FastQCFastQC Report
Tue 7 Jun 2016
nfu_liver_mzm_27_JM74_3_GTGAAA_L006_R1_001_TRIMMED_prinseq_good_tkRi.fastq

Summary

[OK]Basic Statistics

MeasureValue
Filenamenfu_liver_mzm_27_JM74_3_GTGAAA_L006_R1_001_TRIMMED_prinseq_good_tkRi.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences8480329
Sequences flagged as poor quality0
Sequence length12-29
%GC45

[OK]Per base sequence quality

Per base quality graph

[OK]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

[WARN]Sequence Length Distribution

Sequence length distribution

[FAIL]Sequence Duplication Levels

Duplication level graph

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
AACTCCAGTCACGTGAAAATCTCGTATGC584964668.97899833838994TruSeq Adapter, Index 19 (96% over 29bp)
TGGAGTGTGACAATGGTGTTTG1076381.269266793776515No Hit
TTCAAGTAATCCAGGATAGGCT824260.9719670074120945No Hit
AAGCTGCCAGCTGAAGAACTGT656330.7739440297658263No Hit
TGAGGTAGTAGGTTGTATAGTT578400.6820490101268476No Hit
TATTGCACTTGTCCCGGCCTGT528280.6229475295121215No Hit
TGGAGTGTGACAATGGTGTTT471600.5561104999581974No Hit
TGGAGTGTGACAATGGTGTTTGT425670.5019498653884773No Hit
AACTCCAGTCACGGGAAAATCTCGTATGC425250.5014546015844432RNA PCR Primer, Index 19 (96% over 29bp)
GTTCTACAGTCCGAC413050.4870683672767885Illumina DpnII expression Adapter 1 (100% over 15bp)
ACCACGTTCCCGTGG376230.44365024045647283No Hit
AACATTCAACGCTGTCGGTGAGT342450.4038168802177369No Hit
TAGCTTATCAGACTGGTGTTGGC339320.40012598567815No Hit
ATGACCTATGAATTGACAGCCA338350.39898216213073806No Hit
AACATTCAACGCTGTCGGTGAG328760.3876736386052947No Hit
CCTGTCTGAGGGTCGCT307580.3626981924875792No Hit
ATGACCTATGAATTGACAGCC295370.34830016618459025No Hit
GGACAACTCTTAGCGG291790.34407863185496695No Hit
CTACAGTCCGACGATC289170.3409891290774214Illumina DpnII expression Sequencing Primer (100% over 16bp)
TGGACAACTCTTAGCGG236020.27831467387644987No Hit
CACCACGTTCCCGTGG230220.27147531658264673No Hit
TAACGGAACCCATAATGCAGCTG223570.26363363968544146No Hit
AGTTCTACAGTCCGACGATC220360.2598484091831815No Hit
AACTCCAGTGACGTGAAAATCTCGTATGC206980.24407071942609773RNA PCR Primer, Index 19 (96% over 29bp)
ACAGTCCGACGATC202670.23898836943708196Illumina DpnII expression Sequencing Primer (100% over 14bp)
TGTAAACATCCTACACTCTCAGCT197650.23306878777934206No Hit
TCTACAGTCCGACGATC195770.23085189265652312Illumina DpnII expression Sequencing Primer (100% over 17bp)
TGAGGTAGTAGTTTGTATAGTT188610.22240882399727652No Hit
TTCAAGTAATCCAGGATAGGTT176810.20849426950298747No Hit
AACTCCAGTCACGTTAAAATCTCGTATGC173320.20437886313137144RNA PCR Primer, Index 19 (96% over 29bp)
TACAGTCCGACGATC158750.18719792592952467Illumina DpnII expression Sequencing Primer (100% over 15bp)
CAGAGTTCTACAGTCCGACGATC148020.1745451149359889Illumina DpnII expression Sequencing Primer (100% over 23bp)
ACTCCAGTCACGTGAAAATCTCGTATGCC146100.17228105183183343TruSeq Adapter, Index 19 (96% over 29bp)
AACTCCAGTCACGTGCAAATCTCGTATGC144610.17052404452704606RNA PCR Primer, Index 19 (96% over 29bp)
TCAGTAACTGGAATCTGTCCCT140690.1659015823560619No Hit
TTCTACAGTCCGACGATC140670.1658779983653936Illumina DpnII expression Sequencing Primer (100% over 18bp)
TAGTTCTACAGTCCGACGATC134570.1586848812115662Illumina DpnII expression Sequencing Primer (95% over 21bp)
TGAGATGAAGCACTGTAGCTC132820.15662128202809114No Hit
AGAGTTCTACAGTCCGACGATC129440.1526355876051507Illumina DpnII expression Sequencing Primer (100% over 22bp)
GTTCTACAGTCCGACG127660.15053661243567318Illumina DpnII expression Sequencing Primer (100% over 16bp)
AAATCCAGTCACGTGAAAATCTCGTATGC114360.13485325864126263RNA PCR Primer, Index 19 (96% over 29bp)
CTGGACAACTCTTAGCGG113420.13374481107985314No Hit
TGAGATGAAGCACTGTAGCTCT110690.13052559635363203No Hit
TATTGCACTTGTCCCGGCCTGTT107210.12642198197735016No Hit
CATTGCACTTGTCTCGGTCTGA100990.11908736087951305No Hit
TAGCTTATCAGACTGGTGTTGG97510.11498374650323118No Hit
TGAGGTAGTAGGTTGTATAGT91980.10846277308344994No Hit
CTACGCCTGTCTGAGGGTCGCT91720.10815618120476223No Hit
TGTAAACATCCTTGACTGGAAGCT91220.10756658143805506No Hit
AACTCCAGTCACGTGAAATCTCGTATGCC91000.1073071575407039No Hit
TGAGAACTGAATTCCATAGATGG88920.1048544225112021No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TAACTGC900.028.13461523
TATGGCG354.7835674E-628.13461323
TATGCCC256.156919E-428.13461323
CTTATGC305.4122047E-528.13461323
CGTACGC553.0377123E-1028.13461323
GATTGCC305.4122047E-528.13461323
AATAACC256.156919E-428.13461323
TCATATG404.5166416E-727.9380122
GCGTATG404.5166416E-727.9380122
TGGTCAC200.00729124727.9380122
TAATAAC305.6770794E-527.93800522
TCGTACG553.2923708E-1027.93800522
CCGATTC200.007459527.80772821
CGCGTAT454.2427928E-827.80772821
CTCTTAT256.5923727E-427.80772621
CCCGTAT305.8607555E-527.80772621
CGTATGC6188000.027.79793423
TCGCATA200.00759392127.70615220
TCCCGTA306.0086815E-527.7061520
CATAATA355.3900185E-627.7061520