FastQCFastQC Report
Mon 14 May 2018
HG5M3BCX2_l01n01_r3zt2s66.351000000d8370.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHG5M3BCX2_l01n01_r3zt2s66.351000000d8370.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences3571
Sequences flagged as poor quality0
Sequence length101
%GC45

[OK]Per base sequence quality

Per base quality graph

[FAIL]Per tile sequence quality

Per base quality graph

[OK]Per sequence quality scores

Per Sequence quality graph

[FAIL]Per base sequence content

Per base sequence content

[FAIL]Per sequence GC content

Per sequence GC content graph

[OK]Per base N content

N content graph

[OK]Sequence Length Distribution

Sequence length distribution

[OK]Sequence Duplication Levels

Duplication level graph

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTGAAAAA651.8202184262111454Illumina PCR Primer Index 5 (96% over 28bp)
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA511.4281713805656677No Hit
GAGCCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGCTTGAAAAA471.3161579389526743RNA PCR Primer, Index 40 (96% over 29bp)
GAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTGAAAAA451.2601512181461776Illumina PCR Primer Index 9 (100% over 27bp)
GATCGGAAGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGC340.9521142537104452RNA PCR Primer, Index 12 (96% over 26bp)
GAGCCCACGAGACTACGCTGCATCTCGTATGCCGTCTTCTGCTTGAAAAA250.7000840100812098Illumina PCR Primer Index 11 (96% over 29bp)
GAGCCCACGAGACGGAGCTACATCTCGTATGCCGTCTTCTGCTTGAAAAA200.5600672080649678Illumina PCR Primer Index 11 (100% over 29bp)
TCCGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTGAA160.44805376645197426TruSeq Adapter, Index 12 (96% over 29bp)
TCCGAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTGAA140.3920470456454775TruSeq Adapter, Index 9 (96% over 28bp)
TCTCAGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTG140.3920470456454775TruSeq Adapter, Index 12 (96% over 29bp)
TCTCCGAGCCCACGAGACGGAGCTACATCTCGTATGCCGTCTTCTGCTTG130.3640436852422291TruSeq Adapter, Index 11 (96% over 30bp)
TCTCCGAGCCAACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTG130.3640436852422291Illumina PCR Primer Index 9 (96% over 28bp)
TCTCCGAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTG120.33604032483898066RNA PCR Primer, Index 47 (96% over 29bp)
TCCGAGCCCACGAGACGGAGCTACATCTCGTATGCCGTCTTCTGCTTGAA120.33604032483898066TruSeq Adapter, Index 11 (96% over 30bp)
GATCGGAAGAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGC120.33604032483898066RNA PCR Primer, Index 47 (96% over 26bp)
TCCGAGCCCACGAGACTACGCTGCATCTCGTATGCCGTCTTCTGCTTGAA120.33604032483898066Illumina PCR Primer Index 11 (96% over 29bp)
TCTCCGAGCCCACGATACCGATCAGTATCTCGTATGCCGTCTTCTGCTTG110.3080369644357323RNA PCR Primer, Index 40 (96% over 29bp)
TCTCAGAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTG110.3080369644357323TruSeq Adapter, Index 9 (96% over 28bp)
TCTCCGAGCCAACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGCTTG110.3080369644357323RNA PCR Primer, Index 40 (96% over 29bp)
GATCGGAAGAGCCCACGAGACTACGCTGCATCTCGTATGCCGTCTTCTGC100.2800336040324839Illumina PCR Primer Index 11 (96% over 26bp)
CTTATACACATCTCAGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGT100.2800336040324839No Hit
TCTCCGAGCCAACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTG100.2800336040324839Illumina PCR Primer Index 12 (96% over 29bp)
CTCCGAGCCCACGAGACTACGCTGCATCTCGTATGCCGTCTTCTGCTTGA100.2800336040324839Illumina PCR Primer Index 11 (96% over 29bp)
TCTCCGAGCCCACTAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTG100.2800336040324839RNA PCR Primer, Index 47 (96% over 29bp)
TCTACGAGCCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGCTTG90.2520302436292355RNA PCR Primer, Index 40 (96% over 29bp)
TCTCCGAGCCCACGATACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTG90.2520302436292355Illumina PCR Primer Index 12 (96% over 29bp)
CTTATACACATCTACGAGCCCACGAGACATGCGCAGATCTCGTATGCCGT90.2520302436292355No Hit
TCTCCGAGCCCACGAGACTACGCTGCATCTCGTATGCCGTCTTCTGCTTG90.2520302436292355Illumina PCR Primer Index 11 (96% over 29bp)
TCTCCGAGCCCACTAGACCGATCAGTATCTCGTATGCCGTCTTCTGCTTG90.2520302436292355TruSeq Adapter, Index 6 (96% over 28bp)
TCTCAGAGCCCACGAGACTACGCTGCATCTCGTATGCCGTCTTCTGCTTG90.2520302436292355Illumina PCR Primer Index 11 (96% over 29bp)
TCTCCGAGCCCACGATACTACGCTGCATCTCGTATGCCGTCTTCTGCTTG80.22402688322598713TruSeq Adapter, Index 11 (96% over 29bp)
TCTCCAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTGA80.22402688322598713RNA PCR Primer, Index 12 (96% over 29bp)
TCTCCGAGCCCACTAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTG80.22402688322598713TruSeq Adapter, Index 12 (96% over 29bp)
AGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTGAAAAAA80.22402688322598713TruSeq Adapter, Index 12 (96% over 29bp)
TCTCAGAGCCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGCTTG80.22402688322598713RNA PCR Primer, Index 40 (96% over 29bp)
CTCAGAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTGA70.19602352282273874Illumina Paired End PCR Primer 2 (96% over 27bp)
TCTACGAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTG70.19602352282273874TruSeq Adapter, Index 9 (96% over 28bp)
CTTATACACATCTCCGAGCCAACGAGACGCGTAGTAATCTCGTATGCCGT70.19602352282273874No Hit
CTCCGAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTGA70.19602352282273874RNA PCR Primer, Index 47 (96% over 29bp)
TCTCCGAGCCCACTAGACTACGCTGCATCTCGTATGCCGTCTTCTGCTTG70.19602352282273874Illumina PCR Primer Index 11 (96% over 29bp)
CCGAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTGAAA70.19602352282273874RNA PCR Primer, Index 47 (96% over 29bp)
CTCCGAGCCCACGAGACGGAGCTACATCTCGTATGCCGTCTTCTGCTTGA70.19602352282273874RNA PCR Primer, Index 11 (96% over 30bp)
AGCCCACGAGACGGAGCTACATCTCGTATGCCGTCTTCTGCTTGAAAAAA70.19602352282273874TruSeq Adapter, Index 11 (96% over 30bp)
TCTCCGAGCCAACGAGACGGAGCTACATCTCGTATGCCGTCTTCTGCTTG70.19602352282273874Illumina PCR Primer Index 11 (96% over 30bp)
TCTCGAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTGA70.19602352282273874RNA PCR Primer, Index 47 (96% over 29bp)
CTTATACACATCTCAGAGCCCACGAGACATGCGCAGATCTCGTATGCCGT60.16802016241949033No Hit
TCTCCGAGCCCACGAGACCCTAAGACATCTCGTATGCCGTCTTCTGCTTG60.16802016241949033RNA PCR Primer, Index 41 (96% over 29bp)
TCTCCTAGCCCACGAGACTACGCTGCATCTCGTATGCCGTCTTCTGCTTG60.16802016241949033Illumina PCR Primer Index 11 (96% over 29bp)
ACACATCTACGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCT60.16802016241949033Illumina PCR Primer Index 5 (95% over 23bp)
TCTCCGAGCCCACTAGACGGAGCTACATCTCGTATGCCGTCTTCTGCTTG60.16802016241949033TruSeq Adapter, Index 11 (96% over 30bp)
CATCTCGAGCCCACGAGACGGAGCTACATCTCGTATGCCGTCTTCTGCTT60.16802016241949033TruSeq Adapter, Index 11 (96% over 29bp)
GAAGAGCCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGCTTGAA60.16802016241949033RNA PCR Primer, Index 40 (96% over 29bp)
ATACACATCTCCGAGCCCACGAGACCCTAAGACATCTCGTATGCCGTCTT60.16802016241949033RNA PCR Primer, Index 41 (95% over 22bp)
TCTACGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTG60.16802016241949033TruSeq Adapter, Index 12 (96% over 29bp)
TCTACGAGCCCACGAGACTACGCTGCATCTCGTATGCCGTCTTCTGCTTG60.16802016241949033Illumina PCR Primer Index 11 (96% over 29bp)
AGCCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGCTTGAAAAAA60.16802016241949033TruSeq Adapter, Index 6 (96% over 28bp)
CCGAGCCCACGAGACTACGCTGCATCTCGTATGCCGTCTTCTGCTTGAAA60.16802016241949033Illumina PCR Primer Index 11 (96% over 29bp)
CATCTCGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTT60.16802016241949033TruSeq Adapter, Index 12 (96% over 28bp)
ATACACATCTCCGAGCCAACGAGACGCGTAGTAATCTCGTATGCCGTCTT60.16802016241949033Illumina PCR Primer Index 12 (95% over 22bp)
TCTCCTAGCCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGCTTG60.16802016241949033TruSeq Adapter, Index 6 (96% over 28bp)
TCTCCTAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTG60.16802016241949033RNA PCR Primer, Index 47 (96% over 29bp)
TCTCCGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTG60.16802016241949033TruSeq Adapter, Index 12 (96% over 29bp)
AGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTGAAAAAA60.16802016241949033RNA PCR Primer, Index 47 (96% over 29bp)
CGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTGAAAA60.16802016241949033TruSeq Adapter, Index 12 (96% over 29bp)
TCTCCGAGCACACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTG50.14001680201624195Illumina PCR Primer Index 12 (96% over 29bp)
GTCTTGTACCGACGACAGATCTTTCAAATGTCTGCCCTATCAACTTTTGA50.14001680201624195No Hit
ACACATCTCCGAGCACACGAGACGCGTAGTAATCTCGTATGCCGTCTTCT50.14001680201624195Illumina PCR Primer Index 12 (95% over 24bp)
CCGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTGAAA50.14001680201624195RNA PCR Primer, Index 12 (96% over 29bp)
ATACACATCTCAGAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTT50.14001680201624195TruSeq Adapter, Index 9 (95% over 21bp)
GAAGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTGAA50.14001680201624195TruSeq Adapter, Index 12 (96% over 29bp)
AAAAAAAAGATCGGAAGAGCCCACGAGACATGCGCAGATCTCGTATGCCG50.14001680201624195No Hit
GATCGGAAGAGCCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGC50.14001680201624195RNA PCR Primer, Index 6 (96% over 25bp)
CCGAGCCCACGAGACGGAGCTACATCTCGTATGCCGTCTTCTGCTTGAAA50.14001680201624195RNA PCR Primer, Index 11 (96% over 30bp)
TCTCGAGCCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGCTTGA50.14001680201624195TruSeq Adapter, Index 6 (96% over 28bp)
GCCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGCTTGAAAAAAA50.14001680201624195RNA PCR Primer, Index 40 (96% over 29bp)
CTCCGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTGA50.14001680201624195RNA PCR Primer, Index 12 (96% over 29bp)
TCTCAGAGCCCACGAGACGGAGCTACATCTCGTATGCCGTCTTCTGCTTG50.14001680201624195TruSeq Adapter, Index 11 (96% over 30bp)
CATCTCCGAGCCAACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCT40.11201344161299356Illumina PCR Primer Index 12 (96% over 27bp)
CTTATACACATCTCCGAGCCCAGAGACGCGTAGTAATCTCGTATGCCGTC40.11201344161299356No Hit
ACACATCTCAGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCT40.11201344161299356Illumina PCR Primer Index 5 (95% over 23bp)
CTCCGAGCCAACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTGA40.11201344161299356Illumina PCR Primer Index 12 (96% over 29bp)
ATACACATCTCCGAGCCCACGAGCGCGTAGTAATCTCGTATGCCGTCTTC40.11201344161299356Illumina PCR Primer Index 12 (95% over 23bp)
CTTATACACATCTCCGAGCCAACGAGACTACGCTGCATCTCGTATGCCGT40.11201344161299356No Hit
TCTACGAGCCCACGAGACGGAGCTACATCTCGTATGCCGTCTTCTGCTTG40.11201344161299356TruSeq Adapter, Index 11 (96% over 30bp)
ATACACATCTCCGAGCCAACGAGACGGAGCTACATCTCGTATGCCGTCTT40.11201344161299356Illumina PCR Primer Index 11 (95% over 23bp)
TCTCCGAGCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTGA40.11201344161299356RNA PCR Primer, Index 47 (96% over 29bp)
TCTCCAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTGA40.11201344161299356RNA PCR Primer, Index 47 (96% over 29bp)
TCTCCGAGCCCACGATACATGCGCAGATCTCGTATGCCGTCTTCTGCTTG40.11201344161299356Illumina PCR Primer Index 9 (96% over 28bp)
TCTCCTAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTG40.11201344161299356TruSeq Adapter, Index 12 (96% over 29bp)
GGCTCGGAGATGTGTATAAGAGACAGCTCCGAGCCCACGAGACGGAGCTA40.11201344161299356No Hit
CTCCTAGCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTTGA40.11201344161299356RNA PCR Primer, Index 47 (96% over 29bp)
ACACATCTCCGAGCCCACGAGCATGCGCAGATCTCGTATGCCGTCTTCTG40.11201344161299356Illumina PCR Primer Index 9 (95% over 24bp)
ACACATCTCCGAGCCAACGAGACATGCGCAGATCTCGTATGCCGTCTTCT40.11201344161299356Illumina PCR Primer Index 9 (95% over 23bp)
CATCTCCGAGCCAACGAGACTACGCTGCATCTCGTATGCCGTCTTCTGCT40.11201344161299356TruSeq Adapter, Index 11 (96% over 27bp)
ACACATCTCCGAGCCCACGAACGCGTAGTAATCTCGTATGCCGTCTTCTG40.11201344161299356Illumina PCR Primer Index 12 (96% over 25bp)
TCTCCGAGCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGCTTGA40.11201344161299356Illumina PCR Primer Index 6 (96% over 28bp)
TCTCCGAGCCCCACGAGACATGCGCAGATCTCGTATGCCGTCTTCTGCTT40.11201344161299356RNA PCR Primer, Index 47 (96% over 28bp)
CTTCCGATCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT40.11201344161299356No Hit
CTACGAGCCCACGAGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTGA40.11201344161299356Illumina PCR Primer Index 5 (96% over 28bp)
GGCTCGGAGATGTGTATAAGAGACAGCTCCGAGCCCACGAGACGCGTAGT40.11201344161299356No Hit
TCTCCGAGCCCACGGACGCGTAGTAATCTCGTATGCCGTCTTCTGCTTGA40.11201344161299356Illumina PCR Primer Index 5 (96% over 28bp)

[WARN]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TATACAC451.2294315E-552.7777823
TTATACA451.2294315E-552.7777822
CTTATAC451.2294315E-552.7777821
ATCGGAA404.6908294E-447.5000042
CCAACGA300.00950399547.59
GAGCCAA300.00950399547.56
CGAGCCA300.00950399547.55
CACTAGA150.00991080647.510-11
GCCAACG300.00950399547.58
GATCGGA458.3844416E-442.2222251
TCGGAAG458.3844416E-442.2222253
GAAGAGC500.001408393638.06
CGGAAGA500.001408393638.04
GGAAGAG500.001408393638.05
TCTCCGA1304.4237822E-932.8846171
TACACAT752.507752E-431.6666642
ATACACA752.507752E-431.6666641
CTCCGAG1501.7906132E-828.4999982
ACACATC855.227103E-427.9411773
AACGAGA350.00785158127.14285510-11
Produced by FastQC (version 0.11.2)