0;RO=0;RPL=29;RPP=15.1321;RPPR=0;RPR=50;RUN=1;SAF=30;SAP=12.9331;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:642:0,642:0:0:642:22552:-2028.76,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
385 NC_000962 799666 . A G 3215.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=8.8753;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=740.309;PAIRED=0.990654;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3570;QR=0;RO=0;RPL=48;RPP=5.46589;RPPR=0;RPR=59;RUN=1;SAF=65;SAP=13.7459;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:470:0,470:0:0:470:16239:-1461.06,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
386 NC_000962 811753 . C T 2477.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=82;CIGAR=1X;DP=82;DPB=82;DPRA=0;EPP=3.11623;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=570.445;PAIRED=0.987805;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2750;QR=0;RO=0;RPL=49;RPP=9.78953;RPPR=0;RPR=33;RUN=1;SAF=41;SAP=3.0103;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:586:0,586:0:0:586:21255:-1912,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
387 NC_000962 820483 . G T 3853.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=9.90386;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=887.377;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4280;QR=0;RO=0;RPL=48;RPP=18.5208;RPPR=0;RPR=78;RUN=1;SAF=85;SAP=36.3751;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:422:0,422:0:0:422:14630:-1316.26,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
388 NC_000962 820752 . C T 4948.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=160;CIGAR=1X;DP=161;DPB=161;DPRA=0;EPP=3.49888;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1139.49;PAIRED=0.99375;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5500;QR=0;RO=0;RPL=84;RPP=3.87889;RPPR=0;RPR=76;RUN=1;SAF=85;SAP=4.36747;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:426:0,425:0:0:425:14802:-1331.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
389 NC_000962 830868 . GGCGCGCGCGT GGCGCGCGCGCGT 2461.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=86;CIGAR=1M2I10M;DP=92;DPB=108;DPRA=0;EPP=13.1102;EPPR=5.18177;GTI=0;LEN=2;MEANALT=4;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=566.822;PAIRED=0.988372;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2771;QR=35;RO=1;RPL=44;RPP=3.1113;RPPR=5.18177;RPR=42;RUN=1;SAF=27;SAP=28.866;SAR=59;SRF=0;SRP=5.18177;SRR=1;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:356:1,342:1:26:342:11578:-1039.16,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
390 NC_000962 835611 . C T 4471.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=147;CIGAR=1X;DP=147;DPB=147;DPRA=0;EPP=4.7977;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1029.49;PAIRED=0.952381;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4966;QR=0;RO=0;RPL=76;RPP=3.3796;RPPR=0;RPR=71;RUN=1;SAF=84;SAP=9.52472;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:487:0,487:0:0:487:17786:-1599.95,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
391 NC_000962 835905 . G A 3059.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=4.08507;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=704.467;PAIRED=0.79798;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3397;QR=0;RO=0;RPL=55;RPP=5.66432;RPPR=0;RPR=44;RUN=1;SAF=46;SAP=4.08507;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:396:0,396:0:0:396:13719:-1234.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
392 NC_000962 837033 . A G 1552.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=50;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=4.57376;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=357.497;PAIRED=0.64;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1722;QR=0;RO=0;RPL=24;RPP=3.18402;RPPR=0;RPR=26;RUN=1;SAF=6;SAP=65.7224;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:299:0,299:0:0:299:10165:-914.686,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
393 NC_000962 838990 . C G 5059.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=166;CIGAR=1X;DP=166;DPB=166;DPRA=0;EPP=41.155;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1165.07;PAIRED=0.885542;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5621;QR=0;RO=0;RPL=62;RPP=26.0855;RPPR=0;RPR=104;RUN=1;SAF=50;SAP=59.9918;SAR=116;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:166:0,166:0:0:166:5621:-505.982,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
394 NC_000962 839123 . A G 3390 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=28.5942;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=780.577;PAIRED=0.872727;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3765;QR=0;RO=0;RPL=44;RPP=12.5648;RPPR=0;RPR=66;RUN=1;SAF=45;SAP=10.9066;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:110:0,110:0:0:110:3765:-339,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
395 NC_000962 839129 . C G 3859.68 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=129;CIGAR=1X;DP=129;DPB=129;DPRA=0;EPP=15.2816;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=888.724;PAIRED=0.860465;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4287;QR=0;RO=0;RPL=56;RPP=7.87507;RPPR=0;RPR=73;RUN=1;SAF=62;SAP=3.43113;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:129:0,129:0:0:129:4287:-385.968,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
396 NC_000962 839194 . A G 4232.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=140;CIGAR=1X;DP=141;DPB=141;DPRA=0;EPP=70.5741;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=974.637;PAIRED=0.792857;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4734;QR=29;RO=1;RPL=63;RPP=6.05036;RPPR=5.18177;RPR=77;RUN=1;SAF=52;SAP=23.1119;SAR=88;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:141:1,140:1:29:140:4734:-423.28,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
397 NC_000962 839334 . A G 8246.35 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=269;CIGAR=1X;DP=269;DPB=269;DPRA=0;EPP=20.8422;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1898.79;PAIRED=0.903346;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=9163;QR=0;RO=0;RPL=126;RPP=5.34322;RPPR=0;RPR=143;RUN=1;SAF=168;SAP=39.2473;SAR=101;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:269:0,269:0:0:269:9163:-824.635,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
398 NC_000962 839348 . A G 7722.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=262;CIGAR=1X;DP=262;DPB=262;DPRA=0;EPP=9.50814;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1778.13;PAIRED=0.89313;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8581;QR=0;RO=0;RPL=110;RPP=17.6304;RPPR=0;RPR=152;RUN=1;SAF=169;SAP=50.8821;SAR=93;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:262:0,262:0:0:262:8581:-772.232,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
399 NC_000962 839977 . C T 626.895 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=20;CIGAR=1X;DP=20;DPB=20;DPRA=0;EPP=46.4397;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=144.348;PAIRED=0.95;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=693;QR=0;RO=0;RPL=20;RPP=46.4397;RPPR=0;RPR=0;RUN=1;SAF=0;SAP=46.4397;SAR=20;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:20:0,20:0:0:20:693:-62.6895,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
400 NC_000962 840016 . GGC AAG 339.648 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=10;CIGAR=3X;DP=10;DPB=10.6667;DPRA=0;EPP=24.725;EPPR=0;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=78.2068;PAIRED=1;PAIREDR=0;PAO=2;PQA=56;PQR=0;PRO=0;QA=318;QR=0;RO=0;RPL=0;RPP=24.725;RPPR=0;RPR=10;RUN=1;SAF=0;SAP=24.725;SAR=10;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:10:0,10:0:0:10:318:-33.9648,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
401 NC_000962 840496 . C G 3439 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=9.82684;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=791.859;PAIRED=0.86087;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3819;QR=0;RO=0;RPL=61;RPP=3.93554;RPPR=0;RPR=54;RUN=1;SAF=28;SAP=68.7398;SAR=87;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:115:0,115:0:0:115:3819:-343.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
402 NC_000962 840794 . AG GC 687.863 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=24;CIGAR=2X;DP=24;DPB=24;DPRA=0;EPP=6.26751;EPPR=0;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=158.386;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=761;QR=0;RO=0;RPL=15;RPP=6.26751;RPPR=0;RPR=9;RUN=1;SAF=22;SAP=39.2015;SAR=2;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:166:0,166:0:0:166:5283:-478.604,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
403 NC_000962 841764 . G C 3306.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=23.2247;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=761.432;PAIRED=0.981818;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3672;QR=0;RO=0;RPL=50;RPP=4.98437;RPPR=0;RPR=60;RUN=1;SAF=53;SAP=3.32615;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:514:1,513:1:27:513:18147:-1629.83,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
404 NC_000962 842030 . C T 2243.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=72;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=4.9405;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=516.584;PAIRED=0.986111;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2490;QR=0;RO=0;RPL=32;RPP=4.9405;RPPR=0;RPR=40;RUN=1;SAF=28;SAP=10.7311;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:264:0,264:0:0:264:9396:-845.424,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
405 NC_000962 842051 . G A 2318.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=73;CIGAR=1X;DP=73;DPB=73;DPRA=0;EPP=8.03741;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=533.91;PAIRED=0.945205;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2574;QR=0;RO=0;RPL=73;RPP=161.528;RPPR=0;RPR=0;RUN=1;SAF=30;SAP=8.03741;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:73:0,73:0:0:73:2574:-231.874,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
406 NC_000962 842056 . CGT TTA 1710.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=48;CIGAR=3X;DP=48;DPB=50;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=393.902;PAIRED=1;PAIREDR=0;PAO=6;PQA=163;PQR=0;PRO=0;QA=1735;QR=0;RO=0;RPL=48;RPP=107.241;RPPR=0;RPR=0;RUN=1;SAF=24;SAP=3.0103;SAR=24;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:48:0,48:0:0:48:1735:-171.069,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
407 NC_000962 842063 . CAC GAG 1489.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=47;CIGAR=1X1M1X;DP=48;DPB=48;DPRA=0;EPP=3.0565;EPPR=0;GTI=0;LEN=3;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=343.028;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1655;QR=0;RO=0;RPL=47;RPP=105.07;RPPR=0;RPR=0;RUN=1;SAF=23;SAP=3.0565;SAR=24;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:48:0,47:0:0:47:1655:-148.975,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
408 NC_000962 847995 . T C 2019.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=68;CIGAR=1X;DP=68;DPB=68;DPRA=0;EPP=6.20364;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=464.999;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2241;QR=0;RO=0;RPL=34;RPP=3.0103;RPPR=0;RPR=34;RUN=1;SAF=33;SAP=3.13803;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:495:0,495:0:0:495:17540:-1578.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
409 NC_000962 852910 . C T 4556.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=148;CIGAR=1X;DP=148;DPB=148;DPRA=0;EPP=6.76636;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1049.16;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5061;QR=0;RO=0;RPL=69;RPP=4.47751;RPPR=0;RPR=79;RUN=1;SAF=63;SAP=10.1116;SAR=85;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:450:1,449:1:22:449:16067:-1443.17,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
410 NC_000962 854252 . GCCCCCCCCCAGG GCCCCCCCAGG 14536.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=500;CIGAR=1M2D10M;DP=504;DPB=427.308;DPRA=0;EPP=12.2;EPPR=0;GTI=0;LEN=2;MEANALT=5;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3347.18;PAIRED=0.91;PAIREDR=0;PAO=4.5;PQA=94;PQR=94;PRO=4.5;QA=16158;QR=0;RO=0;RPL=283;RPP=21.9282;RPPR=0;RPR=217;RUN=1;SAF=234;SAP=7.45748;SAR=266;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:504:0,500:0:0:500:16158:-1453.66,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
411 NC_000962 854252 . GCCCCCCCCCAGG GCCCCCCCCAGG 819.136 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=29;CIGAR=1M1D11M;DP=32;DPB=29.7692;DPRA=0;EPP=12.0706;EPPR=3.73412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=188.613;PAIRED=1;PAIREDR=0.666667;PAO=0;PQA=0;PQR=0;PRO=0;QA=999;QR=89;RO=3;RPL=12;RPP=4.88226;RPPR=3.73412;RPR=17;RUN=1;SAF=18;SAP=6.67934;SAR=11;SRF=1;SRP=3.73412;SRR=2;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:32:3,29:3:89:29:999:-81.9136,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
412 NC_000962 857696 . A G 3263.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=3.1896;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=751.397;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3626;QR=0;RO=0;RPL=58;RPP=3.98647;RPPR=0;RPR=51;RUN=1;SAF=59;SAP=4.62396;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:543:0,543:0:0:543:19034:-1712.41,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
413 NC_000962 861216 . T G 3470.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=6.2579;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=799.136;PAIRED=0.99115;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3854;QR=0;RO=0;RPL=49;RPP=7.33403;RPPR=0;RPR=64;RUN=1;SAF=50;SAP=6.2579;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:478:0,478:0:0:478:16098:-1448.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
414 NC_000962 866051 . G A 2802.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=12.4515;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=645.222;PAIRED=0.98913;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3111;QR=0;RO=0;RPL=40;RPP=6.40913;RPPR=0;RPR=52;RUN=1;SAF=40;SAP=6.40913;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:525:0,525:0:0:525:18598:-1673.17,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
415 NC_000962 874835 . CCA CCGCA 1769.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1M2I2M;DP=66;DPB=109.333;DPRA=0;EPP=18.2106;EPPR=5.18177;GTI=0;LEN=2;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=407.404;PAIRED=0.984127;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=1987;QR=21;RO=1;RPL=28;RPP=4.69922;RPPR=5.18177;RPR=35;RUN=1;SAF=38;SAP=8.83536;SAR=25;SRF=1;SRP=5.18177;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:552:0,542:0:0:542:18574:-1670.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
416 NC_000962 876141 . G T 2038.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=66;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=7.74806;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=469.362;PAIRED=0.969697;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2262;QR=0;RO=0;RPL=35;RPP=3.53672;RPPR=0;RPR=31;RUN=1;SAF=38;SAP=6.30041;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:561:0,561:0:0:561:19967:-1796.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
417 NC_000962 880562 . G T 3099.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=3.0318;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=713.58;PAIRED=0.970297;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3441;QR=0;RO=0;RPL=56;RPP=5.61177;RPPR=0;RPR=45;RUN=1;SAF=48;SAP=3.54779;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:465:0,465:0:0:465:16545:-1488.43,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
418 NC_000962 882257 . T C 4868.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=159;CIGAR=1X;DP=159;DPB=159;DPRA=0;EPP=5.31834;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1121.05;PAIRED=0.987421;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5408;QR=0;RO=0;RPL=87;RPP=6.08314;RPPR=0;RPR=72;RUN=1;SAF=70;SAP=7.9405;SAR=89;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:469:0,469:0:0:469:16365:-1472.41,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
419 NC_000962 888992 . AACCTCAACACCCCCTCAAGTGAAGGAGGT AT 685.999 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=30;CIGAR=1M28D1M;DP=31;DPB=3.26667;DPRA=0;EPP=3.29983;EPPR=0;GTI=0;LEN=28;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=157.957;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=119;PRO=8;QA=880;QR=0;RO=0;RPL=27;RPP=44.7026;RPPR=0;RPR=3;RUN=1;SAF=15;SAP=3.0103;SAR=15;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:47:0,44:0:0:44:1195:-112.807,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
420 NC_000962 892416 . C T 1894.47 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=61;CIGAR=1X;DP=61;DPB=61;DPRA=0;EPP=5.89373;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=436.218;PAIRED=0.983607;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2102;QR=0;RO=0;RPL=38;RPP=11.0198;RPPR=0;RPR=23;RUN=1;SAF=29;SAP=3.33068;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:623:0,623:0:0:623:21129:-1901.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
421 NC_000962 893733 . T G 4038.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=135;CIGAR=1X;DP=135;DPB=135;DPRA=0;EPP=7.65886;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=929.875;PAIRED=0.985185;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4485;QR=0;RO=0;RPL=55;RPP=13.0634;RPPR=0;RPR=80;RUN=1;SAF=73;SAP=4.95658;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:327:0,327:0:0:327:10837:-975.177,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
422 NC_000962 900221 . T C 3138.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=7.18293;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=722.699;PAIRED=0.990196;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3485;QR=0;RO=0;RPL=57;RPP=6.07591;RPPR=0;RPR=45;RUN=1;SAF=45;SAP=6.07591;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:502:0,502:0:0:502:16540:-1488.23,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
423 NC_000962 903537 . G T 3521.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=6.74371;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=810.943;PAIRED=0.982456;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3911;QR=0;RO=0;RPL=53;RPP=4.22937;RPPR=0;RPR=61;RUN=1;SAF=51;SAP=5.75321;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:504:0,504:0:0:504:17464:-1571.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
424 NC_000962 903550 . T C 3383.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=5.85295;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=779.049;PAIRED=0.990909;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3757;QR=0;RO=0;RPL=57;RPP=3.32615;RPPR=0;RPR=53;RUN=1;SAF=54;SAP=3.08926;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:449:0,449:0:0:449:15372:-1383.13,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
425 NC_000962 903913 . T C 3881.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=5.8999;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=893.804;PAIRED=0.984252;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4311;QR=0;RO=0;RPL=64;RPP=3.0274;RPPR=0;RPR=63;RUN=1;SAF=69;SAP=5.07918;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:409:0,409:0:0:409:14257:-1282.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
426 NC_000962 906857 . A G 4267.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=139;CIGAR=1X;DP=139;DPB=139;DPRA=0;EPP=6.52527;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=982.682;PAIRED=0.985612;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4740;QR=0;RO=0;RPL=74;RPP=4.27569;RPPR=0;RPR=65;RUN=1;SAF=60;SAP=8.64988;SAR=79;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:427:0,427:0:0:427:14824:-1333.72,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
427 NC_000962 908186 . T C 3196.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=105;CIGAR=1X;DP=105;DPB=105;DPRA=0;EPP=3.19643;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=735.955;PAIRED=0.990476;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3549;QR=0;RO=0;RPL=62;RPP=10.476;RPPR=0;RPR=43;RUN=1;SAF=47;SAP=5.51266;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:394:0,394:0:0:394:13740:-1236.17,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
428 NC_000962 916685 . CGGAGC CGA 3953.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1M3D1M1X;DP=140;DPB=71.5;DPRA=0;EPP=3.0103;EPPR=7.35324;GTI=0;LEN=3;MEANALT=3;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=910.398;PAIRED=1;PAIREDR=1;PAO=1;PQA=32;PQR=0;PRO=0;QA=4422;QR=60;RO=2;RPL=74;RPP=5.30951;RPPR=7.35324;RPR=62;RUN=1;SAF=70;SAP=3.26577;SAR=66;SRF=2;SRP=7.35324;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:420:0,409:0:0:409:13962:-1297.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
429 NC_000962 919351 . A C 3660.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=120;CIGAR=1X;DP=120;DPB=120;DPRA=0;EPP=3.08268;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=842.842;PAIRED=0.991667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4065;QR=0;RO=0;RPL=50;RPP=10.2485;RPPR=0;RPR=70;RUN=1;SAF=63;SAP=3.66174;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:557:1,556:1:39:556:19849:-1781.72,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
430 NC_000962 921813 . C G 2048.27 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=67;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=3.30199;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=471.632;PAIRED=0.985075;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2273;QR=0;RO=0;RPL=17;RPP=38.3048;RPPR=0;RPR=50;RUN=1;SAF=35;SAP=3.30199;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:238:0,238:0:0:238:7963:-716.675,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
431 NC_000962 925453 . C T 676.137 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=25;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=3.79203;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=155.686;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=788;QR=36;RO=1;RPL=15;RPP=5.18177;RPPR=5.18177;RPR=10;RUN=1;SAF=7;SAP=13.5202;SAR=18;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:295:0,295:0:0:295:10008:-900.594,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
432 NC_000962 927110 . A G 6199.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=201;CIGAR=1X;DP=201;DPB=201;DPRA=0;EPP=17.8001;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1427.46;PAIRED=0.761194;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6888;QR=0;RO=0;RPL=82;RPP=17.8001;RPPR=0;RPR=119;RUN=1;SAF=85;SAP=13.3923;SAR=116;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:201:0,201:0:0:201:6888:-619.938,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
433 NC_000962 927385 . A G 345.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=11;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=26.8965;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=79.5128;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=380;QR=0;RO=0;RPL=0;RPP=26.8965;RPPR=0;RPR=11;RUN=1;SAF=11;SAP=26.8965;SAR=0;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:177:0,177:0:0:177:5979:-538.197,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
434 NC_000962 931123 . T C 2868.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=4.13032;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=660.556;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3185;QR=0;RO=0;RPL=44;RPP=4.13032;RPPR=0;RPR=51;RUN=1;SAF=38;SAP=11.2619;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:536:0,536:0:0:536:19168:-1724.33,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
435 NC_000962 932280 . T C 3716.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=121;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=7.04816;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=855.686;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4127;QR=0;RO=0;RPL=63;RPP=3.45895;RPPR=0;RPR=58;RUN=1;SAF=67;SAP=6.04318;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:411:1,410:1:41:410:13474:-1208.36,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
436 NC_000962 934230 . C G 4149.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1X;DP=137;DPB=137;DPRA=0;EPP=3.07417;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=955.533;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4649;QR=36;RO=1;RPL=77;RPP=8.18351;RPPR=5.18177;RPR=59;RUN=1;SAF=94;SAP=46.1843;SAR=42;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:527:0,527:0:0:527:18375:-1653.14,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
437 NC_000962 934611 . G T 4065.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=132;CIGAR=1X;DP=133;DPB=133;DPRA=0;EPP=3.60252;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=936.171;PAIRED=0.984848;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4518;QR=0;RO=0;RPL=58;RPP=7.22164;RPPR=0;RPR=74;RUN=1;SAF=49;SAP=22.0271;SAR=83;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:473:0,473:0:0:473:16280:-1464.68,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
438 NC_000962 940602 . C G 4214.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=140;CIGAR=1X;DP=140;DPB=140;DPRA=0;EPP=4.56135;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=970.455;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4681;QR=0;RO=0;RPL=66;RPP=4.00297;RPPR=0;RPR=74;RUN=1;SAF=59;SAP=10.5174;SAR=81;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:467:0,467:0:0:467:16167:-1454.56,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
439 NC_000962 940748 . T G 4119.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=139;CIGAR=1X;DP=142;DPB=142;DPRA=0;EPP=7.52509;EPPR=3.73412;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=948.527;PAIRED=0.971223;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4683;QR=104;RO=3;RPL=70;RPP=3.02592;RPPR=9.52472;RPR=69;RUN=1;SAF=58;SAP=11.2744;SAR=81;SRF=2;SRP=3.73412;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:411:0,411:0:0:411:14439:-1299.13,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
440 NC_000962 941845 . C A 2642.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=7.22845;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=608.412;PAIRED=0.988506;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2936;QR=0;RO=0;RPL=46;RPP=3.63429;RPPR=0;RPR=41;RUN=1;SAF=50;SAP=7.22845;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:479:0,479:0:0:479:16187:-1456.43,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
441 NC_000962 945214 . G A 2768.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=90;CIGAR=1X;DP=90;DPB=90;DPRA=0;EPP=14.688;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=637.558;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3074;QR=0;RO=0;RPL=34;RPP=14.688;RPPR=0;RPR=56;RUN=1;SAF=62;SAP=30.9017;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:502:0,502:0:0:502:18043:-1623.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
442 NC_000962 949535 . T C 4789.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=155;CIGAR=1X;DP=155;DPB=155;DPRA=0;EPP=9.18849;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1102.82;PAIRED=0.987097;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5320;QR=0;RO=0;RPL=69;RPP=7.05905;RPPR=0;RPR=86;RUN=1;SAF=67;SAP=9.18849;SAR=88;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:421:0,421:0:0:421:14829:-1334.2,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
443 NC_000962 951702 . C T 3453.71 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=3.0103;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=795.245;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3865;QR=27;RO=1;RPL=59;RPP=3.70827;RPPR=5.18177;RPR=53;RUN=1;SAF=75;SAP=31.0068;SAR=37;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:593:1,592:1:33:592:19988:-1795.04,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
444 NC_000962 954101 . C T 4247.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=137;CIGAR=1X;DP=137;DPB=137;DPRA=0;EPP=3.40655;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=978.113;PAIRED=0.978102;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4718;QR=0;RO=0;RPL=72;RPP=3.78696;RPPR=0;RPR=65;RUN=1;SAF=77;SAP=7.591;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:455:0,455:0:0:455:14955:-1345.73,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
445 NC_000962 954468 . C G 4141.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=133;CIGAR=1X;DP=134;DPB=134;DPRA=0;EPP=3.15724;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=953.682;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4603;QR=0;RO=0;RPL=60;RPP=5.76954;RPPR=0;RPR=73;RUN=1;SAF=72;SAP=4.98585;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:320:0,320:0:0:320:10784:-970.454,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
446 NC_000962 955524 . A G 3961.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=130;CIGAR=1X;DP=131;DPB=131;DPRA=0;EPP=5.41562;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=912.132;PAIRED=0.992308;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4403;QR=0;RO=0;RPL=56;RPP=8.42228;RPPR=0;RPR=74;RUN=1;SAF=67;SAP=3.27756;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:472:0,472:0:0:472:16538:-1487.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
447 NC_000962 957117 . T C 3583.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=19.5724;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=825.026;PAIRED=0.983051;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3979;QR=0;RO=0;RPL=73;RPP=17.4377;RPPR=0;RPR=45;RUN=1;SAF=55;SAP=4.18805;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:441:0,441:0:0:441:14871:-1338.05,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
448 NC_000962 960367 . A G 4585.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=150;CIGAR=1X;DP=150;DPB=150;DPRA=0;EPP=5.09491;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1055.8;PAIRED=0.986667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5093;QR=0;RO=0;RPL=72;RPP=3.53145;RPPR=0;RPR=78;RUN=1;SAF=87;SAP=11.3488;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:419:0,419:0:0:419:14931:-1343.29,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
449 NC_000962 969762 . C G 1514.99 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=49;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=57.2971;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=348.84;PAIRED=0.918367;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1683;QR=0;RO=0;RPL=7;RPP=57.2971;RPPR=0;RPR=42;RUN=1;SAF=49;SAP=109.412;SAR=0;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:228:0,228:0:0:228:7706:-693.567,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
450 NC_000962 972980 . C T 4964.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=162;CIGAR=1X;DP=162;DPB=162;DPRA=0;EPP=5.63751;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1143.21;PAIRED=0.975309;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5515;QR=0;RO=0;RPL=91;RPP=8.37196;RPPR=0;RPR=71;RUN=1;SAF=77;SAP=3.86817;SAR=85;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:395:0,395:0:0:395:14300:-1286.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
451 NC_000962 979704 . G C 3119.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=7.18293;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=718.233;PAIRED=0.990196;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3499;QR=32;RO=1;RPL=49;RPP=3.35092;RPPR=5.18177;RPR=53;RUN=1;SAF=39;SAP=15.2727;SAR=63;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:360:0,360:0:0:360:12406:-1116.24,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
452 NC_000962 986463 . G C 2140.93 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=71;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=5.48761;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=492.967;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2379;QR=0;RO=0;RPL=42;RPP=8.17902;RPPR=0;RPR=29;RUN=1;SAF=32;SAP=4.50892;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:630:0,629:0:0:629:22368:-2011.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
453 NC_000962 987585 . AGGGGGGCA AGGGGGGGCA 1418.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=50;CIGAR=1M1I8M;DP=54;DPB=59.8889;DPRA=0;EPP=5.78978;EPPR=3.0103;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=326.59;PAIRED=1;PAIREDR=1;PAO=0.5;PQA=11.5;PQR=11.5;PRO=0.5;QA=1643;QR=67;RO=2;RPL=21;RPP=5.78978;RPPR=7.35324;RPR=29;RUN=1;SAF=30;SAP=7.35324;SAR=20;SRF=1;SRP=3.0103;SRR=1;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:356:3,336:3:106:336:11146:-993.154,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
454 NC_000962 990001 . G C 4029.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=131;CIGAR=1X;DP=132;DPB=132;DPRA=0;EPP=3.15949;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=927.905;PAIRED=0.984733;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4499;QR=21;RO=1;RPL=76;RPP=10.3204;RPPR=5.18177;RPR=55;RUN=1;SAF=55;SAP=10.3204;SAR=76;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:498:0,498:0:0:498:16619:-1495.35,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
455 NC_000962 991896 . T C 2948.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=98;DPB=98;DPRA=0;EPP=17.989;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=678.992;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3274;QR=0;RO=0;RPL=47;RPP=3.36483;RPPR=0;RPR=51;RUN=1;SAF=63;SAP=20.3821;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:535:0,535:0:0:535:19232:-1730.08,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
456 NC_000962 993346 . A C 1725.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=57;CIGAR=1X;DP=57;DPB=57;DPRA=0;EPP=11.5819;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=397.265;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1914;QR=0;RO=0;RPL=34;RPP=7.61992;RPPR=0;RPR=23;RUN=1;SAF=22;SAP=9.44853;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:655:0,655:0:0:655:23029:-2071.67,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
457 NC_000962 996205 . T C 1850.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=62;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=3.57068;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=426.045;PAIRED=0.967742;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2053;QR=0;RO=0;RPL=32;RPP=3.15039;RPPR=0;RPR=30;RUN=1;SAF=27;SAP=5.25182;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:675:0,675:0:0:675:23638:-2126.48,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
458 NC_000962 996346 . G A 1396.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=45;CIGAR=1X;DP=45;DPB=45;DPRA=0;EPP=8.84915;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=321.457;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1548;QR=0;RO=0;RPL=26;RPP=5.37479;RPPR=0;RPR=19;RUN=1;SAF=18;SAP=6.91895;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:690:0,690:0:0:690:24437:-2198.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
459 NC_000962 1010204 . CGGTT CGGGTT 2361.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1M1I4M;DP=82;DPB=98.4;DPRA=0;EPP=5.18177;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=543.759;PAIRED=0.975309;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2624;QR=0;RO=0;RPL=45;RPP=5.18177;RPPR=0;RPR=36;RUN=1;SAF=43;SAP=3.68051;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:424:0,398:0:0:398:13616:-1224.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
460 NC_000962 1011511 . A C 2521.52 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=83;DPB=83;DPRA=0;EPP=3.03646;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=580.602;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2799;QR=0;RO=0;RPL=42;RPP=3.03646;RPPR=0;RPR=41;RUN=1;SAF=45;SAP=4.29225;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:392:0,392:0:0:392:13544:-1218.65,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
461 NC_000962 1022003 . A C 2164.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=73;CIGAR=1X;DP=73;DPB=73;DPRA=0;EPP=13.7487;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=498.352;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2402;QR=0;RO=0;RPL=41;RPP=5.41974;RPPR=0;RPR=32;RUN=1;SAF=39;SAP=3.75395;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:619:0,619:0:0:619:22216:-1998.45,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
462 NC_000962 1024346 . A G 3609.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=831.039;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4008;QR=0;RO=0;RPL=56;RPP=3.67278;RPPR=0;RPR=62;RUN=1;SAF=63;SAP=4.18805;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:431:0,431:0:0:431:14995:-1349.02,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
463 NC_000962 1025106 . T C 2885.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=5.27225;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=664.31;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3206;QR=0;RO=0;RPL=62;RPP=20.744;RPPR=0;RPR=34;RUN=1;SAF=41;SAP=7.44372;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:525:0,525:0:0:525:18465:-1661.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
464 NC_000962 1028217 . G A 2989.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=14.8527;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=688.31;PAIRED=0.979381;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3319;QR=0;RO=0;RPL=45;RPP=4.10723;RPPR=0;RPR=52;RUN=1;SAF=49;SAP=3.03269;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:440:0,440:0:0:440:15098:-1358.46,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
465 NC_000962 1034208 . CGCTG CG 3607.03 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1M3D1M;DP=129;DPB=55.8;DPRA=0;EPP=3.45166;EPPR=0;GTI=0;LEN=3;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=830.55;PAIRED=0.99187;PAIREDR=0;PAO=1.5;PQA=48;PQR=48;PRO=1.5;QA=4009;QR=0;RO=0;RPL=51;RPP=10.7958;RPPR=0;RPR=72;RUN=1;SAF=65;SAP=3.87536;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:297:0,270:0:0:270:8450:-760.204,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
466 NC_000962 1034758 . C T 2954.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=680.233;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3280;QR=0;RO=0;RPL=48;RPP=3.1027;RPPR=0;RPR=46;RUN=1;SAF=35;SAP=16.3163;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:438:0,438:0:0:438:15195:-1367.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
467 NC_000962 1037012 . T C 2018.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=68;CIGAR=1X;DP=69;DPB=69;DPRA=0;EPP=3.52123;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=464.694;PAIRED=0.985294;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2242;QR=0;RO=0;RPL=33;RPP=3.13803;RPPR=0;RPR=35;RUN=1;SAF=39;SAP=6.20364;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:443:0,443:0:0:443:15298:-1376.37,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
468 NC_000962 1037911 . C T 3238.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=3.19295;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=745.745;PAIRED=0.981308;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3599;QR=0;RO=0;RPL=46;RPP=7.57648;RPPR=0;RPR=61;RUN=1;SAF=59;SAP=5.46589;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:434:0,434:0:0:434:14425:-1298,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
469 NC_000962 1040251 . C A 1970.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=65;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=3.04371;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=453.819;PAIRED=0.984615;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2187;QR=0;RO=0;RPL=38;RPP=7.05258;RPPR=0;RPR=27;RUN=1;SAF=38;SAP=7.05258;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:409:0,409:0:0:409:13719:-1234.47,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
470 NC_000962 1047165 . T C 3787.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=5.53201;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=872.06;PAIRED=0.991935;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4206;QR=0;RO=0;RPL=59;RPP=3.64073;RPPR=0;RPR=65;RUN=1;SAF=63;SAP=3.08035;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:557:1,556:1:26:556:19299:-1733.75,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
471 NC_000962 1054784 . C G 3665.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=121;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=3.45895;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=844.09;PAIRED=0.983471;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4071;QR=0;RO=0;RPL=69;RPP=8.19671;RPPR=0;RPR=52;RUN=1;SAF=74;SAP=16.093;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:501:0,500:0:0:500:17358:-1561.35,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
472 NC_000962 1068151 . T C 2661.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=17.2236;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=612.913;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2955;QR=0;RO=0;RPL=41;RPP=3.89863;RPPR=0;RPR=47;RUN=1;SAF=49;SAP=5.47788;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:447:0,447:0:0:447:15223:-1369.72,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
473 NC_000962 1068432 . A G 3019.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=6.13722;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=695.362;PAIRED=0.98;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3353;QR=0;RO=0;RPL=48;RPP=3.35774;RPPR=0;RPR=52;RUN=1;SAF=50;SAP=3.0103;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:504:0,504:0:0:504:17881:-1608.61,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
474 NC_000962 1070702 . T C 4260.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=142;CIGAR=1X;DP=142;DPB=142;DPRA=0;EPP=13.3477;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=981.025;PAIRED=0.992958;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4732;QR=0;RO=0;RPL=67;RPP=3.98899;RPPR=0;RPR=75;RUN=1;SAF=85;SAP=14.9993;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:460:0,460:0:0:460:15862:-1427.12,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
475 NC_000962 1071966 . A G 4432.37 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=151;CIGAR=1X;DP=151;DPB=151;DPRA=0;EPP=3.13973;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1020.59;PAIRED=0.993377;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4923;QR=0;RO=0;RPL=71;RPP=4.17513;RPPR=0;RPR=80;RUN=1;SAF=80;SAP=4.17513;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:412:0,412:0:0:412:14027:-1262.1,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
476 NC_000962 1074558 . G A 3245.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=6.44001;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=747.35;PAIRED=0.579439;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3604;QR=0;RO=0;RPL=43;RPP=11.96;RPPR=0;RPR=64;RUN=1;SAF=55;SAP=3.19295;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:441:0,441:0:0:441:14697:-1322.43,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
477 NC_000962 1075279 . T C 2580.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=85;CIGAR=1X;DP=85;DPB=85;DPRA=0;EPP=6.10145;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=594.26;PAIRED=0.964706;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2865;QR=0;RO=0;RPL=39;RPP=4.26209;RPPR=0;RPR=46;RUN=1;SAF=41;SAP=3.24022;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:488:0,488:0:0:488:17671:-1589.56,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
478 NC_000962 1076309 . G T 4557.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=146;CIGAR=1X;DP=146;DPB=146;DPRA=0;EPP=10.2089;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1049.36;PAIRED=0.965753;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5062;QR=0;RO=0;RPL=67;RPP=5.15203;RPPR=0;RPR=79;RUN=1;SAF=83;SAP=8.95954;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:490:0,489:0:0:489:16285:-1464.96,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
479 NC_000962 1076689 . A C 3868.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=129;DPB=129;DPRA=0;EPP=3.62103;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=890.694;PAIRED=0.984375;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4326;QR=27;RO=1;RPL=56;RPP=7.35324;RPPR=5.18177;RPR=72;RUN=1;SAF=57;SAP=6.33537;SAR=71;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:0,509:0:0:509:17339:-1560.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
480 NC_000962 1076880 . C T 4374.71 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=141;CIGAR=1X;DP=141;DPB=141;DPRA=0;EPP=3.0257;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1007.32;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4859;QR=0;RO=0;RPL=74;RPP=3.76493;RPPR=0;RPR=67;RUN=1;SAF=61;SAP=8.56989;SAR=80;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:477:0,477:0:0:477:16481:-1482.79,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
481 NC_000962 1077312 . A G 3121.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=13.5202;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=718.77;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3466;QR=0;RO=0;RPL=48;RPP=3.35774;RPPR=0;RPR=52;RUN=1;SAF=57;SAP=7.26639;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:466:0,465:0:0:465:16085:-1446.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
482 NC_000962 1079927 . C A 5654.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=182;CIGAR=1X;DP=182;DPB=182;DPRA=0;EPP=4.72839;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1302.07;PAIRED=0.994505;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6282;QR=0;RO=0;RPL=91;RPP=3.0103;RPPR=0;RPR=91;RUN=1;SAF=84;SAP=5.34881;SAR=98;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:455:0,455:0:0:455:15670:-1409.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
483 NC_000962 1080192 . G A 5939.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=189;CIGAR=1X;DP=189;DPB=189;DPRA=0;EPP=4.95199;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1367.73;PAIRED=0.989418;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6599;QR=0;RO=0;RPL=81;RPP=11.386;RPPR=0;RPR=108;RUN=1;SAF=97;SAP=3.29753;SAR=92;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:378:0,378:0:0:378:12971:-1167.19,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
484 NC_000962 1081681 . T C 2952.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=98;DPB=98;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=679.923;PAIRED=0.989583;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3281;QR=0;RO=0;RPL=47;RPP=3.10078;RPPR=0;RPR=49;RUN=1;SAF=57;SAP=10.339;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:513:0,513:0:0:513:17482:-1572.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
485 NC_000962 1087193 . G C 3104.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=3.09546;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=714.824;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3447;QR=0;RO=0;RPL=64;RPP=17.4016;RPPR=0;RPR=38;RUN=1;SAF=52;SAP=3.09546;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:525:0,525:0:0:525:18370:-1652.72,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
486 NC_000962 1090188 . AGGGCCA AGGGGCCA 2448.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=84;CIGAR=1M1I6M;DP=85;DPB=97.1429;DPRA=0;EPP=5.59539;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=563.813;PAIRED=0.988095;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2721;QR=0;RO=0;RPL=42;RPP=3.0103;RPPR=0;RPR=42;RUN=1;SAF=41;SAP=3.1137;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:405:0,396:0:0:396:13786:-1240.07,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
487 NC_000962 1093406 . A G 3479.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=13.1759;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=801.206;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3864;QR=0;RO=0;RPL=71;RPP=19.1714;RPPR=0;RPR=42;RUN=1;SAF=46;SAP=11.4848;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:473:0,473:0:0:473:16115:-1450.02,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
488 NC_000962 1093928 . G A 3654.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=120;CIGAR=1X;DP=120;DPB=120;DPRA=0;EPP=10.2485;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=841.431;PAIRED=0.958333;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4059;QR=0;RO=0;RPL=120;RPP=263.587;RPPR=0;RPR=0;RUN=1;SAF=50;SAP=10.2485;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:120:0,120:0:0:120:4059:-365.429,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
489 NC_000962 1095644 . C T 1044.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=33;CIGAR=1X;DP=33;DPB=33;DPRA=0;EPP=58.3499;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=240.469;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1157;QR=0;RO=0;RPL=33;RPP=74.6689;RPPR=0;RPR=0;RUN=1;SAF=2;SAP=58.3499;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:102:0,102:0:0:102:3030:-272.881,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
490 NC_000962 1095678 . A G 626.032 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=21;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=48.6112;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=144.149;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=732;QR=36;RO=1;RPL=16;RPP=15.5221;RPPR=5.18177;RPR=5;RUN=1;SAF=5;SAP=15.5221;SAR=16;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:175:1,174:1:40:174:5722:-511.099,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
491 NC_000962 1096633 . T G 1016.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=34;CIGAR=1X;DP=34;DPB=34;DPRA=0;EPP=12.2071;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=234.014;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1126;QR=0;RO=0;RPL=0;RPP=76.8404;RPPR=0;RPR=34;RUN=1;SAF=23;SAP=12.2071;SAR=11;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:83:0,83:0:0:83:2973:-267.758,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
492 NC_000962 1097220 . C T 3886.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=7.95168;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=894.835;PAIRED=0.992126;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4316;QR=0;RO=0;RPL=62;RPP=3.16418;RPPR=0;RPR=65;RUN=1;SAF=61;SAP=3.43776;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:477:0,477:0:0:477:17167:-1544.37,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
493 NC_000962 1097442 . C T 2794.09 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=5.3706;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=643.363;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3102;QR=0;RO=0;RPL=32;RPP=21.515;RPPR=0;RPR=60;RUN=1;SAF=51;SAP=5.3706;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:539:0,539:0:0:539:18281:-1644.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
494 NC_000962 1098523 . T A 2746.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=3.62026;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=632.391;PAIRED=0.977528;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3049;QR=0;RO=0;RPL=41;RPP=4.20583;RPPR=0;RPR=48;RUN=1;SAF=54;SAP=11.8182;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:524:0,524:0:0:524:18040:-1623.15,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
495 NC_000962 1099058 . G A 2284.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=76;CIGAR=1X;DP=76;DPB=76;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=526.111;PAIRED=0.986842;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2536;QR=0;RO=0;RPL=38;RPP=3.0103;RPPR=0;RPR=38;RUN=1;SAF=34;SAP=4.83891;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:574:0,574:0:0:574:20569:-1850.37,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
496 NC_000962 1100234 . T C 3313.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=3.96888;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=762.903;PAIRED=0.990991;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3682;QR=0;RO=0;RPL=56;RPP=3.02986;RPPR=0;RPR=55;RUN=1;SAF=55;SAP=3.02986;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:525:0,525:0:0:525:18697:-1681.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
497 NC_000962 1102117 . G A 947.099 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=31;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=3.08035;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=218.078;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1049;QR=0;RO=0;RPL=22;RPP=14.8483;RPPR=0;RPR=9;RUN=1;SAF=8;SAP=18.771;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:751:0,751:0:0:751:26863:-2416.45,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
498 NC_000962 1102468 . C A 1396.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=45;CIGAR=1X;DP=45;DPB=45;DPRA=0;EPP=3.05855;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=321.452;PAIRED=0.955556;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1548;QR=0;RO=0;RPL=23;RPP=3.05855;RPPR=0;RPR=22;RUN=1;SAF=21;SAP=3.44459;SAR=24;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:652:0,652:0:0:652:22244:-2001.28,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
499 NC_000962 1102646 . G A 1011.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=33;CIGAR=1X;DP=33;DPB=33;DPRA=0;EPP=3.60252;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=233;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1121;QR=0;RO=0;RPL=15;RPP=3.60252;RPPR=0;RPR=18;RUN=1;SAF=13;SAP=6.23461;SAR=20;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:730:0,730:0:0:730:25762:-2317.53,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
500 NC_000962 1103656 . C T 2024.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=66;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=3.53672;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=466.243;PAIRED=0.984848;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2247;QR=0;RO=0;RPL=30;RPP=4.19474;RPPR=0;RPR=36;RUN=1;SAF=43;SAP=16.1707;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:768:0,768:0:0:768:26818:-2412.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
501 NC_000962 1104690 . T G 30224.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=916;CIGAR=1X;DP=916;DPB=916;DPRA=0;EPP=56.3489;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=6959.55;PAIRED=0.932314;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=33604;QR=0;RO=0;RPL=443;RPP=5.14384;RPPR=0;RPR=473;RUN=1;SAF=548;SAP=79.8178;SAR=368;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:916:0,916:0:0:916:33604:-3022.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
502 NC_000962 1105686 . CT GC 1112.53 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=37;CIGAR=2X;DP=37;DPB=38;DPRA=0;EPP=12.9286;EPPR=0;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=256.169;PAIRED=1;PAIREDR=0;PAO=2;PQA=64;PQR=0;PRO=0;QA=1169;QR=0;RO=0;RPL=21;RPP=4.47751;RPPR=0;RPR=16;RUN=1;SAF=18;SAP=3.06899;SAR=19;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:590:0,590:0:0:590:20780:-1923.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
503 NC_000962 1106422 . T C 19581.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=613;CIGAR=1X;DP=613;DPB=613;DPRA=0;EPP=7.8598;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=4508.91;PAIRED=0.910277;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21767;QR=0;RO=0;RPL=300;RPP=3.60896;RPPR=0;RPR=313;RUN=1;SAF=271;SAP=20.8674;SAR=342;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:613:0,613:0:0:613:21767:-1958.19,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
504 NC_000962 1106422 . TC CC 1651.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=55;CIGAR=1X1M;DP=59;DPB=59;DPRA=0;EPP=14.4204;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=360.022;PAIRED=0.963636;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1835;QR=0;RO=0;RPL=19;RPP=14.4204;RPPR=0;RPR=36;RUN=1;SAF=37;SAP=17.2631;SAR=18;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:59:0,55:0:0:55:1835:-165.169,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
505 NC_000962 1107940 . A C 3203.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=3.09224;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=737.619;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3557;QR=0;RO=0;RPL=61;RPP=8.25461;RPPR=0;RPR=45;RUN=1;SAF=43;SAP=11.2045;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:517:0,516:0:0:516:17960:-1615.55,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
506 NC_000962 1108322 . G T 2778.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=10.0615;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=639.842;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3085;QR=0;RO=0;RPL=38;RPP=7.13366;RPPR=0;RPR=51;RUN=1;SAF=53;SAP=10.0615;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:405:0,405:0:0:405:13757:-1237.72,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
507 NC_000962 1108521 . G A 3505.66 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=3.08649;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=807.209;PAIRED=0.991228;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3893;QR=0;RO=0;RPL=64;RPP=6.74371;RPPR=0;RPR=50;RUN=1;SAF=78;SAP=36.611;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:567:0,567:0:0:567:20450:-1839.65,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
508 NC_000962 1109975 . A G 4140.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=138;CIGAR=1X;DP=138;DPB=138;DPRA=0;EPP=5.27618;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=953.482;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4599;QR=0;RO=0;RPL=78;RPP=8.10854;RPPR=0;RPR=60;RUN=1;SAF=67;SAP=3.26206;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:438:0,438:0:0:438:15616:-1404.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
509 NC_000962 1111678 . G A 3808.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X;DP=122;DPB=122;DPRA=0;EPP=6.49889;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=877.023;PAIRED=0.991803;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4230;QR=0;RO=0;RPL=69;RPP=7.56683;RPPR=0;RPR=53;RUN=1;SAF=59;SAP=3.29508;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:360:0,359:0:0:359:12603:-1133.76,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
510 NC_000962 1126889 . G C 3612.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=121;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=3.45895;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=831.869;PAIRED=0.991736;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4012;QR=0;RO=0;RPL=66;RPP=5.18177;RPPR=0;RPR=55;RUN=1;SAF=56;SAP=4.46393;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:413:0,413:0:0:413:14385:-1294.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
511 NC_000962 1127493 . T C 4350.65 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=143;CIGAR=1X;DP=145;DPB=145;DPRA=0;EPP=3.38993;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1001.77;PAIRED=0.986014;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4904;QR=68;RO=2;RPL=75;RPP=3.75437;RPPR=7.35324;RPR=68;RUN=1;SAF=58;SAP=14.0803;SAR=85;SRF=1;SRP=3.0103;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:542:1,541:1:39:541:19080:-1712.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
512 NC_000962 1127648 . C A 4453.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=144;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=3.07062;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1025.55;PAIRED=0.979167;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4947;QR=0;RO=0;RPL=70;RPP=3.25157;RPPR=0;RPR=74;RUN=1;SAF=63;SAP=7.89611;SAR=81;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:563:0,563:0:0:563:18905:-1700.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
513 NC_000962 1128883 . G A 4507.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=145;CIGAR=1X;DP=145;DPB=145;DPRA=0;EPP=4.82236;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1037.98;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5007;QR=0;RO=0;RPL=78;RPP=4.82236;RPPR=0;RPR=67;RUN=1;SAF=78;SAP=4.82236;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:377:0,377:0:0:377:13110:-1179.61,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
514 NC_000962 1144585 . A G 2216.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=74;CIGAR=1X;DP=74;DPB=74;DPRA=0;EPP=8.76177;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=510.364;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2460;QR=0;RO=0;RPL=34;RPP=4.06669;RPPR=0;RPR=40;RUN=1;SAF=26;SAP=17.2129;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:490:0,489:0:0:489:17190:-1546.12,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
515 NC_000962 1145848 . A C 3699.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=120;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=10.2485;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=851.839;PAIRED=0.991667;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4144;QR=32;RO=1;RPL=60;RPP=3.0103;RPPR=5.18177;RPR=60;RUN=1;SAF=52;SAP=7.64277;SAR=68;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:434:2,431:2:62:431:15099:-1352.59,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
516 NC_000962 1148259 . A G 3083.78 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=12.4917;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=710.068;PAIRED=0.990099;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3424;QR=0;RO=0;RPL=53;RPP=3.54779;RPPR=0;RPR=48;RUN=1;SAF=46;SAP=4.75178;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:536:0,536:0:0:536:18368:-1652.65,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
517 NC_000962 1148930 . C T 4018.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=129;CIGAR=1X;DP=129;DPB=129;DPRA=0;EPP=9.08706;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=925.285;PAIRED=0.984496;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4463;QR=0;RO=0;RPL=68;RPP=3.83512;RPPR=0;RPR=61;RUN=1;SAF=67;SAP=3.43113;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:439:0,439:0:0:439:15392:-1384.88,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
518 NC_000962 1149551 . C T 3577.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=3.17453;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=823.783;PAIRED=0.991597;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3973;QR=0;RO=0;RPL=57;RPP=3.46649;RPPR=0;RPR=62;RUN=1;SAF=70;SAP=11.0575;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:406:0,406:0:0:406:14486:-1303.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
519 NC_000962 1150585 . G A 4646.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=150;CIGAR=1X;DP=150;DPB=150;DPRA=0;EPP=3.53145;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1069.89;PAIRED=0.98;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5161;QR=0;RO=0;RPL=56;RPP=23.9143;RPPR=0;RPR=94;RUN=1;SAF=68;SAP=5.84769;SAR=82;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:466:0,466:0:0:466:15885:-1429.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
520 NC_000962 1151054 . C G 3674 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=5.14646;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=845.969;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4080;QR=0;RO=0;RPL=75;RPP=15.8802;RPPR=0;RPR=48;RUN=1;SAF=41;SAP=32.6871;SAR=82;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:529:0,529:0:0:529:18436:-1658.71,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
521 NC_000962 1163134 . T C 3862.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=125;CIGAR=1X;DP=125;DPB=125;DPRA=0;EPP=3.16665;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=889.452;PAIRED=0.968;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4290;QR=0;RO=0;RPL=59;RPP=3.86152;RPPR=0;RPR=66;RUN=1;SAF=59;SAP=3.86152;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:523:0,523:0:0:523:18883:-1698.67,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
522 NC_000962 1164336 . G A 3658.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=5.25601;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=842.426;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4063;QR=0;RO=0;RPL=57;RPP=3.17734;RPPR=0;RPR=60;RUN=1;SAF=69;SAP=11.1951;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:497:0,497:0:0:497:17036:-1532.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
523 NC_000962 1165521 . TAC TAAC 1808.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=59;CIGAR=1M1I2M;DP=62;DPB=82;DPRA=0;EPP=4.81373;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=416.447;PAIRED=0.983051;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2010;QR=0;RO=0;RPL=13;RPP=43.0905;RPPR=0;RPR=46;RUN=1;SAF=36;SAP=9.23028;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:309:0,304:0:0:304:10210:-918.515,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
524 NC_000962 1168009 . GCCCCCGA GCCCCGA 1562.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=55;CIGAR=1M1D6M;DP=61;DPB=53.375;DPRA=0;EPP=6.20829;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=359.794;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1736;QR=0;RO=0;RPL=24;RPP=4.94488;RPPR=0;RPR=31;RUN=1;SAF=20;SAP=11.8936;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:437:0,437:0:0:437:14884:-1339.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
525 NC_000962 1168715 . CTTCC CTTTCC 2455.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1M1I4M;DP=88;DPB=105.2;DPRA=0;EPP=3.24576;EPPR=0;GTI=0;LEN=1;MEANALT=5;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=565.438;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2729;QR=0;RO=0;RPL=42;RPP=3.03646;RPPR=0;RPR=41;RUN=1;SAF=46;SAP=5.12945;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:394:0,389:0:0:389:12965:-1166.33,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
526 NC_000962 1168776 . T G 2848.93 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=3.37991;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=655.991;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3166;QR=0;RO=0;RPL=54;RPP=7.53805;RPPR=0;RPR=40;RUN=1;SAF=37;SAP=12.2506;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:489:0,489:0:0:489:16905:-1521.08,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
527 NC_000962 1172085 . C A 2294.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=73;CIGAR=1X;DP=73;DPB=73;DPRA=0;EPP=9.70319;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=528.4;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2547;QR=0;RO=0;RPL=33;RPP=4.46786;RPPR=0;RPR=40;RUN=1;SAF=30;SAP=8.03741;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:574:0,574:0:0:574:21123:-1900,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
528 NC_000962 1173750 . G T 3570.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=4.22937;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=822.127;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3969;QR=0;RO=0;RPL=57;RPP=3.0103;RPPR=0;RPR=57;RUN=1;SAF=58;SAP=3.08649;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:445:0,445:0:0:445:15987:-1438.26,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
529 NC_000962 1175343 . C T 3745.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X;DP=122;DPB=122;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=862.525;PAIRED=0.983607;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4160;QR=0;RO=0;RPL=56;RPP=4.7902;RPPR=0;RPR=66;RUN=1;SAF=63;SAP=3.29508;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:413:0,413:0:0:413:13999:-1259.69,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
530 NC_000962 1177157 . G A 3142.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=4.37279;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=723.523;PAIRED=0.990196;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3489;QR=0;RO=0;RPL=51;RPP=3.0103;RPPR=0;RPR=51;RUN=1;SAF=42;SAP=9.90792;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:497:0,497:0:0:497:17392:-1564.71,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
531 NC_000962 1178116 . T C 2800.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=21.1213;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=644.813;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3109;QR=0;RO=0;RPL=53;RPP=6.33681;RPPR=0;RPR=41;RUN=1;SAF=52;SAP=5.32038;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:514:0,514:0:0:514:18711:-1683.14,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
532 NC_000962 1190093 . A C 1343.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=44;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=19.0002;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=309.434;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1490;QR=0;RO=0;RPL=4;RPP=66.97;RPPR=0;RPR=40;RUN=1;SAF=35;SAP=36.372;SAR=9;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:94:0,94:0:0:94:3452:-310.83,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
533 NC_000962 1191497 . T A 899.464 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=29;CIGAR=1X;DP=29;DPB=29;DPRA=0;EPP=24.6501;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=207.109;PAIRED=0.551724;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=996;QR=0;RO=0;RPL=23;RPP=24.6501;RPPR=0;RPR=6;RUN=1;SAF=12;SAP=4.88226;SAR=17;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:29:0,29:0:0:29:996:-89.9464,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
534 NC_000962 1197157 . T G 2958.72 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=98;DPB=98;DPRA=0;EPP=3.09893;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=681.27;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3285;QR=0;RO=0;RPL=50;RPP=3.09893;RPPR=0;RPR=48;RUN=1;SAF=58;SAP=10.1895;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:487:0,487:0:0:487:17658:-1588.48,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
535 NC_000962 1199883 . C T 4263.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=139;CIGAR=1X;DP=140;DPB=140;DPRA=0;EPP=5.65044;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=981.631;PAIRED=0.992806;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4775;QR=36;RO=1;RPL=67;RPP=3.40085;RPPR=5.18177;RPR=72;RUN=1;SAF=76;SAP=5.65044;SAR=63;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:140:1,139:1:36:139:4775:-426.317,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
536 NC_000962 1200418 . A G 2138.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=70;CIGAR=1X;DP=70;DPB=70;DPRA=0;EPP=6.1124;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=492.345;PAIRED=0.985714;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2373;QR=0;RO=0;RPL=41;RPP=7.47733;RPPR=0;RPR=29;RUN=1;SAF=31;SAP=4.99565;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:531:0,531:0:0:531:19277:-1734.04,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
537 NC_000962 1201581 . A C 2673.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=3.63429;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=615.605;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2968;QR=0;RO=0;RPL=31;RPP=18.61;RPPR=0;RPR=56;RUN=1;SAF=59;SAP=26.9963;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:470:0,470:0:0:470:16450:-1479.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
538 NC_000962 1211369 . A C 3363.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=11.6375;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=774.487;PAIRED=0.990991;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3735;QR=0;RO=0;RPL=50;RPP=5.3774;RPPR=0;RPR=61;RUN=1;SAF=52;SAP=3.96888;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:453:0,453:0:0:453:15773:-1419.12,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
539 NC_000962 1212432 . C A 356.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=12;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=82.1654;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=393;QR=0;RO=0;RPL=6;RPP=3.0103;RPPR=0;RPR=6;RUN=1;SAF=6;SAP=3.0103;SAR=6;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:214:0,214:0:0:214:7164:-644.772,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
540 NC_000962 1215104 . ATTGG ATGG 2102.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=71;CIGAR=1M1D3M;DP=72;DPB=57.6;DPRA=0;EPP=5.48761;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=484.201;PAIRED=0.985915;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2336;QR=0;RO=0;RPL=40;RPP=5.48761;RPPR=0;RPR=31;RUN=1;SAF=29;SAP=8.17902;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:491:0,490:0:0:490:16857:-1516.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
541 NC_000962 1215742 . GC AA 1849.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=62;CIGAR=2X;DP=63;DPB=64;DPRA=0;EPP=6.51267;EPPR=0;GTI=0;LEN=2;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=425.968;PAIRED=0.983871;PAIREDR=0;PAO=2;PQA=46;PQR=0;PRO=0;QA=2009;QR=0;RO=0;RPL=32;RPP=3.15039;RPPR=0;RPR=30;RUN=1;SAF=24;SAP=9.87495;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:515:0,513:0:0:513:18227:-1680.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
542 NC_000962 1217065 . C A 6138.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=201;CIGAR=1X;DP=201;DPB=201;DPRA=0;EPP=26.8749;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1413.38;PAIRED=0.890547;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6820;QR=0;RO=0;RPL=91;RPP=6.91031;RPPR=0;RPR=110;RUN=1;SAF=37;SAP=177.257;SAR=164;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:201:0,201:0:0:201:6820:-613.822,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
543 NC_000962 1217157 . A C 947.952 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=32;CIGAR=1X;DP=32;DPB=32;DPRA=0;EPP=4.09604;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=218.274;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1050;QR=0;RO=0;RPL=18;RPP=4.09604;RPPR=0;RPR=14;RUN=1;SAF=24;SAP=20.3821;SAR=8;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:167:0,167:0:0:167:5333:-480.088,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
544 NC_000962 1218658 . G C 2859.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=13.0905;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=658.481;PAIRED=0.978947;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3175;QR=0;RO=0;RPL=34;RPP=19.6735;RPPR=0;RPR=61;RUN=1;SAF=64;SAP=27.9022;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:228:0,228:0:0:228:7597:-683.751,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
545 NC_000962 1218895 . CG CA 2723.53 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1M1X;DP=93;DPB=94;DPRA=0;EPP=4.17955;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=627.115;PAIRED=1;PAIREDR=0;PAO=1;PQA=23;PQR=23;PRO=1;QA=3026;QR=0;RO=0;RPL=54;RPP=9.90651;RPPR=0;RPR=37;RUN=1;SAF=54;SAP=9.90651;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:93:0,91:0:0:91:3026:-272.353,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
546 NC_000962 1218896 . G A 9430.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=298;CIGAR=1X;DP=298;DPB=298;DPRA=0;EPP=42.9129;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2171.5;PAIRED=0.88255;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10481;QR=0;RO=0;RPL=98;RPP=78.8224;RPPR=0;RPR=200;RUN=1;SAF=186;SAP=42.9129;SAR=112;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:298:0,298:0:0:298:10481:-943.073,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
547 NC_000962 1220680 . T C 3113.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=105;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=4.68544;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=716.901;PAIRED=0.980952;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3497;QR=36;RO=1;RPL=49;RPP=4.02365;RPPR=5.18177;RPR=56;RUN=1;SAF=63;SAP=12.1305;SAR=42;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:519:0,519:0:0:519:18369:-1652.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
548 NC_000962 1224367 . T C 5632.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=180;CIGAR=1X;DP=180;DPB=180;DPRA=0;EPP=3.44459;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1296.96;PAIRED=0.861111;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6258;QR=0;RO=0;RPL=61;RPP=43.5927;RPPR=0;RPR=119;RUN=1;SAF=118;SAP=40.8422;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:180:0,180:0:0:180:6258:-563.262,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
549 NC_000962 1227830 . G T 3682 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=121;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=6.04318;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=847.813;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4089;QR=0;RO=0;RPL=51;RPP=9.48883;RPPR=0;RPR=70;RUN=1;SAF=68;SAP=7.04816;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:517:0,517:0:0:517:18816:-1692.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
550 NC_000962 1230778 . G A 3834.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=3.02795;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=882.817;PAIRED=0.99187;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4258;QR=0;RO=0;RPL=66;RPP=4.44029;RPPR=0;RPR=57;RUN=1;SAF=67;SAP=5.14646;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:536:0,536:0:0:536:18978:-1707.33,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
551 NC_000962 1248382 . A G 3763.95 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=7.49334;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=866.681;PAIRED=0.991935;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4180;QR=0;RO=0;RPL=63;RPP=3.08035;RPPR=0;RPR=61;RUN=1;SAF=51;SAP=11.486;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:466:0,466:0:0:466:16504:-1484.83,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
552 NC_000962 1248936 . G C 2987.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=14.6134;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=687.911;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3317;QR=0;RO=0;RPL=50;RPP=3.03223;RPPR=0;RPR=49;RUN=1;SAF=47;SAP=3.55865;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:474:0,474:0:0:474:16291:-1465.76,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
553 NC_000962 1248978 . T C 3427.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=3.08785;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=789.198;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3806;QR=0;RO=0;RPL=52;RPP=4.25114;RPPR=0;RPR=60;RUN=1;SAF=55;SAP=3.08785;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:404:0,404:0:0:404:13688:-1231.59,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
554 NC_000962 1250340 . A G 5175.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=169;CIGAR=1X;DP=169;DPB=169;DPRA=0;EPP=3.6399;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1191.68;PAIRED=0.994083;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5749;QR=0;RO=0;RPL=82;RPP=3.33152;RPPR=0;RPR=87;RUN=1;SAF=83;SAP=3.12594;SAR=86;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:456:0,456:0:0:456:16283:-1464.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
555 NC_000962 1251199 . C T 3731.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=120;CIGAR=1X;DP=120;DPB=120;DPRA=0;EPP=8.87328;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=859.218;PAIRED=0.991667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4144;QR=0;RO=0;RPL=62;RPP=3.29983;RPPR=0;RPR=58;RUN=1;SAF=47;SAP=15.2429;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:570:0,570:0:0:570:19778:-1779.37,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
556 NC_000962 1252053 . AGGCC AGCC 1860.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1M1D3M;DP=65;DPB=52;DPRA=0;EPP=7.18091;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=428.375;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2067;QR=0;RO=0;RPL=27;RPP=5.80219;RPPR=0;RPR=36;RUN=1;SAF=32;SAP=3.04477;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:468:0,458:0:0:458:15150:-1362.93,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
557 NC_000962 1252164 . T C 3307.78 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=108;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=3.332;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=761.646;PAIRED=0.981481;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3673;QR=0;RO=0;RPL=51;RPP=3.73412;RPPR=0;RPR=57;RUN=1;SAF=55;SAP=3.09072;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:0,509:0:0:509:17330:-1559.23,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
558 NC_000962 1254562 . A G 1675.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=55;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=11.8936;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=385.872;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1859;QR=0;RO=0;RPL=24;RPP=4.94488;RPPR=0;RPR=31;RUN=1;SAF=29;SAP=3.36563;SAR=26;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:620:0,620:0:0:620:22425:-2017.14,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
559 NC_000962 1265070 . G T 3696.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=3.90444;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=851.124;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4105;QR=0;RO=0;RPL=56;RPP=3.90444;RPPR=0;RPR=63;RUN=1;SAF=53;SAP=6.09416;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:0,509:0:0:509:17958:-1615.64,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
560 NC_000962 1267597 . G A 2507.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=85;DPB=85;DPRA=0;EPP=3.66436;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=577.281;PAIRED=0.987952;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2813;QR=27;RO=1;RPL=44;RPP=3.66436;RPPR=5.18177;RPR=39;RUN=1;SAF=43;SAP=3.24576;SAR=40;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:522:0,522:0:0:522:17998:-1619.29,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
561 NC_000962 1273250 . GCT GACT 2799.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1M1I2M;DP=98;DPB=130.667;DPRA=0;EPP=3.21602;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=644.686;PAIRED=1;PAIREDR=0;PAO=0.5;PQA=10;PQR=10;PRO=0.5;QA=3112;QR=0;RO=0;RPL=45;RPP=3.58174;RPPR=0;RPR=50;RUN=1;SAF=46;SAP=3.21602;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:525:0,519:0:0:519:17249:-1551.66,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
562 NC_000962 1275957 . T C 2366.72 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=4.35716;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=544.958;PAIRED=0.987342;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2627;QR=0;RO=0;RPL=43;RPP=4.35716;RPPR=0;RPR=36;RUN=1;SAF=43;SAP=4.35716;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:413:0,413:0:0:413:14711:-1323.5,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
563 NC_000962 1276588 . C G 387.249 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=14;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=3.63072;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=89.1675;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=427;QR=0;RO=0;RPL=0;RPP=33.4109;RPPR=0;RPR=14;RUN=1;SAF=6;SAP=3.63072;SAR=8;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:14:0,14:0:0:14:427:-38.7249,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
564 NC_000962 1276842 . GGCCC ACCCG 502.565 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=15;CIGAR=2X2M1X;DP=15;DPB=15.4;DPRA=0;EPP=4.31318;EPPR=0;GTI=0;LEN=5;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=115.72;PAIRED=0.8;PAIREDR=0;PAO=2;PQA=64;PQR=0;PRO=0;QA=491;QR=0;RO=0;RPL=15;RPP=35.5824;RPPR=0;RPR=0;RUN=1;SAF=9;SAP=4.31318;SAR=6;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:15:0,15:0:0:15:491:-50.2565,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
565 NC_000962 1280738 . TGGCA TGCA 2475 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=84;CIGAR=1M1D3M;DP=88;DPB=70.6;DPRA=0;EPP=8.07707;EPPR=5.18177;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=569.89;PAIRED=0.988095;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2779;QR=29;RO=1;RPL=36;RPP=6.73282;RPPR=5.18177;RPR=48;RUN=1;SAF=39;SAP=3.94093;SAR=45;SRF=0;SRP=5.18177;SRR=1;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:403:0,403:0:0:403:13292:-1196.08,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
566 NC_000962 1281118 . T C 3734.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=121;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=8.19671;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=859.833;PAIRED=0.991736;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4147;QR=0;RO=0;RPL=56;RPP=4.46393;RPPR=0;RPR=65;RUN=1;SAF=51;SAP=9.48883;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:461:1,460:1:37:460:16542:-1484.35,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
567 NC_000962 1281771 . T C 2281.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=74;CIGAR=1X;DP=74;DPB=74;DPRA=0;EPP=4.06669;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=525.286;PAIRED=0.972973;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2532;QR=0;RO=0;RPL=37;RPP=3.0103;RPPR=0;RPR=37;RUN=1;SAF=25;SAP=19.9126;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:506:0,506:0:0:506:17858:-1606.6,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
568 NC_000962 1285001 . A C 2761.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=4.17955;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=635.913;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3066;QR=0;RO=0;RPL=45;RPP=3.03416;RPPR=0;RPR=46;RUN=1;SAF=44;SAP=3.22506;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:577:0,577:0:0:577:19790:-1780.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
569 NC_000962 1286766 . G C 3366.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=4.2737;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=775.12;PAIRED=0.972727;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3738;QR=0;RO=0;RPL=53;RPP=3.32615;RPPR=0;RPR=57;RUN=1;SAF=60;SAP=4.98437;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:434:0,434:0:0:434:14906:-1341.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
570 NC_000962 1288698 . G A 3219.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=4.04333;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=741.339;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3575;QR=0;RO=0;RPL=47;RPP=4.71796;RPPR=0;RPR=56;RUN=1;SAF=50;SAP=3.20004;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:498:0,498:0:0:498:17182:-1545.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
571 NC_000962 1292102 . A G 3988.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=130;CIGAR=1X;DP=130;DPB=130;DPRA=0;EPP=8.42228;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=918.46;PAIRED=0.992308;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4430;QR=0;RO=0;RPL=57;RPP=7.28643;RPPR=0;RPR=73;RUN=1;SAF=63;SAP=3.27756;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:425:0,425:0:0:425:15472:-1391.8,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
572 NC_000962 1293333 . C G 2812.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=11.6246;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=647.5;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3122;QR=0;RO=0;RPL=56;RPP=13.5336;RPPR=0;RPR=35;RUN=1;SAF=7;SAP=144.49;SAR=84;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:429:0,429:0:0:429:14744:-1326.59,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
573 NC_000962 1299305 . G A 2442.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=3.44459;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=562.366;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2711;QR=0;RO=0;RPL=34;RPP=6.91895;RPPR=0;RPR=46;RUN=1;SAF=40;SAP=3.0103;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:327:1,326:1:31:326:10593:-950.172,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
574 NC_000962 1302818 . G C 13879.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=444;CIGAR=1X;DP=444;DPB=444;DPRA=0;EPP=8.01838;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3195.97;PAIRED=0.873874;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15427;QR=0;RO=0;RPL=236;RPP=6.84461;RPPR=0;RPR=208;RUN=1;SAF=200;SAP=12.4787;SAR=244;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:444:0,444:0:0:444:15427:-1387.99,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
575 NC_000962 1306259 . A G 3094.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=7.10269;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=712.557;PAIRED=0.990385;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3436;QR=0;RO=0;RPL=47;RPP=5.09825;RPPR=0;RPR=57;RUN=1;SAF=62;SAP=11.3621;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:482:0,482:0:0:482:16469:-1481.84,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
576 NC_000962 1307598 . C G 2966.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=9.34924;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=683.139;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3294;QR=0;RO=0;RPL=46;RPP=4.08507;RPPR=0;RPR=53;RUN=1;SAF=56;SAP=6.71716;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:405:0,404:0:0:404:14136:-1271.4,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
577 NC_000962 1313337 . AA AGC 554.344 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=19;CIGAR=1M1I1X;DP=20;DPB=30;DPRA=0;EPP=22.325;EPPR=0;GTI=0;LEN=3;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=127.642;PAIRED=1;PAIREDR=0;PAO=1;PQA=32;PQR=0;PRO=0;QA=583;QR=0;RO=0;RPL=16;RPP=22.325;RPPR=0;RPR=3;RUN=1;SAF=4;SAP=16.8392;SAR=15;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:191:0,190:0:0:190:6810:-615.304,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
578 NC_000962 1315191 . A C 3312.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=3.51765;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=762.671;PAIRED=0.990654;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3678;QR=0;RO=0;RPL=59;RPP=5.46589;RPPR=0;RPR=48;RUN=1;SAF=65;SAP=13.7459;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:541:0,541:0:0:541:18585:-1672.1,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
579 NC_000962 1315884 . G A 3021.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=8.68272;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=695.72;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3357;QR=0;RO=0;RPL=45;RPP=4.4284;RPPR=0;RPR=53;RUN=1;SAF=48;SAP=3.09893;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:375:0,375:0:0:375:13311:-1197.56,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
580 NC_000962 1317655 . C T 4025.68 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=132;CIGAR=1X;DP=132;DPB=132;DPRA=0;EPP=3.0761;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=926.948;PAIRED=0.992424;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4471;QR=0;RO=0;RPL=78;RPP=12.4858;RPPR=0;RPR=54;RUN=1;SAF=83;SAP=22.0271;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:474:0,474:0:0:474:16288:-1465.42,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
581 NC_000962 1322741 . A G 2219.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=74;CIGAR=1X;DP=75;DPB=75;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=510.989;PAIRED=0.986486;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2467;QR=0;RO=0;RPL=33;RPP=4.88833;RPPR=0;RPR=41;RUN=1;SAF=38;SAP=3.12768;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:547:0,547:0:0:547:19814:-1782.38,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
582 NC_000962 1327890 . G A 3363.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=3.72096;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=774.488;PAIRED=0.990909;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3738;QR=0;RO=0;RPL=57;RPP=3.32615;RPPR=0;RPR=53;RUN=1;SAF=59;SAP=4.2737;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:510:0,510:0:0:510:17814:-1602.61,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
583 NC_000962 1328687 . G C 4959.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=160;CIGAR=1X;DP=160;DPB=160;DPRA=0;EPP=9.579;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1141.96;PAIRED=0.9875;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5509;QR=0;RO=0;RPL=72;RPP=6.48466;RPPR=0;RPR=88;RUN=1;SAF=83;SAP=3.49888;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:474:0,474:0:0:474:16779:-1509.43,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
584 NC_000962 1329234 . G A 5618.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=181;CIGAR=1X;DP=182;DPB=182;DPRA=0;EPP=3.0223;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1293.72;PAIRED=0.983425;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6244;QR=0;RO=0;RPL=95;RPP=3.98206;RPPR=0;RPR=86;RUN=1;SAF=86;SAP=3.98206;SAR=95;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:393:0,393:0:0:393:13241:-1191.38,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
585 NC_000962 1333669 . T G 3611.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=3.67278;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=831.57;PAIRED=0.991525;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4013;QR=0;RO=0;RPL=52;RPP=6.61715;RPPR=0;RPR=66;RUN=1;SAF=60;SAP=3.08391;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:377:0,376:0:0:376:12585:-1132.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
586 NC_000962 1336164 . C T 5531.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=177;CIGAR=1X;DP=177;DPB=177;DPRA=0;EPP=4.00402;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1273.7;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6145;QR=0;RO=0;RPL=85;RPP=3.61144;RPPR=0;RPR=92;RUN=1;SAF=84;SAP=4.00402;SAR=93;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:388:1,387:1:39:387:13823:-1239.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
587 NC_000962 1340208 . G A 3747.72 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=3.16919;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=862.944;PAIRED=0.97561;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4162;QR=0;RO=0;RPL=60;RPP=3.16919;RPPR=0;RPR=63;RUN=1;SAF=53;SAP=8.11238;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:415:0,415:0:0:415:14373:-1293.23,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
588 NC_000962 1343955 . T C 2744.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=631.97;PAIRED=0.988636;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3047;QR=0;RO=0;RPL=34;RPP=12.8806;RPPR=0;RPR=54;RUN=1;SAF=42;SAP=3.40511;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:88:0,88:0:0:88:3047:-274.461,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
589 NC_000962 1349213 . C T 1915.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=62;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=3.57068;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=440.977;PAIRED=0.983871;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2125;QR=0;RO=0;RPL=25;RPP=8.05372;RPPR=0;RPR=37;RUN=1;SAF=34;SAP=4.27115;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:551:1,550:1:33:550:19122:-1717.05,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
590 NC_000962 1349733 . G C 3562.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=3.91972;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=820.27;PAIRED=0.982906;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3956;QR=0;RO=0;RPL=60;RPP=3.17734;RPPR=0;RPR=57;RUN=1;SAF=69;SAP=11.1951;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:484:0,484:0:0:484:17080:-1536.61,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
591 NC_000962 1351172 . A G 4115.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=132;CIGAR=1X;DP=132;DPB=132;DPRA=0;EPP=3.27351;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=947.658;PAIRED=0.984848;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4571;QR=0;RO=0;RPL=68;RPP=3.27351;RPPR=0;RPR=64;RUN=1;SAF=82;SAP=19.8557;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:406:1,405:1:32:405:13875:-1245.24,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
592 NC_000962 1351407 . C G 4125.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=138;CIGAR=1X;DP=140;DPB=140;DPRA=0;EPP=3.26206;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=949.877;PAIRED=0.992754;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4621;QR=36;RO=1;RPL=62;RPP=6.09442;RPPR=5.18177;RPR=76;RUN=1;SAF=83;SAP=15.3468;SAR=55;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:399:0,399:0:0:399:13603:-1224.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
593 NC_000962 1356413 . C G 2782.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=90;CIGAR=1X;DP=90;DPB=90;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=640.673;PAIRED=0.988889;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3089;QR=0;RO=0;RPL=43;RPP=3.39634;RPPR=0;RPR=47;RUN=1;SAF=52;SAP=7.73928;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:442:0,442:0:0:442:15378:-1383.56,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
594 NC_000962 1357308 . T G 3143.13 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=6.07591;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=723.733;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3490;QR=0;RO=0;RPL=44;RPP=7.18293;RPPR=0;RPR=58;RUN=1;SAF=91;SAP=139.26;SAR=11;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:419:0,418:0:0:418:15019:-1350.81,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
595 NC_000962 1360209 . T C 3583.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=3.02855;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=825.033;PAIRED=0.983193;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3979;QR=0;RO=0;RPL=57;RPP=3.46649;RPPR=0;RPR=62;RUN=1;SAF=83;SAP=43.3194;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:405:0,405:0:0:405:13967:-1256.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
596 NC_000962 1361190 . G A 5402.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=175;CIGAR=1X;DP=175;DPB=175;DPRA=0;EPP=4.51172;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1243.88;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6001;QR=0;RO=0;RPL=93;RPP=4.51172;RPPR=0;RPR=82;RUN=1;SAF=104;SAP=16.5231;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:475:0,475:0:0:475:15850:-1426.21,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
597 NC_000962 1361285 . C T 5302.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=168;CIGAR=1X;DP=168;DPB=168;DPRA=0;EPP=6.31921;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1220.87;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5890;QR=0;RO=0;RPL=81;RPP=3.47562;RPPR=0;RPR=87;RUN=1;SAF=101;SAP=17.9521;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:412:1,411:1:31:411:14238:-1277.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
598 NC_000962 1362006 . T C 3626.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=4.18805;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=834.978;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4027;QR=0;RO=0;RPL=65;RPP=5.66023;RPPR=0;RPR=53;RUN=1;SAF=56;SAP=3.67278;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:476:0,476:0:0:476:17274:-1553.92,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
599 NC_000962 1365837 . CGGGGTTGC CGGGGGGTTGC 2526.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1M2I8M;DP=91;DPB=111.222;DPRA=0;EPP=4.98658;EPPR=0;GTI=0;LEN=2;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=581.768;PAIRED=0.988764;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2807;QR=0;RO=0;RPL=45;RPP=3.0347;RPPR=0;RPR=44;RUN=1;SAF=41;SAP=4.20583;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:406:0,399:0:0:399:13453:-1210.14,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
600 NC_000962 1366541 . CAG GGT 9104.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=294;CIGAR=3X;DP=296;DPB=297.667;DPRA=0;EPP=3.7489;EPPR=0;GTI=0;LEN=3;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2096.48;PAIRED=0.870748;PAIREDR=0;PAO=5;PQA=128;PQR=0;PRO=0;QA=9993;QR=0;RO=0;RPL=152;RPP=3.7489;RPPR=0;RPR=142;RUN=1;SAF=188;SAP=52.6735;SAR=106;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:296:0,294:0:0:294:9993:-910.491,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
601 NC_000962 1367484 . T G 2625.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=11.0053;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=604.621;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2915;QR=0;RO=0;RPL=41;RPP=3.89863;RPPR=0;RPR=47;RUN=1;SAF=50;SAP=6.56362;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:584:0,584:0:0:584:20979:-1887.19,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
602 NC_000962 1368322 . CGGCA CGGGCA 3558.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1M1I4M;DP=127;DPB=151.6;DPRA=0;EPP=8.77716;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=819.389;PAIRED=0.991803;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3955;QR=0;RO=0;RPL=63;RPP=3.29508;RPPR=0;RPR=59;RUN=1;SAF=63;SAP=3.29508;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:402:0,389:0:0:389:13078:-1176.45,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
603 NC_000962 1370852 . T G 3540.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=120;DPB=120;DPRA=0;EPP=3.02855;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=815.22;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3955;QR=21;RO=1;RPL=64;RPP=4.48836;RPPR=5.18177;RPR=55;RUN=1;SAF=57;SAP=3.46649;SAR=62;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:507:0,507:0:0:507:17571:-1580.87,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
604 NC_000962 1374065 . T C 4236.27 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=139;CIGAR=1X;DP=139;DPB=139;DPRA=0;EPP=3.77578;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=975.438;PAIRED=0.971223;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4705;QR=0;RO=0;RPL=67;RPP=3.40085;RPPR=0;RPR=72;RUN=1;SAF=87;SAP=22.1474;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:431:0,431:0:0:431:14955:-1345.5,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
605 NC_000962 1374073 . G A 4095.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=134;CIGAR=1X;DP=134;DPB=134;DPRA=0;EPP=8.26073;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=943.107;PAIRED=0.977612;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4549;QR=0;RO=0;RPL=58;RPP=8.26073;RPPR=0;RPR=76;RUN=1;SAF=82;SAP=17.5948;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:435:0,435:0:0:435:15210:-1368.45,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
606 NC_000962 1374201 . A G 3711.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=121;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=4.46393;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=854.58;PAIRED=0.991736;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4161;QR=36;RO=1;RPL=64;RPP=3.88966;RPPR=5.18177;RPR=57;RUN=1;SAF=71;SAP=10.9245;SAR=50;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:619:0,619:0:0:619:21819:-1962.81,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
607 NC_000962 1375044 . C G 2912 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=3.21178;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=670.513;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3233;QR=0;RO=0;RPL=44;RPP=4.82359;RPPR=0;RPR=53;RUN=1;SAF=50;SAP=3.21178;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:377:0,377:0:0:377:12959:-1165.98,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
608 NC_000962 1375724 . A C 3917.13 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=131;CIGAR=1X;DP=133;DPB=133;DPRA=0;EPP=15.0943;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=901.952;PAIRED=0.992366;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4380;QR=27;RO=1;RPL=64;RPP=3.15949;RPPR=5.18177;RPR=67;RUN=1;SAF=82;SAP=21.0617;SAR=49;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:434:0,434:0:0:434:14984:-1348.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
609 NC_000962 1382628 . T C 2835.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=6.95631;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=652.895;PAIRED=0.989247;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3148;QR=0;RO=0;RPL=47;RPP=3.03365;RPPR=0;RPR=46;RUN=1;SAF=65;SAP=34.9753;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:465:0,465:0:0:465:16345:-1470.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
610 NC_000962 1390763 . C T 4223.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1X;DP=136;DPB=136;DPRA=0;EPP=5.30951;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=972.518;PAIRED=0.985294;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4691;QR=0;RO=0;RPL=67;RPP=3.07417;RPPR=0;RPR=69;RUN=1;SAF=53;SAP=17.3803;SAR=83;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:527:0,527:0:0:527:18698:-1682.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
611 NC_000962 1393626 . A G 3871.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=4.70676;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=891.532;PAIRED=0.992188;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4300;QR=0;RO=0;RPL=58;RPP=5.45321;RPPR=0;RPR=70;RUN=1;SAF=51;SAP=14.4784;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:396:0,396:0:0:396:13788:-1240.58,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
612 NC_000962 1396922 . T C 3498.53 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=3.02952;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=805.565;PAIRED=0.982301;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3885;QR=0;RO=0;RPL=55;RPP=3.18325;RPPR=0;RPR=58;RUN=1;SAF=57;SAP=3.02952;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:435:0,435:0:0:435:15367:-1382.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
613 NC_000962 1406760 . TCG TGCG 2750.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1M1I2M;DP=95;DPB=126.667;DPRA=0;EPP=21.1213;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=633.335;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3056;QR=0;RO=0;RPL=39;RPP=8.9241;RPPR=0;RPR=55;RUN=1;SAF=66;SAP=36.3678;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:345:0,343:0:0:343:11327:-1018.95,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
614 NC_000962 1411210 . T G 3261.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=751.074;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3622;QR=0;RO=0;RPL=50;RPP=3.74778;RPPR=0;RPR=56;RUN=1;SAF=47;SAP=5.96022;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:414:0,414:0:0:414:13979:-1257.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
615 NC_000962 1413129 . CGGGGGGCGTC CGGGGGCGTC 2083.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=71;CIGAR=1M1D9M;DP=75;DPB=68.2727;DPRA=0;EPP=3.28556;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=479.834;PAIRED=1;PAIREDR=0;PAO=0.5;PQA=16;PQR=16;PRO=0.5;QA=2316;QR=0;RO=0;RPL=37;RPP=3.28556;RPPR=0;RPR=34;RUN=1;SAF=21;SAP=28.7315;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:392:0,390:0:0:390:13058:-1174.72,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
616 NC_000962 1413148 . C T 2418.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=78;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=3.45573;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=556.861;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2687;QR=0;RO=0;RPL=46;RPP=8.46682;RPPR=0;RPR=32;RUN=1;SAF=25;SAP=24.8364;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:455:0,455:0:0:455:15389:-1384.73,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
617 NC_000962 1414021 . C T 3426.52 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=109;DPB=109;DPRA=0;EPP=3.1896;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=788.985;PAIRED=0.972477;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3805;QR=0;RO=0;RPL=54;RPP=3.03022;RPPR=0;RPR=55;RUN=1;SAF=44;SAP=11.7958;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:544:0,544:0:0:544:19385:-1743.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
618 NC_000962 1421179 . A G 12248.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=404;CIGAR=1X;DP=404;DPB=404;DPRA=0;EPP=4.75178;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2820.31;PAIRED=0.90099;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13612;QR=0;RO=0;RPL=204;RPP=3.0963;RPPR=0;RPR=200;RUN=1;SAF=193;SAP=4.75178;SAR=211;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:404:0,404:0:0:404:13612:-1224.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
619 NC_000962 1428406 . G C 5476.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=178;CIGAR=1X;DP=179;DPB=179;DPRA=0;EPP=17.1127;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1261.07;PAIRED=0.983146;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=6124;QR=36;RO=1;RPL=94;RPP=4.23023;RPPR=5.18177;RPR=84;RUN=1;SAF=88;SAP=3.0591;SAR=90;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:425:0,425:0:0:425:14798:-1331.41,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
620 NC_000962 1440469 . C G 3787.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=8.68415;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=872.065;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4206;QR=0;RO=0;RPL=55;RPP=6.44263;RPPR=0;RPR=69;RUN=1;SAF=58;SAP=4.13106;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:513:0,513:0:0:513:18022:-1621.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
621 NC_000962 1445781 . A G 2569.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=86;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=3.1113;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=591.692;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2855;QR=0;RO=0;RPL=36;RPP=7.95924;RPPR=0;RPR=50;RUN=1;SAF=28;SAP=25.735;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:443:1,442:1:20:442:15349:-1379.04,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
622 NC_000962 1457144 . C T 2522.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=11.8048;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=580.806;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2800;QR=0;RO=0;RPL=37;RPP=3.98746;RPPR=0;RPR=43;RUN=1;SAF=44;SAP=4.74748;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:492:0,491:0:0:491:17146:-1542.31,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
623 NC_000962 1468208 . A C 1836.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=61;CIGAR=1X;DP=61;DPB=61;DPRA=0;EPP=5.89373;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=422.944;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2038;QR=0;RO=0;RPL=46;RPP=37.2199;RPPR=0;RPR=15;RUN=1;SAF=25;SAP=7.31765;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:204:0,204:0:0:204:6969:-627.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
624 NC_000962 1471659 . C T 1961.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=65;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=3.84548;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=451.643;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2179;QR=0;RO=0;RPL=28;RPP=5.71629;RPPR=0;RPR=37;RUN=1;SAF=26;SAP=8.65613;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:581:0,581:0:0:581:19695:-1772.04,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
625 NC_000962 1477596 . C T 2534.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=83;DPB=83;DPRA=0;EPP=12.4549;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=583.49;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2813;QR=0;RO=0;RPL=46;RPP=5.12945;RPPR=0;RPR=37;RUN=1;SAF=60;SAP=38.8265;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:551:0,551:0:0:551:19213:-1728.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
626 NC_000962 1479085 . T C 3905.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=13.6967;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=899.191;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4337;QR=0;RO=0;RPL=74;RPP=10.5506;RPPR=0;RPR=53;RUN=1;SAF=52;SAP=12.0553;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:461:0,461:0:0:461:15865:-1427.48,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
627 NC_000962 1482627 . T C 3316.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=23.2247;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=763.72;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3683;QR=0;RO=0;RPL=50;RPP=4.98437;RPPR=0;RPR=60;RUN=1;SAF=71;SAP=23.2247;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:373:0,373:0:0:373:12830:-1154.37,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
628 NC_000962 1484708 . A C 3459.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=3.30981;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=796.662;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3882;QR=36;RO=1;RPL=52;RPP=5.70592;RPPR=5.18177;RPR=64;RUN=1;SAF=54;SAP=4.20835;SAR=62;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:416:0,416:0:0:416:14522:-1306.61,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
629 NC_000962 1489253 . GC AT 309.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=10;CIGAR=2X;DP=10;DPB=10.5;DPRA=0;EPP=6.48466;EPPR=0;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=71.3503;PAIRED=0.6;PAIREDR=0;PAO=1;PQA=2;PQR=0;PRO=0;QA=339;QR=0;RO=0;RPL=10;RPP=24.725;RPPR=0;RPR=0;RUN=1;SAF=3;SAP=6.48466;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:10:0,10:0:0:10:339:-30.987,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
630 NC_000962 1490905 . A G 3060.78 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=105;DPB=105;DPRA=0;EPP=11.5259;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=704.771;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3402;QR=0;RO=0;RPL=41;RPP=11.5259;RPPR=0;RPR=61;RUN=1;SAF=54;SAP=3.7767;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:518:0,518:0:0:518:17700:-1592.53,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
631 NC_000962 1498951 . G T 3673 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=11.0575;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=845.74;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4079;QR=0;RO=0;RPL=62;RPP=3.46649;RPPR=0;RPR=57;RUN=1;SAF=66;SAP=6.09416;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:463:0,463:0:0:463:15832:-1424.42,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
632 NC_000962 1499274 . C G 3118.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=4.37279;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=718.034;PAIRED=0.990196;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3465;QR=0;RO=0;RPL=51;RPP=3.0103;RPPR=0;RPR=51;RUN=1;SAF=56;SAP=5.13919;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:377:0,377:0:0:377:13070:-1175.95,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
633 NC_000962 1501700 . G A 4305.47 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=143;CIGAR=1X;DP=143;DPB=143;DPRA=0;EPP=7.3988;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=991.371;PAIRED=0.993007;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4782;QR=0;RO=0;RPL=59;RPP=12.501;RPPR=0;RPR=84;RUN=1;SAF=93;SAP=31.0876;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:378:0,378:0:0:378:12708:-1143.6,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
634 NC_000962 1526311 . G T 2506.19 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=83;DPB=83;DPRA=0;EPP=3.66436;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=577.072;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2782;QR=0;RO=0;RPL=46;RPP=5.12945;RPPR=0;RPR=37;RUN=1;SAF=51;SAP=12.4549;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:680:0,680:0:0:680:24316:-2187.35,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
635 NC_000962 1526819 . C A 3261 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=105;CIGAR=1X;DP=105;DPB=105;DPRA=0;EPP=10.476;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=750.873;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3621;QR=0;RO=0;RPL=39;RPP=18.0865;RPPR=0;RPR=66;RUN=1;SAF=57;SAP=4.68544;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:561:0,561:0:0:561:19677:-1770.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
636 NC_000962 1533241 . G C 1657.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=53;CIGAR=1X;DP=53;DPB=53;DPRA=0;EPP=32.8783;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=381.7;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1839;QR=0;RO=0;RPL=53;RPP=118.098;RPPR=0;RPR=0;RUN=1;SAF=13;SAP=32.8783;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:53:0,53:0:0:53:1839:-165.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
637 NC_000962 1533241 . GGT CGT 917.474 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=31;CIGAR=1X2M;DP=33;DPB=33.3333;DPRA=0;EPP=4.76149;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=200.903;PAIRED=1;PAIREDR=0;PAO=0.5;PQA=7;PQR=0;PRO=0;QA=1020;QR=0;RO=0;RPL=31;RPP=70.3259;RPPR=0;RPR=0;RUN=1;SAF=13;SAP=4.76149;SAR=18;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:33:0,31:0:0:31:1020:-91.7474,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
638 NC_000962 1533583 . G A 1567 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=50;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=14.1282;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=360.815;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1738;QR=0;RO=0;RPL=13;RPP=28.0257;RPPR=0;RPR=37;RUN=1;SAF=10;SAP=42.0968;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:76:0,76:0:0:76:2635:-237.379,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
639 NC_000962 1535007 . T C 1890.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1X;DP=63;DPB=63;DPRA=0;EPP=3.04477;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=435.376;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2098;QR=0;RO=0;RPL=32;RPP=3.04477;RPPR=0;RPR=31;RUN=1;SAF=33;SAP=3.32051;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:394:0,394:0:0:394:13548:-1219,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
640 NC_000962 1536251 . G T 3969.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=8.50684;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=914.1;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4409;QR=0;RO=0;RPL=66;RPP=3.28173;RPPR=0;RPR=62;RUN=1;SAF=59;SAP=4.70676;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:445:0,445:0:0:445:15326:-1378.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
641 NC_000962 1540141 . T C 3273.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=109;DPB=109;DPRA=0;EPP=3.50834;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=753.78;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3635;QR=0;RO=0;RPL=48;RPP=6.37708;RPPR=0;RPR=61;RUN=1;SAF=46;SAP=8.76769;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:416:0,416:0:0:416:14989:-1348.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
642 NC_000962 1541798 . C T 1923.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1X;DP=63;DPB=63;DPRA=0;EPP=3.04477;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=442.843;PAIRED=0.555556;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2134;QR=0;RO=0;RPL=32;RPP=3.04477;RPPR=0;RPR=31;RUN=1;SAF=29;SAP=3.872;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:467:0,467:0:0:467:15301:-1376.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
643 NC_000962 1544255 . C T 1743.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=56;CIGAR=1X;DP=56;DPB=56;DPRA=0;EPP=5.49198;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=401.411;PAIRED=0.946429;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1934;QR=0;RO=0;RPL=25;RPP=4.40625;RPPR=0;RPR=31;RUN=1;SAF=35;SAP=10.6105;SAR=21;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:527:0,527:0:0:527:18092:-1627.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
644 NC_000962 1546703 . C T 2614.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=86;CIGAR=1X;DP=86;DPB=86;DPRA=0;EPP=3.41429;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=601.927;PAIRED=0.976744;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2902;QR=0;RO=0;RPL=43;RPP=3.0103;RPPR=0;RPR=43;RUN=1;SAF=48;SAP=5.53527;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:311:0,311:0:0:311:10515:-946.192,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
645 NC_000962 1547125 . T C 2357.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=75;CIGAR=1X;DP=75;DPB=75;DPRA=0;EPP=4.429;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=542.892;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2617;QR=0;RO=0;RPL=29;RPP=11.3777;RPPR=0;RPR=46;RUN=1;SAF=30;SAP=9.52472;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:620:0,620:0:0:620:22430:-2017.69,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
646 NC_000962 1552547 . G A 4521.95 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=147;CIGAR=1X;DP=148;DPB=148;DPRA=0;EPP=5.50675;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1041.22;PAIRED=0.993197;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5025;QR=0;RO=0;RPL=65;RPP=7.27939;RPPR=0;RPR=82;RUN=1;SAF=46;SAP=47.6954;SAR=101;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:466:0,466:0:0:466:16184:-1456.03,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
647 NC_000962 1556787 . T C 3235.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=4.32138;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=745.08;PAIRED=0.990566;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3593;QR=0;RO=0;RPL=47;RPP=5.96022;RPPR=0;RPR=59;RUN=1;SAF=38;SAP=21.4473;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:429:1,428:1:35:428:15093:-1354.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
648 NC_000962 1559237 . G T 7550.71 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=260;CIGAR=1X;DP=260;DPB=260;DPRA=0;EPP=3.04371;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1738.62;PAIRED=0.865385;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8389;QR=0;RO=0;RPL=143;RPP=8.65613;RPPR=0;RPR=117;RUN=1;SAF=56;SAP=185.948;SAR=204;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:260:0,260:0:0:260:8389:-755.071,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
649 NC_000962 1561939 . G C 2100.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=72;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=483.646;PAIRED=0.986111;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2331;QR=0;RO=0;RPL=32;RPP=4.9405;RPPR=0;RPR=40;RUN=1;SAF=30;SAP=7.35324;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:444:0,444:0:0:444:15304:-1376.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
650 NC_000962 1563717 . C T 3100.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=3.80798;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=713.83;PAIRED=0.989796;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3445;QR=0;RO=0;RPL=47;RPP=3.36483;RPPR=0;RPR=51;RUN=1;SAF=47;SAP=3.36483;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:507:0,507:0:0:507:17857:-1606.46,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
651 NC_000962 1570566 . C A 3419.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=3.70827;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=787.322;PAIRED=0.991071;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3797;QR=0;RO=0;RPL=53;RPP=3.70827;RPPR=0;RPR=59;RUN=1;SAF=58;SAP=3.32051;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:478:0,478:0:0:478:16670:-1499.8,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
652 NC_000962 1573660 . T G 1853.99 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=60;CIGAR=1X;DP=60;DPB=60;DPRA=0;EPP=4.31318;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=426.898;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2057;QR=0;RO=0;RPL=25;RPP=6.62942;RPPR=0;RPR=35;RUN=1;SAF=48;SAP=49.9141;SAR=12;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:432:0,432:0:0:432:15665:-1409.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
653 NC_000962 1576481 . T G 3421.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=3.18637;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=787.741;PAIRED=0.972973;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3799;QR=0;RO=0;RPL=49;RPP=6.31642;RPPR=0;RPR=62;RUN=1;SAF=56;SAP=3.02986;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:622:0,622:0:0:622:21306:-1916.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
654 NC_000962 1576527 . G T 3797.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=3.02795;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=874.325;PAIRED=0.98374;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4217;QR=0;RO=0;RPL=66;RPP=4.44029;RPPR=0;RPR=57;RUN=1;SAF=57;SAP=4.44029;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:514:0,514:0:0:514:18344:-1650.31,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
655 NC_000962 1577241 . G A 3471.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=4.56684;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=799.341;PAIRED=0.99115;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3855;QR=0;RO=0;RPL=52;RPP=4.56684;RPPR=0;RPR=61;RUN=1;SAF=68;SAP=13.1759;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:456:0,455:0:0:455:15890:-1429.42,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
656 NC_000962 1588899 . G T 3467.03 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=5.70592;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=798.313;PAIRED=0.991379;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3850;QR=0;RO=0;RPL=52;RPP=5.70592;RPPR=0;RPR=64;RUN=1;SAF=48;SAP=10.4981;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:503:0,503:0:0:503:17955:-1615.21,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
657 NC_000962 1593331 . G A 2151.77 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=1X;DP=69;DPB=69;DPRA=0;EPP=16.8888;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=495.463;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2388;QR=0;RO=0;RPL=37;RPP=3.79707;RPPR=0;RPR=32;RUN=1;SAF=18;SAP=37.2818;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:337:0,337:0:0:337:10864:-977.622,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
658 NC_000962 1594906 . G A 2951.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=7.44372;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=679.511;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3279;QR=0;RO=0;RPL=59;RPP=13.9581;RPPR=0;RPR=37;RUN=1;SAF=52;SAP=4.45795;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:468:0,468:0:0:468:16594:-1492.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
659 NC_000962 1595342 . T C 2717.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=7.84676;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=625.798;PAIRED=0.977273;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3020;QR=0;RO=0;RPL=44;RPP=3.0103;RPPR=0;RPR=44;RUN=1;SAF=41;SAP=3.89863;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:399:1,398:1:30:398:13983:-1255.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
660 NC_000962 1606673 . G T 3647.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=3.91972;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=839.943;PAIRED=0.991453;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4051;QR=0;RO=0;RPL=71;RPP=14.61;RPPR=0;RPR=46;RUN=1;SAF=66;SAP=7.18621;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:439:0,439:0:0:439:15004:-1350.08,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
661 NC_000962 1608276 . A C 2214.72 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=71;CIGAR=1X;DP=71;DPB=71;DPRA=0;EPP=3.04088;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=509.957;PAIRED=0.985915;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2458;QR=0;RO=0;RPL=32;RPP=4.50892;RPPR=0;RPR=39;RUN=1;SAF=43;SAP=9.89173;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:527:2,525:2:56:525:18043:-1618.19,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
662 NC_000962 1609840 . A G 4657.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=153;CIGAR=1X;DP=153;DPB=153;DPRA=0;EPP=3.70574;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1072.36;PAIRED=0.980392;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5173;QR=0;RO=0;RPL=71;RPP=4.72761;RPPR=0;RPR=82;RUN=1;SAF=97;SAP=26.8681;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:429:0,429:0:0:429:14820:-1333.47,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
663 NC_000962 1613035 . T C 1669.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=55;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=7.78754;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=384.419;PAIRED=0.981818;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1852;QR=0;RO=0;RPL=28;RPP=3.04978;RPPR=0;RPR=27;RUN=1;SAF=23;SAP=6.20829;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:476:0,476:0:0:476:17150:-1542.73,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
664 NC_000962 1616061 . C T 3578.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=12.0706;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=823.941;PAIRED=0.982759;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3976;QR=0;RO=0;RPL=51;RPP=6.67934;RPPR=0;RPR=65;RUN=1;SAF=70;SAP=13.7928;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:459:0,459:0:0:459:15825:-1423.8,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
665 NC_000962 1617302 . G T 3553.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=4.9151;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=818.188;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3946;QR=0;RO=0;RPL=53;RPP=4.22937;RPPR=0;RPR=61;RUN=1;SAF=49;SAP=7.88659;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:524:0,523:0:0:523:18318:-1647.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
666 NC_000962 1618978 . T C 1872.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=61;CIGAR=1X;DP=61;DPB=61;DPRA=0;EPP=7.31765;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=431.249;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2078;QR=0;RO=0;RPL=26;RPP=5.89373;RPPR=0;RPR=35;RUN=1;SAF=56;SAP=95.6005;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:194:0,194:0:0:194:6790:-611.064,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
667 NC_000962 1620181 . C G 4112.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1X;DP=137;DPB=137;DPRA=0;EPP=3.5851;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=946.846;PAIRED=0.992647;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4597;QR=27;RO=1;RPL=70;RPP=3.26577;RPPR=5.18177;RPR=66;RUN=1;SAF=75;SAP=6.13977;SAR=61;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:385:0,385:0:0:385:13702:-1232.74,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
668 NC_000962 1624791 . C G 4269.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=139;CIGAR=1X;DP=139;DPB=139;DPRA=0;EPP=3.1509;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=983.083;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4742;QR=0;RO=0;RPL=68;RPP=3.1509;RPPR=0;RPR=71;RUN=1;SAF=70;SAP=3.02592;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:279:0,279:0:0:279:9392:-845.202,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
669 NC_000962 1625332 . CGGTGGTGGTGGTGTC CGGTGGTGGTGGTGGTGTC 1574.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=54;CIGAR=1M3I15M;DP=58;DPB=68.3125;DPRA=0;EPP=3.17115;EPPR=5.18177;GTI=0;LEN=3;MEANALT=3;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=362.441;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=1777;QR=28;RO=1;RPL=31;RPP=5.5839;RPPR=5.18177;RPR=23;RUN=1;SAF=23;SAP=5.5839;SAR=31;SRF=0;SRP=5.18177;SRR=1;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:316:3,308:3:97:308:9914:-883.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
670 NC_000962 1627351 . T C 3403.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=5.80219;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=783.604;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3779;QR=0;RO=0;RPL=62;RPP=5.80219;RPPR=0;RPR=50;RUN=1;SAF=70;SAP=18.2106;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:438:1,437:1:31:437:15345:-1377.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
671 NC_000962 1630148 . A C 3192.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=105;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=8.98702;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=735.021;PAIRED=0.990476;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3547;QR=0;RO=0;RPL=59;RPP=6.50534;RPPR=0;RPR=46;RUN=1;SAF=50;SAP=3.52732;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:469:0,469:0:0:469:16156:-1453.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
672 NC_000962 1636172 . TCCGCCGCCGCCA TCCGCCGCCGCCGCCA 3990.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=143;CIGAR=1M3I12M;DP=154;DPB=187.846;DPRA=0;EPP=3.75437;EPPR=0;GTI=0;LEN=3;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=918.747;PAIRED=0.622378;PAIREDR=0;PAO=0.5;PQA=1;PQR=1;PRO=0.5;QA=4435;QR=0;RO=0;RPL=26;RPP=128.758;RPPR=0;RPR=117;RUN=1;SAF=95;SAP=36.5542;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:154:0,143:0:0:143:4435:-399.007,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
673 NC_000962 1636826 . C A 1965.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1X;DP=63;DPB=63;DPRA=0;EPP=10.7656;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=452.584;PAIRED=0.984127;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2181;QR=0;RO=0;RPL=41;RPP=15.4532;RPPR=0;RPR=22;RUN=1;SAF=8;SAP=79.1497;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:238:0,238:0:0:238:7578:-682.07,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
674 NC_000962 1636918 . C T 843.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=29;CIGAR=1X;DP=31;DPB=31;DPRA=0;EPP=12.0706;EPPR=7.35324;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=194.163;PAIRED=1;PAIREDR=0.5;PAO=0;PQA=0;PQR=0;PRO=0;QA=1000;QR=63;RO=2;RPL=23;RPP=24.6501;RPPR=7.35324;RPR=6;RUN=1;SAF=3;SAP=42.621;SAR=26;SRF=0;SRP=7.35324;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:31:2,29:2:63:29:1000:-84.324,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
675 NC_000962 1637192 . G A 834.646 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=28;CIGAR=1X;DP=28;DPB=28;DPRA=0;EPP=14.1779;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=192.184;PAIRED=0.964286;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=924;QR=0;RO=0;RPL=28;RPP=63.8115;RPPR=0;RPR=0;RUN=1;SAF=20;SAP=14.1779;SAR=8;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:28:0,28:0:0:28:924:-83.4646,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
676 NC_000962 1637197 . T C 591.568 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=21;CIGAR=1X;DP=21;DPB=21;DPRA=0;EPP=11.386;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=136.214;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=654;QR=0;RO=0;RPL=21;RPP=48.6112;RPPR=0;RPR=0;RUN=1;SAF=15;SAP=11.386;SAR=6;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:21:0,21:0:0:21:654:-59.1568,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
677 NC_000962 1638364 . C T 2357.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=83;DPB=83;DPRA=0;EPP=8.33041;EPPR=9.52472;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=542.906;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2729;QR=108;RO=3;RPL=34;RPP=6.91895;RPPR=3.73412;RPR=46;RUN=1;SAF=39;SAP=3.11887;SAR=41;SRF=1;SRP=3.73412;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:232:0,232:0:0:232:8467:-761.821,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
678 NC_000962 1639594 . C A 3632.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=3.0103;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=836.409;PAIRED=0.991525;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4064;QR=27;RO=1;RPL=57;RPP=3.30474;RPPR=5.18177;RPR=61;RUN=1;SAF=80;SAP=35.472;SAR=38;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:393:0,393:0:0:393:13568:-1220.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
679 NC_000962 1643864 . T C 4503.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=144;CIGAR=1X;DP=145;DPB=145;DPRA=0;EPP=5.18177;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1036.94;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5005;QR=0;RO=0;RPL=72;RPP=3.0103;RPPR=0;RPR=72;RUN=1;SAF=62;SAP=9.04217;SAR=82;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:441:1,440:1:30:440:15482:-1389.87,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
680 NC_000962 1645802 . T C 3090.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=6.5732;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=711.645;PAIRED=0.990291;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3434;QR=0;RO=0;RPL=34;RPP=28.8361;RPPR=0;RPR=69;RUN=1;SAF=60;SAP=9.10307;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:548:0,548:0:0:548:18624:-1675.66,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
681 NC_000962 1647436 . G A 1433.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=46;CIGAR=1X;DP=46;DPB=46;DPRA=0;EPP=6.03148;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=330.157;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1590;QR=0;RO=0;RPL=25;RPP=3.76559;RPPR=0;RPR=21;RUN=1;SAF=16;SAP=12.2627;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:670:0,670:0:0:670:24533:-2206.72,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
682 NC_000962 1650072 . A G 5804.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=192;CIGAR=1X;DP=192;DPB=192;DPRA=0;EPP=22.9607;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1336.49;PAIRED=0.989583;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6448;QR=0;RO=0;RPL=93;RPP=3.41745;RPPR=0;RPR=99;RUN=1;SAF=72;SAP=29.068;SAR=120;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:404:0,404:0:0:404:13869:-1247.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
683 NC_000962 1651308 . A G 4105.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=134;CIGAR=1X;DP=136;DPB=136;DPRA=0;EPP=10.8535;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=945.216;PAIRED=0.992537;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4562;QR=0;RO=0;RPL=58;RPP=8.26073;RPPR=0;RPR=76;RUN=1;SAF=78;SAP=10.8535;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:554:0,554:0:0:554:19571:-1760.65,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
684 NC_000962 1669158 . T C 2689.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=3.109;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=619.332;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2986;QR=0;RO=0;RPL=44;RPP=3.0103;RPPR=0;RPR=44;RUN=1;SAF=41;SAP=3.89863;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:420:0,420:0:0:420:14832:-1334.41,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
685 NC_000962 1676290 . C A 4013.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=4.39525;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=924.04;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4457;QR=0;RO=0;RPL=69;RPP=5.07918;RPPR=0;RPR=58;RUN=1;SAF=52;SAP=12.0553;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:444:0,444:0:0:444:15467:-1391.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
686 NC_000962 1678706 . A C 3720.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=120;DPB=120;DPRA=0;EPP=4.48836;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=856.579;PAIRED=0.991597;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4134;QR=0;RO=0;RPL=73;RPP=16.3128;RPPR=0;RPR=46;RUN=1;SAF=56;SAP=3.90444;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:379:0,378:0:0:378:13069:-1175.63,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
687 NC_000962 1688064 . A G 4350.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=144;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=11.6962;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1001.74;PAIRED=0.993056;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4832;QR=0;RO=0;RPL=69;RPP=3.55317;RPPR=0;RPR=75;RUN=1;SAF=81;SAP=7.89611;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:388:0,388:0:0:388:13492:-1214,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
688 NC_000962 1688300 . T C 4631.18 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=152;CIGAR=1X;DP=152;DPB=152;DPRA=0;EPP=6.66752;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1066.37;PAIRED=0.986842;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5144;QR=0;RO=0;RPL=89;RPP=12.6676;RPPR=0;RPR=63;RUN=1;SAF=87;SAP=9.92473;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:351:0,351:0:0:351:12148:-1093.02,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
689 NC_000962 1689349 . C T 2779.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=90;DPB=90;DPRA=0;EPP=3.22989;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=640.114;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3089;QR=0;RO=0;RPL=49;RPP=4.98658;RPPR=0;RPR=40;RUN=1;SAF=40;SAP=4.98658;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:524:0,524:0:0:524:18225:-1639.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
690 NC_000962 1692141 . A C 1474.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=48;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=339.474;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1635;QR=0;RO=0;RPL=19;RPP=7.5342;RPPR=0;RPR=29;RUN=1;SAF=27;SAP=4.6389;SAR=21;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:921:0,921:0:0:921:33386:-3002.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
691 NC_000962 1693561 . A G 1351.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=43;CIGAR=1X;DP=43;DPB=43;DPRA=0;EPP=5.48477;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=311.106;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1498;QR=0;RO=0;RPL=21;RPP=3.0608;RPPR=0;RPR=22;RUN=1;SAF=22;SAP=3.0608;SAR=21;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:643:0,643:0:0:643:22223:-1999.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
692 NC_000962 1695037 . G A 2380.27 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=77;CIGAR=1X;DP=77;DPB=77;DPRA=0;EPP=3.71532;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=548.077;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2642;QR=0;RO=0;RPL=39;RPP=3.0385;RPPR=0;RPR=38;RUN=1;SAF=28;SAP=15.4469;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:696:1,695:1:21:695:22935:-2061.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
693 NC_000962 1695796 . C T 1925.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1X;DP=64;DPB=64;DPRA=0;EPP=4.69922;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=443.296;PAIRED=0.984127;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2139;QR=0;RO=0;RPL=31;RPP=3.04477;RPPR=0;RPR=32;RUN=1;SAF=33;SAP=3.32051;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:657:0,656:0:0:656:22276:-2003.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
694 NC_000962 1696671 . CAAAAACCCG CAAAACCCG 12222.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=438;CIGAR=1M1D8M;DP=463;DPB=421;DPRA=0;EPP=3.50607;EPPR=5.18177;GTI=0;LEN=1;MEANALT=6;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=2814.41;PAIRED=0.90411;PAIREDR=1;PAO=17;PQA=452;PQR=452;PRO=17;QA=13604;QR=20;RO=1;RPL=209;RPP=4.99338;RPPR=5.18177;RPR=229;RUN=1;SAF=279;SAP=74.4012;SAR=159;SRF=0;SRP=5.18177;SRR=1;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:463:1,438:1:20:438:13604:-1222.28,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
695 NC_000962 1697727 . C T 18879 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=600;CIGAR=1X;DP=600;DPB=600;DPRA=0;EPP=18.7752;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=4347.05;PAIRED=0.903333;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20985;QR=0;RO=0;RPL=317;RPP=7.194;RPPR=0;RPR=283;RUN=1;SAF=292;SAP=3.93679;SAR=308;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:600:0,600:0:0:600:20985:-1887.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
696 NC_000962 1697896 . C T 1670.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=55;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=6.20829;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=384.625;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1853;QR=0;RO=0;RPL=29;RPP=3.36563;RPPR=0;RPR=26;RUN=1;SAF=30;SAP=3.99733;SAR=25;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:637:0,636:0:0:636:22146:-1992.08,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
697 NC_000962 1698911 . G A 1938.53 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1X;DP=63;DPB=63;DPRA=0;EPP=3.32051;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=446.362;PAIRED=0.984127;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2151;QR=0;RO=0;RPL=33;RPP=3.32051;RPPR=0;RPR=30;RUN=1;SAF=36;SAP=5.80219;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:0,509:0:0:509:17384:-1563.99,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
698 NC_000962 1699849 . G A 2318.18 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=74;CIGAR=1X;DP=74;DPB=74;DPRA=0;EPP=10.5224;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=533.78;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2573;QR=0;RO=0;RPL=31;RPP=7.23587;RPPR=0;RPR=43;RUN=1;SAF=34;SAP=4.06669;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:540:0,540:0:0:540:18894:-1699.83,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
699 NC_000962 1701215 . C T 1667.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=55;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=6.20829;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=384.001;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1850;QR=0;RO=0;RPL=30;RPP=3.99733;RPPR=0;RPR=25;RUN=1;SAF=38;SAP=20.4216;SAR=17;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:690:0,690:0:0:690:24364:-2191.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
700 NC_000962 1701684 . G A 3235.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=105;CIGAR=1X;DP=105;DPB=105;DPRA=0;EPP=7.66346;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=745.069;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3593;QR=0;RO=0;RPL=59;RPP=6.50534;RPPR=0;RPR=46;RUN=1;SAF=41;SAP=13.9504;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:401:0,401:0:0:401:13759:-1237.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
701 NC_000962 1706119 . T C 2362.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=78;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=544.068;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2625;QR=0;RO=0;RPL=42;RPP=4.01252;RPPR=0;RPR=36;RUN=1;SAF=39;SAP=3.0103;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:533:0,533:0:0:533:19277:-1734.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
702 NC_000962 1706685 . C A 1973.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=65;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=5.71629;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=454.445;PAIRED=0.953846;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2220;QR=27;RO=1;RPL=36;RPP=4.64726;RPPR=5.18177;RPR=29;RUN=1;SAF=13;SAP=53.8228;SAR=52;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:506:0,506:0:0:506:17972:-1616.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
703 NC_000962 1709432 . C T 2417.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=5.23675;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=556.66;PAIRED=0.987342;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2719;QR=32;RO=1;RPL=44;RPP=5.23675;RPPR=5.18177;RPR=35;RUN=1;SAF=36;SAP=4.35716;SAR=43;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:614:1,613:1:25:613:21733:-1952.59,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
704 NC_000962 1711670 . C T 3620.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=7.72129;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=833.724;PAIRED=0.991525;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4021;QR=0;RO=0;RPL=60;RPP=3.08391;RPPR=0;RPR=58;RUN=1;SAF=59;SAP=3.0103;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:562:0,562:0:0:562:20103:-1808.43,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
705 NC_000962 1713192 . A G 2338.37 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=78;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=3.45573;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=538.43;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2599;QR=0;RO=0;RPL=53;RPP=24.8364;RPPR=0;RPR=25;RUN=1;SAF=44;SAP=5.79424;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:518:0,518:0:0:518:17830:-1604.1,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
706 NC_000962 1715165 . G C 1416.68 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=47;CIGAR=1X;DP=47;DPB=47;DPRA=0;EPP=3.42611;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=326.202;PAIRED=0.87234;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1571;QR=0;RO=0;RPL=21;RPP=4.16534;RPPR=0;RPR=26;RUN=1;SAF=26;SAP=4.16534;SAR=21;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:610:0,609:0:0:609:21605:-1943.31,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
707 NC_000962 1716472 . A G 3036.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=4.75178;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=699.093;PAIRED=0.990099;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3371;QR=0;RO=0;RPL=42;RPP=9.22372;RPPR=0;RPR=59;RUN=1;SAF=53;SAP=3.54779;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,480:0:0:480:16381:-1473.79,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
708 NC_000962 1722200 . C G 2176.94 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=75;CIGAR=1X;DP=75;DPB=75;DPRA=0;EPP=6.51361;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=501.259;PAIRED=0.986667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2416;QR=0;RO=0;RPL=26;RPP=18.3264;RPPR=0;RPR=49;RUN=1;SAF=33;SAP=5.35549;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:398:0,398:0:0:398:13240:-1191.35,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
709 NC_000962 1722228 . A C 1960.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=67;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=38.3048;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=451.322;PAIRED=0.970149;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2175;QR=0;RO=0;RPL=18;RPP=34.1563;RPPR=0;RPR=49;RUN=1;SAF=36;SAP=3.82055;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:381:0,381:0:0:381:13230:-1190.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
710 NC_000962 1728837 . A G 2028.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=67;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=4.59839;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=467.074;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2251;QR=0;RO=0;RPL=34;RPP=3.04271;RPPR=0;RPR=33;RUN=1;SAF=44;SAP=17.3031;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:657:1,656:1:22:656:23288:-2092.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
711 NC_000962 1733134 . C T 2225.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=71;CIGAR=1X;DP=71;DPB=71;DPRA=0;EPP=3.7749;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=512.45;PAIRED=0.985915;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2470;QR=0;RO=0;RPL=33;RPP=3.7749;RPPR=0;RPR=38;RUN=1;SAF=35;SAP=3.04088;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:556:0,556:0:0:556:19472:-1751.86,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
712 NC_000962 1733325 . C G 2925.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=3.55865;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=673.53;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3250;QR=0;RO=0;RPL=56;RPP=6.71716;RPPR=0;RPR=43;RUN=1;SAF=46;SAP=4.08507;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:506:0,506:0:0:506:17540:-1578.1,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
713 NC_000962 1741352 . C T 5221.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=166;CIGAR=1X;DP=167;DPB=167;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1202.36;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5803;QR=0;RO=0;RPL=74;RPP=7.2486;RPPR=0;RPR=92;RUN=1;SAF=95;SAP=10.545;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:352:0,352:0:0:352:11900:-1070.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
714 NC_000962 1752561 . T C 1499.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=53;CIGAR=1X;DP=54;DPB=54;DPRA=0;EPP=24.6841;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=345.305;PAIRED=0.981132;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1666;QR=0;RO=0;RPL=22;RPP=6.32897;RPPR=0;RPR=31;RUN=1;SAF=32;SAP=7.96781;SAR=21;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:445:1,444:1:32:444:15475:-1389.1,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
715 NC_000962 1753519 . GCCCCGT GCCCCCGT 6036.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=206;CIGAR=1M1I6M;DP=213;DPB=242.714;DPRA=0;EPP=11.2745;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1390.02;PAIRED=0.84466;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6710;QR=0;RO=0;RPL=91;RPP=9.08199;RPPR=0;RPR=115;RUN=1;SAF=106;SAP=3.38978;SAR=100;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:213:0,206:0:0:206:6710:-603.679,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
716 NC_000962 1756358 . CGGGCA CGGCA 2843.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1M1D4M;DP=99;DPB=82.5;DPRA=0;EPP=4.13032;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=654.785;PAIRED=0.989474;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3160;QR=0;RO=0;RPL=53;RPP=5.77607;RPPR=0;RPR=42;RUN=1;SAF=63;SAP=24.9765;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:444:0,444:0:0:444:14764:-1328.47,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
717 NC_000962 1759252 . G T 2288.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=75;CIGAR=1X;DP=75;DPB=75;DPRA=0;EPP=3.73412;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=526.943;PAIRED=0.96;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2540;QR=0;RO=0;RPL=42;RPP=5.35549;RPPR=0;RPR=33;RUN=1;SAF=30;SAP=9.52472;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:540:0,540:0:0:540:18894:-1699.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
718 NC_000962 1760292 . A G 2732.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=90;DPB=90;DPRA=0;EPP=4.98658;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=629.2;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3036;QR=0;RO=0;RPL=44;RPP=3.0347;RPPR=0;RPR=45;RUN=1;SAF=27;SAP=32.8985;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:510:0,510:0:0:510:17682:-1590.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
719 NC_000962 1770944 . AC AT 1664.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=55;CIGAR=1M1X;DP=55;DPB=55;DPRA=0;EPP=6.20829;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=383.175;PAIRED=0.963636;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1846;QR=0;RO=0;RPL=29;RPP=3.36563;RPPR=0;RPR=26;RUN=1;SAF=20;SAP=11.8936;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:55:0,55:0:0:55:1846:-166.411,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
720 NC_000962 1770945 . C T 17731.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=547;CIGAR=1X;DP=548;DPB=548;DPRA=0;EPP=33.0576;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=4082.89;PAIRED=0.906764;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19714;QR=0;RO=0;RPL=310;RPP=24.1653;RPPR=0;RPR=237;RUN=1;SAF=315;SAP=30.3581;SAR=232;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:548:0,547:0:0:547:19714:-1773.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
721 NC_000962 1774659 . C T 2433.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=82;DPB=82;DPRA=0;EPP=4.74748;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=560.39;PAIRED=0.975;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2704;QR=0;RO=0;RPL=42;RPP=3.44459;RPPR=0;RPR=38;RUN=1;SAF=34;SAP=6.91895;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:644:1,643:1:36:643:22682:-2036.86,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
722 NC_000962 1778430 . T C 5824.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=190;CIGAR=1X;DP=190;DPB=190;DPRA=0;EPP=9.59329;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1341.25;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6471;QR=0;RO=0;RPL=97;RPP=3.19316;RPPR=0;RPR=93;RUN=1;SAF=106;SAP=8.54184;SAR=84;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:359:0,359:0:0:359:12394:-1115.17,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
723 NC_000962 1779279 . A T 427.854 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=15;CIGAR=1X;DP=15;DPB=15;DPRA=0;EPP=35.5824;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=98.517;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=472;QR=0;RO=0;RPL=15;RPP=35.5824;RPPR=0;RPR=0;RUN=1;SAF=0;SAP=35.5824;SAR=15;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:15:0,15:0:0:15:472:-42.7854,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
724 NC_000962 1792777 . TT CC 3471.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=2X;DP=117;DPB=117.5;DPRA=0;EPP=5.70592;EPPR=0;GTI=0;LEN=2;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=799.414;PAIRED=0.982759;PAIREDR=0;PAO=1;PQA=14;PQR=0;PRO=0;QA=3844;QR=0;RO=0;RPL=65;RPP=6.67934;RPPR=0;RPR=51;RUN=1;SAF=51;SAP=6.67934;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:415:0,413:0:0:413:14394:-1316.59,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
725 NC_000962 1798355 . G A 3487.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=4.59489;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=803.071;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3873;QR=0;RO=0;RPL=53;RPP=3.49937;RPPR=0;RPR=58;RUN=1;SAF=51;SAP=4.59489;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:408:0,408:0:0:408:13415:-1207.17,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
726 NC_000962 1803265 . G A 2980.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=3.56996;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=686.235;PAIRED=0.989691;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3309;QR=0;RO=0;RPL=56;RPP=8.04722;RPPR=0;RPR=41;RUN=1;SAF=45;SAP=4.10723;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:484:0,484:0:0:484:17500:-1574.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
727 NC_000962 1804409 . C A 3902.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=3.28604;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=898.602;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4337;QR=0;RO=0;RPL=70;RPP=6.38815;RPPR=0;RPR=56;RUN=1;SAF=59;SAP=4.11327;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:437:0,437:0:0:437:14870:-1337.93,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
728 NC_000962 1811375 . G T 2915.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=6.33681;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=671.327;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3237;QR=0;RO=0;RPL=53;RPP=6.33681;RPPR=0;RPR=41;RUN=1;SAF=46;SAP=3.1027;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:508:0,508:0:0:508:17857:-1606.45,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
729 NC_000962 1817976 . A T 3038.78 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=98;DPB=98;DPRA=0;EPP=3.36483;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=699.705;PAIRED=0.979592;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3374;QR=0;RO=0;RPL=63;RPP=20.3821;RPPR=0;RPR=35;RUN=1;SAF=46;SAP=3.80798;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:406:0,406:0:0:406:13847:-1245.88,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
730 NC_000962 1829557 . C T 2945.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=3.03316;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=678.161;PAIRED=0.968421;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3270;QR=0;RO=0;RPL=48;RPP=3.03316;RPPR=0;RPR=47;RUN=1;SAF=48;SAP=3.03316;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:454:0,454:0:0:454:16083:-1446.97,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
731 NC_000962 1831220 . A C 3777.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=17.3899;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=869.784;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4235;QR=36;RO=1;RPL=72;RPP=7.95168;RPPR=5.18177;RPR=55;RUN=1;SAF=66;SAP=3.43776;SAR=61;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:477:0,477:0:0:477:16438:-1478.99,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
732 NC_000962 1831226 . A G 3559.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=10.3712;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=819.545;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3955;QR=0;RO=0;RPL=63;RPP=4.18805;RPPR=0;RPR=55;RUN=1;SAF=68;SAP=8.97265;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:439:0,439:0:0:439:15008:-1350.39,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
733 NC_000962 1831288 . C T 3115.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=10.621;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=717.41;PAIRED=0.980583;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3463;QR=0;RO=0;RPL=45;RPP=6.5732;RPPR=0;RPR=58;RUN=1;SAF=52;SAP=3.03138;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:416:0,416:0:0:416:14391:-1294.91,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
734 NC_000962 1834177 . A C 3386.72 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=9.40627;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=779.821;PAIRED=0.981818;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3763;QR=0;RO=0;RPL=55;RPP=3.0103;RPPR=0;RPR=55;RUN=1;SAF=55;SAP=3.0103;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:548:0,548:0:0:548:19732:-1775.02,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
735 NC_000962 1836286 . G C 4380.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=142;CIGAR=1X;DP=143;DPB=143;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1008.66;PAIRED=0.992958;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4869;QR=0;RO=0;RPL=74;RPP=3.56081;RPPR=0;RPR=68;RUN=1;SAF=57;SAP=14.9993;SAR=85;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:390:0,390:0:0:390:13875:-1248.28,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
736 NC_000962 1839759 . G C 3888.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=5.49198;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=895.453;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4319;QR=0;RO=0;RPL=66;RPP=3.63072;RPPR=0;RPR=60;RUN=1;SAF=87;SAP=42.7172;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:446:1,445:1:27:445:15329:-1376.53,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
737 NC_000962 1844339 . A G 3304.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=4.2737;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=760.811;PAIRED=0.972727;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3669;QR=0;RO=0;RPL=50;RPP=4.98437;RPPR=0;RPR=60;RUN=1;SAF=61;SAP=5.85295;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:363:0,363:0:0:363:12794:-1151.05,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
738 NC_000962 1847919 . C G 4251.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=140;CIGAR=1X;DP=140;DPB=140;DPRA=0;EPP=9.21451;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=978.953;PAIRED=0.978571;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4722;QR=0;RO=0;RPL=71;RPP=3.07234;RPPR=0;RPR=69;RUN=1;SAF=91;SAP=30.3709;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:0,509:0:0:509:18286:-1645,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
739 NC_000962 1849051 . C T 3700.03 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=120;CIGAR=1X;DP=120;DPB=120;DPRA=0;EPP=13.4334;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=851.962;PAIRED=0.975;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4109;QR=0;RO=0;RPL=63;RPP=3.66174;RPPR=0;RPR=57;RUN=1;SAF=53;SAP=6.55704;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:470:0,470:0:0:470:16650:-1497.94,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
740 NC_000962 1849609 . T C 2732.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=4.20583;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=629.272;PAIRED=0.988764;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3034;QR=0;RO=0;RPL=42;RPP=3.62026;RPPR=0;RPR=47;RUN=1;SAF=56;SAP=15.9171;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:475:0,475:0:0:475:16409:-1476.32,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
741 NC_000962 1849934 . A G 3601.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=5.25601;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=829.171;PAIRED=0.991453;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3999;QR=0;RO=0;RPL=64;RPP=5.25601;RPPR=0;RPR=53;RUN=1;SAF=54;SAP=4.51363;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:472:0,472:0:0:472:16365:-1472.35,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
742 NC_000962 1854300 . T C 4449.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=146;CIGAR=1X;DP=146;DPB=146;DPRA=0;EPP=3.06979;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1024.52;PAIRED=0.979452;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4942;QR=0;RO=0;RPL=69;RPP=3.96218;RPPR=0;RPR=77;RUN=1;SAF=57;SAP=18.2404;SAR=89;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:382:0,381:0:0:381:13228:-1189.92,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
743 NC_000962 1856777 . G C 3610.94 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=4.48836;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=831.449;PAIRED=0.97479;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4010;QR=0;RO=0;RPL=54;RPP=5.21827;RPPR=0;RPR=65;RUN=1;SAF=83;SAP=43.3194;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:417:0,417:0:0:417:14897:-1340.18,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
744 NC_000962 1859559 . C A 2695.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=4.23331;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=620.578;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2992;QR=0;RO=0;RPL=52;RPP=10.2236;RPPR=0;RPR=35;RUN=1;SAF=40;SAP=4.23331;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:411:0,411:0:0:411:13902:-1250.88,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
745 NC_000962 1862466 . C T 3784.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=3.16919;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=871.432;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4203;QR=0;RO=0;RPL=67;RPP=5.14646;RPPR=0;RPR=56;RUN=1;SAF=62;SAP=3.02795;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:123:0,123:0:0:123:4203:-378.458,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
746 NC_000962 1876976 . C A 3475.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=6.74371;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=800.332;PAIRED=0.991228;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3862;QR=0;RO=0;RPL=53;RPP=4.22937;RPPR=0;RPR=61;RUN=1;SAF=63;SAP=5.75321;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:318:0,318:0:0:318:11134:-1001.8,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
747 NC_000962 1877744 . A C 3611.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=9.07545;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=831.666;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4011;QR=0;RO=0;RPL=70;RPP=13.7928;RPPR=0;RPR=46;RUN=1;SAF=39;SAP=30.0414;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:557:0,556:0:0:556:18879:-1698.16,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
748 NC_000962 1885385 . T G 2606.95 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=86;CIGAR=1X;DP=86;DPB=86;DPRA=0;EPP=5.53527;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=600.271;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2894;QR=0;RO=0;RPL=41;RPP=3.41429;RPPR=0;RPR=45;RUN=1;SAF=43;SAP=3.0103;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:539:0,539:0:0:539:18997:-1709.06,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
749 NC_000962 1885770 . GCG GCA 2150.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=71;CIGAR=2M1X;DP=76;DPB=76.6667;DPRA=0;EPP=8.17902;EPPR=0;GTI=0;LEN=1;MEANALT=5;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=495.079;PAIRED=1;PAIREDR=0;PAO=0.5;PQA=16;PQR=16;PRO=0.5;QA=2389;QR=0;RO=0;RPL=37;RPP=3.28556;RPPR=0;RPR=34;RUN=1;SAF=26;SAP=14.0512;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:76:0,71:0:0:71:2389:-215.01,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
750 NC_000962 1885772 . G A 12523.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=423;CIGAR=1X;DP=423;DPB=423;DPRA=0;EPP=11.6397;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2883.6;PAIRED=0.91253;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13917;QR=0;RO=0;RPL=224;RPP=6.21874;RPPR=0;RPR=199;RUN=1;SAF=166;SAP=45.5209;SAR=257;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:423:0,423:0:0:423:13917:-1252.33,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
751 NC_000962 1888373 . T C 2800.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=3.37991;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=644.812;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3109;QR=0;RO=0;RPL=43;RPP=4.48875;RPPR=0;RPR=51;RUN=1;SAF=64;SAP=29.7148;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:456:1,455:1:27:455:15496:-1391.53,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
752 NC_000962 1891388 . C G 15858.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=501;CIGAR=1X;DP=501;DPB=501;DPRA=0;EPP=5.71922;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3651.46;PAIRED=0.922156;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17627;QR=0;RO=0;RPL=271;RPP=10.2962;RPPR=0;RPR=230;RUN=1;SAF=185;SAP=77.3908;SAR=316;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:501:0,501:0:0:501:17627:-1585.81,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
753 NC_000962 1891388 . CC GC 2031.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=66;CIGAR=1X1M;DP=71;DPB=71;DPRA=0;EPP=4.19474;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=453.277;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2280;QR=23;RO=1;RPL=38;RPP=6.30041;RPPR=5.18177;RPR=28;RUN=1;SAF=50;SAP=41.044;SAR=16;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:71:1,66:1:23:66:2280:-203.151,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
754 NC_000962 1892017 . T C 2715.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=3.03416;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=625.346;PAIRED=0.978022;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3015;QR=0;RO=0;RPL=55;RPP=11.6246;RPPR=0;RPR=36;RUN=1;SAF=52;SAP=7.04303;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:494:1,493:1:39:493:17941:-1609.95,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
755 NC_000962 1894300 . GGC GGTCTTGCCGCGC 2491.01 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=90;CIGAR=1M10I2M;DP=92;DPB=392;DPRA=0;EPP=3.39634;EPPR=0;GTI=0;LEN=10;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=573.577;PAIRED=0.988889;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2768;QR=0;RO=0;RPL=51;RPP=6.48466;RPPR=0;RPR=39;RUN=1;SAF=54;SAP=10.8276;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:248:0,241:0:0:241:7703:-693.042,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
756 NC_000962 1894422 . A G 4034.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=133;CIGAR=1X;DP=135;DPB=135;DPRA=0;EPP=18.7004;EPPR=7.35324;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=929.021;PAIRED=0.977444;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4557;QR=72;RO=2;RPL=64;RPP=3.41847;RPPR=7.35324;RPR=69;RUN=1;SAF=67;SAP=3.02663;SAR=66;SRF=2;SRP=7.35324;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:415:0,415:0:0:415:14475:-1302.38,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
757 NC_000962 1901493 . T C 2787.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=7.04303;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=641.913;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3095;QR=0;RO=0;RPL=44;RPP=3.22506;RPPR=0;RPR=47;RUN=1;SAF=45;SAP=3.03416;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:507:0,507:0:0:507:17656:-1588.46,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
758 NC_000962 1902337 . A C 3590.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=3.68421;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=826.732;PAIRED=0.982759;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3991;QR=0;RO=0;RPL=54;RPP=4.20835;RPPR=0;RPR=62;RUN=1;SAF=67;SAP=9.07545;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:517:0,517:0:0:517:17799:-1601.47,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
759 NC_000962 1906078 . A G 3146.77 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=9.90792;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=724.571;PAIRED=0.990196;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3494;QR=0;RO=0;RPL=56;RPP=5.13919;RPPR=0;RPR=46;RUN=1;SAF=44;SAP=7.18293;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:464:1,463:1:29:463:15755:-1414.68,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
760 NC_000962 1907296 . G C 3139.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=9.10307;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=722.914;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3516;QR=27;RO=1;RPL=49;RPP=3.53736;RPPR=5.18177;RPR=54;RUN=1;SAF=59;SAP=7.75381;SAR=44;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:605:0,605:0:0:605:21073:-1895.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
761 NC_000962 1916137 . A G 4505.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=146;CIGAR=1X;DP=146;DPB=146;DPRA=0;EPP=5.15203;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1037.35;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5004;QR=0;RO=0;RPL=61;RPP=11.5772;RPPR=0;RPR=85;RUN=1;SAF=86;SAP=13.0645;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:407:0,407:0:0:407:14550:-1309.06,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
762 NC_000962 1917972 . A G 5176.01 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=167;CIGAR=1X;DP=168;DPB=168;DPRA=0;EPP=3.64744;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1191.82;PAIRED=0.982036;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5752;QR=0;RO=0;RPL=77;RPP=5.20778;RPPR=0;RPR=90;RUN=1;SAF=96;SAP=11.1371;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:408:0,408:0:0:408:14098:-1268.51,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
763 NC_000962 1924008 . G A 2417.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=78;CIGAR=1X;DP=78;DPB=78;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=556.563;PAIRED=0.974359;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2683;QR=0;RO=0;RPL=38;RPP=3.12166;RPPR=0;RPR=40;RUN=1;SAF=39;SAP=3.0103;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:559:0,559:0:0:559:19348:-1740.7,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
764 NC_000962 1931179 . C A 2824.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=3.86001;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=650.288;PAIRED=0.98913;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3138;QR=0;RO=0;RPL=38;RPP=9.05266;RPPR=0;RPR=54;RUN=1;SAF=51;SAP=5.3706;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:452:0,452:0:0:452:15587:-1402.45,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
765 NC_000962 1931718 . G C 3225.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=4.65412;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=742.786;PAIRED=0.981308;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3582;QR=0;RO=0;RPL=57;RPP=4.00471;RPPR=0;RPR=50;RUN=1;SAF=49;SAP=4.65412;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:400:0,400:0:0:400:13692:-1231.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
766 NC_000962 1933988 . G A 1599.37 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=52;CIGAR=1X;DP=52;DPB=52;DPRA=0;EPP=9.02361;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=368.269;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1774;QR=0;RO=0;RPL=28;RPP=3.67845;RPPR=0;RPR=24;RUN=1;SAF=18;SAP=13.7006;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:613:0,613:0:0:613:22126:-1990.37,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
767 NC_000962 1944107 . A G 3140.27 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=9.10307;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=723.073;PAIRED=0.990291;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3489;QR=0;RO=0;RPL=39;RPP=16.1867;RPPR=0;RPR=64;RUN=1;SAF=65;SAP=18.3793;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:427:0,427:0:0:427:14576:-1311.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
768 NC_000962 1944402 . T C 3527.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=4.9151;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=812.186;PAIRED=0.982456;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3917;QR=0;RO=0;RPL=50;RPP=6.74371;RPPR=0;RPR=64;RUN=1;SAF=62;SAP=4.9151;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:482:0,482:0:0:482:16727:-1504.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
769 NC_000962 1945950 . G T 5889.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=190;CIGAR=1X;DP=192;DPB=192;DPRA=0;EPP=3.19316;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1356.15;PAIRED=0.994737;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=6583;QR=36;RO=1;RPL=99;RPP=3.74174;RPPR=5.18177;RPR=91;RUN=1;SAF=94;SAP=3.05602;SAR=96;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:423:0,423:0:0:423:14534:-1307.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
770 NC_000962 1947282 . A G 3175.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=3.09382;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=731.188;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3526;QR=0;RO=0;RPL=54;RPP=3.34437;RPPR=0;RPR=50;RUN=1;SAF=53;SAP=3.09382;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:536:0,536:0:0:536:19044:-1713.21,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
771 NC_000962 1950767 . T C 1916.65 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=64;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=14.0034;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=441.324;PAIRED=0.96875;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2129;QR=0;RO=0;RPL=33;RPP=3.14602;RPPR=0;RPR=31;RUN=1;SAF=32;SAP=3.0103;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:540:0,540:0:0:540:19066:-1715.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
772 NC_000962 1955760 . CGAAG CG 2056.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=72;CIGAR=1M3D1M;DP=72;DPB=28.8;DPRA=0;EPP=4.09604;EPPR=0;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=473.485;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2282;QR=0;RO=0;RPL=46;RPP=15.074;RPPR=0;RPR=26;RUN=1;SAF=25;SAP=17.6074;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:334:0,334:0:0:334:10822:-973.905,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
773 NC_000962 1955913 . CCCGGAAGTCGATGACCGTTG CT 1944.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=62;CIGAR=1M19D1X;DP=62;DPB=5.90476;DPRA=0;EPP=6.51267;EPPR=0;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=447.818;PAIRED=0.983871;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2158;QR=0;RO=0;RPL=26;RPP=6.51267;RPPR=0;RPR=36;RUN=1;SAF=28;SAP=4.27115;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:216:0,216:0:0:216:7929:-720.455,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
774 NC_000962 1955941 . G C 2900.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=3.38795;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=667.807;PAIRED=0.98913;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3220;QR=0;RO=0;RPL=42;RPP=4.52089;RPPR=0;RPR=50;RUN=1;SAF=38;SAP=9.05266;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:360:0,360:0:0:360:12607:-1134.3,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
775 NC_000962 1960284 . C A 4307.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=139;CIGAR=1X;DP=139;DPB=139;DPRA=0;EPP=18.0231;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=991.775;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4784;QR=0;RO=0;RPL=71;RPP=3.1509;RPPR=0;RPR=68;RUN=1;SAF=58;SAP=11.2744;SAR=81;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:423:0,423:0:0:423:14973:-1347.13,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
776 NC_000962 1961735 . A G 3411.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=4.56684;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=785.463;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3791;QR=0;RO=0;RPL=53;RPP=3.95191;RPPR=0;RPR=60;RUN=1;SAF=56;SAP=3.02952;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:456:0,456:0:0:456:16092:-1447.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
777 NC_000962 1967026 . C T 2597.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=84;CIGAR=1X;DP=84;DPB=84;DPRA=0;EPP=3.1137;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=597.997;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2883;QR=0;RO=0;RPL=39;RPP=3.94093;RPPR=0;RPR=45;RUN=1;SAF=44;SAP=3.42391;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:507:0,506:0:0:506:16805:-1511.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
778 NC_000962 1967237 . C A 3368.94 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=108;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=3.332;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=775.728;PAIRED=0.990741;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3741;QR=0;RO=0;RPL=57;RPP=3.73412;RPPR=0;RPR=51;RUN=1;SAF=51;SAP=3.73412;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:571:0,571:0:0:571:19849:-1785.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
779 NC_000962 1967543 . C A 3709 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X;DP=122;DPB=122;DPRA=0;EPP=3.29508;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=854.029;PAIRED=0.991803;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4119;QR=0;RO=0;RPL=65;RPP=4.14943;RPPR=0;RPR=57;RUN=1;SAF=54;SAP=6.49889;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:490:0,490:0:0:490:16600:-1493.61,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
780 NC_000962 1971725 . G C 2315.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=76;CIGAR=1X;DP=76;DPB=76;DPRA=0;EPP=3.46745;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=533.159;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2570;QR=0;RO=0;RPL=42;RPP=4.83891;RPPR=0;RPR=34;RUN=1;SAF=34;SAP=4.83891;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:450:0,450:0:0:450:15526:-1396.93,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
781 NC_000962 1980652 . G T 4181.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=134;CIGAR=1X;DP=134;DPB=134;DPRA=0;EPP=4.6308;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=962.776;PAIRED=0.992537;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4644;QR=0;RO=0;RPL=82;RPP=17.5948;RPPR=0;RPR=52;RUN=1;SAF=82;SAP=17.5948;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:445:0,445:0:0:445:15510:-1395.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
782 NC_000962 1983291 . C T 2292.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=78;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=3.12166;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=527.769;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2548;QR=0;RO=0;RPL=1;RPP=163.811;RPPR=0;RPR=77;RUN=1;SAF=39;SAP=3.0103;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:234:0,234:0:0:234:8078:-726.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
783 NC_000962 1983313 . T G 11973.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=383;CIGAR=1X;DP=383;DPB=383;DPRA=0;EPP=11.6338;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2757.03;PAIRED=0.934726;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13307;QR=0;RO=0;RPL=68;RPP=348.909;RPPR=0;RPR=315;RUN=1;SAF=208;SAP=9.18454;SAR=175;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:383:0,383:0:0:383:13307:-1197.36,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
784 NC_000962 1986639 . C T 328.997 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=11;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=4.78696;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=75.7544;PAIRED=0.272727;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=362;QR=0;RO=0;RPL=11;RPP=26.8965;RPPR=0;RPR=0;RUN=1;SAF=7;SAP=4.78696;SAR=4;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:11:0,11:0:0:11:362:-32.8997,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
785 NC_000962 2003105 . C T 3261.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=751.078;PAIRED=0.95283;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3622;QR=0;RO=0;RPL=55;RPP=3.33807;RPPR=0;RPR=51;RUN=1;SAF=60;SAP=7.02548;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:436:0,436:0:0:436:15387:-1384.43,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
786 NC_000962 2003827 . A C 3968.13 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=131;CIGAR=1X;DP=131;DPB=131;DPRA=0;EPP=8.99428;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=913.696;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4407;QR=0;RO=0;RPL=66;RPP=3.02688;RPPR=0;RPR=65;RUN=1;SAF=76;SAP=10.3204;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:454:0,453:0:0:453:15945:-1434.2,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
787 NC_000962 2009290 . GCCCCCAG GCCCCAG 3306.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1M1D6M;DP=113;DPB=99.125;DPRA=0;EPP=6.87947;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=761.291;PAIRED=0.990909;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3674;QR=0;RO=0;RPL=63;RPP=8.06391;RPPR=0;RPR=47;RUN=1;SAF=51;SAP=4.2737;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:371:0,368:0:0:368:12546:-1128.56,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
788 NC_000962 2010614 . G A 1860.27 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=60;CIGAR=1X;DP=60;DPB=60;DPRA=0;EPP=14.7363;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=428.342;PAIRED=0.95;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2064;QR=0;RO=0;RPL=21;RPP=14.7363;RPPR=0;RPR=39;RUN=1;SAF=22;SAP=12.2752;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:575:0,575:0:0:575:20204:-1817.58,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
789 NC_000962 2011314 . C T 2459.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=9.19487;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=566.303;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2730;QR=0;RO=0;RPL=37;RPP=3.69747;RPPR=0;RPR=42;RUN=1;SAF=42;SAP=3.69747;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:426:0,426:0:0:426:14243:-1281.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
790 NC_000962 2022868 . T C 4155.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=135;CIGAR=1X;DP=136;DPB=136;DPRA=0;EPP=5.72866;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=956.907;PAIRED=0.97037;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4618;QR=0;RO=0;RPL=58;RPP=8.81698;RPPR=0;RPR=77;RUN=1;SAF=73;SAP=4.95658;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:464:0,464:0:0:464:15869:-1427.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
791 NC_000962 2023628 . C G 2768.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=20.4059;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=637.547;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3074;QR=0;RO=0;RPL=50;RPP=4.94315;RPPR=0;RPR=41;RUN=1;SAF=43;SAP=3.60686;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:563:0,563:0:0:563:20045:-1803.26,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
792 NC_000962 2034070 . A C 3412.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=7.25883;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=785.681;PAIRED=0.991304;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3789;QR=0;RO=0;RPL=58;RPP=3.02918;RPPR=0;RPR=57;RUN=1;SAF=66;SAP=8.4673;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:474:0,474:0:0:474:16632:-1496.37,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
793 NC_000962 2043895 . C T 3597.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=3.47429;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=828.346;PAIRED=0.991453;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3995;QR=0;RO=0;RPL=55;RPP=3.91972;RPPR=0;RPR=62;RUN=1;SAF=46;SAP=14.61;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:466:0,466:0:0:466:16181:-1455.79,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
794 NC_000962 2045310 . A G 3434.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=8.4673;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=790.848;PAIRED=0.982609;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3814;QR=0;RO=0;RPL=50;RPP=7.25883;RPPR=0;RPR=65;RUN=1;SAF=50;SAP=7.25883;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:413:0,413:0:0:413:14727:-1324.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
795 NC_000962 2049065 . T C 4076.99 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=134;CIGAR=1X;DP=134;DPB=134;DPRA=0;EPP=6.18648;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=938.762;PAIRED=0.992537;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4528;QR=0;RO=0;RPL=67;RPP=3.0103;RPPR=0;RPR=67;RUN=1;SAF=57;SAP=9.49231;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:504:0,504:0:0:504:17901:-1610.41,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
796 NC_000962 2049097 . G C 3609.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=3.30474;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=831.036;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4008;QR=0;RO=0;RPL=64;RPP=4.85053;RPPR=0;RPR=54;RUN=1;SAF=53;SAP=5.66023;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:514:0,514:0:0:514:18291:-1645.55,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
797 NC_000962 2050822 . G C 3567.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=3.68421;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=821.513;PAIRED=0.974138;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3962;QR=0;RO=0;RPL=50;RPP=7.80251;RPPR=0;RPR=66;RUN=1;SAF=59;SAP=3.08518;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:427:0,427:0:0:427:15184:-1366.13,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
798 NC_000962 2051746 . T C 1820.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=59;CIGAR=1X;DP=59;DPB=59;DPRA=0;EPP=7.46366;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=419.23;PAIRED=0.983051;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2020;QR=0;RO=0;RPL=20;RPP=16.2968;RPPR=0;RPR=39;RUN=1;SAF=45;SAP=38.3795;SAR=14;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:503:1,502:1:30:502:17847:-1602.63,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
799 NC_000962 2052035 . G T 2424.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=5.72464;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=558.228;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2691;QR=0;RO=0;RPL=38;RPP=3.44459;RPPR=0;RPR=42;RUN=1;SAF=39;SAP=3.11887;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:545:0,545:0:0:545:19300:-1736.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
800 NC_000962 2055271 . A G 3748.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=3.02795;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=863.075;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4165;QR=0;RO=0;RPL=58;RPP=3.87536;RPPR=0;RPR=65;RUN=1;SAF=38;SAP=42.0085;SAR=85;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:456:0,456:0:0:456:15943:-1434.35,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
801 NC_000962 2057774 . A T 2424.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=4.35716;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=558.225;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2691;QR=0;RO=0;RPL=34;RPP=6.33623;RPPR=0;RPR=45;RUN=1;SAF=41;SAP=3.25768;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:454:0,454:0:0:454:15922:-1432.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
802 NC_000962 2061958 . A G 327.144 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=11;CIGAR=1X;DP=11;DPB=11;DPRA=0;EPP=3.20771;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=75.3277;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=360;QR=0;RO=0;RPL=7;RPP=4.78696;RPPR=0;RPR=4;RUN=1;SAF=1;SAP=19.0002;SAR=10;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:151:0,151:0:0:151:4828:-434.671,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
803 NC_000962 2064267 . CCTCC CCTCG 1667.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=54;CIGAR=4M1X;DP=58;DPB=58.4;DPRA=0;EPP=13.3047;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=369.533;PAIRED=1;PAIREDR=0;PAO=1;PQA=32;PQR=0;PRO=0;QA=1854;QR=0;RO=0;RPL=29;RPP=3.6537;RPPR=0;RPR=25;RUN=1;SAF=28;SAP=3.17115;SAR=26;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:58:0,54:0:0:54:1854:-166.751,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
804 NC_000962 2064271 . C G 17397 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=541;CIGAR=1X;DP=541;DPB=541;DPRA=0;EPP=3.33542;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=4005.82;PAIRED=0.898336;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=19339;QR=0;RO=0;RPL=279;RPP=4.17029;RPPR=0;RPR=262;RUN=1;SAF=246;SAP=12.6475;SAR=295;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:541:0,541:0:0:541:19339:-1739.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
805 NC_000962 2067684 . G A 2690.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=6.56362;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=619.465;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3010;QR=21;RO=1;RPL=45;RPP=3.109;RPPR=5.18177;RPR=43;RUN=1;SAF=51;SAP=7.84676;SAR=37;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:543:0,543:0:0:543:18903:-1700.68,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
806 NC_000962 2069771 . C A 3816.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=4.14943;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=878.755;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4241;QR=0;RO=0;RPL=62;RPP=3.0815;RPPR=0;RPR=60;RUN=1;SAF=83;SAP=37.4691;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:441:0,441:0:0:441:15292:-1375.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
807 NC_000962 2072313 . C A 2905.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=4.90158;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=669.045;PAIRED=0.989247;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3226;QR=0;RO=0;RPL=41;RPP=5.83555;RPPR=0;RPR=52;RUN=1;SAF=46;SAP=3.03365;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:501:0,501:0:0:501:17919:-1612.02,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
808 NC_000962 2074754 . C T 2526.01 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1X;DP=81;DPB=81;DPRA=0;EPP=3.68051;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=581.636;PAIRED=0.987654;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2804;QR=0;RO=0;RPL=29;RPP=17.1919;RPPR=0;RPR=52;RUN=1;SAF=40;SAP=3.03711;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:613:0,613:0:0:613:21992:-1978.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
809 NC_000962 2078246 . C G 2444.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1X;DP=81;DPB=81;DPRA=0;EPP=6.2541;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=562.777;PAIRED=0.987654;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2713;QR=0;RO=0;RPL=49;RPP=10.7579;RPPR=0;RPR=32;RUN=1;SAF=40;SAP=3.03711;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:422:0,422:0:0:422:15043:-1353.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
810 NC_000962 2082053 . A G 4668.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=152;CIGAR=1X;DP=152;DPB=152;DPRA=0;EPP=17.6392;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1074.86;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5185;QR=0;RO=0;RPL=69;RPP=5.81036;RPPR=0;RPR=83;RUN=1;SAF=89;SAP=12.6676;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:501:0,501:0:0:501:17590:-1582.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
811 NC_000962 2086672 . C T 2686.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=6.03039;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=618.502;PAIRED=0.988506;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2982;QR=0;RO=0;RPL=38;RPP=6.03039;RPPR=0;RPR=49;RUN=1;SAF=43;SAP=3.03526;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:514:0,514:0:0:514:18201:-1637.42,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
812 NC_000962 2094911 . ACAGCGTCAGCGTC ACAGCGTC 1889.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=65;CIGAR=1M6D7M;DP=66;DPB=37.7143;DPRA=0;EPP=23.8898;EPPR=0;GTI=0;LEN=6;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=435.119;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2099;QR=0;RO=0;RPL=29;RPP=4.64726;RPPR=0;RPR=36;RUN=1;SAF=30;SAP=3.84548;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:375:0,373:0:0:373:12352:-1111.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
813 NC_000962 2096186 . A G 4385.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=143;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=4.24029;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1009.81;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4874;QR=0;RO=0;RPL=79;RPP=6.42695;RPPR=0;RPR=64;RUN=1;SAF=56;SAP=17.6032;SAR=87;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:442:0,442:0:0:442:15128:-1361.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
814 NC_000962 2097270 . C T 3020.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=3.8246;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=695.562;PAIRED=0.979167;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3354;QR=0;RO=0;RPL=49;RPP=3.10078;RPPR=0;RPR=47;RUN=1;SAF=50;SAP=3.37221;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:362:0,362:0:0:362:12394:-1115.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
815 NC_000962 2108141 . T C 2735.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=3.60686;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=629.903;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3037;QR=0;RO=0;RPL=47;RPP=3.22506;RPPR=0;RPR=44;RUN=1;SAF=51;SAP=5.89764;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:287:0,287:0:0:287:10096:-908.423,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
816 NC_000962 2108890 . A C 2831.66 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=4.13032;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=652.015;PAIRED=0.978947;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3146;QR=0;RO=0;RPL=49;RPP=3.21602;RPPR=0;RPR=46;RUN=1;SAF=47;SAP=3.03316;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:304:0,304:0:0:304:10743:-966.65,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
817 NC_000962 2109523 . CGGTA CGGGTA 1962.52 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=68;CIGAR=1M1I4M;DP=71;DPB=85;DPRA=0;EPP=3.52123;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=451.887;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2181;QR=0;RO=0;RPL=35;RPP=3.13803;RPPR=0;RPR=33;RUN=1;SAF=47;SAP=24.5973;SAR=21;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:405:0,390:0:0:390:12945:-1164.58,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
818 NC_000962 2112832 . A C 3341.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=109;DPB=109;DPRA=0;EPP=15.4614;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=769.309;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3710;QR=0;RO=0;RPL=57;RPP=3.50834;RPPR=0;RPR=52;RUN=1;SAF=60;SAP=5.42083;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:546:0,545:0:0:545:18774:-1688.87,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
819 NC_000962 2116903 . C T 3606.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=3.47429;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=830.413;PAIRED=0.991453;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4005;QR=0;RO=0;RPL=49;RPP=9.71031;RPPR=0;RPR=68;RUN=1;SAF=64;SAP=5.25601;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:395:0,395:0:0:395:13001:-1169.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
820 NC_000962 2122395 . C T 3082.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=3.09716;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=709.858;PAIRED=0.99;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3423;QR=0;RO=0;RPL=57;RPP=7.26639;RPPR=0;RPR=43;RUN=1;SAF=52;SAP=3.35774;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:518:0,518:0:0:518:18303:-1646.64,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
821 NC_000962 2122976 . C G 3610.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=3.68421;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=831.25;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4009;QR=0;RO=0;RPL=51;RPP=6.67934;RPPR=0;RPR=65;RUN=1;SAF=52;SAP=5.70592;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:461:0,460:0:0:460:15599:-1403.29,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
822 NC_000962 2123169 . T G 3009.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=5.18177;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=692.867;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3341;QR=0;RO=0;RPL=47;RPP=3.79203;RPPR=0;RPR=53;RUN=1;SAF=52;SAP=3.35774;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:574:0,574:0:0:574:20548:-1848.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
823 NC_000962 2128870 . A G 3952.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=3.16418;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=910.173;PAIRED=0.992126;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4390;QR=0;RO=0;RPL=65;RPP=3.16418;RPPR=0;RPR=62;RUN=1;SAF=54;SAP=9.18275;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:559:0,559:0:0:559:19484:-1752.88,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
824 NC_000962 2135154 . G T 2894.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=3.1027;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=666.561;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3214;QR=0;RO=0;RPL=50;RPP=3.84193;RPPR=0;RPR=44;RUN=1;SAF=28;SAP=36.3678;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:516:0,516:0:0:516:18605:-1673.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
825 NC_000962 2135870 . T C 2232.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=75;CIGAR=1X;DP=75;DPB=75;DPRA=0;EPP=3.73412;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=514.092;PAIRED=0.986667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2478;QR=0;RO=0;RPL=44;RPP=7.90335;RPPR=0;RPR=31;RUN=1;SAF=33;SAP=5.35549;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:487:1,486:1:35:486:17542:-1574.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
826 NC_000962 2137521 . ACA ACTCCGATCACCA 7428.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=258;CIGAR=1M10I2M;DP=264;DPB=1124.67;DPRA=0;EPP=7.85824;EPPR=0;GTI=0;LEN=10;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1710.46;PAIRED=0.903101;PAIREDR=0;PAO=0.5;PQA=8;PQR=8;PRO=0.5;QA=8257;QR=0;RO=0;RPL=156;RPP=27.553;RPPR=0;RPR=102;RUN=1;SAF=139;SAP=6.37692;SAR=119;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:264:0,258:0:0:258:8257:-742.842,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
827 NC_000962 2138436 . A G 2678.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=90;CIGAR=1X;DP=90;DPB=90;DPRA=0;EPP=6.48466;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=616.642;PAIRED=0.988889;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2973;QR=0;RO=0;RPL=41;RPP=4.55446;RPPR=0;RPR=49;RUN=1;SAF=46;SAP=3.10681;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:502:1,501:1:36:501:17384:-1560.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
828 NC_000962 2138453 . C T 2840.03 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=7.63648;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=653.941;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3156;QR=0;RO=0;RPL=40;RPP=6.40913;RPPR=0;RPR=52;RUN=1;SAF=45;SAP=3.10471;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:474:0,474:0:0:474:16153:-1453.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
829 NC_000962 2141408 . TGGGGGGGTGCC TGGGGGGGGTGCC 9849.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=330;CIGAR=1M1I11M;DP=354;DPB=382.25;DPRA=0;EPP=3.11558;EPPR=3.73412;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=2267.91;PAIRED=0.909091;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=11043;QR=94;RO=3;RPL=182;RPP=10.617;RPPR=3.73412;RPR=148;RUN=1;SAF=183;SAP=11.5383;SAR=147;SRF=3;SRP=9.52472;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:354:3,330:3:94:330:11043:-984.939,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
830 NC_000962 2142266 . C A 1719.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=56;CIGAR=1X;DP=56;DPB=56;DPRA=0;EPP=5.49198;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=396.022;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1908;QR=0;RO=0;RPL=23;RPP=6.88793;RPPR=0;RPR=33;RUN=1;SAF=37;SAP=15.5738;SAR=19;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:474:0,474:0:0:474:16409:-1476.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
831 NC_000962 2143328 . G C 3087.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=7.26639;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=710.887;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3428;QR=0;RO=0;RPL=43;RPP=7.26639;RPPR=0;RPR=57;RUN=1;SAF=40;SAP=11.6962;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:450:0,450:0:0:450:16002:-1439.63,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
832 NC_000962 2145557 . C T 3219.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=4.71796;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=741.349;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3575;QR=0;RO=0;RPL=52;RPP=3.03138;RPPR=0;RPR=51;RUN=1;SAF=35;SAP=25.9689;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:103:0,103:0:0:103:3575:-321.964,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
833 NC_000962 2147022 . A C 2536.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=84;DPB=84;DPRA=0;EPP=28.1523;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=584.123;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2856;QR=36;RO=1;RPL=43;RPP=3.24576;RPPR=5.18177;RPR=40;RUN=1;SAF=46;SAP=5.12945;SAR=37;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:432:0,432:0:0:432:15098:-1358.42,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
834 NC_000962 2151222 . T G 3117.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=717.728;PAIRED=0.980392;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3461;QR=0;RO=0;RPL=57;RPP=6.07591;RPPR=0;RPR=45;RUN=1;SAF=38;SAP=17.4016;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:468:0,468:0:0:468:16379:-1473.56,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
835 NC_000962 2154724 . C A 3149.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=3.34437;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=725.178;PAIRED=0.971154;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3497;QR=0;RO=0;RPL=51;RPP=3.09382;RPPR=0;RPR=53;RUN=1;SAF=49;SAP=3.76196;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:426:0,426:0:0:426:15410:-1386.35,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
836 NC_000962 2158109 . T C 3028.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=10.9285;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=697.431;PAIRED=0.989899;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3363;QR=0;RO=0;RPL=44;RPP=5.66432;RPPR=0;RPR=55;RUN=1;SAF=51;SAP=3.20771;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:461:0,461:0:0:461:16379:-1473.54,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
837 NC_000962 2158403 . C T 3051.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=4.40004;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=702.603;PAIRED=0.97;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3388;QR=0;RO=0;RPL=41;RPP=10.0459;RPPR=0;RPR=59;RUN=1;SAF=53;SAP=3.79203;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:100:0,100:0:0:100:3388:-305.136,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
838 NC_000962 2160998 . G A 3814.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=3.16919;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=878.302;PAIRED=0.99187;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4239;QR=0;RO=0;RPL=57;RPP=4.44029;RPPR=0;RPR=66;RUN=1;SAF=64;SAP=3.45166;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:384:0,384:0:0:384:12359:-1112.11,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
839 NC_000962 2161343 . GTTTTAC GTTTTTAC 2924.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1M1I6M;DP=101;DPB=114.857;DPRA=0;EPP=3.56996;EPPR=7.35324;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=673.459;PAIRED=0.979381;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3302;QR=52;RO=2;RPL=47;RPP=3.21178;RPPR=3.0103;RPR=50;RUN=1;SAF=43;SAP=5.71904;SAR=54;SRF=1;SRP=3.0103;SRR=1;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:409:0,407:0:0:407:14095:-1267.81,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
840 NC_000962 2161902 . G A 2186.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=74;CIGAR=1X;DP=76;DPB=76;DPRA=0;EPP=7.23587;EPPR=7.35324;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=503.493;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2487;QR=57;RO=2;RPL=35;RPP=3.47981;RPPR=7.35324;RPR=39;RUN=1;SAF=26;SAP=17.2129;SAR=48;SRF=0;SRP=7.35324;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:516:1,515:1:32:515:18219:-1635.86,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
841 NC_000962 2163790 . A C 631.855 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=22;CIGAR=1X;DP=23;DPB=23;DPRA=0;EPP=9.32731;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=145.49;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=701;QR=0;RO=0;RPL=22;RPP=50.7827;RPPR=0;RPR=0;RUN=1;SAF=7;SAP=9.32731;SAR=15;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:100:0,100:0:0:100:3582:-322.516,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
842 NC_000962 2165286 . A C 1777.43 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=60;CIGAR=1X;DP=60;DPB=60;DPRA=0;EPP=3.15506;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=409.269;PAIRED=0.983333;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1972;QR=0;RO=0;RPL=33;RPP=4.31318;RPPR=0;RPR=27;RUN=1;SAF=44;SAP=31.3842;SAR=16;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:488:0,487:0:0:487:17000:-1529.19,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
843 NC_000962 2165503 . T A 2924.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=16.0391;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=673.293;PAIRED=0.989583;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3247;QR=0;RO=0;RPL=0;RPP=211.472;RPPR=0;RPR=96;RUN=1;SAF=60;SAP=16.0391;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:96:0,96:0:0:96:3247:-292.407,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
844 NC_000962 2167926 . A G 1962.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=67;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=12.3768;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=451.943;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2178;QR=0;RO=0;RPL=33;RPP=3.04271;RPPR=0;RPR=34;RUN=1;SAF=36;SAP=3.82055;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:489:0,489:0:0:489:16933:-1523.47,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
845 NC_000962 2172380 . A C 3056.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=4.37279;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=703.853;PAIRED=0.970588;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3394;QR=0;RO=0;RPL=54;RPP=3.7767;RPPR=0;RPR=48;RUN=1;SAF=61;SAP=11.5259;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:452:0,452:0:0:452:14949:-1345.16,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
846 NC_000962 2172964 . T G 2485.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=85;DPB=85;DPRA=0;EPP=3.66436;EPPR=7.35324;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=572.355;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2831;QR=68;RO=2;RPL=41;RPP=3.03646;RPPR=7.35324;RPR=42;RUN=1;SAF=45;SAP=4.29225;SAR=38;SRF=2;SRP=7.35324;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:545:1,544:1:35:544:18768:-1685.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
847 NC_000962 2173860 . A C 2325.35 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=76;CIGAR=1X;DP=76;DPB=76;DPRA=0;EPP=5.8675;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=535.431;PAIRED=0.986842;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2581;QR=0;RO=0;RPL=36;RPP=3.46745;RPPR=0;RPR=40;RUN=1;SAF=43;SAP=5.8675;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:632:0,632:0:0:632:22769:-2048.19,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
848 NC_000962 2174193 . A G 2911.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=10.9285;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=670.291;PAIRED=0.969697;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3232;QR=0;RO=0;RPL=49;RPP=3.03223;RPPR=0;RPR=50;RUN=1;SAF=53;SAP=4.08507;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:525:0,524:0:0:524:18778:-1689,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
849 NC_000962 2177366 . C T 2744.65 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=4.20583;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=631.978;PAIRED=0.966292;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3047;QR=0;RO=0;RPL=49;RPP=4.98658;RPPR=0;RPR=40;RUN=1;SAF=41;SAP=4.20583;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:643:0,643:0:0:643:22691:-2041.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
850 NC_000962 2179825 . G C 2571.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=85;CIGAR=1X;DP=85;DPB=85;DPRA=0;EPP=5.07959;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=592.192;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2855;QR=0;RO=0;RPL=43;RPP=3.03585;RPPR=0;RPR=42;RUN=1;SAF=46;SAP=4.26209;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:478:0,478:0:0:478:16656:-1498.5,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
851 NC_000962 2185674 . A G 4364.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=142;CIGAR=1X;DP=143;DPB=143;DPRA=0;EPP=4.53951;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1005.04;PAIRED=0.992958;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4888;QR=36;RO=1;RPL=66;RPP=4.53951;RPPR=5.18177;RPR=76;RUN=1;SAF=76;SAP=4.53951;SAR=66;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:532:0,532:0:0:532:18624:-1675.61,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
852 NC_000962 2187587 . G C 3063.95 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=5.66432;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=705.501;PAIRED=0.989899;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3402;QR=0;RO=0;RPL=53;RPP=4.08507;RPPR=0;RPR=46;RUN=1;SAF=58;SAP=9.34924;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:612:0,612:0:0:612:21789:-1960.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
853 NC_000962 2191498 . G T 3709.93 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X;DP=122;DPB=122;DPRA=0;EPP=10.1299;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=854.243;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4120;QR=0;RO=0;RPL=68;RPP=6.49889;RPPR=0;RPR=54;RUN=1;SAF=57;SAP=4.14943;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:411:0,411:0:0:411:14414:-1296.81,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
854 NC_000962 2199052 . C G 1441.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=47;CIGAR=1X;DP=47;DPB=47;DPRA=0;EPP=6.75262;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=331.811;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1598;QR=0;RO=0;RPL=26;RPP=4.16534;RPPR=0;RPR=21;RUN=1;SAF=22;SAP=3.42611;SAR=25;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:587:0,587:0:0:587:20913:-1881.28,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
855 NC_000962 2202500 . C T 2461.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=9.19487;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=566.718;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2732;QR=0;RO=0;RPL=39;RPP=3.03779;RPPR=0;RPR=40;RUN=1;SAF=35;SAP=5.23675;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:484:0,484:0:0:484:17476:-1572.12,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
856 NC_000962 2207398 . T C 13995.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=451;CIGAR=1X;DP=451;DPB=451;DPRA=0;EPP=6.52029;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3222.59;PAIRED=0.931264;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=15555;QR=0;RO=0;RPL=237;RPP=5.55733;RPPR=0;RPR=214;RUN=1;SAF=205;SAP=11.104;SAR=246;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:451:0,451:0:0:451:15555:-1399.56,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
857 NC_000962 2207591 . TTC TCTC 2234.52 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=75;CIGAR=1M1I2M;DP=79;DPB=104.333;DPRA=0;EPP=6.51361;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=514.517;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2483;QR=0;RO=0;RPL=30;RPP=9.52472;RPPR=0;RPR=45;RUN=1;SAF=35;SAP=3.73412;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:633:0,630:0:0:630:21429:-1927.69,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
858 NC_000962 2209465 . G A 3787.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=5.14646;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=872.142;PAIRED=0.99187;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4209;QR=0;RO=0;RPL=65;RPP=3.87536;RPPR=0;RPR=58;RUN=1;SAF=57;SAP=4.44029;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:413:0,413:0:0:413:14114:-1269.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
859 NC_000962 2211826 . A G 3754.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X;DP=122;DPB=122;DPRA=0;EPP=8.77716;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=864.597;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4170;QR=0;RO=0;RPL=70;RPP=8.77716;RPPR=0;RPR=52;RUN=1;SAF=60;SAP=3.0815;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:470:0,470:0:0:470:16540:-1488.02,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
860 NC_000962 2216443 . C A 4270.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=141;CIGAR=1X;DP=142;DPB=142;DPRA=0;EPP=3.76493;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=983.294;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4773;QR=27;RO=1;RPL=60;RPP=9.80193;RPPR=5.18177;RPR=81;RUN=1;SAF=65;SAP=4.87376;SAR=76;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:231:1,230:1:35:230:8065:-722.298,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
861 NC_000962 2216963 . C G 4956.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=163;CIGAR=1X;DP=163;DPB=163;DPRA=0;EPP=3.34335;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1141.36;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5506;QR=0;RO=0;RPL=79;RPP=3.34335;RPPR=0;RPR=84;RUN=1;SAF=86;SAP=4.08938;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:347:0,347:0:0:347:12384:-1114.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
862 NC_000962 2220512 . T G 3298.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=108;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=759.574;PAIRED=0.990741;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3663;QR=0;RO=0;RPL=51;RPP=3.73412;RPPR=0;RPR=57;RUN=1;SAF=61;SAP=6.95112;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:513:0,512:0:0:512:18439:-1658.37,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
863 NC_000962 2221584 . G C 2679.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=3.23494;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=617.057;PAIRED=0.988506;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2975;QR=0;RO=0;RPL=42;RPP=3.23494;RPPR=0;RPR=45;RUN=1;SAF=41;SAP=3.63429;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:587:0,587:0:0:587:20259:-1822.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
864 NC_000962 2223014 . A T 1827.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=59;CIGAR=1X;DP=59;DPB=59;DPRA=0;EPP=11.2913;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=420.887;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2028;QR=0;RO=0;RPL=29;RPP=3.0471;RPPR=0;RPR=30;RUN=1;SAF=26;SAP=4.81373;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:610:0,610:0:0:610:21345:-1920.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
865 NC_000962 2223293 . T C 2060.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=67;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=3.04271;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=474.537;PAIRED=0.940299;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2287;QR=0;RO=0;RPL=35;RPP=3.30199;RPPR=0;RPR=32;RUN=1;SAF=40;SAP=8.4876;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:525:0,525:0:0:525:17882:-1608.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
866 NC_000962 2225365 . T C 2090.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=68;CIGAR=1X;DP=68;DPB=68;DPRA=0;EPP=4.1599;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=481.375;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2320;QR=0;RO=0;RPL=35;RPP=3.13803;RPPR=0;RPR=33;RUN=1;SAF=38;SAP=5.05404;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:602:0,602:0:0:602:21681:-1950.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
867 NC_000962 2228967 . A G 3244.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=3.34437;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=747.146;PAIRED=0.990385;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3603;QR=0;RO=0;RPL=45;RPP=7.10269;RPPR=0;RPR=59;RUN=1;SAF=49;SAP=3.76196;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:510:0,510:0:0:510:17861:-1606.95,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
868 NC_000962 2229801 . C G 3063.97 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=4.06379;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=705.504;PAIRED=0.970297;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3402;QR=0;RO=0;RPL=47;RPP=4.06379;RPPR=0;RPR=54;RUN=1;SAF=48;SAP=3.54779;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:457:0,457:0:0:457:15896:-1430.23,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
869 NC_000962 2230045 . G A 2997.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=3.20771;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=690.257;PAIRED=0.979798;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3331;QR=0;RO=0;RPL=42;RPP=7.94546;RPPR=0;RPR=57;RUN=1;SAF=57;SAP=7.94546;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:560:0,560:0:0:560:19463:-1751.06,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
870 NC_000962 2235087 . G A 3307.77 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=3.33807;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=761.642;PAIRED=0.990566;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3673;QR=0;RO=0;RPL=44;RPP=9.64763;RPPR=0;RPR=62;RUN=1;SAF=77;SAP=50.2091;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:460:0,460:0:0:460:15798:-1421.46,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
871 NC_000962 2241031 . AGGTC AGTC 2393.93 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1M1D3M;DP=82;DPB=65.4;DPRA=0;EPP=6.91895;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=551.222;PAIRED=0.9875;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2661;QR=0;RO=0;RPL=43;RPP=3.98746;RPPR=0;RPR=37;RUN=1;SAF=45;SAP=5.72464;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:448:0,441:0:0:441:14651:-1317.98,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
872 NC_000962 2244421 . G T 3391.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=109;DPB=109;DPRA=0;EPP=3.03022;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=780.913;PAIRED=0.990826;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3766;QR=0;RO=0;RPL=53;RPP=3.1896;RPPR=0;RPR=56;RUN=1;SAF=43;SAP=13.5489;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:439:0,439:0:0:439:15581:-1401.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
873 NC_000962 2245864 . C A 2936.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=4.86177;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=676.087;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3260;QR=0;RO=0;RPL=46;RPP=3.21602;RPPR=0;RPR=49;RUN=1;SAF=49;SAP=3.21602;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:498:0,498:0:0:498:17215:-1548.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
874 NC_000962 2247677 . A C 3099.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=7.10269;EPPR=7.35324;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=713.597;PAIRED=0.951923;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3497;QR=53;RO=2;RPL=56;RPP=4.34659;RPPR=7.35324;RPR=48;RUN=1;SAF=47;SAP=5.09825;SAR=57;SRF=2;SRP=7.35324;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:661:0,661:0:0:661:23453:-2109.87,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
875 NC_000962 2251605 . G A 3036.99 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=699.293;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3372;QR=0;RO=0;RPL=56;RPP=6.13722;RPPR=0;RPR=44;RUN=1;SAF=40;SAP=11.6962;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:553:0,553:0:0:553:19291:-1735.51,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
876 NC_000962 2251999 . A G 2578.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=84;DPB=84;DPRA=0;EPP=4.29225;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=593.672;PAIRED=0.975904;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2865;QR=0;RO=0;RPL=42;RPP=3.03646;RPPR=0;RPR=41;RUN=1;SAF=50;SAP=10.5712;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:508:0,508:0:0:508:17615:-1584.87,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
877 NC_000962 2260100 . C T 3091.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=3.03223;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=711.929;PAIRED=0.989899;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3433;QR=0;RO=0;RPL=56;RPP=6.71716;RPPR=0;RPR=43;RUN=1;SAF=50;SAP=3.03223;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:497:0,497:0:0:497:17880:-1608.43,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
878 NC_000962 2260525 . C T 4378.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=143;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=3.38993;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1008.26;PAIRED=0.993007;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4866;QR=0;RO=0;RPL=60;RPP=11.0432;RPPR=0;RPR=83;RUN=1;SAF=90;SAP=23.7987;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:404:0,404:0:0:404:13708:-1233.4,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
879 NC_000962 2261075 . G A 4162.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=132;CIGAR=1X;DP=132;DPB=132;DPRA=0;EPP=4.65535;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=958.423;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4623;QR=0;RO=0;RPL=74;RPP=7.22164;RPPR=0;RPR=58;RUN=1;SAF=67;SAP=3.0761;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:132:0,132:0:0:132:4623:-416.238,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
880 NC_000962 2264782 . C A 2315.47 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=76;CIGAR=1X;DP=77;DPB=77;DPRA=0;EPP=3.0103;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=533.156;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2610;QR=36;RO=1;RPL=45;RPP=8.61041;RPPR=5.18177;RPR=31;RUN=1;SAF=29;SAP=12.2676;SAR=47;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:413:0,413:0:0:413:14465:-1301.41,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
881 NC_000962 2265059 . T G 2480.13 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1X;DP=81;DPB=81;DPRA=0;EPP=3.03711;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=571.071;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2753;QR=0;RO=0;RPL=30;RPP=14.8328;RPPR=0;RPR=51;RUN=1;SAF=41;SAP=3.03711;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:425:0,425:0:0:425:14755:-1327.59,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
882 NC_000962 2267015 . T C 3099.65 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=4.04333;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=713.72;PAIRED=0.990291;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3444;QR=0;RO=0;RPL=60;RPP=9.10307;RPPR=0;RPR=43;RUN=1;SAF=58;SAP=6.5732;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,480:0:0:480:16830:-1514.21,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
883 NC_000962 2268433 . C A 1831.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=59;CIGAR=1X;DP=59;DPB=59;DPRA=0;EPP=22.4799;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=421.717;PAIRED=0.898305;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2032;QR=0;RO=0;RPL=35;RPP=7.46366;RPPR=0;RPR=24;RUN=1;SAF=20;SAP=16.2968;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:771:0,771:0:0:771:27659:-2487.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
884 NC_000962 2268627 . G C 1109.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=36;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=11.6962;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=255.583;PAIRED=0.805556;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1230;QR=0;RO=0;RPL=19;RPP=3.25157;RPPR=0;RPR=17;RUN=1;SAF=9;SAP=22.5536;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:714:0,713:0:0:713:25414:-2285.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
885 NC_000962 2269545 . G A 3565.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=3.69603;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=820.926;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3962;QR=0;RO=0;RPL=64;RPP=6.74371;RPPR=0;RPR=50;RUN=1;SAF=56;SAP=3.08649;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:415:0,415:0:0:415:14327:-1289.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
886 NC_000962 2269780 . T C 3571.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=6.14687;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=822.456;PAIRED=0.991453;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3969;QR=0;RO=0;RPL=65;RPP=6.14687;RPPR=0;RPR=52;RUN=1;SAF=55;SAP=3.91972;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:433:0,433:0:0:433:15171:-1364.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
887 NC_000962 2270102 . A G 2274.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=75;CIGAR=1X;DP=75;DPB=75;DPRA=0;EPP=4.429;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=523.83;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2525;QR=0;RO=0;RPL=34;RPP=4.429;RPPR=0;RPR=41;RUN=1;SAF=31;SAP=7.90335;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:479:0,479:0:0:479:16605:-1494.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
888 NC_000962 2273733 . TCG TG 2949.77 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1M1D1M;DP=99;DPB=66;DPRA=0;EPP=3.03223;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=679.209;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3275;QR=0;RO=0;RPL=43;RPP=6.71716;RPPR=0;RPR=56;RUN=1;SAF=44;SAP=5.66432;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:430:0,429:0:0:429:14175:-1275.21,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
889 NC_000962 2282787 . C T 2825.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=3.22506;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=650.539;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3139;QR=0;RO=0;RPL=38;RPP=8.37933;RPPR=0;RPR=53;RUN=1;SAF=39;SAP=7.04303;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:522:0,522:0:0:522:18351:-1651.02,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
890 NC_000962 2283191 . G C 2337.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=76;CIGAR=1X;DP=76;DPB=76;DPRA=0;EPP=4.03889;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=538.339;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2595;QR=0;RO=0;RPL=27;RPP=16.8392;RPPR=0;RPR=49;RUN=1;SAF=38;SAP=3.0103;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:467:0,467:0:0:467:16158:-1453.72,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
891 NC_000962 2285251 . C A 2260.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=73;CIGAR=1X;DP=73;DPB=73;DPRA=0;EPP=5.41974;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=520.524;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2509;QR=0;RO=0;RPL=38;RPP=3.27802;RPPR=0;RPR=35;RUN=1;SAF=28;SAP=11.607;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:473:0,473:0:0:473:16637:-1496.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
892 NC_000962 2287121 . A G 2066.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=1X;DP=69;DPB=69;DPRA=0;EPP=16.8888;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=475.772;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2293;QR=0;RO=0;RPL=39;RPP=5.55942;RPPR=0;RPR=30;RUN=1;SAF=34;SAP=3.04177;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:510:0,510:0:0:510:18198:-1637.07,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
893 NC_000962 2288085 . G C 2844.47 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=10.4949;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=654.963;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3158;QR=0;RO=0;RPL=44;RPP=3.84193;RPPR=0;RPR=50;RUN=1;SAF=40;SAP=7.53805;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:497:0,497:0:0:497:17927:-1612.67,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
894 NC_000962 2294007 . T C 2950.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=3.20771;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=679.409;PAIRED=0.989899;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3276;QR=0;RO=0;RPL=55;RPP=5.66432;RPPR=0;RPR=44;RUN=1;SAF=53;SAP=4.08507;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:531:0,531:0:0:531:18399:-1655.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
895 NC_000962 2296042 . G C 1986.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=67;CIGAR=1X;DP=68;DPB=68;DPRA=0;EPP=8.4876;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=457.372;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2207;QR=0;RO=0;RPL=38;RPP=5.63551;RPPR=0;RPR=29;RUN=1;SAF=46;SAP=23.2666;SAR=21;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:293:0,293:0:0:293:10050:-904.332,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
896 NC_000962 2298194 . G T 4121.03 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=133;CIGAR=1X;DP=133;DPB=133;DPRA=0;EPP=6.68384;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=948.903;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4577;QR=0;RO=0;RPL=64;RPP=3.41847;RPPR=0;RPR=69;RUN=1;SAF=63;SAP=3.81032;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:370:0,370:0:0:370:12372:-1113.31,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
897 NC_000962 2300237 . A G 1835.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=62;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=3.15039;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=422.534;PAIRED=0.983871;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2036;QR=0;RO=0;RPL=43;RPP=23.184;RPPR=0;RPR=19;RUN=1;SAF=31;SAP=3.0103;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:301:0,301:0:0:301:10454:-940.683,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
898 NC_000962 2300546 . A T 3004.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=3.03269;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=691.829;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3336;QR=0;RO=0;RPL=42;RPP=6.79359;RPPR=0;RPR=55;RUN=1;SAF=46;SAP=3.56996;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:314:0,314:0:0:314:11066:-995.713,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
899 NC_000962 2300552 . TGGA GGGG 3071.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X2M1X;DP=107;DPB=107.75;DPRA=0;EPP=3.53736;EPPR=0;GTI=0;LEN=4;MEANALT=5;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=707.252;PAIRED=1;PAIREDR=0;PAO=2;PQA=64;PQR=0;PRO=0;QA=3349;QR=0;RO=0;RPL=45;RPP=6.5732;RPPR=0;RPR=58;RUN=1;SAF=46;SAP=5.56125;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:328:0,328:0:0:328:11482:-1109.06,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
900 NC_000962 2302033 . G A 1025.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=33;CIGAR=1X;DP=33;DPB=33;DPRA=0;EPP=4.65535;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=236.111;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1136;QR=0;RO=0;RPL=0;RPP=74.6689;RPPR=0;RPR=33;RUN=1;SAF=14;SAP=4.65535;SAR=19;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:46:0,46:0:0:46:1492:-134.548,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
901 NC_000962 2311099 . C G 4308.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=143;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=3.14697;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=992.003;PAIRED=0.993007;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4825;QR=36;RO=1;RPL=78;RPP=5.57659;RPPR=5.18177;RPR=65;RUN=1;SAF=59;SAP=12.501;SAR=84;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:320:1,319:1:33:319:10958:-982.718,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
902 NC_000962 2314689 . C A 2739.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=3.109;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=630.726;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3041;QR=0;RO=0;RPL=42;RPP=3.40511;RPPR=0;RPR=46;RUN=1;SAF=43;SAP=3.109;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:407:0,407:0:0:407:14116:-1270.08,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
903 NC_000962 2315386 . C A 2633.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=85;CIGAR=1X;DP=85;DPB=85;DPRA=0;EPP=3.24022;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=606.284;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2923;QR=0;RO=0;RPL=48;RPP=6.10145;RPPR=0;RPR=37;RUN=1;SAF=47;SAP=5.07959;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:502:0,502:0:0:502:16059:-1444.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
904 NC_000962 2316123 . C A 3092.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=3.7767;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=712.171;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3437;QR=0;RO=0;RPL=53;RPP=3.35092;RPPR=0;RPR=49;RUN=1;SAF=55;SAP=4.37279;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:376:0,376:0:0:376:12920:-1162.58,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
905 NC_000962 2318725 . C T 2671.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=6.56362;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=615.188;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3006;QR=36;RO=1;RPL=49;RPP=5.47788;RPPR=5.18177;RPR=39;RUN=1;SAF=35;SAP=11.0053;SAR=53;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:430:0,430:0:0:430:15107:-1359.2,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
906 NC_000962 2320320 . C T 3851.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=9.90386;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=886.75;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4277;QR=0;RO=0;RPL=69;RPP=5.49198;RPPR=0;RPR=57;RUN=1;SAF=58;SAP=4.73369;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:424:0,424:0:0:424:14407:-1296.4,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
907 NC_000962 2321975 . T C 5261.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=173;CIGAR=1X;DP=173;DPB=173;DPRA=0;EPP=10.8552;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1211.59;PAIRED=0.99422;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5845;QR=0;RO=0;RPL=79;RPP=5.83447;RPPR=0;RPR=94;RUN=1;SAF=98;SAP=9.65024;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:387:1,386:1:35:386:13165:-1181.07,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
908 NC_000962 2328543 . T C 4468.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=147;CIGAR=1X;DP=147;DPB=147;DPRA=0;EPP=3.02507;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1028.87;PAIRED=0.993197;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4963;QR=0;RO=0;RPL=75;RPP=3.14325;RPPR=0;RPR=72;RUN=1;SAF=83;SAP=8.34296;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:398:0,398:0:0:398:13626:-1226.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
909 NC_000962 2329533 . A G 6208.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=203;CIGAR=1X;DP=203;DPB=203;DPRA=0;EPP=3.27772;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1429.5;PAIRED=0.995074;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6897;QR=0;RO=0;RPL=108;RPP=4.81808;RPPR=0;RPR=95;RUN=1;SAF=85;SAP=14.6592;SAR=118;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:434:0,434:0:0:434:15383:-1383.93,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
910 NC_000962 2331620 . A C 3836.77 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=4.11327;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=883.449;PAIRED=0.984127;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4301;QR=36;RO=1;RPL=65;RPP=3.28604;RPPR=5.18177;RPR=61;RUN=1;SAF=64;SAP=3.07924;SAR=62;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:385:0,385:0:0:385:13084:-1177.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
911 NC_000962 2331789 . G T 3422.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=108;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=18.7736;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=788.156;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3801;QR=0;RO=0;RPL=53;RPP=3.09072;RPPR=0;RPR=55;RUN=1;SAF=51;SAP=3.73412;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:472:0,472:0:0:472:16667:-1499.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
912 NC_000962 2334007 . A G 2858.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=4.13032;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=658.207;PAIRED=0.989474;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3176;QR=0;RO=0;RPL=43;RPP=4.86177;RPPR=0;RPR=52;RUN=1;SAF=48;SAP=3.03316;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:524:1,523:1:25:523:18516:-1663.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
913 NC_000962 2335075 . A G 2597.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=85;CIGAR=1X;DP=85;DPB=85;DPRA=0;EPP=3.03585;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=597.99;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2883;QR=0;RO=0;RPL=43;RPP=3.03585;RPPR=0;RPR=42;RUN=1;SAF=47;SAP=5.07959;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:554:1,553:1:25:553:19595:-1760.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
914 NC_000962 2335494 . A G 3536.27 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=3.08649;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=814.256;PAIRED=0.982456;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3927;QR=0;RO=0;RPL=61;RPP=4.22937;RPPR=0;RPR=53;RUN=1;SAF=57;SAP=3.0103;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:392:1,391:1:31:391:13364:-1199.45,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
915 NC_000962 2336125 . TCTCAA GCTCGG 2113.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=75;CIGAR=1X3M2X;DP=80;DPB=80;DPRA=0;EPP=6.51361;EPPR=7.35324;GTI=0;LEN=6;MEANALT=4;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=486.734;PAIRED=0.986667;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2415;QR=66;RO=2;RPL=42;RPP=5.35549;RPPR=7.35324;RPR=33;RUN=1;SAF=30;SAP=9.52472;SAR=45;SRF=2;SRP=7.35324;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:456:0,455:0:0:455:15237:-1483.56,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
916 NC_000962 2337179 . C T 2012.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=1X;DP=69;DPB=69;DPRA=0;EPP=4.55236;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=463.333;PAIRED=0.985507;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2233;QR=0;RO=0;RPL=40;RPP=6.81824;RPPR=0;RPR=29;RUN=1;SAF=39;SAP=5.55942;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:535:0,535:0:0:535:18796:-1691.05,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
917 NC_000962 2338810 . TA CG 1985.18 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=71;CIGAR=2X;DP=71;DPB=71.5;DPRA=0;EPP=3.04088;EPPR=0;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=457.104;PAIRED=0.985915;PAIREDR=0;PAO=1;PQA=21;PQR=0;PRO=0;QA=2182;QR=0;RO=0;RPL=23;RPP=22.1254;RPPR=0;RPR=48;RUN=1;SAF=32;SAP=4.50892;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:381:0,381:0:0:381:13466:-1248.87,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
918 NC_000962 2339255 . A G 1620.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=54;CIGAR=1X;DP=54;DPB=54;DPRA=0;EPP=7.03155;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=373.23;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1798;QR=0;RO=0;RPL=30;RPP=4.45795;RPPR=0;RPR=24;RUN=1;SAF=14;SAP=30.1939;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:598:0,598:0:0:598:20638:-1856.78,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
919 NC_000962 2339833 . CCC CCT 1107.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=36;CIGAR=2M1X;DP=37;DPB=37.3333;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=255.083;PAIRED=0.972222;PAIREDR=0;PAO=0.5;PQA=10.5;PQR=10.5;PRO=0.5;QA=1230;QR=0;RO=0;RPL=14;RPP=6.8707;RPPR=0;RPR=22;RUN=1;SAF=10;SAP=18.4519;SAR=26;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:37:0,36:0:0:36:1230:-110.781,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
920 NC_000962 2339835 . C T 12588.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=414;CIGAR=1X;DP=414;DPB=414;DPRA=0;EPP=6.55599;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2898.64;PAIRED=0.886473;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13990;QR=0;RO=0;RPL=213;RPP=3.76559;RPPR=0;RPR=201;RUN=1;SAF=217;SAP=5.10834;SAR=197;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:414:0,414:0:0:414:13990:-1258.86,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
921 NC_000962 2340621 . C G 3352.71 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=5.75321;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=771.99;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3723;QR=0;RO=0;RPL=53;RPP=4.22937;RPPR=0;RPR=61;RUN=1;SAF=58;SAP=3.08649;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:156:0,156:0:0:156:5358:-482.313,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
922 NC_000962 2341636 . C G 4291.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=138;CIGAR=1X;DP=139;DPB=139;DPRA=0;EPP=4.58383;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=988.053;PAIRED=0.992754;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4770;QR=0;RO=0;RPL=75;RPP=5.27618;RPPR=0;RPR=63;RUN=1;SAF=61;SAP=7.03854;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:488:1,487:1:33:487:17031:-1528.92,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
923 NC_000962 2342649 . AGA AGGCGTACACACGA 1242.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=45;CIGAR=1M11I2M;DP=46;DPB=211;DPRA=0;EPP=3.44459;EPPR=0;GTI=0;LEN=11;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=286.084;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1381;QR=0;RO=0;RPL=21;RPP=3.44459;RPPR=0;RPR=24;RUN=1;SAF=30;SAP=13.8677;SAR=15;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:239:0,233:0:0:233:7558:-679.984,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
924 NC_000962 2344246 . G C 2396.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1X;DP=81;DPB=81;DPRA=0;EPP=3.03711;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=551.792;PAIRED=0.987654;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2660;QR=0;RO=0;RPL=40;RPP=3.03711;RPPR=0;RPR=41;RUN=1;SAF=36;SAP=5.18177;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:652:0,652:0:0:652:22680:-2040.34,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
925 NC_000962 2344499 . T G 2631.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=6.03039;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=605.863;PAIRED=0.988506;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2921;QR=0;RO=0;RPL=50;RPP=7.22845;RPPR=0;RPR=37;RUN=1;SAF=47;SAP=4.23331;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:579:0,579:0:0:579:20422:-1837.22,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
926 NC_000962 2345037 . C A 4239.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=137;CIGAR=1X;DP=137;DPB=137;DPRA=0;EPP=6.57659;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=976.237;PAIRED=0.970803;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4709;QR=0;RO=0;RPL=57;RPP=11.395;RPPR=0;RPR=80;RUN=1;SAF=75;SAP=5.68898;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:438:0,438:0:0:438:15050:-1354.17,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
927 NC_000962 2346316 . CCG CCA 2478.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=2M1X;DP=82;DPB=83.3333;DPRA=0;EPP=3.03779;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=570.741;PAIRED=1;PAIREDR=0;PAO=2;PQA=58;PQR=22;PRO=1;QA=2718;QR=0;RO=0;RPL=33;RPP=7.6556;RPPR=0;RPR=46;RUN=1;SAF=40;SAP=3.03779;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:82:0,79:0:0:79:2718:-247.87,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
928 NC_000962 2346318 . G A 18199.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=571;CIGAR=1X;DP=571;DPB=571;DPRA=0;EPP=12.1411;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=4190.57;PAIRED=0.905429;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=20230;QR=0;RO=0;RPL=272;RPP=5.78264;RPPR=0;RPR=299;RUN=1;SAF=290;SAP=3.31834;SAR=281;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:571:0,571:0:0:571:20230:-1819.94,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
929 NC_000962 2348446 . C G 3886.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=3.64073;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=894.831;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4316;QR=0;RO=0;RPL=65;RPP=3.64073;RPPR=0;RPR=59;RUN=1;SAF=48;SAP=16.7396;SAR=76;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:411:0,411:0:0:411:14248:-1281.94,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
930 NC_000962 2354791 . A G 4180.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=139;CIGAR=1X;DP=139;DPB=139;DPRA=0;EPP=3.77578;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=962.583;PAIRED=0.992806;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4643;QR=0;RO=0;RPL=79;RPP=8.64988;RPPR=0;RPR=60;RUN=1;SAF=64;SAP=4.90057;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:376:0,376:0:0:376:13253:-1192.34,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
931 NC_000962 2357268 . TGCCGCCGCCGCCGCCGCCGA TGCCGCCGCCGCCGCCGA 888.758 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=32;CIGAR=1M3D17M;DP=33;DPB=30.8095;DPRA=0;EPP=9.79615;EPPR=5.18177;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=204.644;PAIRED=0.96875;PAIREDR=1;PAO=2;PQA=44.5;PQR=44.5;PRO=2;QA=1011;QR=24;RO=1;RPL=11;RPP=9.79615;RPPR=5.18177;RPR=21;RUN=1;SAF=22;SAP=12.7819;SAR=10;SRF=1;SRP=5.18177;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:183:0,182:0:0:182:5745:-516.949,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
932 NC_000962 2358029 . TGGCC TGGGCC 2290.95 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1M1I4M;DP=82;DPB=98;DPRA=0;EPP=3.03779;EPPR=5.18177;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=527.51;PAIRED=0.987342;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2581;QR=35;RO=1;RPL=44;RPP=5.23675;RPPR=5.18177;RPR=35;RUN=1;SAF=29;SAP=15.1321;SAR=50;SRF=0;SRP=5.18177;SRR=1;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:377:0,369:0:0:369:12413:-1116.67,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
933 NC_000962 2361604 . C G 4319.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=143;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=3.14697;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=994.624;PAIRED=0.993007;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4800;QR=0;RO=0;RPL=58;RPP=14.0803;RPPR=0;RPR=85;RUN=1;SAF=63;SAP=7.3988;SAR=80;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:387:1,386:1:34:386:12826:-1150.75,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
934 NC_000962 2362041 . C A 4395.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=141;CIGAR=1X;DP=141;DPB=141;DPRA=0;EPP=6.47542;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1012.08;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4882;QR=0;RO=0;RPL=63;RPP=6.47542;RPPR=0;RPR=78;RUN=1;SAF=65;SAP=4.87376;SAR=76;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:379:0,379:0:0:379:13798:-1241.29,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
935 NC_000962 2364475 . T C 3759.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=125;CIGAR=1X;DP=125;DPB=125;DPRA=0;EPP=6.91895;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=865.631;PAIRED=0.992;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4175;QR=0;RO=0;RPL=72;RPP=9.28151;RPPR=0;RPR=53;RUN=1;SAF=72;SAP=9.28151;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:514:0,514:0:0:514:18192:-1636.63,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
936 NC_000962 2368564 . TAATATT TATATT 1014.99 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=34;CIGAR=1M1D5M;DP=36;DPB=31.1429;DPRA=0;EPP=9.39698;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=233.71;PAIRED=1;PAIREDR=0;PAO=1;PQA=17.5;PQR=17.5;PRO=1;QA=1127;QR=0;RO=0;RPL=17;RPP=3.0103;RPPR=0;RPR=17;RUN=1;SAF=21;SAP=7.09778;SAR=13;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:537:0,537:0:0:537:18082:-1649.84,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
937 NC_000962 2369186 . G C 2402.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=81;DPB=81;DPRA=0;EPP=8.33041;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=553.196;PAIRED=0.95;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2669;QR=0;RO=0;RPL=38;RPP=3.44459;RPPR=0;RPR=42;RUN=1;SAF=29;SAP=16.1477;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:453:0,453:0:0:453:15671:-1410.01,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
938 NC_000962 2369326 . C G 2078.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=68;CIGAR=1X;DP=68;DPB=68;DPRA=0;EPP=11.1853;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=478.674;PAIRED=0.985294;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2307;QR=0;RO=0;RPL=33;RPP=3.13803;RPPR=0;RPR=35;RUN=1;SAF=23;SAP=18.4661;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:500:0,500:0:0:500:17633:-1586.31,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
939 NC_000962 2372493 . C G 1009.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=34;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=4.03217;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=232.378;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=1158;QR=36;RO=1;RPL=32;RPP=60.4905;RPPR=5.18177;RPR=2;RUN=1;SAF=19;SAP=4.03217;SAR=15;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:35:0,35:0:0:35:1147:-103.524,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
940 NC_000962 2381572 . ACCCCCAG ACCCCAG 2645.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1M1D6M;DP=96;DPB=84.125;DPRA=0;EPP=3.1027;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=609.239;PAIRED=1;PAIREDR=0;PAO=0.5;PQA=16;PQR=16;PRO=0.5;QA=2940;QR=0;RO=0;RPL=49;RPP=3.37991;RPPR=0;RPR=45;RUN=1;SAF=45;SAP=3.37991;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:345:0,345:0:0:345:10281:-925.332,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
941 NC_000962 2386389 . G A 3431.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=3.49937;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=790.021;PAIRED=0.990991;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3810;QR=0;RO=0;RPL=58;RPP=3.49937;RPPR=0;RPR=53;RUN=1;SAF=53;SAP=3.49937;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:505:0,505:0:0:505:17263:-1553.24,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
942 NC_000962 2387733 . T C 2745.53 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=3.22989;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=632.182;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3048;QR=0;RO=0;RPL=46;RPP=3.22989;RPPR=0;RPR=43;RUN=1;SAF=85;SAP=163.089;SAR=4;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:360:0,359:0:0:359:12634:-1136.34,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
943 NC_000962 2388641 . G A 3928.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=16.5217;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=904.571;PAIRED=0.97619;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4363;QR=0;RO=0;RPL=63;RPP=3.0103;RPPR=0;RPR=63;RUN=1;SAF=52;SAP=11.3515;SAR=74;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:407:0,407:0:0:407:13685:-1231.38,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
944 NC_000962 2399734 . G A 4310.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=141;CIGAR=1X;DP=141;DPB=141;DPRA=0;EPP=15.9621;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=992.611;PAIRED=0.992908;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4788;QR=0;RO=0;RPL=70;RPP=3.0257;RPPR=0;RPR=71;RUN=1;SAF=69;SAP=3.1489;SAR=72;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:470:0,470:0:0:470:16771:-1508.72,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
945 NC_000962 2406842 . ACG AG 1951.97 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=68;CIGAR=1M1D1M;DP=68;DPB=45.3333;DPRA=0;EPP=3.52123;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=449.459;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2166;QR=0;RO=0;RPL=34;RPP=3.0103;RPPR=0;RPR=34;RUN=1;SAF=40;SAP=7.60871;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:459:0,450:0:0:450:15699:-1412.18,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
946 NC_000962 2411496 . G A 3751.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=3.0815;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=863.902;PAIRED=0.983607;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4169;QR=0;RO=0;RPL=58;RPP=3.65106;RPPR=0;RPR=64;RUN=1;SAF=68;SAP=6.49889;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:436:0,436:0:0:436:15334:-1379.63,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
947 NC_000962 2413246 . C A 5023.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=161;CIGAR=1X;DP=161;DPB=161;DPRA=0;EPP=8.95825;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1156.67;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5580;QR=0;RO=0;RPL=82;RPP=3.13169;RPPR=0;RPR=79;RUN=1;SAF=86;SAP=4.64228;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:344:0,344:0:0:344:11944:-1074.69,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
948 NC_000962 2415652 . TCCCG TCCCC 8930.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=289;CIGAR=4M1X;DP=320;DPB=323.8;DPRA=0;EPP=12.2146;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1911.85;PAIRED=0.889273;PAIREDR=0;PAO=6.5;PQA=37;PQR=0;PRO=0;QA=9986;QR=0;RO=0;RPL=139;RPP=3.91946;RPPR=0;RPR=150;RUN=1;SAF=209;SAP=128.047;SAR=80;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:320:0,289:0:0:289:9986:-893.022,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
949 NC_000962 2415656 . G C 5017.09 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=163;CIGAR=1X;DP=163;DPB=163;DPRA=0;EPP=17.5179;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1155.23;PAIRED=0.993865;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5573;QR=0;RO=0;RPL=73;RPP=6.86033;RPPR=0;RPR=90;RUN=1;SAF=74;SAP=6.00773;SAR=89;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:163:0,163:0:0:163:5573:-501.709,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
950 NC_000962 2421816 . A G 5966.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=191;CIGAR=1X;DP=191;DPB=191;DPRA=0;EPP=3.02167;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1373.76;PAIRED=0.979058;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6628;QR=0;RO=0;RPL=99;RPP=3.56738;RPPR=0;RPR=92;RUN=1;SAF=97;SAP=3.11262;SAR=94;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:365:0,365:0:0:365:12736:-1145.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
951 NC_000962 2421975 . GCA GGGAACA 3015.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1M4I2M;DP=114;DPB=262.333;DPRA=0;EPP=12.3076;EPPR=0;GTI=0;LEN=4;MEANALT=7;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=694.343;PAIRED=1;PAIREDR=0;PAO=0.5;PQA=18;PQR=18;PRO=0.5;QA=3351;QR=0;RO=0;RPL=45;RPP=6.5732;RPPR=0;RPR=58;RUN=1;SAF=45;SAP=6.5732;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:307:0,299:0:0:299:9750:-877.116,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
952 NC_000962 2423819 . CCCA GCCG 563.703 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=19;CIGAR=1X2M1X;DP=20;DPB=20.75;DPRA=0;EPP=3.12459;EPPR=0;GTI=0;LEN=4;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=124.207;PAIRED=1;PAIREDR=0;PAO=1;PQA=32;PQR=11.5;PRO=0.5;QA=594;QR=0;RO=0;RPL=11;RPP=4.03889;RPPR=0;RPR=8;RUN=1;SAF=9;SAP=3.12459;SAR=10;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:190:0,188:0:0:188:5994:-551.426,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
953 NC_000962 2424925 . A G 3322.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=109;DPB=109;DPRA=0;EPP=3.98647;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=764.965;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3689;QR=0;RO=0;RPL=59;RPP=4.62396;RPPR=0;RPR=50;RUN=1;SAF=56;SAP=3.1896;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:506:0,506:0:0:506:18587:-1671.98,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
954 NC_000962 2425471 . T C 3402.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=3.72096;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=783.392;PAIRED=0.990909;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3778;QR=0;RO=0;RPL=70;RPP=20.7769;RPPR=0;RPR=40;RUN=1;SAF=46;SAP=9.40627;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:457:0,457:0:0:457:15583:-1402.07,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
955 NC_000962 2428517 . A G 3011.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=3.03138;EPPR=9.52472;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=693.5;PAIRED=0.970874;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3456;QR=108;RO=3;RPL=54;RPP=3.53736;RPPR=9.52472;RPR=49;RUN=1;SAF=50;SAP=3.20004;SAR=53;SRF=0;SRP=9.52472;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:436:0,436:0:0:436:15058:-1354.79,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
956 NC_000962 2439204 . A G 401.977 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=14;CIGAR=1X;DP=15;DPB=15;DPRA=0;EPP=3.0103;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=92.5585;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=483;QR=36;RO=1;RPL=14;RPP=33.4109;RPPR=5.18177;RPR=0;RUN=1;SAF=7;SAP=3.0103;SAR=7;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:15:1,14:1:36:14:483:-40.1977,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
957 NC_000962 2440926 . G T 2954.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=12.0581;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=680.23;PAIRED=0.979167;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3280;QR=0;RO=0;RPL=52;RPP=4.45795;RPPR=0;RPR=44;RUN=1;SAF=40;SAP=8.80089;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:428:0,428:0:0:428:15154:-1363.38,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
958 NC_000962 2442468 . C T 3090.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=98;DPB=98;DPRA=0;EPP=13.7347;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=711.721;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3432;QR=0;RO=0;RPL=63;RPP=20.3821;RPPR=0;RPR=35;RUN=1;SAF=67;SAP=31.7269;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:377:0,377:0:0:377:13305:-1197.14,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
959 NC_000962 2448458 . C T 2324.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=77;CIGAR=1X;DP=77;DPB=77;DPRA=0;EPP=3.0385;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=535.219;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2580;QR=0;RO=0;RPL=38;RPP=3.0385;RPPR=0;RPR=39;RUN=1;SAF=30;SAP=11.1604;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:514:0,514:0:0:514:17971:-1616.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
960 NC_000962 2449249 . T C 11981 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=383;CIGAR=1X;DP=383;DPB=383;DPRA=0;EPP=11.6338;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2758.73;PAIRED=0.916449;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=13316;QR=0;RO=0;RPL=173;RPP=10.772;RPPR=0;RPR=210;RUN=1;SAF=96;SAP=209.844;SAR=287;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:383:0,383:0:0:383:13316:-1198.1,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
961 NC_000962 2451700 . A C 2630.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=5.47788;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=605.791;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2923;QR=0;RO=0;RPL=38;RPP=6.56362;RPPR=0;RPR=50;RUN=1;SAF=49;SAP=5.47788;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:341:0,341:0:0:341:11952:-1075.38,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
962 NC_000962 2462871 . G A 2365.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=77;CIGAR=1X;DP=78;DPB=78;DPRA=0;EPP=6.42261;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=544.763;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2630;QR=0;RO=0;RPL=33;RPP=6.42261;RPPR=0;RPR=44;RUN=1;SAF=45;SAP=7.77626;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:470:0,470:0:0:470:15929:-1433.21,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
963 NC_000962 2470591 . A C 3114.35 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=9.90792;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=717.106;PAIRED=0.990196;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3458;QR=0;RO=0;RPL=41;RPP=11.5259;RPPR=0;RPR=61;RUN=1;SAF=59;SAP=8.46027;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:442:0,442:0:0:442:15096:-1358.3,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
964 NC_000962 2474686 . C T 2633.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=84;CIGAR=1X;DP=84;DPB=84;DPRA=0;EPP=4.66476;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=606.496;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2924;QR=0;RO=0;RPL=42;RPP=3.0103;RPPR=0;RPR=42;RUN=1;SAF=52;SAP=13.3506;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:355:0,355:0:0:355:12106:-1089.28,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
965 NC_000962 2491597 . G T 4543.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=147;CIGAR=1X;DP=148;DPB=148;DPRA=0;EPP=30.3236;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1046.15;PAIRED=0.993197;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=5082;QR=32;RO=1;RPL=73;RPP=3.02507;RPPR=5.18177;RPR=74;RUN=1;SAF=78;SAP=4.20683;SAR=69;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:437:0,437:0:0:437:15249:-1372.02,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
966 NC_000962 2499726 . G A 3962.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=3.43776;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=912.44;PAIRED=0.992126;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4401;QR=0;RO=0;RPL=66;RPP=3.43776;RPPR=0;RPR=61;RUN=1;SAF=48;SAP=19.4417;SAR=79;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:419:0,419:0:0:419:15301:-1376.49,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
967 NC_000962 2505085 . G A 3706.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=3.17453;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=853.412;PAIRED=0.991597;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4116;QR=0;RO=0;RPL=55;RPP=4.48836;RPPR=0;RPR=64;RUN=1;SAF=60;SAP=3.02855;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:490:0,490:0:0:490:17625:-1585.6,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
968 NC_000962 2509140 . G C 4742.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=151;CIGAR=1X;DP=151;DPB=151;DPRA=0;EPP=7.1663;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1092.04;PAIRED=0.986755;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5268;QR=0;RO=0;RPL=85;RPP=8.2017;RPPR=0;RPR=66;RUN=1;SAF=61;SAP=15.1044;SAR=90;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:383:0,382:0:0:382:13086:-1177.2,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
969 NC_000962 2509722 . A G 2991.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=26.8965;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=688.728;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3321;QR=0;RO=0;RPL=56;RPP=6.71716;RPPR=0;RPR=43;RUN=1;SAF=40;SAP=10.9285;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:387:0,387:0:0:387:13415:-1206.92,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
970 NC_000962 2510350 . C G 3055 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=3.09893;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=703.44;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3396;QR=0;RO=0;RPL=53;RPP=4.4284;RPPR=0;RPR=45;RUN=1;SAF=53;SAP=4.4284;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:524:0,524:0:0:524:18543:-1668.21,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
971 NC_000962 2516567 . G C 2168.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=70;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=23.9805;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=499.303;PAIRED=0.971429;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2409;QR=0;RO=0;RPL=40;RPP=6.1124;RPPR=0;RPR=30;RUN=1;SAF=24;SAP=18.0245;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:501:0,501:0:0:501:17888:-1609.27,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
972 NC_000962 2521342 . T C 4169.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=137;CIGAR=1X;DP=137;DPB=137;DPRA=0;EPP=11.395;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=960.085;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4631;QR=0;RO=0;RPL=58;RPP=10.0002;RPPR=0;RPR=79;RUN=1;SAF=82;SAP=14.5651;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:332:0,332:0:0:332:11441:-1029.49,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
973 NC_000962 2521428 . A G 4579 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=149;CIGAR=1X;DP=149;DPB=149;DPRA=0;EPP=22.9616;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1054.35;PAIRED=0.986577;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5086;QR=0;RO=0;RPL=79;RPP=4.19076;RPPR=0;RPR=70;RUN=1;SAF=85;SAP=9.43728;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:454:1,453:1:34:453:15803:-1418.39,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
974 NC_000962 2522955 . T G 2845.35 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=6.95631;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=655.166;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3159;QR=0;RO=0;RPL=51;RPP=4.90158;RPPR=0;RPR=42;RUN=1;SAF=25;SAP=46.1829;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:403:0,403:0:0:403:14087:-1267.41,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
975 NC_000962 2523205 . GCG GCGCCG 3709.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=137;CIGAR=1M3I2M;DP=142;DPB=279;DPRA=0;EPP=14.5651;EPPR=3.0103;GTI=0;LEN=3;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=854.08;PAIRED=0.927007;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4249;QR=126;RO=4;RPL=64;RPP=4.29416;RPPR=11.6962;RPR=73;RUN=1;SAF=46;SAP=35.1069;SAR=91;SRF=2;SRP=3.0103;SRR=2;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:142:4,137:4:126:137:4249:-370.922,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
976 NC_000962 2525722 . CGGGGGAGGAC CGGGGAGGAC 2467.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=82;CIGAR=1M1D9M;DP=89;DPB=81.4545;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=6;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=568.223;PAIRED=1;PAIREDR=0;PAO=1;PQA=23;PQR=23;PRO=1;QA=2742;QR=0;RO=0;RPL=50;RPP=11.5903;RPPR=0;RPR=32;RUN=1;SAF=39;SAP=3.434;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:406:0,405:0:0:405:13829:-1244.08,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
977 NC_000962 2526974 . T C 3472.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=15.6647;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=799.558;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3856;QR=0;RO=0;RPL=57;RPP=3.08518;RPPR=0;RPR=59;RUN=1;SAF=52;SAP=5.70592;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:484:0,484:0:0:484:16777:-1509.44,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
978 NC_000962 2529680 . A G 3765.72 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=125;CIGAR=1X;DP=125;DPB=125;DPRA=0;EPP=3.44459;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=867.09;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4182;QR=0;RO=0;RPL=59;RPP=3.86152;RPPR=0;RPR=66;RUN=1;SAF=55;SAP=6.91895;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:472:0,472:0:0:472:16257:-1462.8,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
979 NC_000962 2531742 . A G 5029.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=166;CIGAR=1X;DP=167;DPB=167;DPRA=0;EPP=3.2196;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1158.06;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5589;QR=0;RO=0;RPL=70;RPP=11.8532;RPPR=0;RPR=96;RUN=1;SAF=99;SAP=16.4054;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:589:0,589:0:0:589:20940:-1883.71,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
980 NC_000962 2533377 . T C 3766.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=4.44029;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=867.295;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4183;QR=0;RO=0;RPL=65;RPP=3.87536;RPPR=0;RPR=58;RUN=1;SAF=55;SAP=5.99387;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:425:0,425:0:0:425:14926:-1342.83,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
981 NC_000962 2534562 . GGAG GG 2983.95 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1M2D1M;DP=104;DPB=52.25;DPRA=0;EPP=13.116;EPPR=0;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=687.079;PAIRED=0.990385;PAIREDR=0;PAO=0.5;PQA=7;PQR=7;PRO=0.5;QA=3313;QR=0;RO=0;RPL=54;RPP=3.34437;RPPR=0;RPR=50;RUN=1;SAF=53;SAP=3.09382;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:278:0,278:0:0:278:9199:-827.832,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
982 NC_000962 2536599 . C T 3508.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=8.56389;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=807.835;PAIRED=0.938053;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3896;QR=0;RO=0;RPL=56;RPP=3.02952;RPPR=0;RPR=57;RUN=1;SAF=61;SAP=4.56684;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:405:0,405:0:0:405:14274:-1284.23,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
983 NC_000962 2536628 . GGGGGAGC GAGGGGAGC 9585.95 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=317;CIGAR=1M1I7M;DP=332;DPB=378.5;DPRA=0;EPP=3.56516;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2207.25;PAIRED=0.880126;PAIREDR=0;PAO=6;PQA=161;PQR=334;PRO=14;QA=10829;QR=0;RO=0;RPL=175;RPP=10.47;RPPR=0;RPR=142;RUN=1;SAF=155;SAP=3.34595;SAR=162;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:332:0,317:0:0:317:10829:-958.595,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
984 NC_000962 2536892 . T C 4254.43 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=138;CIGAR=1X;DP=139;DPB=139;DPRA=0;EPP=36.3062;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=979.618;PAIRED=0.985507;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4728;QR=0;RO=0;RPL=70;RPP=3.07324;RPPR=0;RPR=68;RUN=1;SAF=90;SAP=30.7674;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:354:1,353:1:41:353:12347:-1106.84,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
985 NC_000962 2543395 . T C 2422.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=5.72464;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=557.803;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2689;QR=0;RO=0;RPL=39;RPP=3.11887;RPPR=0;RPR=41;RUN=1;SAF=52;SAP=18.6449;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:572:0,572:0:0:572:20171:-1814.63,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
986 NC_000962 2546684 . C A 1764.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=58;CIGAR=1X;DP=58;DPB=58;DPRA=0;EPP=3.16006;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=406.383;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1958;QR=0;RO=0;RPL=32;RPP=4.35811;RPPR=0;RPR=26;RUN=1;SAF=20;SAP=15.1406;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:422:0,422:0:0:422:14731:-1325.27,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
987 NC_000962 2548700 . C T 2189.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=71;CIGAR=1X;DP=71;DPB=71;DPRA=0;EPP=4.50892;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=504.152;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2430;QR=0;RO=0;RPL=40;RPP=5.48761;RPPR=0;RPR=31;RUN=1;SAF=33;SAP=3.7749;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:504:0,504:0:0:504:16952:-1525.31,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
988 NC_000962 2550014 . T C 290.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=10;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=6.48466;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=66.8256;PAIRED=0.3;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=319;QR=0;RO=0;RPL=10;RPP=24.725;RPPR=0;RPR=0;RUN=1;SAF=7;SAP=6.48466;SAR=3;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:10:0,10:0:0:10:319:-29.022,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
989 NC_000962 2551576 . CT GC 2825.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=2X;DP=94;DPB=96;DPRA=0;EPP=5.3706;EPPR=0;GTI=0;LEN=2;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=650.526;PAIRED=0.695652;PAIREDR=0;PAO=4;PQA=92;PQR=0;PRO=0;QA=3048;QR=0;RO=0;RPL=41;RPP=5.3706;RPPR=0;RPR=51;RUN=1;SAF=46;SAP=3.0103;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:428:0,427:0:0:427:15072:-1381.72,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
990 NC_000962 2552826 . G A 2464.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=81;DPB=81;DPRA=0;EPP=5.72464;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=567.542;PAIRED=0.9875;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2739;QR=0;RO=0;RPL=35;RPP=5.72464;RPPR=0;RPR=45;RUN=1;SAF=30;SAP=13.8677;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:634:0,634:0:0:634:22206:-1997.78,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
991 NC_000962 2562644 . G T 2138.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=1X;DP=69;DPB=69;DPRA=0;EPP=3.29354;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=492.348;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2373;QR=0;RO=0;RPL=41;RPP=8.32883;RPPR=0;RPR=28;RUN=1;SAF=37;SAP=3.79707;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:604:0,603:0:0:603:20970:-1886.3,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
992 NC_000962 2564368 . GCA GCCA 1503.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=53;CIGAR=1M1I2M;DP=57;DPB=74.6667;DPRA=0;EPP=12.2288;EPPR=5.18177;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=346.088;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=1691;QR=21;RO=1;RPL=32;RPP=7.96781;RPPR=5.18177;RPR=21;RUN=1;SAF=26;SAP=3.05127;SAR=27;SRF=1;SRP=5.18177;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:451:1,437:1:20:437:14544:-1306.48,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
993 NC_000962 2566766 . CGA CGGC 2394.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1M1I1M1X;DP=87;DPB=115;DPRA=0;EPP=4.32391;EPPR=0;GTI=0;LEN=4;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=551.392;PAIRED=0.975309;PAIREDR=0;PAO=1;PQA=36;PQR=0;PRO=0;QA=2625;QR=0;RO=0;RPL=36;RPP=5.18177;RPPR=0;RPR=45;RUN=1;SAF=41;SAP=3.03711;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:422:0,406:0:0:406:14297:-1325.14,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
994 NC_000962 2573756 . C A 3079.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=11.6962;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=709.023;PAIRED=0.98;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3419;QR=0;RO=0;RPL=55;RPP=5.18177;RPPR=0;RPR=45;RUN=1;SAF=39;SAP=13.5202;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:421:0,421:0:0:421:14781:-1329.84,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
995 NC_000962 2578626 . A G 2633.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=6.56362;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=606.483;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2924;QR=0;RO=0;RPL=44;RPP=3.0103;RPPR=0;RPR=44;RUN=1;SAF=40;SAP=4.58955;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:498:0,498:0:0:498:17442:-1569.25,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
996 NC_000962 2581052 . G A 2783.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=3.86001;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=640.869;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3090;QR=0;RO=0;RPL=37;RPP=10.6577;RPPR=0;RPR=55;RUN=1;SAF=42;SAP=4.52089;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:473:0,473:0:0:473:16720:-1504.2,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
997 NC_000962 2586076 . C G 3749.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=3.87536;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=863.358;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4164;QR=0;RO=0;RPL=62;RPP=3.02795;RPPR=0;RPR=61;RUN=1;SAF=57;SAP=4.44029;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:403:0,403:0:0:403:13912:-1251.7,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
998 NC_000962 2586127 . A G 4359.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=144;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=3.25157;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1003.81;PAIRED=0.993056;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4842;QR=0;RO=0;RPL=71;RPP=3.07062;RPPR=0;RPR=73;RUN=1;SAF=61;SAP=10.3089;SAR=83;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:423:0,423:0:0:423:14204:-1278.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
999 NC_000962 2589036 . G C 2768.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=4.94315;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=637.557;PAIRED=0.989011;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3104;QR=27;RO=1;RPL=42;RPP=4.17955;RPPR=5.18177;RPR=49;RUN=1;SAF=35;SAP=13.5336;SAR=56;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:425:0,425:0:0:425:14694:-1322.15,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1000 NC_000962 2589216 . G C 3492.19 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=6.2579;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=804.106;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3878;QR=0;RO=0;RPL=60;RPP=3.95191;RPPR=0;RPR=53;RUN=1;SAF=51;SAP=5.3355;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:457:0,457:0:0:457:16209:-1458.28,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1001 NC_000962 2589353 . A G 14619.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=469;CIGAR=1X;DP=469;DPB=469;DPRA=0;EPP=75.3541;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3366.18;PAIRED=0.886994;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16249;QR=0;RO=0;RPL=185;RPP=48.389;RPPR=0;RPR=284;RUN=1;SAF=230;SAP=3.38533;SAR=239;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:469:0,469:0:0:469:16249:-1461.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1002 NC_000962 2598400 . A G 5008.57 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=164;CIGAR=1X;DP=165;DPB=165;DPRA=0;EPP=8.30657;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1153.27;PAIRED=0.981707;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5566;QR=0;RO=0;RPL=78;RPP=3.8577;RPPR=0;RPR=86;RUN=1;SAF=88;SAP=4.91696;SAR=76;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:431:0,431:0:0:431:14963:-1346.27,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1003 NC_000962 2600260 . A G 4141.78 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1X;DP=136;DPB=136;DPRA=0;EPP=8.18351;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=953.68;PAIRED=0.985294;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4600;QR=0;RO=0;RPL=78;RPP=9.39698;RPPR=0;RPR=58;RUN=1;SAF=63;SAP=4.60697;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:436:0,436:0:0:436:14638:-1317.01,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1004 NC_000962 2601576 . T G 3918.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=129;DPB=129;DPRA=0;EPP=4.70676;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=902.297;PAIRED=0.984375;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4356;QR=0;RO=0;RPL=65;RPP=3.07816;RPPR=0;RPR=63;RUN=1;SAF=40;SAP=42.0968;SAR=88;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:516:0,516:0:0:516:18048:-1623.68,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1005 NC_000962 2601760 . G A 2754.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=23.0785;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=634.248;PAIRED=0.945055;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3058;QR=0;RO=0;RPL=44;RPP=3.22506;RPPR=0;RPR=47;RUN=1;SAF=41;SAP=4.94315;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:524:0,523:0:0:523:18332:-1648.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1006 NC_000962 2608117 . C A 3877.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=125;CIGAR=1X;DP=125;DPB=125;DPRA=0;EPP=5.11229;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=892.771;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4306;QR=0;RO=0;RPL=56;RPP=5.94613;RPPR=0;RPR=69;RUN=1;SAF=44;SAP=26.7923;SAR=81;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:515:0,515:0:0:515:17386:-1564.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1007 NC_000962 2609847 . G T 4405.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=142;CIGAR=1X;DP=142;DPB=142;DPRA=0;EPP=5.21236;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1014.37;PAIRED=0.985915;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4893;QR=0;RO=0;RPL=80;RPP=7.96493;RPPR=0;RPR=62;RUN=1;SAF=75;SAP=3.98899;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:354:0,354:0:0:354:11981:-1078.08,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1008 NC_000962 2612256 . G T 3087.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=3.20004;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=710.886;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3428;QR=0;RO=0;RPL=41;RPP=12.3076;RPPR=0;RPR=62;RUN=1;SAF=49;SAP=3.53736;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:416:0,416:0:0:416:14123:-1270.71,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1009 NC_000962 2612632 . C A 2669.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=5.47788;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=614.766;PAIRED=0.965909;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2964;QR=0;RO=0;RPL=48;RPP=4.58955;RPPR=0;RPR=40;RUN=1;SAF=41;SAP=3.89863;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:484:1,483:1:20:483:16031:-1440.43,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1010 NC_000962 2614909 . GCCGG GCGG 1274.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=45;CIGAR=1M1D3M;DP=45;DPB=36;DPRA=0;EPP=5.37479;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=293.461;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1413;QR=0;RO=0;RPL=26;RPP=5.37479;RPPR=0;RPR=19;RUN=1;SAF=22;SAP=3.05855;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:548:0,547:0:0:547:18650:-1677.53,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1011 NC_000962 2619271 . T C 2477.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=84;DPB=84;DPRA=0;EPP=16.8502;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=570.368;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2752;QR=0;RO=0;RPL=46;RPP=5.12945;RPPR=0;RPR=37;RUN=1;SAF=27;SAP=25.0128;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:531:0,531:0:0:531:18779:-1689.38,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1012 NC_000962 2623778 . G A 4200.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=137;CIGAR=1X;DP=140;DPB=140;DPRA=0;EPP=5.68898;EPPR=7.35324;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=967.197;PAIRED=0.992701;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4741;QR=72;RO=2;RPL=63;RPP=4.92817;RPPR=7.35324;RPR=74;RUN=1;SAF=67;SAP=3.15295;SAR=70;SRF=0;SRP=7.35324;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:487:0,487:0:0:487:16300:-1466.66,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1013 NC_000962 2625924 . T C 1781.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=58;CIGAR=1X;DP=58;DPB=58;DPRA=0;EPP=10.3484;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=410.108;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1976;QR=0;RO=0;RPL=53;RPP=89.2702;RPPR=0;RPR=5;RUN=1;SAF=21;SAP=12.5947;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:246:0,246:0:0:246:8665:-779.738,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1014 NC_000962 2626004 . G A 320.182 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=10;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=6.48466;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=73.7246;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=352;QR=0;RO=0;RPL=4;RPP=3.87889;RPPR=0;RPR=6;RUN=1;SAF=7;SAP=6.48466;SAR=3;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:10:0,10:0:0:10:352:-32.0182,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1015 NC_000962 2626018 . T C 365.918 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=12;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=5.9056;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=84.2556;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=403;QR=0;RO=0;RPL=0;RPP=29.068;RPPR=0;RPR=12;RUN=1;SAF=4;SAP=5.9056;SAR=8;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:18:0,18:0:0:18:637:-57.6564,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1016 NC_000962 2627618 . C A 2475.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=3.69747;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=570.037;PAIRED=0.987342;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2748;QR=0;RO=0;RPL=35;RPP=5.23675;RPPR=0;RPR=44;RUN=1;SAF=40;SAP=3.03779;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:482:0,482:0:0:482:16817:-1513.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1017 NC_000962 2627946 . A G 2365.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=77;CIGAR=1X;DP=77;DPB=77;DPRA=0;EPP=13.1908;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=544.762;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2626;QR=0;RO=0;RPL=37;RPP=3.26411;RPPR=0;RPR=40;RUN=1;SAF=47;SAP=11.1604;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:548:0,548:0:0:548:19118:-1719.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1018 NC_000962 2630740 . T C 2955.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=3.10078;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=680.53;PAIRED=0.989583;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3284;QR=0;RO=0;RPL=49;RPP=3.10078;RPPR=0;RPR=47;RUN=1;SAF=58;SAP=12.0581;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:444:0,444:0:0:444:15771:-1418.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1019 NC_000962 2631371 . C T 2127.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=1X;DP=69;DPB=69;DPRA=0;EPP=8.32883;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=489.864;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2361;QR=0;RO=0;RPL=42;RPP=10.0912;RPPR=0;RPR=27;RUN=1;SAF=27;SAP=10.0912;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:566:0,566:0:0:566:19698:-1772.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1020 NC_000962 2632341 . CAAAACT CAAAAACT 1782.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=59;CIGAR=1M1I6M;DP=59;DPB=67.4286;DPRA=0;EPP=7.46366;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=410.526;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1978;QR=0;RO=0;RPL=30;RPP=3.0471;RPPR=0;RPR=29;RUN=1;SAF=27;SAP=3.93042;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:587:2,573:2:59:573:20040:-1797.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1021 NC_000962 2634282 . T G 1782 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=59;CIGAR=1X;DP=59;DPB=59;DPRA=0;EPP=3.0471;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=410.32;PAIRED=0.694915;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1977;QR=0;RO=0;RPL=34;RPP=5.99147;RPPR=0;RPR=25;RUN=1;SAF=28;SAP=3.34154;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:547:0,547:0:0:547:18996:-1709.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1022 NC_000962 2635577 . T C 598.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=20;CIGAR=1X;DP=20;DPB=20;DPRA=0;EPP=13.8677;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=137.704;PAIRED=0.7;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=661;QR=0;RO=0;RPL=20;RPP=46.4397;RPPR=0;RPR=0;RUN=1;SAF=5;SAP=13.8677;SAR=15;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:20:0,20:0:0:20:661:-59.804,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1023 NC_000962 2637162 . C T 2231.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=71;CIGAR=1X;DP=71;DPB=71;DPRA=0;EPP=3.28556;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=513.892;PAIRED=0.661972;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2477;QR=0;RO=0;RPL=37;RPP=3.28556;RPPR=0;RPR=34;RUN=1;SAF=38;SAP=3.7749;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:394:0,393:0:0:393:13856:-1246.3,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1024 NC_000962 2637541 . C T 2538.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=83;DPB=83;DPRA=0;EPP=3.24576;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=584.532;PAIRED=0.987952;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2818;QR=0;RO=0;RPL=42;RPP=3.03646;RPPR=0;RPR=41;RUN=1;SAF=24;SAP=35.0591;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:525:0,525:0:0:525:18378:-1653.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1025 NC_000962 2642383 . C T 3041.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=3.56996;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=700.33;PAIRED=0.989691;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3377;QR=0;RO=0;RPL=52;RPP=4.10723;RPPR=0;RPR=45;RUN=1;SAF=35;SAP=19.3299;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:470:0,470:0:0:470:16608:-1494.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1026 NC_000962 2647905 . G A 3229.57 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=8.25461;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=743.636;PAIRED=0.981132;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3589;QR=0;RO=0;RPL=44;RPP=9.64763;RPPR=0;RPR=62;RUN=1;SAF=49;SAP=4.32138;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:374:0,374:0:0:374:12326:-1109.15,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1027 NC_000962 2656225 . A G 3402.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=3.08649;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=783.394;PAIRED=0.991228;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3778;QR=0;RO=0;RPL=61;RPP=4.22937;RPPR=0;RPR=53;RUN=1;SAF=43;SAP=17.9439;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:477:0,477:0:0:477:16627:-1495.92,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1028 NC_000962 2660319 . C G 4641.95 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=151;CIGAR=1X;DP=151;DPB=151;DPRA=0;EPP=3.36982;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1068.85;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5156;QR=0;RO=0;RPL=84;RPP=7.1663;RPPR=0;RPR=67;RUN=1;SAF=80;SAP=4.17513;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:551:0,551:0:0:551:19455:-1750.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1029 NC_000962 2663795 . G A 4639.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=148;CIGAR=1X;DP=148;DPB=148;DPRA=0;EPP=3.06899;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1068.21;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5153;QR=0;RO=0;RPL=70;RPP=3.94932;RPPR=0;RPR=78;RUN=1;SAF=71;SAP=3.5385;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:385:0,385:0:0:385:12593:-1133.2,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1030 NC_000962 2673818 . C G 4353.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=143;CIGAR=1X;DP=143;DPB=143;DPRA=0;EPP=15.781;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1002.35;PAIRED=0.993007;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4835;QR=0;RO=0;RPL=64;RPP=6.42695;RPPR=0;RPR=79;RUN=1;SAF=72;SAP=3.02549;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:436:0,436:0:0:436:15042:-1353.47,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1031 NC_000962 2678835 . T C 2275.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=74;CIGAR=1X;DP=74;DPB=74;DPRA=0;EPP=3.12768;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=524.036;PAIRED=0.972973;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2526;QR=0;RO=0;RPL=30;RPP=8.76177;RPPR=0;RPR=44;RUN=1;SAF=40;SAP=4.06669;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:505:0,505:0:0:505:17692:-1591.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1032 NC_000962 2680658 . T G 2654.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=3.63429;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=611.249;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2947;QR=0;RO=0;RPL=48;RPP=5.03202;RPPR=0;RPR=39;RUN=1;SAF=42;SAP=3.23494;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:512:0,512:0:0:512:17681:-1590.73,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1033 NC_000962 2692100 . C T 3158.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=5.13919;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=727.262;PAIRED=0.990196;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3507;QR=0;RO=0;RPL=46;RPP=5.13919;RPPR=0;RPR=56;RUN=1;SAF=66;SAP=22.1704;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:462:0,462:0:0:462:15834:-1424.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1034 NC_000962 2695378 . C G 2493.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1X;DP=82;DPB=82;DPRA=0;EPP=6.2541;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=574.179;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2772;QR=0;RO=0;RPL=42;RPP=3.25157;RPPR=0;RPR=39;RUN=1;SAF=44;SAP=4.32391;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:518:0,518:0:0:518:18591:-1672.42,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1035 NC_000962 2697489 . C T 2220.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=73;CIGAR=1X;DP=73;DPB=73;DPRA=0;EPP=9.70319;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=511.199;PAIRED=0.972603;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2464;QR=0;RO=0;RPL=40;RPP=4.46786;RPPR=0;RPR=33;RUN=1;SAF=43;SAP=8.03741;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:432:0,432:0:0:432:15193:-1366.93,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1036 NC_000962 2703902 . CGC CGGC 1811.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=60;CIGAR=1M1I2M;DP=66;DPB=86.3333;DPRA=0;EPP=6.62942;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=393.06;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2013;QR=0;RO=0;RPL=37;RPP=10.1038;RPPR=0;RPR=23;RUN=1;SAF=24;SAP=8.22183;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:272:0,254:0:0:254:8410:-756.519,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1037 NC_000962 2706663 . G T 3172.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=12.4917;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=730.571;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3523;QR=0;RO=0;RPL=43;RPP=7.84774;RPPR=0;RPR=58;RUN=1;SAF=52;SAP=3.2038;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:524:0,524:0:0:524:18846:-1695.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1038 NC_000962 2711722 . T G 4850.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=160;CIGAR=1X;DP=160;DPB=160;DPRA=0;EPP=6.48466;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1116.91;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5388;QR=0;RO=0;RPL=73;RPP=5.67035;RPPR=0;RPR=87;RUN=1;SAF=67;SAP=12.1848;SAR=93;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:343:0,342:0:0:342:11450:-1030.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1039 NC_000962 2713795 . C T 4424.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=141;CIGAR=1X;DP=141;DPB=141;DPRA=0;EPP=7.46105;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1018.7;PAIRED=0.985816;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4914;QR=0;RO=0;RPL=64;RPP=5.61299;RPPR=0;RPR=77;RUN=1;SAF=79;SAP=7.46105;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:360:0,360:0:0:360:12020:-1081.65,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1040 NC_000962 2714846 . C T 3676.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=3.30474;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=846.563;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4083;QR=0;RO=0;RPL=61;RPP=3.30474;RPPR=0;RPR=57;RUN=1;SAF=64;SAP=4.85053;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:455:0,455:0:0:455:15834:-1424.63,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1041 NC_000962 2718852 . T G 2519.72 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=3.11887;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=580.187;PAIRED=0.975;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2797;QR=0;RO=0;RPL=42;RPP=3.44459;RPPR=0;RPR=38;RUN=1;SAF=31;SAP=11.8048;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:550:0,550:0:0:550:19616:-1764.68,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1042 NC_000962 2721562 . C G 2524.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=85;CIGAR=1X;DP=85;DPB=85;DPRA=0;EPP=3.64897;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=581.219;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2802;QR=0;RO=0;RPL=36;RPP=7.3277;RPPR=0;RPR=49;RUN=1;SAF=36;SAP=7.3277;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:485:0,485:0:0:485:17472:-1571.74,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1043 NC_000962 2723506 . T C 3015.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=3.80798;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=694.428;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3351;QR=0;RO=0;RPL=50;RPP=3.09893;RPPR=0;RPR=48;RUN=1;SAF=40;SAP=10.1895;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:493:1,491:1:23:491:16912:-1519.37,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1044 NC_000962 2729058 . A C 3054.09 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=8.46027;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=703.231;PAIRED=0.990196;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3395;QR=0;RO=0;RPL=47;RPP=4.37279;RPPR=0;RPR=55;RUN=1;SAF=48;SAP=3.7767;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:487:0,487:0:0:487:16856:-1516.53,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1045 NC_000962 2734074 . T C 3960.97 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=131;CIGAR=1X;DP=131;DPB=131;DPRA=0;EPP=3.15949;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=912.046;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4399;QR=0;RO=0;RPL=78;RPP=13.3704;RPPR=0;RPR=53;RUN=1;SAF=77;SAP=11.7791;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:298:1,297:1:36:297:10167:-911.245,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1046 NC_000962 2734481 . TAC TC 3064.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1M1D1M;DP=106;DPB=71.3333;DPRA=0;EPP=11.3621;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=705.648;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3426;QR=21;RO=1;RPL=60;RPP=8.35546;RPPR=5.18177;RPR=44;RUN=1;SAF=38;SAP=19.3799;SAR=66;SRF=1;SRP=5.18177;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:510:0,502:0:0:502:16702:-1502.53,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1047 NC_000962 2737572 . C A 2118.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=70;CIGAR=1X;DP=73;DPB=73;DPRA=0;EPP=15.4187;EPPR=7.35324;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=487.704;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2395;QR=42;RO=2;RPL=33;RPP=3.50664;RPPR=7.35324;RPR=37;RUN=1;SAF=16;SAP=47.8047;SAR=54;SRF=2;SRP=7.35324;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:369:0,369:0:0:369:12486:-1123.48,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1048 NC_000962 2738274 . A C 5319.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=171;CIGAR=1X;DP=171;DPB=171;DPRA=0;EPP=5.8675;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1224.82;PAIRED=0.994152;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5909;QR=0;RO=0;RPL=87;RPP=3.12459;RPPR=0;RPR=84;RUN=1;SAF=62;SAP=31.0617;SAR=109;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:392:0,392:0:0:392:13545:-1218.71,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1049 NC_000962 2740693 . T C 1681.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=55;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=3.36563;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=387.116;PAIRED=0.981818;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1865;QR=0;RO=0;RPL=32;RPP=6.20829;RPPR=0;RPR=23;RUN=1;SAF=35;SAP=11.8936;SAR=20;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:376:0,376:0:0:376:12942:-1164.5,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1050 NC_000962 2741209 . G A 3326.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=105;CIGAR=1X;DP=105;DPB=105;DPRA=0;EPP=7.66346;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=765.982;PAIRED=0.980952;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3694;QR=0;RO=0;RPL=48;RPP=4.68544;RPPR=0;RPR=57;RUN=1;SAF=54;SAP=3.19643;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:559:0,559:0:0:559:19967:-1796.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1051 NC_000962 2751804 . C T 3321.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=5.05886;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=764.748;PAIRED=0.990566;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3688;QR=0;RO=0;RPL=57;RPP=4.32138;RPPR=0;RPR=49;RUN=1;SAF=65;SAP=14.81;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:385:0,385:0:0:385:13588:-1222.55,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1052 NC_000962 2752122 . G C 3378.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=778.001;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3752;QR=0;RO=0;RPL=56;RPP=3.08926;RPPR=0;RPR=54;RUN=1;SAF=57;SAP=3.32615;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:460:0,460:0:0:460:15891:-1429.81,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1053 NC_000962 2752698 . C A 19199 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=626;CIGAR=1X;DP=626;DPB=626;DPRA=0;EPP=5.00833;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=4420.73;PAIRED=0.920128;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=21340;QR=0;RO=0;RPL=304;RPP=4.13419;RPPR=0;RPR=322;RUN=1;SAF=297;SAP=6.56236;SAR=329;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:626:0,626:0:0:626:21340:-1919.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1054 NC_000962 2760152 . A G 5489.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=178;CIGAR=1X;DP=178;DPB=178;DPRA=0;EPP=6.96287;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1263.97;PAIRED=0.97191;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6098;QR=0;RO=0;RPL=88;RPP=3.0591;RPPR=0;RPR=90;RUN=1;SAF=86;SAP=3.44947;SAR=92;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:485:0,485:0:0:485:16751:-1507.06,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1055 NC_000962 2774555 . T C 4164.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=137;CIGAR=1X;DP=137;DPB=137;DPRA=0;EPP=4.92817;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=958.855;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4625;QR=0;RO=0;RPL=88;RPP=27.1184;RPPR=0;RPR=49;RUN=1;SAF=63;SAP=4.92817;SAR=74;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:358:0,358:0:0:358:12075:-1086.59,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1056 NC_000962 2775361 . C T 4201.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=135;CIGAR=1X;DP=135;DPB=135;DPRA=0;EPP=3.41242;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=967.334;PAIRED=0.97037;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4666;QR=0;RO=0;RPL=73;RPP=4.95658;RPPR=0;RPR=62;RUN=1;SAF=68;SAP=3.02638;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:444:0,444:0:0:444:15553:-1399.26,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1057 NC_000962 2779136 . T C 3222.93 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=3.19295;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=742.107;PAIRED=0.981308;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3581;QR=0;RO=0;RPL=45;RPP=8.8753;RPPR=0;RPR=62;RUN=1;SAF=57;SAP=4.00471;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:479:0,479:0:0:479:17021:-1531.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1058 NC_000962 2780415 . G A 3516.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=12.2295;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=809.703;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3945;QR=36;RO=1;RPL=55;RPP=3.31507;RPPR=5.18177;RPR=59;RUN=1;SAF=65;SAP=7.88659;SAR=49;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:393:0,393:0:0:393:13884:-1249.1,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1059 NC_000962 2786952 . A G 3049.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=3.7767;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=702.193;PAIRED=0.980392;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3386;QR=0;RO=0;RPL=50;RPP=3.09546;RPPR=0;RPR=52;RUN=1;SAF=50;SAP=3.09546;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:493:0,493:0:0:493:17506:-1574.87,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1060 NC_000962 2789798 . G T 2442.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=5.23675;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=562.364;PAIRED=0.987342;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2711;QR=0;RO=0;RPL=37;RPP=3.69747;RPPR=0;RPR=42;RUN=1;SAF=39;SAP=3.03779;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:524:0,524:0:0:524:18796:-1690.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1061 NC_000962 2791098 . C T 2900.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=3.03365;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=667.809;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3220;QR=0;RO=0;RPL=44;RPP=3.59403;RPPR=0;RPR=49;RUN=1;SAF=44;SAP=3.59403;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:428:0,428:0:0:428:14090:-1267.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1062 NC_000962 2793810 . C A 3269.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=6.44001;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=752.828;PAIRED=0.990654;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3666;QR=32;RO=1;RPL=62;RPP=8.8753;RPPR=5.18177;RPR=45;RUN=1;SAF=40;SAP=17.8047;SAR=67;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:486:0,486:0:0:486:16637:-1496.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1063 NC_000962 2794071 . G A 3458 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=5.3774;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=796.234;PAIRED=0.990991;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3840;QR=0;RO=0;RPL=44;RPP=13.359;RPPR=0;RPR=67;RUN=1;SAF=53;SAP=3.49937;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:546:0,546:0:0:546:19366:-1742.21,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1064 NC_000962 2800087 . G A 4480.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=146;CIGAR=1X;DP=147;DPB=147;DPRA=0;EPP=13.0645;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1031.78;PAIRED=0.993151;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4980;QR=0;RO=0;RPL=67;RPP=5.15203;RPPR=0;RPR=79;RUN=1;SAF=77;SAP=3.96218;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:440:0,440:0:0:440:15388:-1384.46,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1065 NC_000962 2802041 . C T 1118.01 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=37;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=19.9713;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=257.432;PAIRED=0.972973;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1239;QR=0;RO=0;RPL=21;RPP=4.47751;RPPR=0;RPR=16;RUN=1;SAF=12;SAP=12.9286;SAR=25;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:268:0,268:0:0:268:8529:-767.624,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1066 NC_000962 2802268 . CCCGCCGCCGCCGCCGGGGCT CCCGCCGCCGCCGGGGCT 3190.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1M3D17M;DP=116;DPB=101.857;DPRA=0;EPP=30.5156;EPPR=0;GTI=0;LEN=3;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=734.671;PAIRED=0.868421;PAIREDR=0;PAO=5;PQA=10;PQR=10;PRO=5;QA=3546;QR=0;RO=0;RPL=64;RPP=6.74371;RPPR=0;RPR=50;RUN=1;SAF=70;SAP=15.8868;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:116:0,114:0:0:114:3546:-319.063,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1067 NC_000962 2806102 . G A 2512.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=82;CIGAR=1X;DP=82;DPB=82;DPRA=0;EPP=3.434;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=578.525;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2789;QR=0;RO=0;RPL=36;RPP=5.65844;RPPR=0;RPR=46;RUN=1;SAF=53;SAP=18.2636;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:424:0,424:0:0:424:14045:-1263.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1068 NC_000962 2807486 . C A 1038.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=34;CIGAR=1X;DP=34;DPB=34;DPRA=0;EPP=5.30951;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=239.207;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1151;QR=0;RO=0;RPL=22;RPP=9.39698;RPPR=0;RPR=12;RUN=1;SAF=12;SAP=9.39698;SAR=22;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:824:0,824:0:0:824:29655:-2667.46,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1069 NC_000962 2808452 . T C 3724.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=3.02795;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=857.548;PAIRED=0.96748;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4136;QR=0;RO=0;RPL=69;RPP=6.98251;RPPR=0;RPR=54;RUN=1;SAF=67;SAP=5.14646;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:421:0,421:0:0:421:14418:-1297.26,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1070 NC_000962 2809621 . T C 3001.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=4.75178;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=691.011;PAIRED=0.990099;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3332;QR=0;RO=0;RPL=51;RPP=3.0318;RPPR=0;RPR=50;RUN=1;SAF=41;SAP=10.7717;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:379:0,379:0:0:379:12898:-1160.58,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1071 NC_000962 2809633 . A C 3295.18 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=108;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=758.743;PAIRED=0.990741;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3659;QR=0;RO=0;RPL=50;RPP=4.2971;RPPR=0;RPR=58;RUN=1;SAF=50;SAP=4.2971;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:394:0,394:0:0:394:13507:-1215.29,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1072 NC_000962 2817502 . A C 3619.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=833.531;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4020;QR=0;RO=0;RPL=70;RPP=11.917;RPPR=0;RPR=48;RUN=1;SAF=49;SAP=10.3712;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:555:0,555:0:0:555:20043:-1802.95,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1073 NC_000962 2818837 . A G 3027.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=6.64375;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=697.219;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3362;QR=0;RO=0;RPL=54;RPP=4.06379;RPPR=0;RPR=47;RUN=1;SAF=52;SAP=3.2038;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:522:0,522:0:0:522:18265:-1643.21,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1074 NC_000962 2820608 . A G 3330.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=108;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=8.15749;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=766.818;PAIRED=0.981481;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3698;QR=0;RO=0;RPL=74;RPP=35.1803;RPPR=0;RPR=34;RUN=1;SAF=56;SAP=3.332;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:108:0,108:0:0:108:3698:-333.025,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1075 NC_000962 2821342 . C T 2455.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=6.33623;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=565.473;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2726;QR=0;RO=0;RPL=42;RPP=3.69747;RPPR=0;RPR=37;RUN=1;SAF=39;SAP=3.03779;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:417:0,417:0:0:417:13741:-1236.47,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1076 NC_000962 2825466 . G A 3817.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=5.49198;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=879.026;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4242;QR=0;RO=0;RPL=58;RPP=4.73369;RPPR=0;RPR=68;RUN=1;SAF=67;SAP=4.11327;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:406:1,405:1:31:405:14405:-1292.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1077 NC_000962 2825581 . T G 3922.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=129;DPB=129;DPRA=0;EPP=3.84811;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=903.219;PAIRED=0.992126;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4359;QR=0;RO=0;RPL=63;RPP=3.0274;RPPR=0;RPR=64;RUN=1;SAF=66;SAP=3.43776;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:516:0,516:0:0:516:18279:-1644.46,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1078 NC_000962 2827984 . G T 2862.47 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=12.4515;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=659.108;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3178;QR=0;RO=0;RPL=48;RPP=3.38795;RPPR=0;RPR=44;RUN=1;SAF=32;SAP=21.515;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:474:0,474:0:0:474:16875:-1518.13,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1079 NC_000962 2828019 . T C 2695.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=3.89863;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=620.573;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2992;QR=0;RO=0;RPL=40;RPP=4.58955;RPPR=0;RPR=48;RUN=1;SAF=35;SAP=11.0053;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:404:0,404:0:0:404:14308:-1287.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1080 NC_000962 2830525 . C A 2068.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=68;CIGAR=1X;DP=68;DPB=68;DPRA=0;EPP=3.52123;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=476.395;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2296;QR=0;RO=0;RPL=37;RPP=4.1599;RPPR=0;RPR=31;RUN=1;SAF=37;SAP=4.1599;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:517:0,517:0:0:517:18278:-1644.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1081 NC_000962 2833329 . G A 2615.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=85;CIGAR=1X;DP=85;DPB=85;DPRA=0;EPP=8.75832;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=602.138;PAIRED=0.988235;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2903;QR=0;RO=0;RPL=40;RPP=3.64897;RPPR=0;RPR=45;RUN=1;SAF=39;SAP=4.26209;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:521:0,521:0:0:521:18296:-1646,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1082 NC_000962 2835984 . T C 3304.57 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=5.46589;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=760.906;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3673;QR=0;RO=0;RPL=63;RPP=10.3365;RPPR=0;RPR=44;RUN=1;SAF=54;SAP=3.03059;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:437:0,437:0:0:437:15515:-1395.88,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1083 NC_000962 2841022 . A G 3195.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=11.96;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=735.746;PAIRED=0.990654;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3588;QR=36;RO=1;RPL=53;RPP=3.03059;RPPR=5.18177;RPR=54;RUN=1;SAF=43;SAP=11.96;SAR=64;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:407:0,407:0:0:407:14363:-1292.23,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1084 NC_000962 2847281 . A G 4288.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=138;CIGAR=1X;DP=138;DPB=138;DPRA=0;EPP=12.0738;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=987.427;PAIRED=0.992754;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4763;QR=0;RO=0;RPL=67;RPP=3.26206;RPPR=0;RPR=71;RUN=1;SAF=46;SAP=36.3062;SAR=92;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,480:0:0:480:16882:-1518.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1085 NC_000962 2850631 . T C 3001.01 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=10.339;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=691.007;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3332;QR=0;RO=0;RPL=43;RPP=5.27225;RPPR=0;RPR=53;RUN=1;SAF=54;SAP=6.26751;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:583:0,583:0:0:583:21156:-1903.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1086 NC_000962 2851161 . AAACATT AC 2607.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=85;CIGAR=1M5D1X;DP=86;DPB=25.2857;DPRA=0;EPP=8.75832;EPPR=5.18177;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=600.295;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2933;QR=35;RO=1;RPL=33;RPP=12.2327;RPPR=5.18177;RPR=52;RUN=1;SAF=43;SAP=3.03585;SAR=42;SRF=1;SRP=5.18177;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:406:0,406:0:0:406:13696:-1235.46,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1087 NC_000962 2855259 . A G 2921.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=3.56996;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=672.783;PAIRED=0.979381;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3244;QR=0;RO=0;RPL=57;RPP=9.47994;RPPR=0;RPR=40;RUN=1;SAF=43;SAP=5.71904;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:398:0,398:0:0:398:13779:-1239.72,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1088 NC_000962 2865760 . A G 3614.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=3.02886;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=832.282;PAIRED=0.991453;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4014;QR=0;RO=0;RPL=59;RPP=3.02886;RPPR=0;RPR=58;RUN=1;SAF=42;SAP=23.2217;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:460:0,460:0:0:460:16404:-1475.8,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1089 NC_000962 2865882 . T C 3573.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=3.17734;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=822.763;PAIRED=0.974359;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3968;QR=0;RO=0;RPL=62;RPP=3.91972;RPPR=0;RPR=55;RUN=1;SAF=48;SAP=11.1951;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:568:1,567:1:35:567:19379:-1740.11,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1090 NC_000962 2866607 . G A 2413.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=7.6556;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=555.732;PAIRED=0.987342;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2679;QR=0;RO=0;RPL=49;RPP=12.9331;RPPR=0;RPR=30;RUN=1;SAF=34;SAP=6.33623;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:621:0,621:0:0:621:22283:-2004.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1091 NC_000962 2866647 . G A 1866.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=61;CIGAR=1X;DP=61;DPB=61;DPRA=0;EPP=9.02635;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=429.787;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2071;QR=0;RO=0;RPL=59;RPP=118.668;RPPR=0;RPR=2;RUN=1;SAF=22;SAP=13.2981;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:275:0,275:0:0:275:9316:-838.398,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1092 NC_000962 2866671 . G A 1033.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=33;CIGAR=1X;DP=34;DPB=34;DPRA=0;EPP=14.1309;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=237.881;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1147;QR=0;RO=0;RPL=33;RPP=74.6689;RPPR=0;RPR=0;RUN=1;SAF=10;SAP=14.1309;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:36:0,36:0:0:36:1151:-103.876,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1093 NC_000962 2866677 . A C 952.607 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=30;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=17.1973;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=219.346;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1055;QR=0;RO=0;RPL=30;RPP=68.1545;RPPR=0;RPR=0;RUN=1;SAF=8;SAP=17.1973;SAR=22;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:10:0,10:0:0:10:326:-29.6562,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1094 NC_000962 2866863 . C G 1419.37 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=49;CIGAR=1X;DP=49;DPB=49;DPRA=0;EPP=15.8176;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=326.822;PAIRED=0.979592;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1574;QR=0;RO=0;RPL=0;RPP=109.412;RPPR=0;RPR=49;RUN=1;SAF=16;SAP=15.8176;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:171:0,171:0:0:171:6082:-547.398,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1095 NC_000962 2866876 . ATTGCCG GTTGTCA 1726.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=60;CIGAR=1X3M1X1M1X;DP=60;DPB=60;DPRA=0;EPP=12.2752;EPPR=0;GTI=0;LEN=7;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=397.471;PAIRED=0.966667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1915;QR=0;RO=0;RPL=1;RPP=124.758;RPPR=0;RPR=59;RUN=1;SAF=21;SAP=14.7363;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:202:0,202:0:0:202:6934:-636.875,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1096 NC_000962 2867207 . C G 744.617 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=25;CIGAR=1X;DP=25;DPB=25;DPRA=0;EPP=3.79203;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=171.454;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=824;QR=0;RO=0;RPL=25;RPP=57.2971;RPPR=0;RPR=0;RUN=1;SAF=14;SAP=3.79203;SAR=11;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:121:0,121:0:0:121:4304:-387.467,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1097 NC_000962 2867263 . G A 424.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=14;CIGAR=1X;DP=14;DPB=14;DPRA=0;EPP=12.937;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=97.7195;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=468;QR=0;RO=0;RPL=0;RPP=33.4109;RPPR=0;RPR=14;RUN=1;SAF=3;SAP=12.937;SAR=11;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:14:0,14:0:0:14:468:-42.439,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1098 NC_000962 2867298 . C A 814.926 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=26;CIGAR=1X;DP=26;DPB=26;DPRA=0;EPP=30.0702;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=187.644;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=902;QR=0;RO=0;RPL=5;RPP=24.391;RPPR=0;RPR=21;RUN=1;SAF=3;SAP=36.4176;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:26:0,26:0:0:26:902:-81.4926,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1099 NC_000962 2867347 . A G 467.654 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=15;CIGAR=1X;DP=15;DPB=15;DPRA=0;EPP=6.62942;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=107.681;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=516;QR=0;RO=0;RPL=9;RPP=4.31318;RPPR=0;RPR=6;RUN=1;SAF=1;SAP=27.4756;SAR=14;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:15:0,15:0:0:15:516:-46.7654,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1100 NC_000962 2867552 . A G 355.945 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=12;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=81.9594;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=392;QR=0;RO=0;RPL=0;RPP=29.068;RPPR=0;RPR=12;RUN=1;SAF=6;SAP=3.0103;SAR=6;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:12:0,12:0:0:12:392:-35.5945,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1101 NC_000962 2867575 . T C 702.295 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=24;CIGAR=1X;DP=24;DPB=24;DPRA=0;EPP=4.45795;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=161.709;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=777;QR=0;RO=0;RPL=0;RPP=55.1256;RPPR=0;RPR=24;RUN=1;SAF=10;SAP=4.45795;SAR=14;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:24:0,24:0:0:24:815:-73.6562,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1102 NC_000962 2867594 . G A 1129.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=37;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=10.1116;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=260.137;PAIRED=0.972973;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1252;QR=0;RO=0;RPL=0;RPP=83.3548;RPPR=0;RPR=37;RUN=1;SAF=13;SAP=10.1116;SAR=24;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:130:0,130:0:0:130:4599:-414.019,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1103 NC_000962 2867756 . T C 1970.93 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=64;CIGAR=1X;DP=64;DPB=64;DPRA=0;EPP=4.23175;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=453.823;PAIRED=0.984375;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2187;QR=0;RO=0;RPL=34;RPP=3.55317;RPPR=0;RPR=30;RUN=1;SAF=45;SAP=25.9465;SAR=19;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:274:0,274:0:0:274:9340:-840.564,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1104 NC_000962 2867880 . TAT TT 1754.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=58;CIGAR=1M1D1M;DP=58;DPB=39.3333;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=403.896;PAIRED=0.982759;PAIREDR=0;PAO=1;PQA=25;PQR=25;PRO=1;QA=1946;QR=0;RO=0;RPL=27;RPP=3.60933;RPPR=0;RPR=31;RUN=1;SAF=44;SAP=36.7056;SAR=14;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:602:0,585:0:0:585:19677:-1769.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1105 NC_000962 2870621 . C T 3342.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=4.65412;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=769.667;PAIRED=0.990654;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3714;QR=0;RO=0;RPL=56;RPP=3.51765;RPPR=0;RPR=51;RUN=1;SAF=57;SAP=4.00471;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:108:0,107:0:0:107:3714:-334.262,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1106 NC_000962 2880702 . G C 2626.72 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=3.109;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=604.824;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2916;QR=0;RO=0;RPL=45;RPP=3.109;RPPR=0;RPR=43;RUN=1;SAF=54;SAP=12.8806;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:543:0,543:0:0:543:19187:-1726.1,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1107 NC_000962 2881597 . AGGGGGGCA AGGGGGCA 1646.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=56;CIGAR=1M1D7M;DP=61;DPB=54.4444;DPRA=0;EPP=8.59409;EPPR=0;GTI=0;LEN=1;MEANALT=5;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=379.081;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1829;QR=0;RO=0;RPL=21;RPP=10.6105;RPPR=0;RPR=35;RUN=1;SAF=23;SAP=6.88793;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:442:0,439:0:0:439:14811:-1332.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1108 NC_000962 2881974 . G A 2437.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=3.25768;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=561.337;PAIRED=0.949367;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2706;QR=0;RO=0;RPL=44;RPP=5.23675;RPPR=0;RPR=35;RUN=1;SAF=40;SAP=3.03779;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:594:0,594:0:0:594:19975:-1797.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1109 NC_000962 2884068 . A C 2633.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=86;CIGAR=1X;DP=86;DPB=86;DPRA=0;EPP=13.1102;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=606.497;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2924;QR=0;RO=0;RPL=51;RPP=9.47422;RPPR=0;RPR=35;RUN=1;SAF=46;SAP=3.91929;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:498:0,498:0:0:498:17946:-1614.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1110 NC_000962 2886570 . A G 3525.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=15.6647;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=811.775;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3915;QR=0;RO=0;RPL=57;RPP=3.08518;RPPR=0;RPR=59;RUN=1;SAF=58;SAP=3.0103;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:451:0,451:0:0:451:15347:-1380.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1111 NC_000962 2888201 . T C 3425.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=10.7656;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=788.775;PAIRED=0.991071;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3804;QR=0;RO=0;RPL=55;RPP=3.08785;RPPR=0;RPR=57;RUN=1;SAF=39;SAP=25.423;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:368:0,368:0:0:368:12956:-1165.68,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1112 NC_000962 2889633 . T C 3966.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=130;CIGAR=1X;DP=131;DPB=131;DPRA=0;EPP=3.61163;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=913.413;PAIRED=0.992308;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4408;QR=0;RO=0;RPL=67;RPP=3.27756;RPPR=0;RPR=63;RUN=1;SAF=53;SAP=12.6316;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:263:0,263:0:0:263:8982:-808.277,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1113 NC_000962 2891267 . C T 3907.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=125;CIGAR=1X;DP=125;DPB=125;DPRA=0;EPP=3.16665;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=899.809;PAIRED=0.992;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4340;QR=0;RO=0;RPL=61;RPP=3.16665;RPPR=0;RPR=64;RUN=1;SAF=68;SAP=5.11229;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:505:0,505:0:0:505:16808:-1512.29,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1114 NC_000962 2891379 . A C 3525.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=7.25883;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=811.775;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3915;QR=0;RO=0;RPL=62;RPP=4.53977;RPPR=0;RPR=53;RUN=1;SAF=65;SAP=7.25883;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:521:0,521:0:0:521:17784:-1600.13,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1115 NC_000962 2891728 . A G 4139.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=137;CIGAR=1X;DP=137;DPB=137;DPRA=0;EPP=7.591;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=953.265;PAIRED=0.992701;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4598;QR=0;RO=0;RPL=73;RPP=4.29416;RPPR=0;RPR=64;RUN=1;SAF=87;SAP=24.7092;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:422:0,422:0:0:422:14648:-1317.83,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1116 NC_000962 2894208 . G A 3078.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=9.22372;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=708.927;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3422;QR=0;RO=0;RPL=52;RPP=3.2038;RPPR=0;RPR=49;RUN=1;SAF=61;SAP=12.4917;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:425:0,425:0:0:425:14511:-1305.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1117 NC_000962 2898522 . T C 5082.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=165;CIGAR=1X;DP=165;DPB=165;DPRA=0;EPP=3.33931;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1170.34;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5646;QR=0;RO=0;RPL=95;RPP=11.2356;RPPR=0;RPR=70;RUN=1;SAF=60;SAP=29.6602;SAR=105;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:492:0,492:0:0:492:16817:-1513.12,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1118 NC_000962 2898926 . G C 3307.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=5.85295;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=761.641;PAIRED=0.990909;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3713;QR=36;RO=1;RPL=60;RPP=4.98437;RPPR=5.18177;RPR=50;RUN=1;SAF=49;SAP=5.85295;SAR=61;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:111:1,110:1:36:110:3713:-330.776,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1119 NC_000962 2903439 . G A 3708.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=10.3712;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=853.816;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4118;QR=0;RO=0;RPL=57;RPP=3.30474;RPPR=0;RPR=61;RUN=1;SAF=44;SAP=19.5724;SAR=74;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:384:0,384:0:0:384:12556:-1129.87,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1120 NC_000962 2910461 . G T 3415.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=109;DPB=109;DPRA=0;EPP=3.03022;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=786.501;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3793;QR=0;RO=0;RPL=60;RPP=5.42083;RPPR=0;RPR=49;RUN=1;SAF=48;SAP=6.37708;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:395:0,395:0:0:395:13536:-1217.96,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1121 NC_000962 2911293 . C G 3480.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=3.49071;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=801.416;PAIRED=0.982301;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3865;QR=0;RO=0;RPL=59;RPP=3.49071;RPPR=0;RPR=54;RUN=1;SAF=70;SAP=17.0192;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:465:0,465:0:0:465:16175:-1455.23,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1122 NC_000962 2912294 . T G 3556.97 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=18.8904;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=819.023;PAIRED=0.991304;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3950;QR=0;RO=0;RPL=55;RPP=3.48236;RPPR=0;RPR=60;RUN=1;SAF=65;SAP=7.25883;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:413:0,413:0:0:413:13739:-1236.26,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1123 NC_000962 2916854 . C G 15010.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=474;CIGAR=1X;DP=475;DPB=475;DPRA=0;EPP=10.3402;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=3456.28;PAIRED=0.875527;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16723;QR=35;RO=1;RPL=209;RPP=17.3768;RPPR=5.18177;RPR=265;RUN=1;SAF=256;SAP=9.6255;SAR=218;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:475:1,474:1:35:474:16723:-1501.04,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1124 NC_000962 2922845 . GCCA GTCT 1096.94 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=37;CIGAR=1M1X1M1X;DP=38;DPB=38;DPRA=0;EPP=45.7942;EPPR=0;GTI=0;LEN=4;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=252.579;PAIRED=0.972973;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1218;QR=0;RO=0;RPL=10;RPP=19.9713;RPPR=0;RPR=27;RUN=1;SAF=32;SAP=45.7942;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:38:0,37:0:0:37:1218:-109.694,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1125 NC_000962 2922846 . CCA TCT 5716.78 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=180;CIGAR=1X1M1X;DP=180;DPB=186.333;DPRA=0;EPP=76.4061;EPPR=0;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1316.34;PAIRED=0.911111;PAIREDR=0;PAO=13;PQA=381;PQR=0;PRO=6;QA=5970;QR=0;RO=0;RPL=69;RPP=24.2907;RPPR=0;RPR=111;RUN=1;SAF=78;SAP=9.95901;SAR=102;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:180:0,180:0:0:180:5970:-571.678,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1126 NC_000962 2923391 . T C 4023.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=131;CIGAR=1X;DP=132;DPB=132;DPRA=0;EPP=28.2226;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=926.464;PAIRED=0.992366;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4471;QR=0;RO=0;RPL=56;RPP=8.99428;RPPR=0;RPR=75;RUN=1;SAF=87;SAP=33.6596;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:296:0,296:0:0:296:9926:-893.225,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1127 NC_000962 2925962 . T C 2642.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=6.03039;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=608.552;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2934;QR=0;RO=0;RPL=37;RPP=7.22845;RPPR=0;RPR=50;RUN=1;SAF=50;SAP=7.22845;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:459:0,459:0:0:459:16366:-1472.37,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1128 NC_000962 2927939 . T C 3077.47 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=11.5259;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=708.614;PAIRED=0.980392;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3417;QR=0;RO=0;RPL=41;RPP=11.5259;RPPR=0;RPR=61;RUN=1;SAF=66;SAP=22.1704;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:528:0,528:0:0:528:19151:-1722.73,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1129 NC_000962 2931137 . T G 4139.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=135;CIGAR=1X;DP=135;DPB=135;DPRA=0;EPP=3.41242;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=953.059;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4597;QR=0;RO=0;RPL=55;RPP=13.0634;RPPR=0;RPR=80;RUN=1;SAF=72;SAP=4.31318;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:510:0,510:0:0:510:18021:-1621.26,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1130 NC_000962 2932201 . A G 3655.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=16.3128;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=841.598;PAIRED=0.991597;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4059;QR=0;RO=0;RPL=69;RPP=9.59771;RPPR=0;RPR=50;RUN=1;SAF=46;SAP=16.3128;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:514:0,514:0:0:514:17305:-1557.14,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1131 NC_000962 2939373 . G C 3817.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=3.84811;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=879.098;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4240;QR=0;RO=0;RPL=77;RPP=15.4749;RPPR=0;RPR=50;RUN=1;SAF=69;SAP=5.07918;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:499:0,498:0:0:498:17745:-1596.1,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1132 NC_000962 2939657 . T C 4876.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=161;CIGAR=1X;DP=162;DPB=162;DPRA=0;EPP=4.10278;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1122.83;PAIRED=0.987578;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5419;QR=0;RO=0;RPL=72;RPP=6.90816;RPPR=0;RPR=89;RUN=1;SAF=83;SAP=3.34749;SAR=78;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:400:0,400:0:0:400:13810:-1242.6,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1133 NC_000962 2948230 . G A 3508.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=5.29507;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=807.76;PAIRED=0.982609;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3898;QR=0;RO=0;RPL=57;RPP=3.02918;RPPR=0;RPR=58;RUN=1;SAF=54;SAP=3.93554;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:409:0,409:0:0:409:13199:-1187.78,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1134 NC_000962 2954439 . T C 2655.52 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=11.0053;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=611.456;PAIRED=0.988636;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2948;QR=0;RO=0;RPL=41;RPP=3.89863;RPPR=0;RPR=47;RUN=1;SAF=46;SAP=3.40511;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:88:0,88:0:0:88:2948:-265.552,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1135 NC_000962 2955957 . A C 2703.19 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=3.03526;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=622.432;PAIRED=0.965517;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3001;QR=0;RO=0;RPL=45;RPP=3.23494;RPPR=0;RPR=42;RUN=1;SAF=50;SAP=7.22845;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:521:0,521:0:0:521:17520:-1576.41,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1136 NC_000962 2969197 . A G 2544 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=85;CIGAR=1X;DP=85;DPB=85;DPRA=0;EPP=3.64897;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=585.777;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2824;QR=0;RO=0;RPL=37;RPP=6.10145;RPPR=0;RPR=48;RUN=1;SAF=34;SAP=10.3933;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:518:0,518:0:0:518:17552:-1579.31,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1137 NC_000962 2974933 . A G 3955.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=129;DPB=129;DPRA=0;EPP=4.70676;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=910.719;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4395;QR=0;RO=0;RPL=68;RPP=4.09604;RPPR=0;RPR=60;RUN=1;SAF=57;SAP=6.33537;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:332:0,332:0:0:332:11771:-1059.06,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1138 NC_000962 2975227 . T G 3913.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=130;CIGAR=1X;DP=130;DPB=130;DPRA=0;EPP=14.302;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=901.058;PAIRED=0.992308;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4346;QR=0;RO=0;RPL=69;RPP=4.07933;RPPR=0;RPR=61;RUN=1;SAF=65;SAP=3.0103;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:512:0,512:0:0:512:18755:-1687.07,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1139 NC_000962 2980861 . A G 2254.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=75;CIGAR=1X;DP=76;DPB=76;DPRA=0;EPP=3.03925;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=519.056;PAIRED=0.986667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2505;QR=0;RO=0;RPL=38;RPP=3.03925;RPPR=0;RPR=37;RUN=1;SAF=39;SAP=3.27088;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:538:0,538:0:0:538:19248:-1731.61,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1140 NC_000962 2983873 . A G 4334.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=141;CIGAR=1X;DP=141;DPB=141;DPRA=0;EPP=3.0257;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=998.008;PAIRED=0.985816;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4814;QR=0;RO=0;RPL=74;RPP=3.76493;RPPR=0;RPR=67;RUN=1;SAF=56;SAP=15.9621;SAR=85;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:391:0,391:0:0:391:13727:-1234.98,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1141 NC_000962 2984740 . A G 5233.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=172;CIGAR=1X;DP=173;DPB=173;DPRA=0;EPP=3.0608;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1205.09;PAIRED=0.994186;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5816;QR=0;RO=0;RPL=71;RPP=14.3727;RPPR=0;RPR=101;RUN=1;SAF=90;SAP=3.81829;SAR=82;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:481:0,481:0:0:481:17006:-1529.95,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1142 NC_000962 2988630 . C G 4093.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=134;CIGAR=1X;DP=134;DPB=134;DPRA=0;EPP=6.18648;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=942.481;PAIRED=0.985075;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4546;QR=0;RO=0;RPL=67;RPP=3.0103;RPPR=0;RPR=67;RUN=1;SAF=55;SAP=12.3444;SAR=79;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:415:0,415:0:0:415:14406:-1296.17,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1143 NC_000962 2994187 . T C 5769.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=186;CIGAR=1X;DP=186;DPB=186;DPRA=0;EPP=10.9023;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1328.38;PAIRED=0.983871;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6409;QR=0;RO=0;RPL=109;RPP=14.9651;RPPR=0;RPR=77;RUN=1;SAF=79;SAP=12.1632;SAR=107;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:411:0,410:0:0:410:14094:-1267.71,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1144 NC_000962 2999078 . G A 15190.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=476;CIGAR=1X;DP=476;DPB=476;DPRA=0;EPP=17.3165;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3497.79;PAIRED=0.878151;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=16885;QR=0;RO=0;RPL=249;RPP=5.21827;RPPR=0;RPR=227;RUN=1;SAF=195;SAP=36.7502;SAR=281;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:476:0,476:0:0:476:16885:-1519.07,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1145 NC_000962 3003115 . C G 3930.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=3.28173;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=904.991;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4365;QR=0;RO=0;RPL=61;RPP=3.62103;RPPR=0;RPR=67;RUN=1;SAF=71;SAP=6.33537;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:500:0,500:0:0:500:17527:-1576.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1146 NC_000962 3005185 . G T 4381.93 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=141;CIGAR=1X;DP=141;DPB=141;DPRA=0;EPP=11.1572;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1008.98;PAIRED=0.992908;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4867;QR=0;RO=0;RPL=69;RPP=3.1489;RPPR=0;RPR=72;RUN=1;SAF=67;SAP=3.76493;SAR=74;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:416:0,416:0:0:416:14557:-1309.71,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1147 NC_000962 3009692 . A G 3316.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=3.50834;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=763.711;PAIRED=0.990826;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3723;QR=36;RO=1;RPL=55;RPP=3.03022;RPPR=5.18177;RPR=54;RUN=1;SAF=57;SAP=3.50834;SAR=52;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:500:0,500:0:0:500:17617:-1584.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1148 NC_000962 3009834 . A G 3569.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=3.48236;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=821.928;PAIRED=0.991304;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3964;QR=0;RO=0;RPL=48;RPP=9.82684;RPPR=0;RPR=67;RUN=1;SAF=60;SAP=3.48236;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:516:0,516:0:0:516:18134:-1631.43,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1149 NC_000962 3010420 . A G 4170.53 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1X;DP=136;DPB=136;DPRA=0;EPP=19.3602;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=960.3;PAIRED=0.977941;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4632;QR=0;RO=0;RPL=65;RPP=3.5851;RPPR=0;RPR=71;RUN=1;SAF=73;SAP=4.60697;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:400:0,400:0:0:400:13904:-1251.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1150 NC_000962 3010993 . C T 3061.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=12.6832;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=704.886;PAIRED=0.989899;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3399;QR=0;RO=0;RPL=44;RPP=5.66432;RPPR=0;RPR=55;RUN=1;SAF=54;SAP=4.78696;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:419:0,419:0:0:419:14258:-1282.93,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1151 NC_000962 3017465 . T C 3041.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=98;DPB=98;DPRA=0;EPP=3.80798;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=700.329;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3377;QR=0;RO=0;RPL=49;RPP=3.0103;RPPR=0;RPR=49;RUN=1;SAF=41;SAP=8.68272;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:613:1,612:1:24:612:22001:-1976.68,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1152 NC_000962 3021892 . GTTCGACGACTTCGACGACT GTTCGACGACT 771.672 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=28;CIGAR=1M9D10M;DP=30;DPB=16.95;DPRA=0;EPP=3.32051;EPPR=5.18177;GTI=0;LEN=9;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=177.684;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=883;QR=26;RO=1;RPL=16;RPP=4.25114;RPPR=5.18177;RPR=12;RUN=1;SAF=11;SAP=5.80219;SAR=17;SRF=1;SRP=5.18177;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:242:0,241:0:0:241:7304:-657.203,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1153 NC_000962 3024021 . C A 3426.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=110;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=18.487;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=788.975;PAIRED=0.990909;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3805;QR=0;RO=0;RPL=43;RPP=14.3809;RPPR=0;RPR=67;RUN=1;SAF=48;SAP=6.87947;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:389:0,389:0:0:389:13413:-1206.92,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1154 NC_000962 3024343 . G A 4228.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=138;CIGAR=1X;DP=138;DPB=138;DPRA=0;EPP=3.07324;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=973.549;PAIRED=0.971014;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4696;QR=0;RO=0;RPL=61;RPP=7.03854;RPPR=0;RPR=77;RUN=1;SAF=85;SAP=19.1233;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:431:0,431:0:0:431:15204:-1367.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1155 NC_000962 3027798 . T C 3231.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=3.09382;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=744.037;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3588;QR=0;RO=0;RPL=50;RPP=3.34437;RPPR=0;RPR=54;RUN=1;SAF=51;SAP=3.09382;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:265:0,265:0:0:265:9356:-841.828,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1156 NC_000962 3028884 . C T 2333.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=75;CIGAR=1X;DP=75;DPB=75;DPRA=0;EPP=18.3264;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=537.294;PAIRED=0.973333;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2590;QR=0;RO=0;RPL=44;RPP=7.90335;RPPR=0;RPR=31;RUN=1;SAF=27;SAP=15.7786;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:566:0,566:0:0:566:19924:-1792.43,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1157 NC_000962 3031168 . A G 4226.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1X;DP=136;DPB=136;DPRA=0;EPP=4.03217;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=973.136;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4694;QR=0;RO=0;RPL=65;RPP=3.5851;RPPR=0;RPR=71;RUN=1;SAF=77;SAP=8.18351;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:403:0,403:0:0:403:14239:-1281.06,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1158 NC_000962 3033189 . G A 3519.19 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=3.31507;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=810.324;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3908;QR=0;RO=0;RPL=59;RPP=3.31507;RPPR=0;RPR=55;RUN=1;SAF=46;SAP=12.2295;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:481:2,479:2:66:479:17134:-1535.09,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1159 NC_000962 3036323 . G T 2628.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=6.03039;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=605.249;PAIRED=0.988506;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2958;QR=36;RO=1;RPL=48;RPP=5.03202;RPPR=5.18177;RPR=39;RUN=1;SAF=37;SAP=7.22845;SAR=50;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:593:0,593:0:0:593:20936:-1883.43,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1160 NC_000962 3036826 . C T 2252.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=74;CIGAR=1X;DP=74;DPB=74;DPRA=0;EPP=3.12768;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=518.655;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2500;QR=0;RO=0;RPL=46;RPP=12.5178;RPPR=0;RPR=28;RUN=1;SAF=42;SAP=5.94472;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:675:0,675:0:0:675:24966:-2245.56,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1161 NC_000962 3037377 . T C 1415.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=47;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=3.0565;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=325.933;PAIRED=0.978723;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1572;QR=0;RO=0;RPL=25;RPP=3.42611;RPPR=0;RPR=22;RUN=1;SAF=21;SAP=4.16534;SAR=26;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:267:0,267:0:0:267:8672:-780.455,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1162 NC_000962 3040220 . C T 3892.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=4.76149;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=896.279;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4323;QR=0;RO=0;RPL=73;RPP=11.486;RPPR=0;RPR=51;RUN=1;SAF=66;SAP=4.13106;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:426:1,425:1:35:425:14647:-1314.38,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1163 NC_000962 3041871 . G T 4285.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=138;CIGAR=1X;DP=138;DPB=138;DPRA=0;EPP=3.26206;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=986.805;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4760;QR=0;RO=0;RPL=72;RPP=3.57677;RPPR=0;RPR=66;RUN=1;SAF=47;SAP=33.4739;SAR=91;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:1,508:1:40:508:17651:-1583.96,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1164 NC_000962 3048912 . C G 2392.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1X;DP=81;DPB=81;DPRA=0;EPP=3.03711;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=550.973;PAIRED=0.975309;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2656;QR=0;RO=0;RPL=43;RPP=3.68051;RPPR=0;RPR=38;RUN=1;SAF=23;SAP=35.8505;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:321:0,321:0:0:321:11260:-1013.13,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1165 NC_000962 3054081 . A G 3232.18 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=4.32138;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=744.238;PAIRED=0.990566;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3589;QR=0;RO=0;RPL=57;RPP=4.32138;RPPR=0;RPR=49;RUN=1;SAF=64;SAP=12.9253;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:452:0,452:0:0:452:16227:-1459.83,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1166 NC_000962 3054321 . A G 2632.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=30.1911;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=606.073;PAIRED=0.988506;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2922;QR=0;RO=0;RPL=34;RPP=12.0207;RPPR=0;RPR=53;RUN=1;SAF=17;SAP=73.1214;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:300:0,300:0:0:300:9985:-898.631,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1167 NC_000962 3054724 . A G 5570.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=191;CIGAR=1X;DP=191;DPB=191;DPRA=0;EPP=15.3911;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1282.71;PAIRED=0.874346;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6189;QR=0;RO=0;RPL=127;RPP=48.1337;RPPR=0;RPR=64;RUN=1;SAF=80;SAP=13.9359;SAR=111;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:191:0,191:0:0:191:6189:-557.074,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1168 NC_000962 3069167 . A G 2479.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=83;DPB=83;DPRA=0;EPP=3.66436;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=570.859;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2752;QR=0;RO=0;RPL=35;RPP=7.43173;RPPR=0;RPR=48;RUN=1;SAF=43;SAP=3.24576;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:0,509:0:0:509:17876:-1608.21,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1169 NC_000962 3075639 . T C 3713.47 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=4.48836;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=855.058;PAIRED=0.983193;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4124;QR=0;RO=0;RPL=59;RPP=3.02855;RPPR=0;RPR=60;RUN=1;SAF=69;SAP=9.59771;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:519:1,518:1:34:518:18033:-1619.08,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1170 NC_000962 3078178 . C T 2898.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=3.03365;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=667.393;PAIRED=0.989247;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3218;QR=0;RO=0;RPL=45;RPP=3.22044;RPPR=0;RPR=48;RUN=1;SAF=46;SAP=3.03365;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:464:0,464:0:0:464:16187:-1456.43,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1171 NC_000962 3078579 . G A 2741.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=4.98658;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=631.342;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3044;QR=0;RO=0;RPL=42;RPP=3.62026;RPPR=0;RPR=47;RUN=1;SAF=36;SAP=10.0615;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:498:1,497:1:27:497:17184:-1543.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1172 NC_000962 3079877 . A G 5106.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=166;CIGAR=1X;DP=166;DPB=166;DPRA=0;EPP=19.9635;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1175.73;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5672;QR=0;RO=0;RPL=94;RPP=9.34158;RPPR=0;RPR=72;RUN=1;SAF=71;SAP=10.545;SAR=95;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:469:0,469:0:0:469:16354:-1471.35,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1173 NC_000962 3080795 . A G 3347.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=108;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=6.95112;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=770.758;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3720;QR=0;RO=0;RPL=54;RPP=3.0103;RPPR=0;RPR=54;RUN=1;SAF=49;SAP=5.02092;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:510:0,510:0:0:510:18321:-1648.12,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1174 NC_000962 3086788 . T C 1735.19 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=57;CIGAR=1X;DP=57;DPB=57;DPRA=0;EPP=3.0484;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=399.541;PAIRED=0.982456;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1925;QR=0;RO=0;RPL=31;RPP=3.9627;RPPR=0;RPR=26;RUN=1;SAF=30;SAP=3.35316;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:695:0,695:0:0:695:25563:-2299.31,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1175 NC_000962 3103682 . T C 4048.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=135;CIGAR=1X;DP=135;DPB=135;DPRA=0;EPP=3.15506;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=932.122;PAIRED=0.977778;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4496;QR=0;RO=0;RPL=54;RPP=14.7363;RPPR=0;RPR=81;RUN=1;SAF=83;SAP=18.468;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:453:0,453:0:0:453:15778:-1419.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1176 NC_000962 3104189 . A G 3823.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=9.90386;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=880.335;PAIRED=0.968254;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4246;QR=0;RO=0;RPL=63;RPP=3.0103;RPPR=0;RPR=63;RUN=1;SAF=74;SAP=11.3515;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:630:0,630:0:0:630:22275:-2003.88,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1177 NC_000962 3110140 . G T 4512.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=145;CIGAR=1X;DP=146;DPB=146;DPRA=0;EPP=3.38469;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1038.94;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=5035;QR=21;RO=1;RPL=78;RPP=4.82236;RPPR=5.18177;RPR=67;RUN=1;SAF=90;SAP=21.3555;SAR=55;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:372:0,372:0:0:372:12825:-1154,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1178 NC_000962 3111476 . C T 4880.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=161;CIGAR=1X;DP=162;DPB=162;DPRA=0;EPP=11.4399;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1123.67;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5423;QR=0;RO=0;RPL=91;RPP=8.95825;RPPR=0;RPR=70;RUN=1;SAF=69;SAP=10.1451;SAR=92;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:399:1,398:1:33:398:13351:-1198.07,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1179 NC_000962 3112877 . G A 3932.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=3.62103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=905.403;PAIRED=0.984375;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4367;QR=0;RO=0;RPL=68;RPP=4.09604;RPPR=0;RPR=60;RUN=1;SAF=57;SAP=6.33537;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:465:0,465:0:0:465:15590:-1402.72,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1180 NC_000962 3113872 . A T 3798.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=3.64073;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=874.534;PAIRED=0.975806;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4218;QR=0;RO=0;RPL=65;RPP=3.64073;RPPR=0;RPR=59;RUN=1;SAF=42;SAP=31.0293;SAR=82;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:418:0,418:0:0:418:13888:-1249.67,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1181 NC_000962 3115384 . G C 2138.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=70;CIGAR=1X;DP=70;DPB=70;DPRA=0;EPP=3.50664;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=492.351;PAIRED=0.985714;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2373;QR=0;RO=0;RPL=33;RPP=3.50664;RPPR=0;RPR=37;RUN=1;SAF=38;SAP=4.12706;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:610:0,609:0:0:609:21755:-1956.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1182 NC_000962 3117998 . TGA TGG 9618.52 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=324;CIGAR=2M1X;DP=348;DPB=355.333;DPRA=0;EPP=10.7579;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2104.84;PAIRED=0.916667;PAIREDR=0;PAO=10.5;PQA=193.5;PQR=0;PRO=0;QA=10758;QR=0;RO=0;RPL=209;RPP=62.2298;RPPR=0;RPR=115;RUN=1;SAF=218;SAP=87.0811;SAR=106;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:348:0,324:0:0:324:10758:-961.852,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1183 NC_000962 3118000 . A G 3853.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=129;CIGAR=1X;DP=129;DPB=129;DPRA=0;EPP=26.0548;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=887.395;PAIRED=0.992248;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4280;QR=0;RO=0;RPL=64;RPP=3.02713;RPPR=0;RPR=65;RUN=1;SAF=55;SAP=9.08706;SAR=74;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:129:0,129:0:0:129:4280:-385.391,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1184 NC_000962 3127926 . A G 282.948 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=10;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=10.8276;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=65.1511;PAIRED=0.7;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=311;QR=0;RO=0;RPL=0;RPP=24.725;RPPR=0;RPR=10;RUN=1;SAF=8;SAP=10.8276;SAR=2;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:10:0,10:0:0:10:311:-28.2948,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1185 NC_000962 3127931 . T A 1045.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=35;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=6.05036;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=240.657;PAIRED=0.342857;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1158;QR=0;RO=0;RPL=0;RPP=79.0118;RPPR=0;RPR=35;RUN=1;SAF=14;SAP=6.05036;SAR=21;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:35:0,35:0:0:35:1158:-104.516,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1186 NC_000962 3133054 . CG GC 3907.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=2X;DP=128;DPB=129.5;DPRA=0;EPP=4.09604;EPPR=0;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=899.819;PAIRED=1;PAIREDR=0;PAO=3;PQA=96;PQR=0;PRO=0;QA=4244;QR=0;RO=0;RPL=59;RPP=4.70676;RPPR=0;RPR=69;RUN=1;SAF=69;SAP=4.70676;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:204:0,204:0:0:204:6909:-639.214,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1187 NC_000962 3133536 . T C 3932.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=4.09604;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=905.412;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4367;QR=0;RO=0;RPL=57;RPP=6.33537;RPPR=0;RPR=71;RUN=1;SAF=69;SAP=4.70676;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:548:0,548:0:0:548:19819:-1782.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1188 NC_000962 3135606 . A G 3516.52 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=3.30981;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=809.708;PAIRED=0.982759;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3909;QR=0;RO=0;RPL=50;RPP=7.80251;RPPR=0;RPR=66;RUN=1;SAF=68;SAP=10.4981;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:478:0,478:0:0:478:16953:-1525.2,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1189 NC_000962 3135912 . G C 3035.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=4.10723;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=698.88;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3370;QR=0;RO=0;RPL=21;RPP=70.7289;RPPR=0;RPR=76;RUN=1;SAF=56;SAP=8.04722;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:56:0,56:0:0:56:1773:-159.818,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1190 NC_000962 3135950 . CG GC 4026.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=132;CIGAR=2X;DP=133;DPB=133;DPRA=0;EPP=3.60252;EPPR=0;GTI=0;LEN=2;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=927.164;PAIRED=0.984848;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4476;QR=0;RO=0;RPL=51;RPP=17.8158;RPPR=0;RPR=81;RUN=1;SAF=74;SAP=7.22164;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:147:0,146:0:0:146:4864:-443.614,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1191 NC_000962 3137058 . G A 4245.18 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1X;DP=136;DPB=136;DPRA=0;EPP=42.9271;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=977.489;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4715;QR=0;RO=0;RPL=77;RPP=8.18351;RPPR=0;RPR=59;RUN=1;SAF=60;SAP=7.09778;SAR=76;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:463:0,463:0:0:463:15580:-1401.81,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1192 NC_000962 3137736 . G T 4619.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=147;CIGAR=1X;DP=147;DPB=147;DPRA=0;EPP=6.33398;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1063.65;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5131;QR=0;RO=0;RPL=73;RPP=3.02507;RPPR=0;RPR=74;RUN=1;SAF=81;SAP=6.33398;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:388:0,388:0:0:388:13336:-1199.93,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1193 NC_000962 3144623 . C T 3367.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=109;DPB=109;DPRA=0;EPP=4.62396;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=775.317;PAIRED=0.981651;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3739;QR=0;RO=0;RPL=55;RPP=3.03022;RPPR=0;RPR=54;RUN=1;SAF=50;SAP=4.62396;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:563:0,563:0:0:563:19741:-1776.06,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1194 NC_000962 3155477 . C G 4657.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=154;CIGAR=1X;DP=155;DPB=155;DPRA=0;EPP=9.83493;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1072.39;PAIRED=0.993506;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=5203;QR=27;RO=1;RPL=91;RPP=14.0651;RPPR=5.18177;RPR=63;RUN=1;SAF=75;SAP=3.23591;SAR=79;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:155:1,154:1:27:154:5203:-465.733,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1195 NC_000962 3156201 . CGGGTGTTGC CGGGGTGTTGC 2876.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1M1I9M;DP=105;DPB=116.6;DPRA=0;EPP=3.80798;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=662.395;PAIRED=1;PAIREDR=0;PAO=2.5;PQA=73;PQR=73;PRO=2.5;QA=3197;QR=0;RO=0;RPL=45;RPP=4.4284;RPPR=0;RPR=53;RUN=1;SAF=45;SAP=4.4284;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:381:0,367:0:0:367:12369:-1112.65,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1196 NC_000962 3162802 . AAAC AAAG 3712.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=3M1X;DP=128;DPB=131.75;DPRA=0;EPP=3.45166;EPPR=5.18177;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=854.745;PAIRED=0.98374;PAIREDR=1;PAO=4.5;PQA=134;PQR=66;PRO=2.5;QA=4081;QR=24;RO=1;RPL=46;RPP=19.976;RPPR=5.18177;RPR=77;RUN=1;SAF=67;SAP=5.14646;SAR=56;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:128:1,123:1:24:123:4081:-371.211,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1197 NC_000962 3162805 . C G 7832.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=244;CIGAR=1X;DP=244;DPB=244;DPRA=0;EPP=99.267;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1803.47;PAIRED=0.872951;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=8704;QR=0;RO=0;RPL=80;RPP=65.805;RPPR=0;RPR=164;RUN=1;SAF=106;SAP=12.1234;SAR=138;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:244:0,244:0:0:244:8704:-783.236,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1198 NC_000962 3165636 . G A 5100.66 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=162;CIGAR=1X;DP=162;DPB=162;DPRA=0;EPP=12.0715;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1174.47;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5666;QR=0;RO=0;RPL=86;RPP=4.35072;RPPR=0;RPR=76;RUN=1;SAF=72;SAP=7.35324;SAR=90;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:497:0,497:0:0:497:16739:-1506.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1199 NC_000962 3166086 . G A 3608.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=3.48236;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=830.829;PAIRED=0.965217;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4007;QR=0;RO=0;RPL=69;RPP=12.9991;RPPR=0;RPR=46;RUN=1;SAF=40;SAP=26.1412;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:514:0,514:0:0:514:17841:-1605.16,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1200 NC_000962 3174496 . A G 4184.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=135;CIGAR=1X;DP=135;DPB=135;DPRA=0;EPP=3.41242;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=963.622;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4648;QR=0;RO=0;RPL=65;RPP=3.41242;RPPR=0;RPR=70;RUN=1;SAF=55;SAP=13.0634;SAR=80;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:422:0,422:0:0:422:14828:-1334.05,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1201 NC_000962 3174692 . ACCCCCCGCAA ACCCCCGCAA 2269.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=75;CIGAR=1M1D9M;DP=77;DPB=70.2727;DPRA=0;EPP=13.4623;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=522.58;PAIRED=0.986667;PAIREDR=0;PAO=1;PQA=28.5;PQR=28.5;PRO=1;QA=2522;QR=0;RO=0;RPL=44;RPP=7.90335;RPPR=0;RPR=31;RUN=1;SAF=27;SAP=15.7786;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:329:0,327:0:0:327:10169:-914.836,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1202 NC_000962 3177452 . C A 2947 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=4.48875;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=678.572;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3272;QR=0;RO=0;RPL=38;RPP=10.4949;RPPR=0;RPR=56;RUN=1;SAF=51;SAP=4.48875;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:520:1,519:1:34:519:18352:-1647.63,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1203 NC_000962 3177884 . C A 3574.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=5.75321;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=823.164;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3970;QR=0;RO=0;RPL=60;RPP=3.69603;RPPR=0;RPR=54;RUN=1;SAF=55;SAP=3.31507;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,480:0:0:480:16701:-1502.61,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1204 NC_000962 3180988 . C A 3548.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=3.69603;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=817.158;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3941;QR=0;RO=0;RPL=48;RPP=9.18185;RPPR=0;RPR=66;RUN=1;SAF=62;SAP=4.9151;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:428:0,428:0:0:428:14619:-1315.34,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1205 NC_000962 3186860 . T G 2003.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=67;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=5.63551;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=461.278;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2223;QR=0;RO=0;RPL=40;RPP=8.4876;RPPR=0;RPR=27;RUN=1;SAF=32;SAP=3.30199;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:366:0,366:0:0:366:12430:-1118.46,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1206 NC_000962 3189242 . A G 3554.27 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=8.4673;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=818.402;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3947;QR=0;RO=0;RPL=66;RPP=8.4673;RPPR=0;RPR=49;RUN=1;SAF=62;SAP=4.53977;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:497:1,496:1:27:496:17679:-1587.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1207 NC_000962 3190145 . TCCCCCCAT TCCCCCAT 3503.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1M1D7M;DP=118;DPB=104.778;DPRA=0;EPP=5.70592;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=806.769;PAIRED=0.991379;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3894;QR=0;RO=0;RPL=60;RPP=3.30981;RPPR=0;RPR=56;RUN=1;SAF=68;SAP=10.4981;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:388:0,388:0:0:388:13067:-1175.73,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1208 NC_000962 3194241 . CGC CGGC 1136.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=39;CIGAR=1M1I2M;DP=42;DPB=55;DPRA=0;EPP=9.74743;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=261.763;PAIRED=1;PAIREDR=1;PAO=1;PQA=36;PQR=0;PRO=0;QA=1251;QR=24;RO=1;RPL=39;RPP=87.6977;RPPR=5.18177;RPR=0;RUN=1;SAF=14;SAP=9.74743;SAR=25;SRF=1;SRP=5.18177;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:55:0,50:0:0:50:1429:-137.451,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1209 NC_000962 3200282 . C T 3470.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=15.0207;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=799.14;PAIRED=0.973451;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3854;QR=0;RO=0;RPL=55;RPP=3.18325;RPPR=0;RPR=58;RUN=1;SAF=68;SAP=13.1759;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:500:0,500:0:0:500:17281:-1554.77,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1210 NC_000962 3209156 . G A 3182.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=3.20004;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=732.844;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3534;QR=0;RO=0;RPL=59;RPP=7.75381;RPPR=0;RPR=44;RUN=1;SAF=53;SAP=3.20004;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:498:0,498:0:0:498:17259:-1552.79,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1211 NC_000962 3214869 . A G 3496.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=120;DPB=120;DPRA=0;EPP=8.28388;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=805.067;PAIRED=0.991597;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3886;QR=0;RO=0;RPL=59;RPP=3.02855;RPPR=0;RPR=60;RUN=1;SAF=60;SAP=3.02855;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:482:0,482:0:0:482:16122:-1450.69,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1212 NC_000962 3215622 . CGT CT 1859.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1M1D1M;DP=64;DPB=43;DPRA=0;EPP=3.04477;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=428.191;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2066;QR=0;RO=0;RPL=42;RPP=18.2106;RPPR=0;RPR=21;RUN=1;SAF=25;SAP=8.83536;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:198:0,192:0:0:192:6357:-571.786,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1213 NC_000962 3226181 . A C 3906.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=14.4784;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=899.404;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4338;QR=0;RO=0;RPL=60;RPP=4.09604;RPPR=0;RPR=68;RUN=1;SAF=59;SAP=4.70676;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,480:0:0:480:16883:-1518.88,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1214 NC_000962 3228143 . G T 4475.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=148;CIGAR=1X;DP=149;DPB=149;DPRA=0;EPP=5.88603;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1030.61;PAIRED=0.97973;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=5007;QR=32;RO=1;RPL=66;RPP=6.76636;RPPR=5.18177;RPR=82;RUN=1;SAF=83;SAP=7.76406;SAR=65;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:362:0,362:0:0:362:11589:-1042.93,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1215 NC_000962 3238119 . CGTGGTGC CGTGC 2896.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1M3D4M;DP=103;DPB=64.5;DPRA=0;EPP=6.07591;EPPR=0;GTI=0;LEN=3;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=666.903;PAIRED=0.990196;PAIREDR=0;PAO=0.5;PQA=16;PQR=16;PRO=0.5;QA=3218;QR=0;RO=0;RPL=49;RPP=3.35092;RPPR=0;RPR=53;RUN=1;SAF=72;SAP=40.564;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:314:0,311:0:0:311:10140:-912.196,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1216 NC_000962 3245271 . C T 2468.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=5.23675;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=568.374;PAIRED=0.936709;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2740;QR=0;RO=0;RPL=43;RPP=4.35716;RPPR=0;RPR=36;RUN=1;SAF=43;SAP=4.35716;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:638:1,637:1:32:637:22336:-2006.2,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1217 NC_000962 3247316 . C G 3583.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=3.02855;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=825.03;PAIRED=0.991597;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3979;QR=0;RO=0;RPL=59;RPP=3.02855;RPPR=0;RPR=60;RUN=1;SAF=63;SAP=3.90444;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:438:0,438:0:0:438:14878:-1338.69,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1218 NC_000962 3247851 . GCCCGG ACTCGC 1276.35 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=44;CIGAR=1X1M1X2M1X;DP=44;DPB=44;DPRA=0;EPP=3.79993;EPPR=0;GTI=0;LEN=6;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=293.891;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1415;QR=0;RO=0;RPL=12;RPP=22.751;RPPR=0;RPR=32;RUN=1;SAF=12;SAP=22.751;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:72:0,72:0:0:72:2368:-231.617,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1219 NC_000962 3247864 . CGCAAAA CTAGGGA 1207.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=42;CIGAR=1M4I1M4D1M;DP=43;DPB=42.4286;DPRA=0;EPP=8.18047;EPPR=0;GTI=0;LEN=7;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=278.092;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1342;QR=0;RO=0;RPL=20;RPP=3.21711;RPPR=0;RPR=22;RUN=1;SAF=12;SAP=19.7617;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:61:0,60:0:0:60:1926:-173.342,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1220 NC_000962 3247874 . GTTT ATTC 1262.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=43;CIGAR=1X2M1X;DP=44;DPB=44;DPRA=0;EPP=14.3727;EPPR=0;GTI=0;LEN=4;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=290.76;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1403;QR=0;RO=0;RPL=23;RPP=3.46479;RPPR=0;RPR=20;RUN=1;SAF=12;SAP=21.2406;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:68:0,67:0:0:67:2152:-202.207,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1221 NC_000962 3247883 . T C 1869.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=62;CIGAR=1X;DP=62;DPB=62;DPRA=0;EPP=11.9764;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=430.404;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2074;QR=0;RO=0;RPL=27;RPP=5.25182;RPPR=0;RPR=35;RUN=1;SAF=22;SAP=14.358;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:271:1,270:1:39:270:9519:-852.653,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1222 NC_000962 3248074 . GC AT 829.169 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=27;CIGAR=2X;DP=27;DPB=27.5;DPRA=0;EPP=5.02092;EPPR=0;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=190.923;PAIRED=0.962963;PAIREDR=0;PAO=1;PQA=32;PQR=0;PRO=0;QA=886;QR=0;RO=0;RPL=5;RPP=26.2531;RPPR=0;RPR=22;RUN=1;SAF=10;SAP=6.95112;SAR=17;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:27:0,27:0:0:27:886:-82.9169,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1223 NC_000962 3249025 . T G 4139.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1X;DP=136;DPB=136;DPRA=0;EPP=6.13977;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=953.058;PAIRED=0.985294;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4597;QR=0;RO=0;RPL=67;RPP=3.07417;RPPR=0;RPR=69;RUN=1;SAF=62;SAP=5.30951;SAR=74;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:534:0,534:0:0:534:18520:-1666.27,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1224 NC_000962 3256494 . A G 3401.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=109;DPB=109;DPRA=0;EPP=5.42083;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=783.182;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3777;QR=0;RO=0;RPL=54;RPP=3.03022;RPPR=0;RPR=55;RUN=1;SAF=50;SAP=4.62396;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:495:0,495:0:0:495:17131:-1541.34,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1225 NC_000962 3263440 . T C 12211.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=397;CIGAR=1X;DP=408;DPB=408;DPRA=0;EPP=5.90377;EPPR=3.20771;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=2811.73;PAIRED=0.874055;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=13954;QR=378;RO=11;RPL=210;RPP=5.90377;RPPR=4.78696;RPR=187;RUN=1;SAF=156;SAP=42.5289;SAR=241;SRF=3;SRP=7.94546;SRR=8;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:408:11,397:11:378:397:13954:-1221.12,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1226 NC_000962 3266030 . A G 4741.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=154;CIGAR=1X;DP=154;DPB=154;DPRA=0;EPP=7.57885;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1091.85;PAIRED=0.987013;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5267;QR=0;RO=0;RPL=76;RPP=3.0667;RPPR=0;RPR=78;RUN=1;SAF=80;SAP=3.51792;SAR=74;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:443:0,443:0:0:443:15324:-1378.74,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1227 NC_000962 3269581 . A G 3746.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=3.87536;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=862.734;PAIRED=0.99187;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4161;QR=0;RO=0;RPL=61;RPP=3.02795;RPPR=0;RPR=62;RUN=1;SAF=51;SAP=10.7958;SAR=72;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:482:0,482:0:0:482:16892:-1519.76,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1228 NC_000962 3270784 . A G 3694.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=121;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=3.17181;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=850.717;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4103;QR=0;RO=0;RPL=56;RPP=4.46393;RPPR=0;RPR=65;RUN=1;SAF=66;SAP=5.18177;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:400:0,399:0:0:399:14012:-1260.48,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1229 NC_000962 3276703 . T G 3248.43 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=105;CIGAR=1X;DP=105;DPB=105;DPRA=0;EPP=22.8844;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=747.978;PAIRED=0.980952;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3607;QR=0;RO=0;RPL=57;RPP=4.68544;RPPR=0;RPR=48;RUN=1;SAF=51;SAP=3.19643;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:401:0,401:0:0:401:14208:-1278.27,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1230 NC_000962 3284640 . A G 1929.52 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=64;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=3.55317;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=444.287;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2144;QR=0;RO=0;RPL=28;RPP=5.18177;RPPR=0;RPR=36;RUN=1;SAF=26;SAP=7.89611;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:563:0,563:0:0:563:19402:-1745.62,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1231 NC_000962 3284855 . C T 1804.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=58;CIGAR=1X;DP=58;DPB=58;DPRA=0;EPP=5.40641;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=415.501;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2002;QR=0;RO=0;RPL=28;RPP=3.16006;RPPR=0;RPR=30;RUN=1;SAF=21;SAP=12.5947;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:532:0,532:0:0:532:19221:-1729.08,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1232 NC_000962 3296843 . A G 3636.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=3.16919;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=837.259;PAIRED=0.97561;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4078;QR=36;RO=1;RPL=64;RPP=3.45166;RPPR=5.18177;RPR=59;RUN=1;SAF=50;SAP=12.3494;SAR=73;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:457:0,457:0:0:457:15508:-1395.34,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1233 NC_000962 3304966 . G A 2956.03 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=6.79359;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=680.652;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3282;QR=0;RO=0;RPL=37;RPP=14.8527;RPPR=0;RPR=60;RUN=1;SAF=50;SAP=3.21178;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:595:1,594:1:33:594:20794:-1867.49,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1234 NC_000962 3308606 . G A 2200.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=71;CIGAR=1X;DP=71;DPB=71;DPRA=0;EPP=6.71098;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=506.643;PAIRED=0.985915;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2442;QR=0;RO=0;RPL=41;RPP=6.71098;RPPR=0;RPR=30;RUN=1;SAF=14;SAP=59.5603;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:649:0,649:0:0:649:22625:-2035.52,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1235 NC_000962 3310427 . T C 2443.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=23.0483;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=562.575;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2712;QR=0;RO=0;RPL=44;RPP=5.23675;RPPR=0;RPR=35;RUN=1;SAF=35;SAP=5.23675;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:576:0,576:0:0:576:20658:-1858.33,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1236 NC_000962 3310626 . T C 2856.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=9.05266;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=657.656;PAIRED=0.98913;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3171;QR=0;RO=0;RPL=47;RPP=3.10471;RPPR=0;RPR=45;RUN=1;SAF=59;SAP=18.9659;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:455:0,454:0:0:454:16051:-1443.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1237 NC_000962 3314412 . A G 2910.13 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=99;DPB=99;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=670.083;PAIRED=0.989796;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3234;QR=0;RO=0;RPL=54;RPP=5.22609;RPPR=0;RPR=44;RUN=1;SAF=51;SAP=3.36483;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:368:0,368:0:0:368:12851:-1156.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1238 NC_000962 3316955 . A C 2225.52 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=72;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=6.02623;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=512.445;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2470;QR=0;RO=0;RPL=38;RPP=3.49285;RPPR=0;RPR=34;RUN=1;SAF=35;SAP=3.13094;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:542:0,542:0:0:542:19012:-1710.46,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1239 NC_000962 3326554 . A C 3369.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=4.65412;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=775.929;PAIRED=0.990654;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3742;QR=0;RO=0;RPL=45;RPP=8.8753;RPPR=0;RPR=62;RUN=1;SAF=46;SAP=7.57648;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:497:0,497:0:0:497:17141:-1542.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1240 NC_000962 3331361 . ACGCGCGCCGG ACGCGCCGG 2151.78 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=74;CIGAR=1M2D8M;DP=78;DPB=63.8182;DPRA=0;EPP=3.12768;EPPR=0;GTI=0;LEN=2;MEANALT=5;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=495.466;PAIRED=0.986486;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2391;QR=0;RO=0;RPL=57;RPP=49.9611;RPPR=0;RPR=17;RUN=1;SAF=35;SAP=3.47981;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:236:0,235:0:0:235:7894:-710.223,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1241 NC_000962 3335708 . G C 5335.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=176;CIGAR=1X;DP=177;DPB=177;DPRA=0;EPP=20.8262;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1228.46;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5930;QR=0;RO=0;RPL=79;RPP=7.00778;RPPR=0;RPR=97;RUN=1;SAF=98;SAP=7.94546;SAR=78;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:460:0,460:0:0:460:16138:-1451.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1242 NC_000962 3336620 . TAAGT TAGT 378.376 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=13;CIGAR=1M1D3M;DP=13;DPB=10.4;DPRA=0;EPP=3.17734;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=87.1244;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=417;QR=0;RO=0;RPL=11;RPP=16.5402;RPPR=0;RPR=2;RUN=1;SAF=4;SAP=7.18621;SAR=9;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:13:0,13:0:0:13:417:-37.8376,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1243 NC_000962 3336825 . T C 1807.13 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=61;CIGAR=1X;DP=61;DPB=61;DPRA=0;EPP=18.709;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=416.107;PAIRED=0.95082;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2005;QR=0;RO=0;RPL=37;RPP=9.02635;RPPR=0;RPR=24;RUN=1;SAF=35;SAP=5.89373;SAR=26;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:318:0,318:0:0:318:10880:-979.013,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1244 NC_000962 3338603 . G C 4304.97 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=140;CIGAR=1X;DP=141;DPB=141;DPRA=0;EPP=13.4954;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=991.255;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4817;QR=32;RO=1;RPL=80;RPP=9.21451;RPPR=5.18177;RPR=60;RUN=1;SAF=49;SAP=30.3709;SAR=91;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:395:0,395:0:0:395:14203:-1277.75,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1245 NC_000962 3352932 . C G 4982.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=165;CIGAR=1X;DP=165;DPB=165;DPRA=0;EPP=3.12874;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1147.16;PAIRED=0.993939;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5534;QR=0;RO=0;RPL=70;RPP=11.2356;RPPR=0;RPR=95;RUN=1;SAF=100;SAP=19.1318;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:448:0,448:0:0:448:15828:-1424.01,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1246 NC_000962 3355057 . C T 3490.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=9.59771;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=803.619;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3915;QR=36;RO=1;RPL=60;RPP=3.02855;RPPR=5.18177;RPR=59;RUN=1;SAF=65;SAP=5.21827;SAR=54;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:491:0,491:0:0:491:17472:-1571.85,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1247 NC_000962 3358235 . A T 3296.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=108;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=6.95112;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=758.948;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3660;QR=0;RO=0;RPL=57;RPP=3.73412;RPPR=0;RPR=51;RUN=1;SAF=60;SAP=5.9056;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:642:1,641:1:40:641:22811:-2048.08,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1248 NC_000962 3359073 . C T 3189 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=4.71796;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=734.295;PAIRED=0.990291;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3581;QR=36;RO=1;RPL=53;RPP=3.20004;RPPR=5.18177;RPR=50;RUN=1;SAF=53;SAP=3.20004;SAR=50;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:641:0,641:0:0:641:22507:-2024.83,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1249 NC_000962 3363338 . A G 2618.66 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=85;CIGAR=1X;DP=85;DPB=85;DPRA=0;EPP=3.64897;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=602.968;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2907;QR=0;RO=0;RPL=48;RPP=6.10145;RPPR=0;RPR=37;RUN=1;SAF=42;SAP=3.03585;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:559:0,559:0:0:559:19648:-1767.68,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1250 NC_000962 3367075 . C T 3488.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=3.96888;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=803.274;PAIRED=0.981982;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3874;QR=0;RO=0;RPL=60;RPP=4.59489;RPPR=0;RPR=51;RUN=1;SAF=65;SAP=10.0725;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:481:1,480:1:21:480:16400:-1473.46,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1251 NC_000962 3367765 . G A 3408.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=3.50834;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=784.928;PAIRED=0.990826;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3788;QR=0;RO=0;RPL=54;RPP=3.03022;RPPR=0;RPR=55;RUN=1;SAF=32;SAP=43.3519;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:491:0,491:0:0:491:16228:-1460.18,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1252 NC_000962 3375165 . A C 4653.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=150;CIGAR=1X;DP=150;DPB=150;DPRA=0;EPP=3.53145;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1071.53;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5169;QR=0;RO=0;RPL=63;RPP=11.3488;RPPR=0;RPR=87;RUN=1;SAF=79;SAP=3.93679;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:301:0,301:0:0:301:10060:-905.308,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1253 NC_000962 3378554 . C T 294.762 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=10;CIGAR=1X;DP=10;DPB=10;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=67.8715;PAIRED=0.4;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=324;QR=0;RO=0;RPL=10;RPP=24.725;RPPR=0;RPR=0;RUN=1;SAF=5;SAP=3.0103;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:10:0,10:0:0:10:324:-29.4762,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1254 NC_000962 3379024 . G A 362.987 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=13;CIGAR=1X;DP=13;DPB=13;DPRA=0;EPP=7.18621;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=83.5809;PAIRED=0.230769;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=400;QR=0;RO=0;RPL=0;RPP=31.2394;RPPR=0;RPR=13;RUN=1;SAF=4;SAP=7.18621;SAR=9;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:13:0,13:0:0:13:400:-36.2987,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1255 NC_000962 3379718 . T C 397.421 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=13;CIGAR=1X;DP=13;DPB=13;DPRA=0;EPP=4.51363;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=91.5096;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=438;QR=0;RO=0;RPL=0;RPP=31.2394;RPPR=0;RPR=13;RUN=1;SAF=8;SAP=4.51363;SAR=5;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:13:0,13:0:0:13:438:-39.7421,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1256 NC_000962 3379726 . CCCCGGCCAAC ACCCCGTCACA 415.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=15;CIGAR=1X3M1X1M1X2M2X;DP=16;DPB=16;DPRA=0;EPP=3.15506;EPPR=0;GTI=0;LEN=11;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=89.5243;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=462;QR=0;RO=0;RPL=0;RPP=35.5824;RPPR=0;RPR=15;RUN=1;SAF=7;SAP=3.15506;SAR=8;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:16:0,15:0:0:15:462:-41.579,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1257 NC_000962 3379742 . T C 940.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=30;CIGAR=1X;DP=30;DPB=30;DPRA=0;EPP=5.61607;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=216.646;PAIRED=0.966667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1042;QR=0;RO=0;RPL=2;RPP=51.9408;RPPR=0;RPR=28;RUN=1;SAF=14;SAP=3.29983;SAR=16;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:118:0,118:0:0:118:4309:-387.882,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1258 NC_000962 3379751 . A C 1223.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=40;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=4.96463;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=281.679;PAIRED=0.975;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1356;QR=0;RO=0;RPL=8;RPP=34.2795;RPPR=0;RPR=32;RUN=1;SAF=23;SAP=4.96463;SAR=17;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:172:0,170:0:0:170:5872:-528.236,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1259 NC_000962 3379757 . A C 1199.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=40;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=6.48466;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=276.28;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1330;QR=0;RO=0;RPL=9;RPP=29.2851;RPPR=0;RPR=31;RUN=1;SAF=21;SAP=3.22745;SAR=19;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:218:0,218:0:0:218:7549:-679.301,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1260 NC_000962 3379763 . G A 1468.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=47;CIGAR=1X;DP=47;DPB=47;DPRA=0;EPP=3.42611;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=338.031;PAIRED=0.978723;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1628;QR=0;RO=0;RPL=10;RPP=36.6912;RPPR=0;RPR=37;RUN=1;SAF=21;SAP=4.16534;SAR=26;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:275:0,275:0:0:275:9692:-872.072,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1261 NC_000962 3379784 . CCCCC ACCCG 1910.09 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=1X3M1X;DP=70;DPB=72.4;DPRA=0;EPP=3.04177;EPPR=0;GTI=0;LEN=5;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=439.814;PAIRED=0.971014;PAIREDR=0;PAO=4;PQA=128;PQR=98;PRO=3;QA=2093;QR=0;RO=0;RPL=17;RPP=41.5618;RPPR=0;RPR=52;RUN=1;SAF=34;SAP=3.04177;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:446:0,423:0:0:423:14319:-1324.15,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1262 NC_000962 3401871 . A G 3524.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=4.20835;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=811.577;PAIRED=0.991379;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3914;QR=0;RO=0;RPL=51;RPP=6.67934;RPPR=0;RPR=65;RUN=1;SAF=47;SAP=12.0706;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:376:0,375:0:0:375:12827:-1153.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1263 NC_000962 3402816 . C T 3927.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=5.07918;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=904.432;PAIRED=0.976378;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4365;QR=0;RO=0;RPL=72;RPP=7.95168;RPPR=0;RPR=55;RUN=1;SAF=79;SAP=19.4417;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:485:0,485:0:0:485:16792:-1510.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1264 NC_000962 3404376 . C G 2500.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=84;DPB=84;DPRA=0;EPP=4.29225;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=575.713;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2778;QR=0;RO=0;RPL=42;RPP=3.03646;RPPR=0;RPR=41;RUN=1;SAF=36;SAP=6.17594;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:511:0,511:0:0:511:18273:-1643.88,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1265 NC_000962 3408150 . T C 2811.18 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=5.3706;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=647.298;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3121;QR=0;RO=0;RPL=55;RPP=10.6577;RPPR=0;RPR=37;RUN=1;SAF=38;SAP=9.05266;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:502:0,502:0:0:502:17415:-1566.88,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1266 NC_000962 3412611 . T C 1156.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=40;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=3.87889;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=266.325;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1282;QR=0;RO=0;RPL=17;RPP=4.96463;RPPR=0;RPR=23;RUN=1;SAF=23;SAP=4.96463;SAR=17;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:466:0,466:0:0:466:16403:-1475.75,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1267 NC_000962 3420825 . A G 2458.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1X;DP=81;DPB=81;DPRA=0;EPP=6.2541;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=566.094;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2729;QR=0;RO=0;RPL=39;RPP=3.25157;RPPR=0;RPR=42;RUN=1;SAF=46;SAP=6.2541;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:496:0,496:0:0:496:17275:-1554.14,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1268 NC_000962 3425854 . C T 3617.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=18.6189;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=832.901;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4017;QR=0;RO=0;RPL=60;RPP=3.17734;RPPR=0;RPR=57;RUN=1;SAF=53;SAP=5.25601;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:505:0,505:0:0:505:17845:-1605.4,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1269 NC_000962 3428917 . C A 3701.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=120;CIGAR=1X;DP=120;DPB=120;DPRA=0;EPP=17.1973;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=852.383;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4111;QR=0;RO=0;RPL=45;RPP=19.2963;RPPR=0;RPR=75;RUN=1;SAF=45;SAP=19.2963;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:462:0,462:0:0:462:16106:-1449.15,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1270 NC_000962 3440464 . TGTGG GGTGC 3396.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X3M1X;DP=116;DPB=116.4;DPRA=0;EPP=3.02952;EPPR=0;GTI=0;LEN=5;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=782.151;PAIRED=1;PAIREDR=0;PAO=2;PQA=32;PQR=0;PRO=0;QA=3743;QR=0;RO=0;RPL=62;RPP=5.3355;RPPR=0;RPR=51;RUN=1;SAF=64;SAP=7.33403;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:416:0,411:0:0:411:13553:-1282.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1271 NC_000962 3446699 . C G 3213.01 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=4.00471;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=739.822;PAIRED=0.990654;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3570;QR=0;RO=0;RPL=50;RPP=4.00471;RPPR=0;RPR=57;RUN=1;SAF=38;SAP=22.513;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:420:0,420:0:0:420:13932:-1253.62,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1272 NC_000962 3447293 . T G 2126.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=70;CIGAR=1X;DP=70;DPB=70;DPRA=0;EPP=4.99565;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=489.658;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2360;QR=0;RO=0;RPL=34;RPP=3.13438;RPPR=0;RPR=36;RUN=1;SAF=45;SAP=15.4187;SAR=25;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:520:0,520:0:0:520:17860:-1606.92,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1273 NC_000962 3450725 . T C 5217.68 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=167;CIGAR=1X;DP=167;DPB=167;DPRA=0;EPP=4.06353;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1201.42;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5796;QR=0;RO=0;RPL=71;RPP=11.1371;RPPR=0;RPR=96;RUN=1;SAF=87;SAP=3.64744;SAR=80;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:464:0,464:0:0:464:15790:-1420.69,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1274 NC_000962 3454263 . C G 4185.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=138;CIGAR=1X;DP=138;DPB=138;DPRA=0;EPP=4.58383;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=963.829;PAIRED=0.985507;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4649;QR=0;RO=0;RPL=69;RPP=3.0103;RPPR=0;RPR=69;RUN=1;SAF=57;SAP=12.0738;SAR=81;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:476:0,476:0:0:476:16515:-1485.88,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1275 NC_000962 3455686 . G C 4268.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=140;CIGAR=1X;DP=140;DPB=140;DPRA=0;EPP=4.56135;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=982.88;PAIRED=0.978571;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4741;QR=0;RO=0;RPL=68;RPP=3.25847;RPPR=0;RPR=72;RUN=1;SAF=81;SAP=10.5174;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:512:0,512:0:0:512:17883:-1608.96,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1276 NC_000962 3456666 . A G 3207.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=13.7459;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=738.651;PAIRED=0.990654;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3562;QR=0;RO=0;RPL=47;RPP=6.44001;RPPR=0;RPR=60;RUN=1;SAF=50;SAP=4.00471;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:531:1,530:1:39:530:19127:-1716.72,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1277 NC_000962 3462135 . G C 3513.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=7.25883;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=809.073;PAIRED=0.982609;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3902;QR=0;RO=0;RPL=51;RPP=6.20142;RPPR=0;RPR=64;RUN=1;SAF=66;SAP=8.4673;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:382:0,381:0:0:381:12854:-1156.37,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1278 NC_000962 3466919 . C G 2341.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=76;CIGAR=1X;DP=77;DPB=77;DPRA=0;EPP=16.8392;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=539.089;PAIRED=0.986842;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2601;QR=0;RO=0;RPL=45;RPP=8.61041;RPPR=0;RPR=31;RUN=1;SAF=42;SAP=4.83891;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:517:0,517:0:0:517:17924:-1612.52,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1279 NC_000962 3467465 . C G 3117.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=4.71796;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=717.73;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3461;QR=0;RO=0;RPL=50;RPP=3.20004;RPPR=0;RPR=53;RUN=1;SAF=43;SAP=9.10307;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:501:0,501:0:0:501:16909:-1521.42,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1280 NC_000962 3473996 . GAG GAAG 3186.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1M1I2M;DP=111;DPB=147.667;DPRA=0;EPP=4.32138;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=733.73;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3541;QR=0;RO=0;RPL=53;RPP=3.0103;RPPR=0;RPR=53;RUN=1;SAF=46;SAP=7.02548;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:493:0,475:0:0:475:16647:-1497.41,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1281 NC_000962 3477940 . ACA ACG 1459.68 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=48;CIGAR=2M1X;DP=49;DPB=49.6667;DPRA=0;EPP=3.73412;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=336.104;PAIRED=0.979167;PAIREDR=0;PAO=0.5;PQA=15.5;PQR=15.5;PRO=0.5;QA=1621;QR=0;RO=0;RPL=25;RPP=3.19126;RPPR=0;RPR=23;RUN=1;SAF=25;SAP=3.19126;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:49:0,48:0:0:48:1621:-145.968,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1282 NC_000962 3477942 . A G 21412.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=673;CIGAR=1X;DP=673;DPB=673;DPRA=0;EPP=3.27165;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=4930.34;PAIRED=0.915305;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=23802;QR=0;RO=0;RPL=336;RPP=3.01353;RPPR=0;RPR=337;RUN=1;SAF=359;SAP=9.54408;SAR=314;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:673:0,673:0:0:673:23802:-2141.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1283 NC_000962 3480474 . G A 2428.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=3.25768;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=559.258;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2696;QR=0;RO=0;RPL=39;RPP=3.03779;RPPR=0;RPR=40;RUN=1;SAF=45;SAP=6.33623;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:673:0,673:0:0:673:24139:-2171.51,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1284 NC_000962 3480789 . T C 2251.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=73;CIGAR=1X;DP=74;DPB=74;DPRA=0;EPP=3.04005;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=518.504;PAIRED=0.986301;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2502;QR=0;RO=0;RPL=37;RPP=3.04005;RPPR=0;RPR=36;RUN=1;SAF=41;SAP=5.41974;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:556:0,556:0:0:556:19174:-1725.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1285 NC_000962 3482717 . A G 1929.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=64;CIGAR=1X;DP=65;DPB=65;DPRA=0;EPP=3.14602;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=444.191;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2143;QR=0;RO=0;RPL=15;RPP=42.2325;RPPR=0;RPR=49;RUN=1;SAF=36;SAP=5.18177;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:287:0,287:0:0:287:10429:-938.321,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1286 NC_000962 3486977 . A G 2528.65 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=85;CIGAR=1X;DP=86;DPB=86;DPRA=0;EPP=3.24022;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=582.244;PAIRED=0.988235;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2810;QR=0;RO=0;RPL=38;RPP=5.07959;RPPR=0;RPR=47;RUN=1;SAF=38;SAP=5.07959;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:545:0,545:0:0:545:19354:-1741.17,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1287 NC_000962 3487108 . C T 3043.24 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=7.26639;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=700.731;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3379;QR=0;RO=0;RPL=59;RPP=10.0459;RPPR=0;RPR=41;RUN=1;SAF=42;SAP=8.56927;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:603:1,602:1:38:602:21873:-1963.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1288 NC_000962 3490438 . C G 2346.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=17.5509;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=540.291;PAIRED=0.949367;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2608;QR=0;RO=0;RPL=43;RPP=4.35716;RPPR=0;RPR=36;RUN=1;SAF=44;SAP=5.23675;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:599:0,599:0:0:599:21248:-1911.5,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1289 NC_000962 3498198 . C T 3185.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=8.35546;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=733.479;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3537;QR=0;RO=0;RPL=53;RPP=3.09382;RPPR=0;RPR=51;RUN=1;SAF=53;SAP=3.09382;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:581:0,581:0:0:581:20425:-1837.56,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1290 NC_000962 3500149 . G A 4001.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=3.62103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=921.354;PAIRED=0.976562;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4444;QR=0;RO=0;RPL=61;RPP=3.62103;RPPR=0;RPR=67;RUN=1;SAF=64;SAP=3.0103;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:505:0,505:0:0:505:18237:-1640.61,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1291 NC_000962 3500243 . G C 4426.01 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=144;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=3.25157;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1019.13;PAIRED=0.993056;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4916;QR=0;RO=0;RPL=74;RPP=3.25157;RPPR=0;RPR=70;RUN=1;SAF=62;SAP=9.04217;SAR=82;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:552:0,552:0:0:552:19488:-1753.21,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1292 NC_000962 3503895 . C T 3219.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=109;DPB=109;DPRA=0;EPP=3.51765;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=741.336;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3578;QR=0;RO=0;RPL=62;RPP=8.8753;RPPR=0;RPR=45;RUN=1;SAF=52;SAP=3.19295;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:534:0,534:0:0:534:18742:-1686.12,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1293 NC_000962 3508970 . A G 3656.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=5.66023;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=842.017;PAIRED=0.991525;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4061;QR=0;RO=0;RPL=59;RPP=3.0103;RPPR=0;RPR=59;RUN=1;SAF=60;SAP=3.08391;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:453:0,453:0:0:453:15395:-1385.1,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1294 NC_000962 3509626 . C A 1855.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=60;CIGAR=1X;DP=60;DPB=60;DPRA=0;EPP=10.1038;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=427.311;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2059;QR=0;RO=0;RPL=21;RPP=14.7363;RPPR=0;RPR=39;RUN=1;SAF=38;SAP=12.2752;SAR=22;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:547:0,547:0:0:547:18896:-1699.99,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1295 NC_000962 3510120 . T G 2969.52 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=3.8246;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=683.757;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3297;QR=0;RO=0;RPL=62;RPP=20.744;RPPR=0;RPR=34;RUN=1;SAF=55;SAP=7.44372;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:548:0,548:0:0:548:19355:-1741.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1296 NC_000962 3518167 . A G 4981.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=163;CIGAR=1X;DP=163;DPB=163;DPRA=0;EPP=3.66307;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1146.93;PAIRED=0.993865;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5533;QR=0;RO=0;RPL=77;RPP=4.08938;RPPR=0;RPR=86;RUN=1;SAF=102;SAP=25.4044;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:365:0,365:0:0:365:12906:-1161.2,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1297 NC_000962 3518555 . A G 5950.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=194;CIGAR=1X;DP=194;DPB=194;DPRA=0;EPP=3.72666;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1370.24;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6611;QR=0;RO=0;RPL=97;RPP=3.0103;RPPR=0;RPR=97;RUN=1;SAF=80;SAP=15.9496;SAR=114;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:341:0,341:0:0:341:12048:-1084,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1298 NC_000962 3529067 . G C 6044.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=202;CIGAR=1X;DP=205;DPB=205;DPRA=0;EPP=9.20222;EPPR=9.52472;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1391.87;PAIRED=0.732673;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=6818;QR=99;RO=3;RPL=96;RPP=4.08529;RPPR=9.52472;RPR=106;RUN=1;SAF=81;SAP=20.2101;SAR=121;SRF=0;SRP=9.52472;SRR=3;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:1071:0,1071:0:0:1071:36309:-3266.65,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1299 NC_000962 3530955 . C G 3405.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=10.0725;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=784.22;PAIRED=0.963964;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3782;QR=0;RO=0;RPL=50;RPP=5.3774;RPPR=0;RPR=61;RUN=1;SAF=66;SAP=11.6375;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:485:0,484:0:0:484:17020:-1530.95,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1300 NC_000962 3535572 . C A 3912.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=3.0274;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=900.841;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4385;QR=36;RO=1;RPL=63;RPP=3.0274;RPPR=5.18177;RPR=64;RUN=1;SAF=70;SAP=5.8999;SAR=57;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:498:0,498:0:0:498:17096:-1538.13,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1301 NC_000962 3542049 . G A 2261.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=73;CIGAR=1X;DP=73;DPB=73;DPRA=0;EPP=6.60959;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=520.728;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2510;QR=0;RO=0;RPL=36;RPP=3.04005;RPPR=0;RPR=37;RUN=1;SAF=33;SAP=4.46786;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:599:0,599:0:0:599:20949:-1884.73,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1302 NC_000962 3542219 . G A 2874.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=3.1027;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=661.802;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3191;QR=0;RO=0;RPL=42;RPP=5.32038;RPPR=0;RPR=52;RUN=1;SAF=62;SAP=23.801;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:502:0,502:0:0:502:17768:-1598.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1303 NC_000962 3550347 . C T 3344.65 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=108;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=770.135;PAIRED=0.990741;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3714;QR=0;RO=0;RPL=48;RPP=5.9056;RPPR=0;RPR=60;RUN=1;SAF=52;SAP=3.332;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:513:0,513:0:0:513:18235:-1640.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1304 NC_000962 3550789 . C G 4219.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=140;CIGAR=1X;DP=140;DPB=140;DPRA=0;EPP=3.07234;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=971.497;PAIRED=0.921429;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4686;QR=0;RO=0;RPL=82;RPP=11.9444;RPPR=0;RPR=58;RUN=1;SAF=55;SAP=16.9698;SAR=85;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:481:0,481:0:0:481:16382:-1473.95,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1305 NC_000962 3556275 . A G 2841.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=3.10078;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=654.34;PAIRED=0.989583;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3155;QR=0;RO=0;RPL=35;RPP=18.3011;RPPR=0;RPR=61;RUN=1;SAF=48;SAP=3.0103;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:483:0,483:0:0:483:16750:-1507.03,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1306 NC_000962 3568607 . G C 16103.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=510;CIGAR=1X;DP=510;DPB=510;DPRA=0;EPP=23.8735;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3708.03;PAIRED=0.894118;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=17900;QR=0;RO=0;RPL=242;RPP=5.88857;RPPR=0;RPR=268;RUN=1;SAF=246;SAP=4.38982;SAR=264;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:510:0,510:0:0:510:17900:-1610.38,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1307 NC_000962 3571828 . G C 3072.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=707.371;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3411;QR=0;RO=0;RPL=51;RPP=3.0103;RPPR=0;RPR=51;RUN=1;SAF=64;SAP=17.4016;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:554:0,553:0:0:553:19543:-1757.74,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1308 NC_000962 3576231 . T C 4226.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=141;CIGAR=1X;DP=141;DPB=141;DPRA=0;EPP=3.1489;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=973.15;PAIRED=0.992908;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4694;QR=0;RO=0;RPL=77;RPP=5.61299;RPPR=0;RPR=64;RUN=1;SAF=64;SAP=5.61299;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:387:0,387:0:0:387:13535:-1217.76,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1309 NC_000962 3577497 . C T 4614.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=152;CIGAR=1X;DP=152;DPB=152;DPRA=0;EPP=11.239;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1062.64;PAIRED=0.993421;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5126;QR=0;RO=0;RPL=79;RPP=3.5246;RPPR=0;RPR=73;RUN=1;SAF=61;SAP=15.8677;SAR=91;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:394:0,394:0:0:394:14342:-1290.21,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1310 NC_000962 3580636 . CTTTGC CTTGC 2769.81 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1M1D4M;DP=100;DPB=83.8333;DPRA=0;EPP=6.95631;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=637.773;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3078;QR=0;RO=0;RPL=45;RPP=3.22044;RPPR=0;RPR=48;RUN=1;SAF=62;SAP=25.4488;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:474:0,473:0:0:473:16429:-1477.8,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1311 NC_000962 3581414 . A G 4766.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=156;CIGAR=1X;DP=157;DPB=157;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1097.44;PAIRED=0.99359;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5298;QR=0;RO=0;RPL=79;RPP=3.06598;RPPR=0;RPR=77;RUN=1;SAF=73;SAP=4.40227;SAR=83;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:487:1,486:1:39:486:17339:-1555.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1312 NC_000962 3587446 . G A 3411.19 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=109;DPB=109;DPRA=0;EPP=3.1896;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=785.455;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3788;QR=0;RO=0;RPL=60;RPP=5.42083;RPPR=0;RPR=49;RUN=1;SAF=47;SAP=7.4927;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:468:0,468:0:0:468:16262:-1463.08,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1313 NC_000962 3590686 . GTC GCTC 749.242 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=24;CIGAR=1M1I2M;DP=24;DPB=32;DPRA=0;EPP=39.2015;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=172.519;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=829;QR=0;RO=0;RPL=1;RPP=46.8017;RPPR=0;RPR=23;RUN=1;SAF=23;SAP=46.8017;SAR=1;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:211:0,210:0:0:210:7130:-641.459,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1314 NC_000962 3591063 . T C 2767.09 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=3.22506;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=637.145;PAIRED=0.978022;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3072;QR=0;RO=0;RPL=46;RPP=3.03416;RPPR=0;RPR=45;RUN=1;SAF=48;SAP=3.60686;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:417:0,417:0:0:417:14464:-1301.37,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1315 NC_000962 3597249 . C G 2746.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=90;CIGAR=1X;DP=90;DPB=90;DPRA=0;EPP=3.10681;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=632.386;PAIRED=0.966667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3049;QR=0;RO=0;RPL=41;RPP=4.55446;RPPR=0;RPR=49;RUN=1;SAF=47;SAP=3.39634;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:504:0,504:0:0:504:17479:-1572.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1316 NC_000962 3600576 . C T 4478.66 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=145;CIGAR=1X;DP=146;DPB=146;DPRA=0;EPP=3.02528;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1031.25;PAIRED=0.97931;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4977;QR=0;RO=0;RPL=63;RPP=8.41652;RPPR=0;RPR=82;RUN=1;SAF=96;SAP=36.0916;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:444:0,444:0:0:444:15674:-1410.19,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1317 NC_000962 3604821 . G C 5603.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=183;CIGAR=1X;DP=183;DPB=183;DPRA=0;EPP=7.29391;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1290.29;PAIRED=0.983607;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6225;QR=0;RO=0;RPL=96;RPP=3.97144;RPPR=0;RPR=87;RUN=1;SAF=99;SAP=5.68014;SAR=84;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:343:0,343:0:0:343:11530:-1037.5,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1318 NC_000962 3610391 . AGT ACGT 2571.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1M1I2M;DP=91;DPB=121.333;DPRA=0;EPP=3.109;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=592.041;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2857;QR=0;RO=0;RPL=41;RPP=3.89863;RPPR=0;RPR=47;RUN=1;SAF=42;SAP=3.40511;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:467:0,466:0:0:466:16085:-1446.87,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1319 NC_000962 3612813 . T C 3572.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=9.59771;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=822.548;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3967;QR=0;RO=0;RPL=58;RPP=3.17453;RPPR=0;RPR=61;RUN=1;SAF=57;SAP=3.46649;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:484:0,484:0:0:484:16459:-1480.86,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1320 NC_000962 3614982 . T C 3704.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=120;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=5.61607;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=852.995;PAIRED=0.991667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4118;QR=0;RO=0;RPL=63;RPP=3.66174;RPPR=0;RPR=57;RUN=1;SAF=77;SAP=23.9288;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:440:0,440:0:0:440:15664:-1409.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1321 NC_000962 3621423 . A G 3488.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=5.3355;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=803.164;PAIRED=0.964602;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3876;QR=0;RO=0;RPL=53;RPP=3.95191;RPPR=0;RPR=60;RUN=1;SAF=69;SAP=15.0207;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:575:1,574:1:34:574:20182:-1812.26,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1322 NC_000962 3622441 . A C 4712.99 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=154;CIGAR=1X;DP=155;DPB=155;DPRA=0;EPP=8.65049;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1085.21;PAIRED=0.980519;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=5265;QR=27;RO=1;RPL=70;RPP=5.77399;RPPR=5.18177;RPR=84;RUN=1;SAF=71;SAP=5.04077;SAR=83;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:487:0,487:0:0:487:16886:-1519.2,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1323 NC_000962 3625065 . T G 3552.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=10.4981;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=818.084;PAIRED=0.982759;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3948;QR=0;RO=0;RPL=62;RPP=4.20835;RPPR=0;RPR=54;RUN=1;SAF=50;SAP=7.80251;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:453:0,453:0:0:453:15549:-1398.96,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1324 NC_000962 3626562 . G A 2791.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=5.89764;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=642.746;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3099;QR=0;RO=0;RPL=47;RPP=3.22506;RPPR=0;RPR=44;RUN=1;SAF=34;SAP=15.6335;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:345:0,345:0:0:345:12001:-1079.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1325 NC_000962 3628520 . G A 3125.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=3.09546;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=719.589;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3470;QR=0;RO=0;RPL=44;RPP=7.18293;RPPR=0;RPR=58;RUN=1;SAF=58;SAP=7.18293;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:522:1,519:1:29:519:17876:-1605.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1326 NC_000962 3638093 . G A 3439.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=5.3774;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=792.042;PAIRED=0.981982;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3822;QR=0;RO=0;RPL=47;RPP=8.66395;RPPR=0;RPR=64;RUN=1;SAF=63;SAP=7.41193;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:517:0,516:0:0:516:18550:-1668.52,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1327 NC_000962 3643985 . A C 2092.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=74;CIGAR=1X;DP=75;DPB=75;DPRA=0;EPP=7.23587;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=481.906;PAIRED=0.972973;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2346;QR=21;RO=1;RPL=33;RPP=4.88833;RPPR=5.18177;RPR=41;RUN=1;SAF=38;SAP=3.12768;SAR=36;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:511:2,508:2:63:508:17777:-1593.36,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1328 NC_000962 3653988 . G A 4192.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=133;CIGAR=1X;DP=133;DPB=133;DPRA=0;EPP=7.72876;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=965.465;PAIRED=0.992481;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4657;QR=0;RO=0;RPL=62;RPP=4.33278;RPPR=0;RPR=71;RUN=1;SAF=65;SAP=3.15724;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:603:0,603:0:0:603:21654:-1947.98,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1329 NC_000962 3664457 . C A 3644.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=3.30981;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=839.111;PAIRED=0.991379;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4047;QR=0;RO=0;RPL=68;RPP=10.4981;RPPR=0;RPR=48;RUN=1;SAF=60;SAP=3.30981;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:484:0,484:0:0:484:17075:-1536.14,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1330 NC_000962 3665753 . G A 3388.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=3.49937;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=780.286;PAIRED=0.990991;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3763;QR=0;RO=0;RPL=60;RPP=4.59489;RPPR=0;RPR=51;RUN=1;SAF=54;SAP=3.18637;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:430:0,430:0:0:430:14897:-1340.35,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1331 NC_000962 3670040 . C T 3053.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=17.6895;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=703.018;PAIRED=0.97;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3390;QR=0;RO=0;RPL=60;RPP=11.6962;RPPR=0;RPR=40;RUN=1;SAF=59;SAP=10.0459;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:495:0,495:0:0:495:16660:-1499.03,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1332 NC_000962 3670070 . G A 2715.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=4.94315;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=625.296;PAIRED=0.989011;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3054;QR=36;RO=1;RPL=41;RPP=4.94315;RPPR=5.18177;RPR=50;RUN=1;SAF=55;SAP=11.6246;SAR=36;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:483:0,483:0:0:483:16068:-1445.84,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1333 NC_000962 3674157 . T A 6537.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=211;CIGAR=1X;DP=211;DPB=211;DPRA=0;EPP=3.51458;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1505.3;PAIRED=0.995261;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7263;QR=0;RO=0;RPL=103;RPP=3.26758;RPPR=0;RPR=108;RUN=1;SAF=117;SAP=8.45442;SAR=94;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:361:0,361:0:0:361:12544:-1128.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1334 NC_000962 3675504 . G T 2433.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=80;CIGAR=1X;DP=80;DPB=80;DPRA=0;EPP=3.11887;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=560.297;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2701;QR=0;RO=0;RPL=43;RPP=3.98746;RPPR=0;RPR=37;RUN=1;SAF=50;SAP=13.8677;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:410:0,410:0:0:410:14592:-1312.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1335 NC_000962 3678249 . A C 4694.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=153;CIGAR=1X;DP=153;DPB=153;DPRA=0;EPP=3.02449;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1080.86;PAIRED=0.993464;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5214;QR=0;RO=0;RPL=80;RPP=3.70574;RPPR=0;RPR=73;RUN=1;SAF=95;SAP=22.44;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:403:0,403:0:0:403:14085:-1267.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1336 NC_000962 3680932 . G A 4701.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=153;CIGAR=1X;DP=153;DPB=153;DPRA=0;EPP=5.40885;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1082.52;PAIRED=0.980392;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5222;QR=0;RO=0;RPL=70;RPP=5.40885;RPPR=0;RPR=83;RUN=1;SAF=86;SAP=8.13384;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:390:0,390:0:0:390:13699:-1232.55,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1337 NC_000962 3681548 . A C 4920.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=163;CIGAR=1X;DP=163;DPB=163;DPRA=0;EPP=10.0576;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1133.07;PAIRED=0.98773;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5466;QR=0;RO=0;RPL=82;RPP=3.02362;RPPR=0;RPR=81;RUN=1;SAF=69;SAP=11.3365;SAR=94;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:387:0,387:0:0:387:13283:-1195.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1338 NC_000962 3689523 . G T 3634.32 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=19.8579;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=836.832;PAIRED=0.991379;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4036;QR=0;RO=0;RPL=60;RPP=3.30981;RPPR=0;RPR=56;RUN=1;SAF=55;SAP=3.68421;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:410:0,410:0:0:410:14382:-1293.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1339 NC_000962 3690016 . A G 3544.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=118;DPB=118;DPRA=0;EPP=3.08391;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=816.129;PAIRED=0.991525;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3936;QR=0;RO=0;RPL=65;RPP=5.66023;RPPR=0;RPR=53;RUN=1;SAF=71;SAP=13.61;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:473:0,473:0:0:473:16144:-1452.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1340 NC_000962 3693681 . A C 5596.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=189;CIGAR=1X;DP=189;DPB=189;DPRA=0;EPP=8.07707;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1288.67;PAIRED=0.984127;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6217;QR=0;RO=0;RPL=88;RPP=4.95199;RPPR=0;RPR=101;RUN=1;SAF=123;SAP=40.3389;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:379:0,379:0:0:379:12861:-1157.21,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1341 NC_000962 3704596 . G C 2077.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=68;CIGAR=1X;DP=68;DPB=68;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=478.263;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2305;QR=0;RO=0;RPL=29;RPP=6.20364;RPPR=0;RPR=39;RUN=1;SAF=35;SAP=3.13803;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:597:0,597:0:0:597:21333:-1919.08,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1342 NC_000962 3704770 . A G 2338.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=3.69747;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=538.54;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2596;QR=0;RO=0;RPL=43;RPP=4.35716;RPPR=0;RPR=36;RUN=1;SAF=51;SAP=17.5509;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:466:1,465:1:35:465:16647:-1494.08,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1343 NC_000962 3709472 . C G 2917.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1X;DP=98;DPB=98;DPRA=0;EPP=6.79359;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=671.849;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3242;QR=0;RO=0;RPL=49;RPP=3.03269;RPPR=0;RPR=48;RUN=1;SAF=48;SAP=3.03269;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:588:0,588:0:0:588:20675:-1859.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1344 NC_000962 3714211 . G T 4454.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=142;CIGAR=1X;DP=142;DPB=142;DPRA=0;EPP=4.53951;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1025.74;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4948;QR=0;RO=0;RPL=74;RPP=3.56081;RPPR=0;RPR=68;RUN=1;SAF=66;SAP=4.53951;SAR=76;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:460:0,460:0:0:460:16286:-1465.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1345 NC_000962 3714757 . A C 3823.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=127;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=3.16418;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=880.481;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4270;QR=21;RO=1;RPL=68;RPP=4.39525;RPPR=5.18177;RPR=59;RUN=1;SAF=58;SAP=5.07918;SAR=69;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:509:0,509:0:0:509:18491:-1663.37,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1346 NC_000962 3718357 . C T 4651.77 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=148;CIGAR=1X;DP=148;DPB=148;DPRA=0;EPP=3.5385;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1071.11;PAIRED=0.986486;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5167;QR=0;RO=0;RPL=79;RPP=4.47751;RPPR=0;RPR=69;RUN=1;SAF=88;SAP=14.5132;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:447:0,447:0:0:447:15893:-1429.88,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1347 NC_000962 3721806 . G C 3816.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=7.42218;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=878.684;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4238;QR=0;RO=0;RPL=66;RPP=3.63072;RPPR=0;RPR=60;RUN=1;SAF=57;SAP=5.49198;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:517:0,517:0:0:517:18155:-1633.38,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1348 NC_000962 3730993 . A G 785.575 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=26;CIGAR=1X;DP=27;DPB=27;DPRA=0;EPP=51.1168;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=180.885;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=873;QR=0;RO=0;RPL=9;RPP=8.35546;RPPR=0;RPR=17;RUN=1;SAF=18;SAP=11.3621;SAR=8;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:284:1,283:1:24:283:9926:-890.69,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1349 NC_000962 3732139 . A G 1270.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=41;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=18.3165;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=292.456;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1408;QR=0;RO=0;RPL=41;RPP=92.0407;RPPR=0;RPR=0;RUN=1;SAF=12;SAP=18.3165;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:87:0,87:0:0:87:3024:-272.352,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1350 NC_000962 3732624 . A G 660.543 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=22;CIGAR=1X;DP=23;DPB=23;DPRA=0;EPP=6.56362;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=152.096;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=733;QR=0;RO=0;RPL=7;RPP=9.32731;RPPR=0;RPR=15;RUN=1;SAF=13;SAP=4.58955;SAR=9;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:241:0,241:0:0:241:8075:-726.692,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1351 NC_000962 3735802 . C G 620.583 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=20;CIGAR=1X;DP=20;DPB=20;DPRA=0;EPP=3.44459;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=142.894;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=686;QR=0;RO=0;RPL=13;RPP=6.91895;RPPR=0;RPR=7;RUN=1;SAF=6;SAP=9.95901;SAR=14;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:81:0,81:0:0:81:2688:-242.171,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1352 NC_000962 3736628 . T G 3865.99 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=131;CIGAR=1X;DP=132;DPB=132;DPRA=0;EPP=15.0943;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=890.176;PAIRED=0.992366;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4329;QR=32;RO=1;RPL=63;RPP=3.4247;RPPR=5.18177;RPR=68;RUN=1;SAF=75;SAP=8.99428;SAR=56;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:427:0,427:0:0:427:15143:-1362.32,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1353 NC_000962 3738416 . TGGGCCGCC TGGCCGCC 3850.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=131;CIGAR=1M1D7M;DP=131;DPB=116.444;DPRA=0;EPP=39.627;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=886.607;PAIRED=0.793893;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4277;QR=0;RO=0;RPL=80;RPP=16.9508;RPPR=0;RPR=51;RUN=1;SAF=77;SAP=11.7791;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:131:0,131:0:0:131:4277:-385.048,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1354 NC_000962 3741572 . G A 1626.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=54;CIGAR=1X;DP=54;DPB=54;DPRA=0;EPP=3.17115;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=374.472;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1804;QR=0;RO=0;RPL=24;RPP=4.45795;RPPR=0;RPR=30;RUN=1;SAF=12;SAP=39.2015;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:263:0,262:0:0:262:8473:-762.424,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1355 NC_000962 3742991 . AGGGGGGGATT AGGGGGGGGATT 12406.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=404;CIGAR=1M1I10M;DP=443;DPB=480.909;DPRA=0;EPP=3.78429;EPPR=3.73412;GTI=0;LEN=1;MEANALT=5;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=2856.67;PAIRED=0.881188;PAIREDR=0.666667;PAO=0;PQA=0;PQR=0;PRO=0;QA=13898;QR=106;RO=3;RPL=235;RPP=26.4235;RPPR=3.73412;RPR=169;RUN=1;SAF=199;SAP=3.2038;SAR=205;SRF=1;SRP=3.73412;SRR=2;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:443:3,404:3:106:404:13898:-1240.64,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1356 NC_000962 3743656 . G A 3438.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=3.18637;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=791.676;PAIRED=0.981982;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3818;QR=0;RO=0;RPL=43;RPP=15.2371;RPPR=0;RPR=68;RUN=1;SAF=53;SAP=3.49937;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:465:1,464:1:35:464:15902:-1427.25,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1357 NC_000962 3743899 . G A 3175.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=6.5732;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=731.278;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3529;QR=0;RO=0;RPL=46;RPP=5.56125;RPPR=0;RPR=57;RUN=1;SAF=62;SAP=12.3076;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:349:0,349:0:0:349:11868:-1067.94,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1358 NC_000962 3746409 . A G 2518.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=3.23494;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=579.975;PAIRED=0.977011;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2799;QR=0;RO=0;RPL=47;RPP=4.23331;RPPR=0;RPR=40;RUN=1;SAF=40;SAP=4.23331;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:435:0,435:0:0:435:15075:-1356.4,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1359 NC_000962 3750177 . AA TC 1681.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=59;CIGAR=2X;DP=63;DPB=63;DPRA=0;EPP=4.81373;EPPR=5.18177;GTI=0;LEN=2;MEANALT=3;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=387.254;PAIRED=0.983051;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1905;QR=36;RO=1;RPL=27;RPP=3.93042;RPPR=5.18177;RPR=32;RUN=1;SAF=26;SAP=4.81373;SAR=33;SRF=1;SRP=5.18177;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:135:0,135:0:0:135:4669:-456.671,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1360 NC_000962 3750185 . CGAC GGTG 3875.27 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X1M2X;DP=116;DPB=118.75;DPRA=0;EPP=5.29507;EPPR=0;GTI=0;LEN=4;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=892.313;PAIRED=1;PAIREDR=0;PAO=11;PQA=319;PQR=0;PRO=0;QA=3988;QR=0;RO=0;RPL=74;RPP=23.5732;RPPR=0;RPR=41;RUN=1;SAF=41;SAP=23.5732;SAR=74;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:116:0,115:0:0:115:3988:-387.527,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1361 NC_000962 3750193 . G A 1534.58 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=51;CIGAR=1X;DP=52;DPB=52;DPRA=0;EPP=10.206;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=353.349;PAIRED=0.980392;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1742;QR=36;RO=1;RPL=31;RPP=8.16222;RPPR=5.18177;RPR=20;RUN=1;SAF=21;SAP=6.45911;SAR=30;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:158:0,158:0:0:158:5450:-490.584,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1362 NC_000962 3750205 . CGACAT TGACGG 6805.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=207;CIGAR=1X3M2X;DP=207;DPB=210.333;DPRA=0;EPP=6.04197;EPPR=0;GTI=0;LEN=6;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1567.08;PAIRED=1;PAIREDR=0;PAO=20;PQA=541;PQR=0;PRO=0;QA=7021;QR=0;RO=0;RPL=87;RPP=14.4341;RPPR=0;RPR=120;RUN=1;SAF=89;SAP=11.8326;SAR=118;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:207:0,207:0:0:207:7021:-680.576,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1363 NC_000962 3750407 . G C 1433.77 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=48;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=17.6677;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=330.139;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1590;QR=0;RO=0;RPL=28;RPP=5.9056;RPPR=0;RPR=20;RUN=1;SAF=25;SAP=3.19126;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:429:0,427:0:0:427:15043:-1353.09,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1364 NC_000962 3750417 . AAGCT TAGCC 1509.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=47;CIGAR=1X3M1X;DP=49;DPB=50.6;DPRA=0;EPP=5.27418;EPPR=0;GTI=0;LEN=5;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=347.474;PAIRED=1;PAIREDR=0;PAO=6;PQA=192;PQR=0;PRO=2;QA=1483;QR=0;RO=0;RPL=27;RPP=5.27418;RPPR=0;RPR=20;RUN=1;SAF=26;SAP=4.16534;SAR=21;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:380:0,378:0:0:378:12840:-1308.01,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1365 NC_000962 3752207 . A G 1250.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=44;CIGAR=1X;DP=44;DPB=44;DPRA=0;EPP=3.20771;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=287.859;PAIRED=0.977273;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1386;QR=0;RO=0;RPL=18;RPP=6.16881;RPPR=0;RPR=26;RUN=1;SAF=19;SAP=4.78696;SAR=25;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:497:0,497:0:0:497:17569:-1580.61,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1366 NC_000962 3753116 . C T 1338.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=43;CIGAR=1X;DP=43;DPB=43;DPRA=0;EPP=7.10075;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=308.199;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1484;QR=0;RO=0;RPL=5;RPP=58.0041;RPPR=0;RPR=38;RUN=1;SAF=18;SAP=5.48477;SAR=25;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:129:1,128:1:27:128:4231:-378.279,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1367 NC_000962 3753164 . T G 1923.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1X;DP=63;DPB=63;DPRA=0;EPP=8.83536;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=442.839;PAIRED=0.936508;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2134;QR=0;RO=0;RPL=27;RPP=5.80219;RPPR=0;RPR=36;RUN=1;SAF=37;SAP=7.18091;SAR=26;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:366:0,366:0:0:366:12887:-1159.42,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1368 NC_000962 3754508 . G C 3977.99 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=132;CIGAR=1X;DP=132;DPB=132;DPRA=0;EPP=8.34028;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=915.966;PAIRED=0.984848;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4418;QR=0;RO=0;RPL=76;RPP=9.59052;RPPR=0;RPR=56;RUN=1;SAF=35;SAP=66.2462;SAR=97;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:457:0,457:0:0:457:16134:-1451.56,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1369 NC_000962 3758029 . C G 3149.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=3.03138;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=725.185;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3500;QR=0;RO=0;RPL=46;RPP=5.56125;RPPR=0;RPR=57;RUN=1;SAF=54;SAP=3.53736;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:104:0,103:0:0:103:3500:-314.944,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1370 NC_000962 3761016 . GCCCCCCGCGCCCGCGGT GCCCCCGCGCCCGCGGT 9124.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=313;CIGAR=1M1D16M;DP=321;DPB=308.556;DPRA=0;EPP=6.6803;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2100.95;PAIRED=0.913738;PAIREDR=0;PAO=22.5;PQA=678.5;PQR=678.5;PRO=22.5;QA=10142;QR=0;RO=0;RPL=148;RPP=5.01527;RPPR=0;RPR=165;RUN=1;SAF=158;SAP=3.07274;SAR=155;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:321:0,313:0:0:313:10142:-912.431,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1371 NC_000962 3761191 . A G 3126.09 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=3.19295;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=719.808;PAIRED=0.962617;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3474;QR=0;RO=0;RPL=56;RPP=3.51765;RPPR=0;RPR=51;RUN=1;SAF=41;SAP=15.6941;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:396:1,395:1:37:395:13659:-1225.19,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1372 NC_000962 3762013 . A C 2226.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=74;CIGAR=1X;DP=74;DPB=74;DPRA=0;EPP=3.12768;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=512.651;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2471;QR=0;RO=0;RPL=36;RPP=3.12768;RPPR=0;RPR=38;RUN=1;SAF=32;SAP=5.94472;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:527:0,527:0:0:527:18799:-1691.1,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1373 NC_000962 3775409 . T C 4509.68 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=145;CIGAR=1X;DP=145;DPB=145;DPRA=0;EPP=23.512;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1038.39;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5009;QR=0;RO=0;RPL=72;RPP=3.02528;RPPR=0;RPR=73;RUN=1;SAF=75;SAP=3.38469;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:435:0,435:0:0:435:15234:-1370.58,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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1374 NC_000962 3775441 . A C 4539.37 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=148;CIGAR=1X;DP=148;DPB=148;DPRA=0;EPP=5.88603;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1045.23;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5042;QR=0;RO=0;RPL=75;RPP=3.06899;RPPR=0;RPR=73;RUN=1;SAF=82;SAP=6.76636;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:418:0,417:0:0:417:14462:-1301.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1375 NC_000962 3778011 . GG AT 4282.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=142;CIGAR=2X;DP=143;DPB=144;DPRA=0;EPP=4.53951;EPPR=0;GTI=0;LEN=2;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=986.045;PAIRED=0.964789;PAIREDR=0;PAO=2;PQA=64;PQR=0;PRO=0;QA=4696;QR=0;RO=0;RPL=79;RPP=6.92507;RPPR=0;RPR=63;RUN=1;SAF=73;SAP=3.25497;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:384:0,384:0:0:384:13024:-1217.96,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1376 NC_000962 3778396 . C T 4767.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=152;CIGAR=1X;DP=152;DPB=152;DPRA=0;EPP=8.7247;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1097.84;PAIRED=0.993421;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5296;QR=0;RO=0;RPL=70;RPP=5.06748;RPPR=0;RPR=82;RUN=1;SAF=76;SAP=3.0103;SAR=76;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:411:0,411:0:0:411:14527:-1307.05,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1377 NC_000962 3794867 . CCG CCACG 1906.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=67;CIGAR=1M2I2M;DP=72;DPB=116.667;DPRA=0;EPP=8.4876;EPPR=0;GTI=0;LEN=2;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=439.028;PAIRED=0.761194;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2119;QR=0;RO=0;RPL=37;RPP=4.59839;RPPR=0;RPR=30;RUN=1;SAF=25;SAP=12.3768;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:464:0,459:0:0:459:15573:-1400.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1378 NC_000962 3798095 . A C 3066.65 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=5.18177;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=706.122;PAIRED=0.71;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3405;QR=0;RO=0;RPL=55;RPP=5.18177;RPPR=0;RPR=45;RUN=1;SAF=46;SAP=4.40004;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:494:0,494:0:0:494:16944:-1524.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1379 NC_000962 3798596 . A G 1001.94 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=34;CIGAR=1X;DP=34;DPB=34;DPRA=0;EPP=5.30951;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=230.705;PAIRED=0.970588;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1110;QR=0;RO=0;RPL=16;RPP=3.26577;RPPR=0;RPR=18;RUN=1;SAF=16;SAP=3.26577;SAR=18;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:752:0,752:0:0:752:27467:-2470.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1380 NC_000962 3802140 . ACGGCGGGGCCGGCGGCGGC AC 661.989 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=32;CIGAR=1M18D1M;DP=34;DPB=8.05;DPRA=0;EPP=7.35324;EPPR=0;GTI=0;LEN=18;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=139.563;PAIRED=0.90625;PAIREDR=0;PAO=0;PQA=0;PQR=44.5;PRO=4;QA=756;QR=0;RO=0;RPL=11;RPP=9.79615;RPPR=0;RPR=21;RUN=1;SAF=1;SAP=64.083;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:34:0,32:0:0:32:756:-66.1989,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1381 NC_000962 3804299 . G A 3245.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=3.76196;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=747.347;PAIRED=0.980769;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3604;QR=0;RO=0;RPL=59;RPP=7.10269;RPPR=0;RPR=45;RUN=1;SAF=38;SAP=19.3799;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:473:1,472:1:33:472:15964:-1433.14,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1382 NC_000962 3811672 . GTAA TTAG 2624.18 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X2M1X;DP=85;DPB=86.5;DPRA=0;EPP=3.24576;EPPR=0;GTI=0;LEN=4;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=604.241;PAIRED=0.987952;PAIREDR=0;PAO=6;PQA=168;PQR=0;PRO=0;QA=2748;QR=0;RO=0;RPL=43;RPP=3.24576;RPPR=0;RPR=40;RUN=1;SAF=42;SAP=3.03646;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,479:0:0:479:17094:-1751.2,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1383 NC_000962 3815477 . G T 3693.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=3.17453;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=850.512;PAIRED=0.97479;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4102;QR=0;RO=0;RPL=47;RPP=14.4151;RPPR=0;RPR=72;RUN=1;SAF=63;SAP=3.90444;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:527:0,527:0:0:527:18760:-1687.69,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1384 NC_000962 3817117 . C A 3515.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=6.2579;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=809.494;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3904;QR=0;RO=0;RPL=63;RPP=6.2579;RPPR=0;RPR=50;RUN=1;SAF=44;SAP=15.0207;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:437:0,437:0:0:437:14688:-1321.58,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1385 NC_000962 3821845 . G T 3262.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=751.279;PAIRED=0.981132;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3623;QR=0;RO=0;RPL=45;RPP=8.25461;RPPR=0;RPR=61;RUN=1;SAF=40;SAP=16.8586;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:472:0,472:0:0:472:16542:-1488.28,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1386 NC_000962 3823159 . A T 3539.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=7.88659;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=815.087;PAIRED=0.991228;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3931;QR=0;RO=0;RPL=58;RPP=3.08649;RPPR=0;RPR=56;RUN=1;SAF=43;SAP=17.9439;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:520:0,520:0:0:520:17366:-1562.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1387 NC_000962 3826501 . C T 3188.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=104;DPB=104;DPRA=0;EPP=3.34437;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=734.086;PAIRED=0.990385;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3540;QR=0;RO=0;RPL=60;RPP=8.35546;RPPR=0;RPR=44;RUN=1;SAF=54;SAP=3.34437;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:552:0,552:0:0:552:19368:-1742.5,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1388 NC_000962 3826684 . C T 3598.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=3.17734;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=828.553;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3996;QR=0;RO=0;RPL=52;RPP=6.14687;RPPR=0;RPR=65;RUN=1;SAF=72;SAP=16.5402;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:523:0,523:0:0:523:17839:-1605.04,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1389 NC_000962 3829770 . T C 3797.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=125;CIGAR=1X;DP=125;DPB=125;DPRA=0;EPP=6.91895;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=874.339;PAIRED=0.984;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4217;QR=0;RO=0;RPL=70;RPP=6.91895;RPPR=0;RPR=55;RUN=1;SAF=52;SAP=10.6713;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:394:0,394:0:0:394:13939:-1254.05,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1390 NC_000962 3830349 . C T 4107.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=131;CIGAR=1X;DP=131;DPB=131;DPRA=0;EPP=3.82253;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=945.796;PAIRED=0.992366;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4562;QR=0;RO=0;RPL=64;RPP=3.15949;RPPR=0;RPR=67;RUN=1;SAF=78;SAP=13.3704;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:409:0,409:0:0:409:13556:-1219.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1391 NC_000962 3830695 . A G 4518.77 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=151;CIGAR=1X;DP=151;DPB=151;DPRA=0;EPP=9.35215;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1040.49;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5019;QR=0;RO=0;RPL=77;RPP=3.13973;RPPR=0;RPR=74;RUN=1;SAF=80;SAP=4.17513;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:417:0,417:0:0:417:14852:-1336.15,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1392 NC_000962 3834486 . T C 3200.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=105;CIGAR=1X;DP=105;DPB=105;DPRA=0;EPP=10.476;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=736.997;PAIRED=0.990476;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3554;QR=0;RO=0;RPL=54;RPP=3.19643;RPPR=0;RPR=51;RUN=1;SAF=28;SAP=52.6646;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:531:0,531:0:0:531:18817:-1692.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1393 NC_000962 3838871 . A G 4711.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=155;CIGAR=1X;DP=156;DPB=156;DPRA=0;EPP=4.14507;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1084.81;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5237;QR=0;RO=0;RPL=77;RPP=3.02431;RPPR=0;RPR=78;RUN=1;SAF=97;SAP=24.3187;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:421:0,421:0:0:421:14666:-1319.6,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1394 NC_000962 3841790 . A G 2813.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=15.362;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=647.926;PAIRED=0.892473;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3124;QR=0;RO=0;RPL=55;RPP=9.75821;RPPR=0;RPR=38;RUN=1;SAF=31;SAP=25.4488;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:1165:0,1165:0:0:1165:40069:-3604.67,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1395 NC_000962 3842161 . GAAG AAAC 608.986 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=18;CIGAR=1X2M1X;DP=18;DPB=18;DPRA=0;EPP=42.0968;EPPR=0;GTI=0;LEN=4;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=140.224;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=673;QR=0;RO=0;RPL=0;RPP=42.0968;RPPR=0;RPR=18;RUN=1;SAF=18;SAP=42.0968;SAR=0;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:18:0,18:0:0:18:673:-60.8986,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1396 NC_000962 3842173 . G A 1355.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=40;CIGAR=1X;DP=40;DPB=40;DPRA=0;EPP=58.6;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=312.068;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1503;QR=0;RO=0;RPL=4;RPP=58.6;RPPR=0;RPR=36;RUN=1;SAF=40;SAP=89.8692;SAR=0;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:40:0,40:0:0:40:1503:-135.53,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1397 NC_000962 3842186 . T A 2246.37 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=66;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=91.9749;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=517.246;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2494;QR=0;RO=0;RPL=7;RPP=91.9749;RPPR=0;RPR=59;RUN=1;SAF=66;SAP=146.327;SAR=0;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:66:0,66:0:0:66:2494:-224.637,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1398 NC_000962 3842463 . TAAACACT TAACACT 16364.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=582;CIGAR=1M1D6M;DP=629;DPB=559.625;DPRA=0;EPP=7.3234;EPPR=24.2907;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=3768.04;PAIRED=0.905498;PAIREDR=1;PAO=9.5;PQA=309;PQR=309;PRO=9.5;QA=19699;QR=1508;RO=45;RPL=311;RPP=8.97998;RPPR=100.727;RPR=271;RUN=1;SAF=223;SAP=72.0198;SAR=359;SRF=12;SRP=24.2907;SRR=33;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:629:45,582:45:1508:582:19699:-1636.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1399 NC_000962 3842620 . A G 1079.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=36;CIGAR=1X;DP=36;DPB=36;DPRA=0;EPP=3.25157;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=248.521;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1196;QR=0;RO=0;RPL=21;RPP=5.18177;RPPR=0;RPR=15;RUN=1;SAF=18;SAP=3.0103;SAR=18;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:626:1,625:1:34:625:21609:-1940.65,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1400 NC_000962 3842625 . A G 1135.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=38;CIGAR=1X;DP=39;DPB=39;DPRA=0;EPP=3.23888;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=261.381;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=1298;QR=36;RO=1;RPL=23;RPP=6.66752;RPPR=5.18177;RPR=15;RUN=1;SAF=17;SAP=3.9246;SAR=21;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:641:0,641:0:0:641:22660:-2038.49,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1401 NC_000962 3843407 . CGGGGGTA CGGGGTA 1350.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=47;CIGAR=1M1D6M;DP=49;DPB=42.875;DPRA=0;EPP=5.27418;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=311.016;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1501;QR=0;RO=0;RPL=20;RPP=5.27418;RPPR=0;RPR=27;RUN=1;SAF=23;SAP=3.0565;SAR=24;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:356:0,353:0:0:353:12278:-1104.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1402 NC_000962 3844756 . GCCCCCAG GCCCCAG 2398.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=82;CIGAR=1M1D6M;DP=84;DPB=73.5;DPRA=0;EPP=3.96363;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=552.385;PAIRED=0.573171;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2666;QR=0;RO=0;RPL=38;RPP=3.96363;RPPR=0;RPR=44;RUN=1;SAF=48;SAP=8.20065;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:426:0,426:0:0:426:14287:-1285.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1403 NC_000962 3844992 . T A 3924.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=127;DPB=127;DPRA=0;EPP=4.73369;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=903.598;PAIRED=0.690476;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4361;QR=0;RO=0;RPL=73;RPP=9.90386;RPPR=0;RPR=53;RUN=1;SAF=47;SAP=20.6578;SAR=79;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:558:0,558:0:0:558:19890:-1789.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1404 NC_000962 3845695 . C T 2582.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1X;DP=81;DPB=81;DPRA=0;EPP=7.5409;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=594.681;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2867;QR=0;RO=0;RPL=42;RPP=3.25157;RPPR=0;RPR=39;RUN=1;SAF=49;SAP=10.7579;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:556:0,556:0:0:556:19668:-1769.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1405 NC_000962 3846842 . G T 660.016 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=23;CIGAR=1X;DP=23;DPB=23;DPRA=0;EPP=10.6577;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=151.974;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=730;QR=0;RO=0;RPL=23;RPP=52.9542;RPPR=0;RPR=0;RUN=1;SAF=7;SAP=10.6577;SAR=16;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:23:0,23:0:0:23:730:-66.0016,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1406 NC_000962 3847010 . GCAGC CCAGG 1172.93 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=38;CIGAR=1X3M1X;DP=38;DPB=38;DPRA=0;EPP=85.5263;EPPR=0;GTI=0;LEN=5;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=270.078;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1300;QR=0;RO=0;RPL=0;RPP=85.5263;RPPR=0;RPR=38;RUN=1;SAF=0;SAP=85.5263;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:38:0,38:0:0:38:1300:-117.293,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1407 NC_000962 3847022 . T C 1181.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=37;CIGAR=1X;DP=37;DPB=37;DPRA=0;EPP=83.3548;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=272.142;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1310;QR=0;RO=0;RPL=0;RPP=83.3548;RPPR=0;RPR=37;RUN=1;SAF=0;SAP=83.3548;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:37:0,37:0:0:37:1310:-118.19,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1408 NC_000962 3847039 . G A 1338.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=38;CIGAR=1X;DP=38;DPB=38;DPRA=0;EPP=85.5263;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=308.125;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1484;QR=0;RO=0;RPL=38;RPP=85.5263;RPPR=0;RPR=0;RUN=1;SAF=0;SAP=85.5263;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:38:0,38:0:0:38:1484:-133.817,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1409 NC_000962 3847052 . G A 745.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=22;CIGAR=1X;DP=22;DPB=22;DPRA=0;EPP=50.7827;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=171.697;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=825;QR=0;RO=0;RPL=22;RPP=50.7827;RPPR=0;RPR=0;RUN=1;SAF=0;SAP=50.7827;SAR=22;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:22:0,22:0:0:22:825:-74.567,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1410 NC_000962 3847215 . T C 440.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=15;CIGAR=1X;DP=15;DPB=15;DPRA=0;EPP=4.31318;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=101.427;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=486;QR=0;RO=0;RPL=1;RPP=27.4756;RPPR=0;RPR=14;RUN=1;SAF=5;SAP=6.62942;SAR=10;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:170:0,170:0:0:170:5874:-528.737,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1411 NC_000962 3847221 . T C 6292.93 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=200;CIGAR=1X;DP=200;DPB=200;DPRA=0;EPP=34.6704;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1449;PAIRED=0.99;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6993;QR=0;RO=0;RPL=0;RPP=437.305;RPPR=0;RPR=200;RUN=1;SAF=127;SAP=34.6704;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:200:0,200:0:0:200:6993:-629.293,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1412 NC_000962 3847235 . CTGC TTTT 8230.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=252;CIGAR=1X1M2X;DP=253;DPB=254.25;DPRA=0;EPP=24.5527;EPPR=0;GTI=0;LEN=4;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1895.14;PAIRED=0.984127;PAIREDR=0;PAO=5;PQA=103;PQR=0;PRO=0;QA=9047;QR=0;RO=0;RPL=18;RPP=405.043;RPPR=0;RPR=234;RUN=1;SAF=161;SAP=45.2334;SAR=91;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:253:0,252:0:0:252:9047:-823.05,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1413 NC_000962 3851887 . AT CC 2141.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=2X;DP=71;DPB=71;DPRA=0;EPP=37.2818;EPPR=0;GTI=0;LEN=2;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=492.994;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2379;QR=0;RO=0;RPL=34;RPP=3.04177;RPPR=0;RPR=35;RUN=1;SAF=39;SAP=5.55942;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:193:0,192:0:0:192:6422:-581.218,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1414 NC_000962 3859893 . C T 4376.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=140;CIGAR=1X;DP=140;DPB=140;DPRA=0;EPP=11.9444;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1007.72;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4861;QR=0;RO=0;RPL=78;RPP=6.98099;RPPR=0;RPR=62;RUN=1;SAF=74;SAP=4.00297;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,480:0:0:480:16339:-1470.11,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1415 NC_000962 3862472 . GAACC GACC 2782.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1M1D3M;DP=97;DPB=77.6;DPRA=0;EPP=3.37221;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=640.676;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3092;QR=0;RO=0;RPL=51;RPP=3.8246;RPPR=0;RPR=45;RUN=1;SAF=53;SAP=5.27225;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:297:0,294:0:0:294:9430:-848.393,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1416 NC_000962 3863138 . G A 3203.78 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=3.0103;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=737.699;PAIRED=0.990566;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3593;QR=32;RO=1;RPL=42;RPP=12.9253;RPPR=5.18177;RPR=64;RUN=1;SAF=51;SAP=3.33807;SAR=55;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:494:0,494:0:0:494:16884:-1519.11,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1417 NC_000962 3863681 . C G 4162.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=135;CIGAR=1X;DP=135;DPB=135;DPRA=0;EPP=4.31318;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=958.443;PAIRED=0.992593;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4623;QR=0;RO=0;RPL=65;RPP=3.41242;RPPR=0;RPR=70;RUN=1;SAF=89;SAP=32.7514;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:420:0,420:0:0:420:14205:-1278.16,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1418 NC_000962 3864995 . T C 3333.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=5.75321;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=767.58;PAIRED=0.991228;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3704;QR=0;RO=0;RPL=61;RPP=4.22937;RPPR=0;RPR=53;RUN=1;SAF=58;SAP=3.08649;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:448:0,448:0:0:448:15563:-1400.23,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1419 NC_000962 3868586 . G C 5305.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=177;CIGAR=1X;DP=180;DPB=180;DPRA=0;EPP=9.50018;EPPR=9.52472;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1221.55;PAIRED=0.988701;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=6001;QR=104;RO=3;RPL=91;RPP=3.31701;RPPR=3.73412;RPR=86;RUN=1;SAF=89;SAP=3.02257;SAR=88;SRF=1;SRP=3.73412;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:554:0,552:0:0:552:19211:-1727.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1420 NC_000962 3870010 . A G 3762.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X;DP=122;DPB=122;DPRA=0;EPP=3.29508;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=866.268;PAIRED=0.983607;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4178;QR=0;RO=0;RPL=61;RPP=3.0103;RPPR=0;RPR=61;RUN=1;SAF=64;SAP=3.65106;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:430:1,429:1:24:429:14524:-1304.47,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1421 NC_000962 3871246 . T C 5805.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=190;CIGAR=1X;DP=190;DPB=190;DPRA=0;EPP=3.19316;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1336.7;PAIRED=0.994737;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6449;QR=0;RO=0;RPL=81;RPP=11.9705;RPPR=0;RPR=109;RUN=1;SAF=80;SAP=13.2962;SAR=110;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:275:0,275:0:0:275:9256:-832.929,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1422 NC_000962 3873497 . GCCGCA GCCCCGCA 1964.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=67;CIGAR=1M2I5M;DP=70;DPB=93;DPRA=0;EPP=3.30199;EPPR=0;GTI=0;LEN=2;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=452.3;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2183;QR=0;RO=0;RPL=32;RPP=3.30199;RPPR=0;RPR=35;RUN=1;SAF=38;SAP=5.63551;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:339:0,338:0:0:338:10331:-929.462,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1423 NC_000962 3874206 . G A 3467.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=3.49071;EPPR=3.0103;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=798.512;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3927;QR=72;RO=2;RPL=59;RPP=3.49071;RPPR=3.0103;RPR=54;RUN=1;SAF=41;SAP=21.4774;SAR=72;SRF=0;SRP=7.35324;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:432:0,432:0:0:432:14819:-1333.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1424 NC_000962 3874722 . ATTTAC ATTAC 2092.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=70;CIGAR=1M1D4M;DP=71;DPB=59.1667;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=481.912;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2325;QR=0;RO=0;RPL=42;RPP=9.09042;RPPR=0;RPR=28;RUN=1;SAF=31;SAP=4.99565;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:371:0,370:0:0:370:12151:-1093.16,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1425 NC_000962 3877421 . A G 3232.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=108;CIGAR=1X;DP=108;DPB=108;DPRA=0;EPP=6.95112;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=744.246;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3589;QR=0;RO=0;RPL=63;RPP=9.52472;RPPR=0;RPR=45;RUN=1;SAF=50;SAP=4.2971;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:573:0,573:0:0:573:20081:-1806.58,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1426 NC_000962 3883178 . A C 3740.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=5.53201;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=861.284;PAIRED=0.983871;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4154;QR=0;RO=0;RPL=67;RPP=4.76149;RPPR=0;RPR=57;RUN=1;SAF=71;SAP=8.68415;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:640:0,640:0:0:640:22845:-2054.98,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1427 NC_000962 3884906 . A G 9282.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=304;CIGAR=1X;DP=304;DPB=304;DPRA=0;EPP=18.1249;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2137.29;PAIRED=0.898026;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=10315;QR=0;RO=0;RPL=86;RPP=127.47;RPPR=0;RPR=218;RUN=1;SAF=187;SAP=38.011;SAR=117;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:304:0,304:0:0:304:10315:-928.212,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1428 NC_000962 3884906 . AA GA 2295.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=74;CIGAR=1X1M;DP=78;DPB=78;DPRA=0;EPP=26.0162;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=507.722;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2551;QR=0;RO=0;RPL=19;RPP=41.0404;RPPR=0;RPR=55;RUN=1;SAF=54;SAP=36.9322;SAR=20;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:78:0,74:0:0:74:2551:-229.585,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1429 NC_000962 3885886 . T C 3810.68 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=124;DPB=124;DPRA=0;EPP=6.44263;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=877.441;PAIRED=0.991935;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4232;QR=0;RO=0;RPL=53;RPP=8.68415;RPPR=0;RPR=71;RUN=1;SAF=64;SAP=3.29049;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:522:1,521:1:35:521:17783:-1596.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1430 NC_000962 3886068 . A C 3155.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=4.34659;EPPR=7.35324;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=726.635;PAIRED=0.990385;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3580;QR=72;RO=2;RPL=49;RPP=3.76196;RPPR=3.0103;RPR=55;RUN=1;SAF=47;SAP=5.09825;SAR=57;SRF=1;SRP=3.0103;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:106:2,104:2:72:104:3580:-315.574,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1431 NC_000962 3892133 . A G 591.712 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=20;CIGAR=1X;DP=20;DPB=20;DPRA=0;EPP=38.1882;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=136.247;PAIRED=0.95;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=654;QR=0;RO=0;RPL=0;RPP=46.4397;RPPR=0;RPR=20;RUN=1;SAF=19;SAP=38.1882;SAR=1;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:20:0,20:0:0:20:654:-59.1712,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1432 NC_000962 3892671 . A G 1574.37 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=55;CIGAR=1X;DP=57;DPB=57;DPRA=0;EPP=3.36563;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=362.512;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1749;QR=0;RO=0;RPL=22;RPP=7.78754;RPPR=0;RPR=33;RUN=1;SAF=28;SAP=3.04978;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:702:1,700:1:25:700:24923:-2239.37,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1433 NC_000962 3893480 . G A 2962.27 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=3.58174;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=682.087;PAIRED=0.989474;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3289;QR=0;RO=0;RPL=50;RPP=3.58174;RPPR=0;RPR=45;RUN=1;SAF=53;SAP=5.77607;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:495:0,495:0:0:495:16911:-1521.6,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1434 NC_000962 3894732 . A G 3062.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=5.61177;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=705.129;PAIRED=0.990099;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3403;QR=0;RO=0;RPL=53;RPP=3.54779;RPPR=0;RPR=48;RUN=1;SAF=63;SAP=16.4476;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:160:0,160:0:0:160:5446:-490.251,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1435 NC_000962 3895585 . C T 4139.01 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=132;CIGAR=1X;DP=132;DPB=132;DPRA=0;EPP=4.06314;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=953.043;PAIRED=0.992424;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4597;QR=0;RO=0;RPL=69;RPP=3.60252;RPPR=0;RPR=63;RUN=1;SAF=59;SAP=6.23461;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:457:0,457:0:0:457:15603:-1403.97,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1436 NC_000962 3895727 . C A 3269.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=3.51765;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=752.739;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3630;QR=0;RO=0;RPL=51;RPP=3.51765;RPPR=0;RPR=56;RUN=1;SAF=39;SAP=20.0777;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:456:0,456:0:0:456:16085:-1447.13,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1437 NC_000962 3896340 . T G 3091.88 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=11.5259;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=711.932;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3433;QR=0;RO=0;RPL=49;RPP=3.35092;RPPR=0;RPR=53;RUN=1;SAF=62;SAP=13.3141;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:534:0,534:0:0:534:18855:-1696.23,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1438 NC_000962 3898408 . A G 3354.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=3.32051;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=772.332;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3727;QR=0;RO=0;RPL=62;RPP=5.80219;RPPR=0;RPR=50;RUN=1;SAF=66;SAP=10.7656;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:588:0,588:0:0:588:19849:-1785.87,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1439 NC_000962 3902318 . ATTGG ATTTGG 2453.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1M1I4M;DP=90;DPB=107.2;DPRA=0;EPP=14.5479;EPPR=0;GTI=0;LEN=1;MEANALT=4;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=565.032;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2727;QR=0;RO=0;RPL=38;RPP=4.29225;RPPR=0;RPR=45;RUN=1;SAF=54;SAP=19.3617;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:436:0,413:0:0:413:14061:-1264.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1440 NC_000962 3906311 . G A 3672.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=120;CIGAR=1X;DP=120;DPB=120;DPRA=0;EPP=4.81986;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=845.545;PAIRED=0.983333;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4078;QR=0;RO=0;RPL=71;RPP=11.7686;RPPR=0;RPR=49;RUN=1;SAF=66;SAP=5.61607;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:537:1,536:1:35:536:18809:-1688.68,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1441 NC_000962 3908465 . A G 3259.19 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=5.46589;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=750.457;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3619;QR=0;RO=0;RPL=56;RPP=3.51765;RPPR=0;RPR=51;RUN=1;SAF=57;SAP=4.00471;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:455:0,455:0:0:455:15513:-1395.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1442 NC_000962 3909235 . G C 3587.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=115;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=3.18024;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=826.067;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3984;QR=0;RO=0;RPL=51;RPP=6.20142;RPPR=0;RPR=64;RUN=1;SAF=40;SAP=26.1412;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:436:1,435:1:20:435:14465:-1299.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1443 NC_000962 3916386 . G T 3213.35 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=105;CIGAR=1X;DP=105;DPB=105;DPRA=0;EPP=8.98702;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=739.902;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3568;QR=0;RO=0;RPL=51;RPP=3.19643;RPPR=0;RPR=54;RUN=1;SAF=61;SAP=8.98702;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:412:0,412:0:0:412:14573:-1311.16,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1444 NC_000962 3927595 . G A 1771.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1X;DP=63;DPB=63;DPRA=0;EPP=8.83536;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=407.98;PAIRED=0.857143;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1966;QR=0;RO=0;RPL=0;RPP=139.813;RPPR=0;RPR=63;RUN=1;SAF=25;SAP=8.83536;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:63:0,63:0:0:63:1966:-177.183,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1445 NC_000962 3927605 . TG AA 2456.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=79;CIGAR=2X;DP=80;DPB=81.5;DPRA=0;EPP=15.1321;EPPR=0;GTI=0;LEN=2;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=565.543;PAIRED=0.848101;PAIREDR=0;PAO=3;PQA=100;PQR=0;PRO=0;QA=2629;QR=0;RO=0;RPL=0;RPP=174.557;RPPR=0;RPR=79;RUN=1;SAF=29;SAP=15.1321;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=mnp GT:DP:AD:RO:QR:AO:QA:GL 1:80:0,79:0:0:79:2629:-245.612,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1446 NC_000962 3928281 . TAACGGCGGCAACGGCGGCAACGGCGGCAACGGCGGCAACGGCGGCAACGGCGGCAACGGCGGCA TAACGGCGGCAACGGCGGCAACGGCGGCAACGGCGGCAACGGCGGCA 227.006 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=12;CIGAR=1M18D46M;DP=12;DPB=8.90769;DPRA=0;EPP=5.9056;EPPR=0;GTI=0;LEN=18;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=52.27;PAIRED=0.833333;PAIREDR=0;PAO=6;PQA=116;PQR=161;PRO=8;QA=297;QR=0;RO=0;RPL=4;RPP=5.9056;RPPR=0;RPR=8;RUN=1;SAF=0;SAP=29.068;SAR=12;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:12:0,12:0:0:12:297:-22.7006,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1447 NC_000962 3934542 . T G 1043.35 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=35;CIGAR=1X;DP=35;DPB=35;DPRA=0;EPP=41.7866;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=240.239;PAIRED=0.971429;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1156;QR=0;RO=0;RPL=0;RPP=79.0118;RPPR=0;RPR=35;RUN=1;SAF=5;SAP=41.7866;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:35:0,35:0:0:35:1156:-104.335,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1448 NC_000962 3934733 . GG CA 739.621 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=28;CIGAR=2X;DP=28;DPB=29.5;DPRA=0;EPP=55.4358;EPPR=0;GTI=0;LEN=2;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=170.304;PAIRED=0.678571;PAIREDR=0;PAO=3;PQA=49;PQR=0;PRO=0;QA=770;QR=0;RO=0;RPL=0;RPP=63.8115;RPPR=0;RPR=28;RUN=1;SAF=1;SAP=55.4358;SAR=27;SRF=0;SRP=0;SRR=0;TYPE=complex GT:DP:AD:RO:QR:AO:QA:GL 1:28:0,28:0:0:28:770:-73.9621,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1449 NC_000962 3940802 . A G 5816.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=202;CIGAR=1X;DP=202;DPB=202;DPRA=0;EPP=4.55828;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1339.32;PAIRED=0.866337;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6462;QR=0;RO=0;RPL=97;RPP=3.69829;RPPR=0;RPR=105;RUN=1;SAF=104;SAP=3.3973;SAR=98;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:202:0,202:0:0:202:6462:-581.659,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1450 NC_000962 3941276 . ACCGGCGGGGC AC 578.097 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=20;CIGAR=1M9D1M;DP=20;DPB=3.63636;DPRA=0;EPP=30.8051;EPPR=0;GTI=0;LEN=9;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=133.112;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=639;QR=0;RO=0;RPL=18;RPP=30.8051;RPPR=0;RPR=2;RUN=1;SAF=0;SAP=46.4397;SAR=20;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:21:0,21:0:0:21:725:-65.1788,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1451 NC_000962 3942481 . C G 2063.57 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=67;CIGAR=1X;DP=67;DPB=67;DPRA=0;EPP=3.04271;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=475.154;PAIRED=0.985075;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2290;QR=0;RO=0;RPL=39;RPP=6.93191;RPPR=0;RPR=28;RUN=1;SAF=38;SAP=5.63551;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:67:0,67:0:0:67:2290:-206.357,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1452 NC_000962 3942481 . CGGC GGGC 5093.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=164;CIGAR=1X3M;DP=182;DPB=183.25;DPRA=0;EPP=10.6369;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1081.58;PAIRED=0.859756;PAIREDR=0;PAO=2;PQA=17.5;PQR=0;PRO=0;QA=5679;QR=0;RO=0;RPL=77;RPP=4.33437;RPPR=0;RPR=87;RUN=1;SAF=41;SAP=92.0407;SAR=123;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:182:0,164:0:0:164:5679:-509.386,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1453 NC_000962 3942640 . T C 1240.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=40;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=58.6;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=285.702;PAIRED=0.95;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1378;QR=0;RO=0;RPL=37;RPP=65.7659;RPPR=0;RPR=3;RUN=1;SAF=3;SAP=65.7659;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:330:0,330:0:0:330:11346:-1020.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1454 NC_000962 3943019 . C G 7046.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=235;CIGAR=1X;DP=236;DPB=236;DPRA=0;EPP=7.89842;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1622.53;PAIRED=0.625532;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=7833;QR=0;RO=0;RPL=101;RPP=13.073;RPPR=0;RPR=134;RUN=1;SAF=114;SAP=3.46308;SAR=121;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:236:0,235:0:0:235:7833:-704.655,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1455 NC_000962 3944465 . CGGGGGCGCCGGCGGCA CGGGGCGCCGGCGGCA 3295.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1M1D15M;DP=124;DPB=120.176;DPRA=0;EPP=18.771;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=758.892;PAIRED=0.887097;PAIREDR=0;PAO=8;PQA=204;PQR=212;PRO=12;QA=3668;QR=0;RO=0;RPL=67;RPP=4.76149;RPPR=0;RPR=57;RUN=1;SAF=50;SAP=13.0971;SAR=74;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:124:0,124:0:0:124:3668:-329.583,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1456 NC_000962 3952308 . C A 2837.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=90;CIGAR=1X;DP=90;DPB=90;DPRA=0;EPP=3.39634;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=653.3;PAIRED=0.988889;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3150;QR=0;RO=0;RPL=49;RPP=4.55446;RPPR=0;RPR=41;RUN=1;SAF=46;SAP=3.10681;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:443:0,443:0:0:443:15101:-1358.76,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1457 NC_000962 3952800 . G A 2773.37 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=88;DPB=88;DPRA=0;EPP=7.84676;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=638.593;PAIRED=0.965909;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3079;QR=0;RO=0;RPL=41;RPP=3.89863;RPPR=0;RPR=47;RUN=1;SAF=44;SAP=3.0103;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:486:0,486:0:0:486:16192:-1456.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1458 NC_000962 3958403 . A G 3974.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=130;CIGAR=1X;DP=130;DPB=130;DPRA=0;EPP=4.07933;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=915.141;PAIRED=0.976923;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4414;QR=0;RO=0;RPL=62;RPP=3.61163;RPPR=0;RPR=68;RUN=1;SAF=69;SAP=4.07933;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:565:0,565:0:0:565:19848:-1785.64,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1459 NC_000962 3959418 . C T 3425.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=3.18637;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=788.774;PAIRED=0.990991;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3804;QR=0;RO=0;RPL=52;RPP=3.96888;RPPR=0;RPR=59;RUN=1;SAF=56;SAP=3.02986;SAR=55;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:387:0,387:0:0:387:13556:-1219.69,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1460 NC_000962 3959730 . T C 2959.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=681.473;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3286;QR=0;RO=0;RPL=46;RPP=3.37221;RPPR=0;RPR=50;RUN=1;SAF=50;SAP=3.37221;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:363:0,363:0:0:363:12893:-1159.98,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1461 NC_000962 3962187 . G A 2932.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=8.26386;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=675.258;PAIRED=0.989247;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3256;QR=0;RO=0;RPL=40;RPP=6.95631;RPPR=0;RPR=53;RUN=1;SAF=39;SAP=8.26386;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:473:0,473:0:0:473:16291:-1465.82,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1462 NC_000962 3964518 . G A 1295.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=41;CIGAR=1X;DP=41;DPB=41;DPRA=0;EPP=11.961;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=298.261;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1436;QR=0;RO=0;RPL=26;RPP=9.41879;RPPR=0;RPR=15;RUN=1;SAF=11;SAP=22.1298;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:845:0,845:0:0:845:30399:-2734.51,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1463 NC_000962 3968006 . A C 2858.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=658.27;PAIRED=0.98913;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3174;QR=0;RO=0;RPL=54;RPP=9.05266;RPPR=0;RPR=38;RUN=1;SAF=24;SAP=48.7056;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,480:0:0:480:16740:-1506.09,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1464 NC_000962 3969423 . GGCCGCCGCCGCCGCCT GGCCGCCGCCGCCT 8774.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=315;CIGAR=1M3D13M;DP=317;DPB=261.118;DPRA=0;EPP=19.5617;EPPR=0;GTI=0;LEN=3;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=2020.37;PAIRED=0.926984;PAIREDR=0;PAO=2;PQA=4;PQR=4;PRO=2;QA=9752;QR=0;RO=0;RPL=146;RPP=6.65699;RPPR=0;RPR=169;RUN=1;SAF=156;SAP=3.07234;SAR=159;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:317:0,315:0:0:315:9752:-877.433,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1465 NC_000962 3970594 . C G 2703.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=3.22506;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=622.439;PAIRED=0.989011;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3001;QR=0;RO=0;RPL=43;RPP=3.60686;RPPR=0;RPR=48;RUN=1;SAF=42;SAP=4.17955;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:501:0,501:0:0:501:17613:-1584.52,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1466 NC_000962 3976595 . G T 2649.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=3.89863;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=610.165;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2944;QR=0;RO=0;RPL=50;RPP=6.56362;RPPR=0;RPR=38;RUN=1;SAF=51;SAP=7.84676;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:497:0,497:0:0:497:17507:-1575.02,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1467 NC_000962 3979990 . C G 2879.53 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=18.6264;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=663.037;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3197;QR=0;RO=0;RPL=51;RPP=4.48875;RPPR=0;RPR=43;RUN=1;SAF=47;SAP=3.0103;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:405:0,405:0:0:405:13612:-1224.85,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1468 NC_000962 3981983 . G A 4149.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=135;CIGAR=1X;DP=135;DPB=135;DPRA=0;EPP=4.95658;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=955.531;PAIRED=0.977778;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4609;QR=0;RO=0;RPL=61;RPP=5.72866;RPPR=0;RPR=74;RUN=1;SAF=70;SAP=3.41242;SAR=65;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:538:0,538:0:0:538:19048:-1713.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1469 NC_000962 3983561 . T C 4228.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=142;CIGAR=1X;DP=142;DPB=142;DPRA=0;EPP=5.21236;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=973.572;PAIRED=0.978873;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4696;QR=0;RO=0;RPL=70;RPP=3.07147;RPPR=0;RPR=72;RUN=1;SAF=81;SAP=9.12712;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:142:0,142:0:0:142:4696:-422.817,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1470 NC_000962 3984321 . G A 2648.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=6.03039;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=609.801;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2940;QR=0;RO=0;RPL=44;RPP=3.03526;RPPR=0;RPR=43;RUN=1;SAF=25;SAP=37.1798;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:522:0,522:0:0:522:18359:-1651.73,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1471 NC_000962 3987370 . CGGCGCA CGCGCA 2688.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1M1D5M;DP=93;DPB=79.8571;DPRA=0;EPP=4.94315;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=618.946;PAIRED=0.989011;PAIREDR=0;PAO=0.5;PQA=7;PQR=7;PRO=0.5;QA=2987;QR=0;RO=0;RPL=38;RPP=8.37933;RPPR=0;RPR=53;RUN=1;SAF=48;SAP=3.60686;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:479:0,478:0:0:478:16453:-1491.73,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1472 NC_000962 3993058 . G A 3030.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=98;DPB=98;DPRA=0;EPP=11.8735;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=697.837;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3365;QR=0;RO=0;RPL=45;RPP=4.4284;RPPR=0;RPR=53;RUN=1;SAF=48;SAP=3.09893;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:446:0,446:0:0:446:15519:-1396.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1473 NC_000962 3994271 . C A 3358.84 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=109;CIGAR=1X;DP=110;DPB=110;DPRA=0;EPP=3.03022;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=773.401;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3732;QR=0;RO=0;RPL=54;RPP=3.03022;RPPR=0;RPR=55;RUN=1;SAF=50;SAP=4.62396;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:110:0,109:0:0:109:3732:-335.884,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1474 NC_000962 4001622 . T C 4438.66 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=145;CIGAR=1X;DP=145;DPB=145;DPRA=0;EPP=4.22333;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1022.04;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4930;QR=0;RO=0;RPL=61;RPP=10.9324;RPPR=0;RPR=84;RUN=1;SAF=84;SAP=10.9324;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:498:1,497:1:41:497:18239:-1636.51,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1475 NC_000962 4005114 . G C 4908.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=161;CIGAR=1X;DP=162;DPB=162;DPRA=0;EPP=3.67118;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1130.18;PAIRED=0.993789;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5455;QR=0;RO=0;RPL=84;RPP=3.67118;RPPR=0;RPR=77;RUN=1;SAF=81;SAP=3.02379;SAR=80;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:408:0,407:0:0:407:14138:-1271.67,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1476 NC_000962 4005607 . T C 6005.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=192;CIGAR=1X;DP=194;DPB=194;DPRA=0;EPP=11.8771;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1382.76;PAIRED=0.958333;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6674;QR=0;RO=0;RPL=83;RPP=10.6557;RPPR=0;RPR=109;RUN=1;SAF=83;SAP=10.6557;SAR=109;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:466:0,466:0:0:466:16385:-1474.21,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1477 NC_000962 4008747 . A G 2220.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=72;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=8.92153;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=511.2;PAIRED=0.972222;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2464;QR=0;RO=0;RPL=27;RPP=12.7819;RPPR=0;RPR=45;RUN=1;SAF=42;SAP=7.35324;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:516:0,516:0:0:516:18099:-1628.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1478 NC_000962 4022388 . G A 5016.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=160;CIGAR=1X;DP=160;DPB=160;DPRA=0;EPP=6.48466;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1155;PAIRED=0.9875;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5572;QR=0;RO=0;RPL=100;RPP=24.725;RPPR=0;RPR=60;RUN=1;SAF=82;SAP=3.22745;SAR=78;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:461:0,461:0:0:461:16376:-1473.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1479 NC_000962 4024273 . T C 3930.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=130;CIGAR=1X;DP=131;DPB=131;DPRA=0;EPP=4.68066;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=905.122;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4368;QR=0;RO=0;RPL=81;RPP=20.1148;RPPR=0;RPR=49;RUN=1;SAF=57;SAP=7.28643;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:368:0,368:0:0:368:12198:-1097.64,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1480 NC_000962 4026899 . G A 4657.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=148;CIGAR=1X;DP=148;DPB=148;DPRA=0;EPP=3.24505;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1072.35;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5173;QR=0;RO=0;RPL=75;RPP=3.06899;RPPR=0;RPR=73;RUN=1;SAF=75;SAP=3.06899;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,480:0:0:480:16735:-1505.6,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1481 NC_000962 4028752 . A G 2234.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=75;CIGAR=1X;DP=75;DPB=75;DPRA=0;EPP=3.03925;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=514.504;PAIRED=0.986667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2480;QR=0;RO=0;RPL=31;RPP=7.90335;RPPR=0;RPR=44;RUN=1;SAF=42;SAP=5.35549;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:491:0,491:0:0:491:16871:-1517.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1482 NC_000962 4032218 . G A 2203.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=72;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=4.9405;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=507.264;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2445;QR=0;RO=0;RPL=43;RPP=8.92153;RPPR=0;RPR=29;RUN=1;SAF=9;SAP=90.9549;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:302:0,302:0:0:302:9915:-892.265,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1483 NC_000962 4032625 . G T 2376.33 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=78;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=16.4846;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=547.171;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2640;QR=0;RO=0;RPL=24;RPP=28.0658;RPPR=0;RPR=54;RUN=1;SAF=74;SAP=139.423;SAR=4;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:181:0,180:0:0:180:5902:-531.088,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1484 NC_000962 4033577 . A G 4623.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=151;CIGAR=1X;DP=151;DPB=151;DPRA=0;EPP=20.6265;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1064.71;PAIRED=0.993377;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5136;QR=0;RO=0;RPL=76;RPP=3.02468;RPPR=0;RPR=75;RUN=1;SAF=83;SAP=6.24594;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:409:0,409:0:0:409:14103:-1269.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1485 NC_000962 4034827 . C T 3964.27 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=129;DPB=129;DPRA=0;EPP=14.4784;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=912.807;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4405;QR=0;RO=0;RPL=61;RPP=3.62103;RPPR=0;RPR=67;RUN=1;SAF=50;SAP=16.3106;SAR=78;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:412:0,412:0:0:412:13273:-1194.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1486 NC_000962 4037283 . T G 1811.71 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=58;CIGAR=1X;DP=58;DPB=58;DPRA=0;EPP=3.60933;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=417.161;PAIRED=0.982759;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2010;QR=0;RO=0;RPL=29;RPP=3.0103;RPPR=0;RPR=29;RUN=1;SAF=26;SAP=4.35811;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:287:0,286:0:0:286:9857:-886.652,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1487 NC_000962 4041581 . C T 1548.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=50;CIGAR=1X;DP=50;DPB=50;DPRA=0;EPP=3.70517;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=356.458;PAIRED=0.94;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1717;QR=0;RO=0;RPL=29;RPP=5.78978;RPPR=0;RPR=21;RUN=1;SAF=22;SAP=4.57376;SAR=28;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:546:0,546:0:0:546:18840:-1695.03,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1488 NC_000962 4050811 . G A 3683.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=121;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=8.19671;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=848.227;PAIRED=0.983471;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4091;QR=0;RO=0;RPL=55;RPP=5.18177;RPPR=0;RPR=66;RUN=1;SAF=58;SAP=3.45895;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:448:0,448:0:0:448:15796:-1421.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1489 NC_000962 4053050 . A G 604.328 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=20;CIGAR=1X;DP=20;DPB=20;DPRA=0;EPP=46.4397;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=139.152;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=668;QR=0;RO=0;RPL=20;RPP=46.4397;RPPR=0;RPR=0;RUN=1;SAF=0;SAP=46.4397;SAR=20;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:20:0,20:0:0:20:668:-60.4328,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1490 NC_000962 4055801 . G A 3500.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=5.3774;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=805.969;PAIRED=0.972973;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3887;QR=0;RO=0;RPL=57;RPP=3.18637;RPPR=0;RPR=54;RUN=1;SAF=41;SAP=19.4626;SAR=70;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:523:0,523:0:0:523:18285:-1645,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1491 NC_000962 4056416 . C A 1576.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=52;CIGAR=1X;DP=52;DPB=52;DPRA=0;EPP=3.17734;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=363.08;PAIRED=0.980769;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1749;QR=0;RO=0;RPL=33;RPP=11.1951;RPPR=0;RPR=19;RUN=1;SAF=34;SAP=13.7006;SAR=18;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:689:0,689:0:0:689:24200:-2177.1,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1492 NC_000962 4056693 . G T 1981.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1X;DP=63;DPB=63;DPRA=0;EPP=5.80219;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=456.312;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2199;QR=0;RO=0;RPL=31;RPP=3.04477;RPPR=0;RPR=32;RUN=1;SAF=32;SAP=3.04477;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:639:0,639:0:0:639:22836:-2054.31,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1493 NC_000962 4059143 . A C 3044.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=5.13919;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=700.942;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3380;QR=0;RO=0;RPL=58;RPP=7.18293;RPPR=0;RPR=44;RUN=1;SAF=42;SAP=9.90792;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:515:0,515:0:0:515:17713:-1593.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1494 NC_000962 4059904 . A G 3050.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=102;CIGAR=1X;DP=102;DPB=102;DPRA=0;EPP=5.13919;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=702.407;PAIRED=0.990196;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3387;QR=0;RO=0;RPL=47;RPP=4.37279;RPPR=0;RPR=55;RUN=1;SAF=55;SAP=4.37279;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:515:0,515:0:0:515:17846:-1605.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1495 NC_000962 4060100 . G A 384.964 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=12;CIGAR=1X;DP=12;DPB=12;DPRA=0;EPP=3.73412;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=88.6413;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=424;QR=0;RO=0;RPL=12;RPP=29.068;RPPR=0;RPR=0;RUN=1;SAF=5;SAP=3.73412;SAR=7;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:12:0,12:0:0:12:424:-38.4964,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1496 NC_000962 4060588 . T C 3124.23 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=5.56125;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=719.381;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3469;QR=0;RO=0;RPL=42;RPP=10.621;RPPR=0;RPR=61;RUN=1;SAF=61;SAP=10.621;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:343:0,343:0:0:343:12116:-1090.12,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1497 NC_000962 4069292 . G A 3624.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=116;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=834.666;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4028;QR=0;RO=0;RPL=57;RPP=3.08518;RPPR=0;RPR=59;RUN=1;SAF=71;SAP=15.6647;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:497:0,497:0:0:497:16195:-1457.27,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1498 NC_000962 4070059 . C T 3978.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=4.73369;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=916.164;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4419;QR=0;RO=0;RPL=70;RPP=6.38815;RPPR=0;RPR=56;RUN=1;SAF=62;SAP=3.07924;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:126:0,126:0:0:126:4419:-397.885,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1499 NC_000962 4075422 . T C 2531.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=88;CIGAR=1X;DP=93;DPB=93;DPRA=0;EPP=4.58955;EPPR=3.0103;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=582.943;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2958;QR=144;RO=4;RPL=47;RPP=3.89863;RPPR=11.6962;RPR=41;RUN=1;SAF=37;SAP=7.84676;SAR=51;SRF=2;SRP=3.0103;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:356:0,356:0:0:356:12089:-1087.81,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1500 NC_000962 4080525 . C T 2336.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=77;CIGAR=1X;DP=79;DPB=79;DPRA=0;EPP=3.26411;EPPR=7.35324;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=538.021;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2660;QR=63;RO=2;RPL=40;RPP=3.26411;RPPR=7.35324;RPR=37;RUN=1;SAF=34;SAP=5.29458;SAR=43;SRF=0;SRP=7.35324;SRR=2;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:552:0,552:0:0:552:19717:-1773.7,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1501 NC_000962 4089058 . T C 4112.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=134;CIGAR=1X;DP=134;DPB=134;DPRA=0;EPP=7.15878;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=946.831;PAIRED=0.985075;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4567;QR=0;RO=0;RPL=68;RPP=3.07512;RPPR=0;RPR=66;RUN=1;SAF=75;SAP=7.15878;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:551:0,551:0:0:551:19603:-1763.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1502 NC_000962 4095001 . CGA CA 2693.93 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1M1D1M;DP=93;DPB=62;DPRA=0;EPP=14.4341;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=620.3;PAIRED=0.98913;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2993;QR=0;RO=0;RPL=56;RPP=12.4515;RPPR=0;RPR=36;RUN=1;SAF=41;SAP=5.3706;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:416:0,415:0:0:415:12829:-1154.31,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1503 NC_000962 4095295 . T C 3602.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=6.09416;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=829.595;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4001;QR=0;RO=0;RPL=68;RPP=8.28388;RPPR=0;RPR=51;RUN=1;SAF=72;SAP=14.4151;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:568:0,568:0:0:568:20111:-1809.26,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1504 NC_000962 4098444 . A G 4688.71 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=152;CIGAR=1X;DP=152;DPB=152;DPRA=0;EPP=6.66752;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1079.62;PAIRED=0.986842;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5208;QR=0;RO=0;RPL=81;RPP=4.4389;RPPR=0;RPR=71;RUN=1;SAF=69;SAP=5.81036;SAR=83;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:152:0,152:0:0:152:5208:-468.871,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1505 NC_000962 4100975 . T C 3112.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=5.61177;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=716.69;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3456;QR=0;RO=0;RPL=46;RPP=4.75178;RPPR=0;RPR=55;RUN=1;SAF=66;SAP=23.6715;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:522:0,522:0:0:522:17802:-1601.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1506 NC_000962 4104877 . G A 3387.31 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=116;DPB=116;DPRA=0;EPP=4.94911;EPPR=3.73412;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=779.958;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3865;QR=100;RO=3;RPL=51;RPP=4.94911;RPPR=3.73412;RPR=61;RUN=1;SAF=48;SAP=7.97367;SAR=64;SRF=3;SRP=9.52472;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:489:0,489:0:0:489:17172:-1544.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1507 NC_000962 4107074 . T C 4186.8 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=140;CIGAR=1X;DP=140;DPB=140;DPRA=0;EPP=5.24381;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=964.045;PAIRED=0.992857;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4650;QR=0;RO=0;RPL=68;RPP=3.25847;RPPR=0;RPR=72;RUN=1;SAF=90;SAP=27.8271;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:540:0,540:0:0:540:19590:-1762.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1508 NC_000962 4109342 . G A 3126.06 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=4.75178;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=719.802;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3471;QR=0;RO=0;RPL=50;RPP=3.0318;RPPR=0;RPR=51;RUN=1;SAF=58;SAP=7.84774;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:477:0,477:0:0:477:16389:-1474.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1509 NC_000962 4111303 . G C 2661.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=12.0207;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=612.913;PAIRED=0.977011;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2955;QR=0;RO=0;RPL=38;RPP=6.03039;RPPR=0;RPR=49;RUN=1;SAF=63;SAP=40.9736;SAR=24;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:429:0,428:0:0:428:14903:-1340.52,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1510 NC_000962 4112429 . T C 3411.28 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=25.0298;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=785.475;PAIRED=0.973684;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3828;QR=36;RO=1;RPL=66;RPP=9.18185;RPPR=5.18177;RPR=48;RUN=1;SAF=54;SAP=3.69603;SAR=60;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:426:0,426:0:0:426:15005:-1349.96,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1511 NC_000962 4115890 . G C 2705.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=11.8182;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=622.853;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3003;QR=0;RO=0;RPL=51;RPP=7.13366;RPPR=0;RPR=38;RUN=1;SAF=45;SAP=3.0347;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:525:0,525:0:0:525:17850:-1606.03,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1512 NC_000962 4116610 . G A 2985.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=96;CIGAR=1X;DP=96;DPB=96;DPRA=0;EPP=5.27225;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=687.481;PAIRED=0.989583;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3315;QR=0;RO=0;RPL=52;RPP=4.45795;RPPR=0;RPR=44;RUN=1;SAF=53;SAP=5.27225;SAR=43;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:540:0,540:0:0:540:19010:-1710.2,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1513 NC_000962 4120390 . G C 2910.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=95;CIGAR=1X;DP=95;DPB=95;DPRA=0;EPP=3.58174;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=670.075;PAIRED=0.978947;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3231;QR=0;RO=0;RPL=48;RPP=3.03316;RPPR=0;RPR=47;RUN=1;SAF=51;SAP=4.13032;SAR=44;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:645:0,645:0:0:645:22970:-2066.36,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1514 NC_000962 4122287 . G T 3915.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=7.42218;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=901.668;PAIRED=0.992063;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4349;QR=0;RO=0;RPL=60;RPP=3.63072;RPPR=0;RPR=66;RUN=1;SAF=67;SAP=4.11327;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:439:0,439:0:0:439:14505:-1305.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1515 NC_000962 4123770 . G A 3794.47 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X;DP=122;DPB=122;DPRA=0;EPP=8.77716;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=873.708;PAIRED=0.991803;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4214;QR=0;RO=0;RPL=57;RPP=4.14943;RPPR=0;RPR=65;RUN=1;SAF=65;SAP=4.14943;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:359:0,359:0:0:359:12158:-1093.98,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1516 NC_000962 4124321 . G A 4404.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=141;CIGAR=1X;DP=142;DPB=142;DPRA=0;EPP=6.47542;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1014.26;PAIRED=0.985816;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4895;QR=0;RO=0;RPL=67;RPP=3.76493;RPPR=0;RPR=74;RUN=1;SAF=47;SAP=37.03;SAR=94;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:142:0,141:0:0:141:4895:-440.489,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1517 NC_000962 4124349 . GCCCTCCCA GCTCCCA 3028.4 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=104;CIGAR=1M2D6M;DP=105;DPB=81.6667;DPRA=0;EPP=8.35546;EPPR=0;GTI=0;LEN=2;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=697.314;PAIRED=0.980769;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3365;QR=0;RO=0;RPL=55;RPP=3.76196;RPPR=0;RPR=49;RUN=1;SAF=47;SAP=5.09825;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:365:0,362:0:0:362:11207:-1008.33,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1518 NC_000962 4133316 . A T 1835.65 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=61;CIGAR=1X;DP=63;DPB=63;DPRA=0;EPP=3.33068;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=422.674;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2039;QR=0;RO=0;RPL=37;RPP=9.02635;RPPR=0;RPR=24;RUN=1;SAF=35;SAP=5.89373;SAR=26;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:303:0,303:0:0:303:9936:-894.125,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1519 NC_000962 4137829 . C T 4415.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=143;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=5.57659;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=1016.73;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4940;QR=32;RO=1;RPL=85;RPP=14.0803;RPPR=5.18177;RPR=58;RUN=1;SAF=80;SAP=7.3988;SAR=63;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:479:0,479:0:0:479:16740:-1506.13,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1520 NC_000962 4145737 . A G 4392.78 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=144;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=3.07062;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1011.47;PAIRED=0.993056;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4879;QR=0;RO=0;RPL=86;RPP=14.8328;RPPR=0;RPR=58;RUN=1;SAF=75;SAP=3.55317;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:478:0,478:0:0:478:16469:-1481.88,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1521 NC_000962 4151855 . A G 5096.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=164;CIGAR=1X;DP=164;DPB=164;DPRA=0;EPP=3.48696;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1173.45;PAIRED=0.993902;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5661;QR=0;RO=0;RPL=89;RPP=5.60547;RPPR=0;RPR=75;RUN=1;SAF=78;SAP=3.8577;SAR=86;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:471:0,471:0:0:471:16190:-1456.72,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1522 NC_000962 4156099 . C A 4302.74 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=137;CIGAR=1X;DP=137;DPB=137;DPRA=0;EPP=3.15295;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=990.742;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4779;QR=0;RO=0;RPL=75;RPP=5.68898;RPPR=0;RPR=62;RUN=1;SAF=64;SAP=4.29416;SAR=73;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:414:0,414:0:0:414:14643:-1317.39,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1523 NC_000962 4156503 . C T 4057.15 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=131;CIGAR=1X;DP=131;DPB=131;DPRA=0;EPP=10.3204;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=934.194;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4506;QR=0;RO=0;RPL=61;RPP=4.35297;RPPR=0;RPR=70;RUN=1;SAF=69;SAP=3.82253;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:452:0,452:0:0:452:15098:-1358.51,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1524 NC_000962 4158493 . C T 5279.76 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=170;CIGAR=1X;DP=170;DPB=170;DPRA=0;EPP=6.28028;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1215.71;PAIRED=0.988235;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5865;QR=0;RO=0;RPL=93;RPP=6.28028;RPPR=0;RPR=77;RUN=1;SAF=76;SAP=7.14887;SAR=94;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:476:0,476:0:0:476:16784:-1509.95,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1525 NC_000962 4159195 . T C 3520.17 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=120;CIGAR=1X;DP=120;DPB=120;DPRA=0;EPP=8.87328;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=810.548;PAIRED=0.966667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3909;QR=0;RO=0;RPL=63;RPP=3.66174;RPPR=0;RPR=57;RUN=1;SAF=56;SAP=4.16842;SAR=64;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:356:0,356:0:0:356:12321:-1108.62,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1526 NC_000962 4160371 . C A 3265.47 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=106;DPB=106;DPRA=0;EPP=5.05886;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=751.903;PAIRED=0.95283;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3626;QR=0;RO=0;RPL=50;RPP=3.74778;RPPR=0;RPR=56;RUN=1;SAF=52;SAP=3.09224;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:506:0,506:0:0:506:18011:-1620.34,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1527 NC_000962 4162339 . A G 2863.95 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=3.59403;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=659.449;PAIRED=0.989247;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3182;QR=0;RO=0;RPL=52;RPP=5.83555;RPPR=0;RPR=41;RUN=1;SAF=41;SAP=5.83555;SAR=52;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:570:0,570:0:0:570:20591:-1852.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1528 NC_000962 4166441 . G A 3734.18 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=121;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=3.45895;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=859.827;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4147;QR=0;RO=0;RPL=61;RPP=3.02825;RPPR=0;RPR=60;RUN=1;SAF=59;SAP=3.17181;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:486:0,486:0:0:486:16630:-1496.21,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1529 NC_000962 4167656 . A G 2653.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=3.63429;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=611.048;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2946;QR=0;RO=0;RPL=41;RPP=3.63429;RPPR=0;RPR=46;RUN=1;SAF=39;SAP=5.03202;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:534:0,534:0:0:534:19249:-1731.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1530 NC_000962 4169852 . G T 3165.59 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=3.03138;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=728.904;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3515;QR=0;RO=0;RPL=60;RPP=9.10307;RPPR=0;RPR=43;RUN=1;SAF=62;SAP=12.3076;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:503:0,502:0:0:502:17755:-1597.04,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1531 NC_000962 4170739 . G C 3207 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=103;CIGAR=1X;DP=103;DPB=103;DPRA=0;EPP=3.20004;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=738.439;PAIRED=0.980583;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3561;QR=0;RO=0;RPL=57;RPP=5.56125;RPPR=0;RPR=46;RUN=1;SAF=41;SAP=12.3076;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:577:0,577:0:0:577:19549:-1758.86,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1532 NC_000962 4170964 . GGGTC GAGGTC 2362.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=78;CIGAR=1M1I4M;DP=81;DPB=97.8;DPRA=0;EPP=3.45573;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=544.019;PAIRED=0.974359;PAIREDR=0;PAO=1;PQA=21;PQR=0;PRO=0;QA=2604;QR=0;RO=0;RPL=46;RPP=8.46682;RPPR=0;RPR=32;RUN=1;SAF=43;SAP=4.79202;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:405:0,395:0:0:395:12892:-1190.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1533 NC_000962 4174131 . G C 2058.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=1X;DP=70;DPB=70;DPRA=0;EPP=25.9524;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=473.998;PAIRED=0.985507;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2288;QR=0;RO=0;RPL=38;RPP=4.55236;RPPR=0;RPR=31;RUN=1;SAF=28;SAP=8.32883;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:583:0,583:0:0:583:20758:-1867.36,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1534 NC_000962 4179089 . C T 3884.42 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=6.38815;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=894.421;PAIRED=0.992063;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4314;QR=0;RO=0;RPL=64;RPP=3.07924;RPPR=0;RPR=62;RUN=1;SAF=60;SAP=3.63072;SAR=66;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:469:0,469:0:0:469:16196:-1457.19,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1535 NC_000962 4179832 . G C 3703.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=121;CIGAR=1X;DP=122;DPB=122;DPRA=0;EPP=5.18177;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=852.717;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4115;QR=0;RO=0;RPL=55;RPP=5.18177;RPPR=0;RPR=66;RUN=1;SAF=61;SAP=3.02825;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:569:0,569:0:0:569:20222:-1819.24,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1536 NC_000962 4182387 . G C 2833.7 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=6.33681;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=652.483;PAIRED=0.989362;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3146;QR=0;RO=0;RPL=43;RPP=4.48875;RPPR=0;RPR=51;RUN=1;SAF=54;SAP=7.53805;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:503:0,503:0:0:503:17437:-1568.88,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1537 NC_000962 4182695 . G A 2883.13 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=3.03416;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=663.865;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3201;QR=0;RO=0;RPL=45;RPP=3.03416;RPPR=0;RPR=46;RUN=1;SAF=33;SAP=17.9243;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:457:0,457:0:0:457:15866:-1427.5,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1538 NC_000962 4186678 . G A 3928.5 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=904.571;PAIRED=0.984127;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4363;QR=0;RO=0;RPL=72;RPP=8.59409;RPPR=0;RPR=54;RUN=1;SAF=55;SAP=7.42218;SAR=71;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:545:0,545:0:0:545:19162:-1723.94,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1539 NC_000962 4187485 . T C 2702.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=8.37933;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=622.237;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3000;QR=0;RO=0;RPL=41;RPP=4.94315;RPPR=0;RPR=50;RUN=1;SAF=44;SAP=3.22506;SAR=47;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:499:0,499:0:0:499:18028:-1621.71,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1540 NC_000962 4187817 . A G 2984.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1X;DP=97;DPB=97;DPRA=0;EPP=4.10723;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=687.282;PAIRED=0.989691;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3314;QR=0;RO=0;RPL=54;RPP=5.71904;RPPR=0;RPR=43;RUN=1;SAF=57;SAP=9.47994;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:381:0,381:0:0:381:13711:-1233.51,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1541 NC_000962 4189210 . G T 5500.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=175;CIGAR=1X;DP=175;DPB=175;DPRA=0;EPP=10.7656;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1266.45;PAIRED=0.988571;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6110;QR=0;RO=0;RPL=100;RPP=10.7656;RPPR=0;RPR=75;RUN=1;SAF=89;SAP=3.12198;SAR=86;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:346:0,346:0:0:346:11853:-1066.59,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1542 NC_000962 4189930 . C G 2439.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1X;DP=81;DPB=81;DPRA=0;EPP=10.7579;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=561.749;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2708;QR=0;RO=0;RPL=46;RPP=6.2541;RPPR=0;RPR=35;RUN=1;SAF=25;SAP=28.7731;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:483:0,483:0:0:483:15947:-1434.95,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1543 NC_000962 4191582 . G A 3571.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=122;DPB=122;DPRA=0;EPP=4.18805;EPPR=3.73412;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=822.341;PAIRED=0.991525;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4053;QR=84;RO=3;RPL=53;RPP=5.66023;RPPR=9.52472;RPR=65;RUN=1;SAF=64;SAP=4.85053;SAR=54;SRF=2;SRP=3.73412;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,480:0:0:480:16932:-1523.34,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1544 NC_000962 4193344 . G T 2738.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=3.0347;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=630.515;PAIRED=0.988764;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3040;QR=0;RO=0;RPL=37;RPP=8.49998;RPPR=0;RPR=52;RUN=1;SAF=65;SAP=44.0243;SAR=24;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:537:0,537:0:0:537:19946:-1794.1,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1545 NC_000962 4194501 . G A 3694.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=120;DPB=120;DPRA=0;EPP=5.21827;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=850.8;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4106;QR=0;RO=0;RPL=73;RPP=16.3128;RPPR=0;RPR=46;RUN=1;SAF=56;SAP=3.90444;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:449:0,449:0:0:449:15693:-1411.98,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1546 NC_000962 4197138 . CTTGC CTTTGC 2622.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=86;CIGAR=1M1I4M;DP=88;DPB=105.4;DPRA=0;EPP=32.1989;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=603.893;PAIRED=0.988372;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2915;QR=0;RO=0;RPL=35;RPP=9.47422;RPPR=0;RPR=51;RUN=1;SAF=45;SAP=3.41429;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:417:0,415:0:0:415:14369:-1292.49,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1547 NC_000962 4198611 . CGGGGGTGGAA CGGGGTGGAA 2285.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=77;CIGAR=1M1D9M;DP=79;DPB=71.8182;DPRA=0;EPP=3.71532;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=526.345;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2540;QR=0;RO=0;RPL=45;RPP=7.77626;RPPR=0;RPR=32;RUN=1;SAF=40;SAP=3.26411;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:466:0,461:0:0:461:16200:-1457.15,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1548 NC_000962 4204168 . T C 3490.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=5.3355;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=803.803;PAIRED=0.982301;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3879;QR=0;RO=0;RPL=67;RPP=11.4848;RPPR=0;RPR=46;RUN=1;SAF=50;SAP=6.2579;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:619:0,619:0:0:619:22060:-1984.45,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1549 NC_000962 4204441 . A G 2840.89 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=94;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=14.1911;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=654.138;PAIRED=0.989362;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3154;QR=0;RO=0;RPL=39;RPP=8.9241;RPPR=0;RPR=55;RUN=1;SAF=35;SAP=16.3163;SAR=59;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:583:0,583:0:0:583:21289:-1915.01,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1550 NC_000962 4205120 . A G 1603.78 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=55;CIGAR=1X;DP=55;DPB=55;DPRA=0;EPP=3.99733;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=369.283;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1779;QR=0;RO=0;RPL=26;RPP=3.36563;RPPR=0;RPR=29;RUN=1;SAF=26;SAP=3.36563;SAR=29;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:548:0,548:0:0:548:19336:-1739.49,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1551 NC_000962 4205325 . A G 2230.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=77;CIGAR=1X;DP=77;DPB=77;DPRA=0;EPP=4.39215;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=513.674;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2476;QR=0;RO=0;RPL=44;RPP=6.42261;RPPR=0;RPR=33;RUN=1;SAF=35;SAP=4.39215;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:525:0,525:0:0:525:18184:-1636.02,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1552 NC_000962 4210274 . A G 3961.82 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=131;CIGAR=1X;DP=131;DPB=131;DPRA=0;EPP=3.15949;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=912.242;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4400;QR=0;RO=0;RPL=58;RPP=6.73993;RPPR=0;RPR=73;RUN=1;SAF=70;SAP=4.35297;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:572:0,572:0:0:572:20320:-1827.94,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1553 NC_000962 4212832 . GACCA GA 1568.72 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=53;CIGAR=1M3D1M;DP=53;DPB=21.2;DPRA=0;EPP=9.93443;EPPR=0;GTI=0;LEN=3;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=361.211;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1740;QR=0;RO=0;RPL=22;RPP=6.32897;RPPR=0;RPR=31;RUN=1;SAF=35;SAP=14.851;SAR=18;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:407:0,407:0:0:407:13691:-1231.91,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1554 NC_000962 4214988 . G A 3046.9 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=98;CIGAR=1X;DP=98;DPB=98;DPRA=0;EPP=3.80798;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=701.575;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3383;QR=0;RO=0;RPL=53;RPP=4.4284;RPPR=0;RPR=45;RUN=1;SAF=53;SAP=4.4284;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:514:0,514:0:0:514:18266:-1643.27,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1555 NC_000962 4215484 . G C 4305.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=138;CIGAR=1X;DP=138;DPB=138;DPRA=0;EPP=3.57677;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=991.367;PAIRED=0.971014;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4782;QR=0;RO=0;RPL=61;RPP=7.03854;RPPR=0;RPR=77;RUN=1;SAF=75;SAP=5.27618;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:551:0,551:0:0:551:19120:-1720.17,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1556 NC_000962 4215793 . A C 4309.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=141;CIGAR=1X;DP=141;DPB=141;DPRA=0;EPP=3.1489;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=992.203;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4786;QR=0;RO=0;RPL=67;RPP=3.76493;RPPR=0;RPR=74;RUN=1;SAF=66;SAP=4.25774;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:591:0,591:0:0:591:21221:-1908.91,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1557 NC_000962 4217557 . A G 4828.16 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=158;CIGAR=1X;DP=158;DPB=158;DPRA=0;EPP=22.8559;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1111.72;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5363;QR=0;RO=0;RPL=66;RPP=12.3009;RPPR=0;RPR=92;RUN=1;SAF=84;SAP=4.38465;SAR=74;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:465:0,465:0:0:465:16161:-1453.96,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1558 NC_000962 4218416 . C A 3290.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=3.33807;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=757.561;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3656;QR=0;RO=0;RPL=57;RPP=4.32138;RPPR=0;RPR=49;RUN=1;SAF=50;SAP=3.74778;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,480:0:0:480:16778:-1509.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1559 NC_000962 4218941 . G A 4022.97 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=130;CIGAR=1X;DP=130;DPB=130;DPRA=0;EPP=3.07711;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=926.323;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4468;QR=0;RO=0;RPL=75;RPP=9.69175;RPPR=0;RPR=55;RUN=1;SAF=79;SAP=16.1059;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:543:0,543:0:0:543:18641:-1677.16,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1560 NC_000962 4221070 . ACCTG ACTG 3615.49 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1M1D3M;DP=119;DPB=95.2;DPRA=0;EPP=6.09416;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=832.497;PAIRED=0.966387;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4015;QR=0;RO=0;RPL=55;RPP=4.48836;RPPR=0;RPR=64;RUN=1;SAF=59;SAP=3.02855;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:553:0,553:0:0:553:19347:-1740.6,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1561 NC_000962 4221423 . C T 4443.13 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=145;CIGAR=1X;DP=145;DPB=145;DPRA=0;EPP=7.33827;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1023.07;PAIRED=0.97931;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4935;QR=0;RO=0;RPL=73;RPP=3.02528;RPPR=0;RPR=72;RUN=1;SAF=70;SAP=3.38469;SAR=75;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:488:0,488:0:0:488:16719:-1504.3,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1562 NC_000962 4221490 . C G 4804.83 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=158;CIGAR=1X;DP=158;DPB=158;DPRA=0;EPP=6.52863;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1106.35;PAIRED=0.987342;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5337;QR=0;RO=0;RPL=76;RPP=3.50507;RPPR=0;RPR=82;RUN=1;SAF=81;SAP=3.2302;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:365:0,365:0:0:365:12529:-1127.39,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1563 NC_000962 4222073 . A G 3880.87 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=4.09604;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=893.604;PAIRED=0.992188;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4310;QR=0;RO=0;RPL=65;RPP=3.07816;RPPR=0;RPR=63;RUN=1;SAF=33;SAP=68.2223;SAR=95;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:364:0,364:0:0:364:12424:-1117.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1564 NC_000962 4222882 . A G 4517.3 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=148;CIGAR=1X;DP=149;DPB=149;DPRA=0;EPP=6.76636;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1040.15;PAIRED=0.993243;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5021;QR=0;RO=0;RPL=73;RPP=3.06899;RPPR=0;RPR=75;RUN=1;SAF=85;SAP=10.1116;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:483:0,483:0:0:483:16845:-1515.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1565 NC_000962 4223172 . T C 4998.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=165;CIGAR=1X;DP=165;DPB=165;DPRA=0;EPP=3.65516;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1150.88;PAIRED=0.993939;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5552;QR=0;RO=0;RPL=76;RPP=5.23441;RPPR=0;RPR=89;RUN=1;SAF=86;SAP=3.65516;SAR=79;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:349:1,348:1:33:348:12172:-1091.86,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1566 NC_000962 4229167 . T C 2453.11 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=81;CIGAR=1X;DP=81;DPB=81;DPRA=0;EPP=9.04217;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=564.851;PAIRED=0.938272;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2723;QR=0;RO=0;RPL=39;RPP=3.25157;RPPR=0;RPR=42;RUN=1;SAF=57;SAP=32.2045;SAR=24;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:322:0,322:0:0:322:10476:-942.735,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1567 NC_000962 4231865 . C A 1513.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=48;CIGAR=1X;DP=48;DPB=48;DPRA=0;EPP=3.19126;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=348.602;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1679;QR=0;RO=0;RPL=48;RPP=107.241;RPPR=0;RPR=0;RUN=1;SAF=25;SAP=3.19126;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:231:0,231:0:0:231:7670:-690.3,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1568 NC_000962 4231948 . TGC TCGC 755.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=26;CIGAR=1M1I2M;DP=27;DPB=35.6667;DPRA=0;EPP=4.34659;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=173.891;PAIRED=0.884615;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=839;QR=0;RO=0;RPL=0;RPP=59.4686;RPPR=0;RPR=26;RUN=1;SAF=15;SAP=4.34659;SAR=11;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:27:0,26:0:0:26:839:-75.52,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1569 NC_000962 4234960 . A C 3926.73 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=11.2212;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=904.162;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4361;QR=0;RO=0;RPL=78;RPP=16.3106;RPPR=0;RPR=50;RUN=1;SAF=47;SAP=22.6214;SAR=81;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:593:0,593:0:0:593:20712:-1863.39,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1570 NC_000962 4236237 . C T 3600.19 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=117;CIGAR=1X;DP=117;DPB=117;DPRA=0;EPP=5.25601;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=828.974;PAIRED=0.991453;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3998;QR=0;RO=0;RPL=60;RPP=3.17734;RPPR=0;RPR=57;RUN=1;SAF=49;SAP=9.71031;SAR=68;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:513:0,513:0:0:513:17419:-1567.23,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1571 NC_000962 4242643 . C T 4931.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=156;CIGAR=1X;DP=156;DPB=156;DPRA=0;EPP=11.028;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1135.53;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5478;QR=0;RO=0;RPL=93;RPP=15.538;RPPR=0;RPR=63;RUN=1;SAF=69;SAP=7.52028;SAR=87;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:439:0,439:0:0:439:15049:-1354.05,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1572 NC_000962 4243460 . C T 4779.56 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=154;CIGAR=1X;DP=154;DPB=154;DPRA=0;EPP=3.23591;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1100.53;PAIRED=0.987013;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5309;QR=0;RO=0;RPL=80;RPP=3.51792;RPPR=0;RPR=74;RUN=1;SAF=85;SAP=6.62002;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:401:0,401:0:0:401:13479:-1212.87,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1573 NC_000962 4248115 . C T 3364.44 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=3.51765;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=774.692;PAIRED=0.981308;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3736;QR=0;RO=0;RPL=47;RPP=6.44001;RPPR=0;RPR=60;RUN=1;SAF=49;SAP=4.65412;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:597:0,597:0:0:597:21088:-1897.15,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1574 NC_000962 4251297 . G C 2736.53 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=91;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=4.17955;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=630.11;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3038;QR=0;RO=0;RPL=41;RPP=4.94315;RPPR=0;RPR=50;RUN=1;SAF=58;SAP=17.9243;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:484:0,484:0:0:484:16730:-1505.2,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1575 NC_000962 4252066 . T C 4639.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=154;CIGAR=1X;DP=154;DPB=154;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1068.23;PAIRED=0.993506;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5153;QR=0;RO=0;RPL=86;RPP=7.57885;RPPR=0;RPR=68;RUN=1;SAF=77;SAP=3.0103;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:453:0,453:0:0:453:15981:-1437.74,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1576 NC_000962 4254290 . T G 2551.19 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=86;CIGAR=1X;DP=86;DPB=86;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=587.433;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2832;QR=0;RO=0;RPL=21;RPP=51.8937;RPPR=0;RPR=65;RUN=1;SAF=46;SAP=3.91929;SAR=40;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:233:0,233:0:0:233:7976:-717.803,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1577 NC_000962 4254431 . G A 3260.41 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=106;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=3.33807;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=750.737;PAIRED=0.990566;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3623;QR=0;RO=0;RPL=56;RPP=3.74778;RPPR=0;RPR=50;RUN=1;SAF=49;SAP=4.32138;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:497:0,497:0:0:497:17386:-1564.16,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1578 NC_000962 4255922 . A G 3883.55 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=126;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=5.49198;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=894.219;PAIRED=0.992063;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4313;QR=0;RO=0;RPL=74;RPP=11.3515;RPPR=0;RPR=52;RUN=1;SAF=41;SAP=36.3751;SAR=85;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:499:0,499:0:0:499:17498:-1574.26,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1579 NC_000962 4256210 . G T 3818.64 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=124;CIGAR=1X;DP=126;DPB=126;DPRA=0;EPP=7.49334;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=879.273;PAIRED=0.991935;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4244;QR=0;RO=0;RPL=74;RPP=13.0971;RPPR=0;RPR=50;RUN=1;SAF=74;SAP=13.0971;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:463:0,463:0:0:463:15665:-1409.48,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1580 NC_000962 4257220 . A G 5725.1 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=187;CIGAR=1X;DP=187;DPB=187;DPRA=0;EPP=6.36621;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1318.25;PAIRED=0.983957;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=6360;QR=0;RO=0;RPL=93;RPP=3.02191;RPPR=0;RPR=94;RUN=1;SAF=93;SAP=3.02191;SAR=94;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:423:1,422:1:35:422:15234:-1366.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1581 NC_000962 4258106 . G A 4217.78 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=137;CIGAR=1X;DP=138;DPB=138;DPRA=0;EPP=12.9167;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=971.181;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4687;QR=0;RO=0;RPL=69;RPP=3.02615;RPPR=0;RPR=68;RUN=1;SAF=52;SAP=20.2711;SAR=85;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:480:0,480:0:0:480:16482:-1482.95,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1582 NC_000962 4262388 . C T 3765.67 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=123;CIGAR=1X;DP=123;DPB=123;DPRA=0;EPP=3.02795;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=867.078;PAIRED=0.97561;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4182;QR=0;RO=0;RPL=61;RPP=3.02795;RPPR=0;RPR=62;RUN=1;SAF=63;SAP=3.16919;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:522:0,522:0:0:522:18636:-1676.48,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1583 NC_000962 4264381 . GAG GCAG 2960.51 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=97;CIGAR=1M1I2M;DP=97;DPB=129.333;DPRA=0;EPP=14.8527;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=681.683;PAIRED=0.969072;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3287;QR=0;RO=0;RPL=59;RPP=12.8827;RPPR=0;RPR=38;RUN=1;SAF=51;SAP=3.56996;SAR=46;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:479:0,475:0:0:475:16281:-1464.5,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1584 NC_000962 4267647 . T C 3727.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=121;CIGAR=1X;DP=121;DPB=121;DPRA=0;EPP=3.45895;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=858.386;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4140;QR=0;RO=0;RPL=60;RPP=3.02825;RPPR=0;RPR=61;RUN=1;SAF=64;SAP=3.88966;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:334:0,334:0:0:334:11233:-1010.81,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1585 NC_000962 4277356 . G C 2630.38 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=4.20583;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=605.666;PAIRED=0.988764;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2920;QR=0;RO=0;RPL=51;RPP=7.13366;RPPR=0;RPR=38;RUN=1;SAF=39;SAP=5.96253;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:89:0,89:0:0:89:2920:-263.038,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1586 NC_000962 4280708 . G A 4211.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=136;CIGAR=1X;DP=137;DPB=137;DPRA=0;EPP=4.60697;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=969.758;PAIRED=0.985294;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4680;QR=0;RO=0;RPL=60;RPP=7.09778;RPPR=0;RPR=76;RUN=1;SAF=73;SAP=4.60697;SAR=63;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:484:0,484:0:0:484:17062:-1535.01,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1587 NC_000962 4284429 . G A 1797.22 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=60;CIGAR=1X;DP=60;DPB=60;DPRA=0;EPP=3.58936;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=413.824;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1994;QR=0;RO=0;RPL=30;RPP=3.0103;RPPR=0;RPR=30;RUN=1;SAF=22;SAP=12.2752;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:574:1,573:1:34:573:20328:-1825.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1588 NC_000962 4287164 . A G 1991.6 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=66;CIGAR=1X;DP=66;DPB=66;DPRA=0;EPP=4.19474;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=458.583;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2210;QR=0;RO=0;RPL=22;RPP=18.9344;RPPR=0;RPR=44;RUN=1;SAF=34;SAP=3.1419;SAR=32;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:542:0,542:0:0:542:18643:-1677.3,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1589 NC_000962 4290135 . C T 2767.08 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=5.96253;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=637.145;PAIRED=0.977528;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3072;QR=0;RO=0;RPL=43;RPP=3.22989;RPPR=0;RPR=46;RUN=1;SAF=50;SAP=5.96253;SAR=39;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:478:0,478:0:0:478:16876:-1518.25,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1590 NC_000962 4296015 . G A 3103.26 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=100;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=6.13722;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=714.551;PAIRED=0.98;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3448;QR=0;RO=0;RPL=58;RPP=8.56927;RPPR=0;RPR=42;RUN=1;SAF=42;SAP=8.56927;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:535:0,535:0:0:535:18992:-1708.52,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1591 NC_000962 4301075 . G C 2104.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=68;CIGAR=1X;DP=68;DPB=68;DPRA=0;EPP=5.05404;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=484.684;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2336;QR=0;RO=0;RPL=29;RPP=6.20364;RPPR=0;RPR=39;RUN=1;SAF=35;SAP=3.13803;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:570:0,570:0:0:570:19927:-1792.77,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1592 NC_000962 4302036 . T C 3481.39 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=3.49071;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=801.62;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3866;QR=0;RO=0;RPL=70;RPP=17.0192;RPPR=0;RPR=43;RUN=1;SAF=56;SAP=3.02952;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:389:0,389:0:0:389:13804:-1241.83,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1593 NC_000962 4303498 . TGA TGGA 2127.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=73;CIGAR=1M1I2M;DP=80;DPB=104.333;DPRA=0;EPP=4.46786;EPPR=5.18177;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=489.787;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2389;QR=25;RO=1;RPL=41;RPP=5.41974;RPPR=5.18177;RPR=32;RUN=1;SAF=35;SAP=3.27802;SAR=38;SRF=0;SRP=5.18177;SRR=1;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:473:0,463:0:0:463:15769:-1418.48,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1594 NC_000962 4305063 . GAAACT GAAAACT 2229.12 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=76;CIGAR=1M1I5M;DP=81;DPB=94;DPRA=0;EPP=3.12459;EPPR=0;GTI=0;LEN=1;MEANALT=5;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=513.274;PAIRED=0.986842;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2477;QR=0;RO=0;RPL=42;RPP=4.83891;RPPR=0;RPR=34;RUN=1;SAF=27;SAP=16.8392;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:478:0,470:0:0:470:15975:-1437.05,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1595 NC_000962 4306155 . C T 2800.36 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=90;CIGAR=1X;DP=90;DPB=90;DPRA=0;EPP=5.42305;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=644.806;PAIRED=0.988889;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3109;QR=0;RO=0;RPL=43;RPP=3.39634;RPPR=0;RPR=47;RUN=1;SAF=45;SAP=3.0103;SAR=45;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:444:0,444:0:0:444:15527:-1396.96,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1596 NC_000962 4307179 . G A 4035.54 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=131;CIGAR=1X;DP=132;DPB=132;DPRA=0;EPP=3.02688;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=929.218;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4485;QR=0;RO=0;RPL=69;RPP=3.82253;RPPR=0;RPR=62;RUN=1;SAF=77;SAP=11.7791;SAR=54;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:460:0,460:0:0:460:16221:-1459.4,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1597 NC_000962 4308395 . G A 3559.66 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=114;DPB=114;DPRA=0;EPP=4.22937;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=819.642;PAIRED=0.991228;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3953;QR=0;RO=0;RPL=60;RPP=3.69603;RPPR=0;RPR=54;RUN=1;SAF=61;SAP=4.22937;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:482:1,481:1:30:481:17202:-1544.55,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1598 NC_000962 4309927 . T G 4578.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=150;CIGAR=1X;DP=151;DPB=151;DPRA=0;EPP=3.06821;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1054.14;PAIRED=0.986667;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5089;QR=0;RO=0;RPL=75;RPP=3.0103;RPPR=0;RPR=75;RUN=1;SAF=73;SAP=3.24192;SAR=77;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:493:0,493:0:0:493:17645:-1587.35,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1599 NC_000962 4311664 . C T 4027.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=128;CIGAR=1X;DP=128;DPB=128;DPRA=0;EPP=3.28173;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=927.358;PAIRED=0.992188;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4473;QR=0;RO=0;RPL=69;RPP=4.70676;RPPR=0;RPR=59;RUN=1;SAF=77;SAP=14.4784;SAR=51;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:391:0,391:0:0:391:13850:-1246.12,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1600 NC_000962 4313128 . C T 2704.61 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=90;CIGAR=1X;DP=91;DPB=91;DPRA=0;EPP=3.10681;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=622.759;PAIRED=0.988889;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3005;QR=0;RO=0;RPL=39;RPP=6.48466;RPPR=0;RPR=51;RUN=1;SAF=53;SAP=9.18693;SAR=37;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:434:0,434:0:0:434:13852:-1246.5,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1601 NC_000962 4314645 . A G 4367.63 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=146;CIGAR=1X;DP=146;DPB=146;DPRA=0;EPP=3.54573;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1005.69;PAIRED=0.993151;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4851;QR=0;RO=0;RPL=68;RPP=4.49761;RPPR=0;RPR=78;RUN=1;SAF=88;SAP=16.3961;SAR=58;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:553:0,553:0:0:553:19150:-1722.99,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1602 NC_000962 4314800 . G A 4075.14 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=129;CIGAR=1X;DP=129;DPB=129;DPRA=0;EPP=7.87507;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=938.335;PAIRED=0.992248;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4526;QR=0;RO=0;RPL=72;RPP=6.79775;RPPR=0;RPR=57;RUN=1;SAF=72;SAP=6.79775;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:550:1,549:1:37:549:19156:-1719.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1603 NC_000962 4319985 . G C 1952.01 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1X;DP=63;DPB=63;DPRA=0;EPP=28.1373;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=449.467;PAIRED=0.984127;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2166;QR=0;RO=0;RPL=29;RPP=3.872;RPPR=0;RPR=34;RUN=1;SAF=32;SAP=3.04477;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:522:0,522:0:0:522:17996:-1619.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1604 NC_000962 4322039 . ACCGCA ACGCA 1467.34 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=50;CIGAR=1M1D4M;DP=51;DPB=42.5;DPRA=0;EPP=11.5225;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=337.869;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1630;QR=0;RO=0;RPL=27;RPP=3.70517;RPPR=0;RPR=23;RUN=1;SAF=27;SAP=3.70517;SAR=23;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:529:0,528:0:0:528:18362:-1651.54,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1605 NC_000962 4329782 . G A 1871.96 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=61;CIGAR=1X;DP=61;DPB=61;DPRA=0;EPP=11.0198;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=431.034;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2077;QR=0;RO=0;RPL=41;RPP=18.709;RPPR=0;RPR=20;RUN=1;SAF=23;SAP=11.0198;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:588:0,588:0:0:588:21221:-1908.93,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1606 NC_000962 4338595 . GCT GT 2050.05 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=69;CIGAR=1M1D1M;DP=69;DPB=46;DPRA=0;EPP=10.0912;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=472.042;PAIRED=0.971014;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2275;QR=0;RO=0;RPL=33;RPP=3.29354;RPPR=0;RPR=36;RUN=1;SAF=35;SAP=3.04177;SAR=34;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:421:0,421:0:0:421:13811:-1242.84,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1607 NC_000962 4338732 . G A 2257.86 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=74;CIGAR=1X;DP=74;DPB=74;DPRA=0;EPP=4.88833;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=519.892;PAIRED=0.986486;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2506;QR=0;RO=0;RPL=41;RPP=4.88833;RPPR=0;RPR=33;RUN=1;SAF=32;SAP=5.94472;SAR=42;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:570:0,570:0:0:570:20830:-1873.74,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1608 NC_000962 4340028 . G C 3084.66 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=101;CIGAR=1X;DP=101;DPB=101;DPRA=0;EPP=3.2038;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=710.27;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3425;QR=0;RO=0;RPL=61;RPP=12.4917;RPPR=0;RPR=40;RUN=1;SAF=39;SAP=14.3837;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:505:0,505:0:0:505:18120:-1630.07,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1609 NC_000962 4350305 . G A 2696.92 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=87;CIGAR=1X;DP=87;DPB=87;DPRA=0;EPP=14.0174;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=620.989;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2994;QR=0;RO=0;RPL=39;RPP=5.03202;RPPR=0;RPR=48;RUN=1;SAF=26;SAP=33.5856;SAR=61;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:593:0,592:0:0:592:20196:-1816.94,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1610 NC_000962 4351039 . G T 2714.02 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=89;CIGAR=1X;DP=89;DPB=89;DPRA=0;EPP=5.96253;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=624.925;PAIRED=0.988764;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3013;QR=0;RO=0;RPL=40;RPP=4.98658;RPPR=0;RPR=49;RUN=1;SAF=59;SAP=23.5295;SAR=30;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:633:0,633:0:0:633:22671:-2039.46,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1611 NC_000962 4356110 . G C 2532.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=83;CIGAR=1X;DP=83;DPB=83;DPRA=0;EPP=3.24576;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=583.081;PAIRED=0.975904;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2811;QR=0;RO=0;RPL=33;RPP=10.5712;RPPR=0;RPR=50;RUN=1;SAF=45;SAP=4.29225;SAR=38;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:578:0,578:0:0:578:20390:-1834.3,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1612 NC_000962 4357597 . C G 5116.97 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=167;CIGAR=1X;DP=167;DPB=167;DPRA=0;EPP=4.06353;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1178.23;PAIRED=0.976048;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5684;QR=0;RO=0;RPL=75;RPP=6.76812;RPPR=0;RPR=92;RUN=1;SAF=80;SAP=3.64744;SAR=87;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:450:0,450:0:0:450:15325:-1378.91,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1613 NC_000962 4357804 . T G 4333.46 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=144;CIGAR=1X;DP=144;DPB=144;DPRA=0;EPP=6.8707;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=997.816;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4813;QR=0;RO=0;RPL=68;RPP=3.9754;RPPR=0;RPR=76;RUN=1;SAF=50;SAP=32.2045;SAR=94;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:462:0,461:0:0:461:16137:-1451.44,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1614 NC_000962 4359165 . G C 1623.65 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=63;CIGAR=1X;DP=70;DPB=70;DPRA=0;EPP=4.69922;EPPR=18.2106;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=373.859;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=2053;QR=248;RO=7;RPL=27;RPP=5.80219;RPPR=18.2106;RPR=36;RUN=1;SAF=25;SAP=8.83536;SAR=38;SRF=0;SRP=18.2106;SRR=7;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:534:3,531:3:97:531:18427:-1648.8,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1615 NC_000962 4359653 . C T 1845.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=61;CIGAR=1X;DP=61;DPB=61;DPRA=0;EPP=7.31765;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=425.024;PAIRED=0.983607;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2048;QR=0;RO=0;RPL=33;RPP=3.90025;RPPR=0;RPR=28;RUN=1;SAF=28;SAP=3.90025;SAR=33;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:590:0,590:0:0:590:21428:-1927.53,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1616 NC_000962 4359828 . G A 2209.29 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=72;CIGAR=1X;DP=72;DPB=72;DPRA=0;EPP=8.92153;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=508.708;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2452;QR=0;RO=0;RPL=35;RPP=3.13094;RPPR=0;RPR=37;RUN=1;SAF=54;SAP=42.0968;SAR=18;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:538:0,538:0:0:538:18461:-1660.96,0 |
|
a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1617 NC_000962 4362568 . T G 3920.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=130;CIGAR=1X;DP=130;DPB=130;DPRA=0;EPP=3.0103;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=902.717;PAIRED=0.992308;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4354;QR=0;RO=0;RPL=57;RPP=7.28643;RPPR=0;RPR=73;RUN=1;SAF=74;SAP=8.42228;SAR=56;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:408:0,407:0:0:407:13930:-1253.28,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1618 NC_000962 4366195 . T C 3440.94 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=3.32051;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=792.306;PAIRED=0.973214;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3821;QR=0;RO=0;RPL=60;RPP=4.25114;RPPR=0;RPR=52;RUN=1;SAF=62;SAP=5.80219;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:458:1,457:1:29:457:15493:-1391.07,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1619 NC_000962 4366272 . G C 3646.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=119;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=14.4151;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=839.533;PAIRED=0.966387;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4049;QR=0;RO=0;RPL=58;RPP=3.17453;RPPR=0;RPR=61;RUN=1;SAF=70;SAP=11.0575;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:415:0,415:0:0:415:14474:-1302.24,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1620 NC_000962 4368084 . G C 2947.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=99;CIGAR=1X;DP=100;DPB=100;DPRA=0;EPP=4.08507;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=678.78;PAIRED=0.979798;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3277;QR=0;RO=0;RPL=44;RPP=5.66432;RPPR=0;RPR=55;RUN=1;SAF=42;SAP=7.94546;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:452:0,452:0:0:452:15791:-1420.72,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1621 NC_000962 4370038 . G T 3631.62 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=3.67278;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=836.212;PAIRED=0.966102;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4073;QR=36;RO=1;RPL=53;RPP=5.66023;RPPR=5.18177;RPR=65;RUN=1;SAF=63;SAP=4.18805;SAR=55;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:479:0,479:0:0:479:16814:-1512.78,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1622 NC_000962 4372353 . G C 2534.09 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=82;CIGAR=1X;DP=82;DPB=82;DPRA=0;EPP=3.96363;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=583.495;PAIRED=0.987805;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2813;QR=0;RO=0;RPL=39;RPP=3.434;RPPR=0;RPR=43;RUN=1;SAF=29;SAP=18.2636;SAR=53;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:522:0,522:0:0:522:17464:-1571.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1623 NC_000962 4375149 . T C 5027.95 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=165;CIGAR=1X;DP=165;DPB=165;DPRA=0;EPP=3.65516;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=1157.73;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=5585;QR=0;RO=0;RPL=95;RPP=11.2356;RPPR=0;RPR=70;RUN=1;SAF=84;SAP=3.12874;SAR=81;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:339:0,339:0:0:339:11654:-1048.68,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1624 NC_000962 4375628 . G T 4267.69 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=137;CIGAR=1X;DP=137;DPB=137;DPRA=0;EPP=3.40655;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=982.672;PAIRED=0.985401;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4740;QR=0;RO=0;RPL=71;RPP=3.40655;RPPR=0;RPR=66;RUN=1;SAF=52;SAP=20.2711;SAR=85;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:500:0,500:0:0:500:17582:-1581.84,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1625 NC_000962 4378504 . T C 1557.04 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=52;CIGAR=1X;DP=52;DPB=52;DPRA=0;EPP=5.68288;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=358.522;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1727;QR=0;RO=0;RPL=29;RPP=4.51363;RPPR=0;RPR=23;RUN=1;SAF=31;SAP=7.18621;SAR=21;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:629:0,629:0:0:629:22320:-2007.96,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1626 NC_000962 4379044 . CGGGGGTC CGGGGTC 13590.2 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=457;CIGAR=1M1D6M;DP=464;DPB=408.125;DPRA=0;EPP=3.01505;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=3129.27;PAIRED=0.897155;PAIREDR=0;PAO=4.5;PQA=127;PQR=127;PRO=4.5;QA=15108;QR=0;RO=0;RPL=233;RPP=3.39518;RPPR=0;RPR=224;RUN=1;SAF=200;SAP=18.4482;SAR=257;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:464:0,457:0:0:457:15108:-1359.02,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1627 NC_000962 4379680 . C G 3543.91 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=118;CIGAR=1X;DP=119;DPB=119;DPRA=0;EPP=4.85053;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=816.015;PAIRED=0.991525;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3939;QR=0;RO=0;RPL=61;RPP=3.30474;RPPR=0;RPR=57;RUN=1;SAF=51;SAP=7.72129;SAR=67;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:474:0,473:0:0:473:16749:-1506.55,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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1628 NC_000962 4382054 . T C 2798.07 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=4.15441;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=644.28;PAIRED=0.967742;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3109;QR=0;RO=0;RPL=49;RPP=3.59403;RPPR=0;RPR=44;RUN=1;SAF=58;SAP=15.362;SAR=35;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:427:0,427:0:0:427:15007:-1350.14,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1629 NC_000962 4382275 . G T 3518.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=113;CIGAR=1X;DP=113;DPB=113;DPRA=0;EPP=3.02952;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=810.107;PAIRED=0.973451;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3907;QR=0;RO=0;RPL=52;RPP=4.56684;RPPR=0;RPR=61;RUN=1;SAF=77;SAP=35.3134;SAR=36;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:510:0,510:0:0:510:18373:-1652.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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1630 NC_000962 4383144 . CCCGT CCGGGGCCGT 2570 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1M5I4M;DP=94;DPB=186;DPRA=0;EPP=3.38795;EPPR=0;GTI=0;LEN=5;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=591.764;PAIRED=0.98913;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2856;QR=0;RO=0;RPL=41;RPP=5.3706;RPPR=0;RPR=51;RUN=1;SAF=51;SAP=5.3706;SAR=41;SRF=0;SRP=0;SRR=0;TYPE=ins GT:DP:AD:RO:QR:AO:QA:GL 1:368:0,359:0:0:359:11684:-1051.15,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1631 NC_000962 4383655 . A G 3369.85 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=5.3774;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=775.937;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3742;QR=0;RO=0;RPL=63;RPP=7.41193;RPPR=0;RPR=48;RUN=1;SAF=42;SAP=17.2716;SAR=69;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:398:0,398:0:0:398:13830:-1244.35,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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1632 NC_000962 4384007 . C G 2679.79 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=92;CIGAR=1X;DP=92;DPB=92;DPRA=0;EPP=3.86001;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=617.045;PAIRED=0.98913;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2975;QR=0;RO=0;RPL=31;RPP=24.253;RPPR=0;RPR=61;RUN=1;SAF=42;SAP=4.52089;SAR=50;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:526:0,525:0:0:525:18839:-1694.53,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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1633 NC_000962 4384127 . A G 3404.48 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=114;CIGAR=1X;DP=115;DPB=115;DPRA=0;EPP=13.982;EPPR=5.18177;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=783.912;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=3816;QR=32;RO=1;RPL=60;RPP=3.69603;RPPR=5.18177;RPR=54;RUN=1;SAF=61;SAP=4.22937;SAR=53;SRF=1;SRP=5.18177;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:446:0,446:0:0:446:15988:-1438.32,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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1634 NC_000962 4386228 . T C 2234.45 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=76;CIGAR=1X;DP=76;DPB=76;DPRA=0;EPP=8.61041;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=514.502;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=2480;QR=0;RO=0;RPL=42;RPP=4.83891;RPPR=0;RPR=34;RUN=1;SAF=45;SAP=8.61041;SAR=31;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:436:0,436:0:0:436:14471:-1302.22,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
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1635 NC_000962 4393178 . A G 3321.25 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=107;CIGAR=1X;DP=107;DPB=107;DPRA=0;EPP=7.57648;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=764.747;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3688;QR=0;RO=0;RPL=43;RPP=11.96;RPPR=0;RPR=64;RUN=1;SAF=58;SAP=4.65412;SAR=49;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:449:1,448:1:40:448:14738:-1322.18,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1636 NC_000962 4393590 . C G 4143.97 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=137;CIGAR=1X;DP=139;DPB=139;DPRA=0;EPP=6.57659;EPPR=5.18177;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=60;NS=1;NUMALT=1;ODDS=954.184;PAIRED=1;PAIREDR=1;PAO=0;PQA=0;PQR=0;PRO=0;QA=4626;QR=21;RO=1;RPL=73;RPP=4.29416;RPPR=5.18177;RPR=64;RUN=1;SAF=77;SAP=7.591;SAR=60;SRF=0;SRP=5.18177;SRR=1;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:453:0,453:0:0:453:15525:-1396.9,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1637 NC_000962 4397736 . C T 3438.21 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=111;CIGAR=1X;DP=111;DPB=111;DPRA=0;EPP=19.4626;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=791.678;PAIRED=0.990991;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3818;QR=0;RO=0;RPL=57;RPP=3.18637;RPPR=0;RPR=54;RUN=1;SAF=51;SAP=4.59489;SAR=60;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:569:0,569:0:0:569:20164:-1814.05,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1638 NC_000962 4400660 . ACCCGCCCGGA ACCGCCCGGA 1097.75 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=36;CIGAR=1M1D9M;DP=38;DPB=34.5455;DPRA=0;EPP=43.7857;EPPR=0;GTI=0;LEN=1;MEANALT=3;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=252.766;PAIRED=1;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=1219;QR=0;RO=0;RPL=8;RPP=27.1378;RPPR=0;RPR=28;RUN=1;SAF=27;SAP=22.5536;SAR=9;SRF=0;SRP=0;SRR=0;TYPE=del GT:DP:AD:RO:QR:AO:QA:GL 1:200:0,199:0:0:199:6822:-613.69,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1639 NC_000962 4407588 . T C 3691.98 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=122;CIGAR=1X;DP=122;DPB=122;DPRA=0;EPP=3.0815;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=850.11;PAIRED=0.97541;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=4100;QR=0;RO=0;RPL=52;RPP=8.77716;RPPR=0;RPR=70;RUN=1;SAF=60;SAP=3.0815;SAR=62;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:443:0,443:0:0:443:15147:-1362.89,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1640 NC_000962 4407927 . T G 3381.57 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=112;CIGAR=1X;DP=112;DPB=112;DPRA=0;EPP=3.70827;EPPR=0;GTI=0;LEN=1;MEANALT=1;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=778.636;PAIRED=0.991071;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3755;QR=0;RO=0;RPL=68;RPP=14.1779;RPPR=0;RPR=44;RUN=1;SAF=55;SAP=3.08785;SAR=57;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:547:0,547:0:0:547:19336:-1739.57,0 |
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a074dbf35f0c
planemo upload for repository https://github.com/COMBAT-TB/vcf_snps_utils commit 443745757700041f56328d9f35343178ea48bbb9
sanbi-uwc
parents:
diff
changeset
|
1641 NC_000962 4408923 . C T 2818.13 PASS AB=0;ABP=0;AC=1;AF=1;AN=1;AO=93;CIGAR=1X;DP=94;DPB=94;DPRA=0;EPP=5.83555;EPPR=0;GTI=0;LEN=1;MEANALT=2;MQM=60;MQMR=0;NS=1;NUMALT=1;ODDS=648.899;PAIRED=0.978495;PAIREDR=0;PAO=0;PQA=0;PQR=0;PRO=0;QA=3131;QR=0;RO=0;RPL=49;RPP=3.59403;RPPR=0;RPR=44;RUN=1;SAF=45;SAP=3.22044;SAR=48;SRF=0;SRP=0;SRR=0;TYPE=snp GT:DP:AD:RO:QR:AO:QA:GL 1:426:0,426:0:0:426:14063:-1265.43,0 |