AlignACE 3.0 10/20/99
AlignACE2 -i TH/TH_operons006_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944244160
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	MTH709	300	GMP synthetase, subunit A
#1	MTH710	102	GMP synthetase, subunit B
#2	MTH736	133	conserved protein
#3	MTH848	103	protein-export membrane protein, SecF 
#4	MTH997	31	carbamoyl-phosphate synthase, large subunit 
#5	MTH1107	107	oxaloacetate decarboxylase, alpha subunit 
#6	MTH1127	90	dihydroorotase
#7	MTH1413	42	aspartate carbamoyltransferase
#8	MTH1415	175	ATP-dependent RNA helicase, eIF-4A family 
#9	MTH1445	64	glycinamide ribonucleotide synthetase
#10	MTH1476	127	tryptophan synthase, beta subunit homolog 
#11	MTH1655	78	anthranilate synthase component I
#12	MTH1660	37	tryptophan synthase, subunit alpha 
#13	MTH1917	189	biotin carboxylase

Motif 1
TAGCAGATGCGCAACCTGATTTAAACTCAT	0	38	0
GCATCTGCTACTCTCCAGATATGATTATTC	0	58	1
CAAGCTGATGCTATCCTGAATAATCATATC	0	75	0
AAGGACGAGTGCAACCAGAATGTAAATTAT	0	211	1
TATATCCACTGCCTCCATAATATTTAATTA	0	238	1
CCTGAAGGTACCCACCCTAACACGGGTCAG	1	17	1
AGAACACCGTCCATCCTTAACATTAAATAG	1	45	1
CTGATTGAATTCAACCCTAAAAA       	2	3	0
CAGGTAAAATTCATCCAGAATTCTCAATAC	2	48	0
AGCCATACCAGCAGCCATAACTGTAA    	3	87	1
         TTTATCCCCATTCCTCTCATC	4	20	0
CCATCCAGAACTATCCTTATTTATCTCGCG	6	25	0
ACCGTCCACTCCATCCAGAACTATCCTTAT	6	35	0
   CAGTACCCCTTCCAGATTTTCATATAT	7	25	0
TGAACACGCATCATCCCCAATAAACCCCCA	8	35	1
AAAGCCTCAGGTAACCTGATTTTCAGCACT	8	109	1
TATCACCTCTGTATCCACAAAGTACATATA	11	45	0
ATCTCAGGGCTCATCCATATCCCCCAAGAT	13	15	1
AGTCCCCATGTCATCCACATGGCAGTTACT	13	93	1
          **********
MAP Score: 14.5863

Motif 2
TCTTTTTATGAAATGAGTTTAAATCAGGTTGCGCAT	0	26	1
TACTCTCCAGATATGATTATTCAGGATAGCATCAGC	0	66	1
CCCCGCAGGAAGATGTATATGATGTATGCAATTATA	0	122	1
TTTACCGAATAATTAAATATTATGGAGGCAGTGGAT	0	241	0
GGTAAAATATAAATAGCTTTTCAGAATCAGAAGAGG	0	271	1
CCTTAACATTAAATAGATGTCCTGCAAGATAATAAA	1	59	1
ACGTTGTAGTACAGAGTTCTGATGAATTAATACATC	5	13	1
GAAGTTCCTACTATGTATATAAAGAATCTAATTGAT	5	64	1
CCTTTGATGTACATATATGTACAGTAAAGTTTTAAA	10	26	1
CCATGCAGTAAGATATCTTTAAAGAACTATTTAAAA	10	55	0
TACAGAGGTGATATGCATGTACAGGA          	11	62	1
          * ***  * * *** *
MAP Score: 8.54931

Motif 3
AACACTCCTTCCCCGCAGGAAGATGTATATGATGTAT	0	112	1
TGTTAGTGGTCCTTATAATTGCATACATCATATACAT	0	134	0
CGGGTAGCAGCCATACCAGAACATAGAAAGCGACAAC	0	171	1
TTATATTTTACCGAATAATTAAATATTATGGAGGCAG	0	246	0
CACCGTCCATCCTTAACATTAAATAGATGTCCTGCAA	1	49	1
TAAGGAAGTTCCTACTATGTATATAAAGAATCTAATT	5	60	1
ATTAATCTGTCCCGCGAGATAAATAAGGATAGTTCTG	6	13	1
CTGAAAGGAACCTGAACCTTAAATAAATTGATGACCA	8	137	1
TGACATATTTCCTATAAAATATATACTTTCAAATAA 	9	38	1
TTAACCATTCCCTTTGATGTACATATATGTACAGTAA	10	16	1
ACTATTTAAAACTTTACTGTACATATATGTACATCAA	10	29	0
ATCATCATTTCCATGCAGTAAGATATCTTTAAAGAAC	10	64	0
CACCTCTGTATCCACAAAGTACATATACACGGAGGTA	11	35	0
          **    * *** *** *
MAP Score: 7.02123

Motif 4
ATAAGGACCACTAACACGGGTAGCAGCCATA	0	155	1
TTTCTATGTTCTGGTATGGCTGCTACCCGTG	0	169	0
GCGACAACTGCAAGGACGAGTGCAACCAGAA	0	200	1
GGTACCCACCCTAACACGGGTCAGAACACCG	1	23	1
TCAAAAAAATCAAGGACTGGTTTACTCTTTG	2	112	0
GTTATGGCTGCTGGTATGGCTATGAGTGGCC	3	77	0
       TTACAGTTATGGCTGCTGGTATGG	3	89	0
ATATGAAAATCTGGAAGGGGTACTG      	7	27	1
CACCTCATGGCTGGAACTGGTCCCTACTGAT	10	104	0
          **** ******
MAP Score: 6.00804

Motif 5
TAGCAGCCATACCAGAACATAGAAAGCGACA	0	175	1
GACGAGTGCAACCAGAATGTAAATTATATCC	0	214	1
    ACTGGGACCTGAAGGTACCCACCCTAA	1	6	1
ATAAGATCCCACCAAAGAGTAAACCAGTCCT	2	100	1
TCATAGCCATACCAGCAGCCATAACTGTAA 	3	83	1
AGAACTCTGTACTACAACGTATA        	5	2	0
AATCTCTTAAACCTCAAACTAGGAAGGCCAA	8	80	1
AAATCAGGTTACCTGAGGCTTTGGCCTTCCT	8	100	0
ACTGAAAGGAACCTGAACCTTAAATAAATTG	8	136	1
TTTAAATAGTACCTCCGTGTATATGTACTTT	11	26	1
CACCTCTGTATCCACAAAGTACATATACACG	11	41	0
CTCCCAGCAAACCAGCAACCATGAACACATC	12	15	0
          ******* ***
MAP Score: 5.62605

Motif 6
ATCAAACACTCCTTCCCCGCAGGAAGATGTATATG	0	108	1
ACTGCAAGGACGAGTGCAACCAGAATGTAAATTAT	0	206	1
TAAATTATATCCACTGCCTCCATAATATTTAATTA	0	233	1
CCAGAATTCTCAATACCCTCAAAATACAGGGCTGA	2	29	0
CGGTTCAGGTAAAATTCATCCAGAATTCTCAATAC	2	48	0
AGTTTTTATAAGATCCCACCAAAGAGTAAACCAGT	2	93	1
CCACTCATAGCCATACCAGCAGCCATAACTGTAA 	3	79	1
CTGACACCGTCCACTCCATCCAGAACTATCCTTAT	6	35	0
GTTGAACACGCATCATCCCCAATAAACCCCCATTT	8	33	1
ACTAGGAAGGCCAAAGCCTCAGGTAACCTGATTTT	8	97	1
CAGTAGGGACCAGTTCCAGCCATGAGGTGAT    	10	106	1
   ACTCCCAGCAAACCAGCAACCATGAACACATC	12	15	0
CAGGGCTCATCCATATCCCCCAAGATACCTCCTTC	13	19	1
CCGTAAGTCCCCATGTCATCCACATGGCAGTTACT	13	88	1
          ***  *** ***  *
MAP Score: 5.42106

Motif 7
GAAAGCGACAACTGCAAGGACGAGTGCAAC	0	196	1
TATTGAGAATTCTGGATGAATTTTACCTGA	2	49	1
TAAGGATAGTTCTGGATGGAGTGGACGGTG	6	36	1
TATATGAAAATCTGGAAGGGGTACTG    	7	26	1
GATTTTCAGCACTGAAAGGAACCTGAACCT	8	126	1
AAGATATCTTACTGCATGGAAATGATGATT	10	72	1
          **********
MAP Score: 5.0351

Motif 8
ATATACATCTTCCTGCGGGGAAGGAGTGTTTGATAC	0	106	0
ACCCTCAAAATACAGGGCTGATTGAATTCAACCCTA	2	14	0
TGGCTGCTGGTATGGCTATGAGTGGCCTGTATGACT	3	68	0
ATAAGGATAGTTCTGGATGGAGTGGACGGTGTCAGA	6	35	1
TAACCTGATTTTCAGCACTGAAAGGAACCTGAACCT	8	120	1
AAAGATATCTTACTGCATGGAAATGATGATTTCATC	10	71	1
AGGGACCAGTTCCAGCCATGAGGTGAT         	10	110	1
ACTTTGTGGATACAGAGGTGATATGCATGTACAGGA	11	52	1
TGTTCATGGTTGCTGGTTTGCTGGGAGT        	12	19	1
ACTTACGGTAACCGGGTTTGCATTGATAGTAGATAG	13	60	0
          * * **  ***  ***
MAP Score: 4.9923

Motif 9
TATGATTATTCAGGATAGCATCAGCTTGAGTAT	0	77	1
TCCTGCGGGGAAGGAGTGTTTGATACTCAAGCT	0	99	0
  CGAATAAAAATGATTGATTTATTATCTTGCA	1	81	0
CCTCAAAATACAGGGCTGATTGAATTCAACCCT	2	15	0
CAAAAAAATCAAGGACTGGTTTACTCTTTGGTG	2	109	0
ATTTATCTCGCGGGACAGATTAATATT      	6	4	0
CGAGATAAATAAGGATAGTTCTGGATGGAGTGG	6	27	1
TGAGCCTTCAAAGGATAGTTCTGG         	6	76	1
TGTACATCAAAGGGAATGGTTAATAAACA    	10	6	0
CATATATGTACAGTAAAGTTTTAAATAGTTCTT	10	37	1
          ***** ** ** *
MAP Score: 4.9587

Motif 10
CACGGGTAGCAGCCATACCAGAACATAGAAA	0	169	1
CGCATTTTAAAGTCATACAGGCCACTCATAG	3	58	1
GGCCACTCATAGCCATACCAGCAGCCATAAC	3	77	1
CCATACCAGCAGCCATAACTGTAA       	3	89	1
          ********* *
MAP Score: 2.83473

Motif 11
ATACTCAAGCTGATGCTATCCTGAATAATCATATCTGGAGA	0	69	0
ATGTATATGATGTATGCAATTATAAGGACCACTAACACGGG	0	134	1
ACTGCAAGGACGAGTGCAACCAGAATGTAAATTATATCCAC	0	206	1
ATTTGACAGATGGGAGAAACTTTAAAGGTGATCGTCTTGAT	3	13	1
TCGTCTTGATTGACCGCATTTTAAAGTCATACAGGCCACTC	3	44	1
CTCATAGCCATACCAGCAGCCATAACTGTAA          	3	82	1
GGTGTCAGAATGCTTGAGCCTTCAAAGGATAGTTCTGG   	6	62	1
TTTTCAGCACTGAAAGGAACCTGAACCTTAAATAAATTGAT	8	128	1
ATGCATATCACCTCTGTATCCACAAAGTACATATACACGGA	11	39	0
         CTAACTGCACCTTGAAGTTTTAACAGATATAT	13	167	0
          **   * * *** **     *
MAP Score: 1.08384