AlignACE 3.0 10/20/99
AlignACE2 -i PA/PA_sum_all038_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944253842
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	PAB1379	67	PAB1379
#1	PAB1378	115	PAB1378
#2	PAB1376	141	hypothetical protein

Motif 1
TTAACATTAATTTCTTTGAGGGGTGATACT   	0	47	1
  TTTTATTCTTTTTTGATGTCGATAACCTACA	1	8	1
ATAAAACCATTTTTTGTGTGTGGAAGTGCCTGT	1	70	0
       TATTTTCTAAAAATGGCTGGATATAA	1	99	0
GTATTTAAGGTTTCTTGAATTGGATATTTCCCA	2	43	1
CAACGAAACCTTTATTAATTTTGCATGCATTAT	2	82	1
TTTGCATGCATTATTATATAGGGGTAAAAAAGG	2	101	1
          *****  ** ***
MAP Score: 4.2451

Motif 2
    CAGCGTTTAACCTTGCCTTTTTACCTCTC	0	6	1
ACCTTGCCTTTTTACCTCTCTTTCGATTTTAAC	0	19	1
        TTTTATTCTTTTTTGATGTCGATAA	1	2	1
GCCCATGTATTTAAGGTTTCTTGAATTGGATAT	2	37	1
GCAAAATTAATAAAGGTTTCGTTGAAAGCTTGG	2	73	0
GAAACCTTTATTAATTTTGCATGCATTATTATA	2	86	1
          ****  **** **
MAP Score: 1.41138