FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n02_infko_f-black_spinal_cord_pcr3.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n02_infko_f-black_spinal_cord_pcr3.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences556165
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
GTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCA44770.8049769402964948No Hit
CCATAAGTCCTCCCTTTTTCCTAGATAGGGAATGTCTGTCCATTTTGTTA24490.4403369503654491No Hit
TATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTG23520.4228960829969523No Hit
GTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGGAG18810.3382089847437361No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG17870.3213075256443681No Hit
CCTTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATA14760.2653888684113528No Hit
GATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCACAGTG13770.24758839553010348No Hit
ATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCAT13200.23733963841665695No Hit
ATACAGGACATGGGCCTACCATGGGAGCTACGAAGCCCCCACGCAAGGAT13060.23482239982738937No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG12330.22169679861192274No Hit
CTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTG12150.2184603489971501No Hit
GGTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTC11980.21540370213875376No Hit
CCATGTTGACTGTGTCTTTGATGTTTTCAGCCCAAGTGGTGCGGGGTCTG11430.20551455053805975No Hit
GTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTCTGCATGTTCATT11420.20533474778168348No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT10900.1959850044501182No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC10590.1904111190024543No Hit
ATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGAC10250.18429782528566163No Hit
CTCTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTT10200.18339881150378035No Hit
TCTCTACACACTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAG9760.17548749022322513No Hit
GTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCC9160.1646993248406498No Hit
AGTCCGCTACTTGGGTGGATAGATAGTCCATGTACTTTTCTTCATCACCT8330.14977569606142063No Hit
CTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAGGGCCGACATC8100.14564023266476675No Hit
CTACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCC8070.14510082439563798No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA8020.1442018106137567No Hit
GCCCAAGTGGTGCGGGGTCTGTGCCCTATAAGGGATCCACACCATAAGTC7780.13988654446072657No Hit
GTACCAGATGGCGCGGCTACCTTTTGCTTTCCCGAACTCTCCTTGCTTCT7770.13970674170435032No Hit
GTGTACAACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAA7770.13970674170435032No Hit
CATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGA7730.1389875306788453No Hit
GTTCATTACCTGGCGAGTGCCTTCTTGGGGATCTGGCACCCTGGTGTCCA7680.13808851689696403No Hit
ATCTGGTACATGTGGTTGGGAGCCAGATTCTTGGAGTTTGAAGCTCTTGG7680.13808851689696403No Hit
TACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGAAGGAGGAAAAAC7650.13754910862783526No Hit
CTATAAGGGATCCACACCATAAGTCCTCCCTTTTTCCTAGATAGGGAATG7570.1361106865768252No Hit
GTATTTAATCACGGCCAACGCCAGAGTTCTGTGCCCTTCCTCCATTTGGT7570.1361106865768252No Hit
GACTAATCCTCCCCCATGCCTACGTTGCAGTCGCTCCATGGTTTCCATCA7550.13575108106407272No Hit
TCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTGGG7350.1321550259365476No Hit
CTCTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAA7340.13197522318017135No Hit
TCCCTTATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGG7340.13197522318017135No Hit
CTCCAGTGCTGTGCTGCTGCGGACCGCCTGGGGATGGGGGGAGGCTGGAG7320.13161561766741886No Hit
CCTATGATCCTGCGCACCATGTTGACTGTGTCTTTGATGTTTTCAGCCCA7270.13071660388553757No Hit
GAATAGTGGTAACTGACATTGACACAATGACAATAGACCCCCAGGTGGAG7240.1301771956164088No Hit
ATCCACTAGGGCCCAAAACCTTGGATCATTCACAGCTTCCACAGCCGTCT7190.12927818183452752No Hit
TTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATAGA7180.12909837907815128No Hit
ATTTTATGCATGGGACCTTGGAGTCCCGCTGCTAATGATGGGTTGCTATT6960.12514271843787364No Hit
CTGTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGG6950.1249629156814974No Hit
GGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATC6830.12280528260498233No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG6800.12226587433585356No Hit
TTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTCCATGTACTTTT6690.12028804401571476No Hit
ACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAAAGCAAAA6630.11920922747745723No Hit
CTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCC6480.11651218613181341No Hit
TTCTAGAAGAAATGAATCGGGCACCAGGAGGAAAGATGTACGCAGATGAC6450.11597277786268463No Hit
ACCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGA6350.11417475029892209No Hit
ATTAAATACACATACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGA6330.11381514478616957No Hit
TTCCTAGATAGGGAATGTCTGTCCATTTTGTTACAGGAGTCTTGTCCTCC6320.11363534202979331No Hit
CTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAAAG6290.11309593376066455No Hit
GAAGAGACCTTCGACTGATGGCTAATGCCATTTGCTCGGCTGTGCCAGTT6250.11237672273515953No Hit
TCCCAGGAGGAGCTGACTTGTGGTGGACACACTTTTTATGATGTTGCTCT6240.11219691997878328No Hit
GGTTAAGAGACGTGGAGGTGGGACGGGAGAGACTCTGGGAGAGAAGTGGA6180.11111810344052575No Hit
TCTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTC6160.11075849792777323No Hit
GTAATGAACATAGTCTCTTCCTGGCTGTGGAAGGAGCTGGGGAAACGCAA6140.11039889241502072No Hit
GGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATCTGCGG6140.11039889241502072No Hit
GACTTGTGGTGGACACACTTTTTATGATGTTGCTCTTTGCCCCAGAGACC6090.10949987863313945No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC6070.10914027312038693No Hit
GTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCCTAT6050.10878066760763441No Hit
TCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACA5960.10716244280024813No Hit
CTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTCC5850.10518461248010932No Hit
TCATACAACAACTACTCCTTAATGGCGATGGCCACACAAGCTGGAGTGCT5850.10518461248010932No Hit
CTCTAACACTTCCTCAGCTTCCATGTTCCGGATAAGCTGCACCACCAAGT5820.10464520421098054No Hit
TCCCCAGGCGGTCCGCAGCAGCACAGCACTGGAGATGGCTACTGCTATGA5810.10446540145460431No Hit
GTCCTGAAGTGGAAGAGACACGAACACTCAGAGTGCTCTCTATGGTGGGG5800.10428559869822805No Hit
GGATTAGTCAGAGTGCCATTGTCTCGCAACTCCACACATGAGATGTACTG5760.10356638767272301No Hit
CCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCATGGATTGAC5730.10302697940359426No Hit
GTGTTACTCATAGCAGTAGCCATCTCCAGTGCTGTGCTGCTGCGGACCGC5730.10302697940359426No Hit
CACAAAGGGAGGTCCCGGTCATGAAGAACCCATGCTGGTGCAAAGCTATG5680.10212796562171299No Hit
TGGTAGGCCCATGTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTC5680.10212796562171299No Hit
TCCCAAGGCTTTGACAGGAGTCTAACAACCCCGTTCACGAGGGAAGACGC5650.10158855735258421No Hit
TCACTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATG5630.10122895183983172No Hit
ATCCCATCCATTGCTCTGCAACCATCTGGTCACTTTCTCTGGCTTCCTCA5590.10050974081432668No Hit

[FAIL]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
AGTATCG100.007242173143.973835
ATAAACG100.007242173143.973834
GCTCGAC100.007242173143.973832
GACCTAG100.0072441204143.960887
CATCTAA1850.0108.953171
TCCGGGT352.879442E-7102.838452
TGCCGTG259.653071E-486.384295
CTCCGGG451.2853179E-679.985461
CCGGGTG502.404222E-671.9869163
TGTGGAC4600.068.857053
TGGACCC4000.068.3875665
GGACCCT4000.068.3875666
GACCCTT4000.068.3814247
ATCTAAT3000.067.187792
GTGGACC4300.065.290454
TCCGCTA2400.062.988553
CCGCTAC2400.062.988554
CTACTTG2350.061.2599537
CACACGT2050.059.6964652
CCACACG2050.059.6964651
Produced by FastQC (version 0.11.2)