AlignACE 3.0 10/20/99
AlignACE2 -i PH/PH_profile025_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944234429
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	PH0678	225	185aa long hypothetical ferredoxin oxidoreductase gamma subunit
#1	PH0679	33	105aa long hypothetical ferredoxin oxidoreductase delta subunit

Motif 1
CCGAAAGTCTTTTATAAAGGGTTGAAAGGCT	0	41	0
GATCGCCGAATATATGTAGGTAATGATAGCA	0	95	1
TTAAGTTAGATTTATGTAGTTTTCGGTGGAG	0	154	0
TAAACCTTTTTATATGGAGGGATACCT    	1	16	1
          ****** ****
MAP Score: 3.64807

Motif 2
        TCTTCATCACCTTTTCTTTTCTT	0	2	1
ACCTTTTCTTTTCTTCACCTATTAGCCTTTC	0	18	1
CTATTAGCCTTTCAACCCTTTATAAAAGACT	0	36	1
CGATTTTAGATTGTACTATTACCGAAAGTCT	0	62	0
TCTAAAATCGTTGATCGCCGAATATATGTAG	0	83	1
AAACTCTAGATTGAACTCAGATTAATTGAAA	0	185	1
CTCAGATTAATTGAAAGCTTAAGGGGGCAAA	0	200	1
          ****** ****
MAP Score: 3.6162

Motif 3
GAAGAAAAGAAAAGGTGATGAAGA       	0	3	0
TGAAAGGCTAATAGGTGAAGAAAAGAAAAGG	0	19	0
TGATCGCCGAATATATGTAGGTAATGATAGC	0	94	1
TTATGTAGTTTTCGGTGGAGGTACTAAGACA	0	143	0
TTTAAGTTAGATTTATGTAGTTTTCGGTGGA	0	155	0
TTAAACCTTTTTATATGGAGGGATACCT   	1	15	1
          ******* ***
MAP Score: 1.68321