FastQCFastQC Report
Sat 18 Jun 2016
SRR3550040_1.fastq

Summary

[OK]Basic Statistics

MeasureValue
FilenameSRR3550040_1.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences579084
Sequences flagged as poor quality0
Sequence length51
%GC48

[OK]Per base 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

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
CTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTCTTCTGCT48870.8439190169301863TruSeq Adapter, Index 3 (95% over 24bp)
GCTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTCTTCTGC41800.7218296482030241RNA PCR Primer, Index 24 (95% over 23bp)
CCTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTCTTCTGC41570.7178578582727204RNA PCR Primer, Index 3 (95% over 23bp)
GAATGATACGGCTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGC31550.5448259665264452No Hit
GAATGATACCTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCG28490.4919838918015349No Hit
GAATCTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTCTTC23620.40788555719032127No Hit
CGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT17500.3022014077405005No Hit
TCTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTCTTCTGC13880.23968888796789412RNA PCR Primer, Index 24 (95% over 23bp)
ACTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTCTTCTGC11540.1992802425900215TruSeq Adapter, Index 3 (95% over 23bp)
CGTTTTTTTTCTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCC10580.1827023367939712No Hit
CGCTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTCTTCTG10310.178039800788832TruSeq Adapter, Index 3 (95% over 22bp)
GAATGATACGGCGACCACCTGTCTCTTATACACATCTGACGCTGTGCATGT9130.15766279158118685No Hit
AGCTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTCTTCTG7210.12450697998908622TruSeq Adapter, Index 3 (95% over 22bp)
GAATGATACGGCGACTGTCTCTTATACACATCTGACGCTGTGCATGTCGTA7080.12226205524587107No Hit
GAACTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTCTTCT7010.12105324961490906TruSeq Adapter, Index 3 (95% over 21bp)
GCCTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTCTTCTG6890.11898101139040278RNA PCR Primer, Index 24 (95% over 22bp)
GAATGACTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTCT6830.11794489227814962No Hit
GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAA6610.11414578886655477No Hit
ACCTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTCTTCTG6250.1079290741930359TruSeq Adapter, Index 3 (95% over 22bp)
GAATGATCTGTCTCTTATACACATCTGACGCTGTGCATGTCGTATGCCGTC6110.10551146293111188No Hit
GTGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAG5870.10136698648209931No Hit

[FAIL]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GTTGACG207.0303824E-445.0000041
GTTTGCG207.0303824E-445.0000041
TAATACG800.045.0000044
CTCAACG207.0303824E-445.0000041
GGCACGC207.0303824E-445.0000048
ACCGAAA207.0303824E-445.00000422
TCGATTA406.8048394E-945.00000441
ATACTCG207.0303824E-445.00000410
TGACCGA207.0303824E-445.00000433
AACGATC207.0303824E-445.00000442
TTGCGGA207.0303824E-445.0000041
TTGCGAC207.0303824E-445.0000041
TTCGGAC207.0303824E-445.00000413
GTCCATT207.0303824E-445.00000412
TACACGG207.0303824E-445.0000042
CGACGGT502.1827873E-1145.028
TTAACGG253.8883994E-545.02
TAGCACG302.1636297E-644.9999961
GTACGAG302.1636297E-644.9999961
GCACGGG2350.044.0425533
Produced by FastQC (version 0.11.5)