List of subtrees in prokaryote2 for taxon Firmicutes

Alignment ID	Ingroup Tips	Ingroup Taxa	Dups	Incursions	Alignment Seqs	Alignment Length	Description
245405	85	85	0	1	112	215	ytmQ [Bacillus subtilis subsp. subtilis str. 168]
239517	82	82	0	2	178	400	ytbJ [Bacillus subtilis subsp. subtilis str. 168]
231783	81	81	0	1	93	326	yvcL [Bacillus subtilis subsp. subtilis str. 168]
218781	80	78	1	3	133	396	ymdA [Bacillus subtilis subsp. subtilis str. 168]
179695	77	77	0	1	144	242	glucose-inhibited division protein [Bacillus subtilis subsp. subtilis str. 168]
164534	77	77	0	1	138	229	yvyD [Bacillus subtilis subsp. subtilis str. 168]
224632	76	76	0	1	77	638	yybT [Bacillus subtilis subsp. subtilis str. 168]
168622	76	76	0	2	100	359	yloA [Bacillus subtilis subsp. subtilis str. 168]
182250	76	76	0	1	165	245	yvcK [Bacillus subtilis subsp. subtilis str. 168]
259636	76	76	0	1	239	212	uracil phosphoribosyltransferase [Bacillus subtilis subsp. subtilis str. 168]
227803	84	76	1	1	244	488	DNA polymerase III (beta subunit) [Bacillus subtilis subsp. subtilis str. 168]
241672	75	75	0	1	223	298	yvcJ [Bacillus subtilis subsp. subtilis str. 168]
248673	75	75	0	1	76	74	yabO [Bacillus subtilis subsp. subtilis str. 168]
218895	74	74	0	2	226	621	ypsC [Bacillus subtilis subsp. subtilis str. 168]
202817	74	74	0	1	98	331	yloV [Bacillus subtilis subsp. subtilis str. 168]
231613	74	74	0	1	75	255	transcriptional regulator [Bacillus subtilis subsp. subtilis str. 168]
171886	75	74	1	1	76	168	recU [Bacillus subtilis subsp. subtilis str. 168]
203208	75	74	1	3	205	159	yydA [Bacillus subtilis subsp. subtilis str. 168]
240084	73	73	0	2	121	456	glucose-6-phosphate isomerase [Bacillus subtilis subsp. subtilis str. 168]
210007	73	73	0	3	76	50	conserved hypothetical protein [Staphylococcus aureus subsp. aureus NCTC 8325]
221291	72	72	0	2	165	702	yluC [Bacillus subtilis subsp. subtilis str. 168]
201866	72	72	0	1	101	241	yabB [Bacillus subtilis subsp. subtilis str. 168]
197665	72	72	0	3	235	65	histidine-containing phosphocarrier protein of the phosphotransferase system (PTS) (HPr protein) [Bacillus subtilis subsp. subtilis str. 168]
203224	71	71	0	1	243	464	recF [Bacillus subtilis subsp. subtilis str. 168]
216412	69	69	0	3	129	252	yycJ [Bacillus subtilis subsp. subtilis str. 168]
217419	69	69	0	1	70	244	yfhG [Bacillus subtilis subsp. subtilis str. 168]
204908	69	69	0	1	70	139	transcriptional regulator [Bacillus subtilis subsp. subtilis str. 168]
222271	69	69	0	1	70	99	protein component of ribonuclease P (RNase P) (substrate specificity) [Bacillus subtilis subsp. subtilis str. 168]
249520	78	69	1	1	160	629	yjbG [Bacillus subtilis subsp. subtilis str. 168]
231723	67	67	0	0	205	388	UDP-N-acetylenolpyruvoylglucosamine reductase, putative [Staphylococcus aureus subsp. aureus NCTC 8325]
165398	67	67	0	1	68	170	ygaC [Bacillus subtilis subsp. subtilis str. 168]
205854	67	67	0	1	241	99	ribosomal protein L21 (BL20) [Bacillus subtilis subsp. subtilis str. 168]
212150	67	67	0	2	229	72	ribosomal protein S6 (BS9) [Bacillus subtilis subsp. subtilis str. 168]
189727	66	66	0	1	224	257	ATP synthase (subunit a) [Bacillus subtilis subsp. subtilis str. 168]
174016	66	66	0	1	142	242	ybbP [Bacillus subtilis subsp. subtilis str. 168]
238722	66	66	0	3	215	232	phosphoribosylaminoimidazole succinocarboxamide synthetase [Bacillus subtilis subsp. subtilis str. 168]
209037	66	66	0	1	67	143	RNA polymerase (delta subunit) [Bacillus subtilis subsp. subtilis str. 168]
185736	66	66	0	3	186	139	ATP synthase (subunit epsilon) [Bacillus subtilis subsp. subtilis str. 168]
183297	66	66	0	1	84	119	yazC [Bacillus subtilis subsp. subtilis str. 168]
183851	66	66	0	1	218	103	Hit-like protein [Bacillus subtilis subsp. subtilis str. 168]
235705	67	66	1	1	231	232	prolipoprotein diacylglyceryl transferase [Bacillus subtilis subsp. subtilis str. 168]
173241	69	66	1	2	108	216	ydiH [Bacillus subtilis subsp. subtilis str. 168]
231990	70	66	3	2	149	417	phosphopentomutase [Bacillus subtilis subsp. subtilis str. 168]
194580	65	65	0	1	241	690	yrvE [Bacillus subtilis subsp. subtilis str. 168]
216709	65	65	0	1	66	403	ymfH [Bacillus subtilis subsp. subtilis str. 168]
193654	65	65	0	1	110	311	yacC [Bacillus subtilis subsp. subtilis str. 168]
192703	65	65	0	1	66	270	ybbR [Bacillus subtilis subsp. subtilis str. 168]
250064	65	65	0	1	188	231	16S rRNA processing protein [Bacillus subtilis subsp. subtilis str. 168]
178197	65	65	0	1	82	200	ribonuclease M5 [Bacillus subtilis subsp. subtilis str. 168]
234836	65	65	0	1	82	193	ybxB [Bacillus subtilis subsp. subtilis str. 168]
231024	65	65	0	1	212	113	ydiC [Bacillus subtilis subsp. subtilis str. 168]
257476	66	65	1	1	208	430	tRNA (5-methylaminomethyl-2-thiouridylate) methyltransferase [Bacillus subtilis subsp. subtilis str. 168]
238295	67	65	1	1	151	347	ytqI [Bacillus subtilis subsp. subtilis str. 168]
231609	64	64	0	1	204	657	chromosome segregation SMC protein homolg [Bacillus subtilis subsp. subtilis str. 168]
257853	64	64	0	3	209	457	S-adenosylmethionine:tRNA ribosyltransferase-isomerase [Staphylococcus aureus subsp. aureus NCTC 8325]
216089	64	64	0	2	127	370	ypgA [Bacillus subtilis subsp. subtilis str. 168]
218337	64	64	0	0	64	331	late competence protein [Bacillus subtilis subsp. subtilis str. 168]
174455	64	64	0	3	186	315	yqxC [Bacillus subtilis subsp. subtilis str. 168]
205486	64	64	0	1	137	302	ywfO [Bacillus subtilis subsp. subtilis str. 168]
169804	64	64	0	2	66	175	comFC [Bacillus subtilis subsp. subtilis str. 168]
225281	64	64	0	1	65	77	yutD [Bacillus subtilis subsp. subtilis str. 168]
240095	71	64	1	2	156	432	pyrimidine-nucleoside phosphorylase [Bacillus subtilis subsp. subtilis str. 168]
241779	76	64	2	2	227	315	yqjG [Bacillus subtilis subsp. subtilis str. 168]
241102	63	63	0	2	108	292	inorganic pyrophosphatase [Bacillus subtilis subsp. subtilis str. 168]
207906	63	63	0	1	87	107	yusI [Bacillus subtilis subsp. subtilis str. 168]
242177	64	63	1	1	191	138	yjdI [Bacillus subtilis subsp. subtilis str. 168]
231728	69	63	3	3	147	182	ykqB [Bacillus subtilis subsp. subtilis str. 168]
168448	62	62	0	1	152	459	yueK [Bacillus subtilis subsp. subtilis str. 168]
161842	62	62	0	1	220	399	6-phosphofructokinase [Bacillus subtilis subsp. subtilis str. 168]
167477	62	62	0	1	123	145	comEB [Bacillus subtilis subsp. subtilis str. 168]
169416	62	62	0	1	63	134	ydcK [Bacillus subtilis subsp. subtilis str. 168]
169239	63	62	1	2	232	558	lysyl-tRNA synthetase [Bacillus subtilis subsp. subtilis str. 168]
208818	63	62	1	1	246	413	yurU [Bacillus subtilis subsp. subtilis str. 168]
189318	63	62	1	3	249	174	conserved hypothetical protein [Staphylococcus aureus subsp. aureus NCTC 8325]
181839	63	62	1	1	64	60	D-alanyl carrier protein (Dcp) [Bacillus subtilis subsp. subtilis str. 168]
245398	61	61	0	2	162	147	yrrM [Bacillus subtilis subsp. subtilis str. 168]
222941	61	61	0	2	157	141	yhdO [Bacillus subtilis subsp. subtilis str. 168]
203852	62	61	1	1	68	359	D-alanyl-D-alanine carrier protein ligase (Dcl) [Bacillus subtilis subsp. subtilis str. 168]
180616	60	60	0	1	240	571	peptide chain release factor 3 [Staphylococcus aureus subsp. aureus NCTC 8325]
164196	60	60	0	2	223	364	elongation factor Ts [Bacillus subtilis subsp. subtilis str. 168]
248644	60	60	0	1	189	291	ypuG [Bacillus subtilis subsp. subtilis str. 168]
237768	60	60	0	1	119	69	yazA [Bacillus subtilis subsp. subtilis str. 168]
176007	74	60	3	2	123	727	yfnI [Bacillus subtilis subsp. subtilis str. 168]
220180	75	60	3	3	239	166	folyl-polyglutamate synthetase [Bacillus subtilis subsp. subtilis str. 168]
161800	59	59	0	1	240	598	leucyl-tRNA synthetase [Bacillus subtilis subsp. subtilis str. 168]
196498	59	59	0	1	215	595	glutamyl-tRNA(Gln) amidotransferase (subunit B) [Bacillus subtilis subsp. subtilis str. 168]
256645	59	59	0	1	215	437	cysteine desulfurase [Bacillus subtilis subsp. subtilis str. 168]
214848	59	59	0	1	70	130	yacP [Bacillus subtilis subsp. subtilis str. 168]
166977	59	59	0	1	60	57	yneF [Bacillus subtilis subsp. subtilis str. 168]
233037	59	59	0	3	247	52	ribosomal protein L35 [Bacillus subtilis subsp. subtilis str. 168]
198480	60	59	1	1	140	502	glucose-inhibited division protein [Bacillus subtilis subsp. subtilis str. 168]
185158	60	59	1	2	219	417	trigger factor (prolyl isomerase) [Bacillus subtilis subsp. subtilis str. 168]
240909	61	59	2	3	147	305	phosphate ABC transporter (permease) [Bacillus subtilis subsp. subtilis str. 168]
188264	62	59	3	1	217	479	uric acid permease [Bacillus subtilis subsp. subtilis str. 168]
219287	58	58	0	1	205	404	yhbA [Bacillus subtilis subsp. subtilis str. 168]
190750	58	58	0	1	65	256	DNA polymerase III (delta' subunit) [Bacillus subtilis subsp. subtilis str. 168]
235112	58	58	0	1	231	173	GTP pyrophosphokinase [Bacillus subtilis subsp. subtilis str. 168]
226295	58	58	0	1	170	164	recN [Bacillus subtilis subsp. subtilis str. 168]
244458	58	58	0	1	219	140	ribosomal protein L12 (BL9) [Bacillus subtilis subsp. subtilis str. 168]
182438	59	58	1	3	107	223	ytjP [Bacillus subtilis subsp. subtilis str. 168]
191361	61	58	2	1	204	144	conserved hypothetical protein [Staphylococcus aureus subsp. aureus NCTC 8325]
219888	63	58	2	2	184	392	tagO [Bacillus subtilis subsp. subtilis str. 168]
229884	63	58	2	2	102	304	cobalt transport protein, putative [Staphylococcus aureus subsp. aureus NCTC 8325]
258548	57	57	0	1	240	507	inosine-monophosphate dehydrogenase [Bacillus subtilis subsp. subtilis str. 168]
177800	57	57	0	2	227	383	tRNA isopentenylpyrophosphate transferase [Bacillus subtilis subsp. subtilis str. 168]
177348	57	57	0	1	245	152	ribosomal protein L17 (BL15) [Bacillus subtilis subsp. subtilis str. 168]
196422	57	57	0	1	58	87	yrzB [Bacillus subtilis subsp. subtilis str. 168]
220522	58	57	1	1	223	954	excinuclease ABC (subunit C) [Bacillus subtilis subsp. subtilis str. 168]
209787	58	57	1	3	238	328	spermidine/putrescine ABC transporter, spermidine/putrescine-binding protein, putative [Staphylococcus aureus subsp. aureus NCTC 8325]
191884	60	57	2	1	61	211	yrrO [Bacillus subtilis subsp. subtilis str. 168]
236121	63	57	2	1	209	109	yitW [Bacillus subtilis subsp. subtilis str. 168]
193132	87	57	2	2	191	351	ysdC [Bacillus subtilis subsp. subtilis str. 168]
164072	56	56	0	2	179	371	L-asparaginase, putative [Staphylococcus aureus subsp. aureus NCTC 8325]
243670	56	56	0	1	133	351	yumC [Bacillus subtilis subsp. subtilis str. 168]
177103	56	56	0	0	213	311	amino acid ABC transporter, permease protein, putative [Staphylococcus aureus subsp. aureus NCTC 8325]
206896	56	56	0	2	75	187	yqeM [Bacillus subtilis subsp. subtilis str. 168]
241683	56	56	0	1	172	69	yueJ [Bacillus subtilis subsp. subtilis str. 168]
258507	59	56	2	3	176	325	pyruvate dehydrogenase (E1 beta subunit) [Bacillus subtilis subsp. subtilis str. 168]
204109	67	56	3	2	219	139	DNA-protecting protein [Bacillus subtilis subsp. subtilis str. 168]
203505	72	56	2	3	222	87	yqfR [Bacillus subtilis subsp. subtilis str. 168]
179777	55	55	0	1	241	357	tRNA methyltransferase [Bacillus subtilis subsp. subtilis str. 168]
189736	55	55	0	1	245	137	ribosomal protein L10 (BL5) [Bacillus subtilis subsp. subtilis str. 168]
199453	55	55	0	3	206	120	yvyE [Bacillus subtilis subsp. subtilis str. 168]
183953	56	55	1	2	226	585	thdF [Bacillus subtilis subsp. subtilis str. 168]
163236	58	55	3	1	246	640	asparaginyl-tRNA synthetase [Bacillus subtilis subsp. subtilis str. 168]
206620	63	55	1	1	111	412	chorismate synthase [Bacillus subtilis subsp. subtilis str. 168]
167650	54	54	0	1	236	1328	DNA ligase [Bacillus subtilis subsp. subtilis str. 168]
173540	54	54	0	1	197	572	S-adenosylmethionine tRNA ribosyltransferase [Bacillus subtilis subsp. subtilis str. 168]
194596	54	54	0	1	242	445	formamidopyrimidine-DNA glycosidase [Bacillus subtilis subsp. subtilis str. 168]
213910	54	54	0	1	197	103	glutamyl-tRNA(Gln) amidotransferase (subunit C) [Bacillus subtilis subsp. subtilis str. 168]
250952	54	54	0	1	201	68	ribosomal protein L27 (BL24) [Bacillus subtilis subsp. subtilis str. 168]
187085	55	54	1	2	120	352	ytqA [Bacillus subtilis subsp. subtilis str. 168]
245608	55	54	1	1	166	341	cell-division protein [Bacillus subtilis subsp. subtilis str. 168]
245277	55	54	1	1	245	325	fructose-1-phosphate kinase [Bacillus subtilis subsp. subtilis str. 168]
212499	56	54	1	1	207	156	hypoxanthine-guanine phosphoribosyltransferase [Bacillus subtilis subsp. subtilis str. 168]
242025	60	54	2	1	61	62	ynzC [Bacillus subtilis subsp. subtilis str. 168]
188708	53	53	0	3	78	373	conserved hypothetical protein [Staphylococcus aureus subsp. aureus NCTC 8325]
189051	53	53	0	3	116	160	ribosomal protein S7 (BS7) [Bacillus subtilis subsp. subtilis str. 168]
256820	53	53	0	2	180	139	ytcG [Bacillus subtilis subsp. subtilis str. 168]
219239	53	53	0	1	137	131	transcription antitermination factor [Bacillus subtilis subsp. subtilis str. 168]
206027	53	53	0	1	121	115	yqfO [Bacillus subtilis subsp. subtilis str. 168]
175894	53	53	0	2	248	51	ribosomal protein S18 [Bacillus subtilis subsp. subtilis str. 168]
234751	54	53	1	1	151	473	ytfP [Bacillus subtilis subsp. subtilis str. 168]
216788	62	53	2	1	203	281	yqfL [Bacillus subtilis subsp. subtilis str. 168]
183760	52	52	0	1	240	379	ywbD [Bacillus subtilis subsp. subtilis str. 168]
238600	52	52	0	1	167	340	yqjK [Bacillus subtilis subsp. subtilis str. 168]
249080	52	52	0	3	140	284	yqfS [Bacillus subtilis subsp. subtilis str. 168]
196965	52	52	0	1	190	277	putative integral membrane protein [Bacillus subtilis subsp. subtilis str. 168]
244351	52	52	0	1	53	88	ysxB [Bacillus subtilis subsp. subtilis str. 168]
203140	52	52	0	2	234	86	ypuH [Bacillus subtilis subsp. subtilis str. 168]
246084	53	52	1	3	162	465	alcohol dehydrogenase, iron-containing, putative [Staphylococcus aureus subsp. aureus NCTC 8325]
215952	55	52	3	3	73	304	ybaF [Bacillus subtilis subsp. subtilis str. 168]
192492	57	52	2	1	163	632	yhxB [Bacillus subtilis subsp. subtilis str. 168]
217143	68	52	3	1	91	316	glcU [Bacillus subtilis subsp. subtilis str. 168]
201120	51	51	0	3	54	1286	DNA polymerase III (alpha subunit) [Bacillus subtilis subsp. subtilis str. 168]
210426	51	51	0	1	222	450	adenylosuccinate lyase [Bacillus subtilis subsp. subtilis str. 168]
176251	51	51	0	2	219	249	ybfQ [Bacillus subtilis subsp. subtilis str. 168]
243510	51	51	0	1	52	58	veg [Bacillus subtilis subsp. subtilis str. 168]
179448	52	51	1	2	207	204	conserved hypothetical protein [Staphylococcus aureus subsp. aureus NCTC 8325]
86849	58	51	3	3	222	313	glucose kinase [Bacillus subtilis subsp. subtilis str. 168]
230938	58	51	3	0	58	71	dnaD [Bacillus subtilis subsp. subtilis str. 168]
174137	59	51	1	3	232	324	yqhT [Bacillus subtilis subsp. subtilis str. 168]
209244	59	51	1	3	216	164	cytidine/deoxycytidine deaminase [Bacillus subtilis subsp. subtilis str. 168]
168908	75	51	2	1	213	283	peptidyl-prolyl cis-trans isomerase, cyclophilin-type, putative [Staphylococcus aureus subsp. aureus NCTC 8325]
229708	50	50	0	1	123	1943	RNA polymerase (beta' subunit) [Bacillus subtilis subsp. subtilis str. 168]
174185	50	50	0	1	233	1030	phenylalanyl-tRNA synthetase (beta subunit) [Bacillus subtilis subsp. subtilis str. 168]
190302	50	50	0	1	225	473	FAD synthase; riboflavin kinase [Bacillus subtilis subsp. subtilis str. 168]
160984	50	50	0	1	232	428	ATP synthase (subunit gamma) [Bacillus subtilis subsp. subtilis str. 168]
85238	50	50	0	3	188	363	aspartate carbamoyltransferase [Bacillus subtilis subsp. subtilis str. 168]
180004	50	50	0	1	99	295	serine/threonine protein kinase [Bacillus subtilis subsp. subtilis str. 168]
249600	50	50	0	1	173	231	mutL [Bacillus subtilis subsp. subtilis str. 168]
206202	50	50	0	2	127	150	ribosomal protein S8 (BS8) [Bacillus subtilis subsp. subtilis str. 168]
175304	50	50	0	2	161	97	phosphotransferase system (PTS) fructose-specific enzyme IIABC component [Bacillus subtilis subsp. subtilis str. 168]
178014	52	50	1	2	117	687	glucose-inhibited division protein [Bacillus subtilis subsp. subtilis str. 168]
170076	54	50	1	2	185	298	yneS [Bacillus subtilis subsp. subtilis str. 168]