Table S8.

Positional distribution of DA differences of paralogous human Swiss-Prot proteins defined through comparison with RefSeq proteomes of various species.

Type of DA Difference**
Species*	Transition Type	Nterm	Cterm	Internal	Duplication
Trichoplax adhaerens	1	45	42	4	4
	2	53	28	10	7
	3	38	39	12	8
Nematostella vectensis	1	45	40	5	5
	2	50	32	8	4
	3	30	28	23	18
Hydra magnipapillata	1	44	43	4	4
	2	51	36	6	5
	3	35	34	18	12
Caenorhabditis elegans	1	44	42	5	5
	2	46	42	7	3
	3	35	38	15	11
Caenorhabditis briggsae	1	46	41	5	4
	2	46	39	8	4
	3	35	36	17	11
Drosophila melanogaster	1	49	39	5	5
	2	49	36	8	4
	3	38	32	17	12
Drosophila simulans	1	48	41	4	4
	2	44	42	7	5
	3	35	36	15	12
Drosophila pseidoobscura	1	45	39	6	6
	2	45	39	7	4
	3	32	34	19	13
Strongylocentrotus purpuratus	1	44	40	6	6
	2	45	30	13	9
	3	28	31	21	17
Branchiostoma floridae	1	44	37	7	7
	2	42	26	16	11
	3	30	21	27	21
Ciona intestinalis	1	46	43	4	3
	2	50	37	7	3
	3	32	22	27	16
Danio rerio	1	44	32	10	10
	2	49	24	16	8
	3	36	15	27	20
Xenopus tropicalis	1	33	26	8	7
	2	41	40	10	7
	3	36	33	17	12
Gallus gallus	1	41	39	9	9
	2	33	34	16	13
	3	24	27	26	21
Mus musculus	1	29	32	18	18
	2	5	38	31	26
	3	39	32	16	13

^*The RefSeq proteomes of these species were used to defined clusters of paralogs as described in the text.

^**The numbers in the different categories represent the percent of total assignments