FastQCFastQC Report
Fri 19 Dec 2014
43_gal_CAGATC_L001_R2_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
Filename43_gal_CAGATC_L001_R2_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences5821872
Sequences flagged as poor quality0
Sequence length51
%GC41

[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

[WARN]Sequence Duplication Levels

Duplication level graph

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG288930.4962836695825672Illumina Single End PCR Primer 1 (100% over 51bp)
ACACTCTTTCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTC62620.10755990513017118Illumina Single End PCR Primer 1 (100% over 40bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GGTCGCC34300.039.5514644
GTGGTCG36100.038.07629842
GTCGCCG36850.037.05872745
TGGTCGC37200.036.34531843
CTCGGTG40200.034.47270238
GGTGGTC41400.033.25756541
TCTCGGT42100.032.9191937
TCGGTGG44200.031.55713539
CGGTGGT44300.030.97885940
ATCTCGG47850.029.43356936
GCACACG20450.028.71796618
ACACTCT40050.027.9240881
CACTCTT43550.026.404872
AGAGCAC29100.024.35847915
CACACGT18150.024.05091319
GAGCACA29800.023.71078716
AGCACAC27300.023.16121517
CTTTCCC37250.022.3508036
CTCTTTC61200.021.1059194
ACTCTTT59400.020.912583
Produced by FastQC (version 0.11.2)