FastQCFastQC Report
Wed 4 Feb 2015
SE338_CGATGT_L004_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameSE338_CGATGT_L004_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences5986702
Sequences flagged as poor quality0
Sequence length51
%GC47

[OK]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

[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

[WARN]Sequence Duplication Levels

Duplication level graph

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGTATCTCGTATGCC209328134.965511896199274TruSeq Adapter, Index 2 (100% over 51bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGAATCTCGTATGCC77550.12953709738684172TruSeq Adapter, Index 2 (98% over 51bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CACACGT2349850.044.5228212
GCACACG2351900.044.50409711
AGCACAC2353750.044.49014310
AGAGCAC2360750.044.4801948
ACACGTC2349600.044.46819713
GAGCACA2360050.044.467659
CACGTCT2347900.044.46398514
GATCGGA2360400.044.455471
TCGGAAG2361150.044.451123
GAAGAGC2369100.044.4174236
CGGAAGA2367300.044.4040574
ACGTCTG2349750.044.39930315
AAGAGCA2371750.044.3820237
ATCGGAA2365200.044.3543472
CGTCTGA2351100.044.3403216
GGAAGAG2380100.044.3202635
TCTGAAC2346550.044.270418
CTGAACT2347050.044.2396719
GAACTCC2337800.044.22498321
GTATGCC2328600.044.20203845
Produced by FastQC (version 0.11.2)