FastQCFastQC Report
Thu 27 Oct 2016
H3NFYBCXY_l02n02_smallrna_ctrl1h_rep3_shoot.3520000006bfce.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NFYBCXY_l02n02_smallrna_ctrl1h_rep3_shoot.3520000006bfce.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences33170926
Sequences flagged as poor quality0
Sequence length51
%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

[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
GATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTAT23435277.0650032501353754Illumina RNA PCR Primer (100% over 46bp)
GGGGAATGAAGCCTGGTCCGAGATCGTCGGACTGTAGAACTCTGAACGTGT3676301.1082898318847054Illumina DpnII expression Sequencing Primer (96% over 30bp)
ACGAATCCGTGCGACGCGGGGCTGGATGATCGTCGGACTGTAGAACTCTGA3303490.9958992401960681Illumina DpnII expression Sequencing Primer (100% over 24bp)
TCTCGGTGTAAACGAGTTGCTCTACCGAACTGAGCTATAGCCCTGATCGTC2743910.8272033165429268No Hit
ACGAATCCGTGCGACGCGGGGCGATCGTCGGACTGTAGAACTCTGAACGTG2522890.7605726774103322Illumina DpnII expression Sequencing Primer (96% over 29bp)
ACGAATCCGTGCGACGCGGGGCTGATCGTCGGACTGTAGAACTCTGAACGT2432370.7332837196043306Illumina DpnII expression Sequencing Primer (96% over 28bp)
GGAATGAAGCCTGGTCCGAGAGATCGTCGGACTGTAGAACTCTGAACGTGT1962100.5915119764820554Illumina DpnII expression Sequencing Primer (96% over 30bp)
GCCAGATCATGAATTAGATCGTCGGACTGTAGAACTCTGAACGTGTAGATC1930540.5819976204462909Illumina DpnII expression Sequencing Primer (96% over 30bp)
ACGAATCCGTGCGACGCGGGGCTGGAGATCGTCGGACTGTAGAACTCTGAA1909520.5756607457988963Illumina DpnII expression Sequencing Primer (100% over 25bp)
ACGAATCCGTGCGACGCGGGGCTGGATCGTCGGACTGTAGAACTCTGAACG1614180.4866249437836013Illumina DpnII expression Sequencing Primer (96% over 26bp)
ACGAATCCGTGCGACGCGGGGCTGGGATCGTCGGACTGTAGAACTCTGAAC1597290.4815331353728262Illumina DpnII expression Sequencing Primer (100% over 26bp)
GCCAGATCATGAATTAGTAACTGGATCGTCGGACTGTAGAACTCTGAACGT1528490.46079208038991737Illumina DpnII expression Sequencing Primer (96% over 28bp)
CGTTGCCGAGAGTCGTGTGGATCGTCGGACTGTAGAACTCTGAACGTGTAG1499010.45190477950479885Illumina DpnII expression Sequencing Primer (96% over 30bp)
TGGCCTCGGGCGCAACTTGCGTTCAAAGACTCGATGGTTCACGATCGTCGG1427180.43025027398993926No Hit
GGGAATGAAGCCTGGTCCGAAGATCGTCGGACTGTAGAACTCTGAACGTGT1260360.3799592450328339Illumina DpnII expression Sequencing Primer (96% over 30bp)
TGGCCTCGGGCGCAACTTGCGTTCAAAGACTCGATGGTTCACGGATCGTCG1104730.33304165219867543No Hit
GATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTAA1080140.32562853385522006Illumina RNA PCR Primer (97% over 45bp)
CCATAGAATCAAGAAAGAGCTCTCAGTCTGTCAATCCTTGCTATGTCTGGA1051840.31709696618056427No Hit
ACGAATCCGTGCGACGCGGGGCTGGATCGATCGTCGGACTGTAGAACTCTG1018130.30693445217658377Illumina DpnII expression Sequencing Primer (100% over 23bp)
TCTCACAACGACAGGGTCTACTCGATAGATCGTCGGACTGTAGAACTCTGA989950.2984390607606191Illumina DpnII expression Sequencing Primer (100% over 24bp)
AATTCCACGGTCGAACTACCGATCGTCGGACTGTAGAACTCTGAACGTGTA885600.26698078914046597Illumina DpnII expression Sequencing Primer (96% over 30bp)
GCTAGACTACAACGGAGATCGTCGGACTGTAGAACTCTGAACGTGTAGATC823510.2482625899560356Illumina DpnII expression Sequencing Primer (96% over 30bp)
GATATCCGTTGCCGAGAGTCGTGTGGATCGTCGGACTGTAGAACTCTGAAC775450.23377399835024204Illumina DpnII expression Sequencing Primer (100% over 26bp)
CAGTTCAAGAAAGCCTGTGGAGATCGTCGGACTGTAGAACTCTGAACGTGT720540.21722034531083032Illumina DpnII expression Sequencing Primer (96% over 30bp)
GTGCTCACTCTCTTCTGTCAAGATCGTCGGACTGTAGAACTCTGAACGTGT660810.1992136125473253Illumina DpnII expression Sequencing Primer (96% over 30bp)
GTTGCCGAGAGTCGTGTGGATCGTCGGACTGTAGAACTCTGAACGTGTAGA644300.19423636228907207Illumina DpnII expression Sequencing Primer (96% over 30bp)
CCCATAGAATCAAGAAAGAGCTCTCAGTCTGTCAATCCTTGCTATGTCTGG630960.19021476819790922No Hit
GATCCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTA619440.1867418473635617Illumina RNA PCR Primer (100% over 45bp)
GCGTGACGCCCAGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCG575190.1734018519712112Illumina RNA PCR Primer (100% over 33bp)
GCCCCCGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGT570110.1718703903532871Illumina RNA PCR Primer (100% over 38bp)
AGTATCCTAACCAGCTAGACTACAACGGAGATCGTCGGACTGTAGAACTCT565640.17052282471704286Illumina DpnII expression Sequencing Primer (100% over 22bp)
GAGTATCCTAACCAGCTAGACTACAACGGAGATCGTCGGACTGTAGAACTC560270.16890393714061525Illumina DpnII expression Sequencing Primer (100% over 21bp)
TCAGTCCTCTGCTCTACCAACTGAGCTATCCTGACGATCGTCGGACTGTAG554050.16702880106512552No Hit
AATTCTCACAACGACAGGGTCTACTCGATAGATCGTCGGACTGTAGAACTC537590.16206662424799356Illumina DpnII expression Sequencing Primer (100% over 21bp)
TAGAATCAAGAAAGAGCTCTCAGTCTGTCAATCCTTGCTATGTGATCGTCG534550.16115015902781854No Hit
TGGCCTCGGGCGCAACTTGCGTTCAAAGACTCGATGGTTCACGGGATCGTC526020.15857862997252473No Hit
TGGTGCGCATCCGGGGAAACGAACCCCGGATCGTCGGACTGTAGAACTCTG481660.14520547300970738Illumina DpnII expression Sequencing Primer (100% over 23bp)
TCCGTTGCCGAGAGTCGTGTGGATCGTCGGACTGTAGAACTCTGAACGTGT480050.1447201082056015Illumina DpnII expression Sequencing Primer (96% over 30bp)
TATCCTAACCAGCTAGACTACAACGGAGATCGTCGGACTGTAGAACTCTGA468620.1412743195652723Illumina DpnII expression Sequencing Primer (100% over 24bp)
TGGAGCCGACTATCGGATTTGAACCGATGGATCGTCGGACTGTAGAACTCT448050.13507310588796947Illumina DpnII expression Sequencing Primer (100% over 22bp)
GTATCCTAACCAGCTAGACTACAACGGAGATCGTCGGACTGTAGAACTCTG422300.1273102837105Illumina DpnII expression Sequencing Primer (100% over 23bp)
AGTCCCGCCTGACCTGGGGTCGCGATCGTCGGACTGTAGAACTCTGAACGT415360.12521809008286353Illumina DpnII expression Sequencing Primer (96% over 28bp)
CTCACAACGACAGGGTCTACTCGATAGATCGTCGGACTGTAGAACTCTGAA413170.12455787336175059Illumina DpnII expression Sequencing Primer (100% over 25bp)
GTCCTCTGCTCTACCAACTGAGCTATCCTGACGATCGTCGGACTGTAGAAC408180.12305354393784484No Hit
CCGTTGCCGAGAGTCGTGTGGATCGTCGGACTGTAGAACTCTGAACGTGTA404260.12187178615393492Illumina DpnII expression Sequencing Primer (96% over 30bp)
ACGAATCCGTGCGACGCGGGGCTGGATCTGATCGTCGGACTGTAGAACTCT394600.11895959732929975Illumina DpnII expression Sequencing Primer (100% over 22bp)
ACGAATCCGTGCGACGCGGGGCTGGATCTCAGTGGATCGTGGCAGATCGTC382770.11539322116000017No Hit
GAGATATCCGTTGCCGAGAGTCGTGTGGATCGTCGGACTGTAGAACTCTGA375750.11327691002656966Illumina DpnII expression Sequencing Primer (100% over 24bp)
ATTCTCACAACGACAGGGTCTACTCGATAGATCGTCGGACTGTAGAACTCT360920.10880612738999207Illumina DpnII expression Sequencing Primer (100% over 22bp)
GGCTGCGCCGACGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG360260.1086071579671909Illumina RNA PCR Primer (100% over 34bp)
TAGAATCAAGAAAGAGCTCTCAGTCTGTCAATCCTTGCTATGTCGATCGTC359790.10846546762065068No Hit
ACGAATCCGTGCGACGCGGGGCTGGATCTCAGTGGATCGTGGCAGGATCGT352480.10626173052871662No Hit
GTTCAAATCGTTCGTTCGTTAGGATGCCTCAGGATCGTCGGACTGTAGAAC346310.1044016678943482No Hit
AGGCGGGAATACTCACCACTATACTACAACGACGATCGTCGGACTGTAGAA342950.10338873265099684No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GCCGTAA118950.044.26130745
GCCGTAT2473500.044.13848545
GTGCGCA116450.043.6323853
TGGAGCC109800.043.5927851
GTGCACC141800.043.592013
GGTGCGC116900.043.5069922
GGTGCAC142400.043.4440042
GTAACTG234350.043.36665717
GTGACGC252700.043.241223
TAGTAAC242900.043.14622515
CGTGACG256300.043.041742
TGACGCC255250.042.9930654
ATTAGTA258800.042.9296813
TTAGTAA253150.042.9012714
GCGTGAC257250.042.8401531
CTGGATG362550.042.76467522
AATCGTT473000.042.6872066
TGGTGCG136800.042.510091
CGTTAGG371550.042.4675717
AGCCGGG135450.042.44071610
Produced by FastQC (version 0.11.2)