FastQCFastQC Report
Wed 2 Dec 2015
MT.R1.fq

Summary

[OK]Basic Statistics

MeasureValue
FilenameMT.R1.fq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences16493393
Sequences flagged as poor quality0
Sequence length101
%GC42

[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

[WARN]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

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
GAGGAAGGGTTTCAATGCAATTGTATTAAGCATTGAGTTAGTCGATCTTA1316250.7980468300246044No Hit
AACACGGACCAAGGAGTATAACATTTAGGCGAGGATATAAGTGATTAAAC1008770.6116206653173183No Hit
CGCCAGACATATATGCTTGTTTAAAGGACTAAGCCATGCAAATCTAAGTA925900.5613763038326923No Hit
AGGCGAGGATATAAGTGATTAAACTTGAATCCGGAATGAAAGTAACAAAG569440.34525339934602906No Hit
AGTCAAGGGATCATTAGGTTTTCAGATTGATGAAGATCGTAGCAAAGTAC553860.3358071926134301No Hit
CAAACAAGTACTGTGAAGGAAAATTGAAATAGAACTTTGAAAAGAGAGTT526670.31932180358522955No Hit
AGTACAGCTTGGGATTGTTGTATGAAAATATAGGTGGTAAATGGCACCTA512090.31048190023726474No Hit
TGGTGGTAGTAGCAAGTAGTCAAGTGAGAACCTTGATAACCGATGTGAGG497500.3016359338554535No Hit
GGAGATTAGTTATTGTAGCAATACAGTGATTGGTTTTTCGATCAAATACT492930.2988651273876758No Hit
CTCAGGATAGCAGTAGAAACAATTTTAAAGTAGTTACATCTGGTAAAGAT431390.2615532170972947No Hit
TGCCAGTAGTCATATGCTTGTCTCAAAGATTAAGCCATGCAAGTGTAAGT428020.2595099746910778No Hit
GGTTCCAGCTGAAATTTCTCTCAGGATAGCAGTAGAAACAATTTTAAAGT383440.23248096980409064No Hit
GTGAAGGAAAATTGAAATAGAACTTTGAAAAGAGAGTTAAATATTAGAAT357620.21682621641283878No Hit
CGATAGGGAGATTAGTTATTGTAGCAATACAGTGATTGGTTTTTCGATCA340650.20653724797559847No Hit
GATGGAAGTTCGTAGCAATACTGACGTGCAAATCGTTTGTCAAATATGAG337760.204785031194006No Hit
AGCAAACAAGTACTGTGAAGGAAAATTGAAATAGAACTTTGAAAAGAGAG321280.1947931514152364No Hit
TAGCAGTTGTTAGATAATATGGGTGTTTTATTGATTAGTATGTACTATTT321220.19475677321215834No Hit
CACCTGGCAAATGCAATAGCCTTGAAAATTAATGGCGCTGAAAGTGTATA308000.18674144246729585No Hit
TTAGGTTTTCAGATTGATGAAGATCGTAGCAAAGTACGTTAATTAGTATG278740.16900100543290275No Hit
GGATATGTAAAGGCAACTTAAATGAATACCATGACAATAATGATAATTCA261480.15853620901411855No Hit
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGTATCTCGTATG259900.15757824966639672TruSeq Adapter, Index 2 (100% over 49bp)
GGCACCTAACGCTAAATATAACTGAAAAACCGATAGCAAACAAGTACTGT257460.15609886940788956No Hit
CAGGATAGCAGTAGAAACAATTTTAAAGTAGTTACATCTGGTAAAGATAA245390.14878078755535626No Hit
ATACATGGTGAGGGTTATGTTGGTTGAGCAATTGATTAATATAATTCGTC243660.1477318826999393No Hit
GATCCCGCCAGACATATATGCTTGTTTAAAGGACTAAGCCATGCAAATCT242670.14713164234915155No Hit
ATATGTTGTGACCCGAAAGATGGTGAACTATACTTGTGTAGAATAAAGTC242430.14698612953683937No Hit
GGTGTGATGCATTATAATTTATTAAGATATGAAGAAGACAAAGAGTAATC227260.13778850719194044No Hit
GCACCATAGAGAGTGATAGTCTCGTATATGATATAATTATTGGTAATCTC223910.1357573908534163No Hit
GGCAAATGCAATAGCCTTGAAAATTAATGGCGCTGAAAGTGTATAGACAT222930.1351632135364749No Hit
TGTAAGCTGGTGTGATGCATTATAATTTATTAAGATATGAAGAAGACAAA222020.13461147745645788No Hit
TGTAACACGGACCAAGGAGTATAACATTTAGGCGAGGATATAAGTGATTA219910.13333217731487998No Hit
GTAACACGGACCAAGGAGTATAACATTTAGGCGAGGATATAAGTGATTAA219510.13308965596102634No Hit
ACAGCTTGGGATTGTTGTATGAAAATATAGGTGGTAAATGGCACCTAACG211430.12819072461318298No Hit
AAGCAGAATATGTGATGCGGGATGAACCGAAAGCTGTTTTAAATGTGCCC196470.11912042597905718No Hit
GAAAAACCGATAGCAAACAAGTACTGTGAAGGAAAATTGAAATAGAACTT193720.11745309167131347No Hit
GGACATTGTACTTTTGAATATGTTTTTCTATTTGTGGACATTTTTTGGTA191070.11584638770203318No Hit
CCGCCAGACATATATGCTTGTTTAAAGGACTAAGCCATGCAAATCTAAGT190060.11523402128355276No Hit
TAGGCGAGGATATAAGTGATTAAACTTGAATCCGGAATGAAAGTAACAAA187910.11393046900658949No Hit
GAAAGTGTATAGACATATAAACGGCAGTAATAATAATAAAATATTATATT187840.1138880277696651No Hit
AAGCTGGTGTGATGCATTATAATTTATTAAGATATGAAGAAGACAAAGAG183250.11110509523419468No Hit
GGACCAAGGAGTATAACATTTAGGCGAGGATATAAGTGATTAAACTTGAA182580.11069887196648986No Hit
TGCACCATAGAGAGTGATAGTCTCGTATATGATATAATTATTGGTAATCT177830.10781893088947797No Hit
ACCACTCGTGATTCATCAAAATATCGAACGCAACTTGCAGTGTATCTTCA177650.10770979628024384No Hit
AGTAGCTGGTTCCAGCTGAAATTTCTCTCAGGATAGCAGTAGAAACAATT171700.10410229114167109No Hit
GCAACCACTCGTGATTCATCAAAATATCGAACGCAACTTGCAGTGTATCT170750.10352630292626872No Hit
CACTAGTCAAGGGATCATTAGGTTTTCAGATTGATGAAGATCGTAGCAAA169500.10276842369547612No Hit
ACATGGTGAGGGTTATGTTGGTTGAGCAATTGATTAATATAATTCGTCTG167200.10137392591081774No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
TGCCAGT208000.042.2510381
TAGTCAT208300.038.210127
ACGGACC346850.037.1453444
CACGGAC348300.037.0458073
GCCAGTA222500.036.6948742
ACACGGA354500.036.429442
CAGTAGT221500.036.340624
CGGACCA357850.036.0831575
CCAGTAG226100.036.0218853
AACACGG359350.035.473571
GGGTTTC371800.035.1505977
GCCAGAC274500.034.986322
AGTCATA228750.034.897988
GTCATAT228250.034.7038469
GAAGGGT387750.034.0233234
GGTTTCA402550.033.527258
CAGACAT290700.033.1298334
GGAAGGG401900.032.9322853
CCAGACA293000.032.918893
GGACCAA397850.032.538796
Produced by FastQC (version 0.11.3)