AlignACE version 2.2 July 7, 1998 AlignACE -jCDC.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 YAL041W 300 bp YAL041W cdc24 1-2565 Guanine nucleotide exchange factor (a.k.a. GDP-release factor) for cdc42 #2 YAL038W 600 bp YAL038W cdc19 1-1503 Pyruvate kinase #3 YAR019C 600 bp YAR019C cdc15 1-2925 protein kinase domain #4 YBL084C 300 bp YBL084C cdc27 1-2277 component of the anaphase-promoting complex #5 YBR160W 349 bp YBR160W cdc28 1-897 protein kinase catalytic subunit #6 YBR202W 600 bp YBR202W CDC47 1-2538 MCM3 protein homolog (S. cerevisiae) #7 YCR002C 300 bp YCR002C cdc10 1-969 conserved potential GTP-ginding protein #8 YCR093W 300 bp YCR093W cdc39 1-6327 nuclear protein that negatively regulates basal transcription #9 YCR094W 318 bp YCR094W CDC50 1-1176 Cell Division Cycle mutant #10 YDL220C 300 bp YDL220C cdc13 1-2775 binds to single-stranded TG1-3 telomere G-tails #11 YDL165W 300 bp YDL165W cdc36 1-576 nuclear protein that negatively regulates basal transcription #12 YDL164C 300 bp YDL164C cdc9 1-2268 DNA ligase #13 YDL132W 563 bp YDL132W cdc53 1-2448 Acts together with Cdc4p and Cdc34p to control the G1-S phase transition, assists in mediating the proteolysis of the Cdk inhibitor Sic1p in late G1 #14 YDL126C 354 bp YDL126C CDC48 1-2508 Microsomal protein of CDC48\/PAS1\/SEC18 family of ATPases\; full length homology to mammalian protein VCP\; involved in secretion, peroxisome formation and gene expression #15 YDL102W 300 bp YDL102W cdc2 1-3294 largest and catalytic subunit of DNA polymerase III (delta) #16 YDL017W 600 bp YDL017W cdc7 1-1524 serine\/threonine protein kinase #17 YDR054C 600 bp YDR054C cdc34 1-888 ubiquitin-conjugating enzyme, E2 #18 YDR168W 300 bp YDR168W cdc37 1-1521 Cell cycle protein necessary for passage through START #19 YDR182W 300 bp YDR182W CDC1 1-1476 Protein that affects bud emergence, intrachromosomal recombination, and nuclear division #20 YDR364C 300 bp YDR364C cdc40 1-1368 Member of the beta transducin family #21 YFL009W 401 bp YFL009W cdc4 1-2340 beta subunit of large (heterotrimeric) G-proteins (beta-transducin) #22 YFR028C 550 bp YFR028C cdc14 1-1656 soluble tyrosine-specific protein phosphatase #23 YFR036W 300 bp YFR036W cdc26 1-375 cell division control protein #24 YGL190C 600 bp YGL190C cdc55 1-1581 Protein phosphatase 2A regulatory subunit B #25 YGL155W 413 bp YGL155W cdc43 1-1131 polypeptide subunit of a yeast type 1 protein geranylgeranyltransferase #26 YGL116W 496 bp YGL116W cdc20 1-1833 beta-transducin homolog #27 YHR107C 300 bp YHR107C cdc12 1-1224 Component of 10 nm filaments of mother-bud neck (septin) #28 YHR166C 300 bp YHR166C CDC23 1-1881 Cell division cycle protein #29 YJL194W 555 bp YJL194W cdc6 1-1542 Protein involved in initiation of DNA replication #30 YJR057W 300 bp YJR057W cdc8 1-651 thymidylate kinase #31 YJR076C 600 bp YJR076C cdc11 1-1248 Component of 10 nm filaments of mother-bud neck #32 YKL022C 300 bp YKL022C cdc16 1-2523 putative metal-binding nucleic acid-binding protein, interacts with Cdc23p and Cdc27p to catalyze the conjugation of ubiquitin to cyclin B #33 YLR103C 600 bp YLR103C CDC45 1-1953 omosomal DNA replication initiation protein #34 YLR229C 512 bp YLR229C cdc42 1-576 member of the Rho subfamily of Ras-like proteins #35 YLR274W 525 bp YLR274W CDC46 1-2328 Member of complex that acts at ARS's to initiate replication #36 YLR310C 300 bp YLR310C cdc25 1-4770 regulatory protein of adenylate cyclase #37 YLR314C 600 bp YLR314C cdc3 1-1563 Component of 10 nm filaments of mother-bud neck #38 YLR418C 332 bp YLR418C CDC73 1-1182 Accessory factor associated with RNA polymerase II by affinity chromatography #39 YLR459W 498 bp YLR459W cdc91 1-1185 #40 YMR001C 600 bp YMR001C cdc5 1-2118 protein kinase which functions at the G(sub)2\/M boundary #41 YOL139C 300 bp YOL139C CDC33 1-642 mRNA cap binding protein eIF-4E #42 YOR074C 600 bp YOR074C cdc21 1-100, 236-915 Thymidylate synthase #43 YOR257W 324 bp YOR257W cdc31 1-486 calcium-binding protein component of spindle pole bodies, localizes to half-bridges and interacts with KAR1 #44 YPL160W 600 bp YPL160W cdc60 1-3273 cytosolic leucyl tRNA synthetase #45 YPR016C 416 bp YPR016C cdc95 1-738 similar to human translation initiation factor 6 (eIF6) #46 YPR019W 453 bp YPR019W CDC54 1-2802 essential for initiation of DNA replication\; homolog of S. pombe CDC21 Motif number 1 TGTGTGTGTGTGTGTGTGTGATTGTTGTTC 22 213 0 TGTGTGTGTG 0.996565 -338 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTG 22 223 0 TGTGTGTGTG 0.996565 -328 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTG 22 233 0 TGTGTGTGTG 0.996565 -318 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTG 22 243 0 TGTGTGTGTG 0.996565 -308 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTG 22 253 0 TGTGTGTGTG 0.996565 -298 TCATAGCTTGTGTGTGTGTGTGTGTGTGTG 22 263 0 TGTGTGTGTG 0.996565 -288 ATTGTACATATGTGTTTGTGTTAGTGCTTG 41 214 1 TGTGTTTGTG 0.974115 -87 ********** Masking position 5 Map Score: 13.7107 Number of sites scoring better than the average of aligned sites = 304 Number in coding regions = 37 Number in noncoding regions = 267 Number of orfs with sites within 600 bp upstream = 69 Fraction of orfs with sites within 600 bp upstream = 0.0110826 Motif number 2 CTGAATGAACGAAAGAAGAAAGAACAGTAGAAAA 2 184 0 GAAAAAGAAA 0.894321 -417 AGTGTCTTCCTAAAAAAAAAAAAAGGCTCGCCAT 2 345 1 TAAAAAAAAA 0.79714 -256 TTATAATTCAGAAAAAAAAGCCAACGAATATCGT 2 383 0 GAAAAAAAAA 0.948671 -218 CTTGTAAATAGAAACAAGAGAGAATAATAAACAA 2 545 0 GAAAAAGAAA 0.894321 -56 TCGTGTATGAAAAAGAAGGCATAATCAAAATTGG 3 357 1 AAAAAAGGAA 0.847191 -244 TTTTGATCAAAAAAAAAAAGGAAAATCAAGCGCG 4 102 0 AAAAAAAAAA 0.932856 -199 ACAAACGCCAAAAATAAAAACGAACCTAAATGAG 5 143 1 AAAAAAAAAA 0.932856 -207 ACCTAAATGAGAAAAAAAGAGAAAAATTTGGAAA 5 166 1 GAAAAAAGAA 0.941545 -184 AAGTCCTCTTGAAAGAAAATTTAATACTGCTTTT 5 238 1 GAAAAAAAAA 0.948671 -112 TCACTTTCGTGAAAAAAGAAGCAAACCGACTTAA 6 428 0 GAAAAAGAAA 0.894321 -173 GGTTGCCACCGAAAAAAAAGAAAAATTTTCGTGT 8 165 0 GAAAAAAAAA 0.948671 -136 ATGATTTCAGAAAAAAAAATATAACTTGTATAAT 9 41 1 AAAAAAAAAA 0.932856 -278 AACGGAAAGGAAAAGAAAGTGCAATAGCCCTCCC 13 175 0 AAAAAAAGAA 0.923711 -389 TACATATACCTAAACAAAGAATAACAACAAAATC 13 526 1 TAAAAAAGAA 0.77399 -38 CCCATAAATAGAAAAAAAAAGAAAGAAAGCGTTT 17 18 0 GAAAAAAAAA 0.948671 -583 GCCCACCCGCGGAAGAAAAGAAAAGCGGGCAATT 17 52 1 GGAAAAAAAA 0.822398 -549 AGAGGAAACCAAAAAAAAATCAAAGAAAAAGAAT 17 358 0 AAAAAAAAAA 0.932856 -243 CACCAAACAAGGAAAAAAGAACAATACAACGTAA 17 575 1 GGAAAAAGAA 0.801413 -26 ACAATAACCAAAAAGAAAGGGAAAACAGTACCGC 19 232 1 AAAAAAAGAA 0.923711 -69 CAAAATACAAAAAAGAAAATTCAAAGAAATGGTA 20 152 0 AAAAAAAAAA 0.932856 -149 TACTCCCTCGTAAATAAGACAAAATACAAAAAAG 20 171 0 TAAAAAGAAA 0.642763 -130 TATTTGGCCAAAAATAAAGGAAAAATTTCAAGAT 20 238 0 AAAAAAAGAA 0.923711 -63 TATTAATGAAAAAATAAAGCCAAAAAAATTTCAG 22 20 0 AAAAAAAGAA 0.923711 -531 GTACGCTTATAAAAAAAAAAAAAAA 22 536 1 AAAAAAAAAA 0.932856 -15 TTTGTTAGAGAAAAAAAGAGATAAGCCCTGTAGG 23 14 1 AAAAAAGAAA 0.864159 -287 CAAAGAGACAGGAAAAAGAAAAAATTATGGTGCG 23 164 0 GGAAAAGAAA 0.679515 -137 AAAAAAGGAAGGAAAAAAACAAAAAAAATCTACT 24 195 0 GGAAAAAAAA 0.822398 -406 GAAACAGGACGAAAAAAGGGTGAACTAAAATATA 24 397 0 GAAAAAGGAA 0.8806 -204 AACAACTCAGAAAAAAAAAAACAAGTGAATAAAA 25 190 0 AAAAAAAAAA 0.932856 -224 TTCCATAAACAAAACAAAGAGCAACATAACTCAT 27 74 0 AAAAAAAGAA 0.923711 -227 ATTAATGTTTGGAAGAAAGGTGAATTT 30 4 0 GGAAAAAGAA 0.801413 -297 CCTTCTAACATAAAGAAAAATAAACAAAAAAGTA 31 473 1 TAAAAAAAAA 0.79714 -128 ACTTTTTTTAAAAAAAAAAGAGAAAG 34 3 0 AAAAAAAAAA 0.932856 -510 GAAAAAGTGATAAAAAAAAGCAAACAAGGTTGAT 34 238 1 TAAAAAAAAA 0.79714 -275 CAAAACTTATAAAACAAGAAATAAACGTATTAGC 34 478 1 AAAAAAGAAA 0.864159 -35 TTGTAAAAACAAAGAGTAAAATTATTGAC 35 6 1 AAAAAAAGAA 0.923711 -520 GAAGAGGAGGAGAAGAAAATTAAAGGCTGGCATA 35 300 0 AGAAAAAAAA 0.776832 -226 CCTGGAGGAAAAAATAAAATAGAAAAATAAGCTC 36 82 1 AAAAAAAAAA 0.932856 -219 TAAATACTAAAAAATAAAACGAAAAAGCAAGGTG 36 258 1 AAAAAAAAAA 0.932856 -43 ACAAACCCAATAAAGAAAATCCAAAATATAGAAC 40 112 1 TAAAAAAAAA 0.79714 -489 GAAAAAATAGGAAAAAAAGCAGAATCAGAATTTG 40 318 0 GAAAAAAGAA 0.941545 -283 GAAAACTTAAAAAAGAAAAGACAAAAAAGCTAAA 40 391 1 AAAAAAAAAA 0.932856 -210 TTAAGTTTGAGAAAGAAGGTCAAAAAAGCAACAC 42 410 0 GAAAAAGGAA 0.8806 -191 GAAATAGAGAGAAAAAAAGAAGAATCCTAATTAG 43 230 1 GAAAAAAGAA 0.941545 -95 CGCAAATAATGAAAAAAAAAAAAAAATCAAAAGC 44 446 1 GAAAAAAAAA 0.948671 -155 GCCACCAGAAAAAAAAAAGAGTAACCAACCACCT 45 43 1 AAAAAAAGAA 0.923711 -374 **** **** ** Masking position 7 Map Score: 58.9374 Number of sites scoring better than the average of aligned sites = 8023 Number in coding regions = 1454 Number in noncoding regions = 6569 Number of orfs with sites within 600 bp upstream = 1861 Fraction of orfs with sites within 600 bp upstream = 0.298908 Motif number 3 GGTATAGTCTTACCAGGAAAATGGGT 3 585 0 AGTTTACCAG 0.853708 -16 ACTGAAAATTAGTGTTACCCGTATTATTGTT 9 167 1 AGTTTACCCG 0.987849 -152 CGATATAATATGTATTACCCGAAGGGAGGGC 13 152 1 TGTTTACCCG 0.987854 -412 ATGAAGTGTTTGTTTTACCCGAAGTGCTTTT 28 158 0 TGTTTACCCG 0.987854 -143 CTCAGGGTCTTGGCTTACCCGCGTCGGCTTT 29 154 0 TGGTTACCCG 0.94432 -402 CAATGGAAGCAGTATTACCCGTATTGAATGA 34 180 0 AGTTTACCCG 0.987854 -333 AAGAGCCCTTTATTCTACCCGCTTATCTCTG 35 164 1 TATCTACCCG 0.861541 -362 ATGGAATATTTGTTTTACCCGGAATACGTAA 39 379 0 TGTTTACCCG 0.987854 -120 TGCTACATAATGCCCTACCCGGGCAACATAT 40 17 0 TGCCTACCCG 0.915384 -584 CGTTTAGAGTAATATTACCCGTCAAAAAGGT 41 63 1 AATTTACCCG 0.947241 -238 AGGGTAATAAAATTTTACCCGACCTTTTTGA 41 84 0 AATTTACCCG 0.947241 -217 CTAATGGATGAGCATTACCCGTTTTTTCCGA 45 178 1 AGCTTACCCG 0.968958 -239 *** ******* Masking position 7 Map Score: 8.75107 Number of sites scoring better than the average of aligned sites = 108 Number in coding regions = 35 Number in noncoding regions = 73 Number of orfs with sites within 600 bp upstream = 82 Fraction of orfs with sites within 600 bp upstream = 0.0131706 Motif number 4 GCACTGGTGGGAAGAAGTGGAAAACAGAAGCTTTAA 1 161 1 GAAGAAAAAA 0.90605 -140 ACGAAAGAAGAAAGAACAGTAGAAAACACTTTGTGA 2 174 0 AAAGAAAGAA 0.898372 -427 ATAATTCAGAAAAAAAAGCCAACGAATATCGTTTTG 2 379 0 AAAAAAAAGA 0.667222 -222 ATGAATATGAAAAAGAGTAGAGAATAACTTTGAAAG 2 477 0 AAAAGAAGAA 0.685973 -124 ATAAAAAACCAAAGGATGAAAAAGAATGAATATGAA 2 502 0 AAAGGAAAGA 0.750866 -99 CCTTTTGATCAAAAAAAAAAAGGAAAATCAAGCGCG 4 102 0 AAAAAAAGAA 0.781856 -199 AAGTAAACCAAAAGGATCAAAGTGCAAGCAAAGGTG 4 152 1 AAAGGAAGGA 0.746906 -149 AAACCACAAGGAAAAACAGGAAGAGAAGAGAATCAA 11 255 1 GAAAAAAAAA 0.796342 -46 CTCTAAAAGAGAAAAAGGACAATATAAAAGAGCAGT 13 346 0 GAAAAAAAAA 0.796342 -218 ATACCTAAACAAAGAATAACAACAAAATCGCAAGCA 13 531 1 AAAGAAAAAA 0.900279 -33 CATAAATAGAAAAAAAAAGAAAGAAAGCGTTTAAAT 17 14 0 AAAAAAAAAA 0.785427 -587 TAGAAAATCCGAAGAACCCCAAGGGACGGACAAACA 17 277 0 GAAGAAAAGA 0.840829 -324 AAGTGTAAGGAAAAAAAAAGAGGAGATAGAAAATCC 17 303 0 AAAAAAAGAA 0.781856 -298 GGAAACCAAAAAAAAATCAAAGAAAAAGAATCGAAT 17 353 0 AAAAAAAGAA 0.781856 -248 TTGAATCTGTAAAGAACAAGAGCAGAAACTTAAAGT 17 391 1 AAAGAAAGAA 0.898372 -210 CCAAACAAGGAAAAAAGAACAATACAACGTAAAT 17 577 1 AAAAAAAAAA 0.785427 -24 CAATAACCAAAAAGAAAGGGAAAACAGTACCGCTTC 19 233 1 AAAGAAAAAA 0.900279 -68 GAGAGTCGATAAAAAAACCCAAAACATTTTAAAGTA 21 11 0 AAAAAAAAAA 0.785427 -391 TGAATGAGGAGAAGAAGAAGAGAATACTGTAAATAA 21 311 0 GAAGAAAGAA 0.904242 -91 AATAAAGCCAAAAAAATTTCAGAAAAAAATA 22 6 0 AAAAAAAGAA 0.781856 -545 GAGAAAAAAGGAAGGAAAAAAACAAAAAAAATCTAC 24 196 0 GAAGGAAAAA 0.854604 -405 TCTTACGCATAAAGAAATATAATATAGCGCACA 24 578 1 AAAGAAAAAA 0.900279 -23 AACTCAGAAAAAAAAAAACAAGTGAATAAAACAGGT 25 185 0 AAAAAAAGGA 0.66253 -229 TTGCGCCTTGGAAGAATGGAAAAGCAATAGTTTCAG 25 222 1 GAAGAAAAGA 0.840829 -192 GAAAGCTAACAAAGAACCGCAGAAAAAGAACGACAC 26 82 0 AAAGAAAGAA 0.898372 -415 AAGAGGACATAAAGGAAGTGAAGGAAAGCTAACAAA 26 105 0 AAAGGAAAGA 0.750866 -392 TAAGGGAAAGAAAGGAAGCCAGAAAAAGAGGTAGAA 29 95 0 AAAGGAAGAA 0.843448 -461 TTAGTAAACCGAAGGACATAAGGGAAAGAAAGGAAG 29 113 0 GAAGGAAGGA 0.75918 -443 AAGAGTCAACAAAGGAAAGAAATAAATAAATCTGTT 31 37 1 AAAGGAAAAA 0.846208 -564 AAGTGATACCGAAGAATTAAAGAAGATAATGTTTGG 32 107 1 GAAGAAAGAA 0.904242 -194 TTGGTGAGAAGAAGAAACTCAATAAAAAGAAGCGGA 32 139 1 GAAGAAAAAA 0.90605 -162 GGAAGCAATTGAAGAAGAGTAAAGTATCAGTAGAAC 32 172 1 GAAGAAAAGA 0.840829 -129 TGCAAAAAGTGAAGAATGACAGAGAAGGATAATCAG 34 350 0 GAAGAAAGGA 0.83799 -163 CAACTTATTGAAAGAACATGAATATACTTGTTAACG 35 439 1 AAAGAAAAAA 0.900279 -87 AGACCTGGAGGAAAAAATAAAATAGAAAAATAAGCT 36 79 1 GAAAAAAAAA 0.796342 -222 TCTTTTTCGGAAAGAAATTGAATAAAAAGAGCCACA 36 210 1 AAAGAAAAAA 0.900279 -91 CCTTTTTACGAAAGGAAGGAAGGAGAAATCTAGAGG 37 338 0 AAAGGAAGAA 0.843448 -263 AAACCGAGACAAAAAATGGCAAAAAATGGGAAGCGA 37 449 0 AAAAAAAAAA 0.785427 -152 CATAATTCTCAAAGGAAGCTAAAACATCCTTCTTAA 39 319 1 AAAGGAAAAA 0.846208 -180 CCACAAAATTGAAGGATGAAAAAATAGGAAAAAAAG 40 333 0 GAAGGAAAAA 0.854604 -268 GCCCTTTTCAGAAAGATACCAGCAAAGGTAGGAATG 42 151 1 GAAAGAAGAA 0.700015 -450 TAAGTTTGAGAAAGAAGGTCAAAAAAGCAACACCTC 42 407 0 AAAGAAAAAA 0.900279 -194 GCGTTAAATAGAAAAAATGAAAAAGACCTTAATTGA 42 455 1 GAAAAAAAAA 0.796342 -146 CGCAAATAATGAAAAAAAAAAAAAAATCAAAAGCGA 44 446 1 GAAAAAAAAA 0.796342 -155 TCAAAAGCGAAAAGAAACCTAACGCATATTCTATTC 44 472 1 AAAGAAAAGA 0.831794 -129 TTTCCAGAGTGAAGAATATAAAAAAAATATCTTTAA 44 565 1 GAAGAAAAAA 0.90605 -36 GCCGCCACCAGAAAAAAAAAAGAGTAACCAACCACC 45 40 1 GAAAAAAGGA 0.677126 -377 CTCGAAAATGAAAAGAGAAGAAGAGACCAGAAGAGC 46 301 1 AAAAGAAAAA 0.690491 -153 ****** ** * * Masking position 6 Map Score: 50.904 Number of sites scoring better than the average of aligned sites = 3559 Number in coding regions = 1990 Number in noncoding regions = 1569 Number of orfs with sites within 600 bp upstream = 1055 Fraction of orfs with sites within 600 bp upstream = 0.169451 Motif number 5 AAAATGCATATTTTTTCTCTTGGTAAATGA 2 256 1 TTTTTTCTCT 0.915692 -345 ATGGCGAGCCTTTTTTTTTTTTTAGGAAGA 2 349 0 TTTTTTTTTT 0.849767 -252 ATTCGTTGGCTTTTTTTTCTGAATTATAAA 2 388 1 TTTTTTTTCT 0.905914 -213 ATCCTTTGGTTTTTTATTCTTAACTTGTTT 2 521 1 TTTTTATTCT 0.765768 -80 TTGATTTTCCTTTTTTTTTTTGATCAAAAG 4 107 1 TTTTTTTTTT 0.849767 -194 TTTAGGTTCGTTTTTATTTTTGGCGTTTGT 5 143 0 TTTTTATTTT 0.657597 -207 TGTTTTCCAAATTTTTCTCTTTTTTTCTCA 5 173 0 ATTTTTCTCT 0.821975 -177 TTCCACCAATTTTTTTTTTTGAGTTCTTGT 5 203 0 TTTTTTTTTT 0.849767 -147 CAGTAAATTATTTTTACTCTTTTCCTTGTC 6 44 0 TTTTTACTCT 0.786682 -557 ATACACGAAAATTTTTCTTTTTTTTCGGTG 8 163 1 ATTTTTCTTT 0.73063 -138 CAAGTTATATTTTTTTTTCTGAAATCATGA 9 39 0 TTTTTTTTCT 0.905914 -280 TACGCGTAACTTTTTATTCTATAAAATGTT 15 144 1 TTTTTATTCT 0.765768 -157 CCTGACCTGAATTTTTCTCTCTTTAAAACA 16 42 0 ATTTTTCTCT 0.821975 -559 ACGGGAAGTAATTTTACTCTATAAAATGTC 16 296 0 ATTTTACTCT 0.610548 -305 TGCTGAGCGGTTTTTTTTGTTAATGGTTCT 16 480 0 TTTTTTTTGT 0.591756 -121 CTTTCTTTCTTTTTTTTTCTATTTATGGGG 17 23 1 TTTTTTTTCT 0.905914 -578 TTTTTCTTTGATTTTTTTTTGGTTTCCTCT 17 362 1 ATTTTTTTTT 0.706273 -239 AATTTCAAGATTTTTTTTTTACCTCATCTC 20 219 0 TTTTTTTTTT 0.849767 -82 TATTTTTTTCTGAAATTTTTT 22 2 1 ATTTTTTTCT 0.803658 -549 ATACAACTGTTTTTTTCTGTAATGCGTTTT 22 135 1 TTTTTTCTGT 0.620507 -416 TTTTTTTTTTTTTTTATAAG 22 541 0 TTTTTTTTTT 0.849767 -10 GCTTATCTCTTTTTTTCTCTAACAAAAAA 23 10 0 TTTTTTCTCT 0.915692 -291 CGCACCATAATTTTTTCTTTTTCCTGTCTC 23 164 1 TTTTTTCTTT 0.864508 -137 TTGCTGTTTTTTTTTTCTCTTCAGACCGCT 23 264 0 TTTTTTCTCT 0.915692 -37 GGCATAAACGTTTTTTTTTTGAGACAATTG 24 125 1 TTTTTTTTTT 0.849767 -476 ACTAAGTAGATTTTTTTTGTTTTTTTCCTT 24 191 1 TTTTTTTTGT 0.591756 -410 TTTTCCTTCCTTTTTTCTCTTTTCCATCCA 24 213 1 TTTTTTCTCT 0.915692 -388 TGTGATATAAATTTTATTTTTTTGCTTTTT 25 124 0 ATTTTATTTT 0.449468 -290 TCACTTGTTTTTTTTTTTCTGAGTTGTTGC 25 196 1 TTTTTTTTCT 0.905914 -218 CAGCGCCCTGTTTTTTTTCTGTAATCACGA 27 140 0 TTTTTTTTCT 0.905914 -161 CCCCTTTTTTTTTTCATATTCTAA 31 5 1 TTTTTTTTTT 0.849767 -596 TTTTTTGTTTATTTTTCTTTATGTTAGAAG 31 474 0 ATTTTTCTTT 0.73063 -127 GTGTCTACCTATTTTACTTTTCGATCAAAT 31 506 0 ATTTTACTTT 0.479425 -95 CACGACGCGTATTTTTTTTTCAACATATCA 33 427 1 ATTTTTTTTT 0.706273 -174 CTTTCTCTTTTTTTTTTAAAAAAAGTT 34 8 1 TTTTTTTTTT 0.849767 -505 AAGGTCAATAATTTTACTCTTTGTTTTTAC 35 13 0 ATTTTACTCT 0.610548 -513 TTATTTTTCTATTTTATTTTTTCCTCCAGG 36 82 0 ATTTTATTTT 0.449468 -219 ACGGCTGTGATTTTTATTCTCTATGAATAA 40 543 0 TTTTTATTCT 0.765768 -58 GGATTCTTCTTTTTTTCTCTCTATTTCGCA 43 227 0 TTTTTTCTCT 0.915692 -98 AGTCAAAAGTATTTTTCTTTAACCATGTC 44 10 0 ATTTTTCTTT 0.73063 -591 GCTTTTGATTTTTTTTTTTTTTTCATTATT 44 450 0 TTTTTTTTTT 0.849767 -151 GGTTACTCTTTTTTTTTTCTGGTGGCGGCA 45 39 0 TTTTTTTTCT 0.905914 -378 TTTGTGCAGATTTTTTCTTTTACTGTATGT 45 267 1 TTTTTTCTTT 0.864508 -150 TCTTCAGTTATTTTTACTCTTGGTAGAGCC 46 399 1 TTTTTACTCT 0.786682 -55 ********** Masking position 5 Map Score: 48.9528 Number of sites scoring better than the average of aligned sites = 10860 Number in coding regions = 1441 Number in noncoding regions = 9419 Number of orfs with sites within 600 bp upstream = 2068 Fraction of orfs with sites within 600 bp upstream = 0.332155 Motif number 6 ATTTCTTTGTGCTTCTATTCTGTTGCTCTCAGACAAA 6 87 0 GTTCTCGTTT 0.899128 -514 ATCTTATTAATGTTCGCCTCGCTTTTTCGCAGTTATA 11 181 0 TTTCTCCTTT 0.950238 -120 AGTATATTTTGATTCTCTTCTCTTCCTGTTTTTCCTT 11 262 0 GTTCTCCTTT 0.963227 -39 TGTGAAGTGCTCTTCTACTCACTAAATTGATGCCGTT 16 422 0 TTTCTCCTAT 0.840027 -179 GTGTGATTGTTGTTCTAGTCGCTTGCTTTATAAAGTA 22 191 0 TTTCTCCTTT 0.950238 -360 AGCACCATAAGTTTTTCTTCACTTGGTTCAAAGGTAA 22 408 1 GTTTTCCTTT 0.921038 -143 AATTTTTTCTTTTTCCTGTCTCTTTGTCCTTTCACAT 23 172 1 TTTCTCCTTT 0.950238 -129 AATTTTCAATTCTTCCAGTCTCTTCGTGGAAAGTTCT 24 307 0 TTTCTCCTTT 0.950238 -294 CTTTTTTACCTGTTTTATTCACTTGTTTTTTTTTTTC 25 178 1 TTTTTCCTTT 0.894776 -236 TTCTTTGTTAGCTTTCCTTCACTTCCTTTATGTCCTC 26 102 1 GTTTTCCTTT 0.921038 -395 TTCACAATCTGATTCTGATCAGTATATATCCAGATTT 28 262 0 GTTCTCGTAT 0.710239 -39 CCTACCTTAATATTCATATCAGTTAGTCTTATATACT 29 59 1 TTTCTCGTTT 0.866634 -497 TACTTCTACCTCTTTTTCTGGCTTCCTTTCTTTCCCT 29 92 1 TTTTTGCTTT 0.561433 -464 ATTCTAGTAGGATTCGCATGGCTTTTTCATAATAAAA 33 310 0 GTTCTGCTTT 0.797704 -291 CTTGTTTGCTTTTTTTTATCACTTTTTCCCGTATCTT 34 229 0 TTTTTCCTTT 0.894776 -284 TGTTTTATAAGTTTTGCTTCTCTAATTCGTTTGTTAA 34 457 0 GTTTTCCTAT 0.762332 -56 CGTAACAATTGATTCAAATCAGTTTATTCTAAGCCGC 35 262 1 GTTCTCGTTT 0.899128 -264 ACCATTGGCTGTTTCGGATGAGTTATTTTTAAAGTGT 39 120 1 GTTCTGGTTT 0.572991 -379 TTTTCTTCCTTTCACTAGTTTTCAGACAAA 41 281 0 TTTCTCCTAT 0.840027 -20 AGGATTCTTCTTTTTTTCTCTCTATTTCGCAATAGTT 43 221 0 TTTTTCCTAT 0.700453 -104 TTCCGTTTCTTCTTTGGTTCACTTCCTTTCTCGTTTA 43 284 0 TTTTTCCTTT 0.894776 -41 ACTGTATGATTTATTTCCGTTTCTTCTTTGGTTC 43 301 0 GTTTTCGTTT 0.798767 -24 CCAACTGCATGTTTTATATCACTTCTTTTTGGAATAT 46 195 1 GTTTTCCTTT 0.921038 -259 GCGAAGTTGCTCTTCTGGTCTCTTCTTCTCTTTTCAT 46 308 0 TTTCTCCTTT 0.950238 -146 * *** ** *** * Masking position 9 Map Score: 20.3166 Number of sites scoring better than the average of aligned sites = 832 Number in coding regions = 440 Number in noncoding regions = 392 Number of orfs with sites within 600 bp upstream = 344 Fraction of orfs with sites within 600 bp upstream = 0.0552522 Motif number 7 TACTACATAATATATATATATAGTATAGAA 1 74 1 TATATATATA 0.482744 -227 ATACAATACATATATATATATATATATATA 5 36 1 TATATATATA 0.482744 -314 TATATATATATATATATATATATTTACAAG 5 46 1 TATATATATA 0.482744 -304 AATAAGGCCATATATGTATATATTGGTACA 5 107 0 TATATGTATA 0.86436 -243 AATCTGGTCTATCTGTATTGAGTTCTTCC 6 582 0 TATCTGTATT 0.665484 -19 ATGATTTTCGTATATAAATAAATGCAGTTT 9 13 0 TATATAAATA 0.542329 -306 AAGAGAAACATATATGAATATATTCTTAAA 10 246 0 TATATGAATA 0.802807 -55 TGCTGTGCGTATATGTATAAAGATTAATG 15 282 0 TATATGTATA 0.86436 -19 TTACCACTGTTATATGAATATAGATTGCTC 21 221 1 TATATGAATA 0.802807 -181 AGCGGAATGCTATCTGTATATATTGCATTG 24 21 1 TATCTGTATA 0.820327 -580 ATTATTTACTTATATGTATTTTGTTAAGAC 25 86 0 TATATGTATT 0.844261 -328 CTATTATAAATATATATATATATATATATT 31 158 1 TATATATATA 0.482744 -443 TATATATATATATATATATTTGAATTTTCT 31 168 1 TATATATATT 0.611214 -433 AAGCTATATTTATCTGTATAACATATACGT 31 361 0 TATCTGTATA 0.820327 -240 AAAGTTAGTTTATATGTATAATATAAAATA 32 256 1 TATATGTATA 0.86436 -45 TCACGTTGTTTATATGAATTACTGTTCTAA 39 447 0 TATATGAATT 0.639145 -52 TCAGTGATTCTATATGTATTGTACGAAAGT 40 235 0 TATATGTATT 0.844261 -366 ********** Masking position 5 Map Score: 4.94159 Number of sites scoring better than the average of aligned sites = 607 Number in coding regions = 131 Number in noncoding regions = 476 Number of orfs with sites within 600 bp upstream = 300 Fraction of orfs with sites within 600 bp upstream = 0.048185 Motif number 8 CCTTAAAGCTTCTGTTTTCCACTTCTTCCCA 1 168 0 TCTTTTTCCA 0.926856 -133 TCCAAGAACCTCTTTTTTCCAGTTATATCAT 2 440 1 TCTTTTTCCA 0.926856 -161 TTACCCGCGCTTGATTTTCCTTTTTTTTTTT 4 97 1 TTGTTTTCCT 0.797415 -204 TTGAGTTCTTGTTGTTTTCCAAATTTTTCTC 5 184 0 GTTTTTTCCA 0.784163 -166 TTTGATCTGGGCTATTTTCCACTGTAGCTGA 5 311 0 GCTTTTTCCA 0.875135 -39 AATTATTTTTACTCTTTTCCTTGTCGTCGTA 6 38 0 ACTTTTTCCT 0.732145 -563 ATGAATTGCATTTATTTTCCTTATAAGGAAA 6 398 0 TTTTTTTCCT 0.903762 -203 GCTATTGCACTTTCTTTTCCTTTCCGTTTTA 13 181 1 TTTTTTTCCT 0.903762 -383 GTGCTCAATATCTATTTTCCTTTATCCTTGA 15 240 0 TCTTTTTCCT 0.947688 -61 TATCTCCTCTTTTTTTTTCCTTACACTTTCA 17 311 1 TTTTTTTCCT 0.903762 -290 GTTGTATTGTTCTTTTTTCCTTGTTTGGTGT 17 574 0 TCTTTTTCCT 0.947688 -27 GTAGAAATTTTCGGTTTTCCTTTTTAATCTT 19 113 1 TCGTTTTCCT 0.88363 -188 GATTTTTTTTGTTTTTTTCCTTCCTTTTTTC 24 199 1 GTTTTTTCCT 0.838555 -402 CTTCCTTTTTTCTCTTTTCCATCCAATTTTG 24 218 1 TCTTTTTCCA 0.926856 -383 ACTGAAACTATTGCTTTTCCATTCTTCCAAG 25 228 0 TTGTTTTCCA 0.733565 -186 TTCGGATTCTTCACTTTTCCAGCGCCCTGTT 27 158 0 TCATTTTCCA 0.642179 -143 TCATTTCTAAGCTATTTTCCAACTTTTTATA 30 134 0 GCTTTTTCCA 0.875135 -167 ATGCTTTTGGTTGGTTTTCCTTTGATAAATG 33 266 0 TTGTTTTCCT 0.797415 -335 ATTATACTATTCTATTTTCCTGAGGAGATAG 34 425 1 TCTTTTTCCT 0.947688 -88 CTGCAAGTAATCACTTTTCCTAAAAGGGAAA 35 382 0 TCATTTTCCT 0.719556 -144 CATTAAAGTTGTTCTTTTCCTAAACGCCTCT 43 110 0 GTTTTTTCCT 0.838555 -215 AGCCACCGAAATTTTTTTCCAGAGTGAAGAA 44 550 1 ATTTTTTCCA 0.497765 -51 *** ******* Masking position 6 Map Score: 18.1213 Number of sites scoring better than the average of aligned sites = 952 Number in coding regions = 455 Number in noncoding regions = 497 Number of orfs with sites within 600 bp upstream = 424 Fraction of orfs with sites within 600 bp upstream = 0.0681015 Motif number 9 GCCCAGATCAAATAGAACTATCCTTCGAAC 5 330 1 AATAGATCTT 0.831783 -20 AGAGGTTTAAAAAAAAAGCGTCGTTCGTTGATAAA 16 172 0 AAAAAATCTT 0.899029 -429 ATTATTTTGTAATAGTATGCTCTTTATTGTCCTTC 17 430 0 AATAGATCTT 0.831784 -171 ACTATTACAAAATAATAGGAGCTTTGCGTTTGTTA 17 449 1 AATAAAGCTT 0.934715 -152 AAGCACACAGAAAAAGACACGCTTTGTTGAGCAAT 21 244 0 AAAAAAGCTT 0.934715 -158 TGATTGACACAATAGCAATGGCCTTCAAATGCATA 22 336 0 AATAGAGCTT 0.888284 -215 AAAACAGGTAAAAAAGAAGATCATTTAAAGGTTTT 25 159 0 AAAAAATCTT 0.898996 -255 GCTTTTTCATAATAAAAATCTCGTTTATTTATGCT 33 292 0 AATAAATCTT 0.898964 -309 TTTTTTTTTTAAAAAAAGTTGCATTATTTCTATCA 34 18 1 AAAAAAGCTT 0.934669 -495 TTTTGTACACAAAAACATTGGCTTTCTTATATCTT 40 464 1 AAAAAAGCTT 0.934669 -137 ATTGACGACGAAAAAAATTTTCTTTTCGGAGAGGG 41 111 0 AAAAAATCTT 0.897252 -190 GAGTTTTACGAAAAATAAAAGCATTTTTGTCTGAA 41 256 1 AAAAAAGCTT 0.934715 -45 TCAACGTTTGAATAGAATATGCGTTAGGTTTCTTT 44 482 0 AATAGAGCTT 0.888284 -119 TATGATTTATAATAATACAATCATTCAACGTTTGA 44 506 0 AATAAATCTT 0.898996 -95 TGAAGAATATAAAAAAAATATCTTTAACCAGTCTA 44 574 1 AAAAAATCTT 0.897252 -27 CACTTTATGTAATAATATAGGCATTCTGGACGAAA 45 141 1 AATAAAGCTT 0.934715 -276 ***** * ** ** Masking position 7 Map Score: 7.78662 Number of sites scoring better than the average of aligned sites = 256 Number in coding regions = 127 Number in noncoding regions = 129 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813 Motif number 10 TTGCTGTTATCATTTGTTGCCTAGCCCTATC 1 248 1 CATTTGTTCC 0.909676 -53 TTATTTTTGGCGTTTGTTGCCCTAATAAGGC 5 129 0 CGTTTGTTCC 0.941385 -221 TGATATATGTCCTTTTTTGCCACCGAATTCA 14 217 0 CCTTTTTTCC 0.905828 -138 TTTATATCTGCGTTTCTTTGCAGCGTTCTTG 15 47 1 CGTTTCTTGC 0.667938 -254 GTTGGTCTCACCTTTGTTGACATAATGACCA 16 76 1 CCTTTGTTAC 0.877316 -525 ATTTCATTTCCATTTGTTAGCCACTAACGAT 18 45 0 CATTTGTTGC 0.854419 -256 TGTAAATAAACGTTTTTTTCCCAAAAAAGAC 21 289 0 CGTTTTTTCC 0.859066 -113 GTGAGTCATTCGTTTTTTAGCCGATAGTAGA 22 303 1 CGTTTTTTGC 0.780325 -248 TTTTTTCCTTCCTTTTTTCTCTTTTCCATCC 24 211 1 CCTTTTTTTC 0.779444 -390 TTTCTGGCTTCCTTTCTTTCCCTTATGTCCT 29 106 1 CCTTTCTTCC 0.844887 -450 AGTCTGCATTCCTTTGTTTTCCCTGAATTAC 29 304 1 CCTTTGTTTC 0.903021 -252 TCGCTTTCTCCCTTTGTTACCAATGCACAAT 30 73 0 CCTTTGTTCC 0.962041 -228 GAAGACGTTACATTTTTTCGCCATCTTTAGC 30 219 0 CATTTTTTGC 0.690161 -82 TTATTTCTTTCCTTTGTTGACTCTTTCTTAG 31 31 0 CCTTTGTTAC 0.877316 -570 TTCTCTAATTCGTTTGTTAACCTATCTCCTC 34 446 0 CGTTTGTTAC 0.819221 -67 TTTCGCTTCCCATTTTTTGCCATTTTTTGTC 37 447 1 CATTTTTTCC 0.792631 -154 TTTCTTTCCTCATTTGTTTTCGATGTTTCTA 39 207 1 CATTTGTTTC 0.787242 -292 AGTGAAATGACCTTTGTTTTCAAAACTAACC 39 412 1 CCTTTGTTTC 0.903021 -87 ******** ** Masking position 5 Map Score: 7.92906 Number of sites scoring better than the average of aligned sites = 396 Number in coding regions = 255 Number in noncoding regions = 141 Number of orfs with sites within 600 bp upstream = 136 Fraction of orfs with sites within 600 bp upstream = 0.0218439 Motif number 11 TAAGCGCTTCTTGTATATTTTCTCAATAACA 6 247 1 TTGTATATTT 0.876667 -354 AACAAAGTATTTCTTTATTTTCTAATAGTTC 11 72 1 TTCTTTATTT 0.840298 -229 TTCTTTTAATTTCTATATTTGTCGAGC 13 7 0 TTCTATATTG 0.852772 -557 TTTATATGCATTGTATATTTTTGACTTAAAA 13 62 1 TTGTATATTT 0.876667 -502 GATTTGTATATCTGTCTTGTAGTT 14 341 0 TTGTATATTG 0.765868 -14 GTCACAGCGCTTGTATATCTTGTGAGAGAAA 21 185 1 TTGTATATTT 0.876667 -217 TTAGGCTCTCTTCTATATTTTAGTTCACCCT 24 384 1 TTCTATATTT 0.926398 -217 AATGGACGATTTCTATATTTTTGGGTTTCTT 26 430 0 TTCTATATTT 0.926398 -67 ATCGCCAGTATTCTTTATTTTTCCGCCTTCT 31 448 1 TTCTTTATTT 0.840298 -153 TTGTTTATTTTTCTTTATGTTAGAAGGCGGA 31 469 0 TTCTTTATTT 0.840298 -132 ATTCCTTTAATTCTATATATTAACTGTTCGT 37 133 1 TTCTATATTT 0.926398 -468 TAAGATCACGTTGTTTATATGAATTACTGTT 39 451 0 TTGTTTATTG 0.577605 -48 TATTCTATATGTTGCCCGGGTAG 40 3 1 TTCTATATTT 0.926398 -598 TATTTATTCGTTCTATATTTTGGATTTTCTT 40 124 0 TTCTATATTT 0.926398 -477 ******** ** Masking position 7 Map Score: 6.3599 Number of sites scoring better than the average of aligned sites = 168 Number in coding regions = 83 Number in noncoding regions = 85 Number of orfs with sites within 600 bp upstream = 65 Fraction of orfs with sites within 600 bp upstream = 0.0104401 Motif number 12 ATCACTACCTAGATTAGCTTGAATCTTGCAGGAA 6 552 1 AGAACTTAAT 0.962153 -49 GAAGTTCTATAGAACAGCTTGTAT 9 305 1 AGAACTTTAT 0.863247 -14 ACTTTTTGTAAGACAATCTTCATTGTAAATCCGC 10 65 1 AGAACTTATT 0.863333 -236 GGGAAGTAACAGACTACCTTAAATTTTCAATAAC 16 518 1 AGAACTTAAT 0.962208 -83 TTCAATTTTAAGAAAACCTTTATTTATCCAACGT 25 343 1 AGAACTTATT 0.863333 -71 GTAAAGTATCAGTAGAACTTGAATAAACGCCTTA 32 190 1 AGTACTTAAT 0.763878 -111 ATGAAAGCTCAGAAGACCTTTAATGACGAAAAAT 33 12 0 AGAACTTAAT 0.962208 -589 CAGATGAATGAGAATAACTAGAATACATACACAT 42 56 0 AGAACTAAAT 0.763878 -545 GTTTAGGAAAAGAACAACTTTAATGATGCAGGAA 43 116 1 AGAACTTAAT 0.962208 -209 ATGCAACAAAAGAAAATCTTCTATATAAGCTGAA 46 142 1 AGAACTTTAT 0.863287 -312 TATTTCTTTAAGAACATCTTCAATACTAAATAAG 46 357 1 AGAACTTAAT 0.962208 -97 *** * *** *** Masking position 6 Map Score: 2.33352 Number of sites scoring better than the average of aligned sites = 103 Number in coding regions = 70 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 13 ACTGAATGAACGAAAGAAGAAAGAACAGTAGA 2 187 0 CGAAAAGAAA 0.801518 -414 CGTTTGTTGCCCTAATAAGGCCATATATGTAT 5 118 0 CCAAAAGGCC 0.83156 -232 AACTAATTTACCCAGAAAGGAAATTTCCTTAT 6 375 1 CCAGAAGGAA 0.843668 -226 AAGGAAATTTCCTTATAAGGAAAATAAATGCA 6 391 1 CCTAAAGGAA 0.651625 -210 ACACAAGACTCGTAGAAAGGAACTATTAGAAA 11 90 0 CGAGAAGGAA 0.598168 -211 GAATTCGGTGGCAAAAAAGGACATATATCAGG 14 218 1 GCAAAAGGAC 0.697087 -137 ACGCCCCAGGGCAAAGAAGACATAATTTAAAA 16 383 0 GCAAAAGACA 0.704981 -218 TTTTAGTACACCAAACAAGGAAAAAAGAACAA 17 567 1 CCAAAAGGAA 0.963159 -34 CGTTTTTTTCCCAAAAAAGACACTATATTTTA 21 278 0 CCAAAAGACA 0.896513 -124 TACCGATTGCGCCAACAAGGCATTTTAATCTC 23 88 1 GCAAAAGGCA 0.810152 -213 CCTGAATTACCCAAAGAAGAAAGCGACGCGAG 29 325 1 CCAAAAGAAA 0.936061 -231 TCTCACATTGCCTAACAAGAAAGTCACATTGC 33 122 1 CCAAAAGAAA 0.936061 -479 AATCACTTTTCCTAAAAGGGAAACACGCCACA 35 373 0 CCAAAGGGAA 0.734907 -153 CAATTTCTTTCCGAAAAAGAAACAGTCTATCT 36 198 0 CCAAAAGAAA 0.936061 -103 CTGTTCGTGGCGTAACAAGAAATCGATTCTGA 37 156 1 CGAAAAGAAA 0.801518 -445 TCCTTCCTTTCGTAAAAAGGAACCACCTGGGC 37 354 1 CGAAAAGGAA 0.878219 -247 ATTAAGAACTGCCAACAAGGAAAGATCTCCGT 42 112 0 GCAAAAGGAA 0.878219 -489 AGGAAGTGAACCAAAGAAGAAACGGAAATAAA 43 294 1 CCAAAAGAAA 0.936061 -31 CAAGTAGTCACCCAAAAAGACCTTTTCAAAAT 44 256 0 CCAAAAGACC 0.73436 -345 ** ** ****** Masking position 7 Map Score: 6.06344 Number of sites scoring better than the average of aligned sites = 833 Number in coding regions = 562 Number in noncoding regions = 271 Number of orfs with sites within 600 bp upstream = 245 Fraction of orfs with sites within 600 bp upstream = 0.0393511 Motif number 14 CTGAATGAACGAAAGAAGAAAGAACAGTAGAA 2 186 0 GAAAAAAAAG 0.856815 -415 AGTGTCTTCCTAAAAAAAAAAAAAGGCTCGCC 2 345 1 TAAAAAAAAA 0.753799 -256 ATCCTTTTGATCAAAAAAAAAAAGGAAAATCA 4 108 0 TCAAAAAAAA 0.599693 -193 AAAACGAACCTAAATGAGAAAAAAAGAGAAAA 5 159 1 TAAAGAAAAA 0.824249 -191 CAACAAGAACTCAAAAAAAAAAATTGGTGGAA 5 201 1 TCAAAAAAAA 0.599693 -149 TGTACTTTGTTCAAAAATAAAAGTAATGATTT 12 236 1 TCAAAAAAAA 0.599693 -65 ATCAAACATCGAAATGAAAAAGGGCCCTTAAA 13 208 0 GAAAGAAAAG 0.901634 -356 TGAAAAGCTCTAAAAGAGAAAAAGGACAATAT 13 357 0 TAAAGAAAAA 0.824249 -207 AAGGCAATTTTCAAGGATAAAGGAAAATAGAT 15 230 1 TCAAGAAAAG 0.79734 -71 CAAAAAAAAATCAAAGAAAAAGAATCGAATTT 17 351 0 TCAAGAAAAG 0.79734 -250 TCCTAAACAGTAAAGGACAAAGATGTCAGCGG 17 517 0 TAAAGAAAAG 0.889392 -84 TCAGGTGGACGAAACAAAAAAGCCTGTTGAAA 21 132 1 GAAAAAAAAG 0.856815 -270 GTGTATTAATGAAAAAATAAAGCCAAAAAAAT 22 25 0 GAAAAAAAAG 0.856815 -526 AGTACGCTTATAAAAAAAAAAAAAAA 22 535 1 TAAAAAAAAA 0.753799 -16 AGGACAAAGAGACAGGAAAAAGAAAAAATTAT 23 170 0 GACAGAAAAG 0.495777 -131 TGTGCAATGTGAAAGGACAAAGAGACAGGAAA 23 183 0 GAAAGAAAAG 0.901634 -118 GCCAATTGTCTCAAAAAAAAAACGTTTATGCC 24 125 0 TCAAAAAAAA 0.599693 -476 AAATTGGATGGAAAAGAGAAAAAAGGAAGGAA 24 215 0 GAAAGAAAAA 0.842424 -386 ACATTTCCCGTCAAAGATAAAGGGAGTTTGCA 24 253 1 TCAAGAAAAG 0.79734 -348 TAAATAATGCTAAATAAAAAAGCAAAAAAATA 25 108 1 TAAAAAAAAG 0.839985 -306 CAACAACTCAGAAAAAAAAAAACAAGTGAATA 25 193 0 GAAAAAAAAA 0.777291 -221 TCGGAAAAATGCAACGACAAAACCTCTAGCAG 26 246 1 GCAAGAAAAA 0.72344 -251 CTCTACTATATAAATGAAAAAATAGACTAACT 29 454 0 TAAAGAAAAA 0.824249 -102 CTTAGAATATGAAAAAAAAAAGGGG 31 4 0 GAAAAAAAAG 0.856815 -597 TAAAGAAAAATAAACAAAAAAGTATTTGATCG 31 483 1 TAAAAAAAAG 0.839985 -118 CAACTTTTTTTAAAAAAAAAAGAGAAAG 34 7 0 TAAAAAAAAG 0.839985 -506 AGACCTGGAGGAAAAAATAAAATAGAAAAATA 36 79 1 GAAAAAAAAA 0.777291 -222 GAATAAATACTAAAAAATAAAACGAAAAAGCA 36 255 1 TAAAAAAAAA 0.753799 -46 ACTTAAAAAAGAAAAGACAAAAAAGCTAAACT 40 395 1 GAAAGAAAAA 0.842424 -206 TTAAATAGAAAAAATGAAAAAGACCTTAATTG 42 458 1 AAAAGAAAAG 0.341516 -143 AGAGATTTATTAAACGAGAAAGGAAGTGAACC 43 274 1 TAAAGAAAAG 0.889392 -51 CGCAAATAATGAAAAAAAAAAAAAAATCAAAA 44 446 1 GAAAAAAAAA 0.777291 -155 GCCGCCACCAGAAAAAAAAAAGAGTAACCAAC 45 40 1 GAAAAAAAAG 0.856815 -377 TTACATACAGTAAAAGAAAAAATCTGCACAAA 45 267 0 TAAAGAAAAA 0.824249 -150 TTTATTGGTATACATGAAAAAGGCGACAACAC 46 57 1 TACAGAAAAG 0.463101 -397 **** ** **** Masking position 7 Map Score: 30.3025 Number of sites scoring better than the average of aligned sites = 1852 Number in coding regions = 911 Number in noncoding regions = 941 Number of orfs with sites within 600 bp upstream = 716 Fraction of orfs with sites within 600 bp upstream = 0.115002 Motif number 15 CTCTGCCACGTGGGTCGTTTTGCCATCGACA 2 83 1 TGGGTCGTTT 0.874731 -518 AATGAATGCTTGTGATGTCTTCCAAGTGATT 2 281 1 TGTGATGTTT 0.860552 -320 TTCTTTGCCCTGGGGCGTCTTCTTGAACGGC 16 397 1 TGGGGCGTTT 0.883249 -204 ATACAAGCGCTGTGACGTTTTAACGTATTCA 21 170 0 TGTGACGTTT 0.918572 -232 TCTGTGCAATTGTTTCGTATTATACCTCGAA 22 490 0 TGTTTCGTTT 0.874217 -61 GCTTGCGATTTGTTGTGTTTTGAAACTAGTT 29 270 1 TGTTGTGTTT 0.804657 -286 TTATGTTCCATGTTGTGTTTTCCACCAAAAA 31 267 0 TGTTGTGTTT 0.804657 -334 TCTTCTTCATTGTGTTGTATTTCTCAATGCT 32 33 0 TGTGTTGTTT 0.900346 -268 TAGAAGACAATGTGCCGTATTTACCTGTATA 34 109 0 TGTGCCGTTT 0.835574 -404 TTGAATCAATTGTTACGTTTTTGATATTGAC 35 248 0 TGTTACGTTT 0.826004 -278 CTATGCGGTGTGTGGCGTGTTTCCCTTTTAG 35 363 1 TGTGGCGTTT 0.94707 -163 AATTGCGTTTTGTGTTGTTTTGTGTATTAAG 37 489 1 TGTGTTGTTT 0.900346 -112 GCAAACGATATGTTACGTATTCCGGGTAAAA 39 367 1 TGTTACGTTT 0.826004 -132 TTATTGGGTTTGTTTTGTTTTGACCCTTTTA 40 94 0 TGTTTTGTTT 0.791757 -507 TAACTGAAGATGGGTTGTCTTATTTAGTATT 46 378 0 TGGGTTGTTT 0.792528 -76 ******** ** Masking position 8 Map Score: 2.95008 Number of sites scoring better than the average of aligned sites = 296 Number in coding regions = 201 Number in noncoding regions = 95 Number of orfs with sites within 600 bp upstream = 85 Fraction of orfs with sites within 600 bp upstream = 0.0136524