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
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
161	 53.51	0	184611..185537	+	308	15639156	-	TP0163	-	ABC transporter, periplasmic binding protein (troA)
162	 53.43	0	185685..186485	+	266	15639157	-	TP0164	-	ABC transporter, ATP-binding protein (troB)
163	 51.62	0	186457..187353	+	298	15639158	-	TP0165	-	ABC transporter, permease protein (troC)
164	 52.26	0	187357..188460	+	367	15639159	-	TP0166	-	ABC transporter, permease protein (troD)
165	 50.87	0	188470..188931	+	153	15639160	-	TP0167	-	cation-activated repressor protein (troR)
166	 51.46	0	189011..189766	+	251	15639161	-	TP0168	-	phosphoglycerate mutase (pgm)
167	 55.56	0	189990..190088	+	32	15639162	-	TP0169	-	hypothetical protein
168	 54.81	0	190085..190894	+	269	15639163	-	TP0170	-	pfs protein (pfs)
169	 52.68	0	190994..191422	+	142	15639164	-	TP0171	-	lipoprotein, 15 kDa (tpp15)
170	 54.73	0	191570..192097	-	175	15639165	-	TP0172	-	hypothetical protein
171	 50.88	0	192132..192815	-	227	15639166	-	TP0173	-	hypothetical protein
172	 44.25	-2	192784..193626	-	280	15639167	-	TP0174	-	hypothetical protein
173	 43.60	-2	193376..194008	-	210	15639168	-	TP0175	-	hypothetical protein
174	 45.69	-1	194039..194305	-	88	15639169	-	TP0176	-	hypothetical protein
175	 48.74	0	194302..195612	-	436	15639170	-	TP0177	-	hypothetical protein
176	 57.82	+1	195706..196632	-	308	15639171	-	TP0178	-	hypothetical protein
177	 60.83	+1	196632..198515	-	627	15639172	-	TP0179	-	hypothetical protein
178	 59.12	+1	198457..198615	-	52	15639173	-	TP0180	-	hypothetical protein
179	 56.08	0	198608..199051	+	147	15639174	-	TP0181	-	hypothetical protein
180	 60.26	+1	198891..199670	+	259	15639175	-	TP0182	-	hypothetical protein
181	 56.62	0	199673..200518	-	281	15639176	-	TP0183	-	hypothetical protein
182	 55.27	0	200523..200987	-	154	161579587	smpB	TP0184	-	SsrA-binding protein
183	 53.39	0	201075..201782	+	235	15639178	-	TP0185	-	signal peptidase I (sip)
184	 54.48	0	201837..203018	+	393	15639179	-	TP0186	-	oxygen-independent coproporphyrinogen III oxidase, putative
185	 50.59	0	203382..204569	+	395	161579586	-	TP0187	-	elongation factor Tu
186	 52.75	0	204641..204949	+	102	15639181	rpsJ	TP0188	-	30S ribosomal protein S10
187	 54.07	0	204996..205622	+	208	15639182	rplC	TP0189	-	50S ribosomal protein L3
188	 49.31	0	205636..206286	+	216	15639183	rplD	TP0190	-	50S ribosomal protein L4
189	 52.28	0	206273..206557	+	94	15639184	rplW	TP0191	-	50S ribosomal protein L23
190	 56.20	0	206613..207434	+	273	15639185	rplB	TP0192	-	50S ribosomal protein L2
191	 47.22	-1	207444..207731	+	95	15639186	rpsS	TP0193	-	30S ribosomal protein S19
192	 52.80	0	207740..208114	+	124	15639187	rplV	TP0194	-	50S ribosomal protein L22
193	 51.34	0	208098..208841	+	247	15639188	rpsC	TP0195	-	30S ribosomal protein S3
194	 52.86	0	208845..209264	+	139	15639189	rplP	TP0196	-	50S ribosomal protein L16
195	 45.21	-1	209279..209497	+	72	15639190	-	TP0197	-	ribosomal protein L29 (rpmC)
196	 52.94	0	209512..209766	+	84	15639191	rpsQ	TP0198	-	30S ribosomal protein S17
197	 48.51	-1	209779..210147	+	122	15639192	rplN	TP0199	-	50S ribosomal protein L14
198	 50.64	0	210159..210470	+	103	15639193	rplX	TP0200	-	50S ribosomal protein L24
199	 46.42	-1	210467..211024	+	185	15639194	rplE	TP0201	-	50S ribosomal protein L5
200	 53.76	0	211036..211221	+	61	15639195	rpsN	TP0202	-	30S ribosomal protein S14
201	 49.12	0	211237..211635	+	132	15639196	rpsH	TP0203	-	30S ribosomal protein S8
202	 51.85	0	211645..212184	+	179	15639197	rplF	TP0204	-	50S ribosomal protein L6
203	 49.86	0	212193..212555	+	120	15639198	rplR	TP0205	-	50S ribosomal protein L18
204	 51.83	0	212564..213082	+	172	15639199	rpsE	TP0206	-	30S ribosomal protein S5
205	 56.99	0	213085..213270	+	61	15640028	rpmD	TP0206a	-	50S ribosomal protein L30
206	 56.71	0	213270..213731	+	153	15639200	rplO	TP0207	-	50S ribosomal protein L15
207	 49.08	0	213739..215091	+	450	15639201	secY	TP0208	-	preprotein translocase subunit SecY
208	 40.35	-2	215096..215209	+	37	15639202	rpmJ	TP0209	-	50S ribosomal protein L36
209	 46.99	-1	215225..215590	+	121	15639203	rpsM	TP0210	-	30S ribosomal protein S13
210	 52.23	0	215608..215988	+	126	15639204	-	TP0211	-	30S ribosomal protein S11
211	 49.34	0	216003..217058	+	351	15639205	-	TP0212	-	DNA-directed RNA polymerase subunit alpha
212	 52.32	0	217048..217542	+	164	15639206	rplQ	TP0213	-	50S ribosomal protein L17
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.