FastQCFastQC Report
Thu 27 Oct 2016
H3NFYBCXY_l02n02_smallrna_drought_1h_rep1_shoot.3520000006c037.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NFYBCXY_l02n02_smallrna_drought_1h_rep1_shoot.3520000006c037.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences30451542
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
GATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTAT22704367.455898292441152Illumina RNA PCR Primer (100% over 46bp)
GGGGAATGAAGCCTGGTCCGAGATCGTCGGACTGTAGAACTCTGAACGTGT10921523.5865244525219775Illumina DpnII expression Sequencing Primer (96% over 30bp)
GCCAGATCATGAATTAGTAACTGGATCGTCGGACTGTAGAACTCTGAACGT2551310.8378262092606016Illumina DpnII expression Sequencing Primer (96% over 28bp)
GCCAGATCATGAATTAGATCGTCGGACTGTAGAACTCTGAACGTGTAGATC2522270.8282897463780324Illumina DpnII expression Sequencing Primer (96% over 30bp)
ACGAATCCGTGCGACGCGGGGCTGGATGATCGTCGGACTGTAGAACTCTGA1987910.6528109479644743Illumina DpnII expression Sequencing Primer (100% over 24bp)
GGAATGAAGCCTGGTCCGAGAGATCGTCGGACTGTAGAACTCTGAACGTGT1766260.5800231725539547Illumina DpnII expression Sequencing Primer (96% over 30bp)
ACGAATCCGTGCGACGCGGGGCTGATCGTCGGACTGTAGAACTCTGAACGT1551230.5094093428831946Illumina DpnII expression Sequencing Primer (96% over 28bp)
ACGAATCCGTGCGACGCGGGGCTGGAGATCGTCGGACTGTAGAACTCTGAA1496130.49131502109154274Illumina DpnII expression Sequencing Primer (100% over 25bp)
GCTAGACTACAACGGAGATCGTCGGACTGTAGAACTCTGAACGTGTAGATC1344460.4415080195282065Illumina DpnII expression Sequencing Primer (96% over 30bp)
GATCCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTA1127100.3701290397707939Illumina RNA PCR Primer (100% over 45bp)
ACGAATCCGTGCGACGCGGGGCGATCGTCGGACTGTAGAACTCTGAACGTG1120690.36802405605601185Illumina DpnII expression Sequencing Primer (96% over 29bp)
GGGAATGAAGCCTGGTCCGAAGATCGTCGGACTGTAGAACTCTGAACGTGT1066810.3503303707904184Illumina DpnII expression Sequencing Primer (96% over 30bp)
ACGAATCCGTGCGACGCGGGGCTGGATCGTCGGACTGTAGAACTCTGAACG1025500.3367645553056065Illumina DpnII expression Sequencing Primer (96% over 26bp)
GATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTAA1011000.3320028916762245Illumina RNA PCR Primer (97% over 45bp)
AATTCCACGGTCGAACTACCGATCGTCGGACTGTAGAACTCTGAACGTGTA974370.31997394417662Illumina DpnII expression Sequencing Primer (96% over 30bp)
TCTCGGTGTAAACGAGTTGCTCTACCGAACTGAGCTATAGCCCTGATCGTC953490.31311714855030987No Hit
TCTCACAACGACAGGGTCTACTCGATAGATCGTCGGACTGTAGAACTCTGA953340.3130678899610404Illumina DpnII expression Sequencing Primer (100% over 24bp)
ACGAATCCGTGCGACGCGGGGCTGGGATCGTCGGACTGTAGAACTCTGAAC927600.30461511604239944Illumina DpnII expression Sequencing Primer (100% over 26bp)
CGTTGCCGAGAGTCGTGTGGATCGTCGGACTGTAGAACTCTGAACGTGTAG894490.29374210343765184Illumina DpnII expression Sequencing Primer (96% over 30bp)
CAGTTCAAGAAAGCCTGTGGAGATCGTCGGACTGTAGAACTCTGAACGTGT857130.28147343080360265Illumina DpnII expression Sequencing Primer (96% over 30bp)
AGTATCCTAACCAGCTAGACTACAACGGAGATCGTCGGACTGTAGAACTCT783180.2571889462937542Illumina DpnII expression Sequencing Primer (100% over 22bp)
ACGAATCCGTGCGACGCGGGGCTGGATCGATCGTCGGACTGTAGAACTCTG781700.2567029282129621Illumina DpnII expression Sequencing Primer (100% over 23bp)
GCGTGACGCCCAGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCG776250.2549131994695047Illumina RNA PCR Primer (100% over 33bp)
GATATCCGTTGCCGAGAGTCGTGTGGATCGTCGGACTGTAGAACTCTGAAC682000.22396238587852135Illumina DpnII expression Sequencing Primer (100% over 26bp)
TCAGTCCTCTGCTCTACCAACTGAGCTATCCTGACGATCGTCGGACTGTAG673800.22126958299845703No Hit
GCCCCCGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGT661390.21719425571289624Illumina RNA PCR Primer (100% over 38bp)
AATTCTCACAACGACAGGGTCTACTCGATAGATCGTCGGACTGTAGAACTC644750.21172983620993646Illumina DpnII expression Sequencing Primer (100% over 21bp)
GTGCTCACTCTCTTCTGTCAAGATCGTCGGACTGTAGAACTCTGAACGTGT624350.20503066806928857Illumina DpnII expression Sequencing Primer (96% over 30bp)
ACGAATCCGTGCGACGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATC586200.19250256686508682Illumina DpnII expression Sequencing Primer (96% over 30bp)
GGCTGCGCCGACGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG584090.19180966270936295Illumina RNA PCR Primer (100% over 34bp)
GTATCCTAACCAGCTAGACTACAACGGAGATCGTCGGACTGTAGAACTCTG573290.18826304428196117Illumina DpnII expression Sequencing Primer (100% over 23bp)
AGGCGGGAATACTCACCACTATACTACAACGACGATCGTCGGACTGTAGAA530420.17418493946874677No Hit
TATCCTAACCAGCTAGACTACAACGGAGATCGTCGGACTGTAGAACTCTGA530070.17407000276045134Illumina DpnII expression Sequencing Primer (100% over 24bp)
ACTGAGCTATAGCCCTGATCGTCGGACTGTAGAACTCTGAACGTGTAGATC523950.17206025231825697Illumina DpnII expression Sequencing Primer (96% over 30bp)
AGTCCCGCCTGACCTGGGGTCGCGATCGTCGGACTGTAGAACTCTGAACGT510360.16759742413044304Illumina DpnII expression Sequencing Primer (96% over 28bp)
AGTCCTCTGCTCTACCAACTGAGCTATCCTGACGATCGTCGGACTGTAGAA507340.16660568453315108No Hit
TCCGTTGCCGAGAGTCGTGTGGATCGTCGGACTGTAGAACTCTGAACGTGT494180.16228406430124293Illumina DpnII expression Sequencing Primer (96% over 30bp)
CCACGGGAACGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGT493740.16213957243938584Illumina RNA PCR Primer (100% over 35bp)
GCCTGACCTGGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG485720.15950587986644485Illumina RNA PCR Primer (100% over 34bp)
TGGCCTCGGGCGCAACTTGCGTTCAAAGACTCGATGGTTCACGATCGTCGG472660.1552170986940497No Hit
ATTCTCACAACGACAGGGTCTACTCGATAGATCGTCGGACTGTAGAACTCT437690.14373327958236073Illumina DpnII expression Sequencing Primer (100% over 22bp)
GTCCTCTGCTCTACCAACTGAGCTATCCTGACGATCGTCGGACTGTAGAAC436470.1433326430563024No Hit
GTTGCCGAGAGTCGTGTGGATCGTCGGACTGTAGAACTCTGAACGTGTAGA434950.1428334893517051Illumina DpnII expression Sequencing Primer (96% over 30bp)
GCGTGACGCCCAGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTC434050.14253793781608826Illumina RNA PCR Primer (100% over 32bp)
GCCGCCGGCGCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGT433380.1423179161173513Illumina RNA PCR Primer (100% over 35bp)
GCCGCGCCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGT418190.13732966297732968Illumina RNA PCR Primer (100% over 38bp)
GGCGGACCAGCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGT397520.1305418293759968Illumina RNA PCR Primer (100% over 35bp)
GGGCCCGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGT389000.12774394150549093Illumina RNA PCR Primer (100% over 38bp)
CTCACAACGACAGGGTCTACTCGATAGATCGTCGGACTGTAGAACTCTGAA387580.1272776268604066Illumina DpnII expression Sequencing Primer (100% over 25bp)
GGTCAGGGTCACGAGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTC377850.12408238636979368Illumina RNA PCR Primer (100% over 32bp)
GGCAATTATCCTAACCGTTGGACTACAGACGCGATCGTCGGACTGTAGAAC372920.1224634207358038No Hit
ACGAATCCGTGCGACGCGGGGCTGGATCTGATCGTCGGACTGTAGAACTCT372160.12221384388350515Illumina DpnII expression Sequencing Primer (100% over 22bp)
GAGTATCCTAACCAGCTAGACTACAACGGAGATCGTCGGACTGTAGAACTC367730.12075907354708014Illumina DpnII expression Sequencing Primer (100% over 21bp)
AGATATCCGTTGCCGAGAGTCGTGTGGATCGTCGGACTGTAGAACTCTGAA364290.11962940989983366Illumina DpnII expression Sequencing Primer (100% over 25bp)
GGCCGCCGGCGCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG358720.11780027428496068Illumina RNA PCR Primer (100% over 34bp)
TTGTAGCAATGAAATACCACAACCTACCCGATATGATCGTCGGACTGTAGA344510.11313384392816626No Hit
GTTCAAATCGTTCGTTCGTTAGGATGCGATCGTCGGACTGTAGAACTCTGA343520.11280873723898777Illumina DpnII expression Sequencing Primer (100% over 24bp)
GCCAGATCATGAATTAGTAACTGATCGTCGGACTGTAGAACTCTGAACGTG328990.10803722189175183Illumina DpnII expression Sequencing Primer (96% over 29bp)
AGTTCAAGAAAGCCTGTGGAGATCGTCGGACTGTAGAACTCTGAACGTGTA316940.10408011522043777Illumina DpnII expression Sequencing Primer (96% over 30bp)
GGGCGGTGCTCTGACCAATTGAACTACAATCCCGATCGTCGGACTGTAGAA316910.10407026350258387No Hit
GCCCTCGGCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGG311660.10234621287815245Illumina RNA PCR Primer (100% over 37bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GCCGTAT2389250.044.2576445
GCCGTAA112550.044.07918545
GGGGAAT1185100.044.0470921
GCGTGAC185250.044.0326921
TGGAGCC95750.043.7595331
GTGCACC107600.043.7502483
GTGACGC185600.043.6956183
GTAACTG363850.043.5826217
GGTGCAC108650.043.5192032
CGTGACG187400.043.4733962
TAGTAAC371450.043.47227515
TGACGCC187000.043.4512944
GTGCGCA54500.043.436053
ATTAGTA390750.043.26552613
TTAGTAA383800.043.25172814
TGGCGAC91750.043.139781
GCTCACT103050.042.581183
GGTGCGC55750.042.548122
AATCGTT441250.042.3882036
TGCTCAC103550.042.337332
Produced by FastQC (version 0.11.2)