FastQCFastQC Report
Sat 18 Jun 2016
SRR3552539_1.fastq

Summary

[OK]Basic Statistics

MeasureValue
FilenameSRR3552539_1.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences1252232
Sequences flagged as poor quality0
Sequence length51
%GC47

[OK]Per base sequence quality

Per base quality graph

[OK]Per sequence quality scores

Per Sequence quality graph

[FAIL]Per base sequence content

Per base sequence content

[FAIL]Per sequence GC content

Per sequence GC content graph

[OK]Per base N content

N content graph

[OK]Sequence Length Distribution

Sequence length distribution

[FAIL]Sequence Duplication Levels

Duplication level graph

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
GCTGTCTCTTATACACATCTGACGCTGATTACCTCGTATGCCGTCTTCTGC60390.48225887854646743Illumina PCR Primer Index 2 (95% over 22bp)
CCTGTCTCTTATACACATCTGACGCTGATTACCTCGTATGCCGTCTTCTGC44850.35816046866714796RNA PCR Primer, Index 10 (95% over 23bp)
CTGTCTCTTATACACATCTGACGCTGATTACCTCGTATGCCGTCTTCTGCT34050.27191446952321935TruSeq Adapter, Index 10 (95% over 24bp)
TCTGTCTCTTATACACATCTGACGCTGATTACCTCGTATGCCGTCTTCTGC16700.13336186904663033Illumina PCR Primer Index 2 (95% over 22bp)
CGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT13870.11076222297465646No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TCTAGCG406.8157533E-945.01
GAACGTA207.0335285E-445.09
GCCGTAA207.0335285E-445.041
CGCTTCG253.8910075E-545.02
TAACGCA1650.043.63636826
TATTGCG900.042.51
TCGATTG556.184564E-1140.9090921
CGTTTTT21400.040.689251
CTACGCA1550.040.6451615
GTCGATC501.0822987E-940.56
GCGAGAC3400.040.36764521
TCGTTGC950.040.2631616
CGACTAA1350.040.017
TCAAGCG4150.039.57831217
ACGCATT1650.039.54545617
GTACGAT3300.039.54545610
GACACGA3250.039.4615425
ACGCATA403.4585537E-739.37521
TTGTACG403.4585537E-739.3751
CGACAAT403.4585537E-739.37520
Produced by FastQC (version 0.11.5)