AlignACE 3.0 10/20/99
AlignACE2 -i TH/TH_operons028_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944245274
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	MTH531	291	UDP-N-acetylmuramyl tripeptide synthetase related protein
#1	MTH532	28	UDP-N-acetylmuramyl tripeptide synthetase related protein
#2	MTH533	41	unknown
#3	MTH735	88	phospho-N-acetylmuramoyl-pentapeptide-transferase
#4	MTH736	133	conserved protein
#5	MTH1676	235	cell division protein FtsZ
#6	MTH1677	120	protein translocation complex sec61 gamma subunit related protein
#7	MTH1678	26	transcription termination factor NusG
#8	MTH1691	113	conserved protein
#9	MTH1885	300	sodium-dependent phosphate transporter

Motif 1
ATAGGTAGAGTGTCTATGGGTGGATACATATC	0	101	1
TACCTATGGATCATTCGGTGGGATATCTACCA	0	166	0
ACTACCTCGGTCAGGACGGGTGCCATCAGGTG	0	203	1
       GGGTAACTGTGGGGGCCAATGATCC	3	3	1
TCATAACATGTCATGATGGGGGGTCCCGCCCA	5	15	1
ATGAATATCATGAATCTGGGCGGGACCCCCCA	5	31	0
AAATACCGGCTCAAGGTTGGGGCAAAATAAAA	5	84	0
AAATTAAAAATCAATTTCTGTGACCTCTGAAA	5	114	0
ATTTCATAGATAAGTGTGGGGGTAGTAA    	5	217	1
AGGTTTTCCTTGAGTGGGGGTGTGTGGAAGAA	6	12	0
TTTAACTATATAAATAGCGGGGATAAACC   	6	101	1
 AGATATATATGATTAGGTGTGCCGGTTTTCG	8	92	0
CCATCGGCCCTGATGGTCGGTGTCGAAGCCTC	9	68	0
ATGGCGCGGTTGAAGTTCGGGGGACGGCTGAT	9	107	0
          *** * ******
MAP Score: 20.0233

Motif 2
TTCATGGATTACTGAGCCAGATGCCTGACC	0	33	1
GAGCCAGATGCCTGACCCGGGATCTGATAG	0	46	1
ACCTAAAGATCCTCACCCGGGAGGATATGT	0	126	0
TGGCACCCGTCCTGACCGAGGTAGTGGGTG	0	198	0
GGCCAATGATCCTGAACTGCTTGAACTGGT	3	23	1
ATGAATTTTACCTGAACCGGTCAAGATTAA	4	64	1
TTGCCCCAACCTTGAGCCGGTATTTTCAGA	5	91	1
GATGGTTTACCCTGACCCTCCAGTCAGGGC	9	13	1
CCCCATCACCACTGATCCTGCGGGACGAGG	9	42	1
GTCCCCCGAACTTCAACCGCGCCATATAGG	9	114	1
ACAGAGGACCCCTAACCCTCCGGTCTAGCC	9	156	1
          **********
MAP Score: 14.451

Motif 3
GAGGCTTCGACACCGACCATCAGGGCCGAT	9	68	1
AGATGGTTTACCCTGACCCTCCAGTCAGGG	9	12	1
CACCTGATGGCACCCGTCCTGACCGAGGTA	0	205	0
ATTGACTGTCCATCGGCCCTGATGGTCGGT	9	79	0
  TATTCTTCCACACACCCCCACTCAAGGA	6	8	1
ATCTCTGAATCACCGGCCTTTTTGCTTATA	9	224	0
ATTACTCCATCACTCATCCCAATCCTAGCC	6	64	1
TACAGAGGACCCCTAACCCTCCGGTCTAGC	9	155	1
GCCCCATCACCACTGATCCTGCGGGACGAG	9	41	1
TGGGCGGGACCCCCCATCATGACATGTTAT	5	17	0
    TTACTACCCCCACACTTATCTATGAA	5	219	0
TTTTATTTTGCCCCAACCTTGAGCCGGTAT	5	84	1
AGTTCAGGATCATTGGCCCCCACAGTTACC	3	11	0
ACCTTTATGTCAACCACCACACCACGAAAA	8	68	1
TCCATAGGTACACCCACTACCTCGGTCAGG	0	188	1
AACACCTTTACATCAACCACTACAACCACG	8	13	1
        ATCACCTGCCTTCTGTGTACAT	3	76	0
          **********
MAP Score: 13.8349

Motif 4
TATAGGTAGAGTGTCTATGGGTGGATACATATC	0	100	1
GGTAGTGGGTGTACCTATGGATCATTCGGTGGG	0	176	0
CACTACCTCGGTCAGGACGGGTGCCATCAGGTG	0	202	1
TTTAATAAAAACGTTTATGGGTGCATTTAA   	0	271	1
        GGGTAACTGTGGGGGCCAATGATCC	3	2	1
TTCATAACATGTCATGATGGGGGGTCCCGCCCA	5	14	1
GGTTAATCTGGCACCGATGGAGCCATGGCTCAC	5	151	0
TATTTCATAGATAAGTGTGGGGGTAGTAA    	5	216	1
TTTTCCTTGAGTGGGGGTGTGTGGAAGAATA  	6	8	0
AAGGGCTAGGATTGGGATGAGTGATGGAGTAAT	6	64	0
         CATCTGGATGGGTTAAGGTCTGTA	7	1	1
CGCAGGATCAGTGGTGATGGGGCCCTGACTGGA	9	31	0
          **   ********
MAP Score: 10.185

Motif 5
TATCTTTATAGGTAGAGTGTCTATGGGTGGATACATATCCT	0	94	1
ATATCCTCCCGGGTGAGGATCTTTAGGTAGACTGCCTCTGG	0	128	1
GACTGCCTCTGGTAGATATCCCACCGAATGATCCATAGGTA	0	157	1
TCCTGACCGAGGTAGTGGGTGTACCTATGGATCATTCGGTG	0	178	0
ACCTCGGTCAGGACGGGTGCCATCAGGTGACTCTTATTCAC	0	206	1
GTATTTTGAGGGTATTGAGAATTCTGGATGAATTTTACCTG	4	37	1
TCATGAATCTGGGCGGGACCCCCCATCATGACATGTTATGA	5	15	0
TAAAAGCAACGGTTAATCTGGCACCGATGGAGCCATGGCTC	5	153	0
GGTTTTCCTTGAGTGGGGGTGTGTGGAAGAATA        	6	2	0
     CATCTGGATGGGTTAAGGTCTGTAGA          	7	5	1
CACGAAAACCGGCAGGGTGATCATTGCAAACCTTTATGTCA	8	39	1
GATCAGTGGTGATGGGGCCCTGACTGGAGGGTCAGGGTAAA	9	18	0
CGCGGTTGAAGTTCGGGGGACGGCTGATTGACTGTCCATCG	9	94	0
TAGACCGGAGGGTTAGGGGTCCTCTGTAAGCGCAAATCCCC	9	142	0
TAAGCAAAAAGGCCGGTGATTCAGAGATTGAGCTGTCTGCG	9	226	1
          **  ***      * * * **
MAP Score: 9.44519

Motif 6
CATGGATTACTGAGCCAGATGCCTGACCCGGGATCTG	0	35	1
CTAAAGATCCTCACCCGGGAGGATATGTATCCACCCA	0	117	0
TCCCACCGAATGATCCATAGGTACACCCACTACCTCG	0	175	1
TGGGGGCCAATGATCCTGAACTGCTTGAACTGGTCAT	3	19	1
AAATTATTGATGGTCCACGTGGCCATGAATATCATGA	5	50	0
GCCCCAACCTTGAGCCGGTATTTTCAGAGGTCACAGA	5	93	1
ATTTTGAATGTGAGCCATGGCTCCATCGGTGCCAGAT	5	142	1
CACCTTTACATCAACCACTACAACCACGAAAACCGGC	8	15	1
TTTGCAATGATCACCCTGCCGGTTTTCGTGGTTGTAG	8	32	0
AACCTTTATGTCAACCACCACACCACGAAAACCGGCA	8	67	1
TGGTTTACCCTGACCCTCCAGTCAGGGCCCCATCACC	9	15	1
CCATCACCACTGATCCTGCGGGACGAGGCTTCGACAC	9	44	1
CGATGGACAGTCAATCAGCCGTCCCCCGAACTTCAAC	9	94	1
CCCCCGAACTTCAACCGCGCCATATAGGGGATTTGCG	9	116	1
AGAGGACCCCTAACCCTCCGGTCTAGCCCATTTTACT	9	158	1
          *** ** *  * **  *
MAP Score: 9.33192

Motif 7
CCACCGAATGATCCATAGGTACACCCACTACCTCGGTCAGG	0	177	1
TATAAGATCCCACCAAAGAGTAAACCAGTCCTTGATTTTTT	4	99	1
TTTGAATGTGAGCCATGGCTCCATCGGTGCCAGATTAACCG	5	144	1
GGATAGATTACTCCATCACTCATCCCAATCCTAGCCCTTGT	6	58	1
     CGGAACACCTTTACATCAACCACTACAACCACGAAA	8	5	1
GATCATTGCAAACCTTTATGTCAACCACCACACCACGAAAA	8	57	1
TCAACCACCACACCACGAAAACCGGCACACCTAATCATATA	8	77	1
TACCCTGACCCTCCAGTCAGGGCCCCATCACCACTGATCCT	9	20	1
AATCAGCCGTCCCCCGAACTTCAACCGCGCCATATAGGGGA	9	106	1
          * **       ** ***  **
MAP Score: 8.30325

Motif 8
       ATCACCTCTAACACTCCAGGGAG	0	3	1
ATCCATAGGTACACCCACTACCTCGGTCAG	0	187	1
AATTCTCAATACCCTCAAAATACAGGGCTG	4	30	0
CTGGGCGGGACCCCCCATCATGACATGTTA	5	18	0
GGCCACGTGGACCATCAATAATTTTATTTT	5	63	1
     TTACTACCCCCACACTTATCTATGA	5	220	0
TCTTCCACACACCCCCACTCAAGGAAAACC	6	13	1
CACCTTTACATCAACCACTACAACCACGAA	8	15	1
AACCACTACAACCACGAAAACCGGCAGGGT	8	27	1
CAACCACCACACCACGAAAACCGGCACACC	8	78	1
GAAAACCGGCACACCTAATCATATATATCT	8	93	1
AAGATGGTTTACCCTGACCCTCCAGTCAGG	9	11	1
CAGTCAGGGCCCCATCACCACTGATCCTGC	9	33	1
CGAGGCTTCGACACCGACCATCAGGGCCGA	9	67	1
CTTACAGAGGACCCCTAACCCTCCGGTCTA	9	153	1
          **********
MAP Score: 5.46955

Motif 9
CCCGGGTGAGGATCTTTAGGTAGACTGCCTCTGGTA	0	135	1
CCCACCGAATGATCCATAGGTACACCCACTACCTCG	0	176	1
AGGATCATTGGCCCCCACAGTTACCC          	3	0	0
TGCCTTCTGTGTACATCAAGATCACCAAGTTTTTTA	3	56	0
GATCTTATAAAAACTTAATCTTGACCGGTTCAGGTA	4	72	0
TATAAGATCCCACCAAAGAGTAAACCAGTCCTTGAT	4	99	1
TCATGATATTCATGGCCACGTGGACCATCAATAATT	5	50	1
CCACACACCCCCACTCAAGGAAAACCTTTATAAATC	6	17	1
     CGGAACACCTTTACATCAACCACTACAACCA	8	5	1
GATCATTGCAAACCTTTATGTCAACCACCACACCAC	8	57	1
ATGTCAACCACCACACCACGAAAACCGGCACACCTA	8	74	1
AATCAGCCGTCCCCCGAACTTCAACCGCGCCATATA	9	106	1
TAGGGGATTTGCGCTTACAGAGGACCCCTAACCCTC	9	140	1
          ** *   * ** ****
MAP Score: 1.00491