FastQCFastQC Report
Tue 25 Mar 2025
SH-4_S1_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameSH-4_S1_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences58300540
Sequences flagged as poor quality0
Sequence length101
%GC57

[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

[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

[FAIL]Sequence Duplication Levels

Duplication level graph

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
CGGGATTCGGCGAGTGCTGCTGCCGGGGGGGCTGTAACACTCGGGGGGGG2468490.42340774202091436No Hit
CCAGAAGCGAGAGCCCCTCGGGGCTCGCCCCCCCGCCTCACCGGGTCAGT1646110.2823490142629897No Hit
CCCCGCCTCACCGGGTCAGTGAAAAAACGATCAGAGTAGTGGTATTTCAC1535590.2633920714971079No Hit
CCGGGATTCGGCGAGTGCTGCTGCCGGGGGGGCTGTAACACTCGGGGGGG1401570.24040429128100702No Hit
CTGGAGTCTTGGAAGCTTGACTACCCTACGTTCTCCTACAAATGGACCTT1271970.21817465155554305No Hit
CGACGGGTCTCGCTCCCTCGGCCCCGGGATTCGGCGAGTGCTGCTGCCGG1125450.19304280886592132No Hit
CTGGAGTGCAGTGGCTATTCACAGGCGCGATCCCACTACTGATCAGCACG1037260.17791601930273715No Hit
CCCAGGACGAAGGGCACTCCGCACCGGACCCCGGTCCCGGCGCGCGGCGG1029920.17665702581828574No Hit
CGGATTTTCAAGGGCCAGCGAGAGCTCACCGGACGCCGCCGGAACCGCGA942920.16173435100258077No Hit
CCTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCATATTGATG902210.15475156833881812No Hit
CCCGGGATTCGGCGAGTGCTGCTGCCGGGGGGGCTGTAACACTCGGGGGG860350.1475715319274916No Hit
GCCAGAAGCGAGAGCCCCTCGGGGCTCGCCCCCCCGCCTCACCGGGTCAG829900.14234859574199485No Hit
CCGGATTTTCAAGGGCCAGCGAGAGCTCACCGGACGCCGCCGGAACCGCG806590.1383503480413732No Hit
CCCGGATTTTCAAGGGCCAGCGAGAGCTCACCGGACGCCGCCGGAACCGC791480.13575860532338122No Hit
GCCAGGTTCCCCACGAACGTGCGGTGCGTGACGGGCGAGGGGGCGGCCGC686860.11781366004500131No Hit
CCCGCCTCACCGGGTCAGTGAAAAAACGATCAGAGTAGTGGTATTTCACC670570.11501951782950895No Hit
CCCTCCTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCATATT668500.11466446108389391No Hit
CTCCGTTTCCGACCTGGGCCGGTTCACCCCTCCTTAGGCAACCTGGTGGT657050.11270049985814884No Hit
CGGCGACGGGTCTCGCTCCCTCGGCCCCGGGATTCGGCGAGTGCTGCTGC632240.10844496466070469No Hit
CACGAACGTGCGGTGCGTGACGGGCGAGGGGGCGGCCGCCTTTCCGGCCG625610.10730775392474923No Hit
CCCGGCGCGAGATTTACACCCTCTCCCCCGGATTTTCAAGGGCCAGCGAG621660.10663023018311665No Hit
GATCGGAAGAGCACACGTCTGAACTCCAGTCACATTACTCGATCTGGGTT608000.10428719871205311TruSeq Adapter, Index 27 (97% over 39bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CTCGCTA148700.034.331031
CCGGTAT130200.031.5932031
TTACTCG424950.030.58584634-35
ACTCGAT439150.029.71568736-37
GAAGCGA606200.028.8251574
TACTCGA456350.028.56450336-37
AGAAGCG623600.028.0436883
GAGTCTT462400.027.8880124
AAGCGAG638850.027.3742335
AGTCTTG507350.025.89415
CGGTATT154150.025.7612822
ACGTACG99150.025.6960936
CGTACGA100150.025.6763867
TCGCTAT211900.025.59182
TGGAGTC528850.025.4783552
ATTACTC515900.025.40986834-35
GGAGTCT519200.025.330543
TAACACG175500.024.8711722
TCGATCT506950.024.35169638-39
ACATTAC540150.024.2953432-33
Produced by FastQC (version 0.11.4)