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VEP run statistics

VEP version (API) 72 (72)
Cache/Database /nfs/1000g-work/G1K/work/laura/grc_bases_to_check//homo_sapiens/72
Species homo_sapiens
Command line options 
--cache --dir_cache /nfs/1000g-work/G1K/work/laura/grc_bases_to_check/ --refseq -regulatory --sift p --polyphen p --input CombinedNeverSeenAll.vep -stats_file CombinedNeverSeenAll.stats.html
Start time 2013-07-01 17:30:46
End time 2013-07-01 17:39:13
Run time 507 seconds
Input file (format) CombinedNeverSeenAll.vep (ENSEMBL)
Output file variant_effect_output.txt [text]

General statistics

Lines of input read 15245
Variants processed 15244
Variants remaining after filtering 15244
Lines of output written 55389
Novel / known variants -
Overlapped genes 14944
Overlapped transcripts 27347
Overlapped regulatory features 1540

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 X

 

Position in protein