FastQCFastQC Report
Wed 25 May 2016
SRR1780485_1.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameSRR1780485_1.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences94072
Sequences flagged as poor quality0
Sequence length50
%GC50

[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
CTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGT3179133.794327748958246No Hit
ATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTCTT2186323.240709243983332RNA PCR Primer, Index 45 (95% over 23bp)
CTTTACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTC63696.770346117867165RNA PCR Primer, Index 45 (95% over 21bp)
TCTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCG38874.131941491623437No Hit
CTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTC32993.50688834084531No Hit
TATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTCT20392.167488732035037RNA PCR Primer, Index 45 (95% over 22bp)
CTCTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCC13861.4733395696913003No Hit
TCTTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCC11141.1841993366782888No Hit
TCTTAATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCC7180.763245173909346No Hit
CTTAATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCG6960.7398588315332936No Hit
CTTATAACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCG6070.6452504464665363No Hit
CTTAACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTC5160.5485160302746832RNA PCR Primer, Index 45 (95% over 21bp)
TTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTC5070.5389488902117527No Hit
CTTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCG3550.3773705247044817No Hit
CTTATTACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCG3420.3635513223913598No Hit
CTTATCACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTC2740.29126626413810697No Hit
ATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTCTTCTGCTT2340.24874564163619356TruSeq Adapter, Index 2 (96% over 27bp)
CTTACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTCT2330.24768262607364572RNA PCR Primer, Index 45 (95% over 22bp)
ACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTCTTCT2300.24449357938600222RNA PCR Primer, Index 45 (96% over 25bp)
CTTATATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCC2040.2168551747597585No Hit
CTTATACACATCTCCGAGCCCACGAGACGGTCATTATCTCGTATGCCGTC1700.18071264563313205No Hit
TCTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGT1570.16689344332001022No Hit
ATACACATCTCCGAGCCCACGAGACGGTCATTATCTCGTATGCCGTCTTC1400.148822178756697Illumina PCR Primer Index 6 (95% over 22bp)
TCTCTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGC1370.14563313206905348No Hit
TCTTTACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGT1120.1190577430053576No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TTATCAC700.044.0202142
TTATATA207.801936E-444.0202142
ATAACAC700.044.0202144
CTTATCA700.044.0202141
CTTATAA700.044.0202141
CTGCTTG207.822416E-443.9968144
CCGTCTT24850.042.4918944
CTTTACA6600.042.3527831
TTTACAC6550.042.3400542
TCTTTAT1150.042.106291
CTATACA3850.041.7334481
CTTAACA850.041.4307861
TTAACAC850.041.4307862
TCTTAAT850.041.4307861
TATAACA750.041.085533
CTTTATA1200.040.351862
TTTATAC1200.040.351863
CTTACAC404.0563464E-738.5176851
TATCACA800.038.5176853
GCCGTCT27600.038.25809543
Produced by FastQC (version 0.11.5)