Table 2. Robustness of the population recombination map and correlation with crossover maps.

Data	Map	3D7×3D1			SW5×SW39			Average
		Correlation	P-value	C.I.	Correlation	P-value	C.I.	Correlation	P-value	C.I.
Unfiltered	LDhat	0.27	2.22e−60	[0.24, 0.30]	0.23	5.11e−44	[0.20, 0.26]	0.29	4.61e−69	[0.26, 0.32]
	LDhelmet	0.24	1.68e−47	[0.21, 0.27]	0.20	8.18e−33	[0.17, 0.23]	0.25	1.11e−52	[0.22, 0.28]
	Average	0.26	2.59e−56	[0.23, 0.29]	0.22	9.81e−40	[0.19, 0.25]	0.27	4.71e−63	[0.24, 0.30]
	LDhat intergenic	0.20	9.54e−32	[0.17, 0.24]	0.18	9.54e−25	[0.15, 0.21]	0.22	2.65e−37	[0.19, 0.25]
	LDhelmet intergenic	0.22	9.73e−37	[0.19, 0.25]	0.19	1.89e−28	[0.16, 0.23]	0.23	1.79e−42	[0.20, 0.27]
	LDhat no singleton	0.21	1.18e−36	[0.18, 0.24]	0.17	1.81e−24	[0.14, 0.20]	0.21	6.88e−39	[0.18, 0.24]
	LDhat no structure	0.25	7.77e−54	[0.22, 0.29]	0.23	7.90e−43	[0.19, 0.26]	0.26	1.48e−59	[0.23, 0.29]
Filtered	LDhat	0.31	3.36e−76	[0.27, 0.33]	0.28	1.94e−64	[0.25, 0.31]	0.34	2.10e−96	[0.31, 0.37]
	LDhelmet	0.26	4.45e−57	[0.23, 0.29]	0.22	3.35e−40	[0.19, 0.25]	0.28	1.34e−64	[0.25, 0.31]
	Average	0.29	9.54e−69	[0.26, 0.32]	0.25	2.62e−51	[0.22, 0.28]	0.31	5.65e−80	[0.28, 0.34]
	LDhat intergenic	0.20	5.39e−30	[0.17, 0.23]	0.18	3.70e−24	[0.15, 0.21]	0.22	1.90e−36	[0.19, 0.25]
	LDhelmet intergenic	0.23	1.81e−37	[0.19, 0.26]	0.19	5.06e−26	[0.15, 0.22]	0.24	6.40e−42	[0.20, 0.27]
	LDhat no singleton	0.29	6.92e−66	[0.25, 0.32]	0.25	6.22e−52	[0.22, 0.28]	0.31	8.55e−79	[0.28, 0.34]
	LDhat no structure	0.29	1.24e−71	[0.26, 0.32]	0.29	2.58e−67	[0.26, 0.32]	0.32	3.66e−88	[0.29, 0.35]

Correlation values are Kendall’s τ. SW5×SW39 and 3D7×3D1 correspond to crosses in Croll et al. (2015). C.I., 95% confidence interval obtained by 10,000 bootstraps.