FastQCFastQC Report
Tue 7 Jun 2016
nfu_liver_mzm_20_JM82_3_AGTCAA_L007_R1_001_TRIMMED_prinseq_good_llnS.fastq

Summary

[OK]Basic Statistics

MeasureValue
Filenamenfu_liver_mzm_20_JM82_3_AGTCAA_L007_R1_001_TRIMMED_prinseq_good_llnS.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences11861964
Sequences flagged as poor quality0
Sequence length12-29
%GC46

[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
AACTCCAGTCACAGTCAAATCTCGTATGC684234157.68303629989098TruSeq Adapter, Index 13 (96% over 29bp)
TGGAGTGTGACAATGGTGTTTG1683171.4189640096698997No Hit
TTCAAGTAATCCAGGATAGGCT1407441.1865151504422033No Hit
GTTCTACAGTCCGAC1199701.011383949571926Illumina DpnII expression Adapter 1 (100% over 15bp)
ATGACCTATGAATTGACAGCCA1079620.9101528212360112No Hit
AAGCTGCCAGCTGAAGAACTGT1063850.8968582268501236No Hit
ATGACCTATGAATTGACAGCC990300.8348533177136602No Hit
TGAGGTAGTAGGTTGTATAGTT853480.7195098551976722No Hit
ACCACGTTCCCGTGG830700.7003056154950394No Hit
TAGCTTATCAGACTGGTGTTGGC704850.5942101999297924No Hit
CTACAGTCCGACGATC687200.5793307077984725Illumina DpnII expression Sequencing Primer (100% over 16bp)
TATTGCACTTGTCCCGGCCTGT651790.5494789901571105No Hit
TGGAGTGTGACAATGGTGTTT632640.5333349519523074No Hit
TGGAGTGTGACAATGGTGTTTGT582100.49072817958307746No Hit
CCTGTCTGAGGGTCGCT513080.43254219958853357No Hit
CACCACGTTCCCGTGG496040.41817695619376355No Hit
TCAGTAACTGGAATCTGTCCCT488500.4118205045977209No Hit
AACTCCAGTCACAGTCAAATCTCGTAT471680.39764072796039507TruSeq Adapter, Index 13 (96% over 27bp)
AACATTCAACGCTGTCGGTGAGT458630.3866391771210906No Hit
TCTACAGTCCGACGATC448420.3780318335142477Illumina DpnII expression Sequencing Primer (100% over 17bp)
TAACGGAACCCATAATGCAGCTG440920.3717091031468313No Hit
ACAGTCCGACGATC439210.3702675206230604Illumina DpnII expression Sequencing Primer (100% over 14bp)
AGTTCTACAGTCCGACGATC436580.3680503498408864No Hit
AACATTCAACGCTGTCGGTGAG431380.36366659011947766No Hit
GGACAACTCTTAGCGG420690.3546545917691202No Hit
TGAGATGAAGCACTGTAGCTCT417160.3516786933428562No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTC401480.3384599717213777No Hit
TCCCATATGGTCTAGCGGTTAGGATTCCT384230.32391769187631997No Hit
TGAGATGAAGCACTGTAGCTC379530.319955447512739No Hit
TACAGTCCGACGATC360440.3038619911508752Illumina DpnII expression Sequencing Primer (100% over 15bp)
TGGACAACTCTTAGCGG350770.2957098841304863No Hit
GTTCTACAGTCCGACG337360.2844048422335458Illumina DpnII expression Sequencing Primer (100% over 16bp)
TGTAAACATCCTACACTCTCAGCT332100.27997050066919776No Hit
TTCAAGTAATCCAGGATAGGTT317740.2678645795923845No Hit
GTCTTTGCTGCGAGCC314840.26541979051698356No Hit
TTCTACAGTCCGACGATC314760.26535234805973107Illumina DpnII expression Sequencing Primer (100% over 18bp)
TAGTTCTACAGTCCGACGATC256700.21640598470877168Illumina DpnII expression Sequencing Primer (95% over 21bp)
CAGAGTTCTACAGTCCGACGATC242920.2047890214470386Illumina DpnII expression Sequencing Primer (100% over 23bp)
TCAGTAACTGGAATCTGTCCCTG231800.19541451988894926No Hit
AAATCCAGTCACAGTCAAATCTCGTATGC228320.19248077299846805RNA PCR Primer, Index 13 (96% over 29bp)
TGTAAACATCCTTGACTGGAAGCT226020.19054180235246035No Hit
TAGCTTATCAGACTGGTGTTGG222620.18767549791923158No Hit
AGAGTTCTACAGTCCGACGATC220050.1855089089799969Illumina DpnII expression Sequencing Primer (100% over 22bp)
TGAGGTAGTAGTTTGTATAGTT220020.18548361805852723No Hit
TGAGAACTGAATTCCATAGATGG196620.16575669931218812No Hit
AACTCCAGTCACAGTCAAATCT181930.15337257809920854TruSeq Adapter, Index 13 (95% over 22bp)
AACTCCAGTCACAGTCAAATCTCGTATG174950.147488223703933TruSeq Adapter, Index 13 (96% over 28bp)
TAACACTGTCTGGTAACGATGT168400.14196637251638936No Hit
TGTAACAGCAACTCCATGTGGA163020.1374308672661627No Hit
GGTGTCCGACGCCGGGTGGATGGC158180.13335059860238996No Hit
ACTCCAGTCACAGTCAAATCTCGTATGCC150190.12661478318430236TruSeq Adapter, Index 13 (96% over 29bp)
CTGGACAACTCTTAGCGG146670.12364731506519494No Hit
GCATTGTGGTTCAGTGGTAGAATTCTC142970.12052810141726952No Hit
GCGTTGGTGGTATAGTGGTTAGCATAGC142550.12017402851669419No Hit
TAGCAGCACGTAAATATTGGAG136740.11527602005873562No Hit
CATTGCACTTGTCTCGGTCTGA135110.11390187999221714No Hit
CTGTCTGAGGGTCGCT128610.10842218034045627No Hit
TGTCTGAGGGTCGCT128510.10833787726889071No Hit
ACAGTAGTCTGCACATTGGTT128040.10794165283253261No Hit
TGAGGTAGTAGGTTGTATAGT123800.10436720259815323No Hit
CAGTCCGACGATC122970.10366748710415916Illumina DpnII expression Sequencing Primer (100% over 13bp)
AACTCCAGTCACAGTCAAATCTC122430.10321225051770516TruSeq Adapter, Index 13 (95% over 23bp)
TATTGCACTTGTCCCGGCCTGTT122390.10317852928907895No Hit
TGAGATGAAGCACTGTAGCT121110.1020994499730399No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TATGGCG1000.032.16474523
GATTGCG200.003661591632.1647423
CGTATGC7128850.031.71197523
TCATATG253.238473E-431.39700922
CGTAGGC5700.031.03615823
TCGTATG7179650.030.85146922
CTCATAT352.3512603E-630.82072421
CGCGTAT200.00451232930.82072321
TCGCATA253.8434143E-430.49300820
TCGCGTA253.8434143E-430.49300820
CGCCCCT200.004754564730.49300620
CTCGTAT7204050.030.3612421
ATGTCGT402.266479E-730.22812819
TAGATGC254.0449982E-430.22812819
ATCGCGT254.0449982E-430.22812819
TCTCGTA7206650.030.0895620
ATAACTA3450.030.03192122
ATCTCGT7209500.029.82876219
ACAACCC4400.029.61308922
AATCGCA254.7129544E-429.44953718