FastQCFastQC Report
Thu 27 Oct 2016
H3NFYBCXY_l02n01_smallrna_drought_1h_rep1_shoot.3510000006c03a.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NFYBCXY_l02n01_smallrna_drought_1h_rep1_shoot.3510000006c03a.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences30451542
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
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCTCGTATGCC22836387.499252418810187RNA PCR Primer, Index 11 (100% over 51bp)
TCGGACCAGGCTTCATTCCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT10823833.5544439752837476RNA PCR Primer, Index 1 (100% over 30bp)
CAGTTACTAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCA2637050.8659824188870304RNA PCR Primer, Index 1 (100% over 28bp)
TAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGG2513270.8253342310218641RNA PCR Primer, Index 2 (97% over 35bp)
ATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAAC1970170.6469852988068716RNA PCR Primer, Index 1 (100% over 24bp)
TCTCGGACCAGGCTTCATTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT1737330.5705228326368497RNA PCR Primer, Index 1 (100% over 30bp)
AGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCA1523260.5002242579374141RNA PCR Primer, Index 1 (100% over 28bp)
TCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACT1476780.4849606630757812RNA PCR Primer, Index 1 (100% over 25bp)
TCCGTTGTAGTCTAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGG1330040.43677262714643483RNA PCR Primer, Index 2 (97% over 35bp)
GCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAG1154020.378969314591688RNA PCR Primer, Index 1 (100% over 29bp)
TTCGGACCAGGCTTCATTCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT1052450.3456146818443545RNA PCR Primer, Index 1 (100% over 30bp)
CAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCC1035750.34013055890568694RNA PCR Primer, Index 1 (100% over 27bp)
AGGGCTATAGCTCAGTTCGGTAGAGCAACTCGTTTACACCGAGATGGAATT978470.3213203456166522No Hit
GGTAGTTCGACCGTGGAATTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC969280.3183024360474094RNA PCR Primer, Index 1 (100% over 31bp)
TATCGAGTAGACCCTGTCGTTGTGAGATGGAATTCTCGGGTGCCAAGGAAC953430.3130974451146021RNA PCR Primer, Index 1 (100% over 24bp)
CACACGACTCTCGGCAACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA928350.3048614089887468RNA PCR Primer, Index 1 (100% over 32bp)
CCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTC923260.3031899008595361RNA PCR Primer, Index 1 (100% over 26bp)
TCCACAGGCTTTCTTGAACTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT879070.2886783204607504RNA PCR Primer, Index 1 (100% over 30bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTTGGAATTCTCGGGTGCCAAGGA817940.2686038033804659RNA PCR Primer, Index 1 (100% over 22bp)
GATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAA801050.26305728622872365RNA PCR Primer, Index 1 (100% over 23bp)
CTGGGCGTCACGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTA779260.25590165516084534RNA PCR Primer, Index 11 (100% over 38bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGATGGAATTCTCGGGTGC724430.23789599882987866No Hit
CACACGACTCTCGGCAACGGATATCTGGAATTCTCGGGTGCCAAGGAACTC697430.22902945276137412RNA PCR Primer, Index 1 (100% over 26bp)
TATCGAGTAGACCCTGTCGTTGTGAGAATTTGGAATTCTCGGGTGCCAAGG648080.21282337689171865Illumina Small RNA Adapter 2 (100% over 21bp)
TTGACAGAAGAGAGTGAGCACTGGAATTCTCGGGTGCCAAGGAACTCCAGT638910.2098120351343784RNA PCR Primer, Index 1 (100% over 30bp)
CCGGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCT627370.20602240766658056RNA PCR Primer, Index 11 (100% over 43bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTGGAATTCTCGGGTGCCAAGGAA595860.19567482001404068RNA PCR Primer, Index 1 (100% over 23bp)
CGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGG574590.18868995205562988RNA PCR Primer, Index 2 (97% over 35bp)
GTCGGCGCAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTAC573030.1881776627272274RNA PCR Primer, Index 11 (100% over 39bp)
GCGACCCCAGGTCAGGCGGGACTTGGAATTCTCGGGTGCCAAGGAACTCCA542170.1780435289615219RNA PCR Primer, Index 1 (100% over 28bp)
GTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTTGGAATTCTCGGGTGCCA535860.17597138430625286No Hit
TCCGTTGTAGTCTAGCTGGTTAGGATATGGAATTCTCGGGTGCCAAGGAAC530020.17405358323069484RNA PCR Primer, Index 1 (100% over 24bp)
CACACGACTCTCGGCAACGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT525130.17244775322051015RNA PCR Primer, Index 1 (100% over 30bp)
AGGGCTATAGCTCAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGG521590.17128525051375065RNA PCR Primer, Index 2 (97% over 35bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTTGGAATTCTCGGGTGCCA515510.1692886356953615No Hit
CGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACA504440.16565335180727467RNA PCR Primer, Index 11 (100% over 40bp)
GTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTCT482350.15839920356085746No Hit
GCTGGTCCGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACA482070.1583072541942211RNA PCR Primer, Index 11 (100% over 40bp)
CCCAGGTCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTAC475110.1560216556521177RNA PCR Primer, Index 11 (100% over 39bp)
TATCGAGTAGACCCTGTCGTTGTGAGAATTGGAATTCTCGGGTGCCAAGGA456280.14983806074582365RNA PCR Primer, Index 1 (100% over 22bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGGAATTCTCGGGTGCCAA444050.14582184376738622No Hit
CACACGACTCTCGGCAACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC435180.14290901918858492RNA PCR Primer, Index 1 (100% over 33bp)
GCGCCGGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACA434900.14281706982194858RNA PCR Primer, Index 11 (100% over 40bp)
CCTGGGCGTCACGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCT431030.14154619821879627RNA PCR Primer, Index 11 (100% over 37bp)
TGAGGCATCCTAACGAACGAACGATTTGAACTGGAATTCTCGGGTGCCAAG404250.13275189808122032No Hit
GGCGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCT396530.1302167226868183RNA PCR Primer, Index 11 (100% over 43bp)
TCGTGACCCTGACCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCT391900.1286962742313673RNA PCR Primer, Index 11 (100% over 37bp)
CACACGACTCTCGGCAACGGATATCTTGGAATTCTCGGGTGCCAAGGAACT388710.12764870823290328RNA PCR Primer, Index 1 (100% over 25bp)
TATCGAGTAGACCCTGTCGTTGTGAGTGGAATTCTCGGGTGCCAAGGAACT387010.12709044422118262RNA PCR Primer, Index 1 (100% over 25bp)
AGATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGA384710.1263351458523841RNA PCR Primer, Index 1 (100% over 22bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCTGGAATTCTCGGGTGCCAA382900.12574075887519917No Hit
GAGGCATCCTAACGAACGAACGATTTGAACTGGAATTCTCGGGTGCCAAGG376610.12367518203183275Illumina Small RNA Adapter 2 (100% over 21bp)
CCGGGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACATCT371050.12184933032291106RNA PCR Primer, Index 11 (100% over 43bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTCTGGAATTCTCGGGTGCCAAGG368650.12106119289459956Illumina Small RNA Adapter 2 (100% over 21bp)
ATATCGGGTAGGTTGTGGTATTTCATTGCTACAATGGAATTCTCGGGTGCC364790.11979360519739854No Hit
GCATCCTAACGAACGAACGATTTGAACTGGAATTCTCGGGTGCCAAGGAAC357500.11739963775890233RNA PCR Primer, Index 1 (100% over 24bp)
GCGCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTAC352830.11586605367964618RNA PCR Primer, Index 11 (100% over 39bp)
AGTTACTAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG351790.11552452746071118RNA PCR Primer, Index 1 (100% over 29bp)
AGGCATCCTAACGAACGAACGATTTGAACTGGAATTCTCGGGTGCCAAGGA349270.11469698316098409RNA PCR Primer, Index 1 (100% over 22bp)
TCCACAGGCTTTCTTGAACTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC318680.10465151485596362RNA PCR Primer, Index 1 (100% over 31bp)
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGGAATTCTCGGGTGCCA317400.10423117489419748No Hit
CCGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG311140.10217544976868495RNA PCR Primer, Index 6 (100% over 34bp)
GCGTTTGTAGTCCAACGGTTAGGATAATTGCCTGGAATTCTCGGGTGCCAA310230.10187661432711684No Hit
GGGCGGCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACGGCTACA305250.10024122916337044RNA PCR Primer, Index 11 (100% over 40bp)

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CACACGA561900.044.2806321
TATCGAG473250.044.2463461
AGCTCAG607700.044.151729
TCCGTTG532800.044.0960041
TCCCCTG1173700.044.0831717
TCGAGTA474450.044.070993
TAGCTCA682750.044.0664188
GTCAGGA221500.044.045121
TAGACCC474900.043.8634228
TAGTTCA217650.043.8482868
AGCGTAG107800.043.8269424
AGTAGAC478150.043.7252586
GCCCCTA27600.043.7039341
GCTCAGT504100.043.67994310
CTATAGC209200.043.6728865
GTAGACC478800.043.6611257
CTCAGTT468350.043.66110611
ATTCCCC1187250.043.63776415
AGGGCTA211400.043.5956881
TTCCCCT1187450.043.58290516
Produced by FastQC (version 0.11.2)