AlignACE 3.0 10/20/99
AlignACE2 -i PA/PA_sum_all071_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944254452
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	PAB2311	91	hypothetical protein
#1	PAB1465	150	PAB1465
#2	PAB1464	77	PAB1464

Motif 1
TAATTACATACCCAAATTAGGGTAAAGAACGTTA	0	45	0
       AAGTCCTTATTAGGCTAGCTGAGAAGG	1	3	1
TAAAAGAATACCCGAAGTAGACAACGGAAAAACT	1	62	1
  TCTCTCACCCCCGATTAGCCAAGGTCAAGGTA	2	55	0
          ***  ***** * *
MAP Score: 4.65696

Motif 2
AAGAACGTTAAAAGGTTTTTCAAAACTAAA	0	25	0
GTATTCTTTTATAAGCTTCTTCCAATTCTT	1	43	0
CTCTAAATAAATAAGTTTTTCCGTTGTCTA	1	79	0
CAACTGAACTAAAAGTTTTTATTTTAAATT	2	21	1
          **********
MAP Score: 3.52859

Motif 3
TAACGTTCTTTACCCTAATTTGGGTATGTAATT	0	45	1
GTAATTAGAGTTTCGTAGGTGGGAAAATA    	0	72	1
CCTTCTCAGCTAGCCTAATAAGGACTT      	1	4	0
TATAAAAGAATACCCGAAGTAGACAACGGAAAA	1	60	1
AAGGTCAAGGTAACCTAATTTAAAATAAAAACT	2	34	0
CACCCCCGATTAGCCAAGGTCAAGGTAACCTAA	2	49	0
          ** ** **** **
MAP Score: 3.10091