East African cassava mosaic-like viruses from Africa to Indian ocean islands: molecular diversity, evolutionary history and geographical dissemination of a bipartite begomovirus

Table 2 List of pseudorecombination events inferred in concatenated DNA-A and DNA-B sequences

Event number	DNA-B clade *	Alignment position		DNA-A *	Original DNA-A *	B part^ϕ	Methods^α	P-value^β
Event number	DNA-B clade *	Begin	End	DNA-A *	Original DNA-A *	B part^ϕ	Methods^α	P-value^β
1	EACMV-like	2858	6017	EACMV-UG	EACMV	Full B	RGBMcST	1.9x10^-71
2	EACMV-like	2883 ^$	6017	EACMKV	EACMV	Full B	RGBMCST	9.9x10^-24
3	EACMV-like	2883 ^$	6017	EACMKV	EACMV	Full B	RGMCST	6.7x10^-61
4	EACMV-like	2883	6017 ^$	EACMV	EACMV	Full B	RBGMCST	1.4x10^-28
5	EACMV-like	2883 ^$	6017	EACMKV	EACMV	Full B	RGBMCST	1.7x10^-63
6	EACMV-like	3635	5950	EACMV-UG	EACMZV	pCR+ORFs	RGBMCST	2.7x10^-38
7	EACMV-like	2883 ^$	5973 ^$	EACMV	EACMV-UG	Full B	RGBMCST	2.2x10^-36
8	EACMV-like	2883 ^$	6017	EACMV-UG	EACMKV	Full B	RGBMCST	8.1x10^-51
9	EACMV-like	2820	5924	EACMV	EACMV	Full B	GBMCST	7.3x10^-26
10	EACMV-like	2883	6017	EACMV	EACMV	Full B	RGbMCST	2.9x10^-12
11	EACMV-like	2883	6017	EACMV	EACMV	Full B	GMCST	8.7x10^-8
12	EACMV-like	3711	6017	EACMZV	EACMZV	pCR+ORFs	GMCST	8.0x10^-25
13	EACMV-like	3689	6017 ^$	EACMV	EACMZV	pCR+ORFs	RGBMcST	8.6x10^-13
14	EACMV-like	3789	5501 ^$	EACMKV	EACMZV	pCR+pORFs	RBMCST	2.1x10^-6
15	EACMV-like	1	2201 ^$	EACMV	EACMV	Full B	rbMCST	1.3x10^-4

^* EACMV-like comprises B components associated with EACMV, EACMKV, EACMZV and SACMV.
^$ Breakpoints not inferred by RDP.
^α R: RDP; G: GENECONV; B: Bootscan; M: MaxChi; C: Chimaera; S: SiScan; T: 3Seq. Upper-case letters imply that a method detected recombination with a multiple comparison corrected P-value < 0.05, lower-case letters imply that the method detected recombination with a multiple comparison corrected P-value > 0.05
^β The reported P-value is for the method in bold type and is the best P-value calculated for the region in question.
^ϕ The portion of the DNA-B “transferred” between the DNA-A sequences during each re-assortment event is indicated (p: partial; CR: Common Region; ORFs: Open-Reading Frames).

ISSN: 2730-7182