FastQCFastQC Report
Wed 10 Dec 2014
LMN_Undetermined_L002_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameLMN_Undetermined_L002_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences87282254
Sequences flagged as poor quality0
Sequence length51
%GC46

[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

[OK]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
GAATATTATTCAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATC3283390.3761807067906381Illumina Paired End PCR Primer 2 (100% over 40bp)
CTTCATTGAAGAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATC2868740.32867391348532315Illumina Paired End PCR Primer 2 (100% over 40bp)
GAGGCTCAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGT2099390.24052884793740545Illumina Paired End PCR Primer 2 (100% over 44bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
AGGCTGT6089900.044.7083932
AGGCTAT2126800.044.6673662
AGGCTCG2923850.044.5724452
GAGGCTG15827700.044.4686281
AGGCTAG960400.044.4339942
GAGGCTC11124850.044.2188641
AGGCTGA2367150.043.9908522
GGCTATT848100.043.82683
AGGCTCC1895750.043.6726152
TTACCTG348350.043.6074181
GAGGCTA4935200.043.504751
AGGCTTA765100.043.2815252
GGCTAGG198550.043.146183
GGCTATC561950.042.862533
GGCTGTA760600.042.7682233
GGCTGTG1987300.042.694943
GGCTCGG1452550.042.5370333
GGCTATA358000.042.302053
AGGCTAC631900.042.2658542
GAGGCTT7341000.042.1658061
Produced by FastQC (version 0.11.2)