AlignACE 3.0 04/13/02
./AlignACE -expect 5 -gcback 0.61 -i 1900.in
Parameter values:
expect = 5
gcback = 0.61
minpass = 200
seed = 1078856763
numcols = 10
undersample = 1
oversample = 1

Input sequences:
#0 1900_Gsul, G.sulfurreducens sequence for operon 1900

#1 1900_Dvul, D.vulgaris sequence for operon 1900

#2 1900_Gmet, G.metallireducens sequence for operon 1900 from contig 4

Motif 1
CTTAATGACATCGATCAATTC 0 13 1
GGCGATCACAAGGATCGCCCC 0 78 1
GAACATCTGAGTGATATGGAC 0 154 1
GAGAATCTCGGAGAAGTCGTC 1 69 1
GCATATGAGACCGATGATATC 1 465 1
CATGATTTTAAAGAATTTGCC 1 568 1
GCGTATCAAAATGAAAGGCTC 1 608 1
GGCTATTTGACCGATATCAAC 2 123 0
CTCTATTTCAACGAACGCGAA 2 326 0
GAAGATTTCACCGATGACCAC 2 419 0
CAGTATCAAAGCGATAGATCT 2 460 1
* ** * * *** **
MAP Score: 11.5094

Motif 2
TGGAGAAGATTTCACCGATGA 2 423 0
TAGACTTAATGACATCGATCA 0 9 1
TTTGACCGATATCAACGACGA 2 118 0
TGAGACCGATGATATCGAGCA 1 470 1
TACACTCTATTTCAACGAACG 2 330 0
TGAACGACATAAAACCGGCTA 2 139 0
TCTGAGTGATATGGACGACGA 0 159 1
TCCGCGACATGGAGACGAAGA 1 203 0
* * ** * * *** *
MAP Score: 8.80945

Motif 3
AGGGGCGAATCTTGTATT 0 47 1
AGGGGCGATCCTTGTGAT 0 82 0
ACGGGAGAACATCTGAGT 0 148 1
AGGGGCGTCTCTCGTCGT 0 173 0
ACGGGAGCCTTTCATTTT 1 615 0
ACGGGAGCCTTTCGTTTC 1 644 1
AGGGGCGTCTTTCGTCGT 2 107 1
* *** * * ** * *
MAP Score: 8.35664

Motif 4
TCATCCTGCAA 1 99 1
TCGACATGCAA 1 394 0
TCTACCTGTAT 1 444 0
ACAACATGCAA 1 509 0
TCAAAATGAAA 1 613 1
ACAAAATGTAA 1 634 1
ACGACATAAAA 2 146 0
TCGACATGGAT 2 219 1
TCTTCATGGAA 2 478 1
******** **
MAP Score: 8.28223

Motif 5
GGAGACGATATGAC 0 103 1
GGAGAACATCTGAG 0 151 1
GACGAAGATGTTAC 1 197 0
GCAGCGCATATGAG 1 460 1
GAAGAGCATTTGAC 1 537 1
GGAGAAGATTTCAC 2 429 0
* *** *** * **
MAP Score: 6.97821

Motif 6
ACCAGCCGCATAGC 1 18 1
ACCAGTCGAAGAGC 1 530 1
ACCGGCTGCATAGC 2 18 1
ATCGGTCAAATAGC 2 129 1
ATCAGTATCAAAGC 2 458 1
ATCAGGTGAAAAGC 2 516 0
***** ** ***
MAP Score: 6.237

Motif 7
GGCATAGGTCTTGC 1 0 1
GAGGTAGACCTTGA 1 33 1
GCCGAATGTCTCCA 1 142 1
GACGAAGATGTTAC 1 197 0
GCAGAAGGTGTCGA 1 340 1
GGCGTAGGTCTTTC 2 0 1
GCTGAAGATCTTTC 2 35 0
GGAGAAGATTTCAC 2 429 0
GCGATAGATCTTCA 2 470 1
* ****** ** *
MAP Score: 5.31066

Motif 8
ATATGGACGA 0 167 1
CTATGGACGA 1 85 0
ATATCAACGA 2 121 0
CCATGAACGA 2 153 0
CTTTCGCCGA 2 284 0
ATTTCAACGA 2 333 0
ATTTCACCGA 2 426 0
**********
MAP Score: 5.23177

Motif 9
AGGGGCGAATCTT 0 47 1
AGGGGCGATCCTT 0 87 0
AGGGGCAATTCAT 0 125 1
AAGGGAGTTGCAT 1 387 1
AAGAGCAATGCGT 1 424 1
AAGGCAAATTCTT 1 578 0
AAGGGGAAACCAT 2 159 0
AAATCTAATCCAT 2 224 0
AGGTGAAAAGCTT 2 514 0
*** * *** ***
MAP Score: 4.43474

Motif 10
ACAGGAGACGATAT 0 100 1
ACGGGAGAACATCT 0 148 1
CATGGAGACGAAGA 1 203 0
AACGGTGAACATGA 1 258 1
AGGGCAGAAGGTGT 1 337 1
AAGGCTGAAGATCT 2 38 0
AGGGGAAACCATGA 2 157 0
AACGGAGACCAAAT 2 233 0
CTTGGAGAAGATTT 2 432 0
* ****** ** *
MAP Score: 3.86162

Motif 11
TAAGCGTGCTAGACTTAATGACAT 0 0 1
TAGCCGAGGTAGACCTTGAGAGAC 1 28 1
CGCCCGAATCATATGGTACGTAAT 1 276 0
CAACACTTCGACACCTTCTGCCCT 1 337 0
TACCCGACATACAGGTAGAGGGCC 1 436 1
CCTCAGCACAACATGCAAGGAGAT 1 503 0
CACCAGTCGAAGAGCATTTGACGT 1 529 1
TAGCCGAGAAAGATCTTCAGCCTT 2 28 1
TATCAGTATCAAAGCGATAGATCT 2 457 1
CATCAGGTGAAAAGCTTTCGGGCT 2 507 0
** *** * * * * *
MAP Score: 3.46995

Motif 12
TCTAGGGGCGAATCTTGTA 0 44 1
TGTAGGGGCGATCCTTGTG 0 84 0
TGCAGGGGCAATTCATGAA 0 122 1
TTCAGGAGGCACCAATGCA 1 370 0
TTCAGGGAAGAGCAATGCG 1 417 1
TGGCGGCGCGATGGTTGTA 2 368 1
TACCGGCGTTTACCTTGGA 2 440 0
TGGAGGAAGGTAATTTCCA 2 484 0
* *** * * *** *
MAP Score: 3.26988

Motif 13
ACGTCAAATGCT 1 541 0
AAGGCAAATTCT 1 579 0
AAATGAAAGGCT 1 616 1
AAACGAAAGGCT 1 649 0
AAGGAAGAGGCT 2 66 0
AAGGTAAACGCC 2 443 1
AGGTGAAAAGCT 2 515 0
**** *** ***
MAP Score: 2.69866

Motif 14
ATGACATCGATCAATTC 0 17 1
ATCACAAGGATCGCCCC 0 82 1
ATGAGACCGATGATATC 1 469 1
TTTAAAATCATGGTGTT 1 563 0
ATCAAAATGAAAGGCTC 1 612 1
TCGACATGGATTAGATT 2 219 1
TTGAAATAGAGTGTATT 2 336 1
TCTACAACCATCGCGCC 2 372 0
ATCAAAGCGATAGATCT 2 464 1
** * * *** * **
MAP Score: 1.91759

Motif 15
TCCTTGTGATCGCCCACCGAG 0 71 0
TCGGAGAAGTCGTCCATAGGG 1 76 1
TCGCCTTCGTCCGCGACATGG 1 212 0
TCATATTGCTGGACCAGAGGG 1 663 1
TTTTGAGGCTCGCCCAGAAGG 2 74 0
TCGTTGATATCGGTCAAATAG 2 121 1
TTGATCACGTCGGCGAAAGGG 2 275 1
TGTTCGCGTTCGTTGAAATAG 2 324 1
* *** *** * **
MAP Score: 1.76196

Motif 16
TCGATGTCATTA 0 15 0
TCGATGCGAATG 1 179 1
CCGACGGCAACG 1 250 1
TCGACGCCATCG 1 308 0
CCGATGATATCG 1 475 1
CCGATATCAACG 2 122 0
CGGATGCCAACG 2 248 1
CCGACGTGATCA 2 276 0
CCGATGACCACG 2 418 0
****** ****
MAP Score: 0.570014

Motif 17
TCTAGGGGCGAATCTTGTAT 0 44 1
TGCAGGGGCAATTCATGAAT 0 122 1
TCAAGGTCTACCTCGGCTAT 1 27 0
TAGAGGGCCGCAGCGCATAT 1 451 1
TGAAGATCTTTCTCGGCTAT 2 27 0
TCCAAGGTAAACGCCGGTAT 2 440 1
TGAAGATCTATCGCTTTGAT 2 464 0
* **** ** ***
MAP Score: 0.0804386