FastQCFastQC Report
Tue 25 Mar 2025
SH-1_S5_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameSH-1_S5_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences39749822
Sequences flagged as poor quality0
Sequence length101
%GC51

[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
CTGGAGTGCAGTGGCTATTCACAGGCGCGATCCCACTACTGATCAGCACG1322180.33262538886337656No Hit
CCTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCATATTGATG1178160.29639378007780764No Hit
CTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCATATTGATGC870520.21899972281636884No Hit
CCCCGCTCCCGGGAGGTCACCATATTGATGCCGAACTTAGTGCGGACACC822830.20700218481481503No Hit
GATCGGAAGAGCACACGTCTGAACTCCAGTCACTCCGCGAAATCTGGGGG568430.1430018982223367TruSeq Adapter, Index 6 (97% over 36bp)
GGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCATATTGATGCCGAA510440.12841315364883898No Hit
CCGCTCCCGGGAGGTCACCATATTGATGCCGAACTTAGTGCGGACACCCG499830.12574395930628318No Hit
TTCACAGGCGCGATCCCACTACTGATCAGCACGGGAGTTTTGACCTGCTC482530.1213917385592318No Hit
GCTATTCACAGGCGCGATCCCACTACTGATCAGCACGGGAGTTTTGACCT470060.11825461759300457No Hit
TGGCTATTCACAGGCGCGATCCCACTACTGATCAGCACGGGAGTTTTGAC437770.11013131077668725No Hit
ATTCACAGGCGCGATCCCACTACTGATCAGCACGGGAGTTTTGACCTGCT410900.10337153207881031No Hit
CCGACCTGGGCCGGTTCACCCCTCCTTAGGCAACCTGGTGGTCCCCCGCT400270.10069730626718278No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CGCGAAA317700.027.24786636-37
GCGAAAT343400.025.54060736-37
CCGCGAA348800.025.42435834-35
TCCGCGA368300.024.64569934-35
CGAAATC348750.024.49505238-39
ACTCCGC413250.022.93616332-33
CTCGCTA110350.022.3849051
CACTCCG443500.021.68767730-31
GGAGTGC677100.021.6556053
GAGTGCA714100.020.7998244
CTGGAGT883800.020.6879831
TCGCTAT119150.020.6117172
GAGCACA996550.020.2444619
AGAGCAC1008950.019.7884488
GTGCAGT756050.019.4696146
AGTGCAG781850.019.1796675
CTCCGCG503650.019.14472432-33
CGGAAGA1114950.017.8476474
AAGAGCA1129300.017.7763777
TGGAGTG855450.017.6028212
Produced by FastQC (version 0.11.4)