FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n02_female_transmission_spinal_cord_pcr3.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n02_female_transmission_spinal_cord_pcr3.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences493966
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
GTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCA36200.7328439609203872No Hit
TATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTG21930.4439576812979031No Hit
CCATAAGTCCTCCCTTTTTCCTAGATAGGGAATGTCTGTCCATTTTGTTA19790.4006348615086868No Hit
GTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGGAG17340.351036306142528No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG17170.347594773729366No Hit
CCTTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATA13660.27653725155172626No Hit
GATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCACAGTG12750.25811493098715294No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC10940.2214727329411336No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG10800.2186385297773531No Hit
ATACAGGACATGGGCCTACCATGGGAGCTACGAAGCCCCCACGCAAGGAT10730.21722142819546286No Hit
GTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTCTGCATGTTCATT10490.21236279420041057No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT10470.21195790803415618No Hit
ATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCAT10250.20750416020535825No Hit
CTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTG10160.20568217245721365No Hit
GGTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTC9710.19657223371649063No Hit
CCATGTTGACTGTGTCTTTGATGTTTTCAGCCCAAGTGGTGCGGGGTCTG9500.19232092897081984No Hit
GTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCC9380.1898916119732937No Hit
ATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGAC8680.1757205961543912No Hit
TCTCTACACACTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAG8640.17491082382188247No Hit
AGTCCGCTACTTGGGTGGATAGATAGTCCATGTACTTTTCTTCATCACCT8300.16802775899555839No Hit
CTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAGGGCCGACATC8020.1623593526679974No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA7540.1526420846778928No Hit
CTACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCC7510.15203475542851128No Hit
CTCTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTT7450.1508200969297482No Hit
TCCCTTATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGG7030.1423174874384067No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG6980.1413052720227708No Hit
CTCCAGTGCTGTGCTGCTGCGGACCGCCTGGGGATGGGGGGAGGCTGGAG6830.13826862577586313No Hit
GACTAATCCTCCCCCATGCCTACGTTGCAGTCGCTCCATGGTTTCCATCA6810.13786373960960877No Hit
TCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTGGG6750.13664908111084567No Hit
ATCCACTAGGGCCCAAAACCTTGGATCATTCACAGCTTCCACAGCCGTCT6740.1364466380277185No Hit
CTCTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAA6710.13583930877833697No Hit
CCCGAACTCTCCTTGCTTCTTTTCTCTTTTTCCCATCATGTTGTACACAC6660.13482709336270107No Hit
GTATTTAATCACGGCCAACGCCAGAGTTCTGTGCCCTTCCTCCATTTGGT6640.1344222071964467No Hit
GTAATGAACATAGTCTCTTCCTGGCTGTGGAAGGAGCTGGGGAAACGCAA6620.13401732103019237No Hit
TACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGAAGGAGGAAAAAC6550.1326002194483021No Hit
GTACCAGATGGCGCGGCTACCTTTTGCTTTCCCGAACTCTCCTTGCTTCT6540.13239777636517494No Hit
ATTTTATGCATGGGACCTTGGAGTCCCGCTGCTAATGATGGGTTGCTATT6480.13118311786641185No Hit
GAATAGTGGTAACTGACATTGACACAATGACAATAGACCCCCAGGTGGAG6470.13098067478328468No Hit
ATCTGGTACATGTGGTTGGGAGCCAGATTCTTGGAGTTTGAAGCCCTTGG6450.13057578861703031No Hit
GTTCATTACCTGGCGAGTGCCTTCTTGGGGATCTGGCACCCTGGTGTCCA6430.13017090245077595No Hit
CCTATGATCCTGCGCACCATGTTGACTGTGTCTTTGATGTTTTCAGCCCA6400.12956357320139444No Hit
GGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATC6400.12956357320139444No Hit
CTATAAGGGATCCACACCATAAGTCCTCCCTTTTTCCTAGATAGGGAATG6350.12855135778575855No Hit
CTGTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGG6310.12774158545324982No Hit
CATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGA6170.12490738228946932No Hit
GCCCAAGTGGTGCGGGGTCTGTGCCCTATAAGGGATCCACACCATAAGTC6090.12328783762445188No Hit
GTGTACAACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAA6090.12328783762445188No Hit
ACCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGA6040.12227562220881599No Hit
GGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATCTGCGG6000.12146584987630726No Hit
TCCCAGGAGGAGCTGACTTGTGGTGGACACACTTTTTATGATGTTGCTCT5950.12045363446067138No Hit
ATTAAATACACATACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGA5810.11761943129689088No Hit
TCATACAACAACTACTCCTTAATGGCGATGGCCACACAAGCTGGAGTGCT5770.11680965896438215No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC5710.1155950004656191No Hit
CCACTATTCCATCCACAACGGGATTCTTCATGATGCCAGCTGCTGTCCTT5660.11458278504998319No Hit
TCCCCAGGCGGTCCGCAGCAGCACAGCACTGGAGATGGCTACTGCTATGA5590.11316568346809294No Hit
TTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATAGA5570.11276079730183858No Hit
TTCTAGAAGAAATGAATCGGGCACCAGGAGGAAAGATGTACGCAGATGAC5570.11276079730183858No Hit
GTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCCTAT5550.11235591113558424No Hit
CTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAAAG5540.11215346805245704No Hit
CTCTAACACTTCCTCAGCTTCCATGTTCCGGATAAGCTGCACCACCAAGT5460.11053392338743963No Hit
GTCCTGAAGTGGAAGAGACACGAACACTCAGAGTGCTCTCTATGGTGGGG5450.11033148030431245No Hit
TGGTAGGCCCATGTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTC5440.11012903722118526No Hit
TTCCTAGATAGGGAATGTCTGTCCATTTTGTTACAGGAGTCTTGTCCTCC5430.10992659413805808No Hit
CACAAAGGGAGGTCCCGGTCATGAAGAACCCATGCTGGTGCAAAGCTATG5400.10931926488867655No Hit
GAGTTCGGGAAAGCAAAAGGTAGCCGCGCCATCTGGTACATGTGGTTGGG5400.10931926488867655No Hit
GTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGGG5370.10871193563929502No Hit
GTGTTACTCATAGCAGTAGCCATCTCCAGTGCTGTGCTGCTGCGGACCGC5340.10810460638991347No Hit
GAGTAGAACTCCAGGGCCGACATCTGATTCAGACGAGCTTTCCACTTCTC5330.1079021633067863No Hit
GAAGAGACCTTCGACTGATGGCTAATGCCATTTGCTCGGCTGTGCCAGTT5330.1079021633067863No Hit
CTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCC5290.10709239097427758No Hit
CGTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCC5280.10688994789115042No Hit
TCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACA5240.10608017555864169No Hit
ACACCACACCATACGGCCAACAAAGAGTCTTCAAAGAAAAAGTGGACACC5240.10608017555864169No Hit
GCTAATGATGGGTTGCTATTCACAATTAACACCCCTGACTCTGATAGTAG5120.10365085856111556No Hit
CCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGAT5120.10365085856111556No Hit
CTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTCC5100.10324597239486119No Hit
GACTGACACCACACCATACGGCCAACAAAGAGTCTTCAAAGAAAAAGTGG5020.10162642772984375No Hit
CTTTTTATGATGTTGCTCTTTGCCCCAGAGACCCAGTACATCTCATGTGT5010.10142398464671658No Hit
ATCCCATCCATTGCTCTGCAACCATCTGGTCACTTTCTCTGGCTTCCTCA4990.10101909848046221No Hit
GTGTTAGAGATGCAAGACTTATGGTTGTTGAGGAAGCCAGAGAAAGTGAC4970.10061421231420786No Hit
GGTTAAGAGACGTGGAGGTGGGACGGGAGAGACTCTGGGAGAGAAGTGGA4950.1002093261479535No Hit
TCCCAAGGCTTTGACAGGAGTCTAACAACCCCGTTCACGAGGGAAGACGC4950.1002093261479535No Hit
CCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCATGGATTGAC4940.10000688306482633No Hit
TTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTCCATGTACTTTT4940.10000688306482633No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CATCTAA1050.0109.701321
ATCTAAT2400.083.990071
GGACCCT2650.073.327536
ACATAAC300.001996360371.9331749
TCTAATG2900.069.5090262
TGGACCC2800.069.399275
TGTGGAC3050.068.430123
GACCCTT2850.068.154127
CTAATGG3050.066.0704653
GTGGACC2950.065.870494
TAATGGG3100.065.004814
CACTTGA903.0013325E-1063.972996
ACCATTC350.003678033661.657018
AATGGGA3800.053.0302435
GGGTGTG1004.9645678E-850.394041
ACTTGAG1152.6557245E-950.0455367
AGATAAG14450.040.3428235
TAGATAA14650.039.300814
TATAGAT14950.038.5238722
AAGGGAA15300.037.612129
Produced by FastQC (version 0.11.2)