AlignACE 3.0 10/20/99
AlignACE2 -i HI/HI_sum_all072_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944244696
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	HI0410	114	transcriptional regulatory protein (tyrR)
#1	HI0774	205	acetate CoA-transferase, alpha subunit

Motif 1
ATTTTTACCTTATGTAAAATAATATTTACACTTTGT	0	39	1
TTACACTTTGTTGTAAAGAAATTATCATAGCCATAT	0	64	1
    AAGGATTGTTTAAAACACTATCAAAATAACTT	1	6	1
ATATTAAAAATAGCAAAAAGAATTTCGTAAAAGAAA	1	64	0
TCAAGGATCATCGCAAGAAACATATCCATTTGAAAT	1	123	1
AGAAAGAATATCAACAAATAAGTATCTTATATTTCA	1	153	0
          *    **** * ****
MAP Score: 2.82614

Motif 2
TACCTTATGTAAAATAATATTTACACTTTGTTGTAAAGA	0	44	1
AGAAATTATCATAGCCATATCTTAATTATCTCCATTCCC	0	80	1
TACCCGCCTAAGAAAGATGTATTTCTTTTACGAAATTCT	1	43	1
TTCTTTTACGAAATTCTTTTTGCTATTTTTAATATCAAT	1	65	1
GCTATTTTTAATATCAATCTAGTTCCTTTATTGCCTATC	1	86	1
TTTCAAATGGATATGTTTCTTGCGATGATCCTTGATAGG	1	119	0
GAAATATAAGATACTTATTTGTTGATATTCTTTCTTTTA	1	154	1
          * *   ** * *  ** **
MAP Score: 2.37588