FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n02_female_transmission_liver_pcr1.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n02_female_transmission_liver_pcr1.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences579622
Sequences flagged as poor quality0
Sequence length150
%GC50

[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

[WARN]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
ATGCTGGATGAGGGAGTGGAACCAGATGATGTCGATTGCTGGTGCAACAC18130.31279005972858176No Hit
CTACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTA15780.27224639506436954No Hit
GTATTACCTGACCATGAACAATAAGCATTGGTTGGTGCACAAAGAGTGGT15280.2636200834336861No Hit
AGTCTGAAGCGAGAGCTAACAACAGTATCAACAGGTTTAATTTGGATTTG14390.24826524873106953No Hit
GGTAATACAGATCTGAAAAGTCAAGGCCTGTCCTTGGTTCACAGTCAAGT14250.2458498814744782No Hit
GTATATGACTTTTTGGCTCGTCGAGCTTCCCAAAAGCCAGGCAATGGCAA12600.2173830530932228No Hit
GAGTTATGAGTGCCCTATGCTGGATGAGGGAGTGGAACCAGATGATGTCG12600.2173830530932228No Hit
GTGCGTGGCACGGCCATTGCTCGAATTGCCAACCAGGCCAAAGCAAATCC11750.202718323321061No Hit
TCCGTACACAACCCAAGTTGATGTCGTGTTGCACCAGCAATCGACATCAT11110.19167664443378615No Hit
ATCTAAGCTTGTCCATTTTTAGGCGGCATTTCAAATGGCCAGAGAACAGC10780.1859832787575351No Hit
TCTCACAGTGGCCTCAAATGCCTTTCCGATGGTGCTACCACTCCTATGCC10660.18391296396617107No Hit
GTCATAGGAGTTGGGGACAAGAAAATCACCCACCACTGGCATAGGAGTGG10430.1799448606160567No Hit
ACTCTATGTCAACTGTTGGCTTGTCCTGTGCCATCACGGTAACGCAGCCT10290.17752949335946533No Hit
TCCTTGTAGAGTGAGAAGGGAGCGTCACGGCTCTTCTAGATCGCCGTGCC10260.1770119146616243No Hit
TTCATATCCTGTATCATTGACAATCATCCCGCTATGCTGGGAGCCATGCA9890.17062844405491853No Hit
GTACAGATCATGGACCTCGGGCACATGTGTGACGCCACCATGAGTTATGA9820.16942076042662288No Hit
GTCATGGACCCATCAGAATGGTTTTGGCGATACTAGCCTTTTTGAGATTT9770.1685581292635545No Hit
TCTTAGAACACGTAAACTTGGCACATGTCACCAAGCTCCCTTTGCCAAAA9710.16752297186787252No Hit
GTAGTATGCACTCCCGCGTCTAGTGATCTCTGCTGCCATGGCTGTAGTCA9380.16182960619162143No Hit
GTTCGAGTCTGAAGCGAGAGCTAACAACAGTATCAACAGGTTTAATTTGG9320.16079444879593943No Hit
GTTAGTAACATGGCCGAGGTAAGATCCTATTGCTACGAGGCATCGATATC9220.15906918646980273No Hit
CCTGATACTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATGA9050.15613624051537037No Hit
ATACTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATGACTTT8860.15285824209571064No Hit
GAATATGACACGCCCTTCAATCTAAGCTTGTCCATTTTTAGGCGGCATTT8860.15285824209571064No Hit
TCCTAGAGGAGAATGGAGTTCAACTGACAGTTGTTGTGGGATCTGTAAAA8800.15182308470002864No Hit
GTATCAACAGGTTTAATTTGGATTTGGAAACGAGAGTTTCTGGTCATGAA8580.14802750758252792No Hit
GTACAAGTACCATCCTGACTCCCCCCGCAGATTGGCAGCAGCAGTCAAGC8520.1469923501868459No Hit
TCCCTTAACAGCTGTTCCTATGACGGCTGGGTCACATTCTAATGAGTAAT8510.14681982395423224No Hit
GGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTACCACATTGGGAG8480.14630224525639124No Hit
ATCATGACCAAGTATATGACTTTTTGGCTCGTCGAGCTTCCCAAAAGCCA8450.14578466655855024No Hit
CTTCTAGATCGCCGTGCCTCACCTTTTTTGTGATGACAGGTTCCGTACAC8240.14216161567366317No Hit
GCATACTACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTT8220.14181656320843586No Hit
GTCAGTGCGTGGCACGGCCATTGCTCGAATTGCCAACCAGGCCAAAGCAA8030.13853856478877613No Hit
TTCCAAGACAACATCAACCCAGGTCCCACCTGACATGCCCTCCACGAAGT7890.13612319753218477No Hit
GGCCTGGGAAGAGGGGATCTGTGGGATCTCATCCGTTTCAAGAATGGAAA7880.1359506712995711No Hit
TACTACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGC7830.13508804013650277No Hit
CTACAAGGAAGTTGCAAACGCGGTCGCAGACCTGGTTAGAATCAAGAGAA7820.1349155139038891No Hit
CTCCAAGAGAGAAGTGGTCCATATGATCGGTTGACCCCGCTGTCACCATT7760.13388035650820707No Hit
ATCTAGAAGAGCCGTGACGCTCCCTTCTCACTCTACAAGGAAGTTGCAAA7750.1337078302755934No Hit
ATCCAGCATAGGGCACTCATAACTCATGGTGGCGTCACACATGTGCCCGA7630.1316375154842294No Hit
CATATTGAGTGTCTGATTGCTTGTCAAGGTAGGCTTCACCTTGTGTTGGG7580.13077488432116105No Hit
CTCAATATGTCTGCAAAAGAACATTAGTGGACAGAGGTTGGGGAAACGGT7510.12956720069286534No Hit
GGATATGAAACTGACGAAAATAGAGCGAAAGTCGAGGTTACGCCTAATTC7450.12853204329718335No Hit
GCTAAAGACTTGGGTATGATAAGATCACTTTCTTCTACTCCATCTGTCCA7420.12801446459934232No Hit
AGCTTAGATTGAAGGGCGTGTCATATTCCTTGTGCACTGCGGCATTCACA7410.12784193836672866No Hit
TACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTACCACATT7340.12663425473843298No Hit
TCCATGCTCTGTGCTCAAGCGGACATTCCTTCAGTGTGTCACCGTCGACA7340.12663425473843298No Hit
CTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATGACTTTTTG7340.12663425473843298No Hit
GTGTACGGAACCTGTCATCACAAAAAAGGTGAGGCACGGCGATCTAGAAG7300.1259441498079783No Hit
ACCTGATACTGTATGCCGGGGCAATCAGCAGTATCATGACCAAGTATATG7260.12525404487752362No Hit
GAATGGTTTTGGCGATACTAGCCTTTTTGAGATTTACAGCAATCAAGCCA7240.12490899241229629No Hit
GTTGAGAATAATCAATGCTAGGAAAGAGAGGAAGAGACGTGGCGCAGACA7120.12283867762093227No Hit
ATATCGGACATGGCTTCGGACAGTCGTTGCCCAACACAAGGTGAAGCCTA7090.12232109892309126No Hit
AGTTATGAGTGCCCTATGCTGGATGAGGGAGTGGAACCAGATGATGTCGA7000.12076836282956824No Hit
GTACATGTAGTATGCACTCCCGCGTCTAGTGATCTCTGCTGCCATGGCTG6990.12059583659695457No Hit
TAATAAAGAAGTTCAAGAAAGATCTTGCTGCCATGTTGAGAATAATCAAT6980.12042331036434091No Hit
GTCTTTAGCTGGTCCACTCAGCCACCACAACACCAGAGAGGGTTACAGAA6880.11869804803820422No Hit
GTATCAGGTGCATTGGAGTCAGCAATAGAGACTTCGTGGAGGGCATGTCA6870.11852552180559055No Hit
CTCCTGCACCATGAGTAGAATCACAAGCACTCCAAGAGAGAAGTGGTCCA6860.11835299557297688No Hit
GTTACTAACCGTCGTCGTGACCAACTCTATGTCAACTGTTGGCTTGTCCT6830.11783541687513585No Hit
GCCCTATGCTGGATGAGGGAGTGGAACCAGATGATGTCGATTGCTGGTGC6830.11783541687513585No Hit
GATCTGTACGTGGCACTTGTTCACTCCCAATGTGGTAGCAAACGAAATGG6780.11697278571206751No Hit
ATCCTAGAGGAGAATGGAGTTCAACTGACAGTTGTTGTGGGATCTGTAAA6740.11628268078161284No Hit
TTCTTACATTGTCATAGGAGTTGGGGACAAGAAAATCACCCACCACTGGC6710.11576510208377185No Hit
GTCATATACTTGGTCATGATACTGCTGATTGCCCCGGCATACAGTATCAG6690.11542004961854449No Hit
TCCCAGGCCTGCTTGACTGCTGCTGCCAATCTGCGGGGGGAGTCAGGATG6660.11490247092070349No Hit
GCTAACAACAGTATCAACAGGTTTAATTTGGATTTGGAAACGAGAGTTTC6580.11352226105979413No Hit
GTCATATTCCTTGTGCACTGCGGCATTCACATTCACCAAGGTCCCAGCTG6480.11179699873365746No Hit
GTTAAGGGAAGGGAGGCCGCGCACAGTGATCTGGGCTATTGGATTGAAAG6230.10748384291831574No Hit
TTCCTTCAGTGTGTCACCGTCGACAACAAAACTGTTGTTGGTCTTTGCCG6230.10748384291831574No Hit
CTCTTGGAGTGCTTGTGATTCTACTCATGGTGCAGGAGGGGTTGAAGAAG6210.10713879045308838No Hit
TATCAACAGATGGGGTTCCGTGGGGAAAAAAGAGGCTATGGAAATAATAA6150.10610363305740637No Hit
ACATGTACTTGGATAGGAGCGATGCCGGGAAGGCCATTTCGTTTGCTACC6140.10593110682479272No Hit
GGCTTGTCCTGTGCCATCACGGTAACGCAGCCTCCATGTTCCAAGACAAC6130.10575858059217905No Hit
GTCCACAATGTGTGAGACTTTGGCCATTCACATGTTTTCATCTCAATCAG6070.10472342319649702No Hit
CACTAGCAGCGTGCCTATGAGGATCTGTGAGAACCAGGACATTCCTCCAA6000.10351573956820136No Hit
GGTGTGGAAGACTCCAAACCCGTGATCCTCCACAAGAAAACTATTCCATG5990.10334321333558769No Hit
CATTGGGAGTGAACAAGTGCCACGTACAGATCATGGACCTCGGGCACATG5900.10179047724206466No Hit
TTATAGATGAATACCCCCGTGCCACATCTCGTTTCCTTTTTTGAGAAGTC5870.10127289854422365No Hit
GTTCTAAGAAGATGACCGGGAAGAGCATTCAACCGGAAAATCTGGAGTAT5860.10110037231160998No Hit
ACACAAGGTGAAGCCTACCTTGACAAGCAATCAGACACTCAATATGTCTG5860.10110037231160998No Hit
TATCATACCCAAGTCTTTAGCTGGTCCACTCAGCCACCACAACACCAGAG5850.10092784607899632No Hit
CTCATAACTCATGGTGGCGTCACACATGTGCCCGAGGTCCATGATCTGTA5830.10058279361376897No Hit
GACTACAGCCATGGCAGCAGAGATCACTAGACGCGGGAGTGCATACTACA5820.1004102673811553No Hit
TCTATAATGATGTTGAAGCCTGGAGGGACCGGTACAAGTACCATCCTGAC5810.10023774114854163No Hit

[WARN]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TCCTCGT301.6553531E-595.993381
GCGACAG259.648952E-486.394041
CTCGTGC353.5572542E-582.2800453
GTATATA451.2845248E-679.994491
GTCAGTG2400.077.994621
GTTCGAG1250.074.874831
CAGTGCG2500.074.874833
TATATAA502.4027395E-671.995042
AGTCTGA3100.071.995041
CCTCGTG406.895495E-571.995032
AGTGCGT2750.068.068034
GTCTGAA3350.064.473172
TCTGAAG3400.063.5250323
TTCGAGT1500.062.39572
GAAGCGA3600.059.9958656
TGAAGCG3600.059.9958655
CTGAAGC3600.059.9958654
ATATAAC607.0897895E-659.995863
CGAGTCT1450.059.58214
AAGCGAG3700.058.3743557
Produced by FastQC (version 0.11.2)