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
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
264	 56.77	0	275817..276473	+	218	15639256	-	TP0264	-	deoxyribose-phosphate aldolase (deoC)
265	 54.97	0	276905..278272	-	455	15639257	-	TP0265	-	amino acid ABC transporter, permease protein (braC)
266	 53.17	0	278323..278448	+	41	15639258	-	TP0266	-	hypothetical protein
267	 51.37	0	283557..283922	+	121	15639259	-	TP0267	-	hypothetical protein
268	 58.26	+1	283919..284572	+	217	15639260	-	TP0268	-	hypothetical protein
269	 50.38	0	284582..286030	+	482	15639261	-	TP0269	-	hypothetical protein
270	 54.84	0	286104..287540	+	478	15639262	-	TP0270	-	polynucleotide adenylyltransferase (pcnA)
271	 53.13	0	287537..288511	-	324	15639263	-	TP0271	-	chromosome partitioning protein (parB)
272	 48.16	-1	288498..289259	-	253	15639264	-	TP0272	-	SpoOJ regulator (soj)
273	 53.54	0	289392..290183	+	263	15639265	-	TP0273	-	hypothetical protein
274	 56.09	0	290221..290721	-	166	15639266	-	TP0274	-	deoxycytidylate deaminase, putative
275	 50.93	0	290810..291559	-	249	15639267	-	TP0275	-	UDP-N-acetyl-D-mannosamine transferase, putative
276	 56.72	0	291538..292422	-	294	15639268	-	TP0276	-	hypothetical protein
277	 50.48	0	292595..293941	-	448	15639269	-	TP0277	-	carboxyl-terminal protease (CTP)
278	 61.24	+1	294069..294197	+	42	15639270	-	TP0278	-	hypothetical protein
279	 55.25	0	294243..296834	+	863	15639271	-	TP0279	-	bifunctional cytidylate kinase/ribosomal protein S1
280	 58.91	+1	296831..296959	+	42	15639272	-	TP0280	-	hypothetical protein
281	 58.14	+1	296976..297104	+	42	15639273	-	TP0281	-	hypothetical protein
282	 59.44	+1	297097..297816	+	239	15639274	-	TP0282	-	hypothetical protein
283	 51.67	0	297994..298473	+	159	15639275	-	TP0283	-	lipopolysaccharide core biosynthesis protein (kdtB)
284	 54.55	0	298578..299237	+	219	15639276	-	TP0284	-	hypothetical protein
285	 48.80	0	299177..300256	+	359	15639277	-	TP0285	-	hypothetical protein
286	 48.09	-1	300228..300593	+	121	15639278	-	TP0286	-	hypothetical protein
287	 45.67	-1	300560..301183	+	207	15639279	-	TP0287	-	hypothetical protein
288	 52.32	0	301183..302130	+	315	15639280	-	TP0288	-	spore coat polysaccharide biosynthesis protein (spsF)
289	 48.10	-1	302153..303757	+	534	15639281	-	TP0289	-	hypothetical protein
290	 46.40	-1	303812..304645	+	277	15639282	-	TP0290	-	hypothetical protein
291	 50.68	0	304682..305563	+	293	15639283	-	TP0291	-	hypothetical protein
292	 49.84	0	305554..306807	+	417	15639284	-	TP0292	-	outer membrane protein (tpn50)
293	 55.37	0	306819..306995	+	58	15639285	-	TP0293	-	hypothetical protein
294	 47.31	-1	306973..308238	+	421	15639286	-	TP0294	-	phosphoribosylpyrophosphate synthetase
295	 52.53	0	308257..309501	+	414	15639287	-	TP0295	-	carhohydrate kinase (xylB)
296	 51.89	0	309587..310222	+	211	15639288	-	TP0296	-	hypothetical protein
297	 53.51	0	310186..310998	+	270	15639289	-	TP0297	-	hypothetical protein
298	 54.84	0	311131..312162	+	343	15639290	-	TP0298	-	exported protein (tpn38b)
299	 64.44	+2	312159..312383	+	74	15639291	-	TP0299	-	hypothetical protein
300	 53.32	0	312368..313918	+	516	15639292	-	TP0300	-	ribose/galactose ABC transporter, ATP-binding protein (rbsA-1)
301	 50.79	0	313915..315048	+	377	15639293	-	TP0301	-	hypothetical protein
302	 55.41	0	315039..315980	+	313	15639294	-	TP0302	-	hypothetical protein
303	 57.52	+1	315967..317913	-	648	15639295	-	TP0303	-	DNA mismatch repair protein (mutL)
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.