FastQCFastQC Report
Thu 3 Jan 2019
mouse_brain_rep1_1.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
Filenamemouse_brain_rep1_1.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences100000
Sequences flagged as poor quality0
Sequence length101
%GC49

[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

[OK]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

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGTATGCCGT22772.2769999999999997Illumina Paired End PCR Primer 2 (100% over 50bp)
GGCGCCTCTGATCAAGTCCGCACAAACCTTCTCCAGCGACTTCACGTTGC1850.185No Hit
GCTGCATGCAAATCTTTTTTACTTCATCTCCAGTCAGGGCATACTTAAGT1750.17500000000000002No Hit
GCGCCTCTGATCAAGTCCGCACAAACCTTCTCCAGCGACTTCACGTTGCG1620.16199999999999998No Hit
GCGCCATCCATTTTCAGGGCTAGTTGATTCGGCAGGTGAGTTGTTACACA1520.152No Hit
CGCTGCATGCAAATCTTTTTTACTTCATCTCCAGTCAGGGCATACTTAAG1400.13999999999999999No Hit
GTCCGCGAACAACCTGAACTTCGTCATCCTTCCGAATGGGCATAGACCGA1240.124No Hit
CCGGGGATCCTTCTCGTCTAGCGTCAACAGCTCCCGGGCCGCCTTACGGA1220.122No Hit
CGGGGATCCTTCTCGTCTAGCGTCAACAGCTCCCGGGCCGCCTTACGGAT1170.117No Hit
AGACGATTTATTCAGTTGTCTTAGGCATCTGCAATGGTGACTTCAACCTC1140.11399999999999999No Hit
CGCCTCTGATCAAGTCCGCACAAACCTTCTCCAGCGACTTCACGTTGCGG1070.107No Hit
CGGCCGCTCCCGTCCCGTTCCGTTCCGACTGCCGGCGACGGCCGGGTATG1020.10200000000000001No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GAGCGGT3850.061.665269
AAGAGCG3950.060.1041157
GATCGGA4000.059.4122281
AGAGCGG4000.059.3528148
TCGGGGC250.004995492357.035742
ATCGGAA4250.055.917392
TCGGAAG4300.055.267193
TACCGCG352.7670298E-454.3197481
CGGAAGA4450.053.350844
ACCGCGG405.347894E-447.5297782
GAAGAGC5150.046.0992746
ATGCCGT2600.045.6560144-45
TGCCGTC2550.045.620244-45
GCCGTCT2650.044.79457546-47
TCGTATG2600.044.7428940-41
CTCGTAT2500.044.63331238-39
CGTATGC2600.043.8297740-41
TATGCCG2600.043.8297742-43
TCTCGTA2550.043.75815238-39
CCGTCTT2750.042.3023746-47