IslandPathversion 1.0

IslandPath Analysis: Tropheryma whipplei str. Twist



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: 46.62 STD DEV: 3.13
Tropheryma whipplei str. Twist, complete genome - 0..927303
808 proteins

Pos	 %G+C  SD      Location		Strand	Length	PID	Gene	Synonym	Code	Product

1	 38.83 -2        1..1437     	 +	478	28492968	dnaA	TW001	L	chromosomal replication initiator protein	
2	 37.83 -2     1767..2900     	 +	377	28492969	dnaN	TW002	L	DNA polymerase III beta chain	
3	 38.83 -2     2890..3981     	 +	363	28492970	recF	TW003	L	recF protein	
4	 39.77 -2     4011..4445     	 +	144	28492971	-	TW004	-	unknown	
5	 47.64        4485..6434     	 +	649	28492972	gyrB1	TW005	L	DNA gyrase subunit B	
6	 49.27        6438..8897     	 +	819	28492973	gyrA1	TW006	L	DNA gyrase subunit A	
7	 44.88        8894..9274     	 +	126	28492974	-	TW007	-	unknown	
8	 49.29        9640..10341    	 -	233	28492975	-	TW008	H	unknown	
9	 50.70 +1    10457..11095    	 +	212	28492976	-	TW009	R	unknown	
10	 50.48 +1    11133..11342    	 -	69	28492977	-	TW010	G	unknown	
11	 50.86 +1    11399..12037    	 +	212	28492978	pabA	TW011	E	para-aminobenzoate synthetase component II	
12	 49.56       12143..12715    	 +	190	28492979	-	TW012	S	unknown	
13	 48.86       12752..13627    	 +	291	28492980	-	TW013	O	putative protease HtpX	
14	 47.31       13628..13999    	 +	123	28492981	-	TW014	-	unknown	
15	 51.09 +1    14119..15402    	 +	427	28492982	-	TW015	-	unknown	
16	 48.83       15427..16278    	 +	283	28492983	-	TW016	R	2,5-diketo-D-gluconic acid reductase	
17	 48.76       16394..18046    	 -	550	28492984	pmmB	TW017	G	phosphomannomutase	
18	 50.40 +1    18059..18943    	 -	294	28492985	deoD	TW018	F	purine nucleoside phosphorylase	
19	 48.66       18949..20370    	 +	473	28492986	-	TW019	C	pyridine nucleotide-disulphide oxidoreductase class I	
20	 46.11       20439..22214    	 -	591	28492987	bccA	TW020	I	biotin carboxylase	
21	 49.45       22687..23139    	 +	150	28492988	-	TW021	-	unknown	
22	 45.45       23155..23550    	 +	131	28492989	-	TW022	-	unknown	
23	 46.70       24086..25663    	 -	525	28492990	pccB	TW023	I	propionyl-CoA carboxylase beta chain	
24	 44.18       25725..26471    	 +	248	28492991	birA	TW024	H	biotin acetyl-CoA carboxylase ligase	
25	 44.59       26548..27009    	 -	153	28492992	-	TW025	S	unknown	
26	 48.04       26789..28243    	 +	484	28492993	purK	TW026	F	phosphoribosylaminoimidazole carboxylase ATPase subunit	
27	 48.07       28322..28864    	 +	180	28492994	purE	TW027	F	phosphoribosylaminoimidazole carboxylase catalytic subunit	
28	 46.81       29089..29511    	 -	140	28492995	-	TW028	-	unknown	
29	 48.84       29815..30678    	 -	287	28492996	rmlD	TW029	M	dTDP-4-dehydrorhamnose reductase	
30	 45.63       30675..31658    	 -	327	28492997	rmlB	TW030	M	dTDP-glucose 4,6-dehydratase	
31	 50.16 +1    31903..32526    	 +	207	28492998	rmlC	TW031	M	dTDP-4-dehydrorhamnose 3,5-epimerase	
32	 44.94       32582..33460    	 +	292	28492999	rmlA	TW032	M	glucose-1-phosphate thymidylyltransferase	
33	 45.11       33468..34316    	 -	282	28493000	wbbL	TW033	R	glycosyl transferase	
34	 42.26 -1    34313..35119    	 -	268	28493001	-	TW034	G	ABC transporter ATP-binding protein	
35	 43.85       35171..36064    	 -	297	28493002	-	TW035	G	ABC transporter permease protein	
36	 45.99       36127..37098    	 +	323	28493003	-	TW036	M	glycosyltransferase	
37	 44.44       37206..37646    	 -	146	28493004	-	TW037	-	unknown	
38	 48.42       37559..38287    	 -	242	28493005	-	TW038	M	glycosyltransferase	
39	 49.62       38645..40486    	 +	613	28493006	-	TW039	-	unknown	
40	 47.25       41337..41846    	 +	169	28493007	-	TW040	G	unknown	
41	 53.14 +2    42390..42596    	 +	68	28493008	-	TW041	-	unknown	
42	 47.12       42593..42991    	 +	132	28493009	-	TW042	-	unknown	
43	 42.63 -1    43118..43429    	 +	103	28493010	-	TW043	G	unknown	
44	 47.45       43793..44224    	 +	143	28493011	-	TW044	-	unknown	
45	 46.41       44228..44617    	 +	129	28493012	-	TW045	-	unknown	
46	 44.81       44764..46218    	 -	484	28493013	-	TW046	T	two-component system sensor histidine kinase	
47	 47.88       46222..46977    	 -	251	28493014	-	TW047	T	two-component system response regulator	
48	 50.53 +1    47170..47547    	 +	125	28493015	capB	TW048	K	cold shock protein B	
49	 44.19       47875..48657    	 +	260	28493016	soj	TW049	D	putative sporulation protein Soj	
50	 46.35       48731..49867    	 +	378	28493017	tyrA	TW050	E	prephenate dehydrogenase	
51	 48.33       49849..51909    	 +	686	28493018	-	TW051	F	cytidylate kinase/GTP-binding protein fusion	
52	 43.91       51906..53210    	 -	434	28493019	menF	TW052	H	isochorismate synthase	
53	 49.17       53279..53998    	 +	239	28493020	ubiE	TW053	H	ubiquinone/menaquinone biosynthesis methyltransferase	
54	 48.67       54010..55026    	 +	338	28493021	grcC	TW054	H	probable heptaprenyl diphosphate synthase component II	
55	 48.07       55045..56388    	 +	447	28493022	-	TW055	E	ferredoxin--NADP+ reductase	
56	 47.43       56728..57699    	 -	323	28493023	fecB	TW056	P	iron (III) dicitrate ABC transporter substrate-binding protein	
57	 47.19       57844..58839    	 -	331	28493024	-	TW057	P	iron ABC transporter substrate-binding protein	
58	 42.33 -1    59057..59890    	 -	277	28493025	fepC	TW058	P	iron ABC transporter ATP-binding protein	
59	 45.88       59826..61013    	 -	395	28493026	fepG	TW059	P	iron ABC transporter permease protein	
60	 47.62       60866..61831    	 -	321	28493027	fepD	TW060	P	iron ABC transporter permease protein	
61	 40.80 -1    62223..62570    	 +	115	28493028	-	TW061	K	transcriptional regulator	
62	 45.48       62866..64503    	 -	545	28493029	lysS	TW062	J	lysyl-tRNA synthetase	
63	 46.02       64592..65458    	 +	288	28493030	panC	TW063	H	pantoate--beta-alanine ligase	
64	 43.69       65755..67251    	 +	498	28493031	cls	TW064	I	cardiolipin synthetase	
65	 49.50       67303..69825    	 +	840	28493032	clpC	TW065	O	ATP-dependent Clp protease ATP-binding subunit	
66	 47.56       70003..70227    	 -	74	28493033	-	TW066	I	unknown	
67	 44.78       70228..70524    	 +	98	28493034	-	TW067	-	unknown	
68	 49.05       70560..72143    	 +	527	28493035	menD	TW068	H	2-oxoglutarate decarboxylase	
69	 44.14       72153..72698    	 +	181	28493036	-	TW069	-	unknown	
70	 47.15       72719..73630    	 +	303	28493037	menA	TW070	H	1,4-dihydroxy-2-naphthoate octaprenyltransferase	
71	 50.63 +1    73769..77335    	 +	1188	28493038	rpoB	TW071	K	DNA-directed RNA polymerase beta chain	
72	 48.87       77362..81222    	 +	1286	28493039	rpoC	TW072	K	DNA-directed RNA polymerase beta' chain	
73	 46.99       81461..82822    	 -	453	28493040	-	TW073	R	lysophospholipase/serine esterase fusion protein	
74	 53.44 +2    82917..83279    	 +	120	28493041	groES	TW074	O	10 kDa chaperone	
75	 51.08 +1    83330..84805    	 +	491	28493042	guaB1	TW075	F	inosine-5'-monophosphate dehydrogenase	
76	 50.04 +1    84777..85931    	 +	384	28493043	guaB2	TW076	F	inosine-5'-monophosphate dehydrogenase-like protein	
77	 46.29       85897..86637    	 +	246	28493044	-	TW077	-	unknown	
78	 46.12       86703..87140    	 +	145	28493045	-	TW078	-	unknown	
79	 46.56       87137..88648    	 +	503	28493046	guaA	TW079	F	GMP synthase	
80	 44.98       88753..90984    	 +	743	28493047	pcrA	TW080	L	ATP-dependent DNA helicase	
81	 53.01 +2    91006..91254    	 +	82	28493048	-	TW081	-	unknown	
82	 43.03 -1    91251..92735    	 +	494	28493049	-	TW082	-	unknown	
83	 44.44       92728..93375    	 +	215	28493050	purN	TW083	F	phosphoribosylglycinamide formyltransferase	
84	 47.02       93415..95043    	 +	542	28493051	purH	TW084	F	phosphoribosylaminoimidazolecarboxamide formyltransferase	
85	 43.57       95131..95472    	 -	113	28493052	-	TW085	-	unknown	
86	 43.03 -1    95499..96632    	 +	377	28493053	-	TW086	G	putative drug efflux protein	
87	 44.00       96533..97666    	 -	377	28493054	truB	TW087	J	tRNA pseudouridine synthase B	
88	 43.62       97711..98838    	 +	375	28493055	-	TW088	M	membrane-associated Zn-dependent protease-like protein	
89	 46.97       98840..99946    	 -	368	28493056	dxr	TW089	I	1-deoxy-D-xylulose 5-phosphate reductoisomerase	
90	 46.01       99986..100750   	 +	254	28493057	-	TW090	T	protein phosphatase	
91	 45.97      100773..102410   	 -	545	28493058	-	TW091	L	unknown	
92	 46.43      102623..102874   	 +	83	28493059	-	TW092	-	unknown	
93	 43.17 -1   102859..104292   	 +	477	28493060	-	TW093	-	unknown	
94	 44.86      104289..105008   	 +	239	28493061	-	TW094	V	ABC transporter ATP-binding protein	
95	 36.13 -2   105005..105361   	 +	118	28493062	-	TW095	-	unknown	
96	 47.22      105397..105576   	 +	59	28493063	-	TW096	-	unknown	
97	 47.81      108152..109201   	 -	349	28493064	xerD	TW097	L	integrase/recombinase	
98	 48.60      110980..111588   	 -	202	28493065	-	TW098	L	unknown	
99	 36.84 -2   111787..111957   	 -	56	28493066	-	TW099	-	unknown	
100	 47.50      111967..113604   	 -	545	28493067	pyrG	TW100	F	CTP synthase	

 
 46.62 MEAN 
 
 3.13  STD DEV 



Last Updated: Sept 17 2004 (Note: update adds new organisms but does not affect the existing records)

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.