Table 1.

The percent agreement between selected SNPs across tag-SNP programs.

	SNPtagger	TagSNP	HTSNP	Nyholt	Meng	HB Finder
TagSNP a	87
HTSNP	95	88
Nyholtb	77	74	78
Meng	46	47	43	53
HB Finder c	62	65	63	65	46
Haploview	48 (67)d	45 (74)	47 (68)	47 (68)	54 (45)	26 (77)

There are 100 SNPs in 10 regions.

^aBold, R² or percent diversity based programs.

^bStandard, spectral decomposition programs.

^cItalics, block method programs.

^dParenthesis indicates the percent agreement when SNPs chosen by HAPLOVIEW included those outside of the Gabriel blocks.