AlignACE 3.0 10/20/99 AlignACE2 -i TM/TM_fusions007_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944251185 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 TM0300 237 oligopeptide ABC transporter, periplasmic oligopeptide-binding protein, putative #1 TM0301 64 oligopeptide ABC transporter, permease protein #2 TM0402 300 ammonium transporter #3 TM0404 47 deoxycytidylate deaminase, putative #4 TM0411 161 transcriptional regulator, XylR-related #5 TM0413 46 creatinine amidohydrolase, putative #6 TM0417 93 conserved hypothetical protein #7 TM0418 59 sugar ABC transporter, periplasmic sugar-binding protein, putative #8 TM0419 38 sugar ABC transporter, permease protein #9 TM0593 38 amino acid ABC transporter, periplasmic amino acid-binding protein #10 TM0594 54 conserved hypothetical protein #11 TM0595 94 sugar ABC transporter, periplasmic sugar-binding protein, putative #12 TM1153 25 oligopeptide ABC transporter, permease protein #13 TM1155 82 glucose-6-phosphate 1-dehydrogenase #14 TM1196 21 oligopeptide ABC transporter, ATP-binding protein #15 TM1198 69 oligopeptide ABC transporter, permease protein #16 TM1199 154 oligopeptide ABC transporter, periplasmic oligopeptide-binding protein #17 TM1203 60 maltose ABC transporter, permease protein #18 TM1204 300 maltose ABC transporter, periplasmic maltose-binding protein #19 TM1403 135 antibiotic ABC transporter, ATP-binding protein, putative Motif 1 GGGAGGGGTTCCCCCTCCCTTAACTTGAAA 15 24 1 AAAAACACCTCCTTTTGGTAAATA 2 286 0 ACCACCTTCACCTCCTTGCGGGTAGAT 18 283 0 AAAAACACCCCCTTAAAAAAAAGT 0 223 0 GGGAGGGGGAACCCCTCCCCGAAAGTTCCA 15 13 0 GCAATAACACCTCCGTTATTG 14 5 0 GGAGGAGAAACCTCCTCCCCTTTTTTCGGC 3 22 1 GGGGGTTCCCCCTCACTTCGCTTTTGT 8 7 1 AGTTTCTACCTCCTTCTCTGGATTT 6 78 0 AGGAATCCCTCCCTTCTCGATGTT 11 80 0 TGTTTTCCCTCCCTGAACGTATGG 17 46 0 GGCTGGGTCCCCAGCCCCTTCCATACGTTC 17 26 1 CAAAGAAGAGCCCGCCCCGTCTGGGGCGGG 1 16 0 CATTCCCCCGCCCCAGACGGGGCG 1 4 1 AATCTCACCCCCCATTTTTATTTA 7 45 0 GGCTGGGGACCCAGCCCCGTAAAAGTTTTA 17 12 0 GATCTCACCTGCCTTTCTGGATTT 13 68 0 CTCTGACACCTCCATAGAGTCAAAA 19 120 0 ATTATCACCTCCGATTTATTATAA 9 24 0 GTTCGATCTTTTCCTCCTTTGTTCTTTTC 15 50 0 GGAGGAGGTTTCTCCTCCCGAAAGGAAACC 3 10 0 GGAGGCTGTTCCTCCCGCTTTTCTTTTGTT 10 13 1 GAAAATCCCCCCTCTACTGGTGTC 16 140 0 GGAATCACCTCACAAAAGCGAAGT 8 24 0 GTTTTCCCCTCCAAATTAATAGAT 19 4 1 ********** MAP Score: 30.7372 Motif 2 GGAGGGGTTCCCCCTCCCTTAACTTGAAAAGAACA 15 25 1 GGGTCCCCAGCCCCTTCCATACGTTCAGGGAGGGA 17 30 1 GAGGAGAAACCTCCTCCCCTTTTTTCGGCCTCCC 3 23 1 TCTAAATTTCCCTCTTCGTTCTCTTCGAAACTGTT 18 90 0 AGTTTCTACCTCCTTCTCTGGATTTTTCAGGAAT 6 69 0 ATTAATAGATCCTTTTCTCTGTCTTCAAGTTCAAA 19 24 1 GAGGGGGAACCCCTCCCCGAAAGTTCCATGA 15 6 0 AGGAATCCCTCCCTTCTCGATGTTTTCCCCTTGAA 11 69 0 GTTTTCCCCTCCAAATTAATAGATCCTTTT 19 5 1 GGGGGTTCCCCCTCACTTCGCTTTTGTGAGGTG 8 8 1 ACTCAGACCTCTCTTTCCTTGAGTTTCTTCACAAT 11 10 1 CGATCTTTTCCTCCTTTGTTCTTTTCAAGTTAAGG 15 41 0 ATTATCACCTCCGATTTATTATAACACAAT 9 18 0 GAAAATCCCCCCTCTACTGGTGTCATAGTAAAT 16 131 0 TTTTTTTCAACCTTTTCTTATTCTTGATTTTACGT 16 80 1 ATCTCACCTGCCTTTCTGGATTTTTACCACGAAAT 13 56 0 GTTGTTGCCTCCCTGTACTCTTCTCTTAATCA 0 7 1 AATCTCACCCCCCATTTTTATTTATTTTATCA 7 37 0 TTTTCCATTCCTTTCGTTTGTTATCGTTA 4 142 0 TGTGGTTAATCTTTTCTTTTTCTTTTTTTCAACCT 16 58 1 GGAGGCTGTTCCTCCCGCTTTTCTTTTGTTTAAAA 10 13 1 CCCCCCTTTTAAGGAATTTTAACACAA 13 2 1 TTTGTTTCCTCTTTTTTTCTAATTTTTCTTATAGT 4 76 1 CTTTTTCTGACAATTACAGGTGATT 16 0 1 AGTAATTTTACTCTTCTGAATCAATAATGTCAACC 18 37 1 ******* * ** MAP Score: 23.4906 Motif 3 AGGGGTTCCCCCTCCCTTAACTTGAAAAGAACA 15 27 1 ACTCAGACCTCTCTTTCCTTGAGTTTCTTC 11 7 1 GGAGAAACCTCCTCCCCTTTTTTCGGCCTCCC 3 25 1 GTTGTTGCCTCCCTGTACTCTTCTCTTAAT 0 7 1 TGTTTTCCCTCCCTGAACGTATGGAAGGGG 17 40 0 ATCTCACCTGCCTTTCTGGATTTTTACCACGAA 13 58 0 AGGGGGAACCCCTCCCCGAAAGTTCCATGA 15 7 0 ACCACCTTCACCTCCTTGCGGGTAGATATTACC 18 277 0 GGAATCCCTCCCTTCTCGATGTTTTCCCCTTGA 11 70 0 TCTAAATTTCCCTCTTCGTTCTCTTCGAAACTG 18 92 0 CCTCCCTGACGATTATACAACCC 2 0 1 TTTCTACCTCCTTCTCTGGATTTTTCAGGAATG 6 68 0 TCGATCTTTTCCTCCTTTGTTCTTTTCAAGTTA 15 44 0 GGGGCGGGCTCTTCTTTGAGATTAGACATAAGG 1 28 1 ACTTTTGTTTCCTCTTTTTTTCTAATTTTTCTT 4 73 1 GGGGGTTCCCCCTCACTTCGCTTTTGTGAGGTG 8 10 1 TTTTCCATTCCTTTCGTTTGTTATCGTTAACT 4 139 0 ATTAATAGATCCTTTTCTCTGTCTTCAAGTTCA 19 24 1 TTTTTTTCAACCTTTTCTTATTCTTGATTTTAC 16 80 1 GCTGTTCCTCCCGCTTTTCTTTTGTTTAAAACT 10 17 1 AAATAATCGTCTTTTTTGAGATTTTGAATGAAA 0 146 1 TTAATCTTTTCTTTTTCTTTTTTTCAACCTTTT 16 63 1 ******** ** MAP Score: 20.0893 Motif 4 GTTGTTGCCTCCCTGTACTCTTC 0 3 1 GGGAGGAGGTTTCTCCTCCCGAAAGGAAAC 3 11 0 GGAAACTTTTGTTTCCTCTTTTTTTCTAAT 4 69 1 GTAAATGGCAGATTCCTCCTGAAGGAGGAC 5 24 1 GTGTCCTCCTTCAGGAGGAA 5 36 0 GGGGGTTCCCCCTCACTTCGCTT 8 3 1 GCGGGAGGCTGTTCCTCCCGCTTTTCTTT 10 9 1 CTTCTCGATGTTTTCCCCTTGAATTATACC 11 62 0 AGGAATCCCTCCCTTCTCGATGT 11 81 0 GGAAATTAGTTATTCCTCATTTCGTGGTAA 13 38 1 TTCGGGGAGGGGTTCCCCCTCCCTTAACTT 15 20 1 GTTCGATCTTTTCCTCCTTTGTTCTTTT 15 51 0 GAAAATCCCCCCTCTACTGGTGT 16 141 0 TGTTTTCCCTCCCTGAACGTATG 17 47 0 ACAAGAGTAATTTTACTCTTCTGAATCAAT 18 32 1 TTGGTCTAAATTTCCCTCTTCGTTCTCTTC 18 99 0 ACCACCTTCACCTCCTTGCGGGTAGA 18 284 0 GTTTTCCCCTCCAAATTAAT 19 0 1 ********** MAP Score: 15.4311 Motif 5 TGATAACTTATCGTTCCATATTTTTTCATATCAC 0 95 0 AATAATCGTCTTTTTTGAGATTTTGAATGAAAAT 0 147 1 CCCATGGTGTTTGTTTTTTGTTTTTCAAGAATAT 2 199 1 GTAAATATGTTTGTTGACTCTTTTAAGATTAATT 2 259 0 GAGGAGAAACCTCCTCCCCTTTTTTCGGCCTCCC 3 23 1 GAGGAAACTTTTGTTTCCTCTTTTTTTCTAATTT 4 67 1 TTTCTACCTCCTTCTCTGGATTTTTCAGGAATGA 6 67 0 TCACCCCCCATTTTTATTTATTTTATCACATTAT 7 31 0 CGGGAGGCTGTTCCTCCCGCTTTTCTTTTGTTTA 10 11 1 GACCTCTCTTTCCTTGAGTTTCTTCACAATCAAA 11 15 1 GAATCCCTCCCTTCTCGATGTTTTCCCCTTGAAT 11 68 0 ATCTCACCTGCCTTTCTGGATTTTTACCACGAAA 13 57 0 GATCTTTTCCTCCTTTGTTCTTTTCAAGTTAAGG 15 41 0 TGTGGTTAATCTTTTCTTTTTCTTTTTTTCAACC 16 58 1 TCTTTTTCTTTTTTTCAACCTTTTCTTATTCTTG 16 72 1 CAACCTTTTCTTATTCTTGATTTTACGTGAACGT 16 87 1 CTAAATTTCCCTCTTCGTTCTCTTCGAAACTGTT 18 90 0 TTAATAGATCCTTTTCTCTGTCTTCAAGTTCAAA 19 25 1 ** *** * **** MAP Score: 14.9256 Motif 6 GTTTGCTTAGTTCGTGGGAAACGTTATAATAGTG 0 49 0 TTGCGTAAATGTGATATGAAAAAATATGGAACGA 0 85 1 ATATTTCTTTTTAATTTGAAATAATCGTCTTTTT 0 128 1 ACTCATAAGATTACTATGAAAACATTTTCATTCA 0 170 0 ATTGACAGCGGTTTTTTGAATTGATAGTATTGAG 2 76 1 TTATTACTAATTTTCGGGAATAAATTTCTGGAGG 2 121 0 TGATAGAGAATTAATCTTAAAAGAGTCAACAAAC 2 251 1 ATGATTCTACTTGATGTGAAATGATCCCATAAAA 4 16 1 ATTATATTCATTTTCATTAAAAAATA 7 2 0 GTTTTCTTTAAAGGAGTTTTAAACA 10 39 0 TTCTGGATTTTTACCACGAAATGAGGAATAACTA 13 44 0 TCCCCCTCCCTTAACTTGAAAAGAACAAAGGAGG 15 33 1 CTCTACTGGTGTCATAGTAAATGATACCGTGAAC 16 119 0 TTCCAAATAATTTCCTGGAATCGACTTTTACGTC 18 175 0 TTCCAGGAAATTATTTGGAAATAACGTTGAAAAT 18 189 1 ** * ***** ** MAP Score: 8.477 Motif 7 CCCACGAACTAAGCAAACGTTTGCGTAAATGTGATATG 0 65 1 CGTAAATGTGATATGAAAAAATATGGAACGATAAGTTA 0 88 1 AAAGACGATTATTTCAAATTAAAAAGAAATATGATAAC 0 122 0 AAACATTTTCATTCAAAATCTCAAAAAAGACGATTATT 0 147 0 TATAAGAAAAATTAGAAAAAAAGAGGAAACAAAAGTTT 4 71 0 AACGATAACAAACGAAAGGAATGGAAAA 4 143 1 CACCTCACAAAAGCGAAGTGAGGGGGAACCCCC 8 5 0 GTTTTAAACAAAAGAAAAGCGGGAGGAACAGCCTCCCG 10 11 0 TCACAATCAAATTATAACCTATGCGGTATAATTCAAGG 11 38 1 CTTTTAAGGAATTTTAACACAAAGGAAATTAGTTATTC 13 15 1 TGTTCTTTTCAAGTTAAGGGAGGGGGAACCCCTCCCCG 15 22 0 CCTTAACTTGAAAAGAACAAAGGAGGAAAAGATCGAAC 15 41 1 CGTTCACGTAAAATCAAGAATAAGAAAAGGTTGAAAAA 16 82 0 TCTTGATTTTACGTGAACGTTCACGGTATCATTTACTA 16 101 1 AGTTTTCACAATCACAACACAAGAGTAATTTTACTCTT 18 14 1 AACAGTTTCGAAGAGAACGAAGAGGGAAATTTAGACCA 18 90 1 ATCAGTTTGAACTTGAAGACAGAGAAAAGGATCTATTA 19 26 0 ** ** * * **** MAP Score: 8.10974 Motif 8 GTTATCATATTTCTTTTTAATTTGAAATAATCGTC 0 122 1 GGGCGGGCTCTTCTTTGAGATTAGACATAAGGAGT 1 29 1 CCTCCCTGACGATTATACAACCCGGAG 2 2 1 TTAACAATCTTCCCAGTCAAACTGAAACATTCTCA 2 39 1 GGGAATAAATTTCTGGAGGATTTTATATGTCTCAA 2 105 0 CAGAAATTTATTCCCGAAAATTAGTAATAAATATC 2 125 1 ATAAACAATATTCTTGAAAAACAAAAAACAAACAC 2 205 0 TGTGAAATGATCCCATAAAAATATTCTCCTTTAAC 4 30 1 ATGCTAGTCATTCCTGAAAAATCCAGAGAAGGAGG 6 60 1 CTCGATGTTTTCCCCTTGAATTATACCGCATAGGT 11 54 0 GGGGAACCCCTCCCCGAAAGTTCCATGA 15 3 0 CTTTTTCTGACAATTACAGGTGATTATC 16 3 1 ACCGTGAACGTTCACGTAAAATCAAGAATAAGAAA 16 93 0 TAAAAGTCGATTCCAGGAAATTATTTGGAAATAAC 18 179 1 GTTTTCCCCTCCAAATTAATAGATCCTTT 19 4 1 GATAGATATATCCTCTGGGATTATAAAATAATATG 19 77 0 **** * **** * MAP Score: 6.96552 Motif 9 AAAAACACCCCCTTAAAAAAAA 0 225 0 TAATCTCAAAGAAGAGCCCGCCCCGTCTGGGG 1 20 0 ACTATCAATTCAAAAAACCGCTGTCAATTATG 2 72 0 ATTGAGACATATAAAATCCTCCAGAAATTTAT 2 104 1 CCCTCTAAAAAAAAGAACCCCATGGTGTTTGT 2 181 1 AAAAACACCTCCTTTTGGTAAA 2 288 0 CCTTTCGGGAGGAGAAACCTCCTCCCCTTTTT 3 15 1 TCTACTTGATGTGAAATGATCCCATAAAAATA 4 21 1 AGCGAAGTGAGGGGGAACCCCC 8 0 0 ATTATCACCTCCGATTTATTAT 9 26 0 AAGAAAAGCGGGAGGAACAGCCTCCCGC 10 6 0 AGGAATCCCTCCCTTCTCGATG 11 82 0 GCAATAACACCTCCGTTATTG 14 7 0 TTAAGGGAGGGGGAACCCCTCCCCGAAAGTTC 15 15 0 GAAAATCCCCCCTCTACTGGTG 16 142 0 GGAAGGGGCTGGGGACCCAGCCCCGTAAAAGT 17 16 0 GTTCAAACTGATTGACACATCCATGCATATTA 19 52 1 CTCTGACACCTCCATAGAGTCAA 19 122 0 * *** ****** MAP Score: 1.94324 Motif 10 ATATGAAAAAATATGGAACGATAAGTTATCATATTTCT 0 98 1 CTTTTTTGAGATTTTGAATGAAAATGTTTTCATAGTAA 0 156 1 GAGATTAGACATAAGGAGTGAGAAAAATT 1 45 1 ATAAACAATATTCTTGAAAAACAAAAAACAAACACCAT 2 202 0 TATTTGTATCATATTGATAGAGAATTAATCTTAAAAGA 2 237 1 ATGTGGTTGGTTAGTTAACGATAACAAACGAAAGGAAT 4 127 1 GGGCATCTTGATTAATATTGAGAATAATGATAAACTAA 6 19 1 CTCTGGATTTTTCAGGAATGACTAGCATCAATTAGTTT 6 50 0 TATTTTTTAATGAAAATGAATATAATGTGA 7 2 1 ACAGGTGATTATCTGGAAATAGAAAGATTTATTTGTGG 16 25 1 TGTCAACCTAATTAGTAGAGATAAAAAACAGTTTCGAA 18 64 1 ** ** ** ** ** MAP Score: 1.69032 Motif 11 GCGTAAATGTGATATGAAAAAATATGGAACGATA 0 87 1 ATTAAAAAGAAATATGATAACTTATCGTTCCATA 0 109 0 TTTGAGATTTTGAATGAAAATGTTTTCATAGTAA 0 160 1 TTAGACATAAGGAGTGAGAAAAATT 1 49 1 TATACAACCCGGAGTGTTAACAATCTTCCCAGTC 2 23 1 ACCGCTGTCAATTATGAGAATGTTTCAGTTTGAC 2 54 0 ATTAATCTTAAAAGAGTCAACAAACATATTTACC 2 260 1 CATTATAATCAATTTGTCAACTATAAGAAAAATT 4 96 0 AATATTGAGAATAATGATAAACTAATTGATGCTA 6 32 1 TATTTTTTAATGAAAATGAATATAATGTGA 7 6 1 AAATGAATATAATGTGATAAAATAAATAAAAATG 7 23 1 ACTAATTTCCTTTGTGTTAAAATTCCTTAAAAGG 13 14 0 AAAGGTTGAAAAAAAGAAAAAGAAAAGATTAACC 16 61 0 TAAAATCAAGAATAAGAAAAGGTTGAAAAAAAGA 16 78 0 TTGTGTTGTGATTGTGAAAACTTTCT 18 2 0 TATTGATTCAGAAGAGTAAAATTACTCTTGTGTT 18 29 0 TTCTGAATCAATAATGTCAACCTAATTAGTAGAG 18 50 1 AACCTAATTAGTAGAGATAAAAAACAGTTTCGAA 18 68 1 AAGAGTCCAGATTATGTAAACGAAACACAGAAAT 18 129 1 GAACTTGAAGACAGAGAAAAGGATCTATTAATTT 19 22 0 * ***** ** ** MAP Score: 0.862954