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
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)
353	 47.21	-1	377970..378596	+	208	15639345	-	TP0354	-	thymidylate kinase (tmk)
354	 47.66	-1	378563..378946	-	127	15639346	-	TP0355	-	hypothetical protein
355	 47.80	-1	379151..379468	+	105	15639347	-	TP0356	-	RNA-binding protein, putative
356	 58.84	+1	379570..380310	+	246	15639348	-	TP0357	-	biotin--acetyl-CoA-carboxylase ligase (birA)
357	 51.87	0	380315..381895	-	526	15639349	-	TP0358	-	hypothetical protein
358	 52.52	0	381907..382542	-	211	15639350	-	TP0359	-	hypothetical protein
359	 54.80	0	382753..382929	+	58	15639351	-	TP0360	-	hypothetical protein
360	 57.60	+1	382926..383774	-	282	15639352	-	TP0361	-	lysophosphatidic acid acyltransferase, putative
361	 59.92	+1	383850..384086	+	78	15639353	-	TP0362	-	ribosomal protein L28 (rpmB)
362	 54.24	0	384578..387016	+	812	15639354	-	TP0363	-	chemotaxis histidine kinase (cheA)
363	 52.12	0	387010..388377	+	455	15639355	-	TP0364	-	purine-binding chemotaxis protein (cheW-1)
364	 52.26	0	388399..388863	+	154	15639356	-	TP0365	-	chemotaxis protein (cheX)
365	 48.28	-1	388876..389310	+	144	15639357	-	TP0366	-	chemotaxis response regulator (cheY)
366	 52.44	0	389614..392439	+	941	15639358	-	TP0367	-	chromosome segregation protein, putative
367	 59.23	+1	392439..392774	+	111	15639359	-	TP0368	-	hypothetical protein
368	 59.06	+1	392771..394321	+	516	15639360	-	TP0369	-	hypothetical protein
369	 50.60	0	394389..394805	-	138	15639361	-	TP0370	-	hypothetical protein
370	 58.11	+1	394779..395654	+	291	15639362	-	TP0371	-	hypothetical protein
371	 55.84	0	395776..396366	+	196	15639363	-	TP0372	-	50S ribosomal protein L25/general stress protein Ctc
372	 56.90	0	396426..397859	+	477	15639364	-	TP0373	-	hypothetical protein
373	 54.29	0	397795..400170	+	791	15639365	-	TP0374	-	hypothetical protein
374	 50.00	0	400328..400537	+	69	15639366	-	TP0375	-	hypothetical protein
375	 53.31	0	400853..401758	-	301	15639367	-	TP0376	-	hypothetical protein
376	 55.56	0	401827..401952	+	41	15639368	-	TP0377	-	hypothetical protein
377	 53.02	0	401949..402329	+	126	15639369	-	TP0378	-	flagellar protein, putative
378	 51.76	0	402404..405154	-	916	15639370	secA	TP0379	-	preprotein translocase subunit SecA
379	 54.81	0	405261..407081	-	606	15639371	-	TP0380	-	DNA repair helicase, putative
380	 54.11	0	407219..407935	-	238	15639372	-	TP0381	-	hypothetical protein
381	 58.54	+1	408019..408141	+	40	15639373	-	TP0382	-	hypothetical protein
382	 58.22	+1	408169..408618	+	149	15639374	-	TP0383	-	cell division protein MraZ
383	 59.56	+1	408615..409754	+	379	15639375	-	TP0384	-	hypothetical protein
384	 54.93	0	409767..410141	+	124	15639376	-	TP0385	-	hypothetical protein
385	 52.03	0	410125..411504	+	459	15639377	-	TP0386	-	UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanine ligase (murF)
386	 42.34	-2	411501..412655	+	384	15639378	-	TP0387	-	cell division protein (ftsW)
387	 45.83	-1	412633..413448	+	271	15639379	-	TP0388	-	cell division protein (ftsQ)
388	 49.40	0	413461..414705	+	414	15639380	-	TP0389	-	cell division protein (ftsA)
389	 50.28	0	414751..416007	+	418	15639381	-	TP0390	-	cell division protein FtsZ
390	 50.38	0	416004..416924	+	306	15639382	-	TP0391	-	integrase/recombinase (codV)
391	 50.62	0	416707..417666	+	319	15639383	-	TP0392	-	hypothetical protein
392	 49.72	0	417663..418571	+	302	15639384	-	TP0393	-	smf protein (smf)
393	 47.81	-1	418604..420799	+	731	15639385	-	TP0394	-	DNA topoisomerase I (topA)
394	 51.79	0	420792..421685	+	297	15639386	-	TP0395	-	integrase/recombinase (xprB)
395	 48.18	-1	421833..422243	+	136	15639387	-	TP0396	-	flagellar basal-body rod protein (flgB)
396	 50.77	0	422328..422717	+	129	15639388	flgC	TP0397	-	flagellar basal body rod protein FlgC
397	 48.00	-1	422773..423147	+	124	15639389	fliE	TP0398	-	flagellar hook-basal body protein FliE
398	 50.12	0	423264..424967	+	567	15639390	fliF	TP0399	-	flagellar MS-ring protein
399	 45.51	-1	424972..426030	+	352	15639391	fliG	TP0400	-	flagellar motor switch protein G
400	 51.08	0	426078..427007	+	309	15639392	fliH	TP0401	-	flagellar assembly protein H
401	 55.36	0	427035..428378	+	447	15639393	-	TP0402	-	flagellum-specific ATP synthase (fliI)
402	 53.64	0	428407..428859	+	150	15639394	-	TP0403	-	flagellar protein, putative
403	 54.68	0	428856..429389	-	177	15639395	-	TP0404	-	hypothetical protein
404	 48.22	-1	429386..429835	-	149	15639396	-	TP0405	-	mcbG protein, putative
405	 53.16	0	430026..430832	+	268	15639397	-	TP0406	-	glutamate racemase (murI)
406	 56.15	0	430960..431634	+	224	15639398	-	TP0407	-	phosphoglycolate phosphatase (gph-1)
407	 50.32	0	431713..434967	+	1084	15639399	-	TP0408	-	hypothetical protein
408	 52.15	0	435007..435192	+	61	15639400	-	TP0409	-	hypothetical protein
409	 53.60	0	435457..437208	+	583	15639401	secD	TP0410	-	preprotein translocase subunit SecD
410	 54.24	0	437205..438467	+	420	15639402	secF	TP0411	-	preprotein translocase subunit SecF
411	 47.39	-1	438543..438848	-	101	15639403	-	TP0412	-	hypothetical protein
412	 54.50	0	438867..440765	-	632	15639404	-	TP0413	-	phosphoglucomutase
413	 56.19	0	440868..442223	+	451	15639405	-	TP0414	-	D-alanine glycine permease (dagA)
414	 59.36	+1	442204..442737	+	177	15639406	-	TP0415	-	hypothetical protein
415	 55.04	0	442684..444042	-	452	15639407	-	TP0416	-	signal recognition particle protein (ffh)
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.