FastQCFastQC Report
Tue 7 Jun 2016
nfu_liver_mzm_5_JM103_3_TTAGGC_L007_R1_001_TRIMMED_prinseq_good_qbw4.fastq

Summary

[OK]Basic Statistics

MeasureValue
Filenamenfu_liver_mzm_5_JM103_3_TTAGGC_L007_R1_001_TRIMMED_prinseq_good_qbw4.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences9885866
Sequences flagged as poor quality0
Sequence length12-29
%GC48

[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
AACTCCAGTCACTTAGGCATCTCGTATGC674434768.22211630220357Illumina PCR Primer Index 3 (100% over 29bp)
TGGAGTGTGACAATGGTGTTTG1928501.9507648596491192No Hit
GTTCTACAGTCCGAC1483801.500930722710585Illumina DpnII expression Adapter 1 (100% over 15bp)
ACCACGTTCCCGTGG828510.83807528849774No Hit
CTACAGTCCGACGATC822170.8316620921222277Illumina DpnII expression Sequencing Primer (100% over 16bp)
AGTTCTACAGTCCGACGATC677470.6852915060754414No Hit
TCTACAGTCCGACGATC630230.6375061122616875Illumina DpnII expression Sequencing Primer (100% over 17bp)
TGGAGTGTGACAATGGTGTTT582500.5892250613148104No Hit
AAGCTGCCAGCTGAAGAACTGT542880.5491476416937069No Hit
ACAGTCCGACGATC537700.5439078377149761Illumina DpnII expression Sequencing Primer (100% over 14bp)
CACCACGTTCCCGTGG530910.5370394460131261No Hit
TTCAAGTAATCCAGGATAGGCT458690.4639856538617861No Hit
TTCTACAGTCCGACGATC448390.45356673861450275Illumina DpnII expression Sequencing Primer (100% over 18bp)
ATGACCTATGAATTGACAGCCA445580.4507242966878168No Hit
TACAGTCCGACGATC436100.44113484847963746Illumina DpnII expression Sequencing Primer (100% over 15bp)
TGGAGTGTGACAATGGTGTTTGT429380.4343372649396623No Hit
GTTCTACAGTCCGACG406820.4115168059126029Illumina DpnII expression Sequencing Primer (100% over 16bp)
ATGACCTATGAATTGACAGCC404920.40959487009028844No Hit
TATTGCACTTGTCCCGGCCTGT401630.4062668864821757No Hit
TAGCTTATCAGACTGGTGTTGGC385900.3903552809637517No Hit
AACATTCAACGCTGTCGGTGAGT382680.3870981055175136No Hit
CAGAGTTCTACAGTCCGACGATC363920.368121518135083Illumina DpnII expression Sequencing Primer (100% over 23bp)
TAGTTCTACAGTCCGACGATC352030.3560942460680734Illumina DpnII expression Sequencing Primer (95% over 21bp)
AAATCCAGTCACTTAGGCATCTCGTATGC324910.32866114106745936Illumina PCR Primer Index 3 (96% over 29bp)
AGAGTTCTACAGTCCGACGATC321340.3250499248118475Illumina DpnII expression Sequencing Primer (100% over 22bp)
GGACAACTCTTAGCGG319650.32334041347515735No Hit
TGGACAACTCTTAGCGG311150.3147422795332245No Hit
CCTGTCTGAGGGTCGCT279800.28303033846503683No Hit
TGAGGTAGTAGGTTGTATAGTT237630.2403734786613535No Hit
AACATTCAACGCTGTCGGTGAG235220.2379356548025231No Hit
AACTCCAGTCACTTAGGAATCTCGTATGC230790.2334545097010216Illumina PCR Primer Index 3 (96% over 29bp)
AACTCCAGTCACTTAGGGATCTCGTATGC230340.23299931437468402Illumina PCR Primer Index 3 (96% over 29bp)
TGTAAACATCCTTGACTGGAAGCT188290.19046383999135735No Hit
TGTAAACATCCTACACTCTCAGCT182210.1843136453599513No Hit
TGAGGTAGTAGTTTGTATAGTT152690.15445283195220327No Hit
CAGTCCGACGATC145960.14764513296053175Illumina DpnII expression Sequencing Primer (100% over 13bp)
TTCAAGTAATCCAGGATAGGTT136400.13797476113878135No Hit
ACTCCAGTCACTTAGGCATCTCGTATGCC134340.13589097808932468Illumina PCR Primer Index 3 (100% over 29bp)
TTCTACAGTCCGACG133650.13519301192227368Illumina DpnII expression Sequencing Primer (100% over 15bp)
TAGCAGCACGTAAATATTGGAG122900.12431890134865273No Hit
TGAGGTAGTAGTTTGTGCTGTT122580.12399520689436819No Hit
AACTCCAGTCACTTAGGCATCGTATGCCG116110.11745050964680281Illumina PCR Primer Index 3 (95% over 21bp)
CTGGACAACTCTTAGCGG114920.11624677089493221No Hit
GAGTTCTACAGTCCGACGATC114500.11582192192368378Illumina DpnII expression Sequencing Primer (100% over 21bp)
AACTCCAGTCACGTAGGCATCTCGTATGC112140.11343467532333536Illumina PCR Primer Index 3 (96% over 29bp)
GTTCTACAGTCCGACGATC111540.11282774822155187Illumina DpnII expression Sequencing Primer (100% over 19bp)
CCACGTTCCCGTGG100340.10149844232159327No Hit

[OK]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TATGCCC200.007098157428.09209323
CATACCG200.007098157428.09209323
TATGGCG305.46838E-528.0920923
CGTGTGC850.028.0920923
TCGTACG553.255991E-1027.97673622
GCATGCC256.3629914E-427.97673622
GCATACC256.3629914E-427.97673622
TCGTGTG850.027.97673422
TTCGTAG200.0073696827.87688621
CGCATAC256.4974173E-427.87688421
CTAGTAT553.3833203E-1027.87688421
CAAAATA200.007499450427.77736520
TCTCGTT200.007499450427.77736520
TCGCATA355.283626E-627.77736320
ATCTCAT553.7107384E-1027.6602319
GAGACCA200.007655714627.6602319
ATCGCAT355.460135E-627.6602319
CGTATGC7107650.027.62709423
TCTTCGT3250.027.3500220
TCGTATG7153850.027.33811422