Table 5. Frequency of deleterious coding and noncoding SNPs.

Strain	Coding				Noncoding
	Total		Deleterious		Total		Deleterious
	Non	Syn	Number	Fraction	Con	Uncon	Number	Fraction
S288C	5,522	9,936	2,662	0.48	1,886	3,146	341	0.18
M22	4,177	7,383	1,760	0.42	2,409	3,509	565	0.23
YPS163	5,679	14,110	1,081	0.19	3,698	6,066	585	0.16
All three	15,378	31,429	5,503	0.36	7,993	12,721	1,491	0.19

The alignments and data are the same as those used in Table 4. The number of deleterious SNPs is the difference between the total and neutral number of SNPs. The number of neutral nonsynonymous SNPs is estimated by Non^*dNpS/dSpN, where Non is the number of Nonsynonymous SNPs and dN, dS, pN, pS are nonsynonymous and synonymous divergences and polymorphism, respectively. Classes are nonsynonymous (non), synonymous (syn), conserved noncoding (con), unconserved noncoding (uncon). The deleterious fraction is the number of deleterious SNPs divided by the total number of SNPs in the class.