FastQCFastQC Report
Tue 7 Feb 2017
IH03.bam.trim.bam

Summary

[OK]Basic Statistics

MeasureValue
FilenameIH03.bam.trim.bam
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences98179394
Sequences flagged as poor quality0
Sequence length9-39
%GC38

[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

[WARN]Per sequence GC content

Per sequence GC content graph

[OK]Per base N content

N content graph

[WARN]Sequence Length Distribution

Sequence length distribution

[OK]Sequence Duplication Levels

Duplication level graph

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTTGAAG1201460.12237394742933533TruSeq Adapter, Index 19 (97% over 38bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CGTGTAG2601400.031.82790216
TCGTGTA2749450.031.50874715
GTCGTGT2832050.031.44264214
CGTCGTG2896000.031.214113
GCGTCGT2913050.031.05884612
AGCGTCG2943250.030.86384411
GTAGGGA2661350.030.85381519
GAGCGTC2971950.030.58721510
TGTAGGG2701600.030.5809618
AGAGCGT3018750.030.2550649
GTGTAGG2743150.030.1439117
AAGAGCG3079500.029.8283318
TAGGGAA2758300.029.79671920
AGATCGG3139950.029.6641311
GGGAAAG2871600.029.01280422
AGAGTGT2846850.028.69539527
AAGAGTG2916400.028.37067826
GATCGGA3284650.028.3380532
ATCGGAA3313150.028.0831093
TCGGAAG3325500.028.0651534
Produced by FastQC (version 0.11.5)