AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID069_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391909
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	b1625	300	orf, hypothetical protein
#1	b1626	61	orf, hypothetical protein
#2	b1627	76	orf, hypothetical protein

Motif 1
AATTCCTGGTTTAATATCCGACAAGTGAAAA	0	81	0
AACCAGGAATTTATTATCTTGTTCGATGTTG	0	101	1
ATGTTGTTGGTGATTGTCAGGGATAGTAAAG	0	126	1
CGCATTCTTATTATTGTAATAACACAAGCGT	0	207	1
TTGGTATTAATTATTTTATGGACCTTTT   	0	282	1
TTTAGGGGCGTTATTATAAGGCTTTTATAAC	1	25	0
CAGGCAAATCTAATTTTAGGGGCGTTATTAT	1	39	0
GACAACAGGTTAACTGTAAGGTTA       	2	3	0
AGGCGGCTTTTTTATTTCAGGCCGAAAA   	2	58	1
          ******** **
MAP Score: 4.23124

Motif 2
AAGTAAGCTCTGCACTTGTGGAGCGACATGCTGCCCGTCCGG	0	32	1
AGCGACATGCTGCCCGTCCGGGTGCATGTTTTCACTTGTCGG	0	53	1
TAAAGCGCGTTACTCTTTTCAGAGCAGTTTTTCATCCCTGAA	0	152	1
AACACAAGCGTTCACTTTTGGTGAAATTTTATCATCACTAAT	0	227	1
TAATAATACCTACCCCTTTGGTATTAATTATTTTATGGACCT	0	265	1
          * * * * ***    *  *  *
MAP Score: 4.16902

Motif 3
TTGTTGGTGATTGTCAGGGATAGTAAAGCG	0	129	1
CGCGTTACTCTTTTCAGAGCAGTTTTTCAT	0	157	1
TGATGGCAAATATTCAGGGATGAAAAACTG	0	176	0
GCAAATCTAATTTTAGGGGCGTTATTATAA	1	37	0
ATTATCCGTTAATCCAGAGCAGGCGACAAC	2	28	0
CGGCTTTTTTATTTCAGGCCGAAAA     	2	61	1
          **********
MAP Score: 1.91295

Motif 4
     ACAGAGTGCTTCGGTACAACACAAGTAAGCTC	0	5	1
GCACCCGGACGGGCAGCATGTCGCTCCACAAGTGCAG	0	41	0
GCCCGTCCGGGTGCATGTTTTCACTTGTCGGATATTA	0	64	1
AAAGAGTAACGCGCTTTACTATCCCTGACAATCACCA	0	133	0
ACTCTTTTCAGAGCAGTTTTTCATCCCTGAATATTTG	0	163	1
TTTGCCATCAGCGCATTCTTATTATTGTAATAACACA	0	196	1
CTAATTTTAGGGGCGTTATTATAAGGCTTTTATAACC	1	24	0
GGATAATAGGCGGCTTTTTTATTTCAGGCCGAAAA  	2	51	1
          * ** *  ****  * *
MAP Score: 1.46443