AlignACE 3.0 10/20/99
AlignACE2 -i TM/TM_operons074_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944253668
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	TM0984	199	hypothetical protein
#1	TM0987	50	conserved hypothetical protein
#2	TM0990	121	conserved hypothetical protein

Motif 1
TTGAGTTTTTGTGAAAAAAATCTCAATCCTC	0	25	1
CTCAATCCTCGTGAAAATAATAATATTCTAA	0	46	1
TACATAGACGTTGAATAATATTACGATATGG	0	80	1
AAATGATCACGTTTAAAGATTGATCTTCTGA	0	121	1
TTTTTAAAATGTTAATACTATGATACCACTT	0	164	0
      TTTTGTGTACAATTTAAGTTGGATA	1	4	1
GGATTGCTCAGTGTAACTTTTCTGAGTATGA	2	12	0
          ******* ***
MAP Score: 1.38638

Motif 2
GATTTTTTTCACAAAAACTCAAGGGGAGGT	0	17	0
CTATGTAACATTAGAATATTATTATTTTCA	0	57	0
CGAAAGAAAATCAGAAGATCAATCTTTAAA	0	132	0
TATTAACATTTTAAAAACGTGAAAGAGGGG	0	178	1
TAAGTTGGATACAGCAAATCCAAAGGGGGA	1	24	1
  GGTCATACTCAGAAAAGTTACACTGAGC	2	8	1
CAGAAGGAGAATAGAAGCTTTCAAGCATCA	2	79	1
AGCATCAGTTTCAGACGCTCTGTCATGCC 	2	102	1
          **********
MAP Score: 0.373275