FastQCFastQC Report
Wed 2 Jan 2019
HCp-A-1_S13_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHCp-A-1_S13_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences2042662
Sequences flagged as poor quality0
Sequence length151
%GC51

[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

[OK]Sequence Length Distribution

Sequence length distribution

[FAIL]Sequence Duplication Levels

Duplication level graph

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACATTCAGAAATCTCGTAT101550.49714539165069893TruSeq Adapter, Index 13 (97% over 38bp)
CTTTAATATACGCTATTGGAGCTGGAATTACCGCGGCTGCTGGCACCAGA71020.34768356194025246No Hit
GTCACTACCTCCCCGTGCCAGGAGTGGGTAATTTGCGCGCCTGCTGCCTT66250.3243316809144146No Hit
GCCAGTTCTAAGTTGGCTGTTAGTCGCCGGACGAAGCCGACGGCCTCGGG64350.3150300930844163No Hit
CTTGAACTCTCTCTTCAAAGTTCTTTTCAACTTTCCCTCACGGTACTTGT61580.3014693571427872No Hit
GCGCCTGCTGCCTTCCTTGGATGTGGTAGCCGTTTCTCATGCTCCCTCTC58610.2869295066927372No Hit
GCGCCATCCATTTTCAGGGCTAGTTGATTCGGCAGGTGAGTTGTTACACA58150.2846775433233692No Hit
CCGGAATCGAACCCTGATTCCCCGTTACCCGTTACAACCATGGTAGGCAT57320.2806142181134226No Hit
CGAACATCTAAGGGCATCACAGACCTGTTATTGCTCAATCTCGTGTGGCT49820.24389742404763978No Hit
GTTCTTTTCAACTTTCCCTCACGGTACTTGTTTGCTATCGGACTCGGGGA46350.2269097873265376No Hit
GTTTTACCCTACTGATGACTGCAGTCGTTGCAACGGTAATCCTGCTCAGT45000.22030076439469673No Hit
GCGAGATTCTGACTTAGAGGCGTTCAGTCATAATCCCTCAGATGGTAGCT40740.19944562536533209No Hit
CAAAGATTAAGCCATGCATGTCTAAGTACATACTCTTGCACAGTGAAACC39880.19523543297912233No Hit
GAACTCTCTCTTCAAAGTTCTTTTCAACTTTCCCTCACGGTACTTGTTTG39780.19474587572491192No Hit
CTTGATTCGGTGGGTGGTGGTGCATGGCCGTTCTTAGTTGGTGGAGCGAT36100.17673016876996783No Hit
GCAGATCGCACGGGCTTGTCCCGGCGACGTGTCTTTCAAATGTCTGCCCT35410.1733522237159158No Hit
CTCTCTTCAAAGTTCTTTTCAACTTTCCCTCACGGTACTTGTTTGCTATC35300.17281371073628432No Hit
GCAGAATTCACCAAGCGTTGGCTTGTTCACCCACTAATAGGGAACGTGAG35130.17198146340412657No Hit
GCGGCCCCGAACATCTAAGGGCATCACAGACCTGTTATTGCTCAATCTCG34960.17114921607196884No Hit
CTGACTTAGAGGCGTTCAGTCATAATCCCTCAGATGGTAGCTTCGCACCA34850.17061070309233736No Hit
ATTTTTCGTCACTACCTCCCCGTGCCAGGAGTGGGTAATTTGCGCGCCTG34810.17041488019065318No Hit
GTGAATTCTGCTTCACAATGATAGGAAGAGCCGACATCGAAGGATCAAAA33770.16532348474686462No Hit
CTTCAGTCTTCAAAGTTCTCGTTTGAATATTTGCTACTACCACCAAGATC33490.16395272443507541No Hit
TCTTGCTCCGCCCCTTCGACGCAGTGCGAACGGGACGGGCCGGTGGTGCG33140.1622392740453389No Hit
GCAAGTCATTGGGTGTTACGAAACCTAAAGGCGTAATGAAAGTGAAGGCA32290.15807803738455015No Hit
GAACACTGTAAGGATTGACAGATTGAGAGCTCTTTCTTGATTCGGTGGGT31920.15626667554397156No Hit
CCCGAACCTGGCAACGGAGTTGGCTCCTCGCGGGGTCGTGTGCGGTAACG30690.15024512131718318No Hit
GTCAAACTCCCCGCCTGACACTGTCTTCAGAGCGGATCGCCCCCGGCCGC29490.1443704342666579No Hit
CTTGCTCCGCCCCTTCGACGCAGTGCGAACGGGACGGGCCGGTGGTGCGC29250.14319549685655286No Hit
GAAGTATTTAGCCTTAGATGGAGTTTACCACCCACTTTGGGCTGCATTCT28980.14187369227018468No Hit
CTGGCTTCGGCCTCGGCTGCTCTGGACTGTCCTAGGAGTCGGGTTGTTTG28620.1401112861550271No Hit
GTTAATATTCCCGAACCTGGCAACGGAGTTGGCTCCTCGCGGGGTCGTGT28230.13820201286360642No Hit
GTCAGAACTACGACGGTATCTGATCGTCTTCGAACCTCTGACTTTCGTTC27950.1368312525518172No Hit
CTCGCTTCGACCGACACCCGAAATGAGCAACGGGTGCGTGTGGTCGTCTG27870.13643960674844885No Hit
GCCGTTTCTCATGCTCCCTCTCCGGAATCGAACCCTGATTCCCCGTTACC27650.13536258078918587No Hit
CTAGGATTCCCCTAGTAACGGCGAGTGAAGCGGGAAGAGCCCTGCACCGA27540.13482406780955442No Hit
GATTAAGCCATGCATGTCTAAGTACATACTCTTGCACAGTGAAACCGCGA27330.13379599757571248No Hit
CTCCACTTCAGTCTTCAAAGTTCTCGTTTGAATATTTGCTACTACCACCA26090.12772548762350305No Hit
CGGGCTTGTCCCGGCGACGTGTCTTTCAAATGTCTGCCCTATCAACTGTC26010.12733384182013469No Hit
GTTAGTTTTACCCTACTGATGACTGCAGTCGTTGCAACGGTAATCCTGCT25920.12689324029134533No Hit
GCGCAAGTCATTGGGTGTTACGAAACCTAAAGGCGTAATGAAAGTGAAGG25780.1262078601354507No Hit
GAACATCTAAGGGCATCACAGACCTGTTATTGCTCAATCTCGTGTGGCTA25770.12615890441002967No Hit
AAAGATTAAGCCATGCATGTCTAAGTACATACTCTTGCACAGTGAAACCG25400.12434754256945105No Hit
GACAGATTGAGAGCTCTTTCTTGATTCGGTGGGTGGTGGTGCATGGCCGT25240.12356425096271434No Hit
AAAAAATTAGAGTGTTCAAAGCAGGCGCTTCGCCTGTACAATGGTGCATG25210.1234173837864512No Hit
CGAGATTCTGACTTAGAGGCGTTCAGTCATAATCCCTCAGATGGTAGCTT25140.12307469370850391No Hit
GCGATTTGTCTGGTTAATTCCGATAACGAACGAGACTCTAACCTACTAAA24640.12062690743745172No Hit
GCACCATTGGCTTATCAGCCAAGCACATAAACCAAATGTCTGAACCTGCG24520.1200394387323992No Hit
GAAGCTCCGACCTCACGGGAAGAGCGCTTTTATTAGATCAAAACCGATCG24450.11969674865445189No Hit
GAAACCTAAAGGCGTAATGAAAGTGAAGGCAGCCTCGGGTTCTGCCTAGG24300.11896241277313624No Hit
GCCATGCATGTCTAAGTACATACTCTTGCACAGTGAAACCGCGAATGGCT24090.11793434253929432No Hit
CTTCAAAGTTCTTTTCAACTTTCCCTCACGGTACTTGTTTGCTATCGGAC23990.11744478528508387No Hit
CTTGACTCCAGTCCGACTTTGTGAAGAGACATGAGAGGTGTAGCATAGGT23890.11695522803087345No Hit
GGGGAATCAGGGTTCGATTCCGGAGAGGGAGCATGAGAAACGGCTACCAC22980.11250025701755846No Hit
AAAGAAACTAACTAGGATTCCCCTAGTAACGGCGAGTGAAGCGGGAAGAG22980.11250025701755846No Hit
GAACAAGCCAACGCTTGGTGAATTCTGCTTCACAATGATAGGAAGAGCCG22750.11137427533287445No Hit
GTCATTGGGTGTTACGAAACCTAAAGGCGTAATGAAAGTGAAGGCAGCCT22430.10980769211940106No Hit
ATTGGGTGTTACGAAACCTAAAGGCGTAATGAAAGTGAAGGCAGCCTCGG22230.10882857761098019No Hit
GCCGAATCAACTAGCCCTGAAAATGGATGGCGCTAGAGCGTCGCACCTAT21890.10716408294666468No Hit
GGGAATTCCTCGTTCATGGGGAGAATTACACACCCCAATCCCTAGCACGA21850.10696826004498053No Hit
GAACAATGTAGGTAAGGGAAGTCGGCAAATTAGATCCGTAACTTCGGGAA21690.10618496843824382No Hit
CTTGGATGTGGTAGCCGTTTCTCATGCTCCCTCTCCGGAATCGAACCCTG21280.10417778369598103No Hit
CGAAAACCAACAAAATAGAACCGAGGTCCTATTCCATTATTCCATGCACC21280.10417778369598103No Hit
GTCGATGGTACGTGCTATGCCTACCATGGTTGTAACGGGTAACGGGGAAT20870.10217059895371823No Hit
ATCGAACCCTGATTCCCCGTTACCCGTTACAACCATGGTAGGCATAGCAC20640.10104461726903424No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GTTAATA6200.078.364461
TATACGC15300.074.869687
TACGCTA15650.073.6567469
CTTTAAT16450.071.41431
ATATACG16650.069.683696
TATTCCC6800.068.249036
ATACGCT17200.066.597578
CTTGTCT4300.065.770661
TTTAATA18000.065.665992
TAATATA17700.064.7305454
TTGAACT17400.060.4288252
AATATAC19650.059.413995
TTGTCTC5350.055.571932
ATTCCCG8850.053.2488757
TTAATAT23750.050.9892043
ATATTCC9350.049.6356545
GCGCCAT19150.048.0917971
GTGGCCT2350.046.2870451
TAATATT10250.045.2774053
GCCATCC20200.045.2318763
Produced by FastQC (version 0.11.5)