FastQCFastQC Report
Wed 22 Mar 2017
cfdna_022_03072016_R2.trim.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
Filenamecfdna_022_03072016_R2.trim.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences1243816
Sequences flagged as poor quality0
Sequence length76
%GC41

[FAIL]Per base sequence quality

Per base quality graph

[FAIL]Per tile sequence quality

Per base quality graph

[FAIL]Per sequence quality scores

Per Sequence quality graph

[WARN]Per base sequence content

Per base sequence content

[FAIL]Per sequence GC content

Per sequence GC content graph

[FAIL]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
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN1033018.305167323784225No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCNNNNNNNNNNNN143741.1556371681985116No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTNNNNNNNNNNNN132911.0685664117522207No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNANNNNNNNNNNNN116660.9379200782109252No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGNNNNNNNNNNNN86780.6976916199823768No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTNNNNNNNNN49790.40030036597052937No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCNNNNNNNNN49420.3973256494529737No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACNNNNNNNNN42780.34394154762440743No Hit
NNNNNNNNNNNNNNCNNNNNNNNNNNNCNNNNNNNNNNNNNNNNNNNNNN40250.3236009184638242No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATNNNNNNNNN39800.31998301999652684No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTNNNNNNNNN38800.3119432456247548No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTANNNNNNNNN38750.3115412569061662No Hit
NNNNNNNNNNNNNNCNNNNNNNNNNNNTNNNNNNNNNNNNNNNNNNNNNN36780.29570290139377525No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCNNNNNNNNN36370.29240659390134877No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAANNNNNNNNN34780.2796233526502312No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGNNNNNNNNN33570.26989522566038704No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGNNNNNNNNN31430.25269010850479495No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTNNNNNNNNN31270.2514037446053114No Hit
NNNNNNNNNNNNNNTNNNNNNNNNNNNCNNNNNNNNNNNNNNNNNNNNNN30530.2454543115702001No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCNNNNNNNNN30430.2446503341330229No Hit
NNNNNNNNNNNNNNCNNNNNNNNNNNNANNNNNNNNNNNNNNNNNNNNNN29990.2411128334094432No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCANNNNNNNNN28950.23275146806280028No Hit
NNNNNNNNNNNNNNANNNNNNNNNNNNCNNNNNNNNNNNNNNNNNNNNNN28250.22712362600255986No Hit
NNNNNNNNNNNNNNTNNNNNNNNNNNNTNNNNNNNNNNNNNNNNNNNNNN27850.22390771625385103No Hit
NNNNNNNNNNNNNNANNNNNNNNNNNNTNNNNNNNNNNNNNNNNNNNNNN26460.21273242987708796No Hit
NNNNNNNNNNNNNNGNNNNNNNNNNNNCNNNNNNNNNNNNNNNNNNNNNN25790.20734578104800067No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGANNNNNNNNN24230.1948037330280363No Hit
NNNNNNNNNNNNNNGNNNNNNNNNNNNTNNNNNNNNNNNNNNNNNNNNNN23230.18676395865626427No Hit
NNNNNNNNNNNNNNTNNNNNNNNNNNNANNNNNNNNNNNNNNNNNNNNNN22750.1829048669578137No Hit
NNNNNNNNNNNNNNCNNNNNNNNNNNNGNNNNNNNNNNNNNNNNNNNNNN21990.17679463843526697No Hit
NNNNNNNNNNNNNNANNNNNNNNNNNNANNNNNNNNNNNNNNNNNNNNNN21730.17470429709860621No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGNNNNNNNNN21660.1741415128925822No Hit
NNNNNNNNNNNNNNGNNNNNNNNNNNNANNNNNNNNNNNNNNNNNNNNNN18680.15018298526470153No Hit
ANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTNNNTNNN18440.14825343941547625No Hit
NNNNNNNNNNNNNNTNNNNNNNNNNNNGNNNNNNNNNNNNNNNNNNNNNN17280.1389273011442207No Hit
ANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCNNNTNNN16280.13088752677244866No Hit
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTNNNNNNNNN15610.1255008779433614No Hit
ANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTNNNCNNN15510.12469690050618419No Hit
NNNNNNNNNNNNNNANNNNNNNNNNNNGNNNNNNNNNNNNNNNNNNNNNN15430.12405371855644244No Hit
ANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCNNNCNNN15130.12164178624491083No Hit
NNNTNNNNNNNNNNNNNNNNNNNNNNNTNNNNNNNNNNNCNNNNNNNNNN13600.10934093145609962No Hit
NNNTNNNNNNNNNNNNNNNNNNNNNNNCNNNNNNNNNNNCNNNNNNNNNN13280.10676820365713258No Hit
GNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTNNNTNNN13180.10596422621995537No Hit
NNNTNNNNNNNNNNNNNNNNNNNNNNNTNNNNNNNNNNNTNNNNNNNNNN13130.10556223750136677No Hit
NNNNNNNNNNNNNNGNNNNNNNNNNNNGNNNNNNNNNNNNNNNNNNNNNN12970.10427587360188324No Hit
ANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTNNNANNN12920.10387388488329465No Hit
NNNTNNNNNNNNNNNNNNNNNNNNNNNCNNNNNNNNNNNTNNNNNNNNNN12680.10194433903406934No Hit

[OK]Adapter Content

Adapter graph

[WARN]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CCTGTCA200.005529470355.5622932
CTGCACG200.005529470355.5622927
CCTGATC200.005529470355.5622949
GTGTAGG1808.04262E-414.40503926
CGTGTAG1900.001210460413.64687725
TGTAGGG1900.001210460413.64687727
AAAGAGT1650.007551689613.469645534
GTAGGGA2050.002145431212.64832628
AAGAGCG1951.8833645E-510.659904517
GAAGAGC2155.5184926E-59.66828516
GGAAGAG2801.0795267E-48.26673818
CGGAAGA2900.00139386257.167866714
TCGGAAG3359.3994755E-45.672809613
Produced by FastQC (version 0.11.5)