FastQCFastQC Report
Thu 27 Oct 2016
H3NFYBCXY_l01n01_smallrna_ctrl025h_rep2_shoot.3510000006bfde.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NFYBCXY_l01n01_smallrna_ctrl025h_rep2_shoot.3510000006bfde.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences24007671
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

[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
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGATCTCGTATGCC946457639.42313271453945RNA PCR Primer, Index 5 (100% over 51bp)
TCGGACCAGGCTTCATTCCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT3908911.6281920891035202RNA PCR Primer, Index 1 (100% over 30bp)
CCGGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGATCT2556661.0649346202719956RNA PCR Primer, Index 5 (100% over 43bp)
GTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTCT2022440.8424140767340571No Hit
CAGTTACTAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCA1618750.6742636551458907RNA PCR Primer, Index 1 (100% over 28bp)
CGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTC1129070.4702955151293101No Hit
CCCAGGTCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTG1071780.4464323090732125RNA PCR Primer, Index 5 (100% over 39bp)
TCTCGGACCAGGCTTCATTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT1027260.42788823622249733RNA PCR Primer, Index 1 (100% over 30bp)
AGGGCTATAGCTCAGTTCGGTAGAGCAACTCGTTTACACCGAGATGGAATT1007870.41981165103437146No Hit
GGTAGTTCGACCGTGGAATTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC990930.4127555729999799RNA PCR Primer, Index 1 (100% over 31bp)
GCGCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTG982240.40913589660571403RNA PCR Primer, Index 5 (100% over 39bp)
TTGACAGAAGAGAGTGAGCACTGGAATTCTCGGGTGCCAAGGAACTCCAGT827310.3446023564718127RNA PCR Primer, Index 1 (100% over 30bp)
TAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC799470.33300606293713375RNA PCR Primer, Index 5 (100% over 35bp)
GCGCCGGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGA787140.32787020448589116RNA PCR Primer, Index 5 (100% over 40bp)
GCTCGGGGGTCCCGGCCCCGAACCCGTCGGCTGGAATTCTCGGGTGCCAAG730280.3041861078486122No Hit
GTCGGCGCAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTG724380.3017285600090071RNA PCR Primer, Index 5 (100% over 39bp)
TATCGAGTAGACCCTGTCGTTGTGAGATGGAATTCTCGGGTGCCAAGGAAC703050.2928438997685365RNA PCR Primer, Index 1 (100% over 24bp)
TCCGTTGTAGTCTAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC683880.28485895195748057RNA PCR Primer, Index 5 (100% over 35bp)
CCGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACA671130.27954814942274075RNA PCR Primer, Index 1 (100% over 34bp)
CCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATT520050.21661826338756474No Hit
TTCGGACCAGGCTTCATTCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT514070.21412739286538873RNA PCR Primer, Index 1 (100% over 30bp)
GGCGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGATCT486960.20283516880916938RNA PCR Primer, Index 5 (100% over 43bp)
GCCGGCGGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTG474230.19753269694507228RNA PCR Primer, Index 5 (100% over 39bp)
CCCCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTG466950.19450033283111887RNA PCR Primer, Index 5 (100% over 39bp)
GGGCGGCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGA454930.18949359977483862RNA PCR Primer, Index 5 (100% over 40bp)
CCGGGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGATCT452920.18865636737524435RNA PCR Primer, Index 5 (100% over 43bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTTGGAATTCTCGGGTGCCAAGGA452180.18834813256146338RNA PCR Primer, Index 1 (100% over 22bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCTGGAATTCTCGGGTGCCAA447740.18649872367877748No Hit
ATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAAC441310.1838204130671401RNA PCR Primer, Index 1 (100% over 24bp)
CCCCCGGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGA440720.18357465828317956RNA PCR Primer, Index 5 (100% over 40bp)
NGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGATCTCGTATGCC408500.1701539478777429RNA PCR Primer, Index 5 (98% over 51bp)
CGTTATTTTACTTATTCCGTGAGTCGGAAGCGGGGCCTGGAATTCTCGGGT402060.16747147193078413No Hit
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTTGGAATTCTCGGGTGCCA387410.16136925568498503No Hit
CGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGATC385350.16051119660878393RNA PCR Primer, Index 5 (100% over 42bp)
TCGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGAT379420.15804115276321473RNA PCR Primer, Index 5 (100% over 41bp)
TATCGAGTAGACCCTGTCGTTGTGAGAATTTGGAATTCTCGGGTGCCAAGG372670.15522955142129363Illumina Small RNA Adapter 2 (100% over 21bp)
GTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTTGGAATTCTCGGGTGCCA362880.1511516881416777No Hit
GCGGCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGATC362820.15112669612974952RNA PCR Primer, Index 5 (100% over 42bp)
GGGGGACGGACCGGGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACAC356050.1483067641171857RNA PCR Primer, Index 5 (100% over 35bp)
GGCGGCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGAT354980.1478610732377997RNA PCR Primer, Index 5 (100% over 41bp)
TCCACAGGCTTTCTTGAACTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT350230.14588253896015152RNA PCR Primer, Index 1 (100% over 30bp)
TCATGTGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGA348340.14509529058441362RNA PCR Primer, Index 5 (100% over 40bp)
GCTGGTCCGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGA340190.14170054229750148RNA PCR Primer, Index 5 (100% over 40bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGACCTCGTATGCC340090.14165888894428783RNA PCR Primer, Index 5 (98% over 51bp)
CCCCGGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGAT338290.14090912858644222RNA PCR Primer, Index 5 (100% over 41bp)
GCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAG333790.13903472769182815RNA PCR Primer, Index 1 (100% over 29bp)
TCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACT323390.13470277895760902RNA PCR Primer, Index 1 (100% over 25bp)
CCCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGA321940.13409880533601115RNA PCR Primer, Index 5 (100% over 40bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGGAATTCTCGGGTGCCAA311600.12979184861372017No Hit
GCCCCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGT308550.12852142134070396RNA PCR Primer, Index 5 (100% over 38bp)
TGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGATCTCGTATGCCG305880.12740927680989964RNA PCR Primer, Index 5 (98% over 51bp)
GGCGGATGTAGCCAAGTGGATCAAGGCAGTGGATTGTGAATCTGGAATTCT293560.12227758369397848No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTTGGAATTCTCGGGTGCC285620.11897030744881501No Hit
CCGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGATCTC285190.11879119802999633RNA PCR Primer, Index 5 (100% over 44bp)
TATCGAGTAGACCCTGTCGTTGTGAGTGGAATTCTCGGGTGCCAAGGAACT279070.11624201281332121RNA PCR Primer, Index 1 (100% over 25bp)
CCGGGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGATC275010.11455088667284719RNA PCR Primer, Index 5 (100% over 42bp)
ACCGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC274970.11453422533156174RNA PCR Primer, Index 1 (100% over 33bp)
CTGCCACGATCCACTGAGATCCAGCCCCGCGTCGCACGGATTCGTTGGAAT267020.1112227837510769No Hit
TCCGTTGTAGTCTAGCTGGTTAGGATACTCTGGAATTCTCGGGTGCCAAGG266100.11083957290151135Illumina Small RNA Adapter 2 (100% over 21bp)
TGCCACGATCCACTGAGATCCAGCCCCGCGTCGCACGGATTCGTTGGAATT265420.11055633009965857No Hit
TATCGAGTAGACCCTGTCGTTGTGAGAATTGGAATTCTCGGGTGCCAAGGA264650.1102355992799135RNA PCR Primer, Index 1 (100% over 22bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTGGAATTCTCGGGTGCCAAGGAA264340.11010647388495119RNA PCR Primer, Index 1 (100% over 23bp)
AGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCA264080.1099981751665957RNA PCR Primer, Index 1 (100% over 28bp)
TGACAGAAGAGAGTGAGCACTGGAATTCTCGGGTGCCAAGGAACTCCAGTC259120.10793216884719889RNA PCR Primer, Index 1 (100% over 31bp)
TCGCTTGGTGCAGATCGGGACTGGAATTCTCGGGTGCCAAGGAACTCCAGT255070.10624520804204624RNA PCR Primer, Index 1 (100% over 30bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGGAATTCTCGGGTGCCA254920.10618272801222577No Hit
GCGTTTGTAGTCCAACGGTTAGGATAATTGCCTGGAATTCTCGGGTGCCAA254160.10586616252780205No Hit
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGATGGAATTCTCGGGTGC252750.10527885024748963No Hit
CTCGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGATCT251670.10482899403278227RNA PCR Primer, Index 5 (100% over 43bp)
GCGGCGACGGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAG250930.1045207592190013RNA PCR Primer, Index 5 (100% over 37bp)
GGTAGTTCGACCGTGGAATTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA248030.10331281197580557RNA PCR Primer, Index 1 (100% over 32bp)
ATATCGGGTAGGTTGTGGTATTTCATTGCTACAATGGAATTCTCGGGTGCC245210.10213818741518076No Hit
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACACAGTGATATCGTATGCC241740.10069281605866724RNA PCR Primer, Index 5 (98% over 51bp)

[WARN]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CGACCGT151000.044.4730458
CGTTTAC116600.044.41678231
TTCGACC151400.044.385456
TCGACCG151600.044.3712277
TCAGAGC103100.044.31796620
TCGTTTA117100.044.24633830
GTTTACA117250.044.18918232
TATCGAG293450.044.172321
GGTAGTT152500.044.166361
AGGGCTA135750.044.1567271
GCTCAGT280100.044.10296610
CTCAGTT264450.044.08423611
AGCTCAG327250.044.059559
TACACCG114100.043.9901235
CAGAGCA103100.043.9709421
GTTCGAC152750.043.9649965
TTCGGTA126900.043.9485316
TTACACC116850.043.9367734
GGTCAGA104100.043.9355518
CTATAGC136350.043.906995
Produced by FastQC (version 0.11.2)