1000gsample.fastq FastQC Report

Basic Statistics

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Measure	Value
Filename	1000gsample.fastq
File type	Conventional base calls
Encoding	Sanger / Illumina 1.9
Total Sequences	5000
Filtered Sequences	0
Sequence length	54
%GC	43

Per base sequence quality

Per base quality graph

Per sequence quality scores

Per Sequence quality graph

Per base sequence content

Per base GC content

Per base GC content graph

Per sequence GC content

Per sequence GC content graph

Per base N content

N content graph

Sequence Length Distribution

Sequence length distribution

Sequence Duplication Levels

Duplication level graph

Overrepresented sequences

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Sequence	Count	Percentage	Possible Source
CGGAAGAGCGGTTCAGCAGGAATGCCGAGATCGGAAGAGCGGTTCAGCAGGAAT	7	0.13999999999999999	Illumina Paired End PCR Primer 2 (96% over 33bp)
CGGTTCAGCAGGAATGCCGAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGAC	7	0.13999999999999999	Illumina Paired End PCR Primer 2 (100% over 35bp)

Kmer Content

Kmer graph

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Sequence	Count	Obs/Exp Overall	Obs/Exp Max	Max Obs/Exp Position
CCCCC	1180	9.957459	29.638031	50
AAAAA	2175	4.133217	7.129659	47
CTCCC	555	3.668942	11.56272	11
CCTCC	525	3.4706206	11.56272	14
CTGGG	465	3.0945942	8.331139	39
GGGGG	350	2.9865708	12.818572	41
TGGAA	800	2.9261596	6.397646	17
CCCAG	455	2.855999	9.429343	40
GAATG	775	2.8347175	10.053445	20
GTGTG	530	2.763172	7.8240557	33
GGGAG	435	2.7487729	6.3220544	43
TGTGT	670	2.7303638	6.109576	27
ATGGA	735	2.688409	6.397646	20
GGAAT	730	2.6701207	7.3115954	19
GCTGG	400	2.6620166	8.322799	31
GGAGG	420	2.6539874	7.9104857	40
GCAGG	405	2.5535064	14.17877	16
CCTGG	375	2.4900866	6.6367774	7
CAGCC	390	2.4479992	6.279937	38
GGCTG	365	2.4290898	9.97737	24
TGGGA	490	2.4202447	7.40506	20
CCAGC	385	2.4166145	6.286229	41
AATGG	660	2.4140818	5.4836965	18
GCCTG	360	2.3904827	8.295971	5
GCCTC	360	2.3851626	6.6286345	31
CCCTC	360	2.379854	8.267352	34
CTGTG	450	2.3408678	9.09864	44
GGAAG	500	2.3397229	14.031037	2
CAGCA	500	2.32932	10.47649	14
CAGGA	495	2.3111706	13.99981	17
TCCCA	470	2.305994	7.370469	39
CTGCC	345	2.285781	8.277508	10
GGTGG	340	2.2677608	5.009832	42
CCAGG	360	2.264732	6.300251	41
TTCCT	555	2.2516627	7.0961456	1
TCCCC	335	2.2145865	8.267353	29
CAGGC	350	2.2018228	6.300251	42
CTCCT	425	2.2009897	6.4701333	15
GGCAG	340	2.1436844	6.301676	16
CCCCA	340	2.129403	6.26596	31
CTCTG	410	2.1280441	5.1928453	48
TGGTG	405	2.1114805	6.520046	33
TTCCA	545	2.094778	6.7295837	33
CCCCT	315	2.0823722	6.607268	12
CTCAG	420	2.0652719	6.149596	46
AGGGA	440	2.0589561	7.0225415	31
CAGAG	440	2.054374	5.8390937	38
AGCAG	440	2.0543735	10.499857	15
CCCTG	310	2.05389	6.622006	24
CTTCC	390	2.0197318	6.4701333	17
AGGAA	580	2.0098667	10.390455	18
AGAGC	430	2.0076835	10.499858	5
TCTCC	385	1.9938378	5.181288	29
TCCTC	385	1.9938378	5.181288	48
TCAGC	405	1.9915122	12.286894	44
TGCTG	380	1.9767327	6.5055346	47
CACCC	315	1.9728295	6.259694	9
TCCTG	380	1.9723336	6.4845653	8
CAGGG	310	1.954536	6.3016763	21
GATGG	395	1.9510134	6.1708827	1
TGGCT	375	1.9507233	9.098641	45
AAGAG	560	1.9405607	9.524584	4
TGTGG	370	1.929007	6.5200467	30
CTGAG	390	1.9220302	6.163313	35
CCTGT	370	1.9204301	6.4845653	6
CAGAA	555	1.9189543	6.0476103	6
TCCCT	370	1.9161558	6.4766097	33
CCCAC	305	1.9101999	6.259694	4
CACCA	405	1.8825499	6.9757566	33
AAAGA	730	1.8732982	5.1399345	42
CAGTG	380	1.8727474	6.163313	30
GAAGA	540	1.8712552	7.792842	26
TCTCT	460	1.8662432	5.068676	8
TTTCC	460	1.8662429	5.073749	38
GAGGC	295	1.8599615	6.301676	22
TCTGT	455	1.8500755	5.0850673	49
CCTGC	275	1.8219992	9.93301	6
CCTCT	350	1.8125799	7.7641597	2
TGCCT	345	1.7906713	5.187652	12
TTCCC	345	1.7866857	6.470133	18
GAGGG	280	1.769325	6.3283887	41
CACAC	380	1.7663432	5.813131	33
TCTGC	340	1.7647195	5.1980486	42
CTGGC	265	1.7596608	6.6434207	43
TTCAG	455	1.7527524	9.6255	12
AGCCA	375	1.74699	5.8319354	39
CTCTC	335	1.7348979	5.1761065	3
GGGTG	260	1.7341703	8.333022	28
TGGGG	260	1.7341703	8.349721	39
GTGGG	255	1.7008208	6.6730905	31
GGCCA	270	1.698549	6.293945	43
GCCCC	200	1.6914694	6.3460584	32
CTTTG	415	1.6874313	5.0799813	2
ACACA	485	1.6731915	5.1721287	14
GTGGT	320	1.6683302	5.216037	31
CTCAC	340	1.6681659	7.363092	31
TGCTT	410	1.6671008	5.090162	40
GGGGC	195	1.6602434	8.526694	40
AGTGG	335	1.654657	6.1708827	3
TTCTG	405	1.6467704	5.0850663	49
AGAAG	475	1.6460115	5.1952276	22
ACTCC	335	1.6436341	6.1297736	10
GGCTC	245	1.6268562	8.304275	46
TGGCA	330	1.6263331	8.637284	40
TCCTT	400	1.6228201	6.0946	40
TCTGG	310	1.612598	5.204428	43
GGGGA	255	1.6113497	6.3157325	7
CTGCT	310	1.609009	6.4845653	3
CCCAA	345	1.6036536	5.8073177	10
TGGCC	240	1.5936551	6.6434207	49
GTGCT	305	1.5865883	5.220104	50
GCTTT	390	1.5857788	6.1081944	41
CCACA	335	1.5571709	5.813131	30
CCTTC	300	1.5536399	6.4701333	17
CCACT	315	1.5455065	6.135909	32
TCTTC	380	1.5416791	5.0737495	49
GTTCA	400	1.5408814	7.700401	11
AGGCA	330	1.5407803	5.8332543	6
AAAAG	600	1.5396972	5.782427	41
GCACA	330	1.5373511	5.8202715	18
ATGCC	305	1.4997808	12.286893	22
GAAGG	320	1.4974226	5.8462653	8
GAGAG	320	1.4974226	5.857981	41
TGTGC	285	1.4825499	5.2044287	29
TTGGC	285	1.4825495	5.199223	15
GGGAT	300	1.4817826	7.40506	21
AGCTG	300	1.4784846	6.1633124	30
AACAG	425	1.4694693	5.1836653	10
GAGTG	295	1.4570862	6.1770606	33
GGGAC	230	1.4501395	6.3143044	40
GTGTT	355	1.4466851	6.134112	50
TTTGG	355	1.4466851	6.1095753	3
TCTTT	455	1.4461157	5.5590916	1
GAGAT	395	1.4447913	6.397646	27
CAAAA	560	1.4338523	5.123362	31
GGTTC	275	1.4305303	10.398446	10
CCCTT	275	1.4241698	5.186479	39
CTGTT	350	1.4231348	5.0799813	10
ATGGT	365	1.4091904	6.7596393	47
TGTTG	345	1.4059336	5.1015162	40
CTGTC	270	1.4013947	5.198048	39
GAGAC	300	1.4007094	5.856681	50
CTTCT	345	1.3996824	7.1246448	50
GGCCC	165	1.398575	6.353853	2
TGAGT	360	1.3898867	5.7939773	32
GGCAC	220	1.3840029	6.2876506	17
CCTTT	340	1.3793972	5.068676	8
CCTTG	265	1.3754432	5.187652	18
TTGAA	475	1.3580486	6.4295163	7
GAGCG	215	1.3555653	12.603353	6
AAGGA	390	1.3514621	5.1952276	44
TTCTT	420	1.3348758	7.941558	4
GGGGT	200	1.3339773	8.333022	45
CAGAT	365	1.3320893	5.4769697	34
CTTGG	255	1.3264918	5.1992235	18
TGGTT	320	1.3040541	5.091313	25
TTGGG	250	1.3033829	6.5135255	6
CTGGT	250	1.3004823	5.204428	48
GCTCC	195	1.2919631	8.277508	26
TGATG	330	1.2740628	5.7939773	46
TGTCC	245	1.2716361	5.187652	21
GGCTT	240	1.2484628	5.199223	4
GACAG	265	1.2372932	5.833254	27
GGTGT	235	1.2251799	5.21082	27
AATGC	335	1.2226022	10.031068	21
TTTGC	300	1.2198299	5.0799813	9
GTCCT	230	1.1937809	5.1928453	47
GGGCC	140	1.1893166	6.3744006	43
ATCCC	240	1.1775287	6.135909	43
GCTCT	225	1.1678292	7.789268	47
AGCCC	185	1.1612303	6.2799363	31
GATCG	235	1.1581463	6.1633124	29
ACCCT	230	1.128465	6.129773	10
GTTGG	215	1.1209095	5.2160373	47
AGCTC	225	1.1063956	6.1434464	25
CCCAT	225	1.1039332	6.129773	21
CGGAA	235	1.0972222	9.333206	1
TCTTG	265	1.0775164	5.0799813	21
ATGCA	295	1.0766199	5.4714913	37
GCTTG	205	1.0663953	5.199223	2
AGCGG	165	1.0403174	12.603352	7
TTGCC	200	1.0380702	5.1876516	3
AACCT	285	1.0378094	5.4593143	13
AACCA	300	1.0349638	5.1721287	22
CCGAG	160	1.0065476	12.575301	25
GTTCC	190	0.9861668	6.4845653	27
ACTCA	270	0.983188	5.4593153	11
CTCAT	255	0.9801258	5.7624474	4
GAACC	210	0.9783144	5.820272	25
GGCGG	110	0.93654746	10.637051	44
GCGGG	110	0.93654746	6.3886194	36
ATCGG	190	0.93637353	6.163312	30
GTCTG	180	0.9363471	5.2096424	41
GCGGT	140	0.93170583	13.303162	8
CGGGG	105	0.8939771	6.3886194	46
GGGCG	105	0.8939771	8.518159	43
TCGGA	170	0.83780795	7.395975	31
CTTGT	205	0.83355045	5.0850673	38
TGCCG	125	0.83002883	14.93275	23
AGGCG	125	0.7881193	6.3016763	15
CGGTT	150	0.78028923	10.398446	9
GTGAC	150	0.7392424	6.163313	32
GCCGA	115	0.723456	12.575301	24
CCCGC	85	0.7188745	6.3460584	30
CCCCG	85	0.7188745	10.576764	29
CGAGA	135	0.6303192	9.333206	26
CGGGA	90	0.5674459	6.301676	24
CACGG	85	0.5347284	6.2876506	37
CGCCT	80	0.5300361	6.6286345	30
CCGCA	75	0.47076905	6.2799363	36
CGTTG	40	0.20807713	5.2044277	46