FastQCFastQC Report
Wed 5 Oct 2016
example_R1.fastq

Summary

[OK]Basic Statistics

MeasureValue
Filenameexample_R1.fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences247412
Sequences flagged as poor quality0
Sequence length35-301
%GC52

[FAIL]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

[WARN]Sequence Length Distribution

Sequence length distribution

[FAIL]Sequence Duplication Levels

Duplication level graph

[FAIL]Overrepresented sequences

SequenceCountPercentagePossible Source
CCTACGGGAGGCAGCAGTGGGGAATCTTCCGCAATGGACGAAAGTCTGAC4728519.111845828011575No Hit
CCTACGGGAGGCAGCAGTAGGGAATCTTCGGCAATGGACGGAAGTCTGAC2904311.738719221379723No Hit
CCTACGGGAGGCAGCAGTGGGGAATTTTGGACAATGGGCGCAAGCCTGAT193197.808432897353403No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGACGGAAGTCTGAA189427.656055486395162No Hit
CCTACGGGAGGCAGCAGTGGGGAATATTGGACAATGGGGGCAACCCTGAT122574.954084684655554No Hit
CCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGAT119484.82919179344575No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGGCGAGAGCCTGAA116994.728549949072802No Hit
CCTACGGGAGGCAGCAGTGGGGAATATTGGACAATGGACCAAAAGTCTGA83163.3611950915881197No Hit
CCTACGGGAGGCAGCAGTGAGGAATCTTCCACAATGGGCGAAAGCCTGAT71192.8773867071928603No Hit
CCTACGGGAGGCAGCAGTAGGGAATCTTCCGCAATGGACGCAAGTCTGAC45641.8446962960567796No Hit
CCTACGGGAGGCAGCAGTAGGGAATCTTCGGCAATGGGGGGAACCCTGAC42831.7311205600375084No Hit
CCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGGGAAACCCTGAT30521.2335699157680307No Hit
CCTACGGGAGGCAGCAGTGGGGAATCTTCCGCAATGGGCGAAAGCCTGAC26831.0844259777213716No Hit
CCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGAAAGCCTGAT26651.077150663670315No Hit
CCTACGGGAGGCAGCAGTAGGGAATCTTCGGCAATGGACGAAAGTCTGAC23200.9377071443583981No Hit
CCTACGGGAGGCAGCAGTAGGGAATCTTCCGCAATGGGCGAAAGCCTGAC18250.7376360079543434No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGGCGCAAGCCTGAA17310.6996427012432703No Hit
CCTACGGGAGGCAGCAGTAGGGAATCTTCGGCAATGGGGGCAACCCTGAC16880.6822627843435242No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGATGAAAATCTGAA15150.6123389326305919No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGACGAAAGTCTGAA13360.5399899762339742No Hit
CCTACGGGAGGCAGCAGTGGGGAATTTTGGACAATGGGCGAAAGCCTGAT11200.45268620762129563No Hit
CCTACGGGAGGCAGCAGTGGGGAATCTTCCGCAATGGGCGCAAGCCTGAC10410.4207556626194364No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGACGCAAGTCTGAA9380.3791246988828351No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGTCGGAAGACTGAA9210.37225356894572614No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGGCGGAAGCCTGAA8940.36134059786914136No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGGCGCGAGCCTGAA7890.31890126590464485No Hit
CCTACGGGAGGCAGCAGTGGGGAATATTGCGCAATGGGGGCAACCCTGAC6620.2675698834333015No Hit
CCTACGGGAGGCAGCAGTAGGGAATATTGCTCAATGGGGGAAACCCTGAA6360.25706109647066433No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGACAATGGGTGGAAGCCTGAT6060.24493557305223676No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGATGGAAATCTGAA5690.22998076083617608No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGACAATGGTCGGAAGACTGAT5640.22795984026643817No Hit
CCTACGGGAGGCAGCAGTGGGGAATATTGGACAATGGGGGAAACCCTGAT5050.20411297754353064No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGGCGTAAGCCTGAA4980.20128368874589753No Hit
CCTACGGGAGGCAGCAGTGGGGAATCTTGCACAATGGGCGAAAGCCTGAT4610.18632887652983687No Hit
CCTCGGGAGGCAGCAGTGGGGAATCTTCCGCAATGGACGAAAGTCTGACG4270.17258661665561895No Hit
CCTACGGGAGGCAGCAGTGGGGAATCTTCCACAATGGGCGAAAGCCTGAT4080.16490711849061485No Hit
ACTACGGGAGGCAGCAGTGGGGAATCTTCCGCAATGGACGAAAGTCTGAC4040.16329038203482452No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGGCGAAAGCCTGAA3920.15844017266745347No Hit
CCTACGGGATGCAGCAGTGGGGAATCTTCCGCAATGGACGAAAGTCTGAC3600.14550628102113072No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN3480.1406560716537597No Hit
CCTACGGGAGGCAGCAGTGAGGAATATTGGTCAATGGATGCAAATCTGAA2970.12004268184243286No Hit
CCTACGTGAGGCAGCAGTGGGGAATCTTCCGCAATGGACGAAAGTCTGAC2970.12004268184243286No Hit
CCTACGGGAGGCAGCAGTAGGGAATCTTCCGCAATGGACGAAAGTCTGAC2910.11761757715874736No Hit
CCTACGGGAGGCAGCAGTGGGGAATATTGGACAATGGACCAAGAGTCTGA2740.11074644722163841No Hit
ACTACGGGAGGCAGCAGTAGGGAATCTTCGGCAATGGACGGAAGTCTGAC2570.10387531728452944No Hit
CCTACGGGAGGCAGCAGTAGGGAATCTTTCACAATGGGCGAAAGCCTGAT2500.10104602848689634No Hit
CCTACGGAGGCAGCAGTGGGGAATCTTCCGCAATGGACGAAAGTCTGACG2480.10023766025900119No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CCTACGG235850.0293.615331
ATACTGG22700.0293.27682295
CTACGGG237950.0290.900422
ACGGGAG235850.0290.80834
GTTCTGA14900.0288.92657295
CGGGAGG235600.0288.619085
GGGAGGC235600.0288.369326
GATGGAA43150.0287.54678295
GAGGCAG238400.0287.204048
AGGCAGC238550.0286.722329
GGAGGCA238250.0286.33517
TACCGGG5400.0284.72263295
TACGGGA246500.0280.810363
ATGGTAG4500.0276.7504295
ATCCTGG450.0273.3337295
TGGTAGA400.0269.06287295
TTTGGAA36800.0268.22726295
CTCGGGA2000.0264.81522
TGAGGCA1400.0262.71357
GGGATGC2700.0261.545876
Produced by FastQC (version 0.11.5)