AlignACE 3.0 10/20/99
AlignACE2 -i AG/AG_fusions020_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944241591
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	AF0167	123	flavoprotein (fprA-1)
#1	AF0880	62	rubredoxin (rd-1)
#2	AF1348	67	A. fulgidus predicted coding region AF1348
#3	AF1520	27	flavoprotein (fprA-2)

Motif 1
ATTTTTGACTCGCTCATTCCCCTCCCGCAGG	0	68	1
     CAAAAAGGTCTTTCGCTAACAGTTGT	3	5	1
TAGCTGTTGTAGCTCGTTCCCTGCGGGAGGG	0	87	0
TCTGCGATTCCAGTCCTTCGCACCAACCCAG	0	37	0
TCTCAGTTATAATCCTTTCGCTTAAATATCG	1	25	0
          ***** *****
MAP Score: 7.45338

Motif 2
   GAGTGTGGAGATTGCTGAAAAAGTTTACT	0	7	1
TTTACTGGGTTGGTGCGAAGGACTGGAATCGC	0	33	1
GCGAAGGACTGGAATCGCAGAATTTTTGACTC	0	47	1
CCTGCGGGAGGGGAATGAGCGAGTCAAAAATT	0	67	0
CCCTCCCGCAGGGAACGAGCTACAACAGCTAC	0	87	1
   AGGTTAGGAAATCGAGGGAAAGCTTAATA	2	7	1
AAAGAAAAATTCGATTGCTGGAGGTGTTTTT 	2	46	1
          **** *** ***
MAP Score: 3.6528