Phylogenetic detection of numerous gene duplications shared by animals, fungi and plants

Table 4 Number of orthogroups and early eukaryotic duplications identified in analysis III

	NJ-BS^a		ML-BS		ML-aLRT^b
	≥ 50%	≥ 70%	≥ 50%	≥ 70%	≥ 50%	≥ 70%
Type I orthogroup with duplication	172	93	169	80	334	276
Type I orthogroup total	508	389	526	380	774	680
Type II orthogroup with duplication	119	59	102	49	285	301
Type II orthogroup total	724	597	605	504	581	659
Total orthogroup with duplication	291	152	271	129	619	577
Orthogroup total	1,232	986	1,131	884	1,355	1,339
Percentage	23.6%	15.4%	24.0%	14.6%	45.7%	43.1%

Type I orthogroup refers to orthogroups with a prokaryotic outgroup; type II orthogroup refers to orthogroups without a prokaryotic outgroup. ^aBS, bootstrap test. ^baLRT, approximate likelihood-ratio test.

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