FastQCFastQC Report
Mon 14 May 2018
HG5M3BCX2_l01n01_r3zt2s77.351000000d8499.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHG5M3BCX2_l01n01_r3zt2s77.351000000d8499.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences3887
Sequences flagged as poor quality0
Sequence length101
%GC45

[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

[OK]Sequence Duplication Levels

Duplication level graph

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
GAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTGAAAAA591.5178801131978388Illumina PCR Primer Index 10 (96% over 29bp)
GATCGGAAGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGC451.1577051710830975RNA PCR Primer, Index 29 (96% over 27bp)
GAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGAAAAA431.1062516079238487RNA PCR Primer, Index 29 (96% over 27bp)
GAGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTGAAAAA340.8747105737072292RNA PCR Primer, Index 42 (96% over 28bp)
TCCGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTGAA270.6946231026498585Illumina PCR Primer Index 10 (96% over 29bp)
TCCGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGAA180.463082068433239TruSeq Adapter, Index 7 (96% over 28bp)
GAAGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTGAA170.4373552868536146Illumina PCR Primer Index 10 (96% over 29bp)
CTCCGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGA160.41162850527399025RNA PCR Primer, Index 7 (96% over 28bp)
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA160.41162850527399025No Hit
AGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTGAAAAAA150.3859017236943658RNA PCR Primer, Index 29 (96% over 30bp)
TCTCCGAGCCAACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG140.36017494211474144TruSeq Adapter, Index 10 (96% over 29bp)
CTTATACACATCTCCGAGCCCACGAGACCGATCAGTATCTCGTATGCCGT130.33444816053511706No Hit
GAGCCCACGAGACACTCGCTAATCTCGTATGCCGTCTTCTGCTTGAAAAA130.33444816053511706Illumina PCR Primer Index 10 (96% over 28bp)
TCTCAGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG120.3087213789554927Illumina PCR Primer Index 10 (96% over 29bp)
TCTCCGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTG110.2829945973758683TruSeq Adapter, Index 7 (96% over 28bp)
TCTCCGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG100.25726781579624386RNA PCR Primer, Index 29 (96% over 30bp)
TCTCCGAGCCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGCTTG100.25726781579624386TruSeq Adapter, Index 6 (96% over 28bp)
TCTCCGAGCCAACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTG90.2315410342166195Illumina PCR Primer Index 7 (96% over 28bp)
ATACACATCTCCGAGCCCACGAGACCGATCAGTATCTCGTATGCCGTCTT90.2315410342166195TruSeq Adapter, Index 6 (95% over 21bp)
CTTATACACATCTCCGAGCCAACGAGACTGCAGCTAATCTCGTATGCCGT80.20581425263699513No Hit
GGCTCGGAGATGTGTATAAGAGACAGCTCCGAGCCCACGAGACTGCAGCT80.20581425263699513No Hit
AGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTGAAAAAA80.20581425263699513Illumina Paired End PCR Primer 2 (96% over 29bp)
TCCGAGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTGAA80.20581425263699513Illumina Paired End PCR Primer 2 (96% over 29bp)
ACACATCTCCGAGCCAACGAGACTGCAGCTAATCTCGTATGCCGTCTTCT70.18008747105737072RNA PCR Primer, Index 10 (95% over 24bp)
CTCCGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTGA70.18008747105737072RNA PCR Primer, Index 29 (96% over 30bp)
TCTCCGAGCACACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTG70.18008747105737072Illumina PCR Primer Index 7 (96% over 28bp)
TCTCAGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTG70.18008747105737072TruSeq Adapter, Index 7 (96% over 28bp)
TCTCCTAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG60.15436068947774634RNA PCR Primer, Index 29 (96% over 30bp)
ATACACATCTCAGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTT60.15436068947774634TruSeq Adapter, Index 7 (95% over 21bp)
AAAAAGATCGGAAGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCT60.15436068947774634Illumina PCR Primer Index 10 (95% over 21bp)
TCTCCGAGCCCACGAGGCTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG50.12863390789812193RNA PCR Primer, Index 29 (96% over 30bp)
TCTCCTAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTG50.12863390789812193TruSeq Adapter, Index 7 (96% over 28bp)
TCTCCTAGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTG50.12863390789812193Illumina Paired End PCR Primer 2 (96% over 29bp)
TCTACGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG50.12863390789812193Illumina PCR Primer Index 10 (96% over 29bp)
ACACATCTCCGAGCCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCT50.12863390789812193RNA PCR Primer, Index 6 (95% over 23bp)
ATACACATCTCCGAGCCAACGAGACTGCAGCTAATCTCGTATGCCGTCTT50.12863390789812193TruSeq Adapter, Index 10 (95% over 22bp)
AAAAAAAGATCGGAAGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGT50.12863390789812193No Hit
TCTCCGAGCCCACGATACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTG50.12863390789812193TruSeq Adapter, Index 10 (96% over 29bp)
GATCGGAAGAGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGC50.12863390789812193Illumina Paired End PCR Primer 2 (96% over 26bp)
GATCGGAAGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGC40.10290712631849756RNA PCR Primer, Index 7 (96% over 25bp)
TCTCAGAGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTG40.10290712631849756TruSeq Adapter, Index 5 (96% over 28bp)
AGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGAAAAAA40.10290712631849756TruSeq Adapter, Index 7 (96% over 28bp)
ATACACATCTCCGAGCCAACGAGACACTGAGCGATCTCGTATGCCGTCTT40.10290712631849756Illumina PCR Primer Index 5 (95% over 21bp)
CGTTGAGACAGTGCCCAAATCGTTACGCCTTTCGTGCGGGTCGGAACTTA40.10290712631849756No Hit
CCGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGAAA40.10290712631849756RNA PCR Primer, Index 7 (96% over 28bp)
CCTTAGATGTGGTAGCCGTTTCTCAGGCTCCCTCTCCGGAATCGAACCCT40.10290712631849756No Hit
CCGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTTGAAA40.10290712631849756RNA PCR Primer, Index 29 (96% over 30bp)
GTTATATGCTTGTCTCAAAGATTAAGCCATGCATGTCTAAGTACACACGA40.10290712631849756No Hit
AGATCGGAAGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTG40.10290712631849756Illumina PCR Primer Index 10 (96% over 25bp)
TATACACATCTCCGAGCCCACGAGACCGATCAGTATCTCGTATGCCGTCT40.10290712631849756No Hit
CTTATACACATCTCCGAGCCAACGAGACTAGCGCTCATCTCGTATGCCGT40.10290712631849756No Hit
TCTCCGAGCCCACGGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGA40.10290712631849756RNA PCR Primer, Index 29 (96% over 27bp)
CATCTCGAGCCCACGAGACTGCAGCTAATCTCGTATGCCGTCTTCTGCTT40.10290712631849756RNA PCR Primer, Index 29 (96% over 29bp)
GTATAGTACTAACCACAATTGTAAGTTGTACTACCCGTATGAAGCACAAG40.10290712631849756No Hit
GATCGGAAGAGCCCACGAGACACTCGCTAATCTCGTATGCCGTCTTCTGC40.10290712631849756Illumina PCR Primer Index 10 (96% over 25bp)
CTCAGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGA40.10290712631849756RNA PCR Primer, Index 29 (96% over 27bp)
CATCTCCGAGCCCACGAGACCGATCAGTATCTCGTATGCCGTCTTCTGCT40.10290712631849756TruSeq Adapter, Index 6 (96% over 26bp)
CTACGAGCCCACGAGACTAGCGCTCATCTCGTATGCCGTCTTCTGCTTGA40.10290712631849756RNA PCR Primer, Index 29 (96% over 27bp)
GAAGAGCCCACGAGACACTGAGCGATCTCGTATGCCGTCTTCTGCTTGAA40.10290712631849756TruSeq Adapter, Index 5 (96% over 28bp)

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TTCCGAT301.1253469E-679.166672
TCCGATC301.1253469E-679.166673
CCGATCT301.1253469E-679.166674
CTTCCGA301.1253469E-679.166671
CGATCTT301.1253469E-679.166675
GATCTTT352.8142022E-667.857156
ATCTTTT406.2186427E-659.3749967
TCTTTTT451.2502567E-552.7777758
CTTTTTT554.099001E-543.181829
TTATACA650.0051585929.230772
CTTATAC700.007411360727.1428591
TACACAT950.001018504625.02
ACACATC1000.001374080723.7500023
ATACACA1000.001374080723.7500021
CGAGCCC1302.2713438E-421.9230775
AGCCCAC2000.00412102714.2500017
GCCCACG2000.00412102714.2500018
CCCACGA2050.004857788313.9024399
GAGCCCA2100.00570246713.5714286
GCTTGAA2002.937816E-410.68750146-47
Produced by FastQC (version 0.11.2)