FastQCFastQC Report
Mon 15 Sep 2014
lane1_Undetermined_L001_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
Filenamelane1_Undetermined_L001_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences490122
Sequences flagged as poor quality0
Sequence length76
%GC45

[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

[FAIL]Sequence Duplication Levels

Duplication level graph

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTTAGGCATCTCGTATGC370137.551793226992463TruSeq Adapter, Index 3 (100% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCAATATCTCGTATGC57991.183174801375984TruSeq Adapter, Index 6 (100% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGAGAATATCTCGTATGC28370.578835473616773TruSeq Adapter, Index 19 (97% over 38bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGATCATCTCGTATGC27070.5523114653086374TruSeq Adapter, Index 7 (100% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGACAATATCTCGTATGC21980.44845977124062986TruSeq Adapter, Index 6 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGAGAACATCTCGTATGC19270.39316741545982425TruSeq Adapter, Index 19 (97% over 38bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCTAATATCTCGTATGC16970.34624032383773834TruSeq Adapter, Index 6 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCATATCTCGTATGCC15490.31604376053309174TruSeq Adapter, Index 6 (97% over 37bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCGAATATCTCGTATGC15280.3117591130371622TruSeq Adapter, Index 6 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGAACATCTCGTATGC15150.3091067122063486TruSeq Adapter, Index 7 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTGAATCTCGTATGC13720.2799303030673995TruSeq Adapter, Index 8 (100% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGATCTCGTATGC12250.24993777059589248TruSeq Adapter, Index 9 (100% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCAACATCTCGTATGC11410.2327991806121741TruSeq Adapter, Index 6 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGAATATCTCGTATGC10610.21647671396101378TruSeq Adapter, Index 7 (97% over 37bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGACAACATCTCGTATGC9810.20015424730985346TruSeq Adapter, Index 6 (97% over 38bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCTTATATCTCGTATGC9590.19566556898078438TruSeq Adapter, Index 8 (97% over 37bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGAGAAGATCTCGTATGC9290.18954464398659926TruSeq Adapter, Index 19 (97% over 38bp)
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA9140.18648418148950668No Hit
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCAATATCTCGTATGCC8710.177710855664508TruSeq Adapter, Index 6 (97% over 37bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGAGCAGATCTCGTATGC8170.1666931906749748TruSeq Adapter, Index 9 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCCATATCTCGTATGC7450.1520029706889305TruSeq Adapter, Index 6 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTAGCTTATCTCGTATGC7400.150982816523233TruSeq Adapter, Index 10 (100% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCCTTTCATCTCGTATGC7090.14465786069590836TruSeq Adapter, Index 8 (97% over 37bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGAGATTATCTCGTATGC6450.1315998873749801TruSeq Adapter, Index 7 (97% over 38bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCCCAATATCTCGTATGC6330.12915151737730607TruSeq Adapter, Index 6 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCAGATTATCTCGTATGC6250.12751927071219002TruSeq Adapter, Index 7 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGATAAGATCTCGTATGC5880.11997012988602838TruSeq Adapter, Index 9 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCCGATCATCTCGTATGC5850.11935803738660987TruSeq Adapter, Index 7 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCGAACATCTCGTATGC5780.11792982155463334TruSeq Adapter, Index 6 (97% over 38bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGACCATATCTCGTATGC5450.1111968040610297TruSeq Adapter, Index 9 (97% over 38bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCATTTCATCTCGTATGC5350.10915649572963465TruSeq Adapter, Index 9 (97% over 36bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGAGATCATCTCGTATGC5350.10915649572963465TruSeq Adapter, Index 7 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGACAAGATCTCGTATGC5310.10834037239707665TruSeq Adapter, Index 6 (97% over 38bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCATATCATCTCGTATGC5150.10507587906684458TruSeq Adapter, Index 7 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGCCAAGATCTCGTATGC5040.10283153990231003TruSeq Adapter, Index 6 (98% over 50bp)
GATCGGAAGAGCACACGTCTGAACTCCAGTCACACTTGCATCTCGTATGC4980.10160735490347302TruSeq Adapter, Index 8 (98% over 50bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CGCTTAG401.3460522E-1070.0031733
ACGCCTA900.069.9960232
GCACACG147950.069.1207711
CACGTCT147800.069.0488514
AGCACAC148350.068.9815910
ACGTCTG147850.068.9544815
CACGCTA3300.068.9354831
ACACGTC148350.068.8400413
CAGTCAC142200.068.8146627
CTGAACT143850.068.8038719
CACACGT148500.068.7940712
CGTCTGA144550.068.7854416
TCGGAAG149900.068.6185153
AGAGCAC149300.068.566098
CGGAAGA150100.068.550414
CTCCAGT146650.068.5402524
ATCGGAA150200.068.504762
CCAGTCA144650.068.4475526
TCCAGTC146450.068.3948825
ACTCCAG147250.068.37981423
Produced by FastQC (version 0.11.2)