AlignACE 3.0 10/20/99
AlignACE2 -i TH/TH_sum_all071_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944250611
 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
         GTTCTAATCCTCCTTAAAATCAGTTAA	0	48	0
CCTGTTCATTTTATGAATGGTCTGCAGTCTGTTCCT	1	12	1
TGCAGTCTGTTCCTTAATCTGCTTTACCATCATTGA	1	34	1
CATTGACTCATTTAAACTCTTCTGCAAGTATATCTA	1	64	1
GTAAAGTAGTTTAGAAATGAGCTATAGATATACTTG	1	88	0
TATTTAAATCTAACTAACGAGCTGAAAATCTTCCAA	1	246	0
TTAGATTTAAATATAATCCGGCTAAATTTTAATCTA	1	269	1
         TTTATCATCCTGCTGAAGGTGT     	2	5	0
          ***  * ** ***  *
MAP Score: 4.66644

Motif 2
AACTGATTTTAAGGAGGATTAGAAC        	0	50	1
TGTTCATTTTATGAATGGTCTGCAGTCTGTTCC	1	14	1
GGTAAAGCAGATTAAGGAACAGACTGCAGACCA	1	29	0
AAATGAGTCAATGATGGTAAAGCAGATTAAGGA	1	44	0
TCCATGAGAGATGCATGTGGTGCACGTAAAGTA	1	116	0
TGCATCTCTCATGGATGGGGGGATCCCAGGGCG	1	134	1
GGACCCTGGAATGGATTTGAAGAGGTACTGCAG	1	166	1
TGAAGAGGTACTGCAGTGCAAGAAAACTTATAT	1	183	1
GAATAGAAAAATGAAGTATCTGATTGGAAGATT	1	223	1
          *******   ***
MAP Score: 3.6496

Motif 3
GATTAACTGATTTTAAGGAGGATTAGAAC  	0	46	1
ACCCTGTTCATTTTATGAATGGTCTGCAGTC	1	10	1
TCATTTAAACTCTTCTGCAAGTATATCTATA	1	71	1
CACATGCATCTCTCATGGATGGGGGGATCCC	1	130	1
GATTGGAAGATTTTCAGCTCGTTAGTTAGAT	1	244	1
TCCGGCTAAATTTTAATCTAGGATAG     	1	285	1
       ACACCTTCAGCAGGATGATAAA  	2	3	1
          ********* *
MAP Score: 2.27477