AlignACE 3.0 10/20/99
AlignACE2 -i AG/AG_sum_all066_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944247911
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	AF1117	62	DNA-directed RNA polymerase, subunit E' (rpoE1)
#1	AF1118	111	A. fulgidus predicted coding region AF1118

Motif 1
          TTTACATTCTTAGTTAAATTTA	0	0	1
CTTAGTTAAATTTATATTGCTTCCCGACCCAG	0	18	1
ACTTCAATAATTTAAATTTTTTGCTCAGATAA	1	23	1
CAACTTAAAGCTTATATTGGTTAAAGAACATC	1	82	1
          **** **** **
MAP Score: 2.49737

Motif 2
TTAGTTAAATTTATATTGCTTCCCGACCCA	0	19	1
AATAATTTAAATTTTTTGCTCAGATAAAAA	1	28	1
AACTTAAAGCTTATATTGGTTAAAGAACAT	1	83	1
          **********
MAP Score: 1.11693