FastQCFastQC Report
Mon 5 Dec 2016
JM79_3_CTTGTA_L005_R1_001.fastq

Summary

[OK]Basic Statistics

MeasureValue
FilenameJM79_3_CTTGTA_L005_R1_001.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences9975410
Sequences flagged as poor quality0
Sequence length50
%GC51

[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

[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
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTAATCTCGTATGC366104336.70067696465609RNA PCR Primer, Index 12 (100% over 50bp)
TGGAGTGTGACAATGGTGTTTGTGGAATTCTCGGGTGCCAAGGAACTCCA1967591.9724402305268656RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGCTTGGAATTCTCGGGTGCCAAGGAACTCCA1775271.7796461498825613RNA PCR Primer, Index 1 (100% over 28bp)
ATGACCTATGAATTGACAGCCATGGAATTCTCGGGTGCCAAGGAACTCCA1495841.499527337723462RNA PCR Primer, Index 1 (100% over 28bp)
ATGACCTATGAATTGACAGCCTGGAATTCTCGGGTGCCAAGGAACTCCAG1399671.403120272750694RNA PCR Primer, Index 1 (100% over 29bp)
TTGCGGCCCCGGGTTCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTGG1378411.3818078655413661No Hit
TGAGGTAGTAGGTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA1088961.0916443534651707RNA PCR Primer, Index 1 (100% over 28bp)
CATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTAATCTCGTAT1017001.0195069676334105RNA PCR Primer, Index 12 (100% over 48bp)
AAGCTGCCAGCTGAAGAACTGTTGGAATTCTCGGGTGCCAAGGAACTCCA847410.849498917838966RNA PCR Primer, Index 1 (100% over 28bp)
CCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC740530.7423554520566071RNA PCR Primer, Index 1 (100% over 33bp)
TGGAGTGTGACAATGGTGTTTTGGAATTCTCGGGTGCCAAGGAACTCCAG729400.7311980159211501RNA PCR Primer, Index 1 (100% over 29bp)
TAGCTTATCAGACTGGTGTTGGCTGGAATTCTCGGGTGCCAAGGAACTCC690660.6923625194352914RNA PCR Primer, Index 1 (100% over 27bp)
ACTGTATAAGGTACATATGGTTGAGTGTCGTATGGAATTCTCGGGTGCCA642800.6443845415877644No Hit
TGGAGTGTGACAATGGTGTTTGTTGGAATTCTCGGGTGCCAAGGAACTCC634500.6360640815765969RNA PCR Primer, Index 1 (100% over 27bp)
TATTGCACTTGTCCCGGCCTGTTGGAATTCTCGGGTGCCAAGGAACTCCA626470.6280142871320578RNA PCR Primer, Index 1 (100% over 28bp)
TCAGTAACTGGAATCTGTCCCTTGGAATTCTCGGGTGCCAAGGAACTCCA625940.6274829806494169RNA PCR Primer, Index 1 (100% over 28bp)
TTCAAGTAATCCAGGATAGGTTTGGAATTCTCGGGTGCCAAGGAACTCCA486600.4877994989679622RNA PCR Primer, Index 1 (100% over 28bp)
ACCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCT462500.46364009098372905RNA PCR Primer, Index 1 (97% over 35bp)
AACATTCAACGCTGTCGGTGAGTGGAATTCTCGGGTGCCAAGGAACTCCA406870.4078729596076753RNA PCR Primer, Index 1 (100% over 28bp)
AACATTCAACGCTGTCGGTGAGTTGGAATTCTCGGGTGCCAAGGAACTCC376090.3770170850120446RNA PCR Primer, Index 1 (100% over 27bp)
GTTCTACAGTCCGACTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCT351770.35263713471426233RNA PCR Primer, Index 1 (97% over 35bp)
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTTGGAATTCT289260.28997304371449395No Hit
TGTAAACATCCTTGACTGGAAGCTTGGAATTCTCGGGTGCCAAGGAACTC283510.2842088696103719RNA PCR Primer, Index 1 (100% over 26bp)
TAACGGAACCCATAATGCAGCTGTGGAATTCTCGGGTGCCAAGGAACTCC282990.28368758777834696RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGTTTGTATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA282610.2833066510549441RNA PCR Primer, Index 1 (100% over 28bp)
AGCCTGTGATGATACAAGTTATCCCTGTCTGAACTCTGGTGTGGAATTCT279570.2802591572677213No Hit
TGAGATGAAGCACTGTAGCTCTTGGAATTCTCGGGTGCCAAGGAACTCCA256110.2567413269229034RNA PCR Primer, Index 1 (100% over 28bp)
TGTAAACATCCTACACTCTCAGCTTGGAATTCTCGGGTGCCAAGGAACTC248690.24930303616593202RNA PCR Primer, Index 1 (100% over 26bp)
GGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC239990.24058159013013RNA PCR Primer, Index 2 (100% over 34bp)
CTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC237220.23780476190953556RNA PCR Primer, Index 2 (100% over 34bp)
CACCACGTTCCCGTGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC235090.23566951132835642RNA PCR Primer, Index 2 (100% over 34bp)
AACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGCT231190.23175989758816928No Hit
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTTGGAATTCTCGGGTGCCA229010.22957452375391088No Hit
TGAGATGAAGCACTGTAGCTCTGGAATTCTCGGGTGCCAAGGAACTCCAG225610.22616614254451697RNA PCR Primer, Index 1 (100% over 29bp)
TGGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC221950.2224971204191106RNA PCR Primer, Index 1 (100% over 33bp)
TAGCTTATCAGACTGGTGTTGGTGGAATTCTCGGGTGCCAAGGAACTCCA215580.216111417976805RNA PCR Primer, Index 1 (100% over 28bp)
TCAGTAACTGGAATCTGTCCCTGTGGAATTCTCGGGTGCCAAGGAACTCC210680.2111993391750314RNA PCR Primer, Index 1 (100% over 27bp)
GATCCATGATGACATTAAAACATAACGTGACTGTTGGATGAAGCTTGCGG205230.2057359045893853No Hit
TGAGAACTGAATTCCATAGATGGTGGAATTCTCGGGTGCCAAGGAACTCC203600.20410188653899938RNA PCR Primer, Index 1 (100% over 27bp)
AGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGT193890.19436795079099506RNA PCR Primer, Index 1 (100% over 30bp)
CCGTCGAGCAGCATTCCGGGCTTCACATCGGAGGGCTCCAGCCGGCCCCG184530.18498487781454595No Hit
TTCAGTGATGTTTGACAAATGTCTGACCTGAACTGCAATGTGGACAGATC180880.18132588033975544No Hit
ATCCATGATGACATTAAAACATAACGTGACTGTTGGATGAAGCTTGCGGA179400.17984223204860753No Hit
GTTTCCGTAGTGTAGTGGTTATCACGTTCGCCTTGGAATTCTCGGGTGCC177380.17781725262420292No Hit
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGGAATCTCGTATGC176600.1770353298761655RNA PCR Primer, Index 12 (98% over 50bp)
CATTATTACTTTTGGTACGCGTGGAATTCTCGGGTGCCAAGGAACTCCAG172740.17316581473844184RNA PCR Primer, Index 1 (100% over 29bp)
TCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCAC169710.17012834560183493RNA PCR Primer, Index 1 (100% over 33bp)
TCCCTGGTGGTCTAGTGGTTAGGATTCGGCGCTCTGGAATTCTCGGGTGC165730.16613853465672088No Hit
CTACGCCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCA160780.161176332601868RNA PCR Primer, Index 1 (100% over 28bp)
TCGCTGCGATCCATTGAAAGTCAGCCCTCGATCCAAGTTTTTGTTGGAAT158150.15853984948989563No Hit
TGTAAACATCCTACACTCAGCTTGGAATTCTCGGGTGCCAAGGAACTCCA157290.15767772953693132RNA PCR Primer, Index 1 (100% over 28bp)
CTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC157160.1575474090789251RNA PCR Primer, Index 2 (100% over 34bp)
TGTCTGAGGGTCGCTTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCT151040.15141232290201606RNA PCR Primer, Index 1 (97% over 35bp)
TTCCAGTGATGACAGCCTATAATCTGACTTGGAATTCTCGGGTGCCAAGG147250.14761298031860345Illumina Small RNA Adapter 2 (100% over 21bp)
TCCCATATGGTCTAGCGGTTAGGATTCCTTGGAATTCTCGGGTGCCAAGG146740.14710172313719436Illumina Small RNA Adapter 2 (100% over 21bp)
ACAGTAGTCTGCACATTGGTTTGGAATTCTCGGGTGCCAAGGAACTCCAG146270.14663056455824874RNA PCR Primer, Index 1 (100% over 29bp)
TGTAACAGCAACTCCATGTGGATGGAATTCTCGGGTGCCAAGGAACTCCA145470.14582859250897956RNA PCR Primer, Index 1 (100% over 28bp)
TAACACTGTCTGGTAACGATGTTGGAATTCTCGGGTGCCAAGGAACTCCA145430.1457884939065161RNA PCR Primer, Index 1 (100% over 28bp)
TCCTCCCGGGGCTACGCCTGTCTGAGGGTCGCTTGGAATTCTCGGGTGCC144500.14485620139924074No Hit
TAGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAG144050.14440509212152683RNA PCR Primer, Index 1 (100% over 29bp)
TGGAGTGTGACAATGGTGTTTGATGGAATTCTCGGGTGCCAAGGAACTCC143950.1443048456153682RNA PCR Primer, Index 1 (100% over 27bp)
TGAGGTAGTAGGTTGTATAGTTTTGGAATTCTCGGGTGCCAAGGAACTCC142240.14259063036005537RNA PCR Primer, Index 1 (100% over 27bp)
ACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTT140390.14073606999612046RNA PCR Primer, Index 12 (100% over 36bp)
TGAGGTAGTAGGTTGTATAGTTGGAATTCTCGGGTGCCAAGGAACTCCAG139610.13995414724808303RNA PCR Primer, Index 1 (100% over 29bp)
TGAGGTAGTAGATTGAATAGTTTGGAATTCTCGGGTGCCAAGGAACTCCA137030.13736778738919003RNA PCR Primer, Index 1 (100% over 28bp)
TGGACGTGATGAGCAGGTGTTACCGCCCCAGTCTGATGTTTGGTGACTGA135260.135593424230182No Hit
ATGACCTATGAATTGACAGCCATTGGAATTCTCGGGTGCCAAGGAACTCC134000.1343303182525831RNA PCR Primer, Index 1 (100% over 27bp)
CAGAGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCC130160.13048085241609117RNA PCR Primer, Index 1 (100% over 27bp)
TCCAGTGATGACAGCCTATAATCTGACTTGGAATTCTCGGGTGCCAAGGA129210.12952851060758405RNA PCR Primer, Index 1 (100% over 22bp)
TTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA125940.12625044985619638RNA PCR Primer, Index 1 (100% over 32bp)
TATTGCACTTGTCCCGGCCTGTTTGGAATTCTCGGGTGCCAAGGAACTCC125860.12617025265126947RNA PCR Primer, Index 1 (100% over 27bp)
TGAGAACTGAATTCCATAGATGTGGAATTCTCGGGTGCCAAGGAACTCCA124750.12505751643290852RNA PCR Primer, Index 1 (100% over 28bp)
TTCACAGTGGCTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT124250.1245562839021153RNA PCR Primer, Index 1 (100% over 30bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCTGGAATTCTCGGGTGCCAAGGA120630.1209273603791724RNA PCR Primer, Index 1 (100% over 22bp)
CAACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGC120070.12036597994468398No Hit
TCTGACACCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTAA118840.11913294791893266RNA PCR Primer, Index 12 (100% over 40bp)
TGGCTGTGATGAGAAACTTGCCCTCACTGAAACGTGATTGAGACATCTTT118810.11910287396708506No Hit
TACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCT118160.11845127167705387RNA PCR Primer, Index 1 (97% over 35bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTATCTCGTATGCC118090.11838109912274282RNA PCR Primer, Index 12 (97% over 39bp)
CATTGCACTTGTCTCGGTCTGATGGAATTCTCGGGTGCCAAGGAACTCCA118020.11831092656843177RNA PCR Primer, Index 1 (100% over 28bp)
TGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTAACTCGTATGCC117160.11744880661546744RNA PCR Primer, Index 12 (97% over 40bp)
TTCACAGTGGTTAAGTTCTGTGGAATTCTCGGGTGCCAAGGAACTCCAGT117130.11741873266361985RNA PCR Primer, Index 1 (100% over 30bp)
GTTGGGCGCCATGGAATTCTCGGGTGCCAAGGAACTCCAGTCACCTTGTA115410.11569449275769116RNA PCR Primer, Index 12 (100% over 39bp)
TTCAAGTAATCCAGGATAGGTGGAATTCTCGGGTGCCAAGGAACTCCAGT114500.11478224955164751RNA PCR Primer, Index 1 (100% over 30bp)
GTTCTACAGTCCGACGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCACC111640.11191519947551028RNA PCR Primer, Index 2 (100% over 34bp)
GCATTGGTGGTTCAGTGGTAGAATTCTCGCCTGGAATTCTCGGGTGCCAA110280.11055184699175272No Hit
AGAGTTCTACAGTCCGACGATCTGGAATTCTCGGGTGCCAAGGAACTCCA109630.10990024470172154RNA PCR Primer, Index 1 (100% over 28bp)
TAGCAGCACGTAAATATTGGAGTGGAATTCTCGGGTGCCAAGGAACTCCA105950.10621117327508343RNA PCR Primer, Index 1 (100% over 28bp)
TAACACTGTCTGGTAACGATGTGGAATTCTCGGGTGCCAAGGAACTCCAG102210.10246195394475015RNA PCR Primer, Index 1 (100% over 29bp)
CTGGACAACTCTTAGCGGTGGAATTCTCGGGTGCCAAGGAACTCCAGTCA101160.10140936563008437RNA PCR Primer, Index 1 (100% over 32bp)

[WARN]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
ACCATCG2150.044.0439571
CGCTAAA254.4191827E-544.0439571
GGTTAAC254.4191827E-544.0439571
GGTATGC207.8438653E-444.01767344
AATCGCG207.856853E-444.00288839
TACACTA351.4468424E-744.00288440
CACTATC254.444507E-544.00134320
ACGTATA207.8582106E-444.00134320
TTCACTA254.4446388E-544.0011218
TTGCGAA302.529585E-644.0002426
GCCCCCC207.859375E-444.0000225
TACGGTG254.4452965E-544.0000225
CCAATAA207.859569E-443.999828
CCATCGG650.043.9989229
ATAGATA1700.043.99847816
TACATCG950.043.99847816
TACGCAT254.446217E-543.99847416
CCCCCGA302.5302834E-643.99847416
TAAGGGC650.043.99847416
GCCAGTA2700.043.99847416