AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID015_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943390982
 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
GGTTTGTTTTACCTGATTCGCCGTTATCGCGGC	1	50	1
CCAGCCGGTAGCCTGATTCCTTGCATTGA    	3	68	1
        AGGTCGGATAAGGCGTTCACGCCGC	4	2	1
GGCAACGGCTGTCGGATGCGGCGTGAACGCCTT	4	19	0
GACAGCCGTTGCCTGATGCGACGCGTAATGCGT	4	39	1
TACACTGTAGGCCTGATAAGACGCATTACGCGT	4	59	0
AGAACCCCAGGGCGGATATGGCGTTCACGCCGC	4	93	1
TGTACCTGTTGTCGGATGCGGCGTGAACGCCAT	4	110	0
          * ***** ** **
MAP Score: 25.5786

Motif 2
TCGCCGTTATCGCGGCGGATCGCAGCCCTG	1	67	1
TACAGAACCCCAGGGCGGATATGGCGTTCA	4	90	1
ATATGGCGTTCACGCCGCATCCGACAACAG	4	108	1
ATAAGGCGTTCACGCCGCATCCGACAGCCG	4	17	1
AATTCAGAATCAGGCCGGAGTGCTAAATAC	3	17	1
AGACGCATTACGCGTCGCATCAGGCAACGG	4	44	0
CGCAGGCGACCACGGTGGGGTTATCGGTAT	1	15	0
AATCAGGCTACCGGCTGGATGTACGACCGT	3	56	0
TGGTCGCCTGCGCGTGGGGTTTGTTTTACC	1	33	1
TAAAAAACCCCGGGCAGGGGCGAGTTTGAG	4	268	1
CCGCCGCGATAACGGCGAATCAGGTAAAAC	1	55	0
CAACCCAGCAAACGCAGGGGCTTTACCGTA	0	217	0
          **********
MAP Score: 14.473

Motif 3
GCATGTTTTACGGTAAAGCCCCTGCGTTTGCT	0	209	1
 TGCGCATACCGATAACCCCACCGTGGTCGCC	1	9	1
AATCAGGTAAAACAAACCCCACGCGCAGGCGA	1	36	0
CCTGATTCGCCGTTATCGCGGCGGATCGCAGC	1	61	1
TCGGATAAGGCGTTCACGCCGCATCCGACAGC	4	13	1
GCGGATATGGCGTTCACGCCGCATCCGACAAC	4	104	1
CGACAACAGGTACAAACGCCACGATAAAAAAA	4	129	1
CCCTGCTATGCAATACCCCCACTTTTACAATA	4	238	1
TACTTCACCTCAAACTCGCCCCTGCCCGGGGT	4	274	0
          ** ******* *
MAP Score: 12.0297

Motif 4
AGGCACGCTAAGAATTAGGTATCTCATTGT	0	133	0
TGATGTGTGGGTTAACAGGCACGCTAAGAA	0	149	0
TGTTAACCCACACATCAGGGTCTATGCTTA	0	162	1
AGTGATAATGATTATCAGTTCAACCCAGCA	0	237	0
GCGATAACGGCGAATCAGGTAAAACAAACC	1	50	0
  TCGGTATCGGAATCAGGAGAATTTATA 	2	8	1
AAAAGAATTCAGAATCAGGCCGGAGTGCTA	3	12	1
 TCAATGCAAGGAATCAGGCTACCGGCTGG	3	68	0
CATTACGCGTCGCATCAGGCAACGGCTGTC	4	39	0
CGTAATGCGTCTTATCAGGCCTACAGTGTA	4	62	1
CGCCGCATCCGACAACAGGTACAAACGCCA	4	120	1
GGGGGTATTGCATAGCAGGGTCAAGTCTGA	4	228	0
GGCAGGGGCGAGTTTGAGGTGAAGTAAGAC	4	280	1
          **********
MAP Score: 6.62877

Motif 5
GTTCAACCCAGCAAACGCAGGGGCTTTACCGT	0	218	0
CCACGCGCAGGCGACCACGGTGGGGTTATCGG	1	18	0
GCGATCCGCCGCGATAACGGCGAATCAGGTAA	1	58	0
    TCGGTATCGGAATCAGGAGAATTTATA 	2	6	1
TAAAAAGAATTCAGAATCAGGCCGGAGTGCTA	3	10	1
TAAATACTCCGTAAACACGGTCGTACATCCAG	3	40	1
       AGGTCGGATAAGGCGTTCACGCCGC	4	3	1
GCAACGGCTGTCGGATGCGGCGTGAACGCCTT	4	19	0
GAACCCCAGGGCGGATATGGCGTTCACGCCGC	4	94	1
GTACCTGTTGTCGGATGCGGCGTGAACGCCAT	4	110	0
CTCGGGAATGTCAGACTTGACCCTGCTATGCA	4	218	1
GTTTTTTATTGTAAAAGTGGGGGTATTGCATA	4	244	0
TTACTTCACCTCAAACTCGCCCCTGCCCGGGG	4	275	0
          *****  *****
MAP Score: 4.2384

Motif 6
TTTGTTTTACCTGATTCGCCGTTATCGCGGCGGATCGCAGC	1	52	1
      AGGTCGGATAAGGCGTTCACGCCGCATCCGACAGC	4	4	1
CAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGC	4	41	1
AACCCCAGGGCGGATATGGCGTTCACGCCGCATCCGACAAC	4	95	1
          * ***  * **    *   **
MAP Score: 2.03748

Motif 7
TCATCACAGCCTTAATGCTCCTTAGATAATAA	0	91	1
CAATGAGATACCTAATTCTTAGCGTGCCTGTT	0	134	1
GTTTGTTTTACCTGATTCGCCGTTATCGCGGC	1	51	1
GGCCGGAGTGCTAAATACTCCGTAAACACGGT	3	29	1
CAGCCGGTAGCCTGATTCCTTGCATTGA    	3	69	1
ACAGCCGTTGCCTGATGCGACGCGTAATGCGT	4	40	1
GAATGTCAGACTTGACCCTGCTATGCAATACC	4	223	1
          ****** ** **
MAP Score: 1.13558