FastQCFastQC Report
Mon 5 Dec 2016
JG35_3_TTAGGC_L006_R1_001.fastq

Summary

[OK]Basic Statistics

MeasureValue
FilenameJG35_3_TTAGGC_L006_R1_001.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences9671209
Sequences flagged as poor quality0
Sequence length50
%GC52

[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
TTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTGG4884785.050847313919077No Hit
ATGACCTATGAATTGACAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAG3716433.842777050935411RNA PCR Primer, Index 1 (100% over 29bp)
ATGACCTATGAATTGACAGCCATGGAATTCTCGGGTGCCAAGGAACTCCA3336313.449734154230355RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA2969413.0703606963720875RNA PCR Primer, Index 1 (100% over 28bp)
CCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC2936653.0364869583523633RNA PCR Primer, Index 1 (100% over 33bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA2243922.320206294786929RNA PCR Primer, Index 1 (100% over 28bp)
AAGCTGCCAGCTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA1394281.4416811796746405RNA PCR Primer, Index 1 (100% over 28bp)
TAGCTTATCAGACTGGTGTTGGCTGGAATTCTCGGGTGCCAAGGAACTCC1230541.272374529389242RNA PCR Primer, Index 1 (100% over 27bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA1098531.135876600329907RNA PCR Primer, Index 1 (100% over 28bp)
CTACGCCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCA1036551.071789473270612RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC892230.9225630425317042RNA PCR Primer, Index 1 (100% over 27bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATCTCGTATGC876450.9062465716540714RNA PCR Primer, Index 3 (100% over 50bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC839820.8683712656814675RNA PCR Primer, Index 1 (100% over 26bp)
TATTGCACTTGTCCCGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA763260.7892084640089984RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGTTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA739500.7646406979727147RNA PCR Primer, Index 1 (100% over 28bp)
CTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACT665520.6881456082688318RNA PCR Primer, Index 3 (100% over 34bp)
CCGTCGAGCAGCATTCCGGGCTTCACATCGGAGGGCTCCAGCCGGCCCCG651940.6741039305427067No Hit
TGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTT635200.6567948226535069RNA PCR Primer, Index 1 (97% over 35bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC562300.5814164495876368RNA PCR Primer, Index 1 (100% over 26bp)
AGAGATGATGACTTCTGTTACCGCCCCAGTCTGAGAAGTCATGACTGATC561050.5801239534788257No Hit
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTTGGAATTCTCGGGTGCC510680.5280415302781689No Hit
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG480600.4969389039157359RNA PCR Primer, Index 1 (100% over 29bp)
TCAGTAACTGGAATCTGTCCCTTGGAATTCTCGGGTGCCAAGGAACTCCA470780.48678505448491494RNA PCR Primer, Index 1 (100% over 28bp)
TTCAGTGATGTTTGACAAATGTCTGACCTGAACTGCAATGTGGACAGATC462760.47849239945078226No Hit
TTCAAGTAATCCAGGATAGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA454520.46997226510149864RNA PCR Primer, Index 1 (100% over 28bp)
GATCCATGATGACATTAAAACATAACGTGACTGTTGGATGAAGCTTGCGG448140.4633753649621262No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCA419600.4338650938057486No Hit
GTTACATGATGAAACATGTGTTGGTAGGGACATCTGAATGAATGTGATGA417600.43179710003165067No Hit
TGGAGTGTGACAATGGTGTTTGTGGAATTCTCGGGTGCCAAGGAACTCCA416920.43109398214845734RNA PCR Primer, Index 1 (100% over 28bp)
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG403870.4176003227724683RNA PCR Primer, Index 1 (100% over 29bp)
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA401000.41463275170663766RNA PCR Primer, Index 1 (100% over 28bp)
TCGTACCGTGAGTAATAATGCATGGAATTCTCGGGTGCCAAGGAACTCCA358910.3711118227307465RNA PCR Primer, Index 1 (100% over 28bp)
TTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTTG356200.36830969116684376No Hit
TACGCCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG353980.36601421807759504RNA PCR Primer, Index 1 (100% over 29bp)
CTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTG333310.3446415024222928No Hit
TGCCTGTGATGAGACTCTCGACGGGCGGACTGAATGGGTTTTCACCCTCC329810.3410225133176214No Hit
ATCCATGATGACATTAAAACATAACGTGACTGTTGGATGAAGCTTGCGGA328470.3396369574889758No Hit
CATTATTACTTTTGGTACGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG318300.3291212091476877RNA PCR Primer, Index 1 (100% over 29bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTCTGGAATTCTCGGGTGC315680.32641213730361945No Hit
CTTCGAACGCACCTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCT314760.32546086016753434No Hit
AACCCGTAGATCCGAACTTGTGTGGAATTCTCGGGTGCCAAGGAACTCCA308170.31864682068188166RNA PCR Primer, Index 1 (100% over 28bp)
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT307050.31748874416838685RNA PCR Primer, Index 1 (100% over 30bp)
GGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACT302280.3125565790171632RNA PCR Primer, Index 3 (100% over 34bp)
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTGGAATTCTCGGGTGC300520.310736744495957No Hit
CTGGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA300480.3106953846204751RNA PCR Primer, Index 1 (100% over 32bp)
TAAGATGATGATTAACTCACCATCTTTCGGCTGAAGAATGATGTATACTC298520.30866875072185906No Hit
CCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTA284470.29414109445882103RNA PCR Primer, Index 3 (100% over 36bp)
TTACATGATGAAACATGTGTTGGTAGGGACATCTGAATGAATGTGATGAA263150.27209628082693693No Hit
TGAGGTAGTAGGTTGTATAGTTTTGGAATTCTCGGGTGCCAAGGAACTCC256730.26545802081208253RNA PCR Primer, Index 1 (100% over 27bp)
TCGCTGCGATCCATTGAAAGTCAGCCCTCGATCCAAGTTTTTGTTGGAAT247540.2559555894201025No Hit
ACAGTAGTCTGCACATTGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG234320.24228615057331507RNA PCR Primer, Index 1 (100% over 29bp)
CCTGTCTGAGGGTCGCTTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA229080.23686800688517848RNA PCR Primer, Index 1 (100% over 32bp)
CCTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTT226000.23368329647306765No Hit
TGTAAACATCCCCGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC224660.23229774064442202RNA PCR Primer, Index 1 (100% over 26bp)
TCAGTAACTGGAATCTGTCCCTGCTGGAATTCTCGGGTGCCAAGGAACTC222540.23010566724387818RNA PCR Primer, Index 1 (100% over 26bp)
TTCCAGTGATGACAGCCTATAATCTGACTTGGAATTCTCGGGTGCCAAGG222450.2300126075240438Illumina Small RNA Adapter 2 (100% over 21bp)
ATGACCTATGAATTGACAGCCATTGGAATTCTCGGGTGCCAAGGAACTCC210400.21755294503510367RNA PCR Primer, Index 1 (100% over 27bp)
TTCACAGTGGTTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT209800.2169325469028743RNA PCR Primer, Index 1 (100% over 30bp)
TGAGGTAGTAGTTTGTGCTGTTTGGAATTCTCGGGTGCCAAGGAACTCCA200410.20722331613348444RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTACACTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCA191600.19811380355858302RNA PCR Primer, Index 1 (100% over 28bp)
TCGTACCGTGAGTAATAATGCTGGAATTCTCGGGTGCCAAGGAACTCCAG191310.19781394446133882RNA PCR Primer, Index 1 (100% over 29bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAA188270.19467059392470992No Hit
TGAGGTAGTAGATTGAATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA188230.19462923404922797RNA PCR Primer, Index 1 (100% over 28bp)
ACTGGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC186670.1930161989054316RNA PCR Primer, Index 1 (100% over 31bp)
TCCGAATGATGAAATGTTGTTGATCTCTGTAGTAACCACGGTTACAGTGA165650.17128158433966217No Hit
TCCAGTGATGACAGCCTATAATCTGACTTGGAATTCTCGGGTGCCAAGGA163560.16912053084572984RNA PCR Primer, Index 1 (100% over 22bp)
TGTAAACATCCTTGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC162790.16832435324270215RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG161000.16647349881488446RNA PCR Primer, Index 1 (100% over 29bp)
TCCCATATGGTCTAGCGGTTAGGATTCCTTGGAATTCTCGGGTGCCAAGG156420.16173779307220018Illumina Small RNA Adapter 2 (100% over 21bp)
TTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATCTCG156420.16173779307220018RNA PCR Primer, Index 3 (100% over 45bp)
CATTGCACTTGTCTCGGTCTGATGGAATTCTCGGGTGCCAAGGAACTCCA155170.16044529696338897RNA PCR Primer, Index 1 (100% over 28bp)
TAGCTTATCAGACTGGTGTTGGTGGAATTCTCGGGTGCCAAGGAACTCCA151310.1564540689793799RNA PCR Primer, Index 1 (100% over 28bp)
TCAGTAACTGGAATCTGTCCCTGTGGAATTCTCGGGTGCCAAGGAACTCC150150.15525463259040312RNA PCR Primer, Index 1 (100% over 27bp)
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTTGGAATTCTCGGGTGCC148480.15352785778903136No Hit
TGGAGTGTGACAATGGTGTTTGTTGGAATTCTCGGGTGCCAAGGAACTCC148130.1531659588785642RNA PCR Primer, Index 1 (100% over 27bp)
AACTGGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT146470.1514495240460629RNA PCR Primer, Index 1 (100% over 30bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTCTGGAATTCTCGGGTGC145000.1499295486221009No Hit
GCATTGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCAA144430.149340170396483No Hit
CATGGCTGATGACCTTTGATGCGTTAGACTTCTGATTTAAAAATGAAGTC144240.14914371098794368No Hit
TTTTGCAGAAACGTTTCAGATTTGGAATTCTCGGGTGCCAAGGAACTCCA143800.14868875235764215RNA PCR Primer, Index 1 (100% over 28bp)
TACCGTGAAGAATATCACGTCTTTCGCTCCTATCTGATCTGGAATTCTCG140770.14555574178988376No Hit
TGTAAACATCCCCGACTGGAAGCTGGAATTCTCGGGTGCCAAGGAACTCC139350.1440874662102742RNA PCR Primer, Index 1 (100% over 27bp)
GTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATCTC137240.14190573277860088RNA PCR Primer, Index 3 (100% over 44bp)
CATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATCTCGTAT136540.14118193495766662RNA PCR Primer, Index 3 (100% over 48bp)
CACCGTCGAGCAGCATTCCGGGCTTCACATCGGAGGGCTCCAGCCGGCCC135230.13982739903563246No Hit
GAAGGATCATTATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGG134950.13953787990725874RNA PCR Primer, Index 3 (100% over 38bp)
TTCACAGTGGTTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG134120.1386796624910081RNA PCR Primer, Index 1 (100% over 29bp)
CTCGCTGCGATCCATTGAAAGTCAGCCCTCGATCCAAGTTTTTGTTGGAA133740.13828674367392949No Hit
TGAGATGAAGCACTGTAGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGT130940.13539155239019238RNA PCR Primer, Index 1 (100% over 30bp)
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTTGGAATTCT130630.1350710133552072No Hit
CACCTTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGC128840.13322015892738953No Hit
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG125480.129745929386905RNA PCR Primer, Index 1 (100% over 29bp)
TTCAAGTAATCCAGGATAGGCTTTGGAATTCTCGGGTGCCAAGGAACTCC123750.12795711477231025RNA PCR Primer, Index 1 (100% over 27bp)
CGCCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC122740.1269127779163908RNA PCR Primer, Index 1 (100% over 31bp)
TACACTGATGACTTCTTAGGACACCTTTGGATTCTTGATGAAAACAAATT122010.12615796018884506No Hit
TTCAAGTAATCCAGGATAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG120550.12464832473375355RNA PCR Primer, Index 1 (100% over 29bp)
TTCACAGTGGTTAAGTTCTGCCTGGAATTCTCGGGTGCCAAGGAACTCCA120520.12461730482714209RNA PCR Primer, Index 1 (100% over 28bp)
TATTGCACTTGTCCCGGCCTGTTTGGAATTCTCGGGTGCCAAGGAACTCC119660.12372806750427998RNA PCR Primer, Index 1 (100% over 27bp)
TGTAAACATCCTACACTCTCAGCTGGAATTCTCGGGTGCCAAGGAACTCC118290.1223114917690229RNA PCR Primer, Index 1 (100% over 27bp)
GTAGTTCAGCCTGAGCAATACAGCGAGACACAGTCTTTTGGAATTCTCGG113630.11749306627537466No Hit
AGCCTGTGATGATACAAGTTATCCCTGTCTGAACTCTGGTGTGGAATTCT112610.11643838945058471No Hit
AAGCTGCCAGCTGAAGAACTTGGAATTCTCGGGTGCCAAGGAACTCCAGT111990.11579731138061436RNA PCR Primer, Index 1 (100% over 30bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCTGGAATTCTCGGGTGC111370.11515623331064398No Hit
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTCTCACCGCCGCGGCCCG111310.11509419349742106No Hit
CGCTGCGATCCATTGAAAGTCAGCCCTCGATCCAAGTTTTTGTTGGAATT110160.11390509707731473No Hit
TCACAGTGAACCGGTCTCTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG107550.11120636520211692RNA PCR Primer, Index 1 (100% over 29bp)
ATGGCAATTTTTGACGGTCTCTACGGGGACTGTGGAATTCTCGGGTGCCA105690.10928313099220584No Hit
AGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCAT105340.10892123208173869RNA PCR Primer, Index 3 (100% over 41bp)
GCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTGGAA104100.10763907594179796No Hit
TACCCTGTAGAACCGAATTTGCGTGGAATTCTCGGGTGCCAAGGAACTCC103230.10673949865006536RNA PCR Primer, Index 1 (100% over 27bp)
TCTGAATGAATGTGATGAAAATCCAACACCCCTGACTTGGAATTCTCGGG99250.10262419103961046No Hit
ACCGTCGAGCAGCATTCCGGGCTTCACATCGGAGGGCTCCAGCCGGCCCC99250.10262419103961046No Hit
CTCGTACCGTGAGTAATAATGCTGGAATTCTCGGGTGCCAAGGAACTCCA98450.10179699352997128RNA PCR Primer, Index 1 (100% over 28bp)
CTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAA97930.10125931514870581No Hit
TTTTTGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATCT97490.10080435651840428RNA PCR Primer, Index 3 (100% over 43bp)
ATGGCTGATGACCTTTGATGCGTTAGACTTCTGATTTAAAAATGAAGTCA97410.10072163676744035No Hit
ATGACCTATGAATTGACAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT97270.10057687720325349RNA PCR Primer, Index 1 (100% over 30bp)

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CGCTAAT351.4376747E-744.038431
TCGTATT254.428802E-544.02771842
GTTAGCC1450.043.99698618
CACTATC254.447094E-543.99698620
CGCGCTA207.862033E-443.99698318
CGTTCGA408.3291525E-943.99698325
TCTAAGC207.862033E-443.99698317
GCGCTAT207.862033E-443.99698319
GTTATCG207.862033E-443.99698318
ACGGCAA1650.043.9956216
CCCCCGA207.863234E-443.9956216
CGACCTA254.4480443E-543.9953962
CCCCACA502.7284841E-1143.9953962
GATAGCC207.865036E-443.99357215
GATACTA254.449402E-543.993125
ATACTAC207.8654365E-443.993128
CATAGTC1150.043.993124
TGTCTCG21700.043.9931210
GTCACAA1150.043.993128
ATTGCTA700.043.993127
Produced by FastQC (version 0.11.3)