FastQCFastQC Report
Fri 19 Dec 2014
cdc9deg_rad27d_rnh201_PNK_CTTGTA_L002_R1_001.fastq.gz

Summary

[OK]Basic Statistics

MeasureValue
Filenamecdc9deg_rad27d_rnh201_PNK_CTTGTA_L002_R1_001.fastq.gz
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4755274
Sequences flagged as poor quality0
Sequence length51
%GC41

[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

[WARN]Per base sequence content

Per base sequence content

[OK]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
AGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTGTAATCTCGTATGC365680.7689988000691442TruSeq Adapter, Index 12 (100% over 50bp)
GGAAAGAGTGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTGTA63670.1338934412612186TruSeq Adapter, Index 12 (100% over 39bp)
GAAAGAGTGTAGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTTGTAA48720.10245466402146333TruSeq Adapter, Index 12 (100% over 40bp)

[OK]Adapter Content

Adapter graph

[FAIL]Kmer Content

Kmer graph

SequenceCountPValueObs/Exp MaxMax Obs/Exp Position
CGTATGC52750.035.5289745
CTCGTAT51050.035.12551543
ATCTCGT51950.034.25749641
TCGTATG55800.033.50633244
TCTCGTA53900.033.1012642
AATCTCG53750.032.73353640
TAATCTC56750.031.16171539
TGTAATC57850.030.491437
GTAATCT58000.030.4125438
TTGTAAT80000.023.37091436
GTCACAG16750.022.70055830
CTTGTAA88550.021.03809535
CGGTCAC5800.020.94741428
TCACAGA25800.020.9293731
ACAGATC29050.020.8336933
CACAGAT28250.020.38854232
CCTTGTA92000.020.05331234
TCCGGTC6300.018.92779426
CCGGTCA6750.017.9992627
AGTCACA12750.017.82279629
Produced by FastQC (version 0.11.2)