AlignACE 3.0 10/20/99
AlignACE2 -i MT/MT_fusions026_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944250711
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	rocA	84	rocA
#1	gabD1	300	gabD1
#2	Rv3292	30	hypothetical protein Rv3292
#3	aldB	26	aldB

Motif 1
GGAGGATCCCGTTCAGCCAGGGCGTAGGCGCTGCGGCGTG	1	131	1
GAACGGGATCCTCCAGCCAGGGGATTGCCGAATCTCTCGC	1	105	0
CCAAACATTTGCGATGCCTGGGCGGGGATGCTGGCAGGC 	0	55	1
GTAACGTGCCGGGATCCCAAGGGACTGCCGGAAGCGAATT	1	43	1
AATACGGGTTGTGGGGCCAAGCCGTGCACGCCGCAGCGCC	1	157	0
 GGCCGGAGACTATCGCAACGGCAGTGCCGC         	2	9	1
GAATTTGGTTGCGCCGCTTGGGGCGTCGCGAGAGATTCGG	1	78	1
GCCTGCGATTGGTGACCAAAGGCATTCTCGACGAATGCCG	1	221	0
CATGAACATCGCGAGGCCGGTTCTTCGTGGTAACGTGCCG	1	14	1
TGGCCGATCAGACAAGATCTGGCGGACTTGCTAGTAGGAT	0	18	0
GCATTCTCGACGAATGCCGGGTTCTTCTTGTTCAGGTGGC	1	200	0
          *    ***  ***   * **
MAP Score: 21.0421

Motif 2
     GTTGTCCGATCCTACTAGCAAGTCCGCCAGATCTTG	0	5	1
TGTCTGATCGGCCAAACATTTGCGATGCCTGGGCGGGGATG	0	44	1
CATGAACATCGCGAGGCCGGTTCTTCGTGGTAACGTGCCGG	1	14	1
GTAACGTGCCGGGATCCCAAGGGACTGCCGGAAGCGAATTT	1	43	1
CCCCAAGCGGCGCAACCAAATTCGCTTCCGGCAGTCCCTTG	1	60	0
CAGGGGATTGCCGAATCTCTCGCGACGCCCCAAGCGGCGCA	1	87	0
CTGGCTGAACGGGATCCTCCAGCCAGGGGATTGCCGAATCT	1	110	0
CGTGCACGCCGCAGCGCCTACGCCCTGGCTGAACGGGATCC	1	134	0
TTGTTCAGGTGGCATCAATACGGGTTGTGGGGCCAAGCCGT	1	172	0
AGAAGAACCCGGCATTCGTCGAGAATGCCTTTGGTCACCAA	1	212	1
GGTCACCAATCGCAGGCCGATACTCTGTGCCCTAGACACCC	1	244	1
       GGCCGGAGACTATCGCAACGGCAGTGCCGC    	2	3	1
          ****  *    **   * * *
MAP Score: 14.8167

Motif 3
TGGCCGATCAGACAAGATCTGGCGGACTTGCTAGTAGGAT	0	18	0
GTCTGATCGGCCAAACATTTGCGATGCCTGGGCGGGGATG	0	45	1
      CTAACATGAACATCGCGAGGCCGGTTCTTCGTGG	1	4	1
GTTCTTCGTGGTAACGTGCCGGGATCCCAAGGGACTGCCG	1	33	1
GAATTTGGTTGCGCCGCTTGGGGCGTCGCGAGAGATTCGG	1	78	1
GAACGGGATCCTCCAGCCAGGGGATTGCCGAATCTCTCGC	1	105	0
CGCCGCAGCGCCTACGCCCTGGCTGAACGGGATCCTCCAG	1	129	0
GGGCGTAGGCGCTGCGGCGTGCACGGCTTGGCCCCACAAC	1	150	1
GTTCAGGTGGCATCAATACGGGTTGTGGGGCCAAGCCGTG	1	171	0
ACCTGAACAAGAAGAACCCGGCATTCGTCGAGAATGCCTT	1	203	1
AGGGCACAGAGTATCGGCCTGCGATTGGTGACCAAAGGCA	1	237	0
CACCTCTTTCGAAGAAATGCGGGTGTCTAGGGCACAGAGT	1	265	0
 GGCCGGAGACTATCGCAACGGCAGTGCCGC         	2	9	1
       CTGGGCTCGTAACGCGTCAGTGGTTA       	3	3	0
          *   **    *** * ** *
MAP Score: 13.4269

Motif 4
GATCCTACTAGCAAGTCCGCCAGATCTTGTCTG	0	17	1
CCAAACATTTGCGATGCCTGGGCGGGGATGCTG	0	55	1
CATGAACATCGCGAGGCCGGTTCTTCGTGGTAA	1	14	1
GCAGTCCCTTGGGATCCCGGCACGTTACCACGA	1	38	0
GGATCCCAAGGGACTGCCGGAAGCGAATTTGGT	1	54	1
TTGGTTGCGCCGCTTGGGGCGTCGCGAGAGATT	1	82	1
TCCAGCCAGGGGATTGCCGAATCTCTCGCGACG	1	101	0
CAGCGCCTACGCCCTGGCTGAACGGGATCCTCC	1	131	0
CAGGGCGTAGGCGCTGCGGCGTGCACGGCTTGG	1	148	1
CGGCGTGCACGGCTTGGCCCCACAACCCGTATT	1	164	1
GCATTCTCGACGAATGCCGGGTTCTTCTTGTTC	1	207	0
CGTCGAGAATGCCTTTGGTCACCAATCGCAGGC	1	228	1
GGTCACCAATCGCAGGCCGATACTCTGTGCCCT	1	244	1
  GCGGCACTGCCGTTGCGATAGTCTCCGGCC 	2	9	0
          *** ******  *
MAP Score: 12.8874

Motif 5
CCAAACATTTGCGATGCCTGGGCGGGGATGCTG	0	55	1
CATGAACATCGCGAGGCCGGTTCTTCGTGGTAA	1	14	1
TTCGCTTCCGGCAGTCCCTTGGGATCCCGGCAC	1	48	0
GAATTTGGTTGCGCCGCTTGGGGCGTCGCGAGA	1	78	1
GAGAGATTCGGCAATCCCCTGGCTGGAGGATCC	1	107	1
GGAGGATCCCGTTCAGCCAGGGCGTAGGCGCTG	1	131	1
GCTGCGGCGTGCACGGCTTGGCCCCACAACCCG	1	160	1
CCTTTGGTCACCAATCGCAGGCCGATACTCTGT	1	239	1
GAAGAAATGCGGGTGTCTAGGGCACAGAGTATC	1	262	0
GGAGACTATCGCAACGGCAGTGCCGC       	2	14	1
          ***  *** ****
MAP Score: 12.8194

Motif 6
CCCAGGCATCGCAAATGTTTGGCCGATCAGACAAG	0	42	0
CCAAACATTTGCGATGCCTGGGCGGGGATGCTGGC	0	55	1
 CTAACATGAACATCGCGAGGCCGGTTCTTCGTGG	1	9	1
TTCCGGCAGTCCCTTGGGATCCCGGCACGTTACCA	1	41	0
GAATTTGGTTGCGCCGCTTGGGGCGTCGCGAGAGA	1	78	1
GGATCCTCCAGCCAGGGGATTGCCGAATCTCTCGC	1	105	0
CAGCGCCTACGCCCTGGCTGAACGGGATCCTCCAG	1	129	0
TTCAGCCAGGGCGTAGGCGCTGCGGCGTGCACGGC	1	142	1
GGGTTGTGGGGCCAAGCCGTGCACGCCGCAGCGCC	1	157	0
CCTTTGGTCACCAATCGCAGGCCGATACTCTGTGC	1	239	1
AGGCCGATACTCTGTGCCCTAGACACCCGCATTTC	1	257	1
       GCGGCACTGCCGTTGCGATAGTCTCCGG	2	12	0
          **   *** * ****
MAP Score: 11.4589

Motif 7
     GTTGTCCGATCCTACTAGCAAGTCCGCCAGATCTT	0	5	1
CCAAACATTTGCGATGCCTGGGCGGGGATGCTGGCAGGC 	0	55	1
CATGAACATCGCGAGGCCGGTTCTTCGTGGTAACGTGCCG	1	14	1
GTAACGTGCCGGGATCCCAAGGGACTGCCGGAAGCGAATT	1	43	1
GAATTTGGTTGCGCCGCTTGGGGCGTCGCGAGAGATTCGG	1	78	1
CGAGAGATTCGGCAATCCCCTGGCTGGAGGATCCCGTTCA	1	106	1
GTGCACGCCGCAGCGCCTACGCCCTGGCTGAACGGGATCC	1	134	0
GTAGGCGCTGCGGCGTGCACGGCTTGGCCCCACAACCCGT	1	154	1
GGTGACCAAAGGCATTCTCGACGAATGCCGGGTTCTTCTT	1	211	0
GGTCACCAATCGCAGGCCGATACTCTGTGCCCTAGACACC	1	244	1
          ****  ** *  *   *  *
MAP Score: 4.507