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VEP run statistics

VEP version (API) 71 (71)
Cache/Database homo_sapiens_core_71_37 on ensembldb.ensembl.org
Species homo_sapiens
Command line options 
-i 8016-8-17.h.sapiens.aligned_S_MDup.GATK_sorted_realigned.recal.SNP.filtered.vcf -o 8016-8-17.h.sapiens.aligned_S_MDup.GATK_sorted_realigned.recal.SNP.filtered.vcf.VEP2.9.coding -sift=b -polyphen=b --check_existing --hgnc --protein --no_intergenic --coding_only --force_overwrite --database --numbers --domains
Start time 2013-04-30 14:59:16
End time 2013-04-30 15:00:11
Run time 55 seconds
Input file (format) 8016-8-17.h.sapiens.aligned_S_MDup.GATK_sorted_realigned.recal.SNP.filtered.vcf (VCF)
Output file 8016-8-17.h.sapiens.aligned_S_MDup.GATK_sorted_realigned.recal.SNP.filtered.vcf.VEP2.9.coding [text]

General statistics

Lines of input read 532
Variants processed 403
Variants remaining after filtering 403
Novel / known variants 190 (47.1%) / 213 (52.9%)
Overlapped genes 15
Overlapped transcripts 43
Overlapped regulatory features -

Variant classes

 
 

Variant consequences

 
 

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

 

Distribution of variants on chromosome Y

 

Position in protein