AlignACE 3.0 10/20/99 AlignACE2 -i PA/PA_fusions005_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944248483 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 PAB0315 300 hypothetical protein #1 mpg 70 PAB0317 #2 PAB0645 300 PAB0645 #3 PAB1665 46 hypothetical protein #4 PAB0780 300 hypothetical protein #5 graD-3 77 PAB0784 #6 PAB0816 300 hypothetical protein #7 graD-1 112 PAB1053 #8 trpS 173 PAB1111 #9 PAB1112 21 hypothetical protein #10 PAB1113 50 hypothetical protein Motif 1 CTTAACCTTCTCCTCTTCCTCCTCTGTGAAAA 4 35 1 AACCTCTTCCTCCTCTTCCTCCTCCAAGCTTG 4 65 1 TCTAAGCCTCTCCTTAACCTTCTCCTCTTCCT 4 23 1 TACAAACTTCTCCTCATCTCCCATCTTCATCC 4 206 1 CCCATCTTCATCCCCCACTTCCCTCTTTTATT 4 225 1 CCAATCTAAATTCTTGCCCCCCCCCATTGCCA 6 179 1 AAGAAGAACTTCCTTCGCTTCGCCCTCCTTTA 2 47 1 CCCTCCTTTATCCCTAATTTCCTATCAACTTC 2 69 1 TACTGGATTTTCCTCCGTCTCTGAGTATGTAA 4 121 0 ACTATTTAACTCCTTTCCTCTCAGAAATCTTA 2 241 1 ATGTACTGTTTCCCTTCCTTCGTTAGTACGAG 6 67 1 TCCCGCCCCATCCTTAACTTCTATATATGAAA 6 18 1 TCATCAATGCACCTTATTTTCCCGATGATAAT 6 109 1 GCGAAGGAAGTTCTTCTTTTCCTGGAAGATGC 2 33 0 CTTGATCCTGTTCTCTATCTTCTCGTAAAGCG 4 155 1 TCCCCATTCTCTTCTTTTATAA 1 0 1 GCTTTTTCTTCCCTTTCAAAT 9 5 1 AAATCCAGTATCCTTGATCCTGTTCTCTATCT 4 143 1 GGCGATTGTCAACTTTTCCTCCTTGGAGGATA 2 155 1 ACATTTAATATTCCCGCCCTTGTAAATTATTT 1 37 1 ATACCCTGATACCTCCATCCTGGTGGACGTTT 7 90 1 ATCCCGATTCCCGCCCCATCCT 6 0 1 CCCTCCTAATCCTAATCTCGCCAGCATCTT 2 8 1 ***** ***** MAP Score: 23.7969 Motif 2 TCCCCATTCTCTTCTTTTATAACCAT 1 0 1 ACCATAACATTTAATATTCCCGCCCTTGTAAATTAT 1 31 1 AGAACTTCCTTCGCTTCGCCCTCCTTTATCCCTAAT 2 51 1 CCTAATTTCCTATCAACTTCCTCCCAATAAGGTTCA 2 81 1 TTGGCGATTGTCAACTTTTCCTCCTTGGAGGATACC 2 153 1 ACCTTGAATTTCTTGTATTCCTCCCTAAGTGACATG 2 186 1 TTCGACTAATTACTATTTAACTCCTTTCCTCTCAGA 2 230 1 GTGGAAGGATTAAAAGTACCTCGTTAAATCGGTTT 3 21 0 TCCTTAACCTTCTCCTCTTCCTCCTCTGTGAAAACC 4 33 1 TCCTCTGTGAAAACCTCTTCCTCCTCTTCCTCCTCC 4 54 1 TCCTCCAAGCTTGCTAAGACCTCCCTCAAAACATAA 4 84 1 TCCTTGATCCTGTTCTCTATCTTCTCGTAAAGCGTT 4 153 1 TCTCCTCATCTCCCATCTTCATCCCCCACTTCCCTC 4 214 1 ATCCCGATTCCCGCCCCATCCTTAACT 6 1 1 ACTTCTATATATGAAATTGCCTTCTTGTTGATTATG 6 34 1 GTTGATTATGTACTGTTTCCCTTCCTTCGTTAGTAC 6 60 1 GGTGCATTGATGAAAATTTTATCCTCGTACTAACGA 6 86 0 GACCTTAATTTTATATATCCCTTCTCATTTTAATCA 10 16 1 * * * ******* MAP Score: 17.9447 Motif 3 GCCCTTTACTCTTATTTTCCCTAAAATGATG 0 197 1 TCCCCATTCTCTTCTTTTATAA 1 1 1 CCCTCCTAATCCTAATCTCGCCAGCATCTTC 2 10 1 GAAGGAAGTTCTTCTTTTCCTGGAAGATGCT 2 32 0 ACTTCCTTCGCTTCGCCCTCCTTTATCCCTA 2 54 1 CTCCTTTATCCCTAATTTCCTATCAACTTCC 2 71 1 CGATTGTCAACTTTTCCTCCTTGGAGGATAC 2 157 1 CCTTGAATTTCTTGTATTCCTCCCTAAGTGA 2 187 1 TAAGCCTCTCCTTAACCTTCTCCTCTTCCTC 4 25 1 ACCTTCTCCTCTTCCTCCTCTGTGAAAACCT 4 39 1 TCTGTGAAAACCTCTTCCTCCTCTTCCTCCT 4 57 1 TCTTCCTCCTCTTCCTCCTCCAAGCTTGCTA 4 69 1 ACTGGATTTTCCTCCGTCTCTGAGTATGTAA 4 121 0 ATCCAGTATCCTTGATCCTGTTCTCTATCTT 4 145 1 TGATCCTGTTCTCTATCTTCTCGTAAAGCGT 4 157 1 ACAAACTTCTCCTCATCTCCCATCTTCATCC 4 207 1 CATCTCCCATCTTCATCCCCCACTTCCCTCT 4 220 1 CCCGCCCCATCCTTAACTTCTATATATGAAA 6 19 1 CATCAATGCACCTTATTTTCCCGATGATAAT 6 110 1 AATCTAAATTCTTGCCCCCCCCCATTGCCAC 6 181 1 GCTTTTTCTTCCCTTTCAAAT 9 1 1 *** ******* MAP Score: 13.7507 Motif 4 CCATAACATTTAATATTCCCGCCCTTGTAAATTATT 1 32 1 AGAAGAACTTCCTTCGCTTCGCCCTCCTTTATCCCT 2 48 1 CTCTTGGCGATTGTCAACTTTTCCTCCTTGGAGGAT 2 150 1 CTAATTACTATTTAACTCCTTTCCTCTCAGAAATCT 2 235 1 CTGATTTTATTCTAAAGTTTTCCCTTTATAAGATTT 2 265 0 TAGCCAAGGGCTCTAAGCCTCTCCTTAACCTTCTCC 4 12 1 CTCTCCTTAACCTTCTCCTCTTCCTCCTCTGTGAAA 4 30 1 TCCTCCTCTGTGAAAACCTCTTCCTCCTCTTCCTCC 4 51 1 CCTCCAAGCTTGCTAAGACCTCCCTCAAAACATAAG 4 85 1 ATCTCAATTGTTACAAACTTCTCCTCATCTCCCATC 4 195 1 TCTCCTCATCTCCCATCTTCATCCCCCACTTCCCTC 4 214 1 TAAGCTTTTATTACAAAATTTCCCTTACTAAAACTT 5 41 1 ATCCCGATTCCCGCCCCATCCTTAACTTCTATA 6 7 1 GGTGCATTGATGAAAATTTTATCCTCGTACTAACGA 6 86 0 ACCATCCAATCTAAATTCTTGCCCCCCCCCATTGCC 6 174 1 GGTATATCCTTTATATTTTTTCGCTCGGTTAAGTTA 7 59 0 GGATATACCCTGATACCTCCATCCTGGTGGACGTTT 7 86 1 AAAAGACTTATCTTATCTCCATGCTCGGTGGTCGTT 8 88 1 GACCTTAATTTTATATATCCCTTCTCATTTTAATCA 10 16 1 * * *** ***** MAP Score: 13.3852 Motif 5 GAGTATAATTCCTTGACTCAGGCCGTTGCTTTTTAG 0 161 1 CTTTTTAGGCCCTTTACTCTTATTTTCCCTAAAATG 0 189 1 TCCCCATTCTCTTCTTTTATAACCATAA 1 2 1 AGAAGAACTTCCTTCGCTTCGCCCTCCTTTATCCCT 2 48 1 CTTCGCCCTCCTTTATCCCTAATTTCCTATCAACTT 2 64 1 GGGCTCTAAGCCTCTCCTTAACCTTCTCCTCTTCCT 4 19 1 TTAACCTTCTCCTCTTCCTCCTCTGTGAAAACCTCT 4 36 1 TCTGTGAAAACCTCTTCCTCCTCTTCCTCCTCCAAG 4 57 1 TATCCTTGATCCTGTTCTCTATCTTCTCGTAAAGCG 4 151 1 ACAAACTTCTCCTCATCTCCCATCTTCATCCCCCAC 4 207 1 CCATCTTCATCCCCCACTTCCCTCTTTTATTAATGG 4 226 1 CCGATTCCCGCCCCATCCTTAACTTCTATATATGAA 6 13 1 TGTACTGTTTCCCTTCCTTCGTTAGTACGAGGATAA 6 68 1 AATCTAAATTCTTGCCCCCCCCCATTGCCACAACAC 6 181 1 GCTTTTTCTTCCCTTTCAAAT 9 1 1 *** **** * ** MAP Score: 12.9304 Motif 6 TCCCCATTCTCTTCTTTTATAACCAT 1 5 1 AACATTTAATATTCCCGCCCTTGTAAATTAT 1 36 1 GAACTTCCTTCGCTTCGCCCTCCTTTATCCC 2 52 1 ATTTCCTATCAACTTCCTCCCAATAAGGTTC 2 85 1 CGATTGTCAACTTTTCCTCCTTGGAGGATAC 2 157 1 GAATTTCTTGTATTCCTCCCTAAGTGACATG 2 191 1 ATTACTATTTAACTCCTTTCCTCTCAGAAAT 2 238 1 AAGGGCTCTAAGCCTCTCCTTAACCTTCTCC 4 17 1 CCTCTCCTTAACCTTCTCCTCTTCCTCCTCT 4 29 1 CCTCTGTGAAAACCTCTTCCTCCTCTTCCTC 4 55 1 CCTCTTCCTCCTCTTCCTCCTCCAAGCTTGC 4 67 1 TACTGGATTTTCCTCCGTCTCTGAGTATGTA 4 122 0 AATTGTTACAAACTTCTCCTCATCTCCCATC 4 200 1 CTCATCTCCCATCTTCATCCCCCACTTCCCT 4 218 1 TTCATCCCCCACTTCCCTCTTTTATTAATGG 4 231 1 ATCCCGATTCCCGCCCCATCCTTAACT 6 6 1 TTATGTACTGTTTCCCTTCCTTCGTTAGTAC 6 65 1 TGAAAATTTTATCCTCGTACTAACGAAGGAA 6 81 0 TCTAAATTCTTGCCCCCCCCCATTGCCACAA 6 183 1 ATACCCTGATACCTCCATCCTGGTGGACGTT 7 90 1 GCTTTTTCTTCCCTTTCAAAT 9 2 1 TAATTTTATATATCCCTTCTCATTTTAATCA 10 21 1 * ********* MAP Score: 12.2834 Motif 7 AAAGATTTATAACCTCAAGGGTTTCTCATCAACACGACG 0 265 1 TCCTAATCCTAATCTCGCCAGCATCTTCCAGGAAAAGAA 2 13 1 GGAAAAGAAGAACTTCCTTCGCTTCGCCCTCCTTTATCC 2 43 1 CTTTATCCCTAATTTCCTATCAACTTCCTCCCAATAAGG 2 74 1 CCTCTTGGCGATTGTCAACTTTTCCTCCTTGGAGGATAC 2 149 1 GGATACCTTGAATTTCTTGTATTCCTCCCTAAGTGACAT 2 182 1 CGATTTAACGAGGTACTTTTAATCCTTCCAC 3 25 1 AAGGGCTCTAAGCCTCTCCTTAACCTTCTCCTCTTCCTC 4 17 1 CCTCTGTGAAAACCTCTTCCTCCTCTTCCTCCTCCAAGC 4 55 1 TTCCTCCTCCAAGCTTGCTAAGACCTCCCTCAAAACATA 4 80 1 CAATTGTTACAAACTTCTCCTCATCTCCCATCTTCATCC 4 199 1 CTCATCTCCCATCTTCATCCCCCACTTCCCTCTTTTATT 4 218 1 CTTAACTTCTATATATGAAATTGCCTTCTTGTTGATTAT 6 30 1 CTTGTTGATTATGTACTGTTTCCCTTCCTTCGTTAGTAC 6 57 1 CATCCAATCTAAATTCTTGCCCCCCCCCATTGCCACAAC 6 176 1 AATATAAAGGATATACCCTGATACCTCCATCCTGGTGGA 7 78 1 TTTAGACCTTAATTTTATATATCCCTTCTCATTTTAATC 10 12 1 * *** ****** MAP Score: 9.56748 Motif 8 GCTTTTTAGGCCCTTTACTCTTATTTTCCCTA 0 188 1 TCCCCATTCTCTTCTTTTATAAC 1 1 1 CCCTCCTAATCCTAATCTCGCCA 2 1 1 CGAAGGAAGTTCTTCTTTTCCTGGAAGATGCT 2 32 0 AGAAGAACTTCCTTCGCTTCGCCCTCCTTTAT 2 48 1 TCGCTTCGCCCTCCTTTATCCCTAATTTCCTA 2 61 1 AATTTCCTATCAACTTCCTCCCAATAAGGTTC 2 84 1 GCGATTGTCAACTTTTCCTCCTTGGAGGATAC 2 156 1 ACCTTGAATTTCTTGTATTCCTCCCTAAGTGA 2 186 1 TTAACGAGGTACTTTTAATCCTTCCAC 3 29 1 CTCTCCTTAACCTTCTCCTCTTCCTCCTCTGT 4 30 1 TCTGTGAAAACCTCTTCCTCCTCTTCCTCCTC 4 57 1 TCTTCCTCCTCTTCCTCCTCCAAGCTTGCTAA 4 69 1 TGATCCTGTTCTCTATCTTCTCGTAAAGCGTT 4 157 1 GTTACAAACTTCTCCTCATCTCCCATCTTCAT 4 204 1 CCTCATCTCCCATCTTCATCCCCCACTTCCCT 4 217 1 CATCAATGCACCTTATTTTCCCGATGATAATT 6 110 1 GCTTTTTCTTCCCTTTCAAAT 9 1 1 TTTATATATCCCTTCTCATTTTAATCATTCTG 10 25 1 **** ** **** MAP Score: 8.6091 Motif 9 TAATTTACAAGGGCGGGAATATTAAATGTT 1 36 0 GCATCTTCCAGGAAAAGAAGAACTTCCTTC 2 33 1 GGAGGGCGAAGCGAAGGAAGTTCTTCTTTT 2 45 0 GAACCTTATTGGGAGGAAGTTGATAGGAAA 2 86 0 GGTATCCTCCAAGGAGGAAAAGTTGACAAT 2 159 0 CATGTCACTTAGGGAGGAATACAAGAAATT 2 192 0 ATTTCTGAGAGGAAAGGAGTTAAATAGTAA 2 239 0 CAGAGGAGGAAGAGGAGAAGGTTAAGGAGA 4 31 0 AGAGGTTTTCACAGAGGAGGAAGAGGAGAA 4 42 0 GGAGGAAGAGGAGGAAGAGGTTTTCACAGA 4 57 0 AGCAAGCTTGGAGGAGGAAGAGGAGGAAGA 4 69 0 TACATACTCAGAGACGGAGGAAAATCCAGT 4 122 1 GATGAAGATGGGAGATGAGGAGAAGTTTGT 4 207 0 GAGGGAAGTGGGGGATGAAGATGGGAGATG 4 220 0 CCATTAATAAAAGAGGGAAGTGGGGGATGA 4 232 0 AAATTCTAATAAACAGGAAGGC 4 288 1 GTTAAGGATGGGGCGGGAATCGGGAT 6 6 0 CCTCGTACTAACGAAGGAAGGGAAACAGTA 6 70 0 CAATGGGGGGGGGCAAGAATTTAGATTGGA 6 178 0 AACGTCCACCAGGATGGAGGTATCAGGGTA 7 91 0 TGATCCATCTAGGGGGGATTCTGT 8 159 1 ATTTGAAAGGGAAGAAAAAGC 9 4 0 TGATTAAAATGAGAAGGGATATATAAAATT 10 22 0 ********** MAP Score: 6.05852 Motif 10 AGGAATTATACTCACTTATCCAAAGAACCGTT 0 142 0 GCCCTTTACTCTTATTTTCCCTAAAATGATGT 0 197 1 TATTTGAATTCAAATTCCTCTTGATACAAAAA 0 235 1 TCCCCATTCTCTTCTTTTATAAC 1 1 1 CCTCCTAATCCTAATCTCGCCAGCATCTTCCA 2 11 1 ACTTCCTTCGCTTCGCCCTCCTTTATCCCTAA 2 54 1 AATTTCCTATCAACTTCCTCCCAATAAGGTTC 2 84 1 CGAGGTACTTTTAATCCTTCCAC 3 33 1 TTAACCTTCTCCTCTTCCTCCTCTGTGAAAAC 4 36 1 TCTGTGAAAACCTCTTCCTCCTCTTCCTCCTC 4 57 1 TCTTCCTCCTCTTCCTCCTCCAAGCTTGCTAA 4 69 1 TCCAAGCTTGCTAAGACCTCCCTCAAAACATA 4 87 1 TCAATTGTTACAAACTTCTCCTCATCTCCCAT 4 198 1 CCTCATCTCCCATCTTCATCCCCCACTTCCCT 4 217 1 GCTTTTATTACAAAATTTCCCTTACTAAAACT 5 44 1 ATCCCGATTCCCGCCCCATCCTTAACTTCTAT 6 10 1 AATCTAAATTCTTGCCCCCCCCCATTGCCACA 6 181 1 CCCATTGCCACAACACCTGCCAAGGTAAAATA 6 201 1 TATACCCTGATACCTCCATCCTGGTGGACGTT 7 89 1 ACAGAATCCCCCCTAGATGGATC 8 160 0 ** * ******* MAP Score: 3.60584 Motif 11 TCGTCGGCATAATAAAAGTCCTTTCTGGAGA 6 142 0 CGATATTTGAATTCAAATTCCTCTTGATACA 0 232 1 GGGCTCCTTTATTCAAAGTCCTAGATGTTCA 0 69 1 CGTTGCCAAACCTAAAATTCCAGCCACCATA 0 115 0 GTGGAAGGATTAAAAGTACCTCGTTAAAT 3 27 0 TGGATAAGTGAGTATAATTCCTTGACTCAGG 0 152 1 GTTTGTAACAATTGAGATTCCAAAAACGCTT 4 182 0 CAGATGCCAGACAAAAATTACAGTTAAGCTT 5 17 1 AGCTTTTATTACAAAATTTCCCTTACTAAAA 5 43 1 * ********* MAP Score: 0.633486 Motif 12 AAGTGAGTATAATTCCTTGACTCAGGCCGTTGCTTTTT 0 157 1 GAAAAGAAGAACTTCCTTCGCTTCGCCCTCCTTTATCC 2 44 1 TTTCCTATCAACTTCCTCCCAATAAGGTTCACTTTCCG 2 86 1 GATTGTCAACTTTTCCTCCTTGGAGGATACCTTGAATT 2 158 1 GGATACCTTGAATTTCTTGTATTCCTCCCTAAGTGACA 2 182 1 CCTCTCCTTAACCTTCTCCTCTTCCTCCTCTGTGAAAA 4 29 1 CTCTGTGAAAACCTCTTCCTCCTCTTCCTCCTCCAAGC 4 56 1 CCTGTTCTCTATCTTCTCGTAAAGCGTTTTTGGAATCT 4 161 1 AATTGTTACAAACTTCTCCTCATCTCCCATCTTCATCC 4 200 1 CTCATCTCCCATCTTCATCCCCCACTTCCCTCTTTTAT 4 218 1 CGAGGATAAAATTTTCATCAATGCACCTTATTTTCCCG 6 95 1 TCCCGATGATAATTTCTCCAGAAAGGACTTTTATTATG 6 128 1 ATACCCTGATACCTCCATCCTGGTGGACGTTT 7 90 1 GACTTATCTTATCTCCATGCTCGGTGGTCGTTTTTGGG 8 92 1 * ******* * * MAP Score: 0.154215