IslandPathversion 1.0

IslandPath Analysis: Aliivibrio salmonicida LFI1238



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: 39.44 STD DEV: 3.11
Aliivibrio salmonicida LFI1238 chromosome 1, complete genome - 1..3325165
2820 proteins
Pos	%G+C	SD	Location	Strand	Length	PID	Gene	Synonym	Code	Product
2246	 41.85	0	2629731..2630423	-	230	209695880	phoB	VSAL_I2457	-	response regulator homolog PhoB (phosphate regulon transcriptional regulatory protein)
2247	 38.80	0	2630634..2631548	+	304	209695881	rdgC	VSAL_I2458	-	recombination associated protein RdgC
2248	 37.78	0	2632016..2632330	+	104	209695882	-	VSAL_I2460	-	transposase
2249	 35.92	-1	2632327..2632674	+	115	209695883	-	VSAL_I2461	-	transposase
2250	 42.44	0	2635822..2637117	+	431	209695884	-	VSAL_I2463	-	MFS transporter
2251	 41.00	0	2637189..2638205	+	338	209695885	-	VSAL_I2464	-	hypothetical protein
2252	 37.59	0	2638373..2639383	+	336	209695886	-	VSAL_I2465	-	HTH-type transcriptional regulator, LacI-family
2253	 43.27	+1	2639534..2640922	+	462	209695887	-	VSAL_I2466	-	peptidase
2254	 40.78	0	2640926..2641180	+	84	209695888	fdx	VSAL_I2467	-	ferredoxin
2255	 35.83	-1	2642123..2643004	+	293	209695889	-	VSAL_I2469	-	transposase
2256	 43.74	+1	2643549..2644691	-	380	209695890	dnaJ	VSAL_I2470	-	chaperone protein DnaJ
2257	 42.48	0	2645010..2646911	-	633	209695891	dnaK	VSAL_I2471	-	chaperone protein DnaK (heat shock protein 70)
2258	 39.66	0	2647163..2648110	-	315	209695892	-	VSAL_I2472	-	hypothetical protein
2259	 40.17	0	2648330..2648914	-	194	209695893	grpE	VSAL_I2473	-	protein GrpE (heat shock protein)
2260	 39.60	0	2649080..2649973	+	297	209695894	-	VSAL_I2474	-	probable inorganic polyphosphate/ATP-NAD kinase
2261	 38.99	0	2650071..2651768	+	565	209695895	recN	VSAL_I2475	-	DNA repair protein RecN
2262	 39.78	0	2652019..2652375	+	118	209695896	-	VSAL_I2476	-	lipoprotein, small protein A
2263	 37.41	0	2652463..2652756	-	97	209695897	-	VSAL_I2477	-	hypothetical protein
2264	 37.67	0	2652761..2653198	-	145	209695898	-	VSAL_I2478	-	hypothetical protein
2265	 40.74	0	2653300..2653785	+	161	209695899	smpB	VSAL_I2479	-	SsrA (tmRNA)-binding protein (small protein B)
2266	 37.92	0	2654415..2655656	+	413	209695900	int	VSAL_I2480	-	integrase, phage family
2267	 34.40	-1	2655827..2656576	-	249	209695901	-	VSAL_I2481	-	hypothetical protein, putative phage gene
2268	 31.08	-2	2656578..2659508	-	976	209695902	-	VSAL_I2482	-	putative ABC transporter, ATP-binding domain
2269	 37.78	0	2660814..2661128	+	104	209695903	-	VSAL_I2484	-	transposase
2270	 36.21	-1	2661125..2661472	+	115	209695904	-	VSAL_I2485	-	transposase
2271	 39.65	0	2661544..2663031	+	495	209695905	-	VSAL_I2486	-	transposase
2272	 36.21	-1	2665710..2666057	-	115	209695906	-	VSAL_I2488	-	transposase
2273	 38.14	0	2666054..2666365	-	103	209695907	-	VSAL_I2489	-	transposase
2274	 41.03	0	2666559..2667428	-	289	209695908	pdxY	VSAL_I2490	-	pyridoxamine kinase
2275	 39.74	0	2667505..2669643	-	712	209695909	cadA	VSAL_I2491	-	lysine decarboxylase
2276	 43.60	+1	2669762..2671096	-	444	209695910	cadB	VSAL_I2492	-	probable cadaverine/lysine antiporter
2277	 44.08	+1	2671757..2673226	+	489	209695911	-	VSAL_I2493	-	putative sodium/alanine symporter
2278	 38.55	0	2673304..2674932	-	542	209695912	-	VSAL_I2494	-	putative transcriptional regulator
2279	 41.25	0	2675480..2675896	+	138	209695913	-	VSAL_I2495	-	hypothetical protein
2280	 38.36	0	2675962..2676399	-	145	209695914	-	VSAL_I2496	-	integral membrane protein
2281	 42.62	+1	2676409..2676828	-	139	209695915	-	VSAL_I2497	-	integral membrane protein
2282	 39.52	0	2677139..2678059	+	306	209695916	-	VSAL_I2498	-	integral membrane protein
2283	 39.51	0	2678218..2679156	+	312	209695917	metA	VSAL_I2499	-	homoserine O-succinyltransferase
2284	 42.93	+1	2679390..2680733	+	447	209695918	dcuB	VSAL_I2500	-	anaerobic C4-dicarboxylate transporter DcuB
2285	 40.91	0	2680823..2682037	-	404	209695919	-	VSAL_I2501	-	nucleoside transport protein (nucleoside permease NupC)
2286	 38.32	0	2682466..2683026	+	186	209695920	-	VSAL_I2502	-	membrane protein
2287	 40.86	0	2683155..2684855	+	566	209695921	-	VSAL_I2503	-	putative transport system, permease protein
2288	 39.23	0	2684869..2685462	+	197	209695922	-	VSAL_I2504	-	putative ABC transporter, ATP-binding protein
2289	 35.89	-1	2685455..2686081	+	208	209695923	-	VSAL_I2505	-	putative phosphatidyltransferase
2290	 39.75	0	2686176..2687141	-	321	209695924	rpoS	VSAL_I2506	-	RNA polymerase sigma subunit RpoS (sigma-38)
2291	 41.39	0	2687197..2688189	-	330	209695925	-	VSAL_I2507	-	lipoprotein
2292	 42.58	+1	2688196..2688822	-	208	209695926	pcm	VSAL_I2508	-	protein-L-isoaspartate O-methyltransferase
2293	 40.52	0	2688822..2689586	-	254	209695927	surE	VSAL_I2509	-	multifunctional protein SurE (stationary-phase survival protein SurE)
2294	 39.92	0	2689617..2690663	-	348	209695928	truD	VSAL_I2510	-	tRNA pseudouridine synthase D
2295	 42.92	+1	2690678..2691157	-	159	209695929	ispF	VSAL_I2511	-	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
2296	 41.53	0	2691154..2691873	-	239	209695930	ispD	VSAL_I2512	-	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
2297	 38.60	0	2691877..2692161	-	94	209695931	ftsB	VSAL_I2513	-	cell division protein FtsB homolog
2298	 44.42	+1	2692343..2693641	-	432	209695932	eno	VSAL_I2514	-	enolase
2299	 42.54	0	2693718..2695358	-	546	209695933	pyrG	VSAL_I2515	-	CTP synthase
2300	 36.48	0	2695489..2696313	-	274	209695934	-	VSAL_I2516	-	hypothetical protein
2301	 39.64	0	2696413..2697570	-	385	209695935	flaF	VSAL_I2517	-	flagellin subunit F
2302	 41.78	0	2697759..2699996	-	745	209695936	relA	VSAL_I2518	-	GTP pyrophosphokinase
2303	 38.42	0	2700070..2701386	-	438	209695937	rumA	VSAL_I2519	-	23S rRNA (uracil-5-)-methyltransferase RumA
2304	 38.92	0	2701550..2704339	+	929	209695938	varS	VSAL_I2520	-	response regulator, histidine kinase VarS
2305	 43.57	+1	2704391..2704771	-	126	209695939	acpS	VSAL_I2521	-	holo-[acyl-carrier protein] synthase
2306	 42.49	0	2704771..2705502	-	243	209695940	pdxJ	VSAL_I2522	-	pyridoxal phosphate biosynthetic protein PdxJ
2307	 41.70	0	2705499..2706215	-	238	209695941	recO	VSAL_I2523	-	DNA repair protein RecO (recombination protein O)
2308	 39.34	0	2706343..2707308	-	321	209695942	era	VSAL_I2524	-	GTP-binding protein era
2309	 41.52	0	2707308..2707979	-	223	209695943	rnc	VSAL_I2525	-	ribonuclease III (RNase III)
2310	 41.42	0	2707990..2708892	-	300	209695944	lepB	VSAL_I2526	-	signal peptidase I (leader peptidase I)
2311	 40.41	0	2709013..2710806	-	597	209695945	lepA	VSAL_I2527	-	GTP-binding protein LepA
2312	 37.65	0	2710896..2711381	-	161	209695946	-	VSAL_I2528	-	sigma-E factor regulatory protein RseC
2313	 39.88	0	2711386..2712363	-	325	209695947	-	VSAL_I2529	-	sigma-E factor regulatory protein RseB precursor
2314	 40.29	0	2712364..2712981	-	205	209695948	-	VSAL_I2530	-	sigma-E factor negative regulatory protein
2315	 41.28	0	2713011..2713589	-	192	209695949	rpoE	VSAL_I2531	-	RNA polymerase sigma-E factor
2316	 42.30	0	2713911..2715527	+	538	209695950	nadB	VSAL_I2532	-	L-aspartate oxidase (quinolinate synthetase B)
2317	 34.41	-1	2715627..2715998	-	123	209695951	-	VSAL_I2533	-	hypothetical protein
2318	 39.85	0	2715994..2716254	-	86	209695952	-	VSAL_I2534	-	hypothetical protein
2319	 39.29	0	2716433..2717389	+	318	209695953	-	VSAL_I2535	-	hypothetical protein
2320	 38.24	0	2717851..2718054	+	67	209695954	-	VSAL_I2536	-	hypothetical protein
2321	 40.05	0	2718141..2719346	-	401	209695955	-	VSAL_I2537	-	putative monooxygenase
2322	 40.25	0	2719349..2720548	-	399	209695956	ubiH	VSAL_I2538	-	2-octaprenyl-6-methoxyphenol hydroxylase
2323	 40.00	0	2720548..2721117	-	189	209695957	-	VSAL_I2539	-	hypothetical protein
2324	 38.60	0	2721355..2721696	+	113	209695958	-	VSAL_I2540	-	putative cell division protein ZapA
2325	 39.86	0	2721911..2722492	+	193	209695959	-	VSAL_I2541	-	putative 5-formyltetrahydrofolate cyclo-ligase
2326	 41.25	0	2722637..2723293	+	218	209695960	rpiA	VSAL_I2542	-	ribose-5-phosphate isomerase A (phosphoriboisomerase A)
2327	 35.94	-1	2723481..2724362	+	293	209695961	-	VSAL_I2543	-	transposase
2328	 40.89	0	2724503..2725732	+	409	209695962	serA	VSAL_I2544	-	D-3-phosphoglycerate dehydrogenase
2329	 37.07	0	2725835..2726530	-	231	209695963	-	VSAL_I2545	-	hypothetical protein
2330	 38.91	0	2726695..2727555	-	286	209695964	mscS	VSAL_I2546	-	small-conductance mechanosensitive channel
2331	 36.03	-1	2727812..2728591	-	259	209695965	-	VSAL_I2547	-	hypothetical protein
2332	 41.07	0	2728705..2730138	-	477	209695966	-	VSAL_I2548	-	putative amino-acid transporter
2333	 38.62	0	2730866..2731054	+	62	209695967	-	VSAL_I2549	-	hypothetical protein
2334	 34.84	-1	2731097..2731627	-	176	209695968	-	VSAL_I2550	-	putative hemerythrin
2335	 37.93	0	2731716..2732390	-	224	209695969	ung	VSAL_I2551	-	uracil-DNA glycosylase (UDG)
2336	 40.28	0	2732391..2733239	-	282	209695970	nfo	VSAL_I2552	-	endonuclease IV
2337	 40.74	0	2733601..2733978	+	125	209695971	grcA	VSAL_I2553	-	autonomous glycyl radical cofactor
2338	 39.02	0	2734134..2735417	-	427	209695972	thrC	VSAL_I2554	-	threonine synthase
2339	 40.54	0	2735414..2736370	-	318	209695973	thrB	VSAL_I2555	-	homoserine kinase
2340	 40.20	0	2736372..2738831	-	819	209695974	thrA	VSAL_I2556	-	bifunctional aspartokinase/homoserine dehydrogenase I
2341	 40.25	0	2739226..2739702	-	158	209695975	-	VSAL_I2557	-	demethylmenaquinone methyltransferase
2342	 40.69	0	2740146..2740865	+	239	209695976	arcA	VSAL_I2558	-	response regulator, aerobic respiration control protein ArcA
2343	 37.81	0	2740940..2741386	-	148	209695977	-	VSAL_I2559	-	putative lipoprotein
2344	 36.71	0	2741396..2743762	-	788	209695978	arcB	VSAL_I2560	-	response regulator, aerobic respiration control sensor protein ArcB
2345	 41.42	0	2745319..2749866	+	1515	209695979	gltB	VSAL_I2562	-	glutamate synthase, large subunit
39.44	MEAN

3.11	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.