FastQCFastQC Report
Mon 19 Jun 2017
NA12878_S1_L001_R2_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameNA12878_S1_L001_R2_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences388038711
Sequences flagged as poor quality0
Sequence length151
%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

[OK]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

[OK]Sequence Duplication Levels

Duplication level graph

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
ATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCGT6243580.16090095712126Illumina Single End PCR Primer 1 (100% over 50bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
AGCGTCG2213500.049.952869
GAGCGTC2546550.043.45688
AGAGCGT2869300.038.6948247
ATCGGAA2997150.038.5902751
TCGGAAG3108700.037.0615962
CGGAAGA3230100.035.4093633
AAGAGCG3293550.034.622286
GAAGAGC5817950.020.0371885
CGCCGTA1140350.017.91700745-49
TCGCCGT1263550.015.75633740-44
GTCGCCG1499450.015.52375740-44
GCCGTAT1330350.015.46927445-49
CCGTATC1424750.014.53285645-49
TGGTCGC1636350.014.16298540-44
CGTATCA1479900.014.05103845-49
GGTCGCC1689700.013.88227940-44
GTGGTCG1770700.013.27835740-44
GGAAGAG9021750.013.2646914
TCTCGGT2117400.011.28595435-39
TCGGTGG2165750.011.11433835-39
Produced by FastQC (version 0.11.5)