FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_female_transmission_blood_pcr2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_female_transmission_blood_pcr2.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences357331
Sequences flagged as poor quality0
Sequence length150
%GC45

[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

[FAIL]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
GCACTGGAGATGGTGAGAGGCAGGAGTTACTCTAATGAACATATGTGTCC27340.7651169363979056No Hit
GCACTGGAGATGGAGCGTGCACCACTTGGCTCTGCTCTGCTTCTTATGAA20510.5739776285852612No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC17220.4819061318497415No Hit
GCACTGGAGATGGAAGAGAGAATCTCAGGTGCAGAAGATTCCATAGAGAA11380.31847222882985243No Hit
GGAGATGGAGCGTGCACCACTTGGCTCTGCTCTGCTTCTTATGAAGACAT6730.18834078207600236No Hit
CAATAAGAAGACCAAACGTACGGATAATAGGAGTGGATGAGAATGAAGAT6720.18806092950233816No Hit
GCACTGGAGATGGCTGGCACAGGCCATCAGACTCCCTAGAAAGCAGCAGT5410.1514002423523288No Hit
ATGCCCATGAACATACAAGAAGCCTACAGAACTCCAAATAGACTGGACCA5090.1424449599950746No Hit
GTATAACATCTGTCCAGGCTCTTCTGGCTTTCATAGTCTCTGGTGAAAAA4710.13181056219583523No Hit
CATTAATAGGGTCTACTACCCTCACAGCTGTCAATCCCAGGGCCATGACA4240.11865749123361813No Hit
CTATTAATGTGGTAGGACTACTGTTACTCACAAGGAGTGGGAAGCGGAGC4200.11753808093896134No Hit
GGTCTGAACAGACCCTAGCATCCATCCATCTCGGTTTGAGCACTCTCTTC4080.11417985005499104No Hit
AGATACCTATGAACATACAAGAAGCCTACAGAACTCCAAATAGACTGGAC3940.11026191402369231No Hit
GCAAACATCTTCAACAAAATTATTGAAGAAAACTTCCCAAATCTAAAGAA3880.10858279858170716No Hit
GCACTGGAGATGGGAAACAAGGACAGATATAAATACAGAAAGCATCTATT3880.10858279858170716No Hit
CTCCCTCTATGATAATTGAGAGTTTGGCTGGGTATAGTAGCCTGGGCTGC3830.1071835357133862No Hit
CCTTTTGTAACGTGCCACATGGTGTGGAAGACTCCCTCTTGCATGACTCC3740.10466486255040844No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GATGGCG550.0130.909099
ACTGGAG20900.0114.02873
TGGAGAT24600.098.0487755
CTGGAGA25150.095.3320164
GCACTGG26100.090.758621
CACTGGA26600.090.135342
GGAGATG29200.086.301366
GAGATGG32750.073.648867
GATGGGG2500.066.249
AGATAAG1750.053.485711
AGATGGG6800.050.823538
GATACCC450.00990111348.0000042
AGATGGT11350.046.942738
GATGGGA2350.045.9574479
AGATGGA23450.042.678048
TGTGAAC1557.894414E-1041.8064547
CAATAAG4000.039.61
GATGGCT11350.037.427319
TCTGAAC3500.037.028573
GTTCCCG2550.036.705881
Produced by FastQC (version 0.11.2)