FastQCFastQC Report
Mon 5 Dec 2016
JG25_3_CGATGT_L007_R1_001.fastq

Summary

[OK]Basic Statistics

MeasureValue
FilenameJG25_3_CGATGT_L007_R1_001.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences10760322
Sequences flagged as poor quality0
Sequence length50
%GC53

[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

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
TTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTGG6649746.179870825426971No Hit
CCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC5291594.917687407495798RNA PCR Primer, Index 1 (100% over 33bp)
ATGACCTATGAATTGACAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAG2719772.5275916464209898RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA2701292.5104174391807232RNA PCR Primer, Index 1 (100% over 28bp)
ATGACCTATGAATTGACAGCCATGGAATTCTCGGGTGCCAAGGAACTCCA2575322.39334845184001RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA2564352.3831535896416485RNA PCR Primer, Index 1 (100% over 28bp)
CTACGCCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCA1753941.6300069830624029RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC1538781.4300501416221558RNA PCR Primer, Index 1 (100% over 27bp)
AAGCTGCCAGCTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA1521021.4135450593393024RNA PCR Primer, Index 1 (100% over 28bp)
TAGCTTATCAGACTGGTGTTGGCTGGAATTCTCGGGTGCCAAGGAACTCC1450531.3480358673281339RNA PCR Primer, Index 1 (100% over 27bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA1396401.2977306812937381RNA PCR Primer, Index 1 (100% over 28bp)
CTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC1392171.2937995721689368RNA PCR Primer, Index 2 (100% over 34bp)
TATTGCACTTGTCCCGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA1215641.129743143374334RNA PCR Primer, Index 1 (100% over 28bp)
TGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCG1035380.9622202755642443RNA PCR Primer, Index 2 (100% over 35bp)
TGAGGTAGTAGTTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA969090.9006143124713182RNA PCR Primer, Index 1 (100% over 28bp)
CCGTCGAGCAGCATTCCGGGCTTCACATCGGAGGGCTCCAGCCGGCCCCG766970.7127760674819955No Hit
CTTCGAACGCACCTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCT706940.6569877741576878No Hit
TTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTTG682210.6340051905509891No Hit
GGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC626770.5824825688301892RNA PCR Primer, Index 2 (100% over 34bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC572660.5321959696001662RNA PCR Primer, Index 1 (100% over 26bp)
TACGCCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG571720.5313223897946548RNA PCR Primer, Index 1 (100% over 29bp)
CCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGA568000.5278652441813544RNA PCR Primer, Index 2 (100% over 36bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC564340.5244638589811718RNA PCR Primer, Index 1 (100% over 26bp)
CTGGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA547700.5089996377431827RNA PCR Primer, Index 1 (100% over 32bp)
CCTGTCTGAGGGTCGCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA542340.5040183741713306RNA PCR Primer, Index 1 (100% over 32bp)
TTCAGTGATGTTTGACAAATGTCTGACCTGAACTGCAATGTGGACAGATC412370.38323202595610056No Hit
GATCCATGATGACATTAAAACATAACGTGACTGTTGGATGAAGCTTGCGG411260.38220045831342225No Hit
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG410590.38157780036694067RNA PCR Primer, Index 1 (100% over 29bp)
CTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTG404490.37590882503330286No Hit
TTCAAGTAATCCAGGATAGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA400720.37240521240907104RNA PCR Primer, Index 1 (100% over 28bp)
AACCCGTAGATCCGAACTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCA397710.3696078983509973RNA PCR Primer, Index 1 (100% over 28bp)
AGAGATGATGACTTCTGTTACCGCCCCAGTCTGAGAAGTCATGACTGATC372490.3461699380371703No Hit
TCGTACCGTGAGTAATAATGCATGGAATTCTCGGGTGCCAAGGAACTCCA369780.3436514260446853RNA PCR Primer, Index 1 (100% over 28bp)
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG346790.3222858944184013RNA PCR Primer, Index 1 (100% over 29bp)
TGGAGTGTGACAATGGTGTTTGTGGAATTCTCGGGTGCCAAGGAACTCCA344540.3201948789264857RNA PCR Primer, Index 1 (100% over 28bp)
ACTGGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC328990.3057436385268025RNA PCR Primer, Index 1 (100% over 31bp)
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCA320550.2979000070815725RNA PCR Primer, Index 1 (100% over 28bp)
GTTACATGATGAAACATGTGTTGGTAGGGACATCTGAATGAATGTGATGA318200.29571605756779396No Hit
CCTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTT309570.28769585148102444No Hit
AACTGGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT302750.2813577511899737RNA PCR Primer, Index 1 (100% over 30bp)
CATTATTACTTTTGGTACGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG293650.27290075520044843RNA PCR Primer, Index 1 (100% over 29bp)
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT284600.2644902262218547RNA PCR Primer, Index 1 (100% over 30bp)
TCGCTGCGATCCATTGAAAGTCAGCCCTCGATCCAAGTTTTTGTTGGAAT253100.23521600933503664No Hit
GAAGGATCATTATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATG249410.23178674392829507RNA PCR Primer, Index 2 (100% over 38bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTTGGAATTCTCGGGTGCC243450.22624787622526538No Hit
TCAGTAACTGGAATCTGTCCCTTGGAATTCTCGGGTGCCAAGGAACTCCA241160.22411968712460462RNA PCR Primer, Index 1 (100% over 28bp)
ACAGTAGTCTGCACATTGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG234690.21810685591007406RNA PCR Primer, Index 1 (100% over 29bp)
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC233830.217307623322053RNA PCR Primer, Index 1 (100% over 26bp)
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTTGGAATTCT230450.2141664533830865No Hit
CGCCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC226580.2105699067369917RNA PCR Primer, Index 1 (100% over 31bp)
ATCCATGATGACATTAAAACATAACGTGACTGTTGGATGAAGCTTGCGGA223900.2080792749510656No Hit
CTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAA220310.20474294356618697No Hit
TGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCCAGGAACTCCAGTCACCG217280.20192704270374065RNA PCR Primer, Index 2 (97% over 35bp)
TACACTGATGACTTCTTAGGACACCTTTGGATTCTTGATGAAAACAAATT215990.20072819382170903No Hit
TAAGATGATGATTAACTCACCATCTTTCGGCTGAAGAATGATGTATACTC214210.19907396823254916No Hit
GTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTATCTC213860.19874869915602897RNA PCR Primer, Index 2 (100% over 44bp)
TGAGGTAGTAGGTTGTATAGTTTTGGAATTCTCGGGTGCCAAGGAACTCC211750.19678779129472146RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGATTGAATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA211620.19666697706629968RNA PCR Primer, Index 1 (100% over 28bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTATCTCGTATGC211580.19662980345755451RNA PCR Primer, Index 2 (100% over 50bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTCTGGAATTCTCGGGTGC205910.19136044441792727No Hit
CTCGCTGCGATCCATTGAAAGTCAGCCCTCGATCCAAGTTTTTGTTGGAA200190.18604461836736857No Hit
CATTGCACTTGTCTCGGTCTGATGGAATTCTCGGGTGCCAAGGAACTCCA196930.18301496925463753RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG196600.18270828698248992RNA PCR Primer, Index 1 (100% over 29bp)
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA180340.16759721502758002RNA PCR Primer, Index 1 (100% over 28bp)
TGCCTGTGATGAGACTCTCGACGGGCGGACTGAATGGGTTTTCACCCTCC172060.1599022780173307No Hit
TACCGTGAAGAATATCACGTCTTTCGCTCCTATCTGATCTGGAATTCTCG171580.1594561947123887No Hit
AACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGCT169880.1578763163407192No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCA169390.1574209396335909No Hit
CACCTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGC168570.156658880654315No Hit
AGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTAT167540.15570166022912696RNA PCR Primer, Index 2 (100% over 41bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG165250.15357347112846623RNA PCR Primer, Index 1 (100% over 29bp)
TCAGTAACTGGAATCTGTCCCTGCTGGAATTCTCGGGTGCCAAGGAACTC161790.15035795397200938RNA PCR Primer, Index 1 (100% over 26bp)
TTCACAGTGGTTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT160970.14959589499273349RNA PCR Primer, Index 1 (100% over 30bp)
GCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTGGAA160800.14943790715556654No Hit
TTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTATCTCG158350.14716102361992514RNA PCR Primer, Index 2 (100% over 45bp)
CTACGCCTGTCTGAGGGTCGCTTTGGAATTCTCGGGTGCCAAGGAACTCC157470.14634320422753147RNA PCR Primer, Index 1 (100% over 27bp)
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG156420.14536739699797088RNA PCR Primer, Index 1 (100% over 29bp)
TCCCATATGGTCTAGCGGTTAGGATTCCTTGGAATTCTCGGGTGCCAAGG154850.14390833285472313Illumina Small RNA Adapter 2 (100% over 21bp)
TATTGCACTTGTCCCGGCCTGTTTGGAATTCTCGGGTGCCAAGGAACTCC153440.14259796314645604RNA PCR Primer, Index 1 (100% over 27bp)
TTACATGATGAAACATGTGTTGGTAGGGACATCTGAATGAATGTGATGAA146710.1363435034750819No Hit
TGTAAACATCCTACACTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCA145950.13563720490892373RNA PCR Primer, Index 1 (100% over 28bp)
TAGCTTATCAGACTGGTGTTGGTGGAATTCTCGGGTGCCAAGGAACTCCA143070.1329607050792718RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCATTGCTGTCGGTGGGTTGGAATTCTCGGGTGCCAAGGAACTCC138920.12910394317196083RNA PCR Primer, Index 1 (100% over 27bp)
CTGTCTGAGGGTCGCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC137410.12770063944183083RNA PCR Primer, Index 1 (100% over 33bp)
CACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGAT136840.1271709155172122RNA PCR Primer, Index 2 (100% over 37bp)
TTTTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTATCT133780.12432713444820703RNA PCR Primer, Index 2 (100% over 43bp)
CACCGTCGAGCAGCATTCCGGGCTTCACATCGGAGGGCTCCAGCCGGCCC130390.12117667110705423No Hit
AACATTCATTGCTGTCGGTGGGTGGAATTCTCGGGTGCCAAGGAACTCCA129040.11992206181190487RNA PCR Primer, Index 1 (100% over 28bp)
TCGTACCGTGAGTAATAATGCTGGAATTCTCGGGTGCCAAGGAACTCCAG128270.11920646984356044RNA PCR Primer, Index 1 (100% over 29bp)
CATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTATCTCGTAT127080.11810055498339177RNA PCR Primer, Index 2 (100% over 48bp)
GTAGTTCAGCCTGAGCAATACAGCGAGACACAGTCTTTTGGAATTCTCGG126380.11745001683035136No Hit
TGAGGTAGTAGGTTGTGTGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA126230.11731061579755699RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC125940.11704110713415454RNA PCR Primer, Index 1 (100% over 27bp)
TTCACAGTGGTTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG123900.11514525308815107RNA PCR Primer, Index 1 (100% over 29bp)
TTCACAGTGGTTAAGTTCTGCCTGGAATTCTCGGGTGCCAAGGAACTCCA123110.11441107431543407RNA PCR Primer, Index 1 (100% over 28bp)
AGCTACATCTGGCTACTGGGTCTCTGGAATTCTCGGGTGCCAAGGAACTC121190.11262674109566609RNA PCR Primer, Index 1 (100% over 26bp)
CTCGATCCAAGTTTTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA121050.112496633465058RNA PCR Primer, Index 1 (100% over 32bp)
GCTTACGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTA118920.11051713879937793RNA PCR Primer, Index 2 (100% over 40bp)
TCTGACACCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTA118080.10973649301572945RNA PCR Primer, Index 2 (100% over 40bp)
CAAGTTTTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGT117730.10941122393920924RNA PCR Primer, Index 2 (100% over 39bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTCTGGAATTCTCGGGTGC117580.10927182290641488No Hit
CAACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGC116220.10800792020907925No Hit
TCCGAATGATGAAATGTTGTTGATCTCTGTAGTAACCACGGTTACAGTGA115920.10772911814349051No Hit
CCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTGGAATTCTC111790.10389094304055213No Hit
AAGCTGCCAGCTGAAGAACTTGGAATTCTCGGGTGCCAAGGAACTCCAGT111120.1032682850940706RNA PCR Primer, Index 1 (100% over 30bp)
ATGACCTATGAATTGACAGCCATTGGAATTCTCGGGTGCCAAGGAACTCC109990.10221813064701966RNA PCR Primer, Index 1 (100% over 27bp)
CCCCTTCACTCTCCAATGAGTGAGATCCTCCGTCTGACATGGAATTCTCG109520.10178134074426398No Hit
TGAGGTAGTTGTTTGTACAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA107830.10021075577478072RNA PCR Primer, Index 1 (100% over 28bp)

[FAIL]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CGTTCTA254.4188502E-544.0445561
CCTGCGA454.765752E-1044.0445561
GCTAGTT408.249117E-944.044551
TAGGCCG207.8203465E-444.044551
GCGTACC207.8203465E-444.044551
CGATTTA207.848154E-444.01281744
CGTATTC207.849771E-444.0109843
GTTAGCC351.4472425E-744.00136618
TACATCG800.044.00136616
TATAGTA207.85822E-444.00136616
CATACCG207.859479E-443.99993520
TTAGCCC302.529725E-643.9999319
GGTAGGC207.860738E-443.998526
CTATCGG254.446954E-543.9972812
TAATATA3350.043.99727613
ACTATCG207.861817E-443.99727613
TGCGAAC408.3291525E-943.99625431
GTCTATC254.4479297E-543.9956447
CGATTAA254.4479297E-543.9956448
TTCCCTA502.7284841E-1143.9956443
Produced by FastQC (version 0.11.3)