AlignACE 3.0 10/20/99
AlignACE2 -i EC_profile042_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943440214
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	nuoG	46	NADH dehydrogenase I chain G
#1	nuoC	93	NADH dehydrogenase I chain C, D
#2	nuoA	300	NADH dehydrogenase I chain A
#3	hyfA	213	hydrogenase 4 Fe-S subunit
#4	hycB	124	probable small subunit of hydrogenase-3, iron-sulfur protein (part of formate hydrogenlyase (FHL) complex)

Motif 1
          GCTTCCAGTTTTCTCAGTCAG	0	35	0
AAATCCCTTTGCCGACAGGCGCAAA      	1	4	0
AGCTTACTGCGCCGACAGTCACCACGGACCA	1	66	1
GATCCTTGACGACTCCAGGATAATTAGATGT	2	44	0
AATCGATGTGGCGTCCATCTGCCGTGAAGAG	2	245	1
GGCCGCAAGCGCAGCCAGCACGGAATGGAGC	3	17	0
GGCTGCGCTTGCGGCCAGCATACCTCACTTC	3	32	1
CACGGGTGTCGAATCCATTTTTTGCTGAACG	3	99	1
GTACCGTTCAGAATCCAGTTAATACATAACT	3	148	1
TTGCATAAAGGATGCCATTCTGATTAACTCA	3	191	0
          ** ********
MAP Score: 3.8174

Motif 2
     TTTGCGCCTGTCGGCAAAGGGATTTTTCT	1	5	1
GGTCCGTGGTGACTGTCGGCGCAGTAAGCTTCGC	1	62	0
GATTCGACACCCGTGTCGCAGGGGAAAGCGAGAA	3	80	0
GAGGCTTTGCCCGTTTTGCAGGCGTTACGCCTGT	4	13	1
CAGGCGTTACGCCTGTTTGGGGATGGGCGTGTCG	4	31	1
TTGGGGATGGGCGTGTCGATGAGTGTCGAAAATG	4	47	1
GCGTGTCGATGAGTGTCGAAAATGACATTTCATC	4	57	1
          ********  *  *
MAP Score: 3.27537

Motif 3
         TTTGCGCCTGTCGGCAAAGGGATTTTTCT	1	1	1
AAATGGTCCGTGGTGACTGTCGGCGCAGTAAGCTTCGC	1	62	0
ATTAGCATTTAATGCCCTTTCACCCCAGATCCTTGACG	2	64	0
AATAAAAAAAACCTTACAATCACTGTAGAAATTCTTTT	2	197	0
TGAATCGATGTGGCGTCCATCTGCCGTGAAGAGCAGTG	2	243	1
     TTACTTTGCTCCATTCCGTGCTGGCTGCGCTTG	3	5	1
CAAGATCACATTCTCGCTTTCCCCTGCGACACGGGTGT	3	70	1
TGCTGAACGTTAATGACCATCATTTTTGTACCGTTCAG	3	121	1
ACACTCATCGACACGCCCATCCCCAAACAGGCGTAACG	4	35	0
TTTTCGTCAAAAATGACAATCACCTGAGGAATGCCTG 	4	97	1
          *  ** *  ** **  **
MAP Score: 3.04553

Motif 4
AGAAACTTTTGTTAAAGTTGACAAAAGGTTATA	2	130	1
ATAGAAAGGAGTAAAAAACCACATCAATTAGCT	2	160	1
CACTTCTCGTGATCAAGATCACATTCTCGCTTT	3	57	1
CCGTGTCGCAGGGGAAAGCGAGAATGTGATCTT	3	71	0
CCTGCAAAACGGGCAAAGCCTCAGC        	4	2	0
GTCGATGAGTGTCGAAAATGACATTTCATCGGC	4	61	1
GCATGTTTTCGTCAAAAATGACAATCACCTGAG	4	92	1
          **  *** *****
MAP Score: 2.86973

Motif 5
         TTTGCGCCTGTCGGCAAAGGG	1	1	1
AGGGATTTTTCTTCGCTTATTCCTAAATCT	1	27	1
GCGAAGCTTACTGCGCCGACAGTCACCACG	1	62	1
TCCGTGCTGGCTGCGCTTGCGGCCAGCATA	3	24	1
ACATTCTCGCTTTCCCCTGCGACACGGGTG	3	77	1
TTTGCAGGCGTTACGCCTGTTTGGGGATGG	4	27	1
          **********
MAP Score: 2.74539