FastQCFastQC Report
Thu 27 Oct 2016
H3NGHBCXY_l02n01_smallrna_drought_1h_rep3_root.3510000006c288.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NGHBCXY_l02n01_smallrna_drought_1h_rep3_root.3510000006c288.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences26875721
Sequences flagged as poor quality0
Sequence length51
%GC55

[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
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCTCGTATGCC11066184.117537907169076RNA PCR Primer, Index 7 (100% over 51bp)
TCGGACCAGGCTTCATTCCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT3679471.3690683870397375RNA PCR Primer, Index 1 (100% over 30bp)
GTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTCT1855200.6902884577496544No Hit
ATAAGCTTTGATCCATAGATCTCCGAATGGGGAAACCCACCTTGGAATTCT1223490.455239879890106No Hit
CCGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC1054080.3922052919064013RNA PCR Primer, Index 2 (100% over 34bp)
CGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTC1024380.38115442558731727No Hit
TCTCGGACCAGGCTTCATTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT1024280.38111721728321263RNA PCR Primer, Index 1 (100% over 30bp)
GTCGGCGCAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATC832280.3096772734022652RNA PCR Primer, Index 7 (100% over 39bp)
GGGCGGCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCA745920.2775441819774807RNA PCR Primer, Index 7 (100% over 40bp)
GGGGGACGGACCGGGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA668100.24858867972323423RNA PCR Primer, Index 7 (100% over 35bp)
TCGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCAT640980.23849778765005042RNA PCR Primer, Index 7 (100% over 41bp)
GCGCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATC611430.22750273378712332RNA PCR Primer, Index 7 (100% over 39bp)
CCGGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCT583960.2172816126495732RNA PCR Primer, Index 7 (100% over 43bp)
GTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTTGGAATTCTCGGGTGCCA561080.20876835267042695No Hit
TGGGGAATAGGTTAACGGTAGACCCACGGACTTGGAATTCTCGGGTGCCAA539890.20088391303064948No Hit
CCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATT531370.19771376552093245No Hit
GGCGGACTGCTCGAGCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA530090.19723749922839282RNA PCR Primer, Index 1 (100% over 32bp)
GAGAATCGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAG524660.19521708831550974RNA PCR Primer, Index 7 (100% over 36bp)
CCCCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATC522070.19425339323919907RNA PCR Primer, Index 7 (100% over 39bp)
AAGGGTGCTGAGAATACTTTAATCTGACATGGAATTCTCGGGTGCCAAGGA502460.1869568448042752RNA PCR Primer, Index 1 (100% over 22bp)
CGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATC396310.1474602299971785RNA PCR Primer, Index 7 (100% over 42bp)
AGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCA394440.14676443471042136RNA PCR Primer, Index 1 (100% over 28bp)
TCCGTTGTAGTCTAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA384220.14296174603092507RNA PCR Primer, Index 7 (100% over 35bp)
GCCGGCGGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATC380670.14164085123520967RNA PCR Primer, Index 7 (100% over 39bp)
ACCGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC380360.14152550549248522RNA PCR Primer, Index 1 (100% over 33bp)
CCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTC360020.13395733643759733RNA PCR Primer, Index 1 (100% over 26bp)
CCCAGGTCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATC351710.13086532636650008RNA PCR Primer, Index 7 (100% over 39bp)
TGCCACGATCCACTGAGATCCAGCCCCGCGTCGCACGGATTCGTTGGAATT339770.12642265485640367No Hit
AAGGGTGCTGAGAATACTTTAATCTGACACTGGAATTCTCGGGTGCCAAGG332440.12369528616553208Illumina Small RNA Adapter 2 (100% over 21bp)
CAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCC331020.1231669282472459RNA PCR Primer, Index 1 (100% over 27bp)
TAAGCGGAGGAGAAGAAACTTACGAGGATTCCCCTAGTAACGGCTGGAATT319850.11901076067875538No Hit
GGGGCTGTAGCTCAGCTGGGAGAGCACCTGCTTTGGAATTCTCGGGTGCCA317060.11797264899423535No Hit
CCCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCA315480.11738475778938172RNA PCR Primer, Index 7 (100% over 40bp)
GCGCCGGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCA313530.11665919585934084RNA PCR Primer, Index 7 (100% over 40bp)
CTCGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCT313420.11661826672482573RNA PCR Primer, Index 7 (100% over 43bp)
TCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACT295800.11006216354158463RNA PCR Primer, Index 1 (100% over 25bp)
GGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCTCG289380.10767339041806542RNA PCR Primer, Index 7 (100% over 45bp)
ATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAAC285150.10609947915443832RNA PCR Primer, Index 1 (100% over 24bp)
AAGTAGGACATCGTCAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC282100.10496462587924618RNA PCR Primer, Index 1 (100% over 31bp)
AGCGGAGGAGAAGAAACTTACGAGGATTCCCCTGGAATTCTCGGGTGCCAA279750.10409023073278667No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CATTCCC433150.043.88421214
CATTCCT126250.043.86325516
GTATGCC1322050.043.82007245
CACACGA149200.043.236841
TAGTATA73750.042.3317268
CGTTGTA168800.042.2823873
GTATAGT76150.042.1199810
CGTATGC1380950.041.9455744
GGTTAAC71200.041.7944310
GTATTCC73050.041.44416422
GCTCAGC140750.041.18172510
TCGTATG1415650.040.9777943
CTCGTAT1415450.040.95807642
AGCGCAG94600.040.776659
AGACCCA72500.040.735320
TATAGTG79050.040.688611
GTAGTAT76000.040.6345527
GCGCAGT51150.040.63168710
TCTCGTA1428800.040.51241341
TAGTCTA117450.040.465518
Produced by FastQC (version 0.11.2)