IslandPathversion 1.0

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
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
213	 57.58	+1	217566..217763	+	65	15639207	-	TP0214	-	hypothetical protein
214	 57.62	+1	217969..218631	+	220	15639208	-	TP0215	-	grpE protein (grpE)
215	 51.57	0	218747..220654	+	635	15639209	dnaK	TP0216	-	molecular chaperone DnaK
216	 54.00	0	220775..222024	+	416	15640026	dnaJ	TP0217	-	heat shock protein
217	 46.39	-1	222201..223670	+	489	15639210	-	TP0218	-	sigma factor SigB regulation protein, putative
218	 41.67	-2	223674..225821	+	715	15639211	-	TP0219	-	sigma factor SigG regulation protein, putative
219	 48.62	0	225850..226176	+	108	15639212	-	TP0220	-	anti-sigma F factor antagonist (SpoIIAA-1)
220	 55.94	0	226177..226959	+	260	15639213	-	TP0221	-	D,D-carboxypeptidase, putative
221	 52.57	0	226969..227415	+	148	15639214	-	TP0222	-	hypothetical protein
222	 53.29	0	227683..228990	+	435	15639215	-	TP0223	-	hypothetical protein
223	 48.57	-1	229027..229131	+	34	15639216	-	TP0224	-	hypothetical protein
224	 51.42	0	229177..229917	+	246	15639217	-	TP0225	-	leucine-rich repeat-containing protein
225	 49.05	0	235069..235755	-	228	15639218	-	TP0226	-	hypothetical protein
226	 52.86	0	235808..236575	-	255	15639219	-	TP0227	-	cobalt ABC transporter, ATP-binding protein
227	 55.64	0	236642..237457	-	271	15639220	-	TP0228	-	biotin synthase, putative
228	 55.52	0	237401..238234	+	277	15639221	-	TP0229	-	DNA polymerase
229	 56.28	0	238239..240212	+	657	15639222	-	TP0230	-	primosomal protein N (priA)
230	 54.99	0	240313..240963	+	216	15639223	-	TP0231	-	hypothetical protein
231	 55.56	0	241063..241179	+	38	15639224	-	TP0232	-	hypothetical protein
232	 45.24	-1	241210..241755	+	181	15639225	-	TP0233	-	anti-sigma F factor antagonist, putative
233	 49.71	0	241990..242160	+	56	15639226	rpmG	TP0234	-	50S ribosomal protein L33
234	 53.89	0	242310..242489	+	59	15639227	secE	TP0235	-	preprotein translocase subunit SecE
235	 52.87	0	242499..243056	+	185	15639228	-	TP0236	-	transcription antitermination protein (nusG)
236	 54.20	0	243163..243603	+	146	15639229	rplK	TP0237	-	50S ribosomal protein L11
237	 53.74	0	243600..244280	+	226	15639230	rplA	TP0238	-	50S ribosomal protein L1
238	 54.70	0	244282..244824	+	180	15639231	rplJ	TP0239	-	50S ribosomal protein L10
239	 52.05	0	244933..245322	+	129	15639232	rplL	TP0240	-	50S ribosomal protein L7/L12
240	 49.93	0	245585..249121	+	1178	15639233	rpoB	TP0241	-	DNA-directed RNA polymerase subunit beta
241	 50.60	0	249134..253384	+	1416	15639234	-	TP0242	-	DNA-directed RNA polymerase subunit beta'
242	 54.40	0	253487..253861	+	124	15639235	rpsL	TP0243	-	30S ribosomal protein S12
243	 54.99	0	253883..254353	+	156	15639236	-	TP0244	-	30S ribosomal protein S7
244	 52.00	0	254377..257832	+	1151	15639237	-	TP0245	-	hypothetical protein
245	 46.49	-1	257978..259771	+	597	15639238	-	TP0246	-	hypothetical protein
246	 48.23	-1	259822..260895	+	357	15639239	-	TP0247	-	N-acetylmuramoyl-L-alanine amidase (amiA)
247	 56.54	0	260962..261366	+	134	15639240	-	TP0248	-	hypothetical protein
248	 54.42	0	261445..262497	+	350	15639241	-	TP0249	-	flagellar filament outer layer protein (flaA-1)
249	 54.82	0	262548..262775	+	75	15639242	-	TP0250	-	hypothetical protein
250	 55.90	0	262610..262897	+	95	15640029	rpsT	TP0250a	-	30S ribosomal protein S20
251	 54.72	0	262929..263246	+	105	15639243	-	TP0251	-	DNA-binding protein II
252	 54.36	0	263236..264876	+	546	15639244	-	TP0252	-	apolipoprotein N-acyltransferase, putative
253	 51.93	0	264867..265280	+	137	15639245	-	TP0253	-	hypothetical protein
254	 48.97	0	265517..267076	+	519	15639246	rho	TP0254	-	transcription termination factor Rho
255	 49.02	0	267195..267398	+	67	15639247	rpmE	TP0255	-	50S ribosomal protein L31
256	 47.77	-1	267443..268093	+	216	15639248	-	TP0256	-	CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase (pgsA)
257	 48.27	-1	268190..269260	+	356	15639249	glpQ	TP0257	-	glycerophosphodiester phosphodiesterase
258	 52.60	0	269326..270036	-	236	15639250	-	TP0258	-	hypothetical protein
259	 53.76	0	270115..270726	+	203	15639251	-	TP0259	-	hypothetical protein
260	 56.94	0	270857..272203	-	448	15639252	-	TP0260	-	hypothetical protein
261	 54.50	0	272318..273361	+	347	15639253	-	TP0261	-	catabolite gene activator, putative
262	 51.85	0	273339..274013	+	224	15639254	-	TP0262	-	catabolite gene activator (Crp)
263	 57.98	+1	274028..275812	+	594	15639255	-	TP0263	-	hypothetical protein
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.