IslandPath Analysis: Shewanella sediminis HAW-EB3



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: 46.69   STD DEV: 3.68
Shewanella sediminis HAW-EB3, complete genome - 1..5517674
4497 proteins
Pos	%G+C	SD	Location	Strand	Length	PID	Gene	Synonym	Code	Product
1	 51.62	+1	521..1882	-	453	157373142	-	Ssed_0001	-	tRNA modification GTPase TrmE
2	 46.36	0	1997..3631	-	544	157373143	-	Ssed_0002	-	60 kDa inner membrane insertion protein
3	 46.51	0	3635..3892	-	85	157373144	-	Ssed_0003	-	hypothetical protein
4	 41.60	-1	3859..4221	-	120	157373145	-	Ssed_0004	-	ribonuclease P protein component
5	 51.45	+1	4230..4367	-	45	157373146	-	Ssed_0005	-	50S ribosomal protein L34
6	 44.71	0	4812..6200	+	462	157373147	-	Ssed_0006	-	chromosomal replication initiation protein
7	 45.96	0	6220..7320	+	366	157373148	-	Ssed_0007	-	DNA-directed DNA polymerase
8	 42.57	-1	7614..8696	+	360	157373149	-	Ssed_0008	-	DNA replication and repair protein RecF
9	 46.23	0	8689..11130	+	813	157373150	-	Ssed_0009	-	DNA topoisomerase (ATP-hydrolyzing)
10	 47.39	0	11580..12326	-	248	157373151	-	Ssed_0010	-	LamB/YcsF family protein
11	 50.15	0	12470..13456	-	328	157373152	-	Ssed_0011	-	UreA amidolyase related protein
12	 48.91	0	13485..14171	-	228	157373153	-	Ssed_0012	-	hypothetical protein
13	 44.32	0	14650..15705	+	351	157373154	-	Ssed_0013	-	putative signal transduction protein
14	 47.58	0	15774..17843	-	689	157373155	-	Ssed_0014	-	glycyl-tRNA synthetase subunit beta
15	 48.96	0	17855..18718	-	287	157373156	-	Ssed_0015	-	glycyl-tRNA synthetase subunit alpha
16	 45.35	0	18917..19507	+	196	157373157	-	Ssed_0016	-	DNA-3-methyladenine glycosylase I
17	 44.82	0	19576..20742	+	388	157373158	-	Ssed_0017	-	chloramphenicol O-acetyltransferase
18	 49.26	0	20933..24178	-	1081	157373159	-	Ssed_0018	-	amidohydrolase
19	 49.66	0	24405..24845	-	146	157373160	-	Ssed_0019	-	hypothetical protein
20	 49.59	0	24870..25115	-	81	157373161	-	Ssed_0020	-	SirA family protein
21	 47.65	0	25322..25789	-	155	157373162	-	Ssed_0021	-	YbaK/EbsC protein
22	 51.89	+1	26073..27236	-	387	157373163	-	Ssed_0022	-	3-ketoacyl-CoA thiolase
23	 48.68	0	27258..29408	-	716	157373164	-	Ssed_0023	-	multifunctional fatty acid oxidation complex subunit alpha
24	 46.36	0	29795..31114	+	439	157373165	-	Ssed_0024	-	proline dipeptidase
25	 46.99	0	31167..31781	+	204	157373166	-	Ssed_0025	-	hypothetical protein
26	 47.67	0	31956..33413	+	485	157373167	-	Ssed_0026	-	TrkH family potassium uptake protein
27	 42.23	-1	33511..34038	+	175	157373168	-	Ssed_0027	-	protoporphyrinogen oxidase
28	 43.69	0	34180..34488	-	102	157373169	-	Ssed_0028	-	regulatory protein, ArsR
29	 47.59	0	34690..35229	+	179	157373170	-	Ssed_0029	-	protoporphyrinogen oxidase
30	 31.97	-2	35726..36166	+	146	157373171	-	Ssed_0030	-	hypothetical protein
31	 49.55	0	36602..38044	-	480	157373172	-	Ssed_0031	-	TrkH family potassium uptake protein
32	 48.51	0	38087..39496	-	469	157373173	-	Ssed_0032	-	potassium transporter peripheral membrane component
33	 50.04	0	39506..40786	-	426	157373174	-	Ssed_0033	-	sun protein
34	 49.39	0	40788..41777	-	329	157373175	-	Ssed_0034	-	methionyl-tRNA formyltransferase
35	 44.83	0	41785..42297	-	170	157373176	-	Ssed_0035	-	peptide deformylase
36	 46.56	0	42423..43526	+	367	157373177	-	Ssed_0036	-	peptidoglycan-binding LysM
37	 46.97	0	43565..44671	+	368	157373178	-	Ssed_0037	-	DNA protecting protein DprA
38	 40.93	-1	44674..45147	+	157	157373179	-	Ssed_0038	-	hypothetical protein
39	 44.95	0	45367..47139	-	590	157373180	-	Ssed_0039	-	collagenase
40	 44.50	0	47275..47838	+	187	157373181	-	Ssed_0040	-	DNA topoisomerase type IA Zn finger domain-containing protein
41	 47.49	0	47939..48496	+	185	157373182	-	Ssed_0041	-	SUA5/YciO/YrdC/YwlC family protein
42	 44.95	0	48531..49451	+	306	157373183	-	Ssed_0042	-	coproporphyrinogen III oxidase
43	 44.24	0	49687..50502	+	271	157373184	-	Ssed_0043	-	shikimate 5-dehydrogenase
44	 39.78	-1	50517..50795	+	92	157373185	-	Ssed_0044	-	hypothetical protein
45	 43.06	0	50829..51383	-	184	157373186	-	Ssed_0045	-	carbonic anhydrase
46	 43.41	0	58078..60588	+	836	157373187	-	Ssed_0046	-	diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
47	 45.98	0	60833..61006	-	57	157373188	-	Ssed_0047	-	hypothetical protein
48	 38.61	-2	61185..61601	-	138	157373189	-	Ssed_0048	-	type IV pilus assembly PilZ
49	 46.59	0	61598..62608	-	336	157373190	-	Ssed_0049	-	OmpA/MotB
50	 45.69	0	62608..63465	-	285	157373191	-	Ssed_0050	-	MotA/TolQ/ExbB proton channel
51	 45.09	0	63481..64203	-	240	157373192	-	Ssed_0051	-	flagellar biosynthesis sigma factor
52	 42.92	-1	64214..64672	-	152	157373193	-	Ssed_0052	-	flagellar basal body-associated protein FliL
53	 50.87	+1	64688..65839	-	383	157373194	-	Ssed_0053	-	hypothetical protein
54	 47.40	0	65829..66155	-	108	157373195	-	Ssed_0054	-	hypothetical protein
55	 47.51	0	66124..66504	-	126	157373196	-	Ssed_0055	-	flagellar protein FliS
56	 49.82	0	66518..67894	-	458	157373197	-	Ssed_0056	-	flagellar hook-associated 2 domain-containing protein
57	 48.05	0	68291..69085	-	264	157373198	-	Ssed_0057	-	flagellin domain-containing protein
58	 47.37	0	69675..70700	-	341	157373199	-	Ssed_0058	-	hypothetical protein
59	 50.87	+1	70710..71627	-	305	157373200	-	Ssed_0059	-	flagellar hook-associated protein 3
60	 51.46	+1	71640..73013	-	457	157373201	-	Ssed_0060	-	flagellar hook-associated protein FlgK
61	 52.74	+1	73080..73517	-	145	157373202	-	Ssed_0061	-	peptidoglycan hydrolase
62	 54.79	+2	73517..74644	-	375	157373203	-	Ssed_0062	-	flagellar basal body P-ring protein
63	 54.60	+2	74739..75401	-	220	157373204	-	Ssed_0063	-	flagellar basal body L-ring protein
64	 54.07	+2	75446..76231	-	261	157373205	-	Ssed_0064	-	flagellar basal-body rod protein FlgG
65	 55.92	+2	76302..77036	-	244	157373206	-	Ssed_0065	-	flagellar basal-body rod protein FlgF
66	 53.88	+1	77047..78243	-	398	157373207	-	Ssed_0066	-	flagellar hook protein FlgE
67	 52.10	+1	78272..78937	-	221	157373208	-	Ssed_0067	-	flagellar hook capping protein
68	 54.52	+2	79003..79422	-	139	157373209	-	Ssed_0068	-	flagellar basal-body rod protein FlgC
69	 48.72	0	79521..79871	-	116	157373210	-	Ssed_0069	-	flagellar basal body rod protein FlgB
70	 52.07	+1	79958..80704	+	248	157373211	-	Ssed_0070	-	SAF domain-containing protein
71	 45.96	0	80780..81064	+	94	157373212	-	Ssed_0071	-	hypothetical protein
72	 44.52	0	81067..81504	+	145	157373213	-	Ssed_0072	-	hypothetical protein
73	 48.74	0	81517..81951	-	144	157373214	-	Ssed_0073	-	hypothetical protein
74	 54.99	+2	81966..83309	-	447	157373215	-	Ssed_0074	-	FliI/YscN family ATPase
75	 52.57	+1	83299..84057	-	252	157373216	-	Ssed_0075	-	flagellar assembly protein H
76	 50.00	0	84057..85070	-	337	157373217	-	Ssed_0076	-	flagellar motor switch protein G
77	 50.44	+1	85129..86841	-	570	157373218	-	Ssed_0077	-	flagellar MS-ring protein
78	 44.84	0	86938..87276	-	112	157373219	-	Ssed_0078	-	flagellar hook-basal body complex subunit FliE
79	 49.23	0	87319..88620	-	433	157373220	-	Ssed_0079	-	sigma-54 dependent trancsriptional regulator
80	 45.46	0	88607..89521	-	304	157373221	-	Ssed_0080	-	hypothetical protein
81	 46.60	0	90188..91054	+	288	157373222	-	Ssed_0081	-	hypothetical protein
82	 45.38	0	91135..91491	+	118	157373223	-	Ssed_0082	-	flagellar motor switch protein FliN
83	 48.56	0	91494..92222	+	242	157373224	-	Ssed_0083	-	flagellar biosynthesis protein FliP
84	 46.67	0	92434..92703	+	89	157373225	-	Ssed_0084	-	export protein FliQ
85	 49.48	0	92706..93479	+	257	157373226	-	Ssed_0085	-	flagellar biosynthetic protein FliR
86	 50.13	0	93496..94626	+	376	157373227	-	Ssed_0086	-	flagellar biosynthetic protein FlhB
87	 51.44	+1	94830..96911	+	693	157373228	-	Ssed_0087	-	flagellar biosynthesis protein FlhA
88	 48.44	0	97042..98034	-	330	157373229	-	Ssed_0088	-	lysophospholipase
89	 50.44	+1	98169..99968	-	599	157373230	-	Ssed_0089	-	hypothetical protein
90	 44.67	0	100160..101500	-	446	157373231	-	Ssed_0090	-	coproporphyrinogen III oxidase
91	 45.42	0	101794..102273	-	159	157373232	-	Ssed_0091	-	hypothetical protein
92	 45.44	0	102406..102942	-	178	157373233	-	Ssed_0092	-	hypothetical protein
93	 44.78	0	102991..103689	-	232	157373234	-	Ssed_0093	-	hypothetical protein
94	 44.93	0	104402..105022	-	206	157373235	-	Ssed_0094	-	cytochrome c, class I
95	 46.76	0	105192..105854	+	220	157373236	-	Ssed_0095	-	GTPase EngB
96	 47.57	0	106612..109413	-	933	157373237	-	Ssed_0096	-	DNA-directed DNA polymerase
97	 46.94	0	109761..110414	+	217	157373238	-	Ssed_0097	-	isoprenoid biosynthesis protein with amidotransferase-like domain
98	 47.67	0	110846..111682	-	278	157373239	-	Ssed_0098	-	rhomboid family protein
99	 45.63	0	111747..112055	-	102	157373240	-	Ssed_0099	-	rhodanese domain-containing protein
100	 47.56	0	112132..113157	-	341	157373241	-	Ssed_0100	-	L-threonine 3-dehydrogenase
46.69	MEAN

3.68	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.