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
61	 53.86	0	70165..70695	-	176	15639056	-	TP0062	-	single-strand DNA binding protein (ssb)
62	 53.55	0	70704..70985	-	93	15639057	rpsF	TP0063	-	30S ribosomal protein S6
63	 49.65	0	71127..71702	+	191	15639058	-	TP0064	-	hypothetical protein
64	 49.83	0	71776..72363	+	195	15639059	-	TP0065	-	hypothetical protein
65	 52.06	0	72347..72661	+	104	15639060	-	TP0066	-	hypothetical protein
66	 50.34	0	72649..73830	+	393	15639061	-	TP0067	-	hypothetical protein
67	 53.18	0	74011..75033	+	340	15639062	-	TP0068	-	hypothetical protein
68	 52.54	0	75089..75619	-	176	15639063	-	TP0069	-	hypothetical protein
69	 52.97	0	75469..75855	-	128	15639064	-	TP0070	-	hypothetical protein
70	 49.87	0	75906..78542	-	878	15639065	-	TP0071	-	ATP-dependent Clp protease subunit B (clpB)
71	 48.72	0	78746..79018	+	90	15639066	-	TP0072	-	hypothetical protein
72	 52.46	0	79088..80629	-	513	15639067	-	TP0073	-	hypothetical protein
73	 55.11	0	80934..82343	+	469	15639068	-	TP0074	-	sugar ABC transporter, periplasmic binding protein (y4oP)
74	 49.38	0	82462..83352	+	296	15639069	-	TP0075	-	sugar ABC transporter, permease protein (y4oQ)
75	 48.42	-1	83392..84213	+	273	15639070	-	TP0076	-	sugar ABC transporter, permease protein (y4oR)
76	 50.28	0	84254..85870	+	538	15639071	-	TP0077	-	capsular polysaccharide biosynthesis protein (cap5D)
77	 50.04	0	85875..87113	+	412	15639072	-	TP0078	-	spore coat polysaccharide biosynthesis protein (spsC)
78	 50.11	0	87041..89263	+	740	15639073	-	TP0079	-	hypothetical protein
79	 42.95	-2	89260..89727	+	155	15639074	-	TP0080	-	quinoline 2-oxidoreductase
80	 46.64	-1	89734..90582	+	282	15639075	-	TP0081	-	hypothetical protein
81	 52.69	0	90629..92431	-	600	15639076	-	TP0082	-	formate hydrogenlyase transcriptional activator (fhlA)
82	 54.25	0	93177..94457	+	426	15639077	-	TP0083	-	hypothetical protein
83	 53.42	0	94437..94670	-	77	15639078	-	TP0084	-	hypothetical protein
84	 49.89	0	94784..95230	-	148	15639079	-	TP0085	-	PTS system, nitrogen regulatory IIA component (ptsN-1)
85	 53.65	0	95311..96255	+	314	15639080	-	TP0086	-	hypothetical protein
86	 57.41	+1	96258..96797	-	179	15639081	-	TP0087	-	hypothetical protein
87	 48.62	0	96781..97395	-	204	15639082	-	TP0088	-	hypothetical protein
88	 45.39	-1	97425..98660	-	411	15639083	-	TP0089	-	cyclic nucleotide binding protein
89	 57.75	+1	98743..99807	-	354	15639084	-	TP0090	-	UDP-N-acetylmuramate dehydrogenase (murB)
90	 54.51	0	99989..101551	+	520	15639085	-	TP0091	-	cysteinyl-tRNA synthetase (cysS)
91	 54.19	0	101622..102110	+	162	15639086	-	TP0092	-	RNA polymerase sigma-24 factor (rpoE)
92	 55.25	0	102094..102741	+	215	15639087	-	TP0093	-	hypothetical protein
93	 51.43	0	102879..103889	+	336	15639088	-	TP0094	-	phosphate acetyltransferase (pta)
94	 56.65	0	103889..105835	+	648	15639089	-	TP0095	-	hypothetical protein
95	 53.44	0	105909..106271	-	120	15639090	-	TP0096	-	dnaK suppressor, putative
96	 54.79	0	106441..106659	+	72	15639091	-	TP0097	-	translation initiation factor 1 (infA)
97	 60.22	+1	106719..107369	-	216	15639092	-	TP0098	-	heat-shock protein, putative
98	 55.56	0	107373..108128	-	251	15639093	pyrH	TP0099	-	uridylate kinase
99	 54.89	0	108323..108925	+	200	15639094	-	TP0100	-	thioredoxin, putative
100	 55.35	0	108918..109712	+	264	15639095	-	TP0101	-	cytochrome c biogenesis protein (ccdA)
101	 45.09	-1	109750..111723	-	657	15639096	-	TP0102	-	rep helicase, single-stranded DNA-dependent ATPase (rep)
102	 52.74	0	111788..113611	+	607	15639097	-	TP0103	-	ATP-dependent DNA helicase, putative
103	 48.43	-1	113858..115639	+	593	15639098	-	TP0104	-	5'-nucleotidase (ushA)
104	 44.76	-1	115806..118799	+	997	15639099	-	TP0105	-	DNA polymerase I (polA)
105	 49.18	0	118831..120363	-	510	15639100	-	TP0106	-	carnitine transporter, putative
106	 47.02	-1	120344..121921	-	525	15639101	-	TP0107	-	licC protein (licC)
107	 51.08	0	122275..123660	-	461	15639102	-	TP0108	-	diphosphate--fructose-6-phosphate 1-phosphotransferase
108	 55.29	0	123762..124640	-	292	15639103	-	TP0109	-	rRNA methylase, putative
109	 49.60	0	125181..126914	+	577	15639104	-	TP0110	-	hypothetical protein
110	 47.90	-1	126974..128401	+	475	15639105	-	TP0111	-	RNA polymerase sigma-54 factor (rpoN)
111	 46.86	-1	128398..129750	-	450	15639106	-	TP0112	-	aminopeptidase C (pepC)
112	 46.61	-1	129892..130878	+	328	15639107	-	TP0113	-	lambda CII stability-governing protein (hflK)
113	 49.60	0	130883..131878	+	331	15639108	-	TP0114	-	lambda CII stability-governing protein (hflC)
114	 54.44	0	131903..132712	-	269	15639109	-	TP0115	-	phosphomethypyrimidine kinase (thiD)
115	 45.34	-1	132863..134869	+	668	15639110	-	TP0116	-	excinuclease ABC subunit B
116	 56.26	0	134901..136697	-	598	15639111	-	TP0117	-	TPR protein C (tprC)
117	 55.61	0	136777..138042	-	421	15639112	-	TP0118	-	hypothetical protein
118	 55.15	0	138140..138799	-	219	15639113	-	TP0119	-	amino acid ABC transporter, permease protein (yaeE)
119	 51.98	0	138799..139608	-	269	15639114	-	TP0120	-	amino acid ABC transporter ATP-binding protein
120	 57.21	+1	139738..140805	+	355	15639115	-	TP0121	-	hypothetical protein
121	 53.96	0	141025..142881	-	618	15639116	-	TP0122	-	phosphoenolpyruvate carboxykinase
122	 48.89	0	142987..145557	+	856	15639117	-	TP0123	-	hypothetical protein
123	 52.57	0	145571..146677	+	368	15639118	-	TP0124	-	translation-associated GTPase
124	 56.60	0	146754..147548	+	264	15639119	-	TP0125	-	exodeoxyribonuclease (exoA)
125	 59.02	+1	147612..148487	-	291	15639120	-	TP0126	-	hypothetical protein
126	 55.94	0	148595..149284	+	229	15639121	-	TP0127	-	hypothetical protein
127	 62.64	+2	149473..149820	+	115	15639122	-	TP0128	-	hypothetical protein
128	 59.54	+1	149805..150281	+	158	15639123	-	TP0129	-	hypothetical protein
129	 58.81	+1	150610..151029	-	139	15639124	-	TP0130	-	hypothetical protein
130	 56.26	0	151101..152897	-	598	15639125	-	TP0131	-	TPR protein D (tprD)
131	 50.48	0	152942..153151	-	69	15639126	-	TP0132	-	hypothetical protein
132	 56.77	0	153136..154368	-	410	15639127	-	TP0133	-	hypothetical protein
133	 57.38	+1	154365..155495	-	376	15639128	-	TP0134	-	hypothetical protein
134	 59.13	+1	155447..156388	-	313	15639129	-	TP0135	-	hypothetical protein
135	 60.95	+1	156792..158279	+	495	15639130	-	TP0136	-	hypothetical protein
136	 53.62	0	158258..158395	+	45	15639131	-	TP0137	-	hypothetical protein
137	 49.05	0	158533..159270	-	245	15639132	-	TP0138	-	hypothetical protein
138	 48.05	-1	159278..159970	-	230	15639133	-	TP0139	-	hypothetical protein
139	 47.16	-1	160010..161737	-	575	15639134	-	TP0140	-	K+ transport protein (ntpJ)
140	 55.99	0	161909..162442	+	177	15639135	-	TP0141	-	methylated-DNA-protein-cysteine S-methyltransferase (dat)
141	 51.73	0	162393..163055	-	220	15639136	-	TP0142	-	thiamine ABC transporter, ATP-binding protein, putative
142	 53.20	0	163048..164829	-	593	15639137	-	TP0143	-	thiamine ABC transporter, permease protein, putative
143	 57.74	+1	164787..165794	-	335	15639138	-	TP0144	-	thiamine ABC transporter, thiamine-binding periplasmic protein, putative
144	 53.83	0	165904..167874	+	656	15639139	-	TP0145	-	long-chain-fatty-acid--CoA ligase
145	 44.84	-1	169279..171138	-	619	15639140	-	TP0147	-	alpha-amylase 1, putative
146	 51.30	0	171135..171713	-	192	15639141	-	TP0148	-	hypothetical protein
147	 50.17	0	171707..172300	-	197	15639142	-	TP0149	-	hypothetical protein
148	 49.15	0	172293..172760	-	155	15639143	-	TP0150	-	hypothetical protein
149	 54.51	0	172744..173763	-	339	15639144	-	TP0151	-	hypothetical protein
150	 57.41	+1	173750..175294	-	514	15639145	-	TP0152	-	nitrogen fixation protein (rnfC)
151	 54.88	0	175370..175861	-	163	15639146	-	TP0153	-	hypothetical protein
152	 58.57	+1	176086..177123	+	345	15639147	-	TP0154	-	hypothetical protein
153	 52.33	0	177129..178244	+	371	15639148	-	TP0155	-	hypothetical protein
154	 51.11	0	178285..178689	-	134	15639149	-	TP0156	-	hypothetical protein
155	 50.17	0	178686..179588	-	300	15639150	-	TP0157	-	hypothetical protein
156	 48.76	0	179585..180271	-	228	15639151	-	TP0158	-	hypothetical protein
157	 51.51	0	180275..181303	-	342	15639152	-	TP0159	-	hypothetical protein
158	 55.99	0	181419..183272	-	617	15639153	-	TP0160	-	prolyl-tRNA synthetase
159	 55.91	0	183275..183367	-	30	15639154	-	TP0161	-	hypothetical protein
160	 58.59	+1	183384..184436	-	350	15639155	ruvB	TP0162	-	Holliday junction DNA helicase B
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.