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
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
462	 56.11	0	491040..491882	+	280	15639453	-	TP0462	-	hypothetical protein
463	 56.76	0	491887..492219	+	110	15639454	-	TP0463	-	hypothetical protein
464	 61.62	+2	492278..493030	-	250	15639455	-	TP0464	-	hypothetical protein
465	 55.44	0	493027..493899	-	290	15639456	-	TP0465	-	hypothetical protein
466	 45.73	-1	493832..495001	-	389	15639457	-	TP0466	-	hypothetical protein
467	 53.01	0	494992..495240	+	82	15639458	-	TP0467	-	hypothetical protein
468	 56.87	0	495210..495740	-	176	15639459	-	TP0468	-	hypothetical protein
469	 57.65	+1	495698..497161	-	487	15639460	-	TP0469	-	hypothetical protein
470	 62.52	+2	497154..498263	-	369	15639461	-	TP0470	-	hypothetical protein
471	 53.62	0	498255..499664	+	469	15639462	-	TP0471	-	hypothetical protein
472	 50.72	0	499677..501752	-	691	15639463	-	TP0472	-	excinuclease ABC, subunit C (uvrC)
473	 48.84	0	501827..502471	-	214	15639464	-	TP0473	-	hypothetical protein
474	 52.17	0	502536..503273	-	245	15639465	-	TP0474	-	hypothetical protein
475	 53.73	0	503414..505021	-	535	15639466	pgi	TP0475	-	glucose-6-phosphate isomerase
476	 52.41	0	505085..506431	-	448	15639467	-	TP0476	-	acetate kinase (ack)
477	 56.34	0	506498..507223	-	241	15639468	-	TP0477	-	glucose-6-phosphate 1-dehydrogenase, putative
478	 55.56	0	507284..508831	-	515	15639469	-	TP0478	-	glucose-6-phosphate 1-dehydrogenase
479	 56.30	0	508904..509578	-	224	15639470	-	TP0479	-	hypothetical protein
480	 56.44	0	509690..510178	+	162	15639471	-	TP0480	-	hypothetical protein
481	 56.97	0	510210..511643	+	477	15639472	-	TP0481	-	hypothetical protein
482	 60.31	+1	511610..512458	+	282	15639473	-	TP0482	-	hypothetical protein
483	 52.44	0	512524..513648	-	374	15639474	-	TP0483	-	hypothetical protein
484	 55.06	0	513635..515650	-	671	15639475	-	TP0484	-	hypothetical protein
485	 52.36	0	515544..517388	-	614	15639476	-	TP0485	-	adenylate cyclase
486	 60.34	+1	517526..518980	-	484	15639477	-	TP0486	-	antigen, p83/100
487	 59.76	+1	519069..520646	-	525	15639478	-	TP0487	-	hypothetical protein
488	 54.77	0	520874..523411	+	845	15639479	-	TP0488	-	methyl-accepting chemotaxis protein (mcp2-1)
489	 48.50	-1	523859..524827	+	322	15639480	-	TP0489	-	hypothetical protein
490	 55.03	0	524824..525012	+	62	15639481	-	TP0490	-	hypothetical protein
491	 52.08	0	525019..526053	+	344	15639482	-	TP0491	-	hypothetical protein
492	 51.05	0	526077..527894	+	605	15639483	-	TP0492	-	DNA primase (dnaG)
493	 49.02	0	527891..529726	+	611	15639484	-	TP0493	-	RNA polymerase sigma factor RpoD
494	 52.07	0	529736..530557	+	273	15639485	-	TP0494	-	hypothetical protein
495	 54.67	0	530646..530795	-	49	15639486	-	TP0495	-	hypothetical protein
496	 53.33	0	530887..531876	+	329	15639487	-	TP0496	-	hypothetical protein
497	 50.82	0	531889..532923	+	344	15639488	-	TP0497	-	rod shape-determining protein (mreB)
498	 48.15	-1	532928..533791	+	287	15639489	-	TP0498	-	rod shape-determining protein (mreC)
499	 43.20	-2	533788..534294	+	168	15639490	-	TP0499	-	rod shape-determining protein (mreD)
500	 48.43	-1	534295..536169	+	624	15639491	-	TP0500	-	penicillin-binding protein (pbp-1)
501	 46.77	-1	536166..537467	+	433	15639492	-	TP0501	-	rod shape-determining protein (rodA)
502	 50.61	0	537493..538389	+	298	15639493	-	TP0502	-	hypothetical protein
503	 53.90	0	538368..538931	+	187	15639494	-	TP0503	-	hypothetical protein
504	 60.28	+1	538913..539053	+	46	15639495	-	TP0504	-	hypothetical protein
505	 53.63	0	539062..540396	-	444	15639496	-	TP0505	-	hexokinase (hxk)
506	 54.25	0	541131..542459	+	442	15639497	tig	TP0506	-	trigger factor
507	 52.94	0	542452..543063	+	203	15639498	-	TP0507	-	ATP-dependent Clp protease proteolytic component (clpP-1)
508	 48.56	-1	543050..544297	+	415	15639499	clpX	TP0508	-	ATP-dependent protease ATP-binding subunit
509	 51.32	0	544394..544960	+	188	15639500	-	TP0509	-	alkyl hydroperoxide reductase (ahpC)
510	 52.20	0	545141..546958	-	605	15639501	-	TP0510	-	GTP-binding protein LepA
511	 49.76	0	547001..547627	+	208	15639502	-	TP0511	-	transcription factor (carD)
512	 57.08	0	547672..548871	+	399	15639503	-	TP0512	-	hypothetical protein
513	 50.96	0	548945..550345	+	466	15639504	trkA	TP0513	-	potassium transporter peripheral membrane component
514	 47.31	-1	550459..553341	+	960	15639505	-	TP0514	-	excinuclease ABC, subunit A (uvrA)
515	 42.14	-2	553338..556313	+	991	15639506	-	TP0515	-	hypothetical protein
516	 41.87	-2	556327..557907	-	526	15639507	-	TP0516	-	virulence factor (mviN)
517	 46.87	-1	557904..558494	-	196	15639508	-	TP0517	-	Holliday junction nuclease (ruvC)
518	 49.21	0	558476..559168	-	230	15639509	-	TP0518	-	hypothetical protein
519	 42.99	-2	559165..560541	-	458	15639510	-	TP0519	-	response regulatory protein (atoC)
520	 49.53	0	561736..563007	-	423	15639511	-	TP0521	-	DNA polymerase III, gamma and tau subunits, putative
521	 45.62	-1	563018..563497	-	159	15639512	-	TP0522	-	hypothetical protein
522	 52.90	0	563494..564648	-	384	15639513	-	TP0523	-	UDP-N-glucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase (murG)
523	 52.04	0	564652..567297	-	881	15639514	-	TP0524	-	ATP-dependent protease LA (lon-2)
524	 49.82	0	567433..567996	+	187	15639515	-	TP0525	-	translation elongation factor P (efp)
525	 49.48	0	568144..570150	+	668	15639516	-	TP0526	-	ATP-dependent helicase (hrpA)
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.