# HG changeset patch # User biomonika # Date 1410478488 14400 # Node ID 55a373f7e6690f3ccc0fd26d22c8208d65fc2287 # Parent ea52ef8d7f3a67cdf0a8c902a169e1bda64912d0 Deleted selected files diff -r ea52ef8d7f3a -r 55a373f7e669 A.sh --- a/A.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,242 +0,0 @@ -#!/bin/bash -set -e; -email_address_of_user=$1; -echo "email: " $email_address_of_user; - -newline () { - echo -e "\n---"; -} -#variables -mother_contigs=`cat references/reference_contig_names | wc -l`; -echo -e "A variant"; newline; dir=A/; mkdir -p $dir; - -#DAUGHTER PREPARE FILES - - grep -E '#|AF1=0.' vcf/aln_0.85_daughter.vcf | cut -f1 | uniq >${dir}daughter_on_mother_one_allele_heterozygous_ids.vcf - perl -MFile::Slurp -ne 'BEGIN{@a{split(/\s/,read_file("A/daughter_on_mother_one_allele_heterozygous_ids.vcf"))}=()}; $b=$_; @data = split(/\s/, $b); $res=$data[0]; print if exists $a{$res}' vcf/aln_0.85_daughter.vcf | sort | uniq | sed '/#/d' >${dir}daughter_on_mother_heterozygous.vcf - - #be aware that if there are more snps, one with allele frequency '0.' is enough for the whole contig to be in contig_pos_ref_heterozygous - sed '/#/d' ${dir}daughter_on_mother_heterozygous.vcf | perl -pe 's/(comp\S+)\t(\d+)\t\.\t(\S+)\t(\S+).+/$1\t$2\t$3\t$4/' | sort >${dir}contig_pos_ref_alt_daughter_heterozygous - cut -f 1 ${dir}contig_pos_ref_alt_daughter_heterozygous | sort | uniq >${dir}contigs_where_daughter_heterozygous - - sed '/#/d' vcf/aln_0.85_daughter.vcf | perl -pe 's/(comp\S+)\t(\d+)\t\.\t(\S+)\t(\S+).+/$1\t$2\t$3\t$4/' | sort >${dir}contig_pos_ref_alt_daughter - -#FATHER PREPARE FILES - - sed '/#/d' vcf/aln_0.85_father.vcf | perl -pe 's/(comp\S+)\t(\d+)\t\.\t(\S+)\t(\S+).+/$1\t$2\t$3\t$4/' | sort >${dir}contig_pos_ref_alt_father - -#SON PREPARE FILES - - sed '/#/d' vcf/aln_0.85_son.vcf | perl -pe 's/(comp\S+)\t(\d+)\t\.\t(\S+)\t(\S+).+/$1\t$2\t$3\t$4/' | sort >${dir}contig_pos_ref_alt_son - - -echo -e "Step 0 of 3.\nMother must be homozygote."; - sed '/#/d' vcf/aln_0.85_mother.vcf | cut -f1 | sort | uniq >${dir}contigs_where_mother_differs_from_mother; - differing=`cat ${dir}contigs_where_mother_differs_from_mother | wc -l`; - - perl -MFile::Slurp -ne 'BEGIN{@a{split(/\s/,read_file("A/contigs_where_mother_differs_from_mother"))}=()}; $b=$_; @data = split(/\s/, $b); $res=$data[0]; print if !exists $a{$res}' references/reference_contig_names | sort | uniq >${dir}contigs_where_mother_same_as_mother_unchecked - - #check whether mother really does not contain any father variants - wrong_hits=0; - cat ${dir}contigs_where_mother_same_as_mother_unchecked | (while read line; do - contig_check=`./scripts/test.sh ${line} 4 ${dir}contig_pos_ref_alt_father bam/aln_cleaned_sorted_deduplicated_mother.bam A` - if [[ $contig_check -gt 0 ]]; then - echo "contig: " ${line} "contig_check:" $contig_check >>kontrola; - echo "DID NOT PASS "${line}; - wrong_hits=`expr $wrong_hits + 1` - else - #echo "0K"; - echo ${line} >>${dir}contigs_where_mother_same_as_mother - fi - done; - echo "There is this number of wrong variants: "$wrong_hits; - ) - - same=`cat ${dir}contigs_where_mother_same_as_mother | wc -l`; - echo -e "Number of contigs, where mother differs: $differing."; - echo -e "NUMBER of contigs AFTER just this filter: $same/$mother_contigs"; - - newline; - -echo -e "Step 1 of 3.\nSons must be same as mother."; - #First we have to get rid of the intersection with father, possible Y variants do not matter in the calculation - comm -12 ${dir}contig_pos_ref_alt_son ${dir}contig_pos_ref_alt_father | sort | uniq >${dir}possible_Yvariants - cut -f 1 ${dir}possible_Yvariants | sort | uniq >${dir}contigs_with_possible_Yvariants - - #if these possible_Yvariants are in the daughter, they are not Y variants - comm -12 ${dir}contig_pos_ref_alt_daughter ${dir}possible_Yvariants | sort | uniq >${dir}NOT_Yvariants - cut -f 1 ${dir}NOT_Yvariants | sort | uniq >${dir}contigs_with_NOT_Yvariants - - perl -MFile::Slurp -ne 'BEGIN{@a{split(/\s/,read_file("A/contigs_with_NOT_Yvariants"))}=()}; $b=$_; @data = split(/\s/, $b); $res=$data[0]; print if !exists $a{$res}' ${dir}contigs_with_possible_Yvariants | sort | uniq >${dir}contigs_with_Yvariants - - #contig_pos_ref_alt_Yvariants_confirmed; we deplet just those contigs that contain Y variants and then decide if sons are same as mother - -cat ${dir}contigs_with_Yvariants | (while read line; do - grep ${line} ${dir}contig_pos_ref_alt_father | sort >>${dir}contig_pos_ref_alt_Yvariants_confirmed_pro -done; -) - cat ${dir}contig_pos_ref_alt_Yvariants_confirmed_pro | sort >${dir}contig_pos_ref_alt_Yvariants_confirmed; - - comm -23 ${dir}contig_pos_ref_alt_son ${dir}contig_pos_ref_alt_Yvariants_confirmed | cut -f 1 | sort | uniq >${dir}contigs_where_sons_variation_not_caused_by_father - #rm ${dir}contig_pos_ref_alt_Yvariants_confirmed_pro; - - perl -MFile::Slurp -ne 'BEGIN{@a{split(/\s/,read_file("A/contigs_where_sons_variation_not_caused_by_father"))}=()}; $b=$_; @data = split(/\s/, $b); $res=$data[0]; print if !exists $a{$res}' references/reference_contig_names | sort | uniq >${dir}contigs_where_sons_same_as_mother - - same=`cat ${dir}contigs_where_sons_same_as_mother | wc -l`; - echo -e "Number of contigs, where sons differ: $differing."; - echo -e "NUMBER of contigs AFTER just this filter: $same/$mother_contigs"; - - - newline; -echo -e "Step 2 of 3.\nFather must differ from mother."; - sed '/#/d' vcf/aln_0.85_father.vcf | cut -f1 | sort | uniq >${dir}/contigs_where_father_differs_from_mother; - differing=`cat ${dir}contigs_where_father_differs_from_mother | wc -l`; - echo -e "NUMBER of contigs AFTER just this filter: $differing/$mother_contigs"; - - newline; - -echo -e "Step 3 of 3.\nDaughter must have mother and father alleles."; - #we need daughter to have alleles from both parents (AF stands for 'allele frequency') - - #unique lines in first file mean that those are not subsets of father variants - otherwise they would be in common - comm -23 ${dir}contig_pos_ref_alt_daughter_heterozygous ${dir}contig_pos_ref_alt_father | cut -f 1 | sort | uniq >${dir}daughter_NOT_subset_of_father - - perl -MFile::Slurp -ne 'BEGIN{@a{split(/\s/,read_file("A/daughter_NOT_subset_of_father"))}=()}; $b=$_; @data = split(/\s/, $b); $res=$data[0]; print if !exists $a{$res}' ${dir}contigs_where_daughter_heterozygous | sort | uniq >${dir}/contigs_where_daughter_from_parents - - -same=`cat ${dir}contigs_where_daughter_from_parents | wc -l`; - echo -e "NUMBER of contigs AFTER just this filter: $same/$mother_contigs"; - - newline; - -echo -e "Step 4 of 3.\nDaughters and sons can not have any intersection."; - comm -12 ${dir}contig_pos_ref_alt_daughter ${dir}contig_pos_ref_alt_son >${dir}sons_and_daughters_similiar - cut -f 1 ${dir}sons_and_daughters_similiar | sort | uniq >${dir}contigs_where_sons_and_daughters_similiar - - perl -MFile::Slurp -ne 'BEGIN{@a{split(/\s/,read_file("A/contigs_where_sons_and_daughters_similiar"))}=()}; $b=$_; @data = split(/\s/, $b); $res=$data[0]; print if !exists $a{$res}' ${dir}contigs_where_daughter_heterozygous | sort | uniq >${dir}contigs_where_daughters_and_sons_different_pro - - #check whether they are really different (small amount of variants is also wrong) - - echo -e "daughter contains son variants?" - #check whether daughter really does not contain any of son variants - wrong_hits=0; - cat ${dir}contigs_where_daughters_and_sons_different_pro | (while read line; do - contig_check=`./scripts/test.sh ${line} 4 ${dir}contig_pos_ref_alt_daughter bam/aln_cleaned_sorted_deduplicated_son.bam A` - if [[ $contig_check -gt 0 ]]; then - echo "DID NOT PASS "${line}; - echo "daughter contains son variants DID NOT PASS "${line} >>kontrola - wrong_hits=`expr $wrong_hits + 1` - else - #echo "0K"; - echo ${line} >>${dir}contigs_where_daughters_and_sons_different_un1 - fi - done; - echo "There is this number of wrong variants: "$wrong_hits; - ) - - echo -e "son contains daughter variants?" - #check whether son really does not contain any of daughter variants - wrong_hits=0; - cat ${dir}contigs_where_daughters_and_sons_different_pro | (while read line; do - contig_check=`./scripts/test.sh ${line} 4 ${dir}contig_pos_ref_alt_son bam/aln_cleaned_sorted_deduplicated_daughter.bam A` - if [[ $contig_check -gt 0 ]]; then - echo "DID NOT PASS "${line}; - echo "son contains daughter variants DID NOT PASS "${line} >>kontrola - wrong_hits=`expr $wrong_hits + 1` - else - #echo "0K"; - echo ${line} >>${dir}contigs_where_daughters_and_sons_different_un2 - fi - done; - echo "There is this number of wrong variants: "$wrong_hits; - ) - - comm -12 ${dir}contigs_where_daughters_and_sons_different_un1 ${dir}contigs_where_daughters_and_sons_different_un2 | sort >${dir}contigs_where_daughters_and_sons_different_un - - cat ${dir}contigs_where_daughters_and_sons_different_un | sort | uniq >${dir}contigs_where_daughters_and_sons_different; - -#rm ${dir}contigs_where_daughters_and_sons_different_un1 ${dir}contigs_where_daughters_and_sons_different_un2 ${dir}contigs_where_daughters_and_sons_different_un; - - same=`cat ${dir}contigs_where_daughters_and_sons_different | wc -l`; - echo -e "NUMBER of contigs AFTER just this filter: $same/$mother_contigs"; - -echo -e "Calculating intersection of candidate contigs from steps 0-3."; - - comm -12 ${dir}contigs_where_mother_same_as_mother ${dir}contigs_where_sons_same_as_mother | sort >${dir}first_couple; - comm -12 ${dir}contigs_where_father_differs_from_mother ${dir}contigs_where_daughter_from_parents | sort >${dir}second_couple; - comm -12 ${dir}first_couple ${dir}second_couple | sort >${dir}set1 - comm -12 ${dir}contigs_where_daughters_and_sons_different ${dir}set1 | sort >${dir}set2; - -echo -e "Step -1 of 3.\nCoverage must be sufficient."; - touch ${dir}contigs_with_sufficient_coverage; - -cat ${dir}set2 | (while read line; do - - coverage_check1=`./scripts/get_average_contig_coverage.sh 0.75 ${line} bam/aln_cleaned_sorted_deduplicated_mother.bam 2>/dev/null &`; - coverage_check2=`./scripts/get_average_contig_coverage.sh 0.75 ${line} bam/aln_cleaned_sorted_deduplicated_father.bam 2>/dev/null &`; - coverage_check3=`./scripts/get_average_contig_coverage.sh 0.75 ${line} bam/aln_cleaned_sorted_deduplicated_son.bam 2>/dev/null &`; - coverage_check4=`./scripts/get_average_contig_coverage.sh 0.75 ${line} bam/aln_cleaned_sorted_deduplicated_daughter.bam 2>/dev/null &`; - - coverage_check=$(($coverage_check1 + $coverage_check2 + $coverage_check3 + $coverage_check4)) - if [[ $coverage_check -gt 0 ]]; then - echo "LOW COVERAGE "${line}; - else - #echo "0K"; - echo ${line} >>${dir}contigs_with_sufficient_coverage - fi -done; -) - - - cat ${dir}contigs_with_sufficient_coverage | sort >X_results.txt; - #rm ${dir}first_couple; #rm ${dir}second_couple; #rm ${dir}set1; #rm ${dir}set2; - - #have we found any genes? - - final_contigs=`cat X_results.txt | wc -l`; - echo -e "$final_contigs contigs found fulfilling criteria."; - - - if [ $final_contigs -gt 0 ]; then - #we found SOME genes - - #prepare files for sorting into the categories - samtools view -bq 1 bam/aln_cleaned_sorted_deduplicated_mother.bam >${dir}high_score_mother.bam & - samtools view -bq 1 bam/aln_cleaned_sorted_deduplicated_father.bam >${dir}high_score_father.bam & - samtools view -bq 1 bam/aln_cleaned_sorted_deduplicated_daughter.bam >${dir}high_score_daughter.bam & - samtools view -bq 1 bam/aln_cleaned_sorted_deduplicated_son.bam >${dir}high_score_son.bam & - wait; - - samtools index ${dir}high_score_mother.bam & - samtools index ${dir}high_score_father.bam & - samtools index ${dir}high_score_daughter.bam & - samtools index ${dir}high_score_son.bam & - wait; - - #get sequences based on ids - perl scripts/get_sequences_based_on_ids.pl references/reference.fasta X_results.txt >X_results_sequences.txt; - - get_results_in_bam_file () - { - for ARG in "$@"; - do - ./scripts/createBamFromResults.sh X_results.txt bam/aln_cleaned_sorted_deduplicated_${ARG}.bam bam/${ARG}.bam; - samtools index bam/${ARG}.bam; - done; - } - - get_results_in_bam_file mother father daughter son; - wait; - #send BAM files with corresponding contigs - mutt -s "LINKYX: Results of computation for X-linked genes" $email_address_of_user -a bam/mother.bam -a bam/mother.bam.bai -a bam/father.bam -a bam/father.bam.bai -a bam/daughter.bam -a bam/daughter.bam.bai -a bam/son.bam -a bam/son.bam.bai < messages_to_user/message_results_sentBamX; - - else - #we found NO genes - echo "No sequences found." >X_results.txt; - echo "No sequences found." >X_results_sequences.txt; - fi - - newline; -echo -e "Writing output to X_results.txt"; -echo -e "Total number of found X-linked genes: $final_contigs"; - 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"tool_version": "1.0.0", - "type": "tool", - "user_outputs": [] - } - } -} \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 LINKYX_identify_X_linked_SNPs.sh --- a/LINKYX_identify_X_linked_SNPs.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,311 +0,0 @@ -#!/bin/bash - -#LINKYX_PATH set during toolshed installation - -results=$1 #X-linked candidates written here - -reference=${2} -mother_bam=${3} -mother_vcf=${4} -father_bam=${5} -father_vcf=${6} -daughter_bam=${7} -daughter_vcf=${8} -son_bam=${9} -son_vcf=${10} - -results_fasta=${11} - -file_exists () - { - for ARG in "$@"; - do - if [ ! -f ${ARG} ]; then - echo "File $ARG not found"; - fi - done; - } - -#index bam files - -index_bam_file () - { - for ARG in "$@"; - do - bam_file_index=${ARG}".bai" - if [ -e $bam_file_index ]; - then - echo "Index already exists. Not being created again."; - else - samtools index ${ARG} & - fi - done; - } - -idxstats_bam_file () - { - #get statistics about mapped and unmapped reads for every contig - echo "Idxstats" $1 $2; - stat_name=statistics/stat_${2}; - samtools idxstats $1 >$stat_name #statistics for bam files mapping on male reference - - #with MAPQ>0 - samtools view -bq 1 $1 >statistics/high_score_${2}.bam - samtools index statistics/high_score_${2}.bam - - stat_high_name=statistics/stat_${2}_high - samtools idxstats statistics/high_score_${2}.bam >$stat_high_name #statistics for bam files mapping on male reference with MAPQ>0 - } - - -file_exists $testing $results $reference $mother_bam $mother_vcf $father_bam $father_vcf $daughter_bam $daughter_vcf $son_bam $son_vcf #check if all input files are present -index_bam_file $mother_bam $father_bam $daughter_bam $son_bam #index bam files - -#retrieve statistics -mkdir -p statistics; -idxstats_bam_file $mother_bam mother -idxstats_bam_file $father_bam father -idxstats_bam_file $daughter_bam daughter -idxstats_bam_file $son_bam son - -newline () { - echo -e "\n---"; -} - -#variables - -dir="A/"; -echo -e "A variant"; newline; mkdir -p A references bam; - -grep ">" $reference | sed 's/>//g' >references/reference_contig_names -mother_contigs=`cat references/reference_contig_names | wc -l`; - -#DAUGHTER PREPARE FILES - - grep -E '#|AF1=0.' $daughter_vcf | cut -f1 | uniq >${dir}daughter_on_mother_one_allele_heterozygous_ids.vcf - perl -MFile::Slurp -ne 'BEGIN{@a{split(/\s/,read_file("A/daughter_on_mother_one_allele_heterozygous_ids.vcf"))}=()}; $b=$_; @data = split(/\s/, $b); $res=$data[0]; print if exists $a{$res}' $daughter_vcf | sort | uniq | sed '/#/d' >${dir}daughter_on_mother_heterozygous.vcf - - #be aware that if there are more snps, one with allele frequency '0.' is enough for the whole contig to be in contig_pos_ref_heterozygous - sed '/#/d' ${dir}daughter_on_mother_heterozygous.vcf | perl -pe 's/(comp\S+)\t(\d+)\t\.\t(\S+)\t(\S+).+/$1\t$2\t$3\t$4/' | sort >${dir}contig_pos_ref_alt_daughter_heterozygous - cut -f 1 ${dir}contig_pos_ref_alt_daughter_heterozygous | sort | uniq >${dir}contigs_where_daughter_heterozygous - - sed '/#/d' $daughter_vcf | perl -pe 's/(comp\S+)\t(\d+)\t\.\t(\S+)\t(\S+).+/$1\t$2\t$3\t$4/' | sort >${dir}contig_pos_ref_alt_daughter - -#FATHER PREPARE FILES - - sed '/#/d' $father_vcf | perl -pe 's/(comp\S+)\t(\d+)\t\.\t(\S+)\t(\S+).+/$1\t$2\t$3\t$4/' | sort >${dir}contig_pos_ref_alt_father - -#SON PREPARE FILES - - sed '/#/d' $son_vcf | perl -pe 's/(comp\S+)\t(\d+)\t\.\t(\S+)\t(\S+).+/$1\t$2\t$3\t$4/' | sort >${dir}contig_pos_ref_alt_son - - -echo -e "Step 0 of 3.\nMother must be homozygote."; - sed '/#/d' $mother_vcf | cut -f1 | sort | uniq >${dir}contigs_where_mother_differs_from_mother; - differing=`cat ${dir}contigs_where_mother_differs_from_mother | wc -l`; - - perl -MFile::Slurp -ne 'BEGIN{@a{split(/\s/,read_file("A/contigs_where_mother_differs_from_mother"))}=()}; $b=$_; @data = split(/\s/, $b); $res=$data[0]; print if !exists $a{$res}' references/reference_contig_names | sort | uniq >${dir}contigs_where_mother_same_as_mother_unchecked - - #check whether mother really does not contain any father variants - wrong_hits=0; - cat ${dir}contigs_where_mother_same_as_mother_unchecked | (while read line; do - contig_check=`bash ${LINKYX_PATH}/scripts/test.sh ${line} 4 ${dir}contig_pos_ref_alt_father $mother_bam A` - if [[ $contig_check -gt 0 ]]; then - echo "contig: " ${line} "contig_check:" $contig_check >>kontrola; - echo "DID NOT PASS "${line}; - wrong_hits=`expr $wrong_hits + 1` - else - #echo "0K"; - echo ${line} >>${dir}contigs_where_mother_same_as_mother - fi - done; - echo "There is this number of wrong variants: "$wrong_hits; - ) - - same=`cat ${dir}contigs_where_mother_same_as_mother | wc -l`; - echo -e "Number of contigs, where mother differs: $differing."; - echo -e "NUMBER of contigs AFTER just this filter: $same/$mother_contigs"; - -newline; - -echo -e "Step 1 of 3.\nSons must be same as mother."; - #First we have to get rid of the intersection with father, possible Y variants do not matter in the calculation - comm -12 ${dir}contig_pos_ref_alt_son ${dir}contig_pos_ref_alt_father | sort | uniq >${dir}possible_Yvariants - cut -f 1 ${dir}possible_Yvariants | sort | uniq >${dir}contigs_with_possible_Yvariants - - #if these possible_Yvariants are in the daughter, they are not Y variants - comm -12 ${dir}contig_pos_ref_alt_daughter ${dir}possible_Yvariants | sort | uniq >${dir}NOT_Yvariants - cut -f 1 ${dir}NOT_Yvariants | sort | uniq >${dir}contigs_with_NOT_Yvariants - - perl -MFile::Slurp -ne 'BEGIN{@a{split(/\s/,read_file("A/contigs_with_NOT_Yvariants"))}=()}; $b=$_; @data = split(/\s/, $b); $res=$data[0]; print if !exists $a{$res}' ${dir}contigs_with_possible_Yvariants | sort | uniq >${dir}contigs_with_Yvariants - - #contig_pos_ref_alt_Yvariants_confirmed; we deplet just those contigs that contain Y variants and then decide if sons are same as mother - - touch ${dir}contig_pos_ref_alt_Yvariants_confirmed_pro #todo - needs to be created? -cat ${dir}contigs_with_Yvariants | (while read line; do - grep ${line} ${dir}contig_pos_ref_alt_father | sort >>${dir}contig_pos_ref_alt_Yvariants_confirmed_pro -done; -) - cat ${dir}contig_pos_ref_alt_Yvariants_confirmed_pro | sort >${dir}contig_pos_ref_alt_Yvariants_confirmed; - - comm -23 ${dir}contig_pos_ref_alt_son ${dir}contig_pos_ref_alt_Yvariants_confirmed | cut -f 1 | sort | uniq >${dir}contigs_where_sons_variation_not_caused_by_father - #rm ${dir}contig_pos_ref_alt_Yvariants_confirmed_pro; - - perl -MFile::Slurp -ne 'BEGIN{@a{split(/\s/,read_file("A/contigs_where_sons_variation_not_caused_by_father"))}=()}; $b=$_; @data = split(/\s/, $b); $res=$data[0]; print if !exists $a{$res}' references/reference_contig_names | sort | uniq >${dir}contigs_where_sons_same_as_mother - - same=`cat ${dir}contigs_where_sons_same_as_mother | wc -l`; - echo -e "Number of contigs, where sons differ: $differing."; - echo -e "NUMBER of contigs AFTER just this filter: $same/$mother_contigs"; - - - newline; -echo -e "Step 2 of 3.\nFather must differ from mother."; - sed '/#/d' $father_vcf | cut -f1 | sort | uniq >${dir}/contigs_where_father_differs_from_mother; - differing=`cat ${dir}contigs_where_father_differs_from_mother | wc -l`; - echo -e "NUMBER of contigs AFTER just this filter: $differing/$mother_contigs"; - - newline; - -echo -e "Step 3 of 3.\nDaughter must have mother and father alleles."; - #we need daughter to have alleles from both parents (AF stands for 'allele frequency') - - #unique lines in first file mean that those are not subsets of father variants - otherwise they would be in common - comm -23 ${dir}contig_pos_ref_alt_daughter_heterozygous ${dir}contig_pos_ref_alt_father | cut -f 1 | sort | uniq >${dir}daughter_NOT_subset_of_father - - perl -MFile::Slurp -ne 'BEGIN{@a{split(/\s/,read_file("A/daughter_NOT_subset_of_father"))}=()}; $b=$_; @data = split(/\s/, $b); $res=$data[0]; print if !exists $a{$res}' ${dir}contigs_where_daughter_heterozygous | sort | uniq >${dir}/contigs_where_daughter_from_parents - - -same=`cat ${dir}contigs_where_daughter_from_parents | wc -l`; - echo -e "NUMBER of contigs AFTER just this filter: $same/$mother_contigs"; - - newline; - -echo -e "Step 4 of 3.\nDaughters and sons can not have any intersection."; - comm -12 ${dir}contig_pos_ref_alt_daughter ${dir}contig_pos_ref_alt_son >${dir}sons_and_daughters_similiar - cut -f 1 ${dir}sons_and_daughters_similiar | sort | uniq >${dir}contigs_where_sons_and_daughters_similiar - - perl -MFile::Slurp -ne 'BEGIN{@a{split(/\s/,read_file("A/contigs_where_sons_and_daughters_similiar"))}=()}; $b=$_; @data = split(/\s/, $b); $res=$data[0]; print if !exists $a{$res}' ${dir}contigs_where_daughter_heterozygous | sort | uniq >${dir}contigs_where_daughters_and_sons_different_pro - - #check whether they are really different (small amount of variants is also wrong) - - echo -e "daughter contains son variants?" - #check whether daughter really does not contain any of son variants - wrong_hits=0; - cat ${dir}contigs_where_daughters_and_sons_different_pro | (while read line; do - contig_check=`bash ${LINKYX_PATH}/scripts/test.sh ${line} 4 ${dir}contig_pos_ref_alt_daughter $son_bam A` - if [[ $contig_check -gt 0 ]]; then - echo "DID NOT PASS "${line}; - echo "daughter contains son variants DID NOT PASS "${line} >>kontrola - wrong_hits=`expr $wrong_hits + 1` - else - #echo "0K"; - echo ${line} >>${dir}contigs_where_daughters_and_sons_different_un1 - fi - done; - echo "There is this number of wrong variants: "$wrong_hits; - ) - - echo -e "son contains daughter variants?" - #check whether son really does not contain any of daughter variants - wrong_hits=0; - cat ${dir}contigs_where_daughters_and_sons_different_pro | (while read line; do - contig_check=`bash ${LINKYX_PATH}/scripts/test.sh ${line} 4 ${dir}contig_pos_ref_alt_son $daughter_bam A` - if [[ $contig_check -gt 0 ]]; then - echo "DID NOT PASS "${line}; - echo "son contains daughter variants DID NOT PASS "${line} >>kontrola - wrong_hits=`expr $wrong_hits + 1` - else - #echo "0K"; - echo ${line} >>${dir}contigs_where_daughters_and_sons_different_un2 - fi - done; - echo "There is this number of wrong variants: "$wrong_hits; - ) - - comm -12 ${dir}contigs_where_daughters_and_sons_different_un1 ${dir}contigs_where_daughters_and_sons_different_un2 | sort >${dir}contigs_where_daughters_and_sons_different_un - - cat ${dir}contigs_where_daughters_and_sons_different_un | sort | uniq >${dir}contigs_where_daughters_and_sons_different; - -#rm ${dir}contigs_where_daughters_and_sons_different_un1 ${dir}contigs_where_daughters_and_sons_different_un2 ${dir}contigs_where_daughters_and_sons_different_un; - - same=`cat ${dir}contigs_where_daughters_and_sons_different | wc -l`; - echo -e "NUMBER of contigs AFTER just this filter: $same/$mother_contigs"; - - echo -e "Calculating intersection of candidate contigs from steps 0-3."; - - comm -12 ${dir}contigs_where_mother_same_as_mother ${dir}contigs_where_sons_same_as_mother | sort >${dir}first_couple; - comm -12 ${dir}contigs_where_father_differs_from_mother ${dir}contigs_where_daughter_from_parents | sort >${dir}second_couple; - comm -12 ${dir}first_couple ${dir}second_couple | sort >${dir}set1 - comm -12 ${dir}contigs_where_daughters_and_sons_different ${dir}set1 | sort >${dir}set2; - -cat ${dir}set2 >>results; #todo remove -echo -e "Number of contigs after intersection: " `cat ${dir}set2 | wc -l`; - -echo -e "Step -1 of 3.\nCoverage must be sufficient."; - touch ${dir}contigs_with_sufficient_coverage; - -cat ${dir}set2 | (while read line; do - - coverage_check1=`bash ${LINKYX_PATH}/scripts/get_average_contig_coverage.sh 0.75 ${line} $mother_bam $reference 2>/dev/null &`; - coverage_check2=`bash ${LINKYX_PATH}/scripts/get_average_contig_coverage.sh 0.75 ${line} $father_bam $reference 2>/dev/null &`; - coverage_check3=`bash ${LINKYX_PATH}/scripts/get_average_contig_coverage.sh 0.75 ${line} $son_bam $reference 2>/dev/null &`; - coverage_check4=`bash ${LINKYX_PATH}/scripts/get_average_contig_coverage.sh 0.75 ${line} $daughter_bam $reference 2>/dev/null &`; - - #echo "coverage check: " $coverage_check1 $coverage_check2 $coverage_check3 $coverage_check4 - - coverage_check=$(($coverage_check1 + $coverage_check2 + $coverage_check3 + $coverage_check4)) - if [[ $coverage_check -gt 0 ]]; then - echo "LOW COVERAGE "${line}; - else - echo "COVERAGE 0K"; - echo ${line} >>${dir}contigs_with_sufficient_coverage - fi -done; -) - - cat ${dir}contigs_with_sufficient_coverage | sort >X_results.txt; - -#have we found any genes? - final_contigs=`cat X_results.txt | wc -l`; - echo -e "$final_contigs contigs found fulfilling criteria."; - - if [ $final_contigs -gt 0 ]; then - #we found SOME genes - - #retrieve sequences in fasta - perl ${LINKYX_PATH}/scripts/get_sequences_based_on_ids.pl $reference X_results.txt >X_results_sequences.fasta; - #sort sequences - perl ${LINKYX_PATH}/scripts/sorting.pl A/ $reference ${LINKYX_PATH} >>$results - - get_results_in_bam_file () - { - #candidates full_bam_file candidates_bam_file - cat X_results.txt | xargs samtools view -F 4 -b $1 > $2; - samtools index $2 - } - - get_results_in_bam_file $mother_bam ${12} #argument for output bam file mother - get_results_in_bam_file $father_bam ${13} #argument for output bam file father - get_results_in_bam_file $daughter_bam ${14} #argument for output bam file daughter - get_results_in_bam_file $son_bam ${15} #argument for output bam file son - wait; - - #send BAM files with corresponding contigs - #mutt -s "LINKYX: Results of computation for X-linked genes" $email_address_of_user -a bam/mother.bam -a bam/mother.bam.bai -a bam/father.bam -a bam/father.bam.bai -a bam/daughter.bam -a bam/daughter.bam.bai -a bam/son.bam -a bam/son.bam.bai < messages_to_user/message_results_sentBamX; - - else - #we found NO genes - echo "No sequences found." >X_results.txt; - echo "No sequences found." >X_results_sequences.fasta; - fi - - newline; -echo -e "Writing output to X_results.txt"; -echo -e "Total number of found X-linked genes: $final_contigs"; - -#TEST OUTPUT - cat X_results.txt >>$results - cat X_results_sequences.fasta >>$results_fasta - ls -lah */* >>$results - - diff -r ea52ef8d7f3a -r 55a373f7e669 LINKYX_identify_X_linked_SNPs.xml --- a/LINKYX_identify_X_linked_SNPs.xml Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,40 +0,0 @@ - - Identify X linked contigs from cross - - LINKYX_PATH - SAMTOOLS - samtools - bioperl - - LINKYX_identify_X_linked_SNPs.sh $output $input1 $input2 $input3 $input4 $input5 $input6 $input7 $input8 $input9 $output1 $output2 $output3 $output4 $output5 - - - - - - - - - - - - - - - - - - - - - - - - - - - - This tool identifies X linked contigs from cross (represented as 4 VCF files). - - - \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 LINKYX_identify_Y_linked_SNPs.sh --- a/LINKYX_identify_Y_linked_SNPs.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,114 +0,0 @@ -#!/bin/bash - -#LINKYX_PATH set during toolshed installation - -results=$1 #X-linked candidates written here - -reference=${2} -mother_male_bam=${3} -father_male_bam=${4} -daughter_male_bam=${5} -son_male_bam=${6} - -results_fasta=${7} - -mkdir -p Y references; dir="Y/"; -grep ">" $reference | sed 's/>//g' >references/male_contig_names - -file_exists () - { - for ARG in "$@"; - do - if [ ! -f ${ARG} ]; then - echo "File $ARG not found"; - fi - done; - } - -#index bam files - -index_bam_file () - { - for ARG in "$@"; - do - bam_file_index=${ARG}".bai" - if [ -e $bam_file_index ]; - then - echo "Index already exists. Not being created again."; - else - samtools index ${ARG}; - fi - done; - } - -#get statistics about mapped and unmapped reads for every contig - -idxstats_bam_file () - { - #get statistics about mapped and unmapped reads for every contig - echo "Idxstats" $1 $2; - stat_male_name=statistics/stat_male_${2}; - samtools idxstats $1 >$stat_male_name #statistics for bam files mapping on male reference - - #with MAPQ>0 - samtools view -bq 1 $1 >statistics/high_score_male_${2}.bam - samtools index statistics/high_score_male_${2}.bam - - stat_male_high_name=statistics/stat_male_${2}_high - samtools idxstats statistics/high_score_male_${2}.bam >$stat_male_high_name #statistics for bam files mapping on male reference with MAPQ>0 - } - -echo "Checking existence of input bam files." -file_exists $mother_male_bam $father_male_bam $son_male_bam $daughter_male_bam -index_bam_file $mother_male_bam $father_male_bam $son_male_bam $daughter_male_bam - -#retrieve statistics -mkdir -p statistics; -idxstats_bam_file $mother_male_bam mother -idxstats_bam_file $father_male_bam father -idxstats_bam_file $daughter_male_bam daughter -idxstats_bam_file $son_male_bam son - -#read statistics -reads_number_mother=`awk '{read_number+=($3+$4)} END {print read_number}' statistics/stat_male_mother`; -reads_number_father=`awk '{read_number+=($3+$4)} END {print read_number}' statistics/stat_male_father`; -reads_number_daughter=`awk '{read_number+=($3+$4)} END {print read_number}' statistics/stat_male_daughter`; -reads_number_son=`awk '{read_number+=($3+$4)} END {print read_number}' statistics/stat_male_son`; - -echo "Reads numbers: " $reads_number_mother $reads_number_father $reads_number_daughter $reads_number_son - -#filter contigs, which are candidate Y genes - very divergent from their X counterparts -perl ${LINKYX_PATH}/scripts/filter_diverged_Y_contigs.pl $reads_number_mother $reads_number_father $reads_number_daughter $reads_number_son $reference ${LINKYX_PATH} >Y_results.txt; - -echo "Y_results: " >>$results - -final_contigs=`cat Y_list | wc -l` -#have we found any genes? - -if [ $final_contigs -gt 0 ]; then - #we found SOME genes - #retrieve sequences in fasta - perl ${LINKYX_PATH}/scripts/get_sequences_based_on_ids.pl $reference Y_list >Y_results_sequences.fasta; - - get_results_in_bam_file () - { - #candidates full_bam_file candidates_bam_file - cat Y_list | xargs samtools view -F 4 -b $1 > $2; - samtools index $2 - } - - get_results_in_bam_file $mother_male_bam ${8} #argument for output bam file mother - get_results_in_bam_file $father_male_bam ${9} #argument for output bam file father - get_results_in_bam_file $daughter_male_bam ${10} #argument for output bam file daughter - get_results_in_bam_file $son_male_bam ${11} #argument for output bam file son - wait; -else - #we found NO genes - echo "No sequences found." >Y_results.txt; - echo "No sequences found." >Y_results_sequences.fasta; - fi - -#output results to Galaxy - cat Y_results.txt >>$results - cat Y_results_sequences.fasta >>$results_fasta - ls -lah */* >>$results diff -r ea52ef8d7f3a -r 55a373f7e669 LINKYX_identify_Y_linked_SNPs.xml --- a/LINKYX_identify_Y_linked_SNPs.xml Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,35 +0,0 @@ - - Identify Y linked contigs from cross - - LINKYX_PATH - SAMTOOLS - samtools - bioperl - - LINKYX_identify_Y_linked_SNPs.sh $output $input1 $input2 $input3 $input4 $input5 $output1 $output2 $output3 $output4 $output5 - - - - - - - - - - - - - - - - - - - - - - - This tool identifies Y linked contigs from cross (represented as 4 bam files mapped on male reference). - - - \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 LINKYX_mpileup_wrapper.sh --- a/LINKYX_mpileup_wrapper.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,8 +0,0 @@ -#!/bin/bash -results=$1; -bam_file=$2; -reference=$3; - -sorted_bam=${bam_file}_sorted - -samtools mpileup -uf $reference $bam_file 2>log.txt | bcftools view -p 0.85 -cgv - 2>log.txt >$results diff -r ea52ef8d7f3a -r 55a373f7e669 LINKYX_mpileup_wrapper.xml --- a/LINKYX_mpileup_wrapper.xml Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,28 +0,0 @@ - - Run mpileup with LINKYX-specific parameters - - LINKYX_PATH - SAMTOOLS - samtools - bioperl - - LINKYX_mpileup_wrapper.sh $output $input1 $input2 - - - - - - - - - - - - - - - - Run mpileup with LINKYX-specific parameters - - - \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 LINKYX_reformat_trinity_header.sh --- a/LINKYX_reformat_trinity_header.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,9 +0,0 @@ -#!/bin/bash - -results=$1 #reformatted fasta sequence written here -trinity_fasta=${2} - -perl -pe 's/(>[\S]+).+/$1/' $trinity_fasta >$results -samtools faidx $results - - diff -r ea52ef8d7f3a -r 55a373f7e669 LINKYX_reformat_trinity_header.xml --- a/LINKYX_reformat_trinity_header.xml Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,27 +0,0 @@ - - Reformat Trinity header - - LINKYX_PATH - SAMTOOLS - samtools - bioperl - - LINKYX_reformat_trinity_header.sh $output $input1 - - - - - - - - - - - - - - - Reformat Trinity header, keep only part until first space. - - - \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 README.txt --- a/README.txt Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,13 +0,0 @@ -LinkYX - -Fully automated pipeline for detection of sex linked genes using RNA-Seq data - -The installation is described on the project wiki page: -https://bitbucket.org/biomonika/linkyx/wiki/Home - -In order to install additional tools used in the workflow, please install following repository suite definition to the Galaxy: -https://testtoolshed.g2.bx.psu.edu/view/marten/suite_linkyx_bundle_0_1 - -Code repositary: bitbucket.org/biomonika/linkyx - -If you have any questions, please use following email address: biomonika@psu.edu \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 Y.sh --- a/Y.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,32 +0,0 @@ -#!/bin/bash -set -e; -email_address_of_user=$1; -echo "email: " $email_address_of_user; - -echo "Calculation of Y-linked genes started." -./scripts/prepare_statistics.sh; -echo "Statistics done"; - -#filter contigs, which are candidate Y genes - very divergent from their X counterparts -perl scripts/filter_diverged_Y_contigs.pl scripts/statistics/stat_mother scripts/statistics/stat_father scripts/statistics/stat_daughter scripts/statistics/stat_son >Y_results.txt; -perl scripts/get_sequences_based_on_ids.pl references/reference_male.fasta Y_list >Y_results_sequences.txt; - -if [[ -s Y_list ]] ; then - get_results_in_bam_file () - { - for ARG in "$@"; - do - ./scripts/createBamFromResults.sh Y_list bam/aln_cleaned_sorted_deduplicated_${ARG}_male.bam bam/${ARG}_male.bam; - samtools index bam/${ARG}_male.bam; - done; - } - - get_results_in_bam_file mother father daughter son; - wait; - #send BAM files with corresponding contigs - mutt -s "LINKYX: Results of computation for Y-linked genes" $email_address_of_user -a bam/mother_male.bam -a bam/mother_male.bam.bai -a bam/father_male.bam -a bam/father_male.bam.bai -a bam/daughter_male.bam -a bam/daughter_male.bam.bai -a bam/son_male.bam -a bam/son_male.bam.bai < messages_to_user/message_results_sentBamY; -else - #we found NO genes - echo "No sequences found." >Y_results.txt; - echo "No sequences found." >Y_results_sequences.txt; -fi \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/.DS_Store Binary file demo_files/.DS_Store has changed diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/daughter.bam Binary file demo_files/daughter.bam has changed diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/daughter.bam.bai Binary file demo_files/daughter.bam.bai has changed diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/daughter_1.fastq --- a/demo_files/daughter_1.fastq Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,516 +0,0 @@ -@HISEQ1:121:C0EP5ACXX:8:1301:12962:135792/1 -AATGGTCTCTCTCCTCTAAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGC -+ -HICEGFFGHGHHIIIIGGIJJIGGIIDE@GIIJIJCHGCHIEHIIJJIGDHJJFFEFEFEFBBDDDEACCEEBB=CBDDEDDCACC? -@HISEQ1:121:C0EP5ACXX:8:1105:5390:32380/1 -AAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCC -+ -IJJJJJJJJJJJJIJJJJJJJJJIJJJJJJIIJIJJJJJIJJJJJJJJHIJJJJGGEIHHE?EHFFFFECADCD;ACBCDDDEEACC -@HISEQ1:121:C0EP5ACXX:8:1301:11290:183940/1 -TCCTCTAAAACGCTCTCTCCTCTCTCTACAGTGTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAG -+ -IJJJIIJJJJIIJJIHIJGGGIGIIJIIJGHDHIJJJJJJJJJJJGIJJJHIHIIIIIHGIHFHHFFFFFDCECCDDDDDDDDDDC< -@HISEQ1:121:C0EP5ACXX:8:2207:5683:120579/1 -GTGTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTTGCTCCTCCCCTCTGTGCTTGTTTTC -+ -IIJIIIJIJJJIJJIJJIFGIJJJIJJJIJIIHGJJJIJJIHHHJHIIGJJIJIDGIJIJJEHFGFHFFFFCCCCDDCCDCDDDCD> -@HISEQ1:121:C0EP5ACXX:8:1301:12479:185948/1 -GAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAAGGGCANN -+ -JHHIIJJJJJIJJGGGHEDHHGHJFHHIIBFFIIFGIJIFIIJFGHJIIDIDACEEHHFFA=>>B@CDDCDDDDCDDDDDDDCDDDD -@HISEQ1:121:C0EP5ACXX:8:2103:4989:50580/1 -TCTCTCTCCTCTAAAACGCTCTCTCCTCTCTCTACAGTGTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGG -+ -ACGFHHGIIIIGGEHIIACDDDBDBB@9>BDDDCDDDDDCDDE: -@HISEQ1:121:C0EP5ACXX:8:2304:11218:150303/1 -GCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACN -+ -HIIIJJJJJJJJJJJJIIJJIJJIIIJJBGIJJIIIHIJHICHIFGEHIIJJHH=CEFFAEBEEDD@DCEFDBDDDDD@BBDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2102:13316:62111/1 -AGCTTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGT -+ -GGBHEIEEEDHI>GHGIJIHIIGDBCHEHIJIIJEFEGHGIJIHHHJE>@FHC>CHCCAEA??BD?CEDEEECCCDDDCDCDDCDA5 -@HISEQ1:121:C0EP5ACXX:8:1106:3218:101980/1 -TCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTG -+ -IJIJJJJJJIJGHIJIIGGGIJJJIIJJJJJJJJJJJJJJJGBGGGHGJIJJJGHIJJFCHEHFFFFEBEEEEEDDDDDDDDDDAC: -@HISEQ1:121:C0EP5ACXX:8:1201:18503:100349/1 -AAAACGCTCTCTCCTCTCTCTACAGTGTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTT -+ -HICGI::BBBCCC@@C@C??=9?C -@HISEQ1:121:C0EP5ACXX:8:1204:4243:118195/1 -CAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCN -+ -:?ADABCB>?@@3@DDGEE>EDFFGFF=BBB;F?;FFBE9;CEFD=@DCC?6=?5:AAAB?3,20(258399??AB?A<993<<@?B -@HISEQ1:121:C0EP5ACXX:8:1106:18868:150736/1 -TCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGNNNNNNN -+ -IGGEIGIICHHEHFGBHF>>@CDDDDDDDDC: -@HISEQ1:121:C0EP5ACXX:8:2104:7464:97678/1 -GAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATC -+ -BGIGGIIIII)?EEGCHIIBHEIIIHHIIHEGGCHIIEGIIIGIIGEGE6AE;?ECEEBBBBA?8??@B@BBB??@@8??BCBBBB> -@HISEQ1:121:C0EP5ACXX:8:1106:9192:29781/1 -TCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTT -+ -IIJJIJJIIJJJIJIIJGHJIJIGJIJJJJJJJJJIIIIJJJJJJIJJJJJJIJJJIIJJHHHHFFFDFFEACECEDDDDDDDDDDA -@HISEQ1:121:C0EP5ACXX:8:2302:12102:76322/1 -CAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAG -+ -JJJJHIJJJJJJJJJJJJDHIJJJIJJJJJJJJJJJIJJJJJJJJJJJJJJJJJHHHFFDDABDDDDDDDDDDDDDDDDDBBDDDDD -@HISEQ1:121:C0EP5ACXX:8:1202:10923:67043/1 -ACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCC -+ -JJJJJGGIJJJIEHIGHGIIEHIIIGIJGIJJJJJJIHIJJICFHGIGHHJIGICHIHGHHGEEEDEF@C96;@CD -@HISEQ1:121:C0EP5ACXX:8:2303:8797:124341/1 -CCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCG -+ -JJJJJJIIGHJJIEHIJGIJJIJIJJJI@FHGIJFGIJJHGIFGGGGIJCHIIIHIJJJHHHHHFFFFDFCCCCD?>==CCDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1304:8551:182744/1 -CCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCG -+ -EBFHCAGGIGH@AHECBCGECG?FHIGIADHIIEGGDFA?BED=@28)=@@@EGG@D@@EE:?.7);?BDC@C=A@=@?(5=/;@@ -@HISEQ1:121:C0EP5ACXX:8:2205:17966:149411/1 -GAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCCATCTCCAATCACCATTCGCN -+ -JIJJJJJIJJJJFHGIJJJJJJJJIJJIJJIIJJFHJJJIJJJJJJJJFHIJJHHHHFFFEFEDEEEEDDDDD@CDDCDDDDDDCD< -@HISEQ1:121:C0EP5ACXX:8:2204:7913:47072/1 -CTCTAAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCT -+ -GGIIIJJGEBEGB@CCBDDDDDCDDDAB=B -@HISEQ1:121:C0EP5ACXX:8:1206:14809:89750/1 -TCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCAC -+ -GGEICEHIIIGIICHIJHGGEFIEGEGGGGGHIJJFEGIJJDCGBBGEICGGHIJAEFFFFDDEEAEECCDEDDDCDDC@C?CDDD -@HISEQ1:121:C0EP5ACXX:8:1107:8614:188228/1 -GGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCCATCTCCNN -+ -IJIJJIGIJJJGIDIIJJIIFGIJGIJIJJHHGFEHGFFFFFDDDD@CDDDCDDDDDEDB?F7F9:@B<;@;77/=))).)==;C9E7)7;2=?@(;;3;;>((,:;;>@@<7@@::3:C -@HISEQ1:121:C0EP5ACXX:8:1302:20544:36891/1 -GCTCTCTCCTCTCTCTACAGTGTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTTGCTCC -+ -IIIJJJJJJJJGIGIJJJIJGHBGIIGHGIIGJJJJIJJJJJJIIJIIJIJEHJJIIJJEEHHHFFDDFEEEEDADDDDDDDCDDD -@HISEQ1:121:C0EP5ACXX:8:1201:13712:106244/1 -TCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTN -+ -IJJJJJJJJJJJIIIJIJIJJFHIIIFIGIHIGIIIJIIIIJJIJIJIIHHHHGFDDCEDDEDDDDDDDDDCDCDDDEEDC@CCCD@ -@HISEQ1:121:C0EP5ACXX:8:1205:1987:169105/1 -TTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTC -+ -JJIIIHIIGJIJJJJJJJJJJJHIJIJJIIGGHIIGIFHIIJJJJIJJJIIEHGGHIIIHHHHHF@DEFCDCEEDBD?B?CCDBDDC -@HISEQ1:121:C0EP5ACXX:8:1304:10703:43081/1 -CTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACN -+ -JJJJGIJJJIIJJJHIIGHGHIJJJIIIJJJJJIGIJJJJJJHHGIHII9C?C9?FBDFB<)?B:BG)09D?8BFF<=8B<7=@@FDEC;@A7?;??C;BD);?8998,'5@A>>BB -@HISEQ1:121:C0EP5ACXX:8:2202:11034:3947/1 -CTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACN -+ -JJJJJJJJGJJJJIGHIEFHHHJCCHIIJJJJJJJJJJJJJJHIIJIIIJJHIIIHHHFDDDDBDEDDDDDBDCDDDDDDCCCDDDA -@HISEQ1:121:C0EP5ACXX:8:1101:3334:33169/1 -GAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAG -+ -FFG9?CHGGGHHE6F??*??3BGHI>.@FH45@;;:?EAHE>C;7;;(666(;A(-->;@98555:35;@ -@HISEQ1:121:C0EP5ACXX:8:2104:7518:85500/1 -TCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGG -+ -BEC?CAF@EHEEHAFEHE@DG?B?1??9CG?GIGGGHE??DGGGGEGEECGCE;=C==CH?AAE>DCDB5=ACA>?C@CACCCB3@> -@HISEQ1:121:C0EP5ACXX:8:2104:18741:150825/1 -AAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGC -+ -JJJIIJJJHGIJJJJJIIJIIIIEHHIIIJIIJJFDHGIJJJJJJJJJIJIJFG@GHIJHHHHHHBDFFFDEECEDDDDD?CDCCDC -@HISEQ1:121:C0EP5ACXX:8:2103:17562:161306/1 -GAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCC -+ -HBEHGFFEAABDHHIFHGGCA?GBB@DCDDCBCC99CCCCCCA44@+>>@C -@HISEQ1:121:C0EP5ACXX:8:2303:4331:138576/1 -CTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTC -+ -IJJJGEHIIJJIJIJIIJJIJJJIJIGIIIJJJJJI@GHJJBHIICHGHIIJJGGIHEEHHFF>CBFFB>ACACD@ACCCDDCDDD= -@HISEQ1:121:C0EP5ACXX:8:1206:16241:142787/1 -TTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCA -+ -HGGGHIIGGIEIIIHCFFIFBHHEIDEHBED;;@:@AACB88;9>A:@ACBDB?CDDEEC?A?@BD@CCCA -@HISEQ1:121:C0EP5ACXX:8:2305:14287:109430/1 -CATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACC -+ -IJJJJJIIJJGIIIJJJJJJJJJJJJJJJJJIIGIGIIIHIJJJJIIJJJJHHF9AEEEDDDDDDDDDDDDDDDDDDDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2107:12104:180859/1 -GATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGN -+ -GHGBGHDHBFDHECEGGGBBA@FDFAHEBFD@>@3>CD>A=:059?CCCCC38+28?@>ADAB: -@HISEQ1:121:C0EP5ACXX:8:2306:14745:2012/1 -TGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGANNNN -+ -EGIGHGFGIIEFEHDHEIJFGIIIJIGHIJJEIJIICECCEEEFHFDDDB@CECCCCCACDDEDDDDDCACCC@BD@BC -@HISEQ1:121:C0EP5ACXX:8:1107:19971:96047/1 -ACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCC -+ -JJJJJJJJJJJJJJJIJJJJGIHIIIIJIJJJJIJJJJJJJJJIJJJJIHIIFHIIJJJHHHHFHFFFFEECECEDDDDDDDDCDDC -@HISEQ1:121:C0EP5ACXX:8:1102:13754:6046/1 -ACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGT -+ -EDFE@,A?CFEDG9CDEEEACDDDB;;@CC>A;>BB@8<@A>BBB -@HISEQ1:121:C0EP5ACXX:8:1305:16307:34281/1 -ATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGG -+ -JJHIJJJJJJJJIJJJJIJJIIGHJJJJJJJJIJJJJHIJJJJJIJJJJJJJIHFFDEEDDDDDDDCDCDDCDDDB5C@CCDDDDD966@AAA3>5>??:AAAA -@HISEQ1:121:C0EP5ACXX:8:1206:4841:180732/1 -TCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTAT -+ -JJJIHIJJJJJJJIIJJJJIJJJJJIJJJJJIJJJJIIJJGHIJJIIIIIJIIJJJJJJHHGEHFFFFFFEDDDBDACDDBDDD>BA -@HISEQ1:121:C0EP5ACXX:8:2104:5669:156581/1 -TGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCC -+ -CHJHIJJJIIJGGJIJGHJ>FHIJEIJIIIIIIIJJJHGGIIJHIHEHHHEFFFFFFEDCE?CCCDDDDDDB@BCCCDDDEDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1203:5383:144796/1 -CCTCTCTCTACAGTGTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTTGCTCCTCCCCTCT -+ -AEBB?FGHIII@B:EHEGHIHGBHEGGGGIICD9?>?;@B>@@AC((>(;CA5?:5;5 -@HISEQ1:121:C0EP5ACXX:8:1201:18290:177436/1 -CCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGN -+ -JJJJGHIJIIIJJIJJIJJJEHIEHHGGIJJJJJJJJGIHHHHHFFFFFFEEEEEEDCDCDCFDDDDDDCCDDDDD?BB@@@CDDD7 -@HISEQ1:121:C0EP5ACXX:8:1207:3038:16038/1 -CCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGN -+ -FBGGDHIJIJGIIIG>HGIC9?DBFCHHIICDACHDGIIHHHGEDDFEE@CCEEEC>CCAA>@C>A>ACC@@>:?BBBDBBDCDB9< -@HISEQ1:121:C0EP5ACXX:8:1206:16810:160141/1 -AGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTC -+ -GB?DHIIDHGGHJIJFIJJIIIGGHDEE@DEFFECE@C@ACD@CCD@CDDBDDDCDDC@>AACCCDDCCDDDDDBCCCDDDCCA:@ -@HISEQ1:121:C0EP5ACXX:8:2108:13659:50707/1 -AAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTC -+ -IJGIHJBHIDFGIIJEHIJI@HHIIGIJBDAFFGGGGAEHGJ@AEFFEHFDBEFF>CC@CE@>CCCA5@ -@HISEQ1:121:C0EP5ACXX:8:2307:12319:57989/1 -AGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTN -+ -EGGGHHGGHIIJJJJGHI@FHDAHGIGI6@BCCDDDDCDD:ACDC@C@CCDCDDB@DDCCDCC>>?CDDDDDCCDDDDC:>@ACDD> -@HISEQ1:121:C0EP5ACXX:8:1101:8737:95819/1 -GGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCT -+ -JJJIIJJJJJJIJJIJJJIIIJJJJJIJGIIGFHIGHGGIJJJCGEHHHGHFEFFFA?EED@CCDDDDDDBDB>CCDDDDDDDCDD: -@HISEQ1:121:C0EP5ACXX:8:1301:15961:111397/1 -AGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTT -+ -JJJJJJJIJIIJJIGGIGIJJJJIJJHIHHHFCCDDDDDACDDDDDDDDDDDDDDDDDDDDDEDDDDDDDDDDDDDDDDDDEDDDDD -@HISEQ1:121:C0EP5ACXX:8:1302:19521:69299/1 -AACAGAGGCGAGGAACGAAACTCCTTAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTC -+ -IIIEGAGICG>FAHD@@:C3@@: -@HISEQ1:121:C0EP5ACXX:8:1203:3175:113512/1 -AAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTC -+ -IJFIIEHI?EGGHGIJFHIJJEHJIIIEHHEEEEFDDDDDDDDCCCDCCCDDCDCCDDC9BBDDDDC>C>C@CDDCACACCCC@@:> -@HISEQ1:121:C0EP5ACXX:8:1208:3501:162441/1 -TACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGCCTCCTCTGCTCCC -+ -IIIIIEHH9HIIIIIIBHGEIIII9DHG>BGCA8BGIIIIIHGIIIIIIGIIIIHEEEEA?CBCECCCC@(5??CBBCCCACCCCB -@HISEQ1:121:C0EP5ACXX:8:2102:10284:25123/1 -GCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGAT -+ -FGHHII@IHHIH6?EF@1CDFEE@FHHIHGGIHD=@GEGHEDEEFEFEF?C@DCEDDECCD>ADCC>ACCCCD@@CCCC9ACC>?8@ -@HISEQ1:121:C0EP5ACXX:8:1102:16158:78675/1 -TTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGCCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATGGATTGAAGGCT -+ -JJJJJJJJJJIIIIIJJJJJJIJHIIJIJJGGIIJJJIJJJJJIJJIJJIHHHHHFEFFDDDDDCCDDEDDCCACCDCDDDDCCDDA -@HISEQ1:121:C0EP5ACXX:8:1203:3978:188625/1 -TGGTTCCCTCCTGGCCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATGGATTG -+ -EHI?EHHG>FGDEC8E9FC3?*:?@DGG>3BDAGGHB)===DCDHIIIJJJJDC>GGGJJJJJGDHHHFHEBDFFFCDEEDDCDCCDDDDDDAC -@HISEQ1:121:C0EP5ACXX:8:1302:7021:199313/1 -TCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAG -+ -JJJJJJJJJJJGIJIIJJIJJJJFIJJJJHHHFFFFFFCEEEEDDDDBDDDDDDDDCCDDDDDDDEDDDBBBDCDEDDDDDDDCCCD -@HISEQ1:121:C0EP5ACXX:8:1306:10437:150125/1 -CTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGNN -+ -JJJJJJIJJGJJIIIJIJJFHIJJIJJJHFHFFFFDEEEEEEDDDDDDDDDDDDDDCDDDDCCDDDEDDDDDDDDDEDDDDDDDDDA -@HISEQ1:121:C0EP5ACXX:8:1202:7387:154438/1 -GCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGNNNNNNNN -+ -JJJJJJJJIJJJJIJIIJJJJJIJJGIJJHHHGHGFFBFDDDDDDDDDDDCDCDDDDDDDECDDBBDDDCDDDDDDDDDDDDDDDD: -@HISEQ1:121:C0EP5ACXX:8:2103:12603:82497/1 -AACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTG -+ -DDDDDDDDDDDDDDDDDDDDDDDDDDBDDDDDDDDDDDDDCDDDDDDDDDDDDCDCDDDDDCDDDDDDEDDD<@DDD@DDDCDDDDD -@HISEQ1:121:C0EP5ACXX:8:2104:11050:81554/1 -TAGGATGGAGCTTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTG -+ -IJJIEGII@FICGGHEGHIIIIJJJIGHG>C@ABDDDBCDACD?@DB -@HISEQ1:121:C0EP5ACXX:8:1102:18712:9225/1 -CAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCANNNN -+ -JJJIIFDGHIJGIIJD6@1ACDB<>BCDDDCDDCCECC>CCDDCC8;ACCEDDD?@C:<;>B -@HISEQ1:121:C0EP5ACXX:8:1108:5820:79317/1 -CCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCANN -+ -JJJJJJJJJJJJJJJJDBDDDDDCDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDCCDDCCDDCDDDDDDDDDCDCCCC -@HISEQ1:121:C0EP5ACXX:8:1106:6069:149613/1 -GGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAG -+ -IJIIJJJIJJIIJIJIJJIIIJJFIDFHIJIJJJHIJJFGGHJJJJJJJHHHHHFFFFDDBDDDDDDDEDDDCCDDDDDDDDEDDCC -@HISEQ1:121:C0EP5ACXX:8:1106:6337:118237/1 -TTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTT -+ -JJJJHIIDHIJJIIJJJJJJJAGIJJJJJJJJJJJJGHJJJGJJJJJJJHE=BEEFEEE;ABDDDDDDDDDCDDDDDDDDDDDDDDA -@HISEQ1:121:C0EP5ACXX:8:1303:16108:108202/1 -CCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATA -+ -ICEFAFGGIIGEDAF?FGI>CC4D>A=B=FC9F@C4@ -@HISEQ1:121:C0EP5ACXX:8:1107:11975:14320/1 -ATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTT -+ -CGFBDEH4AEF3AAFC7=EE;AEFFB;@;;;;;6@@ -@HISEQ1:121:C0EP5ACXX:8:1103:4920:91470/1 -AACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAG -+ -IJJJJJJJJFHBDDD9?@B>BD95?B@>BDDCDCDCDDDA38 -@HISEQ1:121:C0EP5ACXX:8:2106:16293:193745/1 -CCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGA -+ -AF:CF@@?EA??08?<05700>A>@>@8>888(+3)759BA<9>ABBBB05>B?7@@;;A:(+4:ABB@ -@HISEQ1:121:C0EP5ACXX:8:2102:17267:17939/1 -TCTAACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCNN -+ -IGDHGGIII@HG?CF?BFDHGGIJJDIJJEEGBHIGBB8@@CDDCCDADCDCCCDB>B>@DACDDB@D>B@@B@@ACCDCCDDDC@CDD5<5>A9ADD7 -@HISEQ1:121:C0EP5ACXX:8:1304:7828:90428/1 -GATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGC -+ -IJJJJIJJIJJJJJJIJJJJJJJJJJJIJIJJGHHFHIHIJIJJJHHHHFFFDDDDBBBBBCCDEDDDDDCDDDDDDDBDCDCDDD8 -@HISEQ1:121:C0EP5ACXX:8:1108:13629:82569/1 -TCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGG -+ -IIJJJGIDGHIIJI@BFFEFIDHH@FHGCF>FHGHIE@BGCE=GIJJIGIIG@AAED@@EF?CCEB>(45;>@CC1-2>A@CD?5:> -@HISEQ1:121:C0EP5ACXX:8:2303:21067:161452/1 -CTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCAGATTGAT -+ -DHFH9CFEGGG)@GEGGIICH;BC@HBB9CCCCC3ACCCA>3>5;>:;5:@C99?(9:(+:(4(29CC>C -@HISEQ1:121:C0EP5ACXX:8:2102:4018:54516/1 -TAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGGT -+ -GHJJJJJJJJIJJJJJJJIJJJIJJDHHCGHIJJIIJIHIIIJJIDIIJJJJJGJGIIEFHEHFFFDADDDDAABDDDDD??DBBDD -@HISEQ1:121:C0EP5ACXX:8:1301:9106:149287/1 -ATAGTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTG -+ -GBHG?CCEEDCBHIICHGGGIJI@DGHGG@DH9BBDHBDFEIFHGIGII;=DEECHHECEB@DFFEECACBDB@B>:@BDCCCDBB@ -@HISEQ1:121:C0EP5ACXX:8:2107:3966:107043/1 -ACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGCCTCCTCTGCTCCCTG -+ -JJJJJJJFHHJIIHHIIGGGIJIIFECHGIJJGG@GHCHIEFHIJJJJGJEHHCEH>AHHE?DFFFEDCCEDDDD?CDDDDCA@@?: -@HISEQ1:121:C0EP5ACXX:8:2207:2091:165857/1 -AATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGNNN -+ -IJJJJBHHJJIJIIGHJJEIJDHIDCHGJJIIJJJJJJJJJJIIJJJHHHFHGFFFFFFCCEEEEEDCAACCDDDDDDDCDDD@BDD -@HISEQ1:121:C0EP5ACXX:8:1201:14768:136485/1 -ATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATANNN -+ -@HIIIIJJJIHHGC+A?EDG@ACCCAD@CCDDDDD@CCCD -@HISEQ1:121:C0EP5ACXX:8:2203:13818:80144/1 -CTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCAGATTGATTT -+ -JIGEHJIJEGEGIJD;@@DH4BFGIJGJI>?DHGIIIFFFFE@CCEC5=CD;>CCCD@:@35>C<98>(:@C@>CDBC8ACC>CDC@ -@HISEQ1:121:C0EP5ACXX:8:2303:15336:10647/1 -ATCAGATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCC -+ -GGGHFGGICHI@DHBFGIBGD>8DDBGEHJIGHIJIG>GHI@E@HGCCEH@CBCDFCEECCCE;?=?AB?ACCD?BD@8DHCCEIIJGEEFIGIIJGIIGGGGBGIGIGCDFEGHII@HHIDCGGGIGEGHI>CA?3=AE>D3@C>B>>C@@>;;@C -@HISEQ1:121:C0EP5ACXX:8:1204:20561:59058/1 -GACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGTTTCGTTCCTC -+ -GIJJJIGIIEHGGCGGGGIEAHA>CEEDDDEDDC??@BDDDCCDCDDDADDDDDDCDDD -@HISEQ1:121:C0EP5ACXX:8:2302:16643:74025/1 -TCTCAGATCGGTGCTTGGTTCCCTCCTGGCCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATGGATTGAAGGCTGCTCTCACCGGN -+ -JJJJJJIJJJJFIJIIJJGGHJJIJJIJJJJIJJJJJJJJJJJJJJJJJHHHEDFFFFFCECEEDDDDDDDDCDDDDCCDDCDDDDD -@HISEQ1:121:C0EP5ACXX:8:1201:6783:137262/1 -TATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTNNNNNNNNNN -+ -JJJIJJIIJGJJJJJIJIJJJJIIJJHIIIEHJJIIJJJJHJIJJEGIJJHGFHGHHHFFFFFDDDBDDDBDDBBD9ACDDDDDCAA -@HISEQ1:121:C0EP5ACXX:8:1305:18884:19620/1 -AACACCATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGG -+ -IJIGIIGIGHJIJJJJIGIGHIJIIJJIGGHHHHHFFFFFEDDDDDDDDD5>CDDDDDDDDCDEEDDDCDDDDDDEDDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2301:20719:86692/1 -GTAAGACTGAACGCAACACCATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCNNNN -+ -;CFEGIII9FHGCHEHI9GHIEGGIGGIHBGGGE=EGC@HECEH>CFFFAC@?@CCC5::?@>:@:4>CCDEC>>CCCC< -@HISEQ1:121:C0EP5ACXX:8:2203:14371:65836/1 -ATCTGATAACCTTAACACCTATTGTCGCTCATGGTTTGAGATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTN -+ -JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJHJIJIIGIJIJJJJJJJJJJJIHHHFFEFDFDDDEDDDDDDFDDEEDDDDD88 -@HISEQ1:121:C0EP5ACXX:8:1301:10584:5300/1 -AAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAACGCAACACCATATTTCCGGATCCAATCAATCTCAAACCATGAGCGAC -+ -IFHE9EGIIIG4EFHGEG?FEDGBGGCF@F;?BCHHGGEGGBFHIIIGHHEFE>BDF;>A>>ACCCDD@@ADDCDCCBDD:@CDDDD -@HISEQ1:121:C0EP5ACXX:8:2105:3982:74547/1 -CAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAACGCAACACCATATTTCCGGATCCAATCAATCTCAAAC -+ -JJJJJGIJJJIFHGGHIGIJHIGGICHGJJJJJJJJJJJJCHHEIGGIIJII@AB>BFDCEEEEEFC?BBDBDCDCDDCDCCDDC>A -@HISEQ1:121:C0EP5ACXX:8:2106:6787:24507/1 -ATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTATAAGTAATCTCATTCCTTGTTTTCGTTGTAAGATT -+ -GGIIEJJIJJJIIJJIJJIIJJEDFHIIIJJJJIIFGIJJIGHEBCEHHGHGGHFFEEEFFEECEEEEEDDDDDDDBDACDD:C:AC -@HISEQ1:121:C0EP5ACXX:8:2201:3644:185103/1 -TCCTCTGCTCCCTGCGAATGGTGATTGGAGATGGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTN -+ -IGGGHIEHIJJGEGIJJJEHG0??DFHIFHGEHGICEHGIHHCGHGIIIGHGEED>BCEDDCCDAADDACC@CCC:;ADDA@CA?AA -@HISEQ1:121:C0EP5ACXX:8:2306:20358:147552/1 -TTCTAACTAGATTAGAATAAGCCAGGGAAACATAACTAATCTTACAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTNN -+ -JJIJIJJJJJGIIIJIJIJJIIHIIJJIIJGJJJJIJJJJIJIIIIJIJJJJHIJHHGHFFFFFCCECECEEDDEDED@ADDDDBB@ -@HISEQ1:121:C0EP5ACXX:8:2302:1563:56433/1 -ATCAATTCTAACTAGATTAGAATAAGCCAGGGAAACATAACTAATCTTACAACGAAAACAAGGAATGAGATTACTTATAATATACTC -+ -JJJJGIJJJJJJJJJJJJIJJJJJJJJJJJJJJJIIJJJJJJJJJJJJJJJJJJJJJHHHDBEFEEEEEEDDDDDDEDDDEEEEEEC -@HISEQ1:121:C0EP5ACXX:8:2305:17541:101277/1 -ATCAATTCTAACTAGATTAGAATAAGCCAGGGAAACATAACTAATCTTACAACGAAAACAAGGAATGAGATTACTTATAATATACTC -+ -JJJJIJJJJJJJJJJJJJJJIJJJJJJJIJJJIIJJJJJJJJJJJJJJJIIIIJIJJHHHFDFFEEEEEEDDDDCDEDDEFEFDEEC -@HISEQ1:121:C0EP5ACXX:8:2105:7286:178698/1 -GAAAGGATCAATTCTAACTAGATTAGAATAAGCCAGGGAAACATAACTAATCTTACAACGAAAACAAGGAATGAGATTACTTATNNN -+ -JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJIIIJJJJJJJJJJJJJJJJJJHHHHFFFDEDEDDDDDDDDDDDDEDDE> -@HISEQ1:121:C0EP5ACXX:8:1305:8563:150819/1 -CAACATGCACAGTCTCAACTGGAAAGGATCAATTCTAACTAGATTAGAATAAGCCAGGGAAACATAACTAATCTTACAACGAAAACN -+ -IIGDBFGAFGGGBEAGEGEHGGHGGAFHHIGH:FHGAF@FCEGIIGEEHEEFFD:ACEECDCCC>?B?BBCB -@HISEQ1:121:C0EP5ACXX:8:2202:16059:23739/1 -TGAGATCCAACATGCACAGTCTCAACTGGAAAGGATCAATTCTAACTAGATTAGAATAAGCCAGGGAAACATAACTAATCTTACAAC -+ -JJJJJJJJJJJJJJIJJJJIJJIJJJJIJJJJJJJJJJJJJJJJJJIJJIJJJJJJJJIJJIIHHHHFFFFEEEEDCDDDDDEDDDD -@HISEQ1:121:C0EP5ACXX:8:1106:12563:12186/1 -AATTGATTCCAATAATACATCTAATCTTGAGATCCAACATGCACAGTCTCAACTGGAAAGGATCAATTCTAACTAGATTAGAATAAG -+ -JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJHIJJJJJJJJJJJJJJJJJJJIJJJJJHHGHHFFFFFFFCECEEEDDDDDDD; -@HISEQ1:121:C0EP5ACXX:8:1101:19268:137461/1 -TTCTAATCTAGTTAGAATTGATCCTTTCCAGTTGAGACTGTGCATGTTGGATCTCAAGATTAGATGTATTATTGGAATCAATTTTGT -+ -IJJIIIJJJHGHIIIHIJJJGIJJJJJJJIIHIJHIBHJJIIJIHJHIJIFHGIGGCGFHCHGGIIHGIHEEHFFFDFF@DDECEEE -@HISEQ1:121:C0EP5ACXX:8:2303:2805:180545/1 -TTTGTTTACTATTTTCTATAACCCTATGCCTGCATCAATTGGATCTGATAACCTTAACACCTATTGTCGCTCATGGTTTGAGNNNNN -+ -IIIJIIJJJJJJJJJJJIJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJGJJJJJJJJJJHHHHFFFFEEEEDDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:1106:12024:106184/1 -TGTTGGATCTCAAGATTAGATGTATTATTGGAATCAATTTTGTTGCTGCTCTGCAGGAGAGTGTGTTAGATAGATTCCTCTACCTTT -+ -JIJJJJJJJJJJJJGIJJJIJJFIGJJJJJJIJJJIJJJJJJJJJHIJIIJJIJIJIFHHIJHHHHGHHFFFFFFFEFDEEEEDDDC -@HISEQ1:121:C0EP5ACXX:8:1203:12551:9896/1 -GCTCTTTCCTGGTGTGGCTCTTGTTTCAATTCTATAGTTTGTTTACTATTTTCTATAACCCTATGCCTGCATCAATTGGATCTGATN -+ -IIEIIGIIJJJJ>CCC>?AC>CCCCC -@HISEQ1:121:C0EP5ACXX:8:2208:11196:39835/1 -CCTATTGTCGCTCATGGTTTGAGATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTAT -+ -AEB@E@IDH6B@81:?3?9;81:???D9BB9D?BGHIB7';@H@FACE=C?>E;>>@(;>9;;59A>CB:@ -@HISEQ1:121:C0EP5ACXX:8:1202:2784:55498/1 -AAGTCATAATTAAGACTATGCACTCTATGAATATCACTGAAGTTCTTCAACAGAATAATCACAAGGCTTGAGCAAAGGTAGAGGNNN -+ -JJJIIJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJIJJIJJJJJJJJIIJIJJJJJJIIJJIJJJHHHHFFFFF@@ACEEDDC -@HISEQ1:121:C0EP5ACXX:8:1308:6994:8081/1 -TCATAACCTAAGGAAAATACTTTATCAAAGTCATAATTAAGACTATGCACTCTATGAATATCACTGAAGTTCTTCAACAGNNNNNNN -+ -JJJJJJJJJJIJGJIJJGHIJJJJJJJJJJHHIJJJJJJJJJIJIIIGIJJJJJJIJGJJJHHIJJJJJHFHHHHHEFFFFFEEEE> diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/daughter_2.fastq --- a/demo_files/daughter_2.fastq Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,516 +0,0 @@ -@HISEQ1:121:C0EP5ACXX:8:1301:12962:135792/2 -ACGGGGCGAATCCCCACAATTTGCAAGGGCAAATTATGTGTTCCACCACAAAATGAAACAAGAAAGGAAAGAAAACAAGCACAGAGN -+ -IIJIIJJJJJIJJJJIJIJJIIJJJHHGHFFFFCEEEEEFFDDDEDDDDDDDDDDDDDDDDDDDDDBBDDDDDDDDDDDDDDDCCC? -@HISEQ1:121:C0EP5ACXX:8:1105:5390:32380/2 -ATACGGGGCGAATCCCCACAATTTGCAAGGGCAAATTATGTGTTCCACCACAAAATGAAACAAGAAAGGAAAGAAAACAAGCACANN -+ -GIIJJJJJIJJIJJJJJIIIJJJJIHHHHHFFFFDEEEEEEFFDDDEDDDDDABDDDDDDDDDDDDDDDDCCDDDD?C?BDDDDCDC -@HISEQ1:121:C0EP5ACXX:8:1301:11290:183940/2 -CGAATCCCCACAATTTGCAAGGGCAAATTATGTGTTCCACCACAAAATGAAACAAGAAAGGAAAGAAAACAAGCACANNNNNNNNNN -+ -IIJJJJJIIGFHHIJJJJIJJJJGIHHHHHFFBDEFCCDEEDDDDDDDDDDDDDBDDDDDDDDDDDDDDDDDDDDDDDCDDDDDBD8 -@HISEQ1:121:C0EP5ACXX:8:2207:5683:120579/2 -GGGCGAATCCCCACAATTTGCAAGGGCAAATTATGTGTTCCACCACAAAATGAAACAAGAAAGGAAAGAAAACAAGCACANNNNNNN -+ -JIIJI>GIIJJIGHIGIJJJIIJIHHHGFEFFFEEECEEEDEDDDDDDDDDDDDDDDDDDDCDDDDDDDDDCDDDDDBCDDDDBBD9 -@HISEQ1:121:C0EP5ACXX:8:1301:12479:185948/2 -AACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTNNNN -+ -JIJJJJJJIJJJGIIJHIIGIGIIJJIJJJJJJJJJJIJIJIJIGHIIHGHIGG@EEIIHEE?EHFFFFD:CCCCC?CBCBDDCDDD -@HISEQ1:121:C0EP5ACXX:8:2103:4989:50580/2 -GAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAAGGGCAAA -+ -BEHIGIIGIIJIJFGIEHDGGGHI?FHIG?DBGHGHFGI8BGHGGGIJJIJ@CEEFHHFFDDBB>BDD?ADDDDCDDDECCDDBB78 -@HISEQ1:121:C0EP5ACXX:8:1202:1654:144608/2 -TTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTT -+ -GHHFIGIEIGIJHGIIJJGHHGIIIIHJGHFFHHIJGGFEHIGIIGIGGHIIJIJJDIJJDIFEHHFFF@>@A@CCACDBDDDDDC5 -@HISEQ1:121:C0EP5ACXX:8:2304:11218:150303/2 -TCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTC -+ -JIJJJJIJJJJIJIHHJJJJHIHIGHIIIIJJJIIJEHIJIIJJIJJIJIJJIJJJGHFHHHFFFFEDECEECBCCDDDDDDDDDD: -@HISEQ1:121:C0EP5ACXX:8:2102:13316:62111/2 -GGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCC -+ -JJFGIHIIEGIJJJGHIJHGGEHIECGEHHIIJJJJCHIIJJI=CEEG@E@EFHFHHE;BDECDECEEDB?ACDEDDDD@BDDD?CD -@HISEQ1:121:C0EP5ACXX:8:1106:3218:101980/2 -AGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTN -+ -JJJGIJJJIHEIIJGIIJJIJJHIGIJIIJJJIJJHHHHCFFDDEEEDEFDCCDDD>CCDDD2ACCDDHEHHEHEB99DG9BB;?F@FGIGCAA<@CDDCACCDA@C: -@HISEQ1:121:C0EP5ACXX:8:1104:20525:199060/2 -AGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGN -+ -HIJJJJJIJJJJIJJJJIJJJJJGIJJJJHIGIIJJIIJJJJJJJJHHHFFFFDDDDDDDBDBDDDDDDDDDDBDDDDDDDCDDDDD -@HISEQ1:121:C0EP5ACXX:8:2207:17083:161210/2 -CGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGANNNN -+ -JJJFHHGIIJIIJJJJIIIJIIJJJIJJJJJJIGIIIEIIIJJIGGGFHGHFEBFDDDDDDBB?BBDDDDBBDDDDDDDDDCDDDCD -@HISEQ1:121:C0EP5ACXX:8:2104:7464:97678/2 -GCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTT -+ -D:EH@EDHAHHB;@B=A:;?;;AACA;@ -@HISEQ1:121:C0EP5ACXX:8:1106:9192:29781/2 -TTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCNNNNNNNN -+ -JJJJJICGIJJJJIJIJJIJJJIJJJJIJJJIGJJJHIIJJJJJJIJJJHHFFFFFEDDDDDDDDDDDBDDDDDD?BDDB>>BBCDC -@HISEQ1:121:C0EP5ACXX:8:2302:12102:76322/2 -TTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTT -+ -IJJJJJJJJIJIIJJJJIIJGGIIJIIJGIIIJJJJIIGHIJJJJJJJIJIJJJJJIIJJJJHH3?EDECCC@ACEDDCACDDDDDA -@HISEQ1:121:C0EP5ACXX:8:1202:10923:67043/2 -AGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAA -+ -IEEHIGHIJ?DEIGIJIIJJGIGFFFHIIIJIGGEFHGHGHIJHHHHHHFDDDDDBDDDDDDDBDDDABBDDDDBA -@HISEQ1:121:C0EP5ACXX:8:2303:8797:124341/2 -AGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAA -+ -HIJJIIIJJHIEIGIIIIJJGIJ?GHIHIJJIIJJJHGGIJJJJIJIIJIJJJJHHHHHHFFCCDDDDDDDD?ABAB@BBBDDDB@>@DFFCA>>:@;;BCA?15<)2?B?8< -@HISEQ1:121:C0EP5ACXX:8:2205:17966:149411/2 -CTCTAAAACGCTCTCTCCTCTCTCTACAGTGTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCT -+ -JJIJJJJJJJJJJJJJJJJJIJJJJIIJJIIIJJIJHHIJJJJJJJJJJJIIJJJJHJIIGGCEHFFFFFFECDDEDCDDCDDDDCA -@HISEQ1:121:C0EP5ACXX:8:2204:7913:47072/2 -TCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACC -+ -JIIJJIHGHIHEHDHHGGEHBBGGIGHGGHIJJGGIGIH;F=FBFHHECGHIIIJ:BEEECBEEEDEDDDCDDDDDCDDDCACAACC -@HISEQ1:121:C0EP5ACXX:8:1206:14809:89750/2 -AAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGC -+ -GGGIEHHIIIGIGHGGHIDGIIHDHC@@C?3?ABCCC: -@HISEQ1:121:C0EP5ACXX:8:1107:8614:188228/2 -TTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCA -+ -HJIIGIJJIJIEIIGIFHII>GGIIJHGHHDIJJGGGHHEGIJJJIGGHGIIJIHFHEHFEEDDD@A:CCDDDBBBDCCCDDCCA?A -@HISEQ1:121:C0EP5ACXX:8:1207:13629:148866/2 -TCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGATCTCAGATCGGTGCTTGGTTCCCTCCTGN -+ -;EGH@=;AA>AC9 -@HISEQ1:121:C0EP5ACXX:8:1302:20544:36891/2 -TGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCCA -+ -GIIJIJJJJJJJJJJJJJJJJJIJJIJJJIJHIJIJGHJIJHHHHHGFFFFEDCEEEDDDDDCDFDD=BDDDDDCCDDDDDDDEDDC -@HISEQ1:121:C0EP5ACXX:8:1201:13712:106244/2 -AGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTT -+ -IIJJJJCGIIJGIIIJJIJJIJJJJIIIJJJJJJIJJIHHHHHHFFFFFFEEEEEDDDDDCDDEDDDDCDDEDD@@BDDDDDDDDC: -@HISEQ1:121:C0EP5ACXX:8:1205:1987:169105/2 -GAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGA -+ -HHGBHGHJJIDDDGGIIEAFGDCAEEHIHGICHIGHEHFDF@B;BCCECECDDDCDDDDCDDDBB>ACD@CDDCCDECD55?<@ -@HISEQ1:121:C0EP5ACXX:8:1304:10703:43081/2 -TCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGANN -+ -?HIJGIHHHIJJJI?AHGIAGIGIJFGCEEHHHHFFDDCEEEDDDD3>CDDDDDDCCDDDDDDDDDDD@CCDDDD9(4>CCB9BFA(7<88..=C@67667)).7;@?;83>>;6;CC@@C>;5@,:(:>:>@:52(82(:3444:2<4:4>A@ -@HISEQ1:121:C0EP5ACXX:8:2202:11034:3947/2 -GCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTC -+ -JJJJJJJGHIIJGIEHGIIJJJ;BEAEBEEFFFEDDCDDEEDDDDDDDDDDDDDCC>ACDCDCDDDDDDDCDBBDDCCCDCA<3:AC -@HISEQ1:121:C0EP5ACXX:8:1101:3334:33169/2 -TCCTCTAAAACGCTCTCTCCTCTCTCTACAGTGGCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCT -+ -GIIIJBEDH@:3C+11:?F9C?FF@?<*?:**0*)(*/*9E<======))84@4@=7@7=)(((.;@;BCC((.;@@@ -@HISEQ1:121:C0EP5ACXX:8:2104:7518:85500/2 -AGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAG -+ -HIGI>FHGGEGGBHIBH1BFDC49=)./8B44-9>9.6;@@CB9??CCDDDCD>?:5+>>4@:?@(:ACCA@(9AC4:>CC@BDD? -@HISEQ1:121:C0EP5ACXX:8:2104:18741:150825/2 -CTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGC -+ -JJJJJJJFIIIJJIJJJJJIJGHHJIGIGIGHJJJHEACEDCDDDDDCDDDDDEEDDEDDDDDDDDDDCCDDDDDDCCCCDDDDDD@ -@HISEQ1:121:C0EP5ACXX:8:2103:17562:161306/2 -CTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATT -+ -HIJGGHCCHGGCEGEDBCGGEDCGDFEFDC@AA?>8;?CCDDD@>CC:4:?CCCC>C> -@HISEQ1:121:C0EP5ACXX:8:2303:4331:138576/2 -TTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAN -+ -IJIJJJJIIJICF@HIBGHIGDHHGIBFHIIIJJGIGGHIEHFFF?D@CCCC>@D;?B>C>@>CCDA -@HISEQ1:121:C0EP5ACXX:8:1206:16241:142787/2 -TTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGNNNN -+ -I@FHECFGIJJGHGGHHCHDHFHEEHIIJIIJGIEIJIIJJJJIJJIJJJIIGJIIJGEEHHFE=;?@DED>CEDDDDBD@CDBCDC -@HISEQ1:121:C0EP5ACXX:8:2305:14287:109430/2 -GTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCA -+ -IJJJJJJJJIJJJIJIJGIJJIJJJJJHIJJJJJJJIJJJJHHHFFFFEFEEDEDD8;BCCCDDDDDCBDDCDEEDDEDDDDDDDD: -@HISEQ1:121:C0EP5ACXX:8:2107:12104:180859/2 -CTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTT -+ -4ADBBD@CHHIB?99?B1/88C;;>>>CCA>3;3ACCDA:@ -@HISEQ1:121:C0EP5ACXX:8:2306:14745:2012/2 -GGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTC -+ -JJIJJJIJHIIIHGIGGHGGIGJJIIGGIGIJJEIGHHGGEGHIIIHHHDD?=?BCD@C>CCCCBDD09@CDCDDCCD??8?C@CC> -@HISEQ1:121:C0EP5ACXX:8:1107:19971:96047/2 -ATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTC -+ -JJJJJJJJIJJJJHJIJJJJJJIIIJJJJIJJJJJJIJJJJJJGHJJJJGHFFFFDDCBDDCCCCDDDDDDD<8>'2;3,,;AC?ACCFFCCEAECC<5=CBDDDA@A -@HISEQ1:121:C0EP5ACXX:8:2106:9872:27596/2 -AATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGN -+ -JIJJJJGIJJJJJJJJJJGIJJEIGIJJIIJJJJIJIJIIJJJJJJIJIIIJJHFFDDDCBDBBDDDDDCDDDDDDB5F?6D&6:28@A -@HISEQ1:121:C0EP5ACXX:8:1206:4841:180732/2 -GAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGANN -+ -IIJIJJJJJJJJJJJIJJJJJJJIIJJJJJJIJJJJGIJJJJJJJHHHHHFFFFFEFDEEEEEDDCCBDDDBDDDDDDDBDDCDDDC -@HISEQ1:121:C0EP5ACXX:8:2104:5669:156581/2 -GAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGANN -+ -JIJJJJJJJJJIJJJJGIJJJJJJJJJIJIJJJJJIGIJJJJJIJFFHHHFFFFFFFEECEEEDDCDDDDDDDDDDDDDDDDCC>A@ -@HISEQ1:121:C0EP5ACXX:8:1203:5383:144796/2 -GAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTG -+ -HBB;CFEG?FGGG@GIBBGGHHBG@FIGDH6>>@>B@@B595ACBB<<>CC -@HISEQ1:121:C0EP5ACXX:8:1201:18290:177436/2 -TCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCANN -+ -IIIGJJIIIIIIGEBCFHIGIJGHIIIJJHHHIFHEDGGIJJJGJIJHIIJBHGAHFE;;B@BEDEDEDDDDDCBDDDB?CDCAAC@ -@HISEQ1:121:C0EP5ACXX:8:1207:3038:16038/2 -TTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGNNNN -+ -IIIEEHFHCFDCD>EEEA?DD@DA>A3;3;3,;?CCD1>?> -@HISEQ1:121:C0EP5ACXX:8:1206:16810:160141/2 -ACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGT -+ -JJIIGGIIHGGIIIJJGIGGIJJJJJIGIIGIGIEGFHIJIIJJJIGGGEIC;DGIJIGHHGHFFDB@CCEEDA@@AA@5<@DCDBC -@HISEQ1:121:C0EP5ACXX:8:2108:13659:50707/2 -TTACCCATCAACAATTAACACTTACTTTAAAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGNNNN -+ -GEFI3A+3B@CDDECDDCCDCDDDDDC>CDD>ACC -@HISEQ1:121:C0EP5ACXX:8:1101:8737:95819/2 -AGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTT -+ -JJJJIIIGIJIJJJIJJJJIJIIGIJJIHHHFDDBDCDDCDDDDCCDDDDDDEDDDBDDDDCEDDDDDDDCCCDDDDDDDDCCDDDC -@HISEQ1:121:C0EP5ACXX:8:1301:15961:111397/2 -TCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTAT -+ -IIGIHGIIFGIIIGHIJJIIIIJIIJFGHJHGIJGIHIHJHIJJIJJJJJJJJJJJJJJGHHHHEFFFFFFCBD=@CCDDDDD>>>B -@HISEQ1:121:C0EP5ACXX:8:1302:19521:69299/2 -GCCTAGGATGGAGCTTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACAAATAATTTGCCC -+ -C:AACACD -@HISEQ1:121:C0EP5ACXX:8:1203:3175:113512/2 -TACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTAGCTCCCAGGTTCTCANNNNNN -+ -GIIIIJJCGIHGJJGGIGGEHIJJE@FEHGIJEEAF@FHIIJIGEHEEAEHEEHFEEFFFDE>A@(,>ACDDDD?@ACCDDDDAC?< -@HISEQ1:121:C0EP5ACXX:8:1208:3501:162441/2 -GGAACTAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCCATCTGGGGATCGGATTGTTGGTGAAGAATACAGTC -+ -HG<@G**?F;CBBHGACGBDGGIIII@FH;B;C9A>ECE)7@;>DECBB>?';?DD<@:9(+8@@@39:C@C>>C -@HISEQ1:121:C0EP5ACXX:8:2102:10284:25123/2 -AAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAAT -+ -AFABB:;@BE;CGH>==CHHDD'9;;=CC:>@C>CCCCCDCCCC@C<>85(4>CDA:@3?AAA@C:>?@ -@HISEQ1:121:C0EP5ACXX:8:1102:16158:78675/2 -CTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAA -+ -JJJJJJJJJJIJJJJJJJJJJIJIJGJIJHHHHHHFFFFFEDDDDDDDDDDDDDDDDDDDDDDEDDDDDDDDDEDDDDDCCCDCCCC -@HISEQ1:121:C0EP5ACXX:8:1203:3978:188625/2 -CTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAA -+ -GGIGIIFII@EHD>CDHE0@A@FAGEGBDDCC:A>@CC3>:AC>CCA@CCD<5?CCCD@C>CAAA>ACACC -@HISEQ1:121:C0EP5ACXX:8:2302:10875:119470/2 -CTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAA -+ -JJJJIIJIIJIJJIIJIJIJJEGGJGIIEEHHHHHFEFFFDDDDDDDDDCDDDDDDDDDDDDDCCCDD>BDDCDCD>AACCDCDDCC -@HISEQ1:121:C0EP5ACXX:8:1302:7021:199313/2 -AGATGGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAAC -+ -IJIJJJJJJIIIJJJJIJJJIJJJJJJIJJJIJJJJHIIJJIJGJGIJJIIJJEHCHHHHHFFFFFEEEEED>CCB@ACCCDDDACB -@HISEQ1:121:C0EP5ACXX:8:1306:10437:150125/2 -TCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCANNNN -+ -JJJJJJJIJJIJJJJJJJJJIIIJJJJJJJJJIIJHDGIJJJJIJJJJJIJJIHHHGHFFFFFCEEEEDDDDDDDDDDCDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1202:7387:154438/2 -CGGTGCTTGGTTCCCTCCTGGCCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATGGATTGAAGGCTGCTCTCACCGGAATCTCTTC -+ -JJJGIJJIJIHIJJJJJJIIJJJJJJIJIIHIJJHIIIIGGIJJCGEEHHHEFFFFFEDEECEDDDDDDDDCCDDDBB@9?CDDEC> -@HISEQ1:121:C0EP5ACXX:8:2103:12603:82497/2 -AAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCANNNN -+ -JIIIJJJJJJJIIJGJJJJJIJJJJIJIGGIIHIJIIIIJJHFDDDCDDDDDDDDDCEEEEFEDEDDDDD?BCDDDDDDDDD?@BCC -@HISEQ1:121:C0EP5ACXX:8:2104:11050:81554/2 -AACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTN -+ -@CDDDDDDACB6BD6?BDDCDDDB9B6BA@BBD@DCCD3>AACCBCBDDDBCCDDDC?C?C@CCDDDDEDDDBBDAAACC@@CBDD@ -@HISEQ1:121:C0EP5ACXX:8:2106:4110:37086/2 -GGATGGAGCTTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCA -+ -IIIIIJEHIIIJJJIIJJIIJJIHIIEDGHIIIJIJGHJJJIIIJJJIIGHIIIIIIIJBHHHBDEDEDEEDDDCDEECDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1103:1762:125454/2 -GGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGNNNNNN -+ -JD@BDDDDDEDDDDDDCCDCDDDDDDDDCDDBDDDDBBDDDDDCDCAACEDCB?@BCC -@HISEQ1:121:C0EP5ACXX:8:1101:15305:126129/2 -GAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGN -+ -JJJJJJJID9@B@CDDEDDDDCDDDDDDDDDDDDDDCDDDDDDBDDDDDDDDDDCDDDDDDDCDBBD@DDCDDDDA8?59359CAAC@CA@?C>@:AACCC -@HISEQ1:121:C0EP5ACXX:8:1102:18712:9225/2 -GCTCCCTGCGAATGGTGATTGGAGATGGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAN -+ -JJJGJJJIIJJJJIJDHIGIJJFHHGGJGIIIIJEGHHGDHGIAEGIBHFFFBDFEEEEEDECCCACCCCCDDDC@CACCCDDCCCC -@HISEQ1:121:C0EP5ACXX:8:1102:11058:174357/2 -GGATGGAGCTTTTGCTCCTCCCCTCTGTGCTCGTTTTCTTTCCTTTCTTGTTTCATTTGTGGTGGAACACATAATTTGCCCTTGCAA -+ -JJIJJJGIJIJJJJJJIJIIFHIJJJJIDIJJIEGIHIJJJIJGJJJJJIHIJIHHGHHHHF@BDBCACEDDCDDDECCDDDCDCDD -@HISEQ1:121:C0EP5ACXX:8:2206:15398:115295/2 -CCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAAT -+ -JJJJIIIIGIGFIJJJD3@D@>A@CCD@CCDCDDDDDDDDDDDDDAA@B<@>C@C@CD@33:<9@BB>>CCAA>A?:?C -@HISEQ1:121:C0EP5ACXX:8:1108:5820:79317/2 -CACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCCAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCNNNN -+ -JJJJIJJJJJIJJJJJJJJJHJJJJJJJJJJIJIJJIIJIJIJJJJJJJIJJJJJJHHHFFFDEEEEDDCDDDBBDDDDDDDDDBDB -@HISEQ1:121:C0EP5ACXX:8:1106:6069:149613/2 -GGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCANNNN -+ -IJHIJIGIIIJIJIIIGIJJD-:9BDDDEDDDDDDDCDDDDDDDDDCDDDDBDDDDDDDBDB5CCDDCCDDCCDDD@BBBCDCACD? -@HISEQ1:121:C0EP5ACXX:8:1106:6337:118237/2 -TGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAN -+ -IJIIJIJJJJJGHHIJCHHIJJJD5BDBDDDEDDDDDDDDDDDDDDDDDC?ABBD5;BBDDDDDDD:ADDDDCCCCB9>>@BBDCD: -@HISEQ1:121:C0EP5ACXX:8:1303:16108:108202/2 -GTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAATAGCGGCCATCAG -+ -79:69C>>BC>((+8388@77BBBDC(::45-&05>?CC -@HISEQ1:121:C0EP5ACXX:8:1106:16181:135878/2 -GGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCACGAGCGGCCAT -+ -2CACE8C?GG>@?F>))1??6B0)(7-7<00>CCCCCCCCCCCDC&5<7BC8+9328;&5-9AAB@DBDDCCC:>:(8(5>@9>BDC -@HISEQ1:121:C0EP5ACXX:8:1107:11975:14320/2 -CAGCAACGAAGGGGGGATGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCC -+ -FHIIEC;F)):?@@F1&0883>8>((833>AC>(5)595>8(9>?8:@C4>:CCCDDDDDDCBDDDDCCDDDD -@HISEQ1:121:C0EP5ACXX:8:2106:16293:193745/2 -ACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCG -+ -BD3CC4C<3C>@CDCDDC? -@HISEQ1:121:C0EP5ACXX:8:2102:17267:17939/2 -CTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAN -+ -EGIIJIBHGHIGIIJBFCHG9DB49CEGEGCDGIGBDHIIIG=@>FECHHEEHCC>DFFCDC88;5>:>CDCC3CCDEEC3:> -@HISEQ1:121:C0EP5ACXX:8:1101:9236:28777/2 -GGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTC -+ -IJIJJJJJJJJJIIJJJJJJJIJJJJJJIHIJIIJDGHIICHJJJIEIIJJGHGHHGFFFDDEEDBDD@>BD3>@CDDDDDD@CDDA -@HISEQ1:121:C0EP5ACXX:8:1304:7828:90428/2 -TTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCA -+ -IJJJJIJGIJJIJIIEEEGGEBHCHFGHIJIGEHGHHDHIJJJJJEHIIDHIIIEBEFEEFFDD>BDDDCCCDBABDDCD@CACCC> -@HISEQ1:121:C0EP5ACXX:8:1108:13629:82569/2 -AATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGGTTCCAGCAACGAAN -+ -GGG@BHHBHFFBFHH3CEGA@GD=BDE8?GCDFBFFA>=CFHHIICHGHCE@EH>>2;6(..;(-((,38??58@:@49??<<@7< -@HISEQ1:121:C0EP5ACXX:8:2303:21067:161452/2 -ACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGGTTCAAGCAACGAAG -+ -J;CCGHFHCBEHG8;@F4@DC43A(;9?7?AC>;@CDDDD6@7? -@HISEQ1:121:C0EP5ACXX:8:2102:4018:54516/2 -ATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATTGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTNNN -+ -IJIIJJJJJJJJJJJIIJJIJIIIGJJGIIDHIIJIGHIJJJHIJJJJJJIHIJJJJIGHHGFEFFFEDECEEDDDDDD?BDD>@@C -@HISEQ1:121:C0EP5ACXX:8:1301:9106:149287/2 -AGATCCCCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCC -+ -GIIIGIIGAE@FHIJGHJJJGGHHFIIGHGHIEIHIFAHHIGD7@EGGIEEHHFFFAABCC@;CDCBBDBDDAA39ADCD>@AAD?BB@BDC4@8 -@HISEQ1:121:C0EP5ACXX:8:2207:2091:165857/2 -TAGAAAATAGTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAA -+ -HHHG?CFGHHFEGDCBDGCF@DC976?AECE@DD;;>@>>>AC@C?:8???AC -@HISEQ1:121:C0EP5ACXX:8:1201:14768:136485/2 -TGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCC -+ -@EHEHHEGHEGCFGCGBEG>GGCHJGB@FADH;@ADB@).7CEECE==ECBB@;?@@(636=;>C@>:9@@A9 -@HISEQ1:121:C0EP5ACXX:8:2203:13818:80144/2 -ATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAAT -+ -IJJJHJJIIJJJJJJJIJDHIGGIHIJIJJG@GIJGFHCGIIHIJJIGGJHIHIIIIEHIJHHHHFFFD=AE@CCC=CD@CCCEDD> -@HISEQ1:121:C0EP5ACXX:8:2303:15336:10647/2 -ATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGT -+ -FDHHIJGH3CAFHIIJEGEHAHEFG:CDF?:5=-5>BACCDCDCCCC: -@HISEQ1:121:C0EP5ACXX:8:2106:17975:106193/2 -CCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTC -+ -JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJFFFHIJJJIIJJHHFFFFDCEEEEDDDDDDDDCDDEDDDDDDDDDDDDDB< -@HISEQ1:121:C0EP5ACXX:8:1305:8510:135015/2 -CAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCACAACCCAAGGTTAGATCGGTTTGATTTATTTGATCAAGGCTCTTTCCT -+ -JJGIIGIEHIGIJGIIHHIJJJJGIIIGIIIJGIGIHHFHFFFFDDDDD@CDDDDDDD?@BDDDDEDDDEDDCCDCCDDCBCDDDDC -@HISEQ1:121:C0EP5ACXX:8:1208:6964:75542/2 -ATAGTTTGTTTACTATTTTCTATAACCCTATGCCTGCATCAATTGGATCTGATAACCTTAACACCTATTGTCGCTCATGGTTTGAN -+ -GB>F4I@I;FECG9HHIJJ>HEBFGGEFDDHDH@CEBGGI:BGHIGBBFCDGGGGGJJIGGGHHGIIHGGFEF=BE?CEC@C=?;? -@HISEQ1:121:C0EP5ACXX:8:1204:20561:59058/2 -TCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTAT -+ -JIG:BHHIIJJA@>A?CCACCCAC@C>B@CCCABBC@> -@HISEQ1:121:C0EP5ACXX:8:2303:7038:46610/2 -TAGATCGGTTTGATTTATTTGATCAAGGCTCTTTCCTGGTGTGGCTCTTGTTTCAATTCTATAGTTTGTTTACTATTTTCTATAACC -+ -HJJIJJJJHIJIIJJJJJJJJIJJJJJJGJJJJJJJHIJFHFHIJIJIJIHFFEEHHHFFFFFFDFEEEEECDDEEEEEED@D@CCC -@HISEQ1:121:C0EP5ACXX:8:2304:2164:16073/2 -TCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCAGATTGATTTGCTCT -+ -JHIJGGIIJJJJJJJJJGIIJJHIIJFJGGIJIIHHFFFFFFEEEEEEEEEFEDEDDCDDDDDCDDDDDDDDDDBDDDDADECDDDD -@HISEQ1:121:C0EP5ACXX:8:2302:16643:74025/2 -GTTTACTATTTTCTATAACCCTATGCCTGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATAGAAAA -+ -JJJJJJJJJJJJJIJJJJJJJJJJJJJIJJJIIJIJJJIBDFHGIJJHIJIJJJJJJJHHHHHHFFFFFFDDDEDDDABDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1201:6783:137262/2 -ATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATA -+ -JJJJJJJJJJJJJJJJJJJJJJJJIJJJJJJJJJIJJIIHHHHH@DEFFFEEEEEEDEEDDDDDDDDCC@ACCDBDBDCDDDCBBC@ -@HISEQ1:121:C0EP5ACXX:8:1305:18884:19620/2 -CTCTGATGGCCGCTCTTGAAGGAGTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCA -+ -JJJJJJJJIIJJIJJJJJJJJJJJFHIJGIIFHIJJJHIIJJJJJHHHHFFDDEDDDDEDDDDDDDDDBDDDDDDDDDBCDDBDDD8 -@HISEQ1:121:C0EP5ACXX:8:2301:20719:86692/2 -CGCAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCACAACCCAAGGTTAGATCGGTTTGATTTATTTGATCAAGGCTCTTTC -+ -HIAEEIICGEGIIG@?FHI3:?@DFFE>FEGGEC3?ACCBBDDDBCD?;AB3(>>C@C@BA?AAC> -@HISEQ1:121:C0EP5ACXX:8:2203:14371:65836/2 -GATGGTAATAAAGTCTAGAAATGAAATACTCATAACCTAAGGAAAATACTTTATCAAAGTCATAATTAAGACTATGCACTCTATGAA -+ -JJJJJGIIIJJJJIJJJJJJJJJJJJJJJJJJJJJJIJJJIJJJJJJIJJJJJJJJJJJHHIJHHHHHHHFFFFFFCEEEEEDDEDC -@HISEQ1:121:C0EP5ACXX:8:1301:10584:5300/2 -CGTTGCTGGAACCACAACCCAAGGTTAGATCGGTTTGATTTATTTGATCAAGGCTCTTTCCTGGTGTGGCTCTTGTTTCAATTCTA -+ -HI?FFFGC<1?;H>FHIJIFGEIFBGGIAHGEBCBA5?>BD?BBDEE>CED??@BA?>A>:++<:@:>@CDC -@HISEQ1:121:C0EP5ACXX:8:2105:3982:74547/2 -AGATCGGTTTGATTTATTTGATCAAGGCTCTTTCCTGGTGTGGCTCTTGTTTCAATTCTATAGTTTGTTTACTATTTTCTATAACCC -+ -EHHGHIFGHIIDFGIIJJJIGHGIGIGIJIJJJIJJIFBFFHGEGHGHGHHFH?AEEHFCDBEBFFCEEEEDDDDEECACCDCC@CB -@HISEQ1:121:C0EP5ACXX:8:2106:6787:24507/2 -CTTGAGTCCACAAGGAAGGCATGTAATGTTAATAAAATTCAAATTATGTAATTTCAGCTTACAAATCAAAGATCGAAGGANNNNNNN -+ -IJIJJIBHHIJJJIIJIJIJJJJFHIGGIJJJIEIIHJJJJIJHJJJJIIGIJJJJJIIIJJJEGHHHHHHHFFFFEDCCBBCCA;@ -@HISEQ1:121:C0EP5ACXX:8:2201:3644:185103/2 -TACTTATAATATACTCGGTAAGACTGAACGCAA -+ -*?CDD<4B9?9B@@99D=/?;88)==8==@EBA -@HISEQ1:121:C0EP5ACXX:8:2306:20358:147552/2 -ATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCA -+ -IJJJJJIJIJIJIIJJJIFIJJJIGIJJJDHIIHHIGHIJJIIJHEDDDDCCCDDDDDDDCDDDDEDCDACCDDDDDC>CCACCDD< -@HISEQ1:121:C0EP5ACXX:8:2302:1563:56433/2 -GGCTCTTGTTTCAATTCTATAGTTTGTTTACTATTTTCTATAACCCTATGCCTGCATCAATTGGATCTGATAACCTTAACACCTATT -+ -HIJIJJIJJJJICHIJJJJJFIGIEGGHIIIJIJJJIIJJJIJIJJJIJJJJJJJIIIIIJJJJHHHHHHFFFFFFEEEEEEDDDDC -@HISEQ1:121:C0EP5ACXX:8:2305:17541:101277/2 -CAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCACAACCCAAGGTTAGATCGGTTTGATTTATTTGATCAAGGCTCTTTCCT -+ -JJJJJIJEHGIIJJJJJJJJJGIJJJIHGIJJIJIIHHHHFFFFDDDDB@CDDDDDDD?BDDDDDEDEDEDDDDEDCDBDDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:2105:7286:178698/2 -TTTGTTTACTATTTTCTATAACCCTATGCCTGCATCAATTGGATCTGATAACCTTAACACCTATTGTCGCTCATGGGTTGAGATTNN -+ -IJJIJJJJJJJJJJJJJJJIJJJJJJJJJJJJJIIJJJJJJJIJJJJJIJJJJJJJJJIJJJJIJJIHHHHFFFFEDCCDCDDDDD@ -@HISEQ1:121:C0EP5ACXX:8:1305:8563:150819/2 -CCTTAACACCTATTGTCGCTCATGGTTTGAGATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTATAAN -+ -EGIIGAHIIIIHIGIIIIJJJJJJIDHHGGIAEHIHIIICHIIIGD@GBGGHEFEEEDBEDADBCDFDDEECCB=?@ACDDDDDAC@ -@HISEQ1:121:C0EP5ACXX:8:2202:16059:23739/2 -TCAGCAACAATCAGATCCCCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGT -+ -JJJJJJJIIJJJJJJJJIJJJJJJJJJJJJIJJJJJJJJJJJJJJJJJJIJJIFHCHFFFFFDCCCDDD@DDCCDDDC?B@DDDBDD -@HISEQ1:121:C0EP5ACXX:8:1106:12563:12186/2 -CTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCACAACCCAAGGTTAGATCGGTTTGATTTATTTN -+ -JJJJJJIIJIJJJJJJJJJJJIJIIJJJJJJJJJJJJHFFFFDEEEDDDDDDDDDDDDDDDDDDDCCDDDDDDDBDDDDDDEDEDEA -@HISEQ1:121:C0EP5ACXX:8:1101:19268:137461/2 -ATGAAATACTCATAACCTAAGGAAAATACTTTATCAAAGTCATAATTAAGACTATGCACTCTATGAATATCACTGAAGTTCTTCAAC -+ -GHBHHHIIJJJJJJJJJJJJJJIJJIIJJJJJJJJIIJJHIJJGGJJJJJJJJJJJJIJJJJGIJIIJJIEFHHHFHFCFFFFFEEC -@HISEQ1:121:C0EP5ACXX:8:2303:2805:180545/2 -CAACAAAATTGATTCCAATAATACATCTAATCTTGAGATCCAACATGCACAGTCTCAACTGGAAAGGATCAATTCTAACTAGATTAN -+ -JJJJJJJJJJJJJJIJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJIJJJHHHHHFFFFFEEEEEEEDDDDDDEDC -@HISEQ1:121:C0EP5ACXX:8:1106:12024:106184/2 -ATAAAATTCAAATTATGTAATTTCAGCTTACAAATCAAAGATCGAAGGAGATGGTAATAAAGTCTAGAAATGAAATACTCATAACCT -+ -JJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJIJJJJJJJJJJJJJJJJJGHJJJJJJHIJJJHFHHHHFFFFFFEEEEEEE@ -@HISEQ1:121:C0EP5ACXX:8:1203:12551:9896/2 -TTCAACAGAATAATCACAAGGCTTGAGCAAAGGTAGAGGAATCTATCTAACACACTCTCCTGCAGAGCAGCAACAAAATTGATTCCA -+ -GIHGGIIIJFIGGGADHIIEGIGGIIIGGIJIJ9BFCFGEGEHEDHGIJIJJIIGIJJJHHHGHFFFFFEEECEDDDDDDDCDCDFD -@HISEQ1:121:C0EP5ACXX:8:2302:5053:188424/2 -TTTTGTTGCTGCTCTGCAGGAGAGTGTGTTAGATAGATTCCTCTACCTTTGCTCAAGCCTTGTGATTATTCTGTTGAAGAACTTCAN -+ -JJIJJJJJJJJIGGIJJIJJEHDHCFDGGIJJIIJIIIIJJJJJJJJJJJJJJJJIJJJIJJEHHHEHHFFFFFFFECDDCEDDDDC -@HISEQ1:121:C0EP5ACXX:8:1203:12097:70095/2 -CTGAAGTTCTTCAACAGAATAATCACAAGGCTTGAGCAAAGGTAGAGGAATCTATCTAACACACTCTCCTGCAGAGCAGCAACAAAA -+ -JJJJJJJHIJJJJJJJJJJJJJJJJJJJJJJJJJJJHHIIJJFGHIJJIJJJJJIJJEIIJJJHHHHDFFFFDEDDEDDDDDDDABB -@HISEQ1:121:C0EP5ACXX:8:1305:18243:121070/2 -TGTTGCTGCTCTGCAGGAGAGTGTGTTAGATAGATTCCTCTACCTTTGCTCAAGCCTTGTGATTATTCTGTTGAAGAACTTCAGTNN -+ -JGGIIDHHIJIGHCHGG?GHIIIE>?FCHGIGHIIJGIGIJIDHHGIIJIGIGHGIGIGEE@EHHHHHHFFFFCDFEEDDEECDEDC -@HISEQ1:121:C0EP5ACXX:8:2208:11196:39835/2 -TAATTAAGACTATGCACTCTATGAATATCACTGAAGTTCTTCAACAGAATAATCACAAGGCTTGAGAAAAGGTAGAGGAATCNNNN -+ -EF:3,<+3CCDGHG@GGGGGG9?BH4?CF@BDHEG?HE*?FGGDHHGDGICGD48FDHHIIGEHEG(7A=??7?@D@@BBACDCEA -@HISEQ1:121:C0EP5ACXX:8:1202:2784:55498/2 -TGAGATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTATAAGTAATCTCATTCCTTGTTTTCGTTGTAA -+ -IJGIFJJIIJJIJIJJJJJHIJJJJIJBFGHIJJIJHGJHHIJJJJHHH?DFFFFFEEEEFEEEEDDDEEEFDDDDDDDDDDDDDD@ -@HISEQ1:121:C0EP5ACXX:8:1308:6994:8081/2 -AGACTGTGCATGTTGGATCTCAAGATTAGATGTATTATTGGAATCAATTTTGTTGCTGCTCTGCAGGAGAGTGTGTTAGATAGATTC -+ -FF@BHEIEIJJJGG9E3FGHGGGD@>>ACC;;@;?>5;8>CCCCCC:A>C@:CCCC:@@>CC3+8???>CCCA -@HISEQ1:121:C0EP5ACXX:7:2301:2438:126170/1 -ACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGT -+ -=:EFEIIIEEBBEEFEFEFE4?DGFIECFII>GFGFIIIIFGFGFIIIIIIC;DEIFIFAB@?5=AA@BB -@HISEQ1:121:C0EP5ACXX:7:2307:15824:34753/1 -CTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACN -+ -JJJJJJJHGHJJIJGIIGGIJJIGIIJJJJJJIJIIJJIIJJJJJGDHGGGHHGIHHHFDDDDDDFDDDDDBBCCDDDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:7:1307:10967:98956/1 -CCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGN -+ -JIJJIIJJIHGHIJGIJJJJJJJJJIIIJIGGHHIIJJJJJJJJIJJJJGCGHGHHGHFFFFEEECEEDDDBDBDCDDDCCCDDCD? -@HISEQ1:121:C0EP5ACXX:7:1204:2070:27164/1 -TTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTG -+ -JJJGHIJJHIJJGGIJJIFHGIIIJJJJJJJJIJJJJJFIIHHHHHFFFFFDEEEEEDEDDDDDDDEEDDCDDDDDDDDD@DDDDCB -@HISEQ1:121:C0EP5ACXX:7:2203:9357:39154/1 -CCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCTTCCTGGCCTCCTCTGCTCCCTGCGAATGGTGATTGGN -+ -J@FIIJJJJJJJIGCHIDGEHGIJGIFGIJIJJIJIJIIHHIIEG@FHIJIHGIGEHHHHFDFFEDEDEDDCDDD/=CDDDCC>AD< -@HISEQ1:121:C0EP5ACXX:7:1301:9698:5102/1 -TCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATC -+ -JJJJJIJJIIIIJJJIIJIJJJJIJCHGIJJJJJJFHIJJJJJJJJJJJJJJIHHHHHEEEBEECEEEDDDCDDDDBBDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:7:1301:12379:185214/1 -TCCCTGCGAATGGTGATTGGAGATGGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGNN -+ -IHHIIFIHIJJJJ9DHHIJIHEGIIGEIDFHIIIIEHIHEFGHJJIIFHFFFFFEFDC>CC>CCCDD@CDDECDDAACCDEDDDDDC -@HISEQ1:121:C0EP5ACXX:7:1302:19292:99635/1 -CTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCG -+ -JJJJJJJJJJJIIJJGIJJJJGIFHIJJJJJJJJJJJIJEGIJJJJJJIJJJHEEEEEFFFFDDDBCDDDDCCCDDDBBDDCDBDBD -@HISEQ1:121:C0EP5ACXX:7:2306:17747:145219/1 -TAGAAAATAGTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCT -+ -G@GIHGIGIGAEC@EEHIGGIGEFGH>GHHIIIIHIEICHGHIGIIIFCGGIIIGECEC;;?CDDFFC>CACACA?BBDD?(:AAC -@HISEQ1:121:C0EP5ACXX:7:1304:7016:24190/1 -ATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTT -+ -IJIIHIIIJJIJIIIIJIGDFEHJIHJJJJJJJJJJJGIJJHHHHHFFFFFFCDEEEDDDDCDDDDDEECCDDDDDDDDDDBEDDDD -@HISEQ1:121:C0EP5ACXX:7:2301:6715:183785/1 -CTTGAAGGAGTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCACAACCCAAGGTTAG -+ -JJJJJJJJIJGHJJJJJIIIIIJJIJJIHIJJIJJJIJHFHHFFFFFDEEDDDDDDDDDDDDDDDDDDDDDDBDDDDDDD?BD>CCA -@HISEQ1:121:C0EP5ACXX:7:1203:2790:175160/1 -TCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGTTTCGT -+ -IIIJIJJJFJJJJJGIDGHIJIGIDIIFHJGGGGGIIJGDHHHHFFFDDEEECDDCCDCDDCCDDDDDBDDBBDCDDD<@CCC>CC@C;ADDDD@:8 -@HISEQ1:121:C0EP5ACXX:7:1102:17294:172346/1 -ATAATACATCTAATCTTGAGATCCAACATGCACAGTCTCAACTGGAAAGGATCAATTCTAACTAGATTAGAATAAGCCAGGGAAACN -+ -JJJJJJJIJIJJJJJJJJIGIJJJJJJJJJIJJJJJJJJJGIJJJJJIJHIJJJIIIJJJJIIJJFHHHHHFFFFFFCEDDBDDDCA -@HISEQ1:121:C0EP5ACXX:7:1208:9741:160200/1 -TGCTGGAACCACAACCCAAGGTTAGATCGGTTTGATTTATTTGATCAAGGCTCTTTCCTGGTGTGGCTCTTGTTTCAATTCTATAGT -+ -9A@H(..=3?C:);;.)7?@>;>A>AC@C@C(5((5,59@C:@(:(4(::4:@4>3:B -@HISEQ1:121:C0EP5ACXX:7:1304:10851:86218/1 -CGTTGTAAGATTAGTTATGTTTCCCTGGCTTATTCTAATCTAGTTAGAATTGATCCTTTCCAGTTGAGACTGTGCATGTTGGATCTC -+ -EHBEAHGGEFHGB@EDDG@?FEGIIGGGGGCHGIBGIGHGEACA -@HISEQ1:121:C0EP5ACXX:7:2204:19880:81834/1 -AGGAAAATACTTTATCAAAGTCATAATTAAGACTATGCACTCTATGAATATCACTGAAGTTCTTCAACAGAATAATCACAAGGCTTG -+ -JJJJJJJJJJJJJIJJJIIJGGGJIJJJJJIJIJJJJIJJIJJJJJJJJJJJJJIIIBFGHIFHJJJJJJHHHHHGFFFFDECCCEB -@HISEQ1:121:C0EP5ACXX:7:2303:19926:13623/1 -GAATACCAACTCCCCAAATTTACCAAATCTCACACCACCTTGTGGTAGCACAAAAAGTTCCAAACCAAAAGTGACCAAATCAGGTAC -+ -IJJIJJGIJJJJJJJJIJJJJJJIJJJJJGIJHIJEHIIJJJIIICGIHHHHHFFFF@CDEDCEDDDDDDDACDDDDDDDDDDD>CC -@HISEQ1:121:C0EP5ACXX:7:2306:15928:63590/1 -AAAATAGTACGACCAACATCAATGATGCTTACCAACAAAACAAGGGGAATACCAACTCCCCAAATTTACCAAATCTCACACCACCTT -+ -IIGHIGBAFHHGGIIIEDD@DG@@@GGEEGIIGHGIGGHGIIGGCAHHFFEE3@DDAC@ABA;ACCCCDCCCBCCC>ACCCBBBBA@ -@HISEQ1:121:C0EP5ACXX:7:2105:7681:133379/1 -GTACTATTTTTGGTAGCATCATTAATCACCATATCAGCAAAGGAAAGCTTCCCCTTCCCCTTATCCATAGCAACCCTCTCTTCAGTN -+ -JJJJJJFIJJJGICGGGIJGJEIIJJJJJJJJJJIIIIIJJJIJJIIIJJIJJJJHHHHHFFFFFECEEEEDCDDBDDDDDCDDCBA -@HISEQ1:121:C0EP5ACXX:7:2102:2292:138014/1 -CATTAATCACCATATCAGCAAAGGAAAGCTTCCCCTTCCCCTTATCCATAGCAACCCTCTCTTCAGTAAATGCACACACCCACTCAC -+ -JJJJJJJJIJJJJJJJJJJJIJJJJJJJJJJJJJJJJJJJJJJJJJJIJJJJJJIIHHHHHFDFFFFEEDEEDEDDDDDDDDDDDDC -@HISEQ1:121:C0EP5ACXX:7:1307:11840:86884/1 -TTTGCTTGGGTTCTAGCAAGAGCAAGTTTATTAAAGAGAGCTTTGGGATCAAAAGTTTTGGTACCTGATTTGGTCACTTTTGGTTTG -+ -JJIIJJJIJJFHGHIJJJJIGIIJJJJIJHJJJJJJJIGHHHFFFFDDEDEDDDDCDEDDDBCDCDDDDDEDCBDDDDDDDDCDDDD -@HISEQ1:121:C0EP5ACXX:7:2207:1406:103949/1 -AACCCTCTCTTCAGTAAATGCACACACCCACTCACTGTATCTAAAGCTCACTATGAATATTAACCAGTACAGAGCAGATTTACTCGG -+ -JJJJJJJJJJJJIJIGJJJJJJIJJJJJJJJJIJJJJHIJJJIJIJJJJJJJJJJIIJJJJHHHEGFDFFFFEEDDEDDDDDEDDDD diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/father_2.fastq --- a/demo_files/father_2.fastq Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,132 +0,0 @@ -@HISEQ1:121:C0EP5ACXX:7:1203:4036:101367/2 -AGAAAGGAAAGAAAACAAGCACAGAGGGGAGGAGCAAAAGCTCCATCCTAGGCTTGGAAGAGATTCGAACAAGAACAGAGAAGAANN -+ -IIJJJIJJJJJJIJJIJJJJJJJJJJIJJJJJJJJJGHIJHHHHHFFFFFFEEEEDDCDDDDDCDDDEBDBCCDDDDDDDDCDDD?> -@HISEQ1:121:C0EP5ACXX:7:1104:4621:84657/2 -TAGGATGGAGCTTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTN -+ -JJJJJJJJJJJJJJJJJIIIJJJJJIJJJHIJJJJFGHIJJJJJJJJJJJJJJJJJIJJHHHHHFFFFDCEEEDCDCCFECDDCCDD -@HISEQ1:121:C0EP5ACXX:7:2302:14544:194571/2 -GCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTN -+ -JIJJJJIJJJJJJIJJJJJJJJJJJIJJJJIJJHHHHFFFFEEDDDDDDDDDDDDDDDDDDDDEEDDDEED>CCDDD8?BDDCCCD@ -@HISEQ1:121:C0EP5ACXX:7:2104:2793:10052/2 -ATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTT -+ -DEH93CDG>78?:CGHAGHHEGHIIIJIIIJGIIJIIJHIJHHHEHDFFFFFDEECEDDEDDDDDDDEEDDDDDDDDDDDD@DCBCC -@HISEQ1:121:C0EP5ACXX:7:1305:17112:135146/2 -CATCTCCAATCACCATTCGCAGGGAGCAGAGGAGGCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAANNNNNNNNN -+ -+22E>@DFCDEDDDDDBBDDDDDDDDDDDBD1?BB9CEHDHEFFFFFDEDCADD@AC3>@ACDDC -@HISEQ1:121:C0EP5ACXX:7:1106:19675:197765/2 -CGAAAGAGAGGCAATAATTGTAAAGTAAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCN -+ -JJJJJJGIIIJJJJJJJJJJHIJJJGHIJJJJJJJJIJJJJJJJJJJJJJHHHHHHFFFFFDEDEEDDDDDDDDCDDEDDDDDDDEC -@HISEQ1:121:C0EP5ACXX:7:1102:8367:114087/2 -CTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGAAGACTCCAAATAAGAGGCAAGTGAAGAGATTC -+ -?CGGEFG?:C?AG8@@3=>8BCFCG@D@4@DEA=7A<,;CE>C@>(.--55;>>CCCCA:C@???2<+43:::2?@@C -@HISEQ1:121:C0EP5ACXX:7:2102:5258:155716/2 -ACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGCCTCC -+ -3CFFHIGGIJGHGIHGGHH5@CDDDDDDACCCB:9>@>>@@>(944::A>A>33:@C>C@AB -@HISEQ1:121:C0EP5ACXX:7:2307:15824:34753/2 -ACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAA -+ -JJJJIJJIJJJJIJIJIJJJIJJJIJJJFGIJJHIHEIHJHHF>?BDDDEDDDDDDDDDDEECDEDDDDCDDCCDCCCCCDCDDCD -@HISEQ1:121:C0EP5ACXX:7:1307:10967:98956/2 -AGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTC -+ -JJJJJJJJIIJJJJJGIIF@GHIJJIJIJJJIIIJJHHDGHIGHHHFD>BDCDCEDDDDDDDDDDEEDDECDDDDDCDDCACCDDDC -@HISEQ1:121:C0EP5ACXX:7:1204:2070:27164/2 -GAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGANN -+ -IJJJJJIJJIIJJIJJIJJJJJJJJJJJJJJIJIJIIIIHIJIJJHHHHGFFFFFCCCEEEEEDC@CDDBDBB@DCDDDBB>CDAC< -@HISEQ1:121:C0EP5ACXX:7:2203:9357:39154/2 -AGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGNNNNNNNN -+ -GGIIBHDGGIGG@FIIJJIJJJIGIJJJJIIJIJJIIIIJIEIIHHHHHFFDFFFDEEDEEEDDDDDDDDDDDDDDDDDDACDDDDDDC>A@C -@HISEQ1:121:C0EP5ACXX:7:1302:19292:99635/2 -AACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGGTTCCAGC -+ -JJJJJJJJJJJJJJJJJJJJJJIJJJJJJJJJGGIJIJJJJJJJJJJJIJJJJJJJJHHHHFDDEDDDDDDDDDDDD@DDCBDDDCC -@HISEQ1:121:C0EP5ACXX:7:2306:17747:145219/2 -GGCCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATGGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAN -+ -3C>ACDGECHGG>BGGIJJI?DC?@CCCCCCCDC@C -@HISEQ1:121:C0EP5ACXX:7:1304:7016:24190/2 -AACGCAACACCATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGC -+ -JJJJGGJJJJJJIIJJJGJJJJEBHIIIIJIGJJJIJJJJJJJJJHHHFBACEDD>CDDDECDACDDDDDCDDDDDDDDDEDACDD@ -@HISEQ1:121:C0EP5ACXX:7:2301:6715:183785/2 -TACAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAACGCAACACCATATTTCCGGATCCAATCAATCTCAA -+ -JJJJIJIJJJJJJJJIIJJJJJIJJJJJJJJJJJJJJJJJJJIIJJJJJJJJJJHHFFFDDDEEDEEEDDDDDDDDDDDDCDDDDDD -@HISEQ1:121:C0EP5ACXX:7:1203:2790:175160/2 -ATCTTACAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAACGCAACACCATATTTCCGGATCCAATCNNNN -+ -IIHGCJIJJJGIIJJIGJJJDIIJJIGJDIEHIIIIGIIHEHFGHCFH@F>BDDDDCCDECCCBBD>B? -@HISEQ1:121:C0EP5ACXX:7:1102:17294:172346/2 -AGATCCCCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCC -+ -HHIJJJJJJIJJJJIJJJJJJJJIIJJIJJJJJJJJGIJJIHICGHHGJHHHHHFFDDDDDDDDDDDDBDDDABE:A>EHHC(7;@@@>=36@>C:?;>C -@HISEQ1:121:C0EP5ACXX:7:1304:10851:86218/2 -ATCACTGAAGTTCTTCAACAGAATAATCACAAGGCTTGAGCAAAGGTAGAGGAATCTATCTAACACACTCTCCTGCAGAGCAGCAAC -+ -GIIIIJJIIECHFHGGGGHIHHGIIJGFEHFHFFDECACEECCCCACCDDDDD -@HISEQ1:121:C0EP5ACXX:7:2204:19880:81834/2 -GATCTCAAGATTAGATGTATTATTGGAATCAATTTTGTTGCTGCTCTGCAGGAGAGTGTGTTAGATAGATTCCTCTACCTTTGCTCA -+ -JGIIIJJJIGIJGJGGIHHIIJJJJJIJJIJGIJJJHHIIJIJJJJJJJIIJHGCG=F@CDHIJFHHHHHHFFFFFDEECEEEDDDD -@HISEQ1:121:C0EP5ACXX:7:2303:19926:13623/2 -GGAAATAGACTCATGGCTAGGATCGAAACCCGAGTGCCATTGCTTAAGGAGTAAGAGTTGGCTAAATATATGGTAGGGCCTAGNNNN -+ -IJJIIJIGIJJJJIFJJJJGIECH>GIIGIJIGA7CCFFHIGHGIGIJIHH>EE:;@7;BEAACECCACDDCA5>@BDCB?AC@>:A -@HISEQ1:121:C0EP5ACXX:7:2306:15928:63590/2 -GAGCAAGTTTATTAAAGAGAGCTTTGGGATCAAAAGTTTTGGTACCTGATTTGGTCACTTTTGGTTTGGAACTTTTTGTGCTACCAC -+ -JIJJJGHHHIIIIIJJIJIHJJJIJIIIIIJIIGIHJIIIHGGIIJJJGIJJGIJJGGHHHHFFEFEDDEDDDDDDDDDDDDACCCC -@HISEQ1:121:C0EP5ACXX:7:2105:7681:133379/2 -TATCAACTAGGTGGTCTTCTTTACCTTTTGTACTCTGACTTAGCTAACTCTTCCAACAGTAGCAAAGCTTACCCCTATTTATATAAC -+ -JJJJJJJJJJFBGHHGIJIJJJIJJJJJJJIIJJJJIJJJIJIIIIJJIJJIHJJJJJIHIGEIGGHEFHFDFFFDDDEEFEEEEE: -@HISEQ1:121:C0EP5ACXX:7:2102:2292:138014/2 -TATCAAACCCCTGATCTGTCTGAGGCTGTGTCCTGTCTGAATGTTGTTAACGTGAATTGCTATACTAAGTTGCTGAACTATCAACTA -+ -JIJJJJJJJJJJIIIIJJJJJJIJJJJJIJIJJJJIGHIJJJIHIJJIGIJIHJIIJIJHHHHHHHFFFFFFFEECCEEDDDDDDDA -@HISEQ1:121:C0EP5ACXX:7:1307:11840:86884/2 -ATTCATAGTGAGCTTTAGATACAGTGAGTGGGTGTGTGCATTTACTGAAGAGAGGGTTGCTATGGATAAGGGGAAGGGGAAGCTTTC -+ -IJJIJJJIHIIJJJJJJJJJJJJJGIJJGIJJDGHIJJJJJJJIJJJIIJIJGIJJIJHHHHHFFFFFFDEEDDDDDDDDBDDDDDD -@HISEQ1:121:C0EP5ACXX:7:2207:1406:103949/2 -TCTGTCTGAGGCTGTGTCCTGTCTGAATGTTGTTAACGTGAATTGCTATACTAAGTTGCTGAACTATCAACTAGGTGGTCTTCTTTA -+ -GIIIEDHIIIIGCHEEFGGGIFHIJGGHIJJIHHJIHHHIJGIJIIJGIIJIGIIHIIIIHHHFHHFFFFFFEEE>@B?CCDDDDDC diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/father_male.bam Binary file demo_files/father_male.bam has changed diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/father_male.bam.bai Binary file demo_files/father_male.bam.bai has changed diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/mother.bam Binary file demo_files/mother.bam has changed diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/mother.bam.bai Binary file demo_files/mother.bam.bai has changed diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/mother_1.fastq --- a/demo_files/mother_1.fastq Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,704 +0,0 @@ -@HISEQ1:121:C0EP5ACXX:8:2204:19496:144054/1 -GGCGAATCCCCACAATTTGCAAGGGCAAATTATGTGTTCCACCACAAAATGAAACAAGAAAGGAAAGAAAACAAGCACAGAGGGGAG -+ -GHFHGHJGDHGGG=@DGHGIGCDHFHAB@DEFFCFFECECCCDDBBADDDDCDDDCBCD?A:?ACCACDD3?ADCDDCDDCCB@><< -@HISEQ1:121:C0EP5ACXX:8:2204:8525:81513/1 -ATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAAGGGCAAATTATGTGTTCCACCACAAAATGAAACAAGANNNN -+ -IJJJJCIIJJJJJJJJJCEHGIIJJIIJIJHHHFFFFDDEEEDDEDDDDDDDDDDDEDEEDCDDEDDDDDDBDDDDDDDDDCCDDDB -@HISEQ1:121:C0EP5ACXX:8:1103:3495:189629/1 -CCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTG -+ -GHGIGIGII>>HH@FGHIGGCGGGIIIIIIEBFGHIGHIGFHHICHCHIGDFGGIIIGEAEECEFFFCCCEECCCDCCACDDDCDC@ -@HISEQ1:121:C0EP5ACXX:8:1304:11225:78484/1 -CTCTAAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCT -+ -GG@CFHGIIFEF<9EG@FCD?FGGEBFGHGB@BDHGEGHICGGHIIIEEHICGGH@DHE@CE>A>CE@3;@A>?ACCC;ACC@??<< -@HISEQ1:121:C0EP5ACXX:8:1108:5040:99148/1 -TCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTCCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATT -+ -JJJJIJEGJJIJIJGGJIHGIJICHJIIIIIIIIIJJJFIIJJJJJIIJJJJIJIEECEHGFHFFFFFEE@CAEEDDDCCCDDDDDE -@HISEQ1:121:C0EP5ACXX:8:2205:18768:173013/1 -TCCTCTAAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAG -+ -HIIFIJJFGIIJIJGGAGHIGIGIIIIIIDDDCFIHGHGGIJIJIIGIIJJJIJIIGACGHAEHFDFFFFFFEACDDCACCCACDC@ -@HISEQ1:121:C0EP5ACXX:8:2304:9392:61526/1 -TACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTT -+ -JJJJJJJJIJJIHIGHIJIJJJJJJJIIIJJIIJJJGIIJJJJJIIHJJJJJGIIJJJJIJJFHHHHFFFFFEDDCDDCCCCDDD<@ -@HISEQ1:121:C0EP5ACXX:8:1107:8798:32463/1 -TCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTAT -+ -JJJJHIIIIIIJJJJJJJGIIJJJJIIIJIGEHIIJJHIJIIIIJJJJFHIIIJJIIJJHHEHFDDDFFEFDDDBBCDDDDDDB5FIIFEFFF.=)7=>;>B@.6>A(6;>@5>@;5>? -@HISEQ1:121:C0EP5ACXX:8:2304:6536:185404/1 -GAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAAGGGCANN -+ -JHIJJIJJJJJJJIJJJJFHIJJJBFHJJGHGHIJJJJJBFHGIGHJJJJJDEFHHHHFFDBDDDDDDDCBDDDDDDDEDDDDDDDB -@HISEQ1:121:C0EP5ACXX:8:2305:5708:181701/1 -CCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTG -+ -BGGIEGGIGGGIIBFGGCE>>DC?CFGHIGGHIGFEHEIIIIII;==CEAAHEEDAGGH?EHBCDFFBBCACCCCCCAA=?B@A@A> -@HISEQ1:121:C0EP5ACXX:8:1206:13113:50926/1 -GAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAAGGGCAN -+ -B+A:CFI;9+:9?:CEE9C9?D<;):B88>>>A>>(:<FHFCGHEGGHGHICG@DD?9B>=FGIGA@DHGII;CH??>B>;>C@66>C>A=CC?@CCC -@HISEQ1:121:C0EP5ACXX:8:2105:21271:167682/1 -AAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTT -+ -IICIGJJIIGGIGGJFIJI@GGHIJIIJJGHGGHEIJJI;FHIGH:C@FIJGGEG47B;?CCHHE@B97>?ACCABD=CCC:BA -@HISEQ1:121:C0EP5ACXX:8:1302:11743:35278/1 -GGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCNN -+ -ACFEEF+?F9BBHD@BFFH??FGIFHFFCDE@>?DFHG;)).).=CH@AEHHBE;7>>CAC;>;;>>;5>>C?3@@ -@HISEQ1:121:C0EP5ACXX:8:1307:11530:167684/1 -CCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTG -+ -IGAFHGCIIBEEFFGHE>CFHI@E@EHGIGIGEH?DFDHGHIIE=CAEHIIIIHIIEBHEA7=;;;?;AC@AC>5>>A?CCDBCBCC -@HISEQ1:121:C0EP5ACXX:8:2306:2962:37980/1 -TGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGAAAAGTTTTGGGTATACGGGGCGAATCC -+ -E3;1;;)CEFEDECEDA=DCDA>DDIDC>B=BBBCCEACEEDA2.=@D>=C7=;;@DDD3>>A>@AAA=?:?AAD>?A -@HISEQ1:121:C0EP5ACXX:8:2307:9346:102436/1 -TGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCC -+ -GJJIHEHGGGGIJIIBHEEBF@FGEIIICHGHIBDHGI@=CFHI(@CGE=CAEHHFF@D);;@A@CEDB@@?C@ACABBB>CCCCDEDDDD8@CDDDBDDBDD@5 -@HISEQ1:121:C0EP5ACXX:8:1203:20081:59684/1 -ATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACN -+ -JJJJJIJIJJJIJJJJJJIJJJHIJJJJFIJIIIJJJJJJJIHHIIJIGIJJGJIIH;CEHHFFFFFFCCDFEEECD???BBDDDD? -@HISEQ1:121:C0EP5ACXX:8:2202:6060:140689/1 -TTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATNNNN -+ -JJJJIJJJJIIJJJJJJJJJJJJEIGGHGHIIIGIIJHIJJJIGGHIIIJJIIJJIHHHFECDCDDFFF:@C?@?BBCCDDBDDCDD -@HISEQ1:121:C0EP5ACXX:8:2206:18846:173028/1 -CCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGNNN -+ -JJJIIIEGHIJIJGIIIJJIGDGFHHIIEGFGIIJFFAEEDGGHGECHEEEBD@CB@CEDCAACCDDDEDDDDBCCADBDDDBDDB> -@HISEQ1:121:C0EP5ACXX:8:1205:18182:73982/1 -AGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGC -+ -JJJJJJJJJJIJJJJJJJJJJJJJJJJIIJIJJJJJJJJHHHHHEHHHFFBDDCEDEEFDCCDDDACCDDBCEDDDD<@CDDDDDD< -@HISEQ1:121:C0EP5ACXX:8:1206:1811:22216/1 -TCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCC -+ -;EG9CCE@>H@FBDGGEE?D<B4=C5>5;;>@ACCCB -@HISEQ1:121:C0EP5ACXX:8:2307:19323:17727/1 -GGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGCACACATAATTTGCCCTTGCNN -+ -JJJJJJIJJIJJJIJJJJJJJJJJIJHIIJJJGHIJJJJIJJJJJIJJJIIJJJIJJJGHHGHDFFFEEEDEDCDEECDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2304:13953:99797/1 -GGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCNN -+ -FG@4<@G@>CGGCEBEED9?CCGG>GGIIGIEFDDAHIII=FHHGGGFC@FGEHGCHI;?>AED?DECCC?CCCCDE<>55>CCCC> -@HISEQ1:121:C0EP5ACXX:8:1206:2780:83786/1 -TCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTG -+ -AFEDHFGIHICEAGGG=CC=DE=;?CEEEEE>?C@3@CCCCCCCDEEDC?? -@HISEQ1:121:C0EP5ACXX:8:1302:14767:71234/1 -TCCTCTAAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAG -+ -JJJJJJIJJJHGIJJJJJJJIJIIJIJIJJJIJJJIIJIJJJGJIJJJGIIJIJJJJGIIJHGHHFFFFFFFEDEDDDDDDDDD?AB -@HISEQ1:121:C0EP5ACXX:8:2103:4557:157261/1 -GGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCNN -+ -H@F:CFGHHHIIGGGIGIIIIIBGGIBGHGGIFHEIIEHHEDFGHHIG=@FIDDEHGGHEE=??BEFEEECECCCDC:>@CCCCCCC -@HISEQ1:121:C0EP5ACXX:8:2302:4919:198649/1 -CTCTCCTCTAAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGNNNN -+ -JJIJJJJJJJJJJIIJJJIJIIJJJJJIJJIJIJIJJJJJJJJJJJJJIIJJJJIAHGIIIJHHFEDFFFFFECECEEDDDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:2102:15481:17585/1 -CAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCGAGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCN -+ -JJJJJIIJJIJJCHHIIIFIFJJJIJJJIIJJJJIIGIAGHEHFFCDEDBBBBDDDDCDDDCBDDDDDDCCCDBCDDDDB>CCBBBD -@HISEQ1:121:C0EP5ACXX:8:1102:3776:50474/1 -ATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAG -+ -IJJJJJIJJJIJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJHHHFFFFDDEEDDDDDDDDCDDDDDDDDBDDBDCDBDCBDDD>A9 -@HISEQ1:121:C0EP5ACXX:8:1106:16133:150529/1 -ATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAG -+ -JJJIIJJJJIGIJJJIIGIDIGIIJJJGJJIIIJGJIIJIJJHHHFFFFEDBEDDDDDDD>@CDCBDDDBBDDDDDDDBCDDDDBDC -@HISEQ1:121:C0EP5ACXX:8:2306:7300:185913/1 -CTAAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTT -+ -IGIJJJJIHIJJIHGIGI>GHGIJJ>GDCIIJIJJJJJJIJJIJJJJJJJIJJJIIIIEGHEHHHFFFFFFDDCCCDDCDDDDCDDA -@HISEQ1:121:C0EP5ACXX:8:1201:6936:191697/1 -TTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAANNN -+ -JJJJJJJIJJIIJJJJIAEHIJIIJIJJIJIJJJJJJIJJJIIJJHHHGFFCCCDBBBDDDDDDDDDCCCDDDDDDD@ADDD?CDD< -@HISEQ1:121:C0EP5ACXX:8:1103:1745:180624/1 -CTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGC -+ -JJJJJIJJIJIJJJJJJFEHGIIGIJIHDCCFHHEHHHIIJCDHIIJIJIIIJIGHIJEHHE>EDDFFEEECDEDDDDBBCBCC@>> -@HISEQ1:121:C0EP5ACXX:8:1206:17568:25304/1 -TGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAANN -+ -EHGEHGIIGFHGGHJFGEGEGHEGIHIJIAFH?BFHGIIHJIICGIIGGIHH9FGGGDGGHCAHBBC>A;?BB?BB89>CC:@DFC>CBCD?BCAGFFFCGIICFFEC9BFFFDFF)*=C@:AB@;;;;;=@98@B=@<8?@@<@@B5>@BDDDBDDDBDDDDBDDDBDDDDDB -@HISEQ1:121:C0EP5ACXX:8:1201:10878:193365/1 -AGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGNN -+ -JIJJJIIIJFHIIIGEGIJJJJG?GHGIJJFHGJJJJJJJJJGIJJJJJIIGCHHHHHHHFEDDDBDDDDDDDDBDDDDDBDDDDD8 -@HISEQ1:121:C0EP5ACXX:8:1107:3570:34778/1 -TCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAG -+ -JJJJIGJHHHGICHIJJJIJJHGIGIJJJHHIIIIJIJJIIJJ@@GHIGIIJJHFHHHBEFCFFEEDCEEDCDDDDDDEDDDDDBDB -@HISEQ1:121:C0EP5ACXX:8:1104:15089:78984/1 -CTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCTGGTGAGAGCAGCCTTCGATCCATCTCCAATCACCATTCGCAGGG -+ -JJJJJIJJJIGAEHIJJJIIIJIGIJJJIIJGHIJJJJJJJJJJJ=CFHGGIJIIHHHHHFEFFEEEEEDEC>CCCDDDDDDDDDBD -@HISEQ1:121:C0EP5ACXX:8:1101:10457:23604/1 -GCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCN -+ -IJJJJHJJJJJIJIIJJJGIJGHIIGIIJJJGIJIIIIGJJJIJJJJJJJIJJJIJIGFHFEHHHFFFDDDDDDDDDDD>>BDDDDC -@HISEQ1:121:C0EP5ACXX:8:2305:17031:5327/1 -ATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTT -+ -CBBDF:C@EFE@*?1DDD6?:D@DDE@CCDACAACCDIACDCCD;;7;@@?@=AAAAAAA>>>AAAAAB3>A>>>>>AAA?>>A?>> -@HISEQ1:121:C0EP5ACXX:8:2102:21212:46392/1 -TCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACC -+ -JJJFIIIJIJJFIJJJJJG>FGHJGEIIJJEGIHIIJIJIJ4CGIJIJIGHIJIJ:=CDCFEFEEACCDDDDDCD>@CDCDCCDCDC -@HISEQ1:121:C0EP5ACXX:8:2102:10309:35842/1 -TACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCC -+ -JJJJJIJJJJJJJJJJJJJJJJJJJIJJJJJJJJJJJJJJJJJJJJJJJJJJJJIJJJJHHFHFFFFFFEEEEDDDDDDDDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:2203:18766:43466/1 -GGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCNN -+ -JJJJJJIJJJJJIJJJJJJJJJJJJJFIIJJIHIJJJJIJIIIJJJJJJJIIJIIIIIIHHGHFEEFEEDDEDDDEEDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1308:4675:83154/1 -CTCTCTCTTCTTCTCTGTTCTGGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGGGCTTGTTTTCTTTCCT -+ -IHHGEEHICFGG@CFHGFHGH+?CBFII)?GFHIIIGDB??FBHF9C)=B@=8@7=CGGCGEEHFDDBCC(;A=ABB:CCCCCCCCC -@HISEQ1:121:C0EP5ACXX:8:1107:5242:86751/1 -GCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTC -+ -JJJJJJJJIJJJJJJJJJJIJJJJJJJJJJIJJJJJJJJIJIJJJJJJJJJHIIIIIJFHEEHFGFFFFCEEEDCBDDDDDDDDCCC -@HISEQ1:121:C0EP5ACXX:8:1306:15890:88846/1 -TTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTC -+ -IJJJJIICGHIJJIGIIBEHIIJJGIJJJGGDGHHIJJGJIJJJJJIIJJIJJIJJJEGHHEEHFFFFFEEDDEC@@5;=CCC@DDC -@HISEQ1:121:C0EP5ACXX:8:2103:4321:176641/1 -GAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCN -+ -JIIHIHHIIJJ@FHGHIJGIDHDHGIJEHGIJGHIFGHHGFFFCEFDEEEEDC@CDDDDDD@BDDCDDEDDDDCDDDCB9GGHGEAGEGIDGBHDGIGII4@E=C7?CFFFECBCCCCDDDCD??CCCCDDD>ACDCCD@CCC>>CCCDBBB?B@>CD@A<9@CD -@HISEQ1:121:C0EP5ACXX:8:1303:12868:89901/1 -TTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTT -+ -JGCGIIJJIJIJIIJ@HGGCBGIIIDFGHICHEHIJIJC@FGEHJHJJIJJJIGIEGHIBHHHGCEEDDDDAA@@CC;AA@CDDCDD -@HISEQ1:121:C0EP5ACXX:8:2105:10194:4856/1 -AAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCT -+ -JJIIIJJIJJJJJJJGIAGGIIJJGJJIHIJIJGGIIJJJJJJJFHIGGIGGEHICEHEEEEHHGFFDDFC@CEC>@BCBDDDDC>@ -@HISEQ1:121:C0EP5ACXX:8:2303:17380:176758/1 -AACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTC -+ -JJIIIJJJJJIJGIJIJIIEIJJFGIIJIJIGIJJJIJJJJIJJGIJJJJJJJI?@EHIGHEHFHFFFFEEEEECDDDDDDDCCCDC -@HISEQ1:121:C0EP5ACXX:8:1301:11188:179944/1 -GGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCANNNN -+ -JJBHIJJJJIIJJJJJHIIJJGGBGGIJJJJ:@ECECEDEDDDDDDDDEEDDEDDDDDDDDCCCCDDDDDDDCDDDDCCDDDDB<>> -@HISEQ1:121:C0EP5ACXX:8:2306:14700:199855/1 -CATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAG -+ -D;C@CC?;?83(:@AC>:55:::C>>4>@>A>@3:@@<8? -@HISEQ1:121:C0EP5ACXX:8:1105:6834:23521/1 -CTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGG -+ -JGGGHIIIJEIJJJJJJJIFJJJJJJJDFHIJJJJJHIJJJEGCHIGHIFHHHHFFFFECDDDDDDDEDDEDDCDDDDDDDDDEEDD -@HISEQ1:121:C0EP5ACXX:8:1304:15370:31007/1 -CTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAG -+ -FGHGICH@HHIG@BGEI=FFCBC=@GHIEGH=A??@5@CCCBCB?CC@@@><@C@BCC@AACCCCC:ACCCC>CCC>>>C -@HISEQ1:121:C0EP5ACXX:8:1302:2247:98264/1 -AATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCN -+ -JJJJJIJHJJJJJJJJIEFGGHIGIJJJJJJCHIJJ@GEHJIHHHF8>@CCCDDDDDCDDDDDEEDDDDDDDDDCCCDCCDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:2306:3485:63749/1 -GCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCT -+ -JJJJJJJIJJJJIJEHJJJIJJJJJJJJIFHIJJJJJJJGJHHHHHHFFFFFFEEDDEDDDDDDDDDDDEDDDDDDDEEDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2208:8405:84311/1 -CCTGGGCTCCTCTGCTCCCTGCGCATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTG -+ -GGHIEHIIGJJJIIJGIJJEIJI)?FHIFHGHIJEGJGIIJCHIGIAGHHHHEFFFFDFEDBBB@>CCDDDACCDDDDDDDDDCEED -@HISEQ1:121:C0EP5ACXX:8:2302:12851:12461/1 -AGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTC -+ -IIGIGHGI>CGHGHHGGIIHGBECEHFCB8;:A@CCCCB9A??@CDDCB>ABBD>CCCDD@>:AACC -@HISEQ1:121:C0EP5ACXX:8:1305:5063:120920/1 -ACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGT -+ -JJIJJJJJIGIIJJJGHIIGIIJJIJJJIJJIJJIJIJJFGEIJJJJJJJJIFHIJJJHHHHHFFFFEEEDDECCDDBBBDDDCCBD -@HISEQ1:121:C0EP5ACXX:8:2105:14420:64218/1 -TTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTC -+ -GGGIIJJHIIGIJGHIJGGGHGHIDEGIJEHIGEGHGIGGA@DGHIIJIJ?HGHFCB@EHEACEDFFDECEEEE@=@=?=ACC<>AC -@HISEQ1:121:C0EP5ACXX:8:1106:15317:167117/1 -GTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCN -+ -JJJJJJJJJJJJIIJIJIIIJJJJJIJGHIJJJJJJJJJJHEHFFFFFEEDEECBD;>BCCDDCDDDDDDDDDEEDDDDDDDDDCD> -@HISEQ1:121:C0EP5ACXX:8:2205:12047:48476/1 -ATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTG -+ -IIJJEGGIIJJGIJJJJJGJGIIEIJIJIIJHGJJJGIJIIJIIJJJJIEHIJJJJJJHHHFFHFBEFFDDDDDDDBDDDDDDDDCD -@HISEQ1:121:C0EP5ACXX:8:1307:16680:41377/1 -CTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGNNNN -+ -JIJJJJHJJIJJGIIJJIIIJDHGFHIJGGIGEFFHIIIIHIIJJJJJGIJGHHHHFFDFFEEEDEEDDBDDDC>CDDDDDDDCDDA -@HISEQ1:121:C0EP5ACXX:8:1301:3542:41315/1 -ACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGT -+ -JJJJJJJJJJJJJJJJJJJJIJJJJJJJJJJJJJJJJJJJIIJJJJJJJJJJIJJJJJHHHHHFFFFCCEEEEEDDDD?<@BCDDBD -@HISEQ1:121:C0EP5ACXX:8:2202:5040:37535/1 -TACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGNN -+ -JIIIJJJJJJJIIFIIJJJIJIFHIJJJJHHIGIJIJGHJJJJJIJJIJDFHIIJHHHHEFDDDDCEDDDDDCDD@CDDDDDDDDB> -@HISEQ1:121:C0EP5ACXX:8:1301:20965:126815/1 -TTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCN -+ -IJJIIIJIJJJJJJJJIFGGBHIJJGIIIGIJJGIGIJJJIIIHIIIJIJJGIGCEEECFEBBDBBDCDCDDDDDDCCCDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2208:7542:56931/1 -CTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTN -+ -HIIGIIIIIIIH9CHHE>FGGCGIGIIIFEIGIIIEHHICGIEHIIIIIIGIIIGIHHFD?>CCEEC@CCCB=?BBCCBB@B9@@BC -@HISEQ1:121:C0EP5ACXX:8:1108:16683:76874/1 -AGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGN -+ -JJJJJJJJJJIGIJJJJJIIIJJJIJJJJJJJJJJJJIJJJJIIHIHHHHHEHFDEFDDDD@BDDDDDDDDDDDDCCCCDDDD<C@CBCCC?C> -@HISEQ1:121:C0EP5ACXX:8:2106:16519:145675/1 -GGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAG -+ -JJJIJJJIJHGIIJJJIIFIGIIJJBFHIJJJJIIGHGIJJIIJIJJJJHHGHHDFFFDDDDDDDEDDEDDDDDDDDDDDDEEED@C -@HISEQ1:121:C0EP5ACXX:8:1201:11309:101312/1 -AAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTG -+ -JJIJJIJJIJJJIIIGIEHGIGIJJJJJJJIJIBHIGGGGIJIHHHHGGFFEFFFEDEEECCCDDDDD3=??@><<@CC@DGI>CDE?DFDFGFFCBDDBB>;8????@>50+25AA -@HISEQ1:121:C0EP5ACXX:8:2204:5918:177738/1 -CCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGN -+ -JJJJJJJIIJJJJIJIJJIIIIIJIJJJJJJJJJIJJIJHHHHHFFFFFFEEEEEEDDDDDDDDDDDDDDDDCCBDDDDBDDDDDD< -@HISEQ1:121:C0EP5ACXX:8:1103:3073:115589/1 -GCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTT -+ -GGAHHHEHHJIEDDFA@GGGB@?DBD?FGGC:BD<)8=8=C1(@@DG;DCHFHECE;CD@3;A;=>=CB@ -@HISEQ1:121:C0EP5ACXX:8:2202:7695:181317/1 -CTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATT -+ -IIJJIGIIIJJJGGGIGGIIIIJJJGJIGGBCHGGGGA3=C@HH@GHGFEHBC@=@BDC@CBADBDDCCDCCC@CD@CCDCDDCCDC -@HISEQ1:121:C0EP5ACXX:8:1301:8384:179301/1 -ATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCG -+ -IJJJJJIJJJJJJJJJJJJEHHIJJJIJIJIJJIIGHHIIJJJJJJJJHHGHHHFFFFFFDDEEDDDDDDDDDDDDDDDCCECDCCB -@HISEQ1:121:C0EP5ACXX:8:2301:15974:162969/1 -TCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCC -+ -@F?F:AFH?FFB;A>:???@BCCCDCCCCACCC@CCACCC@CCBCCCCCCCCC@C> -@HISEQ1:121:C0EP5ACXX:8:1107:6868:53096/1 -GAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTC -+ -JJJJJJJJJJIJIJJJIJJJGHGJJJHHFFFEEEECACDDDDDDDDEDDDDDDDDDEDDCDBDDDDDDDDDDDDDDDDDDDDDCDC> -@HISEQ1:121:C0EP5ACXX:8:2105:9978:189276/1 -GGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAG -+ -IIIJIIJIJIJJJJJJJJIJIJJIIJJJHDDCEDDDDDCDDCDDDDDDDEDDDBDDDDCECCDDDDDDDDDDDDDDDDDDDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:1308:18392:2877/1 -AGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTN -+ -IJIFHHJGIJJEHGJJIJJDGGHJJJIJIIJIJICHHHIGJJII3=>AGHIGGG@GHHGGFDDDDECEECBDDCCBDCDCDDBDDDB -@HISEQ1:121:C0EP5ACXX:8:1205:6454:8959/1 -TCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGNN -+ -JJJJIJJJJJJJJDGIJJIJGIGIIIIJJIJJJHJJJJJJJJJJJJJHHHFFFFFFEEEEEEEDDDDDDEEEDCDACDDDEDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2105:5499:95549/1 -AGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTT -+ -JIGBCHGA@GEH@FFHIBHEH@HEGICEECHFD>BCDDD>>?CCCDDC@CCCDCDDDDBDCCCCDDDDDDDCCDCCCCDDD>ACCCA -@HISEQ1:121:C0EP5ACXX:8:2303:18227:25094/1 -TGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTC -+ -JJJJJIJJJJJJIJJJIIIIIIIIJGIJJJJJHIJJJIIIHHJJJJJJIJJFIIIJHGGFFFFFEEEDECCBDDCDDDDDDBDDDCD -@HISEQ1:121:C0EP5ACXX:8:2305:9755:5948/1 -AGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTT -+ -JJJJJJJIIJJJIIIJJJIIJJJJFJGJHHGFDDDDDDDDDDDDDDDDDDDDEDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1203:20148:178661/1 -AGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTN -+ -JJJJEGIJJJJJJJIIJIJGGHIIJIIEEHIIHGIDGAGGIICHDGIJIIGIJJIEFFHFBBCFBCCEC@BDDDC2@CCCABBBD9? -@HISEQ1:121:C0EP5ACXX:8:1306:5394:199706/1 -AAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTC -+ -JJJJJJIJJJJJJIIIGIJIJIJJJJJJIHHHHHFFDDCDDDDDDDDDDDDDDDDDEDDDDDDDDDEDDDDDDDDDCDDDDDCDDDA -@HISEQ1:121:C0EP5ACXX:8:1307:18623:18950/1 -AAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTC -+ -JJJJJJIJJJJGJJJJJJIIJJJJJJJJJHHHHHFDCDDDDDDDDDD@DCDDDDDDEDDD?BBDDDEDDDDDDDDDCDDDDDDDDEC -@HISEQ1:121:C0EP5ACXX:8:2206:14733:35674/1 -AAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTC -+ -JJJIJIJJJIJGGGJJJJJJJIJIJIJJJHHHFFFDCDDDDDDDDDDDDDCDDDDDEDDDDBDDCCEDDDCDDCCDDDDDACDDDDC -@HISEQ1:121:C0EP5ACXX:8:2204:18585:104307/1 -TTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTC -+ -IGIII9:BGHHBFHIGHGBGCBAEAFHIIIE@CFH@EEAE=?CE=B;?BCCCCCCBB?BB@ACBC@C -@HISEQ1:121:C0EP5ACXX:8:1207:19105:92282/1 -CGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACN -+ -IIJJJJJJJJJGIIJJIBEIIJGIIIJJIHHHHEEFFFDDDDDDDDDCDDDCCDDDCDDEDCBBDDDDADDDDDBCCCCCCDDDCDA -@HISEQ1:121:C0EP5ACXX:8:1301:17377:139560/1 -CTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATT -+ -E@EDCDIEFEEIDE9ECEIIID9D<6@DEE*=8==BC@C@@DDEEIACDCDC>DD>ADAAA@7>38?>AADA>DAAA>AAAAA:4>> -@HISEQ1:121:C0EP5ACXX:8:2203:19760:174167/1 -TTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAG -+ -EAFGIEGBC3C3EEHIIA4A5:5@@>A>?3>A>AA>44>> -@HISEQ1:121:C0EP5ACXX:8:1107:9791:182343/1 -GGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAG -+ -GI=FGHIIJJJIIJJIJIIGGHIJG?DHIJJJJJGIGGFGGGJIJHIJHHHHHHFFFECDDBCCDEDDCDDDCDDDC>ACCEADCA< -@HISEQ1:121:C0EP5ACXX:8:1104:5226:71069/1 -CGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTG -+ -DDF6E@FBF9EFIF@F@FFEBE1@67C7=ACEC?C@BDBB>@>>>A@:>:?BBA3:@3(4:<9BB2+>:+>A>@BB:A -@HISEQ1:121:C0EP5ACXX:8:2306:9426:60664/1 -GCGAAAACAGAGGCGAGGAACGAAACTCATTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGNNNNN -+ -EB68:CCC@CCCCAC:@>((4>>?@@@C@ACCC -@HISEQ1:121:C0EP5ACXX:8:1106:9391:87088/1 -AACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTC -+ -IJIIJJJIJJJJJJJJJJJJJIJGHIIJJJJIIIHJIGIJJJJJIIJJIJJJGHGIGIJHHHEEEDDEFEEDCEEDDCDDBDDCCCD -@HISEQ1:121:C0EP5ACXX:8:1202:13276:64787/1 -AGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTATTATTTGGAGTCTACTGCAGAAG -+ -@G;CCC9EBED:CG;F).BF)8=;8C))))=)=AACH3?CDEEB -@HISEQ1:121:C0EP5ACXX:8:2302:2707:156790/1 -GGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCN -+ -GIC=AFH@CFDDFADGA@DFBFCE@B>FEF<@FD@DFF4@@EE@@:=?=2=;;;)7.>A:6(.3(5=?@BAB>A4:>@> -@HISEQ1:121:C0EP5ACXX:8:2108:9892:29175/1 -CTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATAGAAGGCTGCTCTCACCGGAATCTCTTCACTTGC -+ -HIBHIIIII@@AF@?GAFEGCGGDAGGAFH*=B=FB>=>.=FDHG)7===EH=??C37((6;=3'3<>>@;(:>>@CCC -@HISEQ1:121:C0EP5ACXX:8:2206:3357:101994/1 -TTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGN -+ -JJJJJJJJJJJJJJJJGJJJIJJJJJJGIJJJJJJJJJJJJJJIJJIAHIIJIIJIGHHHGHFDFFFEFDEEE@@CDFEC?CB@A33@C@CCB@BB588339<8505<5A?B@B@;AACAC@::3:8359<55?C((+:?@9>:(:4@>:> -@HISEQ1:121:C0EP5ACXX:8:2303:12137:88145/1 -TTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTAT -+ -JJJFIJHHIJJJIIJGIIGHHIJGJIJIGIJFIIJIJFDHIIIJIIJJIIJIHHHHGHFFFDCCDEBDDDBDD@CCDDDDDCCD>CC -@HISEQ1:121:C0EP5ACXX:8:2107:6159:66543/1 -CCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCANNN -+ -JJJJJJJJJJJJJJJJC9BDBCDDEDDDDDDDDDDDDDDDDDDDDDDDDDDBDDDBDDDDDDCDDDDDDDDDDDDBDDDDDDDDDD: -@HISEQ1:121:C0EP5ACXX:8:2207:2890:5397/1 -AACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTG -+ -EHBFHH?C?C@CCCCB@<(>>@@CCDDD>9?>B -@HISEQ1:121:C0EP5ACXX:8:2304:18462:130846/1 -TCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTT -+ -@D<DF>BG>FF@@@)=/=;;))8)7@E@AACEFFDBBDDC@B@A>>@2=;8=A@BAAAAA@:A:@@: -@HISEQ1:121:C0EP5ACXX:8:1105:9051:178143/1 -AACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGGC -+ -JJIIIJJGHIIIJI@EHICCHGIIJGIJIIIJJBGIEHJJCGIIJIJJIIJJJIIEHEHHGFAEHFFDBDEEDDCBCCA>CBCDD@< -@HISEQ1:121:C0EP5ACXX:8:2101:7366:6467/1 -TCTAACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCNN -+ -GGHIIJIIJJII?FF?DG?FDHIGIJJJGGGIG@AE@059;BBDDCCDBB55>B@<25>@<&4@CCDCCC -@HISEQ1:121:C0EP5ACXX:8:2201:18060:138565/1 -CGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGN -+ -JJIJJJJHHIJJFIIIGIJIIJJIIJIJIIJIIJJJJJJJJJIJIIJHHHEHHFFFFFFEEACEEDDCCACCCDECCDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1203:1544:189212/1 -CGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCC -+ -JJIJJJGIIIJJJJHGIIIIJJJJJJJIJJGIGIJJJJJIIJJJJIHHFBDDDCDDDDCCCDD>CDEEEECDDCDDDDDCCC@CAC@ -@HISEQ1:121:C0EP5ACXX:8:2206:11441:98185/1 -GAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTG -+ -JFHIJJJJJHGIIIIJJJJIIHJJJJIHJGIGIJJIIJJJGHIJFHI@FHIJJFCEGEEHGDFFFFCECEEEEDDDCDDDDCDDDD -@HISEQ1:121:C0EP5ACXX:8:1302:13085:192464/1 -ATCAAACCGATCTAACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGNN -+ -JJJJJJJJJIEIJJJGIJIIJJDGIFGHBGHIIJJJGJJIJJHHHDD?CCDEDDC>:?CCDCBCGBBG9FAE7@@E@77ACHFDDCDFCEAAC@@ACCC<:AC -@HISEQ1:121:C0EP5ACXX:8:1108:18185:47615/1 -TCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGG -+ -C?8:?G?:D3&&003>3@>A@A38B<(>)5<5<>(9ABB -@HISEQ1:121:C0EP5ACXX:8:2105:7748:124139/1 -GATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGG -+ -IGEDEGGIIJJGHHJJJGEIJJGHGJIJEIIG?C<@F=FEGHIICEHHAF?DA>ABACCC>CCDDDDBDB->ACCD? -@HISEQ1:121:C0EP5ACXX:8:1201:13322:122364/1 -GACTGTGTAAGCAAAAGAGCATACAAACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCAATAACTCCTTGCGAAAACAGAG -+ -9@FHCE>CHFDHDGIEEEF9EGIGHG@?DEEGIIHEGGHIHCFHIGGHEGHHD=BDCBB5559>(:>AA4:>C>@:@<-59@38CCA -@HISEQ1:121:C0EP5ACXX:8:2107:6281:156438/1 -GGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCNN -+ -EBBFGCHFHIIGHHHEFAEGGHFGCGDFAD@>@C;>AAC@A -@HISEQ1:121:C0EP5ACXX:8:1305:12682:160339/1 -ATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGGTTCCAGCAACGAAGGG -+ -HIIJIJGIIJIIJJJJJFEHJIIHJJ@GD@GIJIJJJIIJJJIIGHIJIJJJHHFFFFEDCCCCBBDBBDDDDDDDCCDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2101:10614:180991/1 -TCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATC -+ -GIEHHIJFGI@HGFHIJJIJDBE@DEEEECACDDD?BBBBCCCDDDD3? -@HISEQ1:121:C0EP5ACXX:8:1105:5527:6171/1 -AACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGGTTCCAGC -+ -JJJJIJJJJJJJGHJIJJIJJJJJJJJJJJJJIIJJJJGIJJJGIIJJJJGGIJJJIHHHGDDDED@CDDDDDDBDDDDBC@ACDD> -@HISEQ1:121:C0EP5ACXX:8:1207:4910:149486/1 -TCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGTTTCGT -+ -IIIIIIJHIIGIJJBDEFGIBBGHIIJJJEHJJJJIGEHCEEHHFB>?ACECCDCCCDDDCCCDDDDD@DBBBCDCCCCBB3>A@BB -@HISEQ1:121:C0EP5ACXX:8:2302:17741:148058/1 -CCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGGTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTC -+ -EG@G?AA?5?>?=/88?@@>@A?<<@><9@CAA98<95< -@HISEQ1:121:C0EP5ACXX:8:1305:1936:75650/1 -GTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGTG -+ -CCAFHII4@>EAAEHCE>AHEDEB>?BB;;>CBCCC3??@@CC -@HISEQ1:121:C0EP5ACXX:8:1302:17121:81693/1 -ATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATANNN -+ -GGGHGGIIJJIJJI@GGHGIGIGIIJE?DHIIHIIJEHGIJJJIJJJIJJJJJJJIJIGIEAEDFFFEEEEDDDDDDDDEDCADDDC -@HISEQ1:121:C0EP5ACXX:8:2205:3938:177351/1 -ACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCC -+ -IGIIIIIIIGIJIJJJJJIEIJJJEGDHGHHHCHIJIIIJJJJJIHIJJGIDHIJJIFH@HHEFDDAC(6=CBCDDDCBCC?BB?B< -@HISEQ1:121:C0EP5ACXX:8:1101:11189:44094/1 -TGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCC -+ -JJJJJJJIIJJGHGIIGFIEHIJJJJJJJJJIJJIJJFEHIJJJIHHHHHFFFFFFFEDEEDDCCDDDDBDBDDDDDEDCDDDDDDA -@HISEQ1:121:C0EP5ACXX:8:1102:2324:141339/1 -GTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCACAACCCAAGGTTAGATCGGTTTGATTT -+ -JJJJJIJJJJIJIJGIJIHGIJJJJIIFHIDIJIIJJJGIIHFDCED?CDDDDDDDDDDDDBDDDDDDD@ADDDDDDDBD>B@CDE -@HISEQ1:121:C0EP5ACXX:8:2102:5334:25020/1 -ATAGTTTGTTTACTATTTTCTATAACCCTATGCCTGCATCAATTGGATCTGATAACCTTAACACCTATTGTCGCTCATGGTTTGAGN -+ -IJJJJIIJHHHJJJJJJIIIEFHHIIIIJJIIJJJIJIJJJIGHJJIJJIJJIJIIJJJIIIJGGGEHHHAHFFFFDCCECCDDCD9 -@HISEQ1:121:C0EP5ACXX:8:1208:3562:49824/1 -CTTGAAGGAGTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCACAACCCAAGGTT -+ -IJJJIJJIIJIEHIGIFIJIJIIJIIJJHAHEGGGIJJFHGHDEFFFFDCDDBDDDDDDDBCGBCFEDFB@;EEAEE?BDD@<@B@(;;>@@?88:2:????B8(8>?<8?:@A8 -@HISEQ1:121:C0EP5ACXX:8:2303:6312:178128/1 -ATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTAT -+ -JJJJJJJJJJJJJJJJJJJIJJJJJJJJJIJJJJJJJJIHHHHH?CDFFFEEEDEEDEEDDCDD@CAACCCC@C<<8@>CD?CBB: -@HISEQ1:121:C0EP5ACXX:8:1202:14487:9079/1 -ACGCAACACCATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCN -+ -FFB8F8FF@C??BF?:??B6)0??DDBBDFF<=CB)8=@=D4CAEF><>/6@A>-5;;55;>5>>AB@;@@AB>:@:(>>BA:A?>8 -@HISEQ1:121:C0EP5ACXX:8:2306:19017:130779/1 -ACTCGGTAAGACTGAACGCAACACCATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATC -+ -IJJJJJGFHIJIIJIJGGEHIJJGIJGIJJJJHIJJIJIIIJJJJJJHEHHHHFFFFFEEDDDDDDCCD>A5?CDCDCCCC@CDDCD -@HISEQ1:121:C0EP5ACXX:8:2204:5708:174080/1 -CTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCACAACCCAAGGTTAGATCGGTTTGATTTATTTGAT -+ -HGIIJJIJJGIJIJJJDH@FCGHIJJJJGIJJJHHHHFEFFCCCCACCBBDDBDDDD4@ -@HISEQ1:121:C0EP5ACXX:8:2107:10276:107947/1 -GATCCCCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCC -+ -3F?DGHHE@DBGGGG@B;=8;CG@EGE>EE8B8ACCCC@>?CBBB==8?B3(>CCA>+><@<<> -@HISEQ1:121:C0EP5ACXX:8:2201:2168:144674/1 -TACAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAACGCAACACCATATTTCCGGATCCAATCAATCTCNN -+ -JIIIJIGIJJEEGGGJIIJIJGIJIJJGGGGGIJJIJJIIIIIHHEFGIAHGHIBEFFEDD?CEDEDCCDD@DDDDCDCDDCDDCDD -@HISEQ1:121:C0EP5ACXX:8:2301:14772:138623/1 -CTTACAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAACGCAACACCATATTTCCGGATCCAATCAATCTC -+ -JJJJJJJJJJJJJJJJJJIJIJJJJJJIJIJJJJJJJJJJJJJJFHJJJJJIJJJHHHFFECDDDDDEFEEDDDDDDDDDDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:2306:2564:73699/1 -CCCTTCGTTGCTGGAACCACAACCCAAGGATAGATCGGTTTGATTTATTTGATCAAGGCTCTTTCCTGGTGTGGCTCTTGGTTCNNN -+ -EGGIGGI3?CBDGCDBFH8)??@DHIII?(=CC@@A=AEBCCCC(:?3:@C(5:?5922?88>CC@(48>>CC -@HISEQ1:121:C0EP5ACXX:8:1303:13585:40340/1 -TGCGTTCAGTCTTACCGAGTATATTATAAGTAATCTCATTCCTTGTTTTCGTTGTAAGATTAGTTATGTTTCCCTGGCTTATTCTNN -+ -HJJJJJJIJIGIIIJIJBG?FHIIJJJIIJEGHIJIJIJJIEFGGFHIJJJEHIGEEEHHHFFFFFFFEEEEEEDCBBDDDDEEEE@ -@HISEQ1:121:C0EP5ACXX:8:2107:18091:187815/1 -TTCTAACTAGATTAGAATAAGCCAGGGAAACATAACTAATCTTACAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTNN -+ -EGHGHIGGGCDHHGIIIGGCFGHJIJJHGIEHJIHIIEHJIGGHIGIIIEIIIJIEEHFFFCDECCEEEECEDDEEEEECEDDB8A@ -@HISEQ1:121:C0EP5ACXX:8:1206:20456:140956/1 -TAACACCTATTGTCGCTCATGGTTTGAGATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTATAAGTNN -+ -JIJIGGIJIJIIIGJGAEGEGGFEGIFACHGIJIIIIFHFHGG7@FHGGEH@A=CEEFECCCA;A>CDD?B/=8 -@HISEQ1:121:C0EP5ACXX:8:1305:4292:178325/1 -TCGCTCATGGTTTGAGATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTATAAGTAATCTCATTCCTT -+ -HIIIJIJIGGEHEGGGIIIEECEGGHEEHHFAFGGHGBCB=FCGHIHEAAEDDE>@?A>>@ACCAD@CCCC -@HISEQ1:121:C0EP5ACXX:8:2201:1091:169035/1 -GGTAGAGGAATCTATCTAACACACTCTCCTGCAGAGCAGCAACAAAATTGATTCCAATAATACATCTAATCTTGAGATCCAACATGC -+ -HGEHG?CCEEEEECC@@CBCCCC@C?CCC -@HISEQ1:121:C0EP5ACXX:8:2201:15300:19470/1 -TTGTCGCTCATGGTTTGAGATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTATAAGTAATCTCATTCC -+ -JIJJIIGHJGHIIFGGIBHAEGIHIGIJGGGIIJ@FIJJIIJ@FCCHIHEEDFFFFFEEECBBD=ACDEDDDEEDCDDDDCDCDDE@ -@HISEQ1:121:C0EP5ACXX:8:1308:14340:140874/1 -GTTTCCCTGGCTTATTCTAATCTAGTTAGAATTGATCCTTTCCAGTTGAGACTGAGCATGTTGGATCTCAAGATTAGATGTATTA -+ -F:@;@ -@HISEQ1:121:C0EP5ACXX:8:2202:12780:47547/1 -ACAACCCCCCTTCGTTGCTGGAACCACAACCCAAGGTTAGATCGGTTTGATTTATTTGATCAAGGCTCTTTCCTGGTGTGGCTCTT -+ -CIIGIHGGIIJGIDDGBBFGGGIIGEIEGGGHEIII;=AHAHBDFACDD;>@3>CCD@@CC>A335:?ACCCC@:?4<(2<8?>CC -@HISEQ1:121:C0EP5ACXX:8:2106:13356:92925/1 -ACAGAATAATCACAAGGCTTGAGCAAAGGTAGAGGAATCTATCTAACACACTCTCCTGCAGAGCAGCAACAAAATTGATTCCNNNNN -+ -JIEEIHBGGGIIIIIGHJJIHJGIIJJIC:BDFACHHIHJGGHIIJIJJJIJJJJJJJJHHEHFDFEFEEEBDACD>ADDDFFACCA -@HISEQ1:121:C0EP5ACXX:8:2206:14713:40562/1 -AGAATAATCACAAGGCTTGAGCAAAGGTAGAGGAATCTATCTAACACACTCTCCTGCAGAGCAGCAACAAAATTGATTCCNNNNNNN -+ -IIIEGGIIGIGGIECIIIIIIIIIIGIBB@D9BFCEFHIIIIDFFHGGICCGHGCDHGGCEAEFFD@AC2>ACDDDDDA@5:AAC:> diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/mother_2.fastq --- a/demo_files/mother_2.fastq Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,704 +0,0 @@ -@HISEQ1:121:C0EP5ACXX:8:2204:19496:144054/2 -AGGGGCCTTAGCTGGTGATCCGGGCTGTTTCCCTCTCTCCTCTAAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTC -+ -GIEIJIJGGHGAGHGFGGIGCHGEIJJAFDAEHIJGDHHGFHHHHFFDB?BCBDCCDDD>CCDDECDDDCEEDDD>CCDDCDCDDD@ -@HISEQ1:121:C0EP5ACXX:8:2204:8525:81513/2 -TCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCC -+ -JJJJJJJJJJJJJJHJIJIJJJJIIIIIJJJJJJJJHIIIJJIJIJJJFFHGIJJJJJGGEHHHFFFFFEDDCEDDDDDCCCCCDDB -@HISEQ1:121:C0EP5ACXX:8:1103:3495:189629/2 -TTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAAGGGCAAATTATGTGTTCCACCACAAAATGAAACAAGAA -+ -FEGHGIIICDGIJHHGIIGJFHIIJIHIJIIIGF=DD?C>ABCDDDDEDD?B@BBBDDDEDEEDDDDEDDDDDBDDDCDCCDCDDDD -@HISEQ1:121:C0EP5ACXX:8:1304:11225:78484/2 -AAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAAGGGCAAATTATGTGTTCCACCACAAAATGAAAC -+ -HCEBH@HGIIIB?+=>A;3,;?CA5:>;>>@@B@D<::44>++43(:>:?ABA?CCDCDDD?BBB@BDCCAC@DDDDCACDDDDDBD@@CC> -@HISEQ1:121:C0EP5ACXX:8:2205:18768:173013/2 -TAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAAGGGCAAATTATGTGTTCCACCACAAAATGAAA -+ -EHGHIHJGIJJIEIEFICGIHIIJDFGGEHCGGGIJ?DGGICCEFFFBBDD@@CCDD@?BDCCCCD3@@??@@D -@HISEQ1:121:C0EP5ACXX:8:1206:13113:50926/2 -GAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATT -+ -7<:23AGE9*?@BFDABDFBFFB;E=FCHFEBGIIFH@@CGGHCEEHHBHDF?;@:@A@;@ -@HISEQ1:121:C0EP5ACXX:8:2305:13995:134971/2 -AAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAAGN -+ -EHGGGHIJJGGBGHIIIJHGIIJBBD?FG9DGIGDFFFHIJJJIHIEGGGHIGHGEADFF>DCDDBBB9@?AA@AHEEEHDD3?CDABBDDDD3(4@CC2 -@HISEQ1:121:C0EP5ACXX:8:1302:11743:35278/2 -GCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACA -+ -AE@@GGGBDADHIGHCCBCCFDB*9?BC?F9*?DBGBFFBC=@DHIEEHA@EDE.7@DE;@;@ACD@ACDDB<8=?>9<&<::??9? -@HISEQ1:121:C0EP5ACXX:8:1307:11530:167684/2 -GCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACA -+ -EHJBHIFGHIGEGIIIGGGDDHHEHIIG?FABF?@FBFCCFEGG=@CDGCHCCH??>>;;?>CE?D=@CCBBDDB69@D><>48?5< -@HISEQ1:121:C0EP5ACXX:8:2306:2962:37980/2 -TCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTAT -+ -GHGBHEBAHEEHGGGIJJJECFDFBDADGHEIIIGIIHIGD@F;BFCFECHIICGGCE).=CCECDDF).7(3;,955? -@HISEQ1:121:C0EP5ACXX:8:2307:9346:102436/2 -TTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAACC -+ -IIIIIHGJJIGJEHICFED@2C*:C*1C*:8B9BD49?**?B*8B -@HISEQ1:121:C0EP5ACXX:8:1202:8720:147817/2 -TCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCC -+ -JJIJJJIIJIIIGIJIGIIIJGIJJIJJJJJJJJJJIJJJJIJJIIJGI@FGHIIGHGEEEHFHFFFFFDEDCEDBDDDDDDDDDDB -@HISEQ1:121:C0EP5ACXX:8:1203:20081:59684/2 -CCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAAT -+ -JJJJJJGJJJJJJJJIJIJJJJIJIJJJJJJIJIJGFHII@GIIJJ?CHHF@CBDFFEEED;ACDD@CDDDDD8>CDEBDDDDDDDB -@HISEQ1:121:C0EP5ACXX:8:2202:6060:140689/2 -CCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAAT -+ -JJJJJJIJJJJJJJJJJJJJJIJIJJJJJJJJJJJIGHIJDHIJJHAEHFFBDEFDEEEED>CDDD@CDDDDD?@CDEDDDDDDDD> -@HISEQ1:121:C0EP5ACXX:8:2206:18846:173028/2 -CTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTC -+ -IHHGIGIEHCH9FACDDDDCCDDDBDD -@HISEQ1:121:C0EP5ACXX:8:1205:18182:73982/2 -GGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAA -+ -JJJJJJIIJJJJJJJJJJJJJJIIIIHIJJJJHIJJJIJJJJJJJJJJIIJJJJJJJJIHGDHFFFFEEEDEDDDEEDDDDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:1206:1811:22216/2 -CGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGG -+ -H@CCEEHIIEGGGHCGHDHIIGAHIEIEGEE@AF=E@;;6?E;?BD?DF;A;;>A@BA9=>C(;;BACCCD?>@A@4(:4>?>B -@HISEQ1:121:C0EP5ACXX:8:2307:19323:17727/2 -CAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTNNN -+ -IHIJIJJJGGIGIJJJJJJIIJJJIJJIJJJJIIIHHHFEFFDEEDBDDDCDDDDDDDDDDEEDCEEED:ADDDD8?BCC@A>CBD: -@HISEQ1:121:C0EP5ACXX:8:2304:13953:99797/2 -GAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTN -+ -JBC;HFGEIIJIDGIGHHIG=D@EAAGHGIGEGHHF@BFFEDDDDDCDBCBDCDDDDDDDBDDCCCD@CACCDDDDDCCD -@HISEQ1:121:C0EP5ACXX:8:1206:2780:83786/2 -CGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAA -+ -FA@FHB6;F6HCHICCA@FGEEHGIEG:C@5@.BE>?AEBAAECD@CCDBDDDBDDB?CCCBDDBDCDDCDCBBDD?CCCDEDCDD> -@HISEQ1:121:C0EP5ACXX:8:1302:14767:71234/2 -CGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAA -+ -JIJJIJIIJIGIJJJJJIJJJJJJJIIGIJJJJIIJHHHFDDEDDDDDDDDDDDDDDDDDDDDDDDDDDDDC@DDDDDCDEDD@CC> -@HISEQ1:121:C0EP5ACXX:8:2103:4557:157261/2 -CGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAA -+ -GGB1?DDGIHCHIIGHDGGGDHIEGIIGEFHGICHEHFEFDBEE@@CCCB??BD??B?>@: -@HISEQ1:121:C0EP5ACXX:8:2302:4919:198649/2 -TCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAA -+ -JJJIJJIIIJIJJJJJIJJJJJJJGJJJGHIJIIJIIHHHFDDEDDDDDDDDDBDDDDBCCCDDDDDDDDDDDDDDD?CCCDEDCDD -@HISEQ1:121:C0EP5ACXX:8:2102:15481:17585/2 -TTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTCGGTTCC -+ -GIJIJGIJIJJFGJIIFHHIIJJJIJIIJJI@GHIJIIJIIIJJJJIJIIIJJJIIGHIFHFED@CDFFDEEECB;?@DDDDDBDBA -@HISEQ1:121:C0EP5ACXX:8:1102:3776:50474/2 -CTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGT -+ -JJJJJJJJJJJJJJIJJIIJJJJJJ@GFHIJJIIJJIIIJJJJJJIICGGHJGHIIJIJJHIGHFEEFFFFFEEDDCDC@>CCCCCB -@HISEQ1:121:C0EP5ACXX:8:1106:16133:150529/2 -TCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTAT -+ -IGIJAEBEDCBCCBDDDDDDEEDCACC -@HISEQ1:121:C0EP5ACXX:8:1103:1745:180624/2 -CAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAANNNNN -+ -JJJJIJJIJJJJJIIGJJJJIIJJDIJIJJJJJJJIIFHIJJJIJHHHEBCDDEDDBBDDDD=BDDDDDCDDDBDDDDDDCDDDDC@ -@HISEQ1:121:C0EP5ACXX:8:1206:17568:25304/2 -CAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAANNNNN -+ -IGJGIJEGIIIJJJIJIJGIJIJIIIHGHJJIFDGGGHGDGGGIEEHHFDEC?@BBB?CDD@DDDDCDDCDACBBDB@BBDACBBC? -@HISEQ1:121:C0EP5ACXX:8:2105:5209:169114/2 -ATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAANNNNNNNNNNN -+ -GIGIIIEHIIGHDBEHGIGJBHIIFGJJJIGJJJJJIIJGIGHHADEEFCDEEDBDDDDDCDCDDDDDDDDDD???CBBDDCCEDBABDB??BCCCDCCBDDDDDDDDCCCDDDDDBDDDDCCBDD< -@HISEQ1:121:C0EP5ACXX:8:2306:11471:141288/2 -TTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTT -+ -HGJBEHIGHGGH>CGIGGJCIIIGHIIJIJJJFIIIIGEEIIJJGHJJJHFCCACDCDDDDCCDBDC -@HISEQ1:121:C0EP5ACXX:8:2107:3840:161938/2 -GGATGCAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAA -+ -@+2++++2+2:?*1:B;:35:A<<:>A -@HISEQ1:121:C0EP5ACXX:8:2302:17167:90156/2 -AAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCNN -+ -IJJJJJJJIJIJCGIIJJJIIJJIJJJJJJJIJJJIIIIJJJJJIJJJJJJHHFDFDDDEDDDDDDDDDDDDDD9ADDDBDBDCDDD -@HISEQ1:121:C0EP5ACXX:8:1305:4289:116518/2 -ACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGT -+ -JJJJJIJJIJJIIJJJJJJIJHIJIJJIIJGIJJJJIIIHHGIJJJJJJJJJJJJJIIHHHHHFFFF>CCDEEEDDDDD@BBDDDBD -@HISEQ1:121:C0EP5ACXX:8:1201:10878:193365/2 -ACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCT -+ -JEHIGGIGHIJIIIIJJIJICHGHHIGGHGGJGCHEHHGGH@FHHEGIHIJIHHICDHGEFEF@;?=?@C>A3;@?5;;=>@CDD -@HISEQ1:121:C0EP5ACXX:8:1107:3570:34778/2 -ACACACTTTTTCCAACTTCATTTATGAGATTGTTCAACAACACGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTNNNN -+ -IJJJDIJJJJGGIIIJIJJJJJJGIIJJIIHHIGCIDFGHHGIIGJJJGIIIEHGIGIFHHFFF@DEEEEEDDCDDDCBBDDDDCDD -@HISEQ1:121:C0EP5ACXX:8:1104:15089:78984/2 -TGTGGGCATTCGCCCCGTATACCCAAAAATTTACCCATCAACACTTAACCCTTACTTTACAATTGCCTCTCTTTCGATTTTTGCTCC -+ -JI -@HISEQ1:121:C0EP5ACXX:8:1101:10457:23604/2 -AGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGNNNNNNNNNNN -+ -JJJJJJJJJJJJJJJJJJJJJHIIJJIJGIJIIJJHFHIJIJJJJIJJJJJJJHHHHHHFFFFFFEEDEEEEDDDDDBBDDDCDDD@ -@HISEQ1:121:C0EP5ACXX:8:2305:17031:5327/2 -ACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGNNNNNNNNNNNNN -+ -CGGGAGEE:HC:FHFHHGI:4?FH@CEF@?A9A).7@DEEE<'399=@@DD?@CC@@>:>?@ -@HISEQ1:121:C0EP5ACXX:8:2102:10309:35842/2 -AGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTT -+ -JIJJJJFHIHIHJIIJJJJJIJIJJJJJJJIIJJJJIHHHHHHHFFFFFEEEDEEDDDDDADDEDDD?CCCFDD>B@DACDDDBDD> -@HISEQ1:121:C0EP5ACXX:8:2203:18766:43466/2 -AGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTT -+ -IIJJJJDGIFGEIIJJJIJJIJIIJGIIJIJJJJIJIIFHHHHHFFFFFFDEDEEDDDDD@CDEDDD@DDD;CB5<@BCDBDDBDDC -@HISEQ1:121:C0EP5ACXX:8:1308:4675:83154/2 -GATAGGGGGTTTAGTTAGGGCTTCAATTCGTGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGTTGAGAGCAN -+ -AFEACGEGG?D)*0**00?8?DB)/*B@8B)-5;@9C>>@D@CEH3=;A3@>C??C@@?C?A@-;>@A(:(,+8ABC?:9 -@HISEQ1:121:C0EP5ACXX:8:1107:5242:86751/2 -GAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCA -+ -JGIDHIIJJJJDGGGIIIGIJIFIIICHIJIJJIGHHHHHFFFFFFEEEEEEDDDDDDDCBDDDD:CCDDC<@<: -@HISEQ1:121:C0EP5ACXX:8:1306:15890:88846/2 -GAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCA -+ -JGHEHEHIJJJDFHHIGIGGIICHHGGEHIGGHGGHHHHHFFF?DFEEEEEEACCDDDDCBBDDDCDDDDDDDDDCDCD>@BDDDD@ -@HISEQ1:121:C0EP5ACXX:8:2103:4321:176641/2 -TTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAA -+ -IJIFHIIGGJJIIJJJGIIJHGIGIIIJJIIICFGGGHHIIGIHJJIIGIIGHIJJJIIHHHCE=BCCDDA=BDDDD<@DDDCDCDB -@HISEQ1:121:C0EP5ACXX:8:1104:18369:49451/2 -TCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGANN -+ -JJIIFHGHGHIJJJ?FHFIGHIJEIJIIHGHHGHFFFFDEEDEDDDCDDCDDDDDDDDDCDDCDBDBDACDEDDDDDCDCA<0<CDDDDDD@CCDDDDDDDBDBB:>ACDDDDDDCA -@HISEQ1:121:C0EP5ACXX:8:1202:4892:45787/2 -TGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCC -+ -JGHIJJIIHGEF>>CGHHIIJGEGIGGGICDDHEGHEHCHGIIGIEEHFHFCDBCFFECACDDDCCADDDBDBBC>CDC4:4>C>@? -@HISEQ1:121:C0EP5ACXX:8:1303:12868:89901/2 -GCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTC -+ -IJJIIEGIIIIIIIGIEGGHJI@AE@EDEFFBBCECEEDDEDBDD@DDDDDDDD>CDACCCDCDDDDCDDDDD?CCDDDCDDCA@CCDCDDDD?B@CCDDCDDAAC -@HISEQ1:121:C0EP5ACXX:8:2303:17380:176758/2 -GCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAANN -+ -GHJJJJJJJJJJGHIJJGHBHGGIJJJ':BBD;BEDEEDBDDDDEEDDEDDDDDDDDDDACDDDDDDCDDDDDDDCDBDDB@CDED: -@HISEQ1:121:C0EP5ACXX:8:1301:11188:179944/2 -ACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTN -+ -JJJJJIJJIJJJJJJJIJJJJJJJJJIJFIJJJJJIJJIJJGHIJJJJIJJIIIIIGGHHEDFDFFEDDEEDDCDDDDDDDDDDDD: -@HISEQ1:121:C0EP5ACXX:8:2306:14700:199855/2 -AAACTTTACCCATTAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTN -+ -IFEGDHGGEHIIGI@GIIICGIHGGGBFGGIDIEHAFGIEGDHIIGIIIIIIGIHIJGHHGFFFFFECD;>CCDEDCCCBB@BD@C@ -@HISEQ1:121:C0EP5ACXX:8:1105:6834:23521/2 -TCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGN -+ -JGJJJJJIFHFIIJGIIEIJJJIIIGIFHGHIJJIJHAABCDCCDDDDDDDDDDEEDDDCDDDDDCDCDCDDCDDDCC>CCCDCCD? -@HISEQ1:121:C0EP5ACXX:8:1304:15370:31007/2 -TCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTT -+ -GGGIJGHHCGGBHGHEGICCDGEGHHGGIGHEHGGIHHIIDHGHGFFGGFHFFFFFECDCCCDCDB=;?@CC@CDCACCDDDDDD>@ -@HISEQ1:121:C0EP5ACXX:8:1302:2247:98264/2 -GGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAA -+ -JJJJJJGIJJJJIJJJJJIJJJJJGGGGHGIJGGIJJJJJIIJJJJIJJJJJJIJJJJGHHGHFFFFEEEDEDCDEECDDDDDDDCC -@HISEQ1:121:C0EP5ACXX:8:2306:3485:63749/2 -AATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCA -+ -IJIJJJJIJJJJJJJJJHIJJJJFJGIIIJIIGHIJJJIJJJHHHFBDDCDCDDDDDDDDDDDEEDDEDDDDDDCDDDCDDDDDDCC -@HISEQ1:121:C0EP5ACXX:8:2208:8405:84311/2 -AGAATACAGTCTCTTTAGGTCGCCGAGAATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTC -+ -FBBF>IG>>ACDAHGIEHI+?DDCA@@(0*=;A@FBFH@@7@=CEHGDDBDDC@CDADDDB?A>C:>:?4:>@CCC -@HISEQ1:121:C0EP5ACXX:8:2302:12851:12461/2 -CGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCANN -+ -IIGHHGHGIIIJEHIJJJGIIIC@GIHCGIGIIJIJHGGIJHHGHHHHFFFFCFFEEEEEDDDD=CDDDDBDDDDBDDB>CCDDDC: -@HISEQ1:121:C0EP5ACXX:8:1305:5063:120920/2 -TGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTA -+ -@>F@3ACEAHGDDAAEEDHCCDDDC@3?@?3BCDCDCCCBCDDC@ADDC?DC -@HISEQ1:121:C0EP5ACXX:8:1307:16680:41377/2 -GGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCN -+ -IJIJIJIHIIGIJJJJJIIIJJJJJJJGGGIIIJJJGBGGGIJGBHHHHFFEDDEEDDDDDDD@BD9@BDDCDDDDDDDDDACDEDD -@HISEQ1:121:C0EP5ACXX:8:1301:3542:41315/2 -TCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGC -+ -JJJJJJJJJJJJJJJJIJJJJJIJJIJJIJJJJJGJIIJJJJJIJJHIIIJIHFFDEEDDBDDDDCDCCDDDDDB5<>CC@ADDDD? -@HISEQ1:121:C0EP5ACXX:8:2202:5040:37535/2 -ATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGN -+ -JJJJIJJJGJJJJIIIJGIIGHIJJIIIIIIJIJJJHDGIIIJJGHIHGIJJJHFFDDEDD@?BDDAA::@CDDDD9>BCDCACC?< -@HISEQ1:121:C0EP5ACXX:8:1301:20965:126815/2 -AATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGN -+ -IJJJJIJIJJIJJIJJJJEIIJIIIJJIEIJJJJFIEHGGHIJEEGGIGHHJIHFFDDDCBDBD?ADCC@CDCDD>B9>@>CCCC:< -@HISEQ1:121:C0EP5ACXX:8:2208:7542:56931/2 -AAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAN -+ -CF94AHHIG9<@EGEGAGG?DFGIJD>F@9BF8DHHIGJJCGIIJJIIGD@@EHE>?BBCCBB?(;ACAC4@CAC@BD99>>CCDDC -@HISEQ1:121:C0EP5ACXX:8:1108:16683:76874/2 -GCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCNNN -+ -JJJJJJJJDHIJJJJJJJIIJJJFHIJJJJJJJJJJIIJJJJJHHHHHFFFFFEEEDEDDDDDEDDDDDDDEEDDDDDDDDDDDDDE -@HISEQ1:121:C0EP5ACXX:8:2305:1262:195723/2 -TCCCTGCGNATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAA -+ -JJJJJJJJ#4AGHCHGIIJJIJGGIIIJJJJIJJJJIIJJIIJJJJIHHHHFFFFFDFEEEEEEDDDCDEEEDCC:ACDDECCDD:9 -@HISEQ1:121:C0EP5ACXX:8:2201:12777:169199/2 -ATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGT -+ -JIJJJIIGIEHIGJIJJJIJIJ=FHII?FGIJIJJJHIIIHGHJJIGEHFFHHFBEFDFDDD@BDDBCCBDBBBDD>C>CDDDDDD9 -@HISEQ1:121:C0EP5ACXX:8:1302:11283:198671/2 -GCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGANNNN -+ -JIJJJJJGIJJIJIJIIIJJJJJJJIJJJGIJJJJJIIJJJJJHIJHHHHHHFEFFFFEEEEECEDDDDDDBDDDDDBBBDD>C>C: -@HISEQ1:121:C0EP5ACXX:8:1206:5220:148135/2 -GAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAN -+ -IJIJIIHIJJJJJGIJGIIJGIIFIIJJJJIJCFHJHHJJIJIGGHHHGFDFFEEBDECEDDDDC>@BDD@D@DDDDAC -@HISEQ1:121:C0EP5ACXX:8:1105:12113:104911/2 -GCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGANNNNNNN -+ -IDHIJGJJHIHCGIIJJIGIGCEGEB6BGIIIJGBFGIJJJJIIGCHHGGCHFFFFFFFE>AABDBDDDDDDDBBB@>CA -@HISEQ1:121:C0EP5ACXX:8:2106:16519:145675/2 -GCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGANNNNNNN -+ -JJIJIJJJEHIIIJJJJJIJJJJJJIJJJIIJJJIIGHJIIJJJJJHHGHHHFFFFFFFEAEDDDDBBDBDDDDBDDDDDDCDDDDD -@HISEQ1:121:C0EP5ACXX:8:1201:11309:101312/2 -CATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCT -+ -GIJIIJJJJJJJJJJJIIJJJJJJJFHIDIGGJJJJGIJJJJJJIJJJIIHGIJJJJJH?CHHHFFFFFDDBDDDCC?>ADDDDDD< -@HISEQ1:121:C0EP5ACXX:8:1302:5526:110720/2 -TCCTATCTCTACAGTTTCCTATCTCTTCTTCTCT -+ -@3;A+,*0:0?D -@HISEQ1:121:C0EP5ACXX:8:2204:5918:177738/2 -GGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGATGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAN -+ -JJJJJJIIJJJJJJJJJFJJJIJJJ?FEIIGJEGGICGGJJJIJJIJIJHHFCHFFFBCDDDDDDEDDDDCDCDDDCDDDDCDCCA9 -@HISEQ1:121:C0EP5ACXX:8:1103:3073:115589/2 -GGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCG -+ -GGB@BBD9BDDDDDB?@B: -@HISEQ1:121:C0EP5ACXX:8:1301:8384:179301/2 -CCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGNNNNNNN -+ -JJIJJJJIJIJGIJJJJIJJIJIJJJJIJ>FIJIJJEIIHHHHHFFFFFFEEEEDCDDDDDDFDCDDDDDDDDCBDBDBDBDC>>B< -@HISEQ1:121:C0EP5ACXX:8:2301:15974:162969/2 -GGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCC -+ -;:F3<+<+)88?@:8B*94?9;;B;=@=8@3).8).=7CE=))77?? -@HISEQ1:121:C0EP5ACXX:8:1104:12202:167998/2 -GATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAAC -+ -IJJ@BFGHIIGIIGJJIGEIJIGGHIGHIJIJJJJJGHJJEJIIJJIJGGCECAEHEHHHHEFFFFABEEDCCDCCBBC??BCACDDCCCD?DD??BB>CCA -@HISEQ1:121:C0EP5ACXX:8:1107:6868:53096/2 -GCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCA -+ -JJIIIJJJJJJIJJIJJJJJJJJJGJJJJJJJIJJIJIJIIIJJJJJJJIJJJJJHEHHFFFFFEEDECDDDDCDDDDDDDDDD>CC -@HISEQ1:121:C0EP5ACXX:8:2105:9978:189276/2 -CACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCANNNNN -+ -JJJJJJJJJFHGIJJJJGJJIJJJJIJJJJIIJJHHHIJJJJJJIJJIIJJIJHHHEHDFFFCEEECEDDDDDDDD?CDCCCCDDDC -@HISEQ1:121:C0EP5ACXX:8:1308:18392:2877/2 -ATCAATCTCCAATCACCATGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTANNNN -+ -AHD9CAFDGCE@A?FGEA*9*:1*0*?GCGGHIJJGG34BBFE>A;AGID>EHHHHHHFFFFFFDEEEDEDDDDDCDDDC:@ -@HISEQ1:121:C0EP5ACXX:8:1205:6454:8959/2 -AGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTT -+ -JJJJIIJGGJIJJJIIIJJJJJJIJJGIHHHFDDDDDDDDDDCDDDDDDDDDEDDDDBDDDDEDDDDDDDDDDDDDCDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2105:5499:95549/2 -CTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTA -+ -JIIIFIJJIJJJJJJEHHFHHJJGIIIIFCGGJJJHFGHCDHGIIIG>GIJJJIEHHHFFD@CEECEEEC@ABBDBCCBBBBD>BDC -@HISEQ1:121:C0EP5ACXX:8:2303:18227:25094/2 -AGAGGCGAGGAACGAAACTCCTTCAAGAGCGACCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTT -+ -JJJJJJJJJJJJJJJJIIJJJJJJJIJJHHHFFDDDDDDDDDDDDDDDDDDDECDDDBDDDDEDDCDDDDDCDDDDDDDDDECDDDD -@HISEQ1:121:C0EP5ACXX:8:2305:9755:5948/2 -TTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGN -+ -GIJJDFHIIJJJGHIIJIJHGIJJIJJJIIJJIJJJHJJJJJJJGIHHDEFDE>CECEDDDDCDDCDEDDDDDDDDDDDDDDDDDD@ -@HISEQ1:121:C0EP5ACXX:8:1203:20148:178661/2 -AAAAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCT -+ -JIJJIJJIJIIJJGCHIEIJGIJJHIJJHGHFHFDDBDDDDDDDDDDDCDDCDDDDDDDDBDDDDEDDCABDCDDDDCDCDDCDCCC -@HISEQ1:121:C0EP5ACXX:8:1306:5394:199706/2 -GCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAANNNNN -+ -IIJIIJIIFHGHIIJHGHJIJGFIGHIJJJJJJJJIIIJJJIDIIIHHHHHHHFFFFFFEEDEEEEDCDDCCDDCDDDDCCDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1307:18623:18950/2 -GTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTC -+ -JHJJIJGJJHIGIHIIIIJIIICHJIIJJDGGGIJCBCGHIGHH@EFHEHHFEEFFDEDCEDDDDDDDDDDDDDDEDDDDDDDDCDD -@HISEQ1:121:C0EP5ACXX:8:2206:14733:35674/2 -CTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTT -+ -GJJJJGIGJJCGHHIGJJIIJJJIIJJIGIEEHJJBFGGIEGIGHIJEHGEGIJJJJIHHGHFFFFF@BCCC@CCDCDD@>CCCCC? -@HISEQ1:121:C0EP5ACXX:8:2204:18585:104307/2 -AACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAG -+ -ED>;>>A:@3(5@?CD:@@@C4@A?9008:A3>@:>@(:>C::>:?:ACC@ -@HISEQ1:121:C0EP5ACXX:8:1207:19105:92282/2 -CCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCC -+ -IIIIEHIIHHFICGHIJJIGIHFGIIJJJJIEGIJIBGIIJHHHFHIIIJHJGIACGH;CEHHHDFF>;?CCCCCBBDBBDDDD;@5 -@HISEQ1:121:C0EP5ACXX:8:1301:17377:139560/2 -GCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATAC -+ -GB:FHHEFGE?FEE55:A99@>>>:@>>:93<><@>3>:(:48:>A@CCC?A>A -@HISEQ1:121:C0EP5ACXX:8:2203:19760:174167/2 -GCGAAAACAGAGGCGAGGAACGAAAATCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAAT -+ -CB?6=9(5>CC?>CCCC@CDC(4:9<@C@>::8>@C@:@CCA -@HISEQ1:121:C0EP5ACXX:8:1107:9791:182343/2 -CTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAA -+ -IJJGIHGHIJJHIIHC=GHBGGHJIGIDHHHHHEHF@?CEED>;@BCDDDCDDCDCDDDDDDCDCDDBDBCDCEDDDDBDDDDDDC? -@HISEQ1:121:C0EP5ACXX:8:1104:5226:71069/2 -AAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTT -+ -GIIGGFGIII@HGEGHIIICHHFE*?FADAHHGGIIHFCBEEGGAHGGGHGIIJIGHGAHFE?7=)7@B?>(;9>CC75;C9@ -@HISEQ1:121:C0EP5ACXX:8:2306:9426:60664/2 -CTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCT -+ -@?FHJB,,33:<:+A?@9ABBBA?BD191&68@85<-9@33@DDEDCBDB@-7@9?@:::A:(+::CCC<:>@39<5(:@ -@HISEQ1:121:C0EP5ACXX:8:2108:9892:29175/2 -GGGATGCACCTAACTACTTGAGAAACCAGAGCAACCGAACGAAACTCCTTCAAGAGAGGCCATCAGAGCAAATCAATCTGGGNNNNN -+ -++))1))1:**:D):0:*:*9*00?*08(.B)8)(('-'59B7=36@C>;@@>:59((,5?BCCD3(+(:99>>>(4>>@C?B80?: -@HISEQ1:121:C0EP5ACXX:8:2206:3357:101994/2 -GAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGN -+ -JJJJJJJJD@BDDDDDEDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDCDDDDDBDDDDDDDDB@A3>>@CCCDEC -@HISEQ1:121:C0EP5ACXX:8:2204:9269:145789/2 -CCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATATCTTCACTTGCCTCTTATTTN -+ -CH3?:A;;FG>;9BCB65(,5535;>ACAC?>@C@4>>CD -@HISEQ1:121:C0EP5ACXX:8:2303:12137:88145/2 -CGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTN -+ -IJJJIGIIJD7@BBDDD@CCCDCCCDCDDDDDDDDDCDDDDDDD@DDDDDD>CCDDDDDDDDDDDBDDDCDDDDDDDACACCDDDCC -@HISEQ1:121:C0EP5ACXX:8:2107:6159:66543/2 -TCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCANNNN -+ -GJIJJJJJIJJJIJJIIJIJIJGIJJJIIJIJJJJGBGHIJJJJJGIGJIJIGHGHFHFFFFF@CECCCDDDDDDDDBDDDCDCCCC -@HISEQ1:121:C0EP5ACXX:8:2207:2890:5397/2 -CCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGC -+ -A88388A88>CA>979BDC8AC3?<0;7588+00?>BC4@>CDD>442?>-5-599>:>@C -@HISEQ1:121:C0EP5ACXX:8:1306:11902:61347/2 -CTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATT -+ ->GHGIEGIGGGIIGGHCFGDGHIJFIJIIIBCGGGIIGHIJJGGIIGGHFHFBD1@D@@C(>A>;@C>>C:@>ACDDDCC@C -@HISEQ1:121:C0EP5ACXX:8:2107:10972:90289/2 -TGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAN -+ -H@D+CHG>EGECF>FCC:))6705<:CDCC@C>A3ACA>@<@D9DC?C>4: -@HISEQ1:121:C0EP5ACXX:8:2304:18462:130846/2 -GGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCAT -+ -<0007&8?3(33>@8(88:<<@CB@5;BC8?C>ACD>>7BCAC>C<8>BB<>A?B>?99A3>:@ACC -@HISEQ1:121:C0EP5ACXX:8:2101:7366:6467/2 -TCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTC -+ -GEGIGGGD@AHI9BDFH@B@FGHDD@CF<=FG@=@>=;=AACEHECB>CFC>3>>((;/8@=AA -@HISEQ1:121:C0EP5ACXX:8:2201:18060:138565/2 -CTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAANNNNNN -+ -JJJIJJHHIHIIGGIJJIIJJJJIJIJJJJD:@BDDCDEDDDDDDDDDDDBDDDDBCDDDDDDDDBDDDBDDDDDCDDDDDAABCB< -@HISEQ1:121:C0EP5ACXX:8:1203:1544:189212/2 -ATCTAACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCA -+ -IJIJJIJJJIJIIIJJIIIIJJJJJIJJIJGJJJJIHD7BDDBDDDCDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2206:11441:98185/2 -ATCTAACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCA -+ -IIJIIIJIJGIJGFHIHIHGIIJEHIIJGIJJJIGIED79B@CDDEDDDDDDDDDCDBDDDDDBDDDDD->A>4@CA -@HISEQ1:121:C0EP5ACXX:8:1302:13085:192464/2 -TTACCCATCAACACTTAACCCTTACTTTACAGTTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCC -+ -JJJJJJJIGGJJJJIJJJJJJIJJJJJJIJHHFGHIIIIJJJIJJJJJIGGIIJIJFIIHHHFHFFFFFFEEEEDB?BDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1202:8837:118012/2 -GCAAAAGAGCATACAAACCTTGGGTTGTGGTTCCAGCAACGAAGGGAGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGNNNNN -+ -JJJJJIJIIIJICHA@HIIJJHIJHIJJIJGHIJJIFHIJJJGGJIGHHBDDFCEEDEEEDDDDDCDBBBB>CDDCDDDDDDDBBB> -@HISEQ1:121:C0EP5ACXX:8:1207:11854:62581/2 -AAAGAGCATACAAACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGNNNNNNNN -+ -JIJIEG;FGGIIJJEHEHGIJDCB:HGFGHHJJIIJEBD> -@HISEQ1:121:C0EP5ACXX:8:2107:19055:184454/2 -GTAAGCAGAAGAGCATACAAACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGN -+ -HACFH>C+;CCDDDDD@CCC>A>>BBD5>8AC?@DBB@9 -@HISEQ1:121:C0EP5ACXX:8:2306:15081:197220/2 -GCAAAAGAGCATACAAACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAACCAGAGGCGAGNNNNN -+ -A:@CDCA@55<<)8A<28?75<93028< -@HISEQ1:121:C0EP5ACXX:8:1108:18185:47615/2 -CGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCANNNNNNN -+ -FB@HB;CB?E49*)9?FDFECHIG:=8=BDB4=DE;@AE:;=@9;;;;>>C@B?;;?@@>@>>>CC@A@ -@HISEQ1:121:C0EP5ACXX:8:2105:7748:124139/2 -CAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGC -+ -JEGIHB?CCC=?=@5;=B:A@@@AA; -@HISEQ1:121:C0EP5ACXX:8:1201:13322:122364/2 -ACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCAGATTGATTTGCTC -+ -IJGIIJGHIE>GHGHEDHHAEH=FG=:;FEGHEHFGDDEBCAACEECEFEDDCDCDDDDDAC@:@:CCDDD?CDA>CCD@CDA -@HISEQ1:121:C0EP5ACXX:8:2107:6281:156438/2 -ATCAGACCGATCTAACCTTGGGGTGTGTGTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGC -+ -4AA?++<+<)1???HG:??FEC))(-(((.B)/))=@>A7(;:CA((4>AA -@HISEQ1:121:C0EP5ACXX:8:1305:12682:160339/2 -TCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGN -+ -JIJJIIHIHJGJJIJJJGIJIIJIIJJJJGGEIIJJHHIJJJIIIIIJJIEIJJJIGGGGHHHGFEFFFDCDDDDDCBCCCDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2101:10614:180991/2 -ACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGGTTCCAGCA -+ -IJJJIIIJIJJJGJIHIIJHECHGIIIIIIJDGHIIHIIHEGIIJJIHJGIIJEIGIAHHFF@ECDDDDDACD@BBDDDABDCDDDC -@HISEQ1:121:C0EP5ACXX:8:1105:5527:6171/2 -GAGTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCACAACCCAAGGTTANNNNNNNN -+ -IIIHHIIJIIIJJIJJJGIIIGIJJIIIGIIJGGCGCGIHGGHHFFFDDDDDDDDDDDDDDBDDDDDDDDDDBDDD>ACDDDDDD?@ -@HISEQ1:121:C0EP5ACXX:8:1207:4910:149486/2 -AACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGGTTCCA -+ -IJIIEHJIJGHG@HGIFFHIGIGIJGGGIGGHEIGH?DEDGGGHGGIJIIJJJJJIIEEHHFDDDCDDBDDCCDDDD=@B??CCC -@HISEQ1:121:C0EP5ACXX:8:2302:17741:148058/2 -ACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGG -+ -FBFFHFEHEHFCAEH>HDCEHA?;BE<@BCC;ACC:AB58=BDB -@HISEQ1:121:C0EP5ACXX:8:1302:17244:110542/2 -TCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGN -+ -FB95(;;(,:CDC@5@> -@HISEQ1:121:C0EP5ACXX:8:1305:1936:75650/2 -TGTCTTCTTCAGCAACACTCAGATCCCCAGATTGATTTGCTCTGATGGCCGCTCTTG -+ -3111:?C@C9CCF*?@3)0*?B38BG9BH=28@)))8@@EE@D>;?773749>@BA> -@HISEQ1:121:C0EP5ACXX:8:2203:15380:66132/2 -AGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCNNNN -+ -GEHIGBGHGHGHIJHICCFGEHEFAGGGIJGIDIIEGHEHHIAGGCDGIGEHG?GECEHFFFFFEDCCCCCEDDCCDCDDDC?@BBD -@HISEQ1:121:C0EP5ACXX:8:1302:17121:81693/2 -CTCTGATGGCCGCTCTTGAAGGAGTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCA -+ -IJIJJIIEIJJJJIJIJJIJIIGD:DGGIJIBGIJIHHIJJIDGIHHFHFFDDED=ACDDDCDDDABB'5@@EHFDBD2>>>;>=?>CD35@>:CCDD@ -@HISEQ1:121:C0EP5ACXX:8:1101:11189:44094/2 -ATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTNNN -+ -JJJJJJJJJJJJIIIJJJJJJJJ?FGIIEHJGJJJIIHHIJJJJJJJJJIJJJJJJIIJJJIHHHHHFFFDDDDDDDBDDDDDDDC> -@HISEQ1:121:C0EP5ACXX:8:1102:2324:141339/2 -AAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAA -+ -JJJJJJJJJJJJIIJJJJJJFHHHIJJJCHIJJJJJJIIJJJJJIIIIJJIJHGGHHH@DBFEECEEEEDD>@DDDDDDDDDDDEDA -@HISEQ1:121:C0EP5ACXX:8:2102:5334:25020/2 -TAATATAGCACAATCATATTGTTGACACCTTGAGTCCACAAGGAAGGCATGTAATGTTAATAAAATTCAAATTATGTAATTTCAGCT -+ -4CFFE@HHEH>F@GHEIJJGGGGECHCHIIJGGIJJFEGIJIIEGHEIIGHAEHHF=ACCBCCDFDEECDEDAC>>@B5;BCCCCCC -@HISEQ1:121:C0EP5ACXX:8:1208:3562:49824/2 -AATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACT -+ -AFBHIIGGIIGE@C@HIJAHIACCCE?A=ACDCCDDCCCC5>CCDC8ABC -@HISEQ1:121:C0EP5ACXX:8:1206:17130:12165/2 -CTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCANN -+ -JJJJJJIJIIJJJJ@GGHIIJHJIIIIJIJJJIJIJJIIHJJJJJIIEHHFFFFFEEEEEEEDDDDCCDDEEEDCC>CCAACCDCCC -@HISEQ1:121:C0EP5ACXX:8:1205:1825:51786/2 -ATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATA -+ -JJJJJJJIJJJJJJJJJJJJIJJJJIIJJGIIJJIJIHIHHGHH?BCBFDEEEEEEDEEDDDDDDDDCCDDDDDBB@DCDDDCBBC> -@HISEQ1:121:C0EP5ACXX:8:1306:4125:139155/2 -ATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATA -+ -BDAGGBEHFHGIGIG>?@DHJIHE?CDDDBA??CC -@HISEQ1:121:C0EP5ACXX:8:2303:6312:178128/2 -TATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTN -+ -JIJJJJJJJHJJJJJJJJJIJJIJJIHJJJJIJJJIIGGIHGIIJJJJJJIJHHHHHHFFFFFDDDCDC@BBDBDDD@CDDCDCDDC -@HISEQ1:121:C0EP5ACXX:8:1202:14487:9079/2 -CCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATT -+ -E?G?FI+<:<3:+3+222A99:C?9?911?:6:BG -@HISEQ1:121:C0EP5ACXX:8:2306:19017:130779/2 -TCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAAT -+ -EHIJFHBGECGHGIIJIIGIJJJJBFGBHJJIJJGIIEGGJJJJIHI>EF?EDEFFFEE>CACEDCCCCCCA?FGAGFIGCHIJJE=FD=FGG@EC@GEHGB@EHHE;;CBEFD>;A/'',:5:?>CC>5:5,:(CEDABDB?BD?@ACADC::ACDAD<@BBD89 -@HISEQ1:121:C0EP5ACXX:8:2301:14772:138623/2 -CTCTTGTTTCAATTCTATAGTTTGTTTACTATTTTCTATAACCCTATGCCTGCATCAATTGGATCTGATAACCTTAACACCTATTGT -+ -JIJJJIIJJJIIIIIJGIHIEIIGGHIGIJJJIJJIGHIGIHIIIIJJIJJIJGGHIIIHJJIJHHHGHFFFFFFFEDEEDDDDDD; -@HISEQ1:121:C0EP5ACXX:8:2306:2564:73699/2 -ATCTTACAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAACGCAACACCATATTTCCGGATCCAATCNNNN -+ -II>FHCHGGIBHGEGHGCCD9CDFIGJBFFGGGHIEG;@@CHCGGGHAEE<<@CDCCC@B@B@9ACCCC:C@ -@HISEQ1:121:C0EP5ACXX:8:1303:13585:40340/2 -AATATAGCACAATCATATTGTTGACACCTTGAGTCCACAAGGAAGGCATGTAATGTTAATAAAATTCAAATTATGTAATTTCAGCTT -+ -GHDIGG4ACHGG?EEHIIIB?DCGG9GHGIEGH4DCEDA@DACCCECBBBDCDCDCCDA -@HISEQ1:121:C0EP5ACXX:8:2107:18091:187815/2 -GTTTGTTTACTATTTTCTATAACCCTATGCCTGCATCAATTGGATCTGATAACCTTAACACCTATTGTCGCTCATGGTTTGANNNNN -+ -GIIEG3+FF@HHIJIJJGIJJJJJIIEIIIJJGIGCIIIJGHIJJJJJJJIGGJJJIJJJJGGIIHGGEEFFFFEFFEECEEEDCCCCCCC -@HISEQ1:121:C0EP5ACXX:8:1305:4292:178325/2 -TGCAGAGCAGCAACAAAATTGATTCCAATAATACATCTAATCTTGAGATCCAACATGCACAGTCTCAACTGGAAAGGATCAATTCTA -+ -IJIIIIIEHIJIIIJIJJIGEIGHEGIGIJIJJJIFFGGIHJIJJGBDGIJJJFIJJJEHBEAHHFFFFFCACECBB9@CBDDEDDD -@HISEQ1:121:C0EP5ACXX:8:2201:1091:169035/2 -TGAGNNNNNTTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTATAAGTAATCTCATTCCTTGTTTTCGTTGT -+ -HIGI#####21@EEFFHGHGFHF>FGHHFFHEEI;;@DE@DHHEFHG6?;@CECDDC@ACDDDECC>5>CCCACDDACCCBBDA@ -@HISEQ1:121:C0EP5ACXX:8:2201:15300:19470/2 -TCACAAGGCTTGAGCAAAGGTAGAGGAATCTATCTAACACACTCTCCTGCAGAGCAGCAACAAAATTGATTCCAATAATACATCTAA -+ -JJJGHIJGIIJJHIJJJIJJFHHJIJJJIJJJJJJJHJJJJJJJJIJIIJJJJIIIGHHHHFFFDCEEEEEEFECDDCDEDDCDDDC -@HISEQ1:121:C0EP5ACXX:8:1308:14340:140874/2 -CAGAATAATCACAAGGCTTGAGCAAAGGTAGAGGAATCTATCTAACACACTCTCCTGCAGAGTAGCAACAAAATTGATTCCAATAAT -+ -EEB9EH<3GGG=4@)=D;777C9=?)).7))66=;?A>3(-5;>@>A5@; -@HISEQ1:121:C0EP5ACXX:8:2202:12780:47547/2 -GAATAATCACAAGGCTTGAGCAAAGGTAGAGGAATCTATCTAACACACTCTCCTGCAGAGCAGCAACAAAATTGATTCCAATAAT -+ -GAFGGDHEGH@AC8?FDHAE?EGBG@HGCHEGHCGGBFEGHIGHHGGA@AFGH>HGHEHGEHC?@7@A2;?@:;CDCBB>>5:@C -@HISEQ1:121:C0EP5ACXX:8:2106:13356:92925/2 -TACCGAGTATATTATAAGTAATCTCATTCCTTGTTTTCGTTGTAAGATTAGTTATGTTTCCCTGGCTTATTCTAATCTAGTTAGAAT -+ -JGIJJAGFDHGIHEGIJJGIHGIJJGIJIJIJIGHJHHGHIJIIIIGHIIIGIGGIGIJJHHHHHFFFEFDDDC;CCDDDDEEDDDC -@HISEQ1:121:C0EP5ACXX:8:2206:14713:40562/2 -GATCGGTTTGATTTATTTGATCAAGGATCTTTCCTGGTGTGGCTCTTGTTTCAATTCTATCGTTTGTTTACTATTTTCTAT -+ -FFD@GGBGBGIBFGIIFIB?FFE:=@=.===7?C;;.;CC(;;C?(5>>CCDCDDAD diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/mother_male.bam Binary file demo_files/mother_male.bam has changed diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/mother_male.bam.bai Binary file demo_files/mother_male.bam.bai has changed diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/reference.fasta --- a/demo_files/reference.fasta Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,19 +0,0 @@ ->comp0_c0_seq1 -ACAGAATAATCACAAGGCTTGAGCAAAGGTAGAGGAATCTATCTAACACACTCTCCTGCA -GAGCAGCAACAAAATTGATTCCAATAATACATCTAATCTTGAGATCCAACATGCACAGTC -TCAACTGGAAAGGATCAATTCTAACTAGATTAGAATAAGCCAGGGAAACATAACTAATCT -TACAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAACGCAACAC -CATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAG -ATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACA -AGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGT -GGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGA -AACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGA -ATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTC -AATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGC -AGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCA -AGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAG -GGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAAGG -GCAAATTATGTGTTCCACCACAAAATGAAACAAGAAAGGAAAGAAAACAAGCACAGAGGG -GAGGAGCAAAGCTCCATCCTAGGCTTGGAAGAGATTCGAACAAGAACAGAGAAGAAGAGA -GAGGAAACTGTAGAGAGAGGAGAGAGCGTTTTAGAGGAGAGAGGGAAACAGCCCGGATCA -CCAGCTAAGGCCCCT diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/reference_male.fasta --- a/demo_files/reference_male.fasta Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,30 +0,0 @@ ->comp0_c0_seq1 -GTTCTCCATTCCATTCTAAGTTTGGCAAATAGCCTTGGGAATTCAATGCACTCTCCTACT -AGGAAACCAAGGATTGTGAGTTCCTTCTTTTTTTTTGCTTGGGTTCTAGCAAGAGCAAGT -TTATTAAAGAGAGCTTTGGGATCAAAAGTTTTGGTACCTGATTTGGTCACTTTTGGTTTG -GAACTTTTTGTGCTACCACAAGGTGGTGTGAGATTTGGTAAATTTGGGGAGTTGGTATTC -CCCTTGTTTTGTTGGTAAGCATCATTGATGTTGGTCGTACTATTTTTGGTAGCATCATTA -ATCACCATATCAGCAAAGGAAAGCTTCCCCTTCCCCTTATCCATAGCAACCCTCTCTTCA -GTAAATGCACACACCCACTCACTGTATCTAAAGCTCACTATGAATATTAACCAGTACAGA -GCAGATTTACTCGG ->comp1_c0_seq1 -GTCAATGGTCTCTCTCCTCTAAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCT -TCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTTGCTCCTCCCCTCTG -TGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCA -AATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTT -TACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCC -CTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCA -CCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCC -TAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAG -CAACAATCAGATCCCCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGTTTCGTTCC -TCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCACAACCC -AAGGTTAGATCGGTTTGATTTATTTGATCAAGGCTCTTTCCTGGTGTGGCTCTTGTTTCA -ATTCTATAGTTTGTTTACTATTTTCTATAACCCTATGCCTGCATCAATTGGATCTGATAA -CCTTAACACCTATTGTCGCTCATGGTTTGAGATTGATTGGATCCGGAAATATGGTGTTGC -GTTCAGTCTTACCGAGTATATTATAAGTAATCTCATTCCTTGTTTTCGTTGTAAGATTAG -TTATGTTTCCCTGGCTTATTCTAATCTAGTTAGAATTGATCCTTTCCAGTTGAGACTGTG -CATGTTGGATCTCAAGATTAGATGTATTATTGGAATCAATTTTGTTGCTGCTCTGCAGGA -GAGTGTGTTAGATAGATTCCTCTACCTTTGCTCAAGCCTTGTGATTATTCTGTTGAAGAA -CTTCAGTGATATTCATAGAGTGCATAGTCTTAATTATGACTTTGATAAAGTATTTTCCTT -AGGTTATGAGTATTTCATTTCTAGACTTTATTACCATCTCCTTCGATCTTTGATTTGTAA -GCTGAAATTACATAATTTGAATTTTATTAACATTACATGCCTTCCTTGT diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/son.bam Binary file demo_files/son.bam has changed diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/son.bam.bai Binary file demo_files/son.bam.bai has changed diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/son_1.fastq --- a/demo_files/son_1.fastq Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,392 +0,0 @@ -@HISEQ1:121:C0EP5ACXX:8:1204:18279:146920/1 -CTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTC -+ -JIHIGGGJIJJGIIJHJJJJIJHIGIIIIGJGIJJIGIIIIIJIIBHCCHIJJIEIJJIHHFEHFFFFFEEEEDDDDCDC>ADDD?= -@HISEQ1:121:C0EP5ACXX:8:2304:5972:188977/1 -TACGGGGCGAATCCCCACAATTTGCAAGGGCAAATTATGTGTTCCACCACAAAATGAAACAAGAAAGGAAAGAAAACAAGCACAGAG -+ -IIJJJJJIJJJJJJJJEGIGJJJJIHHHHHFFFEEEEEEDFBDDDEDDDDDDDDDDDDDDDDDDDDDDBCDDDDD?DDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2304:17680:15723/1 -ATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACAATTTGCCCTTGCAANNNN -+ -JIJJJJJGJJIJIJIGIJJJJJIIIGIJJIIJJJJJJJJIIIIGIIJIJJGIJJJJIIJHEADFFFFEDDEEDACDDDDCDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:1306:15258:144587/1 -ATGGGTAAAGTTTTGGGTATACGGGGCGAATCACCACAATTTGCAAGGGCAAATTATGTGTTCCACCACAAAATGAAACAAGANNNN -+ -FBGCGAFHIHHHIIIJI;EFIEIIJIIJBEHFHDDDECCEEEEED@CDDBB@>AAAA -@HISEQ1:121:C0EP5ACXX:8:1106:16812:199346/1 -CCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTG -+ -FGGGIGIIIEGEHHCCBCGHHECGGIIIIFGGHE??GHIIE@FH2BFGGIGIADGE@@EHHHFEDDDFECECCCCCCCCCCBBCBA: -@HISEQ1:121:C0EP5ACXX:8:2207:14699:5997/1 -TTATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAAC -+ -JJJJJIJIGJJHHHJJGGHHIJJFIJGIJJJJJJIJGJJGGIJIJHGHJEIHHFF>BECEDDDBDDDDDDDDDDDDDDDDDDCDDDD -@HISEQ1:121:C0EP5ACXX:8:1308:15728:74115/1 -GCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACN -+ -GGGIJIIIJIGIJIGGIHFJGICHIIBG9BFHIGGEGGIDHIEICDEHJIJJHH?EEFFFFBDEDDBCCDEBDBDDDDBDDACBCD? -@HISEQ1:121:C0EP5ACXX:8:2104:4107:189035/1 -CTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTC -+ -IIJIJJJJJIJJJIJJJJJJIIJJJJHJJIIHGIIJJJJJJIIJJFHIJHJJJIIGGHGHHHHFFFFFFDDECDDDDCDC>CCDD?= -@HISEQ1:121:C0EP5ACXX:8:1303:8466:21687/1 -GCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTTATGGGTAAAGTTTTGG -+ -JJJJIJIJIJJIIJJJJJJJJGIIIJIIIGIJ@EGHACHFFFDCDEECFDCDEEDCACCDDDBBDDDD@DCCDDDDCCAACCCDDDB -@HISEQ1:121:C0EP5ACXX:8:1301:5823:42774/1 -GCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTT -+ -JIJJJJJIJJJIIIJIIJIIIJGGIJJJJJIJJHHHHHFFFDEEEDDDDDDDDDDDDDDDDCCDDEDCDEECCCDDDD?ABDC>CC@ -@HISEQ1:121:C0EP5ACXX:8:1205:8107:84323/1 -CAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAAAATCGNNNN -+ -JGIJJJJJJJJGGIJJJJIIJIJJJGIIIJJJIJJIJIIIJGHJHFFFFECCDDDDDBDBB@>CCDDDDDDDBDBDC2@CCA@@A;9>BB9; -@HISEQ1:121:C0EP5ACXX:8:2302:9661:103451/1 -CAGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCN -+ -JJJIIIJJJJJJJIJJIJJIIJIGIJIHIIIJJJJJIIJJJIJJHHGHFDFDDDDDDDDDDBBDDDDDBDDDDDDDDDDDDDD?BDD -@HISEQ1:121:C0EP5ACXX:8:1203:11100:134680/1 -AGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGG -+ -AGHJJIJJJJJJJJJJJJFIJJJGGJJJJJJIJJJJJJJJIJIIIJHGHFFFFDDDDDDDDBBBD@BDDDDDDDDDDDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1204:11305:110710/1 -CCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTG -+ -JJJJJJJJJJJJJIJIJJGHIJIJJJJJJJJJJIIJJJJJJJJIJIJJIIIJGIGIHJHHGHHFFFFFEEDECCCDDDDDDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:2104:4236:84531/1 -TCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCC -+ -GHIIIIAHFH;FBCBFFH?>?GA@BB<*?F<9DGIEHBF?BBDHII9FEGH@@@@D7@;CC;AAB77;;@CAA?7>C59BB?B?BDDD -@HISEQ1:121:C0EP5ACXX:8:2101:6432:199800/1 -GAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGNN -+ -B?AF@FHDCA9A2A;>@>CA@CACCAC(5:;@:5 -@HISEQ1:121:C0EP5ACXX:8:2107:18331:159767/1 -GAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACCATTCGCN -+ -JIJJIGIIIJJJHEFGHIJIJJJJJJIJIJIJIJDGIHIHIFHGIJJJ@EGIIHEHEBEDFDCEDDEEDCC;ACDDDDDCDDDECB9 -@HISEQ1:121:C0EP5ACXX:8:2306:3755:139456/1 -GCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCT -+ -EHHHJEGIJJIGIIEHIGICEHBFHED@@AH>CEFFHIJIJHGHHFEFFFF@BCCCCE@CDCDDDDDCDEDCCDCCDEECDDCCCDC -@HISEQ1:121:C0EP5ACXX:8:1307:2138:123308/1 -AACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGG -+ -IIJJJIIIIGIDHHI>FEHIIIIJJJGJJJJIGGIEHIJICGHGIGGIIJJJJIJFCGEEC=BDEFFB>>CCCC@CCCDD??BDDCB -@HISEQ1:121:C0EP5ACXX:8:2202:11183:23671/1 -TACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGNN -+ -JIIGIHJIJJJJIJJIGIIIIIBFGIJJJJJIIIJIGDGHIHJGICHIF;FEEHGFHFHHFFEFFECBACC@CCDCBC -@HISEQ1:121:C0EP5ACXX:8:1304:1821:110599/1 -CTGAGTTAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTACAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAG -+ -@EEF@+A??FEEG?FGFCFGAHGBCDHIHIII=CHEDBEB@>>>@6>3;CC(;ACACCC>>AAB@??C>>CCCB3>C>>AB59<8@> -@HISEQ1:121:C0EP5ACXX:8:1202:6596:74809/1 -CCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAG -+ -JIJGIJJIJJJGIJIJEIEGGIIJJJ:AE>D?@CCEECEDCDACEDDEDBDDDCC>CDDDDDDDCDCCCCDDCDDDDDDD>A@CCD8 -@HISEQ1:121:C0EP5ACXX:8:2305:7769:151169/1 -TCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGTGGGGATTCGCCCCGTAT -+ -JJJJHIJJIJJJJJJJJIIGGIJIGCHHHIJIJIFJJIIIFFHIIIJGGGIIIJJGIJIHHHGHFFFFFFFCDDDBDCDDDDDD@BA -@HISEQ1:121:C0EP5ACXX:8:1205:2077:37536/1 -AAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGAC -+ -IJJIJGCGCEHFGIH@EHIJGEHIIJEGIBIJIJCEGCGAGCCEFDCDD9;?5>:A>ACDCACDDBAC>BA>@:@>?@C4@A -@HISEQ1:121:C0EP5ACXX:8:2103:4295:63104/1 -TCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGG -+ -HGGGHEAHEHIHIIIGHIHGHIHGIEIIGIIIIIIIIIIIGI=FGIIIEGHGGIIIIEEHHEECEBDDDCABCDC?CADCACAB<>: -@HISEQ1:121:C0EP5ACXX:8:1103:4347:43083/1 -AACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGG -+ -JJJJJJJJJJIJJJJGJJJJJJJJJJJJJJJJJJJIJIJJJJJJJJJIHIJIJJJJJJHHHHFFFDDDCCEECEDDDDDDBBBDDD@ -@HISEQ1:121:C0EP5ACXX:8:2107:17275:98920/1 -TGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCC -+ -JDGIJJJJIJJGIJJJJJJIGJIIJJJJJJIJIJIIGCFCGIIIJHHCHHFFFFFFFEDCEDDDCDDDDDBDDDDDDECDDCCACD9 -@HISEQ1:121:C0EP5ACXX:8:2304:10198:198268/1 -GGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAG -+ -JJJJJJJJJJJJJJJJJJJIHIJJJGHIIJIJHIIJJJIJJIIJIIJJJHGGHHFFFFDCD?CDDEDDEDDDDDDDDDDDDEEDCCC -@HISEQ1:121:C0EP5ACXX:8:1205:11549:169371/1 -TACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCT -+ -JJJJJJJJJJJJJJJJJJJJJJJJJJJIJJJJJIJJJJIJJJHHIJIJJIJJIIEGHHHHFFFFFEEEDEDDDDDDDDDDDDDDDD? -@HISEQ1:121:C0EP5ACXX:8:1307:11095:87598/1 -GAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGN -+ -IJJJIIIJJJJIIIJIGIIFGGIIJIJJIJIIIIJJIIGHGHJJGHGFHFFFFFFCDECDECDDDCDDDDDDBDDDDDD?B@CD@C> -@HISEQ1:121:C0EP5ACXX:8:1307:5273:167214/1 -CCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTG -+ -JIIIJJJJJJJJFIIJJJJJJJJJJJJJBGIIJJGGIGGIIJJJIJIJIHHHHHFFFFFEDCDDDDDDECDDDDDDDDDDDDDDEEE -@HISEQ1:121:C0EP5ACXX:8:1202:6430:193858/1 -AAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGN -+ -JJHIJJJJJJIJJJJJJJJJJJJJJJJJJJJJIIJJJJIJJJJHHHHHHFFFFFFEEFEEEDDDDDDDDDDDDDDDDDDDD?BBDD: -@HISEQ1:121:C0EP5ACXX:8:1203:11801:61902/1 -AAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGN -+ -JJJJJJJJJJJJJJJIJGIIJJJJJJIJJJJJIIJJJIJJJJEHHHHHHFFFFFFEECEEECDDDDDCCDDDDDDDDDDDDBDDCD> -@HISEQ1:121:C0EP5ACXX:8:1108:8809:81311/1 -TCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTT -+ -JJJBGHIJGGEHIGGGJJJIIJJIJJJJJIIJJIIJJJIIJJJJICHHHHHFDF@DCEEEDCDCDA?@A8@CDDCCDBBBBDDCCD> -@HISEQ1:121:C0EP5ACXX:8:2204:18606:175884/1 -GCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTC -+ -:FDEBHGIBHI@GEEFBGEEFDDDC>ACEC@ACB?B@@?@AC@CAC@C>ACCCDDC -@HISEQ1:121:C0EP5ACXX:8:1105:17367:119872/1 -TGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCC -+ -IJIJIJJJIJJIIJJJIJJGIIJJIJJJIJJIBHIJJ@FCIJJJJHHHHHFFFFFFFEDEEBDDCDDDDDDDDDDDDE@CDCCDDD> -@HISEQ1:121:C0EP5ACXX:8:2202:9681:198266/1 -AACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTG -+ -DDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDCCDCEDDD@BF@EFAEHEHCGHIIIBHGGI>>BGGHH@DHBBFDHIG:CD@GECD=CCEAEE>B;?B=BCCCC?>;AA::8>8>38>AA>AA799::A=3+328::859:>:+8>?7&5>((+4>49AA3>: -@HISEQ1:121:C0EP5ACXX:8:2207:13105:76511/1 -TGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTC -+ -IIIIJGICHGIJJJJEHEGGGHIHGGEGCHIJJJIJIJ<@BFDFHIJEGGEGHHGGHA;>?DDDCCEDEDDDCCDDDDDDD<<@ACC -@HISEQ1:121:C0EP5ACXX:8:1306:20726:15789/1 -GAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATTTTGTGGTGGAACACATAATTTGCCCTTGCAAATTGT -+ -A:CA4=DC=?=6;?;;6;;;;BBAABBA955:>AB>>; -@HISEQ1:121:C0EP5ACXX:8:2107:15019:37435/1 -CCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCANNN -+ -IJIJJDIGIJJJIJIID0:@7CDDEDDDDDDDDCCDDDDDDDDDDDDDBDDBDBDDDD->AAACDDD:ABDDDBDDDDCCACDCDC@ -@HISEQ1:121:C0EP5ACXX:8:2208:13905:97948/1 -GCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCT -+ -AGHIJJJJJJJIJJIJGIIGIGJGIJIJJHIIJJJJJJJJJHHHHHHFFFFFF@A(>ACCDDDDAC@ADCCCDDDCDEECCDDDDCC -@HISEQ1:121:C0EP5ACXX:8:1301:2094:147266/1 -GGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCAT -+ -JJHIIIIJGGIJJJJJJJIJJJIIIJD076:CDDDDDDDDDDDDDDDDDDDDCDCDBDBBDBBDDBBDBCCDDDDDC@CBDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:1306:10553:20592/1 -GGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCAT -+ -JJGHIIIIGIJJIJIJIJIJJJIJIJD@BDDDDDEDDDDDDDDDDDDDDDDDDDDDDDDDDDBDDDDDDDD@CDDDDCDBDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:1203:5698:36196/1 -AGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCC -+ -IIIII>CEFFHIGBCCBEGFHCHBFDFHICDHHGICBHEGB@HGICE;FCH:DAE@AEH3=?CDD@DECCED;CCDA:>A:A? -@HISEQ1:121:C0EP5ACXX:8:1107:20608:196329/1 -TTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCC -+ -IJJJJJJJJJJIIJJJIJJJJJJJGHIJJIIIJJFJIIJIIJJIJJIHIHGEIJIG@EHGCAEFDDCEFDDDC>A:?@@CCC<5 -@HISEQ1:121:C0EP5ACXX:8:1104:7384:82234/1 -ACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGGTTCCAGCN -+ -JJJJJIJJJJIIIJJIJIJJJIJJJJGIIIJIJJJHJIJJIJJIJJJJIJJJJJIIJHHHFFDEEDDDDDDDD?BDDBD?BCDEDDD -@HISEQ1:121:C0EP5ACXX:8:1106:13934:41628/1 -TTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTG -+ -JIJGGHJGFGHIIJJJGF6??FGBGGGIJJIJIIIJJIJJGEEEHHFFFFFDDC@CACA5;;;CCDD@@CACDCDDACCD?CCDCD5 -@HISEQ1:121:C0EP5ACXX:8:1203:15133:98209/1 -TTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTC -+ -JJJIJJJJJJJJJJJJJJJJJJJJJJJJJJJCHIIJJJIHIJJJJJJJIJBHIJICHEIHHHHHFFFFFEEEEEEDD??BDDCDDDC -@HISEQ1:121:C0EP5ACXX:8:2201:15934:79822/1 -ATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATANNN -+ -HIJJIIJJHIHIJJJJIIIIJJCHIJIFIIJJGIJJIGIIJJJJJJJIJJJJJJJJJJJJHEHFFFFEBDEEDDDDDDDEDDDDCDE -@HISEQ1:121:C0EP5ACXX:8:2103:11160:152496/1 -CAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCNN -+ -IIIIEIIIEGBEEGGDGHIIFHIIIIIIGGHIGFFEGHIIIIIFIIIIIIIIIIIIIIIGGEEEHHEFFCCCEC?ACCBCCCCCCDC -@HISEQ1:121:C0EP5ACXX:8:2205:18696:101935/1 -TTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGG -+ -HHGFGEEDHHIDHDGIIJIIJ@FGGJIIJDIJIGHGIGGIIJJEIIJJGHE9;7?BBCCCE>@CDD@C@>>CA>9@B<@A@C:@B?< -@HISEQ1:121:C0EP5ACXX:8:1205:12485:13377/1 -CTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCAGATTGATTTGCTCTGATGGCCG -+ -JJJJJJJJJJJJJJJJIJJJJJIJJJJJJJJJHHHHHFDFFFFFEEEEEEDDDDDDDDDDDDDDDDDDDDDEDEDDDDDDDEDDDD@ -@HISEQ1:121:C0EP5ACXX:8:1205:4852:183027/1 -GCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGGTGCTCTCACCGGAATCTCTTCACTT -+ -AEA?AA+3+@:1?C?D49??B;0:*09?AAA -@HISEQ1:121:C0EP5ACXX:8:2105:10921:73090/1 -TCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCG -+ -JJJJJJJJJJJJJJJJJJJJJJJJHIFHIJJJJJIJIJJJJJJIIIJGIJJJJHHHHHFFFFFEDDDDDDDDDDDDDDDDDDDDDDB -@HISEQ1:121:C0EP5ACXX:8:1301:9478:45031/1 -ATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGNN -+ -@FDHIGGIIEIIIII*?F8BGGHGHGIEGHG>F@DG@FHA;>BBACC;@ACCCC@:@ -@HISEQ1:121:C0EP5ACXX:8:2104:6749:159109/1 -AAGGAGTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCACAACCCAAGGTTAGATCG -+ -HHGHIIFGEHIIEBDAF<@GGIIG?BD>=@A<8AD=E=A=;AB>@BB=AC@BB=?<:@C?CABB?B2<@BB<<<4>CB:@CA -@HISEQ1:121:C0EP5ACXX:8:2202:21245:113808/1 -AAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGNN -+ -JJJJJJJDHJJGGIJJIJIIBFGHIGGHBGGCCCDDDDDDCCCC@ -@HISEQ1:121:C0EP5ACXX:8:2206:14046:3125/1 -ATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTN -+ -JJIJJJJJJJJJGIJIJJJJJJIJJ?DDGHIIJFHIJIJJJIJJJJJIGFHHHHHFFFFCDCEEDDDEDDDDDDDC>BDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2105:15155:69832/1 -AACACCATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGG -+ -IIJIJIJJIJJIJJJGHIJJIIJJIJGGGIGIIJJJJJJJJJJFEBFFFF6>ACEEDDCDDDCDEDDDDDDDDCDEDDDDDDBDCDD -@HISEQ1:121:C0EP5ACXX:8:2302:1358:92768/1 -CCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTC -+ -HFBEGHIG>HHDGCCFFH@FC>DFEBEFHH3?BFGB@HIE@AC=@CA;<==8B7;.;A@@>>/8??2?3>@>AA3:A88?<<>>9?A -@HISEQ1:121:C0EP5ACXX:8:2302:13383:122517/1 -ACTTATAATATACTCGGTAAGACTGAACGCAACACCATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAG -+ -IJJJJJJJJJJJJJJJJHIJJJJJJJJJJIIJJJJJJIJJJJJJJIIJHHHHHFFFFFFEEEEEDDDDDDDDDDDBDDDD:@ABCCC -@HISEQ1:121:C0EP5ACXX:8:1305:19207:34291/1 -CTCATGGTTTGAGATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTATAAGTAATCTCATTCCTTGTTT -+ -GBGIIIIAFHG4?GFEG;>@;CA@B>;@5>::ADDE@AC3@C -@HISEQ1:121:C0EP5ACXX:8:2102:10551:119670/1 -CGAAAACAAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAACGCAACACCATATTTCCGGATCCAATCAATCTCAAACCAT -+ -JJJJJJJJJJJJJJJJJIJJJJJJJJJJJJJJJJJJJHIIJJJJIJJJJJJHHHFFFEEEEEFDDDDDDDDDDDDDDDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1208:7778:129322/1 -TTAGATCGGTTTGATTTATTTGATCAAGGCTCTTTCCTGGTGTGGCTCTTGTTTCAATTCTATAGTTTGTTTACTATTTTCTATAAC -+ -BGHGHIGGEFGIEC@@C;(5;BDDCCCC;@CC -@HISEQ1:121:C0EP5ACXX:8:2304:6605:62458/1 -TGAGATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTATAAGTAATCTCATTCCTTGTTTTCGTTGTNN -+ -DHHHAH4A@FGIIGIIICAHBC>>>>>@;@@CDEDDCCCCCC?>8<>? -@HISEQ1:121:C0EP5ACXX:8:2106:13776:157073/1 -TCTTACAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAACGCAACACCATATTTCCGGATCCAATCAATCT -+ -JJJJJJJJJIJJJJJJJJJIJJJJJJJJJJJJJJJJJJJJJJJJIGIJIJJJJJJHHHFFDECDDDDDEEEEDDDDDDDDDDDDDDC -@HISEQ1:121:C0EP5ACXX:8:2306:4709:158183/1 -ATCTTACAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAACGCAACACCATATTTCCGGATCCAATCNNNN -+ -IJEIJIIJJJJJIHHIJIIIIIIJGHFHIHIIIJJGIGIJJIJJJJGIDHIGIGIHHGHDEDEC@BCCDEDDC?@BDDDCCCDDDDD -@HISEQ1:121:C0EP5ACXX:8:1104:17239:160204/1 -AGATCGGTTTGATTTATTTGATCAAGGCTCTTTCCTGGTGTGGCTCTTGTTTCAATTCTATAGTTTGTTTACTATTTTCTATAACCC -+ -C@FGABD?@GHIBGI;@@;@C5>>;55@A? -@HISEQ1:121:C0EP5ACXX:8:1207:17351:77865/1 -TTTGTTTACTATTTTCTATAACCCTATGCCTGCATCAATTGGATCTGATAACCTTAACACCTATTGTCGCTCATGGTTTGAGNNNNN -+ -IIIIJJIJJGHGHIJIIIIIJIIJIJIGIJIGIJJJIGIGIFIIJIIGIIJJJEIJJJJJJJIJIIJHHEEEBFFECEBDCB?CCC> -@HISEQ1:121:C0EP5ACXX:8:1204:17042:185305/1 -CAACATGCACAGTCTCAACTGGAAAGGATCAATTCTAACTAGATTAGAATAAGCCAGGGAAACATAACTAATCTTACAACGAAAAC -+ -GE@@D?@GCEHI?F>DE@FHFGGGG>BFHGCEGBFGEGHHF?FB>CHGBGH@HGGGHGGEAEFCD@CEECCCC:;>@CCCB@BBBC -@HISEQ1:121:C0EP5ACXX:8:2103:20915:142998/1 -GAAGGAGATGGTAATAAAGTCTAGAAATGAAATACTCATAACCTAAGGAAAATACTTTATCAAAGTCATAATTAAGACTATGCACTC -+ -GIIII@GGIGIE?FHHIGI?BFHIIIEAFICFGGHGGIIDDGGD@@F@GIIDDHIIIIBAG7=;A?CEHD>CDEC>@>A;3;ADDC> -@HISEQ1:121:C0EP5ACXX:8:1104:9804:126592/1 -TTCTATAACCCTATGCCTGCATCAATTGGATCTGATAACCTTAACACCTATTGTCGCTCATGGTTTTAGATTGATTGGATCCGGANN -+ -IJJIIJJJJJJJJJFJJJIIJJJJJJJJJIJJJJJJJJJJJIJJJJJJIJIJJIJJJJJIHEEAEHFFFFFEEEEEEDDCDCDDBDB -@HISEQ1:121:C0EP5ACXX:8:1302:12570:27266/1 -GGTTTGAGATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTATAAGTAATCTCATTCCTTGTTTTCGTT -+ -IICFHHIG;HEB@FFGGDEGHIIAHIIGIGCBF?;CEHAGGDG=D@EHHHGDE;@CFDD@CADC>CDDDCDCC@CCCDCDCDDDBD9 -@HISEQ1:121:C0EP5ACXX:8:2108:15621:6710/1 -GTTGGATCTCAAGATTAGATGTATTATTGGAATCAATTTTGTTGCTGCTCTGCAGGAGAGTGTGTTAGATAGATTCCTCTACCTTTG -+ -JIJJJHJJJJJIJHIIIJJIJIIJJIJJ9DFHJJJJJJJFIHIJJJJJJJJJJJJJGHFH@>CEHHFHGHFFFFFFFDEC@CEDDDC -@HISEQ1:121:C0EP5ACXX:8:1204:13269:156814/1 -CACTGAAGTTCTTCAACAGAATAATCACAAGGCTTGAGCAAAGGTAGAGGAATCTATCTAACACACTCTCCTGCAGAGCAGCAACNN -+ -JJJJJJJJHIIJIJJIJJJJIJJJIJGIJJJIJJJJJJJJHIJH?FHIJJGIJIIFEIJIJHHHHHHFFFFDEEDEEBCDDDDCDBB -@HISEQ1:121:C0EP5ACXX:8:2302:20345:190085/1 -ACAAGGAAGGCATGTAATGTTAATAAAATTCAAATTATGTAATTTCAGCTTACAAATCAAAGATCGAAGGAGATGGTAATAAAGTCT -+ -FBGIIEGGFA8CFGGGFFF?B@FGIEEGIIIFIIEDFIEEA@@;DE7?ADDD?B@BCDBDBBBBBB; -@HISEQ1:121:C0EP5ACXX:8:1207:17701:88729/1 -GTAGGAACTCACAATCCTTGGTTTCCTAGTAGGAGAGTGCATTGAATTCCCAAGGCTATTTGCCAAACTTAGAATGGAATGGAGAAC -+ -G*?GHGIGGIJJDHIJJJGHGBFGHIJ;F=F>G@GII=AEHHHGFFFFECACCAABAACCDEDDACCDDCDDDDCCD@@>>@>A>AC -@HISEQ1:121:C0EP5ACXX:8:2104:7678:122935/1 -GCTAGAACCCAAGCAAAAAAAAAAGAAGGAACTCACAATCCTTGGTTTCCTAGTAGGAGAGTGCATTGAATTCCCAAGGCTATTTGC -+ -CGHIEIJIIJDGIGGGGIJJGIJIGGIDCEHHEFEEFDFE@CECC>ABDCCDD5>>@>>??AAC@CDCC:C>ACC>??BBDDDDE>@ -@HISEQ1:121:C0EP5ACXX:8:2205:8175:94899/1 -TTGCTCTTGCTAGAACCCAAGCAAAAAAAAAGAAGGAACTCACAATCCTTGGTTTCCTAGTAGGAGCGTGCATTGAATTCCCAAGGC -+ -:A:ACFHEIDEFHBEHA@D=EEFEEGEEFIIIECE@;=CEEDDD3@A@B:@AA?BAB?B< -@HISEQ1:121:C0EP5ACXX:8:1303:8608:152316/1 -GCCATTGCTTAAGGAGTAAGAGTTGGCTAAATATATGGTAGGGCCTAGCATCCCACACTCTATTAAAATCCACATGGTTTGAGANNN -+ -IJJIJJJJJJJJJJGIGIIJJJHIJJJJIJJJGIHJJJHIJJJIJJJJJJJJJHHHHFFFFFCEEEEEEDDDDDDDDDDDDCDBDDC -@HISEQ1:121:C0EP5ACXX:8:2303:19934:33517/1 -AAGTTTGGCAAAAAGCCTTGGGAACTCAATGCACTCCCCAACAAGGAAGCCAAGGATTGTGAGTTCCTTCTTTTTTTTTTGCTTGGG -+ -GDHFHIJJIIHGEHGJJIJIICFGHIGHIJJJHIJJGJJIIJIGIJGDHJJIJIHCHFGFFED@CEEEECCEDDDDDDDD9@CC@B< -@HISEQ1:121:C0EP5ACXX:8:2206:6805:118993/1 -GGGAAGCTTTCCTTTGCTGATATGGTGATTAATGATGCTACCAAAAATAGTACGACCAACATCAATGATGCTTACCAACAAAACAAG -+ -D?@:FFB@EGHEHAHGGEFHG>FGH*???DDBHBHAHHICFFHGE@F@@CEGHGHE8BCC@CCCCCACCACC@CCCCCBBAB?A?BC -@HISEQ1:121:C0EP5ACXX:8:1302:7919:98849/1 -ACGTCTATTTCCCTGACAAAGAATTATCAAATCCTTGATCTGTCTGAGGCTGTGTCCTGTCTAAAGGGTGTAAGTGTGAATTGCTAT -+ -GHJGEHGHIIJJJJIGGGIGFDGGJGFIGGBBGIFGHGGHIHGHBD=CFHHGHGHGGHIEHEEHHFFFDC9C@C;A>CADDDCCDE> -@HISEQ1:121:C0EP5ACXX:8:2306:12186:45722/1 -ATCACCATATCAGCAAAAGAAAGCTTCCCCTTCCCCTTATCCATAGCAACCCTCTCTTCAGTAAATGCACACACCCACTCACTGTAT -+ -JJJJJJIJIJJJJIJJJJIIIIJIJJJJJJJJJJJJJJJJHIIJJJIIJJJJIIJJHHHHFHFFFFFFFEEEDDDBDDDDDDDDAD@ diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/son_2.fastq --- a/demo_files/son_2.fastq Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,392 +0,0 @@ -@HISEQ1:121:C0EP5ACXX:8:1204:18279:146920/2 -ACGGGGCGAATCCCCACAATTTGCAAGGGCAAATTATGTGTTCCACCACAAAATGAAACAAGAAAGGAAAGAAAACAAGCACAGAGN -+ -IJJJIJIJIJJJJIJIIJJIIGIJJHHHHFFFFEEEDEEEDDDDDDDDDDBDDDDDDDDDDDDDDDDDDCDDBCDDDDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2304:5972:188977/2 -GCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTC -+ -JJIIIJIJJFGIJIJJIJJJIJJJJJJJJJJJJJJJJJJJJJJJJJJJJJJDIJJJJJJHGFFHHFFFFDEDCACBDDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2304:17680:15723/2 -AAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAAGGGCAAATTGTGTTCCACCACAAAATGAAACAAGAAAGGAAAN -+ -3CI,CJ;3-=?B@8?CCDCD?CDDEDDDDBBDDCDDCDDDDDCDDCBD?C? -@HISEQ1:121:C0EP5ACXX:8:1306:15258:144587/2 -TCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCTTTCCTTTCTTGTTTCATT -+ -JJJJGFHIIBHJIJIJJJJJIIGICHIJJGHCHGJJGIIIJJJJJIIJJJJIHDHIGHEHHGHEFFFEEEDEEEEDDDDDCCDDDDC -@HISEQ1:121:C0EP5ACXX:8:2201:13125:125595/2 -TATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCCTGGCCCCGTCTACAGTTTCCTCTCTCT -+ -)1CFCDGG?>EA:BD3@C>A(,;'8(5,55@;>;A@C>C>>A -@HISEQ1:121:C0EP5ACXX:8:1106:16812:199346/2 -CGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAA -+ -BHJJHGCF;EGGE?D?CFIAFF@DGFFEBDH?DGGHG=8BBBFDGCFEHEC7@;EHBD,;;;>@;>>?9ACCCA> -@HISEQ1:121:C0EP5ACXX:8:2207:14699:5997/2 -CGAAAGAGAGGCAATAATTGCAAAGGAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAA -+ ->2+A+BCHH@)111*?1C?:**0*0)0996D(..8BFF=C;=C;)B.==?>?EEEFFF=CEEDEDDDDDDDBDDDDC>B?@CDDDEA -@HISEQ1:121:C0EP5ACXX:8:1308:15728:74115/2 -CAGTTTCCTCTCTCTTCTTCTCTGTGCTTGATCGAATCTCTTCCAAGCCTAGGACGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTT -+ -GGB?CBFJCEC;3CAECADE>GBCC*:41:)1:B?D?DGGEHIGAFHI6=CC6ACCCBB??ACCCCDDDDC99 -@HISEQ1:121:C0EP5ACXX:8:2104:4107:189035/2 -CCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAGGGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAAT -+ -JIJJJJHIFGIJIJJJJIJJJIIGIHIHIJIJJIJHHEGIGIIJIHAHFEFCEDEDCEEED;@CCDCCDDDDB5:ADDBDDDDBDDD -@HISEQ1:121:C0EP5ACXX:8:1303:8466:21687/2 -AAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGC -+ -JJIJGJJIJIIJJJJJJJJJJGJJJGHIGHIJJJJIHIJJIJJJJIHGIJJJJJJIGIJHHHHHHD>CDFCECEEDDDBDDDDDDCC -@HISEQ1:121:C0EP5ACXX:8:1301:5823:42774/2 -AACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTNNNN -+ -JJJIJJJJJJJJJJIJJJIJJHIFHIIJJJJJJJIJJJJIJJJIJJIGJJJJGGEHIJJHHHAE>DFFFE@CEEEDB>ACBDDACCC -@HISEQ1:121:C0EP5ACXX:8:1205:8107:84323/2 -ACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGT -+ -IJJJIJIJJJJJJJJJJJJJJJJJJJJJJJJJIIHIHIJJJJJJJJJJJJIIGHJJJJHGHHHFFFFCEEDEEEDDDBBBBDDDDBD -@HISEQ1:121:C0EP5ACXX:8:2106:8569:128338/2 -CAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCAAANNNNN -+ -JJJJJJJJJIJJJJJJJJGGHJIJIJIJJIJJJIJJIEHHIIJIJCEEF>CCCEBDDDDDDDDDDDDCCCCDCD@BADDDDDCDDDB -@HISEQ1:121:C0EP5ACXX:8:1108:20926:160732/2 -CTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCAAGCACCGATCTGAGAACCTGGGAGCA -+ -HE>BA4AEHIJICGIGCFGGGEIGII9@?CCACD>A(2EHIGAHIIGECACCHFDDFDDADDDBBBBBDB??C89>BDDCDDCD@BCDAB -@HISEQ1:121:C0EP5ACXX:8:1306:11626:15200/2 -GCCCTTGCAAATTGTGGGGATTCGCCCCGTATACCCAAAACTTTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCT -+ -GGFFHGBFGHEHI@FHGEGGGG@FFGHHIAG@HGAF@CHIHHHHFFF?CDFDDCEDC@>A>AABDDDDDE:>C@:ACDDDCDDCDDD -@HISEQ1:121:C0EP5ACXX:8:2101:6432:199800/2 -TCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGN -+ -E?DGGEHG@GCAHGF>FFHHGCHD?FFGC@D)7=CCCHHFFDFAAAACCBCBCA@CDDFGEGDHHD@GII9FGHGIJJ>AFHI@DGGIH@ACCECE@CDDDDDC@CDBD -@HISEQ1:121:C0EP5ACXX:8:1307:2138:123308/2 -CAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACC -+ -GGGB4FFI38E>>>AC? -@HISEQ1:121:C0EP5ACXX:8:2202:11183:23671/2 -TCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGCAGCCTTCAATCAATCTCCAATCACC -+ -JJJIIJJIJJJJJIEHIEGHIIIJJIIGIJIJJJJIHIJFICGIIGGJIJEHIJJ:EHFFFFFEBCEEDDDDDDDDDDDCCDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2203:12602:37061/2 -TTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGN -+ -JJJJJIJJJJIIJHIJJJJJHJIJJDHIJJJJHGIJHIIJJJJIJJJJJHHHHHHFFFFDD<;BDD>C@CEDDCDCCCDDEDDCDDC -@HISEQ1:121:C0EP5ACXX:8:1101:16157:96178/2 -CTGAGATAGGGGGTTGAGTTAGGGCTTCAATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAN -+ -IJJIJIEEHJIJJAGGGHFHIJIIEGGIIJJJHHHHFFFFFDEEECEDDDDDDDCDDDDDDCDDDDD@CDECDBC:ACCCD59BDCC -@HISEQ1:121:C0EP5ACXX:8:1304:1821:110599/2 -GTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCAAGCCTAGGATGGAGCTTTGCTCCTCCCCTCTGTGCTTGTTTTCT -+ -HAC??:4CF>CCDHGGG@HBDHJJDEAGCFBD)?DB0??F*0BFD?BBBHGHCHC7@9(@)))7?37;BDF;9CA3;;A>@AACC:> -@HISEQ1:121:C0EP5ACXX:8:1202:6596:74809/2 -GTCAATGGTCTCTCTCCTCTAAAACGCTCTCTCCTCTCTCTACAGTTTCCTCTCTCTTCTTCTCTGTTCTTGTTCGAATCTCTTCCA -+ -IGAGGHIICHHIIIJIIGDCHIGIGIIGIEHGIIIJJIGGHGGAF7=;@EGIHGGHFF3?B;BDECCCACECCCC;5?CD>@CCDDDDC4@>@C@C -@HISEQ1:121:C0EP5ACXX:8:1205:2077:37536/2 -TCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAA -+ -IIIJIJII>AHIH9C;);(6>AC??8,)534>:>ACBC?< -@HISEQ1:121:C0EP5ACXX:8:1103:4347:43083/2 -GGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTCAATTC -+ -JJJJJJJJJIJJJIJJJJJJJJJIIJJIIJJJJJJJIIGHIJJJIBHHHFFFCCCEDCDCDDDDDDD59BADCDDCCBCABCDCDED -@HISEQ1:121:C0EP5ACXX:8:2107:17275:98920/2 -ATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGN -+ -F?BGBH@HHC@FHHIGIGEFHGGIIDDHGH?DDEDCFIHJIIJIHGGFGBHGIHFFDEEBDDBBDDCC>ACCDDDD<@<>@@CCDC= -@HISEQ1:121:C0EP5ACXX:8:2304:10198:198268/2 -ATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGN -+ -EE?EH@FFHGGBEAF?C?GEBCFHDFHEGEIGGFGGGIHGGHHIJGICFHGIJHFFDEEDDBDDDDCDDDDDDDDD5FHFEGIEHGGEGEHIGGHHHGIDDGHIDFBDDHIGCDD=CGFC@DEE;AEHFCDFFF?AACCCACCDCCDDDA -@HISEQ1:121:C0EP5ACXX:8:1307:5273:167214/2 -GAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGANN -+ -EEHIJJJJJJJJJGIJIJJJJJJJJEHGCFGIDHGGHGHFHEDDEDCEED>>;ACBDDD;1:>:@CACA? -@HISEQ1:121:C0EP5ACXX:8:1203:11801:61902/2 -TCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCAGATTGATTTGCTCT -+ -<@ACADDEDEECDDDDDD@DDDCDCDDDDD?@BCCCCDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1108:8809:81311/2 -CCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTAGGTCGCCGAGNNNNNNN -+ -EBF>F?FHIC9CGBHHDDFCBDD?F=FC8B@@=F>FE@BA?>=?@D@DD@CEEACEDDDDDDDDDCDDCCAC>CBDDDBBBDDCDD? -@HISEQ1:121:C0EP5ACXX:8:2204:18606:175884/2 -AGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATACAGTCTCTTTANNNNN -+ -CGG8CDHDHGGHBAG>DBH)==CAAB4ADCFFFCEA@@A@CCCC>CDCBBB@>C@AAC@A<@::::@:A>CCCCCDC>ACDAC@AA5 -@HISEQ1:121:C0EP5ACXX:8:1108:16310:19003/2 -GCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATAC -+ -IIHIJIJJIIGJIGJJIIIJJJJJJJJJJHHHGHHFFEDDDBDDDDDDDDDCDDDDDDDDEDDDBDBDDCECCCCDDCDDCDDDCCC -@HISEQ1:121:C0EP5ACXX:8:2203:6354:184308/2 -GCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATAC -+ -GIIJGIIJJDEEGEH@DEACHH;;?>BCBDDDDCC:A?C9>::C>C@C>:?5?@DDD>>CC3>AACC@CC@CCDC -@HISEQ1:121:C0EP5ACXX:8:1105:17367:119872/2 -TGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGAATA -+ -JJJJJJJIJJJJJIIJJJJJJJJJJJJJJHHHHHHFFFFDDDDDDDDDDDDDDDDDDDDDDEDDDBDDDDDEDDDDDDDDDDDDDD@ -@HISEQ1:121:C0EP5ACXX:8:2202:9681:198266/2 -GCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAGCAACA -+ -EDGEGFGDGCGDDHIGEGIHIIIGJBHGEHGIJJJIIIIJIIJHJIJIHHGGHDEF=;8??BCACCCDDCDDCDEEEDE4>CCD9<8 -@HISEQ1:121:C0EP5ACXX:8:1102:2897:190263/2 -TAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCT -+ -@>A38>@>C88&(>@@3@>>3>@@C(4@C>:CCDCCCDDC -@HISEQ1:121:C0EP5ACXX:8:1205:11903:194100/2 -CTAACTCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCAGATTGATTT -+ -IIJFJJJIJIIJJIGIIJJGII@GGIJFHIJEHIGIA6ADFCEAEEC?CCAADDFFEEDC@A>CB?DACCA@CDDDD -@HISEQ1:121:C0EP5ACXX:8:1202:13626:25638/2 -GTTTCATTTTGTGGTGGAACACATAAT -+ -+C+A,3IFC,,33:CCDDDDDC::>A@ACDDCCCCCC -@HISEQ1:121:C0EP5ACXX:8:1306:20726:15789/2 -GAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAATCA -+ -BHDE6BG>)?A?BDF4FHBF/8@@@6E:9.7.6>@@>;;-5A -@HISEQ1:121:C0EP5ACXX:8:2107:15019:37435/2 -GAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAGAAGCTCGAATTGAAGCCCTAACTCAACCCCC -+ -JJJJIEIIIIGEHDHIIIIJJIJIHIIIJJJJJIJJHIHIJJJIGIFFCHIJIIJIHFAHHFFEEEDC@CDCDDDCDBCCDDDBBB@ -@HISEQ1:121:C0EP5ACXX:8:2208:13905:97948/2 -CCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCCATCAGAGCAAAT -+ -GH>EGEHGJJIGIJIGD-:BB@CDEDDD@CCDDCCDBDDDABCDCDBD@@B@BBDDDB>CCCCDDDDDDBCD>5@DDDC<@39>CAC -@HISEQ1:121:C0EP5ACXX:8:1301:2094:147266/2 -TGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCC -+ -FJIIJIJIIIIGIJJJIJIHJIIJIJJHBFHGGJGGF=CGIIGGIHHFGHFFFEFFFEDEEDCDCDCCBBBBD7ACDDDDAC@C>C? -@HISEQ1:121:C0EP5ACXX:8:1306:10553:20592/2 -CATACGGGATTCTTCAGCAACAATCAGATCCCCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGTTTCGTTCCTCGCCTCTGT -+ -+<+AF++)CDDBDDDDDBDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1203:5698:36196/2 -GGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGCC -+ -G1@93&0)(<38388CC?A<7CCC>>:A@05@0(8<>>B?095<918))+05(+(>:A>C4>(39<@D -@HISEQ1:121:C0EP5ACXX:8:1107:20608:196329/2 -TGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGAAACTCCTTCAAGAGCGGC -+ -FHHI::ECGGDFEHGIIJBHGFGHGIJFB7@DBCCCCDCCDDDDDCDB9> -@HISEQ1:121:C0EP5ACXX:8:1307:1725:60131/2 -TTACCCATCAACACTTAACCCTTACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCC -+ -IJJJJEFHIJJJIJIJJGJIIJJIJJJJIIJHJJIJIJIJJIJJJIJJJGIJJJJJGHIHGHHFDEFFFDECCCDDBBDDDCDDBDC -@HISEQ1:121:C0EP5ACXX:8:2201:17989:121640/2 -GGACCACTTTGACTGTGTAAGCAAAAGAGCATACAAACCTTGGGTTGTGGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGC -+ -AAACG=EEGH@AEHBCGHGIIIHGHGHGGGGIJJJJGIIJJGCCFGHIJIHIEFHHHFFFFDCDDDDDD5>BDDDCDDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2103:17026:82629/2 -ATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGTGGTTCCAGCAACGAAGGN -+ -GIIGIIJEHJGIGIJIJIIIIJIEHIEG@B@FGGGIDHGIGJGEDEHI;8BHHAB???@ACEC?B1;=B@8<<@A@CDCCADDD?>5 -@HISEQ1:121:C0EP5ACXX:8:1104:7384:82234/2 -TCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCAGATTGATTTGCTCTGATGGCCGCTCTTGAAGGAGTTTCGT -+ -JIJIIIJJIJJJJIIIIIIJHIIJJJJJJIIIIIIJJHHHHHEHFFFDDCEEEEDCDCDDDDDCCDDDDDDDBCCCCDDEDAGHH?EEFDDEBAEDDCDD@CD@:>;AC>> -@HISEQ1:121:C0EP5ACXX:8:1203:15133:98209/2 -GGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACAAGAGCCACACCAGGAAAGAGCCTTGATCAAATAAAT -+ -A<)AG3CH3+<1C@4:?D??@DCDGF>GBFFBD@FIGDHHJGJJIGHGIJEDEHIHHHFFDBEEEDABDDDACCECCCCCDD -@HISEQ1:121:C0EP5ACXX:8:2201:15934:79822/2 -TTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGN -+ -IJJJGHIIIIJJJHHIJJJJIJJJJEIJJJIJIJHGFFHJJGFJJJJJJHHHHHHFFFFDDCBBDC@C>ACCB@A:?CCCDDDCCDC -@HISEQ1:121:C0EP5ACXX:8:2103:11160:152496/2 -GTTTCGTTCCTCGCCTCTGTTTTCGCAAGGAGTTATGGACAACCCCCCTTCGTTGCTGGAACCACAACCCAAGGTTAGATCGGTTTN -+ -GGGHGIGIGHGIBFHHIIIGEHJJIJII8HGB@FHHFHIIJIIGGHFDBBDDCDDDCCCBCCBDBDDBBDBDCCDD8>@B -@HISEQ1:121:C0EP5ACXX:8:2205:18696:101935/2 -GACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACAANN -+ -GGIEGHIHJ4??EGEHHCFFHGGG>G3?FGHIGIECDFGHIJJIECH)6@?EEEEHC7;;?>BCEDAEBCDDADDCDA:@@5:?BCC -@HISEQ1:121:C0EP5ACXX:8:1205:12485:13377/2 -ATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACAAN -+ -12+1*@E:C*CF<100??9:*B?FHCDE@D?C>@CCAC:;A=@C>(;@>@C>CDD> -@HISEQ1:121:C0EP5ACXX:8:2105:10921:73090/2 -GAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAAC -+ -DHEGBCFDHH@GIED?CDDFGHGBGGIIFHGIGGIHHIIJIIGGHFHGIIG@CEHHHFFFFFFECDEEEEDDDDDDDECDDDDDDD@ -@HISEQ1:121:C0EP5ACXX:8:1301:9478:45031/2 -GCTCCCTGCGAATGGTGATTGGAGATTGATTGAAGGCTGCTCTCACCGGAATCTCTTCACTTGCCTCTTATTTGGAGTCTACTGCAN -+ -H@EBHEHEAGIEAD9?HBD4?BBF;?BGGFG>D>BB=C@AHGGF:CH@<48(?@?C@>3@CC@>>;>;>3@(;;>><:((::AC@:9 -@HISEQ1:121:C0EP5ACXX:8:2104:6749:159109/2 -AAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAA -+ -HGEG@FFH>BA@@?@FHGGG*B?BGGHIBBDHGIIBFHHACHECGHEHGGGBEHEEA@CDBEDCEDDE@CA5>C>C@AABDDCDDD@ -@HISEQ1:121:C0EP5ACXX:8:2202:21245:113808/2 -NACTTTACAATTATTGCCTCTCTTTCGATTTTTGCTCCCAGGTTCTCAGATCGGTGCTTGGTTCCCTCCTGGGCTCCTCTGCTCCCT -+ -#2>CGIGJIIEIGJJJGIJJJIJJIGEGGIJJJIGIGHGIIJJGI@=CEGIJBGEHHFFFD3=CECC@?=3;=BC -@HISEQ1:121:C0EP5ACXX:8:2302:1358:92768/2 -ACGCAACACCATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAGATCCAATTGATGCAGGCA -+ -EEHDHGIGIJIJJEGIIGEGEDGHGGGCHHI@GIJIGDGE>EEHIFHDB>CEE>5>CDDECD:>CCCDECDACCCCCACDDDCCBDB -@HISEQ1:121:C0EP5ACXX:8:2302:13383:122517/2 -TCAACCCCCTATCTCAGATCCGATGCTCGGCGACCTAAAGAGACTGTATTCTTCAGCAACAATCAGATCCCCAGATTGATTTGCTCT -+ -CAEGIEEFFHBFGHIJJGGIIFDBHEGHCFGIGHGHFFFFFE@ACE@CCDDEECDCDDDDDDDDDDDDDDDDDDDCDCDEDECDDDC -@HISEQ1:121:C0EP5ACXX:8:1305:19207:34291/2 -AAAGATCGAAGGAGATGGTAATAAAGTCTAGAAATGAAATACTCATAACCTAAGGAAAATACTTTATCAAAGTCATAATTAAGACTA -+ -GIGECB?ED>F>GD??FG::CC>GGGIHGGHGEHGCFGEFGHGIEICCHHEHIGJIGJGDEH;=7?>CDECB;@>DDCEEEEDC;@@ -@HISEQ1:121:C0EP5ACXX:8:2102:10551:119670/2 -TAGATCGGTTTGATTTATTTGATCAAGGCTCTTTCCTGGTGTGGCTCTTGTTTCAATTCTATAGTTTGTTTACTATTTTCTATAACC -+ -IJJIJIJJIJJIIJJJJJJJIIIIJJJJJJJJJJJJHIJFHHIJJJJIJIHHHGEHHHFFDFDFEFEDEEECDDEFEEEDDDECCA@ -@HISEQ1:121:C0EP5ACXX:8:1208:7778:129322/2 -TACAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAAAGCAACACCTTATTTCCGGATCCAATCAATCTCAA -+ -FHAIHHIHHCCHCGGIJIIGH)7@EHHCD?);BC>CEDDDDDDDD:>CCCA>CCCD -@HISEQ1:121:C0EP5ACXX:8:2304:6605:62458/2 -CTAAGAATTTATTAATATTGCACCCAGGCATTGCATTTCTCTTGGGGAGGAAGATAATATAGCACAATCATATTGTTGACACCTTNN -+ -HGBBEGEHGGFJGEIJIJAHC@DBEHIGDHDGI4BA??GICCD:=@>>A?AC>: -@HISEQ1:121:C0EP5ACXX:8:2106:13776:157073/2 -ACCTATTGTCGCTCATGGTTTGAGATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTATAAGTAATCTC -+ -JJJJJJJJHIJJJJJJJJCGHIFHGIIIIIJJJIJIGIJHIJJIHJJ@EGGHHHFFFEEEEEEEDDDDD?DB<*?DFEDGGIFG@AEHIHFEEHFFFEBECEEDCCECDCDD@C@@<9@CCC -@HISEQ1:121:C0EP5ACXX:8:1207:17351:77865/2 -TGCACAGTCTCAACTGGAAAGGATCAATTCTAACTAGATTAGAATAAGCCAGGGAAACATAACTAATCTTACAACGAAAACAAGGAA -+ -IJJJJJIJHIIJJJFIJGJJJIJIJJJIIGIJJJJJHIJJJJJJJJJIJJJJJJJJJIHHHHHHFFFFFFEEEEEDBDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:1204:17042:185305/2 -TAACACCTATTGTCGCTCATGGTTTGAGATTGATTGGATCCGGAAATATGGTGTTGCGTTCAGTCTTACCGAGTATATTATAAGTAA -+ -I<+AB@C -@HISEQ1:121:C0EP5ACXX:8:2103:20915:142998/2 -GATCCTTTCCAGTTGAGACTGTGCATGTTGGATCTCAAGATTAGATGTATTATTGGAATCAATTTTGTTGCTGCTCTGCAG -+ -GDIGIGEGGJGEJEGIICFCHCFHIEEGEC?CHCDDECCCAC -@HISEQ1:121:C0EP5ACXX:8:2108:15621:6710/2 -AGTCTAGAAATGAAATACTCATAACCTAAGGAAAATACTTTATCAAAGTCATAATTAAGACTATGCACTCTATGAATATCACTGAAN -+ -GJ4CIH<4FGFIHGGHICGHIIIEGGGIIGEHHIIEIGE@?CCHDHBCCCCDCCCCCCD;5;> -@HISEQ1:121:C0EP5ACXX:8:1207:17701:88729/2 -ATTCCTCTGGGAGAAAATGAAATCTCACCCAAAGATCAAGTTGGGAAATAGACTCATGGCTAGGATCGAAACCCGAGTGCCATTGCT -+ -AFBHGIHCGEIGFHJ?EGGHHGGIJIHIIIJIIJJIHHGGIGHIII>@GEHIIGIEEEFCHHDDEDD65>?8,5;?88C>:> -@HISEQ1:121:C0EP5ACXX:8:2104:7678:122935/2 -CCATTTTGAGAAATGTTCCCACAGAATTTTCCTCTATGATAGCGGTTAAAGCCTCAGCATTAGCAAATTCCTCTGGGAGAAAATGAA -+ -FHAAFCG:C@=7=C>AHC>.7?7;;@C@6>;3@?BBBB>9C(:A -@HISEQ1:121:C0EP5ACXX:8:2205:8175:94899/2 -ACAACTTTTTTGCCAACATTACAAGACACATCAGTGTTAATACAGAATCTTGTAAACATGTTCATCCTATTTTTATTGTGAGTT -+ -B>??;?BG<4B@B;DGDHIGIIGGB@BFGBFG>FHGGDGGDC@;?>AEHDFB)7@@@C>@CC;C;CCACD -@HISEQ1:121:C0EP5ACXX:8:1303:8608:152316/2 -CCAAAAGTGACCAAATCAGGTAACAAAACCTTTGATCCCAAAGCTCTCTTTAATAAACTTGCTCTTGCTAGAACCCAAGCAAAAAAA -+ -JJJJJJJHHHIJGIJJJJJJHIIJJJIJHJJJJJJJIJIJJJJJJIIJIJJJJJJGIJHHHHHHFFFFFFDEEEDDDDDDDDDDDDD -@HISEQ1:121:C0EP5ACXX:8:2303:19934:33517/2 -ATCTCACACCACCTTGTGGTAGCACAAAAAGTTCCAAACCAAAAGTGACCAAATCAGGTACCAAAACTTTTGATCCCAAAGCTCTCT -+ -IJIJJJJJJIIIIJJJHEG;FDGHJFIJJJD?CBCCEDECCDCC;(;A?CCAB@?@BDB?? -@HISEQ1:121:C0EP5ACXX:8:2306:12186:45722/2 -TTGATCTGTCTGAGGCTGTGTCCTGTCTAAAGGGTGTAAGTGTGAATTGCTATACTAAGTTGCTGAATTATCAACTAGGTGGTTTT -+ -JJJIJJJJHIIIGIJJJJHIGJJJJIJJJGIJJJBFHHIJIHHIJJJJIJJJJJJJIIJIGIJIIHHHHHHHFFFFFFE@CD?@@B diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/son_male.bam Binary file demo_files/son_male.bam has changed diff -r ea52ef8d7f3a -r 55a373f7e669 demo_files/son_male.bam.bai Binary file demo_files/son_male.bam.bai has changed diff -r ea52ef8d7f3a -r 55a373f7e669 references/.gitignore diff -r ea52ef8d7f3a -r 55a373f7e669 references/reference.fasta --- a/references/reference.fasta Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,19 +0,0 @@ ->comp0_c0_seq1 -ACAGAATAATCACAAGGCTTGAGCAAAGGTAGAGGAATCTATCTAACACACTCTCCTGCA -GAGCAGCAACAAAATTGATTCCAATAATACATCTAATCTTGAGATCCAACATGCACAGTC -TCAACTGGAAAGGATCAATTCTAACTAGATTAGAATAAGCCAGGGAAACATAACTAATCT -TACAACGAAAACAAGGAATGAGATTACTTATAATATACTCGGTAAGACTGAACGCAACAC -CATATTTCCGGATCCAATCAATCTCAAACCATGAGCGACAATAGGTGTTAAGGTTATCAG -ATCCAATTGATGCAGGCATAGGGTTATAGAAAATAGTAAACAAACTATAGAATTGAAACA -AGAGCCACACCAGGAAAGAGCCTTGATCAAATAAATCAAACCGATCTAACCTTGGGTTGT -GGTTCCAGCAACGAAGGGGGGTTGTCCATAACTCCTTGCGAAAACAGAGGCGAGGAACGA -AACTCCTTCAAGAGCGGCCATCAGAGCAAATCAATCTGGGGATCTGATTGTTGCTGAAGA -ATACAGTCTCTTTAGGTCGCCGAGCATCGGATCTGAGATAGGGGGTTGAGTTAGGGCTTC -AATTCGAGCTTCTGCAGTAGACTCCAAATAAGAGGCAAGTGAAGAGATTCCGGTGAGAGC -AGCCTTCAATCAATCTCCAATCACCATTCGCAGGGAGCAGAGGAGCCCAGGAGGGAACCA -AGCACCGATCTGAGAACCTGGGAGCAAAAATCGAAAGAGAGGCAATAATTGTAAAGTAAG -GGTTAAGTGTTGATGGGTAAAGTTTTGGGTATACGGGGCGAATCCCCACAATTTGCAAGG -GCAAATTATGTGTTCCACCACAAAATGAAACAAGAAAGGAAAGAAAACAAGCACAGAGGG -GAGGAGCAAAGCTCCATCCTAGGCTTGGAAGAGATTCGAACAAGAACAGAGAAGAAGAGA -GAGGAAACTGTAGAGAGAGGAGAGAGCGTTTTAGAGGAGAGAGGGAAACAGCCCGGATCA -CCAGCTAAGGCCCCT diff -r ea52ef8d7f3a -r 55a373f7e669 references/reference_contig_names --- a/references/reference_contig_names Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,1 +0,0 @@ -comp0_c0_seq1 diff -r ea52ef8d7f3a -r 55a373f7e669 runLinkYX.sh --- a/runLinkYX.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,205 +0,0 @@ -#!/bin/bash -set -e; mkdir -p vcf; mkdir -p bam; mkdir -p references; mkdir -p scripts; - -email_address_of_user=$1; -name_of_user_computer=$2; - -#read config variables -echo "Reading config...." >&2 -#echo `ls -l` -computer_name=`hostname`; -if [ $computer_name == $name_of_user_computer ]; then - #local_computer - source config_devel; -else - #metacentrum machine - source config_meta; -fi - -#initally we believe that all files are present -ok=true; - -#we get to know if files are provided and if they are in .fasta or .fastq format -#first, rename files to shorter versions (fastq->fq, fasta->fa) -rename 's/fasta$/fa/' input/*.fasta 2>/dev/null -rename 's/fastq$/fq/' input/*.fastq 2>/dev/null - -check_if_exists () -{ -for ARG in "$@"; - do - if [[ -e "input/${ARG}_1.fq" ]]; then - eval ${ARG}_ext=fq - elif [[ -e "input/${ARG}_1.fa" ]]; then - eval ${ARG}_ext=fa - else - ok=false; - fi - done; -} - -check_if_paired_end () -{ -for ARG in "$@"; - do - extension=$(eval "echo \$${ARG}_ext"); #echo $extension; - - if [[ (-e "input/${ARG}_1.${extension}") && (-e "input/${ARG}_2.${extension}") ]]; then - eval ${ARG}_paired=paired; - else - eval ${ARG}_paired=single; - fi - done; -} - -#check if file with reads exist -check_if_exists mother father daughter son; -#and determine whether they are single or paired-end reads -check_if_paired_end mother father daughter son; - -if [ $ok == true ]; then - echo "mother reads names:" $mother_ext $mother_paired; - echo "father reads names:" $father_ext $father_paired; - echo "daughter reads names:" $daughter_ext $daughter_paired; - echo "son reads names:" $son_ext $son_paired; - -if [[ $father_ext =~ (fq) ]] && [[ $son_ext =~ (fq) ]]; then - #no conversion needed, both fastq files - male_ext=fq; -else - #convert to fasta (we need to merge father and son reads in order to build male reference contigs) - #father OR son is fasta - echo "converting.."; - male_ext=fa; - - if [[ father_1.$father_ext =~ (fq) ]]; then - #father is fastq and must be converted to fasta - fastq_to_fasta -n -Q33 -i input/father_1.$father_ext -o input/father_1.$male_ext; - fastq_to_fasta -n -Q33 -i input/father_2.$father_ext -o input/father_2.$male_ext; - father_ext=fa; - - else - #son is fastq and must be converted to fasta - fastq_to_fasta -n -Q33 -i input/son_1.$father_ext -o input/son_1.$male_ext; - fastq_to_fasta -n -Q33 -i input/son_2.$father_ext -o input/son_2.$male_ext; - son_ext=fa; - fi -fi - #merging of father and son files - echo "concatenating.."; - cat input/father_1.$father_ext input/son_1.$son_ext >input/father_and_sons_1.$male_ext; - - if [[ $father_paired =~ (paired) ]] && [[ $son_paired =~ (paired) ]]; then - cat input/father_2.$father_ext input/son_2.$son_ext >input/father_and_sons_2.$male_ext; - fi - - - #NOW run Trinity to assemble mother contigs - #in: mother reads out: reference.fasta - PBS_NUM_PPN_used=$(($PBS_NUM_PPN_used - 2)); - echo "processors used:" $PBS_NUM_PPN_used; - -#<$trinity_stdout 2>&1 - echo "$trinity --CPU $PBS_NUM_PPN_used --seqType $mother_ext --JM 20G --left input/mother_1.$mother_ext --right input/mother_2.$mother_ext --output trinity_out_dir_mother 1>$trinity_stdout 2>&1"; - else - $trinity --CPU $PBS_NUM_PPN_used --seqType $mother_ext --JM 20G --single input/mother_1.$mother_ext --output trinity_out_dir_mother 1>$trinity_stdout 2>&1 - echo "$trinity --CPU $PBS_NUM_PPN_used --seqType $mother_ext --JM 20G --single input/mother_1.$mother_ext --output trinity_out_dir_mother 1>$trinity_stdout 2>&1"; - fi - - #retrieve assembled contigs and name them as reference.fasta - mv trinity_out_dir_mother/Trinity.fasta reference_pro.fasta - perl -pe 's/(>[\S]+).+/$1/' reference_pro.fasta >references/reference.fasta; rm reference_pro.fasta; -#PREVENT_TRINITY_MOTHER - - grep ">" references/reference.fasta | sed 's/>//g' >references/reference_contig_names - - #now call to_get_vcf_files.sh to map reads to reference contigs - ./scripts/to_get_vcf_files.sh references/reference.fasta mother_1.$mother_ext mother_2.$mother_ext mother $mother_paired - echo "Mother mapping successful."; - ./scripts/to_get_vcf_files.sh references/reference.fasta father_1.$mother_ext father_2.$mother_ext father $father_paired - echo "Father mapping successful."; - ./scripts/to_get_vcf_files.sh references/reference.fasta daughter_1.$mother_ext daughter_2.$mother_ext daughter $daughter_paired - echo "Daughter mapping successful."; - ./scripts/to_get_vcf_files.sh references/reference.fasta son_1.$mother_ext son_2.$mother_ext son $son_paired - echo "Son mapping successful."; - - wait; - - #NOW run Trinity to assemble male contigs - #in: male reads out: reference_male.fasta -#<$trinity_stdout 2>&1 - echo "$trinity --CPU $PBS_NUM_PPN_used --seqType $male_ext --JM 20G --left input/father_and_sons_1.$male_ext --right input/father_and_sons_2.$male_ext --output trinity_out_dir_male 1>$trinity_stdout 2>&1"; - else - $trinity --CPU $PBS_NUM_PPN_used --seqType $male_ext --JM 20G --single input/father_and_sons_1.$male_ext --output trinity_out_dir_male 1>$trinity_stdout 2>&1 - echo "$trinity --CPU $PBS_NUM_PPN_used --seqType $male_ext --JM 20G --single input/father_and_sons_1.$male_ext --output trinity_out_dir_male 1>$trinity_stdout 2>&1"; - fi - - #retrieve assembled contigs and name them as reference_male.fasta - mv trinity_out_dir_male/Trinity.fasta reference_male_pro.fasta - perl -pe 's/(>[\S]+).+/$1/' reference_male_pro.fasta >references/reference_male.fasta; rm reference_male_pro.fasta; -#PREVENT_TRINITY_MALES - - grep ">" references/reference_male.fasta | sed 's/>//g' >references/male_contig_names - - #now call to_get_vcf_files.sh to map reads to reference contigs - ./scripts/to_get_Y_variants.sh references/reference_male.fasta mother_1.$mother_ext mother_2.$mother_ext mother $mother_paired - echo "Mother mapping to males successful."; - ./scripts/to_get_Y_variants.sh references/reference_male.fasta father_1.$mother_ext father_2.$mother_ext father $father_paired - echo "Father mapping to males successful."; - ./scripts/to_get_Y_variants.sh references/reference_male.fasta daughter_1.$mother_ext daughter_2.$mother_ext daughter $daughter_paired - echo "Daughter mapping to males successful."; - ./scripts/to_get_Y_variants.sh references/reference_male.fasta son_1.$mother_ext son_2.$mother_ext son $son_paired - echo "Son mapping to males successful."; - - #index bam files - - index_bam_file () - { - for ARG in "$@"; - do - if [ -e "bam/aln_cleaned_sorted_deduplicated_${ARG}.bam.bai" ]; - then - echo "Index already exists. Not being created again."; - else - samtools index bam/aln_cleaned_sorted_deduplicated_${ARG}.bam & - fi - done; - } - - #index bam files - index_bam_file mother father daughter son mother_male father_male daughter_male son_male; - wait; - echo "Indexes successfully created." - - echo -e "Starting analysis"; - - #A variant X1X1 X2Y - dir="A/"; - bash -x ./A.sh $email_address_of_user; - perl scripts/sorting.pl A/; - - #Y variant - dir="Y/"; - bash -x ./Y.sh $email_address_of_user; - - wait; - - #sending results (not BAM files) - mutt -s "LINKYX: Results of computation for Y-linked genes" $email_address_of_user -a Y_results_sequences.txt < messages_to_user/message_results_sentY; - mutt -s "LINKYX: Results of computation for X-linked genes" $email_address_of_user -a X_results_sequences.txt < messages_to_user/message_results_sentX; - - -echo -e "Done." -else - echo "not all input files are present in proper form"; - mutt -s "LINKYX: Not all input files are present in proper form." $email_address_of_user < messages_to_user/message_input_files_error -fi - - - - diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/bam_analysis.pl --- a/scripts/bam_analysis.pl Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,116 +0,0 @@ -#!/usr/bin/perl -#NOTE: The following code is adapted from the post http://www.biostars.org/p/44867/#44906 - -use strict; -use warnings; - -use Bio::DB::Sam; -open (MP, '>mpileup'); - -# all necessary inputs (I use Getopt::Long to obtain input parameters) -my $opt_i = $ARGV[0]; #"mother.bam"; # should have an index file named input.bam.bai -my $opt_f = $ARGV[1]; #"reference.fasta"; -my $chr_id = $ARGV[2]; #'comp1_c0_seq1'; # your chromosome-id -my $snp_pos = $ARGV[3]; # position you want to call all variants in this position -# create the object -my $sam = Bio::DB::Sam->new( -fasta => $opt_f, -bam => $opt_i ); - -# get all reads that cover this SNP -- therefore, start and end set to $snp_pos -my @alignments = $sam->get_features_by_location(-seq_id => $chr_id, -start => $snp_pos, -end => $snp_pos ); - - my $depth=@alignments; - print MP "DEPTH:".$depth."\n"; - -my %res; # output hash that'll contain the count of each available nucleotide (or blank if the read covering the SNP is spliced in this position). -# loop over all alignments -for my $cAlign (@alignments) { - # parameters we'll need from our bam file - - my $start = $cAlign->start; # get start coordinate - my $end = $cAlign->end; # get end coordinate - my $ref_seq = $cAlign->dna; # get reference DNA sequence - my $read_seq = $cAlign->query->dna; # get query DNA sequence - - #print $read_seq."\n"; - #print "start: ".$start." end: ".$end."\n"; - - my $cigar = $cAlign->cigar_str; # get CIGAR sequence - my $cigar_ref = $cAlign->cigar_array; # probably the important useful of all. splits cigar to array of array reference - - #print $cigar."\n"; # Ex: $cigar = 20M100N50M => $cigar_ref = [ [ 'M' 20 ] [ 'N' 100] ['M' 50] ] - - my $ref_cntr = $start; # $ref_cntr = assign start to counter variable for reference. This will ultimately - # keep track of the current position on the chromosome - my $read_cntr = 0; # $read_cntr = computes offset on the read - my $read_snp_pos = ""; # variable to hold base at $snp_pos from current read - - foreach my $deref ( @$cigar_ref ) { - my $cigar_chr = $deref->[0]; # cigar character (ex: M, N, I, D etc...) - my $len_chr = $deref->[1]; # number corresponding to `this` cigar character ( ex: 20, 100 ) - - # NOTE: I => insertion in to the reference, meaning the read has the base(s) but the REFERENCE fasta does NOT - # D => deletion from the reference, meaning the READ does NOT have the base(s), but the reference does - - # modify reference counter only on M, N or D occurrence - if( $cigar_chr eq "M" || $cigar_chr eq "N" || $cigar_chr eq "D") { - $ref_cntr += $len_chr; - } - - if( $cigar_chr eq "S" ) { - #print "soft_clipped.\n"; - } - - # modify offset only on M or I occurrence - if( $cigar_chr eq "M" || $cigar_chr eq "I" || $cigar_chr eq "S") { - $read_cntr += $len_chr; - } - - - # now, check if the current operation takes ref_cntr past the SNP position. If it does, - # 1) If the current operation is NOT "M", then its either "N" or "D". Both of them mean - # that the read doesn't have a base at the SNP. So, this read is either spliced or has - # a deletion at that point and is not useful for your SNP location. - # 2) If the current position IS "M", then the current operation has gotten is past SNP - # location. So, we FIRST SUBTRACT what we added in this operation for ref_cntr and read_cntr, - # and then just add the difference ($snp_pos - $ref_cntr + 1) - - #print "read_cntr: ".$read_cntr."\nref_cntr: ".$ref_cntr." cigar: ".$cigar_chr."\n"; - - if( $ref_cntr > $snp_pos ) { - if( $cigar_chr eq "M" || $cigar_chr eq "S") { - $ref_cntr -= $len_chr; - $read_cntr -= $len_chr; - - #print "backing\n"; - #print "read_cntr: ".$read_cntr."\nref_cntr: ".$ref_cntr."\n"; - - #IMPORTANT - my $pos = $snp_pos - $ref_cntr + $read_cntr; - - #print "SNP position: ".$snp_pos; - #print "position: ".$pos; - - $read_snp_pos = substr( $read_seq, $pos, 1 ); - - #print "This is what we add: ".$read_snp_pos."\n"; - } - # if $cigar_chr is "N" or "D", do nothing. $read_snp_pos is set to "" - - if( $cigar_chr eq "N" || $cigar_chr eq "D") { - print MP "NAN\n"; - } - - # add value of $read_snp_pos to hash and get out of loop - to next read - $res{$read_snp_pos}++; - last; - } - } -} - -#Here, I am just printing to output. -#print "Count\n"; -foreach my $key ( keys %res ) { - print MP "$key:$res{$key}\n"; -} -#print "--\n"; -close MP; diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/contains_these_variants.sh --- a/scripts/contains_these_variants.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,57 +0,0 @@ -#!/bin/bash -#input example: perc% bam comp100134_c0_seq1 28 T C -#returns true if the alternative allele occurs in >= than perc (%) cases - -perc=$1; bam=$2; contig=$3; position=$4; ref=$5; alt=$6; - -echo contig $contig position $position ref $ref alt $alt >>kontrola; - -depth=0; - -perl ${LINKYX_PATH}/scripts/bam_analysis.pl $bam reference.fasta $contig $position; #writes to mpileup; -pro_hits=`grep -w "$alt" mpileup | cut -f2 -d":"`; - -if [ -z "$pro_hits" ]; then - hits=0; -else - hits=$pro_hits; -fi - -depth=`grep -w "DEPTH" mpileup | cut -f2 -d":"`; - -echo "hits: " $hits " depth: " $depth >>kontrola; - -if [[ $depth -eq $zero ]]; then - echo "0"; - exit; -fi - -if [ $depth -lt 5 ]; then - #depth <=4 - if [ $hits -gt 0 ]; then - echo "1"; #in this depth, none of variants can be tolerated - else - echo "0"; #ok - fi -else - if [ $depth -lt 25 ]; then - #depth 5..24 - if [ $hits -gt 1 ]; then - echo "1"; #in this depth, one variant can be tolerated - else - echo "0"; #ok - fi - else - #depth >=25 - hits=$[hits*100]; - percentage=`echo "scale=3; $hits/$depth" | bc`; - - if (( $(echo "$perc < $percentage"|bc -l) )); then - echo "1"; #too much of WRONG variants - else - echo "0"; #in tolerance - fi - fi -fi - - diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/createBamFromResults.sh --- a/scripts/createBamFromResults.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,16 +0,0 @@ -#!/bin/bash -set -e; -#example usage: ./createBamFromResults list_of_sequences bam_file outfile reference -#creates small bam files containg only sex-linked genes and their corresponding reads - -list_of_sequences=$1; -bam_file=$2; -outfile=$3; -reference=$4 - -samtools view -h -o out.sam $bam_file; -grep -f $list_of_sequences out.sam >igv; -cat igv | sort -r >$outfile; -samtools view -bS $outfile | samtools sort - ${outfile%????}; - -rm -f igv out.sam; \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/filter_diverged_Y_contigs.pl --- a/scripts/filter_diverged_Y_contigs.pl Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,140 +0,0 @@ -#!/usr/bin/perl -w -use strict; - -my @inputs = @ARGV; -chomp(@inputs); - -my $reads_number_mother=$inputs[0]; -my $reads_number_father=$inputs[1]; -my $reads_number_daughter=$inputs[2]; -my $reads_number_son=$inputs[3]; -my $reference=$inputs[4]; -my $LINKYX_PATH=$inputs[5]; - -my $mother="statistics/stat_male_mother"; -my $father="statistics/stat_male_father"; -my $daughter="statistics/stat_male_daughter"; -my $son="statistics/stat_male_son"; - -open(MOTHER_FILE, $mother) or die "Impossible to open source file: $!\n"; -open(FATHER_FILE, $father) or die "Impossible to open source file: $!\n"; -open(DAUGHTER_FILE, $daughter) or die "Impossible to open source file: $!\n"; -open(SON_FILE, $son) or die "Impossible to open source file: $!\n"; - -my %hash = (); #contig <-> overall coverage hash - -my $mother_line; my $mother_cell; my @mother_cells; -my $father_line; my $father_cell; my @father_cells; -my $daughter_line; my $daughter_cell; my @daughter_cells; -my $son_line; my $son_cell; my @son_cells; - -my $check; -my $comp; my $contig; -my $comp1; my $comp2; my $comp3; my $comp4; my $comp_overall; my $count=0; my $coverage_check; my $girls_check; my $girls; - -print "read numbers: mother ".$reads_number_mother." father ".$reads_number_father." daughter ".$reads_number_daughter." son ".$reads_number_son."\n"; - -#variables to set -my $read_limit=15; #at least 15 reads -my $girl_limit=3; #each of the females can have 3 reads at most - - - while () { - - - $mother_line = $_; chomp($mother_line); - $father_line = ; chomp($father_line); - $daughter_line = ; chomp($daughter_line); - $son_line = ; chomp($son_line); - - #contig length - mapped - unmapped - #example: comp1260_c0_seq1 273 17 10 - @mother_cells = split("\t", $mother_line); $mother_cell=$mother_cells[2]; - @father_cells = split("\t", $father_line); $father_cell=$father_cells[2]; - @daughter_cells = split("\t", $daughter_line); $daughter_cell=$daughter_cells[2]; - @son_cells = split("\t", $son_line); $son_cell=$son_cells[2]; - - #contig being processed - $contig=$mother_cells[0]; - - #check if files are sorted the same way - $check=(($mother_cells[0] eq $father_cells[0]) eq ($daughter_cells[0] eq $son_cells[0])); - if ($check==1) { - #print "ok"; - } else { - die("Check input files, wrong order of contigs."); - } - - #normalization - $father_cell = $father_cell/($reads_number_father/$reads_number_mother); - $daughter_cell = $daughter_cell/($reads_number_daughter/$reads_number_mother); - $son_cell = $son_cell/($reads_number_son/$reads_number_mother); - - #minimal number of reads for males - $coverage_check=(($father_cell>=$read_limit) && ($son_cell>=$read_limit)); - - #for diverged Y-LINKED gene, males should have much greater coverage then females - - #mother must have less coverage than father and son - $comp1=$mother_cell<$father_cell; - $comp2=$mother_cell<$son_cell; - - #daughter must have less coverage than father and son - $comp3=$daughter_cell<$father_cell; - $comp4=$daughter_cell<$son_cell; - - #females have to have low overall number of reads - $girls_check=(($mother_cell<=$girl_limit) && ($daughter_cell<=$girl_limit)); - - #together, daughter and mother must be at most 1/3 of overall coverage - $girls=$mother_cell+$daughter_cell; my $guys=$father_cell+$son_cell; - - my $fraction; - if (($girls+$guys)>0) { - $fraction=$girls/($girls+$guys); - } else { - $fraction=0; - } - - $comp_overall=$fraction<0.03; - - #all conditions satisfied - $comp=$comp1 && $comp2 && $comp3 && $comp4 && $comp_overall && $coverage_check && $girls_check; - - #print contig name - if ($comp==1) { - #contig fulfilled all the criteria, added to hash - $count=$count+1; - $hash{ $contig } = $father_cell + $son_cell; - system("echo $contig >>Y_list"); - } - } - - my $iso; - foreach (sort {$hash{$b} <=> $hash{$a}} keys %hash) { - print "$_ $hash{$_}\n\n"; - - #get sequence for each contig; - system("perl ${LINKYX_PATH}/scripts/get_sequences_based_on_ids.pl $reference $_"); - - $iso = `bash $LINKYX_PATH/scripts/isoform_exists.sh $_ references/male_contig_names`; - - if ($iso eq '') { - print "No isoforms.\n"; - } else { - print "Isoforms exist:\n"; - print $iso; - } - print "----------\n"; - } - - print "Number of candidate diverged Y contigs found: ".$count."\n"; - - - - - - - - - diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/get_average_contig_coverage.sh --- a/scripts/get_average_contig_coverage.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,38 +0,0 @@ -#!/bin/bash -#get_average_contig_coverage $perc $contig $bam -#returns "1" -> #low coverage, "0" -> #in tolerance -perc=$1; contig=$2; bam=$3; reference=$4; - -pro_coverage=`samtools mpileup -f $reference -r $contig $bam | cut -f 4 | awk '{s+=$1}END{print s}' 2>/dev/null`; - -if [ -z "$pro_coverage" ]; then - coverage=0; -else - coverage=$pro_coverage; -fi - -pro_positions=`samtools mpileup -f $reference -r $contig $bam | wc -l 2>/dev/null` - -if [ -z "$pro_positions" ]; then - positions=0; -else - positions=$pro_positions; -fi - -if [[ $positions -eq $zero ]]; then - echo "1"; - exit; -fi - - -average_coverage=`echo "scale=3; $coverage/$positions" | bc`; - - if (( $(echo "$average_coverage < $perc"|bc -l) )); then - echo "1"; #low coverage - else - echo "0"; #in tolerance - fi - - - - diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/get_sequence_based_on_id.pl --- a/scripts/get_sequence_based_on_id.pl Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,14 +0,0 @@ -use Bio::DB::Fasta; - -my $fastaFile = shift; -my $queryFile = shift; - -my $db = Bio::DB::Fasta->new( $fastaFile ); - $seq = $queryFile; - chomp($queryFile); - - my $sequence = $db->seq($seq); - if (!defined( $sequence )) { - die "Sequence $seq not found. \n" - } - print ">$seq\n", "$sequence\n"; \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/get_sequences_based_on_ids.pl --- a/scripts/get_sequences_based_on_ids.pl Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,16 +0,0 @@ -use Bio::DB::Fasta; - -my $fastaFile = shift; -my $queryFile = shift; - -my $db = Bio::DB::Fasta->new( $fastaFile ); -open (IN, $queryFile); -while (){ - chomp; - $seq = $_; - my $sequence = $db->seq($seq); - if (!defined( $sequence )) { - die "Sequence $seq not found. \n" - } - print ">$seq\n", "$sequence\n"; -} \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/isoform_exists.sh --- a/scripts/isoform_exists.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,6 +0,0 @@ -#!/bin/bash -#we will search for isoforms of this contig -contig_to_search=$1; -reference=$2; -#including only putative isoforms -part=`echo $contig_to_search | sed -n "s/^\(.*\_c[0-9]\+\)\_seq[0-9]\+/\1/p"`; egrep "$part\_" $reference | grep -v $contig_to_search; \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/number_of_not_uniq_mapped_reads.sh --- a/scripts/number_of_not_uniq_mapped_reads.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,53 +0,0 @@ -#!/bin/bash -#sort_into_categories $contig -#family member with the biggest number of not uniquely mapped reads reported - -dir=$1; -contig=$2; - -all_unmapped1=`grep $contig statistics/stat_mother | cut -f 3`; -high_qual_unmapped1=`grep $contig statistics/stat_mother_high | cut -f 3`; -diff_mother1=`expr $all_unmapped1 - $high_qual_unmapped1`; -percentage1=`echo "scale=3; $diff_mother1/$all_unmapped1*100" | bc`; - -all_unmapped2=`grep $contig statistics/stat_father | cut -f 3`; -high_qual_unmapped2=`grep $contig statistics/stat_father_high | cut -f 3`; -diff_mother2=`expr $all_unmapped2 - $high_qual_unmapped2`; -percentage2=`echo "scale=3; $diff_mother2/$all_unmapped2*100" | bc`; - -all_unmapped3=`grep $contig statistics/stat_daughter | cut -f 3`; -high_qual_unmapped3=`grep $contig statistics/stat_daughter_high | cut -f 3`; -diff_mother3=`expr $all_unmapped3 - $high_qual_unmapped3`; -percentage3=`echo "scale=3; $diff_mother3/$all_unmapped3*100" | bc`; - -all_unmapped4=`grep $contig statistics/stat_son | cut -f 3`; -high_qual_unmapped4=`grep $contig statistics/stat_son_high | cut -f 3`; -diff_mother4=`expr $all_unmapped4 - $high_qual_unmapped4`; -percentage4=`echo "scale=3; $diff_mother4/$all_unmapped4*100" | bc`; - -#searching for maximum - family member that has the biggest number of NOT uniquely mapped reads - if (( $(echo "$percentage1 > $percentage2"|bc -l) )); - then - max1="$percentage1"; - else - max1="$percentage2"; - fi - - if (( $(echo "$percentage3 > $percentage4"|bc -l) )); - then - max2="$percentage3"; - else - max2="$percentage4"; - fi - - - if (( $(echo "$max1 > $max2"|bc -l) )); - then - percentage="$max1"; - else - percentage="$max2"; - fi - -echo $percentage; - - diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/prepare_statistics.sh --- a/scripts/prepare_statistics.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,26 +0,0 @@ -#!/bin/bash -set -e; - -#variables -mkdir -p scripts/statistics; #create directory if it doesn't exist - -echo "Calculation of statistics started." - -#get statistics about mapped and unmapped reads for every contig - - idxstats_bam_file () - { - for ARG in "$@"; - do - samtools idxstats bam/aln_cleaned_sorted_deduplicated_${ARG}_male.bam >scripts/statistics/stat_${ARG} & - done; - } - - idxstats_bam_file mother father daughter son; - -wait; -echo "Idxstats successfully created." - - - - diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/sorting.pl --- a/scripts/sorting.pl Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,38 +0,0 @@ -#!/usr/bin/perl -w -use strict; -#usage: perl sorting.pl A/ - -my @inputs = @ARGV; -chomp(@inputs); - -my $dir = $inputs[0]; -my $reference = $inputs[1]; -my $LINKYX_PATH = $inputs[2]; -my $results = "X_results.txt"; -my %hash = (); #contig <-> family member with the maximal number of not uniquely mapped reads -my $contig; my $count=0; my $iso; - -open(RESULTS_FILE, $results) or die "(sorting.pl) Impossible to open source file: $!\n"; - - while () { - $contig = $_; chomp($contig); - $count = `bash $LINKYX_PATH/scripts/number_of_not_uniq_mapped_reads.sh $dir $contig`; - $hash{$contig} = $count; - } - -foreach (sort {$hash{$a} <=> $hash{$b}} keys %hash) { - print "$_ $hash{$_}"; - - #get sequence - print "% of not uniquely mapped reads for contig ".$_.": ".$hash{$_}."\n"; - system("perl $LINKYX_PATH/scripts/get_sequences_based_on_ids.pl $reference $_"); - - $iso = `bash $LINKYX_PATH/scripts/isoform_exists.sh $_ references/reference_contig_names`; - if ($iso eq '') { - print "No isoforms.\n"; - } else { - print "Isoforms exists:\n"; - print $iso; - } - print "----------\n"; - } \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/test.sh --- a/scripts/test.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,24 +0,0 @@ -#!/bin/bash -#example usage: ./test.sh comp100628_c0_seq1 5 A/contig_pos_ref_alt_father mother.bam - -contig_to_check=$1 -percentage=$2 -forbidden=$3 -bam=$4 -dir=$5; - -hits=0; - -grep $contig_to_check $forbidden | (while read line; do - - #tresholds described in table 1C - result=`bash ${LINKYX_PATH}/scripts/contains_these_variants.sh $percentage $bam ${line}` - - echo "result: " $result >>kontrola; - hits=$(($hits + $result)) - echo "hits: " $hits >>kontrola; -done; - -echo $hits; -) - diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/to_get_Y_variants.sh --- a/scripts/to_get_Y_variants.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,104 +0,0 @@ -#!/bin/bash -set -e; - -#read config variables -echo "Reading config...." >&2 -#echo `ls -l` -computer_name=`hostname`; -if [ $computer_name == "misa" ]; then - #local_computer - source config_devel; -else - #metacentrum machine - source config_meta; -fi - -#files needed: reference_male.fasta $reads_1 $reads_2 - -reference=$1; -reads_1="input/$2"; echo "reads_1: " $reads_1; -reads_2="input/$3"; echo "reads_2: " $reads_2; -name=$4; -fragments=$5; - -#INDEXING FILES - -if [ -e "references/reference_male.dict" ]; -then - echo "Reference exists. Not being created again."; -else - echo "seconds of run: $SECONDS"; - java -jar $CreateSequenceDictionary R=$reference O=references/reference_male.dict >mlogfile 2>>errlogfile; - echo "0/9 INDEXING FILES successful"; - echo "seconds of run: $SECONDS"; -fi - -if [ -e "references/reference_male.fai" ]; -then - echo "Samtools reference exists. Not being created again."; -else - echo "seconds of run: $SECONDS"; - echo "reference:"$reference; - samtools faidx $reference 2>>errlogfile; - echo "0/9 INDEXING FILES successful"; - echo "seconds of run: $SECONDS"; -fi - -#1 MAPPING WITH BWA -bwa index $reference >>mlogfile 2>>errlogfile; - -#differs based on the fact whether reads are single or paired-end -bwa aln -t 2 $reference $reads_1 > bam/aln_sa1_${name}_male.sai & 2>>errlogfile; -wait; - -if [[ $fragments =~ (single) ]]; then - #single end reads - bwa samse $reference bam/aln_sa1_${name}_male.sai $reads_1 > bam/aln_${name}_male.sam 2>>errlogfile; - echo "bwa samse $reference bam/aln_sa1_${name}_male.sai $reads_1 > bam/aln_${name}_male.sam 2>>errlogfile"; -else - #pair-end reads - bwa aln -t 2 $reference $reads_2 > bam/aln_sa2_${name}_male.sai & 2>>errlogfile; - echo "bwa aln -t 2 $reference $reads_2 > bam/aln_sa2_${name}_male.sai & 2>>errlogfile"; - wait; - bwa sampe $reference bam/aln_sa1_${name}_male.sai bam/aln_sa2_${name}_male.sai $reads_1 $reads_2 > bam/aln_${name}_male.sam 2>>errlogfile; - echo "bwa sampe $reference bam/aln_sa1_${name}_male.sai bam/aln_sa2_${name}_male.sai $reads_1 $reads_2 > bam/aln_${name}_male.sam 2>>errlogfile"; -fi - -wait; -rm -f bam/aln_sa1_${name}_male.sai bam/aln_sa2_${name}_male.sai - - -echo "1/6 MAPPING WITH BWA successful"; -echo "seconds of run: $SECONDS"; - -#2 CLEANING FILES - adjust MAPQ scores -echo "$SECONDS"; -java -jar $CleanSam I=bam/aln_${name}_male.sam O=bam/aln_cleaned_${name}_male.sam 2>>/dev/null; -echo "2/6 CLEANING FILES - adjust MAPQ scores successful"; -echo "seconds of run: $SECONDS"; -wait - -#3 CONVERTING TO BAM FILE -samtools view -bS bam/aln_cleaned_${name}_male.sam > bam/aln_cleaned_${name}_male.bam 2>>errlogfile; -echo "3/6 CONVERTING TO BAM FILE successful"; -echo "seconds of run: $SECONDS"; -wait - -#4 SORTING BAM FILE -samtools sort bam/aln_cleaned_${name}_male.bam bam/aln_cleaned_sorted_${name}_male >mlogfile 2>>errlogfile; -echo "4/6 SORTING BAM FILE successful"; -echo "seconds of run: $SECONDS"; -wait; - -#5 REMOVING DUPLICATES -java -jar $MarkDuplicates INPUT=bam/aln_cleaned_sorted_${name}_male.bam OUTPUT=bam/aln_cleaned_sorted_deduplicated_${name}_male.bam METRICS_FILE=picard_info.txt REMOVE_DUPLICATES=true ASSUME_SORTED=true VALIDATION_STRINGENCY=LENIENT MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=1000 2>>/dev/null; -echo "5/6 REMOVING DUPLICATES successful"; -echo "seconds of run: $SECONDS"; -wait; - -#9 REMOVING FILES -rm -f bam/aln_${name}_male.sam bam/aln_cleaned_${name}_male.sam bam/aln_cleaned_${name}_male.bam bam/aln_cleaned_sorted_${name}_male.bam >>mlogfile 2>>errlogfile; -echo "6/6 REMOVING FILES successful"; -echo "seconds of run: $SECONDS"; -echo "DONE"; - diff -r ea52ef8d7f3a -r 55a373f7e669 scripts/to_get_vcf_files.sh --- a/scripts/to_get_vcf_files.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,113 +0,0 @@ -#!/bin/bash -set -e; - -#read config variables -echo "Reading config...." >&2 -#echo `ls -l` -computer_name=`hostname`; -if [ $computer_name == "misa" ]; then - #local_computer - source config_devel; -else - #metacentrum machine - source config_meta; -fi - -#files needed: reference.fasta $reads_1 $reads_2 - -reference=$1; -reads_1="input/$2"; echo "reads_1: " $reads_1; -reads_2="input/$3"; echo "reads_2: " $reads_2; -name=$4; -fragments=$5; - -echo "reference:" $reference "reads 1:" $reads_1 "reads 2:" $reads_2 "name:" $name; - -#INDEXING FILES - -if [ -e "references/reference.dict" ]; -then - echo "Picard reference exists. Not being created again." -else - echo "seconds of run: $SECONDS" - echo "reference:"$reference; - java -jar $CreateSequenceDictionary R=$reference O=references/reference.dict >mlogfile 2>>errlogfile - echo "0/9 INDEXING FILES successful" - echo "seconds of run: $SECONDS" -fi - -if [ -e "references/reference.fai" ]; -then - echo "Samtools reference exists. Not being created again." -else - echo "seconds of run: $SECONDS" - echo "reference:"$reference; - samtools faidx $reference 2>>errlogfile; - echo "0/9 INDEXING FILES successful" - echo "seconds of run: $SECONDS" -fi - -#1 MAPPING WITH BWA -bwa index $reference >>mlogfile 2>>errlogfile - -#differs based on the fact wheter reads are single or paired-end -bwa aln -t 2 $reference $reads_1 > bam/aln_sa1_$name.sai & 2>>errlogfile -wait; - -if [[ $fragments =~ (single) ]]; then - #single-end reads - bwa samse $reference bam/aln_sa1_$name.sai $reads_1 > bam/aln_$name.sam 2>>errlogfile - echo "bwa samse $reference bam/aln_sa1_$name.sai $reads_1 > bam/aln_$name.sam 2>>errlogfile"; - wait; -else - #pair-end reads - bwa aln -t 2 $reference $reads_2 > bam/aln_sa2_$name.sai & 2>>errlogfile - echo "bwa aln -t 2 $reference $reads_2 > bam/aln_sa2_$name.sai & 2>>errlogfile"; - wait; - bwa sampe $reference bam/aln_sa1_$name.sai bam/aln_sa2_$name.sai $reads_1 $reads_2 > bam/aln_$name.sam 2>>errlogfile - echo "bwa sampe $reference bam/aln_sa1_$name.sai bam/aln_sa2_$name.sai $reads_1 $reads_2 > bam/aln_$name.sam 2>>errlogfile"; -fi - -wait; -rm -f bam/aln_sa1_$name.sai bam/aln_sa2_$name.sai - -echo "1/7 MAPPING WITH BWA successful" -echo "seconds of run: $SECONDS" - -#2 CLEANING FILES - adjust MAPQ scores -echo "$SECONDS" -java -jar $CleanSam I=bam/aln_$name.sam O=bam/aln_cleaned_$name.sam 2>>/dev/null -echo "2/7 CLEANING FILES - adjust MAPQ scores successful" -echo "seconds of run: $SECONDS" -wait - -#3 CONVERTING TO BAM FILE -samtools view -bS bam/aln_cleaned_$name.sam > bam/aln_cleaned_$name.bam 2>>errlogfile -echo "3/7 CONVERTING TO BAM FILE successful" -echo "seconds of run: $SECONDS" -wait - -#4 SORTING BAM FILE -samtools sort bam/aln_cleaned_$name.bam bam/aln_cleaned_sorted_$name >mlogfile 2>>errlogfile -echo "4/7 SORTING BAM FILE successful" -echo "seconds of run: $SECONDS" -wait -#rm aln.bam aln_cleaned.bam - -#5 REMOVING DUPLICATES -java -jar $MarkDuplicates INPUT=bam/aln_cleaned_sorted_$name.bam OUTPUT=bam/aln_cleaned_sorted_deduplicated_$name.bam METRICS_FILE=picard_info.txt REMOVE_DUPLICATES=true ASSUME_SORTED=true VALIDATION_STRINGENCY=LENIENT MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=1000 2>>/dev/null -echo "5/7 REMOVING DUPLICATES successful" -echo "seconds of run: $SECONDS" -wait; - -#6 SNP AND VARIANT CALLING -samtools mpileup -uf $reference bam/aln_cleaned_sorted_deduplicated_$name.bam | $bcftools view -p 0.85 -cgv - | $vcfutils varFilter >vcf/aln_0.85_$name.vcf 2>>errlogfile -echo "6/7 SNP AND VARIANT CALLING successful" -echo "seconds of run: $SECONDS" - -#7 REMOVING FILES -rm -f bam/aln_$name.sam bam/aln_cleaned_$name.sam bam/aln_cleaned_$name.bam bam/aln_cleaned_sorted_$name.bam >>mlogfile 2>>errlogfile -echo "7/7 REMOVING FILES successful" -echo "seconds of run: $SECONDS" -echo "DONE" - diff -r ea52ef8d7f3a -r 55a373f7e669 sort_bam.sh --- a/sort_bam.sh Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,6 +0,0 @@ -#!/bin/bash -results=$1; -bam_file=$2; - -samtools sort $bam_file $results 2>log.txt - diff -r ea52ef8d7f3a -r 55a373f7e669 sort_bam.xml --- a/sort_bam.xml Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,26 +0,0 @@ - - Sort bam file based on chromosomal coordinates. - - LINKYX_PATH - SAMTOOLS - samtools - bioperl - - sort_bam.sh $output $input1 - - - - - - - - - - - - - - Sort bam file based on chromosomal coordinates. - - - \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 tool_dependencies.xml --- a/tool_dependencies.xml Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,47 +0,0 @@ - - - $REPOSITORY_INSTALL_DIR - - - - - - http://sourceforge.net/projects/samtools/files/samtools/0.1.19/samtools-0.1.19.tar.bz2 - sed -i 's/O2/O2 -fPIC/' Makefile - make - - $INSTALL_DIR - $INSTALL_DIR - - - - Compiling samtools with fPIC in order to create bam.h and compiled libbam.a files - - - - - - - - - - - - - - - XML::Parser - http://search.cpan.org/CPAN/authors/id/C/CJ/CJFIELDS/BioPerl-1.6.922.tar.gz - Bio::DB::Fasta - File::Slurp - Bio::DB::Sam - PerlIO::gzip - - - - - Bundle::BioPerl - - - - \ No newline at end of file diff -r ea52ef8d7f3a -r 55a373f7e669 vcf/.gitignore diff -r ea52ef8d7f3a -r 55a373f7e669 vcf/daughter.vcf --- a/vcf/daughter.vcf Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,40 +0,0 @@ -##fileformat=VCFv4.1 -##samtoolsVersion=0.1.19-44428cd -##reference=file:///Users/alice/programs/galaxy/galaxy-dist/database/files/000/dataset_340.dat -##contig= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT /Users/alice/programs/galaxy/galaxy-dist/database/files/000/dataset_343.dat -comp0_c0_seq1 672 . A C 154 . DP=31;VDB=1.367478e-01;RPB=-8.607294e-02;AF1=0.5;AC1=1;DP4=10,9,3,8;MQ=58;FQ=157;PV4=0.26,0.063,0.14,0.13 GT:PL:GQ 0/1:184,0,255:99 -comp0_c0_seq1 706 . C G 66 . DP=24;VDB=9.521239e-02;RPB=-1.703790e+00;AF1=0.5;AC1=1;DP4=9,7,0,7;MQ=56;FQ=69;PV4=0.019,1,0.19,1 GT:PL:GQ 0/1:96,0,255:99 -comp0_c0_seq1 907 . CAAA CAAAA 51.5 . INDEL;IS=9,0.290323;DP=31;VDB=1.612102e-01;AF1=0.5;AC1=1;DP4=0,20,0,8;MQ=57;FQ=54.5;PV4=1,1,0.43,0.11 GT:PL:GQ 0/1:89,0,130:92 -comp0_c0_seq1 966 . A C 96 . DP=22;VDB=1.304866e-01;RPB=-1.001671e+00;AF1=0.5;AC1=1;DP4=0,13,0,9;MQ=57;FQ=99;PV4=1,0.2,0.18,1 GT:PL:GQ 0/1:126,0,165:99 diff -r ea52ef8d7f3a -r 55a373f7e669 vcf/father.vcf --- a/vcf/father.vcf Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,40 +0,0 @@ -##fileformat=VCFv4.1 -##samtoolsVersion=0.1.19-44428cd -##reference=file:///Users/alice/programs/galaxy/galaxy-dist/database/files/000/dataset_340.dat -##contig= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT /Users/alice/programs/galaxy/galaxy-dist/database/files/000/dataset_339.dat -comp0_c0_seq1 672 . A C 99.5 . DP=4;VDB=6.376843e-02;AF1=1;AC1=2;DP4=0,0,2,2;MQ=60;FQ=-39 GT:PL:GQ 1/1:132,12,0:21 -comp0_c0_seq1 706 . C G 131 . DP=8;VDB=9.321602e-02;AF1=1;AC1=2;DP4=0,0,3,3;MQ=47;FQ=-45 GT:PL:GQ 1/1:164,18,0:33 -comp0_c0_seq1 907 . CAAA CAAAA 114 . INDEL;IS=6,0.857143;DP=7;VDB=1.075274e-01;AF1=1;AC1=2;DP4=0,0,1,6;MQ=57;FQ=-55.5 GT:PL:GQ 1/1:154,21,0:39 -comp0_c0_seq1 966 . A C 90.1 . DP=6;VDB=5.992091e-02;AF1=1;AC1=2;DP4=0,0,0,6;MQ=52;FQ=-45 GT:PL:GQ 1/1:123,18,0:33 diff -r ea52ef8d7f3a -r 55a373f7e669 vcf/mother.vcf --- a/vcf/mother.vcf Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,36 +0,0 @@ -##fileformat=VCFv4.1 -##samtoolsVersion=0.1.19-44428cd -##reference=file:///Users/alice/programs/galaxy/galaxy-dist/database/files/000/dataset_340.dat -##contig= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT /Users/alice/programs/galaxy/galaxy-dist/database/files/000/dataset_338.dat diff -r ea52ef8d7f3a -r 55a373f7e669 vcf/son.vcf --- a/vcf/son.vcf Thu Sep 11 19:17:11 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,36 +0,0 @@ -##fileformat=VCFv4.1 -##samtoolsVersion=0.1.19-44428cd -##reference=file:///Users/alice/programs/galaxy/galaxy-dist/database/files/000/dataset_340.dat -##contig= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##INFO= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -##FORMAT= -#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT /Users/alice/programs/galaxy/galaxy-dist/database/files/000/dataset_344.dat