FastQCFastQC Report
Mon 5 Dec 2016
JM84_3_AGTTCC_L006_R1_001.fastq

Summary

[OK]Basic Statistics

MeasureValue
FilenameJM84_3_AGTTCC_L006_R1_001.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences13844364
Sequences flagged as poor quality0
Sequence length50
%GC51

[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

[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

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTTCCATCTCGTATGC552397139.900503916250685RNA PCR Primer, Index 14 (100% over 50bp)
ATGACCTATGAATTGACAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAG3777212.7283376831178376RNA PCR Primer, Index 1 (100% over 29bp)
ATGACCTATGAATTGACAGCCATGGAATTCTCGGGTGCCAAGGAACTCCA3259202.354170982502338RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA1953891.4113252150839144RNA PCR Primer, Index 1 (100% over 28bp)
TGGAGTGTGACAATGGTGTTTGTGGAATTCTCGGGTGCCAAGGAACTCCA1714351.2383017378046404RNA PCR Primer, Index 1 (100% over 28bp)
AAGCTGCCAGCTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA1395891.008273113882299RNA PCR Primer, Index 1 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCA1148590.829644467597067No Hit
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA1092820.789360926944712RNA PCR Primer, Index 1 (100% over 28bp)
TAGCTTATCAGACTGGTGTTGGCTGGAATTCTCGGGTGCCAAGGAACTCC1055230.7622090837831192RNA PCR Primer, Index 1 (100% over 27bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTCTGGAATTCTCGGGTGC981980.7092994665554878No Hit
CCGTCGAGCAGCATTCCGGGCTTCACATCGGAGGGCTCCAGCCGGCCCCG948010.6847624058425509No Hit
TTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTGG846660.6115557204361284No Hit
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA844880.6102699986796071RNA PCR Primer, Index 1 (100% over 28bp)
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG776720.5610369678231517RNA PCR Primer, Index 1 (100% over 29bp)
TATTGCACTTGTCCCGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA726820.5249934197049427RNA PCR Primer, Index 1 (100% over 28bp)
TGGAGTGTGACAATGGTGTTTGTTGGAATTCTCGGGTGCCAAGGAACTCC692980.5005502600191674RNA PCR Primer, Index 1 (100% over 27bp)
TGGAGTGTGACAATGGTGTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG692320.5000735317274235RNA PCR Primer, Index 1 (100% over 29bp)
CCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC667310.482008418732706RNA PCR Primer, Index 1 (100% over 33bp)
ACCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAG655750.47365845047125316RNA PCR Primer, Index 2 (97% over 35bp)
TGTAACAGCAACTCCATGTGGATGGAATTCTCGGGTGCCAAGGAACTCCA629720.45485657557111325RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGCTCTGGAATTCTCGGGTGCC565200.4082527734751845No Hit
GTTCTACAGTCCGACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAG547400.3953955559099717RNA PCR Primer, Index 2 (97% over 35bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC543790.39278799661725156RNA PCR Primer, Index 1 (100% over 27bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA536740.38769567168271507RNA PCR Primer, Index 1 (100% over 28bp)
GATCCATGATGACATTAAAACATAACGTGACTGTTGGATGAAGCTTGCGG506910.36614899752708036No Hit
TGGACGTGATGAGCAGGTGTTACCGCCCCAGTCTGATGTTTGGTGACTGA489040.3532412178703189No Hit
ATCCATGATGACATTAAAACATAACGTGACTGTTGGATGAAGCTTGCGGA471850.3408246128171724No Hit
TTCAAGTAATCCAGGATAGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA438780.3169376361384315RNA PCR Primer, Index 1 (100% over 28bp)
GCATTGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCAA422190.30495442044141574No Hit
TAACGGAACCCATAATGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC420110.30345200400682903RNA PCR Primer, Index 1 (100% over 27bp)
CATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTTCCATCTCGTAT411140.2969728331326741RNA PCR Primer, Index 14 (100% over 48bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC361000.2607559292720128RNA PCR Primer, Index 1 (100% over 26bp)
TCAGTAACTGGAATCTGTCCCTTGGAATTCTCGGGTGCCAAGGAACTCCA359170.25943409173581394RNA PCR Primer, Index 1 (100% over 28bp)
CTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA335960.2426691468094887RNA PCR Primer, Index 1 (100% over 34bp)
CACCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA325070.23480312999571523RNA PCR Primer, Index 1 (100% over 34bp)
TTCAGTGATGTTTGACAAATGTCTGACCTGAACTGCAATGTGGACAGATC312790.22593309450690546No Hit
TGAGAACTGAATTCCATAGATGGTGGAATTCTCGGGTGCCAAGGAACTCC303870.21949003941242806RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGTTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA302040.2181682018762292RNA PCR Primer, Index 1 (100% over 28bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTTGGAATTCTCGGGTGCC301150.21752534099796855No Hit
AGAGATGATGACTTCTGTTACCGCCCCAGTCTGAGAAGTCATGACTGATC299970.21667300859757802No Hit
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTTGGAATTCTCGGGTGCC287360.20756460896289639No Hit
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTCTGGAATTCTCGGGTGC275350.19888959868434547No Hit
TAGCTTATCAGACTGGTGTTGGTGGAATTCTCGGGTGCCAAGGAACTCCA245600.17740070977619485RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC245410.1772634698134201RNA PCR Primer, Index 1 (100% over 26bp)
AGCCTGTGATGATACAAGTTATCCCTGTCTGAACTCTGGTGTGGAATTCT240200.17350020557101795No Hit
AGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGT235530.17012699174913345RNA PCR Primer, Index 1 (100% over 30bp)
TCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC230990.16684767895441063RNA PCR Primer, Index 1 (100% over 33bp)
TGCCTGTGATGAGACTCTCGACGGGCGGACTGAATGGGTTTTCACCCTCC226940.16392230080052794No Hit
TAACACTGTCTGGTAACGATGTTGGAATTCTCGGGTGCCAAGGAACTCCA223310.16130029519593678RNA PCR Primer, Index 1 (100% over 28bp)
GGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA212520.15350650994151843RNA PCR Primer, Index 1 (100% over 34bp)
ACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGT210820.15227857343248125RNA PCR Primer, Index 8 (97% over 36bp)
TGGAATTCTCGGGTGCAAAGGAACTCCAGTCACAGTTCCATCTCGTATGC210150.1517946219848019RNA PCR Primer, Index 14 (98% over 50bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAA204940.14803135774239973No Hit
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTTCAATCTCGTATGC201870.1458138488701973RNA PCR Primer, Index 14 (98% over 50bp)
CACCGTCGAGCAGCATTCCGGGCTTCACATCGGAGGGCTCCAGCCGGCCC197870.14292458649599216No Hit
TGGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC195890.14149440162076063RNA PCR Primer, Index 1 (100% over 33bp)
TGAGATGAAGCACTGTAGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGT194280.14033147351514305RNA PCR Primer, Index 1 (100% over 30bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTTGGAATTCTCGGGTGCC194200.14027368826765896No Hit
TAGCAGCACGTAAATATTGGAGTGGAATTCTCGGGTGCCAAGGAACTCCA190810.13782503840552013RNA PCR Primer, Index 1 (100% over 28bp)
TACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAG188720.13631539881499793RNA PCR Primer, Index 2 (97% over 35bp)
TTACATGATGAAACATGTGTTGGTAGGGACATCTGAATGAATGTGATGAA188010.13580255474357653No Hit
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGTTCCATCTCGTATGC187480.13541972747899433RNA PCR Primer, Index 14 (98% over 50bp)
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGCTTGGAATTCTCGGGTGCCA183090.1322487620233042No Hit
TGGAATTCTCGGGTGCCAAGGAACTCCAGTGACAGTTCCATCTCGTATGC182130.13155533905349498RNA PCR Primer, Index 14 (98% over 50bp)
TTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA178770.12912835865916267RNA PCR Primer, Index 1 (100% over 32bp)
TGGAATTCTCGGGTGCCAGGAACTCCAGTCACAGTTCCATCTCGTATGCC170110.12287310561900856RNA PCR Primer, Index 14 (97% over 35bp)
TGTAACAGCAACTCCATGTGGAATGGAATTCTCGGGTGCCAAGGAACTCC166730.12043167891280523RNA PCR Primer, Index 1 (100% over 27bp)
TGGCTGTGATGAGAAACTTGCCCTCACTGAAACGTGATTGAGACATCTTT166070.11995495062106139No Hit
CAGAGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCC164140.11856088152550742RNA PCR Primer, Index 1 (100% over 27bp)
GTTCTACAGTCCGACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA163930.11840919525086165RNA PCR Primer, Index 1 (100% over 34bp)
ATGACCTATGAATTGACAGCCTTGGAATTCTCGGGTGCCAAGGAACTCCA162640.1174774081351805RNA PCR Primer, Index 1 (100% over 28bp)
TCAGTAACTGGAATCTGTCCCTGTGGAATTCTCGGGTGCCAAGGAACTCC162430.11732572186053472RNA PCR Primer, Index 1 (100% over 27bp)
TCGCTGCGATCCATTGAAAGTCAGCCCTCGATCCAAGTTTTTGTTGGAAT161820.11688510934846845No Hit
CATTGCACTTGTCTCGGTCTGATGGAATTCTCGGGTGCCAAGGAACTCCA159830.1154477013173014RNA PCR Primer, Index 1 (100% over 28bp)
TAGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAG158100.11419809534045768RNA PCR Primer, Index 1 (100% over 29bp)
AGAGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCA157610.11384416069961756RNA PCR Primer, Index 1 (100% over 28bp)
ACAGTAGTCTGCACATTGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG153250.11069486471173395RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGATTGAATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA151320.10930079561617999RNA PCR Primer, Index 1 (100% over 28bp)
CATTATTACTTTTGGTACGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG151100.1091418861855987RNA PCR Primer, Index 1 (100% over 29bp)
TGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAG150520.10872294314133894RNA PCR Primer, Index 2 (97% over 35bp)
TGAGGTAGTAGGTTGTATAGTTTTGGAATTCTCGGGTGCCAAGGAACTCC149950.10831122325301473RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG147510.10654877320474959RNA PCR Primer, Index 1 (100% over 29bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCTGGAATTCTCGGGTGC145910.10539306825506756No Hit
TGTAAACATCCTACACTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCA145910.10539306825506756RNA PCR Primer, Index 1 (100% over 28bp)
GTTGGGCGCCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAGTTCC145580.10515470410919564RNA PCR Primer, Index 14 (100% over 39bp)
TATTGCACTTGTCCCGGCCTGTTTGGAATTCTCGGGTGCCAAGGAACTCC144160.10412901596635281RNA PCR Primer, Index 1 (100% over 27bp)
CTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA143940.10397010653577152RNA PCR Primer, Index 1 (100% over 34bp)
TAAGATGATGATTAACTCACCATCTTTCGGCTGAAGAATGATGTATACTC143760.1038400897289323No Hit
TTCCAGTGATGACAGCCTATAATCTGACTTGGAATTCTCGGGTGCCAAGG143120.10337780774905947Illumina Small RNA Adapter 2 (100% over 21bp)
ATGACCTATGAATTGACAGCCATTGGAATTCTCGGGTGCCAAGGAACTCC142960.10326223725409125RNA PCR Primer, Index 1 (100% over 27bp)
ATGACCTATGAATTGACAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT140180.1012541999040187RNA PCR Primer, Index 1 (100% over 30bp)

[WARN]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CTATACA2450.044.042561
GTTGTCG4450.044.0425571
AGTATGC454.765752E-1044.0323744
CTTCTCA207.831085E-444.0323743
CCGAAGG207.831085E-444.0323743
TCGCGTA408.289135E-944.02123341
ATCGCGT408.289135E-944.02075640
CATCTCA207.850761E-444.0099439
GAACGTC254.4394743E-544.0099439
CCATCGC650.043.99960338
ATAACTA4400.043.9991322
ATATGAC254.4459164E-543.99912622
CCTTTGC454.802132E-1043.99706323
ACCGTGC254.447149E-543.99706323
CGCACCC207.862082E-443.99706326
CGTCACC254.447149E-543.99706327
CACCCGC800.043.99706324
CATGCGA5450.043.99690225
GCTACGG302.5309782E-643.99690225
GCTTTAT454.802132E-1043.99658617