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
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)
304	 56.31	0	317926..321045	-	1039	15639296	-	TP0304	-	hypothetical protein
305	 58.25	+1	320972..322705	+	577	15639297	-	TP0305	-	CTP synthetase
306	 53.66	0	322870..323484	+	204	15639298	rpsD	TP0306	-	30S ribosomal protein S4
307	 55.39	0	323571..324599	+	342	15639299	-	TP0307	-	hypothetical protein
308	 56.52	0	324574..325539	+	321	15639300	-	TP0308	-	amino acid ABC transporter, periplasmic binding protein (hisJ)
309	 57.26	+1	325605..326423	+	272	15639301	-	TP0309	-	amino acid ABC transporter, periplasmic binding protein
310	 58.59	+1	326392..326775	+	127	15639302	-	TP0310	-	hypothetical protein
311	 55.56	0	326754..326897	-	47	15639303	-	TP0311	-	hypothetical protein
312	 60.75	+1	326881..327894	+	337	15639304	-	TP0312	-	hypothetical protein
313	 56.75	0	327985..330273	+	762	15639305	-	TP0313	-	TPR protein E (tprE)
314	 59.18	+1	330330..330476	-	48	15639306	-	TP0314	-	hypothetical protein
315	 60.80	+1	330499..331146	-	215	15639307	-	TP0315	-	hypothetical protein
316	 56.32	0	332393..334663	-	756	15639308	-	TP0317	-	TPR protein G (tprG)
317	 61.67	+2	334615..334794	-	59	15639309	-	TP0318	-	hypothetical protein
318	 54.33	0	334823..335884	+	353	15639310	-	TP0319	-	membrane lipoprotein (tmpC)
319	 58.33	+1	335894..336049	+	51	15639311	-	TP0320	-	hypothetical protein
320	 56.87	0	336125..337726	+	533	15639312	-	TP0321	-	ribose/galactose ABC transporter, ATP-binding protein (rbsA-2)
321	 55.36	0	337636..338838	+	400	15639313	-	TP0322	-	ribose/galactose ABC transporter, permease protein (rbsC-1)
322	 53.10	0	338835..339785	+	316	15639314	-	TP0323	-	ribose/galactose ABC transporter, permease protein (rbsC-2)
323	 55.83	0	339889..341346	+	485	15639315	-	TP0324	-	hypothetical protein
324	 54.53	0	341328..344294	+	988	15639316	-	TP0325	-	hypothetical protein
325	 52.19	0	344276..346837	+	853	15639317	-	TP0326	-	outer membrane protein
326	 51.06	0	346894..347412	+	172	15639318	-	TP0327	-	cationic outer membrane protein (ompH)
327	 54.09	0	347468..350170	+	900	15639319	-	TP0328	-	DNA mismatch repair protein
328	 54.38	0	350288..352012	+	574	15639320	-	TP0329	-	serine hydroxymethyltransferase
329	 45.85	-1	351986..353782	-	598	15639321	-	TP0330	-	cell division protein, putative
330	 55.21	0	354012..355478	-	488	15639322	-	TP0331	-	6-phosphogluconate dehydrogenase
331	 50.79	0	355494..355619	+	41	15639323	-	TP0332	-	hypothetical protein
332	 50.22	0	355657..356349	+	230	15639324	-	TP0333	-	hypothetical protein
333	 55.50	0	356374..357591	+	405	15639325	-	TP0334	-	hypothetical protein
334	 57.83	+1	357588..358130	-	180	15639326	-	TP0335	-	hypothetical protein
335	 51.91	0	357973..359673	+	566	15639327	-	TP0336	-	comE protein, putative
336	 48.02	-1	359654..360511	+	285	15639328	ksgA	TP0337	-	dimethyladenosine transferase
337	 49.28	0	360529..361017	+	162	15639329	-	TP0338	-	hypothetical protein
338	 48.39	-1	361029..362024	+	331	15639330	-	TP0339	-	hypothetical protein
339	 46.91	-1	362010..363482	-	490	15639331	-	TP0340	-	folylpolyglutamate synthetase (folC)
340	 49.79	0	363501..364946	+	481	15639332	murC	TP0341	-	UDP-N-acetylmuramate--L-alanine ligase
341	 48.31	-1	365067..365627	+	186	15639333	-	TP0342	-	cytidylate kinase
342	 49.52	0	365621..366454	+	277	15639334	-	TP0343	-	A/G-specific adenine glycosylase, putative
343	 49.63	0	366459..369881	-	1140	15639335	-	TP0344	-	transcription-repair coupling factor (trcF)
344	 50.73	0	370034..371125	+	363	15639336	-	TP0345	-	phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY)
345	 54.84	0	371282..371983	+	233	15639337	-	TP0346	-	hypothetical protein
346	 57.40	+1	371952..372782	+	276	15639338	-	TP0347	-	hypothetical protein
347	 59.86	+1	372516..373925	-	469	15639339	-	TP0348	-	hypothetical protein
348	 57.63	+1	373895..374425	-	176	15639340	-	TP0349	-	peptidyl-prolyl cis-trans isomerase, FKBP-type (slyD)
349	 55.71	0	374639..375925	+	428	15639341	-	TP0350	-	glutamate-5-semialdehyde dehydrogenase (proA)
350	 55.89	0	375922..376812	+	296	15639342	-	TP0351	-	gamma-glutamyl kinase
351	 52.71	0	376944..377201	+	85	15639343	-	TP0352	-	hypothetical protein
352	 60.00	+1	377198..377707	-	169	15639344	-	TP0353	-	ribonuclease H (rnhA)
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.