FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_liver_fn--_red-b-red_transmission_pcr2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_liver_fn--_red-b-red_transmission_pcr2.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences609144
Sequences flagged as poor quality0
Sequence length150
%GC50

[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

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC112021.8389740356959932No Hit
GCACTGGAGATGGTGCTTTGATGGCACAACCAACAACACCATAATGGAAG26950.4424241230316641No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG19900.326687942424123No Hit
GTTCAGACCATGCGGCCCTGAAGTCGTTCAAAGAATTCGCCGCTGGAAAA18800.3086298149534429No Hit
GGTCTGAACAGACCCTAGCATCCATCCATCTCGGTTTGAGCACTCTCTTC18560.3046898598689308No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT15900.2610220243489224No Hit
GCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGT14750.24214307290230225No Hit
TACTACAACCCATCAGAGTCCCTAATTACAATCTCTACATCATGGATGAA14670.24082975454079825No Hit
GCACTGGAGATGGCTGGAAAGAACAAAAAATGACATAGCTCATCTAATGG14550.23885977699854224No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG14500.2380389530226022No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG12410.2037285108283099No Hit
CATTAATAGGGTCTACTACCCTCACAGCTGTCAATCCCAGGGCCATGACA11300.18550621856244173No Hit
CTCTAGGAGATGCCTAAAACCAGTCATACTTGATGGTGAGAGAGTCATCT11040.1812379338875537No Hit
TGCTAGTGCTGCTCAGAGGAGAGGACGTATAGGCAGGAACCCTAACAAAC10930.17943212114048568No Hit
GTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCTTC10890.17877546195973368No Hit
TTATAAGGCAGCGGCAGCCCAACTGCCGGAGACCCTAGAGACCATTATGC10500.1723730349474016No Hit
CTATTAATGTGGTAGGACTACTGTTACTCACAAGGAGTGGGAAGCGGAGC10380.17040305740514558No Hit
TACACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCC10380.17040305740514558No Hit
CTCCTAGAGTCTATGACCCGGTCAGCCTTGAAGTTGGCGCCCATCTCTGA10350.16991056301958157No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA10100.16580644313988155No Hit
GGATGAGAGTGGTGATTTCTCCTTGGTAGAGGAAGATGGTCCACCCATGA9710.15940401612754948No Hit
GTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGGG9440.15497156665747344No Hit
CATGTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGC9360.1536582482959694No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC9350.15349408350078142No Hit
GGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCT9210.1511957763681494No Hit
TCTCTGAGATGTCAGTTGTTATGACAAAGTCCCACTCTTGATTTTTTGTT8980.14741998607882537No Hit
CTCTCATCCAGTGCCACGTCAAGCCGAGGACTGTTTCCAGTGACTTCCGC8650.1420025478376213No Hit
CACATACCACGCTCCTGCAGCAAAAGGTATAGCTATTGGGTTCATGCCAC8520.1398684055001773No Hit
GTGTGGAAGACTCCCTCTTGCATGACTCCCACTCCAACCTGTGTTGAACC8500.1395400759098013No Hit
GTACAGAGTGATGACTCGCAGACTGCTAGGTTCAACACAGGTTGGAGTGG8300.13625678000604127No Hit
GTATGGAGGTGGGTGTGCAGAGACTGATGAAGGCCATGCACACTGGCTTG8260.13560012082528924No Hit
GGTATGAGCACCACCAGTAATAAAAACACAACAATGAGGACACATGCAAT8110.13313764889746924No Hit
TCATACAACAACTACTCCTTAATGGCGATGGCCACACAAGCTGGAGTGCT8080.13264515451190523No Hit
TCTCAGAGATGGGCGCCAACTTCAAGGCTGACCGGGTCATAGACTCTAGG8000.13133183615040123No Hit
GTACACTCCATCTGTGGTCTCTCCTTTCTTCACTTCTTTGGGAGCAGGCA7930.13018268258408522No Hit
GCCTTATAAGGCCTGCTTCCAGTCTCTGCTCGCATGAGCACGGCGAGGTT7880.1293618586081452No Hit
TATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTGGA7880.1293618586081452No Hit
GCATAAAATGGCATCCCTTTGCCCATGCCAAACAGCACTCCAGCTTGTGT7810.1282127050418292No Hit
CCACTATTCCATCCACAACGGGATTCTTCATGATGCCAGCTGCTGTCCTT7730.12689938668032516No Hit
GGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGT7700.12640689229476118No Hit
GCTCATACCCGAGCCAGAGAAGCAAAGATCTCCCCAAGATAACCAGATGG7670.12591439790919717No Hit
AGATAAGGCCCAGGAAAGAACCAGAGAGCAACTTAGTGAGGTCAATGGTG7670.12591439790919717No Hit
GTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGCCTGC7560.12410858516212915No Hit
ATTTTATGCATGGGACCTTGGAGTCCCGCTGCTAATGATGGGTTGCTATT7420.12181027802949712No Hit
CCCCGTGAGAGCATGCTGCTAGCCCTGGCTTCGTGTCTTCTGCAAACTGC7380.12115361884874512No Hit
GATATGTGCACTGGCCGGAGGGTTTGCCAAGGCAGACATTGAGATGGCTG7330.12033279487280511No Hit
TATCAGGCCAACGGCTGTGAGAACTTCACTAGGGGGCCAGCTCCGCTTCC7330.12033279487280511No Hit
ACCCTGCAGGGACCTCAGGATCTCCGATCCTAGACAAATGTGGAAGAGTG7280.1195119708968651No Hit
GCACTGGAGATGGATGGATGCTAGGGTCTGTTCAGACCATGCGGCCCTGA7220.1185269821257371No Hit
ATGGAAGACAGCGTACCAGCAGAGGTGTGGACAAAGTATGGAGAGAAGAG7010.11507952142678908No Hit
GTATGTGTATGTGAAGACTGGGAAAAGGAGTGGCGCCCTCTGGGACGTGC6940.11393036786047304No Hit
CCCTTATTCCGCATCAAGACGAAGAAGATCCCCAGTGAAACTGTTCCCAG6820.11196039031821704No Hit
CTTCCACACCATGTGGCACGTTACAAAAGGAGCCGCACTGAGGAGCGGTG6780.11130373113746503No Hit
GCCATAGAGTCCTATCACTCTTCCACATTTGTCTAGGATCGGAGATCCTG6750.11081123675190103No Hit
GAATAAGGGCATCGGGAAGATGGGCTTTGGAATGGTAACCCTTGGGGCCA6690.10982624798077302No Hit
AACTTACACAGACAGAAGATGGTGCTTTGATGGCACAACCAACAACACCA6620.10867709441445701No Hit
GCACGCGCTGCTGCCGCTTGTAGGCCTGGGATCAAGTACATGTAGTGCGC6540.10736377605295298No Hit
TCTTCTGTCTGTGTAAGTTATTCCGGCAGATGCAACCTGATAGGCTAGCC6470.10621462248663698No Hit
CTCTACATCATGGATGAAGCCCACTTCACAGACCCCTCAAGTATAGCTGC6470.10621462248663698No Hit
GATGTAGAGATTGTAATTAGGGACTCTGATGGGTTGTAGTAAGCGTGAAG6440.10572212810107298No Hit
GTCTTCCATTATGGTGTTGTTGGTTGTGCCATCAAAGCACCATCTTCTGT6440.10572212810107298No Hit
CTATCAGAGTCAGGGGTGTTAATTGTGAATAGCAACCCATCATTAGCAGC6320.10375215055881697No Hit
CCATACATGTACTCATCTCCAGGTTTGTTAGGGTTCCTGCCTATACGTCC6250.10260299699250096No Hit
TTCTAGGTTTGATAACTGCAAACGAACTTGGATGGCTGGAAAGAACAAAA6250.10260299699250096No Hit
TCCCAGAGGGCGCCACTCCTTTTCCCAGTCTTCACATACACATACCACGC6220.10211050260693695No Hit
CATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGA6130.10063301945024493No Hit
CTACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCC6120.10046885465505692No Hit

[FAIL]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GCGTCAG100.007230698144.051331
TCGACCT100.007237802144.004034
CGTCAGA100.007237802144.004032
ATCGACC100.007237802144.004033
ACTGGAG28250.0101.694873
TGGAGAT30500.095.137085
CTGGAGA31000.093.8348854
CTGTGCC1500.091.202553
GATGGTA406.373775E-789.995139
AGATAAG1950.088.6469651
TCTGTGC1700.080.472832
TTACTGA300.00198902472.0020144
GGAGATG46050.066.138666
TCTAGAT350.003664534861.716013
CACTGGA47550.060.7209362
GAGATAA1154.1836756E-1156.367911
GCCTGTT400.00621697254.001513
GCCTGTG400.006218991253.9970787
GCACTGG56350.051.1273541
GATGGCT42250.049.758259
Produced by FastQC (version 0.11.2)