AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID052_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391721
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	yabB	300	orf, hypothetical protein
#1	murC	53	L-alanine adding enzyme, UDP-N-acetyl-muramate:alanine ligase
#2	ftsZ	60	cell division; forms circumferential ring; tubulin-like GTP-binding protein and GTPase
#3	ddlA	300	D-alanine-D-alanine ligase A
#4	murB	300	UDP-N-acetylenolpyruvoylglucosamine reductase

Motif 1
GCTTGTCAAGCCAGTCACAAGGCATACCGAGGTA	0	204	0
TAAATTCATACGATGCAAAAGGCATCGCTACAA 	1	9	0
GATTACGGCCTCAGGCGACAGGCACAAATCGGAG	2	29	1
ATTGCAACAATCTTTCAGAAGGCCGCGAATCCCC	3	223	1
      CAAATAAAACGAAAGGCTCAGTCGAAAG	4	4	1
AAACAACAGATAAAACGAAAGGCCCAGTCTTTCG	4	32	0
ACGCCCGCCATAAACTGCCAGGCATCAAATTAAG	4	153	1
AGGCATCAAATTAAGCAGAAGGCCATCCTGACGG	4	172	1
CGCAAAAAGGCCATCCGTCAGGATGGCCTTCTGC	4	186	0
GGCTTGTAGATATGACGACAGGAAGAGTTTGTAG	4	223	0
CTAGCCTCGTTTTTGCATCAGGAAAGCAGCT   	4	279	1
          * *  ** ******
MAP Score: 15.2012

Motif 2
TAAAATGCCGCTCGCGTCGCAAACTGACACTT	0	25	1
AAGAAAAAATCCCTCATCGTCATCACCGTTTT	0	89	0
ATAACGTTAATTTGCTTCGCACGTTGGACGTA	0	131	1
TGCCTTGTGACTGGCTTGACAAGCTTTTCCTC	0	214	1
AAGCTTTTCCTCAGCTCCGTAAACTCCTTTCA	0	234	1
TTATTCCCACTTTGCCCCACAATTTCCCACTG	0	264	0
         GCCAGCCTCACCCCTTATTCCCA	0	287	0
AGCGATGCCTTTTGCATCGTATGAATTTAAGA	1	14	1
GTAATCATCGTCGGCCTCATAAAAA       	2	3	0
ATGAAATATATTCTCTTCGTTAACTTATAATT	3	54	1
AGATAACGCACTTTCTTCACCAGTACGTTGCA	3	174	1
ATCCCCCGTTTTGTCGTGGTAATGTATGCACT	3	251	1
CCTCCGGGCCGTTGCTTCGCAACGTTCAAATC	4	109	0
CAAACTCTTCCTGTCGTCATATCTACAAGCCA	4	226	1
ATACGGTAAACTAGCCTCGTTTTTGCATCAGG	4	269	1
          ** ** ******
MAP Score: 8.24192

Motif 3
GGGAAGATATGTCCTAAAATGCCGCTCGCGTC	0	11	1
TGCCGCTCGCGTCGCAAACTGACACTTTATAT	0	30	1
TCGCACGTTGGACGTAAAATAAACAACGCTGA	0	147	1
GCTGATATTAGCCGTAAACATCGGGTTTTTTA	0	174	1
TTTCCTCAGCTCCGTAAACTCCTTTCAGTGGG	0	239	1
   TCTTTACGCCATTAACTTCTTAAATTCAT	1	34	0
GTCGCCTGAGGCCGTAATCATCGTCGGCCTCA	2	16	0
ATATATTCTCTTCGTTAACTTATAATTAAGAG	3	59	1
GTGAAGAAAGTGCGTTATCTCAAAGATGTGCG	3	162	0
CAGGACGCCCGCCATAAACTGCCAGGCATCAA	4	149	1
          * ******** *
MAP Score: 7.4077

Motif 4
TAAAATGACTCACTATTTTCCACAGCAAATA	0	59	0
GGTTTTTTACCTCGGTATGCCTTGTGACTGG	0	197	1
ACTGGCTTGACAAGCTTTTCCTCAGCTCCGT	0	223	1
CACTTTGCCCCACAATTTCCCACTGAAAGGA	0	258	0
ACCCCTTATTCCCACTTTGCCCCACAATTTC	0	270	0
CAGTACGTTGCACGCTTTGTCAGCAGAAGAT	3	194	1
CCGCGAATCCCCCGTTTTGTCGTGGTAATGT	3	245	1
AAACGAAAGGCCCAGTCTTTCGACTGAGCCT	4	23	0
TGCGTTTCTACAAACTCTTCCTGTCGTCATA	4	216	1
GTAAACTAGCCTCGTTTTTGCATCAGGAAAG	4	274	1
          **** ******
MAP Score: 5.70461

Motif 5
ATGTCCTAAAATGCCGCTCGCGTCGCAAACTG	0	19	1
        GCCAGCCTCACCCCTTATTCCCAC	0	286	0
ACGATGATTACGGCCTCAGGCGACAGGCACAA	2	24	1
ACGTTCAAATCCGCTCCCGGCGGATTTGTCCT	4	88	0
GGCGTCCTGCCCGCCACCCTCCGGGCCGTTGC	4	126	0
GGTGGCGGGCAGGACGCCCGCCATAAACTGCC	4	140	1
AAACGCAAAAAGGCCATCCGTCAGGATGGCCT	4	191	0
TCATATCTACAAGCCATCCCCCCACAGATACG	4	242	1
          * *** ******
MAP Score: 5.50199

Motif 6
GGGAAGATATGTCCTAAAATGCCGCTCGCGTCGC	0	11	1
TGCCGCTCGCGTCGCAAACTGACACTTTATATTT	0	30	1
TATATTTGCTGTGGAAAATAGTGAGTCATTTTAA	0	57	1
GCTGATATTAGCCGTAAACATCGGGTTTTTTACC	0	174	1
ACTCCTTTCAGTGGGAAATTGTGGGGCAAAGTGG	0	256	1
GTGGGGCAAAGTGGGAATAAGGGGTGAGGCTGGC	0	276	1
ATACATTACCACGACAAAACGGGGGATTCGCGGC	3	244	0
CAGGACGCCCGCCATAAACTGCCAGGCATCAAAT	4	149	1
GTTTGTAGAAACGCAAAAAGGCCATCCGTCAGGA	4	197	0
TGCTTTCCTGATGCAAAAACGAGGCTAGTTTACC	4	273	0
          **** ***  * **
MAP Score: 4.84909

Motif 7
ATGACGATGAGGGATTTTTTCTTACAGCTATT	0	98	1
CGTAAACATCGGGTTTTTTACCTCGGTATGCC	0	186	1
CCCCTTATTCCCACTTTGCCCCACAATTTCCC	0	268	0
TTGTAGCGATGCCTTTTGCATCGTATGAATTT	1	10	1
 AGTTTCTCTCCGATTTGTGCCTGTCGCCTGA	2	39	0
GACAAAACGGGGGATTCGCGGCCTTCTGAAAG	3	234	0
CGCGAATCCCCCGTTTTGTCGTGGTAATGTAT	3	246	1
GGTAATGTATGCACTTTGTGTTAGACGGGATA	3	268	1
TTTCGACTGAGCCTTTCGTTTTATTTG     	4	5	0
GAAAGACTGGGCCTTTCGTTTTATCTGTTGTT	4	33	1
CCGCTCCCGGCGGATTTGTCCTACTCAGGAGA	4	78	0
TGACGGATGGCCTTTTTGCGTTTCTACAAACT	4	200	1
AAACTAGCCTCGTTTTTGCATCAGGAAAGCAG	4	276	1
          ** ****** **
MAP Score: 4.39329

Motif 8
TTTTTTACCTCGGTATGCCTTGTGACTGGCTTG	0	199	1
      TTGTAGCGATGCCTTTTGCATCGTATG	1	4	1
AAAAACTCACCGCATGGCCATTTAAGCCAGGAA	3	93	1
CTCAGTCGAAAGACTGGGCCTTTCGTTTTATCT	4	26	1
GCCATCCGTCAGGATGGCCTTCTGCTTAATTTG	4	178	0
GCCATCCTGACGGATGGCCTTTTTGCGTTTCTA	4	193	1
          *** ***** * *
MAP Score: 3.75538