FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_female_transmission_spleen_pcr2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_female_transmission_spleen_pcr2.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences542484
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

[OK]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
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC72271.332205189461809No Hit
TACTACAACCCATCAGAGTCCCTAATTACAATCTCTACATCATGGATGAA15280.28166729341326197No Hit
GGTCTGAACAGACCCTAGCATCCATCCATCTCGGTTTGAGCACTCTCTTC14950.2755841646942583No Hit
GTTCAGACCATGCGGCCCTGAAGTCGTTCAAAGAATTCGCCGCTGGAAAA13420.24738056790615023No Hit
CTATTAATGTGGTAGGACTACTGTTACTCACAAGGAGTGGGAAGCGGAGC13260.244431172163603No Hit
CATTAATAGGGTCTACTACCCTCACAGCTGTCAATCCCAGGGCCATGACA12100.22304805303013545No Hit
TGCTAGTGCTGCTCAGAGGAGAGGACGTATAGGCAGGAACCCTAACAAAC12000.22120468069104343No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG11580.21346251686685688No Hit
CTCCTAGAGTCTATGACCCGGTCAGCCTTGAAGTTGGCGCCCATCTCTGA11440.21088179559212808No Hit
GGATGAGAGTGGTGATTTCTCCTTGGTAGAGGAAGATGGTCCACCCATGA11320.20866974878521763No Hit
CTCTAGGAGATGCCTAAAACCAGTCATACTTGATGGTGATAGAGTCATCT11230.20701071368003482No Hit
TACACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCC11060.20387698070357835No Hit
GTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCTTC10880.2005589104932127No Hit
CATGTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGC10730.19779385198457466No Hit
TATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTGGA9970.18378422220747523No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT9970.18378422220747523No Hit
CAGTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCT9920.18286253603792924No Hit
CCCCGTGAGAGCATGCTGCTAGCCCTGGCTTCGTGTCTTCTGCAAACTGC9710.17899145412583597No Hit
CACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCCAC9700.17880711689192677No Hit
AGATAAGGCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTG9300.17143362753555866No Hit
TCTCTGAGATGTCAGTTGTTATGACAAAGTCCCACTCTTGATTTTTTGTT9290.17124929030164943No Hit
CTCTCATCCAGTGCCACGTCAAGCCGAGGGCTGTTTCCAGTGACTTCCGC9130.1682998945591022No Hit
GCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGT9090.16756254562346537No Hit
GTGTGGAAGACTCCCTCTTGCATGACTCCCACTCCAACCTGTGTTGAACC8910.16424447541309975No Hit
CTTCCACACCATGTGGCACGTTACAAAAGGAGCCGCACTGAGGAGCGGTG8800.1622167658400985No Hit
GATATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTG8750.1612950796705525No Hit
TATCAGGCCAACGGCTGTGAGAACTTCACTAGGGGGCCAGCTCCGCTTCC8570.15797700946018686No Hit
GTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGCCTGC8470.15613363712109482No Hit
GTACACTCCATCTGTGGTCTCTCCTTTCTTCACTTCTTTGGGAGCAGGCA8460.15594929988718562No Hit
GTACAGAGTGATGACTCGCAGACTGCTAGGTTCAACACAGGTTGGAGTGG8370.1542902647820028No Hit
CCTTTTGTAACGTGCCACATGGTGTGGAAGACTCCCTCTTGCATGACTCC8190.15097219457163713No Hit
ACCCTGCAGGGACCTCAGGATCTCCGATCCTAGACAAATGTGGAAGAGTG7940.14636376372390705No Hit
GTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGCTTG7850.14470472861872424No Hit
CTCTACATCATGGATGAAGCCCACTTCACAGACCCCTCAAGTATAGCTGC7780.1434143679813598No Hit
TACTCAAGGTGGTCCTGATGGCCATCTGTGGCATGAACCCAATAGCTATA7690.141755332876177No Hit
TCTCAGAGATGGGCGCCAACTTCAAGGCTGACCGGGTCATAGACTCTAGG7670.1413866584083586No Hit
TTATAAGGCAGCGGCAGCCCAACTGCCGGAGACCCTAGAGACCATTATGC7650.1410179839405402No Hit
GTATGTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGC7620.14046497223881257No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG7620.14046497223881257No Hit
GCCATAGAGTCCTATCACTCTTCCACATTTGTCTAGGATCGGAGATCCTG7600.14009629777099417No Hit
GATGTAGAGATTGTAATTAGGGACTCTGATGGGTTGTAGTAAGCGTGAAG6980.1286673892686236No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA6980.1286673892686236No Hit
GTCTTCCATTATGGTGTTGTTGGTTGTGCCATCAAAGCACCATCTTCTGT6850.12627100522780396No Hit
CCATACATGTACTCATCTCCAGGTTTGTTAGGGTTCCTGCCTATACGTCC6770.12479630735653033No Hit
CATTAATGGATTTGCTTTGGCCTGGTTGGCAATTCGAGCAATGGCCGTGC6740.12424329565480273No Hit
ATGTTAGTGCTATAACCCAGGGAAAGAGGGAGGAGGAGACTCCGGTTGAA6670.1229529350174383No Hit
TTACAAAAGGAGCCGCACTGAGGAGCGGTGAGGGAAGACTTGATCCATAC6650.12258426054961989No Hit
GTTGTAGTAAGCGTGAAGTGAAAGTGGCATGGCACATCAAATCAACGATT6590.12147823714616468No Hit
GTATGGATCAAGTCTTCCCTCACCGCTCCTCAGTGCGGCTCCTTTTGTAA6530.12037221374270946No Hit
TCTTCTGTCTGTGTAAGTTATTCCGGCAGATGCAACCTGATAGGCTAGCC6460.11908185310534505No Hit
TCCCAGAGGGCGCCACTCCTTTTCCCAGTCTTCACATACACATACCACGC6450.11889751587143584No Hit
GGCCTGATATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGAT6440.11871317863752665No Hit
ATACTGGGGGGATGTCAAGCAGGACTTGGTGTCATACTGTGGGCCTTGGA6340.11686980629843462No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG6330.1166854690645254No Hit
GGAGTGTACAGAGTGATGACTCGCAGACTGCTAGGTTCAACACAGGTTGG6330.1166854690645254No Hit
AACTTACACAGACAGAAGATGGTGCTTTGATGGCACAACCAACAACACCA6280.1157637828949794No Hit
CTTGTGGAGGGATCATGCTCCTCTCCCTGAAAGGGAAAGGTAGTGTGAAG6250.11521077119325178No Hit
GCCTTATAAGGCCTGCTTCCAGTCTCTGCTCGCATGAGCACGGCGAGGTT6250.11521077119325178No Hit
GTGTAAGTTATTCCGGCAGATGCAACCTGATAGGCTAGCCAGACGGGAAG6060.11170836374897694No Hit
ATGGAAGACAGCGTACCAGCAGAGGTGTGGACAAAGTATGGAGAGAAGAG6060.11170836374897694No Hit
CTCTAACACCACTAGCTCGAGGCACACTGCTCGTGGCATGGAGAGCGGGC6050.11152402651506772No Hit
CACATACACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCA6020.11097101481334012No Hit
TCCTGAAATAGTCCGTGAAGCCATAAAAAAGAGACTCCGGACAGTGATCT5980.11023366587770331No Hit
GTGCAGGAGGGGTTGAAGAAGAGAATGACCACAAAGATCATCATGAGCAC5970.1100493286437941No Hit
CTCTTGGAGTGCTTGTGATTCTACTCATGGTGCAGGAGGGGTTGAAGAAG5920.1091276424742481No Hit
ATACTTGAGGGGTCTGTGAAGTGGGCTTCATCCATGATGTAGAGATTGTA5880.10839029353861128No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC5830.10746860736906526No Hit
GCACTAGCATGCGTGACAGGCATGGGCCCAGCCAAGATGACTCTATCACC5830.10746860736906526No Hit
GCTCATACCCGAGCCAGAGAAGCAAAGATCTCCCCAAGATAACCAGATGG5700.10507222332824563No Hit
ATTTCAGGAAGAACTCTCCTGGTTTTTCCGGCTCCTGGATGCAGATCCAA5700.10507222332824563No Hit
CTCATGGGTGGACCATCTTCCTCTACCAAGGAGAAATCACCACTCTCATC5690.10488788609433641No Hit
GGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCT5670.104519211626518No Hit
ACTCTGTACACTCCATCTGTGGTCTCTCCTTTCTTCACTTCTTTGGGAGC5560.10249150205351679No Hit
GAGTATGATCTCTCTCATGGGTGGACCATCTTCCTCTACCAAGGAGAAAT5550.10230716481960758No Hit
GCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTGACAGCGG5540.10212282758569838No Hit
GTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGGG5540.10212282758569838No Hit
TACATGTACTCATCTCCAGGTTTGTTAGGGTTCCTGCCTATACGTCCTCT5510.10156981588397077No Hit
TGGTATGTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGT5500.10138547865006158No Hit
GCTCAGAGGAGAGGACGTATAGGCAGGAACCCTAACAAACCTGGAGATGA5450.10046379248051555No Hit
ATCATGGACACAGAAGTGGAAGTCCCAGAGAGAGCCTGGAGCTCAGGCTT5450.10046379248051555No Hit
CTCCCACTCCAACCTGTGTTGAACCTAGCAGTCTGCGAGTCATCACTCTG5450.10046379248051555No Hit
ATCATACTCAAGGTGGTCCTGATGGCCATCTGTGGCATGAACCCAATAGC5430.10009511801269715No Hit

[WARN]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
AGATAAG1750.0123.461761
GAGATAA301.6524828E-596.025811
TCTGTGC651.6498234E-977.545012
CTGTGCC702.9649527E-972.006083
ACTGGAG16400.071.5670243
TGGAGAT19850.059.8484085
CTGGAGA19900.059.698034
CCCAGGA3900.055.3841869
GGAGATG36150.039.2362146
AGGAAAG3700.035.026765
GATGGCT32450.034.8348669
CACTGGA36900.032.588122
TACTACA7800.032.316381
ACTACAA8150.031.8063682
TACAACC7700.030.8569074
CTACAAC8000.030.6025853
GCACTGG40850.030.147641
TCCTAAC200.006282603428.80243390-94
TCCATAG200.006285432728.7997840-44
GTATAAG200.006285432728.7997810-14
Produced by FastQC (version 0.11.2)