AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID078_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391685
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	bglF	133	PTS system beta-glucosides, enzyme II, cryptic
#1	bglG	285	positive regulation of bgl operon

Motif 1
AAGCAATTTTTTTCAGGTTTTGCCCGCTTAGT	0	42	0
AGGCCGTTTTTTTCAGGTTTTTTTTTGGAGTT	0	84	1
TTCAGGTTTTTTTTTGGAGTTTTGCCGCAAAG	0	95	1
ATAATTAAGTTATTGGGATTTGTCTGGTGAA 	1	9	0
ATAACTTAATTATTGGGATTTGTTATATATAA	1	28	1
CTTTGTGTAATTTTAGGAATTTATAAAGTTAT	1	56	0
TTAATTTCCGAACCTGGATGTTCGTTATAAAA	1	156	1
CAGTCATTTATTAATGGTTTTTATAACGAACA	1	174	0
CATTAATAAATGACTGGATTGTTACTGCATTC	1	190	1
TCTCTGGTTATGTCAGGTTTTGCCTGCGAATG	1	217	0
TCACCAGTATTCTCTGGTTATGTCAGGTTTTG	1	227	0
ATACTGGTGAAGTCGGGTTTTTTTGTTTATAA	1	249	1
          * ** *******
MAP Score: 17.5732

Motif 2
CCCGCTTAGTGCGGTAACAATCCTTTACTCAG	0	20	0
ACCGCACTAAGCGGGCAAAACCTGAAAAAAAT	0	37	1
CAAAAAAAAACCTGAAAAAAACGGCCTGACGT	0	79	0
CTACCGCTTTGCGGCAAAACTCCAAAAAAAAA	0	101	0
      TTCACCAGACAAATCCCAATAACTTA	1	4	1
TTAATTGCGTGCAGAGAAAATAGCAATGCGCT	1	123	0
GCCTGCGAATGCAGTAACAATCCAGTCATTTA	1	196	0
TACTGCATTCGCAGGCAAAACCTGACATAACC	1	212	1
          ****  ******
MAP Score: 12.8687

Motif 3
ACTAAGCGGGCAAAACCTGAAAAAAATTGCTTGA	0	42	1
AACTCCAAAAAAAAACCTGAAAAAAACGGCCTGA	0	82	0
CGCTTTGCGGCAAAACTCCAAAAAAAAACCTGAA	0	95	0
  TTCACCAGACAAATCCCAATAACTTAATTATT	1	8	1
GTTATATATAACAAATCCCAATAATTAAGTTATT	1	27	0
ATATAACTTTATAAATTCCTAAAATTACACAAAG	1	54	1
CGCTATTGATAAAAATATGACCATGCTCGCAGTT	1	93	0
GATGTTCGTTATAAAAACCATTAATAAATGACTG	1	172	1
CATTCGCAGGCAAAACCTGACATAACCAGAGAAT	1	217	1
TTATAAACAAAAAAACCCGACTTCACCAGTATTC	1	247	0
          * *** ****  **
MAP Score: 9.3747

Motif 4
TTGCCCGCTTAGTGCGGTAACAATCCTTTACTCAG	0	20	0
TAAGCGGGCAAAACCTGAAAAAAATTGCTTGATTC	0	44	1
CTCCAAAAAAAAACCTGAAAAAAACGGCCTGACGT	0	79	0
GTTTTGCCGCAAAGCGGTAGAGGGCAAGTT     	0	113	1
TTCGTTATAAAAACCATTAATAAATGACTGGATTG	1	176	1
TTTGCCTGCGAATGCAGTAACAATCCAGTCATTTA	1	196	0
TTCGCAGGCAAAACCTGACATAACCAGAGAATACT	1	219	1
ATAAACAAAAAAACCCGACTTCACCAGTATTCTCT	1	244	0
          ***** * *  ** *
MAP Score: 6.78284