AlignACE 3.0 10/20/99
AlignACE2 -i TH/TH_sum_all071_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944250616
 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
        ATTTAATTGTAAGGGGAAGGGTG	0	2	1
TACAGATTAACTGATTTTAAGGAGGATTAGA	0	42	1
    ACCCTGTTCATTTTATGAATGGTCTGC	1	6	1
CCATCATTGACTCATTTAAACTCTTCTGCAA	1	60	1
GACCCTGGAATGGATTTGAAGAGGTACTGCA	1	167	1
GAAGAGGTACTGCAGTGCAAGAAAACTTATA	1	184	1
AATGAAGTATCTGATTGGAAGATTTTCAGCT	1	232	1
          ******* ***
MAP Score: 4.64805

Motif 2
GAAGGGTGGATCAACTTTACAGATTAACTG	0	25	1
TGTTCCTTAATCTGCTTTACCATCATTGAC	1	41	1
TCATTTCTAAACTACTTTACGTGCACCACA	1	104	1
GTTTTCTTGCACTGCAGTACCTCTTCAAAT	1	180	0
ACTTCATTTTTCTATTCTACTAATATATAA	1	210	0
          **********
MAP Score: 3.08679

Motif 3
GGAAGGGTGGATCAACTTTACAGATTAACTGATTTTAAGGA	0	24	1
TTACAGATTAACTGATTTTAAGGAGGATTAGAAC       	0	41	1
     ACCCTGTTCATTTTATGAATGGTCTGCAGTCTGTTC	1	5	1
ATGATGGTAAAGCAGATTAAGGAACAGACTGCAGACCATTC	1	26	0
GGTGCACGTAAAGTAGTTTAGAAATGAGCTATAGATATACT	1	90	0
CGGACCCTGGAATGGATTTGAAGAGGTACTGCAGTGCAAGA	1	165	1
CTGCAGTGCAAGAAAACTTATATATTAGTAGAATAGAAAAA	1	193	1
AAAATGAAGTATCTGATTGGAAGATTTTCAGCTCGTTAGTT	1	230	1
CAGCTCGTTAGTTAGATTTAAATATAATCCGGCTAAATTTT	1	258	1
          *   * ** * * **   * *
MAP Score: 2.95633

Motif 4
CAACTTTACAGATTAACTGATTTTAAGGAGGATTAGAAC  	0	36	1
TTGCAGAAGAGTTTAAATGAGTCAATGATGGTAAAGCAGAT	1	50	0
ATCTCTCATGGATGGGGGGATCCCAGGGCGGACCCTGGAAT	1	137	1
CCCTGGAATGGATTTGAAGAGGTACTGCAGTGCAAGAAAAC	1	169	1
TGAAGTATCTGATTGGAAGATTTTCAGCTCGTTAGTTAGAT	1	234	1
          ****    **    * *  **
MAP Score: 1.29851