FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n02_spleen_fn--_red-b-red_transmission_pcr2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n02_spleen_fn--_red-b-red_transmission_pcr2.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences485502
Sequences flagged as poor quality0
Sequence length150
%GC49

[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
GCACTGGAGATGGTGAGAGGCAGGAGTTACTCTAATGAACATATGTGTCC61321.2630226034084309No Hit
GCACTGGAGATGGAGCGTGCACCACTTGGCTCTGCTCTGCTTCTTATGAA48150.9917569855530977No Hit
GCACTGGAGATGGCTGGCACAGGCCATCAGACTCCCTAGAAAGCAGCAGT29980.6175051802052309No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC28930.5958780808317988No Hit
GCACTGGAGATGGGAAACAAGGACAGATATAAATACAGAAAGCATCTATT25090.5167846888375331No Hit
GCACTGGAGATGGCGGTCAGGGACAGCCAGCCTTTTACCCTAGATGGTTC14900.3068988387277498No Hit
GCACTGGAGATGGAGATGCCGAGGACGAATGAGTTGCAGATGCAGTTGGG13640.2809463194796314No Hit
GGAGATGGAGCGTGCACCACTTGGCTCTGCTCTGCTTCTTATGAAGACAT13300.2739432587301391No Hit
GCACTGGAGATGGACCTGGCCCGCCTTTTGCTGCCACACAGCTTGATGGT13020.26817603223055725No Hit
GCACTGGAGATGGGAAGCAAGACCCGGCTTCGTGTGGAAAGACCAGCTTC7820.1610703972383224No Hit
GCACTGGAGATGGAGGGCTAAAGGGTAGGGGATGGGCTTCTTAGCCACAG7340.1511837232390392No Hit
GGTCTGAACAGACCCTAGCATCCATCCATCTCGGTTTGAGCACTCTCTTC6980.14376871773957678No Hit
GAGATGGAGCGTGCACCACTTGGCTCTGCTCTGCTTCTTATGAAGACATG6730.13861940836495007No Hit
GAACATATGTGTCCACTAAGCAAAGATGGCCGGGATACAGTGTCCGATGG6110.12584912111587593No Hit
TTTCTAACCTACACCTCATGAGGCTCTGGTGAGAGAAGGAATAAGGAGCA6090.12543717636590582No Hit
TACTACAACCCATCAGAGTCCCTAATTACAATCTCTACATCATGGATGAA5950.12255356311611487No Hit
GATATAAATACAGAAAGCATCTATTCTGTTTCATGAAAGTGAGATGAATG5950.12255356311611487No Hit
TCCTTAGAGGGTACTCCCTGGAAAAGTACAGTGTATCCTAAAAATATAAA5660.11658036424154793No Hit
GTCTACGACAATCCTTAGAGGGTACTCCCTGGAAAAGTACAGTGTATCCT5610.11555050236662259No Hit
GGTTAGAAATGACCCAACAGCCAGCAGGTGGCAAAGGCTACCATCAGCCT5220.10751757974220497No Hit
GTCTTGAGGCATCGAGGATGCTGATTGTCTGTGTCTGTGCACAGCATCTG5110.10525188361736924No Hit
CCTCAAGACTGCTCCTTGGTGAATTATAAGCATATAAAGGAAAGCTTTGC5100.10504591124238416No Hit
GTATGACACCAAGTCCTGCTTGACATCCCCCCAGTATGGATCAAGTCTTC4990.10278021511754844No Hit
GTTTAGGAGAGGATGGAAATTTGTTTCACACCTGGCTGCTCCTTATTCCT4930.10154438086763803No Hit
CATTAATAGGGTCTACTACCCTCACAGCTGTCAATCCCAGGGCCATGACA4860.10010257424274255No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
ACTGGAG46100.0110.869543
GATGGCG3850.0110.306579
TGGAGAT51000.0100.7819755
GCACTGG51100.099.749771
CACTGGA52850.096.7192462
CTGGAGA53850.095.581794
GGAGATG59350.088.179686
GAGATGG64950.079.025137
GATGGGA8150.075.954059
AGATGGG15600.059.0602768
AGATAAG2600.058.1494371
AGATGGT21400.054.152968
GATGGCT20400.053.631949
GATGGAG25750.043.6071249
AGATGGA32400.043.543288
GATTTAA750.001534489338.397091
AGATGGC48250.035.2066548
GATGGTG31250.031.325579
GATGGAC7350.029.3794739
TAAGGCC6950.029.0020083
Produced by FastQC (version 0.11.2)