TABLE 1.

Predicted recombination events in the CPXV-No-H2 genome using recombination detection program 4 (RPD4) and Simplot analysis.

					RDP4			Simplot
Putative parental strains	Major parental	Minor parental	Recombinant virus	Recombination event	Breakpoint in CPXV-No-H2		Recombination detection programs	Breakpoint interval in CPXV-No-H2
					Begin (bp)	End (bp)		Begin (bp)	End (bp)
AKPV, CPXV_GerMygEK938_17, CPXV_Gri, CPXV-No-H2	CPXV_GerMygEK938_17	AKPV	CPXV-No-H2	1	76,946	77,244*	RDP, GENECONV, Bootscan, MaxChi, Chimaera, 3Seq	76,679–76,957	77,201–77,208
	CPXV_GerMygEK938_17	AKPV	CPXV-No-H2	2	77,741	78,243	RDP, GENECONV, Bootscan, MaxChi, Chimaera, 3Seq	77,717–77,765	78,237–78,399
	CPXV_GerMygEK938_17	AKPV	CPXV-No-H2	3	150,156	154,530	GENECONV, Bootscan, MaxChi, Chimaera, SiScan, 3Seq	150041–150158	154,524–154,570
	CPXV_GerMygEK938_17	AKPV	CPXV-No-H2	4	160,988*	162,917*	RDP, GENECONV, Bootscan, MaxChi, Chimaera, SiScan, 3Seq	160,774–160,878	162,909–162,948
	CPXV_GerMygEK938_17	AKPV	CPXV-No-H2	5	165,874	168,063	RDP, GENECONV, Bootscan, MaxChi, Chimaera, SiScan, 3Seq	165,828–165,878	168,042–168,066
	CPXV_GerMygEK938_17	AKPV	CPXV-No-H2	6	-	-	-	204,960–204,977	209,498–209,901
ECTV_Mos, CPXV_GerMygEK938_17, CPXV_Gri, CPXV-No-H2	CPXV_GerMygEK938_17	ECTV_Mos	CPXV-No-H2	7	150,119	153,968	GENECONV, Bootscan, MaxChi, Chimaera, SiScan, 3Seq	149,993–150,158	153,952–154,180
	CPXV_GerMygEK938_17	ECTV_Mos	CPXV-No-H2	8	165,847	167,892	RDP, GENECONV, Bootscan, MaxChi, Chimaera, SiScan, 3Seq	165,678–165,855	167,879–167,943
VACV_LC16m8, CPXV_GerMygEK938_17, CPXV_Gri, CPXV-No-H2	CPXV_GerMygEK938_17	VACV_LC16m8	CPXV-No-H2	9	164,419*	165,036*	RDP, Bootscan, MaxChi, Chimaera, SiScan, 3Seq	164,399–164,525	164,756–164,768

The breakpoint that was undetermined is marked with an asterisk. AKPV, Alaskapox virus; CPXV, Cowpox virus; ECTV, Ectromelia virus; VACV, Vaccinia virus. The breakpoint that was undetermined is marked with an asterisk.