Table 2. Recombination signals across Sweet potato feathery mottle virus (SPFMV) using RDP4.

Recombination events	Recombinant sequence	Detected breakpoint	Parental sequence (major)	Parental sequence (minor)	Detected in RDP4	Avr P-val
1	SPFMV_AB439206_Lab_Isolates SPFMV_MF572056.1_EastTimor	5–1,004	SPFMV_AB509454_Lab_Isolates	SPFMV_D86371_Lab_Isolates	RGBMCS3seq	2.62 E-44
2	SPFMV_KP115609_South_Korea	22–948	SPFMV_AB465608_South_Korea	SPFMV_MF572056.1_EastTimor	RGBMCS3seq	1.41E-36
3	SPFMV_MF185715.1_Brazil	12–8,769	SPFMV_MF572055.1_EastTimor	SPFMV_MF572054.1_Australia	RGBMCS3seq	1.42 E-36
4	SPFMV_KU511268_Spain	7,062–7,946	SPFMV_KP115608_South_Korea	SPFMV_AB509454_Lab_Isolates	RGBMCS3seq	1.11 E-18
5	SPFMV_KU511268_Spain	51–7,061	SPFMV_FJ155666_Peru	SPFMV_MF572054.1_Australia	RGBMCS3seq	0.0042
6	SPFMV_MF572055.1_EastTimor	10,199–10,663	SPFMV_MF572054.1_Australia	SPFMV_MF572046.1_Australia	RGBMCS3seq	1.49 E-11
7	SPFMV_MF572054.1_Australia	10,218–10,663	SPFMV_MF572049.1_Australia	SPFMV_SRF109a_Kenya	RGBMCS3seq	1.30 E-09
8	SPFMV_FJ155666_Peru	1,642–7,476	SPFMV_MF572054.1_Australia	SPFMV_AB465608_South_Korea	RGBMCS3seq	1.53 E-09
9	SPFMV_MF572056.1_EastTimor	36–9,374	SPFMV_MF572053.1_EastTimor	SPFMV_MF572052.1_Australia	RGBMCS3seq	1.51 E-18
10	SPFMV_FJ155666_Peru	7,477–10,144	SPFMV_SRF109a_Kenya	SPFMV_KY296450.1_China	RGBMCS3seq	1.06 E-02
11	SPFMV_SRF109a_Kenya	9,696–10,216	SPFMV_MF572050.1_Australia	SPFMV_KY296450.1_China	RGBMCS3seq	1.31 E-07

Notes:

Table entries represent the recombinant sequences and the position of recombination within the complete genome. A recombination pattern was considered if supported by at least four of the seven RDP4 programs at a significance level of 0.05.

Recombinant programs in RDP4 that detected recombinant events across the whole genome of SPFMV 3, 3seq; B, Bootscan; C, Chimera; G, Gencov; R, RDP; M, Maxchi; S, Siscan. Bold letters in the RDP column (detected in RDP4) indicate the program that detected the highest P-value.