FastQCFastQC Report
Wed 23 Jul 2014
SV20_CGATGT_L007_R1_001.fastq.gz

Summary

[OK] Basic Statistics

Measure Value
Filename SV20_CGATGT_L007_R1_001.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 12933943
Filtered Sequences 0
Sequence length 51
%GC 40

[OK] Per base 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 base GC content

Per base GC content graph

[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

[WARN] Sequence Duplication Levels

Duplication level graph

[WARN] Overrepresented sequences

Sequence Count Percentage Possible Source
GATCGGAAGAGCACACGTCTGAACTCCAGTCACCGATGTATCTCGTATGCC 36733 0.28400465349197845 TruSeq Adapter, Index 2 (100% over 51bp)
ACTTCCAGGGATTTATAAGCCGATGACGTCATAACATCCCTGACCCTTTAA 17519 0.13544980057512238 No Hit
TATTCGTTGGAATTCCTCGGGGAATTCGGTATTCCCAGGCGGTCTCCCATC 15104 0.1167780003360151 No Hit

[WARN] Kmer Content

Kmer graph

Sequence Count Obs/Exp Overall Obs/Exp Max Max Obs/Exp Position
CACAC 1330635 2.8951218 9.067362 12
CCAGG 834430 2.865789 7.161762 35
CCCAG 795905 2.6230245 6.865413 34
CAGGG 702595 2.5146208 6.363669 6
CCCTG 725560 2.3579075 5.994901 38
GGGGA 569110 2.1226425 6.822893 19
CTCCC 678730 2.1165926 6.2107844 44
CAGGC 616240 2.1164315 6.5833545 36
TCCAG 943800 2.11015 8.255485 25
GGAAG 825845 2.0335083 8.811857 5
CTGAA 1233075 1.8967183 6.3255773 19
CTCCA 861420 1.8481411 7.8981724 24
GCACA 728925 1.6527379 8.013619 11
AGAGC 683240 1.6143868 8.050581 8
GAAGA 986755 1.6040709 6.0969043 6
AAGAG 950495 1.5451266 5.8921103 7
GAGCA 647340 1.5295608 7.9336004 9
TCTGA 970695 1.4723412 5.7015157 18
GTCTG 632560 1.4533179 7.7689056 17
CCAGT 635850 1.4216348 7.531525 26
AGCAC 622385 1.4111729 7.738184 10
CAGTC 575430 1.2865477 7.37686 27
ATGCC 546505 1.221877 7.238317 47
TCACC 546725 1.1729759 7.259432 30
ACTCC 542355 1.1636004 7.391007 23
AGTCA 719895 1.1073438 5.2998824 28
AACTC 746915 1.1024816 5.372021 22
GTCAC 487090 1.089037 7.266795 29
GATGT 671315 1.0611218 5.4026 35
ATCTC 725330 1.0557184 5.1901603 40
GAACT 664670 1.0223968 5.30242 21
TGAAC 623505 0.9590767 5.246485 20
CACGT 417365 0.9331456 7.242962 14
CGGGG 162330 0.88003415 7.6583414 18
GTATG 513845 0.8122149 5.016237 45
GGCGG 142445 0.7722321 7.646377 38
ACGTC 314245 0.7025897 6.9693046 15
CACCG 170450 0.5617436 9.659985 31
CGGAA 237125 0.5602885 7.226479 4
TCTCG 253925 0.5598235 6.764032 41
AGGCG 139150 0.49802446 5.0129223 37
ACACG 207620 0.47074994 6.897584 13
CGATG 182275 0.42469165 6.7204123 34
CGTCT 180245 0.39738268 6.5905848 16
CTCGT 174475 0.38466164 6.5049624 42
CCGAT 154990 0.34652698 6.390657 33
TCGGA 147995 0.34482092 6.934999 3
ACCGA 148855 0.33750835 6.498005 32
ATCGG 129530 0.30179837 6.9063096 2
GATCG 124560 0.29021856 6.9161882 1
Produced by FastQC (version 0.10.1)