User:Lindenb/Notebook/UMR915/20110427

=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 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
 * 1) 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

>>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