AlignACE 3.0 10/20/99
AlignACE2 -i AG/AG_sum_all060_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944247814
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	AF0623	70	DNA ligase (lig)
#1	AF2097	59	conserved hypothetical protein

Motif 1
    TGATATAACTAAGCAGGAAGTATTAA	0	6	1
TATTTTATTGAACCAGGCAGACTAAAATCG	0	50	1
AATCTTTTACACCTAAACAGTTTTTATTTT	1	11	1
          **********
MAP Score: 3.84689

Motif 2
    TGATATAACTAAGCAGGAAGTATTAA	0	6	1
CAGGAAGTATTAAAAGGTTGGCGATAGTAT	0	23	1
TATTTTATTGAACCAGGCAGACTAAAATCG	0	50	1
TGTTTAGGTGTAAAAGATTG          	1	0	0
TTTTACACCTAAACAGTTTTTATTTTAGAG	1	15	1
TTTAGAGATAAAAAAGGCTTGTGGTGATTT	1	38	1
          **********
MAP Score: 2.8755

Motif 3
AAGCAGGAAGTATTAAAAGGTTGGCGATAGTAT	0	20	1
AACTGTTTAGGTGTAAAAGATTG          	1	0	0
ATCTCTAAAATAAAAACTGTTTAGGTGTAAAAG	1	14	0
ATTTTAGAGATAAAAAAGGCTTGTGGTGATTTG	1	36	1
          ** **** * ***
MAP Score: 1.18074