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Table 4
*Co-occurrence of genomes in COGs: A. pernix* groups within the archaeal domain**
	Ap	Mj	Mth	Af	Ph	Pa	Tm	Ec	Bs	Ssp	Sc

Ap	-	275	273	151	203	168	424	321	349	386	387
	836	561	563	685	634	677	412	515	487	450	449
	-	408	424	411	299	297	647	955	878	752	402
Mj		-	157	164	252	258	507	460	496	481	524
		969	812	805	717	722	462	509	473	488	445
		-	175	291	249	252	597	961	892	714	406
Mth			-	177	325	296	509	441	478	465	515
			987	810	662	700	478	546	509	522	472
			-	286	271	274	581	924	856	680	379
Af				-	355	330	569	483	526	540	593
				1096	741	780	527	613	570	556	503
				-	192	194	532	857	795	646	348
Ph					-	46	460	436	453	495	487
					933	894	473	497	480	438	446
					-	80	586	973	885	764	405
Pa						-	470	431	451	501	505
						974	504	543	523	473	469
						-	577	964	898	742	396
Tm							-	223	216	325	592
							1059	836	843	734	467
							-	634	522	468	384
Ec								-	339	480	813
								1470	1331	990	657
								-	234	212	194
Bs									-	464	750
									1365	901	615
									-	301	236
Ssp										-	632
										1202	570
										-	281
Sc											-
											851
											-

^*In each cell, the middle line is the number of COGs in which the given two species co-occur; the top line is the number of COGs in which the genome in the corresponding row, but not the one in the corresponding column, is represented; conversely, the bottom line is the number of COGs in which the genome in the corresponding column, but not the one in the corresponding row, is represented. The diagonal cells show the total number of COGs that include representatives from the given genome. The cells that show the co-occurrence data among archaea show the numbers of COGs in red, and the cells that show the co-occurrence data for archaea and yeast show the numbers of COGs in blue. For abbreviations, see the Materials and methods section.
Natale et al. Genome Biology 2000 1:research0009.1 doi:10.1186/gb-2000-1-5-research0009

Table 4