FastQCFastQC Report
Mon 5 Dec 2016
JG69_5_GGTAGC_L004_R1_001.fastq

Summary

[OK]Basic Statistics

MeasureValue
FilenameJG69_5_GGTAGC_L004_R1_001.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences54785286
Sequences flagged as poor quality0
Sequence length50
%GC51

[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
ATGACCTATGAATTGACAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAG40137757.326374092488994RNA PCR Primer, Index 1 (100% over 29bp)
ATGACCTATGAATTGACAGCCATGGAATTCTCGGGTGCCAAGGAACTCCA30992925.657161304223181RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA6415871.1710936399966956RNA PCR Primer, Index 1 (100% over 28bp)
TCCCATATGGTCTAGCGGTTAGGATTCCTGTGGAATTCTCGGGTGCCAAG5874691.0723116422172188No Hit
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA4304050.7856215261886192RNA PCR Primer, Index 1 (100% over 28bp)
TAGCTTATCAGACTGGTGTTGGCTGGAATTCTCGGGTGCCAAGGAACTCC4257350.7770973396031919RNA PCR Primer, Index 1 (100% over 27bp)
TTCCCTTTGTCATCCTATGCCTTGGAATTCTCGGGTGCCAAGGAACTCCA3561190.6500267243288645RNA PCR Primer, Index 1 (100% over 28bp)
TACCCTGTAGAACCGAATTTGTTGGAATTCTCGGGTGCCAAGGAACTCCA3461770.6318795159707663RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC3333890.6085374821261315RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA3179060.5802762442455809RNA PCR Primer, Index 1 (100% over 28bp)
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA2662930.48606664205421873RNA PCR Primer, Index 1 (100% over 28bp)
AAGCTGCCAGCTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA2411080.4400962696443713RNA PCR Primer, Index 1 (100% over 28bp)
CCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC2342470.42757283406351115RNA PCR Primer, Index 1 (100% over 33bp)
TCCTTCATTCCACCGGAGTCTGTGGAATTCTCGGGTGCCAAGGAACTCCA2235860.40811322952662876RNA PCR Primer, Index 1 (100% over 28bp)
TACCCTGTAGAACCGAATTTGCTGGAATTCTCGGGTGCCAAGGAACTCCA2227130.40651973597436364RNA PCR Primer, Index 1 (100% over 28bp)
TACCCTGTAGAACCGAATTTGCGTGGAATTCTCGGGTGCCAAGGAACTCC2127250.38828856346574514RNA PCR Primer, Index 1 (100% over 27bp)
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG2124950.3878687427131438RNA PCR Primer, Index 1 (100% over 29bp)
AACAGTAAGAGTTTATGTGCTGTGGAATTCTCGGGTGCCAAGGAACTCCA1937940.35373366491141434RNA PCR Primer, Index 1 (100% over 28bp)
TTCACAGTGGTTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT1912410.3490736545575394RNA PCR Primer, Index 1 (100% over 30bp)
TGGGAATACCAGGTGCTGTAAGCTTTGGAATTCTCGGGTGCCAAGGAACT1733880.31648643761757494RNA PCR Primer, Index 1 (100% over 25bp)
ACTGTATAAGGTACATATGGTTGAGTGTCGTATGGAATTCTCGGGTGCCA1668960.3046365405484969No Hit
ATGACCTATGAATTGACAGCCTTGGAATTCTCGGGTGCCAAGGAACTCCA1530990.2794527713152761RNA PCR Primer, Index 1 (100% over 28bp)
TGTAACAGCAACTCCATGTGGATGGAATTCTCGGGTGCCAAGGAACTCCA1425310.2601629203870543RNA PCR Primer, Index 1 (100% over 28bp)
ATGACCTATGAATTGACAGCTGGAATTCTCGGGTGCCAAGGAACTCCAGT1397910.25516157750823826RNA PCR Primer, Index 1 (100% over 30bp)
TATTGCACTTGTCCCGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA1295000.23637733679075804RNA PCR Primer, Index 1 (100% over 28bp)
TGAGATGAAGCACTGTAGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGT1181540.21566739653417158RNA PCR Primer, Index 1 (100% over 30bp)
ATGACCTATGAATTGACAGCCATTGGAATTCTCGGGTGCCAAGGAACTCC1128250.2059403322271604RNA PCR Primer, Index 1 (100% over 27bp)
TTGGTCCCCTTCAACCAGCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA1011860.1846955768379123RNA PCR Primer, Index 1 (100% over 28bp)
TACGACCTCAGATCAGACGAGACAACCCGCTGGAATTCTCGGGTGCCAAG962320.17565300288840327No Hit
ATTACCTATGAATTGACAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAG952770.1739098341112977RNA PCR Primer, Index 1 (100% over 29bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCTGGAATTCTCGGGTGCCAAG939050.17140551205664967No Hit
TCCCATATGGTCTAGCGGTTAGGATTCCTTGGAATTCTCGGGTGCCAAGG924940.16883000300482143Illumina Small RNA Adapter 2 (100% over 21bp)
ACAGTAGTCTGCACATTGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG895800.16351105660012435RNA PCR Primer, Index 1 (100% over 29bp)
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT893420.16307663338656295RNA PCR Primer, Index 1 (100% over 30bp)
ACCCTGTAGAACCGAATTTGCGTGGAATTCTCGGGTGCCAAGGAACTCCA874730.159665133444772RNA PCR Primer, Index 1 (100% over 28bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCTGGAATTCTCGGGTGCCAAG833160.15207732966840767No Hit
TAACGGAACCCATAATGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC824670.1505276434990227RNA PCR Primer, Index 1 (100% over 27bp)
TCCTTCATTCCACCGGAGTCTGTTGGAATTCTCGGGTGCCAAGGAACTCC823770.15036336581322218RNA PCR Primer, Index 1 (100% over 27bp)
CTACGCCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCA821990.15003846105686114RNA PCR Primer, Index 1 (100% over 28bp)
ATTCGATCTTCTAAGGCTACTCTAGCTTGGCGGTTCTGGAATTCTCGGGT819180.14952554961563952No Hit
GATGGGAGACCGCCTGGGAATACCAGGTGCTGTAAGCTTTGGAATTCTCG812850.1483701298921758No Hit
GTGTAATGGTTAGCACTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT737500.13461643697543169RNA PCR Primer, Index 1 (100% over 30bp)
AACATTCAACGCTGTCGGTGATGGAATTCTCGGGTGCCAAGGAACTCCAG708550.12933217141551473RNA PCR Primer, Index 1 (100% over 29bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCA696350.12710529611910762No Hit
TAGCTTATCAGACTGGTGTTGGTGGAATTCTCGGGTGCCAAGGAACTCCA681070.12431622607573865RNA PCR Primer, Index 1 (100% over 28bp)
CTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACG679950.124111791622298RNA PCR Primer, Index 6 (100% over 34bp)
GGAATACCAGGTGCTGTAAGCTTTGGAATTCTCGGGTGCCAAGGAACTCC675500.12329952973139541RNA PCR Primer, Index 1 (100% over 27bp)
TTCAAGTAATCCAGGATAGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA673550.12294359474549425RNA PCR Primer, Index 1 (100% over 28bp)
ATGAACTATGAATTGACAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAG641650.11712086343767557RNA PCR Primer, Index 1 (100% over 29bp)
TTAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA631040.11518421205284939RNA PCR Primer, Index 1 (100% over 28bp)
TGAGGTAGTAGTTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA626940.11443583592864698RNA PCR Primer, Index 1 (100% over 28bp)
TACCCTGTAGATCCGGATTTGTTGGAATTCTCGGGTGCCAAGGAACTCCA626450.11434639585526668RNA PCR Primer, Index 1 (100% over 28bp)
TTCACAGTGGCTAAGTTCTGCTGGAATTCTCGGGTGCCAAGGAACTCCAG619610.1130978854431827RNA PCR Primer, Index 1 (100% over 29bp)
TACGACCTCAGATCAGACGAGACAACCCGTGGAATTCTCGGGTGCCAAGG615990.11243712408474058Illumina Small RNA Adapter 2 (100% over 21bp)
ATGACCTATGAATTGACAGCCTGGAATTCTCGGGGGCCAAGGAACTCCAG551840.100727775702403RNA PCR Primer, Index 1 (96% over 29bp)

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GACCTAT8834150.043.682823
TGACCTA8757050.043.6748052
CCTATGA9178600.043.642215
ACCTATG9152200.043.6115954
TCCCATA893850.043.611541
AATTGAC9394900.043.5885711
CTATGAA9421350.043.578016
GAATTGA9400200.043.55257810
TATGAAT9435050.043.5293587
ATGACCT8744550.043.477781
ACAGCCA4031300.043.4505816
CAGCCAT3961700.043.44728517
ATGAATT9451050.043.4459348
ATTGACA9436650.043.4166112
TTGACAG9420600.043.36263313
TCAACGC1086950.043.3361976
TAGCTTA653450.043.286321
GACAGCC9210350.043.28582415
CAACGCT1090100.043.210977
TTCAACG1074850.043.1844525