AlignACE 3.0 10/20/99
AlignACE2 -i MG/MG_sum_all009_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944238918
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	MG272	249	dihydrolipoamide acetyltransferase (pdhC)
#1	MG274	27	pyruvate dehydrogenase component E1, subunit alpha (pdhA)
#2	MG275	82	NADH oxidase (nox)
#3	MG277_MG278	42	MG277: conserved hypothetical protein, MG278: guanosine-3',5'-bis(diphosphate) 3'- pyrophosphohydrolase (spoT)

Motif 1
AGCTAGGTAACTATATTTTAAAAAAGTG    	0	6	0
TTACCTAGCTTTATTTTTTAGAGCTAGGTACC	0	28	1
AAATTTTGTCTTACTTTTTACAGCAGCTGTTG	0	130	0
TACTGGCTTTTTAGTTGTTAGACAAAAATTTT	0	155	0
CTGGCTTTTTTTATTTGTTATAGATCACTACT	0	193	1
TACTTAAAGTTTAAATTTAATAGTAGTGATCT	0	214	0
         CTTAGTTTTAAATTAGCATAGAA	1	1	1
   CAAAAGCTTAATTTTAAAAGATCGAATCA	2	7	1
TTAGCTGCAGTAATTTTTTAAGCTATTTAAGG	2	55	0
AAATTTTATATAAATATTAAGTA         	3	1	0
TTTTAATAACTTAAATTTTATATAAATATTAA	3	13	0
       TAACTATTTTTAATAACTTAAATTT	3	27	0
          *** ****** *
MAP Score: 20.7608

Motif 2
          CACTTTTTTAAAATATAGTTACCT	0	0	1
ATATAGTTACCTAGCTTTATTTTTTAGAGCTAGG	0	22	1
AGCTAGGTACCTCATTTCATAAATTAAAGTGATG	0	49	1
AAAATTTTGTCTTACTTTTTACAGCAGCTGTTGC	0	129	0
AGTTTAGTTACTGGCTTTTTAGTTGTTAGACAAA	0	161	0
AGTAACTAAACTGGCTTTTTTTATTTGTTATAGA	0	183	1
TTATAGATCACTACTATTAAATTTAAACTTTAAG	0	210	1
          CTTAGTTTTAAATTAGCATAGAAA	1	0	1
    CAAAAGCTTAATTTTAAAAGATCGAATCAC	2	6	1
        TACTTAATATTTATATAAAATTTAAG	3	2	1
          **   ****** **
MAP Score: 7.78188