AlignACE 3.0 10/20/99
AlignACE2 -i TH/TH_fusions006_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944243058
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	MTH75	197	surface protease related protein
#1	MTH88	160	unknown
#2	MTH359	183	conserved protein
#3	MTH845	170	conserved protein
#4	MTH977	300	endo-1,4-beta-glucanase related protein
#5	MTH1513	300	cell surface glycoprotein (s-layer protein) related protein
#6	MTH1825	159	cell surface glycoprotein

Motif 1
         ACTCCTCAAGAATCATTATGTA	0	1	1
CACTTACCATCCCCCCCAGATGGGCAAAGAG	0	67	0
AGAAACAGCTCACCCCAAGGATTCCAACCTA	1	42	0
ACTGTAATACCGACTCCAGAAACAGCTCACC	1	59	0
TTTTTACCTGCAGCCCCTGTAACTGTAATAC	1	80	0
ATTTTACCGCAACCCCCAGAAACCAGAAACC	2	67	1
GCTAATATTTCTGCCCCTGATTTTATTTATA	2	115	0
GATATACTATCGCCTCCAGAATGCAGGACGG	2	155	0
 GGGGAAGATATCCCCATGGACAGTTAAAGG	3	150	0
AGATTATGGCCCCCCCCAGATCCAGTCTCAG	4	101	0
     GTTTTCACCTCCACATTATCATCAGA	4	284	0
CAGTATTAATCAGCCTCAGAAAACATCCGGA	5	118	0
CGCTACTGCCCCCCCCCTGAAGATCCTCTCA	6	59	1
          * *********
MAP Score: 23.5124

Motif 2
GTAATACCGACTCCAGAAACAGCTCACCCC	1	57	0
TTACCTGCAGCCCCTGTAACTGTAATACCG	1	78	0
TGTTAAGGAACACCAGAAAAAA        	1	148	1
        GAACCCTGAAAAACCGGATACA	2	2	1
TTACCGCAACCCCCAGAAACCAGAAACCAG	2	70	1
AGAAACCAGAAACCAGAAAAAGATCACAAT	2	84	1
CTTCTCTGATATCCTGAAAACGACACATCA	5	28	1
GGAGCATCAGCAGCTGAAAATTCGTTATAT	5	91	0
TATTAATCAGCCTCAGAAAACATCCGGAGC	5	116	0
 AGAACATTCCTCCTGTAAAAGATATCCTC	6	9	1
TAAAAGATATCCTCAGAACAGAATATATAA	6	25	1
TACTGCCCCCCCCCTGAAGATCCTCTCAGA	6	62	1
          **********
MAP Score: 15.0035

Motif 3
TAAAAAAATAATTACATATACTTTTTTATTAAAAATTGTAGC	4	11	0
CACTTCAAACATGACTGACAATTTTTTATTAAAAAAATAATT	4	40	0
ACTTCATGAAAACATCCAGTTTATTTTTTTGAAGTGTAAAGA	5	201	1
AGATATATTTAATATAAAAATTTTTTTGTTTAACTGGAATCA	4	234	0
TATAATGAATATAATTTACGGTTTGATCTTGAAATTAAGAAA	5	246	0
CTGGAATCATAAGACTTAAGTTCTGTTATTAATTTAAATCTT	4	201	0
TTGTAATGATGGGATTCATGCTCTTGTCTTAAATCCCACCTT	0	119	1
TTTCGCCCCTAAAAGAGATAGTAATCTTTTTATACTATA   	0	168	1
GAATCATTATGTAAACAAGAATCATTTTATGACAGCAATATA	0	19	1
GTGACTGTATATAACGAATTTTCAGCTGCTGATGCTCCGGAT	5	83	1
          *  *   *   * ** * ** *
MAP Score: 5.28415

Motif 4
TCCCATCATTACAAGCTTAAACAGGAAAAAA	0	102	0
GAAAAAGATCACAATTTATAAATAAAATCAG	2	99	1
CGTGGCCACCAAAATTTATAAGTATTTCATG	3	114	1
TATTTCATGGACAACCTTTAACTGTCCATGG	3	136	1
      AGCTACAATTTTTAATAAAAAAGTA	4	4	1
AACATGACTGACAATTTTTTATTAAAAAAAT	4	44	0
ATGGTTCATACCAATTTTTAATGTACTTGAC	4	149	1
AGTTAAACAAAAAAATTTTTATATTAAATAT	4	241	1
AATAAGAGGGACAATCTAAAAAGGATTTTTA	5	165	0
          **** ******
MAP Score: 4.91135

Motif 5
CACTTACCATCCCCCCCAGATGGGCAAAGA	0	68	0
ACCCCAAGGATTCCAACCTAAATAGCTTCC	1	32	0
ATTTTTTTACCTGCAGCCCCTGTAACTGTA	1	84	0
TCTAATTTTACCGCAACCCCCAGAAACCAG	2	63	1
GCTAATATTTCTGCCCCTGATTTTATTTAT	2	116	0
GATATACTATCGCCTCCAGAATGCAGGACG	2	156	0
GGGTGGGAGGCCCCACCATACCCTCGCAGA	3	59	0
ATGGTGGGGCCTCCCACCCATATAATGTCC	3	70	1
AGATTATGGCCCCCCCCAGATCCAGTCTCA	4	102	0
CTGAAATATTCTGCCACCGAAGCCGTGACT	5	59	1
ATCACCGCTACTGCCCCCCCCCTGAAGATC	6	54	1
          **********
MAP Score: 2.72363

Motif 6
GTAAACAAGAATCATTTTATGACAGCAATATAAG	0	29	1
   CTTTAGGAGTATTTAATGATCTGGAAGCTAT	1	7	1
 CTATACCCACCTATATAATGTCCATCACTGACC	3	9	1
GGGCCTCCCACCCATATAATGTCCATCACTGACC	3	76	1
AAAATTTATAAGTATTTCATGGACAACCTTTAAC	3	124	1
ACCTAGAAATAGCAGATTATGGCCCCCCCCAGAT	4	111	0
GGTTCATACCAATTTTTAATGTACTTGACTTGAA	4	151	1
ATATCTATCTAATATCTGATGATAATGTGGAGGT	4	270	1
ACGAATTTTCAGCTGCTGATGCTCCGGATGTTTT	5	96	1
CTCAGAACAGAATATATAATCACCGCTACTGCCC	6	36	1
          * *** * *** **
MAP Score: 2.25915

Motif 7
ACATAATGATTCTTGAGGAGT         	0	1	0
TCTTTGCCCATCTGGGGGGGATGGTAAGTG	0	68	1
GTGAGCTGTTTCTGGAGTCGGTATTACAGT	1	60	1
AACGTACAGATTAGCAGAGGCAATTATGTT	1	122	1
TGTATCCGGTTTTTCAGGGTTC        	2	2	0
AAAGCCCCTATTTTGAGACTCTTTTTGTGT	2	31	0
CGTCCTGCATTCTGGAGGCGATAGTATATC	2	156	1
ACCTGGGTACTCTGGATAGTCTGCGAGGGT	3	40	1
CTGAGACTGGATCTGGGGGGGGCCATAATC	4	101	1
TTAATTTAAATCTTGAGAATTTACATATAA	4	185	0
CTGATGATAATGTGGAGGTGAAAAC     	4	285	1
TGATGTGTCGTTTTCAGGATATCAGAGAAG	5	28	0
CTGCTGATGCTCCGGATGTTTTCTGAGGCT	5	108	1
TCCGGATGTTTTCTGAGGCTGATTAATACT	5	118	1
ATATATTCTGTTCTGAGGATATCTTTTACA	6	23	0
TCTGAGAGGATCTTCAGGGGGGGGGCAGTA	6	62	0
CTTTGAAGTGTTCTGAGAGGATCTTCAGGG	6	73	0
          **********
MAP Score: 0.0106663