AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID023_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391071
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	ycjM	185	putative polysaccharide hydrolase
#1	ycjQ	30	putative oxidoreductase
#2	ugpA	97	sn-glycerol 3-phosphate transport system, integral membrane protein
#3	ugpB	300	sn-glycerol 3-phosphate transport system; periplasmic binding protein

Motif 1
AAAAAAAACGGCGCATAAGCGCCGCTCATGG	0	19	0
CAGGGAAAAAGCGTATTTGTGAGCTGACGCA	0	85	0
AAACCCTTGTGCTCAATTGACAGTTTATTTT	0	142	1
GATAAGCGAAACGCATCCGACATTACACTGA	2	10	0
GATGCGTTTCGCTTATCTGACCTGGCATCGC	2	24	1
GATGCGCTTCGCTTATCCGGCCTACACGCGA	2	51	0
GATAAGCGAAGCGCATCCGGCACAGTTCAGG	2	65	1
GGCGTAAACGCCTTATCAGGCCTACAAGATC	3	32	0
GGCGTTTACGCCGCATCCGGCATGAAACGAT	3	51	1
ATATTTTCCCGCTTATCCGTGCCCCATCTCC	3	114	1
CTCACCCACGCCGTCACCGCCTTGTCATCTT	3	153	1
GCGTGAATTCGCGCATTCGGTACAACAAGAG	3	270	1
          ********* *
MAP Score: 20.2594

Motif 2
CCATGAGCGGCGCTTATGCGCCGTTTTTTT	0	19	1
CTCACAAATACGCTTTTTCCCTGGTAAAAA	0	93	1
GGATGCGTTTCGCTTATCTGACCTGGCATC	2	23	1
GGATGCGCTTCGCTTATCCGGCCTACACGC	2	53	0
CCTGATAAGGCGTTTACGCCGCATCCGGCA	3	43	1
TATATTTTCCCGCTTATCCGTGCCCCATCT	3	113	1
          CGTTTATCTCTCTTGTTGTA	3	290	0
          **********
MAP Score: 14.1603

Motif 3
AAAAAAAACGGCGCATAAGCGCCGCTCATGGTG	0	17	0
TTTATTTTCTGCGGAGTAGTCTCTCGTTTC   	0	165	1
CAGTGTAATGTCGGATGCGTTTCGCTTATCTGA	2	11	1
GATAAGCGAAGCGCATCCGGCACAGTTCAGGAA	2	65	1
GCCTGATAAGGCGTTTACGCCGCATCCGGCATG	3	42	1
ATATTTTCCCGCTTATCCGTGCCCCATCTCCCA	3	114	1
GCGTGAATTCGCGCATTCGGTACAACAAGAGAG	3	270	1
          ****** ** * *
MAP Score: 7.74419

Motif 4
TTTTCTGTCACACCTTATTTACATCCCCATAG	0	47	1
GCTCAATTGACAGTTTATTTTCTGCGGAGTAG	0	152	1
    AGCGGCCAGTTTCTTTACAAGGAGTTTT	1	6	1
         TCAGTGTAATGTCGGATGCGTTT	2	1	1
CCCACGCCGTCACCGCCTTGTCATCTTTCTGA	3	157	1
ATCTTTCTGACACCTTACTATCTTACAAATGT	3	179	1
          ******* * **
MAP Score: 2.1609

Motif 5
AAAAAAAAACGGCGCATAAGCGCCGCTCATGGTGAATTCT	0	11	0
TGCGTCAGCTCACAAATACGCTTTTTCCCTGGTAAAAAAT	0	85	1
GCGATGCCAGGTCAGATAAGCGAAACGCATCCGACATTAC	2	15	0
CCTGAACTGTGCCGGATGCGCTTCGCTTATCCGGCCTACA	2	56	0
TATATTTTCCCGCTTATCCGTGCCCCATCTCCCATTTTCC	3	113	1
AGTTATTTTTCTGTAATTCGAGCATGTCATGTTACCCCGC	3	219	1
GTACCGAATGCGCGAATTCACGCGTTTTATGCTCGCGGGG	3	253	0
          * *  ** ** *     ***
MAP Score: 0.640636