User:Lindenb/Notebook/UMR915/20110427

From OpenWetWare

Jump to: navigation, search

20110419        Top        20110510       


dbNSFP

lindenb@yokofakun:~$ wget "http://dl.dropbox.com/u/17001647/dbNSFP/dbNSFP.chr1-22XY.zip"
--2011-04-27 13:50:26--  http://dl.dropbox.com/u/17001647/dbNSFP/dbNSFP.chr1-22XY.zip
Proxy request sent, awaiting response... 200 OK
Length: 1200703405 (1.1G) [application/zip]
Saving to: `dbNSFP.chr1-22XY.zip'

100%[=================================================================================================================>] 1,200,703,405 1.82M/s   in 10m 11s 

2011-04-27 14:00:38 (1.87 MB/s) - `dbNSFP.chr1-22XY.zip' saved [1200703405/1200703405]


unzip -t dbNSFP.chr1-22XY.zip 
Archive:  dbNSFP.chr1-22XY.zip
    testing: dbNSFP.chr1              OK
    testing: dbNSFP.chr10             OK
    testing: dbNSFP.chr11             OK
    testing: dbNSFP.chr12             OK
    testing: dbNSFP.chr13             OK
    testing: dbNSFP.chr14             OK
    testing: dbNSFP.chr15             OK
    testing: dbNSFP.chr16             OK
    testing: dbNSFP.chr17             OK
    testing: dbNSFP.chr18             OK
    testing: dbNSFP.chr19             OK
    testing: dbNSFP.chr2              OK
    testing: dbNSFP.chr20             OK
    testing: dbNSFP.chr21             OK
    testing: dbNSFP.chr22             OK
    testing: dbNSFP.chr3              OK
    testing: dbNSFP.chr4              OK
    testing: dbNSFP.chr5              OK
    testing: dbNSFP.chr6              OK
    testing: dbNSFP.chr7              OK
    testing: dbNSFP.chr8              OK
    testing: dbNSFP.chr9              OK
    testing: dbNSFP.chrX              OK
    testing: dbNSFP.chrY              OK
No errors detected in compressed data of dbNSFP.chr1-22XY.zip.


 unzip dbNSFP.chr1-22XY.zip dbNSFP.chr22 
Archive:  dbNSFP.chr1-22XY.zip
  inflating: dbNSFP.chr22

ead dbNSFP.chr22
#chr	pos(1-based)	ref	alt	aaref	aaalt	hg19pos(1-based)	genename	geneid	CCDSid	refcodon	codonpos	fold-degenerate	aapos	cds_strand	LRT_Omega	PhyloP_score	PlyloP_pred	SIFT_score	SIFT_pred	Polyphen2_score	Polyphen2_pred	LRT_score	LRT_pred	MutationTaster_score	MutationTaster_pred
22	15453440	T	G	M	L	17073440	CCT8L2	150160	CCDS13738.1	ATG	1	0	1	-	1.116940	0.963611	C	1.0	D	0.25	P	0.419288	U	1.0	D	
22	15453440	T	C	M	V	17073440	CCT8L2	150160	CCDS13738.1	ATG	1	0	1	-	1.116940	0.963611	C	1.0	D	0.25	P	0.419288	U	1.0	D	
22	15453440	T	A	M	L	17073440	CCT8L2	150160	CCDS13738.1	ATG	1	0	1	-	1.116940	0.963611	C	1.0	D	0.25	P	0.419288	U	1.0	D	
22	15453439	A	T	M	K	17073439	CCT8L2	150160	CCDS13738.1	ATG	2	0	1	-	1.116940	0.763968	N	1.0	D	0.588	P	0.419288	U	1.0	D	
22	15453439	A	G	M	T	17073439	CCT8L2	150160	CCDS13738.1	ATG	2	0	1	-	1.116940	0.763968	N	1.0	D	0.588	P	0.419288	N	1.0	D	
22	15453439	A	C	M	R	17073439	CCT8L2	150160	CCDS13738.1	ATG	2	0	1	-	1.116940	0.763968	N	1.0	D	0.588	P	0.419288	N	1.0	D	
22	15453438	C	T	M	I	17073438	CCT8L2	150160	CCDS13738.1	ATG	3	0	1	-	1.116940	0.970895	C	1.0	D	0.25	P	0.419288	U	1.0	D	
22	15453438	C	G	M	I	17073438	CCT8L2	150160	CCDS13738.1	ATG	3	0	1	-	1.116940	0.970895	C	1.0	D	0.25	P	0.419288	U	1.0	D	
22	15453438	C	A	M	I	17073438	CCT8L2	150160	CCDS13738.1	ATG	3	0	1	-	1.116940	0.970895	C	1.0	D	0.25	P	0.419288	U	1.0	D	

>>2
$1 #chr : 22
$2 pos(1-based) : 15453440
$3 ref : T
$4 alt : G
$5 aaref : M
$6 aaalt : L
$7 hg19pos(1-based) : 17073440
$8 genename : CCT8L2
$9 geneid : 150160
$10 CCDSid : CCDS13738.1
$11 refcodon : ATG
$12 codonpos : 1
$13 fold-degenerate : 0
$14 aapos : 1
$15 cds_strand : -
$16 LRT_Omega : 1.116940
$17 PhyloP_score : 0.963611
$18 PlyloP_pred : C
$19 SIFT_score : 1.0
$20 SIFT_pred : D
$21 Polyphen2_score : 0.25
$22 Polyphen2_pred : P
$23 LRT_score : 0.419288
$24 LRT_pred : U
$25 MutationTaster_score : 1.0
$26 MutationTaster_pred : D
<<2
>>3
$1 #chr : 22
$2 pos(1-based) : 15453440
$3 ref : T
$4 alt : C
$5 aaref : M
$6 aaalt : V
$7 hg19pos(1-based) : 17073440
$8 genename : CCT8L2
$9 geneid : 150160
$10 CCDSid : CCDS13738.1
$11 refcodon : ATG
$12 codonpos : 1
$13 fold-degenerate : 0
$14 aapos : 1
$15 cds_strand : -
$16 LRT_Omega : 1.116940
$17 PhyloP_score : 0.963611
$18 PlyloP_pred : C
$19 SIFT_score : 1.0
$20 SIFT_pred : D
$21 Polyphen2_score : 0.25
$22 Polyphen2_pred : P
$23 LRT_score : 0.419288
$24 LRT_pred : U
$25 MutationTaster_score : 1.0
$26 MutationTaster_pred : D
<<3

Personal tools