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
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)
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
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.