AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID069_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391659
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	b1625	300	orf, hypothetical protein
#1	b1626	61	orf, hypothetical protein
#2	b1627	76	orf, hypothetical protein

Motif 1
CTGCCCGTCCGGGTGCATGTTTTCACTTGTCGGAT	0	62	1
ATATTAAACCAGGAATTTATTATCTTGTTCGATGT	0	95	1
ATAGTAAAGCGCGTTACTCTTTTCAGAGCAGTTTT	0	148	1
ATTTGCCATCAGCGCATTCTTATTATTGTAATAAC	0	195	1
CCAAAAGTGAACGCTTGTGTTATTACAATAATAAG	0	213	0
GTTCACTTTTGGTGAAATTTTATCATCACTAATAA	0	236	1
AATACCAAAGGGGTAGGTATTATTAGTGATGATAA	0	255	0
TCTAATTTTAGGGGCGTTATTATAAGGCTTTTATA	1	27	0
        ACAGGCAAATCTAATTTTAGGGGCGTT	1	44	0
CGGATAATAGGCGGCTTTTTTATTTCAGGCCGAAA	2	50	1
          ***    * ******
MAP Score: 10.7086

Motif 2
AAATTCCTGGTTTAATATCCGACAAGTGAAA	0	82	0
AGTAACGCGCTTTACTATCCCTGACAATCAC	0	135	0
TTCAGAGCAGTTTTTCATCCCTGAATATTTG	0	169	1
TCCCTGAATATTTGCCATCAGCGCATTCTTA	0	186	1
TTCTTATTATTGTAATAACACAAGCGTTCAC	0	211	1
TTGGTGAAATTTTATCATCACTAATAATACC	0	244	1
ATTATAAGGCTTTTATAACCGATCGCTACTT	1	13	0
TAGGCGGCTTTTTTATTTCAGGCCGAAAA  	2	57	1
          **** ******
MAP Score: 7.15992

Motif 3
ATGCTGCCCGTCCGGGTGCATGTTTTCACTTGTCGGAT	0	59	1
CGGATATTAAACCAGGAATTTATTATCTTGTTCGATGT	0	92	1
AATATTTGCCATCAGCGCATTCTTATTATTGTAATAAC	0	192	1
AGCGTTCACTTTTGGTGAAATTTTATCATCACTAATAA	0	233	1
ATTAATACCAAAGGGGTAGGTATTATTAGTGATGATAA	0	255	0
AAATCTAATTTTAGGGGCGTTATTATAAGGCTTTTATA	1	27	0
ATTAACGGATAATAGGCGGCTTTTTTATTTCAGGCCGA	2	45	1
          *  ***    * **** *
MAP Score: 2.80446

Motif 4
ATGCTGCCCGTCCGGGTGCATGTTTTCACTTGTCGG	0	59	1
GCATGTTTTCACTTGTCGGATATTAAACCAGGAATT	0	76	1
GAATTTATTATCTTGTTCGATGTTGTTGGTGATTGT	0	107	1
TCAGGGATAGTAAAGCGCGTTACTCTTTTCAGAGCA	0	142	1
ATTAATACCAAAGGGGTAGGTATTATTAGTGATGAT	0	257	0
AGGCTTTTATAACCGATCGCTACTTTCT        	1	2	0
AAATCTAATTTTAGGGGCGTTATTATAAGGCTTTTA	1	29	0
ACAGTTAACCTGTTGTCGCCTGCTCTGGATTAACGG	2	17	1
CCTGAAATAAAAAAGCCGCCTATTATCCGTTAATCC	2	43	0
          *   * *** **** *
MAP Score: 2.67133

Motif 5
          ACAGAGTGCTTCGGTACAACACAA	0	0	1
CCACAAGTGCAGAGCTTACTTGTGTTGTACCGAA	0	19	0
ACCCGGACGGGCAGCATGTCGCTCCACAAGTGCA	0	42	0
GGAGCGACATGCTGCCCGTCCGGGTGCATGTTTT	0	51	1
CGATGTTGTTGGTGATTGTCAGGGATAGTAAAGC	0	124	1
CAGGGATAGTAAAGCGCGTTACTCTTTTCAGAGC	0	143	1
TTTCACCAAAAGTGAACGCTTGTGTTATTACAAT	0	219	0
GGCTTTTATAACCGATCGCTACTTTCT       	1	3	0
TTAACCTGTTGTCGCCTGCTCTGGATTAACGGAT	2	21	1
          *  ** **** ***
MAP Score: 0.440145