Table 5. Epistatic QTL detection in Monte Carlo simulation experiment (200 replicates).

QTL	True value				Estimate
	Chr.	Position (cM)	Variance	r 2 (%)	Power(%)	Position (cM)	Variance	r 2 (%)
Main-effect	1	50	0.4	2	83.5	50.0(0.0)	0.3967(0.1317)	2.04(0.66)
	2	100	1.0	5	97.5	100.0(0.0)	0.9441(0.2544)	4.88(1.31)
	3	200	2.0	10	99.5	200.0(0.0)	1.9239(0.5039)	9.90(2.35)
	4	350	0.4	2	82.0	350.0(0.0)	0.3953(0.1371)	2.03(0.70)
	5	400	1.0	5	95.5	400.0(0.0)	0.9741(0.3574)	4.98(1.71)
Environment			1.0	5	99.0		0.9408(0.2294)	4.86(1.14)
Environmental	2	150	0.4	2	98.5	150.0(0.0)	0.3766(0.1255)	1.96(0.67)
interaction	3	270	2.0	10	100.0	270.0(0.0)	1.9703(0.3007)	10.21(1.57)
	5	400	1.0	5	99.5	400.0(0.0)	0.9354(0.2261)	4.83(1.12)
Epistasis	1 & 2	10 & 130	0.4	2	97.0	10.0(1.0) & 129.9(1.4)	0.3444(0.1262)	1.78(0.65)
	2 & 3	100 & 250	1.0	5	100.0	100.0(0.0) & 250.0(0.0)	0.9825(0.2196)	5.09(1.13)
	3 & 5	200 & 400	0.4	2	85.5	200.0(0.0) & 399.9(1.5)	0.3842(0.1275)	1.98(0.66)
	3 & 4	270 & 360	2.0	10	100.0	270.1(0.7) & 360.0(1.6)	1.9350(0.3605)	9.99(1.79)
	4 & 5	350 & 450	2.0	10	100.0	350.1(0.7) & 450.0(0.0)	1.9814(0.3912)	10.25(1.98)
False positive rate (%)			0.0545