FastQCFastQC Report
Wed 21 Sep 2016
cond2rep1_S4_L004_R1_001.fastq.bz2

Summary

[OK]Basic Statistics

MeasureValue
Filenamecond2rep1_S4_L004_R1_001.fastq.bz2
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences1964605
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
TGACGTGCAAATCGGTCGTCCGACCTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCCTC92740.4720541788298411Search 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%
TATATTAATTTCATCTGAAGACGTCCTCCACTCATGAGCAGTCCCCTCCCTAGGACTTAAAACTGATGCCATCCC60680.30886615884618024Search 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%
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTGACCAATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAG53990.2748135121309373TruSeq Adapter, Index 4 (100% over 63bp)
CGCGACCTCAGATCAGACGTGGCGACCCGCTGAATTTAAGCATATTAGTCAGCGGAGGAAAAGAAACTAACCAGG38450.1957136421825252Search 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%
AGACGGACCAGAGCGAAAGCATTTGCCAAGAATGTTTTCATTAATCAAGAACGAAAGTCGGAGGTTCGAAGACGA35110.17871276923351004Search with Blastn,more detail
First hit on +100: Homo sapiens clone LA13_165F6 sequence Evalue=3.3219e-33, Ident=100%, QueryCovergap=0%
TTGTTGGTTTTCGGAACTGAGGCCATGATTAAGAGGGACGGCCGGGGGCATTCGTATTGCGCCGCTAGAGGTGAA24770.1260813242356606Search 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
GTCCG52400.015.71753418
TCGGT57000.014.51101312
AATCG60850.013.53455810
CGAAC59950.013.44167450
GCGAA63300.012.95462837
GTCGT64800.012.819115
GGTCG64000.012.59106714
ATCGA69550.012.55609748
CGGTC65300.012.50349313
TCGAA65700.012.37333649
ATAGG70350.012.06008831
TCGTC71000.012.04967616
TAGTA67050.012.01923759
TAGGG70900.011.96653432
GGGTA71350.011.8419127
GTATA76100.011.38266529
CCGAC73200.011.29984820
CGTGC75900.011.0866584
GGGCG76900.011.07902635
GGCGA74800.011.01039936

[OK]Bad tiles

No bad tiles

Produced by FastQC (version 0.11.5)