FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n02_infko_m-red_spinal_cord_pcr3.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n02_infko_m-red_spinal_cord_pcr3.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences627812
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

[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
GTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCA32290.5143259447095627No Hit
TATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTG25720.40967678222142934No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG17160.2733302326174078No Hit
GTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGGAG16500.2628175313628921No Hit
GGTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTC15910.2534198135747644No Hit
CCTTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATA12450.19830777366472768No Hit
CCTATGATCCTGCGCACCATGTTGACTGTGTCTTTGATGTTTTCAGCCCA12180.1940071231515167No Hit
GATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCACAGTG12040.19177715621874064No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT11850.18875077252425884No Hit
CCATAAGTCCTCCCTTTTTCCTAGATAGGGAATGTCTGTCCATTTTGTTA11700.18636152223914165No Hit
ATACAGGACATGGGCCTACCATGGGAGCTACGAAGCCCCCACGCAAGGAT11110.176963804451014No Hit
GTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTCTGCATGTTCATT10990.17505240422292023No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC10960.17457455416589682No Hit
GTACCAGATGGCGCGGCTACCTTTTGCTTTCCCGAACTCTCCTTGCTTCT10930.17409670410887335No Hit
TACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGAAGGAGGAAAAAC10660.1697960535956624No Hit
TTCTAGAAGAAATGAATCGGGCACCAGGAGGAAAGATGTACGCAGATGAC10360.165017553025428No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG10340.1646989863207457No Hit
ATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGAC10310.16422113626372226No Hit
ATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCAT10190.16230973603562848No Hit
ATCTGGTACATGTGGTTGGGAGCCAGATTCTTGGAGTTTGAAGCTCTTGG10100.16087618586455818No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA9940.15832765222709982No Hit
GGTTAAGAGACGTGGAGGTGGGACGGGAGAGACTCTGGGAGAGAAGTGGA9240.14717781756321957No Hit
CTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTG9220.14685925085853727No Hit
ATTAAATACACATACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGA9000.14335501710703205No Hit
TTCCTAGATAGGGAATGTCTGTCCATTTTGTTACAGGAGTCTTGTCCTCC8970.14287716705000858No Hit
GTATTTAATCACGGCCAACGCCAGAGTTCTGTGCCCTTCCTCCATTTGGT8820.1404879167648914No Hit
ATCCACTAGGGCCCAAAACCTTGGATCATTCACAGCTTCCACAGCCGTCT8660.13793938312743304No Hit
TCCCTTATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGG8540.1360279828993393No Hit
CTACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCC8290.13204589909081063No Hit
TTTCAAGACAAGACCAGAGAGGGAGTGGACAAGTTGTCACTTATGCTCTC8250.13140876568144605No Hit
CTCTAACACTTCCTCAGCTTCCATGTTCCGGATAAGCTGCACCACCAAGT8160.12997521551037572No Hit
GAATAGTGGTAACTGACATTGACACAATGACAATAGACCCCCAGGTGGAG8100.12901951539632883No Hit
TCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTGGG8090.1288602320439877No Hit
GTGTACAACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAA8010.1275859652252585No Hit
GTTCATTACCTGGCGAGTGCCTTCTTGGGGATCTGGCACCCTGGTGTCCA7950.12663026511121164No Hit
TTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTCCATGTACTTTT7930.12631169840652934No Hit
CTATAAGGGATCCACACCATAAGTCCTCCCTTTTTCCTAGATAGGGAATG7920.1261524150541882No Hit
TCTCTACACACTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAG7910.12599313170184703No Hit
ATCCTAACCCTTCGACTCCACCTCCTGAGTTTTCTCTTCCCATCCAATGG7750.1234445980643887No Hit
CATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGA7710.12280746465502411No Hit
CTCTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTT7630.12153319783629495No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG7540.12009964766522463No Hit
GAAGAGACCTTCGACTGATGGCTAATGCCATTTGCTCGGCTGTGCCAGTT7520.11978108096054232No Hit
GTAATGAACATAGTCTCTTCCTGGCTGTGGAAGGAGCTGGGGAAACGCAA7490.11930323090351888No Hit
GGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATC7450.1186660974941543No Hit
GACTAATCCTCCCCCATGCCTACGTTGCAGTCGCTCCATGGTTTCCATCA7450.1186660974941543No Hit
CTCTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAA7390.11771039738010741No Hit
CTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAGGGCCGACATC7290.11611756385669594No Hit
GTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCC7270.11579899715201365No Hit
CTCCAGTGCTGTGCTGCTGCGGACCGCCTGGGGATGGGGGGAGGCTGGAG7250.11548043044733138No Hit
GTGTTAGAGATGCAAGACTTATGGTTGTTGAGGAAGCCAGAGAAAGTGAC7240.11532114709499022No Hit
TCCCAGGAGGAGCTGACTTGTGGTGGACACACTTTTTATGATGTTGCTCT7170.1142061636286022No Hit
GAGTAGAACTCCAGGGCCGACATCTGATTCAGACGAGCTTTCCACTTCTC7160.11404688027626105No Hit
CCATATGGTCGTTCTCCTCAATCCACACTCTATTCCACACCATGAGCATG7110.11325046351455532No Hit
TCCATGGATTGACCAGGTGGTTCTCCCAGTTGGTACCCAGTCAACTGGCA7090.112931896809873No Hit
GTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTCC7060.11245404675284958No Hit
GGTTAGGATTGCAAAGACTTGGATACATTCTAGAAGAAATGAATCGGGCA7040.11213548004816729No Hit
CCACTATTCCATCCACAACGGGATTCTTCATGATGCCAGCTGCTGTCCTT7030.11197619669582615No Hit
TTTTATAAGAGTAGAACTCCAGGGCCGACATCTGATTCAGACGAGCTTTC6880.10958694641070893No Hit
CTTCAAATATTGCTCCCAGTGCTGCATTGCTGCGCACCTTGTTGATAAAC6670.10624199601154485No Hit
ATTTTATGCATGGGACCTTGGAGTCCCGCTGCTAATGATGGGTTGCTATT6580.10480844584047452No Hit
ATCCCATCCATTGCTCTGCAACCATCTGGTCACTTTCTCTGGCTTCCTCA6560.10448987913579223No Hit
CTTTTTATGATGTTGCTCTTTGCCCCAGAGACCCAGTACATCTCATGTGT6530.1040120290787688No Hit
TCCCCAGGCGGTCCGCAGCAGCACAGCACTGGAGATGGCTACTGCTATGA6510.10369346237408651No Hit
TCCTTGAGGTACAGCTTGTTGAAGTGGTGGGAGCAGAACGGGACTTCTTC6490.10337489566940422No Hit
CTTCTAGAATGTATCCAAGTCTTTGCAATCCTAACCCTTCGACTCCACCT6480.10321561231706305No Hit
CCATGTTGACTGTGTCTTTGATGTTTTCAGCCCAAGTGGTGCGGGGTCTG6460.10289704561238078No Hit
CACAAAGGGAGGTCCCGGTCATGAAGAACCCATGCTGGTGCAAAGCTATG6390.10178206214599275No Hit
TAAATACACATACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGAAG6280.10002994527024014No Hit

[FAIL]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CGGGACG100.007243671143.965355
TCCGGGT202.2072654E-6143.965352
CATCTAA1300.099.676261
ATCTAAT2600.083.063551
TGTGGAC4500.075.18193
TGGACCC4300.073.656695
ACGTTGT502.4054243E-671.982675
CACGTTG502.4054243E-671.982674
GGACCCT4400.071.9826666
GTGGACC4550.069.609624
GACCCTT4550.069.598537
TCTAATG3300.065.43882
CGTTGTA554.236108E-665.438796
TAATGGG3400.063.5141264
CACACGT607.0976985E-659.985562
CTAATGG3650.059.1638373
ACACGTT502.0820674E-457.586143
GTATAGC400.006221710753.9913021
AATGGGA4050.053.3204965
GGGTGTG1101.7826096E-952.35521
Produced by FastQC (version 0.11.2)