FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_female_transmission_liver_pcr2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_female_transmission_liver_pcr2.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences745044
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

[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
GCACTGGAGATGGACCTGGCCCGCCTTTTGCTGCCACACAGCTTGATGGT67750.9093422670338932No Hit
GCACTGGAGATGGAGATGCCGAGGACGAATGAGTTGCAGATGCAGTTGGG66560.8933700559966928No Hit
GCACTGGAGATGGACAAGTTGATCTGGAGACTAAAGGTTCCGGTCAGGAG66200.8885381266072877No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC64350.8637073783561776No Hit
TACTACAACCCATCAGAGTCCCTAATTACAATCTCTACATCATGGATGAA19470.26132684781033066No Hit
GGAGATGGAGATGCCGAGGACGAATGAGTTGCAGATGCAGTTGGGCCTGA17690.23743564138493833No Hit
GGTCTGAACAGACCCTAGCATCCATCCATCTCGGTTTGAGCACTCTCTTC15920.21367865522036283No Hit
GCCCAGTGGTGCCCATGCATCACCTGGGAAATGAAGCACTTGCTTGCCCT15390.20656498139707186No Hit
GTTCAGACCATGCGGCCCTGAAGTCGTTCAAAGAATTCGCCGCTGGAAAA14460.19408249714110845No Hit
AGATAAGGCCCAGTGGTGCCCATGCATCACCTGGGAAATGAAGCACTTGC12640.16965440967244888No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT12590.16898330836836484No Hit
CTCCTAGAGTCTATGACCCGGTCAGCCTTGAAGTTGGCGCCCATCTCTGA12320.16535936132631093No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG12190.16361449793569238No Hit
TCTCTGAGATGTCAGTTGTTATGACAAAGTCCCACTCTTGATTTTTTGTT12100.16240651558834107No Hit
CATTAATAGGGTCTACTACCCTCACAGCTGTCAATCCCAGGGCCATGACA11350.15233999602708026No Hit
TACACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCC11260.15113201367972898No Hit
GCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGT11130.14938715028911043No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG10970.14723962611604147No Hit
TGCTAGTGCTGCTCAGAGGAGAGGACGTATAGGCAGGAACCCTAACAAAC10910.1464343045511406No Hit
CTCTAGGAGATGCCTAAAACCAGTCATACTTGATGGTGATAGAGTCATCT10710.1437498993348044No Hit
TTATAAGGCAGCGGCAGCCCAACTGCCGGAGACCCTAGAGACCATTATGC10170.1365020052506966No Hit
CTATTAATGTGGTAGGACTACTGTTACTCACAAGGAGTGGGAAGCGGAGC9880.1326096176870091No Hit
CTCTCATCCAGTGCCACGTCAAGCCGAGGGCTGTTTCCAGTGACTTCCGC9860.13234117716537547No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG9790.1314016353396578No Hit
AGATAAGGCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTG9700.13019365299230648No Hit
TATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTGGA9470.12710658699351984No Hit
TCTCAGAGATGGGCGCCAACTTCAAGGCTGACCGGGTCATAGACTCTAGG9430.1265697059502526No Hit
AGTCTGGGATGCTCAGCTGTACTGAAGATAGGGTAAGTTCCCACAACAGC9410.126301265428619No Hit
GTGTGGAAGACTCCCTCTTGCATGACTCCCACTCCAACCTGTGTTGAACC9360.12563016412453493No Hit
GTACACTCCATCTGTGGTCTCTCCTTTCTTCACTTCTTTGGGAGCAGGCA9260.12428796151636681No Hit
CACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCCAC9200.12348263995146595No Hit
GGATGAGAGTGGTGATTTCTCCTTGGTAGAGGAAGATGGTCCACCCATGA9130.12254309812574829No Hit
CTTCCACACCATGTGGCACGTTACAAAAGGAGCCGCACTGAGGAGCGGTG9100.12214043734329785No Hit
GTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCTTC8910.11959025238777844No Hit
GTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGCCTGC8840.11865071056206075No Hit
CATGTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGC8770.11771116873634309No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA8680.11650318638899179No Hit
GTACAGAGTGATGACTCGCAGACTGCTAGGTTCAACACAGGTTGGAGTGG8600.11542942430245731No Hit
GTTGTAGTAAGCGTGAAGTGAAAGTGGCATGGCACATCAAATCAACGATT8540.11462410273755644No Hit
GCCATAGAGTCCTATCACTCTTCCACATTTGTCTAGGATCGGAGATCCTG8470.11368456091183878No Hit
ACCCTGCAGGGACCTCAGGATCTCCGATCCTAGACAAATGTGGAAGAGTG8440.11328190012938834No Hit
CTCTACATCATGGATGAAGCCCACTTCACAGACCCCTCAAGTATAGCTGC8400.11274501908612108No Hit
GGAGATGGACCTGGCCCGCCTTTTGCTGCCACACAGCTTGATGGTCTCAC8340.11193969752122021No Hit
GATGTAGAGATTGTAATTAGGGACTCTGATGGGTTGTAGTAAGCGTGAAG8290.11126859621713617No Hit
GCTCATACCCGAGCCAGAGAAGCAAAGATCTCCCCAAGATAACCAGATGG8210.11019483413060169No Hit
GGTATGAGCACCACCAGTAATAAAAACACAACAATGAGGACACATGCAAT8140.10925529230488401No Hit
GTGGTGCCCATGCATCACCTGGGAAATGAAGCACTTGCTTGCCCTCCCCC8130.1091210720440672No Hit
TATCAGGCCAACGGCTGTGAGAACTTCACTAGGGGGCCAGCTCCGCTTCC8090.10858419100079994No Hit
GTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGCTTG8030.1077788694358991No Hit
TTACAAAAGGAGCCGCACTGAGGAGCGGTGAGGGAAGACTTGATCCATAC7900.10603400604528054No Hit
GTGCAGGAGGGGTTGAAGAAGAGAATGACCACAAAGATCATCATGAGCAC7830.10509446421956288No Hit
TCCCAGAGGGCGCCACTCCTTTTCCCAGTCTTCACATACACATACCACGC7730.10375226161139475No Hit
TCCTGAAATAGTCCGTGAAGCCATAAAAAAGAGACTCCGGACAGTGATCT7710.10348382108976113No Hit
ATACTGGGGGGATGTCAAGCAGGACTTGGTGTCATACTGTGGGCCTTGGA7630.10241005900322665No Hit
AACTTACACAGACAGAAGATGGTGCTTTGATGGCACAACCAACAACACCA7620.10227583874240984No Hit
GTATGTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGC7610.10214161848159303No Hit
CCCCGTGAGAGCATGCTGCTAGCCCTGGCTTCGTGTCTTCTGCAAACTGC7520.10093363613424174No Hit
GTATATGACTGTGTGCACTGTGTGCACATGCATGCACACCTGCAGTTACC7500.10066519561260812No Hit
GACCTGGCCCGCCTTTTGCTGCCACACAGCTTGATGGTCTCACATACTTT7500.10066519561260812No Hit
CCATACATGTACTCATCTCCAGGTTTGTTAGGGTTCCTGCCTATACGTCC7470.10026253483015768No Hit
GAGATGGAGATGCCGAGGACGAATGAGTTGCAGATGCAGTTGGGCCTGAC7460.10012831456934086No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
AGATAAG6450.0110.536051
TGGAGAT59750.083.3890845
ACTGGAG61350.079.923323
CTGGAGA63000.078.1729664
GATGGGG2050.073.752599
GATGGTT502.4031087E-671.9965749
GCACTGG68650.070.8095251
GATGGAC32700.067.372959
GAGATAA2300.065.7536541
GGAGATG80350.065.3254856
GAGATGG79550.061.1812557
CACTGGA83050.059.3003772
AGATGGA63800.053.2639278
CCAGTGG5400.052.001023
GTCTGGG2650.051.6236532
CAGTGGT5450.050.2028164
GCCCAGT10150.048.943498
AGTCTGG2650.048.9164661
CCCAGGA4250.047.433049
TAAGGCC15850.046.3352934
Produced by FastQC (version 0.11.2)