FastQCFastQC Report
Wed 21 Sep 2016
cond2rep1_S4_L003_R2_001.fastq.bz2

Summary

[OK]Basic Statistics

MeasureValue
Filenamecond2rep1_S4_L003_R2_001.fastq.bz2
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences1982511
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

[WARN]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
GATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTATCATTAAAAAAAAAAGGGGGGGGGG56790.2864549049160383Illumina RNA PCR Primer (100% over 50bp)
AGTGGGTGAACAATCCAACGCTTGGTGAATTCTGCTTCACAATGATAGGAAGAGCCGACATCGAAGGATCAAAAA29980.15122236396166275Search with Blastn,more detail
First hit on +100: Rhinebothroides cf. freitasi LRP3929 28S ribosomal RNA gene, partial sequence Evalue=3.3219e-33, Ident=100%, QueryCovergap=0%
GGAGCGAGAGCGCCAGCTATCCTGAGGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGATTAGTCTTTCGC29690.1497595725824472Search with Blastn,more detail
First hit on +100: TPA_exp: Mus musculus ribosomal DNA, complete repeating unit Evalue=3.3219e-33, Ident=100%, QueryCovergap=0%
TGCGCCGGTCCAAGAATTTCACCTCTAGCGGCGCAATACGAATGCCCCCGGCCGTCCCTCTTAATCATGGCCTCA25350.12786814297625587Search with Blastn,more detail
First hit on +100: Homo sapiens clone LA13_165F6 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
CGTAT33950.013.07029247
CCGTA40950.011.18252646
GTCGC55050.08.7697242
TACCG25400.07.96548846
GTATC72150.06.79032748
GGAAA191950.06.63468361
GGAGA194700.06.39480641
GCCGT76650.06.345041345
ATACG30000.06.27084236
CGCCG73100.06.264514444
TCGCC82750.06.17745543
CGGTG80900.06.14257937
AACGC46250.06.064363517
TCGGT88450.05.939298636
GGAAG272500.05.8614511
ACGCG16351.485887E-105.861171211
GGAAT137250.05.8317041
CAACG49450.05.74328916
TAGCG35550.05.69080426
TTCGA60600.05.682026459

[OK]Bad tiles

No bad tiles

Produced by FastQC (version 0.11.5)