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
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
569	 55.56	0	620391..621056	-	221	15639560	-	TP0571	-	Tp70 protein
570	 56.23	0	621074..622156	-	360	15639561	-	TP0572	-	hypothetical protein
571	 44.09	-2	622147..622239	+	30	15639562	-	TP0573	-	hypothetical protein
572	 54.02	0	622266..623570	-	434	15639563	-	TP0574	-	carboxypeptidase, 47 kDa
573	 56.01	0	625802..626908	+	368	15639564	-	TP0576	-	peptide chain release factor 2 (prfB)
574	 56.04	0	626800..628644	+	614	15639565	-	TP0577	-	hypothetical protein
575	 54.39	0	628651..629538	+	295	15639566	-	TP0578	-	cell division protein (ftsY)
576	 52.77	0	629535..630311	+	258	15639567	-	TP0579	-	hypothetical protein
577	 46.90	-1	630304..631593	+	429	15639568	-	TP0580	-	hypothetical protein
578	 46.70	-1	631586..632266	+	226	15639569	-	TP0581	-	ABC transporter, ATP-binding protein
579	 50.81	0	632263..633750	+	495	15639570	-	TP0582	-	hypothetical protein
580	 53.17	0	633734..633859	-	41	15639571	-	TP0583	-	hypothetical protein
581	 48.72	0	633846..635255	+	469	15639572	-	TP0584	-	hypothetical protein
582	 54.50	0	635248..636891	+	547	15639573	-	TP0585	-	oligopeptide ABC transporter, periplasmic binding protein (oppA)
583	 53.55	0	636980..639616	+	878	15639574	leuS	TP0586	-	leucyl-tRNA synthetase
584	 54.55	0	639596..639826	-	76	15639575	-	TP0587	-	hypothetical protein
585	 48.24	-1	639853..640617	-	254	15639576	-	TP0588	-	hypothetical protein
586	 49.81	0	640705..640971	-	88	15639577	-	TP0589	-	phosphocarrier protein HPr (ptsH)
587	 49.57	0	640943..641059	-	38	15639578	-	TP0590	-	ribosomal protein L36 (rpmJ-2)
588	 48.08	-1	641016..642005	-	329	161579585	-	TP0591	-	HPr kinase/phosphorylase
589	 52.10	0	642738..644240	+	500	15639580	-	TP0592	-	hypothetical protein
590	 55.11	0	644177..646210	+	677	15639581	-	TP0593	-	hypothetical protein
591	 52.05	0	646297..646905	-	202	15639582	-	TP0594	-	hypothetical protein
592	 52.04	0	646933..647568	-	211	15639583	-	TP0595	-	adenylate kinase (adk)
593	 56.33	0	647592..648704	-	370	15639584	-	TP0596	-	polynucleotide adenylyltransferase (pcnB)
594	 48.75	0	648812..649090	-	92	15639585	-	TP0597	-	hypothetical protein
595	 51.05	0	649054..650871	-	605	15639586	-	TP0598	-	hypothetical protein
596	 48.10	-1	650908..651564	-	218	15639587	-	TP0599	-	hypothetical protein
597	 48.26	-1	651571..652923	-	450	15639588	-	TP0600	-	zinc protease, putative
598	 52.52	0	652920..654071	-	383	15639589	-	TP0601	-	1-deoxy-D-xylulose 5-phosphate reductoisomerase
599	 48.50	-1	654047..654910	-	287	15639590	-	TP0602	-	phosphatidate cytidylyltransferase (cdsA)
600	 52.98	0	654907..655593	-	228	15639591	-	TP0603	-	hypothetical protein
601	 52.90	0	655599..656150	-	183	15639592	-	TP0604	-	ribosome recycling factor
602	 55.90	0	656254..657126	-	290	15639593	tsf	TP0605	-	elongation factor Ts
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)
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.