FastQCFastQC Report
Wed 21 Sep 2016
cond2rep3_S6_L003_R2_001.fastq.bz2

Summary

[OK]Basic Statistics

MeasureValue
Filenamecond2rep3_S6_L003_R2_001.fastq.bz2
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences1961387
Sequences flagged as poor quality0
Sequence length75
%GC48

[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

[WARN]Sequence Duplication Levels

Duplication level graph

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
GATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAGGGGGGGGGG121020.6170123489143142Illumina RNA PCR Primer (100% over 50bp)
TGCGCCGGTCCAAGAATTTCACCTCTAGCGGCGCAATACGAATGCCCCCGGCCGTCCCTCTTAATCATGGCCTCA32790.1671776146165953Search with Blastn,more detail
First hit on +100: Homo sapiens clone LA13_165F6 sequence Evalue=3.3219e-33, Ident=100%, QueryCovergap=0%
CGGATTGGAAGTTCTATTGGCAGAACGACTCGGTTATCAACTTCTAGCAGTCGTAGTTCACCAGGTTTTAGGTCG22120.1127773356303473Search with Blastn,more detail
First hit on +100: Mus musculus mitochondrial DNA from Lewis lung carcinoma, complete sequence Evalue=3.3219e-33, Ident=100%, QueryCovergap=0%

[WARN]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CGTAT38400.023.851147
CCGTA46400.019.89185546
GTCGC59150.015.6633142
CGCCG74900.012.22775644
GTATC80150.011.87061848
TCGCC83400.011.7051143
GCCGT80250.011.50192145
CGGTG82000.011.471168537
TCGGT89600.010.73558936
GGTCG94750.010.41536441
ATACG31200.010.01135136
CGTGT94250.09.979712526
AACGT95350.09.79013224
GAACG119600.09.31886623
ACGTG102700.09.22771825
TATCA117600.08.69437449
TAGCG35850.08.51457126
CGCAA35000.08.4171232
CATTA121650.08.0590352
TACGA37500.08.0456937

[OK]Bad tiles

No bad tiles

Produced by FastQC (version 0.11.5)