TABLE 2.

Number of genes predicted and the corresponding sensitivity and specificity at each step in ChemGenome2.0 in the whole genome analyses of 372 prokaryotic genomes

S.No.	NCBI_ID	Initial ORFs	SS	SP	ChemGenome (DNA space)	SS	SP	ChemGenome (protein space)	SS	SP	ChemGenome (Swissprot space)	Annotated gtenes	SS	SP
1	NC_000117	6773	0.99	0.13	4558	0.98	0.19	2135	0.95	0.40	1284	895	0.92	0.64
2	NC_000853	15,104	0.99	0.12	10,688	0.99	0.17	4991	0.97	0.36	3037	1858	0.92	0.57
3	NC_000854	11,774	1.00	0.16	9616	0.99	0.19	5273	0.91	0.32	2282	1841	0.81	0.65
4	NC_000868	11,066	1.00	0.17	6598	0.99	0.28	3524	0.97	0.52	2232	1896	0.90	0.77
5	NC_000907	11,945	1.00	0.14	6582	0.97	0.24	3064	0.93	0.50	1926	1657	0.91	0.78
6	NC_000908	3866	1.00	0.12	1906	0.96	0.24	871	0.85	0.47	491	477	0.81	0.79
7	NC_000909	7829	1.00	0.22	3786	0.99	0.45	2450	0.97	0.68	1488	1729	0.80	0.93
8	NC_000911	28,534	1.00	0.11	20,656	0.98	0.15	10,459	0.95	0.29	5891	3167	0.93	0.50
9	NC_000912	6856	1.00	0.10	3798	0.95	0.17	1331	0.82	0.43	792	689	0.77	0.67
10	NC_000913	41,399	1.00	0.10	30,642	0.99	0.14	15,618	0.97	0.27	8500	4311	0.94	0.48
11	NC_000915	9647	0.98	0.16	5829	0.96	0.26	3227	0.90	0.44	1807	1576	0.86	0.75
12	NC_000916	14,586	1.00	0.13	10,537	0.99	0.18	6315	0.97	0.29	3024	1873	0.91	0.57
13	NC_000917	17,584	0.99	0.14	11,988	0.99	0.20	6121	0.96	0.38	3584	2420	0.90	0.61
14	NC_000918	10,140	1.00	0.15	6591	0.99	0.23	2784	0.98	0.54	1749	1529	0.91	0.80
15	NC_000919	11,875	1.00	0.09	8694	0.99	0.12	4200	0.94	0.23	2165	1036	0.90	0.43
16	NC_000921	9384	0.99	0.16	5682	0.98	0.26	3155	0.92	0.44	1763	1491	0.89	0.75
17	NC_000922	7505	0.99	0.14	5040	0.98	0.21	2484	0.94	0.40	1504	1054	0.91	0.64
18	NC_000961	10,026	1.00	0.19	5869	0.97	0.32	3317	0.94	0.55	2096	1956	0.86	0.80
19	NC_000962	45,751	1.00	0.87	39,813	0.99	0.10	21,629	0.96	0.18	6342	3999	0.85	0.54
20	NC_000963	4307	1.00	0.19	2148	0.97	0.38	1271	0.93	0.61	805	835	0.86	0.89

Data for the first 20 genomes in the order of NCBI IDs are shown in this table. Data for all 372 genomes are provided in Table S2 in Data S1.