AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID015_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391020
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	ydiC	300	orf, hypothetical protein
#1	yfhE	95	orf, hypothetical protein
#2	b2529	27	orf, hypothetical protein
#3	yfhO	87	putative aminotransferase
#4	b2531	300	orf, hypothetical protein

Motif 1
GCCTGTTAACCCACACATCAGGGTCTATGCTTA	0	159	1
GCCGCGATAACGGCGAATCAGGTAAAACAAACC	1	50	0
GCCGTTATCGCGGCGGATCGCAGCCCTGAGAAT	1	69	1
    TCAATGCAAGGAATCAGGCTACCGGCTGG	3	68	0
GCGGCGTGAACGCCTTATCCGACCT        	4	2	0
AAGGCGTTCACGCCGCATCCGACAGCCGTTGCC	4	19	1
ACGCATTACGCGTCGCATCAGGCAACGGCTGTC	4	39	0
ACGCGTAATGCGTCTTATCAGGCCTACAGTGTA	4	59	1
CAGAACCCCAGGGCGGATATGGCGTTCACGCCG	4	92	1
ATGGCGTTCACGCCGCATCCGACAACAGGTACA	4	110	1
TGCATAGCAGGGTCAAGTCTGACATTCCCGAGT	4	217	0
          ** ** *** ***
MAP Score: 22.8083

Motif 2
CCGATAACCCCACCGTGGTCGCCTGCGCGTGGG	1	18	1
GGGTTTGTTTTACCTGATTCGCCGTTATCGCGG	1	49	1
GCGGCGTGAACGCCTTATCCGACCT        	4	2	0
AAGGCGTTCACGCCGCATCCGACAGCCGTTGCC	4	19	1
CGACAGCCGTTGCCTGATGCGACGCGTAATGCG	4	38	1
CCTGATGCGACGCGTAATGCGTCTTATCAGGCC	4	50	1
GCGGCGTGAACGCCATATCCGCCCTGGGGTTCT	4	93	0
ATGGCGTTCACGCCGCATCCGACAACAGGTACA	4	110	1
          ****  ** ****
MAP Score: 21.3355

Motif 3
CTTAGCGTGCCTGTTAACCCACACATCAGGGTCTATGCTTA	0	151	1
GCATGTTTTACGGTAAAGCCCCTGCGTTTGCTGGGTTGAAC	0	209	1
  TGCGCATACCGATAACCCCACCGTGGTCGCCTGCGCGTG	1	8	1
AACGGCGAATCAGGTAAAACAAACCCCACGCGCAGGCGACC	1	34	0
ACCTGATTCGCCGTTATCGCGGCGGATCGCAGCCCTGAGAA	1	60	1
GCTAAATACTCCGTAAACACGGTCGTACATCCAGCCGGTAG	3	38	1
      AGGTCGGATAAGGCGTTCACGCCGCATCCGACAGC	4	4	1
CACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAAT	4	27	1
AACCCCAGGGCGGATATGGCGTTCACGCCGCATCCGACAAC	4	95	1
CACGCCGCATCCGACAACAGGTACAAACGCCACGATAAAAA	4	118	1
CCAATTTACTCGGGAATGTCAGACTTGACCCTGCTATGCAA	4	210	1
TCTTACTTCACCTCAAACTCGCCCCTGCCCGGGGTTTTTTA	4	268	0
          ***  *** *   *     **
MAP Score: 10.9514

Motif 4
TAAAGCCCCTGCGTTTGCTGGGTTGAACTGAT	0	222	1
GATAACCCCACCGTGGTCGCCTGCGCGTGGGG	1	20	1
ACCTGATTCGCCGTTATCGCGGCGGATCGCAG	1	60	1
GCTAAATACTCCGTAAACACGGTCGTACATCC	3	38	1
GTCGGATAAGGCGTTCACGCCGCATCCGACAG	4	12	1
GGCGGATATGGCGTTCACGCCGCATCCGACAA	4	103	1
TCAAACTCGCCCCTGCCCGGGGTTTTTTATTG	4	265	0
          *****  *****
MAP Score: 7.60901

Motif 5
TAATTCTTAGCGTGCCTGTTAACCCACACATCAGG	0	146	1
TCGCCGTTATCGCGGCGGATCGCAGCCCTGAGAAT	1	67	1
AATTCAGAATCAGGCCGGAGTGCTAAATACTCCGT	3	17	1
AATCAGGCTACCGGCTGGATGTACGACCGTGTTTA	3	51	0
ATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCC	4	17	1
TCCGACAGCCGTTGCCTGATGCGACGCGTAATGCG	4	36	1
CTGTACACTGTAGGCCTGATAAGACGCATTACGCG	4	60	0
TACAGAACCCCAGGGCGGATATGGCGTTCACGCCG	4	90	1
ATATGGCGTTCACGCCGCATCCGACAACAGGTACA	4	108	1
          *  *******  * *
MAP Score: 6.3524

Motif 6
GCTGGGTTGAACTGATAATCATTATCACTA	0	238	1
GCTGTTATACGCTGAAAGCGATGAAGTGAG	0	272	1
   TGCGCATACCGATAACCCCACCGTGGT	1	7	1
CCCACGCGCAGGCGACCACGGTGGGGTTAT	1	21	0
TACCTGATTCGCCGTTATCGCGGCGGATCG	1	59	1
TTCTCCTGATTCCGATACCGA         	2	1	0
TGCTAAATACTCCGTAAACACGGTCGTACA	3	37	1
CGTACATCCAGCCGGTAGCCTGATTCCTTG	3	61	1
GGTCGGATAAGGCGTTCACGCCGCATCCGA	4	11	1
TCACGCCGCATCCGACAGCCGTTGCCTGAT	4	26	1
GGGCGGATATGGCGTTCACGCCGCATCCGA	4	102	1
TCACGCCGCATCCGACAACAGGTACAAACG	4	117	1
          **********
MAP Score: 0.564631