FastQCFastQC Report
Wed 2 Jan 2019
HC-R-1_S1_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
FilenameHC-R-1_S1_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences3169664
Sequences flagged as poor quality0
Sequence length151
%GC52

[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

[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
GATCGGAAGAGCACACGTCTGAACTCCAGTCACATTACTCGATCTCGTAT172960.5456729798489682TruSeq Adapter, Index 27 (97% over 39bp)
CTTGACTCCAGTCCGACTTTGTGAAGAGACATGAGAGGTGTAGCATAGGT165450.5219796167669507No Hit
CTTGGATCCTCGCCAGACGGCCTACAGCGAAAGCATTTGCCAAGCATGTT124710.3934486431369382No Hit
CTTTAATATACGCTATTGGAGCTGGAATTACCGCGGCTGCTGGCACCAGA103250.32574430602107984No Hit
CGAACATCTAAGGGCATCACAGACCTGTTATTGCTCAATCTCGTGTGGCT95050.29987405605136697No Hit
GTCAAACTCCCCGCCTGACACTGTCTTCAGAGCGGATCGCCCCCGGCCGC79800.2517617009247668No Hit
CTTGATTCGGTGGGTGGTGGTGCATGGCCGTTCTTAGTTGGTGGAGCGAT70710.22308358236078019No Hit
GTTCTTTTCAACTTTCCCTCACGGTACTTGTTTGCTATCGGACTCGGGGA69360.21882445584137625No Hit
GCGATTTGTCTGGTTAATTCCGATAACGAACGAGACTCTAACCTACTAAA66390.20945437749868753No Hit
GTTTTACCCTACTGATGACTGCAGTCGTTGCAACGGTAATCCTGCTCAGT66070.20844480676816216No Hit
GTTGAGCTTGACTCCAGTCCGACTTTGTGAAGAGACATGAGAGGTGTAGC64590.20377554213948226No Hit
GCCGTTCTTAGTTGGTGGAGCGATTTGTCTGGTTAATTCCGATAACGAAC63150.19923247385211806No Hit
GCTCAATCTCGTGTGGCTAAACGCCACTTGTCCCTCTAAGAAGTTACACC61450.19386912934620198No Hit
CGAGACTCTAACCTACTAAATAGTTCACCGATCTATTGCTGTCGGTGTAA57560.18159653515325286No Hit
GCGGCCCCGAACATCTAAGGGCATCACAGACCTGTTATTGCTCAATCTCG54080.17061745345878931No Hit
GAACATCTAAGGGCATCACAGACCTGTTATTGCTCAATCTCGTGTGGCTA53950.1702073153495134No Hit
GTTAATTCCGATAACGAACGAGACTCTAACCTACTAAATAGTTCACCGAT52460.1655065016355046No Hit
GCGCAATTGAAATACCACTACTCCCATCGTTTCTTTACTTATTCAGTTAA51910.1637713019424141No Hit
GTGAAATTCTTGGATCCTCGCCAGACGGCCTACAGCGAAAGCATTTGCCA51420.1622253967612971No Hit
GCCAGTTCTAAGTTGGCTGTTAGTCGCCGGACGAAGCCGACGGCCTCGGG50360.15888119371643178No Hit
CTTGAACTCTCTCTTCAAAGTTCTTTTCAACTTTCCCTCACGGTACTTGT46340.14619846141420667No Hit
CTCGGTTAAGGTGCCTAAGGCACGACGCTCATGAGATACCATAAAAGGTG45630.1439584763558535No Hit
GCCGTTTCTCATGCTCCCTCTCCGGAATCGAACCCTGATTCCCCGTTACC45510.14357988733190646No Hit
GTTTGACTGGGGCGGTACATCTGTCAAACGGTAACGCAGGTGTCCTAAGG45260.14279116019868351No Hit
GGTAATTCCAGCTCCAATAGCGTATATTAAAGTTGCTGCAGTTAAAAAGC44580.1406458223963171No Hit
CAAAGATTAAGCCATGCATGTCTAAGTACATACTCTTGCACAGTGAAACC44530.1404880769696725No Hit
GTGATTTCTGCCCAGTGCTCTGAATGTCAAAGTGAAGAAATTCAATCAAG44460.14026723337237007No Hit
GGTTAAGGTGCCTAAGGCACGACGCTCATGAGATACCATAAAAGGTGTTG44010.13884752453256877No Hit
CTCCACTCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTTCAGCTTTG42510.13411516173323104No Hit
GGTACATCTGTCAAACGGTAACGCAGGTGTCCTAAGGTGAGCTCAGCGAG42050.13266390380810078No Hit
GCGGATTGCTAGTTGGCATCGTTTATGGTCAGAACTACGACGGTATCTGA42020.13256925655211405No Hit
CTCTCTTCAAAGTTCTTTTCAACTTTCCCTCACGGTACTTGTTTGCTATC41480.13086560594435245No Hit
CTGGCTTCGGCCTCGGCTGCTCTGGACTGTCCTAGGAGTCGGGTTGTTTG41080.12960364253119572No Hit
GCGCCATCCATTTTCAGGGCTAGTTGATTCGGCAGGTGAGTTGTTACACA40910.12906730808060413No Hit
GAAACCTAAAGGCGTAATGAAAGTGAAGGCAGCCTCGGGTTCTGCCTAGG40880.12897266082461736No Hit
GTCAACACCAGGTGACGGCCATCGCAATGCTTTGTTTTAATTAGACAGTC39430.12439804345192425No Hit
GATGACTCGCGCTTACTGGGAATTCCTCGTTCATGGGGAGAATTACACAC39300.12398790534264831No Hit
GTGAAGGCAGCCTCGGGTTCTGCCTAGGTGGGATCCTCGGTCCGTCGCGG39110.12338847272139887No Hit
GAACACTGTAAGGATTGACAGATTGAGAGCTCTTTCTTGATTCGGTGGGT39110.12338847272139887No Hit
CGTTAATCCATTCATGCGCGTCACTAATTAGATGACGAGGCATTTGGCTA39090.12332537455074102No Hit
GTTAGTTTTACCCTACTGATGACTGCAGTCGTTGCAACGGTAATCCTGCT39010.12307298186810967No Hit
AGAAGACCCTGTTGAGCTTGACTCCAGTCCGACTTTGTGAAGAGACATGA38810.12244200016153131No Hit
GTCAGAACTACGACGGTATCTGATCGTCTTCGAACCTCTGACTTTCGTTC38190.12048595687113839No Hit
CTTCAGTGTAGCGCGCGTGCGGCCCCGAACATCTAAGGGCATCACAGACC38060.12007581876186245No Hit
GAAATTCTTGGATCCTCGCCAGACGGCCTACAGCGAAAGCATTTGCCAAG37460.11818287364212736No Hit
GTTAGAGGTGAAATTCTTGGATCCTCGCCAGACGGCCTACAGCGAAAGCA36630.11556429955982717No Hit
GTCGGATTCCCCTGGTCCGTGCCAGTTCTAAGTTGGCTGTTAGTCGCCGG36590.11543810321851149No Hit
GTTAAGGTGCCTAAGGCACGACGCTCATGAGATACCATAAAAGGTGTTGG36460.11502796510923555No Hit
CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA35430.11177840932035697No Hit
GACAGATTGAGAGCTCTTTCTTGATTCGGTGGGTGGTGGTGCATGGCCGT35260.11124207486976538No Hit
CTTGCTCCGCCCCTTCGACGCAGTGCGAACGGGACGGGCCGGTGGTGCGC34880.11004320962726649No Hit
CTCGCTTCGACCGACACCCGAAATGAGCAACGGGTGCGTGTGGTCGTCTG34710.10950687517667487No Hit
CTAAACGCCACTTGTCCCTCTAAGAAGTTACACCGACAGCAATAGATCGG33990.10723534103299276No Hit
GTTCGATTAGTCTTTCGCCCCTATGCTCAAGTTTGACGATCGATTTGCAC33560.10587873036384929No Hit
ATTGGGTGTTACGAAACCTAAAGGCGTAATGAAAGTGAAGGCAGCCTCGG33520.10575253402253361No Hit
GCCACTTGTCCCTCTAAGAAGTTACACCGACAGCAATAGATCGGTGAACT32730.10326015628154908No Hit
CTCGGTTCTATTTTGTTGGTTTTCGGAACACGAGGTAATGATTAAGAGGG32460.10240833097766829No Hit
GCCACTTTTGGTAAGCAGAACTGGCGCTGTGGGATGAACCAAACGCTCGG32200.10158805475911643No Hit

[FAIL]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GTTAATA5800.076.25711
TATTCCC6650.066.509956
TAATATT6950.064.682283
ATATTCC7300.060.5878335
ATTCCCG7400.059.762487
TTGTCTC6850.059.2755932
ATATACG28800.055.38716
TATACGC28850.055.2850077
TAATATA29150.054.7220764
TACGCTA29450.054.4048279
CTTGTCT7600.054.3800661
ATACGCT29550.054.2207228
AATATAC29500.054.072835
CTTTAAT30150.053.3880541
TTTAATA31300.050.7315562
AGACTAG1950.048.3378335
CTCGATG15800.047.263332145
TTAATAT34400.047.0029223
AAGATTA15650.046.793493
AGATTAA16100.045.4856034
Produced by FastQC (version 0.11.5)