AlignACE version 2.2 July 7, 1998 AlignACE -jSTE.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 YCL032W 300 bp YCL032W ste50 1-1041 possesses a SAM (sterile alpha motif)\; interacts with G protein and Ste11p #2 YDL159W 550 bp YDL159W ste7 1-1548 MEK homolog #3 YDR103W 369 bp YDR103W ste5 1-2754 Protein of the pheromone pathway #4 YDR410C 300 bp YDR410C ste14 1-720 farnesyl cysteine-carboxyl methyltransferase #5 YFL026W 600 bp YFL026W ste2 1-1296 alpha-factor pheromone receptor\; seven-transmembrane domain protein #6 YHL007C 377 bp YHL007C STE20 1-2820 serine\/threonine protein kinase #7 YHR084W 557 bp YHR084W ste12 1-2067 Transcription factor #8 YJR086W 600 bp YJR086W ste18 1-333 gamma subunit of G protein coupled to mating factor receptors #9 YJR117W 342 bp YJR117W STE24 1-1362 zinc metallo-protease that catalyzes the first step of N-terminal processing of the yeast a-factor precursor #10 YKL209C 439 bp YKL209C ste6 1-3873 ABC transporter, glycoprotein, component of a-factor secretory pathway #11 YKL178C 600 bp YKL178C STE3 1-1413 a factor recptor #12 YLR362W 600 bp YLR362W ste11 1-2217 Ser\/Thr protein kinase\; MEKK homolog #13 YLR389C 405 bp YLR389C STE23 1-2967 #14 YOR212W 600 bp YOR212W STE4 1-1272 beta subunit of G protein coupled to mating factor receptor #15 YOR219C 318 bp YOR219C ste13 1-2796 dipeptidyl aminopeptidase Motif number 1 ATTCGTCACTCATTTTCTTGCTCTTATTCCA 1 41 1 CTTTTCTTGC 0.867484 -260 TACTACTATTTTCTTTCTTGTCGTATT 2 7 1 TTTTTCTTTC 0.940102 -544 TACTTTTAGCCCTTTTATTTCTTCATAACCG 2 74 0 CTTTTATTTC 0.782827 -477 AATATAGTCATATTTTATTCCTAATAGAAAG 2 123 0 TTTTTATTCC 0.913815 -428 TTGATGATTGTCTTTTCTTGCAAACCCCAAT 2 290 1 TTTTTCTTGC 0.922536 -261 TTCTTTTCTTTTTTTTTTTTGGGTGCGGCGA 3 136 1 TTTTTTTTTG 0.793801 -234 CTTTTTTATGCCTTTCTTTTGTCGTCAACTT 3 260 0 CTTTCTTTTG 0.644502 -110 TTCAAGATAATCTTCCCTTCCCAGAGAGAAA 5 12 1 TTTCCCTTCC 0.794272 -589 CGGATACTATTGTTTCATTGCAAAGCAGGAT 5 274 0 TTTTCATTGC 0.809999 -327 AATACGATACCTTTTCTTTTCACCTGCTCTG 5 519 1 CTTTCTTTTC 0.820621 -82 GAAACGTTAATCTTTTTTTCCTTTTTTTTTC 6 30 1 TTTTTTTTCC 0.940144 -348 CTTTTTTTCCTTTTTTTTTCGATTAAAAAAA 6 41 1 TTTTTTTTCG 0.861581 -337 TGAAACACAGCATTTCTTTTCGGAGAGCTCG 7 94 1 CTTTCTTTTC 0.820621 -464 TATAAAAGTGTGTTTTCTTCGACGAGTCTTG 7 495 0 TTTTTCTTCG 0.909557 -63 ACTCTATTAGTTTTTTTTTTGTAAAGGAAAG 8 166 0 TTTTTTTTTG 0.793801 -435 TTGTCTTTTTTTTTTTATTTCCCGTCGATTT 9 222 0 TTTTTATTTC 0.867685 -121 TTCCTCCTTTTTTTTCCTTCCTTTTCCTGTT 9 298 0 TTTTCCTTCC 0.956028 -45 AGGCCTGCAGTTTTCTATTTCCTCCTTTTTT 9 316 0 TTTCTATTTC 0.537997 -27 CTGACAAATATGTTCCTTTCCTTTTTCTTTT 10 126 1 TTTCCTTTCC 0.704979 -314 GTTCCTTTCCTTTTTCTTTTCTCTATTCTGC 10 137 1 TTTTCTTTTC 0.892735 -303 AATAGTTTCTTATTTTTTTTGCCATGTAATT 10 216 1 TTTTTTTTTG 0.793801 -224 CTGATAATTGCATTTTTTTGGAAAGATTTGG 11 51 0 CTTTTTTTGG 0.616219 -550 TCATTGGATGCGTTTCATTTGGCCGTTATCA 11 364 1 CTTTCATTTG 0.55033 -237 TCACATATTCTATTTTATTGCTTTTTAACTT 11 530 1 TTTTTATTGC 0.832662 -71 TGCTCAGTTATATTTCATTTCTATTTCATAA 12 141 0 TTTTCATTTC 0.848905 -460 AGGACTTCGCCCTTTTCTTCCTGAATGAATC 13 306 1 CTTTTCTTCC 0.933106 -100 CTTTTCTAATTGTTTTCTTCCCCTTTTTGTA 14 408 1 TTTTTCTTCC 0.962088 -193 TTTTCTTCCCTCTTTCCTTCCAATAATTCTG 14 504 0 TTTTCCTTCC 0.956028 -97 AGCAATATCGTATTTTCTTCCCTCTTTCCTT 14 516 0 TTTTTCTTCC 0.962088 -85 GTTTTTTGAGTATTTTCTTCCTTGACTTAAT 14 552 0 TTTTTCTTCC 0.962088 -49 CGCTAATGTATCTTTTTTTGGTTTTTGATTG 15 28 1 TTTTTTTTGG 0.744969 -291 TTTGTTTTGTTGTTTTCTTCCAGCCTCATGA 15 244 1 TTTTTCTTCC 0.962088 -75 * ********* Masking position 4 Map Score: 28.1777 Number of sites scoring better than the average of aligned sites = 6858 Number in coding regions = 2860 Number in noncoding regions = 3998 Number of orfs with sites within 600 bp upstream = 2309 Fraction of orfs with sites within 600 bp upstream = 0.370864 Motif number 2 TTTGATATTGCTTCCTTTCTCCCTTTATTTA 1 155 1 CTCCTTTCTC 0.924961 -146 ATTTTTTTCCCTCCCTTTTTTGATCACTGTC 2 371 1 CTCCTTTTTT 0.974083 -180 TTTTGAACAATTTCCCTTCTTTTCTTTTTTT 3 120 1 TTCCCTTCTT 0.828147 -250 TTACTTTTTTATGCCTTTCTTTTGTCGTCAA 3 263 0 ATCCTTTCTT 0.718041 -107 TATCCTGTATCTTCCTTTTTTAGCGCGGATG 3 330 0 CTCCTTTTTT 0.974083 -40 ACTCTTTTTACCTCCTCTTTCATTGTGGTCA 4 263 1 CCCCTCTTTC 0.861751 -38 TCAAGATAATCTTCCCTTCCCAGAGAGAAAA 5 13 1 CTCCCTTCCC 0.739738 -588 TAGCTAAATTTTTCCTTTTTTCTCTCTGGGA 5 30 0 TTCCTTTTTT 0.943621 -571 AAGCAATACGATACCTTTTCTTTTCACCTGC 5 515 1 ATCCTTTTCT 0.670999 -86 TTAATCTTTTTTTCCTTTTTTTTTCGATTAA 6 36 1 TTCCTTTTTT 0.943621 -342 GACTTTCGAATTCCCTCTCTTGGCCGTGTTT 6 95 0 TTCCTCTCTT 0.898778 -283 ATTCGAAAGTCTACCGCTTTTGGCAGCTGAA 6 115 1 CTCCGCTTTT 0.808805 -263 GAATTTACGGATGCCTCTTTTTGGTTTCGTA 6 180 0 ATCCTCTTTT 0.857448 -198 ATGTGATCTGCTCCCCCTTCTCGTTAAATAC 8 51 1 CTCCCCTTCT 0.906553 -550 ACCTACCTTTTTTTCTATCTTCA 9 3 1 CTCCTTTTTT 0.974083 -340 AAAAGTTTAATTGCCTCTTTTTGGTTAATAG 9 119 0 TTCCTCTTTT 0.94933 -224 AATTAAACTTTTCCCTCTTTTTCTACGTCAT 9 138 1 TTCCTCTTTT 0.94933 -205 CTTTTTTTTCCTTCCTTTTCCTGTTAATTAT 9 292 0 CTCCTTTTCC 0.908019 -51 TTTTCTATTTCCTCCTTTTTTTTCCTTCCTT 9 306 0 CCCCTTTTTT 0.889464 -37 AATATGTTCCTTTCCTTTTTCTTTTCTCTAT 10 132 1 TTCCTTTTTC 0.920522 -308 AGCGTTCTGGCTCCCCTTTTCTCTAAACGTT 11 126 1 CTCCCTTTTC 0.940479 -475 TGATAGTATTTTGCCTTTCCTACACAAATTT 11 572 0 TTCCTTTCCT 0.750668 -29 TTAGTTTTCCCTCCCCCTTTTAAAGTAATCT 12 366 1 CTCCCCTTTT 0.962349 -235 TTCGAGGACTTCGCCCTTTTCTTCCTGAATG 13 302 1 TCCCCTTTTC 0.601031 -104 TCGGCGTGTACTACCTCTTTTGGGACCACAA 14 43 1 CTCCTCTTTT 0.976783 -558 TAATTGTTTTCTTCCCCTTTTTGTAGTAACT 14 414 1 CTCCCCTTTT 0.962349 -187 TCGTATTTTCTTCCCTCTTTCCTTCCAATAA 14 509 0 TTCCTCTTTC 0.928393 -92 ** ******** Masking position 8 Map Score: 31.5962 Number of sites scoring better than the average of aligned sites = 2353 Number in coding regions = 1336 Number in noncoding regions = 1017 Number of orfs with sites within 600 bp upstream = 802 Fraction of orfs with sites within 600 bp upstream = 0.128815 Motif number 3 AGAATGTGGATGAAACAAAACTGAATCCAATGATG 2 219 1 TGAAACAATA 0.961009 -332 CTAGATGGGTTAAAACAGTTTTAAAATATTTTCAA 3 295 0 TAAAACATTA 0.93855 -75 AGGATACAGCGGAAACAACTTTTAA 3 355 1 GGAAACATTA 0.895833 -15 CGATTGATAATGAAACATCACTCAAGACGAATTGA 4 118 1 TGAAACAATA 0.961009 -183 GCCACTATGGTAAAACAATTCTTTACATGATACCA 4 160 1 TAAAACATTA 0.938023 -141 TGCTTTGCAATGAAACAATAGTATCCGCTAAGAAT 5 278 1 TGAAACAATC 0.808838 -323 AAGTACATGATGAAACACATATGAAGAAAAAAGCT 5 404 1 TGAAACATTA 0.983322 -197 TCGTTTCTTTTAAAACAATTTTTATCTGTTTCACT 7 173 0 TAAAACATTT 0.757347 -385 GGGACACTTATAAAACAAGTCTTCAGTGCTTACCT 7 424 0 TAAAACATTA 0.938544 -134 ATTTAGAGCCTGAAACAAAAATCAACATGAAAACC 8 476 0 TGAAACAATA 0.961009 -125 TTTTCATATCTGAAACAATTGTATATGTGCGAAGC 10 271 0 TGAAACATTA 0.983309 -169 TATCTCTTCCTGAAACATTTTTCAACGCGTGTAAA 14 106 0 TGAAACATTA 0.983279 -495 GAAAACAATCTGAAAAAATTTTCGACACACAGAAA 14 244 0 TGAAAAATTA 0.780955 -357 TGTTATACCGTGAAACAAATTTCATCGGCCGGGTG 15 143 0 TGAAACATTT 0.923325 -176 ******* * * * Masking position 7 Map Score: 10.7378 Number of sites scoring better than the average of aligned sites = 378 Number in coding regions = 274 Number in noncoding regions = 104 Number of orfs with sites within 600 bp upstream = 85 Fraction of orfs with sites within 600 bp upstream = 0.0136524 Motif number 4 CTGCATCGGATCATATCTGTTTTTGCAGCGTGG 2 511 1 TCTTCTTTTT 0.968307 -40 TCTAATCACTACCTTTATATTTTTTAATTAATT 3 57 0 ACTTATTTTT 0.416957 -313 CAATTTCCCTTCTTTTCTTTTTTTTTTTTGGGT 3 127 1 TCTTCTTTTT 0.968307 -243 TTCCGCTGTATCCTGTATCTTCCTTTTTTAGCG 3 336 0 TCTTATTTCC 0.610938 -34 CAATAACAACTTTTATCTATTTCTATGTACTTT 4 28 1 TTTTCTTTTC 0.906271 -273 CATAGCTAAATTTTTCCTTTTTTCTCTCTGGGA 5 30 0 TTTCCTTTTT 0.735753 -571 GCTTTTTTCTTCATATGTGTTTCATCATGTACT 5 405 0 TCTTGTTTTC 0.530625 -196 AAAAAGATTAACGTTTCTTTTTCGTTCTATCGT 6 14 0 ACTTCTTTTC 0.812572 -364 AATCTTTTTTTCCTTTTTTTTTCGATTAAAAAA 6 38 1 TCTTTTTTTC 0.658384 -340 TTAAAACAATTTTTATCTGTTTCACTTTTTCTA 7 166 0 TTTTCTTTTC 0.906271 -392 CGAAGAGTTGTTCAATCTTTTTTAGGCTGTTTT 7 243 0 TTATCTTTTT 0.326823 -315 AGTGCTTACCTGTTATCTTTTCCTATTTTATGA 7 402 0 TGTTCTTTCC 0.417371 -156 TTCGTTTCTGTCTTGTCTCCCGCT 8 2 1 TCTTCTTCTT 0.771629 -599 TACGAATATTTCTTGTCGTTTTTAATTTCTCTC 8 303 0 TCTTCGTTTT 0.654533 -298 CTGTCACAAAACATTTCTGTTCTCCTTGTTAAA 8 524 0 ACTTCTTTCT 0.73762 -77 ACCTACCTTTTTTTCTATCTTCAACAACGAA 9 9 1 TTTTCTTCTT 0.577206 -334 GCAATTAAACTTTTCCCTCTTTTTCTACGTCAT 9 136 1 TTTCCTTTTT 0.735753 -207 TCTAATTCCTTCGTCTCTGTTCTGCCATTTTCT 9 181 1 TCTTCTTTCT 0.939458 -162 TTGTTCGTTGTCTTTTTTTTTTTATTTCCCGTC 9 227 0 TCTTTTTTTT 0.711034 -116 TCCTTTTTTTTCCTTCCTTTTCCTGTTAATTAT 9 292 0 TCTCCTTTCC 0.732713 -51 TGAAATTTTATTTTCTATTTTTTAATTTTTATA 10 13 1 TTTTATTTTT 0.614635 -427 ACTAGTAATATCCTCTCTTTTTTCAAACAATGA 10 82 1 TCTTCTTTTT 0.968307 -358 ACAAATATGTTCCTTTCCTTTTTCTTTTCTCTA 10 129 1 TCTTCCTTTT 0.654533 -311 TTCCTTTTTCTTTTCTCTATTCTGCCACTATAC 10 143 1 TTTTCTTTCT 0.862446 -297 GAAAATAGTTTCTTATTTTTTTTGCCATGTAAT 10 213 1 TCTTTTTTTT 0.711034 -227 CAGTTATATTTCATTTCTATTTCATAAGCTAGA 12 135 0 TCTTCTTTTC 0.959888 -466 TTCCTCCACTTCTTTTATATTTTGGGTGCGTTC 12 416 1 TCTTATTTTT 0.797874 -185 TGTGCGCTTCTTCTATCTTTTCCGCATAAACTA 13 30 0 TTTTCTTTCC 0.830819 -376 TGTAGCTGTATTGTCTCTATTCTTTTCAAGGGG 13 121 1 TTTTCTTTCT 0.862446 -285 TGCGTAACACATGTGTCTTTTTTTTACGCAGTA 14 139 0 ATTTCTTTTT 0.691022 -462 CCTCAAAATCTCTTATCACTTTTCTAATTGTTT 14 390 1 TCTTCATTTT 0.561081 -211 TATCGTATTTTCTTCCCTCTTTCCTTCCAATAA 14 509 0 TCTCCTTTTC 0.843687 -92 TCTAACGCTAATGTATCTTTTTTTGGTTTTTGA 15 23 1 ATTTCTTTTT 0.691022 -296 TAGGGGCTTTCTATATTTTTTACACGAATAA 15 298 0 TTTTATTTTT 0.614635 -21 ** * *** **** Masking position 10 Map Score: 18.6956 Number of sites scoring better than the average of aligned sites = 5810 Number in coding regions = 2939 Number in noncoding regions = 2871 Number of orfs with sites within 600 bp upstream = 1890 Fraction of orfs with sites within 600 bp upstream = 0.303566 Motif number 5 CCAATAGGCAAAGCTGAAAAATACTATCGC 1 209 1 AAGCTGAAAA 0.828051 -92 AGAAAGATAGACGCAGAAAATTCTTACTTT 2 99 0 ACGCAGAAAA 0.895717 -452 TCATATTTTGATGCAGAAAAGTACATGATG 3 188 0 ATGCAGAAAA 0.785662 -182 ATTATATAAGAAAGTGAAAATCGATTTCAA 4 226 1 AAAGTGAAAA 0.749141 -75 AGTATTCCACCCACAGAAAAAAATCTTGAA 5 449 0 CCACAGAAAA 0.875953 -152 ATAGCCAGAGCAGGTGAAAAGAAAAGGTAT 5 525 0 CAGGTGAAAA 0.864579 -76 CCGCTTTTGGCAGCTGAAAAATTCAGAAAG 6 128 1 CAGCTGAAAA 0.864579 -250 GTTTTCGTCTCAATAGAAAAAGTGAAACAG 7 153 1 CAATAGAAAA 0.794976 -405 ATCATATTATATAGTGAAAAGCGTACGTAA 8 410 0 ATAGTGAAAA 0.555239 -191 TGAGTAAATGACGTAGAAAAAGAGGGAAAA 9 146 0 ACGTAGAAAA 0.822067 -197 CGATTTTTTTCTGGAGAAAATGGCAGAACA 9 198 0 CTGGAGAAAA 0.829339 -145 AGACAACGAACAAGAGAAAAAGTTCGCGAA 9 247 1 CAAGAGAAAA 0.878178 -96 AAAAAGGAGGAAATAGAAAACTGCAGGCCT 9 317 1 AAATAGAAAA 0.745206 -26 AAAAATTAAAAAATAGAAAATAAAATTTCA 10 13 0 AAATAGAAAA 0.745206 -427 TAGTGGCAGAATAGAGAAAAGAAAAAGGAA 10 143 0 ATAGAGAAAA 0.694477 -297 CTTTCAAGTGCCGCTGAAAATTCCACTAGG 10 399 1 CCGCTGAAAA 0.862145 -41 TGTCACAATGACAGAGAAAATTGTACCAGC 11 254 0 ACAGAGAAAA 0.841933 -347 TGGCTTTAAACAGTAGAAAATATTCATATT 12 574 1 CAGTAGAAAA 0.862122 -27 AATTTTCGACACACAGAAAAACAACTGTTG 14 233 0 ACACAGAAAA 0.841933 -368 AGGCAAGTGTCAGTTGAAAACAATCTGAAA 14 264 0 CAGTTGAAAA 0.774475 -337 ********** Masking position 7 Map Score: 10.3053 Number of sites scoring better than the average of aligned sites = 2795 Number in coding regions = 1818 Number in noncoding regions = 977 Number of orfs with sites within 600 bp upstream = 760 Fraction of orfs with sites within 600 bp upstream = 0.122069 Motif number 6 TTTTTCAACCATGTAAATTTCCTAATTGGG 5 373 1 ATGTAAATTT 0.88857 -228 GGGCCACGAGGCGAAAATTTTTTTTTTTTA 6 64 0 GCGAAAATTT 0.801283 -314 ATTTATACACACGAAAACTTCATCTATATC 7 37 0 ACGAAAACTT 0.865648 -521 ATTAGCATTAACGAATATTTCACTACCGAA 8 205 0 ACGAATATTT 0.916785 -396 AGAAGCTAGTACGAATATTTCTTGTCGTTT 8 315 0 ACGAATATTT 0.916785 -286 TGAAAAGCGTACGTAAATTTTGACTATAAA 8 396 0 ACGTAAATTT 0.916785 -205 GTTTACATATATGTATATTTGTATGTATGT 9 75 0 ATGTATATTT 0.873108 -268 ATATACATATATGTAAACTTGTATATTCAT 9 87 1 ATGTAAACTT 0.800956 -256 GCGAAGCAGCGTGTAAATTTCCCTATTAGG 10 248 0 GTGTAAATTT 0.715854 -192 ACTGCACAAAATGAATACTTGGGAATTCAG 11 498 0 ATGAATACTT 0.800956 -103 TTTCCATTTTACGTATATTTAGATTTATAT 12 73 0 ACGTATATTT 0.904809 -528 GTGTGTAAATATGAATATTTTCTACTGTTT 12 581 0 ATGAATATTT 0.88857 -20 AGTCCTCGAAATGAAAATTTCAACATCATT 13 282 0 ATGAAAATTT 0.902325 -124 ********** Masking position 5 Map Score: 5.69522 Number of sites scoring better than the average of aligned sites = 904 Number in coding regions = 518 Number in noncoding regions = 386 Number of orfs with sites within 600 bp upstream = 294 Fraction of orfs with sites within 600 bp upstream = 0.0472213 Motif number 7 GTCACTCATTTTCTTGCTCTTATTCCAGTAC 1 45 1 TTCTGCTCTT 0.848854 -256 AGGATACTTCTTCTCGTTTATACTAGCCTGT 5 248 0 TTCTGTTTAT 0.800692 -353 TACGCTAGTTTTCTCGCACATAGTACCACTA 7 311 1 TTCTGCACAT 0.950564 -247 ATTAGGAAACTTCTCGACTATCAATGTGTAA 11 287 1 TTCTGACTAT 0.745748 -314 CAAGTTAGCCTTCTAGCTTATGAAATAGAAA 12 124 1 TTCTGCTTAT 0.958744 -477 ATTAATGATCTTCTTGTCCATGAGACTGTTC 12 190 1 TTCTGTCCAT 0.907725 -411 AATCTTTGGATTCTCGCCCAACTTTTCCTCC 12 392 1 TTCTGCCCAA 0.933859 -209 CCTTTGGGCTTTCTAGCTTATTGTTTAAGCA 13 199 1 TTCTGCTTAT 0.958744 -207 GAAGACCTCATTCTTGCTCATTTTGATATTG 13 379 1 TTCTGCTCAT 0.977876 -27 TGACCTTGAGTTCTGGCACAAAGGAGATTAT 14 467 0 TTCTGCACAA 0.826683 -134 CTTCCAATAATTCTGGCCTATTGACCTTGAG 14 488 0 TTCTGCCTAT 0.967657 -113 **** ****** Masking position 4 Map Score: 4.66912 Number of sites scoring better than the average of aligned sites = 304 Number in coding regions = 230 Number in noncoding regions = 74 Number of orfs with sites within 600 bp upstream = 65 Fraction of orfs with sites within 600 bp upstream = 0.0104401 Motif number 8 GGGAGAAAGGAAGCAATATCAAAAAATGAATAAG 1 144 0 AACATTCAAA 0.933495 -157 TTATAACGAGGACAGTGATCAAAAAAGGGAGGGA 2 378 0 GAATGTCAAA 0.830363 -173 GAAAAGAAGGGAAATTGTTCAAAATTATGACAGG 3 110 0 GAATGTCAAA 0.830363 -260 AGAAAGTGAAAATCGATTTCAAGATAATTACTCT 4 234 1 AACATTCAAA 0.933494 -67 GCAACATCTTAAGATATATCAAAACTAATACAAA 7 212 1 AAAATTCAAA 0.868907 -346 AGTCTTGTTTGAGAAATATCAATATCCACTCTAG 7 468 0 GAAATTCAAA 0.914066 -90 TTTTGTAAAGGAAAGTTATCAACATTCATTTTGA 8 147 0 GAATTTCAAA 0.914066 -454 TGACTATAAAGCAAGATTTCAAGAGTTGCAGATG 8 372 0 GCAATTCAAA 0.830363 -229 TAGCAATCGCAAACGTTCTCAATAATTCTAAGA 8 578 1 AACTTTCAAA 0.933495 -23 GGAAACTTTGAAACTTTGTCAATAATTGCATCAT 11 334 1 AACTTTCAAA 0.933495 -267 GTTTAGTGTTGATCTTTTTCAAAAATTAATC 12 8 0 GACTTTCAAA 0.957493 -593 GCCTGTGGCCACCCGTTCTCAATAAACCACCGGC 12 259 1 ACCTTTCAAA 0.865941 -342 ACAGAGCAATATCAAAATGAGCAAGAA 13 389 0 GACATTCAAA 0.957493 -17 TTGTGCCAGAACTCAAGGTCAATAGGCCAGAATT 14 477 1 ACCAGTCAAA 0.748272 -124 ** * ** **** * Masking position 11 Map Score: 4.79744 Number of sites scoring better than the average of aligned sites = 1077 Number in coding regions = 835 Number in noncoding regions = 242 Number of orfs with sites within 600 bp upstream = 199 Fraction of orfs with sites within 600 bp upstream = 0.0319627 Motif number 9 ATTGTACTGACGCAGTACTGGAATAAGAGCAAG 1 57 0 CGAGCTGGAA 0.985033 -244 GAAGCTAGGTCGAAGGACTCGAAAAGACAGAGG 1 252 1 CGAGCTCGAA 0.993629 -49 TGTCACACGCTGTAGTGCTCGAATAGGTGTTGC 5 165 1 TGAGCTCGAA 0.960206 -436 CATTTCTTTTCGGAGAGCTCGTTTCAAAATGAA 7 104 1 CGAGCTCGTT 0.961342 -454 CACCATAAATCGAAGTACTCGTACGCTAGTTTT 7 290 1 CGAGCTCGTA 0.991721 -268 AATTTTCGTTAGAAGCGCTGGTACAATTTTCTC 11 238 1 AGAGCTGGTA 0.886613 -363 AAGAAAAGGGCGAAGTCCTCGAAATGAAAATTT 13 292 0 CGAGCTCGAA 0.993629 -114 ** ** ****** Masking position 4 Map Score: 2.28353 Number of sites scoring better than the average of aligned sites = 28 Number in coding regions = 20 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 10 TGCAGCGTGGTATATTGGTTGTTGGTC 2 534 1 TATATGGTTG 0.904843 -17 AATTAAAAAATATAAAGGTAGTGATTAGACG 3 61 1 TATAAGGTAG 0.831418 -309 AACCTTTCTATATACTGGTGGTATCATGTAA 4 182 0 TATATGGTGG 0.980246 -119 GAGCAAGACGTATATTGACGGATTGCAACAC 5 191 0 TATATGACGG 0.862317 -410 CAATAAATTGTATAGTGGCAGAATAGAGAAA 10 154 0 TATATGGCAG 0.975774 -286 TAAATGAAGGAATAATGGCGGAAACTTTGAA 11 315 1 AATATGGCGG 0.909675 -286 ATAAAGAAACTATAATGGCAGTTAGTAATAA 12 471 0 TATATGGCAG 0.975774 -130 TTAAGCAGCTTTTATTGGTGGCGTACATACT 13 223 1 TTTATGGTGG 0.886655 -183 TACAAAAGCATATAATGGTAGCAATCAAAAA 15 49 0 TATATGGTAG 0.969026 -270 **** ****** Masking position 4 Map Score: 1.67087 Number of sites scoring better than the average of aligned sites = 174 Number in coding regions = 139 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 11 TATTGCTTCCTTTCTCCCTTTATTTAAACT 1 160 1 TTTCTCCCTT 0.776378 -141 TTACGAAATTTTTTTCCCTCCCTTTTTTGA 2 364 1 TTTTTCCCTC 0.964052 -187 ATAATTACTCTTTTTACCTCCTCTTTCATT 4 257 1 TTTTTACCTC 0.840783 -44 ATTCAAGATAATCTTCCCTTCCCAGAGAGA 5 11 1 ATCTTCCCTT 0.896602 -590 TCATAGCTAAATTTTTCCTTTTTTCTCTCT 5 34 0 ATTTTTCCTT 0.85156 -567 ACGTTAATCTTTTTTTCCTTTTTTTTTCGA 6 33 1 TTTTTTCCTT 0.909569 -345 TTGGTTTCGTATTTTTCCTCTCTGGCCAGG 6 161 0 ATTTTTCCTC 0.848933 -217 CAACCCAAACTTCTTCCCTTCACTGCCTCA 6 313 1 TTCTTCCCTT 0.938285 -65 GGCAATTAAACTTTTCCCTCTTTTTCTACG 9 135 1 CTTTTCCCTC 0.848318 -208 TTTCCTCCTTTTTTTTCCTTCCTTTTCCTG 9 300 0 TTTTTTCCTT 0.909569 -43 TCAGAAATTATTCTTACCTTAAGCATCCAC 11 472 0 TTCTTACCTT 0.74961 -129 TTTTGATAGTATTTTGCCTTTCCTACACAA 11 576 0 ATTTTGCCTT 0.873859 -25 TTAGATTTATATTTTGCCTTAGGTGCTTTT 12 55 0 ATTTTGCCTT 0.873859 -546 CATGATTTTAGTTTTCCCTCCCCCTTTTAA 12 359 1 GTTTTCCCTC 0.848318 -242 TTTGTGAGGCTTTTTGCCTTAACAGATTGA 14 180 1 TTTTTGCCTT 0.923933 -421 ATATCGTATTTTCTTCCCTCTTTCCTTCCA 14 513 0 TTCTTCCCTC 0.937079 -88 ********** Masking position 5 Map Score: 10.3891 Number of sites scoring better than the average of aligned sites = 1690 Number in coding regions = 837 Number in noncoding regions = 853 Number of orfs with sites within 600 bp upstream = 680 Fraction of orfs with sites within 600 bp upstream = 0.109219 Motif number 12 ********** No masking Map Score: -1.61127e-11 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 13 TTGACGGATTGCAACACCTATTCGAGCACTA 5 177 0 GCAACCCTAT 0.90411 -424 TACCCACAGAGCAAGACGTATATTGACGGAT 5 199 0 GCAAGCGTAT 0.952729 -402 CCTGTGCCTGGCAAGTCGCAGATTGAAGTTT 5 344 1 GCAAGCGCAG 0.969074 -257 AGTGTCCCAAGCGAGACCTAGAGTGGATATT 7 451 1 GCGAGCCTAG 0.936832 -107 ATTTGTCAGTGCAAGGACCATCATTGTTTGA 10 104 0 GCAAGACCAT 0.909832 -336 ATATAACTGAGCAAGTCCTATATACAATACT 12 159 1 GCAAGCCTAT 0.982749 -442 GCCCCATTGCGTAAGACCCAGTGCAAGATTT 12 308 0 GTAAGCCCAG 0.908173 -293 GAACAGTTACGCAAGCCCCATTGCGTAAGAC 12 322 0 GCAAGCCCAT 0.989054 -279 ***** ***** Masking position 4 Map Score: 0.244483 Number of sites scoring better than the average of aligned sites = 181 Number in coding regions = 148 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 14 CGTACAATCCTTTATGAATGAAAATATTAAGCT 2 174 1 TTTAATGAAA 0.937672 -377 AAAGGAAAAATTTAGCTATGAAACCTCAATAAG 5 43 1 TTTATTGAAA 0.901522 -558 GGAGAGCTCGTTTCAAAATGAAACAAACGCCGT 7 115 1 TTTCATGAAA 0.473727 -443 TAACGAATATTTCACTACCGAAATGCATATACT 8 194 0 TTCAACGAAA 0.912759 -407 TTTTTCTATCTTCAACAACGAAACGCCTTACAC 9 20 1 TTCAACGAAA 0.911762 -323 ATACAATTGTTTCAGATATGAAAACTGTTGCAT 10 282 1 TTCATTGAAA 0.932828 -158 CGTTAAACATTTTACAATTGAAATGTTACCAAT 11 153 1 TTTAATGAAA 0.937672 -448 GATTAATTTTTGAAAAAGATCAACA 12 3 1 TTAATTGAAA 0.729329 -598 CCAAAAAAGTTTTATGTTTGAAAGTTTAAGTTA 14 309 0 TTTATTGAAA 0.926774 -292 CTTGAATCCCTTCAATATCGAAACAGTATCCTC 14 361 1 TTCAACGAAA 0.911762 -240 CCTAGAGTCTTTTAAGTATGAAATGACAGAAAT 15 200 1 TTTATTGAAA 0.886934 -119 **** * ***** Masking position 11 Map Score: 1.56508 Number of sites scoring better than the average of aligned sites = 613 Number in coding regions = 423 Number in noncoding regions = 190 Number of orfs with sites within 600 bp upstream = 132 Fraction of orfs with sites within 600 bp upstream = 0.0212014 Motif number 15 GTACGCAGGACTTTTCCAGGGAGAAGAAAC 1 90 0 CTTTTCCAGG 0.977031 -211 CGACCTCTGTCTTTTCGAGTCCTTCGACCT 1 258 0 CTTTTCGAGT 0.913473 -43 TTGTCGTCAACTTTTCGAGGAAATTCTCGG 3 243 0 CTTTTCGAGG 0.987861 -127 TATTAAAAAGCTTATTGAGGTTTCATAGCT 5 56 0 CTTATTGAGG 0.821193 -545 ATAGTTCAGCCATATCCAGGTTTATAAGCT 10 342 0 CATATCCAGG 0.889512 -98 TGTCTCTATTCTTTTCAAGGGGTTGTTGAT 13 132 1 CTTTTCAAGG 0.939716 -274 TTGAAATTTTCATTTCGAGGACTTCGCCCT 13 289 1 CATTTCGAGG 0.972531 -117 ********** Masking position 8 Map Score: 0.616931 Number of sites scoring better than the average of aligned sites = 221 Number in coding regions = 170 Number in noncoding regions = 51 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789