FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n02_female_transmission_brain_pcr2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n02_female_transmission_brain_pcr2.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences531255
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

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC53361.004414076102813No Hit
CATTAATAGGGTCTACTACCCTCACAGCTGTCAATCCCAGGGCCATGACA14300.26917393718647353No Hit
GTGCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCCACAGATGGCCAT14230.26785630252891734No Hit
CTATTAATGTGGTAGGACTACTGTTACTCACAAGGAGTGGGAAGCGGAGC13310.2505388184581792No Hit
CCTTTTGTAACGTGCCACATGGTGTGGAAGACTCCCTCTTGCATGACTCC12350.23246840029740898No Hit
GGTCTGAACAGACCCTAGCATCCATCCATCTCGGTTTGAGCACTCTCTTC11560.2175979520192751No Hit
CAGTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCT11330.21326858100159055No Hit
AGATAAGGCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTG11210.2110097787314943No Hit
GGATGAGAGTGGTGATTTCTCCTTGGTAGAGGAAGATGGTCCACCCATGA10170.19143349239065985No Hit
TACTACAACCCATCAGAGTCCCTAATTACAATCTCTACATCATGGATGAA9590.18051594808519447No Hit
TATCAGGCCAACGGCTGTGAGAACTTCACTAGGGGGCCAGCTCCGCTTCC9560.17995124751767042No Hit
CCCCGTGAGAGCATGCTGCTAGCCCTGGCTTCGTGTCTTCTGCAAACTGC9510.1790100799051303No Hit
CTCTTGGAGTGCTTGTGATTCTACTCATGGTGCAGGAGGGGTTGAAGAAG9480.17844537933760624No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG8850.16658666741960076No Hit
TATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTGGA8740.1645160986720125No Hit
CTCTCATCCAGTGCCACGTCAAGCCGAGGGCTGTTTCCAGTGACTTCCGC8740.1645160986720125No Hit
CTCCTAGAGTCTATGACCCGGTCAGCCTTGAAGTTGGCGCCCATCTCTGA8350.15717499129419957No Hit
TACACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCC8100.15246915323149898No Hit
CTCTAGGAGATGCCTAAAACCAGTCATACTTGATGGTGATAGAGTCATCT8050.1515279856189589No Hit
CATTAATGGATTTGCTTTGGCCTGGTTGGCAATTCGAGCAATGGCCGTGC7970.1500221174388947No Hit
GATATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTG7950.14964565039387864No Hit
GTTCAGACCATGCGGCCCTGAAGTCGTTCAAAGAATTCGCCGCTGGAAAA7890.1485162492588305No Hit
GTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCTTC7820.14719861460127434No Hit
GCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGT7770.14625744698873422No Hit
GTGCAGGAGGGGTTGAAGAAGAGAATGACCACAAAGATCATCATGAGCAC7690.14475157880867004No Hit
CATGTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGC7430.13985750722346144No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT7250.136469303818317No Hit
TCTCTGAGATGTCAGTTGTTATGACAAAGTCCCACTCTTGATTTTTTGTT7090.13345756745818863No Hit
GTGTGGAAGACTCCCTCTTGCATGACTCCCACTCCAACCTGTGTTGAACC6900.12988113053053618No Hit
TGCTAGTGCTGCTCAGAGGAGAGGACGTATAGGCAGGAACCCTAACAAAC6880.12950466348552014No Hit
GTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGCCTGC6860.12912819644050408No Hit
GTGTTAGAGCAGCCAAGATTGGTAGAGCGATGTTGTCAGTGCGTGGCACG6730.1266811606478998No Hit
GCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTGACAGCGG6700.12611646008037572No Hit
GTACACTCCATCTGTGGTCTCTCCTTTCTTCACTTCTTTGGGAGCAGGCA6650.1251752924678356No Hit
CTCCCTCTTGCATGACTCCCACTCCAACCTGTGTTGAACCTAGCAGTCTG6590.12404589133278746No Hit
CACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCCAC6480.12197532258519919No Hit
ACTTAGTGAGGTCAATGGTGACAGCGGGGTCAACCGATCATATGGACCAC6480.12197532258519919No Hit
GATAAGGCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTGA6460.12159885554018315No Hit
GGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTGACAGCGGGGTCA6450.12141062201767513No Hit
CATCAATGGCAGTGCTGGTAGTCATGATCTTGGGAGGATTTTCAATGAGT6340.11934005327008687No Hit
GTACATGTCCACACTCTTTCCCGAGACCACATAGCTAACAATTAGCAAGC6300.11858711918005477No Hit
GCTATTGGGTTCATGCCACAGATGGCCATCAGGACCACCTTGAGTATGAT6190.11651655043246653No Hit
TGCTAATTGTTAGCTATGTGGTCTCGGGAAAGAGTGTGGACATGTACATT6160.11595184986494245No Hit
GGCCTGATATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGAT6140.1155753828199264No Hit
GTACAGAGTGATGACTCGCAGACTGCTAGGTTCAACACAGGTTGGAGTGG6050.11388128111735418No Hit
CCTTGAGTATGATCTCTCTCATGGGTGGACCATCTTCCTCTACCAAGGAG6040.11369304759484616No Hit
GCCATAGAGTCCTATCACTCTTCCACATTTGTCTAGGATCGGAGATCCTG5990.11275187998230606No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA5950.11199894589227395No Hit
GTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGCTTG5950.11199894589227395No Hit
GAGTATGATCTCTCTCATGGGTGGACCATCTTCCTCTACCAAGGAGAAAT5920.1114342453247499No Hit
CTTGTGGAGGGATCATGCTCCTCTCCCTGAAAGGGAAAGGTAGTGTGAAG5870.11049307771220976No Hit
CTCTAACACCACTAGCTCGAGGCACACTGCTCGTGGCATGGAGAGCGGGC5830.10974014362217768No Hit
TACTCAAGGTGGTCCTGATGGCCATCTGTGGCATGAACCCAATAGCTATA5820.10955191009966965No Hit
ACCCTGCAGGGACCTCAGGATCTCCGATCCTAGACAAATGTGGAAGAGTG5770.10861074248712953No Hit
GGAGCATGATCCCTCCACAAGTAGCCAGGCCCGCTCTCCATGCCACGAGC5720.10766957487458942No Hit
GGTATAGCTATTGGGTTCATGCCACAGATGGCCATCAGGACCACCTTGAG5700.10729310782957337No Hit
TCTCAGAGATGGGCGCCAACTTCAAGGCTGACCGGGTCATAGACTCTAGG5650.10635194021703326No Hit
GATGTAGAGATTGTAATTAGGGACTCTGATGGGTTGTAGTAAGCGTGAAG5510.10371667090192092No Hit
CTTCCACACCATGTGGCACGTTACAAAAGGAGCCGCACTGAGGAGCGGTG5500.10352843737941289No Hit
GGCTGGACCCATGGCTGCAGTAGGCTTGCTAATTGTTAGCTATGTGGTCT5470.10296373681188883No Hit
GGCCAAGCTTGTGATCCTGATGGGTGCTACTTTCGCAGAAATGAACACTG5450.10258726976687278No Hit
TCTTCTGTCTGTGTAAGTTATTCCGGCAGATGCAACCTGATAGGCTAGCC5440.10239903624436476No Hit
GTCTTCCATTATGGTGTTGTTGGTTGTGCCATCAAAGCACCATCTTCTGT5410.10183433567684068No Hit
TTTAAAGTCAGACCAGCCTTGCTGGTCTCCTTCATTTTCAGAGCCAATTG5390.10145786863182465No Hit
GTATGTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGC5380.10126963510931662No Hit
TTAATAGGGTCTACTACCCTCACAGCTGTCAATCCCAGGGCCATGACAAA5380.10126963510931662No Hit
CTCCCACTCCAACCTGTGTTGAACCTAGCAGTCTGCGAGTCATCACTCTG5350.10070493454179255No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
AGATAAG2000.0111.6050341
GCCTGCA3300.089.450163
CTGGAGA17850.068.164724
TGGAGAT17900.067.5721055
ACTGGAG19650.061.187843
GATGGTA701.7672419E-551.4212049
AACTTGA450.0099093547.993137
TCTGTGC2400.045.002032
CCCAGGA5350.044.4048549
GGAGATG35750.038.062476
TGCCTGA900.003750884432.0014462
TACTACA6000.031.2014061
CTGTGCC3750.030.7184933
GATGGCT31450.030.215079
CTGAACA7350.029.3863164
TACAACC6400.029.2485664
ACTACAA6200.029.0335672
GAACAGA7450.028.9918656
GAGATGG42200.028.8299947
TGAACAG7550.028.6078685
Produced by FastQC (version 0.11.2)