FastQCFastQC Report
Mon 14 May 2018
HG5M3BCX2_l01n01_r3zt2s45.351000000d80c3.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHG5M3BCX2_l01n01_r3zt2s45.351000000d80c3.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences2011
Sequences flagged as poor quality0
Sequence length101
%GC45

[OK]Per base sequence quality

Per base quality graph

[FAIL]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

[OK]Sequence Duplication Levels

Duplication level graph

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
TCTCCGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTG472.3371456986573844TruSeq Adapter, Index 7 (96% over 28bp)
GAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTGAAAAA331.6409746394828444Illumina PCR Primer Index 10 (96% over 29bp)
GATCGGAAGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGC301.4917951268025857RNA PCR Primer, Index 29 (96% over 27bp)
GAGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTGAAAAA261.2928891098955742RNA PCR Primer, Index 42 (96% over 28bp)
GAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGAAAAA180.8950770760815515RNA PCR Primer, Index 29 (96% over 27bp)
TCCGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTGAA180.8950770760815515Illumina PCR Primer Index 10 (96% over 29bp)
CTCCGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGA150.7458975634012929RNA PCR Primer, Index 7 (96% over 28bp)
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA140.69617105917454No Hit
AGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGAAAAAA130.6464445549477871TruSeq Adapter, Index 7 (96% over 28bp)
TCTCCGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG130.6464445549477871RNA PCR Primer, Index 29 (96% over 30bp)
TCCGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGAA130.6464445549477871TruSeq Adapter, Index 7 (96% over 28bp)
GGCTCGGAGATGTGTATAAGAGACAGCTCCGAGCCCACGAGACTAGCGCT80.39781203381402286No Hit
TCTCCGAGCACACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG80.39781203381402286TruSeq Adapter, Index 10 (96% over 29bp)
CTTATACACATCTCCGAGCCAACGAGACTGCAGCTAATCTCGTATGCCGT60.29835902536051717No Hit
GAGCCCACGAGACACTCGCTAATCTCGTATGCCGTCTTCTGCTTGAAAAA60.29835902536051717Illumina PCR Primer Index 10 (96% over 28bp)
TCCGAGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTGAA60.29835902536051717Illumina Paired End PCR Primer 2 (96% over 29bp)
CTTATACACATCTACGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGT50.24863252113376427No Hit
GAAGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTGAA50.24863252113376427Illumina PCR Primer Index 10 (96% over 29bp)
TCTCCGAGCCAACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTG50.24863252113376427Illumina Paired End PCR Primer 2 (96% over 29bp)
AGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTGAAAAAA50.24863252113376427Illumina Paired End PCR Primer 2 (96% over 29bp)
TCTCCGAGCCCACGAGACTAGCGCTCACCTCGTATGCCGTCTTCTGCTTG50.24863252113376427Illumina PCR Primer Index 7 (96% over 26bp)
CTCCGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTGA50.24863252113376427RNA PCR Primer, Index 29 (96% over 30bp)
GATCGGAAGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGC40.19890601690701143RNA PCR Primer, Index 7 (96% over 25bp)
GATCGGAAGAGCCCACGAGACACTCGCTAATCTCGTATGCCGTCTTCTGC40.19890601690701143Illumina PCR Primer Index 10 (96% over 25bp)
ACACATCTCCGAGCCAACGAGACTAGCGCTCATCTCGTATGCCGTCTTCT40.19890601690701143Illumina PCR Primer Index 7 (95% over 23bp)
TCTCCGAGCCCACTAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG40.19890601690701143RNA PCR Primer, Index 29 (96% over 30bp)
TCTACGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG40.19890601690701143Illumina PCR Primer Index 10 (96% over 29bp)
AGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAA40.19890601690701143RNA PCR Primer, Index 29 (96% over 30bp)
CTTATACACATCTCCGAGCCCACAGACTGCAGCTAATCTCGTATGCCGTC40.19890601690701143No Hit
TCTCCGAGCCCACGATACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG40.19890601690701143TruSeq Adapter, Index 10 (96% over 29bp)
TCTCCGAGCCCACGAGACACTCGCTAATCTCGTATGCCGTCTTCTGCTTG40.19890601690701143Illumina PCR Primer Index 10 (96% over 28bp)
AAAAAGATCGGAAGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCT40.19890601690701143Illumina PCR Primer Index 10 (95% over 21bp)
CTTATACACATCTCCGAGCCCACGAACTAGCGCTCATCTCGTATGCCGTC40.19890601690701143No Hit
TCTCAGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTG40.19890601690701143TruSeq Adapter, Index 7 (96% over 28bp)
AAGATCGGAAGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCT40.19890601690701143RNA PCR Primer, Index 29 (96% over 25bp)
TATCCGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTG30.14917951268025859RNA PCR Primer, Index 7 (96% over 28bp)
TCTCCGAGCCAACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTG30.14917951268025859Illumina PCR Primer Index 7 (96% over 28bp)
TCTCCGAGCCAACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG30.14917951268025859TruSeq Adapter, Index 10 (96% over 29bp)
TCTACGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTG30.14917951268025859TruSeq Adapter, Index 7 (96% over 28bp)
CCGAGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTGAAA30.14917951268025859RNA PCR Primer, Index 5 (96% over 28bp)
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT30.14917951268025859No Hit
AAAAAAAAGATCGGAAGAGCCCACGAGACTGCAGCTAATCTCGTATGCCG30.14917951268025859No Hit
ACACATCTCCGAGCCCACGAGCTAGCGCTCATCTCGTATGCCGTCTTCTG30.14917951268025859Illumina PCR Primer Index 7 (95% over 24bp)
CATCTCCTAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCT30.14917951268025859RNA PCR Primer, Index 29 (96% over 28bp)
CTTATACACATCTCCGAGCCCACGAACTGCAGCTAATCTCGTATGCCGTC30.14917951268025859No Hit
ATACACATCTCCGAGCCAACGAGACTGCAGCTAATCTCGTATGCCGTCTT30.14917951268025859TruSeq Adapter, Index 10 (95% over 22bp)
TCTCCGACCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTGA30.14917951268025859Illumina Paired End PCR Primer 2 (96% over 29bp)
TCTCCGAGCCCACGAGACTAGCGCTCAACTCGTATGCCGTCTTCTGCTTG30.14917951268025859Illumina PCR Primer Index 7 (96% over 26bp)
TCTCGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGA30.14917951268025859TruSeq Adapter, Index 7 (96% over 28bp)
TCCGAGCCCACGAGACACTCGCTAATCTCGTATGCCGTCTTCTGCTTGAA30.14917951268025859Illumina PCR Primer Index 10 (96% over 28bp)
CATCTCCGAGCCAACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCT30.14917951268025859TruSeq Adapter, Index 10 (96% over 27bp)
TCTCCGAGCACACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTG30.14917951268025859Illumina PCR Primer Index 7 (96% over 28bp)
GATCGGAAGAGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGC30.14917951268025859Illumina Paired End PCR Primer 2 (96% over 26bp)
CCGAGCCCACGAGACACTCGCTAATCTCGTATGCCGTCTTCTGCTTGAAA30.14917951268025859Illumina PCR Primer Index 10 (96% over 28bp)
CATCTACGAGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCT30.14917951268025859Illumina Paired End PCR Primer 2 (96% over 27bp)
TCTCCGAGCCCGCGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG30.14917951268025859RNA PCR Primer, Index 29 (96% over 30bp)
TCTCCGAGCCCAGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTGA30.14917951268025859RNA PCR Primer, Index 42 (96% over 28bp)

[FAIL]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TTCCGAT155.685861E-495.02
TCCGATC155.685861E-495.03
CCGATCT155.685861E-495.04
CTTCCGA155.685861E-495.01
CGATCTT155.685861E-495.05
TCTTTTT200.001783449171.258
ATCTTTT250.004321264657.07
GATCTTT250.004321264657.06
TCCGAGC502.4742621E-757.03
CTCCGAG502.4742621E-757.02
CGAGCCC554.785088E-751.8181845
TCTCCGA554.785088E-751.8181841
CTTTTTT300.00889295547.59
CCGAGCC553.4007207E-543.181824
AGCCCAC1304.979802E-625.5769237
GCCCACG1304.979802E-625.5769238
CCCACGA1304.979802E-625.5769239
GAGCCCA1356.6845514E-624.6296316
TAGCGCT600.0039969219.79166818-19
GATCGGA600.0039969219.79166810-11
Produced by FastQC (version 0.11.2)