AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID025_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391184
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	manX	300	PTS enzyme IIAB, mannose-specific
#1	manY	62	PTS enzyme IIC, mannose-specific

Motif 1
TATACTCCATGGTTGTTAAACGGGAGTTAA	0	11	1
GTTGTTAAACGGGAGTTAAACATATCAGAG	0	22	1
CGTTTGCAAAGGAAGGTAAATCTTTGCCAA	0	63	0
CTTTGCAAACGAATGTGACAAGGATATTTT	0	82	1
CAGAAATTTCGAAAGGTAAAATATCCTTGT	0	99	0
TCTGCTAATCGAAAGTTAAATTACGGATCT	0	125	1
ACGTAAACAGGAGAAGTACA          	1	52	1
          **********
MAP Score: 7.5066

Motif 2
GAGTTAAACATATCAGAGACGCCTCTGATTTGGCA	0	34	1
AAGGAAGGTAAATCTTTGCCAAATCAGAGGCGTCT	0	50	0
AAAGGTAAAATATCCTTGTCACATTCGTTTGCAAA	0	83	0
ATTTTTTCGATATCTAAAATAAATCGCGAAACGCA	0	170	1
TTGTAGCCCTTATCTGAATCGATTCGATTGTGGAC	0	216	1
GTGGACGACGATTCAAAAATACATCTGGCACGTTG	0	245	1
CCTCCTTTATTATCGTTAACACCTCAACGTGCCAG	0	269	0
ATCACTCAGTTTTCACACTTAAGTCTTACGTAAAC	1	25	1
          ****  *  *** **
MAP Score: 7.39744

Motif 3
ACTCCATGGTTGTTAAACGGGAGTTAAACATAT	0	14	1
GGTAAATCTTTGCCAAATCAGAGGCGTCTCTGA	0	46	0
TCACATTCGTTTGCAAAGGAAGGTAAATCTTTG	0	67	0
TAGCAGAAATTTCGAAAGGTAAAATATCCTTGT	0	99	0
TCGAAATTTCTGCTAATCGAAAGTTAAATTACG	0	117	1
TAAAATAAATCGCGAAACGCAGGGGTTTTTGGT	0	184	1
AAGACTTAAGTGTGAAAACTGAGTGATAATCAA	1	19	0
          *** *** * ***
MAP Score: 1.39665