FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n02_male_transmission_spinal_cord_pcr3.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n02_male_transmission_spinal_cord_pcr3.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences306270
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

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
GTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCA25030.8172527508407613No Hit
CCATAAGTCCTCCCTTTTTCCTAGATAGGGAATGTCTGTCCATTTTGTTA18960.61906161230287No Hit
TATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTG13180.4303392431514677No Hit
AGTCCGCTACTTGGGTGGATAGATAGTCCATGTACTTTTCTTCATCACCT12880.4205439644757893No Hit
GTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGGAG11040.3604662552649623No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG10470.34185522578117344No Hit
CCTTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATA8670.28308355372710353No Hit
CCATGTTGACTGTGTCTTTGATGTTTTCAGCCCAAGTGGTGCGGGGTCTG8360.27296176576223596No Hit
GATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCACAGTG7710.25173866196493294No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG7430.24259640186763315No Hit
GTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTCTGCATGTTCATT7300.2383517811081725No Hit
CTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTG7020.22920952101087277No Hit
ATACAGGACATGGGCCTACCATGGGAGCTACGAAGCCCCCACGCAAGGAT6990.22822999314330494No Hit
ATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCAT6880.22463839096222288No Hit
GCCCAAGTGGTGCGGGGTCTGTGCCCTATAAGGGATCCACACCATAAGTC6650.2171286773108695No Hit
CTCTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTT6640.21680216802168023No Hit
GGTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTC6370.20798641721356975No Hit
GTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCC6180.20178274071897345No Hit
TCTCTACACACTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAG6150.2008032128514056No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT6100.19917066640545925No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC5690.18578378554869884No Hit
ATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGAC5460.17827407189734548No Hit
CTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAGGGCCGACATC5190.169458321089235No Hit
CGTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCC5100.1665197374865315No Hit
CCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCATGGATTGAC5030.16423417246220656No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA4940.16129558885950307No Hit
CCATAGTGGTCCCTTGCCGCCACCAAGATGAACTGATTGGCCGAGCTCGC4760.15541842165409606No Hit
CTACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCC4530.14790870800274267No Hit
CTGTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGG4510.14725568942436412No Hit
GTGTACAACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAA4490.14660267084598558No Hit
CTCTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAA4440.14497012440003917No Hit
GTTCATTACCTGGCGAGTGCCTTCTTGGGGATCTGGCACCCTGGTGTCCA4430.14464361511084992No Hit
TCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTGGG4370.14268455937571423No Hit
GTATTTAATCACGGCCAACGCCAGAGTTCTGTGCCCTTCCTCCATTTGGT4290.14007248506220002No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG4290.14007248506220002No Hit
GAATAGTGGTAACTGACATTGACACAATGACAATAGACCCCCAGGTGGAG4260.1390929571946322No Hit
ATTTTATGCATGGGACCTTGGAGTCCCGCTGCTAATGATGGGTTGCTATT4220.13778692003787507No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC4150.13550135501355012No Hit
ACCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGA4140.13517484572436084No Hit
CCATTGTGGTCCCTTGCCGCCACCAAGATGAACTGATTGGCCGAGCTCGC4100.13386880856760375No Hit
ACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAAAGCAAAA4090.1335422992784145No Hit
GTACCAGATGGCGCGGCTACCTTTTGCTTTCCCGAACTCTCCTTGCTTCT4070.13288928070003592No Hit
GACTAATCCTCCCCCATGCCTACGTTGCAGTCGCTCCATGGTTTCCATCA4050.13223626212165734No Hit
ATCCACTAGGGCCCAAAACCTTGGATCATTCACAGCTTCCACAGCCGTCT4040.13190975283246809No Hit
GGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATC4000.13060371567571097No Hit
CATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGA3990.13027720638652168No Hit
TTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATAGA3900.1273386227838182No Hit
CTCCAGTGCTGTGCTGCTGCGGACCGCCTGGGGATGGGGGGAGGCTGGAG3890.12701211349462893No Hit
CTATAAGGGATCCACACCATAAGTCCTCCCTTTTTCCTAGATAGGGAATG3880.12668560420543964No Hit
CTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCC3870.12635909491625036No Hit
GTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCCTAT3870.12635909491625036No Hit
TACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGAAGGAGGAAAAAC3860.1260325856270611No Hit
GAATGTCTGTCCATTTTGTTACAGGAGTCTTGTCCTCCATATGGTCGTTC3840.12537956704868253No Hit
TCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACA3830.12505305775949324No Hit
CCTATGATCCTGCGCACCATGTTGACTGTGTCTTTGATGTTTTCAGCCCA3760.12276749273516831No Hit
TTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTCCATGTACTTTT3730.12178796486760049No Hit
ATCTGGTACATGTGGTTGGGAGCCAGATTCTTGGAGTTTGAAGCTCTTGG3700.12080843700003265No Hit
GAAGAGACCTTCGACTGATGGCTAATGCCATTTGCTCGGCTGTGCCAGTT3670.11982890913246481No Hit
TTCCTAGATAGGGAATGTCTGTCCATTTTGTTACAGGAGTCTTGTCCTCC3650.11917589055408626No Hit
ATTAAATACACATACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGA3620.11819636268651844No Hit
TCATACAACAACTACTCCTTAATGGCGATGGCCACACAAGCTGGAGTGCT3590.1172168348189506No Hit
TCCCCAGGCGGTCCGCAGCAGCACAGCACTGGAGATGGCTACTGCTATGA3580.11689032552976131No Hit
GTAATGAACATAGTCTCTTCCTGGCTGTGGAAGGAGCTGGGGAAACGCAA3550.11591079766219349No Hit
GGTGGATAGATAGTCCATGTACTTTTCTTCATCACCTATGATCCTGCGCA3540.1155842883730042No Hit
TGGTAGGCCCATGTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTC3540.1155842883730042No Hit
CCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGAT3520.11493126979462566No Hit
TCCCTTATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGG3500.1142782512162471No Hit
GTCCTGAAGTGGAAGAGACACGAACACTCAGAGTGCTCTCTATGGTGGGG3430.11199268619192215No Hit
GGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATCTGCGG3400.11101315832435432No Hit
TCCCAGGAGGAGCTGACTTGTGGTGGACACACTTTTTATGATGTTGCTCT3360.10970712116759722No Hit
GACTGACACCACACCATACGGCCAACAAAGAGTCTTCAAAGAAAAAGTGG3350.10938061187840795No Hit
CCACTATTCCATCCACAACGGGATTCTTCATGATGCCAGCTGCTGTCCTT3350.10938061187840795No Hit
TCTTTCCTCCTGGTGCCCGATTCATTTCTTCTAGAATGTATCCAAGTCTT3340.10905410258921866No Hit
CTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAAAG3320.10840108401084012No Hit
GTGTTAGAGATGCAAGACTTATGGTTGTTGAGGAAGCCAGAGAAAGTGAC3310.10807457472165082No Hit
GGATTAGTCAGAGTGCCATTGTCTCGCAACTCCACACATGAGATGTACTG3280.107095046854083No Hit
TTCCCATCATGTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGT3280.107095046854083No Hit
TCACTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATG3270.10676853756489371No Hit
CCTCTCAGGTGGTGTTCTCTCTCCCTATCCACTAGGGCCCAAAACCTTGG3200.10448297254056878No Hit
TCCCAAGGCTTTGACAGGAGTCTAACAACCCCGTTCACGAGGGAAGACGC3200.10448297254056878No Hit
CTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTCC3180.10382995396219022No Hit
GCTAATGATGGGTTGCTATTCACAATTAACACCCCTGACTCTGATAGTAG3180.10382995396219022No Hit
ACCATGGGAGCTACGAAGCCCCCACGCAAGGATCAGCGTCTTCCCTCGTG3140.10252391680543312No Hit
TCTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTC3130.10219740751624383No Hit
GAGTAGAACTCCAGGGCCGACATCTGATTCAGACGAGCTTTCCACTTCTC3090.10089137035948673No Hit
GTGTTACTCATAGCAGTAGCCATCTCCAGTGCTGTGCTGCTGCGGACCGC3090.10089137035948673No Hit

[WARN]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TACTTCG100.007244814143.945798
ACTTCGG100.007244814143.945799
CATCTAA700.0113.174181
GGACCCT1500.095.963866
AGTCCGC2000.093.625911
CGCTACT2050.091.282695
CCGCTAC2100.089.10934
GACCCTT1650.087.239877
TCCGCTA2150.087.036993
TCCGGGT259.637589E-486.40982
GTCCGCT2200.085.100562
TGTGGAC1800.083.968373
TACTTGG2100.082.254748
GTGGACC1750.082.254744
CTACTTG2150.080.3418357
TGGACCC1800.079.969875
GCTACTT2350.079.6295856
CTATGGA950.075.760944
ACTATGG950.075.760943
TATGGAT950.075.760945
Produced by FastQC (version 0.11.2)