FastQCFastQC Report
Thu 27 Oct 2016
H3NFYBCXY_l01n01_smallrna_salt24h_rep1_shoot.3510000006bf8e.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NFYBCXY_l01n01_smallrna_salt24h_rep1_shoot.3510000006bf8e.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences36396323
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
TCGGACCAGGCTTCATTCCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT10577152.906104003967654RNA PCR Primer, Index 1 (100% over 30bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTATCTCGTATGCC4496371.2353912783991945RNA PCR Primer, Index 2 (100% over 51bp)
GTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTTGGAATTCTCGGGTGCCA3275560.8999700326870931No Hit
CAGTTACTAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCA3020040.8297651386377685RNA PCR Primer, Index 1 (100% over 28bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTTGGAATTCTCGGGTGCC2941090.8080733869737335No Hit
TCTCGGACCAGGCTTCATTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT2939400.8076090543541995RNA PCR Primer, Index 1 (100% over 30bp)
TAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCG2240030.6154550282455731RNA PCR Primer, Index 2 (100% over 35bp)
AGGGCTATAGCTCAGTTCGGTAGAGCAACTCGTTTACACCGAGATGGAATT2097990.576429107962362No Hit
ATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAAC1596700.4386981618994864RNA PCR Primer, Index 1 (100% over 24bp)
GCGAGCGTAGTTCAATGGTAAAACATCTCCTTGGAATTCTCGGGTGCCAAG1577170.4333322352370595No Hit
TCCACAGGCTTTCTTGAACTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT1465180.4025626434846179RNA PCR Primer, Index 1 (100% over 30bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCTGGAATTCTCGGGTGCCAA1272630.3496589476909522No Hit
TCCGTTGTAGTCTAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCG1256820.345315102297559RNA PCR Primer, Index 2 (100% over 35bp)
TTCGGACCAGGCTTCATTCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT1130480.31060280457451706RNA PCR Primer, Index 1 (100% over 30bp)
AGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCA1100620.30239867911931656RNA PCR Primer, Index 1 (100% over 28bp)
GTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGGAATTCTCGGGTGCCAA1096860.3013656077291105No Hit
GCGTTTGTAGTCCAACGGTTAGGATAATTGCCTGGAATTCTCGGGTGCCAA1044260.28691359838739755No Hit
GTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTCT992770.2727665649082189No Hit
TCCATTGTCGTCTAGTCCGGTTAGGATACCTGGCTTGGAATTCTCGGGTGC984860.27059326844637577No Hit
GCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAG961920.26429043395400137RNA PCR Primer, Index 1 (100% over 29bp)
GCTGGTCCGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTA892750.24528576691661957RNA PCR Primer, Index 2 (100% over 40bp)
TCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACT863600.23727671611222925RNA PCR Primer, Index 1 (100% over 25bp)
CACACGACTCTCGGCAACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA842800.2315618531025785RNA PCR Primer, Index 1 (100% over 32bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTTGGAATTCTCGGGTGCCA766100.21048829575449146No Hit
CGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTATC759900.20878482697276865RNA PCR Primer, Index 2 (100% over 42bp)
CGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCG734760.20187753581591195RNA PCR Primer, Index 2 (100% over 35bp)
GGTAGTTCGACCGTGGAATTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC719840.19777822061860478RNA PCR Primer, Index 1 (100% over 31bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGGAATTCTCGGGTGCCAA688230.18909327736211154No Hit
CGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTC687490.18888996012042206No Hit
TCGCTTGGTGCAGATCGGGACTGGAATTCTCGGGTGCCAAGGAACTCCAGT680550.18698317409700976RNA PCR Primer, Index 1 (100% over 30bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTTGGAATTCTCGGGTGCCAAGGA680230.1868952531276305RNA PCR Primer, Index 1 (100% over 22bp)
TTGACAGAAGAGAGTGAGCACTGGAATTCTCGGGTGCCAAGGAACTCCAGT668780.1837493309420295RNA PCR Primer, Index 1 (100% over 30bp)
CTGGGCGTCACGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATG649820.1785400135063094RNA PCR Primer, Index 2 (100% over 38bp)
CCGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC644760.17714976317800016RNA PCR Primer, Index 2 (100% over 34bp)
CAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCC637970.17528419010898436RNA PCR Primer, Index 1 (100% over 27bp)
GGCGGATGTAGCCAAGTGGATCAAGGCAGTGGAATTCTCGGGTGCCAAGGA635010.17447092114222637RNA PCR Primer, Index 1 (100% over 22bp)
CCCCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGT614530.1688439791019549RNA PCR Primer, Index 2 (100% over 39bp)
CGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTA596750.16395887024082076RNA PCR Primer, Index 2 (100% over 40bp)
GATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAA579250.15915069222789346RNA PCR Primer, Index 1 (100% over 23bp)
GGCGGATGTAGCCAAGTGGATCAAGGCAGTGGATTGTGAATCTGGAATTCT565540.15538382819605157No Hit
CACACGACTCTCGGCAACGGATATCTGGAATTCTCGGGTGCCAAGGAACTC558260.1533836261426738RNA PCR Primer, Index 1 (100% over 26bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTGGAATTCTCGGGTGCCAAGGAA530460.14574549192785216RNA PCR Primer, Index 1 (100% over 23bp)
CCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTC526680.14470692547705988RNA PCR Primer, Index 1 (100% over 26bp)
TCCGTTGTAGTCTAGCTGGTTAGGATATGGAATTCTCGGGTGCCAAGGAAC524130.14400630525231903RNA PCR Primer, Index 1 (100% over 24bp)
GGGTGTTTGGTCTAGTGGTATGATTCTCGCTTGGAATTCTCGGGTGCCAAG517980.14231657412206172No Hit
CCCGGCCCCGAACCCGTCGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAG517730.1422478858647342RNA PCR Primer, Index 1 (100% over 29bp)
GGGCCGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTAT516960.1420363260321654RNA PCR Primer, Index 2 (100% over 41bp)
AGGGCTATAGCTCAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCG516100.14180003842695868RNA PCR Primer, Index 2 (100% over 35bp)
CACCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCG514810.1414456070191486RNA PCR Primer, Index 2 (100% over 35bp)
GCCTTGATGGTGAAATGGTAGACACGCGAGACTCAAAATCTTGGAATTCTC512500.1408109275214422No Hit
CGGGGTTCGTTTCCCCGGATGCGCACCATGGAATTCTCGGGTGCCAAGGAA512340.1407669670367526RNA PCR Primer, Index 1 (100% over 23bp)
CCGGGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTATCT506740.13922835007261586RNA PCR Primer, Index 2 (100% over 43bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGGAATTCTCGGGTGCCA502340.13801943674365127No Hit
TATTCTGGTGTCCTAGGCGTATGGAATTCTCGGGTGCCAAGGAACTCCAGT493680.13564007550982554RNA PCR Primer, Index 1 (100% over 30bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTGTTGGAATTCTCGGGTG488720.1342773004844473No Hit
GGGGACGTAGCTCATATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCG484550.13313158035222405RNA PCR Primer, Index 2 (100% over 35bp)
CACACGACTCTCGGCAACGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT484310.1330656396251896RNA PCR Primer, Index 1 (100% over 30bp)
GTGGTCGTGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTA473340.13005159889365747RNA PCR Primer, Index 2 (100% over 40bp)
AGAAGAGAGAGAGTACAGCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGT466650.12821350112757268RNA PCR Primer, Index 1 (100% over 30bp)
ACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATGGAATTC459940.1263699083009017No Hit
TGTCGTGCCAATCCAACATAAGCCTTGGAATTCTCGGGTGCCAAGGAACTC445180.12231455358828416RNA PCR Primer, Index 1 (100% over 26bp)
GCGACCCCAGGTCAGGCGGGACTTGGAATTCTCGGGTGCCAAGGAACTCCA443810.1219381419381293RNA PCR Primer, Index 1 (100% over 28bp)
AGTTACTAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG441580.12132544268276771RNA PCR Primer, Index 1 (100% over 29bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGATGGAATTCTCGGGTGC428430.11771244034733948No Hit
TGCCACGATCCACTGAGATCCAGCCCCGCGTCGCACGGATTCGTTGGAATT416270.11437144351092829No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGGAATTCTCGGGTGCCA415150.11406372011810095No Hit
GCGAGCGTAGTTCAATGGTAAAACATCTCCTTGCCAAGGATGGAATTCTCG414150.11378896708879081No Hit
GCCGAGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTATC412820.11342354555980833RNA PCR Primer, Index 2 (100% over 42bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTCTGGAATTCTCGGGTGCCAAGG400560.11005507342046614Illumina Small RNA Adapter 2 (100% over 21bp)
CCTGGGCGTCACGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGAT400130.10993692961786276RNA PCR Primer, Index 2 (100% over 37bp)
TATCGAGTAGACCCTGTCGTTGTGAGATGGAATTCTCGGGTGCCAAGGAAC398280.10942863651363904RNA PCR Primer, Index 1 (100% over 24bp)
TCATGTGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTA392880.10794497015536432RNA PCR Primer, Index 2 (100% over 40bp)
GGGGATGTAGCTCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCG375560.10318624768771284RNA PCR Primer, Index 2 (100% over 35bp)

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CACACGA513700.044.3510861
AGTATTC486950.044.1974121
AGCGTAG332600.044.191394
CGTTTAC264900.044.14649231
GAGCGTA332850.044.110883
AGGGCTA359200.044.0942041
TAGCTCA1082000.044.0735138
AGCTCAG923000.044.0687039
TTCGGTA299050.043.9943116
TATTCCC488500.043.98887623
GCTCAGT735550.043.97029510
CTATAGC356550.043.961515
TAGTATA498650.043.956948
CTCAGTT655600.043.8830911
TATAGTG496400.043.8754911
AGTATAG496850.043.858399
GTATTCC491250.043.78306622
TCGAGTA218150.043.7587663
CACAGGC188350.043.7540783
TACACCG254950.043.75154535
Produced by FastQC (version 0.11.2)