AlignACE 3.0 04/13/02
./AlignACE -expect 5 -gcback 0.61 -i 1483.in
Parameter values:
expect = 5
gcback = 0.61
minpass = 200
seed = 1078931380
numcols = 10
undersample = 1
oversample = 1

Input sequences:
#0 1483_Gsul, G.sulfurreducens sequence for operon 1483

#1 1483_Dvul, D.vulgaris sequence for operon 1483

#2 1483_Gmet, G.metallireducens sequence for operon 1483 from contig 51

Motif 1
ACGAGGAGGAATGAA 0 5 0
ACGATGAGCAAGAAA 1 99 0
ACCATCATCAACAAA 2 42 1
ACGAGGCGGAAGCAA 2 229 1
ACGGGAAGAAATCAT 2 270 0
ACGGATGTCAAGGAA 2 289 0
GCGAGGAGGAACGAT 2 362 1
**** ** ** **
MAP Score: 5.5037

Motif 2
ATGTATAAGGGTAGC 0 23 1
AACAAGAAGGCGCGC 1 57 0
GGGAATAGGTTCTGC 1 125 0
ACGAACAGGGGCTGC 1 353 0
AACTACAGGGACTGA 2 8 1
GACAAAAAGGGCCGA 2 78 0
GCGAAAACGGCTTGC 2 99 0
AAGAAAACGGGAAGA 2 276 0
GTGAAAATGGCCTGC 2 345 0
* *** * ** ***
MAP Score: 5.33609

Motif 3
TTGTCGGAGAGTTCG 1 34 1
TTCTGGGCGATGACG 1 70 1
TTGTTGAAGAGCGCG 1 148 1
TCGTGGACGAGGCCG 1 275 0
TCGTTGAGCACGTCG 1 364 1
TTGTTGATGATGGTG 2 41 0
TTGAGGGGGAGGACG 2 217 1
TCAAGGAAGAAAACG 2 282 0
**** ** ** **
MAP Score: 4.68517

Motif 4
ATGAGAGAAAA 0 70 1
AAGGGCTAAAA 0 84 1
CAGAACAAGAA 1 64 0
ATGAGCAAGAA 1 100 0
CTTGACAAAAA 2 85 0
CAGAGCGAAAA 2 107 0
CAGGGTGAAAA 2 206 1
AAGGAAGAAAA 2 284 0
****** ****
MAP Score: 4.0014

Motif 5
TCGCTGGCTACCTCG 0 108 1
TTGTCGGAGAGTTCG 1 34 1
TTGTTGAAGAGCGCG 1 148 1
TTGGCGTCCACCTCG 1 262 1
TCGTTGAGCACGTCG 1 364 1
TTGCCGTTCACCTCG 2 143 0
*** ** ** ***
MAP Score: 3.55568

Motif 6
GCCCAGAACA 1 68 0
GCCAAGGGAA 1 221 0
GCCAAGAGCA 1 257 0
GGCAAGAGCA 2 153 1
GCCAAGGGAA 2 189 1
**********
MAP Score: 2.20078

Motif 7
GGCGGCAAGC 1 231 1
GACGCCAAGA 1 260 0
GACGGCAAGC 2 95 1
AACGGCAAGA 2 150 1
AACGGGAAGA 2 276 0
**********
MAP Score: 2.20078

Motif 8
ACGAGGAGGAA 0 9 0
ATGAGAGAAAA 0 70 1
ATGAGCAAGAA 1 100 0
ACGATAGAGGA 1 406 0
ATGATGGTGAA 2 39 0
GTCAGAGCGAA 2 109 0
GCGAGAGGGGA 2 131 1
ATCAGGGTGAA 2 204 1
ACGAGGCGGAA 2 229 1
GCGAGGAGGAA 2 362 1
******* ***
MAP Score: 1.50012

Motif 9
ATAAGGGTAGCGCTTGGAA 0 27 1
ATGACGTTGGCGCCGGGTG 1 79 1
AGGATGCTCTTGGCGTCCA 1 253 1
ACAAGGCTCATGCGGGCGG 1 289 1
ATAAAGATTGTGCGAGAGG 2 120 1
ATGATGCTCTTGCCGTTCA 2 148 0
ATCATGATGCTGGCCGCGG 2 171 1
** * * * *** * *
MAP Score: 0.82127

Motif 10
CGTACCCATACGATGAGCAAG 1 102 0
ACAACCGTTTCAGGGAATAGG 1 131 0
TCGCCCGATGCCCGCACGACG 1 193 1
TGAGCCTTGTCGTGGACGAGG 1 278 0
AGCCCCTGTTCGTTGAGCACG 1 355 1
AGACCGAGTTTGTTGATGATG 2 44 0
TCGGCCCTTTTTGTCAAGACG 2 78 1
TTGGCCGCGGCCAGCATCATG 2 173 0
TCCTCCTCGCTGGTGAAAATG 2 351 0
* ** * * *** * *
MAP Score: 0.607276

Motif 11
GGACGAGGCC 1 276 0
GGCCGAGGCC 2 74 0
GGCCGCGGCC 2 182 0
GGACGAGGCG 2 227 1
**********
MAP Score: 0.570148