FastQCFastQC Report
Wed 2 Dec 2015
MT.R1.preprocessed.fq

Summary

[OK]Basic Statistics

MeasureValue
FilenameMT.R1.preprocessed.fq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences9119940
Sequences flagged as poor quality0
Sequence length40-101
%GC42

[OK]Per base sequence quality

Per base quality graph

[FAIL]Per tile sequence quality

Per base quality graph

[OK]Per sequence quality scores

Per Sequence quality graph

[WARN]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

[WARN]Sequence Length Distribution

Sequence length distribution

[WARN]Sequence Duplication Levels

Duplication level graph

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GAGGAAGGGTTTCAATGCAATTGTATTAAGCATTGAGTTAGTCGATCTTA1276091.39923069669318No Hit
AACACGGACCAAGGAGTATAACATTTAGGCGAGGATATAAGTGATTAAAC823410.9028677820248817No Hit
GGAGATTAGTTATTGTAGCAATACAGTGATTGGTTTTTCGATCAAATACT484090.5308039307276144No Hit
AGTCAAGGGATCATTAGGTTTTCAGATTGATGAAGATCGTAGCAAAGTAC469820.515156897962048No Hit
CGATAGGGAGATTAGTTATTGTAGCAATACAGTGATTGGTTTTTCGATCA331700.3637085331701744No Hit
CTCAGGATAGCAGTAGAAACAATTTTAAAGTAGTTACATCTGGTAAAGAT294150.3225350166777413No Hit
TAGCAGTTGTTAGATAATATGGGTGTTTTATTGATTAGTATGTACTATTT263540.28897119937192567No Hit
CACCTGGCAAATGCAATAGCCTTGAAAATTAATGGCGCTGAAAGTGTATA253350.27779788024921215No Hit
ATACATGGTGAGGGTTATGTTGGTTGAGCAATTGATTAATATAATTCGTC240060.2632254159566839No Hit
GGCAAATGCAATAGCCTTGAAAATTAATGGCGCTGAAAGTGTATAGACAT177000.19408022421200138No Hit
GTAACACGGACCAAGGAGTATAACATTTAGGCGAGGATATAAGTGATTAA174100.19090037873056184No Hit
ACATGGTGAGGGTTATGTTGGTTGAGCAATTGATTAATATAATTCGTCTG164360.18022048390669237No Hit
ACCACTCGTGATTCATCAAAATATCGAACGCAACTTGCAGTGTATCTTCA162370.17803845200735968No Hit
TGTAACACGGACCAAGGAGTATAACATTTAGGCGAGGATATAAGTGATTA161550.1771393232850216No Hit
CAGGATAGCAGTAGAAACAATTTTAAAGTAGTTACATCTGGTAAAGATAA160770.17628405450035856No Hit
GGACCAAGGAGTATAACATTTAGGCGAGGATATAAGTGATTAAACTTGAA150740.16528617512834515No Hit
AGGCGAGGATATAAGTGATTAAACTTGAATCCGGAATGAAAGTAACAAAG147010.16119623594014873No Hit
ACCATGACAATAATGATAATTCAAAACAGAGTTCTCTTTTCTGTTTAAAA145540.15958438323059143No Hit
GCAACCACTCGTGATTCATCAAAATATCGAACGCAACTTGCAGTGTATCT144730.1586962194926721No Hit
GGTGAGGGTTATGTTGGTTGAGCAATTGATTAATATAATTCGTCTGGATA144000.15789577563010282No Hit
AACCGATGTGAGGAAGGGTTTCAATGCAATTGTATTAAGCATTGAGTTAG139260.15269837301561193No Hit
GAAAGTGTATAGACATATAAACGGCAGTAATAATAATAAAATATTATATT124340.13633861626282628No Hit
TAACACGGACCAAGGAGTATAACATTTAGGCGAGGATATAAGTGATTAAA122820.13467193863117521No Hit
ATAGGGAGATTAGTTATTGTAGCAATACAGTGATTGGTTTTTCGATCAAA120540.13217192218369858No Hit
TAAAAACAGTCCTCAAGGGTCAATAAGGAAAAATAACATTGTCATTTTTT119900.1314701631808981No Hit
AGGGAGATTAGTTATTGTAGCAATACAGTGATTGGTTTTTCGATCAAATA110360.12100956804540382No Hit
GGATATGTAAAGGCAACTTAAATGAATACCATGACAATAATGATAATTCA108880.11938675035142775No Hit
GGACATTGTACTTTTGAATATGTTTTTCTATTTGTGGACATTTTTTGGTA105150.11529681116323133No Hit
ATACCATGACAATAATGATAATTCAAAACAGAGTTCTCTTTTCTGTTTAA99600.10921124481082112No Hit
GACCAAGGAGTATAACATTTAGGCGAGGATATAAGTGATTAAACTTGAAT91610.10045022226023417No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GGGTTTC225300.055.2982567
GAAGGGT228900.054.5693554
GGAAGGG230100.054.3848153
AGGGTTT239100.052.29926
GGTTTCA242850.051.9087038
AGGAAGG241050.051.6660162
AGGGATC93750.051.3203776
AAGGGTT244650.051.2444955
GAGGAAG259250.048.0211751
ACGGACC173950.047.4041064
CACGGAC174750.047.2924843
GTTTCAA264150.047.2872439
AACACGG177250.046.6774021
ACACGGA181150.045.697892
GGGATCA106200.045.5641257
CGGACCA181750.045.3443765
CAAGGGA103250.044.903924
CTCAGGA67450.044.2321321
AAGGGAT109100.042.538355
GTCAAGG106750.042.267162
Produced by FastQC (version 0.11.3)