FastQCFastQC Report
Mon 19 Jun 2017
NA12878_S1_L001_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameNA12878_S1_L001_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences388038711
Sequences flagged as poor quality0
Sequence length151
%GC40

[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

[OK]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

[OK]Sequence Length Distribution

Sequence length distribution

[OK]Sequence Duplication Levels

Duplication level graph

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
ATCGGAAGAGCACACGTCTGAACTCCAGTCACACTGATATATCTCGTATG6181900.15931142498821466TruSeq Adapter, Index 25 (97% over 43bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
ATCGGAA2612300.043.229171
TCGGAAG2682100.042.0666282
CGGAAGA2816900.040.0174983
AGAGCAC4923100.023.2664077
AGCACAC5148050.022.3160729
GAGCACA5278400.021.7814588
GAAGAGC5450350.021.1633195
TATGCCG1197250.019.41243445-49
CGTATGC1318400.017.53071845-49
CTCGTAT1213100.016.79889540-44
TCTCGTA1255400.016.14855440-44
ATGCCGT1445200.016.11197945-49
GCCGTCT1457200.015.81096550-54
TGCCGTC1427950.015.72989545-49
AAGAGCA7644850.015.3224756
TATCTCG1317950.015.31393440-44
TCGTATG1330950.014.8168440-44
ATCTCGT1455050.014.07029840-44
GGAAGAG8517200.013.879864
CGTCTTC1691300.013.85567450-54
Produced by FastQC (version 0.11.5)