FastQCFastQC Report
Thu 26 May 2016
SRR1660780_2.fastq

Summary

[OK]Basic Statistics

MeasureValue
FilenameSRR1660780_2.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences28900209
Sequences flagged as poor quality0
Sequence length100
%GC48

[OK]Per base sequence quality

Per base quality graph

[FAIL]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

[FAIL]Sequence Duplication Levels

Duplication level graph

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG15243335.2744705064243655Illumina Single End PCR Primer 1 (100% over 50bp)
AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC10231753.540372320490831Illumina Single End PCR Primer 1 (100% over 50bp)
AGATAGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC1524330.5274460125876598Illumina Single End PCR Primer 1 (98% over 50bp)
AAGCAGAAGACGGCATACGAGATATATCAGTGTGACTGGAAAGAGTGTAG1013250.35060300082950957Illumina PCR Primer Index 2 (96% over 28bp)
GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGGAGATCTCGGTGGTCGCCG816470.2825135278433454Illumina Single End PCR Primer 1 (98% over 50bp)
AGATAGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCGCGGTGGTCGCC585750.2026801951501458Illumina Single End PCR Primer 1 (97% over 38bp)
CAAGCAGAAGACGGCATACGAGATATATCAGTGTGACTGGAAAGAGTGTA526720.18225473732733213Illumina PCR Primer Index 2 (96% over 29bp)
AAGCAGAAGACGGCATACGAGATATATCAGTGTGACTGGAGTTCAGACGT367260.1270786657632822TruSeq Adapter, Index 25 (96% over 30bp)
GAGCGGAAGAGCGTAGTGGAGGGAAAGAGGGGAGATCGCGGTGGTCGCCG362690.12549736232011333No Hit
GATCGTAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG324920.11242825268149444Illumina Single End PCR Primer 1 (98% over 50bp)
GATCGGAAGAGCGGCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCCG300290.1039058229648097Illumina Single End PCR Primer 1 (98% over 50bp)

[WARN]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
AGATAGG450150.071.6714251
GATAGGA462200.070.257292
GATCGTA96100.063.718281
ATAGCGT85150.063.4229558
AATAGCG87450.063.2521867
AGATCGG1866750.063.1483651
TAGGAAG514300.062.2486844
ATAGGAA525900.060.5619353
ATCGTAA102700.059.5329252
CGTAAGA86800.059.1425864
CGTAATA41950.059.1048744
TCGTAAG73300.058.914263
AGCGGAA765500.052.686032
GATCGGA4130200.052.153181
TCGGAAG4070700.051.876913
ATCGGAA4174100.051.6496352
TAGCGTC93450.051.2995579
GCGGAAG782450.050.527613
GAGCGGA806850.049.5579571
GACGGCA640900.049.1576469
Produced by FastQC (version 0.11.5)