FastQCFastQC Report
Thu 22 Feb 2018
HVHNVAFXX_n02_spinal_cord_fn--_red-b-red_transmission_pcr3.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHVHNVAFXX_n02_spinal_cord_fn--_red-b-red_transmission_pcr3.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences452823
Sequences flagged as poor quality0
Sequence length150
%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

[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

[WARN]Overrepresented sequences

SequenceCountPercentagePossible Source
GTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCA34190.7550411529449697No Hit
CCCAAGTAGCGGACTTGGGTGGATAGATAGTCCATGTACTTTTCTTCATC22690.5010787879590922No Hit
TATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTG19050.42069417852008395No Hit
CCATAAGTCCTCCCTTTTTCCTAGATAGGGAATGTCTGTCCATTTTGTTA16180.3573140056931737No Hit
GTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGGAG13750.3036506537874622No Hit
GGTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTC13580.29989642752245355No Hit
ACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCCAG13470.2974672222921539No Hit
CCTATGATCCTGCGCACCATGTTGACTGTGTCTTTGATGTTTTCAGCCCA12830.283333664588592No Hit
ACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGCCTCCGCCTGGGC12360.27295433315003875No Hit
CCTTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATA11800.26058747015942213No Hit
GGGAAATCCATTGTGGTCCCTTGCCGCCACCAAGATGAACTGATTGGCCG11140.24601223877762393No Hit
ATCTATGCCGCATTGACAACTCTCATCACCCCAGCTGTCCAACATGCGGT11050.24402470722556055No Hit
ATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGAC11000.24292052302996975No Hit
GAGTAACACTTGTCCCATCTTCTTCTCCACCTGGGGGTCTATTGTCATTG10880.24027048096055192No Hit
CCATGTTGACTGTGTCTTTGATGTTTTCAGCCCAAGTGGTGCGGGGTCTG10470.23121617055670757No Hit
CTCTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTT10360.22878696532640788No Hit
CTATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCC9970.22017432860079988No Hit
CTGTATAGATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTG9950.21973265492256358No Hit
CATCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGA9940.2195118180834454No Hit
GATAAGGGAAGCTCCTGCCAGATAGCTTCCTCTGAAGATGTTGCACAGTG9860.2177451233705002No Hit
ATTCCACACCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCAT9830.2170826128531457No Hit
ATACAGGACATGGGCCTACCATGGGAGCTACGAAGCCCCCACGCAAGGAT8960.1978698078498663No Hit
GGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATCTGCGG8650.1910238658372035No Hit
TCTCTACACACTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAG8580.1894780079633764No Hit
GTCCTGTATGGGTGGTTTTCATCAAGAAACCATGTTTCTGCATGTTCATT8360.184619597502777No Hit
GGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATC8140.17976118704217764No Hit
CTATAAGGGATCCACACCATAAGTCCTCCCTTTTTCCTAGATAGGGAATG8100.178877839685705No Hit
GTCCTGAAGTGGAAGAGACACGAACACTCAGAGTGCTCTCTATGGTGGGG7520.16606930301685208No Hit
GTGTGGGGAAATCCATTGTGGTCCCTTGCCGCCACCAAGATGAACTGATT7270.1605483820388982No Hit
GTTGTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCC7090.15657331893477144No Hit
TTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTCCATGTACTTTT7090.15657331893477144No Hit
TCTAATGGGAAGGAGAGAAGAAGGAGCAACCATGGGATTCTCAATGGACA7010.15480662422182617No Hit
CTTCAGTGATACCTGACTTTTTATAAGAGTAGAACTCCAGGGCCGACATC6790.14994821376122677No Hit
CCTTAATGGCGATGGCCACACAAGCTGGAGTGCTGTTTGGCATGGGCAAA6390.1411147401965006No Hit
GTGTGGACCCTTCCTCACCCAAGTAGCGGACTTGGGTGGATAGATAGTCC6350.140231392840028No Hit
AGTACATGTAGTGCGCCACAAGCAGAATGATAGCTACTATCAGAGTCAGG6220.137360513931492No Hit
CTACATGTACTTGATCCCAGGCCTACAAGCGGCAGCAGCGCGTGCTGCCC6180.13647716657501938No Hit
CCATGAGCATGTCCTCAGTGGTCATCCATTCTCCCTTTCCATGGATTGAC6040.13338545082736522No Hit
TTCCTAGATAGGGAATGTCTGTCCATTTTGTTACAGGAGTCTTGTCCTCC6020.13294377714912892No Hit
GGATCTCCCATCCTTGAGGTACAGCTTGTTGAAGTGGTGGGAGCAGAACG5860.12941038772323843No Hit
GCCCAAGTGGTGCGGGGTCTGTGCCCTATAAGGGATCCACACCATAAGTC5840.12896871404500213No Hit
TCCCTTATCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGG5820.12852704036676582No Hit
GACTAATCCTCCCCCATGCCTACGTTGCAGTCGCTCCATGGTTTCCATCA5750.12698118249293874No Hit
GAAGAAGGAGCAACCATGGGATTCTCAATGGACATTGATCTGCGGCCAGC5730.12653950881470244No Hit
TCTATACAGTGACGAGAAACGCTGGCCTGGTTAAGAGACGTGGAGGTGGG5680.12543532461911167No Hit
GCACTGGAGATGGCTACTGCTATGAGTAACACTTGTCCCATCTTCTTCTC5570.12300611938881197No Hit
GAATAGTGGTAACTGACATTGACACAATGACAATAGACCCCCAGGTGGAG5560.12278528254969381No Hit
GGGGAAATCCATTGTGGTCCCTTGCCGCCACCAAGATGAACTGATTGGCC5430.11991440364115781No Hit
CTCTATGGTGGGGGACTGGCTTGAAAAAAGACCAGGGGCCTTCTGTATAA5420.11969356680203964No Hit
CTGTATAAAGGTGCTGTGCCCATACACCAGCACTATGATGGAAACCATGG5370.11858938260644888No Hit
GGTGGATAGATAGTCCATGTACTTTTCTTCATCACCTATGATCCTGCGCA5330.11770603524997626No Hit
CTCCAGTGCTGTGCTGCTGCGGACCGCCTGGGGATGGGGGGAGGCTGGAG5260.11616017737614918No Hit
ATTTTATGCATGGGACCTTGGAGTCCCGCTGCTAATGATGGGTTGCTATT5150.11373097214584948No Hit
GTACACACAGCTGTGACACTCTCCTCTCAGGTGGTGTTCTCTCTCCCTAT5070.11196427743290424No Hit
GTGTACAACATGATGGGAAAAAGAGAAAAGAAGCAAGGAGAGTTCGGGAA5040.1113017669155498No Hit
GTTCATTACCTGGCGAGTGCCTTCTTGGGGATCTGGCACCCTGGTGTCCA4990.11019758271995901No Hit
TTTATACAGAAGGCCCCTGGTCTTTTTTCAAGCCAGTCCCCCACCATAGA4970.1097559090417227No Hit
CCATATGGTCGTTCTCCTCAATCCACACTCTATTCCACACCATGAGCATG4900.10821005116789563No Hit
TCCCCAGGCGGTCCGCAGCAGCACAGCACTGGAGATGGCTACTGCTATGA4840.10688503013318669No Hit
ATCCACTAGGGCCCAAAACCTTGGATCATTCACAGCTTCCACAGCCGTCT4830.10666419329406854No Hit
TCATACAACAACTACTCCTTAATGGCGATGGCCACACAAGCTGGAGTGCT4820.1064433564549504No Hit
GTGTTACTCATAGCAGTAGCCATCTCCAGTGCTGTGCTGCTGCGGACCGC4820.1064433564549504No Hit
GAAGAGACCTTCGACTGATGGCTAATGCCATTTGCTCGGCTGTGCCAGTT4820.1064433564549504No Hit
GATAGATAGTCCATGTACTTTTCTTCATCACCTATGATCCTGCGCACCAT4790.10578084593759593No Hit
ACCATAGAGAGCACTCTGAGTGTTCGTGTCTCTTCCACTTCAGGACTAGA4710.1040141512246507No Hit
GCCTCCGCCTGGGCTATCTATGCCGCATTGACAACTCTCATCACCCCAGC4640.10246829335082361No Hit
CTCTTAACCAGGCCAGCGTTTCTCGTCACTGTATAGATAAGGGAAGCTCC4620.10202661967258729No Hit
TCCCAGGAGGAGCTGACTTGTGGTGGACACACTTTTTATGATGTTGCTCT4610.10180578283346915No Hit
CCACTATTCCATCCACAACGGGATTCTTCATGATGCCAGCTGCTGTCCTT4570.10092243547699653No Hit
TCTTTCCTCCTGGTGCCCGATTCATTTCTTCTAGAATGTATCCAAGTCTT4540.10025992495964206No Hit
GTACCAGATGGCGCGGCTACCTTTTGCTTTCCCGAACTCTCCTTGCTTCT4530.10003908812052391No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CATCTAA1950.0121.81991
CTAGAGT458.913048E-11111.975874
CTCCGGG1100.091.6166151
ACTAGAG554.4019544E-1091.6166153
TCCGGGT1100.091.6166152
ATCTAAT3700.071.984491
TGCCGTG300.001990614271.984495
CCGGGTG1500.067.185523
GACAAAG954.8567017E-1060.6185151
TCTAATG4650.057.2779772
TAATGGG4750.056.0721244
CTAATGG4850.054.9159973
ACAGGGC400.006221936553.9883653
TGGACCC4050.053.3218425
GTGGACC4050.053.3218424
TGTGGAC6450.051.3377763
AATGGGA5450.050.1910175
ACAGTGT450.00991124547.989663
ACACCTC450.00991124547.989665
GGACAGT605.1191926E-447.989661
Produced by FastQC (version 0.11.2)