FastQCFastQC Report
Thu 27 Oct 2016
H3NGHBCXY_l02n02_smallrna_drought_1h_rep2_root.3520000006c26b.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NGHBCXY_l02n02_smallrna_drought_1h_rep2_root.3520000006c26b.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences20407349
Sequences flagged as poor quality0
Sequence length51
%GC53

[OK]Per base sequence quality

Per base quality graph

[FAIL]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
GATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTAT485424623.786754467716506Illumina RNA PCR Primer (100% over 46bp)
GGGGAATGAAGCCTGGTCCGAGATCGTCGGACTGTAGAACTCTGAACGTGT2592941.2705912953220921Illumina DpnII expression Sequencing Primer (96% over 30bp)
GATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTAA1400630.6863360841234204Illumina RNA PCR Primer (97% over 45bp)
GATCCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTA1302030.6380201563662189Illumina RNA PCR Primer (100% over 45bp)
TGGCCTCGGGCGCAACTTGCGTTCAAAGACTCGATGGTTCACGATCGTCGG1283050.6287195852827332No Hit
GGAATGAAGCCTGGTCCGAGAGATCGTCGGACTGTAGAACTCTGAACGTGT911520.4466626213919309Illumina DpnII expression Sequencing Primer (96% over 30bp)
AGGGTCGAGCAGGTCGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGAT772470.3785254027850457Illumina DpnII expression Sequencing Primer (96% over 30bp)
TGGCCTCGGGCGCAACTTGCGTTCAAAGACTCGATGGTTCACGGATCGTCG621480.304537350735757No Hit
GATCGTGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTATC570740.27967375870329847Illumina RNA PCR Primer (100% over 45bp)
GGCTGCGCCGACGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG467370.22902043768644326Illumina RNA PCR Primer (100% over 34bp)
GGCCGCCCGAGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTG440560.2158830135163563Illumina RNA PCR Primer (100% over 36bp)
GGCCGCCGGCGCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG440080.21564780413173704Illumina RNA PCR Primer (100% over 34bp)
GGCCGCCCGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGG414010.20287299442960477Illumina RNA PCR Primer (100% over 37bp)
GCCCCCGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGT373100.1828262945863277Illumina RNA PCR Primer (100% over 38bp)
GATCGTTGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTAT357250.17505948469837998Illumina RNA PCR Primer (97% over 46bp)
TGTCAGATTAAAGTATTCTCAGCACCCTTGATCGTCGGACTGTAGAACTCT305470.1496862723325798Illumina DpnII expression Sequencing Primer (100% over 22bp)
GCTAGACTACAACGGAGATCGTCGGACTGTAGAACTCTGAACGTGTAGATC292370.14326701621067978Illumina DpnII expression Sequencing Primer (96% over 30bp)
AGGGTCGAGCAGGTCGGTGATCGTCGGACTGTAGAACTCTGAACGTGTAGA281190.13778859762725673Illumina DpnII expression Sequencing Primer (96% over 30bp)
GGCCGCCGGGGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG256280.1255822106046209Illumina RNA PCR Primer (100% over 34bp)
GGGCCCGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGT253680.12430815977126672Illumina RNA PCR Primer (100% over 38bp)
TGGCCTCGGGCGCAACTTGCGTTCAAAGACTCGATGGTTCACGGGATCGTC249820.12241668430328702No Hit
AGCCTGACGATGTCCTACTTTCACACGGGATCGTCGGACTGTAGAACTCTG217460.10655965162354013Illumina DpnII expression Sequencing Primer (100% over 23bp)
GCCTGACCTGGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG217050.1063587436075112Illumina RNA PCR Primer (100% over 34bp)
GATCGTCGGACCTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTA216800.10623623871968868Illumina RNA PCR Primer (100% over 40bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GCCGTAT5156550.044.1296745
TGGCCTC275400.043.0105131
ATAACCT50950.042.47426210
CGCCGTA5560300.042.2911844
CCGTATC126700.042.2689445
GATAACC51950.042.2628949
TCGCCGT5564150.042.23149543
GGTCGCC5581300.042.1446141
TGGTCGC5615050.041.98192640
CGATAAC52550.041.9504478
GTCGCCG5623050.041.87161342
GGGAATG303050.041.6745722
GTGGTCG5678450.041.5215239
TAACCTA50700.041.4415511
GCCGTAA173950.041.18420845
ACGATAA54250.041.051837
ACGATGT127450.040.9491847
AGCCTGA227400.040.502861
GGTGGTC5821750.040.48673238
CCTGACG234900.040.176893
Produced by FastQC (version 0.11.2)