FastQCFastQC Report
Wed 25 May 2016
SRR1780539_1.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameSRR1780539_1.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences68464
Sequences flagged as poor quality0
Sequence length50
%GC46

[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
CTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGT3570152.14565318999767No Hit
ATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTCTT1005214.682168731011918RNA PCR Primer, Index 45 (95% over 21bp)
TCTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG688210.0519981304043No Hit
CTTTACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTC26653.892556672119654No Hit
CTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTC17402.5414816545921943No Hit
CTCTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCC15172.215763028745034No Hit
TCTTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCC10831.5818532367375553No Hit
TATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTCT9411.3744449637765834No Hit
CTTAATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG5530.8077237672353352No Hit
TCTTAATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCC5040.7361533068473942No Hit
TTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTC3540.5170600607618602No Hit
CTTATACACATCTCCGAGCCCACGAGACTCTTATTATCTCGTATGCCGTC3220.47032016826361295No Hit
CTTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG3090.4513320869362No Hit
CTTAACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTC2550.37245851834540783No Hit
CTTATAACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG2220.32425800420659034No Hit
CTTATTACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG2080.30380930123860717No Hit
CTTATACACATCTCCGAGCCCACGAGACTCTTATAATCTCGTATGCCGTC1620.2366207057723767RNA PCR Primer, Index 12 (95% over 21bp)
CTTATACACATCTCCGAGCCCACGAGACTCTTATTAATATCGTATGCCGT1550.22639635428838514No Hit
CTTATATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCC1490.21763262444496378No Hit
CCTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG1420.20740827296097217No Hit
TCTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGT1340.19572329983641037No Hit
ATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTCTTCTGCTT1120.1635896237438654RNA PCR Primer, Index 29 (96% over 27bp)
TCTCTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGC1100.16066838046272494No Hit
CTTATCACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTC1070.15628651554101425No Hit
ATACACATCTCCGAGCCCACGAGACTCTTATTATCTCGTATGCCGTCTTC1030.15044402897873335RNA PCR Primer, Index 35 (95% over 22bp)
CTCTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG860.1256134610890395No Hit
ACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTCTTCT830.12123159616732881RNA PCR Primer, Index 45 (95% over 23bp)
CTTACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTCT760.11100724468333723No Hit
GCTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG740.10808600140219678No Hit

[OK]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CTTATAT207.7517406E-444.060721
CCTTATA351.4042234E-744.0607151
TCTTTAT1400.044.0607151
TATATAC254.3821554E-544.028513
ATTACAC254.3821554E-544.028514
TATTACA254.3821554E-544.028513
ATATACA254.3821554E-544.028514
TTATATA207.779747E-444.0285072
CTTTACA2950.042.567131
TTTACAC2950.042.5360152
TCTTAAT850.041.468911
CCGTCTT11100.041.41998344
CTATACA2100.040.9135251
TATAACA404.0287887E-738.5249443
TTATAAC404.0287887E-738.5249442
ATAACAC404.0287887E-738.5249444
GCCGTCT12000.038.31348843
TTACACA3350.037.457093
TTATTAC301.2834405E-436.6904262
CTTTATA1700.036.258772
Produced by FastQC (version 0.11.5)