FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_infko_m-black_spinal_cord_pcr3.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_infko_m-black_spinal_cord_pcr3.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences363749
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
GTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCA22850.6281804211145597No Hit
TATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTG16620.456908472600612No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG12050.3312723883777No Hit
GTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGGAG10380.2853616092415374No Hit
CCATAAGTCCTCCCTTTTTCCTAGATAGGGAATGTCTGTCCATTTTGTTA9880.27161586698520135No Hit
GATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCACAGTG8620.23697659649923436No Hit
ATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCAT7960.21883221672087072No Hit
CCTTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATA7770.21360883466346298No Hit
ATACAGGACATGGGCCTACCATGGGAGCTACGAAGCCCCCACGCAAGGAT7730.21250917528295613No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC7640.2100349416768156No Hit
GGTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTC7370.2026122408583941No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT7280.2001380072522536No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG6930.19051598767281833No Hit
TCACTGAAGTGTGTAGAGAGGAGGCTCGCCGTGCCCTCAAGGATGGAGTG6780.18639226499591752No Hit
GTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTCTGCATGTTCATT6550.1800692235580029No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA6430.17677024541648223No Hit
CTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTG6360.1748458415005952No Hit
CCTATGATCCTGCGCACCATGTTGACTGTGTCTTTGATGTTTTCAGCCCA6320.1737461821200883No Hit
TACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGAAGGAGGAAAAAC6040.1660485664565401No Hit
GTACCAGATGGCGCGGCTACCTTTTGCTTTCCCGAACTCTCCTTGCTTCT5980.16439907738577977No Hit
CTCTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTT5850.16082518439913238No Hit
TCTCTACACACTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAG5700.15670146172223154No Hit
ATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGAC5700.15670146172223154No Hit
CCATGTTGACTGTGTCTTTGATGTTTTCAGCCCAAGTGGTGCGGGGTCTG5680.1561516320319781No Hit
TTCCTAGATAGGGAATGTCTGTCCATTTTGTTACAGGAGTCTTGTCCTCC5540.15230282420020397No Hit
TTCTAGAAGAAATGAATCGGGCACCAGGAGGAAAGATGTACGCAGATGAC5460.1501035054391902No Hit
CTACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCC5450.14982859059406348No Hit
TCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTGGG5370.14762927183304972No Hit
ATCTGGTACATGTGGTTGGGAGCCAGATTCTTGGAGTTTGAAGCTCTTGG5360.14735435698792299No Hit
GTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCC5320.1462546976074161No Hit
GTATTTAATCACGGCCAACGCCAGAGTTCTGTGCCCTTCCTCCATTTGGT5240.14405537884640232No Hit
TTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTCCATGTACTTTT5160.14185606008538854No Hit
CTCCAGTGCTGTGCTGCTGCGGACCGCCTGGGGATGGGGGGAGGCTGGAG5150.14158114524026183No Hit
TCCCTTATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGG5110.14048148585975495No Hit
CTATAAGGGATCCACACCATAAGTCCTCCCTTTTTCCTAGATAGGGAATG5080.13965674132437478No Hit
GTGTAGAGAGGAGGCTCGCCGTGCCCTCAAGGATGGAGTGGCCACAGGAG5080.13965674132437478No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG5050.13883199678899463No Hit
ATTAAATACACATACCAAAACAAAGTGGTGAAGGTTCTCAGACCAGCTGA4990.13718250771823426No Hit
GAATAGTGGTAACTGACATTGACACAATGACAATAGACCCCCAGGTGGAG4950.13608284833772738No Hit
ATTTTATGCATGGGACCTTGGAGTCCCGCTGCTAATGATGGGTTGCTATT4940.13580793349260067No Hit
ATCCACTAGGGCCCAAAACCTTGGATCATTCACAGCTTCCACAGCCGTCT4920.13525810380234723No Hit
CTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAGGGCCGACATC4810.13223404050595328No Hit
CATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGA4760.13085946628031966No Hit
CCATATGGTCGTTCTCCTCAATCCACACTCTATTCCACACCATGAGCATG4680.1286601475193059No Hit
GGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATC4680.1286601475193059No Hit
CCACTATTCCATCCACAACGGGATTCTTCATGATGCCAGCTGCTGTCCTT4600.12646082875829212No Hit
GACTAATCCTCCCCCATGCCTACGTTGCAGTCGCTCCATGGTTTCCATCA4580.12591099906803868No Hit
TCCCCAGGCGGTCCGCAGCAGCACAGCACTGGAGATGGCTACTGCTATGA4560.12536116937778524No Hit
CTCTAACACTTCCTCAGCTTCCATGTTCCGGATAAGCTGCACCACCAAGT4540.12481133968753179No Hit
GTAATGAACATAGTCTCTTCCTGGCTGTGGAAGGAGCTGGGGAAACGCAA4520.12426150999727834No Hit
GTTCATTACCTGGCGAGTGCCTTCTTGGGGATCTGGCACCCTGGTGTCCA4520.12426150999727834No Hit
GAAGAGACCTTCGACTGATGGCTAATGCCATTTGCTCGGCTGTGCCAGTT4510.12398659515215163No Hit
TTTCAAGACAAGACCAGAGAGGGAGTGGACAAGTTGTCACTTATGCTCTC4480.12316185061677146No Hit
GTGTACAACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAA4480.12316185061677146No Hit
GGTTAAGAGACGTGGAGGTGGGACGGGAGAGACTCTGGGAGAGAAGTGGA4310.11848829824961718No Hit
TCCATGGATTGACCAGGTGGTTCTCCCAGTTGGTACCCAGTCAACTGGCA4200.11546423495322324No Hit
GTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGGG4180.11491440526296978No Hit
TCCCAGGAGGAGCTGACTTGTGGTGGACACACTTTTTATGATGTTGCTCT4130.1135398310373362No Hit
CTCTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAA4100.11271508650195602No Hit
CCCAAGTAGCGGACTTGGGTGGATAGATAGTCCATGTACTTTTCTTCATC4070.11189034196657587No Hit
CCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCATGGATTGAC4060.11161542712144912No Hit
TCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACA4030.11079068258606896No Hit
GTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTCC3970.10914119351530863No Hit
ACCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGA3860.10611713021891468No Hit
TCCTTGAGGTACAGCTTGTTGAAGTGGTGGGAGCAGAACGGGACTTCTTC3860.10611713021891468No Hit
TTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATAGA3860.10611713021891468No Hit
CTTTTTATGATGTTGCTCTTTGCCCCAGAGACCCAGTACATCTCATGTGT3800.10446764114815435No Hit
ATCCCATCCATTGCTCTGCAACCATCTGGTCACTTTCTCTGGCTTCCTCA3790.10419272630302764No Hit
CACAAAGGGAGGTCCCGGTCATGAAGAACCCATGCTGGTGCAAAGCTATG3770.10364289661277419No Hit
GAGTAGAACTCCAGGGCCGACATCTGATTCAGACGAGCTTTCCACTTCTC3760.10336798176764747No Hit
TCTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTC3740.10281815207739402No Hit
TCATACAACAACTACTCCTTAATGGCGATGGCCACACAAGCTGGAGTGCT3720.10226832238714059No Hit
ATCCTAACCCTTCGACTCCACCTCCTGAGTTTTCTCTTCCCATCCAATGG3720.10226832238714059No Hit
TTGCTCGGCTGTGCCAGTTGACTGGGTACCAACTGGGAGAACCACCTGGT3710.10199340754201386No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC3680.10116866300663369No Hit
GGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATCTGCGG3660.10061883331638025No Hit
TCCCAAGGCTTTGACAGGAGTCTAACAACCCCGTTCACGAGGGAAGACGC3660.10061883331638025No Hit
GGTTAGGATTGCAAAGACTTGGATACATTCTAGAAGAAATGAATCGGGCA3640.1000690036261268No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CATCTAA1200.0102.027861
GTGGACC2350.076.59564
GGACCCT2350.076.59566
GACCCTT2300.075.130297
TGGACCC2500.071.999865
TGTGGAC2550.070.5881043
ATCTAAT2100.068.590161
TAATGGG2650.054.3395234
CTAATGG2850.053.0525323
TCTAATG2750.052.3635372
AATGGGA2900.049.655085
GGGTGTG605.1055383E-448.013111
ATCTATA7800.043.3845332
CTATACA8300.039.903544
ATACAGT8300.039.903546
TCTATAC8600.039.3487633
TACAGTG8450.039.195197
CAGTGAC9000.038.3999259
CGCTACT1553.677451E-837.1612175
CCGCTAC1604.863432E-835.999934
Produced by FastQC (version 0.11.2)