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VEP run statistics

VEP version (API) 85 (85)
Cache/Database /media/SeagateExpansion/WGStools/.vep/homo_sapiens/85_GRCh37
Species homo_sapiens
Command line options
--cache --regulatory --polyphen b --sift b --pubmed --no_intergenic --gmaf --vcf --assembly GRCh37 --fork 4 --no_progress --dir /media/SeagateExpansion/WGStools/.vep -i 26BS5.snpeff.vcf -o 26BS5.snpeff.vep.vcf --stats_file 26BS5.vep_stats.html --port 3337 -chr 1-22,X,Y,MT
Start time 2016-10-03 08:20:22
End time 2016-10-03 12:43:13
Run time 15771 seconds
Input file (format) 26BS5.snpeff.vcf (VCF)
Output file 26BS5.snpeff.vep.vcf [text]

General statistics

Lines of input read 5180367
Variants processed 5180304
Variants remaining after filtering 5180304
Lines of output written 5180304
Novel / existing variants 1424965 (27.5%) / 3755339 (72.5%)
Overlapped genes 56866
Overlapped transcripts 193840
Overlapped regulatory features 168088

Variant classes

 
 

Consequences (most severe)

 
 

Consequences (all)

 
 

Coding consequences

 
 

SIFT summary

 
 

PolyPhen summary

 
 

Variants by chromosome

 
 

Distribution of variants on chromosome 1

 

Distribution of variants on chromosome 2

 

Distribution of variants on chromosome 3

 

Distribution of variants on chromosome 4

 

Distribution of variants on chromosome 5

 

Distribution of variants on chromosome 6

 

Distribution of variants on chromosome 7

 

Distribution of variants on chromosome 8

 

Distribution of variants on chromosome 9

 

Distribution of variants on chromosome 10

 

Distribution of variants on chromosome 11

 

Distribution of variants on chromosome 12

 

Distribution of variants on chromosome 13

 

Distribution of variants on chromosome 14

 

Distribution of variants on chromosome 15

 

Distribution of variants on chromosome 16

 

Distribution of variants on chromosome 17

 

Distribution of variants on chromosome 18

 

Distribution of variants on chromosome 19

 

Distribution of variants on chromosome 20

 

Distribution of variants on chromosome 21

 

Distribution of variants on chromosome 22

 

Distribution of variants on chromosome MT

 

Distribution of variants on chromosome X

 

Distribution of variants on chromosome Y

 

Position in protein