FastQCFastQC Report
Thu 27 Oct 2016
H3NGHBCXY_l02n02_smallrna_drought_1h_rep3_root.3520000006c285.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NGHBCXY_l02n02_smallrna_drought_1h_rep3_root.3520000006c285.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences26875721
Sequences flagged as poor quality0
Sequence length51
%GC53

[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

[OK]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
GATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTAT11408634.244957744575485Illumina RNA PCR Primer (100% over 46bp)
GGGGAATGAAGCCTGGTCCGAGATCGTCGGACTGTAGAACTCTGAACGTGT3853541.4338368819947191Illumina DpnII expression Sequencing Primer (96% over 30bp)
TGGCCTCGGGCGCAACTTGCGTTCAAAGACTCGATGGTTCACGATCGTCGG1819430.6769790473714175No Hit
AGGTGGGTTTCCCCATTCGGAGATCTATGGATCAAAGCTTATGATCGTCGG1131730.4210975400436699No Hit
GGAATGAAGCCTGGTCCGAGAGATCGTCGGACTGTAGAACTCTGAACGTGT1069610.397983741533855Illumina DpnII expression Sequencing Primer (96% over 30bp)
TGGCCTCGGGCGCAACTTGCGTTCAAAGACTCGATGGTTCACGGATCGTCG1031140.38366970694479224No Hit
GGCTGCGCCGACGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG902370.33575657374922147Illumina RNA PCR Primer (100% over 34bp)
AGGGTCGAGCAGGTCGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGAT870550.32391689138311863Illumina DpnII expression Sequencing Primer (96% over 30bp)
GCCCGCCGCCCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGT734180.2731759270755936Illumina RNA PCR Primer (100% over 35bp)
TCCCGGTCCGTCCCCCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATC711200.2646254587923427Illumina DpnII expression Sequencing Primer (96% over 30bp)
GGCCGCCCGAGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTG662060.24634129815531272Illumina RNA PCR Primer (100% over 36bp)
GCCCCCGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGT619970.2306803229576613Illumina RNA PCR Primer (100% over 38bp)
AGGCGGGAATACTCACCACTATACTACAACGACGATCGTCGGACTGTAGAA600910.22358842019531308No Hit
GGCCGCCGGCGCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG599070.22290378739978733Illumina RNA PCR Primer (100% over 34bp)
AGTCCGTGGGTCTACCGTTAACCTATTCCCCAGATCGTCGGACTGTAGAAC558930.20796837413217675No Hit
GGCCGCCGGGGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG552370.2055275093829111Illumina RNA PCR Primer (100% over 34bp)
TGGCCTCGGGCGCAACTTGCGTTCAAAGACTCGATGGTTCACGGGATCGTC546470.2033322194407361No Hit
GCAGCTCGAGCAGTCCGCCGATCGTCGGACTGTAGAACTCTGAACGTGTAG520060.1935055063266954Illumina DpnII expression Sequencing Primer (96% over 30bp)
GGCCGCCCGATTCTCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCT517160.19242646550766024Illumina RNA PCR Primer (100% over 31bp)
TGTCAGATTAAAGTATTCTCAGCACCCTTGATCGTCGGACTGTAGAACTCT500010.18604524135371103Illumina DpnII expression Sequencing Primer (100% over 22bp)
ACGAATCCGTGCGACGCGGGGCTGATCGTCGGACTGTAGAACTCTGAACGT410330.15267683423265185Illumina DpnII expression Sequencing Primer (96% over 28bp)
GCTAGACTACAACGGAGATCGTCGGACTGTAGAACTCTGAACGTGTAGATC396100.14738209255855872Illumina DpnII expression Sequencing Primer (96% over 30bp)
GGCCGCCCGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGG388200.14444263653429057Illumina RNA PCR Primer (100% over 37bp)
GCCTGACCTGGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG377560.14048367297755474Illumina RNA PCR Primer (100% over 34bp)
ACGAATCCGTGCGACGCGGGGCTGGGATCGTCGGACTGTAGAACTCTGAAC374620.1393897488368777Illumina DpnII expression Sequencing Primer (100% over 26bp)
GATCCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCGCCGTA363370.13520381462510345Illumina RNA PCR Primer (100% over 45bp)
GGCCCGAGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGT346660.12898630700921473Illumina RNA PCR Primer (100% over 38bp)
GTGTCAGATTAAAGTATTCTCAGCACCCTTGATCGTCGGACTGTAGAACTC338380.1259054594293489Illumina DpnII expression Sequencing Primer (100% over 21bp)
AGGGTCGAGCAGGTCGGTGATCGTCGGACTGTAGAACTCTGAACGTGTAGA337580.12560779299651162Illumina DpnII expression Sequencing Primer (96% over 30bp)
ACGAATCCGTGCGACGCGGGGCTGGATCTCAGTGGATCGTGGCAGATCGTC334250.12436875646982644No Hit
ACGAATCCGTGCGACGCGGGGCTGGATCGTCGGACTGTAGAACTCTGAACG330170.1228506576623563Illumina DpnII expression Sequencing Primer (96% over 26bp)
GGCCGCCGGGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGT326300.12141069629350595Illumina RNA PCR Primer (100% over 35bp)
AAGCAGGTGCTCTCCCAGCTGAGCTACAGCCCCGATCGTCGGACTGTAGAA322570.12002282655040214No Hit
GCCCCCGCCGGCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGG309560.11518202618638586Illumina RNA PCR Primer (100% over 34bp)
ACGAATCCGTGCGACGCGGGGCTGGAGATCGTCGGACTGTAGAACTCTGAA309490.11515598037351259Illumina DpnII expression Sequencing Primer (100% over 25bp)
GCCCCCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGTGGTCG307620.11446018508675544Illumina RNA PCR Primer (100% over 40bp)
AGCCTGACGATGTCCTACTTGATCGTCGGACTGTAGAACTCTGAACGTGTA301140.11204908698077345Illumina DpnII expression Sequencing Primer (96% over 30bp)
GCCGCCGGCGCGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGT300110.11166584144849545Illumina RNA PCR Primer (100% over 35bp)
GGGGAATCCTCGTAAGTTTCTTCTCCTCCGCTGATCGTCGGACTGTAGAAC299660.1114984040800245No Hit
GCCGTTACTAGGGGAATCCTCGTAAGTTTCTTCTCCTCCGCTTAGATCGTC299320.11137189584606866No Hit
ACGAATCCGTGCGACGCGGGGCTGGATGATCGTCGGACTGTAGAACTCTGA294770.10967891800930663Illumina DpnII expression Sequencing Primer (100% over 24bp)
GCCGCCGGGGGGATCGTCGGACTGTAGAACTCTGAACGTGTAGATCTCGGT269250.10018335880179735Illumina RNA PCR Primer (100% over 35bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GCCGTAT1221700.043.83839445
CGATAAC121500.042.7493178
ATAACCT121050.042.612110
GATAACC122050.042.484149
AGCCTGA579850.042.3903961
GGAATAC71850.041.4218186
ACGATGT331600.041.3345837
TGGCCTC461650.041.14151
CCTGACG612050.040.889193
GGGAATG459050.040.858652
AAATCTA67450.040.8107153
TATACTA73350.040.79375520
ACACTGG86400.040.7461923
CGCCGTA1359500.040.7368644
ACGATAA128850.040.469327
CACACTG92950.040.467522
ACGAATC398150.040.2314261
TCGCCGT1379150.040.11714643
CGATGTC343300.040.042398
ACTATAC74900.039.7993718
Produced by FastQC (version 0.11.2)