FastQCFastQC Report
Wed 4 Feb 2015
3.9_GATCAG_L008_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
Filename3.9_GATCAG_L008_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences14884151
Sequences flagged as poor quality0
Sequence length51
%GC50

[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
GATCGGAAGAGCACACGTCTGAACTCCAGTCACGATCAGATCTCGTATGCC1300520.8737616273847263TruSeq Adapter, Index 9 (100% over 51bp)
GGGATCTGTACGACGATGACGATAAGGATCCGATGGCCTCCTCCGAGGACG750760.5044023001379118No Hit
GTCGGGATCTGTACGACGATGACGATAAGGATCCGATGGCCTCCTCCGAGG575040.38634383647411263No Hit
GCTGACTCTAGCAGATCTATCGATTCTAGCATGACTGGTGGACAGCAAATG413860.27805415303835607No Hit
CGACGATGACGATAAGGATCCGATGGCCTCCTCCGAGGACGTCATCAAGGA375640.25237583252145185No Hit
CGGGATCTGTACGACGATGACGATAAGGATCCGATGGCCTCCTCCGAGGAC343240.23060771151811077No Hit
CTTGGCGGTCTGGGTGCCCTCGTAGGGGCGGCCCTCGCCCTCGCCCTCGAT337550.2267848532307956No Hit
ATCGATTCTAGCATGACTGGTGGACAGCAAATGGGTCGGGATCTGTACGAC255370.17157176113034595No Hit
CCTCGATCTCGAACTCGTGGCCGTTCACGGAGCCCTCCATGCGCACCTTGA239170.16068770062867543No Hit
CGGGGATGTCGGCGGGGTGCTTCACGTAGGCCTTGGAGCCGTACTGGAACT236960.15920289978245988No Hit
GCCAAATGTTTGAACGATCGGGAATTGGATCCGGTACCGAGCTCGAATTCT229850.15442600656228225No Hit
CTCGAAGTTCATCACGCGCTCCCACTTGAAGCCCTCGGGGAAGGACAGCTT220080.1478619774819538No Hit
CGGGAATTGGATCCGGTACCGAGCTCGAATTCTTAGGCGCCGGTGGAGTGG216190.14524845925037982No Hit
CCGACATCAAGCTGGACATCACCTCCCACAACGAGGACTACACCATCGTGG216100.14518799224759277No Hit
CGCGTGATGAACTTCGAGGACGGCGGCGTGGTGACCGTGACCCAGGACTCC205030.13775055090478455No Hit
CAGCAAATGGGTCGGGATCTGTACGACGATGACGATAAGGATCCGATGGCC201700.1355132718016634No Hit
AGCAGATCTATCGATTCTAGCATGACTGGTGGACAGCAAATGGGTCGGGAT192330.12921798495594408No Hit
CCGTGACCCAGGACTCCTCCCTGCAGGACGGCGAGTTCATCTACAAGGTGA190440.12794817789741586No Hit
AGCAAATGGGTCGGGATCTGTACGACGATGACGATAAGGATCCGATGGCCT178700.12006059331163732No Hit
TCGGGATCTGTACGACGATGACGATAAGGATCCGATGGCCTCCTCCGAGGA174270.117084273063341No Hit
CTGGAACTGAGGGGACAGGATGTCCCAGGCGAAGGGCAGGGGGCCGCCCTT173510.1165736628175836No Hit
GGACAGCAAATGGGTCGGGATCTGTACGACGATGACGATAAGGATCCGATG161680.10862561122901802No Hit
GGCGTGGTGACCGTGACCCAGGACTCCTCCCTGCAGGACGGCGAGTTCATC160990.10816203087431725No Hit
GTCACCTTCAGCTTGGCGGTCTGGGTGCCCTCGTAGGGGCGGCCCTCGCCC159160.1069325351509804No Hit
CCGGCGCCTACAAGACCGACATCAAGCTGGACATCACCTCCCACAACGAGG154590.10386215512057087No Hit
TGAACTTCGAGGACGGCGGCGTGGTGACCGTGACCCAGGACTCCTCCCTGC153040.10282077896146041No Hit

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
GCACACG147050.041.7168511
CGTATGC145500.041.37703344
GTATGCC145600.041.36532645
ACGTCTG149200.041.04017615
CACACGT149800.041.01108612
ACACGTC150200.040.85693713
AGTCACG149150.040.3758828
CACGTCT153150.040.08449614
TCGTATG151100.039.97745543
CTCGTAT150900.039.9091242
GTCACGA151650.039.78193329
AGCACAC156650.039.27519210
CGATCAG152850.039.21959733
CGTCTGA158000.038.78286716
CAGTCAC156750.038.38827
TCTCGTA157450.038.24720441
TCACGAT158250.038.09651630
GAGCACA164150.037.5501149
CTGAACT163950.037.3357219
CACGATC161000.037.31686831
Produced by FastQC (version 0.11.2)