AlignACE 3.0 10/20/99 AlignACE2 -i BS/BS_fusions010_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944240809 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 ybaN 300 alternate gene name: ybxG; similar to polysaccharide deacetylase #1 lrpC 184 transcriptional regulator (Lrp/AsnC family) #2 topB 64 DNA topoisomerase III #3 ydaJ 202 ydaJ #4 yfjT 144 yfjT #5 yfjS 100 similar to polysaccharide deacetylase #6 yjeA 178 similar to endo-1,4-beta-xylanase #7 ylxS 300 alternate gene name: ymxA; similar to hypothetical proteins #8 nusA 34 nusA #9 truB 81 tRNA pseudouridine 55 synthase #10 rpsO 156 ribosomal protein S15 (BS18) #11 pnpA 172 polynucleotide phosphorylase (PNPase) #12 ylxY 117 alternate gene name: ymxI; similar to deacetylase #13 xynA 300 endo-1,4-beta-xylanase #14 yveR 24 similar to spore coat polysaccharide biosynthesis #15 yveM 258 similar to capsular polysaccharide biosynthesis #16 yveK 245 similar to capsular polysaccharide biosynthesis #17 bglS 295 endo-beta-1,3-1,4 glucanase #18 licT 95 transcriptional antiterminator (BglG family) #19 yxiP 206 yxiP Motif 1 TGATGATGCCTCCTTATCTTGTCCAT 0 284 0 AAATCGCCCTCCTTGTGGACACGT 1 4 1 TTCAACATCCTTCTTTTTTGATTTTG 1 168 0 TAGCTTTTTTTTCCCTTTTTGAACATTAAG 3 64 0 AGGCAAATCCCCCTTTGTCGCCTGAA 3 186 0 GACTATCTAACTCCTTTATAAATGGGCATA 4 10 1 TCTGTTCCTCCATTCATTTTTTAT 4 130 0 GTTCATGTCAATCCTTTTTAAGGAATTTCA 6 31 0 CAAAAACTCCTTCTTTCGTAGCCATT 6 162 0 GTTCTTCCTCCTTGTGCTGTCGAT 7 286 0 TTAACGGTCTCCCCCCTTAAAACATTTG 8 16 0 ATATACGCCTATCCTCTCTTTTT 9 3 0 TTGCCTTTCACTCCTTCTTTTGAGTTTTTT 9 61 0 AGCGGGAATCCTCCCGCTTTTTACGA 11 6 0 AGCGGGAGGATTCCCGCTTTTTTATCGTAT 11 18 1 CAATTACGAACTCCTCTCTTCGTTGTGTGA 11 151 0 AGGTAGAACCCGCCTGCTTTTGAAAAGCTT 12 55 0 CCTTGTCCTTCTCCTTCATAATGTGAGGTG 12 82 1 GTATATCTCCTTTATTTGAAATGGTT 13 6 1 CCATATCCTGATCCTTTTTTCGCAGGATCA 13 88 0 CAGAGCCGAGTGCCTCCATTGATACAGGTC 15 33 0 ACTCAACCTTTTCCCCCCTAATTCTTTTAT 15 220 0 ATATGAAATTCTCCTCTATTCCTGTCGTTA 16 11 1 TTTACTGCACTTCCCTTATTATTTTAAATT 16 77 0 ATTTAGGTTTTGCCTGCTTTATCAGTAACA 17 79 0 TTGACCGATGTTCCCTTTTAAAAGAATCAT 17 229 1 GCTCTGTCTCCTCTCTGCTGAATCCCT 19 189 0 ********** MAP Score: 21.2998 Motif 2 TTACCGAGGCAAAGAGTGGGGAAACCCGCTC 7 148 1 AAACGCTTTCAATGAAAGGGGAATGCCAAT 17 275 1 CCAATCATTAACAGAAAGGGGCGCGGGAAGC 16 193 1 TTCACACAACGAAGAGAGGAGTTCGTAATTG 11 150 1 ATGGGCCTGAAAAGAATGGAATGCACGTCAA 19 51 1 CATAATAAAAAATGAATGGAGGAACAGA 4 126 1 GTTCAATACAAAAGAGCGGGTTTCCCCACTC 7 161 0 TAATACGATAAAAAAGCGGGAATCCTCCCGC 11 19 0 TCGTAAAAAGCGGGAGGATTCCCGC 11 4 1 AAAAAGAGAGGATAGGCGTAT 9 0 1 GATGAGCGTGAAAGAAAGAGAAGTGATCAAG 2 42 1 CCTAAATTGCAATGAGTGCGGATCATCTCTG 17 102 1 CCGATAAAAGAATTAGGGGGGAAAAGGTTGA 15 217 1 TCTTATAAACGAAGAAAGAGGACAGACGATA 9 30 0 GAACCATTTCAAATAAAGGAGATATAC 13 6 0 TAAATTTTATAAAGAACGAAAAATTCCTTAT 16 52 0 AAGGGATTCAGCAGAGAGGAGACAGAGC 19 188 1 GCTTCAGGCGACAAAGGGGGATTTGCCT 3 184 1 GTGGTATTATACTGAAGGGGACGATCAAAAG 13 197 1 AAAAAACTCAAAAGAAGGAGTGAAAGGCAA 9 61 1 AATGGCTACGAAAGAAGGAGTTTTTG 6 162 1 CTTAATGTTCAAAAAGGGAAAAAAAAGCTAG 3 64 1 ATAACGACAGGAATAGAGGAGAATTTCATAT 16 11 0 AATTTAAAATAATAAGGGAAGTGCAGTAAAT 16 77 1 GTAAAATAAGAAAAAATGCAGAAGGAGCGCT 5 75 1 TATAAAAGAAAAAAAATGCAGATTGCTAGCT 3 89 0 AATTCCTTATAATGAACGAAATAACGACAGG 16 31 0 AAAAGCTTCAAAATAAAGAAGCCGGGTCTCC 12 32 0 AAGTGCAGTAAATTAGAGGAAAATCATGATT 16 95 1 CCCTGCTTCAAAAGAGCAGGGGCTAAAAAGT 7 224 0 ****** **** MAP Score: 20.161 Motif 3 ATATGCCCCCCCGGATTGTTTATAGTATAAA 1 40 0 GCGATAGGCACAGGTTTTTTTA 3 1 0 GCCTATCGCACAGGTTTTTTATTGGACTTAG 3 23 1 CGTGCCCGCCGCGGTTTTTTTATTGGCATAA 5 15 1 GAAATTCGGTTTTTTTTATGATGAAA 6 5 1 AGTGGGGAAACCCGCTCTTTTGTATTGAACA 7 162 1 CTTTTTAGCCCCTGCTCTTTTGAAGCAGGGT 7 225 1 TCTTTTGAAGCAGGGTTTTTATGCAGAGTGA 7 240 1 TGCATATAGGCACGATTTTTAGTATGATAGT 10 44 1 CGGGAATCCTCCCGCTTTTTACGA 11 3 0 CGGGAGGATTCCCGCTTTTTTATCGTATTAA 11 20 1 CCGGGTCTCCCAGGCTCCTTTTATGTTTTCA 12 11 0 CCTGGGAGACCCGGCTTCTTTATTTTGAAGC 12 28 1 TCCACCATATCCTGATCCTTTTTTCGCAGGA 13 91 0 TTTAGCTGCTGCCGATTTTTTGGAGAGACGA 15 169 1 GTTGATCTTACATGATTCTTTTAAAAGGGAA 17 239 0 **** ****** MAP Score: 16.6903 Motif 4 AGTAATAAAGCTGCTTCGTTAAGCGGCAGT 0 50 0 TTCAACATCCTTCTTTTTTGATTTTGTAC 1 165 0 GCTTGATCACTTCTCTTTCTTTCACGCTC 2 45 0 AGCTAGCAATCTGCATTTTTTTTCTTTTAT 3 89 1 AGGCAAATCCCCCTTTGTCGCCTGAAGCA 3 183 0 ATTATGGTAGCTCATTTTTTGCCGTTTTTC 4 102 0 AGCGCTCCTTCTGCATTTTTTCTTATTTTA 5 76 0 CAAAAACTCCTTCTTTCGTAGCCATT 6 162 0 GTGGGGAAACCCGCTCTTTTGTATTGAACA 7 163 1 TTTTTAGCCCCTGCTCTTTTGAAGCAGGGT 7 226 1 ATACGCCTATCCTCTCTTTTT 9 1 0 TATCGTCTGTCCTCTTTCTTCGTTTATAAG 9 30 1 TTGCCTTTCACTCCTTCTTTTGAGTTTTTT 9 61 0 GGGAATCCTCCCGCTTTTTACGA 11 3 0 GGGAGGATTCCCGCTTTTTTATCGTATTAA 11 21 1 CAATTACGAACTCCTCTCTTCGTTGTGTGA 11 151 0 GTCTCCCAGGCTCCTTTTATGTTTTCAT 12 8 0 GGAGACCCGGCTTCTTTATTTTGAAGCTTT 12 32 1 CTACCTTGTCCTTCTCCTTCATAATGTGAG 12 79 1 GTATATCTCCTTTATTTGAAATGGTT 13 6 1 CCATATCCTGATCCTTTTTTCGCAGGATCA 13 88 0 TTAGCTGCTGCCGATTTTTTGGAGAGACGA 15 170 1 ATATGAAATTCTCCTCTATTCCTGTCGTTA 16 11 1 TAGGTTTTGCCTGCTTTATCAGTAACAATC 17 76 0 ********** MAP Score: 15.6063 Motif 5 GCTCATAAGATGTAAAACAAGAATGATGGACAA 0 259 1 AGTCTCTATCTGTAAAATAAGAAAAAATGCAGA 5 64 1 ATTGTGATCCTGCGAAAAAAGGATCAGGATATG 13 84 1 TCGAAATGGCTACGAAAGAAGGAGTTTTTG 6 158 1 GTACATTTACTATAAAAGAAAAAAAATGCAGAT 3 97 0 AAGAAAAAAACTCAAAAGAAGGAGTGAAAGGCA 9 57 1 TCATCTTCCCTCTGAAAAAAATAAAAACCTAAA 17 149 0 TTTGAAAAGCTTCAAAATAAAGAAGCCGGGTCT 12 34 0 ATTTAAAAATTGCAAAATAAGCCAATAAGTTCT 16 139 0 CTTTATAAAATTTAAAATAATAAGGGAAGTGCA 16 69 1 GATGTTCCCTTTTAAAAGAATCATGTAAGATCA 17 235 1 CATTAAATACTTTGAAAAAAGTTGTTGACTTAA 0 97 0 ACAGGATGAGCGTGAAAGAAAGAGAAGTGATCA 2 38 1 CTCTTCGTTGTGTGAAATAATCAATTACTCCTA 11 133 0 TCCATCTGAATTAGAAACAAGAATTGTGATCCT 13 62 1 ATGATTGGATTATAAAAGAAAACGTTATTATTT 16 168 0 AAGTTGTTGACTTAAAAGAAGCTAAATGTTATA 0 79 0 TGTACAAAATCAAAAAAGAAGGATGTTGAA 1 164 1 AAAGCAACAGTATAAAACAAAGTCTCTATCTGT 5 44 1 GGAATTTCATCATAAAAAAAACCGAATTTC 6 7 0 * ***** *** * MAP Score: 12.5898 Motif 6 ACATTATCTCGGGTATTTTTGTAAATGACAAGTACAGTTCC 1 124 0 GGTCCTGTTTTCTTAATGTTCAAAAAGGGAAAAAAAAGCTA 3 53 1 TGTTACAAAGTACATTTACTATAAAAGAAAAAAAATGCAGA 3 98 0 GACTATCTAACTCCTTTATAAATGGGCATACTAACGCT 4 7 1 CTTCTAAATCTCATAGTATTACAAATGTGAAATAAATGTTA 6 60 1 ACCATAACCATATTTTTATTGCAAATGGATATACGCTTACC 7 82 0 GGTTATGGTATAGTTTTATTGGAAATGCTAACGATTACCGA 7 114 1 TGAATACAAATGTTTTAAGGGGGGAGACCGTTAA 8 4 1 TTCTTTTGAGTTTTTTTCTTATAAACGAAGAAAGAGGACAG 9 36 0 CGCCTGCTTTTGAAAAGCTTCAAAATAAAGAAGCCGGGTCT 12 34 0 CGTTAGTAATTAAGAATGTTTTAAATGTATACGAGTGCTAC 13 234 1 CCCTTATTATTTTAAATTTTATAAAGAACGAAAAATTCCTT 16 54 0 TTTCTGTTAATGATTGGATTATAAAAGAAAACGTTATTATT 16 169 0 TGATCTTACATGATTCTTTTAAAAGGGAACATCGGTCAAAA 17 227 0 CGAAAAAACATAAATATTTTGTAAAAATTGACGTGCATTCC 19 68 0 * * * ** *** * * MAP Score: 11.916 Motif 7 TTCTGCATTTTTTCTTATTTTACAGATAGAGACTT 5 63 0 AAAATCATGATTTTGTTCTCTAAAGAGAACTTATT 16 114 1 AATCTGCATTTTTTTTCTTTTATAGTAAATGTACT 3 96 1 GTCTGTCCTCTTTCTTCGTTTATAAGAAAAAAACT 9 34 1 ATAAGGAATTTTTCGTTCTTTATAAAATTTAAAAT 16 52 1 AACAGGTACGTTTTGTCTTGTTTAGTTTTCAAAGA 0 10 1 TAATTTAGGTTTTTATTTTTTTCAGAGGGAAGATG 17 146 1 TAGGTCCTGTTTTCTTAATGTTCAAAAAGGGAAAA 3 51 1 GTATGATAGTTTTCGTAGTCTTAAAACCATTGCTT 10 65 1 CACGTTTTCATTTTATACTATAAACAATCCGGGGG 1 29 1 ATTCCCGCTTTTTTATCGTATTAAAGCGAAATTTC 11 27 1 GACATTTGTGTTTCCTTGTGTTCACTTTTTCTTAC 17 20 1 AATAATAACGTTTTCTTTTATAATCCAATCATTAA 16 169 1 AACATCCTTCTTTTTTGATTTTGTACACATTATCT 1 156 0 AAACCCGCTCTTTTGTATTGAACAGGAGAATTTTG 7 169 1 TTTTAAGGAATTTCATCATAAAAAAAACCGAATTT 6 11 0 TTTAACTATATTTTATGGTATTTTCCAGAAGGGAT 19 160 1 ATGGCAGTCATATTTTCGTCTATAACTATTTGTGA 3 138 1 GATTCGATATTATCATTATTTTGACCGATGTTCCC 17 209 1 **** * * ** ** MAP Score: 11.4145 Motif 8 AAATCGCCCTCCTTGTGGACACGTTTTCATTTTATAC 1 9 1 CGGAAAACATTCATTTTTACATGCCTTTTCTAGGGAAC 1 91 1 TTCAACATCCTTCTTTTTTGATTTTGTACACATTA 1 159 0 CAGATTGCTAGCTTTTTTTTCCCTTTTTGAACATTAAG 3 64 0 CTAGCAATCTGCATTTTTTTTCTTTTATAGTAAATGTA 3 91 1 TTATGGTAGCTCATTTTTTGCCGTTTTTCAATCGCCGC 4 93 0 CGCTCCTTCTGCATTTTTTCTTATTTTACAGATAGAGA 5 66 0 TGCCTTTCACTCCTTCTTTTGAGTTTTTTTCTTATAAA 9 52 0 AGACCCGGCTTCTTTATTTTGAAGCTTTTCAAAAGCAG 12 34 1 TCTATTCCTGTCGTTATTTCGTTCATTATAAGGAATTT 16 25 1 AAGGAATTTTTCGTTCTTTATAAAATTTAAAATAATAA 16 54 1 GAACTTATTGGCTTATTTTGCAATTTTTAAATAATAAC 16 140 1 CATTTGTGTTTCCTTGTGTTCACTTTTTCTTACATTCA 17 22 1 TTAGTAAGATTCGATATTATCATTATTTTGACCGATGT 17 202 1 ** ** *** *** MAP Score: 10.2943 Motif 9 AAACAAGAATGATGGACAAGATAAGGAGGC 0 273 1 GTATTTTTGTAAATGACAAGTACAGTTCCC 1 123 0 AGAGTGCCGCGCGAAGTCTGT 2 1 1 ACGAAAATATGACTGCCATGTTACAAAGTA 3 127 0 CCTTAAAAAGGATTGACATGAACTTCTAAA 6 38 1 AAATGCTAACGATTACCGAGGCAAAGAGTG 7 136 1 AAAAGTAAACGATGAACATGTCGAGACAAA 7 200 0 TTTTTATGCAGAGTGACGAGACGAATATGA 7 255 1 GGTGACTTCGGATTGCCAAGCAATGGTTTT 10 87 0 TTATGAAGGAGAAGGACAAGGTAGAACCCG 12 73 0 AGTAGATTTGGAGGGACATGCC 18 83 1 ATTTTGTAAAAATTGACGTGCATTCCATTC 19 64 0 ********** MAP Score: 3.23976 Motif 10 GATGGACAAGATAAGGAGGCATCATCA 0 283 1 AAACGTGTCCACAAGGAGGGCGATTT 1 5 0 CTTAATGTTCAAAAAGGGAAAAAAAAGCTAG 3 64 1 GCTTCAGGCGACAAAGGGGGATTTGCCT 3 184 1 TAACTCCTTTATAAATGGGCATACTAACGCT 4 17 1 ACCGAGGCAAAGAGTGGGGAAACCCGCTCTT 7 150 1 GATCGACAGCACAAGGAGGAAGAAC 7 285 1 TACAAATGTTTTAAGGGGGGAGACCGTTAA 8 14 1 TTATAAACGAAGAAAGAGGACAGACGATATA 9 28 0 TCGTAAAAAGCGGGAGGATTCCCGC 11 4 1 AATACGATAAAAAAGCGGGAATCCTCCCGCT 11 18 0 AAGCTTCAAAATAAAGAAGCCGGGTCTCCCA 12 30 0 GAAGCTTTTCAAAAGCAGGCGGGTTCTACCT 12 54 1 TAATGTGAGGTGAGGGGGGGACAGAAC 12 100 1 GGTATTATACTGAAGGGGACGATCAAAAGCT 13 199 1 TATATATGAGATAAGTGGGCATTTAACCCAT 15 120 0 CGTCTCTCCAAAAAATCGGCAGCAGCTAAAC 15 168 0 CGATAAAAGAATTAGGGGGGAAAAGGTTGAG 15 218 1 AATCATTAACAGAAAGGGGCGCGGGAAGCCA 16 195 1 ATTGTTACTGATAAAGCAGGCAAAACCTAAA 17 77 1 TGATTCTTTTAAAAGGGAACATCGGTCAAAA 17 227 0 ACGCTTTCAATGAAAGGGGAATGCCAAT 17 277 1 CTATTGTACGAGAAATGGGCCTGAAAAGAAT 19 37 1 * ********* MAP Score: 2.22161 Motif 11 GGGGGGCATATGACAGCTTTCAAAAAATGTTCGGAAA 1 60 1 GGGAACTGTACTTGTCATTTACAAAAATACCCGAGAT 1 123 1 TAGGTCCTGTTTTCTTAATGTTCAAAAAGGGAAAAAA 3 51 1 TAAAACAAAGTCTCTATCTGTAAAATAAGAAAAAATG 5 56 1 TTTTAAGGAATTTCATCATAAAAAAAACCGAATTTC 6 9 0 ATAAATGTTACTACAATGTTACAAAAACATTTCTAAA 6 91 1 ATATTCGTCTCGTCACTCTGCATAAAAACCCTGCTTC 7 246 0 GAACTCCTCTCTTCGTTGTGTGAAATAATCAATTACT 11 137 0 GCTTCTTTATTTTGAAGCTTTTCAAAAGCAGGCGGGT 12 41 1 GATATTACTCCATCTGAATTAGAAACAAGAATTGTGA 13 54 1 AAACAAGAATTGTGATCCTGCGAAAAAAGGATCAGGA 13 76 1 GGTCAGGAGACATCACCTTTACAAAAA 15 0 0 CTGCGGCGGTTTTCGTCTCTCCAAAAAATCGGCAGCA 15 175 0 ATTGGCTTATTTTGCAATTTTTAAATAATAACGTTTT 16 146 1 CATTTTCATATGTGAATGTAAGAAAAAGTGAACACAA 17 35 0 CTATCATCATCTTCCCTCTGAAAAAAATAAAAACCTA 17 151 0 ATGGAATGCACGTCAATTTTTACAAAATATTTATGTT 19 66 1 * ** ** ***** MAP Score: 0.498957 Motif 12 AACAATCCGGGGGGGCATATGACAGCTTTCAAA 1 51 1 CAGGCGACAAAGGGGGATTTGCCT 3 188 1 AATGTTTTAAGGGGGGAGACCGTTAA 8 18 1 AACGAAGAAAGAGGACAGACGATATACGCCTAT 9 21 0 GTGAGGTGAGGGGGGGACAGAAC 12 104 1 CTGTATCAATGGAGGCACTCGGCTCTGCTGTGG 15 36 1 TATGAGATAAGTGGGCATTTAACCCATCCTCAC 15 114 0 AAAAGAATTAGGGGGGAAAAGGTTGAGTTACCG 15 222 1 ATTTTTTTCAGAGGGAAGATGATGATAGTTACA 17 160 1 TAGTAGATTTGGAGGGACATGCC 18 82 1 GTATTTTCCAGAAGGGATTCAGCAGAGAGGAGA 19 177 1 ******* * * * MAP Score: 0.0981231