Evolutionary consequences of a large duplication event in Trypanosoma brucei: Chromosomes 4 and 8 are partial duplicons

Table 3 Retained paralogs with codons showing evidence for positive or negative selection.

Locus	Identifier Chr4	Chr8	Selection analysis: With outgroup					Without outgroup
			Method	Global ω	+	-	+ codons	- codons	+ codons	- codons
6	Tb927.4.5340	Tb927.8.6980	SLAC	0.382	0.369	0.462	0	0
			FEL				0	54
			REL				2	65	67	0
8	Tb927.4.5320	Tb927.8.7090	SLAC	0.333	0.325	0.418	0	0
			FEL				0	84
			REL				5	340	7	6
10	Tb927.4.5300	Tb927.8.7140	SLAC	0.289	0.271	0.364	0	1
			FEL				1	44
			REL				15	192	20	7
12	Tb927.4.5220	Tb927.8.7190	SLAC	0.315	0.302	0.415	0	0
			FEL				0	31
			REL				6	77	19	7
14	Tb927.4.5180	Tb927.8.7220	SLAC	0.201	0.192	0.266	0	0
			FEL				0	73
			REL				4	135	2	49
21	Tb927.4.5030	Tb927.8.7390	SLAC	0.072	0.062	0.112	0	0
			FEL				0	65
			REL				5	286	3	24
27	Tb927.4.4960	Tb927.8.7460	SLAC	0.188	0.176	0.246	0	0
			FEL				0	76
			REL				7	289	49	0
31	Tb927.4.4920	Tb927.8.7500	SLAC	0.413	0.363	0.508	0	0
			FEL				0	13
			REL				6	63	15	0
40	Tb927.4.4730	Tb927.8.7740	SLAC	0.148	0.138	0.202	0	1
			FEL				0	45
			REL				4	201	40	0
43	Tb927.4.4550	Tb927.8.7780	SLAC	0.199	0.193	0.261	0	1
			FEL				0	158
			REL				11	17	5	7
46	Tb927.4.4520	Tb927.8.7820	SLAC	0.342	0.33	0.426	0	0
			FEL				1	57
			REL				1	73	6	0
49	Tb927.4.4470	Tb927.8.7860	SLAC	0.256	0.253	0.335	0	2
			FEL				0	214
			REL				2	187	20	0
50	Tb927.4.4400	Tb927.8.7950	SLAC	0.369	0.365	0.447	0	10
			FEL				4	191
			REL				0	121	2	0
52	Tb927.4.4370	Tb927.8.8000	SLAC	0.216	0.207	0.28	0	0
			FEL				0	91
			REL				49	68	8	0
62	Tb927.4.4160	Tb927.8.8170	SLAC	0.282	0.273	0.345	0	1
			FEL				1	94
			REL				3	181	5	0
71	Tb927.4.3950	Tb927.8.8330	SLAC	0.249	0.242	0.318	0	0
			FEL				1	115
			REL				14	458	27	41

ISSN: 1471-2164