AlignACE version 2.2 July 7, 1998 AlignACE -jDAL.orf -y -e 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 = 0.38 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 YIR023W 540 bp YIR023W dal81 1-2913 Transcriptional activator for allantoin and GABA catabolic genes, contains a Zn[2]-Cys[6] fungal-type binuclear cluster domain in the N-terminal region #2 YIR027C_YIR028W 825 bp YIR027C dal1 1-1383 allantoinase YIR028W dal4 1-1908 allantoin permease #3 YIR029W 431 bp YIR029W dal2 1-1032 allantoicase #4 YIR031C 350 bp YIR031C dal7 1-1665 Malate synthase 2 #5 YIR032C 506 bp YIR032C dal3 1-588 ureidoglycolate hydrolase #6 YJR152W 600 bp YJR152W dal5 1-1632 allantoate permease #7 YKR034W 300 bp YKR034W DAL80 1-810 negative regulator of multiple nitrogen catabolic genes #8 YNL314W 300 bp YNL314W DAL82 1-768 positive regulator of allophanate inducible genes Motif number 1 TTTGAAAATGATTCTTATCATCTATTATTT 1 449 0 ATTCTTATCA 0.837831 -92 ACTTTTGCGTTACCTCATCATTGTCCCCTT 2 144 1 TACCTCATCA 0.82586 -682 AGAGGAGGCATATCTCATCGAAGGGGACAA 2 164 0 TATCTCATCG 0.91879 -662 CTCGAGGGTATCTCTTATCGGTATTACTTT 2 355 1 TCTCTTATCG 0.941775 -471 TCGGTATTACTTTCTTATCAATGAAAAATT 2 372 1 TTTCTTATCA 0.941494 -454 CAAAATAGCGCCTCTAATCTAGTTGCGATA 2 459 1 CCTCTAATCT 0.591447 -367 CACATACACATTCCTTATCGCAACTAGATT 2 474 0 TTCCTTATCG 0.930762 -352 CCTATTATTCCTTCTCATCTCCCTGAAAAG 2 528 0 CTTCTCATCT 0.76174 -298 TTTTTAAAGGAACCTTATCGACGTGACAGC 2 574 0 AACCTTATCG 0.846073 -252 ATAATTCCGACATCTTATCTTTGACTCGAA 3 228 1 CATCTTATCT 0.912379 -204 CCTGTGTTTTTATCTTATCGCTAATTCGAG 3 252 0 TATCTTATCG 0.966592 -180 CAATTAATTGTATCTAATCGGTCTCTTCTT 3 405 1 TATCTAATCG 0.877976 -27 TGCGTTTGCTTTTCTTATCACATAAATTGA 4 139 1 TTTCTTATCA 0.941494 -212 CAATCCATCTTATCTTATCTGGCACTTTGT 5 339 0 TATCTTATCT 0.914014 -168 ACCGCATATGCTTCTTATCAGTCTTACCTC 5 393 0 CTTCTTATCA 0.940347 -114 CGCGCTGTAGCACCTTATCAGCAAATGATA 6 207 0 CACCTTATCA 0.922362 -394 AACGCGAGGGACTCTTATCGAAAAGGAACA 6 253 0 ACTCTTATCG 0.838524 -348 GAGTTTCCACCTTATCACTTATCACTA 7 8 1 CACCTTATCA 0.922362 -293 AGAATCCATATTTCTAATCAGCTGTCGCCC 8 85 0 TTTCTAATCA 0.800077 -216 ********** Masking position 5 Map Score: 14.9859 Number of sites scoring better than the average of aligned sites = 1076 Number in coding regions = 717 Number in noncoding regions = 359 Number of orfs with sites within 600 bp upstream = 333 Fraction of orfs with sites within 600 bp upstream = 0.0534854 Motif number 2 TTCTTCGCAGTATTTCACTTTTTTTTTGCCTATACGTTTTT 2 16 1 TTTCTTTCCT 0.994028 -810 AGGAACTGCATGTTTCGATTCTATTGTCCCTTACTGCGGAT 2 283 0 TTTCTTTCCT 0.994028 -543 AGCAAAGCGGTCAATCCATCCTATTATTCCTTCTCATCTCC 2 536 0 TATCTTTCCT 0.963291 -290 ATTACAAACTTGTTTCTCTGATACTCTACCTCTCTATGCTA 2 618 0 TTTCTTTCCT 0.994028 -208 TAATATTCGTTCTGTGTATTTTTATGTACCTTTCTTAATCA 3 78 1 TTTGTTTCCT 0.960296 -354 GCGGAGATTTTATGTCGATAATCGTAAACCTATGAAATTAC 4 56 0 TTTCTTTCCT 0.994028 -295 ATGTCCCCATTTTATACTTATTGCTTCACCAATTGACGAAA 4 233 0 TTTATTTCCA 0.8808 -118 TTATCAGTCTTACCTCGCTTATCTTTCCCCATTTATTTGCC 5 368 0 TCTCTTTCCA 0.946267 -139 TCCCGGCGGATTTTTCTTTCTTATTGCACCTTAATCAGGTT 6 53 1 TTTCTTTCCT 0.994028 -548 ACAGTTCCTGTTTTTCGTTTTTATTCTTCCAGCCCAGAGCA 8 23 0 TTTCTTTCCA 0.986907 -278 * * ** * * * *** Masking position 12 Map Score: 10.5818 Number of sites scoring better than the average of aligned sites = 202 Number in coding regions = 113 Number in noncoding regions = 89 Number of orfs with sites within 600 bp upstream = 90 Fraction of orfs with sites within 600 bp upstream = 0.0144555 Motif number 3 GTTTACGTACTTTGTATTTGTGCTTATGGTCTTTAACTTG 1 35 1 TTTTTCTTGT 0.916438 -506 TGGTATCTTGTAATTGAAGGTACCCCTTTTTCTTTTAGCT 2 91 0 TTAGTCCTTT 0.945818 -735 CAGTCCACCATCAACACATTTGCGCCTATTCGATGATCCG 2 248 1 TCATTCCTTT 0.796682 -578 CTCATCAAGCTAATTATTTATACTTTTTTTTTCTTCCCCA 2 706 0 TTTTTCTTTT 0.959729 -120 AATATATATGTTACTTTAGTTTCCCTTTTTGACCTTTTAT 2 753 1 TTAGTCCTTT 0.945818 -73 TTTGACCTTTTATATTCATCTACATCTTGTGATATAAAAC 2 780 1 TTATTCTTGT 0.941797 -46 TCGTTCTGTGTATTTTTATGTACCTTTCTTAATCAAATTT 3 84 1 TTATTCTTTT 0.972347 -348 CCAGCTGAATTTCATTGTGGTTCCTGTGTTTTTATCTTAT 3 264 0 TTTGTCTTTT 0.935086 -168 GCGAAGTAAATATGTAAATGTTCATGTATTAGTAATTTCA 4 25 1 TTATTCTTTT 0.972347 -326 TAAGACTACATGCGTAAATGTCCCCATTTTATACTTATTG 4 251 0 TTATTCCTTT 0.966532 -100 TGTCATCCAATCGCTCTTGATGCTTATCTTGTAGGGCAAA 5 458 1 TTTGTCTTTT 0.935086 -49 GATCATAAGGTCGATTGTTATTCGTTTGCTGAATTCCGCA 6 296 0 TTTTTCTTCT 0.803582 -305 GTTTCCTTGGTCCATTTATATACATATATTACTTCATCCA 6 473 0 TTATTCTTTT 0.972347 -128 TTTTTTACACTATTTGATTATCCTTGTTTTGTTGTTTTCT 6 560 0 TTTTTCTTTT 0.959729 -41 CAGTTACTGTTTTTTCGATTTTCTCTTGGTTATTCTTTCT 7 178 1 TTATTCCTGT 0.930022 -123 * * ** * * * * ** Masking position 11 Map Score: 11.6072 Number of sites scoring better than the average of aligned sites = 1594 Number in coding regions = 740 Number in noncoding regions = 854 Number of orfs with sites within 600 bp upstream = 610 Fraction of orfs with sites within 600 bp upstream = 0.0979762 Motif number 4 TGATGGAACTTTATCAGGAGAAGTGGTTCAAAATT 2 215 0 TTATCGGAAG 0.983467 -611 GCCTATTCGATGATCCGCAGTAAGGGACAATAGAA 2 271 1 TGATCGCTAG 0.882339 -555 TTTCCTGCAATTCTCGGGTCTAATGTGGCTCGAGG 2 327 1 TTCTCGGTAG 0.984666 -499 TTACCAGTAGTGATCAGGAGAATTGATAATTTCTT 3 33 1 TGATCGGAAG 0.962374 -399 GATGTCGGAATTATCCGGAGTTCTGATAGGCTCAA 3 207 0 TTATCGGTTG 0.973722 -225 AAGTTTTGGCTTATCTTGGATAAGGTACATCGTGA 4 176 1 TTATCTGTAG 0.921673 -175 GGCGGCTGTATTTTCTGGTTTAGAGCTCACCCATT 5 148 1 TTTTCGGTAG 0.959254 -359 CTGGCACTTTGTCTCAGGGTTAGTGTTACAAAAAG 5 316 0 GTCTCGGTAG 0.923622 -191 TATTGCACCTTAATCAGGTTTACAGCCTATGACTG 6 74 1 TAATCGGTAG 0.959254 -527 ATCATGTGGATTATCGGGGCAAAAGATTTGGCCAA 6 333 1 TTATCGGAAG 0.983467 -268 ATACTTATCATTATCTGGTTTTCCGAATATACAGA 6 437 1 TTATCGGTTG 0.973722 -164 ***** ** ** * Masking position 4 Map Score: 6.01881 Number of sites scoring better than the average of aligned sites = 258 Number in coding regions = 196 Number in noncoding regions = 62 Number of orfs with sites within 600 bp upstream = 47 Fraction of orfs with sites within 600 bp upstream = 0.00754899 Motif number 5 AATTATAGACACATTTTCTGAGATCAAATGC 3 316 1 ACATTTCTGA 0.972536 -116 TCTTAATTCTTCACTTTCTGTGCAGTTGATA 4 286 1 TCACTTCTGT 0.93674 -65 CGATTGGATGACAGTTACTGACTTATATATG 5 440 0 ACAGTTCTGA 0.677983 -67 CGAGGAGCTATCATTTGCTGATAAGGTGCTA 6 199 1 TCATTTCTGA 0.956643 -402 CGATTGTTATTCGTTTGCTGAATTCCGCACT 6 294 0 TCGTTTCTGA 0.857509 -307 ATACTAAGCAACACTTGCTGATTACAGTCCA 7 113 0 ACACTTCTGA 0.974457 -188 GAATTTGGATACAGTTACTGTTTTTTCGATT 7 167 1 ACAGTTCTGT 0.622842 -134 GGCAATTGGAACAGTTCCTGTTTTTCGTTTT 8 43 0 ACAGTTCTGT 0.928874 -258 ****** **** Masking position 6 Map Score: 5.10232 Number of sites scoring better than the average of aligned sites = 218 Number in coding regions = 180 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 6 TTCAGCGTGGACCGAATGGTTATGGTTATAT 1 82 0 ACCGAATGTT 0.812718 -459 GGTAATTGAGACCGCTAGGTTTAACTTCTCG 1 264 1 ACCGCTAGTT 0.967153 -277 ATAATTAAGCACCGCAATTTTGAACCACTTC 2 200 1 ACCGCAATTT 0.961459 -626 GGAAAATGCGCCCGCTTTTTTTCCGGCCATC 2 410 1 CCCGCTTTTT 0.887404 -416 GGATGGATTGACCGCTTTGCTGTCACGTCGA 2 556 1 ACCGCTTGCT 0.889256 -270 GGCTCAAACAAGCGCAAGTTTGGTAGGTTGA 3 183 0 AGCGCAATTT 0.827461 -249 ATTCTATCGCACCGCAACTTTCAGCGGAGAT 4 89 0 ACCGCAATTT 0.961453 -262 AAGAAAAGCAAACGCAATTTTCCAAAATCCG 4 124 0 AACGCAATTT 0.939706 -227 AACGAAATGTTCTGTTCGCCA 5 1 1 AACGAAAGTT 0.75652 -506 GACTGATGAGAACGCTTCTCTGATATGCATA 6 154 0 AACGCTTTCT 0.830705 -447 GCTCCTGCCGCACGCTTTGTTCCTTTTCGAT 6 236 1 CACGCTTGTT 0.833785 -365 GAATGGAAATAACGCTTATTTTGACGCCGTA 8 210 0 AACGCTTTTT 0.939682 -91 AACATGGTTTAACGATACTTTGAAAGGTTTA 8 264 1 AACGATATTT 0.779505 -37 ******* *** Masking position 11 Map Score: 4.29559 Number of sites scoring better than the average of aligned sites = 796 Number in coding regions = 566 Number in noncoding regions = 230 Number of orfs with sites within 600 bp upstream = 194 Fraction of orfs with sites within 600 bp upstream = 0.0311597 Motif number 7 ACATCGTTCCAAAAAAACTTGGCGAA 1 5 0 AAAAACTTGG 0.854962 -536 TAACTTCTCGAATAAAAAATGGTCTAAGCTGC 1 285 1 AAAAAAATGG 0.92065 -256 AAAGATAGCTAAAAGAAAAAGGGGTACCTTCA 2 85 1 AAAAAAAAGG 0.898063 -741 CGAGAATTGCAGGAAAGAAAGGAACTGCATGT 2 311 0 AGAAGAAAGG 0.920636 -515 ATAGAAGGCTAGGAAAACATGGGGAAGAAAAA 2 687 1 AGAAACATGG 0.938564 -139 TACTGGTAAGAGAATAAATTGGGATTTTTAT 3 10 0 AGAAAATTGG 0.840124 -422 ATCAAATGCTATAAAGGAATGGAAGTGCATTT 3 338 1 ATAGGAATGG 0.864616 -94 TGAAGCAATAAGTATAAAATGGGGACATTTAC 4 246 1 AGAAAAATGG 0.926309 -105 AACCCTAACAATAAAAGCAAGGGCATTCTGAT 5 248 0 ATAAGCAAGG 0.898871 -259 TTAGTGTTACAAAAAGGCTAGGACTTATTTCC 5 300 0 AAAGGCTAGG 0.782942 -207 CAGATAAGATAAGATGGATTGGCAAATAAATG 5 348 1 AAAGGATTGG 0.796278 -159 TTAGGAGATCATGAGGGAAAGGTTTAACATAA 6 519 1 ATAGGAAAGG 0.829041 -82 TGAAGAAAACAACAAAACAAGGATAATCAAAT 6 557 1 AAAAACAAGG 0.914582 -44 TGAACCATTGATAACAACATGGTTTAACGATA 8 249 1 ATAAACATGG 0.90594 -52 ** * ******* Masking position 4 Map Score: 3.17678 Number of sites scoring better than the average of aligned sites = 2667 Number in coding regions = 1599 Number in noncoding regions = 1068 Number of orfs with sites within 600 bp upstream = 800 Fraction of orfs with sites within 600 bp upstream = 0.128493 Motif number 8 GTACATGGTGATTGAAAATAATAGATGATA 1 434 1 ATTGAAAATA 0.906334 -107 TACACTATTATTTGAAAATGATTCTTATCA 1 459 0 TTTGAAAATG 0.963494 -82 TGATGAGTAGTTTGAATATATATGTTACTT 2 739 1 TTTGAATATA 0.890623 -87 AGCTCACCCATTTGAAAATGTTGAGTTTTT 5 171 1 TTTGAAAATG 0.963494 -336 AAATTCTACTTTTGAAAATAACCCTAACAA 5 269 0 TTTGAAAATA 0.975138 -238 AAAGTAGAATTTTGGAAATAAGTCCTAGCC 5 287 1 TTTGGAAATA 0.92348 -220 CTTATCAAGACTTGAAAATAGAGAACAAAA 8 162 0 CTTGAAAATA 0.934816 -139 ********** Masking position 6 Map Score: 1.97746 Number of sites scoring better than the average of aligned sites = 428 Number in coding regions = 309 Number in noncoding regions = 119 Number of orfs with sites within 600 bp upstream = 72 Fraction of orfs with sites within 600 bp upstream = 0.0115644 Motif number 9 CCATCCTATTATTCCTTCTCATCTCCCTGAAAA 2 529 0 ATTCTTCTAC 0.651398 -297 CGTGACAGCAAAGCGGTCAATCCATCCTATTAT 2 550 0 AAGCGTCATC 0.925577 -276 CATGTTTTCCTAGCCTTCTATGCTCAACACTAG 2 675 0 TAGCTTCTTC 0.953484 -151 AATTGTATCTAATCGGTCTCTTCTTTAGAAAA 3 410 1 AATCGTCTTC 0.972944 -22 ATATGCTTCTTATCAGTCTTACCTCGCTTATCT 5 385 0 TATCGTCTAC 0.850866 -122 TAAGAAGCATATGCGGTCTATTCATGTGCATTC 5 406 1 ATGCGTCTTC 0.960452 -101 CATATCAGAGAAGCGTTCTCATCAGTCACTTGA 6 158 1 AAGCTTCTAC 0.953484 -443 TGATAAGTATTAGCCGTATCTTCGGAGTTACAC 6 414 0 TAGCGTATTC 0.906167 -187 TACTTCATCCAATCTGTATATTCGGAAAACCAG 6 451 0 AATCGTATTC 0.899069 -150 GGTTTCTATCAAGCATTCTTTGCTGTTTGATTA 7 42 0 AAGCTTCTTC 0.980939 -259 GCGTCAAAATAAGCGTTATTTCCATTCGGGTGA 8 214 1 AAGCTTATTC 0.927259 -87 **** **** * * Masking position 7 Map Score: 2.64159 Number of sites scoring better than the average of aligned sites = 740 Number in coding regions = 533 Number in noncoding regions = 207 Number of orfs with sites within 600 bp upstream = 169 Fraction of orfs with sites within 600 bp upstream = 0.0271442 Motif number 10 AGAATTATTGAAAAAGGAGCTCCCACAGTG 1 142 1 AAAAAGGAGC 0.846245 -399 TTCTCGAATAAAAAATGGTCTAAGCTGCAT 1 289 1 AAAAATGGTC 0.835529 -252 TAGCTAAAAGAAAAAGGGGTACCTTCAATT 2 90 1 AAAAAGGGGT 0.923499 -736 ATGGCCGGAAAAAAAGCGGGCGCATTTTCC 2 410 0 AAAAAGCGGG 0.954266 -416 AAGGCTAGGAAAACATGGGGAAGAAAAAAA 2 691 1 AAACATGGGG 0.93758 -135 GCAATAAGTATAAAATGGGGACATTTACGC 4 250 1 TAAAATGGGG 0.910189 -101 TTAAATGCACAATAAGGGGGGGAAGCAGGA 5 54 1 AATAAGGGGG 0.916526 -453 GGATTGGCAAATAAATGGGGAAAGATAAGC 5 363 1 ATAAATGGGG 0.910189 -144 TTGCCTTGTTAAAAATGGGCGACAGCTGAT 8 69 1 AAAAATGGGC 0.983093 -232 GACTAACCAGAAAAATCGGCACTAGAATCC 8 108 0 AAAAATCGGC 0.939571 -193 ********** Masking position 5 Map Score: 2.51278 Number of sites scoring better than the average of aligned sites = 982 Number in coding regions = 621 Number in noncoding regions = 361 Number of orfs with sites within 600 bp upstream = 273 Fraction of orfs with sites within 600 bp upstream = 0.0438484 Motif number 11 ATCGAGTTAATGAGCGACGGTATCACCTTA 1 212 0 TGAGCGACGG 0.911031 -329 CCTGTTTAGACGAGCGGCAGAACGACAGGC 1 507 1 CGAGCGGCAG 0.976155 -34 CGCTATTTTGTATGCGACAGCGAGTAAGGA 2 439 0 TATGCGACAG 0.880777 -387 TTCTGCGACTGTGGGCGAAGT 4 2 1 TCTGCGACTG 0.937851 -349 TAAAAGGCTTTCGGCGGCTGTATTTTCTGG 5 136 1 TCGGCGGCTG 0.924567 -371 AAAGGACACTCCAGAGTCAGTCATAGGCTG 6 96 0 CCAGAGTCAG 0.795535 -505 AGGAACAAAGCGTGCGGCAGGAGCGCGCTG 6 230 0 CGTGCGGCAG 0.976155 -371 ATATATACATCCAGCGTCAGCTTGAATTTG 7 144 1 CCAGCGTCAG 0.957452 -157 GGTTATTCTTTCTGAGACAGTAGTAATTTT 7 205 1 TCTGAGACAG 0.891954 -96 TTGTTAAAAATGGGCGACAGCTGATTAGAA 8 74 1 TGGGCGACAG 0.969661 -227 ********** Masking position 8 Map Score: 2.61639 Number of sites scoring better than the average of aligned sites = 570 Number in coding regions = 454 Number in noncoding regions = 116 Number of orfs with sites within 600 bp upstream = 107 Fraction of orfs with sites within 600 bp upstream = 0.017186 Motif number 12 CTTTGTTCTTCGCAGTATTTCAC 2 2 1 TTGTTCTTCC 0.956696 -824 ATCCATCCTATTATTCCTTCTCATCTCCCTGA 2 532 0 TATTCCTTCC 0.884671 -294 TTTATACTTTTTTTTTCTTCCCCATGTTTTCC 2 698 0 TTTTTCTTCC 0.982924 -128 GGAGAATTGATAATTTCTTCAAAACACCTTAA 3 49 1 TATTTCTTCA 0.935965 -383 TATAATTTAGACTTTTCTTCCAGCTGAATTTC 3 291 0 ATTTTCTTCA 0.708813 -141 AACATTTACATATTTACTTCGCCCACAGTCGC 4 15 0 TTTTACTTCC 0.890106 -336 CATTTTATACTTATTGCTTCACCAATTGACGA 4 235 0 TATTGCTTCC 0.933849 -116 GCATGTAGTCTTAATTCTTCACTTTCTGTGCA 4 278 1 TAATTCTTCC 0.901248 -73 ATCTTTGCTTCAAAGATTTTTTG 5 494 0 TTTTGCTTCA 0.897741 -13 CTTGTTTTGTTGTTTTCTTCAATGTTGTTATG 6 546 0 TTTTTCTTCA 0.958114 -55 GTTTTTCGTTTTTATTCTTCCAGCCCAGAGCA 8 23 0 TTATTCTTCA 0.8502 -278 TTCTTAAATCTCTTTTGTTCTCTATTTTCAAG 8 150 1 TTTTTGTTCC 0.848928 -151 CAAGTCTTGATAAGTTCTTCACATCCTTCGAT 8 178 1 TAGTTCTTCC 0.933849 -123 * ******** * Masking position 5 Map Score: 6.94643 Number of sites scoring better than the average of aligned sites = 1456 Number in coding regions = 946 Number in noncoding regions = 510 Number of orfs with sites within 600 bp upstream = 413 Fraction of orfs with sites within 600 bp upstream = 0.0663347 Motif number 13 TTTGGAACGATGTTTACGTACTTTGTATTTGTG 1 24 1 TGTTGTACTT 0.952652 -517 TTACGTACTTTGTATTTGTGCTTATGGTCTTTA 1 37 1 TGTTGTGCTT 0.885348 -504 CGAATGGTTATGGTTATATAATTAAACAAGTTA 1 68 0 TGGTATAATT 0.838465 -473 TGGGAGCTCCTTTTTCAATAATTCTCAAAGCGT 1 134 0 TTTTATAATT 0.706579 -407 AAAAGGCATATGTGTCGGTAATTGAGACCGCTA 1 248 1 TGTTGTAATT 0.981282 -293 ATGCCTCCTCTATATAGATAATTAAGCACCGCA 2 183 1 TATTATAATT 0.706579 -643 ATAAGGAATGTGTATGTGTAATTGAAGATCCAG 2 486 1 TGTTGTAATT 0.981282 -340 AGAAAAAAAAAGTATAAATAATTAGCTTGATGA 2 712 1 AGTTATAATT 0.777884 -114 TCTCAGAAAATGTGTCTATAATTTAGACTTTTC 3 306 0 TGTTATAATT 0.964989 -126 TAAATGTTCATGTATTAGTAATTTCATAGGTTT 4 39 1 TGTTGTAATT 0.981282 -312 ACCACTTAATTGTGTGAGTGATTGGTGATAACG 6 380 0 TGTTGTGATT 0.952652 -221 *** * ****** Masking position 5 Map Score: 3.95512 Number of sites scoring better than the average of aligned sites = 269 Number in coding regions = 143 Number in noncoding regions = 126 Number of orfs with sites within 600 bp upstream = 97 Fraction of orfs with sites within 600 bp upstream = 0.0155798 Motif number 14 AGTTAAAGACCATAAGCACAAATACAAAGT 1 43 0 CATAAGCACA 0.96754 -498 GTCTAAGCTGCATAAGCATATAGAATTGTA 1 306 1 CATAAGCATA 0.890485 -235 GATAAAGTTCCATCAGTCCACCATCAACAC 2 235 1 CATCAGTCCA 0.944068 -591 ATCAGTCCACCATCAACACATTTGCGCCTA 2 246 1 CATCAACACA 0.980747 -580 TGATATAAAACATCAACAAAGACGAGA 2 809 1 CATCAACAAA 0.887393 -17 TTTAGCTAATCATCAGTACATTATTCAGAC 3 147 0 CATCAGTACA 0.96754 -285 GCTAAACCGTCATCAACCTACCAAACTTGC 3 171 1 CATCAACCTA 0.887247 -261 AATACTTTTACATCAGCACAATATCCATGG 6 19 1 CATCAGCACA 0.992385 -582 ********** Masking position 5 Map Score: 4.13172 Number of sites scoring better than the average of aligned sites = 665 Number in coding regions = 518 Number in noncoding regions = 147 Number of orfs with sites within 600 bp upstream = 106 Fraction of orfs with sites within 600 bp upstream = 0.0170254 Motif number 15 AACCTAGCGGTCTCAATTACCGACACATAT 1 255 0 TCTCAATTAC 0.954604 -286 CATCTATTATTTTCAATCACCATGTACGAT 1 431 0 TTTCAATCAC 0.902673 -110 AAAGGGGTACCTTCAATTACAAGATACCAG 2 102 1 CTTCAATTAC 0.975541 -724 CATCCTGGATCTTCAATTACACATACACAT 2 493 0 CTTCAATTAC 0.975541 -333 AGATCAAGTTTCTCGATTACAAACTTGTTT 2 644 0 TCTCGATTAC 0.945751 -182 TCTTCACATCCTTCGATTACGGCGTCAAAA 8 193 1 CTTCGATTAC 0.970645 -108 ********** Masking position 6 Map Score: 1.28035 Number of sites scoring better than the average of aligned sites = 174 Number in coding regions = 111 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392