FastQCFastQC Report
Thu 27 Oct 2016
H3NFYBCXY_l01n01_smallrna_salt24h_rep2_shoot.3510000006bfa8.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NFYBCXY_l01n01_smallrna_salt24h_rep2_shoot.3510000006bfa8.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences26630069
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

[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
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTCGTATGCC654404924.57390929028385RNA PCR Primer, Index 4 (100% over 51bp)
TAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTG4052331.5217121667991171RNA PCR Primer, Index 2 (97% over 35bp)
CAGTTACTAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCA2741201.0293627102505818RNA PCR Primer, Index 1 (100% over 28bp)
CCGGGCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCT2148440.806772224285262RNA PCR Primer, Index 4 (100% over 43bp)
CTCGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCT2081830.7817591460239927RNA PCR Primer, Index 4 (100% over 43bp)
TCCGTTGTAGTCTAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTG2041120.7664719156379204RNA PCR Primer, Index 2 (97% over 35bp)
TCGGACCAGGCTTCATTCCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT1884710.7077375578711419RNA PCR Primer, Index 1 (100% over 30bp)
TCCACAGGCTTTCTTGAACTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT1539610.5781472064529761RNA PCR Primer, Index 1 (100% over 30bp)
CGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATC1388820.5215232450205067RNA PCR Primer, Index 4 (100% over 42bp)
TCTGTTGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAA1338540.5026423326203172RNA PCR Primer, Index 4 (100% over 40bp)
CCGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTC1326550.49813990343021647RNA PCR Primer, Index 4 (100% over 44bp)
TCATGTGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAA1275200.4788571895927119RNA PCR Primer, Index 4 (100% over 40bp)
CCGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACT1139470.42788848951161185RNA PCR Primer, Index 3 (100% over 34bp)
CCGGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCT1061460.3985945361238081RNA PCR Primer, Index 4 (100% over 43bp)
GTGGTCGTGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAA1059730.39794489454758825RNA PCR Primer, Index 4 (100% over 40bp)
GGTAGTTCGACCGTGGAATTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC1003030.37665317352350836RNA PCR Primer, Index 1 (100% over 31bp)
TCGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAAT1000440.37568058873598864RNA PCR Primer, Index 4 (100% over 41bp)
TCTCGGACCAGGCTTCATTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT862550.3239007754730189RNA PCR Primer, Index 1 (100% over 30bp)
AGGGCTATAGCTCAGTTCGGTAGAGCAACTCGTTTACACCGAGATGGAATT859570.3227817396943283No Hit
CCCCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCA788670.29615770053017887RNA PCR Primer, Index 4 (100% over 39bp)
CCCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTC737770.2770439686055639RNA PCR Primer, Index 4 (100% over 44bp)
GTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTCT677030.25423516551909797No Hit
TCCGTTGTAGTCTAGCTGGTTAGGATACTTGGAATTCTCGGGTGCCAAGGA664720.2496125714131646RNA PCR Primer, Index 1 (100% over 22bp)
GTCGGCGCAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCA650080.2441150265138254RNA PCR Primer, Index 4 (100% over 39bp)
GTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTTGGAATTCTCGGGTGCCA636640.2390681000488583No Hit
CCCAGGTCAGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCA620610.2330485887963715RNA PCR Primer, Index 4 (100% over 39bp)
ACCGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC613640.23043124672339374RNA PCR Primer, Index 1 (100% over 33bp)
GCGCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCA606680.2278176598040358RNA PCR Primer, Index 4 (100% over 39bp)
ATGACTGAACGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACC577500.21686012154155512RNA PCR Primer, Index 4 (100% over 38bp)
GCGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTC577330.21679628393001912RNA PCR Primer, Index 4 (100% over 44bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCTGGAATTCTCGGGTGCCAA557090.20919585300361032No Hit
GGGGGACGGACCGGGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTG537310.20176815914371085RNA PCR Primer, Index 2 (97% over 35bp)
TCCATTGTCGTCTAGTCCGGTTAGGATACCTGGCTTGGAATTCTCGGGTGC510020.19152034491536615No Hit
TTGACAGAAGAGAGTGAGCACTGGAATTCTCGGGTGCCAAGGAACTCCAGT490100.1840400789047899RNA PCR Primer, Index 1 (100% over 30bp)
CCGGGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATC478780.17978924500721347RNA PCR Primer, Index 4 (100% over 42bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTCTGGAATTCTCGGGTGCCAAGG475440.17853502369821123Illumina Small RNA Adapter 2 (100% over 21bp)
AGGGCTATAGCTCAGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTG454600.1707092835546164RNA PCR Primer, Index 2 (97% over 35bp)
GGGCCTGTAGCTCAGAGGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCA454530.17068299747927804RNA PCR Primer, Index 1 (100% over 32bp)
GGCTCGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAAT446260.16757748543573056RNA PCR Primer, Index 4 (100% over 41bp)
CGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTG439430.16501271551342958RNA PCR Primer, Index 2 (97% over 35bp)
AGTTACTAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAG437330.16422413325327848RNA PCR Primer, Index 1 (100% over 29bp)
GCCGAGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATC426320.1600897091179148RNA PCR Primer, Index 4 (100% over 42bp)
GGCGCGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATC423760.1591283897912544RNA PCR Primer, Index 4 (100% over 42bp)
CGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTC417020.15659741625153129No Hit
TAATTCATGATCTGGCATGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA395790.14862522511676557RNA PCR Primer, Index 1 (100% over 32bp)
GCGTTTGTAGTCCAACGGTTAGGATAATTGCCTGGAATTCTCGGGTGCCAA380610.14292490192195897No Hit
GGCGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCT376070.14122006217858468RNA PCR Primer, Index 4 (100% over 43bp)
TTCGGACCAGGCTTCATTCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT360510.13537704314622692RNA PCR Primer, Index 1 (100% over 30bp)
TCCGTTGTAGTCTAGCTGGTTAGGATATGGAATTCTCGGGTGCCAAGGAAC360030.1351967957724781RNA PCR Primer, Index 1 (100% over 24bp)
CGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTG353620.13278974230220733RNA PCR Primer, Index 2 (97% over 35bp)
GGGGACGTAGCTCATATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTG347410.1304577919043319RNA PCR Primer, Index 2 (97% over 35bp)
GCTGGTCCGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAA338940.1272771767883891RNA PCR Primer, Index 4 (100% over 40bp)
TCCCCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATC338230.12701056088138563RNA PCR Primer, Index 4 (100% over 42bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTTGGAATTCTCGGGTGCC337810.1268528444293554No Hit
GGGGATGTAGCTCAGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTG334080.12545217212918225RNA PCR Primer, Index 2 (97% over 35bp)
CTCTCGGCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATC330120.12396513129575443RNA PCR Primer, Index 4 (100% over 42bp)
GCCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTC322850.1212351346141837RNA PCR Primer, Index 4 (100% over 44bp)
CCCCGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCT298830.11221525561950291RNA PCR Primer, Index 4 (100% over 43bp)
GCCGGCGATGCGCTCCTGGCCTTGGAATTCTCGGGTGCCAAGGAACTCCAG297910.11186978148648433RNA PCR Primer, Index 1 (100% over 29bp)
GCGCCGGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAA294810.11070568386435649RNA PCR Primer, Index 4 (100% over 40bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTGGAATTCTCGGGTGCCAAGGAA292210.10972934392321702RNA PCR Primer, Index 1 (100% over 23bp)
TGTCGTGCCAATCCAACATAAGCCTTGGAATTCTCGGGTGCCAAGGAACTC289310.10864034937348455RNA PCR Primer, Index 1 (100% over 26bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCATCTCGTATGCCG284590.10686791686495443RNA PCR Primer, Index 4 (97% over 39bp)
GCCGTCGGCGCAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGA282830.10620700982787541RNA PCR Primer, Index 2 (97% over 36bp)
TATCGAGTAGACCCTGTCGTTGTGAGATGGAATTCTCGGGTGCCAAGGAAC281150.10557614401975451RNA PCR Primer, Index 1 (100% over 24bp)
NGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTCGTATGCC278070.1044195567048662RNA PCR Primer, Index 4 (98% over 51bp)
GGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTCG276900.10398020373135344RNA PCR Primer, Index 4 (100% over 45bp)
GGGGGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAATCTC275340.10339439976666978RNA PCR Primer, Index 4 (100% over 44bp)
GGGCCGGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAAT274570.1031052529379477RNA PCR Primer, Index 4 (100% over 41bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTTGGAATTCTCGGGTGCCA272630.10237675313571287No Hit
CCCCCGGCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACTGACCAA269820.10132155496855828RNA PCR Primer, Index 4 (100% over 40bp)

[WARN]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GCCCCTA27550.044.611761
AGGGCTA213350.044.571611
TTCGACC150750.044.3681226
TCCGTTG512300.044.339071
TCGACCG151100.044.3095177
GGTAGTT151350.044.26031
CACACGA115050.044.243211
CCACAGG189650.044.2138062
CACAGGC189400.044.189023
CTATAGC195600.044.1686135
TCGAGTA146150.044.1654973
TAGCTCA564500.044.1415448
AGCTCAG466800.044.069249
GCTCATA66650.044.0157810
CGTTTAC107050.043.98706431
CGACCGT152200.043.9153678
TATCGAG150750.043.911911
GCTCAGT339250.043.89383310
GTTTACA107300.043.84214832
TAGACCC146200.043.824928
Produced by FastQC (version 0.11.2)