AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID034_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391329
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	fliF	214	flagellar biosynthesis; basal-body MS(membrane and supramembrane)-ring and collar protein
#1	atpD	26	membrane-bound ATP synthase, F1 sector, beta-subunit
#2	atpG	50	membrane-bound ATP synthase, F1 sector, gamma-subunit
#3	atpF	61	membrane-bound ATP synthase, F0 sector, subunit b
#4	atpE	46	membrane-bound ATP synthase, F0 sector, subunit c
#5	atpI	300	membrane-bound ATP synthase, dispensable protein, affects expression of atpB

Motif 1
TAATCAGCCACGAGGTGCGCG          	0	203	1
     CGTCTGGCGGCTTGCCTTAGGGCAGG	2	5	1
CTCAATGCCTTGCGGCCTGCCCTAAGGCAAG	2	20	0
TAAATAAATATGCTGTGCGCGAACATGCGCA	5	28	1
ATATGTGATCTGAAGCACGCTTTATCACCAG	5	59	1
GGTCAAATTATACGGTGCGCCCCCGTGATTT	5	206	0
GAAAGTTTTATACGACACGCGGCATACCTCG	5	267	1
CTGCTCCCTTCGAGGTATGCCGCGTGTCGTA	5	277	0
          ****** ****
MAP Score: 6.04259

Motif 2
GAAAAACTGTAAATAACGCGTAAACACTGG	5	86	0
TTATTGTTTGAAATCACGGGGGCGCACCGT	5	196	1
ACGAAAGCACAAATAATGGGAGCGTCAATT	0	115	1
AATAGCAACAAAAAAACGGGTTTATTGGCG	0	74	1
ATCCTCTACGAAATAACCTGT         	1	1	0
TTGCTACCAGAAATTATCCGGGAGACGAGA	0	10	0
AAAAGCGGTCAAATTATACGGTGCGCCCCC	5	213	0
          **********
MAP Score: 5.42991