FastQCFastQC Report
Mon 5 Dec 2016
JM75_3_GGCTAC_L004_R1_001.fastq

Summary

[OK]Basic Statistics

MeasureValue
FilenameJM75_3_GGCTAC_L004_R1_001.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences13806887
Sequences flagged as poor quality0
Sequence length50
%GC52

[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
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCGTATGC525336838.04889545340669RNA PCR Primer, Index 11 (100% over 50bp)
TAGCTTATCAGACTGGTGTTGGCTGGAATTCTCGGGTGCCAAGGAACTCC3043732.2045012753417916RNA PCR Primer, Index 1 (100% over 27bp)
TAACGGAACCCATAATGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC2418451.7516258371637288RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA2271231.64499789126977RNA PCR Primer, Index 1 (100% over 28bp)
TGAGAACTGAATTCCATAGATGGTGGAATTCTCGGGTGCCAAGGAACTCC1929801.3977082596533166RNA PCR Primer, Index 1 (100% over 27bp)
AAGCTGCCAGCTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA1075610.7790387507336013RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC1062580.7696014315174738RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA980900.7104425494320334RNA PCR Primer, Index 1 (100% over 28bp)
CATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCGTAT944580.6841368369278318RNA PCR Primer, Index 11 (100% over 48bp)
TGAGAACTGAATTCCATAGATGTGGAATTCTCGGGTGCCAAGGAACTCCA934220.6766333352333513RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA920840.6669425193383564RNA PCR Primer, Index 1 (100% over 28bp)
TAGCTTATCAGACTGGTGTTGGTGGAATTCTCGGGTGCCAAGGAACTCCA870530.6305041824417047RNA PCR Primer, Index 1 (100% over 28bp)
TATTGCACTTGTCCCGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA812530.5884961613722196RNA PCR Primer, Index 1 (100% over 28bp)
TTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTGG795270.575995153722921No Hit
CCGTCGAGCAGCATTCCGGGCTTCACATCGGAGGGCTCCAGCCGGCCCCG638610.4625300402617911No Hit
TGGAGTGTGACAATGGTGTTTGTGGAATTCTCGGGTGCCAAGGAACTCCA635620.46036445434803663RNA PCR Primer, Index 1 (100% over 28bp)
ATGACCTATGAATTGACAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAG605780.4387520517840119RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA566700.41044733689788293RNA PCR Primer, Index 1 (100% over 28bp)
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTTGGAATTCT538820.3902545157355166No Hit
GTTGGGCGCCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTAC533930.3867128049936238RNA PCR Primer, Index 11 (100% over 39bp)
ATGACCTATGAATTGACAGCCATGGAATTCTCGGGTGCCAAGGAACTCCA511870.37073527146271273RNA PCR Primer, Index 1 (100% over 28bp)
AGAGATGATGACTTCTGTTACCGCCCCAGTCTGAGAAGTCATGACTGATC442360.32039083103961086No Hit
TGGACGTGATGAGCAGGTGTTACCGCCCCAGTCTGATGTTTGGTGACTGA440890.31932614498836703No Hit
CCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC428590.31041754741673483RNA PCR Primer, Index 1 (100% over 33bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC425260.30800570758636614RNA PCR Primer, Index 1 (100% over 26bp)
TGAGGTAGTAGTTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA400990.2904275235974626RNA PCR Primer, Index 1 (100% over 28bp)
GTTCTACAGTCCGACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGG396290.28702342533838365RNA PCR Primer, Index 2 (97% over 35bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC370860.26860508092809043RNA PCR Primer, Index 1 (100% over 26bp)
TAGCAGCACGTAAATATTGGAGTGGAATTCTCGGGTGCCAAGGAACTCCA363190.2630498822797637RNA PCR Primer, Index 1 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCTGGAATTCTCGGGTGCCAAGGA323950.23462928319758106RNA PCR Primer, Index 1 (100% over 22bp)
GATCCATGATGACATTAAAACATAACGTGACTGTTGGATGAAGCTTGCGG320410.23206534535989176No Hit
TCCCATATGGTCTAGCGGTTAGGATTCCTTGGAATTCTCGGGTGCCAAGG318680.23081234749006058Illumina Small RNA Adapter 2 (100% over 21bp)
ACCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGG311440.2255685876186283RNA PCR Primer, Index 2 (97% over 35bp)
TGGAGTGTGACAATGGTGTTTGTTGGAATTCTCGGGTGCCAAGGAACTCC301260.21819545564470832RNA PCR Primer, Index 1 (100% over 27bp)
ATCCATGATGACATTAAAACATAACGTGACTGTTGGATGAAGCTTGCGGA274400.1987413962321847No Hit
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA267850.19399738695623422RNA PCR Primer, Index 1 (100% over 28bp)
TTCAGTGATGTTTGACAAATGTCTGACCTGAACTGCAATGTGGACAGATC267720.19390323104694057No Hit
TTCCCTTTGTCATCCTATGCCTTGGAATTCTCGGGTGCCAAGGAACTCCA262710.19027460715800745RNA PCR Primer, Index 1 (100% over 28bp)
TGGAATTCTCGGGTGCCAAGGAAATCCAGTCACGGCTACATCTCGTATGC249590.18077210308159977RNA PCR Primer, Index 11 (98% over 50bp)
AATGACACGTTTTCTCCCGGATTTGGAATTCTCGGGTGCCAAGGAACTCC249140.1804461787801986RNA PCR Primer, Index 1 (100% over 27bp)
TACCCTGTAGATCCGGATTTGTGTGGAATTCTCGGGTGCCAAGGAACTCC247760.179446677589235RNA PCR Primer, Index 1 (100% over 27bp)
CTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG245760.1779981251385631RNA PCR Primer, Index 6 (100% over 34bp)
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG244270.1769189535628125RNA PCR Primer, Index 1 (100% over 29bp)
TGAGAACTGAATTCCATAGATTGGAATTCTCGGGTGCCAAGGAACTCCAG243080.17605706485466277RNA PCR Primer, Index 1 (100% over 29bp)
TGCCTGTGATGAGACTCTCGACGGGCGGACTGAATGGGTTTTCACCCTCC233830.16935750977030523No Hit
TGTAAACATCCTACACTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCA231210.167459906059925RNA PCR Primer, Index 1 (100% over 28bp)
TCAGTAACTGGAATCTGTCCCTTGGAATTCTCGGGTGCCAAGGAACTCCA229690.1663590061974144RNA PCR Primer, Index 1 (100% over 28bp)
AACAGTAAGAGTTTATGTGCTGTGGAATTCTCGGGTGCCAAGGAACTCCA227650.16488148269772904RNA PCR Primer, Index 1 (100% over 28bp)
CTCGTCGCCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACA227150.16451934458506107RNA PCR Primer, Index 11 (100% over 40bp)
TGGAGTGTGACAATGGTGTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG223900.16216544685271922RNA PCR Primer, Index 1 (100% over 29bp)
AGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGT216260.15663197649115257RNA PCR Primer, Index 1 (100% over 30bp)
CATTATTACTTTTGGTACGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG210340.15234426123716374RNA PCR Primer, Index 1 (100% over 29bp)
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG205450.14880255049527094RNA PCR Primer, Index 1 (100% over 29bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCA204520.1481289736057085No Hit
TGAGAACTGAATTCCATAGATGGTTGGAATTCTCGGGTGCCAAGGAACTC200930.14552882195675243RNA PCR Primer, Index 1 (100% over 26bp)
TCGTACCGTGAGTAATAATGCTGGAATTCTCGGGTGCCAAGGAACTCCAG197010.14268965915343554RNA PCR Primer, Index 1 (100% over 29bp)
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT196880.14259550324414186RNA PCR Primer, Index 1 (100% over 30bp)
TTACATGATGAAACATGTGTTGGTAGGGACATCTGAATGAATGTGATGAA195300.14145114680811105No Hit
TAACGGAACCCATAATGCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCA193000.13978531148983836RNA PCR Primer, Index 1 (100% over 28bp)
TACCCTGTAGATCCGGATTTGTTGGAATTCTCGGGTGCCAAGGAACTCCA191300.13855404190676726RNA PCR Primer, Index 1 (100% over 28bp)
TAAGATGATGATTAACTCACCATCTTTCGGCTGAAGAATGATGTATACTC188200.13630878560822582No Hit
TCTGACACCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACA179750.13018865150413703RNA PCR Primer, Index 11 (100% over 40bp)
ACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGC178580.12934124832049396RNA PCR Primer, Index 6 (97% over 36bp)
TACCCTGTAGAACCGAATTTGCGTGGAATTCTCGGGTGCCAAGGAACTCC178510.12929054898472045RNA PCR Primer, Index 1 (100% over 27bp)
TTCACAGTGGTTAAGTTCTGCCTGGAATTCTCGGGTGCCAAGGAACTCCA173840.12590817901240156RNA PCR Primer, Index 1 (100% over 28bp)
TTCACAGTGGTTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT173110.12537945736790632RNA PCR Primer, Index 1 (100% over 30bp)
AAGCTGCCAGCTGAAGAACTTGGAATTCTCGGGTGCCAAGGAACTCCAGT171530.12423510093187552RNA PCR Primer, Index 1 (100% over 30bp)
CACCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG170600.12356152404231309RNA PCR Primer, Index 6 (100% over 34bp)
TCGTACCGTGAGTAATAATGCATGGAATTCTCGGGTGCCAAGGAACTCCA169960.12309798725809809RNA PCR Primer, Index 1 (100% over 28bp)
AGCCTGTGATGATACAAGTTATCCCTGTCTGAACTCTGGTGTGGAATTCT168430.12198984463333408No Hit
TCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC167800.12153355061137242RNA PCR Primer, Index 1 (100% over 33bp)
TGGCTGTGATGAGAAACTTGCCCTCACTGAAACGTGATTGAGACATCTTT166640.12069339018998272No Hit
TATTGCACTTGTCCCGGCCTGTTTGGAATTCTCGGGTGCCAAGGAACTCC164900.11943314955789817RNA PCR Primer, Index 1 (100% over 27bp)
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG164730.11931002259959107RNA PCR Primer, Index 1 (100% over 29bp)
TTCGGCACCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACA163850.11867265952129541RNA PCR Primer, Index 11 (100% over 40bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCACGCGGGAGGCCCGG160880.11652155913204766No Hit
TGAGGTAGTAGGTTGTATAGTTTTGGAATTCTCGGGTGCCAAGGAACTCC157150.11382000881154455RNA PCR Primer, Index 1 (100% over 27bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTCCATCTCGTATGC154910.11219763006679202RNA PCR Primer, Index 11 (98% over 50bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTCTGGAATTCTCGGGTGC154830.11213968796876515No Hit
AATGACACGTTTTCTCCCGGATTGGAATTCTCGGGTGCCAAGGAACTCCA152370.11035796845443872RNA PCR Primer, Index 1 (100% over 28bp)
GTGGGATGATGATTCTTAGACTAGAGTCTCTGAGAACACATGAAGTTGTT152330.11032899740542527No Hit
TAGCACCATTTGAAATCAGTGCTGGAATTCTCGGGTGCCAAGGAACTCCA151810.10995237376825058RNA PCR Primer, Index 1 (100% over 28bp)
CAGAGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCC149070.10796785691083008RNA PCR Primer, Index 1 (100% over 27bp)
TGTAAACATCCTTGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC148790.10776505956773602RNA PCR Primer, Index 1 (100% over 27bp)
TAACACTGTCTGGTAACGATGTTGGAATTCTCGGGTGCCAAGGAACTCCA147420.10677280113902576RNA PCR Primer, Index 1 (100% over 28bp)
TAGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAG145310.1052445783035669RNA PCR Primer, Index 1 (100% over 29bp)
GGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG144390.10457824417625784RNA PCR Primer, Index 6 (100% over 34bp)
TGAGGTAGTAGATTGAATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA143910.10423059158809658RNA PCR Primer, Index 1 (100% over 28bp)
TCCGAATGATGAAATGTTGTTGATCTCTGTAGTAACCACGGTTACAGTGA143500.10393363833570883No Hit
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG142660.10332524630642663RNA PCR Primer, Index 1 (100% over 29bp)
TACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGG142140.10294862266925194RNA PCR Primer, Index 2 (97% over 35bp)
TTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA141690.10262269836785076RNA PCR Primer, Index 1 (100% over 32bp)
CATTGCACTTGTCTCGGTCTGATGGAATTCTCGGGTGCCAAGGAACTCCA138520.1003267427335358RNA PCR Primer, Index 1 (100% over 28bp)

[WARN]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TCCCGTA302.5227964E-644.0176141
CGTTTAT351.4432226E-744.01712840
AACATTC266750.043.9985121
CCGTACA650.043.99815834
CGCCAAC454.802132E-1043.99815833
ACCGGTA454.802132E-1043.9978432
TGCCATC207.8632246E-443.99576627
CGATAAA3800.043.9952920
GCGATAT1100.043.9951319
ACTCAAA254.4483026E-543.9951318
TTACCGA408.3327905E-943.9951318
GTTGGCC351.4488978E-743.9951318
CTATAGG1850.043.99369412
TAGAAGA254.4491586E-543.99369413
TGGCGCG207.865048E-443.99369412
CGATTAA1100.043.9936948
CCCGTAA302.532246E-643.9936949
TCAATAC302.532246E-643.99369412
CCATAGG207.865048E-443.99369414
GTATCTA1850.043.9936948