FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n01_spleen_fn--_red-b-red_transmission_pcr2.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n01_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
GCACTGGAGATGGTGAGAGGCAGGAGTTACTCTAATGAACATATGTGTCC66591.3715700450255612No Hit
GCACTGGAGATGGAGCGTGCACCACTTGGCTCTGCTCTGCTTCTTATGAA50861.0475754991740507No Hit
GCACTGGAGATGGCTGGCACAGGCCATCAGACTCCCTAGAAAGCAGCAGT33390.6877417600751388No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC32730.6741475833261243No Hit
GCACTGGAGATGGGAAACAAGGACAGATATAAATACAGAAAGCATCTATT25170.5184324678374136No Hit
GCACTGGAGATGGCGGTCAGGGACAGCCAGCCTTTTACCCTAGATGGTTC16890.34788734134977817No Hit
GCACTGGAGATGGAGATGCCGAGGACGAATGAGTTGCAGATGCAGTTGGG15370.316579540352048No Hit
GCACTGGAGATGGACCTGGCCCGCCTTTTGCTGCCACACAGCTTGATGGT14700.30277939122804853No Hit
GGAGATGGAGCGTGCACCACTTGGCTCTGCTCTGCTTCTTATGAAGACAT13830.2848597946043477No Hit
GCACTGGAGATGGGAAGCAAGACCCGGCTTCGTGTGGAAAGACCAGCTTC8360.172192905487516No Hit
GCACTGGAGATGGAGGGCTAAAGGGTAGGGGATGGGCTTCTTAGCCACAG8110.16704359611288933No Hit
TACTACAACCCATCAGAGTCCCTAATTACAATCTCTACATCATGGATGAA7780.16024650773838214No Hit
GAGATGGAGCGTGCACCACTTGGCTCTGCTCTGCTTCTTATGAAGACATG7480.15406733648883011No Hit
GGTCTGAACAGACCCTAGCATCCATCCATCTCGGTTTGAGCACTCTCTTC7150.1472702481143229No Hit
GAACATATGTGTCCACTAAGCAAAGATGGCCGGGATACAGTGTCCGATGG6340.13058648574053247No Hit
GATATAAATACAGAAAGCATCTATTCTGTTTCATGAAAGTGAGATGAATG6290.12955662386560715No Hit
TCCTTAGAGGGTACTCCCTGGAAAAGTACAGTGTATCCTAAAAATATAAA6280.12935065149062208No Hit
GTTCAGACCATGCGGCCCTGAAGTCGTTCAAAGAATTCGCCGCTGGAAAA6260.12893870674065194No Hit
TTTCTAACCTACACCTCATGAGGCTCTGGTGAGAGAAGGAATAAGGAGCA6220.12811481724071166No Hit
CCTCAAGACTGCTCCTTGGTGAATTATAAGCATATAAAGGAAAGCTTTGC6120.126055093490861No Hit
GTCTACGACAATCCTTAGAGGGTACTCCCTGGAAAAGTACAGTGTATCCT6060.1248192592409506No Hit
CTATTAATGTGGTAGGACTACTGTTACTCACAAGGAGTGGGAAGCGGAGC6040.12440731449098047No Hit
CTCTAGGAGATGCCTAAAACCAGTCATACTTGATGGTGAGAGAGTCATCT5940.12234759074112979No Hit
TCCCATGACAGCCCGCATGGGGACAGAGTAGGTTTGCTGGCTGCTTAGGG5420.11163702724190633No Hit
GGTTAGAAATGACCCAACAGCCAGCAGGTGGCAAAGGCTACCATCAGCCT5390.1110191101169511No Hit
TGCTAGTGCTGCTCAGAGGAGAGGACGTATAGGCAGGAACCCTAACAAAC5340.10998924824202577No Hit
CATTAATAGGGTCTACTACCCTCACAGCTGTCAATCCCAGGGCCATGACA5190.10689966261724977No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG5160.10628174549229456No Hit
CCTTATTCCTTCTCTCACCAGAGCCTCATGAGGTGTAGGTTAGAAATGAC5120.10545785599235431No Hit
GTTTAGGAGAGGATGGAAATTTGTTTCACACCTGGCTGCTCCTTATTCCT5060.10422202174244391No Hit
CTCCTAGAGTCTATGACCCGGTCAGCCTTGAAGTTGGCGCCCATCTCTGA4990.10278021511754844No Hit
GGAGATGGTGAGAGGCAGGAGTTACTCTAATGAACATATGTGTCCACTAA4870.10030854661772765No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
ACTGGAG51650.0114.168443
TGGAGAT55150.0106.531285
GCACTGG57300.0102.031421
GATGGCG3050.0101.5081949
CTGGAGA58850.099.955814
CACTGGA60750.097.0666662
GGAGATG66450.090.4740456
GTAATAC259.645362E-486.43
GAGATGG67900.085.9970557
GATGGGA7000.081.257149
GGGTAAT300.001989000272.01
AGATGGG14600.064.109598
AGATGGT23850.060.377368
AGATAAG3200.058.51
AGATGGA34150.055.0278178
GATGGAG27450.052.983619
GATGGCT22350.052.187929
TATTGAT907.7879944E-540.02
TTGGGCA750.001533918238.44
GATGGTG34700.036.7262279
Produced by FastQC (version 0.11.2)