FastQCFastQC Report
Wed 21 Sep 2016
cond2rep1_S4_L001_R1_001.fastq.bz2

Summary

[OK]Basic Statistics

MeasureValue
Filenamecond2rep1_S4_L001_R1_001.fastq.bz2
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences1960334
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

[FAIL]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
TGACGTGCAAATCGGTCGTCCGACCTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCCTC89260.4553305712189861Search with Blastn,more detail
First hit on +100: PREDICTED: Cavia porcellus collagen alpha-1(I) chain-like (LOC100717127), mRNA Evalue=3.3219e-33, Ident=100%, QueryCovergap=0%
TATATTAATTTCATCTGAAGACGTCCTCCACTCATGAGCAGTCCCCTCCCTAGGACTTAAAACTGATGCCATCCC59640.30423387035066474Search 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%
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAG53080.2707701850807056TruSeq Adapter, Index 4 (100% over 63bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATTTAAGCATATTAGTCAGCGGAGGAAAAGAAACTAACCAGG39420.2010881819118579Search 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%
AGACGGACCAGAGCGAAAGCATTTGCCAAGAATGTTTTCATTAATCAAGAACGAAAGTCGGAGGTTCGAAGACGA35280.17996933175673124Search with Blastn,more detail
First hit on +100: Homo sapiens clone LA13_165F6 sequence Evalue=3.3219e-33, Ident=100%, QueryCovergap=0%
TTGTTGGTTTTCGGAACTGAGGCCATGATTAAGAGGGACGGCCGGGGGCATTCGTATTGCGCCGCTAGAGGTGAA25430.12972279213644206Search 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
GTCCG53000.015.87431218
CGAAC58200.014.21200550
GCGAA60600.013.76631437
TCGGT61200.013.68935612
GTCGT61050.013.66484215
GGTCG63850.012.95440514
ATCGA69600.012.90427848
TCGAA66250.012.80661949
AATCG66050.012.7916510
TCGTC69450.012.57434316
CGGTC66800.012.43545813
GGTAT72250.011.89049528
ATAGG71300.011.7501931
GGGTA71700.011.68463927
CGCGA28700.011.63831
TAGGG71800.011.61892232
TAGTA69300.011.57704359
CGTCC73800.011.54455817
CGTGC74950.011.3674234
GGGCG77800.011.22478335

[OK]Bad tiles

No bad tiles

Produced by FastQC (version 0.11.5)