IslandPath Analysis: Treponema pallidum subsp. pallidum str. Nichols



Each circle in the graphic corresponds to a predicted protein-coding ORF in the genome.
Circle colours indicate if an ORF has a higher or lower %G+C than cutoffs you set below
--(default is +/- 3.48 of the mean %G+C).
Strike lines across the circles represent regions with dinucleotide bias above a pre-determined cutoff.
Click on a circle to view a different portion of the table presented below the graph (default is the first 100 ORFs).




A yellow circle indicates its %G+C value is bigger than the high value.
A green circle indicates its %G+C value is bigger than the low value and smaller than the high value.
A pink circle indicates its %G+C value is smaller than the low value.

A strike line across the circles indicates the region has dinucleotide bais above 1 STD DEV.
A black verticle bar indicates a transfer RNA gene lies between the two ORFs.
A purple verticle bar indicates a ribosomal RNA gene lies between the two ORFs.
A deep blue verticle bar indicates both a tRNA and rRNA gene lie between the two ORFs.
A black square indicates the dot is annotated as a transposase.
A black triangle indicates the dot is annotated as an integrase.


Low:  High:    Mean: 52.88   STD DEV: 4.31
Treponema pallidum subsp. pallidum str. Nichols, complete genome - 1..1138011
1036 proteins
Pos	%G+C	SD	Location	Strand	Length	PID	Gene	Synonym	Code	Product
937	 51.23	0	1025190..1025636	-	148	15639928	-	TP0943	-	flagellar protein (fliS)
938	 53.20	0	1025685..1026857	-	390	15639929	-	TP0944	-	hypothetical protein
939	 54.34	0	1027028..1027684	-	218	15639930	-	TP0945	-	ribulose-phosphate 3-epimerase (cfxE)
940	 57.25	+1	1027836..1028504	+	222	15639931	-	TP0946	-	glucose-inhibited division protein B (gidB)
941	 52.47	0	1028549..1029196	-	215	15639932	-	TP0947	-	peptidyl-prolyl cis-trans isomerase, cyclophilin-binding (cyp)
942	 51.44	0	1029193..1029888	-	231	15639933	-	TP0948	-	spoIIIJ-associated protein (jag)
943	 51.30	0	1029904..1031901	-	665	15639934	-	TP0949	-	putative inner membrane protein translocase component YidC
944	 49.82	0	1031772..1032056	-	94	15640031	-	TP0949a	-	hypothetical protein
945	 55.77	0	1032053..1032459	-	135	15640027	-	TP0950a	-	RNAse P, protein component
946	 59.62	+1	1032465..1032620	-	51	15639935	rpmH	TP0951	-	50S ribosomal protein L34
947	 49.04	0	1032740..1033777	-	345	15639936	-	TP0952	-	lipase, putative
948	 56.09	0	1033859..1035049	-	396	15639937	-	TP0953	-	pheromone shutdown protein (traB)
949	 53.38	0	1035136..1036572	-	478	15639938	-	TP0954	-	hypothetical protein
950	 53.85	0	1036644..1036916	-	90	15639939	-	TP0955	-	hypothetical protein
951	 56.07	0	1037012..1037983	+	323	15639940	-	TP0956	-	hypothetical protein
952	 50.15	0	1038074..1039102	+	342	15639941	-	TP0957	-	Tp33 protein
953	 52.61	0	1039134..1041032	+	632	15639942	-	TP0958	-	dicarboxylate transporter (dctM)
954	 54.36	0	1041101..1041490	-	129	15639943	-	TP0959	-	hypothetical protein
955	 52.96	0	1041502..1042296	-	264	15639944	flgG	TP0960	-	flagellar basal body rod protein FlgG
956	 47.18	-1	1042372..1043187	-	271	15639945	-	TP0961	-	flagellar basal-body rod protein (flgG-2)
957	 50.77	0	1043273..1044505	-	410	15639946	-	TP0962	-	hypothetical protein
958	 52.36	0	1044616..1045845	-	409	15639947	-	TP0963	-	hypothetical protein
959	 54.80	0	1045835..1046542	-	235	15639948	-	TP0964	-	ABC transporter, ATP-binding protein
960	 53.17	0	1046542..1047504	-	320	15639949	-	TP0965	-	membrane fusion protein, putative
961	 58.84	+1	1047529..1049163	-	544	15639950	-	TP0966	-	hypothetical protein
962	 60.23	+1	1049210..1050763	-	517	15639951	-	TP0967	-	hypothetical protein
963	 59.95	+1	1050760..1052382	-	540	15639952	-	TP0968	-	hypothetical protein
964	 57.41	+1	1052379..1053998	-	539	15639953	-	TP0969	-	hypothetical protein
965	 55.56	0	1053995..1054111	-	38	15639954	-	TP0970	-	hypothetical protein
966	 55.12	0	1054133..1054747	-	204	15639955	-	TP0971	-	membrane antigen, pathogen-specific (tpd)
967	 59.09	+1	1054903..1056249	-	448	15639956	-	TP0972	-	hypothetical protein
968	 57.76	+1	1056337..1057998	+	553	15639957	pheS	TP0973	-	phenylalanyl-tRNA synthetase subunit alpha
969	 56.03	0	1058050..1058331	-	93	15639958	-	TP0974	-	hypothetical protein
970	 59.39	+1	1058383..1059207	-	274	15639959	-	TP0975	-	hypothetical protein
971	 58.62	+1	1059255..1060634	+	459	15639960	-	TP0976	-	hypothetical protein
972	 56.91	0	1060621..1061481	+	286	15639961	-	TP0977	-	hypothetical protein
973	 50.00	0	1061478..1062071	+	197	15639962	lspA	TP0978	-	signal peptidase II
974	 51.68	0	1062241..1063014	+	257	15639963	-	TP0979	-	hypothetical protein
975	 54.55	0	1063022..1064044	+	340	15639964	-	TP0980	-	histidine phosphokinase/phophatase (ntrB)
976	 48.97	0	1064104..1065267	+	387	15639965	-	TP0981	-	sensory transduction histidine kinase, putative
977	 46.89	-1	1065283..1065909	+	208	15639966	-	TP0982	-	glpG protein, putative
978	 53.14	0	1065899..1066615	+	238	15639967	-	TP0983	-	hypothetical protein
979	 48.28	-1	1066639..1068558	-	639	15639968	-	TP0984	-	heat shock protein 90
980	 54.28	0	1068702..1070510	+	602	15639969	aspS	TP0985	-	aspartyl-tRNA synthetase
981	 53.22	0	1070566..1071450	+	294	15639970	-	TP0986	-	hypothetical protein
982	 54.97	0	1071496..1071666	-	56	15639971	-	TP0987	-	hypothetical protein
983	 51.97	0	1071733..1072569	+	278	15639972	-	TP0988	-	hypothetical protein
984	 57.39	+1	1072605..1073477	-	290	15639973	-	TP0989	-	P26
985	 52.77	0	1073524..1076625	+	1033	15639974	-	TP0990	-	hypothetical protein
986	 54.09	0	1076689..1076847	+	52	15639975	-	TP0991	-	rubredoxin
987	 61.81	+2	1076880..1077167	+	95	15639976	-	TP0992	-	hypothetical protein
988	 58.20	+1	1077304..1078260	-	318	15639977	-	TP0993	-	rare lipoprotein A, putative
989	 54.69	0	1078616..1079425	+	269	15639978	-	TP0994	-	hypothetical protein
990	 46.15	-1	1079501..1080787	+	428	15639979	-	TP0995	-	cyclic nucleotide binding protein
991	 50.40	0	1080870..1082486	-	538	15639980	-	TP0996	-	hypothetical protein
992	 51.03	0	1082643..1084439	-	598	15639981	-	TP0997	-	protease IV (sppA)
993	 50.50	0	1084473..1085975	-	500	15639982	-	TP0998	-	sodium/proton-dependent alanine transporter
994	 52.79	0	1086047..1088446	+	799	15639983	-	TP0999	-	cell division protein, putative
995	 53.27	0	1088624..1089295	+	223	15639984	-	TP1000	-	hypothetical protein
996	 51.95	0	1089435..1090616	-	393	15639985	-	TP1001	-	hypothetical protein
997	 49.33	0	1090630..1091298	-	222	15639986	-	TP1002	-	hypothetical protein
998	 52.99	0	1091493..1092530	+	345	15639987	-	TP1003	-	hypothetical protein
999	 55.94	0	1092553..1093158	-	201	15639988	-	TP1004	-	recombination protein (recR)
1000	 50.44	0	1093232..1094950	-	572	15639989	-	TP1005	-	DNA polymerase III subunits gamma and tau
1001	 48.38	-1	1095009..1096922	-	637	15639990	-	TP1006	-	DNA gyrase, subunit B (gyrB)
1002	 52.18	0	1097031..1097948	-	305	15639991	thyX	TP1007	-	FAD-dependent thymidylate synthase
1003	 47.64	-1	1097991..1100528	-	845	15639992	-	TP1008	-	ribonucleotide-diphosphate reductase subunit alpha
1004	 52.01	0	1100655..1101725	-	356	15639993	gpsA	TP1009	-	NAD(P)H-dependent glycerol-3-phosphate dehydrogenase
1005	 51.11	0	1101822..1102271	-	149	15639994	-	TP1010	-	nucleoside-diphosphate kinase (ndk)
1006	 50.25	0	1102397..1103005	-	202	15639995	-	TP1011	-	peptidyl-tRNA hydrolase
1007	 50.11	0	1103040..1103975	-	311	15639996	-	TP1012	-	RNA polymerase sigma-43 factor (sigA)
1008	 47.94	-1	1104180..1104446	+	88	15639997	groES	TP1013	-	co-chaperonin GroES
1009	 56.38	0	1104457..1106391	-	644	15639998	-	TP1014	-	hypothetical protein
1010	 53.29	0	1106357..1106782	-	141	15639999	nusB	TP1015	-	transcription antitermination protein NusB
1011	 49.45	0	1106779..1107864	-	361	15640000	-	TP1016	-	basic membrane protein (tpn39b)
1012	 54.51	0	1107937..1109754	-	605	15640001	-	TP1017	-	alanyl-tRNA synthetase
1013	 53.00	0	1109926..1111440	+	504	15640002	-	TP1018	-	hypothetical protein
1014	 54.05	0	1111462..1111905	+	147	15640003	-	TP1019	-	Glu-tRNA amidotransferase, subunit C (gatC)
1015	 55.69	0	1111906..1113426	+	506	15640004	-	TP1020	-	Glu-tRNA amidotransferase, subunit A (gatA)
1016	 52.16	0	1113419..1114948	+	509	15640005	gatB	TP1021	-	aspartyl/glutamyl-tRNA amidotransferase subunit B
1017	 49.78	0	1115044..1116411	-	455	15640006	-	TP1022	-	DNA repair protein RadA
1018	 54.55	0	1116458..1116952	-	164	15640007	recX	TP1023	-	recombination regulator RecX
1019	 57.95	+1	1117080..1117469	-	129	15640008	rpsI	TP1024	-	30S ribosomal protein S9
1020	 56.64	0	1117485..1117913	-	142	15640009	rplM	TP1025	-	50S ribosomal protein L13
1021	 53.50	0	1118346..1120115	+	589	15640010	-	TP1026	-	oligoendopeptidase F, putative
1022	 54.57	0	1120237..1121013	+	258	15640011	-	TP1027	-	uridine phosphorylase (udp)
1023	 55.44	0	1121029..1123041	-	670	15640012	-	TP1028	-	DNA helicase II (uvrD)
1024	 61.43	+1	1123124..1123810	-	228	15640013	-	TP1029	-	hypothetical protein
1025	 61.85	+2	1123829..1124326	-	165	15640014	-	TP1030	-	hypothetical protein
1026	 57.93	+1	1124354..1125898	+	514	15640015	-	TP1031	-	TPR protein L (tprL)
1027	 69.43	+2	1125966..1126400	-	144	15640016	-	TP1032	-	hypothetical protein
1028	 61.75	+2	1126412..1127347	-	311	15640017	-	TP1033	-	hypothetical protein
1029	 62.67	+2	1127421..1128446	+	341	15640018	-	TP1034	-	hypothetical protein
1030	 53.61	0	1128443..1131313	-	956	15640019	valS	TP1035	-	valyl-tRNA synthetase
1031	 50.40	0	1131466..1133844	+	792	15640020	-	TP1036	-	cation-transporting ATPase, P-type
1032	 49.51	0	1133934..1134650	-	238	15640021	-	TP1037	-	hemolysin III (hlyIII)
1033	 50.75	0	1134809..1135342	-	177	15640022	-	TP1038	-	bacterioferrin (TpF1)
1034	 53.40	0	1135569..1136141	+	190	15640023	-	TP1039	-	adenine phosphoribosyltransferase
1035	 52.18	0	1136164..1137219	-	351	15640024	-	TP1040	-	lysyl-tRNA synthetase (lysS-2)
1036	 47.48	-1	1137219..1137932	-	237	15640025	clpP	TP1041	-	ATP-dependent Clp protease proteolytic subunit
52.88	MEAN

4.31	STD DEV




Last Updated: Dec 04, 2008
      
Funding for this work was provided by the Peter Wall Institute for Advanced Studies. This service is hosted by the Brinkman Laboratory of the Department of Molecular Biology and Biochemistry at Simon Fraser University.