FastQCFastQC Report
Fri 19 Dec 2014
cdc9deg_rad27d_rnh201_PNK_CTTGTA_L002_R2_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
Filenamecdc9deg_rad27d_rnh201_PNK_CTTGTA_L002_R2_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4755274
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
AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG393900.8283434350996389Illumina Single End PCR Primer 1 (100% over 51bp)
ACACTCTTTCCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTC67010.1409172215943813Illumina Single End PCR Primer 1 (100% over 40bp)
ACACTCTTTCAGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCG51420.10813257027881043Illumina Single End PCR Primer 1 (100% over 41bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GGTCGCC45250.041.86837444
GTCGCCG46100.041.1940145
GTGGTCG46650.040.27339642
CTCGGTG49900.038.0557938
TGGTCGC49450.037.948343
GGTGGTC51000.036.92654841
TCTCGGT51550.036.92500737
TCGGTGG53600.035.55511539
CGGTGGT54150.035.02777540
GGGCGCC10550.033.91073644
GCACACG25000.033.56936318
ATCTCGG58450.033.56722336
AGGGCGC10200.032.8684143
ACACTCT36950.031.8498361
CACACGT22350.030.70411719
GGCGCCG11800.030.31849745
AGCACAC28200.030.07921817
CACTCTT40500.029.9451392
AGAGCAC30300.029.55389615
GAGCACA30850.029.464616
Produced by FastQC (version 0.11.2)