FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_male_transmission_brain_pcr3.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_male_transmission_brain_pcr3.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences387987
Sequences flagged as poor quality0
Sequence length150
%GC49

[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
GTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCA29730.7662627871552397No Hit
CCATAAGTCCTCCCTTTTTCCTAGATAGGGAATGTCTGTCCATTTTGTTA25040.6453824483810024No Hit
TATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTG19060.4912535729289899No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG12850.3311966638057461No Hit
GTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGGAG12370.3188251152744809No Hit
CCATGTTGACTGTGTCTTTGATGTTTTCAGCCCAAGTGGTGCGGGGTCTG10120.2608334815341751No Hit
ATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCAT9880.2546477072685425No Hit
GCCCAAGTGGTGCGGGGTCTGTGCCCTATAAGGGATCCACACCATAAGTC9470.24408034289808678No Hit
CCTTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATA9430.24304938052048136No Hit
CTCTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTT9170.23634812506604605No Hit
GATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCACAGTG9000.2319665349612229No Hit
ATACAGGACATGGGCCTACCATGGGAGCTACGAAGCCCCCACGCAAGGAT8620.2221723923739713No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG8220.21186276859791695No Hit
CTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTG8190.21108954681471284No Hit
TCTCTACACACTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAG7660.19742929531144085No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT7400.1907280398570055No Hit
GTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTCTGCATGTTCATT7320.18866611510179465No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC7270.18737741212978787No Hit
TCACTGAAGTGTGTAGAGAGGAGGCTCGCCGTGCCCTCAAGGATGGAGTG6720.1732016794377131No Hit
GTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCC6480.1670159051720805No Hit
GTGTAGAGAGGAGGCTCGCCGTGCCCTCAAGGATGGAGTGGCCACAGGAG6390.16469623982246828No Hit
CTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCC6210.16005690912324383No Hit
GGGAAATCCATTGTGGTCCCTTGCCGCCACCAAGATGAACTGATTGGCCG6170.15902594674563839No Hit
CTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAGGGCCGACATC6120.1577372437736316No Hit
TCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTGGG6020.15515983782961798No Hit
GGTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTC5640.14536569524236637No Hit
GAATAGTGGTAACTGACATTGACACAATGACAATAGACCCCCAGGTGGAG5610.1445924734591623No Hit
ATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGAC5560.1433037704871555No Hit
TCCCCAGGCGGTCCGCAGCAGCACAGCACTGGAGATGGCTACTGCTATGA5550.14304602989275414No Hit
GGATCTCCCATCCTTGAGGTACAGCTTGTTGAAGTGGTGGGAGCAGAACG5490.141499586326346No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG5490.141499586326346No Hit
CTCCAGTGCTGTGCTGCTGCGGACCGCCTGGGGATGGGGGGAGGCTGGAG5340.1376334774103256No Hit
CTACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCC5260.13557155265511472No Hit
CGTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCC5220.1345405902775093No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA5140.13247866552229842No Hit
GTGTACAACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAA5100.131447703144693No Hit
TTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATAGA4920.12680837244546855No Hit
CTCTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAA4820.12423096650145496No Hit
GAATGTCTGTCCATTTTGTTACAGGAGTCTTGTCCTCCATATGGTCGTTC4780.1232000041238495No Hit
TCCCTTATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGG4760.1226845229350468No Hit
CCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCATGGATTGAC4670.12036485758543457No Hit
CTGTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGG4640.11959163580223049No Hit
GACTAATCCTCCCCCATGCCTACGTTGCAGTCGCTCCATGGTTTCCATCA4620.11907615461342776No Hit
ACCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGA4550.11727197045261827No Hit
AGGATGGGAGATCCATTGTGGTCCCTTGCCGCCACCAAGATGAACTGATT4540.11701422985821691No Hit
GTACCAGATGGCGCGGCTACCTTTTGCTTTCCCGAACTCTCCTTGCTTCT4460.11495230510300604No Hit
ATTTTATGCATGGGACCTTGGAGTCCCGCTGCTAATGATGGGTTGCTATT4370.1126326397533938No Hit
GTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCCTAT4330.11160167737578836No Hit
TCCCAGGAGGAGCTGACTTGTGGTGGACACACTTTTTATGATGTTGCTCT4290.11057071499818293No Hit
CCTATGATCCTGCGCACCATGTTGACTGTGTCTTTGATGTTTTCAGCCCA4280.11031297440378157No Hit
GTAATGAACATAGTCTCTTCCTGGCTGTGGAAGGAGCTGGGGAAACGCAA4280.11031297440378157No Hit
ATCCACTAGGGCCCAAAACCTTGGATCATTCACAGCTTCCACAGCCGTCT4270.11005523380938022No Hit
GAAGAGACCTTCGACTGATGGCTAATGCCATTTGCTCGGCTGTGCCAGTT4260.10979749321497886No Hit
TACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGAAGGAGGAAAAAC4250.10953975262057751No Hit
CCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGAT4220.1087665308373734No Hit
TCATACAACAACTACTCCTTAATGGCGATGGCCACACAAGCTGGAGTGCT4200.1082510496485707No Hit
TGGTAGGCCCATGTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTC4180.10773556845976799No Hit
TCTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTC4160.10722008727096527No Hit
CTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAAAG4150.1069623466765639No Hit
TTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTCCATGTACTTTT4140.10670460608216253No Hit
CCACTATTCCATCCACAACGGGATTCTTCATGATGCCAGCTGCTGTCCTT4090.10541590311015575No Hit
TCCCAAGGCTTTGACAGGAGTCTAACAACCCCGTTCACGAGGGAAGACGC4090.10541590311015575No Hit
GTGTTACTCATAGCAGTAGCCATCTCCAGTGCTGTGCTGCTGCGGACCGC4050.10438494073255031No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC4040.10412720013814895No Hit
GTTCATTACCTGGCGAGTGCCTTCTTGGGGATCTGGCACCCTGGTGTCCA4040.10412720013814895No Hit
ATCTGGTACATGTGGTTGGGAGCCAGATTCTTGGAGTTTGAAGCTCTTGG3970.10232301597733946No Hit
TCACTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATG3940.10154979419413537No Hit
ATTAAATACACATACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGA3940.10154979419413537No Hit
GCTAATGATGGGTTGCTATTCACAATTAACACCCCTGACTCTGATAGTAG3930.101292053599734No Hit
CATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGA3920.10103431300533265No Hit
TCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACA3900.10051883181652994No Hit
TTCTAGAAGAAATGAATCGGGCACCAGGAGGAAAGATGTACGCAGATGAC3890.10026109122212859No Hit
CTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTCC3880.10000335062772722No Hit

[FAIL]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TGTCTAC100.0072347675144.017531
TGCGAAA100.007237556143.998983
AGTACGT100.007237556143.998985
TAGTACG100.007237556143.998984
TCCGGGT256.6861903E-6115.199182
GTTCCTA203.9722226E-4107.999236
TTTCCAG259.644165E-486.399382
AGCTATA259.644165E-486.399382
GGACCCT2050.073.755576
TGTGGAC2750.070.69043
GACCCTT2100.068.570947
TGGACCC2300.065.7386555
ATCTAAT2000.064.807891
CTCCGGG451.2337553E-464.00781
CCGGGTG451.2345426E-463.9995423
GTGGACC2400.062.9995464
CTAATGG2150.060.2786373
TCTAATG2200.058.9086652
TAATGGG2250.057.5995864
CATCTAA1154.1836756E-1156.3546871
Produced by FastQC (version 0.11.2)