FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n02_brain_ifn--_red-b-red_transmission_pcr3.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n02_brain_ifn--_red-b-red_transmission_pcr3.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences584069
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

[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

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
GTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCA47620.8153146289222677No Hit
TATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTG28580.4893257474716172No Hit
CCATAAGTCCTCCCTTTTTCCTAGATAGGGAATGTCTGTCCATTTTGTTA25590.438133165773222No Hit
GTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGGAG22970.39327545204419345No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG19430.3326661747156586No Hit
CCTTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATA18860.32290705378987755No Hit
ATACAGGACATGGGCCTACCATGGGAGCTACGAAGCCCCCACGCAAGGAT15250.2610992879265977No Hit
GATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCACAGTG15040.2575038223223626No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG14560.24928561522696802No Hit
CGTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCC13690.2343901148665654No Hit
CTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTG12810.2193234018583421No Hit
GTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTCTGCATGTTCATT12310.21076276946730607No Hit
TCTCTACACACTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAG12280.21024913152384392No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC11950.20459911414576018No Hit
CCATGTTGACTGTGTCTTTGATGTTTTCAGCCCAAGTGGTGCGGGGTCTG11900.20374305090665656No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT11760.2013460738371665No Hit
GTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCC10980.18799148730715035No Hit
ATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGAC10700.1831975331681702No Hit
CTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAGGGCCGACATC10610.1816566193377837No Hit
GTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCCTAT9400.16093988895147662No Hit
ATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCAT9250.15837169923416583No Hit
CTACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCC9140.1564883601081379No Hit
TCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTGGG8910.15255046920826135No Hit
GACTAATCCTCCCCCATGCCTACGTTGCAGTCGCTCCATGGTTTCCATCA8890.1522080439126199No Hit
CTCTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAA8760.14998227949095055No Hit
GTCCTGAAGTGGAAGAGACACGAACACTCAGAGTGCTCTCTATGGTGGGG8670.14844136566056407No Hit
TCCCTTATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGG8670.14844136566056407No Hit
GCCCAAGTGGTGCGGGGTCTGTGCCCTATAAGGGATCCACACCATAAGTC8590.14707166447799833No Hit
CTCCAGTGCTGTGCTGCTGCGGACCGCCTGGGGATGGGGGGAGGCTGGAG8370.14330498622594248No Hit
CTCTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTT8330.1426201356346596No Hit
ATTTTATGCATGGGACCTTGGAGTCCCGCTGCTAATGATGGGTTGCTATT8310.14227771033901818No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA8260.14142164709991456No Hit
GTGTACAACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAA8090.13851103208696233No Hit
GTTCATTACCTGGCGAGTGCCTTCTTGGGGATCTGGCACCCTGGTGTCCA7800.13354586530016144No Hit
ACCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGA7710.13200495146977498No Hit
GAATAGTGGTAACTGACATTGACACAATGACAATAGACCCCCAGGTGGAG7700.13183373882195426No Hit
TCTTTCCTCCTGGTGCCCGATTCATTTCTTCTAGAATGTATCCAAGTCTT7700.13183373882195426No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG7680.13149131352631283No Hit
ATCCACTAGGGCCCAAAACCTTGGATCATTCACAGCTTCCACAGCCGTCT7600.13012161234374706No Hit
CTGTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGG7600.13012161234374706No Hit
GGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATC7550.12926554910464347No Hit
GGTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTC7500.12840948586553988No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC7320.1253276582047669No Hit
TCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACA7300.12498523290912546No Hit
TTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATAGA7280.12464280761348401No Hit
GTACCAGATGGCGCGGCTACCTTTTGCTTTCCCGAACTCTCCTTGCTTCT7210.12344431907873898No Hit
GTGTTACTCATAGCAGTAGCCATCTCCAGTGCTGTGCTGCTGCGGACCGC7110.1217321926005318No Hit
CTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAAAG7100.12156097995271106No Hit
TCCCCAGGCGGTCCGCAGCAGCACAGCACTGGAGATGGCTACTGCTATGA7080.12121855465706963No Hit
CATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGA7070.12104734200924891No Hit
GTAATGAACATAGTCTCTTCCTGGCTGTGGAAGGAGCTGGGGAAACGCAA7030.12036249141796602No Hit
GAGTAGAACTCCAGGGCCGACATCTGATTCAGACGAGCTTTCCACTTCTC7010.12002006612232459No Hit
TCCCAGGAGGAGCTGACTTGTGGTGGACACACTTTTTATGATGTTGCTCT6980.11950642817886244No Hit
CTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTCC6940.11882157758757955No Hit
TGGTAGGCCCATGTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTC6780.11608217522244803No Hit
GGTTAAGAGACGTGGAGGTGGGACGGGAGAGACTCTGGGAGAGAAGTGGA6720.11505489933552372No Hit
GGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATCTGCGG6720.11505489933552372No Hit
GTACTGGGTCTCTGGGGCAAAGAGCAACATCATAAAAAGTGTGTCCACCA6720.11505489933552372No Hit
CACAAAGGGAGGTCCCGGTCATGAAGAACCCATGCTGGTGCAAAGCTATG6640.11368519815295795No Hit
CTTTTTATGATGTTGCTCTTTGCCCCAGAGACCCAGTACATCTCATGTGT6540.11197307167475075No Hit
TCACTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATG6510.1114594337312886No Hit
GCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCCTATCCACTAGGG6510.1114594337312886No Hit
TCTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTC6380.10923366930961924No Hit
ATCTGGTACATGTGGTTGGGAGCCAGATTCTTGGAGTTTGAAGCTCTTGG6360.10889124401397779No Hit
GTGTCATCTGCGTACATCTTTCCTCCTGGTGCCCGATTCATTTCTTCTAG6340.10854881871833635No Hit
GGATTAGTCAGAGTGCCATTGTCTCGCAACTCCACACATGAGATGTACTG6320.10820639342269492No Hit
ACACCACACCATACGGCCAACAAAGAGTCTTCAAAGAAAAAGTGGACACC6310.1080351807748742No Hit
TCATACAACAACTACTCCTTAATGGCGATGGCCACACAAGCTGGAGTGCT6280.10752154283141205No Hit
CTTCAAATATTGCTCCCAGTGCTGCATTGCTGCGCACCTTGTTGATAAAC6210.106323054296667No Hit
ATGCAGCACTGGGAGCAATATTTGAAGAGGAAAAAGAATGGAAGACGGCT6200.10615184164884629No Hit
TCCCAAGGCTTTGACAGGAGTCTAACAACCCCGTTCACGAGGGAAGACGC6140.10512456576192196No Hit
CCACTATTCCATCCACAACGGGATTCTTCATGATGCCAGCTGCTGTCCTT6070.10392607722717692No Hit
ACCATGGGAGCTACGAAGCCCCCACGCAAGGATCAGCGTCTTCCCTCGTG6050.10358365193153549No Hit
TTTTATAAGAGTAGAACTCCAGGGCCGACATCTGATTCAGACGAGCTTTC6030.10324122663589405No Hit
GTGCTGCATTGCTGCGCACCTTGTTGATAAACTCTTCTTTGGTGCAGACG5960.10204273810114901No Hit
TACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGAAGGAGGAAAAAC5950.10187152545332828No Hit
CCTATGATCCTGCGCACCATGTTGACTGTGTCTTTGATGTTTTCAGCCCA5940.10170031280550756No Hit
CCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGAT5940.10170031280550756No Hit
GATAGTAGCTATCATTCTGCTTGTGGCGCACTACATGTACTTGATCCCAG5890.10084424956640398No Hit
GCTTCCACAGCCGTCTTCCATTCTTTTTCCTCTTCAAATATTGCTCCCAG5880.10067303691858324No Hit
GACTGACACCACACCATACGGCCAACAAAGAGTCTTCAAAGAAAAAGTGG5860.10033061162294181No Hit

[FAIL]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GCGCTAA100.007240609143.984856
CATCTAA1250.0109.437851
TCCGGGT554.6104105E-878.5371862
ATCTAAT2350.073.530481
CTGCCGT451.2356628E-463.9932634
TGCCGTG451.2356628E-463.9932635
CACTTGA702.4489782E-761.707796
CGTTGTA3650.061.1494871
TGTGGAC2750.052.3581243
CTAATGG3300.052.3581243
TCTAATG3350.051.576662
CTCCGGG859.3556446E-750.8225331
CCGGGTG859.3611743E-750.8181763
TAATGGG3850.046.7483254
GGACCCT1551.4551915E-1146.446726
TAGATAA19500.044.6722224
ATCTATA13200.044.1771662
AATGGGA4150.043.3689275
AGATAAG20050.043.0877345
CTATACA13700.042.564864
Produced by FastQC (version 0.11.2)