FastQCFastQC Report
Tue 31 Jan 2017
HH2KGAFXX_n01_12-2_40m.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHH2KGAFXX_n01_12-2_40m.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences14545346
Sequences flagged as poor quality0
Sequence length51
%GC39

[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

[OK]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
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACAGTTCCATCTCGTATGC408670.2809627216843106TruSeq Adapter, Index 14 (98% over 50bp)
AGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGAGATCGGAAGAGCACACG197500.1357822632751397Illumina Paired End PCR Primer 2 (97% over 34bp)
GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG145590.10009387195051944No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CATCTCG64300.029.67624940
CGTATGC72700.028.44221545
CTCGTAT71550.027.89354743
GAGCGGT97800.027.32798810
TCGTATG76750.026.76555344
AGAGCGG101400.026.5577169
GCGGTTC102200.026.04137412
ATCTCGT75150.025.60099241
AAGAGCG107850.025.0113188
AGCGGTT107450.024.93649511
CCGAGAG42850.024.8879429
TGCCGAG57300.024.46224627
CAGCAGG109450.023.94664618
CGGTTCA112100.023.78169413
GGAATGC88900.023.6885523
ATGCCGA62550.023.56008726
AATGCCG71300.023.54039225
AGCAGGA112500.023.33814219
TCTCGTA84250.023.26255842
GCCGAGA60800.022.8320328
Produced by FastQC (version 0.11.2)