Table 2.

59 gene clusters analyzed in our experiment

#	Gene cluster ID	$\mathsf{Diverge}$	${\mathsf{d}}_{\mathsf{SBP}}$	$d_{\mathit{reversals}}$	Size	PQ-tree
1	19876	1.000	0.655	0.500	3	((0− [1− 2− 3−]) 4+)
2	21344	0.905	0.615	0.439	4	([0− 1−] [2+ 3+])
3	19877	0.997	0.915	0.592	3	([0+ 1+ 2+] 3+)
4	27180	0.828	0.828	0.436	3	([0− 1− 2−] 3+)
5	14602	0.978	0.985	0.654	4	(0− [1− 2− 3− 4−])
6	23340	0.974	0.809	0.684	3	(0− (1+ [2+ 3+]))
7	19853	0.967	0.825	0.703	3	(0− ([1+ 2+ 3+] 4+))
8	14790	0.994	0.994	0.808	3	([0− 1− 2− 3−] 4− 5−)
9	26244	0.971	0.996	0.817	3	(0− [1− 2− 3−])
10	26243	0.903	0.909	0.757	4	(([0− 1−] 2−) 3−)
11	26476	0.925	0.998	0.791	3	(0+ [1+ 2+ 3+])
12	15297	0.991	0.945	0.866	3	(0− ([1− 2−] [3− 4+]))
13	22866	0.845	0.600	0.722	5	([0+ 1+] [2+ 3+])
14	26238	0.785	0.807	0.663	7	([0− 1−] 2− 3−)
15	18995	0.770	0.621	0.681	9	((0+ [1+ 2+]) 3+)
16	28119	0.559	0.559	0.478	5	(0− 1− 2− 3−)
17	25371	0.983	0.942	0.907	4	(0− ([1− 2−] 3−))
18	26231	0.974	0.802	0.909	4	((0+ [1+ 2+]) 3+)
19	14796	0.760	0.686	0.700	9	(0− 1− [2− 3−] 4−)
20	20007	0.999	0.999	0.960	3	(0− 1− 2− [3− 4−])
21	22299	0.929	0.929	0.891	3	(0− 1− 2− 3−)
22	19255	0.948	0.940	0.918	5	([0− 1−] [2− 3−] 4−)
23	20764	0.880	0.987	0.852	3	([0+ 1+ 2+] 3+)
24	21553	0.982	0.982	0.961	3	(0− [1− 2−] 3− 4−)
25	27851	1.000	1.000	0.982	3	(0+ [1+ 2+] 3+)
26	27427	0.866	0.866	0.866	3	(0+ [1+ 2+ 3+])
27	15467	1.000	1.000	1.000	3	([0− 1− 2− 3−] 4− 5−)
28	19610	0.998	0.998	0.998	3	(0− ([1− 2−] 3− 4−))
29	20078	0.982	0.945	0.982	3	(0+ (1+ [2+ 3+]))
30	22181	0.912	0.940	0.912	3	(([0+ 1+] 2+) 3+)
31	25612	0.997	0.888	0.997	4	([0− 1−] [2− 3−])
32	27177	0.945	0.945	0.945	3	(0− [1+ 2+ 3+])
33	8962	0.933	0.933	0.933	3	(0− 1− [2− 3− 4− 5− 6−])
34	27530	0.999	0.974	0.999	3	[[0− 1−] 2− 3−]
35	19256	0.779	0.737	0.798	8	(0− 1− 2− 3−)
36	21317	0.974	0.974	0.995	3	(0+ 1+ [2+ 3+ 4+])
37	19852	0.890	0.821	0.919	6	(0− [1− 2−] 3−)
38	27250	0.967	0.967	0.997	3	([0+ 1+] [2+ 3+])
39	30976	0.963	1.000	0.996	3	[0− 1+ [2+ 3+]]
40	28245	0.715	0.715	0.775	3	(0− 1− 2− 3−)
41	26257	0.933	0.988	0.999	3	((0+ [1+ 2+]) 3+)
42	14839	0.860	0.912	0.928	8	([0− 1−] 2− 3− 4−)
43	27207	0.748	0.749	0.824	7	(0− [1− 2−] 3+)
44	12685	0.917	0.917	0.994	3	([0− 1− 2−] 3− 4− 5−)
45	21268	0.876	0.876	0.956	4	([0+ 1+] [2+ 3+])
46	23083	0.832	0.916	0.912	5	(([0− 1−] 2−) 3−)
47	25597	0.810	0.817	0.892	5	(0+ [1+ 2+] 3+)
48	19005	0.902	0.997	0.997	3	((0+ 1+ 2+) 3+)
49	15035	0.623	0.671	0.732	4	((0+ ([1+ 2+] 3+)) 4+)
50	28547	0.828	0.828	0.961	7	(0− 1− 2− 3−)
51	25375	0.866	0.866	1.000	3	([0− 1−] 2− 3−)
52	20332	0.860	0.860	0.997	5	(0+ 1+ [2+ 3+])
53	26364	0.839	0.869	0.988	5	(0+ 1+ 2+ 3+)
54	19909	0.818	0.818	0.968	6	(0− [1− 2−] 3−)
55	20601	0.586	0.586	0.756	5	(0− 1− 2− 3−)
56	15391	0.784	0.784	0.999	3	(0− (1− [2− 3− [4− 5−]]))
57	14573	0.501	0.501	0.722	4	(0− 1− (2− [3− 4−]) 5−)
58	25554	0.721	0.971	0.971	3	(([0+ 1+] 2+) 3+)
59	19526	0.543	0.471	0.814	4	((0− [1− 2−]) 3−)

For each gene cluster (row in the table) we report the Pearson correlation versus the corresponding instance-abundance measure for each of the three genome rearrangement measures compared in our experiment: our proposed measure ($\mathsf{Diverge}$), signed break-point distance (${\mathsf{d}}_{\mathsf{SBP}}$) as in Definition 8 and CREx reversals distance ($d_{\mathit{reversals}}$) [28]. The column denoted “Size” gives the number of genes in the gene cluster, and the column denoted “PQ-tree” gives the corresponding PQ-tree representing the gene cluster. The functional category annotations for each cluster are given in Tables 3 and 4