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
603	 50.00	0	657217..658092	-	291	15639594	rpsB	TP0606	-	30S ribosomal protein S2
604	 54.42	0	658061..658207	-	48	15639595	-	TP0607	-	hypothetical protein
605	 58.02	+1	658457..659347	-	296	15639596	-	TP0608	-	hypothetical protein
606	 59.29	+1	659665..661236	+	523	15639597	asnC	TP0609	-	asparaginyl-tRNA synthetase
607	 54.80	0	661246..663327	+	693	15639598	-	TP0610	-	TPR protein H (tprH)
608	 54.74	0	663469..664248	+	259	15639599	-	TP0611	-	ABC transporter, ATP-binding protein
609	 52.08	0	664329..665768	+	479	15639600	-	TP0612	-	hypothetical protein
610	 52.83	0	665795..666943	+	382	15639601	-	TP0613	-	hypothetical protein
611	 54.40	0	666940..668154	+	404	15639602	-	TP0614	-	nitrogen fixation protein (nifS-1)
612	 54.05	0	668205..668648	+	147	15639603	-	TP0615	-	nitrogen fixation protein (nifU)
613	 55.16	0	668669..669433	+	254	15639604	-	TP0616	-	ribose 5-phosphate isomerase (rpiA)
614	 59.14	+1	669460..669738	-	92	15639605	-	TP0617	-	hypothetical protein
615	 60.83	+1	669834..670193	-	119	15639606	-	TP0618	-	hypothetical protein
616	 60.76	+1	670249..671061	-	270	15639607	-	TP0619	-	hypothetical protein
617	 57.43	+1	671058..672887	-	609	15639608	-	TP0620	-	TPR protein I (tprI)
618	 56.43	0	672945..675221	-	758	15639609	-	TP0621	-	TPR protein J (tprJ)
619	 55.39	0	675281..677062	-	593	15639610	-	TP0622	-	hypothetical protein
620	 60.13	+1	676479..678818	+	779	15639611	-	TP0623	-	membrane-bound lytic murein transglycosylase D (dniR)
621	 55.00	0	678822..680252	+	476	15639612	-	TP0624	-	hypothetical protein
622	 49.27	0	680252..681004	+	250	15639613	-	TP0625	-	hypothetical protein
623	 49.15	0	681001..682176	+	391	15639614	-	TP0626	-	exonuclease, putative
624	 46.56	-1	682173..685316	+	1047	15639615	-	TP0627	-	exonuclease (sbcC)
625	 51.55	0	685313..686794	+	493	15639616	-	TP0628	-	nicotinate phosphoribosyltransferase
626	 56.36	0	686965..687789	+	274	15639617	-	TP0629	-	hypothetical protein
627	 49.78	0	687959..688870	+	303	15639618	-	TP0630	-	chemotaxis protein methyltransferase (cheR)
628	 53.38	0	688917..690128	+	403	15639619	-	TP0631	-	protein-glutamate methylesterase (cheB)
629	 56.61	0	690233..691246	+	337	15639620	-	TP0632	-	tryptophanyl-tRNA synthetase
630	 53.20	0	691387..692262	+	291	15639621	-	TP0633	-	bifunctional methionine sulfoxide reductase B/A protein
631	 51.17	0	692381..694852	+	823	15639622	-	TP0634	-	DNA ligase (lig)
632	 51.10	0	694887..695657	-	256	15639623	-	TP0636	-	hypothetical protein
633	 52.68	0	695695..696645	-	316	15639624	miaA	TP0637	-	tRNA delta(2)-isopentenylpyrophosphate transferase
634	 55.40	0	696869..697303	-	144	15639625	-	TP0638	-	hypothetical protein
635	 55.47	0	697723..699687	+	654	15639626	-	TP0639	-	methyl-accepting chemotaxis protein (mcp2-2)
636	 51.49	0	699711..701555	+	614	15639627	-	TP0640	-	methyl-accepting chemotaxis protein (mcp2-3)
637	 49.89	0	701573..702901	-	442	15639628	hisS	TP0641	-	histidyl-tRNA synthetase
638	 49.69	0	703042..704802	+	586	15639629	-	TP0642	-	phosphomannomutase (manB)
639	 46.60	-1	704799..705446	+	215	15639630	-	TP0643	-	DNA polymerase III, subunit epsilon (dnaQ)
640	 47.45	-1	705443..707029	-	528	15639631	lysK	TP0644	-	lysyl-tRNA synthetase
641	 55.37	0	707060..707236	-	58	15639632	-	TP0645	-	hypothetical protein
642	 49.96	0	707295..708617	-	440	15639633	-	TP0646	-	hypothetical protein
643	 49.41	0	708529..709809	-	426	15639634	-	TP0647	-	seryl-tRNA synthetase
644	 50.61	0	709859..711907	-	682	15639635	-	TP0648	-	hypothetical protein
645	 47.37	-1	711852..712649	-	265	15639636	-	TP0649	-	hemolysin (tlyC)
646	 49.69	0	712637..713119	-	160	15639637	-	TP0650	-	putative metalloprotease
647	 52.20	0	713125..715536	-	803	15639638	-	TP0651	-	hypothetical protein
648	 54.04	0	715712..716851	+	379	15639639	-	TP0652	-	spermidine/putrescine ABC transporter, ATP-binding protein (potA)
649	 55.11	0	716848..717747	+	299	15639640	-	TP0653	-	spermidine/putrescine ABC transporter, permease protein (potB)
650	 50.06	0	717740..718558	+	272	15639641	-	TP0654	-	spermidine/putrescine ABC transporter, permease protein (potC)
651	 47.56	-1	718594..719640	+	348	15639642	-	TP0655	-	spermidine/putrescine ABC transporter, periplasmic binding protein (potD)
652	 55.88	0	719609..719710	+	33	15639643	-	TP0656	-	hypothetical protein
653	 49.10	0	719695..719916	-	73	15639644	-	TP0657	-	carbon storage regulator (csrA)
654	 48.57	-1	719910..720362	-	150	15639645	-	TP0658	-	flagellar assembly protein FliW
655	 51.96	0	720381..721631	-	416	15639646	-	TP0659	-	flagellar hook-associated protein FlgL
656	 51.17	0	721665..723542	-	625	15639647	flgK	TP0660	-	flagellar hook-associated protein FlgK
657	 55.36	0	723648..724160	-	170	15639648	-	TP0661	-	hypothetical protein
658	 53.35	0	724283..725281	-	332	15639649	-	TP0662	-	fructose-bisphosphate aldolase
659	 54.73	0	725548..726276	+	242	15639650	-	TP0663	-	outer membrane protein, putative
660	 54.55	0	726273..726998	+	241	15639651	-	TP0664	-	flagellar filament outer layer protein (flaA-2)
661	 57.54	+1	727016..727771	-	251	15639652	-	TP0665	-	hypothetical protein
662	 53.74	0	727768..728061	-	97	15639653	-	TP0666	-	hypothetical protein
663	 50.24	0	728105..729772	-	555	15639654	-	TP0667	-	uridine kinase (udk)
664	 44.66	-1	730003..730611	-	202	15639655	-	TP0668	-	hypothetical protein
665	 44.38	-1	730608..734120	-	1170	15639656	dnaE	TP0669	-	DNA polymerase III subunit alpha
666	 54.41	0	734274..735464	-	396	15639657	-	TP0670	-	D-alanine--D-alanine ligase (ddlA)
667	 49.95	0	735466..736500	-	344	15639658	-	TP0671	-	sn-1,2-diacylglycerol cholinephosphotransferase, putative
668	 51.91	0	736531..737919	-	462	15639659	-	TP0672	-	glycyl-tRNA synthetase
669	 56.32	0	738054..739667	-	537	15639660	gltX	TP0673	-	glutamyl-tRNA synthetase
670	 63.38	+2	739845..740453	+	202	15639661	-	TP0674	-	hypothetical protein
671	 53.95	0	740459..741457	+	332	15639662	-	TP0675	-	hypothetical protein
672	 60.57	+1	741469..741747	-	92	15639663	-	TP0676	-	hypothetical protein
673	 58.95	+1	741769..742377	-	202	15639664	-	TP0677	-	hypothetical protein
674	 59.85	+1	742631..743554	+	307	15639665	-	TP0678	-	hypothetical protein
675	 52.83	0	743551..743868	+	105	15639666	-	TP0679	-	hypothetical protein
676	 52.88	0	743909..744967	-	352	15639667	-	TP0680	-	O-sialoglycoprotein endopeptidase
677	 56.52	0	745018..746091	-	357	15639668	-	TP0681	-	alanine racemase (alr)
678	 57.05	0	746180..746782	-	200	15639669	-	TP0682	-	cell division protein (ftsJ)
679	 53.88	0	746875..747969	+	364	15639670	-	TP0683	-	octaprenyl-diphosphate synthase
680	 54.62	0	748262..749473	+	403	15639671	-	TP0684	-	methylgalactoside ABC transporter, periplasmic galactose-binding protein (mglB-2)
681	 50.70	0	749593..751083	+	496	15639672	-	TP0685	-	methylgalactoside ABC transporter, ATP binding protein (mglA)
682	 51.94	0	751098..752693	+	531	15639673	-	TP0686	-	methylgalactoside ABC transporter, permease protein (mglC)
683	 42.50	-2	752821..754881	-	686	15639674	-	TP0687	-	DNA recombinase (recG)
684	 38.95	-2	754937..755950	-	337	15639675	-	TP0688	-	immunity protein (mccF)
685	 43.82	-2	755951..757333	-	460	15639676	engA	TP0689	-	GTP-binding protein EngA
686	 44.50	-1	757369..757950	-	193	15639677	-	TP0690	-	hypothetical protein
687	 46.77	-1	757943..758701	-	252	15639678	-	TP0691	-	hypothetical protein
688	 51.06	0	758729..759952	-	407	15639679	-	TP0692	-	recA protein (recA)
689	 56.69	0	760213..761535	-	440	15639680	-	TP0693	-	hypothetical protein
690	 58.55	+1	761695..762372	+	225	15639681	-	TP0694	-	5,10-methenyltetrahydrofolate synthetase, putative
691	 59.87	+1	762460..764253	+	597	15639682	-	TP0695	-	phosphoribosylglycinamide formyltransferase, putative
692	 54.48	0	764241..765077	-	278	15639683	-	TP0696	-	nicotinamidase, putative
693	 56.49	0	765139..765747	-	202	15639684	-	TP0697	-	hypothetical protein
694	 53.11	0	765778..766323	-	181	15639685	-	TP0698	-	hypothetical protein
695	 55.86	0	766320..766430	-	36	15639686	-	TP0699	-	hypothetical protein
696	 57.00	0	766436..766828	-	130	15639687	-	TP0700	-	hypothetical protein
697	 51.47	0	766966..767169	-	67	15639688	-	TP0701	-	DNA-directed RNA polymerase, putative
698	 60.34	+1	767339..767875	-	178	15639689	-	TP0702	-	hypothetical protein
699	 57.71	+1	767890..768570	-	226	15639690	-	TP0703	-	hypothetical protein
700	 53.23	0	768570..770690	-	706	15639691	-	TP0704	-	single-stranded-DNA-specific exonuclease (recJ)
701	 55.56	0	770833..773487	-	884	15639692	-	TP0705	-	penicillin-binding protein (pbp-2)
702	 56.42	0	773784..774710	-	308	15639693	-	TP0706	-	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.