Table 1

Sex	Genotypes	5x2 table
		Expected counts	Observed counts
Females	X^A/X^A	(1−MAF)²P♀N	Nº of XA/XA
	X^A/X^a	2 (1−MAF)( MAF)P♀N	Nº of XA/Xa
	X^a/X^a	(MAF)²P♀N	Nº of Xa/Xa
Males	X^A/^Y	(1−MAF)P♂N	Nº of XA/Y
	X^a/^Y	MAFP♂N	Nº of Xa/Y

N: Number of non-missing observations for the particular SNP
Nº: Number
MAF: Minor allele (Xa) frequency in the sample
P♀: Prevalence of females in the sample
P♂: Prevalence of males in the sample

Table 1: Calculations of expected counts of non-pseudoautosomal X chromosome SNPs under HWE assumptions