FastQCFastQC Report
Fri 6 Sep 2019
HFHGMBGXC_n01_RA1_1sorted.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHFHGMBGXC_n01_RA1_1sorted.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences8275258
Sequences flagged as poor quality0
Sequence length76
%GC52

[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

[FAIL]Sequence Duplication Levels

Duplication level graph

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGTGGCCTTATCTCGTAT7436368.986257588585152TruSeq Adapter, Index 20 (97% over 44bp)
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACGTGGCCTTATCTCGTA7008448.469149844029031TruSeq Adapter, Index 20 (97% over 44bp)
ATCGGAAGAGCACACGTCTGAACTCCAGTCACGTGGCCTTATCTCGTATG154420.18660445390343117TruSeq Adapter, Index 20 (97% over 43bp)

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
AAAAAAG891000.061.88139370
AGATCGG881400.060.647771
TTACCTA17700.048.84356341
AAAAAGG84050.041.63985470
ACTCTAG28550.037.6404955
TACCTAC23000.037.1322242
TACTCTA29700.036.3004534
ATTACCT19200.036.09439540
CGTATGC1577350.034.7871346
TCGTATG1578000.034.78209345
TATGCCG1575000.034.7806248
CTCGTAT1567050.034.77050844
GTATGCC1580900.034.660347
TATCTCG1566300.034.61466641
TTGAAAA1591250.034.55134263
GCTTGAA1587000.034.52761561
TGAAAAA1597050.034.5220864
CCGTCTT1587700.034.470352
CCTACAA25400.034.45047444
CTTGAAA1592800.034.43861862
Produced by FastQC (version 0.11.5)