AlignACE version 2.2 July 7, 1998 AlignACE -iargR.txt -g0.5 Parameter values: expect = 10 ncols = 10 npass = 1000 maxnpass = 100 nruns = 1000 maxnruns = 100 repeat = 15 maxreps = 3 nread = 500 ncycles = 1 fragment = 1 psfact = 0.1 gcback = 0.5 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 carA 300 carbamoyl-phosphate synthetase, glutamine (small) subunit #2 argF 300 ornithine carbamoyltransferase 2, chain F #3 argA 141 N-acetylglutamate synthase; amino acid acetyltransferase #4 argG 300 argininosuccinate synthetase #5 argR 300 repressor of arg regulon; cer-mediated site specific recombination #6 argD 85 acetylornithine delta-aminotransferase #7 pabA 31 p-aminobenzoate synthetase, component II #8 yhfG 104 orf, hypothetical protein #9 argE_argC 153 argE: acetylornithine deacetylase, argC: N-acetyl-gamma-glutamylphosphate reductase #10 argH 60 argininosuccinate lyase #11 argI 161 ornithine carbamoyltransferase 1 Motif number 1 GTCATCATTGTGAATTAATATGCAAATAAAGTGA 1 254 1 TGATAAATCA 0.621669 -47 GCAAATAAAGTGAGTGAATATTCTCTGGAGGGTG 1 275 1 TGGTAAATCT 0.875685 -26 TCACTTTATATGTGTAATTATTCATTTGCAACCC 2 237 0 TGGTATATCA 0.589069 -64 CGCCACTTATTGAATTAAAATTCACTTTATATGT 2 258 0 TGATAAATCA 0.621669 -43 GCGAAAAAACAGAATAAAAATACACTAATTTCGA 3 95 1 AGATAAATCA 0.866942 -47 CACACCTCTTTGCATGATTATTCGAAATTAGTGT 3 116 0 TGATATATCG 0.572108 -26 GCTAATCATGTGAATGAATATCCAGTTCACTTTC 4 94 1 TGATAAATCA 0.621669 -207 TCATTTATTTTGCATAAAAATTCAGTGAGAGCGG 4 234 1 TGATAAATCA 0.621669 -67 GCTGACTGTTTGCATAAAAATTCATCTGTATGCA 5 241 1 TGATAAATCA 0.621669 -60 ACAATAATGTTGTATCAACCACCATATCGGGTGA 5 274 1 TGATAACACA 0.867816 -27 CCACAAAATATGCATAAAAAATCACTAAATGGCA 6 19 0 TGATAAAACA 0.947363 -67 GCAGTATTTATGAATAAAAATACACTAACGTTGA 9 91 0 TGATAAATCA 0.621669 -63 TGGTCATGATAGTATCAATATTCATGCAGTATTT 9 116 0 AGATAAATCA 0.866942 -38 GACTTGCAAATGAATAATCATCCATATAAATTGA 11 100 1 TGATATATCA 0.499914 -62 AACGCCTCAATGAATTAAAATTCAATTTATATGG 11 121 0 TGATAAATCA 0.621669 -41 ** ** ** ** ** Masking position 7 Map Score: 37.0635 Motif number 2 AAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGT 1 14 1 CATTTCCTTT 0.98944 -287 AAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATA 1 159 1 CATTTTCTTT 0.970744 -142 TAAAGAAGGCCAATCATTCTCATTTCTGACTCGACC 2 84 1 CAATTCATTC 0.926003 -217 ACACGGACGGGTTTGCCTCCACCTTTGTAAGAAAGA 2 190 1 GTTTTCCTTT 0.724434 -111 AAACGGTAAACATTCTTTTTATATTCACGGCATTAC 3 16 1 CATTTTTTTC 0.807531 -126 ATCCACGCCACATTTTGTCAACGTTTATTGCTAATC 4 65 1 CATTTCCTTT 0.98944 -236 TTCATTTGTTGAATACTTTTGCCTTCTCCTGCTCTC 4 125 1 GAATTTCTTC 0.863856 -176 AATGAGTTTTCATTTAATCATCTTTTATCGGAGACA 4 203 0 CATTTCCTTT 0.98944 -98 GTCGCTTATGCATTAGCGCAACATTCCAACAGGTGG 5 47 1 CATTGCCTTC 0.956284 -254 AATTTGATAACAATTAATTTACTTTTAAGCAGAATT 5 119 1 CAATTTCTTT 0.932755 -182 GAAAGAGCGGGATTTTATCAAATTTCGTTATTGAGA 5 179 0 GATTTCATTC 0.895106 -122 TCTTTCATAACATTATTTCAGCCTTCTTCAGGGCTG 5 209 1 CATTTCCTTC 0.993393 -92 ACACCACTGACATTGCCTCCACCTTTGTGACAAAGA 11 53 1 CATTTCCTTT 0.98944 -109 GCTAACGCCTCAATGAATTAAAATTCAATTTATATG 11 122 0 CAATTTATTC 0.815711 -40 **** ** * *** Masking position 4 Map Score: 14.9158 Motif number 3 GTCCACTTTTTTCTGCTCGTTTTTATTTCATGCA 1 30 1 TTCGCTCTTT 0.83742 -271 GCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAAC 1 61 1 TGCGCGCACT 0.923102 -240 TATATTATTTTGTGGCTCATGCATGTTTTACAGG 1 124 0 TGTGCTCTCT 0.985509 -177 TCCAATGTCTTTCTGCTTCTGCAGAGAATCGGAG 2 136 1 TTCGCTTTCG 0.941615 -165 CTGATAAAAAAGTCGCTCTCGCATAAAATTTACA 3 51 1 AGTGCTCCCT 0.953002 -91 CTATAATGCCTGCAGATTTTACGTCCCGTCTCGG 4 29 0 TGCGATTTCT 0.82112 -272 TTTTGCCTTCTCCTGCTCTCCCTTAAGCGCATTA 4 141 1 TCCGCTCCCT 0.986204 -160 GAGCCTGGATTTCCGCTCTCACTGAATTTTTATG 4 246 0 TTCGCTCCCG 0.98281 -55 CGTAATTAACAGTCGCTTATGCATTAGCGCAACA 5 36 1 AGTGCTTTCT 0.851217 -265 TTTGATAAAATCCCGCTCTTTCATAACATTATTT 5 193 1 TCCGCTCTCT 0.985945 -108 TTGCCCGCGCTTCTGCTCTCCCGGCGTAACCCGG 8 32 1 TTCGCTCCCG 0.98281 -73 AACCCGGATTTGCCGCTTATACTTGTGGCAAATG 8 59 1 TGCGCTTTCT 0.986913 -46 AATGCCGGAAAGCTGCGCCTCCGGCCAACAAAAC 10 11 0 AGCGCGCTCG 0.936618 -50 AGATCCCTCCTGTGGCTAACGCCTCAATGAATTA 11 138 0 TGTGCTACCT 0.858249 -24 *** **** * * * Masking position 5 Map Score: 9.59126 Motif number 4 TGCATGTTTTACAGGCATTAAGCGACAAAA 1 109 0 ACAGGCATTA 0.722209 -192 TCAACTTAATGGCGGGATTTTTTATATTAT 1 150 0 GGCGGGATTT 0.986292 -151 TCTGGCAAACGGCGGCATTCTGGAGATATG 1 191 0 GGCGGCATTC 0.901125 -110 AATATTCTCTGGAGGGTGTT 1 291 1 GGAGGGTGTT 0.957573 -10 GCAGAGAATCGGAGGCAGATACGATTATTT 2 156 1 GGAGGCAGAT 0.835207 -145 CTGTTTTTTCGCAGGGTGCAAGTGTAAATT 3 77 0 GCAGGGTGCA 0.807006 -65 CTGCTGGGATTTGGTGTACCGA 4 3 1 GCTGGGATTT 0.955244 -298 CGTAAAATCTGCAGGCATTATAGTGATCCA 4 40 1 GCAGGCATTA 0.96035 -261 CTGATGATGAGCCTGGATTTCCGCTCTCAC 4 258 0 GCCTGGATTT 0.781371 -43 AGTTAATTAAGCAGGGTGTTATTTT 4 286 1 GCAGGGTGTT 0.951956 -15 ATGCCGTGACGCAGGCATGTTTCTCAATAA 5 158 1 GCAGGCATGT 0.915732 -143 GTTATGAAAGAGCGGGATTTTATCAAATTT 5 190 0 AGCGGGATTT 0.88536 -111 ACACGTTCAGGGAGGCATCAA 8 94 1 GGAGGCATCA 0.932881 -11 CCTTACGGCTGGTGGGTTTTATTACGCTCA 9 64 1 GGTGGGTTTT 0.902579 -90 GTTAGCCACAGGAGGGATCT 11 152 1 GGAGGGATCT 0.980171 -10 ********** Masking position 5 Map Score: 9.00127 Motif number 5 AAACGAGCAGAAAAAAGTGGACCAAATGGTC 1 21 0 AAAAAGTGGA 0.961683 -280 GATTTACGTCATCATTGTGAATTAATATGCA 1 247 1 ACATTGTGAA 0.838662 -54 TTATGCTTCTAAAATGGCGGAGAACATGGCG 2 41 0 AAATGGCGGA 0.887109 -260 AGGTCGAGTCAGAAATGAGAATGATTGGCCT 2 90 0 AAAATGAGAA 0.87202 -211 ATTCTTTCTTACAAAGGTGGAGGCAAACCCG 2 197 0 AAAAGGTGGA 0.986716 -104 TTTGTAAGAAAGAATTGTGAAATGGGGTTGC 2 213 1 AAATTGTGAA 0.951389 -88 TATTCAACAAATGAAAGTGAACTGGATATTC 4 109 0 AGAAAGTGAA 0.918855 -192 TTACGCATAAACAAATGTGAAATTATAACCA 6 50 0 AAAATGTGAA 0.977387 -36 AACCAGACATAAGAAGGTGAATAGCCCCG 9 9 0 AGAAGGTGAA 0.971024 -145 AATCTTTGTCACAAAGGTGGAGGCAATGTCA 11 60 0 AAAAGGTGGA 0.986716 -102 * ********* Masking position 4 Map Score: 6.64846 Motif number 6 ACGTCATCATTGTGAATTAATATGCAAATA 1 252 1 TGTGAATTAA 0.756481 -49 TGAATTAATATGCAAATAAAGTGAGTGAAT 1 264 1 TGCAAATAAA 0.961601 -37 GAAATGGGGTTGCAAATGAATAATTACACA 2 231 1 TGCAAATGAA 0.975148 -70 ACTTGCACCCTGCGAAAAAACAGAATAAAA 3 84 1 TGCGAAAAAA 0.95197 -58 TTGCTAATCATGTGAATGAATATCCAGTTC 4 92 1 TGTGAATGAA 0.799965 -209 GTGTGTTTTTTGTAAAATAATGCGCTTAAG 4 162 0 TGTAAAATAA 0.905928 -139 TGAATTTTTATGCAAAATAAATGAGTTTTC 4 228 0 TGCAAAATAA 0.979745 -73 GCTGACTGTTTGCATAAAAATTCATCTGTA 5 241 1 TGCATAAAAA 0.897845 -60 TTCATCTGTATGCACAATAATGTTGTATCA 5 261 1 TGCACAATAA 0.901081 -40 CCACAAAATATGCATAAAAAATCACTAAAT 6 23 0 TGCATAAAAA 0.897845 -63 GCGGCTCCGGTACAAAAGAACCGCGCTATT 7 11 0 TACAAAAGAA 0.817121 -21 GGCATTGAATTTCAAAATAAGGAAACAGAG 10 39 1 TTCAAAATAA 0.776316 -22 GCTTTAGACTTGCAAATGAATAATCATCCA 11 94 1 TGCAAATGAA 0.975148 -68 ********** Masking position 6 Map Score: 10.6704 Motif number 7 TCTCATTTCTGACTCGACCTGGTTGTAGAA 2 101 1 GACTCGACCT 0.978114 -200 GGACGGGTTTGCCTCCACCTTTGTAAGAAA 2 194 1 GCCTCCACCT 0.998403 -107 GAATACTTTTGCCTTCTCCTGCTCTCCCTT 4 135 1 GCCTTCTCCT 0.973273 -166 AGGGTATATTGTCACCACCTGTTGGAATGT 5 67 0 GTCACCACCT 0.979521 -234 CACTGACATTGCCTCCACCTTTGTGACAAA 11 57 1 GCCTCCACCT 0.998403 -105 ********** Masking position 10 Map Score: 4.54905 Motif number 8 TGCTGCGCAAGCGTTTTCCAGAACAGGTTA 1 71 1 GCGTTTTCCA 0.968684 -230 CAGAATGCCGCCGTTTGCCAGAAATTCGTC 1 199 1 CCGTTTGCCA 0.996818 -102 TCAATAAGTGGCGTTCGCCATGCGAGGATA 2 279 1 GCGTTCGCCA 0.988662 -22 TTTCTGATTGCCATTTAGTGATT 6 4 1 CTGATTGCCA 0.954712 -82 CTGAACGTGTCCATTTGCCACAAGTATAAG 8 74 0 CCATTTGCCA 0.975979 -31 CTTCTTATGTCTGGTTGCCAGGTTAAACGT 9 24 1 CTGGTTGCCA 0.968987 -130 ATTCATTGAGGCGTTAGCCACAGGAGGGAT 11 140 1 GCGTTAGCCA 0.983287 -22 ********** Masking position 10 Map Score: 6.72241 Motif number 9 TATTGAATTAAAATTCACTTTATATGTGTA 2 255 0 AAATTCACTT 0.961367 -46 AAGTGAATTTTAATTCAATAAGTGGCGTTC 2 265 1 TAATTCAATA 0.779126 -36 AACAGAATAAAAATACACTAATTTCGAATA 3 102 1 AAATACACTA 0.967769 -40 ATTTTACAAAAAACACACTAAACTCTTCCT 4 174 1 AAACACACTA 0.888594 -127 TTTTGCATAAAAATTCAGTGAGAGCGGAAA 4 241 1 AAATTCAGTG 0.898299 -60 ATATGCATAAAAAATCACTAAATGGCAATC 6 16 0 AAAATCACTA 0.911184 -70 TTATGAATAAAAATACACTAACGTTGAGCG 9 88 0 AAATACACTA 0.967769 -66 CCTTATTTTGAAATTCAATGCCGGAAAGCT 10 31 0 AAATTCAATG 0.937725 -30 CAATGAATTAAAATTCAATTTATATGGATG 11 118 0 AAATTCAATT 0.906818 -44 ********** Masking position 7 Map Score: 3.21663 Motif number 10 TCGCATGGCGAACGCCACTTATTGAATTAA 2 274 0 AACGCCACTT 0.975341 -27 GGCACACCTCTTTGCATGATTA 3 130 0 CACACCTCTT 0.986721 -12 TATAGTGATCCACGCCACATTTTGTCAACG 4 58 1 CACGCCACAT 0.98431 -243 TGTTGACACACCTCTGGTCATGATAG 9 138 0 CACACCTCTG 0.987639 -16 CTTATTGTCACACACCACTGACATTGCCTC 11 42 1 CACACCACTG 0.987702 -120 TCCTGTGGCTAACGCCTCAATGAATTAAAA 11 135 0 AACGCCTCAA 0.893502 -27 ********** Masking position 2 Map Score: 2.98682 Motif number 11 TTTCATGCAATCTTCTTGCTGCGCAAGCGT 1 55 1 TCTTCTTGCT 0.927586 -246 GGTTAGATGATCTTTTTGTCGCTTAATGCC 1 96 1 TCTTTTTGTC 0.909485 -205 TCTTTTTGTCGCTTAATGCCTGTAAAACAT 1 106 1 GCTTAATGCC 0.913547 -195 TCAATGCAAATCTGCTTACCGACGAATTTC 1 219 0 TCTGCTTACC 0.844768 -82 ACATGGCGAGGCTTGCTGCCTTACTTCATT 2 19 0 GCTTGCTGCC 0.932319 -282 CGATCCAATGTCTTTCTGCTTCTGCAGAGA 2 133 1 TCTTTCTGCT 0.781191 -168 CACACTAAACTCTTCCTGTCTCCGATAAAA 4 187 1 TCTTCCTGTC 0.960827 -114 TTAAGCAGAATTTGCATGCCGTGACGCAGG 5 143 1 TTTGCATGCC 0.740574 -158 TTTCTGATTGCCATTTAGTGAT 6 3 1 TCTGATTGCC 0.979515 -83 CCTTCTTATGTCTGGTTGCCAGGTTAAACG 9 23 1 TCTGGTTGCC 0.975395 -131 GGCTCATTCCTCTTAATGTCCTGCCGATAC 11 11 1 TCTTAATGTC 0.9077 -151 CTGCCGATACTCTTATTGTCACACACCACT 11 31 1 TCTTATTGTC 0.949361 -131 ********** Masking position 7 Map Score: 5.37304 Motif number 12 TGTAAATTTTGACCATTTGG 1 1 1 TGTAAATTTT 0.918099 -300 TTGTGGCTCATGCATGTTTTACAGGCATTA 1 119 0 TGCATGTTTT 0.962982 -182 ATAAAGTGAGTGAATATTCTCTGGAGGGTG 1 279 1 TGAATATTCT 0.913874 -22 AGGGTGCAAGTGTAAATTTTATGCGAGAGC 3 65 0 TGTAAATTTT 0.918099 -77 CTATAATGCCTGCAGATTTTACGTCCCGTC 4 33 0 TGCAGATTTT 0.951123 -268 TTTCATTTGTTGAATACTTTTGCCTTCTCC 4 124 1 TGAATACTTT 0.857554 -177 CGTCACGGCATGCAAATTCTGCTTAAAAGT 5 139 0 TGCAAATTCT 0.941896 -162 TGATTTTTTATGCATATTTTGTGGTTATAA 6 29 1 TGCATATTTT 0.981547 -57 AGCCGTAAGGTGAATGTTTTACGTTTAACC 9 44 0 TGAATGTTTT 0.926431 -110 ********** Masking position 4 Map Score: 4.9712 Motif number 13 ********** No masking Map Score: 2.84217e-014 Motif number 14 ********** No masking Map Score: 2.84217e-014 Motif number 15 ********** No masking Map Score: 2.84217e-014