AlignACE 3.0 10/20/99 AlignACE2 -i CP/CP_operons006_100.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944237385 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 CPn0276 263 CT191 hypothetical protein #1 dnaA_1 71 Replication Initiation Factor #2 60IM 138 60 kDa Inner Membrane Protein #3 dnaN 250 DNA Polymerase III (beta chain) #4 dnaA_2 300 Replication Initiation Factor #5 yaeS 300 YaeS family hypothetical protein #6 yidD 129 YidD family #7 gyrB_2 300 DNA Gyrase Subunit B #8 yabD 300 PHP superfamily (urease/pyrimidinase) hydrolase #9 thdF 150 Thiophene/Furan Oxidation Protein #10 yphC 116 GTPase/GTP-binding protein #11 CPn1058 148 CT355 hypothetical protein Motif 1 ACAGCCCCTAAAAGGGATTTTTATCATAAGAA 0 51 1 GTGGATATAAGAAGTTTCTTTTGATGCAGCAT 0 116 1 AGTATAACAAAAAGCAATTTTTCCTTCTTAAG 3 42 1 TCCTCAATCTAAAGCCTTTTTTATTAGTAAAA 3 116 1 ATATTACTACAAAGTGATTTTCTGGTCTTCTA 3 152 0 GTCAAGATGCAATGAGATTTTCTCGCCATCAC 4 225 1 GGTGTCTCAAGAAGAAAATTTTTGAGAGTTCT 5 106 0 CAAAAATCACAAAGGATTTTTCCCCAGCCATC 5 177 0 AGCTCTACTCAAAGATGTTTTCA 6 116 1 CTTCTTTAGTGAAGATATTTTCAAGAGAATGT 8 217 1 TAGAAAAGTTAAAGGAACTTTCGGATAGAATA 9 123 0 AGTTATTGATAAAGTGTTTTTTACTAATTAAA 11 21 1 ACCACTGAGAGAAGGTGTTTTCTTTCCTAAAA 11 62 0 **** ****** MAP Score: 14.2802 Motif 2 ATAAGAATTCCTCTTCGTCTTATTGACTTTTTTCGTTTCT 0 76 1 CGTCTTTTCTCTGTTTTTCTTTATGATCAGTTTTTAAATA 0 161 0 GATATGCGCTGTGTTATTCTTCAGGTAGGAT 0 242 1 CTGTATTGAGAGATTCTCCTTTGGGAGATAATGTGGGTTT 2 65 1 AACAAAAAGCAATTTTTCCTTCTTAAGACAATGATTAGAA 3 47 1 CAATCTAAAGCCTTTTTTATTAGTAAAATATCTAGAAGAC 3 120 1 ACTCTCAAAAATTTTCTTCTTGAGACACCGATCTGCTTAG 5 109 1 ATCCTTTGTGATTTTTGTCTTAGGTAAGTGAACGAATTCT 5 192 1 GTAAGTGAACGAATTCTCCTTTCTTAAAAATAGGTTCGAA 5 215 1 TAGGTTCGAAACGTTGTTCCTGAGAACGAATTGTGACTTA 5 245 1 CAGTTCCCGTGTTTTGTTCTTCCTTGATTAGGAAAAAGAG 7 13 1 AAACTTATGGATCTTAGTCTTGGGAATGTATCGCTATTAC 7 156 0 AAGATCCATAAGTTTCGTCTTAGTACGAAACTTATATGTT 7 181 1 AGGCAGGTGAACTTTGGTATTCTTGTTACAAATAAAAAGG 8 73 0 TGGGGAGCTTAAATTTTCCTTAGTAGGACAGAGTCTCGGG 8 155 1 TGTGTTTTAAGGATTCTTCTTTAGTGAAGATATTTTCAAG 8 202 1 TATTCCAATTGAATTAGTCTTAATATTTATCCAAACTCCT 9 58 1 AACTCCTATTATTTTCTCATTAATTACTGAAAAAATAGAA 10 75 1 TACTAATTAAAATTTATTCTTTTTAGGAAAGAAAACACCT 11 42 1 * ** ***** * * MAP Score: 11.5827 Motif 3 GCTGTAAAGATGTTAAGAGAGCAGTAAACAC 0 25 0 AATAAGCCTGTATTAAGACAATTCGACTTTT 1 19 0 AATTTTTCCTTCTTAAGACAATGATTAGAAT 3 57 1 GATTACTAGGTTTTAAGGCAAATTGGATCGT 4 51 0 GTGAAGTTCCTGTTAGGAATGGATCCTATAC 4 135 0 GTGATTTTTGTCTTAGGTAAGTGAACGAATT 5 199 1 TCGAACCTATTTTTAAGAAAGGAGAATTCGT 5 223 0 AGTCTTATCATTTAAGGACAGAATCCTTGGA 7 89 0 CCTTAAAAATTGTTAGGGCAGCATATGCTGC 8 42 1 CGGCTCTGCTTTTAAAGGCAGGTGAACTTTG 8 97 0 AAATTTTCCTTAGTAGGACAGAGTCTCGGGA 8 165 1 TTTGGATAAATATTAAGACTAATTCAATTGG 9 62 0 AATTTATTCTTTTTAGGAAAGAAAACACCTT 11 52 1 * ********* MAP Score: 9.54596 Motif 4 TGGCATGAGACTTTAGAATTTTACAGTCTAT 2 21 1 CTTCTAGATATTTTACTAATAAAAAAGGCTT 3 127 0 TTTGGGAAAGCTTTATAAATAAAGAGAGCGG 4 278 1 AAGTAAGAACTCTCAAAAATTTTCTTCTTGA 5 101 1 AATTCTCCTTTCTTAAAAATAGGTTCGAAAC 5 226 1 CTTGGAGATGTGTTAGAAATTCTTAACGACC 6 15 1 TGGCTGATTATGTTAGAATTTTCTGTAGCTC 6 90 1 TATCCGCTCTTCTTAAAAATTCAACAAAATA 7 273 1 CCACGAGGTACCTTAAAAATTGTTAGGGCAG 8 32 1 TTGGTATTCTTGTTACAAATAAAAAGGGCAG 8 69 0 TCATTAATCTTTTTATAATTTCTTTTTATCG 9 24 0 ATTGAATTAGTCTTAATATTTATCCAAACTC 9 65 1 CTTTTACAACCCTTAGAAATTTATCTCTTTA 10 31 1 CCTATTATTTTCTCATTAATTACTGAAAAAA 10 79 1 ATAAAGTGTTTTTTACTAATTAAAATTTATT 11 29 1 ***** ***** MAP Score: 7.81599 Motif 5 TCCCTGGAAATCAAGGAAAGAGGATTCTAATCAT 3 77 0 GCTACGCCTCTCTAGGAGAGACGGTAGAGGTACG 3 190 0 TCGTTAGGCAATAAGGAACCACAAATTCAGGAAA 4 12 0 AGGAAGGGTGTATAGGATCCATTCCTAACAGGAA 4 126 1 ACCCAGGGAATGCAGGATCCAATCTGAACGCGAA 4 164 1 CTGCTTAGAGAATAGAATACAGCCTCTCCCTACT 5 141 1 CTTTCTTAAAAATAGGTTCGAAACGTTGTTCCTG 5 233 1 GTCTTATCATTTAAGGACAGAATCCTTGGAACTC 7 85 0 AATTTTCCTTAGTAGGACAGAGTCTCGGGAGTTC 8 166 1 AAGAATTCCCTATAGAATACATTCTCTTGAAAAT 8 233 0 CTTTGCTTAAACTAGGAGACAACCC 8 285 1 AAGACCTCTAGAAACGATAAAAAGAAATTA 9 6 1 TTAAAGGAACTTTCGGATAGAATACCAAGTTTTA 9 113 0 TTACTGAAAAAATAGAATAGAGACGATT 10 98 1 ATTTATTCTTTTTAGGAAAGAAAACACCTTCTCT 11 53 1 * ***** *** * MAP Score: 7.47874 Motif 6 CTGTATTGAGAGATTCTCCTTTGGGAGATAATGTGGGTTT 2 65 1 TGTGTTTTAAGGATTCTTCTTTAGTGAAGATATTTTCAAG 8 202 1 GTAAGTGAACGAATTCTCCTTTCTTAAAAATAGGTTCGAA 5 215 1 TGGGGAGCTTAAATTTTCCTTAGTAGGACAGAGTCTCGGG 8 155 1 AGAACTCTCAAAAATTTTCTTCTTGAGACACCGATCTGCT 5 106 1 AAGATCCATAAGTTTCGTCTTAGTACGAAACTTATATGTT 7 181 1 GACAATGATTAGAATCCTCTTTCCTTGATTTCCAGGGAAG 3 73 1 ATATAAAGTTAGACTCAGGTTATAGGAAAAT 3 229 1 AGAAGACCAGAAAATCACTTTGTAGTAATATCCCGATCGT 3 153 1 TACTGAAAAAAAAGTCGAATTGTCTTAATACAGGCTTATT 1 10 1 CTGCATCAAAAGAAACTTCTTATATCCACAGAAACGAAAA 0 105 0 TTTATCATAAGAATTCCTCTTCGTCTTATTGACTTTTTTC 0 70 1 AACAAAAAGCAATTTTTCCTTCTTAAGACAATGATTAGAA 3 47 1 ACTGAGAGAAGGTGTTTTCTTTCCTAAAAAGAATAAATTT 11 51 0 GCTATTACATGAACTCAGCTTTAAACTGCATATCCATCCG 7 124 0 AGTAATCGGTAGAGTTATTTTATCGGCAGAGCGTACCGCG 4 75 1 CAAGAATACCAAAGTTCACCTGCCTTTAAAAGCAGAGCCG 8 88 1 TAAAAAGAATAAATTTTAATTAGTAAAAAACACTTTATCA 11 27 0 ATTCAGGGCAAGAATTCCCTATAGAATACATTCTCTTGAA 8 236 0 *** ** *** * * MAP Score: 6.81119 Motif 7 ATGCAGCATGTTATTAAAACTTTATTTAAA 0 139 1 CAATAAGCCTGTATTAAGACAATTCGACTT 1 21 0 TAATACAGGCTTATTGAAACAAGCGATTTA 1 35 1 CAATTTTTCCTTCTTAAGACAATGATTAGA 3 56 1 GAGGAAATCTTCCCTGGAAATCAAGGAAAG 3 91 0 GATCCAATTTGCCTTAAAACCTAGTAATCG 4 53 1 AAAAATTTTCTTCTTGAGACACCGATCTGC 5 115 1 GAATTCTCCTTTCTTAAAAATAGGTTCGAA 5 225 1 CGAAACGTTGTTCCTGAGAACGAATTGTGA 5 251 1 AAGGACAGAATCCTTGGAACTCCCCGAGGA 7 77 0 ATGGATCTTAGTCTTGGGAATGTATCGCTA 7 160 0 CTATCCGCTCTTCTTAAAAATTCAACAAAA 7 272 1 TAAAGAAGAATCCTTAAAACACAGCGAACT 8 195 0 TTCTCATTAATTACTGAAAAAATAGAATAG 10 88 1 GCTATACTAGTTATTGATAAAGTGTTTTTT 11 13 1 GGTGTTTTCTTTCCTAAAAAGAATAAATTT 11 51 0 ********** MAP Score: 4.26326 Motif 8 ACCTGTATTGAGAGATTCTCCTTTGGGAGATAA 2 63 1 TCATAAACCCACATTATCTCCCAAAGGAGAATC 2 76 0 AAGATCCTCCCCCATAATTGGGGA 3 1 1 TCGTACCTCTACCGTCTCTCCTAGAGAGGCGTA 3 189 1 GAACTCTCAAAAATTTTCTTCTTGAGACACCGA 5 107 1 AGAATAGAATACAGCCTCTCCCTACTGGGATGG 5 149 1 AATAGGTTCGAAACGTTGTTCCTGAGAACGAAT 5 243 1 GGAGTTCCAAGGATTCTGTCCTTAAATGATAAG 7 84 1 ACTTATATGTTGAGCTTGTCCCTTTTCTTGGCG 7 210 1 TAAGCAATCAAAAGATTGTCCTATCCGCTCTTC 7 252 1 AGATTGTCCTATCCGCTCTTCTTAAAAATTCAA 7 264 1 AAAGGGCAGCATATGCTGCCCTAACAATTTTTA 8 45 0 TTAGGGCAGCATATGCTGCCCTTTTTATTTGTA 8 54 1 CGAACTCCCGAGACTCTGTCCTACTAAGGAAAA 8 168 0 * * ******** MAP Score: 3.84551 Motif 9 ACATCTTTACAGCCCCTAAAAGGGATTTTTATCATAA 0 43 1 TTTTCGTTTCTGTGGATATAAGAAGTTTCTTTTGATG 0 105 1 AATACAGGCTTATTGAAACAAGCGATTTATATGAGCT 1 36 1 CAAAAACCAGTATAACAAAAAGCAATTTTTCCTTCTT 3 34 1 TAGATATTTTACTAATAAAAAAGGCTTTAGATTGAGG 3 117 0 CGATCGGGATATTACTACAAAGTGATTTTCTGGTCTT 3 155 0 TATAGGATCCATTCCTAACAGGAACTTCACCCAGGGA 4 136 1 TCTTACTTCAAATGAATACAAGGGCTTCTTAGGCATC 5 72 0 CGAATTCTCCTTTCTTAAAAATAGGTTCGAAACGTTG 5 224 1 TTCTTCCTTGATTAGGAAAAAGAGGTTCGGGTAAGAT 7 29 1 GACCTCTAGAAACGATAAAAAGAAATTATAAAAAGAT 9 12 1 ATAAATTTTAATTAGTAAAAAACACTTTATCAATAAC 11 22 0 CTGCCCAGGGACTTACTATAAGGAATTGTGGTAATTT 11 96 0 * * ** *** * ** MAP Score: 2.03426 Motif 10 ATGATAAAAATCCCTTTTAGGGGCTGTAAAGAT 0 45 0 TCAATACAGGTCTCTTATTGTGATAGACTGTAA 2 41 0 TTGAGAGATTCTCCTTTGGGAGATAATGTGGGT 2 70 1 AAAGCAATTTTTCCTTCTTAAGACAATGATTAG 3 52 1 GGGCTACGCCTCTCTAGGAGAGACGGTAGAGGT 3 193 0 CTGGGTGAAGTTCCTGTTAGGAATGGATCCTAT 4 137 0 GATCCTGCATTCCCTGGGTGAAGTTCCTGTTAG 4 150 0 TCTCAAAAATTTTCTTCTTGAGACACCGATCTG 5 111 1 CGAAACGTTGTTCCTGAGAACGAATTGTGACTT 5 251 1 GCTTGTCCCTTTTCTTGGCGCAAAATAGATAAG 7 223 1 AGCTTAAATTTTCCTTAGTAGGACAGAGTCTCG 8 160 1 ATTACCACAATTCCTTATAGTAAGTCCCTGGGC 11 98 1 ****** * * ** MAP Score: 1.56503