FastQCFastQC Report
Wed 25 May 2016
SRR1780467_1.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameSRR1780467_1.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences101822
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
CTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGT4033639.614228752136086No Hit
ATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTCTT2609525.628056805012665RNA PCR Primer, Index 45 (95% over 21bp)
CTTTACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTC72317.101608689674137No Hit
TCTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG57795.675590736775942No Hit
CTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTC38333.764412405963348No Hit
TATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTCT23202.278485985346978No Hit
CTCTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCC13931.3680736972363536No Hit
TCTTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCC10671.0479071320539766No Hit
CTTAATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG9660.9487144232091297No Hit
CTTATAACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG8160.8013985189841095No Hit
TCTTAATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCC7970.7827385044489402No Hit
TTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTC6490.6373868122802537No Hit
CTTAACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTC6100.5990846771817485No Hit
CTTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG5100.5008740743650685No Hit
CTTATACACATCTCCGAGCCCACGAGACTCTTATTATCTCGTATGCCGTC4380.4301624403370588No Hit
CTTATTACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG3940.38694977509771955No Hit
CTTATCACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTC3400.3339160495767123No Hit
ACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTCTTCT3120.30641708078804186RNA PCR Primer, Index 45 (95% over 23bp)
ATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTCTTCTGCTT2840.27891811199937144RNA PCR Primer, Index 29 (96% over 27bp)
ATACACATCTCCGAGCCCACGAGACTCTTATTATCTCGTATGCCGTCTTC2830.27793600597120466RNA PCR Primer, Index 35 (95% over 22bp)
CTTACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGTCT2740.26909705171770343No Hit
TCTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGT2200.2160633261966962No Hit
CTTATACACATCTCCGAGCCCACGAGACTCTTATTAATATCGTATGCCGT1990.1954390996051934No Hit
CTTATACACATCTCCGAGCCCACGAGACTCTTATAATCTCGTATGCCGTC1960.192492781520693RNA PCR Primer, Index 12 (95% over 21bp)
TCTTTACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCGT1790.17579697904185734No Hit
ATACACATCTCCGAGCCCACGAGACTCTTATTAATATCGTATGCCGTCTT1620.15910117656302175No Hit
CCTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCCG1600.15713696450668813No Hit
CTTATATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGCC1470.14436958614051973No Hit
ATACACATCTCCGAGCCCACGAGACTCTTATAATCTCGTATGCCGTCTTC1440.14142326805601935TruSeq Adapter, Index 12 (95% over 24bp)
TCTCTTATACACATCTCCGAGCCCACGAGACTCTTATTAATCTCGTATGC1410.13847694997151894No Hit

[OK]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CTTATCA207.772427E-444.0575521
CTTACAC750.044.0575521
CTTAACA950.044.057551
TATAACA1100.044.014253
TTATCAC207.8101916E-444.014252
TTATAAC1100.044.014252
TATAATC254.4185865E-543.99263432
TTATAAT254.4185865E-543.99263431
ATAATCT254.4185865E-543.99263433
CTTTACA7850.043.7769281
TTTACAC7850.043.7339062
CCGTCTT26600.042.090744
TTAACAC1000.041.8135382
ATAACAC1150.040.1869244
TCTTAAT1050.039.8615951
CTATACA4050.039.706191
TTATTAC501.3187673E-939.6128232
TATTACA501.3187673E-939.6128233
CCTTATA357.1604118E-637.7636151
CACACAT357.208955E-637.72655
Produced by FastQC (version 0.11.5)