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
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)
526	 52.70	0	570198..570827	-	209	15639517	-	TP0527	-	V-type ATPase, subunit D (atpD-2)
527	 51.98	0	570922..572364	-	480	15639518	-	TP0528	-	V-type ATP synthase subunit B
528	 54.62	0	572361..574178	-	605	15639519	-	TP0529	-	V-type ATP synthase subunit A
529	 55.50	0	574175..574801	-	208	15639520	-	TP0530	-	V-type ATPase, subunit E, putative
530	 57.23	+1	574807..575145	-	112	15639521	-	TP0531	-	V-type ATPase, subunit F, putative
531	 53.41	0	575765..577129	-	454	15639522	-	TP0533	-	V-type ATPase, subunit I (atpI-2)
532	 54.87	0	577122..578147	-	341	15639523	-	TP0534	-	hypothetical protein
533	 60.09	+1	578151..578363	-	70	15639524	-	TP0535	-	hypothetical protein
534	 57.96	+1	578504..578905	-	133	15639525	secG	TP0536	-	preprotein translocase subunit SecG
535	 56.27	0	579055..579804	-	249	15639526	-	TP0537	-	triosephosphate isomerase (tpi)
536	 53.97	0	579955..581214	-	419	15639527	pgk	TP0538	-	phosphoglycerate kinase
537	 51.35	0	581186..581407	+	73	15639528	-	TP0539	-	hypothetical protein
538	 50.27	0	581688..582059	+	123	15639529	-	TP0540	-	anti-sigma F factor antagonist (SpoIIAA-2)
539	 55.10	0	582189..583148	+	319	15639530	era	TP0541	-	GTP-binding protein Era
540	 53.08	0	583145..584866	-	573	15639531	-	TP0542	-	diphosphate--fructose-6-phosphate 1-phosphotransferase
541	 52.05	0	584926..585609	-	227	15639532	-	TP0543	-	Holliday junction DNA helicase (ruvA)
542	 50.94	0	585651..587519	-	622	15639533	-	TP0544	-	hypothetical protein
543	 51.17	0	587544..588608	-	354	15639534	-	TP0545	-	methylgalactoside ABC transporter, periplasmic galactose-binding protein (mglB-1)
544	 55.17	0	588693..590693	-	666	15639535	-	TP0546	-	periplasmic serine protease, putative
545	 64.19	+2	590405..591535	-	376	15639536	-	TP0547	-	penicillin tolerance protein (lytB)
546	 57.62	+1	591679..592983	+	434	15639537	-	TP0548	-	hypothetical protein
547	 55.26	0	593081..595525	+	814	15639538	-	TP0549	-	ATPase (clpC)
548	 56.18	0	595566..597053	-	495	15639539	trmE	TP0550	-	tRNA modification GTPase TrmE
549	 57.12	0	597057..598145	-	362	15639540	-	TP0551	-	phosphatase
550	 57.12	0	598158..598691	-	177	15639541	-	TP0552	-	hypothetical protein
551	 47.69	-1	598935..600146	+	403	15639542	-	TP0553	-	hypothetical protein
552	 54.56	0	600181..600849	+	222	15639543	-	TP0554	-	phosphoglycolate phosphatase (gph-2)
553	 54.49	0	600913..602103	-	396	15639544	-	TP0555	-	glutamate/ aspartate transporter, putative
554	 53.98	0	602326..603318	-	330	15639545	-	TP0556	-	asparagine synthetase AsnA
555	 51.82	0	603423..604136	+	237	15639546	-	TP0557	-	hypothetical protein
556	 56.44	0	604166..605074	+	302	15639547	-	TP0558	-	hypothetical protein
557	 55.39	0	605136..606341	+	401	15639548	-	TP0559	-	hypothetical protein
558	 54.78	0	606394..608379	-	661	15639549	-	TP0560	-	transketolase A (tktA)
559	 59.39	+1	608490..609341	-	283	15639550	-	TP0561	-	hypothetical protein
560	 57.08	0	609512..610648	+	378	15639551	-	TP0562	-	spore coat polysaccharide biosynthesis protein (spsE)
561	 55.80	0	610639..611052	+	137	15639552	-	TP0563	-	hypothetical protein
562	 51.69	0	611049..613085	+	678	15639553	-	TP0564	-	hypothetical protein
563	 50.29	0	612967..614187	-	406	15639554	-	TP0565	-	hypothetical protein
564	 45.50	-1	614198..615685	-	495	15639555	-	TP0566	-	alginate O-acetylation protein (algI)
565	 50.24	0	615717..616337	-	206	15639556	-	TP0567	-	hypothetical protein
566	 54.98	0	616416..617048	-	210	15639557	-	TP0568	-	4-hydroxy-2-oxoglutarate aldolase/2-dehydro-3-deoxyphosphogluconate aldolase (eda)
567	 56.47	0	617170..619494	-	774	15639558	-	TP0569	-	aminopeptidase P
568	 56.03	0	619519..620364	-	281	15639559	-	TP0570	-	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.