FastQCFastQC Report
Wed 21 Sep 2016
cond2rep1_S4_L002_R1_001.fastq.bz2

Summary

[OK]Basic Statistics

MeasureValue
Filenamecond2rep1_S4_L002_R1_001.fastq.bz2
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences1950508
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
TGACGTGCAAATCGGTCGTCCGACCTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCCTC93200.4778242386086086Search 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%
TATATTAATTTCATCTGAAGACGTCCTCCACTCATGAGCAGTCCCCTCCCTAGGACTTAAAACTGATGCCATCCC60290.3090989629368349Search 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%
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAG53710.2753641615415061TruSeq Adapter, Index 4 (100% over 63bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATTTAAGCATATTAGTCAGCGGAGGAAAAGAAACTAACCAGG39130.20061440404243405Search 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%
AGACGGACCAGAGCGAAAGCATTTGCCAAGAATGTTTTCATTAATCAAGAACGAAAGTCGGAGGTTCGAAGACGA35340.18118356858828571Search with Blastn,more detail
First hit on +100: Homo sapiens clone LA13_165F6 sequence Evalue=3.3219e-33, Ident=100%, QueryCovergap=0%
TTGTTGGTTTTCGGAACTGAGGCCATGATTAAGAGGGACGGCCGGGGGCATTCGTATTGCGCCGCTAGAGGTGAA24590.12606972132388075Search 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
GTCCG53400.016.81906318
GCGAA59700.015.10365137
TCGGT61550.014.70735912
GTCGT61800.014.47553415
GGTCG62350.014.34784314
CGAAC61650.014.33800750
AATCG64950.013.44554810
TCGTC70450.013.20209516
ATAGG69400.013.14607831
CGGTC67100.013.1205413
ATCGA71450.012.91795248
TCGAA67100.012.90891849
TAGTA65850.012.88441459
GGTAT71150.012.87263228
GGGTA70800.012.83598727
TAGGG71700.012.72437732
CGTCC72950.012.11704217
CCGAC74000.012.08902620
GGGCG77200.012.00178335
CGAAA78250.011.75000338

[OK]Bad tiles

No bad tiles

Produced by FastQC (version 0.11.5)