AlignACE 3.0 10/20/99
AlignACE2 -i TH/TH_operons073_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944246383
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	MTH648	65	ribosomal protein L37
#1	MTH649_MTH650	301	MTH649: conserved protein, MTH650: conserved protein
#2	MTH844	22	autotrophic growth protein

Motif 1
CTTTACAGATTAACTGATTTTAAGGAGGAT	0	39	1
TCTGTTCCTTAATCTGCTTTACCATCATTG	1	39	1
TTACCATCATTGACTCATTTAAACTCTTCT	1	57	1
AGTATATCTATAGCTCATTTCTAAACTACT	1	90	1
GCTCATTTCTAAACTACTTTACGTGCACCA	1	102	1
AAAAATGAAGTATCTGATTGGAAGATTTTC	1	229	1
          **********
MAP Score: 2.04518

Motif 2
TTTTATGAATGGTCTGCAGTCTGTTCCTTA	1	20	1
CATTTAAACTCTTCTGCAAGTATATCTATA	1	72	1
ATTTGAAGAGGTACTGCAGTGCAAGAAAAC	1	180	1
      ACACCTTCAGCAGGATGATAAA  	2	4	1
          **********
MAP Score: 1.91431

Motif 3
AGTTGATCCACCCTTCCCCTTACAATTAAAT      	0	4	0
TCCTTAAAATCAGTTAATCTGTAAAGTTGATCCACCC	0	28	0
       ACCCTGTTCATTTTATGAATGGTCTGCAGT	1	3	1
GGTCTGCAGTCTGTTCCTTAATCTGCTTTACCATCAT	1	30	1
TTACCATCATTGACTCATTTAAACTCTTCTGCAAGTA	1	57	1
AGTATATCTATAGCTCATTTCTAAACTACTTTACGTG	1	90	1
TGCACTGCAGTACCTCTTCAAATCCATTCCAGGGTCC	1	166	0
TCCAATCAGATACTTCATTTTTCTATTCTACTAATAT	1	214	0
GGAAGATTTTCAGCTCGTTAGTTAGATTTAAATATAA	1	248	1
AAATATAATCCGGCTAAATTTTAATCTAGGATAG   	1	277	1
          * **** *** *    *
MAP Score: 1.02994