FastQCFastQC Report
Wed 25 May 2016
SRR1780409_1.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameSRR1780409_1.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences241209
Sequences flagged as poor quality0
Sequence length50
%GC49

[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

[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

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
CTTATACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCGT2807711.640112931109536No Hit
ATACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCGTCTT231379.592096480645415Illumina PCR Primer Index 9 (95% over 21bp)
CTTTACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCGTC69892.8974872413550075No Hit
CTATACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCGTC36431.510308487660079RNA PCR Primer, Index 47 (95% over 22bp)
TCTTATACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCG31961.324992019369095No Hit
TATACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCGTCT20950.8685413894174762No Hit
CTCTTATACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCC17200.7130745536028921No Hit
TCTTTATACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCC11570.47966701076659657No Hit
CTTAATACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCG8900.36897462366661277No Hit
TCTTAATACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCC6990.2897901819583847No Hit
CTTATAACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCG6330.2624280188550179No Hit
CTTAACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCGTC5260.21806814836925653No Hit
TTATACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCGTC4790.19858297161382868RNA PCR Primer, Index 47 (95% over 22bp)
CTTATTACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCG4110.17039165205278411No Hit
CTTATCACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCGTC3540.14676069300896732RNA PCR Primer, Index 47 (95% over 22bp)
CTTTATACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCG3290.13639623728799508No Hit
TCTATACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCGT3230.1339087679149617No Hit
ACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCGTCTTCT2940.12188599927863389Illumina PCR Primer Index 9 (95% over 23bp)
CTTACACATCTCCGAGCCCACGAGACCCTCGCAGATCTCGTATGCCGTCT2660.11027780887114494No Hit

[OK]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GATATTA207.8050344E-444.0446171
TGGACGC207.8450114E-443.99896237
TGTTGCG207.8450114E-443.99896223
CCCGTTG207.8450114E-443.99896212
AGGCAAA207.8450114E-443.99896227
GGACGCT207.8450114E-443.99896238
GATTGGA207.8450114E-443.99896234
GACGCTT207.8450114E-443.99896239
TTGTTGC207.8450114E-443.99896222
TTTTCAG207.8450114E-443.99896220
GCCCGTT254.4329692E-543.99896211
GTTGCGC207.8450114E-443.99896224
ACTGGGG207.8450114E-443.99896214
CCGTCTT24500.042.65205444
TTTACAC8350.040.310432
GCCGTCT26900.038.8466743
ATAACAC800.038.4990924
CTTTACA8800.038.2887841
TCTTTAT1850.038.092641
CTATACA5150.037.2027321
Produced by FastQC (version 0.11.5)