IslandPath Analysis: Pseudomonas mendocina ymp



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: 64.78   STD DEV: 4.15
Pseudomonas mendocina ymp, complete genome - 1..5072807
4594 proteins
Pos	%G+C	SD	Location	Strand	Length	PID	Gene	Synonym	Code	Product
1	 62.76	0	82..1566	+	494	146305043	dnaA	Pmen_0001	-	chromosomal replication initiation protein
2	 62.68	0	1601..2704	+	367	146305044	-	Pmen_0002	-	DNA polymerase III subunit beta
3	 60.96	0	2712..3815	+	367	146305045	recF	Pmen_0003	-	recombination protein F
4	 60.18	-1	3820..6240	+	806	146305046	gyrB	Pmen_0004	-	DNA gyrase subunit B
5	 63.67	0	6506..7438	-	310	146305047	-	Pmen_0005	-	phosphatidate cytidylyltransferase
6	 67.31	0	7440..8063	-	207	146305048	-	Pmen_0006	-	phospholipid/glycerol acyltransferase
7	 65.75	0	8073..8507	-	144	146305049	-	Pmen_0007	-	hypothetical protein
8	 67.79	0	8497..9834	-	445	146305050	-	Pmen_0008	-	dual specificity protein phosphatase
9	 67.92	0	9834..11588	-	584	146305051	-	Pmen_0009	-	alpha/beta hydrolase fold
10	 66.67	0	11614..12219	-	201	146305052	-	Pmen_0010	-	CDP-alcohol phosphatidyltransferase
11	 63.80	0	12430..13197	-	255	146305053	-	Pmen_0011	-	phospholipid/glycerol acyltransferase
12	 64.41	0	13211..13741	-	176	146305054	-	Pmen_0012	-	D,D-heptose 1,7-bisphosphate phosphatase
13	 68.47	0	13811..15865	-	684	146305055	glyS	Pmen_0013	-	glycyl-tRNA synthetase subunit beta
14	 64.77	0	15862..16809	-	315	146305056	glyQ	Pmen_0014	-	glycyl-tRNA synthetase subunit alpha
15	 65.43	0	17057..17623	+	188	146305057	-	Pmen_0015	-	DNA-3-methyladenine glycosylase I
16	 64.08	0	17717..18604	+	295	162286125	-	Pmen_0016	-	lipid A biosynthesis lauroyl acyltransferase
17	 62.92	0	18721..18987	+	88	146305059	-	Pmen_0017	-	type IV pilus assembly PilZ
18	 61.90	0	19365..19931	+	188	146305060	-	Pmen_0018	-	NLP/P60 protein
19	 60.73	0	20108..20545	+	145	146305061	-	Pmen_0019	-	TIR chaperone family protein
20	 63.84	0	20545..22776	+	743	146305062	-	Pmen_0020	-	hypothetical protein
21	 60.68	0	22972..23322	-	116	146305063	-	Pmen_0021	-	hypothetical protein
22	 62.25	0	23325..23528	-	67	146305064	-	Pmen_0022	-	hypothetical protein
23	 62.08	0	23528..25618	-	696	146305065	-	Pmen_0023	-	YscC/HrcC family type III secretion outer membrane protein
24	 64.32	0	25620..26045	-	141	146305066	-	Pmen_0024	-	hypothetical protein
25	 59.56	-1	26032..26256	-	74	146305067	-	Pmen_0025	-	hypothetical protein
26	 63.27	0	26417..27004	-	195	146305068	-	Pmen_0026	-	HrpE/YscL family type III secretion apparatus protein
27	 68.54	0	26994..27527	-	177	146305069	-	Pmen_0027	-	hypothetical protein
28	 61.90	0	27524..28342	-	272	146305070	-	Pmen_0028	-	YscJ/HrcJ family type III secretion apparatus lipoprotein
29	 57.72	-1	28353..28721	-	122	146305071	-	Pmen_0029	-	YscI/HrpB family type III secretion apparatus protein
30	 61.78	0	28765..29664	-	299	146305072	-	Pmen_0030	-	HrpZ family protein
31	 58.16	-1	29716..30009	-	97	146305073	-	Pmen_0031	-	hypothetical protein
32	 59.05	-1	30305..31210	-	301	146305074	-	Pmen_0032	-	sigma-54 dependent trancsriptional regulator
33	 58.82	-1	31594..32523	-	309	146305075	-	Pmen_0033	-	sigma-54 dependent trancsriptional regulator
34	 52.20	-2	32882..33268	-	128	146305076	-	Pmen_0034	-	hypothetical protein
35	 63.94	0	33458..35032	-	524	146305077	-	Pmen_0036	-	transposase IS66
36	 59.44	-1	35052..35411	-	119	146305078	-	Pmen_0037	-	IS66 Orf2 family protein
37	 62.26	0	36171..37328	+	385	146305079	-	Pmen_0038	-	TyeA family type III secretion effector delivery regulator
38	 61.97	0	37328..39412	+	694	146305080	-	Pmen_0039	-	HrcV family type III secretion protein
39	 64.37	0	39429..40343	+	304	146305081	-	Pmen_0040	-	YscD/HrpQ family type III secretion apparatus protein
40	 65.05	0	40340..41698	+	452	146305082	-	Pmen_0041	-	FliI/YscN family ATPase
41	 63.53	0	41701..42147	+	148	146305083	-	Pmen_0042	-	hypothetical protein
42	 63.69	0	42137..42673	+	178	146305084	-	Pmen_0043	-	hypothetical protein
43	 64.71	0	42670..43386	+	238	146305085	-	Pmen_0044	-	hypothetical protein
44	 62.44	0	43376..43777	+	133	146305086	-	Pmen_0045	-	surface presentation of antigens (SPOA) protein
45	 58.26	-1	43774..44427	+	217	146305087	-	Pmen_0046	-	type III secretion system protein
46	 60.23	-1	44435..44698	+	87	146305088	-	Pmen_0047	-	HrpO family type III secretion protein
47	 61.55	0	44699..45499	+	266	146305089	-	Pmen_0048	-	type III secretion protein SpaR/YscT/HrcT
48	 58.98	-1	45496..46575	+	359	146305090	-	Pmen_0049	-	YscU/HrpY family type III secretion protein
49	 64.21	0	46762..47412	+	216	146305091	-	Pmen_0050	-	hypothetical protein
50	 65.71	0	47452..47766	-	104	146305092	-	Pmen_0051	-	TPR repeat-containing protein
51	 65.72	0	47855..49228	-	457	146305093	trkA	Pmen_0052	-	potassium transporter peripheral membrane component
52	 68.34	0	49240..50553	-	437	146305094	-	Pmen_0053	-	sun protein
53	 68.78	0	50550..51494	-	314	146305095	fmt	Pmen_0054	-	methionyl-tRNA formyltransferase
54	 58.38	-1	51547..52053	-	168	146305096	def	Pmen_0055	-	peptide deformylase
55	 63.39	0	52207..53244	+	345	146305097	-	Pmen_0056	-	peptidoglycan-binding LysM
56	 70.37	+1	53331..54437	+	368	146305098	-	Pmen_0057	-	DNA protecting protein DprA
57	 68.28	0	54504..55061	+	185	146305099	-	Pmen_0058	-	SUA5/yciO/yrdC domain-containing protein
58	 68.71	0	55173..56150	-	325	146305100	-	Pmen_0059	-	alcohol dehydrogenase
59	 66.67	0	56295..57209	+	304	146305101	-	Pmen_0060	-	coproporphyrinogen III oxidase
60	 69.46	+1	57317..58138	+	273	146305102	aroE	Pmen_0061	-	shikimate 5-dehydrogenase
61	 69.10	+1	58342..59982	-	546	146305103	-	Pmen_0062	-	sulphate transporter
62	 65.36	0	60029..60949	-	306	146305104	-	Pmen_0063	-	substrate-binding region of ABC-type glycine betaine transport system
63	 67.13	0	60993..62501	-	502	146305105	-	Pmen_0064	-	sulfatase
64	 68.03	0	62616..63569	+	317	146305106	-	Pmen_0065	-	LysR family transcriptional regulator
65	 64.78	0	63685..64587	+	300	146305107	pbpG	Pmen_0066	-	D-alanyl-D-alanine endopeptidase
66	 66.67	0	64684..65592	-	302	146305108	-	Pmen_0067	-	LysR family transcriptional regulator
67	 67.41	0	65802..66605	+	267	146305109	-	Pmen_0068	-	aldo/keto reductase
68	 71.37	+1	66677..67420	-	247	146305110	-	Pmen_0069	-	short-chain dehydrogenase/reductase SDR
69	 69.01	+1	67576..68385	-	269	146305111	trpA	Pmen_0070	-	tryptophan synthase subunit alpha
70	 65.13	0	68382..69617	-	411	146305112	-	Pmen_0071	-	tryptophan synthase subunit beta
71	 56.65	-1	69732..70400	+	222	146305113	-	Pmen_0072	-	hypothetical protein
72	 71.27	+1	70405..71316	+	303	146305114	-	Pmen_0073	-	LysR family transcriptional regulator
73	 60.83	0	71370..71609	+	79	146305115	-	Pmen_0074	-	hypothetical protein
74	 57.41	-1	71708..71923	+	71	146305116	-	Pmen_0075	-	hypothetical protein
75	 66.46	0	71892..72869	-	325	146305117	-	Pmen_0076	-	NAD-dependent epimerase/dehydratase
76	 64.26	0	73153..73734	+	193	146305118	-	Pmen_0077	-	hypothetical protein
77	 67.97	0	73972..75201	-	409	146305119	-	Pmen_0078	-	nucleoside recognition domain-containing protein
78	 65.58	0	75366..75827	-	153	146305120	-	Pmen_0079	-	hypothetical protein
79	 57.58	-1	75838..76002	-	54	146305121	-	Pmen_0080	-	hypothetical protein
80	 66.30	0	76022..76294	-	90	146305122	-	Pmen_0081	-	hypothetical protein
81	 64.18	0	76571..76972	+	133	146305123	-	Pmen_0082	-	thioesterase superfamily protein
82	 63.82	0	77048..77680	-	210	146305124	-	Pmen_0083	-	two component LuxR family transcriptional regulator
83	 64.15	0	77721..79070	-	449	146305125	-	Pmen_0084	-	integral membrane sensor signal transduction histidine kinase
84	 64.67	0	79640..80740	-	366	146305126	-	Pmen_0085	-	TRAP dicarboxylate transporter- DctP subunit
85	 63.17	0	80925..81467	+	180	146305127	-	Pmen_0086	-	tripartite ATP-independent periplasmic transporter DctQ
86	 65.00	0	81460..82836	+	458	146305128	-	Pmen_0087	-	TRAP dicarboxylate transporter, DctM subunit
87	 66.67	0	82941..83843	+	300	146305129	-	Pmen_0088	-	aldose 1-epimerase
88	 67.43	0	84279..85841	+	520	146305130	-	Pmen_0089	-	ImpA domain-containing protein
89	 62.33	0	85896..86402	+	168	146305131	-	Pmen_0090	-	hypothetical protein
90	 62.47	0	86428..87906	+	492	146305132	-	Pmen_0091	-	hypothetical protein
91	 65.27	0	87913..88341	+	142	146305133	-	Pmen_0092	-	GPW/gp25 family protein
92	 60.58	-1	88331..89776	+	481	146305134	-	Pmen_0093	-	hypothetical protein
93	 52.71	-2	89769..90155	+	128	146305135	-	Pmen_0094	-	hypothetical protein
94	 65.66	0	90186..91976	+	596	146305136	-	Pmen_0095	-	hypothetical protein
95	 66.87	0	91940..92947	+	335	146305137	-	Pmen_0096	-	hypothetical protein
96	 69.67	+1	92959..95559	+	866	146305138	-	Pmen_0097	-	ATPase
97	 67.12	0	95546..97078	+	510	146305139	-	Pmen_0098	-	Fis family transcriptional regulator
98	 67.41	0	97126..97260	+	44	146305140	-	Pmen_0099	-	hypothetical protein
99	 68.25	0	97281..98477	+	398	146305141	-	Pmen_0100	-	FHA domain-containing protein
100	 68.94	+1	98483..98965	+	160	146305142	-	Pmen_0101	-	hypothetical protein
64.78	MEAN

4.15	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.