AlignACE 3.0 10/20/99
AlignACE2 -i MP/MP_operons017_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944247364
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	araD	300	Mycoplasma pneumoniae, L-ribulose-5-phosphate 4-epimerase; similar to Swiss-Prot Accession Number P08203, from E. coli
#1	yjfS	300	Mycoplasma pneumoniae, hypothetical protein (yjfS) homolog; similar to Swiss-Prot Accession Number P39301, from E. coli
#2	yjfU	291	Mycoplasma pneumoniae, hypothetical phosphotransferase protein (yjfU) homolog; similar to Swiss-Prot Accession Number P39303, from E. coli

Motif 1
TCAGGGTGCTCTTTGGCTTCCGGACCCCAAT	0	79	1
ACTTAGTGGACTTGGGCTTTGTTAAACACAT	1	19	1
AACACATTACCCTGGCCTTAGATGCGGGGCG	1	43	1
TACCAAAACACTATGGTTTAGAAAAAGGGAA	1	81	1
CCAAAGCACTCCTTCCCTTTTTCTAAACCAT	1	93	0
GGAAGGAGTGCTTTGGGTTTGCATATCTGTT	1	108	1
TCGCTGAAATCCTGGCCTTTGATGCACCGCG	1	213	1
TGCTCCATCCCCTTGGTTTGTCCCATTGACA	2	136	0
CCCCAACAATCTTGGCCTTAGCATTCGGGTT	2	213	0
          ********* *
MAP Score: 10.8616

Motif 2
CCACCATGGTGGACAAATTACAAACACTCTTTAATAGCAG	0	16	1
GGTGCTCTTTGGCTTCCGGACCCCAATTCTTAATTAAATG	0	83	1
GATCGTGACAGTCACAAATACCTAAATCCTTAGGGTCAAT	0	122	1
AAATCCTTAGGGTCAATGTCCCCTAAAACTGTTCTTACAA	0	145	1
GATGCGGGGCGGGTACTGTACCAAAACACTATGGTTTAGA	1	63	1
GATGCACCGCGGCAGTTTAATCCCAAGGCTGTGCATCCAC	1	233	1
TTGTGGTAACGGCATGGGTACGAGCATGCTAATCAAGATT	2	44	1
CTTCCACTTTGGCGGTGTAGCCCAACTCCTTCATAATCTT	2	93	0
CACTTAACGAGTGAGTTTAACCCGAATGCTAAGGCCAAGA	2	195	1
CATCCATCAGGTTTAACACCCCAACAATCTTGGCCTTAGC	2	222	0
          **       **** **  **
MAP Score: 10.5532

Motif 3
CGATAACATCACAAAATCAGGGTGCTCTTTGGCT	0	63	1
GCGGCCATTAACACCATCTTGGTCGAAAATCTCG	1	182	1
CCTTGGGATTAAACTGCCGCGGTGCATCAAAGGC	1	227	0
TTTGTTAAACACATTACCCTGGCCTTAGATGCGG	1	36	1
GAGTTGGGCTACACCGCCAAAGTGGAAGCTTTGT	2	105	1
AATGTGTTTAACAAAGCCCAAGTCCACTAAGTAT	1	17	0
GCTAAGGCCAAGATTGTTGGGGTGTTAAACCTGA	2	222	1
       CTCCGACCACCATGGTGGACAAATTAC	0	3	1
AGTAGCTTACACATTATTAGGGTTATTTCAATAC	0	223	0
GTACTGTACCAAAACACTATGGTTTAGAAAAAGG	1	75	1
GCGCTGTGCTCCATCCCCTTGGTTTGTCCCATTG	2	139	0
ACAAATACCTAAATCCTTAGGGTCAATGTCCCCT	0	135	1
GAGTTTAACCCGAATGCTAAGGCCAAGATTGTTG	2	207	1
AGCATGCTAATCAAGATTAAGGTTGAAAAGATTA	2	66	1
ATCATTTAATTAAGAATTGGGGTCCGGAAGCCAA	0	91	0
AATGGACGTTAAATGGTTTAAGTGTATTGAAATA	0	200	1
GCATCAAAGGCCAGGATTTCAGCGAGATTTTCGA	1	204	0
          ***  ***  ****
MAP Score: 8.5661

Motif 4
ATTACAAACACTCTTTAATAGCAGCTTCATTCGATAA	0	32	1
GTGACAGTCACAAATACCTAAATCCTTAGGGTCAATG	0	126	1
GGGTCAATGTCCCCTAAAACTGTTCTTACAAATCTTT	0	154	1
CTTTGTTAAACACATTACCCTGGCCTTAGATGCGGGG	1	35	1
ACCCAAAGCACTCCTTCCCTTTTTCTAAACCATAGTG	1	89	0
TTCCGATGCGGCCATTAACACCATCTTGGTCGAAAAT	1	175	1
CGGGTATTAGCACTTAAAAAACAACTAAAAATAGAGT	1	272	1
GATTAGCATGCTCGTACCCATGCCGTTACCACAAGCG	2	41	0
TGTAGCCCAACTCCTTCATAATCTTTTCAACCTTAAT	2	81	0
TTCCTCGATTCACTTAACGAGTGAGTTTAACCCGAAT	2	185	1
   CTTAAAGCACCTTACTTAACGCTTGCTTAATTTC	2	267	0
          * * **** *    ***
MAP Score: 3.52638

Motif 5
ACCATGGTGGACAAATTACAAACACTCTTT	0	18	1
CCAGTAGCTTACACATTATTAGGGTTATTT	0	229	0
ACTGTTAATGGCAAATTATCCAGTAGCTTA	0	248	0
GCTTTGTTAAACACATTACCCTGGCCTTAG	1	34	1
ATAAGAACTTACACATTATTGCCGCTTGTG	2	19	1
    CTTAAAGCACCTTACTTAACGCTTGC	2	275	0
          **********
MAP Score: 2.85487

Motif 6
AACACATTACCCTGGCCTTAGATGCGGGGCGGGTACTGTAC	1	43	1
TCGCTGAAATCCTGGCCTTTGATGCACCGCGGCAGTTTAAT	1	213	1
CAGTTTAATCCCAAGGCTGTGCATCCACGGGTATTAGCACT	1	245	1
ATGCTCGTACCCATGCCGTTACCACAAGCGGCAATAATGTG	2	30	0
ATGGGACAAACCAAGGGGATGGAGCACAGCGCTGACATTAT	2	141	1
          **  ***   *   *   ***
MAP Score: 2.46501

Motif 7
AACACATTACCCTGGCCTTAGATGCGGGGCGGGTACTGTAC	1	43	1
TCGCTGAAATCCTGGCCTTTGATGCACCGCGGCAGTTTAAT	1	213	1
TTTGATGCACCGCGGCAGTTTAATCCCAAGGCTGTGCATCC	1	230	1
AGTTTAATCCCAAGGCTGTGCATCCACGGGTATTAGCACTT	1	246	1
ATTCACTTAACGAGTGAGTTTAACCCGAATGCTAAGGCCAA	2	192	1
GCCAAGATTGTTGGGGTGTTAAACCTGATGGATGAAAACGA	2	228	1
          *  *** **  *  * *   *
MAP Score: 1.73587

Motif 8
AAACACTCTTTAATAGCAGCTTCATTCGAT	0	37	1
AAGATGGTGTTAATGGCCGCATCGGAAACT	1	172	0
CCTTGGGATTAAACTGCCGCGGTGCATCAA	1	231	0
AACTTACACATTATTGCCGCTTGTGGTAAC	2	24	1
GAGGAAATAATAATGTCAGCGCTGTGCTCC	2	161	0
          **********
MAP Score: 1.58576