FastQCFastQC Report
Thu 27 Oct 2016
H3NFYBCXY_l01n01_smallrna_drought_1h_rep2_shoot.3510000006c047.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NFYBCXY_l01n01_smallrna_drought_1h_rep2_shoot.3510000006c047.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences15062649
Sequences flagged as poor quality0
Sequence length51
%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

[WARN]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
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATCTCGTATGCC218802414.526156720507794RNA PCR Primer, Index 3 (100% over 51bp)
TCGGACCAGGCTTCATTCCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT4340022.8813125765594085RNA PCR Primer, Index 1 (100% over 30bp)
TCTCGGACCAGGCTTCATTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT1095620.727375377332367RNA PCR Primer, Index 1 (100% over 30bp)
CCGGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATCT920110.6108553681361094RNA PCR Primer, Index 3 (100% over 43bp)
ATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAAC883180.5863377683434037RNA PCR Primer, Index 1 (100% over 24bp)
TCCGTTGTAGTCTAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTT829780.5508858368803522RNA PCR Primer, Index 1 (97% over 35bp)
TAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTT745810.4951386704954753RNA PCR Primer, Index 1 (97% over 35bp)
CAGTTACTAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCA728270.4834939724081734RNA PCR Primer, Index 1 (100% over 28bp)
AGGGCTATAGCTCAGTTCGGTAGAGCAACTCGTTTACACCGAGATGGAATT705790.46856963871361534No Hit
GCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAG634410.42118089587030805RNA PCR Primer, Index 1 (100% over 29bp)
TCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACT607620.40339517969249633RNA PCR Primer, Index 1 (100% over 25bp)
AGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCA604260.4011644963644841RNA PCR Primer, Index 1 (100% over 28bp)
GTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTCT602450.399962848500287No Hit
CCCAGGTCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGC543130.36058066545930934RNA PCR Primer, Index 3 (100% over 39bp)
TTCGGACCAGGCTTCATTCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT536530.35619896606499957RNA PCR Primer, Index 1 (100% over 30bp)
GTCGGCGCAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGC532010.35319816587374503RNA PCR Primer, Index 3 (100% over 39bp)
CACACGACTCTCGGCAACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA467780.31055626404093994RNA PCR Primer, Index 1 (100% over 32bp)
CCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTC437300.2903207795654005RNA PCR Primer, Index 1 (100% over 26bp)
CAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCC435320.2890062697471076RNA PCR Primer, Index 1 (100% over 27bp)
CGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTC427560.2838544534895555No Hit
TCCACAGGCTTTCTTGAACTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT411450.273159123604354RNA PCR Primer, Index 1 (100% over 30bp)
CTCGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATCT345640.22946826949230512RNA PCR Primer, Index 3 (100% over 43bp)
TTGACAGAAGAGAGTGAGCACTGGAATTCTCGGGTGCCAAGGAACTCCAGT329270.21860032720672173RNA PCR Primer, Index 1 (100% over 30bp)
TATCGAGTAGACCCTGTCGTTGTGAGATGGAATTCTCGGGTGCCAAGGAAC319360.2120211391767809RNA PCR Primer, Index 1 (100% over 24bp)
TCGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCAT299380.19875654010127966RNA PCR Primer, Index 3 (100% over 41bp)
CACACGACTCTCGGCAACGGATATCTGGAATTCTCGGGTGCCAAGGAACTC295870.19642627269612403RNA PCR Primer, Index 1 (100% over 26bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTTGGAATTCTCGGGTGCCAAGGA283430.18816743323169782RNA PCR Primer, Index 1 (100% over 22bp)
CCGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATCTC281330.1867732561516902RNA PCR Primer, Index 3 (100% over 44bp)
TCATGTGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCA276790.1837591780834832RNA PCR Primer, Index 3 (100% over 40bp)
CCGGGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATCT276720.1837127055141496RNA PCR Primer, Index 3 (100% over 43bp)
CTGGGCGTCACGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGG265650.17636340062096648RNA PCR Primer, Index 3 (100% over 38bp)
GCTCGGGGGTCCCGGCCCCGAACCCGTCGGCTGGAATTCTCGGGTGCCAAG265510.1762704554822993No Hit
GATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAA259780.1724663437354213RNA PCR Primer, Index 1 (100% over 23bp)
GGTAGTTCGACCGTGGAATTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC241090.16005816772335332RNA PCR Primer, Index 1 (100% over 31bp)
CGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATC232490.15434868063379822RNA PCR Primer, Index 3 (100% over 42bp)
TCTGTTGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCA224200.14884500063700615RNA PCR Primer, Index 3 (100% over 40bp)
CCAGGTCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCA217450.14436371716555302RNA PCR Primer, Index 3 (100% over 40bp)
CACACGACTCTCGGCAACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC216630.14381932421050242RNA PCR Primer, Index 1 (100% over 33bp)
CCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATT216310.14360687817926315No Hit
TCCGTTGTAGTCTAGCTGGTTAGGATATGGAATTCTCGGGTGCCAAGGAAC214250.1422392568531604RNA PCR Primer, Index 1 (100% over 24bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTGGAATTCTCGGGTGCCAAGGAA206620.13717374679579933RNA PCR Primer, Index 1 (100% over 23bp)
GGCGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATCT206330.13698121757998874RNA PCR Primer, Index 3 (100% over 43bp)
TCCCCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCATC205130.13618454496284152RNA PCR Primer, Index 3 (100% over 42bp)
TCGCTTGGTGCAGATCGGGACTGGAATTCTCGGGTGCCAAGGAACTCCAGT204490.13575965290036301RNA PCR Primer, Index 1 (100% over 30bp)
GCTGGTCCGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCA196210.13026261184204715RNA PCR Primer, Index 3 (100% over 40bp)
CACACGACTCTCGGCAACGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT194210.1289348241468018RNA PCR Primer, Index 1 (100% over 30bp)
GCGACCCCAGGTCAGGCGGGACTTGGAATTCTCGGGTGCCAAGGAACTCCA190410.12641202752583558RNA PCR Primer, Index 1 (100% over 28bp)
CCGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACT187120.12422781676715697RNA PCR Primer, Index 3 (100% over 34bp)
TATCGAGTAGACCCTGTCGTTGTGAGAATTTGGAATTCTCGGGTGCCAAGG185810.12335811582677124Illumina Small RNA Adapter 2 (100% over 21bp)
CGGGGTTCGTTTCCCCGGATGCGCACCATGGAATTCTCGGGTGCCAAGGAA185710.12329172644200898RNA PCR Primer, Index 1 (100% over 23bp)
TCGTGACCCTGACCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAG183310.12169838120771453RNA PCR Primer, Index 3 (100% over 37bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGATGGAATTCTCGGGTGC176850.11740962695207197No Hit
TCCGTTGTAGTCTAGCTGGTTAGGATACTCTGGAATTCTCGGGTGCCAAGG173710.11532500027053674Illumina Small RNA Adapter 2 (100% over 21bp)
ACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATGGAATTC168540.11189266907832747No Hit
CCCCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGC165060.1095823184886005RNA PCR Primer, Index 3 (100% over 39bp)
CGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTT162780.10806864051602079RNA PCR Primer, Index 1 (97% over 35bp)
GGGCGGCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCA160370.10646865634325012RNA PCR Primer, Index 3 (100% over 40bp)
CCCCCGGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGCA157220.10437739072323865RNA PCR Primer, Index 3 (100% over 40bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCTGGAATTCTCGGGTGCCAA156580.10395249866076015No Hit
GCGCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTTAGGC152770.10142306310131771RNA PCR Primer, Index 3 (100% over 39bp)

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CACACGA251750.044.196241
AGGGCTA107400.044.047471
CGTTTAC85600.044.02327331
TTCGGTA89950.044.01954716
TAGCTCA244000.044.0171938
CTCAGTT174450.044.01428611
TCCCCTG470050.043.91808717
GCTCAGT188350.043.87161610
AGCTCAG221500.043.8669859
GTATGCC2389300.043.78634645
TACACCG84400.043.76954335
CTATAGC108050.043.767975
TCAGTTC91900.043.72141612
TATCGAG146350.043.639691
GAGCAAC88550.043.59993423
TATAGCT114750.043.5636256
TTACACC85850.043.55439434
TCGAGTA146950.043.419533
TAGACCC146650.043.399098
GTTTACA86900.043.39001532
Produced by FastQC (version 0.11.2)