FastQCFastQC Report
Wed 21 Sep 2016
cond2rep3_S6_L002_R2_001.fastq.bz2

Summary

[OK]Basic Statistics

MeasureValue
Filenamecond2rep3_S6_L002_R2_001.fastq.bz2
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences1929172
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
GATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAGGGGGGGGGG121800.6313589457031307Illumina RNA PCR Primer (100% over 50bp)
TGCGCCGGTCCAAGAATTTCACCTCTAGCGGCGCAATACGAATGCCCCCGGCCGTCCCTCTTAATCATGGCCTCA32680.1693990997173917Search with Blastn,more detail
First hit on +100: Homo sapiens clone LA13_165F6 sequence Evalue=3.3219e-33, Ident=100%, QueryCovergap=0%
CGGATTGGAAGTTCTATTGGCAGAACGACTCGGTTATCAACTTCTAGCAGTCGTAGTTCACCAGGTTTTAGGTCG20680.1071962479239798Search 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
CGTAT40100.022.48457547
CCGTA42850.021.29009846
GTCGC54850.016.63228442
CGCCG73150.012.27726344
CGGTG77550.012.17573537
TCGCC80100.012.09833243
GTATC76600.012.09503548
GCCGT82350.011.16430145
TCGGT85400.011.05653836
GGTCG90200.010.86170341
AACGT88750.010.47920424
CGTGT92750.010.02727126
GAACG111050.09.55758123
ACGTG99150.09.41582625
ATACG33250.08.96773936
TAGCG34650.08.91274326
TATCA111450.08.79071849
TACGA35450.08.51134337
CATTA116650.08.33798752
TCTCG119350.08.11961834

[OK]Bad tiles

No bad tiles

Produced by FastQC (version 0.11.5)