TABLE 1.

(A01) Proportions of simulated replicates in which the true subtrees $R$, $S$, $T$ and $U$ in species trees B and U of Figure 1 are recovered in the MAP species tree

$S$	$L$	Low rate ($\theta =0.0025$)			High rate ($\theta =0.01$)
		$\rho =0.05$	$\rho =0.5$	$\rho =5$	$\rho =0.05$	$\rho =0.5$	$\rho =5$
Tree B
$2$	$40$	0.24, 0.52, 0.56, 0.63	0.22, 0.47, 0.58, 0.57	0.27, 0.48, 0.63, 0.67	0.60, 0.72, 0.76, 0.87	0.63, 0.72, 0.75, 0.87	0.64, 0.72, 0.76, 0.86
	$160$	0.88, 0.94, 0.94, 0.93	0.88, 0.92, 0.93, 0.96	0.85, 0.88, 0.90, 0.96	0.97, 0.97, 0.97, 1.00	0.94, 0.94, 0.94, 1.00	0.98, 0.98, 0.98, 1.00
$8$	$40$	0.27, 0.46, 0.56, 0.71	0.28, 0.54, 0.63, 0.65	0.22, 0.52, 0.60, 0.62	0.60, 0.75, 0.79, 0.80	0.59, 0.70, 0.72, 0.88	0.71, 0.80, 0.83, 0.89
	$160$	0.87, 0.90, 0.90, 0.96	0.90, 0.92, 0.93, 0.98	0.78, 0.92, 0.95, 0.86	0.99, 0.99, 0.99, 1.00	0.97, 0.97, 0.97, 1.00	1.00, 1.00, 1.00, 1.00
Tree U
$2$	$40$	0.76, 0.76, 0.89, 0.92	0.69, 0.69, 0.91, 0.93	0.69, 0.69, 0.86, 0.94	0.91, 0.91, 0.95, 0.97	0.91, 0.91, 0.96, 0.97	0.86, 0.86, 1.00, 1.00
	$160$	0.99, 0.99, 1.00, 1.00	0.93, 0.93, 1.00, 1.00	0.99, 0.99, 0.99, 1.00	1.00, 1.00, 1.00, 1.00	1.00, 1.00, 1.00, 1.00	1.00, 1.00, 1.00, 1.00
8	$40$	0.80, 0.80, 0.88, 0.93	0.70, 0.70, 0.85, 0.89	0.68, 0.68, 0.80, 0.88	0.95, 0.95, 0.96, 0.98	0.90, 0.90, 0.96, 0.96	0.91, 0.91, 0.97, 0.98
	$160$	0.99, 0.99, 1.00, 1.00	0.96, 0.96, 1.00, 1.00	0.98, 0.98, 1.00, 1.00	1.00, 1.00, 1.00, 1.00	1.00, 1.00, 1.00, 1.00	1.00, 1.00, 1.00, 1.00