FastQCFastQC Report
Thu 26 May 2016
SRR1544809_1.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameSRR1544809_1.fastq.gz
File typeConventional base calls
EncodingIllumina 1.5
Total Sequences1436990
Sequences flagged as poor quality0
Sequence length52
%GC49

[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

[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

[FAIL]Sequence Duplication Levels

Duplication level graph

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
CCTGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCTGCT122170.8501798899087676Illumina PCR Primer Index 2 (96% over 25bp)
CTGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCTGCTT106550.7414804556747089Illumina PCR Primer Index 2 (96% over 26bp)
GCTGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCTGCT68820.47891773777131363Illumina PCR Primer Index 2 (96% over 25bp)
TGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCTGCTTG51190.356230732294588Illumina PCR Primer Index 2 (96% over 27bp)
CGGTCGGCGTCCCCCAACTTCTTAGAGGGACAAGTGGCGTTCAGCCACCCGA36020.2506628438611264No Hit
CGCTGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCTGC28350.19728738543761615Illumina PCR Primer Index 2 (95% over 24bp)
TCTGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCTGCT27910.19422542954369898Illumina PCR Primer Index 2 (96% over 25bp)
ACCTGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCTGC24840.1728613281929589Illumina PCR Primer Index 2 (95% over 24bp)
GCCTGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCTGC22580.15713400928329355Illumina PCR Primer Index 2 (95% over 24bp)
AGCTGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCTGC19950.1388318638264706Illumina PCR Primer Index 2 (95% over 24bp)
ACTGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCTGCT18990.13215123278519683Illumina PCR Primer Index 2 (96% over 25bp)
CGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT18790.13075943465159812No Hit
CTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCTGCTTGAAA16940.11788530191581012Illumina PCR Primer Index 2 (96% over 27bp)
CGTTCTGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCT16680.11607596434213181Illumina PCR Primer Index 2 (95% over 22bp)
GGGCAGGGACTTAATCAACGCAAGCTTATGACCCGCACTTACTGGGAATTCC16510.11489293592857291No Hit
CGTTTTTTTTCTGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCG15980.11120467087453637No Hit
GGCTGTCTCTTATACACATCTGACGCCCTGTAACTCGTATGCCGTCTTCTGC14660.10201880319278492Illumina PCR Primer Index 2 (95% over 24bp)

[FAIL]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GACGTAG206.311985E-446.09
CGTAGAT206.311985E-446.011
GCGATAT600.046.08
ACGCTAG206.311985E-446.09
GCTACTT301.861732E-646.016
CGACTAC253.4175853E-546.021
CGGTAAG206.311985E-446.013
ATTGCGG3200.045.281251
ATTACGG1350.044.29631
ACGGGTA1650.043.212124
CGGGTAT2450.043.1836745
TACGGGA4050.042.5925943
GTCCCCC5100.042.392169
AGTACGG1250.042.321
GGCGATA2450.042.24497
TACGCGG1800.042.1666641
ATCGCGG3550.042.1126751
CAACCGG554.7293724E-1141.818181
ACCGGGT508.731149E-1041.43
CTAACGG950.041.1578941
Produced by FastQC (version 0.11.5)