FastQCFastQC Report
Fri 31 Oct 2014
LW248_GTGAAA_L006_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameLW248_GTGAAA_L006_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences5330567
Sequences flagged as poor quality0
Sequence length51
%GC44

[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

[WARN]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

[OK]Sequence Duplication Levels

Duplication level graph

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTGAAACGATCTCGTATG3000125.62814424806967TruSeq Adapter, Index 19 (97% over 40bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTGAAACGCTCTCGTATG167060.3134000566919054TruSeq Adapter, Index 19 (97% over 44bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTGAAACGATCTCGTCTG164420.3084474878563575TruSeq Adapter, Index 19 (97% over 40bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTGACACGATCTCGTATG115690.21703132143353607TruSeq Adapter, Index 19 (97% over 40bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTGAACCGATCTCGTATG107050.20082291433537935TruSeq Adapter, Index 19 (97% over 40bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTGCAACGATCTCGTATG77780.14591318334428588TruSeq Adapter, Index 19 (97% over 40bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTGAAAAGATCTCGTATG60710.11389032348716374TruSeq Adapter, Index 19 (97% over 39bp)
GATCGGAAGAGCACACGTCTGCACTCCAGTCACGTGAAACGATCTCGTATG60620.11372148591322462TruSeq Adapter, Index 19 (97% over 40bp)
GATCGGAAGAGCACACGTCTGAACTCCCGTCACGTGAAACGATCTCGTATG58330.10942550764299558TruSeq Adapter, Index 19 (97% over 40bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCCCGTGAAACGATCTCGTATG57150.10721185945134917TruSeq Adapter, Index 19 (97% over 40bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TCGTATG516700.043.7636745
AGTCACG546250.043.5446528
GTCACGT551050.043.54057329
TCACGTG550300.043.41593630
CTCGTAT510100.043.3283344
CACGTGA534250.043.29259531
CAGTCAC542750.043.24509427
CCAGTCA538200.043.24159626
ACTCCAG555350.043.10945523
TCCAGTC554250.043.08947425
TCTCGTA516250.042.97501443
ACGTCTG600550.042.94394315
ACGTGAA521200.042.93044732
AACGATC465450.042.9272938
CTCCAGT561600.042.9181424
GAACTCC563350.042.8726821
CACGTCT596800.042.8594214
ACGATCT490400.042.85570539
ACACGTC592900.042.84535613
CGTCTGA591500.042.81744416
Produced by FastQC (version 0.11.2)