AlignACE 3.0 10/20/99
AlignACE2 -i PA/PA_operons026_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944250228
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	PAB0562	300	hypothetical protein
#1	PAB0563	41	PAB0563
#2	PAB1455	81	hypothetical protein
#3	PAB1379	67	PAB1379
#4	PAB1378	115	PAB1378

Motif 1
AACTTGACTTCGTTGAGGCGCTAGTTCTGG	0	35	1
TAGACATTAAGATTGAGGAGTCCGTGAAGA	0	80	1
ACAGCCCGATGTTTGATGGGAGGGGAATTG	0	181	0
AAACATCGGGCTGTGGGCCGGTAGCTTAGC	0	197	1
GCTTAGCCTGGTTAGAGCGGCGGACTCTTA	0	220	1
ACTCTTAATCCGCAGGTCGGGGGTTCAAAT	0	243	1
GAGTCTGGCGGGCCGGGGGGGATTTGAACC	0	264	0
CCAGACTCTTCTCAGGGGAGAAAA      	0	286	1
ATTAAACATTGGGTGACGGG          	1	31	1
CTTTTAAATCCTTTGGAGGGAAAAGACC  	2	8	0
ACATTAATTTCTTTGAGGGGTGATACT   	3	50	1
          **********
MAP Score: 6.5108

Motif 2
TGTCTACAGGCTCCAAAGGTTCCAGAACTA	0	56	0
     CCCGTCACCCAATGTTTAATTGCCA	1	26	0
GGTCTTTTCCCTCCAAAGGATTTAAAAGGT	2	10	1
TGTCGATAACCTACATATGTACCTACATAT	4	26	1
ACATATGTACCTACATATGTAGTTCAACTT	4	38	1
CTTCCACACACAAAAAATGGTTTTATATCC	4	77	1
    TATTTTCTAAAAATGGCTGGATATAA	4	99	0
          **********
MAP Score: 4.64612