AlignACE 3.0 10/20/99
AlignACE2 -i CP/CP_operons032_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944238447
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	ygbB	300	YgbB family hypothetical protein
#1	yaeI	247	phosphohydrolase
#2	pgsA_1	300	Glycerol-3-P Phosphatidyltransferase
#3	pgsA_2	300	Glycerol-3-P Phosphatydyltransferase

Motif 1
GCCTCTCTTTTTGCTATTAAGGAGTATTTCTCA	0	157	1
CTGGTATATGTTTTTTTTAAGAATTTCTTTCAC	0	271	0
CGCTGTTGACTTAGGCTTAAGAAAGCATGAGCT	1	20	1
AAAACTCCATTTTAAATTAAAGATCACTTTATA	1	95	0
AATGGAGTTTTTTCTATTAAGAAAAGAGGAATA	1	117	1
CTCAAGTTTCTCGTTTTTAAAGACCGGAAATTA	1	205	1
CGAAAGTACGTCCCTGCTAAGGACGCGTACCCC	2	25	1
CTTTTTCGTATTCTTTTTAAAGAAAGCCTAATA	2	139	1
ATGCGAGCAATTGATTTTAAGGAAAACACGACT	3	114	1
TTTTGTTCTAGCTTACTTAAGGAAACCCTATAG	3	191	0
          **  * *******
MAP Score: 9.07559

Motif 2
ATGGCCAGAGCCGGGATCGAACCGACGACACAA	0	21	1
CGCGTCCTTAGCAGGGACGTACTTTCGACCACT	2	19	0
CGTCCCTGCTAAGGACGCGTACCCCTAAAGGGT	2	33	1
TCGGAAAGAGAGGGATTCGAACCCTCGGTACCC	2	62	0
GAATACGAAAAAGGGTGCGAACTACAACTAGCT	2	119	0
ATATGTCAATGTAGAGCCGAACAGTTGCAAGAT	2	171	1
ATGCTCTATAATGGGGCCGAATTATAAGGTTCC	2	248	1
AAGGTTCCTAAAAGGATCGTACTAGTTAGCCAA	2	273	1
TGCCTTACTAAGAGGAAAGCACTGAAATCACAG	3	234	0
CATCTCATGGACAGACAAGAACCATATATTAGG	3	269	1
          * ***  ******
MAP Score: 7.25958

Motif 3
AAACTGAATGTTTTCCTATGATAACTGAGT	0	101	0
TCGCCTCTCTTTTTGCTATTAAGGAGTATT	0	155	1
AAAATGGAGTTTTTTCTATTAAGAAAAGAG	1	115	1
GCTTTTGAAGTATTCCTCTTTTCTTAATAG	1	130	0
GGCCCAAGAATTTTCCTATTATAGGTGATA	1	164	0
TTCGCACCCTTTTTCGTATTCTTTTTAAAG	2	131	1
AAATTAGAAAATTTTCTATTTAGCTTAGAG	3	53	1
GATTTCAGTGCTTTCCTCTTAGTAAGGCAC	3	238	1
          **********
MAP Score: 6.71063

Motif 4
TGCTCTACCATCTGAGCTATCTAGCCATTTGTACTCAGTT	0	69	1
TTCGCCTCTCTTTTTGCTATTAAGGAGTATTTCTCAAGAG	0	154	1
AATGCGTGAATTTTAGAAATTTTGTAGTATCTTCTGTGAA	0	236	1
GAGCTCTCATTCTGATATGTTAAGTACCCTGCCCTTTAGG	1	48	1
TAAAGTGATCTTTAATTTAAAATGGAGTTTTTTCTATTAA	1	97	1
TAATTTCCGGTCTTTAAAAACGAGAAACTTGAGACTATTT	1	198	0
        AATTTTGGCTAACTAGTACGATCCTTTTAGGA	2	278	0
TTGACAATATTTTCAATAATTTAGAAAAATTAGAAAATTT	3	27	1
ACCCTCTTGCTCTAAGCTAAATAGAAAATTTTCTAATTTT	3	52	0
CATGATCCATTTTTGTATATCGAGAACCCTCTTGCTCTAA	3	77	0
          ***    ***  ** *   *
MAP Score: 4.82196

Motif 5
ATTGATATTAAACTGAATGTTTTCCTATGATAACTG	0	104	0
TGAGATTTCGAATTCTTCGCCTCTCTTTTTGCTATT	0	139	1
TCTTTTTGCTATTAAGGAGTATTTCTCAAGAGAGTG	0	162	1
TATTCCAGTAATTTGTCAAACTTTCTCGCTACATCG	0	201	0
GGTATATGTTTTTTTTAAGAATTTCTTTCACAGAAG	0	266	0
TGATACTAAGCTTTTGAAGTATTCCTCTTTTCTTAA	1	133	0
CTACATTGACATATATTAGGCTTTCTTTAAAAAGAA	2	149	0
TAAATAGAAAATTTTCTAATTTTTCTAAATTATTGA	3	39	0
CTTCCTTTTAAATTCAAAGTTATCCTCGATCTTGTG	3	145	1
TGAATAAAATAACTATAGGGTTTCCTTAAGTAAGCT	3	179	1
GCAGACTGTGATTTCAGTGCTTTCCTCTTAGTAAGG	3	229	1
          ****    *  *****
MAP Score: 4.15158

Motif 6
ATCGAACCGACGACACAAGGATCTTCAATCCTC	0	36	1
AGGAGTATTTCTCAAGAGAGTGCTTCGATGTAG	0	176	1
GCTTCGATGTAGCGAGAAAGTTTGACAAATTAC	0	197	1
TAGGGCGGGGATATAAAGTGATCTTTAATTTAA	1	84	1
GGAAATTAGACAACAAATAGTTTTATA      	1	230	1
GGACGCGTACCCCTAAAGGGTACCGAGGGTTCG	2	45	1
GGTTATTCGGAAAGAGAGGGATTCGAACCCTCG	2	68	0
AAAAAGAATACGAAAAAGGGTGCGAACTACAAC	2	124	0
ATCTACAAACAAGCATAGAGTTCGCTCAAACGG	2	210	0
ATTATAAGGTTCCTAAAAGGATCGTACTAGTTA	2	268	1
TTTAGCTTAGAGCAAGAGGGTTCTCGATATACA	3	71	1
TTCTCGATATACAAAAATGGATCATGCGAGCAA	3	91	1
TGAATAAAATAACTATAGGGTTTCCTTAAGTAA	3	179	1
CCTACTCCCCTAATATATGGTTCTTGTCTGTCC	3	277	0
          * * * *******
MAP Score: 2.59203

Motif 7
GCCATTTGTACTCAGTTATCATAGGAAAACATTCAGTTTAATA	0	92	1
CAAGAGAGTGCTTCGATGTAGCGAGAAAGTTTGACAAATTACT	0	188	1
TAGAAATTTTGTAGTATCTTCTGTGAAAGAAATTCTTAAAAAA	0	249	1
GGGATATAAAGTGATCTTTAATTTAAAATGGAGTTTTTTCTAT	1	91	1
TTAAAATGGAGTTTTTTCTATTAAGAAAAGAGGAATACTTCAA	1	113	1
AAAGCTTAGTATCACCTATAATAGGAAAATTCTTGGGCCCCAT	1	155	1
GTTAGCCAAGGTAGAGGTTATTCGGAAAGAGAGGGATTCGAAC	2	73	0
ACCCTTTTTCGTATTCTTTTTAAAGAAAGCCTAATATATGTCA	2	136	1
AACCCTCTTGCTCTAAGCTAAATAGAAAATTTTCTAATTTTTC	3	50	0
GAGCAAGAGGGTTCTCGATATACAAAAATGGATCATGCGAGCA	3	80	1
TTAAAAGGAAGTCGTGTTTTCCTTAAAATCAATTGCTCGCATG	3	113	0
          **    * **    ****    *
MAP Score: 1.8937

Motif 8
GTTTAATATCAATGAGATTTCGAATTCTTCGCCTCTCTTTTTGCTA	0	127	1
TACATCGAAGCACTCTCTTGAGAAATACTCCTTAATAGCAAAAAGA	0	162	0
TGGAATAATGCGTGAATTTTAGAAATTTTGTAGTATCTTCTGTGAA	0	230	1
TCGCTGTTGACTTAGGCTTAAGAAAGCATGAGCTCTCATTCTGATA	1	19	1
AAATGGAGTTTTTTCTATTAAGAAAAGAGGAATACTTCAAAAGCTT	1	116	1
TAGTCTCAAGTTTCTCGTTTTTAAAGACCGGAAATTAGACAACAAA	1	201	1
GGTTCGAATCCCTCTCTTTCCGAATAACCTCTACCTTGGCTAACGC	2	72	1
CACCCTTTTTCGTATTCTTTTTAAAGAAAGCCTAATATATGTCAAT	2	135	1
GGGGCCGAATTATAAGGTTCCTAAAAGGATCGTACTAGTTAGCCAA	2	260	1
TAGAAAATTTTCTAATTTTTCTAAATTATTGAAAATATTGTCAAGC	3	25	0
CAAAGTTATCCTCGATCTTGTGAATAAAATAACTATAGGGTTTCCT	3	159	1
          * *    **  ****         **
MAP Score: 1.78186