FastQCFastQC Report
Thu 27 Oct 2016
H3NFYBCXY_l02n01_smallrna_ctrl1h_rep2_shoot.3510000006bfb4.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NFYBCXY_l02n01_smallrna_ctrl1h_rep2_shoot.3510000006bfb4.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences40082521
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

[WARN]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
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGTATCTCGTATGCC25663426.4026461808627255RNA PCR Primer, Index 2 (100% over 51bp)
AGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCA3821080.953303311435925RNA PCR Primer, Index 1 (100% over 28bp)
ATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAAC3496530.8723328555107599RNA PCR Primer, Index 1 (100% over 24bp)
GCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAG3298850.8230146003042074RNA PCR Primer, Index 1 (100% over 29bp)
AGGGCTATAGCTCAGTTCGGTAGAGCAACTCGTTTACACCGAGATGGAATT3002310.7490322277882672No Hit
CAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCC2535560.6325849614099871RNA PCR Primer, Index 1 (100% over 27bp)
TCGGACCAGGCTTCATTCCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT2421170.6040463373049814RNA PCR Primer, Index 1 (100% over 30bp)
CACACGACTCTCGGCAACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA2392370.5968611605043506RNA PCR Primer, Index 1 (100% over 32bp)
CCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTC2299600.5737164087059294RNA PCR Primer, Index 1 (100% over 26bp)
TCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACT2279110.5686044547946473RNA PCR Primer, Index 1 (100% over 25bp)
GATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAA1948920.48622690174602545RNA PCR Primer, Index 1 (100% over 23bp)
GTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTCT1592400.397280400601549No Hit
TAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCG1375690.3432144400298574RNA PCR Primer, Index 2 (100% over 35bp)
CAGTTACTAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCA1237170.30865573550126746RNA PCR Primer, Index 1 (100% over 28bp)
TCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATGG1098780.27412946406240263No Hit
CGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTC1040920.2596942442816908No Hit
CACACGACTCTCGGCAACGGATATCTGGAATTCTCGGGTGCCAAGGAACTC1008560.2516208997932041RNA PCR Primer, Index 1 (100% over 26bp)
GTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTTGGAATTCTCGGGTGCCA1008140.2515161159648616No Hit
CACACGACTCTCGGCAACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC977860.24396170091197608RNA PCR Primer, Index 1 (100% over 33bp)
TCCGTTGTAGTCTAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCG972910.24272674864936764RNA PCR Primer, Index 2 (100% over 35bp)
GGTAGTTCGACCGTGGAATTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC927140.23130780621308725RNA PCR Primer, Index 1 (100% over 31bp)
TTCGGACCAGGCTTCATTCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT902800.22523533387533182RNA PCR Primer, Index 1 (100% over 30bp)
AGATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGA889190.2218398388664226RNA PCR Primer, Index 1 (100% over 22bp)
GTCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATG888600.22169264253613188No Hit
CATCGGTTCAAATCCGATAGTCGGCTCCATGGAATTCTCGGGTGCCAAGGA851400.21241178916865033RNA PCR Primer, Index 1 (100% over 22bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGGAATTCTCGGGTGCCAA778820.19430414568983823No Hit
TTGACAGAAGAGAGTGAGCACTGGAATTCTCGGGTGCCAAGGAACTCCAGT761550.18999553446251546RNA PCR Primer, Index 1 (100% over 30bp)
TCTCGGACCAGGCTTCATTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT757020.18886536602824958RNA PCR Primer, Index 1 (100% over 30bp)
TATCGAGTAGACCCTGTCGTTGTGAGATGGAATTCTCGGGTGCCAAGGAAC719270.1794472957427004RNA PCR Primer, Index 1 (100% over 24bp)
CGGGGTTCGTTTCCCCGGATGCGCACCATGGAATTCTCGGGTGCCAAGGAA701470.17500645730342163RNA PCR Primer, Index 1 (100% over 23bp)
CTAACGAACGAACGATTTGAACTGGAATTCTCGGGTGCCAAGGAACTCCAG662290.16523162303089667RNA PCR Primer, Index 1 (100% over 29bp)
ACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATGGAATTC646700.16134214711694406No Hit
CACACGACTCTCGGCAACGGATATCTCTGGAATTCTCGGGTGCCAAGGAAC624430.155786109361734RNA PCR Primer, Index 1 (100% over 24bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTTGGAATTCTCGGGTGCCA592100.14772024943241469No Hit
CACACGACTCTCGGCAACGGATATCTCGGCTTGGAATTCTCGGGTGCCAAG580730.14488360150799895No Hit
TATCGAGTAGACCCTGTCGTTGTGAGAATTTGGAATTCTCGGGTGCCAAGG555640.13862401519106046Illumina Small RNA Adapter 2 (100% over 21bp)
CCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAGT510300.1273123514361784RNA PCR Primer, Index 1 (100% over 30bp)
GGTCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTAT509250.12705039186532205No Hit
ACGTTATTTTACTTATTCCGTGAGTCGGAAGCGGGGCCTGGAATTCTCGGG505100.12601502784717558No Hit
CACGACTCTCGGCAACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC500030.12475013734789785RNA PCR Primer, Index 2 (100% over 34bp)
CACACGACTCTCGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGA499560.12463287925427644RNA PCR Primer, Index 2 (100% over 36bp)
CCTAACGAACGAACGATTTGAACTGGAATTCTCGGGTGCCAAGGAACTCCA483360.12059121730392157RNA PCR Primer, Index 1 (100% over 28bp)
AACGAACGATTTGAACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCG474090.11827848852121851RNA PCR Primer, Index 2 (100% over 35bp)
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTTGGAATTCTCGGGTGCC473430.11811382821953738No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGGCGGAAGCTGC460460.11487800380619773No Hit
GCGACCCCAGGTCAGGCGGGACTTGGAATTCTCGGGTGCCAAGGAACTCCA456040.11377527875554534RNA PCR Primer, Index 1 (100% over 28bp)
TCTCATGGAGAGTTCGATCCTGGCTTGGAATTCTCGGGTGCCAAGGAACTC444810.11097355877391045RNA PCR Primer, Index 1 (100% over 26bp)
CTGGGCGTCACGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATG436270.10884295426427894RNA PCR Primer, Index 2 (100% over 38bp)
GAACGAACGATTTGAACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC431170.10757057920583388RNA PCR Primer, Index 2 (100% over 34bp)
CACGACTCTCGGCAACGGATATCTCGGCTTGGAATTCTCGGGTGCCAAGGA429280.10709905197829248RNA PCR Primer, Index 1 (100% over 22bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGATGGAATTCTCGGGTGC427510.10665746298742038No Hit
TGCCACGATCCACTGAGATCCAGCCCCGCGTCGCACGGATTCGTTGGAATT421530.10516554086006716No Hit
GTCGGCGCAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCGATGT417820.10423995037637478RNA PCR Primer, Index 2 (100% over 39bp)
GACCCTATCGTCTAGAGGCCTAGGACATCACCCTGGAATTCTCGGGTGCCA410090.10231142896426101No Hit
TATCGAGTAGACCCTGTCGTTGTGAGAATTGGAATTCTCGGGTGCCAAGGA407510.10166775687587115RNA PCR Primer, Index 1 (100% over 22bp)
TCTGGTTCCTGGCACCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC406340.10137585906834554RNA PCR Primer, Index 2 (100% over 34bp)
GACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATGGAATT400970.10003612297739457No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
AGGGCTA405700.044.5475431
GGCTATA407100.044.398733
TATAGCT425150.044.3870286
CTATAGC406250.044.3864065
GCTATAG406950.044.3598144
CACACGA982800.044.2274741
TTCGGTA385450.044.17325216
AGCGCAG49450.044.0857669
CGTTTAC369650.044.0643831
TCAGAGC153200.044.01166520
AGTATAG167600.043.9755029
TATCGAG400450.043.975221
AGTATTC160800.043.9742221
TACACCG361650.043.94424435
ACACGCG81150.043.91435622
GTTTACA370900.043.90374832
TCGAGTA401050.043.8680233
TAGTATA170300.043.833048
TTACACC369600.043.80859834
CACGCGA80800.043.79829423
Produced by FastQC (version 0.11.2)