FastQCFastQC Report
Mon 5 Dec 2016
JM69_3_GTAGAG_L005_R1_001.fastq

Summary

[OK]Basic Statistics

MeasureValue
FilenameJM69_3_GTAGAG_L005_R1_001.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences10011929
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
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTAGAGATCTCGTATGC380465738.001238322804724RNA PCR Primer, Index 17 (100% over 50bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTCTGGAATTCTCGGGTGC2801652.798311893741955No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCA2089452.086960464861467No Hit
TCCCTGTGGTCTAGTGGTTAGGATTCGGCGCTCTGGAATTCTCGGGTGCC1467941.4661909807790288No Hit
TGGAGTGTGACAATGGTGTTTGTGGAATTCTCGGGTGCCAAGGAACTCCA1453751.45201788786157RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA1295621.294076296386041RNA PCR Primer, Index 1 (100% over 28bp)
ATGACCTATGAATTGACAGCCATGGAATTCTCGGGTGCCAAGGAACTCCA898560.8974893849127376RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA872460.8714204825064181RNA PCR Primer, Index 1 (100% over 28bp)
TAGCTTATCAGACTGGTGTTGGCTGGAATTCTCGGGTGCCAAGGAACTCC781990.781058275583057RNA PCR Primer, Index 1 (100% over 27bp)
AAGCTGCCAGCTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA768990.7680737648059629RNA PCR Primer, Index 1 (100% over 28bp)
ATGACCTATGAATTGACAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAG753100.7522026974022689RNA PCR Primer, Index 1 (100% over 29bp)
GCATTGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCAA731480.7306084571714402No Hit
TATTGCACTTGTCCCGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA684520.6837044090104913RNA PCR Primer, Index 1 (100% over 28bp)
CCGTCGAGCAGCATTCCGGGCTTCACATCGGAGGGCTCCAGCCGGCCCCG581370.5806773100368571No Hit
CATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTAGAGATCTCGTAT568230.5675529660667789RNA PCR Primer, Index 17 (100% over 48bp)
TGGAGTGTGACAATGGTGTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG555320.5546583480566033RNA PCR Primer, Index 1 (100% over 29bp)
TGGAGTGTGACAATGGTGTTTGTTGGAATTCTCGGGTGCCAAGGAACTCC552550.5518916484525609RNA PCR Primer, Index 1 (100% over 27bp)
TTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTGG540820.5401756244975369No Hit
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTTGGAATTCTCGGGTGCC530280.5296481826828776No Hit
TAACGGAACCCATAATGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC389760.38929560926770457RNA PCR Primer, Index 1 (100% over 27bp)
GTTCTACAGTCCGACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGT382990.3825336755784025RNA PCR Primer, Index 1 (97% over 35bp)
CCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC360660.3602302812974403RNA PCR Primer, Index 1 (100% over 33bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC344500.3440895355929911RNA PCR Primer, Index 1 (100% over 27bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAA325200.3248125311316131No Hit
AGCCTGTGATGATACAAGTTATCCCTGTCTGAACTCTGGTGTGGAATTCT322600.3222156289761943No Hit
ACCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGT322460.3220757957832102RNA PCR Primer, Index 1 (97% over 35bp)
TCCCATATGGTCTAGCGGTTAGGATTCCTTGGAATTCTCGGGTGCCAAGG301090.3007312576827103Illumina Small RNA Adapter 2 (100% over 21bp)
CTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG294440.29408918101596604RNA PCR Primer, Index 6 (100% over 34bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA292840.2924910873818622RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA288190.28784662775774783RNA PCR Primer, Index 1 (100% over 28bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTCTGGAATTCTCGGGTGC279660.27932679107093145No Hit
AGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGT263690.26337581898553214RNA PCR Primer, Index 1 (100% over 30bp)
TCAGTAACTGGAATCTGTCCCTTGGAATTCTCGGGTGCCAAGGAACTCCA256020.2557149576270467RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC246050.24575683666953693RNA PCR Primer, Index 1 (100% over 26bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC228380.2281078900979022RNA PCR Primer, Index 1 (100% over 26bp)
TCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC227500.22722893859914509RNA PCR Primer, Index 1 (100% over 33bp)
TGGACGTGATGAGCAGGTGTTACCGCCCCAGTCTGATGTTTGGTGACTGA214580.2143243325037563No Hit
GATCCATGATGACATTAAAACATAACGTGACTGTTGGATGAAGCTTGCGG212180.21192719205260047No Hit
TGAGGTAGTAGTTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA207090.2068432566791075RNA PCR Primer, Index 1 (100% over 28bp)
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTTGGAATTCT205500.20525515113021678No Hit
TAGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAG202550.20230866599233777RNA PCR Primer, Index 1 (100% over 29bp)
ATCCATGATGACATTAAAACATAACGTGACTGTTGGATGAAGCTTGCGGA193900.19366897228296365No Hit
TGGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC193530.19329941313007715RNA PCR Primer, Index 1 (100% over 33bp)
CACCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG188870.18864496542074957RNA PCR Primer, Index 6 (100% over 34bp)
ACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTA184680.18445995771644005RNA PCR Primer, Index 3 (97% over 36bp)
TAGCTTATCAGACTGGTGTTGGTGGAATTCTCGGGTGCCAAGGAACTCCA180970.1807543781023617RNA PCR Primer, Index 1 (100% over 28bp)
GGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG179700.17948589128029174RNA PCR Primer, Index 6 (100% over 34bp)
TTCAGTGATGTTTGACAAATGTCTGACCTGAACTGCAATGTGGACAGATC178840.17862691595196092No Hit
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTTGAGATCTCGTATGC166790.16659127327011608RNA PCR Primer, Index 17 (98% over 50bp)
TGGAATTCTCGGGTGCCAGGAACTCCAGTCACGTAGAGATCTCGTATGCC164590.16439389452322326RNA PCR Primer, Index 17 (97% over 35bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGCCACGCGGGAGGCCCGG163560.16336512174626888No Hit
TTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA162790.16259603918485638RNA PCR Primer, Index 1 (100% over 32bp)
CAGAGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCC161310.1611178025733103RNA PCR Primer, Index 1 (100% over 27bp)
AACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGCT158300.15811138892415239No Hit
TACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGT145700.14552640155558436RNA PCR Primer, Index 1 (97% over 35bp)
TTCCAGTGATGACAGCCTATAATCTGACTTGGAATTCTCGGGTGCCAAGG143970.14379846281370953Illumina Small RNA Adapter 2 (100% over 21bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGAGAGATCTCGTATGC143380.1432091657861337RNA PCR Primer, Index 17 (98% over 50bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTTGGAATTCTCGGGTGCC142940.14276969003675516No Hit
GTTGGGCGCCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGTAGAG142320.1421504287535399RNA PCR Primer, Index 17 (100% over 39bp)
AGAGATGATGACTTCTGTTACCGCCCCAGTCTGAGAAGTCATGACTGATC140990.14082201342019107No Hit
AGAGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCA140860.1406921683124201RNA PCR Primer, Index 1 (100% over 28bp)
GTTCTACAGTCCGACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG136110.1359478278361742RNA PCR Primer, Index 6 (100% over 34bp)
TGGCTGTGATGAGAAACTTGCCCTCACTGAAACGTGATTGAGACATCTTT133910.1337504490892814No Hit
TCCAGTGATGACAGCCTATAATCTGACTTGGAATTCTCGGGTGCCAAGGA125570.12542038602151492RNA PCR Primer, Index 1 (100% over 22bp)
TATTGCACTTGTCCCGGCCTGTTTGGAATTCTCGGGTGCCAAGGAACTCC124280.1241319230290187RNA PCR Primer, Index 1 (100% over 27bp)
GCATTGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAAG120800.12065606937484276No Hit
TGTAACAGCAACTCCATGTGGATGGAATTCTCGGGTGCCAAGGAACTCCA118770.11862848807657346RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG115360.11522255101888956RNA PCR Primer, Index 1 (100% over 29bp)
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTGGAATTCTCGGGTGCCA114760.11462326590610061No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCTGGAATTCTCGGGTGCCAAGGA113060.11292529141986524RNA PCR Primer, Index 1 (100% over 22bp)
TGAGGTAGTAGGTTGTATAGTTTTGGAATTCTCGGGTGCCAAGGAACTCC112790.11265561311911021RNA PCR Primer, Index 1 (100% over 27bp)
TAACACTGTCTGGTAACGATGTTGGAATTCTCGGGTGCCAAGGAACTCCA110950.11081780543989075RNA PCR Primer, Index 1 (100% over 28bp)
CATTGCACTTGTCTCGGTCTGATGGAATTCTCGGGTGCCAAGGAACTCCA109220.10908986669801593RNA PCR Primer, Index 1 (100% over 28bp)
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG107220.1070922496553861RNA PCR Primer, Index 1 (100% over 29bp)
TCAGTAACTGGAATCTGTCCCTGTGGAATTCTCGGGTGCCAAGGAACTCC107080.106952416462402RNA PCR Primer, Index 1 (100% over 27bp)
TCCCCTGTGGTCTAGTGGTTAGGATTCGGCGCTCTGGAATTCTCGGGTGC106760.10663279773558124No Hit
TGAGGTAGTAGATTGAATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA106100.10597358411151338RNA PCR Primer, Index 1 (100% over 28bp)
CTGGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA103870.10374624110898109RNA PCR Primer, Index 1 (100% over 32bp)
TCGCTGCGATCCATTGAAAGTCAGCCCTCGATCCAAGTTTTTGTTGGAAT102150.10202829045231944No Hit

[WARN]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TCCCTCG351.4377838E-744.038031
ATCAAAT700.044.038031
TATTGAA254.422699E-544.0380251
TGCATAT1250.044.0380251
CGCTAAA650.044.0380251
TCCTTCA600.044.0380251
GCCCGAC502.7284841E-1144.0380251
TCGTAAG254.436158E-544.0153643
CGTAAGC254.436158E-544.0153644
CGCGTAT207.8514934E-444.00898742
AAGGCAA254.444669E-544.00107221
TACACTA408.3218765E-944.00085440
AAGGCGG254.4450622E-544.00041618
TTCACTA207.859029E-444.00041218
TAGGCGT408.3236955E-944.000217
ACAGTTA254.4451932E-544.0001917
CGATAAA1900.043.99975620
TTGCGTC302.529865E-643.9995419
TACGTGC207.8598026E-443.9995416
ATTAGGT351.4476973E-743.99953516