AlignACE version 2.2 July 7, 1998 AlignACE -jPHO.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 Purged sequences: YAR071W 597 bp YAR071W pho11 1-1404 Acid phosphatase, secreted Input sequences: #1 YBR092C 446 bp YBR092C PHO3 1-1404 Acid phosphatase, constitutive #2 YBR093C 600 bp YBR093C PHO5 1-1404 Acid phosphatase, repressible #3 YBR106W 600 bp YBR106W PHO88 1-567 May be a membrane protein involved in inorganic phosphate transport and regulation of Pho81p function #4 YCR037C 435 bp YCR037C PHO87 1-2772 May collaborate with Pho86p and Pho84p in inorganic phosphate uptake\; protein contains 12 predicted transmembrane domains #5 YDL236W 466 bp YDL236W PHO13 1-939 p-nitrophenyl phosphatase #6 YDR481C 300 bp YDR481C pho8 1-1701 repressible alkaline phosphatase #7 YFR034C 300 bp YFR034C pho4 1-939 myc-type helix-loop-helix transcription factor #8 YGR233C 600 bp YGR233C pho81 1-3537 Positive regulatory protein of phosphate pathway #9 YHR215W 600 bp YHR215W pho12 1-1404 Acid phosphatase, nearly identical to Pho11p #10 YJL117W 300 bp YJL117W PHO86 1-936 Putative inorganic phosphate transporter #11 YML123C 300 bp YML123C pho84 1-1764 inorganic phosphate transporter, transmembrane protein #12 YNL097C 600 bp YNL097C PHO23 1-993 #13 YOL001W 600 bp YOL001W pho80 1-882 negative transcriptional regulator #14 YPL031C 505 bp YPL031C pho85 1-17, 120-1020 negative transcriptional regulator, protein kinase homolog Motif number 1 TTTCACTCTTCCTTTTTTTCATTTTTGCGA 1 252 0 CCTTTTTTTC 0.892763 -195 TTTTGAATTTTTTTTTTTTCACTCTTCCTT 1 268 0 TTTTTTTTTC 0.945555 -179 GTTCATAGCGCTTTTTCTTTGTCTGCACAA 2 199 1 CTTTTTCTTT 0.668348 -402 ACCATATCATTTTCTTTTTCTGCATCTTCT 3 77 0 TTTCTTTTTC 0.956446 -524 TAGCGGTTTATTTCTTTTTCTGCATACCAT 3 102 0 TTTCTTTTTC 0.956446 -499 CCTCCCTCCGTTTCTTTTGCCCTGCGAGTT 3 186 1 TTTCTTTTGC 0.795899 -415 TAATTTTCGTTTTTTTTTTCTTTTCCGGAA 3 217 0 TTTTTTTTTC 0.945555 -384 AAGTGATGTTCTTCTTCTTTCATAATTTCA 3 334 0 CTTCTTCTTT 0.718162 -267 TTCTTTTTTTTTTTTTTTTCATATCTTCGA 3 386 1 TTTTTTTTTC 0.945555 -215 GCCACTGCCTTCTCTTTTTCTTTCTTTTTT 3 421 1 TCTCTTTTTC 0.942412 -180 TCTCTTTTTCTTTCTTTTTTGGCGGCCGGT 3 431 1 TTTCTTTTTT 0.82218 -170 TTCCGGTTTTTCTTTTTTTCGGTGAATGTT 5 311 1 TCTTTTTTTC 0.928275 -156 GTTCCCACAGTTTTTCTTGCTGCCTTGCCT 7 16 1 TTTTTCTTGC 0.664853 -285 TCGTTTTCTATTTTTTTTTTTTTTTGCCTC 7 113 1 TTTTTTTTTT 0.785253 -188 ATCACATCAATTTTTCTTGCATTCTTGCAT 8 142 0 TTTTTCTTGC 0.664853 -459 CTTTTATCATTTTCTCTTTCTCACTTCCGA 9 43 1 TTTCTCTTTC 0.933887 -558 TCCTATTTCCTTTTTTTTTTTTTTTTTTTA 9 229 0 TTTTTTTTTT 0.785253 -372 AACTTTTTACTCTTTCCTTCCTATTTCCTT 9 247 0 TCTTTCCTTC 0.877037 -354 TCTTCTTCTTCTTCTTCTTCCTACTTTACA 9 536 0 CTTCTTCTTC 0.923677 -65 TGTTGTTGTTCCTCTTCTTCTTCTTCTTCT 9 548 0 CCTCTTCTTC 0.900187 -53 CCAAAGAACATCTTTTTTTCTCTCTCACAC 10 156 1 TCTTTTTTTC 0.928275 -145 ACGCCTTTTTCCTTTCCTTCAGATAAGTAA 12 52 0 CCTTTCCTTC 0.821046 -549 GAGTGGCAAACCTTTTTTTCGGTATTCTAG 12 320 1 CCTTTTTTTC 0.892763 -281 TTCCTACATATTTTTTTTTCAAGGGCATTT 12 415 0 TTTTTTTTTC 0.945555 -186 TAGCTCTTTCTTTCTTCTTCATGTGCATGC 12 450 0 TTTCTTCTTC 0.949531 -151 ACTACAAACTTTTCTCCTTCCGGGTTCGTC 12 531 0 TTTCTCCTTC 0.923677 -70 TGCTATCGAGTTTTTCTTTCTAAAATGCGG 13 46 1 TTTTTCTTTC 0.91784 -555 CATCCTAGGATCTCTTCTTCATTTGATGAA 13 238 1 TCTCTTCTTC 0.933425 -363 CACTGCAACTTTTCTTCTTTTCTCTTTAGC 13 378 1 TTTCTTCTTT 0.798441 -223 TCCTACCTGTTTTTTTTTTCTTCTTAAGAT 13 418 1 TTTTTTTTTC 0.945555 -183 AGGCAGATAACCTTTCTTTTTATAAGTGTT 13 518 1 CCTTTCTTTT 0.529972 -83 tcttgtgatacttctcctttctctcaaca 14 10 0 cttctccttt 0.621082 -496 ********** Masking position 5 Map Score: 37.6488 Number of sites scoring better than the average of aligned sites = 8530 Number in coding regions = 4389 Number in noncoding regions = 4141 Number of orfs with sites within 600 bp upstream = 2409 Fraction of orfs with sites within 600 bp upstream = 0.386926 Motif number 2 AGAACTGGCATCGCAAAAATGAAAAAAAGGAAGAG 1 242 1 TGCAAAAGAA 0.926727 -205 AAAAGGAAGAGTGAAAAAAAAAAAATTCAAAAGAA 1 266 1 GGAAAAAAAA 0.722776 -181 CAACAAGAATGCGCAAATATGTCAACGTATTTGGA 2 87 1 GGCAAAAGAA 0.987264 -514 TGCGTTCTATGCGAAAACGTGCTAATTTAATATAT 2 235 0 GGAAAAGGAA 0.982581 -366 ACTGCACAATGCCAAAAAAAGTAAAAGTGATTAAA 2 270 1 GCAAAAAGAA 0.940652 -331 GTGGCAAACGTCGAAGATATGAAAAAAAAAAAAAA 3 391 0 TGAAGAAGAA 0.663885 -210 GGCGGCCGGTGGCCAAACGCGCCAAAACCGAAACG 3 451 1 GCCAAAGGAA 0.936051 -150 AAAAGGGTAAGGGAAAATAAGAAAGAGGCGGTAGC 4 253 0 GGAAAAAGAG 0.923696 -183 ATTAATTAGATTGAAAAAAGGGTAAGGGAAAATAA 4 268 0 TGAAAAAGAA 0.918214 -168 AGAACATTCACCGAAAAAAAGAAAAACCGGAAAGT 5 308 0 CGAAAAAGAA 0.834917 -159 TACACACCGTACGCAAAGAAGGCAAGGCAGCAAGA 7 30 0 AGCAAAAGAA 0.793566 -271 AAAAAAAAAATAGAAAACGAGAAAATCGCACTTGC 7 98 0 TGAAAAGGAA 0.901996 -203 GAGAAGAGATGAGCAAAGGAGACAGAACAAGAGTA 7 266 1 GGCAAAGGAG 0.917895 -35 CAACGTACAAGAGCAAAGTAGAAAAATTTGGTTTT 8 425 1 GGCAAATGAA 0.876483 -176 GTAGTCGGAAGTGAGAAAGAGAAAATGATAAAAGA 9 42 0 GGAGAAGGAA 0.837117 -559 AGAATGTTATGCGAAAACGTGGTAATTTAATAAAT 9 179 0 GGAAAAGGAA 0.982581 -422 CTAATAAGCAGGCAAAACGGGAGAAGAG 11 4 0 GCAAAAGGAA 0.928537 -297 GAAAGAGCTAGGGAAAAAACGAAAAAGGAGCCTAA 12 470 1 GGAAAAAGAA 0.985675 -131 ATCGGCTAAAGAGAAAAGAAGAAAAGTTGCAGTGT 13 377 0 GGAAAAAGAA 0.985675 -224 taacaatgcagagcaaaaaagtgaagaataagtgc 14 165 1 ggcaaaagaa 0.987264 -341 caggaagaaggtgcaaaaacgcaaaaagtagttac 14 219 1 ggcaaaagaa 0.987264 -287 accatagtccgtccagacacgttaaatgaattgat 14 252 1 gccagaagaa 0.75853 -254 * ***** * * ** Masking position 7 Map Score: 23.5734 Number of sites scoring better than the average of aligned sites = 790 Number in coding regions = 461 Number in noncoding regions = 329 Number of orfs with sites within 600 bp upstream = 299 Fraction of orfs with sites within 600 bp upstream = 0.0480244 Motif number 3 CCTGTAAAGAGAGCGTGCGACACGCCGCTA 2 17 0 GAGCGTGCGA 0.949784 -584 TGTGCTAGTCCCACGTGTGAGTGCCAAGGT 2 345 0 CCACGTGTGA 0.971136 -256 TGATAATTTGGCATGTGCGATCTCTTCGAA 2 403 0 GCATGTGCGA 0.96801 -198 AAAGAATTATGGGCGTGCGATCCGTGTAAA 3 362 0 GGGCGTGCGA 0.965556 -239 ATTACCTTTCCCACGTGCGAAATCATCAAT 4 301 0 CCACGTGCGA 0.991584 -135 TTCCTATGCTGCAAGTGCGATTTTCTCGTT 7 88 1 GCAAGTGCGA 0.96801 -213 AGGTGTTATGGCACGTGCGAATAAGGGCAG 8 256 1 GCACGTGCGA 0.996297 -345 CTTTTTAAACCCACGTGTGAACGCCAAGAT 9 315 0 CCACGTGTGA 0.971136 -286 GCTGGGTAATGCGGGTGTGAATTTTCAGTT 10 84 0 GCGGGTGTGA 0.900098 -217 TCCATAAAGAGCACGTGCGGGCGCGCTGGG 10 108 0 GCACGTGCGG 0.98217 -193 ********** Masking position 6 Map Score: 10.5482 Number of sites scoring better than the average of aligned sites = 86 Number in coding regions = 51 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 4 GTATATAAGCGCTGATGTTTTGCTAAGTCGAG 2 509 1 GCTGTTTTTG 0.719184 -92 CGTGTAAAGTGATGTTCTTCTTCTTTCATAAT 3 338 0 GATGTTTCTT 0.756831 -263 GGTAAAGGCGGCTATTATTGTGCCTCGAA 4 417 1 GCTATTTGTG 0.829306 -19 AGACGTTGAAGATGGTGATGTGACATCTTTAC 5 214 1 GATGTATGTG 0.851388 -253 AAGCTATAAGGCTTTTTTTGTGATTTGGCTCG 5 415 0 GCTTTTTGTG 0.874398 -52 GAGGACATCCGCTGCTGTTCTTGCCACTCGTT 6 44 0 GCTGTTTCTT 0.907494 -257 TCATGTCGATGCTGCTCTTCCGTTAGACGCGC 6 95 0 GCTGTTTCCG 0.913451 -206 GCTGCTAATGCGCGTTCAAATA 6 289 0 GCTGTATGCG 0.949315 -12 GACTTTCTGCTACTCTTGTTCTGTCTCCTT 7 281 0 GCTATTTGTT 0.82407 -20 AACTAGTGCAGCTGATGTTGCTTAAAAAAATA 8 460 0 GCTGTTTGCT 0.978384 -141 GCAATTCGACGCTGTTTATGCTCATTCCAAAA 9 444 0 GCTGTATGCT 0.947527 -157 TGCTCTCTTTGCTGTTGTTGTTCCTCTTCTTC 9 558 0 GCTGTTTGTT 0.977598 -43 TATTTCTGATGATGTTCTTGCTCTCTTTGCTG 9 576 0 GATGTTTGCT 0.934896 -25 TCGTACCAGGGATGATGTTGCG 10 1 0 GATGTTTGCG 0.937086 -300 CTCTCGACCTGCTGTTGTAGTTGACCTATAAC 10 55 1 GCTGTTAGTT 0.767575 -246 CACAAATAAAGCTTTTCATGTTTATAGATATA 10 183 1 GCTTTATGTT 0.728088 -118 TAAGATTTCAGATGGTTATGTTAATGCTCACT 12 88 0 GATGTATGTT 0.846703 -513 catttggtccgattatattgctatcttgtgat 14 31 0 gatttttgct 0.688345 -475 **** * ***** Masking position 6 Map Score: 11.277 Number of sites scoring better than the average of aligned sites = 2470 Number in coding regions = 2220 Number in noncoding regions = 250 Number of orfs with sites within 600 bp upstream = 196 Fraction of orfs with sites within 600 bp upstream = 0.0314809 Motif number 5 ATTTGGAATGGCCCTTTCTTTACTGTAGTAT 1 421 0 GCCCTTTCTT 0.926288 -26 GCGCTATGAACCTTTTACCTTCGTTTGAAGT 2 179 0 CCTTTTACTT 0.857769 -422 GGTTCATAGCGCTTTTTCTTTGTCTGCACAA 2 198 1 GCTTTTTCTT 0.95165 -403 TGATGTTCTTCTTCTTTCATAATTTCAGCCG 3 330 0 CTTCTTTCTA 0.602016 -271 CACTGCCTTCTCTTTTTCTTTCTTTTTTGGC 3 423 1 TCTTTTTCTT 0.687297 -178 TAGTTGCCTTGCTCTTTCATTCGATATACAT 3 497 1 GCTCTTTCTT 0.975234 -104 AAAAGGAAGTCATCTTTCTTTGAACAGTTCT 4 15 0 CATCTTTCTT 0.746831 -421 TAGGCTACCGCCTCTTTCTTATTTTCCCTTA 4 250 1 CCTCTTTCTA 0.918871 -186 TGTCGATGCTGCTCTTCCGTTAGACGCGCCT 6 93 0 GCTCTTCCTT 0.833164 -208 ATACTAAAATCCCTTTACTTTTCCTCTACGC 6 159 0 CCCTTTACTT 0.658063 -142 TTTAGATACACTTCTTTCTTTATATACTAAA 6 182 0 CTTCTTTCTT 0.881708 -119 ACCTTGATAAGCTTTTTCTTATACGCTGTGT 9 143 1 GCTTTTTCTA 0.799776 -458 CTCTTTCCTTCCTATTTCCTTTTTTTTTTTT 9 237 0 CCTATTTCTT 0.814725 -364 TTAACTTTTTACTCTTTCCTTCCTATTTCCT 9 248 0 ACTCTTTCTT 0.814725 -353 ACGTATATAAGCTCTTACATTTCGATAGATT 9 484 1 GCTCTTACTT 0.894887 -117 TTGTTCCACGCCTTTTTCCTTTCCTTCAGAT 12 58 0 CCTTTTTCTT 0.965392 -543 TTTTTCCCTAGCTCTTTCTTTCTTCTTCATG 12 457 0 GCTCTTTCTT 0.975234 -144 TCCTTAGGCTCCTTTTTCGTTTTTTCCCTAG 12 477 0 CCTTTTTCTT 0.965392 -124 AAACGCCTAACTCTTTTCCTTAGGCTCCTTT 12 493 0 CTCTTTTCTT 0.543141 -108 ******** ** Masking position 6 Map Score: 13.2599 Number of sites scoring better than the average of aligned sites = 1498 Number in coding regions = 951 Number in noncoding regions = 547 Number of orfs with sites within 600 bp upstream = 457 Fraction of orfs with sites within 600 bp upstream = 0.0734019 Motif number 6 TGTCGAAATGAAACGTATATAAGCGCTGAT 2 495 1 AAACGTATAT 0.967975 -106 GAGCGTTCTTATATGTATATCGAATGAAAG 3 510 0 ATATGTATAT 0.800272 -91 ATTCATATCTAAATGTTTATATAAATATAT 5 39 0 AAATGTTTAT 0.839221 -428 TAGTATACACAAACGTATGTATCTCTTCAG 5 152 0 AAACGTATGT 0.826613 -315 GTATTTACTTAATCGTATATTAATGACGTC 5 266 1 AATCGTATAT 0.906578 -201 TTTCCCGAGTTGTATATTCTTTGTCAG 5 450 0 AGTTGTATAT 0.667036 -17 AAGTGTATCTAAACGTTTATATTTTTTCGT 6 200 1 AAACGTTTAT 0.906578 -101 GCTGATATGTAAATGTTTATGTAGCCACTT 6 248 0 AAATGTTTAT 0.839221 -53 GACCATAGAAAAATGTATATAACCAGGGAA 7 210 1 AAATGTATAT 0.942026 -91 GTAGTTGGTTAATTGTATATTTTGTGATAA 8 30 0 AATTGTATAT 0.839222 -571 CGCGTGCCAAAGACGTATATACTAAGCAAT 8 77 0 AGACGTATAT 0.92064 -524 TTGCCAAGTAAAACGTATATAAGCTCTTAC 9 472 1 AAACGTATAT 0.967975 -129 TGTGGCTCGTATACGTATATATATAAGCTC 11 168 1 ATACGTATAT 0.882315 -133 ********** Masking position 1 Map Score: 8.12016 Number of sites scoring better than the average of aligned sites = 388 Number in coding regions = 140 Number in noncoding regions = 248 Number of orfs with sites within 600 bp upstream = 166 Fraction of orfs with sites within 600 bp upstream = 0.0266624 Motif number 7 AAACATCCATTTACCTGTTTCGGATATCTCTGCA 1 91 0 TACCTTTTGA 0.84404 -356 TTACTAAATAATACCAGTTTGGGAAATAGTAAAC 1 303 1 AACCATTTGA 0.953175 -144 TTCTTGTTGAATACAACTTTCGGATCCTTGTAAT 2 62 0 AACAATTTGA 0.941709 -539 AAATGAATCGATACAACCTTGGCACTCACACGTG 2 330 1 AACAACTTGA 0.899716 -271 GGCAAGGCATATACCCATTTGGGATAAGGGTAAA 2 450 1 AACCCTTTGA 0.897467 -151 TATATATAAATTTCAACTTTTGTAGAAGATGCAG 3 54 1 TTCAATTTGA 0.816217 -547 AATAATTAATATTCATGTTTAGTACTGAAAGTTA 4 64 1 ATCATTTTGA 0.905943 -372 TTCTTTATCAACTCAAGTTTTGTAGAGGAAGACG 5 185 1 ATCAATTTGA 0.926926 -282 CCAGGGAAGAAGTCATGCTTCGGAAGGACCAGAA 7 232 1 ATCATCTTGA 0.842496 -69 TCTGGTGAGATGACCAATTTGGCAATGTGACGTG 9 397 0 TACCATTTGA 0.87692 -204 CAGATATGTTATACCCGTTTTGGAATGAGCATAA 9 427 1 AACCCTTTGA 0.897467 -174 GCTAATTATTATTCCTTTTTGGCAGCATGATGCA 11 90 1 ATCCTTTTGA 0.923877 -211 GGATCTAATTACACATACTTGGGATCATCTAAGA 12 115 0 AACATCTTGA 0.872 -486 TAGAAAGCGGACTCAAATTTTGAAACCGCATTTT 13 67 0 ATCAATTTGA 0.926926 -534 AGGCTTCTGTAAACCACCTTGGAAACACATACGG 13 168 1 AACCACTTGA 0.918732 -433 ttgttaaaaatttcattttttgcattttggaaaa 14 137 0 ttcattttga 0.771289 -369 * **** *** * * Masking position 9 Map Score: 7.58003 Number of sites scoring better than the average of aligned sites = 806 Number in coding regions = 646 Number in noncoding regions = 160 Number of orfs with sites within 600 bp upstream = 132 Fraction of orfs with sites within 600 bp upstream = 0.0212014 Motif number 8 CAAATGGGTATATGCCTTGCCAAGTAAGGTGACCAA 2 435 0 TTGCCTGCTA 0.982139 -166 CTCCGTTTCTTTTGCCCTGCGAGTTTTTCCGGAAAA 3 191 1 TTGCCTGCTT 0.975575 -410 AGTTTTTCTTGCTGCCTTGCCTTCTTTGCGTACGGT 7 24 1 GTGCCTGCTT 0.872723 -277 TTTTTTTTTTTTTGCCTCGCCTAATATGTGGTAGGC 7 125 1 TTGCCCGCTA 0.991831 -176 CCATAACACCTGTACCTCTCACGCTAAAGACCTTTA 8 231 0 TTACCCTCTA 0.755338 -370 AATTTGGCAATGTGACGTGCGGAATATGGAATCTCT 9 380 0 TTGACTGCTA 0.793386 -221 TGTGCCACTCTTCCTACTCTTGTACT 10 285 0 TTGCCCTCTA 0.975113 -16 AATGCTCACTTGTTCCACGCCTTTTTCCTTTCCTTC 12 62 0 TTTCCCGCTT 0.87426 -539 GAAAAAAAGGTTTGCCACTCACAATTGGACGTGCCT 12 304 0 TTGCCCTCTT 0.966058 -297 AGAAAGGTTATCTGCCTCTCGAAGTATATAACTGAT 13 499 0 TTGCCCTCTA 0.975113 -102 tcttcacttttttgctctgcattgttaaaaatttca 14 156 0 ttgcttgctt 0.741331 -350 gtttgcccagtttgccgcgctatatatcccttatct 14 467 0 ttgcccgcta 0.991766 -39 * **** *** ** Masking position 3 Map Score: 7.21647 Number of sites scoring better than the average of aligned sites = 199 Number in coding regions = 133 Number in noncoding regions = 66 Number of orfs with sites within 600 bp upstream = 59 Fraction of orfs with sites within 600 bp upstream = 0.00947639 Motif number 9 CTCTGCAGATTTTAATCTTTCGGCAAAATTT 1 67 0 TTAATCTTTC 0.822133 -380 TATACAGTCTTTTTGACTTTCAACTCATCCC 3 27 0 TTTGACTTTC 0.900151 -574 GGCAGGCGGGTTTTAATTTTCGTTTTTTTTT 3 229 0 TTTAATTTTC 0.773042 -372 GAACGCTCACTGTTATCTTACATTAGAAGCT 3 532 1 TTTATCTTAC 0.822133 -69 ATGCAAGTATTCTTAACTTTCAGTACTAAAC 4 80 0 TTTAACTTTC 0.97739 -356 GTCCCTTATCTATTAACTTTCCGGTTTTTCT 5 293 1 TTTAACTTTC 0.97739 -174 TCTTTTATCATTTTCTCTTTCTCACTTCCGA 9 42 1 TTTCTCTTTC 0.883538 -559 TTCTGTTTTCTATTAACTTTTTACTCTTTCC 9 260 0 TTTAACTTTT 0.773042 -341 CACTTCTAAATTTTATCTTTCCTCATCTCGT 11 233 1 TTTATCTTTC 0.973246 -68 TCAAGGGCATTTTTAACTTTCTTCGGAAATC 12 396 0 TTTAACTTTC 0.97739 -205 ggattccctttgttatctttcaattagaaag 14 410 0 tttatctttc 0.973246 -96 * ********* Masking position 8 Map Score: 6.30588 Number of sites scoring better than the average of aligned sites = 344 Number in coding regions = 206 Number in noncoding regions = 138 Number of orfs with sites within 600 bp upstream = 103 Fraction of orfs with sites within 600 bp upstream = 0.0165435 Motif number 10 AATATATATTTCTTTGTGCAGACAAAGAAA 2 212 0 TCTTTGTGCA 0.987384 -389 TATCATTTTCTTTTTCTGCATCTTCTACAA 3 73 0 TTTTTCTGCA 0.88653 -528 GGTTTATTTCTTTTTCTGCATACCATATCA 3 98 0 TTTTTCTGCA 0.88653 -503 AAGTCATCTTTCTTTGAACAGTTCTGTTT 4 10 0 TCTTTGAACA 0.829643 -426 GCGGATGTCCTCTTTGTACACCCCTCGTAA 6 64 1 TCTTTGTACA 0.939067 -237 TATGTGTATGTCTGTGTGCAAGTATTTCCT 7 63 1 TCTGTGTGCA 0.974526 -238 TACATAATCTTCTTTGTGCAACGTACAAGA 8 407 1 TCTTTGTGCA 0.987384 -194 TTATGAAGATTTTTTGAGCAGTATGTCTTG 8 502 0 TTTTTGAGCA 0.890179 -99 ttgcttgtcctctgtgtgcagttcattttc 14 341 1 tctgtgtgca 0.974526 -165 ********** Masking position 5 Map Score: 5.97298 Number of sites scoring better than the average of aligned sites = 236 Number in coding regions = 179 Number in noncoding regions = 57 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 11 TAAGTGCTTAAATTTGCTGGATGGAAGTCA 1 365 1 AATTTGCTGG 0.936133 -82 GGTAATCTCGAATTTGCTTGCTCTATTTGT 2 580 0 AATTTGCTTG 0.881802 -21 AAATACTGAAAACGTGCTGGAGAATAGTAA 5 242 0 AACGTGCTGG 0.988747 -225 TTTATGTAGCCACTTGCTGGCAAAATGTGG 6 233 0 CACTTGCTGG 0.933671 -68 CCATAAAGAGCACGTGCGGGCGCGCTGGGT 10 107 0 CACGTGCGGG 0.909273 -194 ACCGGTGTGCAATGTGGTTGCATCATGCTG 11 112 0 AATGTGGTTG 0.873951 -189 ATGCATGGACAATGTGCTGGGCGAAGAGGC 12 149 0 AATGTGCTGG 0.978129 -452 TCAGACTATGAACGTGGTTGCTGTTTGTGA 12 570 0 AACGTGGTTG 0.93161 -31 GAATGAGGCGAACGTGCTTGTACCATAGTC 13 111 1 AACGTGCTTG 0.978126 -490 ********** Masking position 5 Map Score: 4.16449 Number of sites scoring better than the average of aligned sites = 283 Number in coding regions = 225 Number in noncoding regions = 58 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 12 AGCGCACATAAGATGACTTCCAAATACGTTG 2 109 0 AGAGACTTCC 0.984583 -492 TGAAGTTTATAGACGACGTCCGCTTACATGA 2 154 0 AGAGACGTCC 0.979006 -447 GTTCAAAGAAAGATGACTTCCTTTTGCTTCT 4 21 1 AGAGACTTCC 0.984583 -415 GGGTGTACAAAGAGGACATCCGCTGCTGTTC 6 56 0 AGAGACATCC 0.990981 -245 AATAGAAAACAGAACACATCCCTAAACGAAG 9 277 1 AGACACATCC 0.948823 -324 TACAATTCTTAGACGATTTCCGAAGAAAGTT 12 382 1 AGAGATTTCC 0.959645 -219 CATCAAATGAAGAAGAGATCCTAGGATGAGT 13 235 0 AGAGAGATCC 0.962533 -366 TATCATAAGACGAGGATATCCTTTGGAGACT 13 570 1 CGAGATATCC 0.891704 -31 *** ******* Masking position 6 Map Score: 5.25008 Number of sites scoring better than the average of aligned sites = 57 Number in coding regions = 49 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 13 TTTAAGCACTTATATATGTTGCATAGGACT 1 347 0 TATATATGTT 0.80331 -100 CATCAGCGCTTATATACGTTTCATTTCGAC 2 496 0 TATATACGTT 0.976653 -105 CATATATTTATATAAACATTTAGATATGAA 5 38 1 TATAAACATT 0.722777 -429 TCTGAAGAGATACATACGTTTGTGTATACT 5 151 1 TACATACGTT 0.907146 -316 CACGAAAAAATATAAACGTTTAGATACACT 6 201 0 TATAAACGTT 0.929777 -100 CTTCCCTGGTTATATACATTTTTCTATGGT 7 211 0 TATATACATT 0.891756 -90 TATTGCTTAGTATATACGTCTTTGGCACGC 8 76 1 TATATACGTC 0.917518 -525 TGTAAGAGCTTATATACGTTTTACTTGGCA 9 473 0 TATATACGTT 0.976653 -128 TGAGCTTATATATATACGTATACGAGCCAC 11 169 0 TATATACGTA 0.881481 -132 ********** Masking position 6 Map Score: 2.82219 Number of sites scoring better than the average of aligned sites = 301 Number in coding regions = 80 Number in noncoding regions = 221 Number of orfs with sites within 600 bp upstream = 137 Fraction of orfs with sites within 600 bp upstream = 0.0220045 Motif number 14 AGAGTTAATTGAATAGGCAATCTCTAAATG 2 305 1 GAATAGGCAA 0.704777 -296 TTAAGATTGTGCATAGGAAACGTTTCAATT 4 210 1 GCATAGGAAA 0.953231 -226 ATTTAGATATGAATAGGAAGTAGATTGTTC 5 55 1 GAATAGGAAG 0.93528 -412 CTCAAGTTTTGTAGAGGAAGACGTTGAAGA 5 196 1 GTAGAGGAAG 0.945879 -271 AGCTTCGCGCGTAGAGGAAAAGTAAAGGGA 6 151 1 GTAGAGGAAA 0.955115 -150 CGCACTTGCAGCATAGGAAATACTTGCACA 7 77 0 GCATAGGAAA 0.953231 -224 TTGCATTCTTGCATAGAAAGATAGGCTGAT 8 126 0 GCATAGAAAG 0.486442 -475 ACTTGTTGCTGCAGAGGAAATAGGAGGTAA 8 190 0 GCAGAGGAAA 0.976639 -411 GTGACACAGCGTATAAGAAAAAGCTTATCA 9 147 0 GTATAAGAAA 0.614731 -454 TGTAAAGTAGGAAGAAGAAGAAGAAGAAGA 9 536 1 GAAGAAGAAG 0.820117 -65 AGAAGAAGAAGAAGAGGAACAACAACAGCA 9 551 1 GAAGAGGAAC 0.871738 -50 GAAAGTACAAGAGTAGGAAGAGTGGCACA 10 282 1 GAGTAGGAAG 0.662246 -19 TGATCTACGAGATGAGGAAAGATAAAATTT 11 240 0 GATGAGGAAA 0.767652 -61 CAAGGTACGCGTAGAGGTAAGCAGATAATG 12 176 0 GTAGAGGTAA 0.660785 -425 GCATGCACATGAAGAAGAAAGAAAGAGCTA 12 450 1 GAAGAAGAAA 0.847351 -151 ttttaacaatgcagagcaaaaaagtgaaga 14 162 1 gcagagcaaa 0.778075 -344 ********** Masking position 5 Map Score: 4.38168 Number of sites scoring better than the average of aligned sites = 2011 Number in coding regions = 1601 Number in noncoding regions = 410 Number of orfs with sites within 600 bp upstream = 339 Fraction of orfs with sites within 600 bp upstream = 0.0544491 Motif number 15 ACCGGAGAGATTCCATATTCCGCACGTCACAT 9 375 1 TTCCATATCG 0.971804 -226 TCATTATAGTTTCCATAAAGAGCACGTGCGGG 10 117 0 TTCCATAAAG 0.927618 -184 TTTTAAAGAATACCATAATTCGTTAA 13 5 0 TACCATATCG 0.978203 -596 CATTCATATTTTCCATAGAAAGCGGACTCAAA 13 84 0 TTCCATAAAG 0.927619 -517 AACGTGCTTGTACCATAGTCAGATTTTAACCC 13 121 1 TACCATATAG 0.956004 -480 aaaaagtagttaccatagtccgtccagacacg 14 241 1 taccatatcg 0.978203 -265 aatccagttttaccatatagcgtataattgca 14 436 1 taccataacg 0.971804 -70 ******* * ** Masking position 7 Map Score: 1.80559 Number of sites scoring better than the average of aligned sites = 78 Number in coding regions = 59 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987