FastQCFastQC Report
Fri 27 May 2016
SRR1233040_1.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameSRR1233040_1.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences81607113
Sequences flagged as poor quality0
Sequence length101
%GC35

[FAIL]Per base sequence quality

Per base quality graph

[WARN]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

[WARN]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

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTAGCTTATCTCGTATGC2300690.28192272896604TruSeq Adapter, Index 10 (100% over 50bp)
GTCGTATTATCTATAGTGAGTCGTATTATCTATAGTGAGTCGTATTATCT2185580.2678173408732153No Hit
GTCGTATTATCTCTATAGTGAGTCGTATTATCTCTATAGTGAGTCGTATT2069640.2536102459598099No Hit
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACTAGCTTATCTCGTATG1956680.2397683152937906TruSeq Adapter, Index 10 (100% over 49bp)
GTCGTATTATCCTATAGTGAGTCGTATTATCCTATAGTGAGTCGTATTAT1948600.23877820552235443No Hit
ATACGACTCACTATAGAGATAATACGACTCACTATAGAGATAATACGACT1407000.17241144163499572No Hit
ATACGACTCACTATAGATAATACGACTCACTATAGATAATACGACTCACT1026290.12575987095634666No Hit
GTCGTATTATCCCTATAGTGAGTCGTATTATCCCTATAGTGAGTCGTATT1016720.12458717906121738No Hit
GTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT916630.11232231680588921No Hit
CCCAGATATATTTTGATCAACGGACCAAGTTACCCTAGGGATAACAGCGC863470.10580817875520238No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CGCGTGT762900.072.5714951
GCGTGTT1029450.054.3338742
CGGTGGT80050.051.8215561
GTTTTTT14543550.041.6181
CCCGAAA192050.038.345281
CGTGTTT1589950.035.5201383
TATGCCG761950.034.41056446-47
TGCCGTC753350.033.74133348-49
CCGAAAC221400.033.0087052
CTCGTAT820850.032.04659742-43
CCGTCTT797950.031.99479750-51
CGGCCTT62800.031.74021
GTGTTTT3897100.031.2331751
ATCTCGT834100.031.20123140-41
CGGCAAC59950.030.8685131
CCCAGAT405750.030.5659431
CGGAGAT85200.030.4865551
TCGTCTA195600.029.92685744-45
ACTAGCT924300.029.8929432-33
TCAACGG184100.029.68829716-17
Produced by FastQC (version 0.11.5)