Prediction of prophage loci in draft genome sequences

Organism	Taxonomic Class	Contig^a	Start^b	Stop^c	Number of Hits^d
Novosphingobium aromaticivorans	Alphaproteobacteria	21	6124	36713	5-7
		28	71294	108187	22
		28	338039	376097	20
		30	843355	872635	6-12
Paracoccus denitrificans 1222	Alphaproteobacteria	66	190935	219442	13
		66	285879	301004	14
		57	81276	110749	21
		56	76241	82702	9
		51	28242	64850	5-5
		45	17010	29732	10
		39	30	21171	11
Silicibacter sp. TM1040	Alphaproteobacteria	55	218538	260182	23
		55	522703	536979	8
		56	43107	140777	12-11-5
		56	425346	452975	22
Burkholderia strain 383	Betaproteobacteria	23	2874773	2886385	6
		24	2839194	2855280	13
Methylobacillus flagellatus strain KT	Betaproteobacteria	130	261649	305604	27
Ralstonia eutropha	Betaproteobacteria	404	2609158	2651675	6-21
Anaeromyxobacter dehalogenans 2CP-C	Deltaproteobacteria	95	134092	143545	5
Desulfovibrio desulfuricans	Deltaproteobacteria	143	921675	988165	6-14
		143	1915774	1983798	12-6
		143	1789846	1809856	11
		143	2560827	2573131	7
		143	2787806	2795570	6
		143	3325566	3369108	23
Azotobacter vinelandii	Gammaproteobacteria	33	6	10878	15
		43	55254	77860	22
		60	1488347	1509902	6
Chromohalobacter salexigens DSM3043	Gammaproteobacteria	60	1864	42539	36
Haemophilus somnus	Gammaproteobacteria	98	268406	272486	5
		98	1386864	1427342	27
Pseudomonas syringae	Gammaproteobacteria	8	3347536	3424782	21-13
		8	5444070	5466239	21
Psychrobacter	Gammaproteobacteria	128	551721	590643	25
		128	1031444	1044892	7
		128	1175298	1202136	13
Shewanella denitrificans OS217	Gammaproteobacteria	100	2172	43561	13
		103	72252	94231	15
Magnetococcus MC-1	Unclassified	354	223572	265526	20
	Proteobacteria	354	293324	326011	19
		354	363601	400034	19
		354	409281	420223	5
		354	496483	578430	9
		338	27950	59239	18
		331	631	16434	9
		308	2095	26277	14
		291	7382	15019	6
Arthrobacter sp. FB24	Actinobacteria	33	30325	52677	8
		44	46493	65070	7
Bifidobacterium longum	Actinobacteria	5	192	34723	21
Brevibacterium linens	Actinobacteria	4	19156	92330	6-8-5
		5	84079	91626	6
Enterococcus faecium	Bacilli	653	12122	52065	35
		650	22531	61797	5-12
Lactococcus lactis subsp. cremoris SK11	Bacilli	3	82584	98264	22
		14	2	46538	55
		19	26544	32523	14
Prosthecochloris aestuarri SK413/DSMZ 271(t)	Chlorobia	51	42837	57408	8
Synechococcus elongatus PCC 7942	Chroococcales	52	707765	750834	21
Desulfitobacterium hafniense	Clostridia	1038	12311	23624	15
		1046	17019	32769	15
		1078	2047	26064	13
Anabaena variabilis	Nostocales	237	8883	19295	5
ATCC29413		231	236725	247072	5

^aContig corresponds to the contig of the draft genome in which the prophage was found.

^bThis is the start position of the first hit found by Prophage Finder for the predicted prophage loci.

^cThis is the end position of the last hit found by Prophage Finder for the predicted prophage loci.

^dNumber of hits is the number of significant sequence matches determined by BLASTX that form the cluster for prophage loci prediction. Multiple numbers indicate Prophage Finder predicted multiple, independent prophage loci that upon further examination belonged to one larger prophage loci.