Effective results for Klebsiella pneumoniae subsp. pneumoniae MGH 78578 (eggnog40)

Summary

Number of putative secreted proteins: 603
- Predicted by EffectiveT3: 153 (high confidence), 246 (low confidence)
- Predicted by EffectiveCCBD: 32 within, 27 before, 48 behind expected region 25..70aa
- Predicted by T4SEpre: 80
- Predicted by EffectiveELD: 11 eukaryotic-like domains, contained in 57 proteins (0 high, 57 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): (Type III), (Type IV), Type VI

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

Protein	EffectiveT3	EffectiveCCBD	T4SEpre	EffectiveELD	Predotar
272620.KPN_00303		(<)			(ER)
272620.KPN_03241		(<)			(ER)
272620.KPN_03164		+			ER; (ER)
272620.KPN_03947	+				(ER)
272620.KPN_00628				(PF00328)	ER
272620.KPN_02165		+			ER
272620.KPN_00717		(>)			ER
272620.KPN_01972				(PF00854)	ER; (ER)
272620.KPN_02394	+	+			(plastid)
272620.KPN_03634		(>)			ER
272620.KPN_00542		+			(mitochondrial)
272620.KPN_00381			+		mitochondrial
272620.KPN_04425			+		ER
272620.KPN_02038		(>)			ER
272620.KPN_00427		(>)			ER
272620.KPN_00426	+				(mitochondrial)
272620.KPN_00375			+		(mitochondrial)
272620.KPN_01312		(<)			(ER); (plastid)
272620.KPN_01605		+			(ER)
272620.KPN_02806		(<)			ER
272620.KPN_03289				(PF00345)	ER
272620.KPN_00416		(>)			ER
272620.KPN_00564		(>)			(mitochondrial)
272620.KPN_01164		(<)			mitochondrial
272620.KPN_01908			+		mitochondrial
272620.KPN_01345		+			ER
272620.KPN_02124		(>)			ER
272620.KPN_04087			+		mitochondrial
272620.KPN_04573			+		ER
272620.KPN_04669			+		(mitochondrial)
272620.KPN_04060	+				mitochondrial; (mitochondrial)
272620.KPN_00757			+		ER
272620.KPN_04472				(PF00345)	ER
272620.KPN_00521			+		ER
272620.KPN_01758			+		ER
272620.KPN_01027				(PF00328)	(ER)
272620.KPN_02135			+		ER
272620.KPN_03406				(PF00345)	ER
272620.KPN_03402	+		+	(PF00345)
272620.KPN_00501				(PF00854)	ER
272620.KPN_00213	+				(mitochondrial); mitochondrial
272620.KPN_04468		(>)			mitochondrial
272620.KPN_02454	+				mitochondrial; (mitochondrial)
272620.KPN_03271		(>)			(ER)
272620.KPN_03301				(PF00854)	ER
272620.KPN_04681		(>)			(ER); (plastid)
272620.KPN_01794			+		(ER); ER
272620.KPN_01648	+				ER
272620.KPN_02064		+			ER
272620.KPN_03785		+			ER
272620.KPN_03934	(+)	+			(mitochondrial); (plastid)
272620.KPN_01014		(>)			ER
272620.KPN_01490		+			(mitochondrial)
272620.KPN_04093	+				(mitochondrial)
272620.KPN_04333			+		ER
272620.KPN_00319		(>)			ER
272620.KPN_04541				(PF00345)	ER; (ER)
272620.KPN_01668	+				(mitochondrial); plastid
272620.KPN_02795				(PF10662)	(mitochondrial)
272620.KPN_00269			+		(ER)
272620.KPN_01683		(>)			ER
272620.KPN_03221				(PF10662)	mitochondrial
272620.KPN_03256		(>)			ER
272620.KPN_00492				(PF00345)	ER
272620.KPN_00493				(PF00577)	ER
272620.KPN_02412			+		ER
272620.KPN_04487		(>)			ER
272620.KPN_01671				(PF00577)	ER; (ER)
272620.KPN_01672				(PF00345)	ER
272620.KPN_02323		+			ER
272620.KPN_00488		(>)			ER
272620.KPN_02404				(PF03222)	ER
272620.KPN_02970		+			ER
272620.KPN_03278				(PF00345)	ER
272620.KPN_03977	+				(mitochondrial)
272620.KPN_00479		(<)			ER
272620.KPN_00271			+		ER
272620.KPN_00276				(PF00345)	ER
272620.KPN_03805		(>)			ER
272620.KPN_00295				(PF00345)	ER
272620.KPN_00297	(+)	(>)			(ER)
272620.KPN_00720	(+)			(PF00854)	ER; (ER)
272620.KPN_00050		(<)			ER
272620.KPN_01310			+		ER
272620.KPN_01848			+		ER
272620.KPN_01231			+		ER
272620.KPN_01525			+		ER
272620.KPN_02345		(>)			ER
272620.KPN_02988				(PF00577)	ER
272620.KPN_02989				(PF00345)	ER
272620.KPN_02985				(PF00345)	ER
272620.KPN_01995		(>)			ER
272620.KPN_03569				(PF03222)	ER; (ER)
272620.KPN_00265				(PF00345)	ER
272620.KPN_00264				(PF00577)	ER
272620.KPN_00262				(PF00345)	ER
272620.KPN_03811		(>)			ER
272620.KPN_01080		(>)			mitochondrial; (mitochondrial)
272620.KPN_04510		(>)			ER
272620.KPN_02998			+		(mitochondrial)
272620.KPN_02772		+			ER
272620.KPN_03178			+		ER
272620.KPN_02380	+		+
272620.KPN_02706	+				(mitochondrial)
272620.KPN_03127	(+)				(mitochondrial)
272620.KPN_03383	+	(>)
272620.KPN_01407	(+)				ER; (ER)
272620.KPN_00941		+			(ER)
272620.KPN_00421	(+)				(mitochondrial)
272620.KPN_00884		+	+
272620.KPN_01996	+				(mitochondrial)
272620.KPN_02524	(+)				(mitochondrial)
272620.KPN_02362	+				plastid
272620.KPN_02152	(+)				(mitochondrial)
272620.KPN_03513	+	(>)
272620.KPN_04572	+		+
272620.KPN_03861				(PF00854)	(ER)
272620.KPN_00343		(>)			(plastid)
272620.KPN_04715	(+)				(mitochondrial)
272620.KPN_03290				(PF00577)	(mitochondrial)
272620.KPN_04551		+			(mitochondrial)
272620.KPN_04138		(<)	+
272620.KPN_03261	(+)				(mitochondrial)
272620.KPN_04451	(+)				ER
272620.KPN_04867	+				(plastid)
272620.KPN_01635	+				(plastid)
272620.KPN_01812	(+)				ER; (ER)
272620.KPN_04191	+	(>)
272620.KPN_02665	+				(plastid)
272620.KPN_01755	(+)				(ER); ER
272620.KPN_00233	(+)				ER
272620.KPN_04039	+				(plastid)
272620.KPN_01120	(+)				(mitochondrial)
272620.KPN_03517	(+)				(ER); ER
272620.KPN_02476	+	+
272620.KPN_02096	+				(plastid)
272620.KPN_03430			+		(ER)
272620.KPN_00313	(+)				(ER)
272620.KPN_03905	(+)				(ER)
272620.KPN_04540				(PF00577)	(mitochondrial)
272620.KPN_01460	(+)				ER
272620.KPN_00494	+		+
272620.KPN_00103		(<)			(mitochondrial)
272620.KPN_03697			+		(mitochondrial)
272620.KPN_00489	+	(>)
272620.KPN_04255	(+)				mitochondrial
272620.KPN_04585	+		+
272620.KPN_00619			+		(mitochondrial)
272620.KPN_00643	+				(plastid)
272620.KPN_02506				(PF05704)	(mitochondrial)
272620.KPN_02504		(<)			(mitochondrial)
272620.KPN_02294	+			(PF03222)
272620.KPN_02183	+				(plastid)
272620.KPN_03741	+	(>)
272620.KPN_02983	(+)				mitochondrial
272620.KPN_02986				(PF00577)	(ER)
272620.KPN_01923		(<)			ER; not used
272620.KPN_00919	(+)				(ER); (mitochondrial)
272620.KPN_03020	(+)				(ER); ER
272620.KPN_00709	+
272620.KPN_01437	+
272620.KPN_04246	+
272620.KPN_01546				(PF05681)
272620.KPN_01898	+
272620.KPN_03495		(<)
272620.KPN_03490	+
272620.KPN_03009	+
272620.KPN_02705	+
272620.KPN_02947	+
272620.KPN_03272		(>)
272620.KPN_02508		(>)
272620.KPN_01390			+
272620.KPN_01158	+				not used
272620.KPN_01408		(<)
272620.KPN_02572				(PF13518)
272620.KPN_01714				(PF13518)
272620.KPN_02312		+
272620.KPN_03113	+
272620.KPN_03531		(>)
272620.KPN_02193			+
272620.KPN_03442	(+)				(mitochondrial)
272620.KPN_00360		(>)
272620.KPN_00760	+
272620.KPN_00756	+
272620.KPN_00162	+
272620.KPN_00163	+
272620.KPN_01382	+
272620.KPN_01149				(PF10685)
272620.KPN_04413	+
272620.KPN_01700				(PF00834)
272620.KPN_01705			+
272620.KPN_02810			+
272620.KPN_02929	(+)	+
272620.KPN_03450	(+)				(mitochondrial)
272620.KPN_00559	+
272620.KPN_00774	+
272620.KPN_00770	+
272620.KPN_02167		(<)
272620.KPN_00170		+
272620.KPN_03911		+
272620.KPN_03730	+
272620.KPN_01593	+
272620.KPN_01822	+
272620.KPN_02800	(+)				plastid
272620.KPN_02931			+
272620.KPN_00391	+
272620.KPN_02027	(+)				(plastid)
272620.KPN_00392	+
272620.KPN_00964	(+)			(PF03222)
272620.KPN_01318			+
272620.KPN_00569	(+)	+
272620.KPN_04670	+
272620.KPN_00744			+
272620.KPN_04079		(>)
272620.KPN_04719	+
272620.KPN_04710	+
272620.KPN_00180	+
272620.KPN_02862		(>)
272620.KPN_00086			+
272620.KPN_04883		+
272620.KPN_01768	+
272620.KPN_03614	+
272620.KPN_02839	+
272620.KPN_02831	+
272620.KPN_03051		(<)
272620.KPN_03874	+
272620.KPN_04473				(PF00577)
272620.KPN_02224	+
272620.KPN_01021		(<)
272620.KPN_01803	+
272620.KPN_02595	+
272620.KPN_04823	+
272620.KPN_02041	(+)				(mitochondrial)
272620.KPN_04276		(>)
272620.KPN_04270		+
272620.KPN_04124	+
272620.KPN_03401				(PF00577)
272620.KPN_03403				(PF00345)
272620.KPN_04698		(<)
272620.KPN_04699	+
272620.KPN_04696	(+)				(mitochondrial)
272620.KPN_04053	+
272620.KPN_01472		+
272620.KPN_04869	+
272620.KPN_04864	+
272620.KPN_01744				(PF00834)
272620.KPN_01030				(PF10685)	not used
272620.KPN_01034	+
272620.KPN_01057	(+)		+
272620.KPN_01323	+
272620.KPN_01322			+
272620.KPN_01630	+
272620.KPN_03670	+
272620.KPN_01819	+
272620.KPN_02213		(<)
272620.KPN_03277				(PF00577)
272620.KPN_03077	(+)				(plastid)
272620.KPN_03410	+
272620.KPN_02486	+
272620.KPN_02485	+
272620.KPN_02483		(>)
272620.KPN_03897	+
272620.KPN_03302				(PF00854)
272620.KPN_00512		+
272620.KPN_04683		(>)
272620.KPN_01595			+
272620.KPN_00023	+
272620.KPN_04450	+
272620.KPN_00638	+
272620.KPN_04521				(PF13518)
272620.KPN_02684			+
272620.KPN_01790	+
272620.KPN_02638			+
272620.KPN_01487	+
272620.KPN_03640				(PF05681)
272620.KPN_04438			+
272620.KPN_03426		(>)
272620.KPN_04326	+
272620.KPN_04430		+
272620.KPN_03336				(PF13518)
272620.KPN_01401			+
272620.KPN_00529	+
272620.KPN_00522	+				not used
272620.KPN_03931			+
272620.KPN_03933			+
272620.KPN_02591		(<)
272620.KPN_02846	+
272620.KPN_00230	+
272620.KPN_00309	+
272620.KPN_01516				(PF05681)
272620.KPN_03511			+
272620.KPN_01013	+
272620.KPN_04840		(<)
272620.KPN_02478			+
272620.KPN_02472	(+)				(ER)
272620.KPN_03655			+
272620.KPN_01875	+
272620.KPN_04264			+
272620.KPN_02273	+
272620.KPN_04092	+
272620.KPN_03787	(+)				(plastid)
272620.KPN_03991	+
272620.KPN_02894		(>)
272620.KPN_04465	+
272620.KPN_01104			+
272620.KPN_00829	+
272620.KPN_03925		(<)
272620.KPN_00225	+
272620.KPN_04024	(+)				(plastid)
272620.KPN_00316		+
272620.KPN_04544	+
272620.KPN_03218		(>)
272620.KPN_02462	+
272620.KPN_01666	+
272620.KPN_01841				(PF10685)
272620.KPN_03139	+
272620.KPN_03130	+
272620.KPN_00810		(<)
272620.KPN_04013	+
272620.KPN_04015		(>)
272620.KPN_00075		(>)
272620.KPN_00987	+
272620.KPN_01678	(+)				(ER)
272620.KPN_01675		+
272620.KPN_02500		(>)
272620.KPN_01696	+
272620.KPN_02258	+
272620.KPN_02349	(+)				plastid
272620.KPN_01088	(+)		+
272620.KPN_03201	+
272620.KPN_04226			+
272620.KPN_03346			+
272620.KPN_03901				(PF13518)
272620.KPN_03906	+
272620.KPN_01515		(<)
272620.KPN_00965		+
272620.KPN_04173	+
272620.KPN_04174			+
272620.KPN_00537	+
272620.KPN_00531	(+)		+
272620.KPN_00790	+
272620.KPN_01881		(<)
272620.KPN_02605	+
272620.KPN_02994	(+)				(plastid)
272620.KPN_02868	(+)				(plastid)
272620.KPN_04580	+
272620.KPN_02246	+
272620.KPN_00549	+
272620.KPN_04763	(+)				(plastid)
272620.KPN_01532	+
272620.KPN_03757				(PF00834)
272620.KPN_03112	+
272620.KPN_03111	+
272620.KPN_03577		(<)
272620.KPN_03974	+
272620.KPN_03971		(<)
272620.KPN_00585	+
272620.KPN_00583	+
272620.KPN_00470	+
272620.KPN_03177			+
272620.KPN_00277				(PF00577)
272620.KPN_03801	+
272620.KPN_03804			+
272620.KPN_04618	+
272620.KPN_01054	+
272620.KPN_00645	+
272620.KPN_00761				(PF05681)
272620.KPN_02318	+
272620.KPN_03555	+
272620.KPN_04595	+				not used
272620.KPN_04599			+
272620.KPN_04598	+				not used
272620.KPN_01236	+
272620.KPN_03589	+
272620.KPN_03581			+
272620.KPN_03215	+
272620.KPN_02619			+
272620.KPN_02760	+
272620.KPN_02968		(<)
272620.KPN_01614	+
272620.KPN_00460	+
272620.KPN_00281		(>)
272620.KPN_00280		(>)
272620.KPN_00286	+
272620.KPN_03890	+
272620.KPN_04113	+
272620.KPN_00732	+
272620.KPN_00097	+
272620.KPN_04608		(>)
272620.KPN_01067	+
272620.KPN_00094			+
272620.KPN_01061		+
272620.KPN_01427	+
272620.KPN_01086			+
272620.KPN_01732	+
272620.KPN_01553	(+)				(plastid)
272620.KPN_03779	(+)				(mitochondrial)
272620.KPN_02608	(+)		+
272620.KPN_03488	+
272620.KPN_02972		+
272620.KPN_03556	+
272620.KPN_03554	+
272620.KPN_00458			+
272620.KPN_00451	+
272620.KPN_03823	(+)			(PF03222)
272620.KPN_02873	(+)
272620.KPN_04752	(+)
272620.KPN_04499	(+)
272620.KPN_04245	(+)
272620.KPN_01729	(+)
272620.KPN_01947	(+)
272620.KPN_01948	(+)
272620.KPN_01541	(+)
272620.KPN_03493	(+)
272620.KPN_02700	(+)
272620.KPN_03162	(+)
272620.KPN_03168	(+)
272620.KPN_02941	(+)
272620.KPN_02010	(+)
272620.KPN_00936	(+)
272620.KPN_02148	(+)
272620.KPN_02149	(+)
272620.KPN_03835	(+)
272620.KPN_00627	(+)
272620.KPN_00621	(+)
272620.KPN_03001	(+)
272620.KPN_04622	(+)
272620.KPN_04624	(+)
272620.KPN_03713	(+)
272620.KPN_01572	(+)
272620.KPN_03533	(+)
272620.KPN_00434	(+)
272620.KPN_00545	(+)
272620.KPN_00547	(+)
272620.KPN_04651	(+)
272620.KPN_01419	(+)
272620.KPN_01141	(+)
272620.KPN_02543	(+)
272620.KPN_02449	(+)
272620.KPN_01562	(+)
272620.KPN_00055	(+)
272620.KPN_03631	(+)
272620.KPN_03527	(+)
272620.KPN_00954	(+)
272620.KPN_03457	(+)
272620.KPN_00424	(+)
272620.KPN_03856	(+)
272620.KPN_00883	(+)
272620.KPN_00554	(+)
272620.KPN_00398	(+)
272620.KPN_01233	(+)
272620.KPN_00396	(+)
272620.KPN_04395	(+)
272620.KPN_03548	+
272620.KPN_00772	(+)
272620.KPN_02160	(+)
272620.KPN_04708	(+)
272620.KPN_04702	(+)
272620.KPN_04703	(+)
272620.KPN_02444	(+)
272620.KPN_01175	(+)
272620.KPN_01283	(+)
272620.KPN_01358	(+)
272620.KPN_02730	(+)
272620.KPN_00966	(+)
272620.KPN_03243	(+)
272620.KPN_03865	(+)
272620.KPN_04671	(+)
272620.KPN_00347	(+)
272620.KPN_00348	(+)
272620.KPN_04508	(+)
272620.KPN_02046	(+)
272620.KPN_01762	(+)
272620.KPN_01349	(+)
272620.KPN_02122	(+)
272620.KPN_03612	(+)
272620.KPN_04086	(+)
272620.KPN_00409	(+)
272620.KPN_03984	(+)
272620.KPN_04661	(+)
272620.KPN_00996	(+)
272620.KPN_00994	(+)
272620.KPN_01072	(+)
272620.KPN_00191	(+)
272620.KPN_04478	(+)
272620.KPN_01508	(+)
272620.KPN_02221	(+)
272620.KPN_01025	(+)
272620.KPN_04139	(+)
272620.KPN_02138	(+)
272620.KPN_03669	(+)
272620.KPN_02917	(+)
272620.KPN_03069	(+)
272620.KPN_03086	(+)
272620.KPN_03088	(+)
272620.KPN_00906	(+)
272620.KPN_03405	(+)
272620.KPN_04189	(+)
272620.KPN_03311	(+)
272620.KPN_04694	(+)
272620.KPN_04052	(+)
272620.KPN_00037	(+)
272620.KPN_02967	(+)
272620.KPN_01036	(+)
272620.KPN_01634	(+)
272620.KPN_01258	(+)
272620.KPN_02676	(+)
272620.KPN_02855	(+)
272620.KPN_03419	(+)
272620.KPN_03418	(+)
272620.KPN_01351	(+)
272620.KPN_00680	(+)
272620.KPN_03303	(+)
272620.KPN_03308	(+)
272620.KPN_00335	(+)
272620.KPN_04049	(+)
272620.KPN_04043	(+)
272620.KPN_00026	(+)
272620.KPN_04456	(+)
272620.KPN_01137	(+)
272620.KPN_01480	(+)
272620.KPN_01866	(+)
272620.KPN_01263	(+)
272620.KPN_01750	(+)
272620.KPN_03339	(+)
272620.KPN_01017	(+)
272620.KPN_04843	(+)
272620.KPN_04845	(+)
272620.KPN_02164	(+)
272620.KPN_01492	(+)
272620.KPN_01499	(+)
272620.KPN_01657	(+)
272620.KPN_02785	(+)
272620.KPN_01651	(+)
272620.KPN_02783	(+)
272620.KPN_01309	(+)
272620.KPN_01272	(+)
272620.KPN_04338	(+)
272620.KPN_03326	(+)
272620.KPN_00825	(+)
272620.KPN_00417	(+)
272620.KPN_00227	(+)
272620.KPN_02272	(+)
272620.KPN_04405	(+)
272620.KPN_02350	(+)
272620.KPN_04495	(+)
272620.KPN_01463	(+)
272620.KPN_02600	(+)
272620.KPN_02649	(+)
272620.KPN_03220	(+)
272620.KPN_04239	(+)
272620.KPN_00811	(+)
272620.KPN_00073	(+)
272620.KPN_04160	(+)
272620.KPN_04829	(+)
272620.KPN_01479	(+)
272620.KPN_04484	(+)
272620.KPN_01692	(+)
272620.KPN_02252	(+)
272620.KPN_00114	(+)
272620.KPN_03695	(+)
272620.KPN_00800	(+)
272620.KPN_00187	(+)
272620.KPN_03345	(+)
272620.KPN_03907	(+)
272620.KPN_00068	(+)
272620.KPN_02769	(+)
272620.KPN_04564	(+)
272620.KPN_00792	(+)
272620.KPN_00795	(+)
272620.KPN_00796	(+)
272620.KPN_02403	(+)
272620.KPN_01998	(+)
272620.KPN_02625	(+)
272620.KPN_02624	(+)
272620.KPN_02338	(+)
272620.KPN_03119	(+)
272620.KPN_03370	(+)
272620.KPN_00478	(+)
272620.KPN_00471	(+)
272620.KPN_03079	(+)
272620.KPN_00721	(+)
272620.KPN_00647	(+)
272620.KPN_04772	(+)
272620.KPN_01455	(+)
272620.KPN_01454	(+)
272620.KPN_00793	(+)
272620.KPN_03559	(+)
272620.KPN_02184	(+)
272620.KPN_04787	(+)
272620.KPN_00866	(+)
272620.KPN_03568	(+)
272620.KPN_02539	(+)
272620.KPN_02903	(+)
272620.KPN_00267	(+)				not used
272620.KPN_00735	(+)
272620.KPN_01589	(+)
272620.KPN_01084	(+)
272620.KPN_03176	(+)
272620.KPN_04515	(+)				not used
272620.KPN_02974	(+)
272620.KPN_04291	(+)
272620.KPN_04129	(+)

Detailed merged results for each protein sequence

• Detailed merged results as table (merge_results.html)
• Detailed merged results as tab delimited file (merge_results.csv)

Individual results for each protein sequence

• EffectiveT3 predictions using new standard model 2.0.1 (PROTEINS.NEW.EFFECTIVET3)
• EffectiveT3 predictions using old standard model 1.0.1 (PROTEINS.OLD.EFFECTIVET3)
• EffectiveCCBD predictions (PROTEINS.CHAPERONES.TXT)
• T4SEpre bpbAac predictions (T4SEpre_bpbAac_FinalResult.csv)
• T4SEpre psAac predictions (T4SEpre_psAac_FinalResult.csv)
• EffectiveELD predictions (PROTEINS.ELD.TXT)
• Predotar predictions using animal/human model (Predotar_output_modelANIMAL.TXT)
• Predotar predictions using plant model (Predotar_output_modelPLANT.TXT)

Genome based results

Summary

• Gram negative: YES (FDR = 0.5 %)
• Functional Type III secretion system: YES (FDR = 12.5 %)
  Estimated copy number = 0.1 (1/10 KEGG proteins)
• Functional Type IV secretion system: YES (FDR = 7.2 %)
  Estimated copy number = 0.0 (0/10 KEGG proteins)
• Functional Type VI secretion system: YES (FDR = 7.7 %)
  Estimated copy number = 1.25 (10/8 KEGG proteins)

Individual results for each secretion system

• List of 100 most important COGs/NOGs for prediction of functional Type III secretion system (T3_top100_COGS.xls)
• List of 100 most important COGs/NOGs for prediction of functional Type IV secretion system (T4_top100_COGS.xls)
• List of 100 most important COGs/NOGs for prediction of functional Type VI secretion system (T6_top100_COGS.xls)
• List of COGs assigned to Type III secretion system in KEGG (T3SS_KEGG_cmp.xls)
• List of COGs assigned to Type IV secretion system in KEGG (T4SS_KEGG_cmp.xls)
• List of COGs assigned to Type VI secretion system in KEGG (T6SS_KEGG_cmp.xls)

Parameters:

==========================================================
EFFECTIVE_T3_OLD=selective
EFFECTIVE_T3_NEW=selective
PREDOTAR_ANIMAL_OR_PLANT=a
PROTEINS=INPUT PROTEINS
MODUS=genome
RUN_PREDOTAR=T
RUN_EFFECTIVE_T3=T
RUN_T4SEpre=0.5
RUN_EFFECTIVE_CCBD=T
RUN_EFFECTIVE_ELD=4
CheckM_COMPLETENESS=
RUN_EffectiveS346=T
GENOTYPE=COG Profile
EMAIL=
==========================================================