FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_infko_m-black_spinal_cord_pcr2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_infko_m-black_spinal_cord_pcr2.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences275938
Sequences flagged as poor quality0
Sequence length150
%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

[OK]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

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC40391.4637346070494095No Hit
GGTCTGAACAGACCCTAGCATCCATCCATCTCGGTTTGAGCACTCTCTTC8880.3218114214062579No Hit
TACTACAACCCATCAGAGTCCCTAATTACAATCTCTACATCATGGATGAA8240.29861780544905014No Hit
GTTCAGACCATGCGGCCCTGAAGTCGTTCAAAGAATTCGCCGCTGGAAAA7560.2739745884945169No Hit
CTCTAGGAGATGCCTAAAACCAGTCATACTTGATGGTGAGAGAGTCATCT6420.23266096007074052No Hit
CTATTAATGTGGTAGGACTACTGTTACTCACAAGGAGTGGGAAGCGGAGC6330.22939935782675816No Hit
CTCCTAGAGTCTATGACCCGGTCAGCCTTGAAGTTGGCGCCCATCTCTGA5960.21599054860149744No Hit
CATTAATAGGGTCTACTACCCTCACAGCTGTCAATCCCAGGGCCATGACA5890.21345374685617785No Hit
TGCTAGTGCTGCTCAGAGGAGAGGACGTATAGGCAGGAACCCTAACAAAC5770.2091049438642014No Hit
GGATGAGAGTGGTGATTTCTCCTTGGTAGAGGAAGATGGTCCACCCATGA5710.20693054236821315No Hit
TACACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCC5690.2062057418695504No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG5640.20439374062289356No Hit
CAGTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCT5510.1996825373815857No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT5320.19279693264428965No Hit
CCCCGTGAGAGCATGCTGCTAGCCCTGGCTTCGTGTCTTCTGCAAACTGC5230.18953533040030732No Hit
TCTCTGAGATGTCAGTTGTTATGACAAAGTCCCACTCTTGATTTTTTGTT5130.18591132790699358No Hit
GTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCTTC5080.18409932666033674No Hit
CTCTCATCCAGTGCCACGTCAAGCCGAGGACTGTTTCCAGTGACTTCCGC4850.1757641209257152No Hit
AGATAAGGCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTG4790.17358971942972695No Hit
GCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGT4610.16706651494176228No Hit
TCTCAGAGATGGGCGCCAACTTCAAGGCTGACCGGGTCATAGACTCTAGG4610.16706651494176228No Hit
CATGTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGC4500.1630801121991172No Hit
GTACACTCCATCTGTGGTCTCTCCTTTCTTCACTTCTTTGGGAGCAGGCA4460.1616305112017917No Hit
GATATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTG4460.1616305112017917No Hit
TATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTGGA4440.16090571070312895No Hit
CACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCCAC4440.16090571070312895No Hit
GTGTGGAAGACTCCCTCTTGCATGACTCCCACTCCAACCTGTGTTGAACC4320.1565569077111525No Hit
ACCCTGCAGGGACCTCAGGATCTCCGATCCTAGACAAATGTGGAAGAGTG4320.1565569077111525No Hit
CTTCCACACCATGTGGCACGTTACAAAAGGAGCCGCACTGAGGAGCGGTG4310.15619450746182112No Hit
GCCATAGAGTCCTATCACTCTTCCACATTTGTCTAGGATCGGAGATCCTG4210.15257050496850744No Hit
GTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGCTTG4200.15220810471917604No Hit
GTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGCCTGC4150.1503961034725192No Hit
GTATGTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGC4140.15003370322318782No Hit
TATCAGGCCAACGGCTGTGAGAACTTCACTAGGGGGCCAGCTCCGCTTCC4120.14930890272452507No Hit
CTCTACATCATGGATGAAGCCCACTTCACAGACCCCTCAAGTATAGCTGC3910.14169849748856628No Hit
GTACAGAGTGATGACTCGCAGACTGCTAGGTTCAACACAGGTTGGAGTGG3860.1398864962419094No Hit
CCATACATGTACTCATCTCCAGGTTTGTTAGGGTTCCTGCCTATACGTCC3700.13408809225260745No Hit
CCTTTTGTAACGTGCCACATGGTGTGGAAGACTCCCTCTTGCATGACTCC3650.1322760910059506No Hit
GATGTAGAGATTGTAATTAGGGACTCTGATGGGTTGTAGTAAGCGTGAAG3540.12828968826330553No Hit
TTACAAAAGGAGCCGCACTGAGGAGCGGTGAGGGAAGACTTGATCCATAC3470.12575288651798594No Hit
CTCTTGGAGTGCTTGTGATTCTACTCATGGTGCAGGAGGGGTTGAAGAAG3430.12430328552066043No Hit
GTCTTCCATTATGGTGTTGTTGGTTGTGCCATCAAAGCACCATCTTCTGT3390.12285368452333496No Hit
GGCCTGATATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGAT3380.12249128427400359No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC3330.12067928302734673No Hit
TCCCAGAGGGCGCCACTCCTTTTCCCAGTCTTCACATACACATACCACGC3310.11995448252868399No Hit
TTATAAGGCAGCGGCAGCCCAACTGCCGGAGACCCTAGAGACCATTATGC3310.11995448252868399No Hit
TACTCAAGGTGGTCCTGATGGCCATCTGTGGCATGAACCCAATAGCTATA3270.11850488153135848No Hit
GCTCAGAGGAGAGGACGTATAGGCAGGAACCCTAACAAACCTGGAGATGA3240.11741768078336438No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA3240.11741768078336438No Hit
ATGTTAGTGCTATAACCCAGGGAAAGAGGGAGGAGGAGACTCCGGTTGAA3200.11596807978603889No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG3190.11560567953670753No Hit
GGTATGAGCACCACCAGTAATAAAAACACAACAATGAGGACACATGCAAT3180.11524327928737615No Hit
GGAGTGTACAGAGTGATGACTCGCAGACTGCTAGGTTCAACACAGGTTGG3170.11488087903804478No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG3160.11451847878871341No Hit
GCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTGACAGCGG3140.11379367829005066No Hit
GCTCATACCCGAGCCAGAGAAGCAAAGATCTCCCCAAGATAACCAGATGG3130.11343127804071929No Hit
GCCTTGAAGTTGGCGCCCATCTCTGAGATGTCAGTTGTTATGACAAAGTC3120.11306887779138793No Hit
CCTCTGAGCAGCACTAGCATGCGTGACAGGCATGGGCCCAGCCAAGATGA3120.11306887779138793No Hit
GCCTTATAAGGCCTGCTTCCAGTCTCTGCTCGCATGAGCACGGCGAGGTT3100.11234407729272518No Hit
GGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCT3060.1108944762953997No Hit
TCTTCTGTCTGTGTAAGTTATTCCGGCAGATGCAACCTGATAGGCTAGCC3050.11053207604606832No Hit
ATGGAAGACAGCGTACCAGCAGAGGTGTGGACAAAGTATGGAGAGAAGAG3020.1094448752980742No Hit
ATTTCAGGAAGAACTCTCCTGGTTTTTCCGGCTCCTGGATGCAGATCCAA3010.10908247504874283No Hit
CTCTAACACCACTAGCTCGAGGCACACTGCTCGTGGCATGGAGAGCGGGC3000.10872007479941145No Hit
GTTGTAGTAAGCGTGAAGTGAAAGTGGCATGGCACATCAAATCAACGATT3000.10872007479941145No Hit
CATTAATGGATTTGCTTTGGCCTGGTTGGCAATTCGAGCAATGGCCGTGC2980.10799527430074872No Hit
GTGTAAGTTATTCCGGCAGATGCAACCTGATAGGCTAGCCAGACGGGAAG2970.10763287405141735No Hit
GCACTAGCATGCGTGACAGGCATGGGCCCAGCCAAGATGACTCTCTCACC2970.10763287405141735No Hit
GCACGCGCTGCTGCCGCTTGTAGGCCTGGGATCAAGTACATGTAGTGCGC2950.1069080735527546No Hit
GGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGT2940.10654567330342322No Hit
GTATGGATCAAGTCTTCCCTCACCGCTCCTCAGTGCGGCTCCTTTTGTAA2940.10654567330342322No Hit
ATACTTGAGGGGTCTGTGAAGTGGGCTTCATCCATGATGTAGAGATTGTA2900.10509607230609774No Hit
TCCTGAAATAGTCCGTGAAGCCATAAAAAAGAGACTCCGGACAGTGATCT2900.10509607230609774No Hit
CACATACACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCA2900.10509607230609774No Hit
AACTTACACAGACAGAAGATGGTGCTTTGATGGCACAACCAACAACACCA2890.10473367205676637No Hit
TACATGTACTCATCTCCAGGTTTGTTAGGGTTCCTGCCTATACGTCCTCT2850.1032840710594409No Hit
CCTCCATACATGTACTCATCTCCAGGTTTGTTAGGGTTCCTGCCTATACG2840.10292167081010953No Hit
ATCATGGACACAGAAGTGGAAGTCCCAGAGAGAGCCTGGAGCTCAGGCTT2830.10255927056077815No Hit
GCATAAAATGGCATCCCTTTGCCCATGCCAAACAGCACTCCAGCTTGTGT2830.10255927056077815No Hit
GAGTATGATCTCTCTCATGGGTGGACCATCTTCCTCTACCAAGGAGAAAT2820.10219687031144678No Hit

[WARN]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TGCGGAC100.007236468143.998723
AGATAAG600.0107.9990541
GAGATAA203.97102E-4107.999051
TAAAATA259.6412544E-486.399254
ACTGGAG9700.071.999373
TGGAGAT12500.057.0235025
CTGGAGA12400.056.902724
AGGAAAG1202.0008883E-1153.9995275
CGTCACA450.00989908547.9995771
CCCAGGA1505.711627E-1043.199629
GGAGATG20900.040.9948586
GATGGCT18150.034.5120939
CACTGGA21150.033.020992
GCACTGG22200.032.1078261
AGAACCA1808.560164E-931.9997185
GAACAGA4800.031.4997236
AACAGAC4800.031.4997237
ACCAGAG1902.1968117E-730.3155218
TCTGAAC5050.029.9403293
TGAACAG5050.029.9403295
Produced by FastQC (version 0.11.2)