AlignACE 3.0 10/20/99
AlignACE2 -i AA/AA_fusions012_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944234562
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	nirB	120	nitrite reductase (NAD(P)H) large subunit
#1	cysG	161	siroheme synthase
#2	hemA	38	glutamyl tRNA reductase (delta-aminolevulinate synthase)
#3	aq_1771	300	putative protein

Motif 1
CTCCTCCTGAGGAAACTCTTGCAAAAAACGT	0	93	0
AAGTGGCTCTGGAAAACGCGGAGGAGTTCAC	1	15	1
AGGAGTTCACGGGAAAGGTTTACAAGCTTTA	1	36	1
CTCTTCGTGAGGTAAAGCTTGTAAACCTTTC	1	48	0
AGGGTGAGAAGGGAAAGGCGATTGTGGACGC	1	108	1
ACGCACTCACGGGAAAAGTTGTAAAATTCTT	1	135	1
AGTTGAAAGTGGAAAATGCTGCAAAAACAAA	3	250	1
AAAACAAAAAGGAAAAAGCTGAGGTTCCTAA	3	273	1
          ****** ****
MAP Score: 13.7315

Motif 2
GTTTCCTCAGGAGGAGTGAAAG          	0	108	1
GGAAAACGCGGAGGAGTTCACGGGAAAGGTTT	1	25	1
GATTAAGGGTGAGAAGGGAAAGGCGATTGTGG	1	103	1
CATTCGTTTCGTGAAGGTTAGGTGTCTAATAA	3	92	1
AATGTACCGTGTGGAGTTGAAAGTTGAAAGAG	3	171	1
AATGTACCGTGTGGAGTTGAAAGTGGAAAATG	3	236	1
          ******** * *
MAP Score: 7.57262

Motif 3
AGCTCTTTCAACTTTCAACTCCACACGGTACATTAGA	3	168	0
AGCATTTTCCACTTTCAACTCCACACGGTACATTAGA	3	233	0
GGAAAGGTTTACAAGCTTTACCTCACGAAGAGGCGCT	1	47	1
AGTTGAAAGAGCTAAAGCAACCGCACCGATGGTTATG	3	192	1
CACGTTTTTTGCAAGAGTTTCCTCAGGAGGAGTGAAA	0	92	1
       GGTACATTAGGAACCTCAGCTTTTTCCTTT	3	280	0
GTCCACAATCGCCTTTCCCTTCTCACCCTTAATCTTA	1	100	0
GTATACTCAAGTTTGCAGAACCTCGGGTTAGCGGAAA	3	51	1
TCTGGAAAACGCGGAGGAGTTCACGGGAAAGGTTTAC	1	22	1
          ** *     *** ****
MAP Score: 7.24417

Motif 4
AGTCCTTACAGAGGTTGTAAAATGAAAGTTAT	0	30	0
GTTTCCTCAGGAGGAGTGAAAG          	0	108	1
GGAAAACGCGGAGGAGTTCACGGGAAAGGTTT	1	25	1
GTTCACGGGAAAGGTTTACAAGCTTTACCTCA	1	40	1
GATTAAGGGTGAGAAGGGAAAGGCGATTGTGG	1	103	1
ACTCACGGGAAAAGTTGTAAAATTCTTCAAGA	1	139	1
TTTTATCAGAGAGGAATATAATTAACCTTG  	2	18	1
    AGCTAAAAAGATTGAAAATCAAGGATGG	3	6	1
ATTGAAAATCAAGGATGGAAATTTTATAAAGG	3	20	1
TCGTGAAGGTTAGGTGTCTAATAAGTTATTGA	3	100	1
AATGTACCGTGTGGAGTTGAAAGTTGAAAGAG	3	171	1
TTGAAAGTTGAAAGAGCTAAAGCAACCGCACC	3	187	1
AATGTACCGTGTGGAGTTGAAAGTGGAAAATG	3	236	1
GGAAAAAGCTGAGGTTCCTAATGTACC     	3	283	1
          *******  ***
MAP Score: 6.63265

Motif 5
CCTTACAGAGGTTGTAAAATGAAAGTTATACGTAT	0	24	0
ACCGTGTGGAGTTGAAAGTTGAAAGAGCTAAAGCA	3	176	1
TAAGATTAAGGGTGAGAAGGGAAAGGCGATTGTGG	1	100	1
ACCGTGTGGAGTTGAAAGTGGAAAATGCTGCAAAA	3	241	1
AGTGGAAAATGCTGCAAAAACAAAAAGGAAAAAGC	3	257	1
          ****  *   *****
MAP Score: 2.92061

Motif 6
TTACAACCTCTGTAAGGACTTACAAAACATAAC	0	42	1
CAAAAAACGTGCCAAAAAGTTCCGGGTAGTTAT	0	70	0
GCACGTTTTTTGCAAGAGTTTCCTCAGGAGGAG	0	91	1
AGGTAAAGCTTGTAAACCTTTCCCGTGAACTCC	1	37	0
       TCTTGAAGAATTTTACAACTTTTCCC	1	145	0
         ATCCAATATTTTATCAGAGAGGAA	2	1	1
AGGTTAGGTGTCTAATAAGTTATTGATAAAGCG	3	106	1
TGTGCCTGTGTCCAAAAAATAACGCTTTATCAA	3	128	0
TTTTTGTTTTTGCAGCATTTTCCACTTTCAACT	3	250	0
          ***** *  ****
MAP Score: 1.2396

Motif 7
CGCTAAAGTGGCTCTGGAAAACGCGGAGGAGTTC	1	10	1
ACGAAGAGGCGCTCTGGAGATTGCCTTTATAAGA	1	71	1
GATTAAGGGTGAGAAGGGAAAGGCGATTGTGGAC	1	103	1
TGTCTAATAAGTTATTGATAAAGCGTTATTTTTT	3	114	1
TGTGGAGTTGAAAGTTGAAAGAGCTAAAGCAACC	3	180	1
TGTACCGTGTGGAGTTGAAAGTGGAAAATGCTGC	3	238	1
CTGCAAAAACAAAAAGGAAAAAGCTGAGGTTCCT	3	268	1
          *   ******* **
MAP Score: 0.568317