FastQCFastQC Report
Wed 25 May 2016
SRR1780413_1.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameSRR1780413_1.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences162309
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
CTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGT4150925.574059355919882No Hit
ATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTCTT3073518.93610335840896RNA PCR Primer, Index 45 (95% over 23bp)
CTTTACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTC100076.165400563123425RNA PCR Primer, Index 45 (95% over 21bp)
CTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTC57203.5241422225508137No Hit
TCTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCG46302.8525836521696273No Hit
TATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTCT28741.770696634197734RNA PCR Primer, Index 45 (95% over 22bp)
CTCTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCC23621.4552489387526262No Hit
TCTTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCC16241.0005606589899514No Hit
CTTAATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCG13500.8317468532244052No Hit
CTTATAACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCG11180.6888096162258409No Hit
TCTTAATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCC10770.6635491562390256No Hit
CTTAACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTC8280.5101380699776352RNA PCR Primer, Index 45 (95% over 21bp)
TTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTC8060.4965836768139783No Hit
CTTATCACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTC6480.39923848954771457No Hit
CTTATTACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCG6280.38691631394439No Hit
CTTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCG5350.329618197388931No Hit
CTTACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTCT3330.2051642237953533RNA PCR Primer, Index 45 (95% over 22bp)
ACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTCTTCT3290.20269978867468838RNA PCR Primer, Index 45 (96% over 25bp)
TCTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGT3040.18729706917053274No Hit
TCTTTACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGT2770.17066213210604464No Hit
CTTATATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCC2320.14293723699856448No Hit
TCTCTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGC2240.13800836675723466No Hit
ATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCGTCTTCTGCTT2160.13307949651590487TruSeq Adapter, Index 2 (96% over 27bp)
CTTATACACATCTCCGAGCCCACGAGACGGTCATTATCTCGTATGCCGTC2080.12815062627457505No Hit
CCTTATACACATCTCCGAGCCCACGAGACGGTCATTTATCTCGTATGCCG1910.1176767770117492No Hit
ATACACATCTCCGAGCCCACGAGACGGTCATTATCTCGTATGCCGTCTTC1740.10720292774892336Illumina PCR Primer Index 6 (95% over 22bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CTTATAA1500.044.052131
TACACAC254.4191394E-544.0114023
CCGTCTT31550.042.88221444
CTTTACA11250.042.485831
TTTACAC11400.041.695012
ATAACAC1650.041.3440444
TCTTTAT1900.039.4150661
CTATACA6400.039.233931
GCCGTCT35500.038.11080643
TTACACA12750.037.1076553
TAGCACC301.2941999E-436.6761674
ATTACAC1150.036.3572434
CTTATAC50250.036.0745281
TATAACA1900.035.904043
TTATAAC1850.035.6849172
CTTAACA1050.035.6612471
CTTATCA751.8189894E-1235.2417071
TTATCAC751.8189894E-1235.209122
AGCACCC250.0023473835.1982775
CTATGTA250.0023473835.19827730
Produced by FastQC (version 0.11.5)