. 2017 Mar 2;3(1):vex005. doi: 10.1093/ve/vex005

Table 2.

The relative contribution (η_r/η_μ) and relative rates (ρ/θ) of recombination and mutation for the cp and rep genes of begomovirus datasets retrieved from the GenBank database.

Dataset	cp						rep
Dataset	η_r^a	η_μ^b	η_r/η_μ	ρ^c	θ^w^d	ρ/θ^w^e	η_r	η_μ	η_r/η_μ	ρ	θ^w	ρ/θ^w
ACMV	0	312	0.000	5.101	35.994	0.142	0	694	0.000	5.101	48.147	0.106
AgEV	55	93	0.591	1.020	26.128	0.039	70	103	0.680	1.020	32.242	0.032
BhYVIV	105	503	0.209	12.242	52.560	0.233	360	527	0.683	4.081	81.912	0.050
BhYVMV	184	192	0.958	7.141	40.907	0.175	511	775	0.659	7.141	86.986	0.082
CLCuBuV	99	152	0.651	0.000	42.089	0.000	145	190	0.763	4.081	47.377	0.086
CLCuGV	98	138	0.710	1.020	29.092	0.035	56	317	0.177	3.061	40.446	0.076
CLCuMV	114	189	0.603	2.040	41.577	0.049	54	433	0.125	2.040	59.920	0.034
EACMV	104	541	0.192	1.020	15.825	0.064	61	1372	0.044	5.101	13.692	0.373
MYMIV	11	238	0.046	2.040	32.768	0.062	13	342	0.038	3.061	39.973	0.077
SPLCV	166	290	0.572	4.081	33.656	0.121	164	985	0.166	13.263	73.623	0.180
ToLCNDV	128	644	0.199	14.283	42.452	0.336	160	1136	0.141	11.222	77.347	0.145
ToLCTV	1	163	0.006	3.061	23.889	0.128	146	301	0.485	1.020	59.131	0.017
TYLCTV	46	132	0.348	2.040	29.867	0.068	37	309	0.120	2.040	49.779	0.041
ToYLCCNV	40	444	0.090	2.040	46.384	0.044	263	406	0.648	1.020	84.907	0.012
TYLCV	45	420	0.107	5.101	5.315	0.960	41	1040	0.039	2.040	29.320	0.070

ACMV, African cassava mosaic virus; AgEV, Ageratum enation virus; BhYVIV, Bhendi yellow vein India virus; BhYVMV, Bhendi yellow vein mosaic virus; CLCuBuV, Cotton leaf curl Burewala virus; CLCuGV, Cotton leaf curl Gezira virus; CLCuMV, Cotton leaf curl Multan virus; EACMV, East African cassava mosaic virus; MYMIV, Mungbean yellow mosaic India virus; SPLCV, Sweet potato leaf curl virus; ToLCNDV, Tomato leaf curl new Delhi virus; ToLCTV, Tomato leaf curl Taiwan virus; TYLCTV, Tomato yellow leaf curl Thailand virus; ToYLCCNV, Tomato yellow leaf curl China virus; TYLCV, Tomato yellow leaf curl virus.

^{^a}

Number of substitutions due to recombination over the ML phylogenetic tree.

^{^b}

Number of substitutions due to mutation over the ML phylogenetic tree.

^{^c}

Population-scaled recombination rate estimated using a likelihood lookup table for a per site mutation rate of 0.001.

^{^d}

Watterson’s infinite-sites estimator of the population-scaled mutation rate (θ).

^{^e}

Equivalent to r/μ.