TABLE 3.

Results of topological tests for the possible trees of each PLV putative recombinant fragment

Data seta	Examined treeb	Log likelihoodc	P value of the S-H testd
PLV_REC1	Tree_REC1	6,596.5*
	Tree_REC2	6,636.7	0.005
	Tree_REC4	6,641.0	0.007
	Tree_REC5	6,626.7	0.029
PLV_REC2	Tree_REC1	8,558.7	0.001
	Tree_REC2	8,510.6*
	Tree_REC4	8,545.6	0.002
	Tree_REC5	8,567.8	<0.001
PLV_REC4	Tree_REC1	4,352.6	0.02
	Tree_REC2	4,330.7	0.41
	Tree_REC4	4,320.7*
	Tree_REC5	4,361.5	0.005
PLV_REC5	Tree_REC1	16,143.1	<0.001
	Tree_REC2	16,188.1	<0.001
	Tree_REC4	16,188.8	<0.001
	Tree_REC5	16,073.3*

^aPutative recombinant fragments inferred from the results of the bootscanning analyses shown in Fig. 3 (see the text for more details).

^bTopologies of Tree_REC1, Tree_REC2, Tree_REC4, and Tree_REC5 are reported in Fig. 4a, b, c, and d, respectively.

^cThe nucleotide substitution parameters and the log likelihood of each tree have been reestimated via maximum likelihood by using the best-fitting nucleotide substitution model for each data set according to the data in Table 1. The best tree is statistically compared to the other trees and is indicated by an asterisk.

^dThe S-H test was done with RELL bootstraps (1,000 replicates).