FastQCFastQC Report
Thu 27 Oct 2016
H3NFYBCXY_l01n01_smallrna_ctrl1h_rep1_shoot.3510000006c010.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NFYBCXY_l01n01_smallrna_ctrl1h_rep1_shoot.3510000006c010.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences29254386
Sequences flagged as poor quality0
Sequence length51
%GC54

[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
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCTCGTATGCC394013313.468520583546004RNA PCR Primer, Index 7 (100% over 51bp)
TCGGACCAGGCTTCATTCCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT3936001.3454392787460998RNA PCR Primer, Index 1 (100% over 30bp)
CCGGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCT2082180.7117496843037485RNA PCR Primer, Index 7 (100% over 43bp)
TCTCGGACCAGGCTTCATTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT1968260.6728085149351622RNA PCR Primer, Index 1 (100% over 30bp)
TCCGTTGTAGTCTAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA1728750.5909370307754879RNA PCR Primer, Index 7 (100% over 35bp)
TAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA1619020.5534281252732497RNA PCR Primer, Index 7 (100% over 35bp)
ATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAAC1568220.5360632077528478RNA PCR Primer, Index 1 (100% over 24bp)
GTCGGCGCAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATC1398130.4779214986771556RNA PCR Primer, Index 7 (100% over 39bp)
CACACGACTCTCGGCAACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA1331660.45520011939406285RNA PCR Primer, Index 1 (100% over 32bp)
GCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAG1305760.4463467460913383RNA PCR Primer, Index 1 (100% over 29bp)
CCCAGGTCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATC1290470.44112017938096537RNA PCR Primer, Index 7 (100% over 39bp)
AGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCA1254370.4287801494107585RNA PCR Primer, Index 1 (100% over 28bp)
GTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTCT1233850.4217658165855882No Hit
CTCGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCT1214810.415257390806288RNA PCR Primer, Index 7 (100% over 43bp)
CAGTTACTAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCA935490.3197776907708813RNA PCR Primer, Index 1 (100% over 28bp)
CCGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCTC905830.30963904010837895RNA PCR Primer, Index 7 (100% over 44bp)
TCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACT891610.3047782305190066RNA PCR Primer, Index 1 (100% over 25bp)
AGGGCTATAGCTCAGTTCGGTAGAGCAACTCGTTTACACCGAGATGGAATT851610.29110506711711537No Hit
TCATGTGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCA813820.2781873459931786RNA PCR Primer, Index 7 (100% over 40bp)
CAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCC809810.276816611362139RNA PCR Primer, Index 1 (100% over 27bp)
TCCACAGGCTTTCTTGAACTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT787560.26921091421983695RNA PCR Primer, Index 1 (100% over 30bp)
CGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTC724350.24760389775399833No Hit
CCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTC713960.24405229356035707RNA PCR Primer, Index 1 (100% over 26bp)
CACACGACTCTCGGCAACGGATATCTGGAATTCTCGGGTGCCAAGGAACTC711080.2430678257954209RNA PCR Primer, Index 1 (100% over 26bp)
TCTGTTGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCA668360.22846488728220102RNA PCR Primer, Index 7 (100% over 40bp)
TTCGGACCAGGCTTCATTCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT658150.2249748123238683RNA PCR Primer, Index 1 (100% over 30bp)
TCGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCAT620030.2119442876018659RNA PCR Primer, Index 7 (100% over 41bp)
CACACGACTCTCGGCAACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC616140.210614572461032RNA PCR Primer, Index 1 (100% over 33bp)
TTGACAGAAGAGAGTGAGCACTGGAATTCTCGGGTGCCAAGGAACTCCAGT605230.20688521714316618RNA PCR Primer, Index 1 (100% over 30bp)
CCGGGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCT599670.20498464743030329RNA PCR Primer, Index 7 (100% over 43bp)
GATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAA592690.20259868041667323RNA PCR Primer, Index 1 (100% over 23bp)
GTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTTGGAATTCTCGGGTGCCA590490.20184665642956923No Hit
GGTAGTTCGACCGTGGAATTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC557390.1905321137145042RNA PCR Primer, Index 1 (100% over 31bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGATGGAATTCTCGGGTGC532250.18193853051641556No Hit
CGGGGTTCGTTTCCCCGGATGCGCACCATGGAATTCTCGGGTGCCAAGGAA528640.18070452751939486RNA PCR Primer, Index 1 (100% over 23bp)
CGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATC512760.17527628164884404RNA PCR Primer, Index 7 (100% over 42bp)
TATCGAGTAGACCCTGTCGTTGTGAGATGGAATTCTCGGGTGCCAAGGAAC493940.16884305826825421RNA PCR Primer, Index 1 (100% over 24bp)
CCAGGTCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCA467750.1598905545308659RNA PCR Primer, Index 7 (100% over 40bp)
CCGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC466550.15948035962880916RNA PCR Primer, Index 2 (100% over 34bp)
CTGGGCGTCACGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGAT449990.15381966998042618RNA PCR Primer, Index 7 (100% over 38bp)
GCTCGGGGGTCCCGGCCCCGAACCCGTCGGCTGGAATTCTCGGGTGCCAAG447420.15294116923185466No Hit
TCCCCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATC444740.15202506728392795RNA PCR Primer, Index 7 (100% over 42bp)
TCGCTTGGTGCAGATCGGGACTGGAATTCTCGGGTGCCAAGGAACTCCAGT390800.13358680643647758RNA PCR Primer, Index 1 (100% over 30bp)
GGCGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCT389450.13312533717166375RNA PCR Primer, Index 7 (100% over 43bp)
CCCCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCT374660.12806968500381447RNA PCR Primer, Index 7 (100% over 43bp)
CCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATT371250.12690404782380324No Hit
CACACGACTCTCGGCAACGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT368860.12608707631054022RNA PCR Primer, Index 1 (100% over 30bp)
CCCCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATC357350.12215262354164604RNA PCR Primer, Index 7 (100% over 39bp)
CCCCCGGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCA344900.11789685143280737RNA PCR Primer, Index 7 (100% over 40bp)
TATCGAGTAGACCCTGTCGTTGTGAGAATTTGGAATTCTCGGGTGCCAAGG342490.11707304333784344Illumina Small RNA Adapter 2 (100% over 21bp)
GCGCCGGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCA341180.1166252472364315RNA PCR Primer, Index 7 (100% over 40bp)
GCGACCCCAGGTCAGGCGGGACTTGGAATTCTCGGGTGCCAAGGAACTCCA339060.11590056957613126RNA PCR Primer, Index 1 (100% over 28bp)
CCGACCTGCTCGACCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA309530.10580635669468502RNA PCR Primer, Index 7 (100% over 35bp)
ACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATGGAATTC306950.10492443765526303No Hit
CCCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCTC305390.10439118428258928RNA PCR Primer, Index 7 (100% over 44bp)
CACACGACTCTCGGCAACGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTC295630.10105493241252782RNA PCR Primer, Index 1 (100% over 31bp)
CACGACTCTCGGCAACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC293590.10035760107903137RNA PCR Primer, Index 2 (100% over 34bp)

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CACACGA590200.043.915571
CGTTTAC103450.043.9085831
TATCGAG262600.043.8921051
TAGCTCA376350.043.8528338
GCGTCCC11150.043.7839627
TCCGTTG358600.043.746181
AGCTCAG329100.043.736769
GCTCAGT269000.043.6815410
TCGAGTA261950.043.6561363
GTATGCC4305250.043.6378845
CTCAGTT249700.043.4719411
AGGGCTA125550.043.4551351
AGTATTC101600.043.44657521
TTCGGTA110450.043.4264116
TAGACCC262700.043.376018
TACACCG101100.043.37155535
CACAGGC113400.043.369133
TCGACCG91050.043.2155537
TTCCCGC101450.043.156825
CACCGAG101250.043.04117637
Produced by FastQC (version 0.11.2)