Table 3.

SNP-based sliding-window analysis of Block 1 showing windows which demonstrated significant (p<0.05) global transmission disequilibrium in the entire resource when analysed using the PDT. Only haplotypes showing significant (p<0.05) overtransmission are shown. Full details can be found in the supplementary information.

SNP							Frequency in parents (%)	Transmitted	Not transmitted	SUM PDT		GLOBAL		AVE PDT		GLOBAL
2	3	4	5	6	7	8				Z (1df)	p- value	χ2(df)	p- value	Z (1df)	p- value	χ2(df)	p- value
2	2						31.5	207	163	2.29	0.022	10.79(3)	0.013	2.60	0.009	9.33(3)	0.025
2	2	1					30.2	183	143	2.16	0.031	17.41(7)	0.015	2.50	0.013	14.76(7)	0.039
	2	1					44.1	262	217	2.67	0.008	10.41(3)	0.015	2.43	0.016	7.93(3)	0.048
	2	1	1				40.0	243	195	2.84	0.005	13.88(6)	0.031	2.62	0.009	10.74(6)	0.097
	2	1	1	1			34.1	191	141	3.20	0.001	21.57(11)	0.028	3.16	0.002	21.15(11)	0.032
	2	1	1	1	2		33.6	193	131	2.98	0.003	26.61(16)	0.046	3.29	0.001	28.34(16)	0.029
		1	1				48.4	277	231	2.69	0.007	10.98(3)	0.012	2.37	0.018	8.06(3)	0.045
		1	1	1			42.2	222	173	3.04	0.002	16.31(6)	0.012	2.93	0.003	15.15(6)	0.019
			1	1	2		36.8	210	158	3.25	0.001	22.83(7)	0.002	3.18	0.002	22.78(7)	0.002
			1	1	2	2	36.3	206	151	3.47	0.001	29.75(12)	0.003	3.48	0.001	29.81(12)	0.003
				1	2		40.2	225	174	3.20	0.001	16.74(3)	0.001	3.10	0.002	16.53(3)	0.001
				1	2	2	39.4	222	162	3.92	0.000	29.95(6)	0.000	3.64	0.000	27.32(6)	0.000
					2	2	45.8	277	221	3.21	0.001	17.60(3)	0.001	3.09	0.002	16.17(3)	0.001