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
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)
416	 57.38	+1	444035..445714	-	559	15639408	lnt	TP0417	-	apolipoprotein N-acyltransferase
417	 54.52	0	445741..446934	+	397	15639409	-	TP0418	-	galactokinase
418	 58.51	+1	446931..447494	+	187	15639410	-	TP0419	-	survival protein, putative
419	 58.77	+1	447475..447702	+	75	15639411	-	TP0420	-	hypothetical protein
420	 55.41	0	447836..449887	+	683	15639412	-	TP0421	-	hypothetical protein
421	 57.21	+1	449871..450896	+	341	15639413	-	TP0422	-	hypothetical protein
422	 55.64	0	450921..451727	+	268	15639414	-	TP0423	-	hypothetical protein
423	 56.65	0	451930..452628	+	232	15639415	-	TP0424	-	V-type ATP synthase subunit E
424	 60.15	+1	452606..452866	+	86	15639416	-	TP0425	-	hypothetical protein
425	 54.01	0	453008..454777	+	589	15639417	-	TP0426	-	V-type ATP synthase subunit A
426	 50.89	0	454781..456073	+	430	15639418	-	TP0427	-	V-type ATP synthase subunit B
427	 50.56	0	456085..456705	+	206	15639419	-	TP0428	-	V-type ATP synthase subunit D
428	 53.24	0	456702..458570	+	622	15639420	-	TP0429	-	V-type ATP synthase subunit I
429	 54.14	0	458607..459029	+	140	15639421	-	TP0430	-	V-type ATP synthase subunit K
430	 57.42	+1	459063..459884	+	273	15639422	-	TP0431	-	hypothetical protein
431	 56.70	0	459927..460478	+	183	15639423	-	TP0432	-	hypothetical protein
432	 58.50	+1	460533..461303	+	256	15639424	-	TP0433	-	hypothetical protein
433	 59.80	+1	461245..461928	+	227	15639425	-	TP0434	-	hypothetical protein
434	 55.84	0	462025..462495	-	156	15639426	-	TP0435	-	lipoprotein, 17 kDa (tpp17)
435	 59.10	+1	462626..463708	-	360	15639427	-	TP0436	-	hypothetical protein
436	 53.86	0	463674..464204	-	176	15639428	-	TP0437	-	hypothetical protein
437	 58.40	+1	464234..465043	+	269	15639429	-	TP0438	-	hypothetical protein
438	 54.39	0	465130..465642	+	170	15639430	-	TP0439	-	purine-binding chemotaxis protein (cheW-2)
439	 56.34	0	465732..466883	+	383	15639431	-	TP0440	-	spore coat polysaccharide biosynthesis protein, putative
440	 53.81	0	466880..467797	+	305	15639432	-	TP0441	-	hypothetical protein
441	 55.11	0	467790..469511	+	573	15639433	-	TP0442	-	DNA repair protein (recN)
442	 48.19	-1	469453..470307	+	284	15639434	-	TP0443	-	hypothetical protein
443	 55.59	0	470313..471341	+	342	15639435	-	TP0444	-	hypothetical protein
444	 59.52	+1	471477..472106	+	209	15639436	-	TP0445	-	4-methyl-5(b-hydroxyethyl)-thiazole monophosphate biosynthesis enzyme (thiJ)
445	 52.02	0	472148..473362	+	404	15639437	-	TP0446	-	gcpE protein (gcpE)
446	 50.58	0	473359..474483	+	374	15639438	-	TP0447	-	hypothetical protein
447	 44.78	-1	474541..475623	+	360	15639439	-	TP0448	-	uracil phosphoribosyltransferase, putative
448	 44.16	-2	475627..476217	+	196	15639440	-	TP0449	-	hypothetical protein
449	 49.42	0	476354..478405	+	683	15639441	-	TP0450	-	elongation factor G
450	 51.37	0	478394..478576	-	60	15639442	-	TP0451	-	hypothetical protein
451	 51.26	0	478421..478777	+	118	15640030	-	TP0451a	-	permease
452	 48.84	0	478855..482130	+	1091	15639443	ileS	TP0452	-	isoleucyl-tRNA synthetase
453	 46.30	-1	482117..482980	+	287	15639444	-	TP0453	-	hypothetical protein
454	 55.80	0	483330..484019	-	229	15639445	-	TP0454	-	hypothetical protein
455	 52.74	0	484016..485020	-	334	15639446	-	TP0455	-	hypothetical protein
456	 59.23	+1	485077..486393	-	438	15639447	-	TP0456	-	hypothetical protein
457	 58.02	+1	486461..488242	+	593	15639448	-	TP0457	-	hypothetical protein
458	 58.55	+1	488333..488911	+	192	15639449	-	TP0458	-	hypothetical protein
459	 59.67	+1	488940..489725	+	261	15639450	-	TP0459	-	hypothetical protein
460	 59.04	+1	489768..490475	+	235	15639451	-	TP0460	-	hypothetical protein
461	 57.78	+1	490476..490835	+	119	15639452	-	TP0461	-	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.