AlignACE 3.0 10/20/99
AlignACE2 -i PA/PA_operons042_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944250760
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	aif1A	120	PAB2441
#1	PAB1013	68	hypothetical protein

Motif 1
TCAAGGAGTATGCAAAAATTTTTAAAGTTTT	0	54	1
TCCTGATTTTTGCAAAAATTTTTCTATGGCC	0	95	0
TACCTTTAAATTCCCAAGTTTGACGTTCATT	1	43	1
ACGACCCTCCTTCCAATCTTTCTCGCTTTTG	0	12	1
GCCACCTATGCTGAAAACTTTAAAAATTTTT	0	67	0
          ******* ***
MAP Score: 4.13071

Motif 2
ACGACCCTCCTTCCAATCTTTCTCGCTTTTG	0	12	1
ATGCAAAAATTTTTAAAGTTTTCAGCATAGG	0	63	1
CGAAGTGTTATTTTAACGTTACCTTTAAATT	1	24	1
TACCTTTAAATTCCCAAGTTTGACGTTCATT	1	43	1
          ****** ****
MAP Score: 1.01688