FastQCFastQC Report
Wed 21 Sep 2016
cond2rep2_S5_L004_R1_001.fastq.bz2

Summary

[OK]Basic Statistics

MeasureValue
Filenamecond2rep2_S5_L004_R1_001.fastq.bz2
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences1847516
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

[OK]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
TATATTAATTTCATCTGAAGACGTCCTCCACTCATGAGCAGTCCCCTCCCTAGGACTTAAAACTGATGCCATCCC52660.28503136102745524Search 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%
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACACAGTGATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAG31730.17174411480062962TruSeq Adapter, Index 5 (100% over 63bp)
TGACGTGCAAATCGGTCGTCCGACCTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCCTC24650.13342238984669144Search 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%

[WARN]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CGTCC59900.08.65272822
CGTAT32800.07.25130645
CTAGG72750.07.173174450
GTCCG41650.07.07440818
CGAAC41450.06.851607350
GGTCG41900.06.69311514
TATAT109450.06.65111451
TCGTA35100.06.57387644
GTCGT48450.06.520959415
GCGAA44400.06.47615637
TCGGT46550.06.405822312
AATCG46150.06.307502310
TCGAA47900.06.29956349
CGGTC47600.06.189939513
CCTAG87750.06.189724449
GACGT82300.06.16826820
GGCGA54950.05.878803736
TATTA96850.05.75553663
CCCTA99400.05.67855448
TCGTC58900.05.665364316

[OK]Bad tiles

No bad tiles