FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n02_female_transmission_liver_pcr2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n02_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
GCACTGGAGATGGACCTGGCCCGCCTTTTGCTGCCACACAGCTTGATGGT65120.8740423384390721No Hit
GCACTGGAGATGGAGATGCCGAGGACGAATGAGTTGCAGATGCAGTTGGG64430.864781140442712No Hit
GCACTGGAGATGGACAAGTTGATCTGGAGACTAAAGGTTCCGGTCAGGAG63160.847735167318977No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC61330.8231728595895007No Hit
GGAGATGGAGATGCCGAGGACGAATGAGTTGCAGATGCAGTTGGGCCTGA17500.23488545642941897No Hit
TACTACAACCCATCAGAGTCCCTAATTACAATCTCTACATCATGGATGAA17080.22924820547511288No Hit
GGTCTGAACAGACCCTAGCATCCATCCATCTCGGTTTGAGCACTCTCTTC15960.21421553626363005No Hit
GCCCAGTGGTGCCCATGCATCACCTGGGAAATGAAGCACTTGCTTGCCCT15110.20280681409420115No Hit
GTTCAGACCATGCGGCCCTGAAGTCGTTCAAAGAATTCGCCGCTGGAAAA12630.16952018941163205No Hit
AGATAAGGCCCAGTGGTGCCCATGCATCACCTGGGAAATGAAGCACTTGC12420.16670156393447905No Hit
CTCCTAGAGTCTATGACCCGGTCAGCCTTGAAGTTGGCGCCCATCTCTGA12040.16160119402344023No Hit
TCTCTGAGATGTCAGTTGTTATGACAAAGTCCCACTCTTGATTTTTTGTT11900.15972211037200487No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG11870.15931944958955446No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT11020.1479107274201255No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG10700.1436156790739876No Hit
GCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGT10390.13945485098866645No Hit
CATTAATAGGGTCTACTACCCTCACAGCTGTCAATCCCAGGGCCATGACA10390.13945485098866645No Hit
CTCTAGGAGATGCCTAAAACCAGTCATACTTGATGGTGATAGAGTCATCT9850.13220695690455866No Hit
GTGTGGAAGACTCCCTCTTGCATGACTCCCACTCCAACCTGTGTTGAACC9850.13220695690455866No Hit
GTGGTGCCCATGCATCACCTGGGAAATGAAGCACTTGCTTGCCCTCCCCC9450.1268381464718862No Hit
AGATAAGGCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTG9390.12603282490698536No Hit
TGCTAGTGCTGCTCAGAGGAGAGGACGTATAGGCAGGAACCCTAACAAAC9340.1253617236029013No Hit
TACACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCC9290.12469062229881725No Hit
CTCTCATCCAGTGCCACGTCAAGCCGAGGGCTGTTTCCAGTGACTTCCGC9270.12442218177718363No Hit
TTATAAGGCAGCGGCAGCCCAACTGCCGGAGACCCTAGAGACCATTATGC9260.12428796151636681No Hit
GGATGAGAGTGGTGATTTCTCCTTGGTAGAGGAAGATGGTCCACCCATGA9150.1228115386473819No Hit
CTATTAATGTGGTAGGACTACTGTTACTCACAAGGAGTGGGAAGCGGAGC9120.12240887786493146No Hit
GTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGCCTGC9120.12240887786493146No Hit
GGAGATGGACCTGGCCCGCCTTTTGCTGCCACACAGCTTGATGGTCTCAC8950.12012713343104568No Hit
CATGTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGC8870.11905337134451119No Hit
TATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTGGA8790.11797960925797671No Hit
GCCATAGAGTCCTATCACTCTTCCACATTTGTCTAGGATCGGAGATCCTG8710.11690584717144223No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG8650.11610052560654135No Hit
GTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCTTC8600.11542942430245731No Hit
CACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCCAC8550.11475832299837326No Hit
AGTCTGGGATGCTCAGCTGTACTGAAGATAGGGTAAGTTCCCACAACAGC8520.11435566221592282No Hit
GTACACTCCATCTGTGGTCTCTCCTTTCTTCACTTCTTTGGGAGCAGGCA8360.11220813804285386No Hit
GTTGTAGTAAGCGTGAAGTGAAAGTGGCATGGCACATCAAATCAACGATT8280.11113437595631936No Hit
TCTCAGAGATGGGCGCCAACTTCAAGGCTGACCGGGTCATAGACTCTAGG8270.11100015569550255No Hit
CTCTACATCATGGATGAAGCCCACTTCACAGACCCCTCAAGTATAGCTGC8130.1091210720440672No Hit
GATGTAGAGATTGTAATTAGGGACTCTGATGGGTTGTAGTAAGCGTGAAG7920.10630244656691418No Hit
GCTCATACCCGAGCCAGAGAAGCAAAGATCTCCCCAAGATAACCAGATGG7860.1054971250020133No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA7850.10536290474119649No Hit
GTACAGAGTGATGACTCGCAGACTGCTAGGTTCAACACAGGTTGGAGTGG7840.10522868448037967No Hit
CTCTTGGAGTGCTTGTGATTCTACTCATGGTGCAGGAGGGGTTGAAGAAG7800.10469180343711244No Hit
GTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGCTTG7640.10254427926404347No Hit
GTGCAGGAGGGGTTGAAGAAGAGAATGACCACAAAGATCATCATGAGCAC7550.10133629691669217No Hit
TATCAGGCCAACGGCTGTGAGAACTTCACTAGGGGGCCAGCTCCGCTTCC7480.10039675509097448No Hit
CTTCCACACCATGTGGCACGTTACAAAAGGAGCCGCACTGAGGAGCGGTG7460.10012831456934086No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
AGATAAG6800.0100.562621
TGGAGAT56300.082.832555
GATGGGG1750.082.2316369
CTGGAGA60250.077.163154
ACTGGAG62200.073.818413
AGTCTGG2500.071.981671
GAGATAA3150.070.83911
GCACTGG66300.068.941721
GATGGAC29450.068.410029
GGAGATG76050.064.254716
GTCTGGG2900.062.0531652
GAGATGG75750.060.6017277
ATGCTCA2900.059.547059
CACTGGA83950.054.79012
AGTGCAA1850.054.4616435
AGATGGA62650.053.1749278
GATGCTC3450.050.054048
CCCAGGA3900.047.9684569
CCAGTGG5000.047.4983333
CAGTGGT5300.044.809754
Produced by FastQC (version 0.11.2)