Table 5.

Examples of the aHWE test at four randomly chosen SNPs in a full-sib family of autohexaploid chrysanthemum

SNP ID		SNP-4			SNP-18			SNP-113			SNP-312
Genotype		6A	A_a_	6a	6A	A_a_	6a	6A	A_a_	6a	6A	A_a_	6a
Recursive	Observed frequency	0.4000	0.4875	0.1125	0.5753	0.3699	0.0548	0.7826	0.1884	0.0290	0.8254	0.1587	0.0159
	Expected frequency	0.0714	0.9266	0.0020	0.1934	0.8064	0.0002	0.4546	0.5454	3.48 × 10−6	0.5484	0.4516	7.50 × 10−7
	Chi-square value	7.63			16.44			231.14			320.65
	p-value	0.0220			0.0003			6.42 × 10−51			2.35 × 10−70
Allele-based	Observed frequency	0.4000	0.4875	0.1125	0.5753	0.3699	0.0548	0.7826	0.1884	0.0290	0.8254	0.1587	0.0159
	Expected frequency	0.0712	0.9268	0.0020	0.1935	0.8063	0.0002	0.4548	0.5452	3.64 × 10−6	0.5489	0.4511	7.86 × 10−7
	Chi-square value	7.69			16.80			241.39			337.17
	p-value	0.0214			0.0002			3.82 × 10−53			6.09 × 10−74