FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_male_transmission_brain_pcr2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_male_transmission_brain_pcr2.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences492263
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
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC61401.2473007315195332No Hit
TACTACAACCCATCAGAGTCCCTAATTACAATCTCTACATCATGGATGAA14060.2856196789114762No Hit
GGTCTGAACAGACCCTAGCATCCATCCATCTCGGTTTGAGCACTCTCTTC12340.2506790069536No Hit
CATTAATAGGGTCTACTACCCTCACAGCTGTCAATCCCAGGGCCATGACA11650.23666210948212643No Hit
GTTCAGACCATGCGGCCCTGAAGTCGTTCAAAGAATTCGCCGCTGGAAAA11300.22955208902558183No Hit
CTATTAATGTGGTAGGACTACTGTTACTCACAAGGAGTGGGAAGCGGAGC11100.22548922019327067No Hit
TACACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCC10180.20680002356463922No Hit
CAGTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCT10120.20558116291494588No Hit
TGCTAGTGCTGCTCAGAGGAGAGGACGTATAGGCAGGAACCCTAACAAAC10050.20415915882363694No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG9970.20253401129071247No Hit
GGATGAGAGTGGTGATTTCTCCTTGGTAGAGGAAGATGGTCCACCCATGA9910.20131515064101915No Hit
TATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTGGA9760.19826799901678577No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT9440.19176740888508786No Hit
CTCTAGGAGATGCCTAAAACCAGTCATACTTGATGGTGAGAGAGTCATCT9420.19136112200185673No Hit
AGATAAGGCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTG9410.19115797856024117No Hit
CTCCTAGAGTCTATGACCCGGTCAGCCTTGAAGTTGGCGCCCATCTCTGA8980.18242281057077211No Hit
GTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCTTC8810.17896937206330762No Hit
CCTTTTGTAACGTGCCACATGGTGTGGAAGACTCCCTCTTGCATGACTCC8320.16901534342414523No Hit
CCCCGTGAGAGCATGCTGCTAGCCCTGGCTTCGTGTCTTCTGCAAACTGC8290.16840591309929853No Hit
GTACAGAGTGATGACTCGCAGACTGCTAGGTTCAACACAGGTTGGAGTGG8090.16434304426698737No Hit
CTCTCATCCAGTGCCACGTCAAGCCGAGGACTGTTTCCAGTGACTTCCGC8070.16393675738375624No Hit
TCTCTGAGATGTCAGTTGTTATGACAAAGTCCCACTCTTGATTTTTTGTT8040.16332732705890957No Hit
GCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGT8000.16251475329244733No Hit
CATGTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGC7960.1617021795259851No Hit
TATCAGGCCAACGGCTGTGAGAACTTCACTAGGGGGCCAGCTCCGCTTCC7930.16109274920113842No Hit
CACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCCAC7880.16007703199306061No Hit
GTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGCCTGC7680.15601416316074943No Hit
GTGTGGAAGACTCCCTCTTGCATGACTCCCACTCCAACCTGTGTTGAACC7440.15113872056197603No Hit
CTTCCACACCATGTGGCACGTTACAAAAGGAGCCGCACTGAGGAGCGGTG7370.14971671647066712No Hit
CATTAATGGATTTGCTTTGGCCTGGTTGGCAATTCGAGCAATGGCCGTGC7340.14910728614582042No Hit
TCTCAGAGATGGGCGCCAACTTCAAGGCTGACCGGGTCATAGACTCTAGG7290.1480915689377426No Hit
GATATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTG7180.14585699107997147No Hit
GTACACTCCATCTGTGGTCTCTCCTTTCTTCACTTCTTTGGGAGCAGGCA7100.144231843547047No Hit
GTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGCTTG6840.13895011406504246No Hit
CTCTACATCATGGATGAAGCCCACTTCACAGACCCCTCAAGTATAGCTGC6710.1363092493240402No Hit
ACCCTGCAGGGACCTCAGGATCTCCGATCCTAGACAAATGTGGAAGAGTG6610.1342778149078846No Hit
CTCTTGGAGTGCTTGTGATTCTACTCATGGTGCAGGAGGGGTTGAAGAAG6590.1338715280246535No Hit
GTATGTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGC6540.1328558108165757No Hit
TACTCAAGGTGGTCCTGATGGCCATCTGTGGCATGAACCCAATAGCTATA6510.13224638049172902No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG6500.13204323705011345No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG6490.1318400936084979No Hit
TTACAAAAGGAGCCGCACTGAGGAGCGGTGAGGGAAGACTTGATCCATAC6310.12818351165941783No Hit
CTCTAACACCACTAGCTCGAGGCACACTGCTCGTGGCATGGAGAGCGGGC6190.1257457903600311No Hit
GTGCAGGAGGGGTTGAAGAAGAGAATGACCACAAAGATCATCATGAGCAC6190.1257457903600311No Hit
CCATTAATGAGGACCATCAAGTCACCTTCAAGAGCAGAGATCGCAGTTTG6090.12371435594387553No Hit
GCCATAGAGTCCTATCACTCTTCCACATTTGTCTAGGATCGGAGATCCTG6070.12330806906064441No Hit
TCATCAATGGATTTGCTTTGGCCTGGTTGGCAATTCGAGCAATGGCCGTG6050.1229017821774133No Hit
TTATAAGGCAGCGGCAGCCCAACTGCCGGAGACCCTAGAGACCATTATGC5890.11965148711156434No Hit
TCCCAGAGGGCGCCACTCCTTTTCCCAGTCTTCACATACACATACCACGC5770.11721376581217764No Hit
GATGTAGAGATTGTAATTAGGGACTCTGATGGGTTGTAGTAAGCGTGAAG5740.11660433548733096No Hit
GTATGGATCAAGTCTTCCCTCACCGCTCCTCAGTGCGGCTCCTTTTGTAA5710.11599490516248429No Hit
GCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTGACAGCGG5650.11477604451279091No Hit
GTGTTAGAGCAGCCAAGATTGGTAGAGCGATGTTGTCAGTGCGTGGCACG5590.11355718386309759No Hit
CCATACATGTACTCATCTCCAGGTTTGTTAGGGTTCCTGCCTATACGTCC5580.11335404042148202No Hit
GCACGCGCTGCTGCCGCTTGTAGGCCTGGGATCAAGTACATGTAGTGCGC5570.11315089697986645No Hit
GTTGTAGTAAGCGTGAAGTGAAAGTGGCATGGCACATCAAATCAACGATT5540.11254146665501978No Hit
ATACTGGGGGGATGTCAAGCAGGACTTGGTGTCATACTGTGGGCCTTGGA5520.11213517977178866No Hit
GTGTAAGTTATTCCGGCAGATGCAACCTGATAGGCTAGCCAGACGGGAAG5450.11071317568047974No Hit
GTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGGG5440.11051003223886417No Hit
GCTCATACCCGAGCCAGAGAAGCAAAGATCTCCCCAAGATAACCAGATGG5390.1094943150307864No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA5340.10847859782270859No Hit
CTCATGGGTGGACCATCTTCCTCTACCAAGGAGAAATCACCACTCTCATC5340.10847859782270859No Hit
CTTGTGGAGGGATCATGCTCCTCTCCCTGAAAGGGAAAGGTAGTGTGAAG5330.10827545438109304No Hit
GGCTGGACCCATGGCTGCAGTAGGCTTGCTAATTGTCAGCTATGTGGTCT5180.10522830275685965No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC5170.10502515931524409No Hit
AACTTACACAGACAGAAGATGGTGCTTTGATGGCACAACCAACAACACCA5150.10461887243201297No Hit
GGCCTGATATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGAT5150.10461887243201297No Hit
ATACTTGAGGGGTCTGTGAAGTGGGCTTCATCCATGATGTAGAGATTGTA5140.1044157289903974No Hit
GGAGTGTACAGAGTGATGACTCGCAGACTGCTAGGTTCAACACAGGTTGG5140.1044157289903974No Hit
TCCTGAAATAGTCCGTGAAGCCATAAAAAAGAGACTCCGGACAGTGATCT5120.10400944210716628No Hit
CATCAATGGATTTGCTTTGGCCTGGTTGGCAATTCGAGCAATGGCCGTGC5080.10319686834070405No Hit
ATGTTAGTGCTATAACCCAGGGAAAGAGGGAGGAGGAGACTCCGGTTGAA5060.10279058145747294No Hit
GCCTTATAAGGCCTGCTTCCAGTCTCTGCTCGCATGAGCACGGCGAGGTT5060.10279058145747294No Hit
TCTTCTGTCTGTGTAAGTTATTCCGGCAGATGCAACCTGATAGGCTAGCC5060.10279058145747294No Hit
ATGGAAGACAGCGTACCAGCAGAGGTGTGGACAAAGTATGGAGAGAAGAG5060.10279058145747294No Hit
GATAAGGCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTGA5020.1019780076910107No Hit
GGTATGAGCACCACCAGTAATAAAAACACAACAATGAGGACACATGCAAT4960.10075914704131735No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GAGATAA950.098.539391
GCCTGCA950.098.519373
AGATAAG2050.080.791211
TCATCAA1600.067.508961
ACTGGAG16100.062.6042823
CTGGAGA16650.062.265884
TGGAGAT16700.062.079455
GATAAAC350.003665547161.7099343
TCTGTGC502.0798747E-457.5959362
CCCAGGA3650.045.3666659
GGAGATG31600.036.2252926
CTGTGCC800.002106670335.997463
GATGGCT28400.033.2089279
ACTACAA8300.032.961532
TACTACA8450.032.382991
TACAACC8450.032.3764154
CTACAAC8500.032.1859663
CACTGGA34750.029.8338662
AGGAAAG3450.029.2153325
GCACTGG36650.028.4894541
Produced by FastQC (version 0.11.2)