Table 2.

Results from a simulation study on for a range of values of genetic similarity p_gs and expected numbers of fragments m₁ and m_2, 10,000 replicated pairs of AFLP profiles, 1,000 bootstrap resamples, fldF_S from A. thaliana with N = 450

Parameter settings			Part I Results for
pgs	m1	m2	Mean and SE			95% BCa bootstrap ci
			Mean	Mean after bias correction	Bootstrap SE	Non-coverage % (too low, too high)	Length
0.0	40	40	−0.0016	−0.0014	0.0643	5.34 (3.04, 2.30)	0.2584
	70	70	−0.0028	−0.0022	0.0685	5.45 (2.88, 2.57)	0.2680
	120	120	−0.0030	−0.0024	0.0733	5.38 (3.11, 2.27)	0.2862
0.1	40	40	0.0986	0.0998	0.0743	4.53 (2.28, 2.25)	0.2942
	70	70	0.0987	0.0995	0.0712	4.93 (2.53, 2.40)	0.2781
	120	120	0.0970	0.0978	0.0717	4.92 (2.80, 2.12)	0.2797
0.3	40	40	0.2976	0.3002	0.0821	4.73 (2.16, 2.57)	0.3205
	70	70	0.2981	0.2997	0.0713	5.29 (2.55, 2.74)	0.2780
	120	120	0.2978	0.2989	0.0661	5.08 (2.58, 2.50)	0.2582
0.5	40	40	0.4976	0.5007	0.0788	4.30 (2.17, 2.13)	0.3070
	70	70	0.4974	0.4993	0.0653	4.72 (2.30, 2.42)	0.2548
	120	120	0.4977	0.4989	0.0576	4.99 (2.68, 2.31)	0.2250
0.7	40	40	0.6973	0.7000	0.0658	4.76 (2.47, 2.29)	0.2586
	70	70	0.6987	0.7003	0.0529	4.76 (2.41, 2.35)	0.2078
	120	120	0.6984	0.6993	0.0451	5.38 (2.73, 2.65)	0.1770
0.9	40	40	0.8978	0.8990	0.0391	3.83 (2.18, 1.65)	0.1613
	70	70	0.8994	0.9001	0.0309	4.29 (2.36, 1.93)	0.1250
	120	120	0.8996	0.9000	0.0258	4.65 (2.36, 2.29)	0.1032
0.95	40	40	0.9495	0.9501	0.0267	5.16 (1.59, 3.57)	0.1173
	70	70	0.9497	0.9500	0.0215	4.63 (2.22, 2.41)	0.0907
	120	120	0.9498	0.9500	0.0180	4.37 (2.30, 2.07)	0.0742
0.5	100	50	0.4975	0.4991	0.0599	5.03 (2.56, 2.47)	0.2336
0.5	100	80	0.4979	0.4993	0.0606	5.03 (2.65, 2.38)	0.2367
0.7	70	40	0.6979	0.6998	0.0551	4.81 (2.17, 2.64)	0.2157
0.7	80	70	0.6983	0.6998	0.0515	5.21 (2.83, 2.38)	0.2021

			Part II Results for truncated
			Median and SE			95% BCa bootstrap ci
			Median	Median after bias correction	Bootstrap SE	Non-coverage % (too low, too high)	Length
0.0	40	40	0	0	0.0386	2.30 (2.30)	0.1522
	70	70	0	0	0.0374	2.57 (2.57)	0.1396
	120	120	0	0	0.0403	2.27 (2.27)	0.1387
0.1	40	40	0.0980	0.0992	0.0649	4.53 (2.28, 2.25)	0.2511
	70	70	0.0987	0.0998	0.0616	4.93 (2.53, 2.40)	0.2297
	120	120	0.0985	0.0997	0.0609	4.92 (2.80, 2.12)	0.2223
0.3	40	40	0.2985	0.3012	0.0818	4.73 (2.16, 2.57)	0.3197
	70	70	0.2990	0.3006	0.0712	5.29 (2.55, 2.74)	0.2776
	120	120	0.2974	0.2989	0.0660	5.08 (2.58, 2.50)	0.2579

Part I shows mean, mean after bias correction, mean of the bootstrap standard error, non-coverage percentage of 95% BC_a bootstrap confidence intervals (with left and right non-coverage percentages), and mean length of the interval. Part II shows, for p_gs ≤ 0.3, the same type of results as part I, but for truncated at zero. Instead of means, medians are given. At p_gs = 0.0, only non-coverage at the right of p_gs = 0.0 is considered