FastQCFastQC Report
Thu 27 Oct 2016
H3NFYBCXY_l02n01_smallrna_drought_1h_rep3_shoot.3510000006c054.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameH3NFYBCXY_l02n01_smallrna_drought_1h_rep3_shoot.3510000006c054.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences32593768
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

[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
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCTCGTATGCC456172713.99570310496166RNA PCR Primer, Index 7 (100% over 51bp)
TCGGACCAGGCTTCATTCCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT5838151.7911859715022824RNA PCR Primer, Index 1 (100% over 30bp)
ATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAAC1989650.610438780812332RNA PCR Primer, Index 1 (100% over 24bp)
TCTCGGACCAGGCTTCATTCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT1669730.5122850478655919RNA PCR Primer, Index 1 (100% over 30bp)
CAGTTACTAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCA1622930.49792647477885954RNA PCR Primer, Index 1 (100% over 28bp)
GCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAG1571030.482003185394214RNA PCR Primer, Index 1 (100% over 29bp)
AGGGCTATAGCTCAGTTCGGTAGAGCAACTCGTTTACACCGAGATGGAATT1559980.47861296674873555No Hit
AGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCA1467340.45019035540781904RNA PCR Primer, Index 1 (100% over 28bp)
GGGGACGTAGCTCATATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA1344630.4125420540515598RNA PCR Primer, Index 7 (100% over 35bp)
TCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACT1289560.3956461861052702RNA PCR Primer, Index 1 (100% over 25bp)
GCGTCTGTAGTCCAACGGTTAGGATAATTGCCTGGAATTCTCGGGTGCCAA1207810.37056470427107413No Hit
GTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTCT1098020.33688035086952817No Hit
TAATTCATGATCTGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA1067000.3273631940928094RNA PCR Primer, Index 7 (100% over 35bp)
TCCGTTGTAGTCTAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA1036360.317962624020641RNA PCR Primer, Index 7 (100% over 35bp)
TTGACAGAAGAGAGTGAGCACTGGAATTCTCGGGTGCCAAGGAACTCCAGT964050.2957774013731705RNA PCR Primer, Index 1 (100% over 30bp)
TCCATTGTCGTCTAGTCCGGTTAGGATACCTGGCTTGGAATTCTCGGGTGC958120.29395803516794994No Hit
CAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCC930090.2853582316717724RNA PCR Primer, Index 1 (100% over 27bp)
CACACGACTCTCGGCAACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA920250.28233924963815166RNA PCR Primer, Index 1 (100% over 32bp)
CCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTC856340.2627312067754793RNA PCR Primer, Index 1 (100% over 26bp)
GTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTTGGAATTCTCGGGTGCCA840080.2577425230491915No Hit
TTCGGACCAGGCTTCATTCCCTGGAATTCTCGGGTGCCAAGGAACTCCAGT810590.24869478116184668RNA PCR Primer, Index 1 (100% over 30bp)
CGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATTC797050.24454061279444586No Hit
GCGTTTGTAGTCCAACGGTTAGGATAATTGCCTGGAATTCTCGGGTGCCAA764330.2345018839184227No Hit
GGTGGCTGTAGTTTAGTGGTGAGAATTCCACGTTTGGAATTCTCGGGTGCC741800.22758951956705345No Hit
GGGCCTGTAGCTCAGAGGATGGAATTCTCGGGTGCCAAGGAACTCCAGTCA740270.22712010467767946RNA PCR Primer, Index 1 (100% over 32bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTTGGAATTCTCGGGTGCCAAGGA715360.2194775393872841RNA PCR Primer, Index 1 (100% over 22bp)
CTGGGCGTCACGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGAT632490.19405243358178165RNA PCR Primer, Index 7 (100% over 38bp)
CACACGACTCTCGGCAACGGATATCTGGAATTCTCGGGTGCCAAGGAACTC627400.19249078535504088RNA PCR Primer, Index 1 (100% over 26bp)
GATCCAGCCCCGCGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAA601660.18459357015733804RNA PCR Primer, Index 1 (100% over 23bp)
CACACGACTCTCGGCAACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC525110.16110748533277897RNA PCR Primer, Index 1 (100% over 33bp)
GGTAGTTCGACCGTGGAATTTGGAATTCTCGGGTGCCAAGGAACTCCAGTC524570.1609418094894705RNA PCR Primer, Index 1 (100% over 31bp)
CCCCCGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATC521180.15990173336203412RNA PCR Primer, Index 7 (100% over 39bp)
GTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGGAATTCTCGGGTGCCAA490540.1505011632898657No Hit
CCGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC484230.14856521038009474RNA PCR Primer, Index 2 (100% over 34bp)
TCCACAGGCTTTCTTGAACTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT480430.14739934333459082RNA PCR Primer, Index 1 (100% over 30bp)
CGTCGCACGGATTCGTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCA448150.13749560959015233RNA PCR Primer, Index 7 (100% over 35bp)
TCCGTTGTAGTCTAGCTGGTTAGGATACTGGAATTCTCGGGTGCCAAGGAA447770.13737902288560194RNA PCR Primer, Index 1 (100% over 23bp)
CACACGACTCTCGGCAACGGATGGAATTCTCGGGTGCCAAGGAACTCCAGT426100.13073051265505725RNA PCR Primer, Index 1 (100% over 30bp)
TCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATGG423850.13004019664127203No Hit
TCCGTTGTAGTCTAGCTGGTTAGGATATGGAATTCTCGGGTGCCAAGGAAC422630.12966589195824182RNA PCR Primer, Index 1 (100% over 24bp)
GGAGAGATGGCTGAGTGGACTAAAGCGGCGGATTGCTAATCCGTTGTACAA421140.12920874935355742No Hit
GTCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATG419540.1287178579659768No Hit
CGGGCGGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATC415800.12757039934750716RNA PCR Primer, Index 7 (100% over 42bp)
ACCGACCTGCTCGACCCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC408480.12532457124932594RNA PCR Primer, Index 1 (100% over 33bp)
TGCCACGATCCACTGAGATCCAGCCCCGCGTCGCACGGATTCGTTGGAATT399920.12269830232576977No Hit
GGGTGTTTGGTCTAGTGGTATGATTCTCGCTTGGAATTCTCGGGTGCCAAG399440.12255103490949558No Hit
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTTGGAATTCTCGGGTGCCA396770.12173185990647048No Hit
GGGATTGTAGTTCAATTGGTCAGAGCACCGCCCTGTCAAGGCGGAAGCTGC389950.11963943536690819No Hit
CCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCATGGAATT385120.11815755699064925No Hit
TCCGTTGTAGTCTAGCTGGTTAGGATACTCTGGAATTCTCGGGTGCCAAGG379800.11652534312694376Illumina Small RNA Adapter 2 (100% over 21bp)
GCGACCCCAGGTCAGGCGGGACTTGGAATTCTCGGGTGCCAAGGAACTCCA378600.11615717458625832RNA PCR Primer, Index 1 (100% over 28bp)
CCTGGGCGTCACGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGA369890.11348488459511648RNA PCR Primer, Index 7 (100% over 37bp)
TATCGAGTAGACCCTGTCGTTGTGAGATGGAATTCTCGGGTGCCAAGGAAC365200.11204595921527084RNA PCR Primer, Index 1 (100% over 24bp)
CCGGGGGCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCATCT362560.11123598842576285RNA PCR Primer, Index 7 (100% over 43bp)
GCTGGTCCGCCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCA349910.10735487839270377RNA PCR Primer, Index 7 (100% over 40bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGATGGAATTCTCGGGTGC349310.10717079412236107No Hit
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCAGATCACCTCGTATGCC337490.10354433399660942RNA PCR Primer, Index 7 (98% over 51bp)
GTCAGGATAGCTCAGTTGGTAGAGCAGAGGACTGGAATTCTCGGGTGCCAA332600.10204404719331621No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CGTTTAC185350.044.1580831
CTATAGC237750.044.115565
AGCTCAG615650.044.085689
TATAGCT257500.044.0257956
TACACCG181900.044.01851735
CACACGA594450.043.99541
TTCGGTA205200.043.98773616
AGGGCTA239750.043.946721
GTAGCTC454500.043.9214487
TAGCTCA866550.043.861048
GTTTACA186350.043.86075232
GGACGTA150750.043.831543
CGTAGCT159450.043.82456
GCTCAGT461500.043.81667710
TAGTTCA241150.043.801448
TCAGAGC131800.043.78365720
GCTCATA188550.043.77934310
GTATGCC5026500.043.73032845
TAGTCCA306450.043.7181938
GACGTAG151300.043.6870734
Produced by FastQC (version 0.11.2)