AlignACE 3.0 10/20/99
AlignACE2 -i TH/TH_operons025_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944245176
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	MTH953	35	ATP synthase, subunit D 
#1	MTH961	212	unknown
#2	MTH964	103	unknown
#3	MTH966	21	conserved protein

Motif 1
TGAAAAAGGATGTTGGGGGTGG         	0	1	0
ATATGGATGTTGATGGGTGAATT        	1	2	0
        TCCGTTGCGTGGAATTGTGATGT	2	2	1
AATTGTGATGTGATGGTGGGATCTGCCCGGT	2	22	1
ATCTGCCCGGTGATGCTGGAACTGATCGACC	2	42	1
          ********* *
MAP Score: 4.79906

Motif 2
CTCCTGAAAAAGGATGTTGGGGGTGG     	0	5	0
AATCATATGGATGTTGATGGGTGAATT    	1	6	0
CTCAATTAACATCAGGAGGGATTCAAAAGGC	1	96	1
AGGCTTGGTTAACTGAATGGGATTAGTTGAA	1	123	1
TGGAATTGTGATGTGATGGTGGGATCTGCCC	2	19	1
CGTAAAGTTAAACTGGAGGTGAAAAA     	2	87	1
TTAGATCACCAGGTGAATGTA          	3	10	1
          * *********
MAP Score: 4.09585

Motif 3
ACTCTCCTGAAAAAGGATGTTGGGGGTGG 	0	9	0
ATCGGCAATCATATGGATGTTGATGGGTGA	1	13	0
CTCAATTAACATCAGGAGGGATTCAAAAGG	1	96	1
AGGCTTGGTTAACTGAATGGGATTAGTTGA	1	123	1
CGTAAAGTTAAACTGGAGGTGAAAAA    	2	87	1
      TTAGATCACCAGGTGAATGTA   	3	4	1
          **********
MAP Score: 3.41326