AlignACE version 2.2 July 7, 1998 AlignACE -jVMA.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 YBR127C 300 bp YBR127C VMA2 1-1554 H+-transporting ATPase, vacuolar (EC 3.6.1.35) #2 YEL051W 300 bp YEL051W VMA8 1-771 Vacuolar H-ATPase D subunit of the V1 catalytic sector #3 YGR020C 302 bp YGR020C vma7 1-357 Vacuolar H-ATPase 14 kDa subunit (subunit F) of the catalytic (V1) sector #4 YGR105W 300 bp YGR105W VMA21 1-234 Protein involved in vacuolar H-ATPase assembly or function #5 YHR039C-B 300 bp YHR039C-B VMA10 1-3, 166-507 13-kDa vacuolar H-ATPase subunit #6 YHR060W 300 bp YHR060W VMA22 1-546 required for V-ATPase activity #7 YKL080W 574 bp YKL080W VMA5 1-1179 Vacuolar H-ATPas hydrophilic subunit C of V1 sector #8 YLR447C 600 bp YLR447C vma6 1-1038 36 kDa subunit (D subunit of VO sector) of the vacuolar H(+) ATPase\; required for assembly #9 YOR332W 300 bp YOR332W vma4 1-702 27-kDa subunit of the vacuolar ATPase\; E subunit of V1 sector #10 YPR036W 515 bp YPR036W vma13 1-1437 54-kDa vacuolar H(+) ATPase subunit of V1 sector Motif number 1 GAGTGCGCACTTTTTTTCCTGCCGTGTGTA 1 52 1 TTTTTTTCCT 0.865346 -249 TTTTTAGTTGTTTTTTTTTTTTTTTTTTTC 1 154 1 TTTTTTTTTT 0.97343 -147 ATTAAAATCATTTAGTCCTTTATCTCTTAT 1 203 0 TTTAGTCCTT 0.616072 -98 CGCCTTTATTTTTTTTTTTTCTTTCGTTTT 3 152 0 TTTTTTTTTT 0.97343 -151 TTTCTACCTTTTTTTTTATTTTGGTTGTTT 4 123 1 TTTTTTTATT 0.881449 -178 TCTAGGTTATTTTATTTTTTTCAAATAAAA 4 174 1 TTTATTTTTT 0.897119 -127 TATTTGATTCTTTTGAAGTCTTG 4 288 0 TTGATTCTTT 0.662002 -13 TTACCGCGAATTTTTTTTTTTTTCAATTTG 5 153 1 TTTTTTTTTT 0.97343 -148 AAACAATACATTTTTTTTTTTCCTGCAATC 5 252 1 TTTTTTTTTT 0.97343 -49 GACTTCAGGGTTTTTTTCTTTTTTCTTTTG 7 75 0 TTTTTTTCTT 0.967759 -500 TTACGGAAAATTGTTTTTTTCGCTATTGTT 7 311 0 TTGTTTTTTT 0.945544 -264 CCTCCTTTGTTTGTGTTTCTAAAGCACTGT 7 480 0 TTGTGTTTCT 0.637921 -95 TTGCTAGAGTTTGTTTTCTTACCTAATTCT 7 526 1 TTGTTTTCTT 0.934321 -49 TTTTTTTTTTCAGAAAAAAG 7 565 0 TTTTTTTTTT 0.97343 -10 GGGTCATAATTTTTTTTCTTGCCTTCAAAA 8 55 0 TTTTTTTCTT 0.967759 -546 ATGGGTGATATTTTGTCTTTATTATTATTA 8 99 1 TTTTGTCTTT 0.891646 -502 ATGTCCTACCTTTTTTCCTTCTTTCTTCCT 8 149 0 TTTTTTCCTT 0.934321 -452 TTCATTAATATTTTGTTATTATGTATTTCA 8 271 1 TTTTGTTATT 0.778946 -330 CTACAATTCATTTTGTCCTTGAAATACATA 8 290 0 TTTTGTCCTT 0.870834 -311 TCAATTGTTCTTTTGTTTTTGCAGTATATC 8 491 0 TTTTGTTTTT 0.945544 -110 TAATGATTTATTTATTTATTTTACTACTAT 10 89 1 TTTATTTATT 0.638944 -427 TTTATAAATTTTGATTTTTTCTCATGCCTG 10 167 0 TTGATTTTTT 0.805169 -349 GACAGTCGAATTTTTTCTTTTTTTTTTTTT 10 244 1 TTTTTTCTTT 0.945544 -272 TTTTTTCTTTTTTTTTTTTTGCAAAGCGAC 10 254 1 TTTTTTTTTT 0.97343 -262 TAATTTTCTATTGTTTTCCTCATGCCATTA 10 308 1 TTGTTTTCCT 0.752823 -208 TATCAAACCTTTTTTTTTTTCCTGGTCTGG 10 390 0 TTTTTTTTTT 0.97343 -126 TATACAATACTTTTTTTTTTTTTCATTATC 10 416 0 TTTTTTTTTT 0.97343 -100 ********** Masking position 6 Map Score: 42.2929 Number of sites scoring better than the average of aligned sites = 13078 Number in coding regions = 2349 Number in noncoding regions = 10729 Number of orfs with sites within 600 bp upstream = 2448 Fraction of orfs with sites within 600 bp upstream = 0.39319 Motif number 2 GTGCGCACTTTTTTTCCTGCCGTGTGTATAAAGTTGC 1 54 1 TTTTCTCGTT 0.768243 -247 AGTTTTTTAGTTGTTTTTTTTTTTTTTTTTTTCACCC 1 151 1 TTGTTTTTTT 0.832342 -150 TTATTACTGATATTACTCACCTGATTTTTTGTTACCC 2 138 1 TATTCCCTTT 0.777773 -163 AAGTTTGCTGTTTTTCTTAGTTATTATCATCATCTTT 3 37 1 TTTTCTTTTT 0.924797 -266 CCTTTATTTTTTTTTTTTCTTTCGTTTTCCTACTTCC 3 143 0 TTTTTTTTTT 0.875533 -160 GAAAATTCAATTTTCTACCTTTTTTTTTATTTTGGTT 4 112 1 TTTTTCTTTT 0.745729 -189 GTGAGAGCTCTTTTGCCTTTCTTTTATTTGAAAAAAA 4 188 0 TTTTCTCTTT 0.976473 -113 TCAGAAATTGTTGTCCTTCATTCATGTTGATATTTAT 6 169 1 TTGTCTTTTT 0.896684 -132 TGAAAATTCGTTTTGTTTGACTCTTATGTATATTGGG 7 40 0 TTTTTTCTTT 0.959581 -535 CTTCAGGGTTTTTTTCTTTTTTCTTTTGAAAATTCGT 7 66 0 TTTTCTTTTT 0.924797 -509 ATAAACTTGATTCTTCTCTTCTTATTTCATGTTTCAG 7 248 1 TTCTCCCTTT 0.911031 -327 CAACTGCAACTTCTATATACCTCCTTTGTTTGTGTTT 7 492 0 TTCTTTCTTT 0.933549 -83 GCATGGGTGATATTTTGTCTTTATTATTATTAGTAAC 8 97 1 TATTTTTTTT 0.587236 -504 CCTTTTTTCCTTCTTTCTTCCTTGTCTTAATCTGAAA 8 134 0 TTCTTTCTTT 0.933549 -467 ACTAAGTAATTTCCGCGCACCTATTGTTACGCTGATA 8 418 1 TTCCCCCTTT 0.610844 -183 CGTTCTTTCGTAGTCCATACCTATTGTTGTTTACTGA 9 101 1 TAGTCTCTTT 0.855584 -200 GCAACTGCTATTGTTCTTTGCTGATATATAGCGTGAG 9 207 0 TTGTCTCTTT 0.966988 -94 GCAAGAAAAGTTGTTTGTAACTGTTTTACAAAAGAGG 9 242 1 TTGTTTCTTT 0.94368 -59 GCGTGGCCTGTTCTGTGCCTCTTTTGTAAAACAGTTA 9 259 0 TTCTTCCTTT 0.854171 -42 TTTACTACTATATTACATTACTTTTTTACATAAAAAA 10 108 1 TATTCTCTTT 0.893554 -408 ATTTTGATTTTTTCTCATGCCTGTTTTTGATCGTGAG 10 153 0 TTTCCTCTTT 0.864171 -363 ACAGTCGAATTTTTTCTTTTTTTTTTTTTGCAAAGCG 10 245 1 TTTTCTTTTT 0.924797 -271 ATCAAACCTTTTTTTTTTTCCTGGTCTGGTTTGGGAA 10 382 0 TTTTTTCTTT 0.959581 -134 AAAAAAAGTATTGTATATGACTGTTTTCCTGATAAAA 10 429 1 TTGTTTCTTT 0.94368 -87 GCCAGTGCACTTTTATATCTCTTGTCTTTGAATTATT 10 476 0 TTTTTTCTTT 0.959581 -40 **** * * ** * * Masking position 15 Map Score: 28.3066 Number of sites scoring better than the average of aligned sites = 3374 Number in coding regions = 1549 Number in noncoding regions = 1825 Number of orfs with sites within 600 bp upstream = 1200 Fraction of orfs with sites within 600 bp upstream = 0.19274 Motif number 3 AACTGAGTTGGTTCTTACCCGAATGCTTAT 1 125 0 GTTCTTACCC 0.970051 -176 CACCTGATTTTTTGTTACCCGAATGCAAAT 2 155 1 TTTGTTACCC 0.980765 -146 TTTTTGATGCGTTCATACCAAGTTTGCTGT 3 18 1 GTTCATACCA 0.827786 -285 TTTTTTTCAATTTGTTACCCTGCCTTGGGT 5 169 1 TTTGTTACCC 0.980765 -132 AGATGAAATTTTTGATACCCAAGGCAGGGT 5 185 0 TTTGATACCC 0.958486 -116 TCTTCCATATTTTCTTCCCAATATACATAA 7 24 1 TTTCTTCCCA 0.946173 -551 ATAAACGGTGTATGTTACCCGAACTGGAAT 7 356 1 TATGTTACCC 0.877671 -219 TAGAGTTTGTTTTCTTACCTAATTCTAGAT 7 530 1 TTTCTTACCT 0.907157 -45 GAAAAAGTGATTTCATCCCCCAACGATTCA 8 326 1 TTTCATCCCC 0.960452 -275 GGGAGAGCTTTTTCTTCCCAAACCAGACCA 10 368 1 TTTCTTCCCA 0.946173 -148 ********** Masking position 6 Map Score: 7.42899 Number of sites scoring better than the average of aligned sites = 594 Number in coding regions = 391 Number in noncoding regions = 203 Number of orfs with sites within 600 bp upstream = 180 Fraction of orfs with sites within 600 bp upstream = 0.028911 Motif number 4 TTACACTGGCTGCTATTGTTTATGACTGAC 1 96 0 TGCTATTGTT 0.956155 -205 TATAAATAAACACTTTTGTTACATAGGGTT 2 33 0 CACTTTTGTT 0.963548 -268 TAATAAAAAGCACTATTGTTAAAGGTGTAA 2 114 0 CACTATTGTT 0.976383 -187 TCTTTTGCCTTTCTTTTATTTGAAAAAAAT 4 187 0 TTCTTTTATT 0.738949 -114 GGTTAGTTTCTACTATTGCTTTCCAGTATT 4 259 0 TACTATTGCT 0.875451 -42 TGTATTTGAACTCTTTTATTCCGCATACAC 5 21 1 CTCTTTTATT 0.840321 -280 CTTTGACATCCACTATTATTACCGCGAATT 5 135 1 CACTATTATT 0.891724 -166 TTGTTTTTTTCGCTATTGTTGCAAAAGTAC 7 301 0 CGCTATTGTT 0.975927 -274 AGGTCAATTGTTCTTTTGTTTTTGCAGTAT 8 494 0 TTCTTTTGTT 0.934289 -107 GAATGGTATACTCTTTTGCTAGCTCTTAGC 8 554 0 CTCTTTTGCT 0.89306 -47 TTCTTGCAACTGCTATTGTTCTTTGCTGAT 9 219 0 TGCTATTGTT 0.956155 -82 ATTTCCTGTGCATTATTGTTAGTTTATTAG 10 57 0 CATTATTGTT 0.731519 -459 TAAAATAATTTTCTATTGTTTTCCTCATGC 10 303 1 TTCTATTGTT 0.956991 -213 ********** Masking position 6 Map Score: 9.14915 Number of sites scoring better than the average of aligned sites = 1632 Number in coding regions = 1026 Number in noncoding regions = 606 Number of orfs with sites within 600 bp upstream = 522 Fraction of orfs with sites within 600 bp upstream = 0.083842 Motif number 5 TCGATATAATAAATGTAGTGCTTGCAATTC 3 205 0 AAATGTAGTG 0.961488 -98 ATGAATATAGAAATGTAGTGCTCTATTTTC 3 251 0 AAATGTAGTG 0.961488 -52 TTTTTCAAATAAAAGAAAGGCAAAAGAGCT 4 190 1 AAAAGAAAGG 0.764948 -111 GGAAAAAAAAAAATGTATTGTTTAAGGTGT 5 245 0 AAATGTATTG 0.962211 -56 TTTTTCAGAAAAAAGAATTGATCTAGAATT 7 550 0 AAAAGAATTG 0.945646 -25 CCATGCACCAAAATGTATGGGTCATAATTT 8 73 0 AAATGTATGG 0.916333 -528 CTGGTATACAAATAGAAGTGCTGAAGTTCA 8 219 1 AATAGAAGTG 0.705841 -382 TTCAAGGACAAAATGAATTGTAGGAAGATG 8 297 1 AAATGAATTG 0.945634 -304 TTTTATGTAAAAAAGTAATGTAATATAGTA 10 113 0 AAAAGTAATG 0.917224 -403 GAAAAAAAAAAAAAGTATTGTATATGACTG 10 422 1 AAAAGTATTG 0.962223 -94 ********** Masking position 7 Map Score: 5.87439 Number of sites scoring better than the average of aligned sites = 818 Number in coding regions = 555 Number in noncoding regions = 263 Number of orfs with sites within 600 bp upstream = 197 Fraction of orfs with sites within 600 bp upstream = 0.0316415 Motif number 6 TGTTAGACGATCAAAGTTCGTGTTTAGAAT 2 74 0 TCAAAGTTCG 0.830421 -227 TTACCCGAATGCAAATTTGATTAGGAACGG 2 169 1 GCAAATTTGA 0.71376 -132 ACGCACGTACGCAAGTTTCAGCAGCAATAA 3 78 0 GCAAGTTTCA 0.963943 -225 TCAAAGTTGAAATTAGTAAA 4 1 1 TCAAAGTTGA 0.664036 -300 ATAGTGGATGTCAAAGTTCATATTCGATGA 5 121 0 TCAAAGTTCA 0.942244 -180 TATTTACAATTCAAATTTCAAACCGATGAA 6 234 0 TCAAATTTCA 0.793947 -67 TCTTCTTATTTCATGTTTCAGTGGGGCATT 7 264 1 TCATGTTTCA 0.768138 -311 ACAGCATTCAGCAAATTTGATTATCTCTCA 8 185 0 GCAAATTTGA 0.71376 -416 TTGGTAACATGCAAGTTTCATTAATATTTT 8 255 1 GCAAGTTTCA 0.963943 -346 ********** Masking position 7 Map Score: 3.65354 Number of sites scoring better than the average of aligned sites = 400 Number in coding regions = 298 Number in noncoding regions = 102 Number of orfs with sites within 600 bp upstream = 87 Fraction of orfs with sites within 600 bp upstream = 0.0139737 Motif number 7 TTTTTTTTTTTTTTCACCCCGTTGAAAGAAAA 1 169 1 TTTTCCCCGT 0.661236 -132 GTCCTTTATCTCTTATCCTTTTCTTTCAACGG 1 187 0 TCTTCCTTTT 0.964392 -114 TTTTGAACCTTTTTCACAATGCT 2 288 0 TTTGCCTTTT 0.830532 -13 TGCTGAACCATCTTTTCTTCTTAATATGGAAT 4 70 1 TCTTCTTCTT 0.953607 -231 AAAATTCAATTTTCTACCTTTTTTTTTATTTT 4 113 1 TTTCCCTTTT 0.920725 -188 TAAATGCCTTTCTCTTCCTCTCACCACCAAAA 6 23 0 TCTCCCTCTC 0.89897 -278 ACTTCAGGGTTTTTTTCTTTTTTCTTTTGAAA 7 72 0 TTTTCTTTTT 0.784493 -503 TAAACTTGATTCTTCTCTTCTTATTTCATGTT 7 249 1 TCTTCTTCTT 0.953607 -326 TGTCCTACCTTTTTTCCTTCTTTCTTCCTTGT 8 146 0 TTTTCTTCTT 0.896374 -455 ACAATTGACCTCTTAACCCTTTAAGGTATGGC 8 513 1 TCTTCCCTTT 0.879093 -88 ATAATCCCCATCTCGACCTCTTCTTTAGAACC 9 70 1 TCTCCCTCTT 0.984981 -231 CGTGGCCTGTTCTGTGCCTCTTTTGTAAAACA 9 263 0 TCTGCCTCTT 0.965124 -38 AATTCGACTGTCGCAGCCTCTTATTTTATGTC 10 224 0 TCGCCCTCTT 0.89897 -292 GACAGTCGAATTTTTTCTTTTTTTTTTTTTGC 10 244 1 TTTTCTTTTT 0.784493 -272 AAGAAAAAGCTCTCCCCCTCGTGTAATTATGC 10 352 0 TCTCCCTCGT 0.946253 -164 **** ****** Masking position 1 Map Score: 7.67455 Number of sites scoring better than the average of aligned sites = 2968 Number in coding regions = 2162 Number in noncoding regions = 806 Number of orfs with sites within 600 bp upstream = 674 Fraction of orfs with sites within 600 bp upstream = 0.108256 Motif number 8 CTCTTATCCTTTTCTTTCAACGGGGTGAAA 1 180 0 TTTCTTTCAA 0.912748 -121 AATAAATGTAGTGCTTGCAATTCACGTTGG 3 198 0 GTGCTTGCAA 0.969755 -105 GTTTCTACTATTGCTTTCCAGTATTGCGTT 4 254 0 TTGCTTTCCA 0.862122 -47 CAACACCGCCATACTTGCAAATTGCCACAC 5 55 1 ATACTTGCAA 0.779696 -246 CATTTTTTTTTTTCCTGCAATCTCCAAAGT 5 260 1 TTTCCTGCAA 0.942647 -41 GTGATATCATGTGCTTTCAAGCAGGATTTG 7 448 1 GTGCTTTCAA 0.947357 -127 ATTTTTTTTCTTGCCTTCAAAAATCGTTGT 8 47 0 TTGCCTTCAA 0.954984 -554 ACAAACAACTTTTCTTGCAACTGCTATTGT 9 230 0 TTTCTTGCAA 0.951931 -71 TGATAAAAGAATGCCTGCAATAATTCAAAG 10 458 1 ATGCCTGCAA 0.946981 -58 ********** Masking position 6 Map Score: 3.0508 Number of sites scoring better than the average of aligned sites = 718 Number in coding regions = 563 Number in noncoding regions = 155 Number of orfs with sites within 600 bp upstream = 125 Fraction of orfs with sites within 600 bp upstream = 0.0200771 Motif number 9 CTCTAGCCTACCACGTACCATCGGTCATGA 1 25 0 CCACGTACCA 0.980584 -276 TCCGCATACACCACACAACACCGCCATACT 5 40 1 CCACACAACA 0.906347 -261 CCTTTCTCTTCCTCTCACCACCAAAAAATG 6 19 0 CCTCTCACCA 0.950035 -282 AAAATATCACCCATGCACCAAAATGTATGG 8 83 0 CCATGCACCA 0.980583 -518 TAAGTAATTTCCGCGCACCTATTGTTACGC 8 420 1 CCGCGCACCT 0.973175 -181 ACAGAACAGGCCACGCACCATCCGATACAG 9 280 1 CCACGCACCA 0.996946 -21 ********** Masking position 7 Map Score: 1.50081 Number of sites scoring better than the average of aligned sites = 171 Number in coding regions = 86 Number in noncoding regions = 85 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 10 CGGCAGGAAAAAAAGTGCGCACTCTAGCCT 1 46 0 AAAAGTGCGC 0.986663 -255 GAATTAAGAAAATAGAGCACTACATTTCTA 3 244 1 AATAGAGCAC 0.92187 -59 AAAGAAAGGCAAAAGAGCTCTCACTATATA 4 201 1 AAAAGAGCTC 0.97952 -100 TATGCGGAATAAAAGAGTTCAAATACAAGT 5 18 0 AAAAGAGTTC 0.880938 -283 AGTATCGGCTAAAAGTGCGCCCGAGGTCAC 9 137 1 AAAAGTGCGC 0.986663 -164 CAAGAGATATAAAAGTGCACTGGCGATTTC 10 489 1 AAAAGTGCAC 0.97952 -27 ********** Masking position 4 Map Score: 2.39369 Number of sites scoring better than the average of aligned sites = 272 Number in coding regions = 182 Number in noncoding regions = 90 Number of orfs with sites within 600 bp upstream = 67 Fraction of orfs with sites within 600 bp upstream = 0.0107613 Motif number 11 TGCATGTAGTCAGTCATAAACAATAGCAGC 1 88 1 CAGTCATAAA 0.988726 -213 TGAGTAATATCAGTAATAAAAAGCACTATT 2 127 0 CAGTAATAAA 0.956662 -174 AGAGAAGCGTCAGTCATAAACGGTGTATGT 7 341 1 CAGTCATAAA 0.988726 -234 ATCAGGAAAACAGTCATATACAATACTTTT 10 432 0 CAGTCATATA 0.971997 -84 ********** Masking position 6 Map Score: 0.662523 Number of sites scoring better than the average of aligned sites = 26 Number in coding regions = 18 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 12 CGTTTTCCTACTTCCCTTTACCGGCGTAAG 3 128 0 CTTCCCTTTA 0.920271 -175 GTGATGACGGCTACGATTTACTAATTTCAA 4 17 0 CTACGATTTA 0.692756 -284 GGTTGTTTGTCTTCGATATTTGATAATTTT 4 145 1 CTTCGATATT 0.924446 -156 TTGCCACACCCTTCCCTATTAACTGGACTC 5 76 1 CTTCCCTATT 0.945686 -225 AATAACTCTTCTTCCATATTTTCTTCCCAA 7 15 1 CTTCCATATT 0.941422 -560 TCCATATTTTCTTCCCAATATACATAAGAG 7 27 1 CTTCCCAATA 0.781985 -548 ATGACTGACGCTTCTCTTTACGGAAAATTG 7 328 0 CTTCTCTTTA 0.848224 -247 GCAACTGCAACTTCTATATACCTCCTTTGT 7 500 0 CTTCTATATA 0.919304 -75 TTTAAAATATCTTCGATATACTGCAAAAAC 8 477 1 CTTCGATATA 0.947127 -124 ATTTATTTTACTACTATATTACATTACTTT 10 102 1 CTACTATATT 0.683848 -414 ********** Masking position 2 Map Score: 1.22877 Number of sites scoring better than the average of aligned sites = 600 Number in coding regions = 388 Number in noncoding regions = 212 Number of orfs with sites within 600 bp upstream = 190 Fraction of orfs with sites within 600 bp upstream = 0.0305172 Motif number 13 GTCAGTCATAAACAATAGCAGCCAGTGTAAT 1 96 1 AACAATAGCG 0.867611 -205 TTGATCGTCTAACAATTGCCGCAGTTACACC 2 90 1 AACAATTGCG 0.969776 -211 TGCGTACTAAAAAAATTTCACTGCGCTTACG 3 103 1 AAAAATTTCC 0.944249 -200 TTGAAAAAAAAAAAAATTCGCGGTAATAATA 5 148 0 AAAAAATTCC 0.643159 -153 CTTGGGTATCAAAAATTTCATCTCTAAAAGG 5 192 1 AAAAATTTCT 0.687168 -109 AATGAAGGACAACAATTTCTGAGTTTATTAT 6 160 0 AACAATTTCG 0.969214 -141 CGATGAAATGAAAAATTGACGGCTTAACGAG 6 277 1 AAAAATTGAG 0.810432 -24 TAGCGAAAAAAACAATTTTCCGTAAAGAGAA 7 316 1 AACAATTTTC 0.8448 -259 AAGACTGGAAAACAATTTAGGATAGAACTGA 7 398 1 AACAATTTAG 0.886362 -177 AAAACAAAAGAACAATTGACCTCTTAACCCT 8 502 1 AACAATTGAC 0.888244 -99 ATCAGCAAAGAACAATAGCAGTTGCAAGAAA 9 219 1 AACAATAGCG 0.867611 -82 CCTGCCTAAAAAAAATTTTGCACCATTGTAT 10 16 0 AAAAATTTTC 0.745397 -500 TTTTTACATAAAAAATTTCCCATCTCACGAT 10 130 1 AAAAATTTCC 0.944249 -386 ********* * Masking position 5 Map Score: 2.89692 Number of sites scoring better than the average of aligned sites = 1251 Number in coding regions = 872 Number in noncoding regions = 379 Number of orfs with sites within 600 bp upstream = 316 Fraction of orfs with sites within 600 bp upstream = 0.0507549 Motif number 14 AGGATTGCGATTGTAAGAGTAGACAGTACA 1 256 1 TTGTAAGAGT 0.943718 -45 AAAAGCACTATTGTTAAAGGTGTAACTGCG 2 109 0 TTGTTAAAGG 0.879153 -192 ATGCAAAATATTGTTAGAGTAACCGCAGCA 7 220 0 TTGTTAGAGT 0.969026 -355 TTCGCTATTGTTGCAAAAGTACAATGGAAA 7 293 0 TTGCAAAAGT 0.943718 -282 GAAGTTGCAGTTGCTAGAGTTTGTTTTCTT 7 516 1 TTGCTAGAGT 0.980077 -59 TCGGATCGTGTTGCTAAAGTCTTGCGAAG 8 582 1 TTGCTAAAGT 0.969026 -19 ********** Masking position 6 Map Score: 1.0904 Number of sites scoring better than the average of aligned sites = 154 Number in coding regions = 113 Number in noncoding regions = 41 Number of orfs with sites within 600 bp upstream = 34 Fraction of orfs with sites within 600 bp upstream = 0.00546097 Motif number 15 GTTGGTTCTTACCCGAATGCTTATTACACT 1 119 0 ACCCGAATGC 0.993992 -182 ATTTTTTGTTACCCGAATGCAAATTTGATT 2 161 1 ACCCGAATGC 0.993992 -140 TAGCAACACGATCCGAATGGTATACTCTTT 8 568 0 ATCCGAATGG 0.975549 -33 TGATGGTTAGATCTGAATGC 9 1 0 ATCTGAATGC 0.964183 -300 ********** Masking position 6 Map Score: 0.23262 Number of sites scoring better than the average of aligned sites = 24 Number in coding regions = 17 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493