FastQCFastQC Report
Wed 7 Oct 2020
HH2JLAFX2_n01_msh3_MA_strain_A4.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHH2JLAFX2_n01_msh3_MA_strain_A4.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences7637998
Sequences flagged as poor quality0
Sequence length151
%GC36

[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

[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

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
TATATATACAGGCAACACGCAGATATAGGTGCGACGTGAACAGTGAGCTG319860.4187746579666557No Hit
GTATATATATATACATGAGAAGAACGGCATAGTGCGTGTTTATGCTTAAA165970.21729516032866206No Hit
GAGATATATAGCAAAGAGATACTTTTGAGCAATGTTTGTGGAAGCGGTAT117860.15430745072203475No Hit
TTATTATACAGGTTCAAATATACTATCTGTTTCAGGGAAAACTCCCAGGT108980.14268136755207322No Hit
GATATATAGCAAAGAGATACTTTTGAGCAATGTTTGTGGAAGCGGTATTC94860.12419484791695416No Hit
GTTATATAGGGATATAGCACAGAGATATATAGCAAAGAGATACTTTTGAG84300.1103692354986215No Hit
CTATAATGCAGTCTCTTGATAACTTTTTGCACTGTAGGTCCGTTAAGGTT81210.10632367277393893No Hit
ATATATTATTATACAGGTTCAAATATACTATCTGTTTCAGGGAAAACTCC80910.10593089969387266No Hit
ATATATCTCTGTGCTATATCCCTATATAACCTACCCATCCACCTTTCGCT80650.10559049635781523No Hit
GATATAGGTGCGACGTGAACAGTGAGCTGTATGTGCGCAGCTCGCGTTGC80360.10521081571375117No Hit
GTATATATATATACAGGCAACACGCAGATATAGGTGCGACGTGAACAGTG80070.10483113506968712No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TACAGGC139800.036.6122327
ACAGGCA144050.035.3307278
ATACAGG206700.034.068686
TATACAG232500.031.8477945
CAGGCAA162700.031.369959
TGCAGTC41050.030.3769367
GAGCGCA26650.028.0200379
TAGAGCG27350.027.5679657
TACAGGT79650.023.3924677
GGAACTT218250.022.654726145
ATATACA344050.021.7116184
CACCCGC29550.021.34472145
ATTATAC158100.021.009233
TATATAC422100.020.789623
CTCTGTG66400.020.7450377
GTATATA335850.020.2799971
CAGTGTC26150.020.2385719
ACAGGTT91750.020.0704148
ATAGAGC48250.018.487766
ATGCAGT76000.018.3216326
Produced by FastQC (version 0.11.5)