AlignACE version 2.2 July 7, 1998 AlignACE -jMCM.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 YBL023C 347 bp YBL023C mcm2 1-2607 Minichromosome maintenance protein, transcription factor #2 YBR107C 300 bp YBR107C MCM19 1-738 minichromosome maintenance #3 YDR318W 600 bp YDR318W MCM21 1-756 Involved in minichromosome maintenance #4 YEL032W 300 bp YEL032W mcm3 1-2916 Member of complex that acts at ARS's to initiate replication #5 YGL201C 600 bp YGL201C MCM6 1-3054 Member of the MCM\/P1 family of proteins involved in DNA replication #6 YJR135C 600 bp YJR135C MCM22 1-720 Required for maintenance of chromosomes and minichromosomes #7 YMR043W 600 bp YMR043W mcm1 1-861 putative transcriptional activator of alpha-specific genes #8 YPR046W 300 bp YPR046W MCM16 1-546 Required for chromosome segregation Motif number 1 AACATACGATTATGTAAACTCAAAATGACTTTATCCAT 2 61 1 TAAAAAAAGA 0.847409 -240 TTAATTTAGATGATGAAATATAAAAAAATAGGGTGGTC 2 111 1 TAAAAAAAAA 0.967754 -190 GCCGACACCGATATGAAATAGACAACAACCATAGTGGG 2 207 1 AAAAACAAAA 0.771265 -94 AACGCGCATATTTCAAAACTGAAGAAAAAACAAACAAA 3 61 1 TAAAAAGAAA 0.974018 -540 CTTAATCATTTTTTTAAAAGAAAGAAAATTGTTACAGC 3 244 0 TAAAAAGAAA 0.974018 -357 AGTCGTGAGAAGCTCAAAGCGAAGATAAAAGATAAAAG 3 329 1 AAAAAAGAAA 0.979756 -272 CGAAGATAAAAGATAAAAGAAAAAATGAGGAGAGCGCT 3 348 1 AAAAAAAAGA 0.877593 -253 GAACAAGGGAAATTGAAAAAAAAGAGAAAAATAACGAC 4 56 0 AAAAAAGAAA 0.979756 -245 AACTCGTGTTTTAGGAAAAAAAAGAAAAATTTGGTCAA 4 143 1 TAAAAAGAAA 0.974018 -158 ACCCAGTAAAAACTGAAATGCAAGATAAATAACGTAAT 5 223 0 AAAAAAGAAA 0.979756 -378 TATTGTAGATTAAAGAAAGAAAAAAAAAAAGCTTCAAG 5 467 0 TAAAAAAAAA 0.967754 -134 GGGATTCTTCAGCATAAAGGGCAAATAACTCTTTTTGT 6 15 0 AAAACAAAAA 0.932051 -586 ATTTACAGATATATTAAGGTAAAGAGAATAATGACTCG 6 96 1 AAAGAAGAAA 0.80813 -505 GGAAAACAAATTTACAAACAACAAAGAATGTCTTCTCT 6 408 0 TAAACAAAAA 0.91398 -193 ATTGAAGAAGAGGTAAAAAGGAAAACAAATTTACAAAC 6 427 0 AAAAAAAAAA 0.97484 -174 AAATTGAAGTAAGGTAAAGAAAAAAGCAGAGATTCCAG 7 169 0 AAAAAAAACA 0.877593 -432 GCCAAAACACACGTAAAAAAGCAGACAAGGCAAATTGA 7 200 0 AAAACAGAAA 0.944855 -401 CAACAACGAGTAATAAAAAAGAAAAGCAGAAACGCCAA 7 233 0 TAAAAAAACA 0.847409 -368 GTATAATGAATTAACAAACGTAAAATAAAATTGCTTGT 7 365 0 TAAAAAAAAA 0.967754 -236 AAAAAAAATGTATCAAAAAAAAAAAAAATTCAAAAATA 7 409 0 TAAAAAAAAA 0.967754 -192 CTATAACTGAATCGAAAAAAACAGACAAAACAGCGATT 7 447 0 AAAACAGAAA 0.944855 -154 AGGGAAAAAAACGGGAAAGGAAAGAGAAAAAAAAATTA 7 483 1 AAAAAAGAAA 0.979756 -118 GAGCAATAAGAAGCGAAAATCAAAAAAAAGTTTTGGAT 7 526 1 AAAAAAAAAA 0.97484 -75 * *** **** ** Masking position 7 Map Score: 33.3746 Number of sites scoring better than the average of aligned sites = 7108 Number in coding regions = 1589 Number in noncoding regions = 5519 Number of orfs with sites within 600 bp upstream = 1789 Fraction of orfs with sites within 600 bp upstream = 0.287343 Motif number 2 CAATACTAAATTCTTTCTTTTCTTCGTGAAGTATG 1 86 1 TTCTTTTCTC 0.827962 -262 GTTTCGTTTCTCGAAATTTTTCGTTGTCCTATTTT 1 205 0 TCTTTTTCGT 0.749024 -143 TATCCTATAATCTACACATTTTGGTACAGTTTACT 1 258 1 TCCATTTTGT 0.917867 -90 AAACCAGGGACCACCCTATTTTTTTATATTTCATC 2 122 0 CCTATTTTTT 0.627003 -179 CATATCGGTGTCGGCATTTTTTTTTCCCGTAGTAC 2 187 0 TCTTTTTTTT 0.920003 -114 TAGTGTTCAACTTAATCATTTTTTTAAAAGAAAGA 3 257 0 CTCATTTTTT 0.721389 -344 TTTGAGCTTCTCACGACTTTCTTCTAATGAATTGA 3 312 0 TCCTTTCTTT 0.73884 -289 GGATTAGCGCTCTCCTCATTTTTTCTTTTATCTTT 3 356 0 TCCATTTTTC 0.921259 -245 ATTCTCCAGCTTAGCTCTTTTCTTTGGTTCATACG 3 531 0 TTCTTTTCTT 0.884726 -70 TTGTCGTTATTTTTCTCTTTTTTTTCAATTTCCCT 4 54 1 TTCTTTTTTT 0.946565 -247 TTGACCAAATTTTTCTTTTTTTTCCTAAAACACGA 4 146 0 TTTTTTTTTC 0.749447 -155 AATTGACGTTTGTATCTTTTTGGTGCGCTTATAG 4 277 0 TTCTTTTTGT 0.913867 -24 ATTCCAGTTCTCATAACATTTGTGTACCTATTCTT 5 349 1 TCCATTTGTT 0.608475 -252 TAGGCCTTTCTTGAAGCTTTTTTTTTTTCTTTCTT 5 458 1 TTCTTTTTTT 0.946565 -143 ATTGACAGACTCAACACATTTTTTGAAGCATATAT 6 260 1 TCCATTTTTG 0.629626 -341 TGGATTGACATCTGGACTTTTTGTTTGGAGTTCTC 6 306 1 TCCTTTTTGT 0.962377 -295 GTACAGTACGCCCTAGCTTTTTGGTAAGTATTTGG 7 135 0 CCCTTTTTGT 0.895377 -466 TGTACTGGAATCTCTGCTTTTTTCTTTACCTTACT 7 165 1 TCCTTTTTTT 0.977121 -436 TGTTTTGGCGTTTCTGCTTTTCTTTTTTATTACTC 7 229 1 TTCTTTTCTT 0.884726 -372 TTTCCTATTCTCACCACTTTTTTCTGGAAAAATAC 7 322 1 TCCTTTTTTT 0.977121 -279 TGATAATATTTTTGAATTTTTTTTTTTTTTGATAC 7 403 1 TTTTTTTTTT 0.826694 -198 TTTTTTTTTTTTGATACATTTTTTTTAATCGCTGT 7 421 1 TTCATTTTTT 0.885571 -180 CGCTGTTTTGTCTGTTTTTTTCGATTCAGTTATAG 7 450 1 TCTTTTTCGT 0.749024 -151 TCTCTTTCCTTTCCCGTTTTTTTCCCTATAACTGA 7 475 0 TTTTTTTTTC 0.749447 -126 TTGCTCTGCACTAATTTTTTTTTCTCTTTCCTTTC 7 497 0 CTTTTTTTTT 0.614782 -104 TCTTGCAGATCCAAAACTTTTTTTTGATTTTCGCT 7 537 0 CCCTTTTTTT 0.934591 -64 GACAGCCAAATCTCTATTTTTTGTCATGTTCAGTC 8 136 1 TCTTTTTTGC 0.812006 -165 TTTGTCATGTTCAGTCCTTTTTTACTCAAAAATTC 8 155 1 TCCTTTTTTC 0.964003 -146 TCTAGATACTTCTAACCATTTCTTCCTGTCGTGGG 8 255 1 TCCATTTCTC 0.835232 -46 CGTGGGGAGTTCATACCATTTTGACAG 8 284 1 TCCATTTTGC 0.875119 -17 ** ******* * Masking position 9 Map Score: 27.3402 Number of sites scoring better than the average of aligned sites = 8349 Number in coding regions = 3790 Number in noncoding regions = 4559 Number of orfs with sites within 600 bp upstream = 2475 Fraction of orfs with sites within 600 bp upstream = 0.397527 Motif number 3 ACGAAACCAGAAAGTAAATGGTGAATATCCT 1 233 1 AAAGAAATGG 0.905402 -115 GTACTACGGGAAAAAAAAATGCCGACACCGA 2 187 1 AAAAAAAATG 0.814236 -114 TTTTTAAAAGAAAGAAAATTGTTACAGCCTC 3 241 0 AAAGAAATTG 0.974574 -360 TAAAAGATAAAAGAAAAAATGAGGAGAGCGC 3 354 1 AAGAAAAATG 0.766449 -247 TCTGACGAACAAGGGAAATTGAAAAAAAAGA 4 69 0 AAGGAAATTG 0.966329 -232 CCCATTTAGGAAAAGTAATTGTTTCTTCTAC 4 108 0 AAAATAATTG 0.69909 -193 TAGGAAAAAAAAGAAAAATTTGGTCAAAACT 4 154 1 AAGAAAATTT 0.87804 -147 CTTTTCCTAAAAAGGAAATTTAATAGACGAA 5 420 0 AAAGAAATTT 0.931343 -181 ACACTTCCAAAAAGGAAATTGCTACTTTCTT 6 348 0 AAAGAAATTG 0.974574 -253 GGTAAAAAGGAAAACAAATTTACAAACAACA 6 423 0 AAAAAAATTT 0.905759 -178 GCTGAACAGAAAGGGAAATTTCCTGCGGCCC 7 63 0 AAGGAAATTT 0.91042 -538 AAAAGCAGACAAGGCAAATTGAAGTAAGGTA 7 191 0 AAGGAAATTG 0.966329 -410 AACAAACGTAAAATAAAATTGCTTGTTAGGC 7 360 0 AAATAAATTG 0.810583 -241 TATCAAAAAAAAAAAAAATTCAAAAATATTA 7 406 0 AAAAAAATTC 0.778564 -195 AACAGCGATTAAAAAAAATGTATCAAAAAAA 7 426 0 AAAAAAATGT 0.705972 -175 AGGAAAGAGAAAAAAAAATTAGTGCAGAGCA 7 500 1 AAAAAAATTA 0.703463 -101 **** ****** Masking position 7 Map Score: 10.2544 Number of sites scoring better than the average of aligned sites = 1526 Number in coding regions = 956 Number in noncoding regions = 570 Number of orfs with sites within 600 bp upstream = 406 Fraction of orfs with sites within 600 bp upstream = 0.0652104 Motif number 4 TCATATGCCTTTTTTAGGAAATCTAATTACT 1 166 1 TTTTTAGAAA 0.96586 -182 TGTGGAGTATTATTAAGTAAACTGTACCAAA 1 277 0 TATTAAGAAA 0.694275 -71 TGTGTTATACTTCTTAGAAAAGAGGCAAAGA 1 312 0 TTCTTAGAAA 0.958805 -36 CACATACTTTCACTGAGTAAAGATTCAATGT 3 205 0 CACTGAGAAA 0.754906 -396 AGTTTTTACCCATTTAGGAAAAGTAATTGTT 4 116 0 CATTTAGAAA 0.836033 -185 AAAAACTCGTGTTTTAGGAAAAAAAAGAAAA 4 140 1 GTTTTAGAAA 0.829283 -161 ATCTTTCGAGTTTTGACCAAATTTTTCTTTT 4 162 0 TTTTGACAAA 0.787337 -139 GTTTCCCAAGTTGTTAGCAAACTGTATTGAT 5 12 0 TTGTTAGAAA 0.924053 -589 TTAAATTTCCTTTTTAGGAAAAGCGCCTAAT 5 428 1 TTTTTAGAAA 0.96586 -173 AAAGTGCCTCTTTTGAGAAAAATTACTCAAA 7 26 0 TTTTGAGAAA 0.95061 -575 CATCTCCAAATACTTACCAAAAAGCTAGGGC 7 130 1 TACTTACAAA 0.704604 -471 GTATGTATAATACTTAGAAAATGATTTACAA 7 268 0 TACTTAGAAA 0.929957 -333 CTCCGTGGTATTGTTAGTAAAGTGACCGTAA 8 23 1 TTGTTAGAAA 0.924053 -278 GGTTTGGAATTTTTGAGTAAAAAAGGACTGA 8 165 0 TTTTGAGAAA 0.954007 -136 ******* *** Masking position 6 Map Score: 7.17402 Number of sites scoring better than the average of aligned sites = 947 Number in coding regions = 630 Number in noncoding regions = 317 Number of orfs with sites within 600 bp upstream = 244 Fraction of orfs with sites within 600 bp upstream = 0.0391905 Motif number 5 CTTCACGAAGAAAAGAAAGAATTTAGTATT 1 87 0 AAAAGAAAGA 0.837323 -261 CGAAGAAAATAGGACAACGAAAAATTTCGA 1 200 1 AGGACAACGA 0.840474 -148 ATCGCGCTTCAGGAAAACCAGGGACCACCC 2 141 0 AGGAAAACCA 0.607454 -160 TATGAAATAGACAACAACCATAGTGGGATG 2 218 1 ACAACAACCA 0.952366 -83 ATAGACAATCAAATCAACCATGCAGTCGAC 2 253 0 AAATCAACCA 0.582428 -48 AACTGAAGAAAAAACAAACAAAAGCCATAT 3 77 1 AAAACAAACA 0.957382 -524 TCATTTTTTTAAAAGAAAGAAAATTGTTAC 3 247 0 AAAAGAAAGA 0.837323 -354 AGGGAAATTGAAAAAAAAGAGAAAAATAAC 4 59 0 AAAAAAAAGA 0.80997 -242 TCGAGGCGGTAGAAGAAACAATTACTTTTC 4 100 1 AGAAGAAACA 0.781669 -201 GTGTTTTAGGAAAAAAAAGAAAAATTTGGT 4 148 1 AAAAAAAAGA 0.80997 -153 TTACTATTCGTCGACAAACAATAGCTTGTT 5 316 1 TCGACAAACA 0.687093 -285 TGAAAAAAACCAGTTTTAACCT 5 589 0 AAAAAAACCA 0.813115 -12 TTCACACAGTTAGACAAACATTGCTCTTCT 6 210 1 TAGACAAACA 0.669333 -391 AAATTTACAAACAACAAAGAATGTCTTCTC 6 409 0 ACAACAAAGA 0.951424 -192 ATGCAGCGTAACAACAAACAAGACGCATAT 6 531 1 ACAACAAACA 0.960583 -70 GACGCATATGACGACAAAGAGGGACAAGAG 6 552 1 ACGACAAAGA 0.925711 -49 AAAATGATTTACAACAACGAGTAATAAAAA 7 252 0 ACAACAACGA 0.941415 -349 TGAATCGAAAAAAACAGACAAAACAGCGAT 7 448 0 AAAACAGACA 0.715888 -153 ********** Masking position 6 Map Score: 6.74555 Number of sites scoring better than the average of aligned sites = 2388 Number in coding regions = 1723 Number in noncoding regions = 665 Number of orfs with sites within 600 bp upstream = 539 Fraction of orfs with sites within 600 bp upstream = 0.0865724 Motif number 6 CCATTTACTTTCTGGTTTCGTTTCTCGAAATTTTTC 1 218 0 TTGTTCTCTC 0.988745 -130 TCCATATGGCTTTTGTTTGTTTTTTCTTCAGTTTTG 3 74 0 TTTTTGTTTC 0.766103 -527 TCTTGTACTATAGGATTAGCGCTCTCCTCATTTTTT 3 367 0 TGGTTGTCTC 0.984264 -234 CAGTTTTTACTGGGTTTACCCTTTTCGCGATTTATA 5 246 1 TGGTTCTTTC 0.96389 -355 AATAGCTTGTTTTGATTCCAGTTCTCATAACATTTG 5 335 1 TTGTTCTCTC 0.988745 -266 ATCTGGACTTTTTGTTTGGAGTTCTCTCCCTCCAAG 6 315 1 TTGTTGTCTC 0.988745 -286 TCTATCAACGTCTGATTTGGCCTCCCTTGATGACAC 6 375 0 TTGTTGTCCC 0.948242 -226 TGTTTGTAAATTTGTTTTCCTTTTTACCTCTTCTTC 6 426 1 TTGTTCTTTA 0.766103 -175 CTTTTTTACGTGTGTTTTGGCGTTTCTGCTTTTCTT 7 217 1 TTGTTGTTTC 0.974019 -384 GCATACCCAATCGGTTTCCTATTCTCACCACTTTTT 7 308 1 TGGTTCTCTC 0.984264 -293 * ** ** * **** Masking position 7 Map Score: 5.55872 Number of sites scoring better than the average of aligned sites = 333 Number in coding regions = 236 Number in noncoding regions = 97 Number of orfs with sites within 600 bp upstream = 87 Fraction of orfs with sites within 600 bp upstream = 0.0139737 Motif number 7 TTTCTGGTTTCGTTTCTCGAAATTTTTCGT 1 216 0 CGTTTCTCGA 0.909213 -132 TTCACCATTTACTTTCTGGTTTCGTTTCTC 1 228 0 ACTTTCTGGT 0.86548 -120 AAATCCCATGCTGGTTGATAACTTG 2 6 1 CCATGCTGGT 0.909194 -295 TTATGAAAGACCTCTCTCGAACATACGATT 2 42 1 CCTCTCTCGA 0.836723 -259 ACGGTATTGGCGTTGCTGGTATATCCGCTT 3 504 0 CGTTGCTGGT 0.938313 -97 TCTTTAAAACCCATTCTTGTTCTGGTAAAA 3 573 0 CCATTCTTGT 0.848398 -28 TTTCAATTTCCCTTGTTCGTCAGATCGAGG 4 76 1 CCTTGTTCGT 0.783147 -225 ATGACACTTCCCTTACTGGAAAATCGAATT 5 103 0 CCTTACTGGA 0.884522 -498 GTGCTGTTATCCTTTCTTGTGTTTTATACG 5 176 1 CCTTTCTTGT 0.967556 -425 GCCTAATAGGCCTTTCTTGAAGCTTTTTTT 5 452 1 CCTTTCTTGA 0.944473 -149 GTAGCAATTTCCTTTTTGGAAGTGTCATCA 6 354 1 CCTTTTTGGA 0.875025 -247 AGGAAATTTCCCTTTCTGTTCAGCACCTGT 7 70 1 CCTTTCTGTT 0.874398 -531 TGTGTTTTGGCGTTTCTGCTTTTCTTTTTT 7 227 1 CGTTTCTGCT 0.746283 -374 TTTTCTCTTTCCTTTCCCGTTTTTTTCCCT 7 483 0 CCTTTCCCGT 0.899849 -118 ********** Masking position 4 Map Score: 3.57388 Number of sites scoring better than the average of aligned sites = 1755 Number in coding regions = 1370 Number in noncoding regions = 385 Number of orfs with sites within 600 bp upstream = 336 Fraction of orfs with sites within 600 bp upstream = 0.0539672 Motif number 8 TTAGAAAAGAGGCAAAGAGGTGTGTGGAGT 1 300 0 GGCAAAGAGG 0.943018 -48 TTGTACTATAGGATTAGCGCTCTCCTCATT 3 371 0 GGATTAGCGC 0.86592 -230 TATGAACCAAAGAAAAGAGCTAAGCTGGAG 3 533 1 AGAAAAGAGC 0.883643 -68 AACCTGCGCGGGCAAAGCCCAAAAGATTTC 4 12 0 GGCAAAGCCC 0.896718 -289 AATGCTTCAAGGAAAAGAGCGTAGGCCTTT 4 219 0 GGAAAAGAGC 0.988626 -82 ACACAAGAAAGGATAACAGCACTATCATGC 5 168 0 GGATAACAGC 0.910003 -433 TTCCTTTTTAGGAAAAGCGCCTAATAGGCC 5 434 1 GGAAAAGCGC 0.989493 -167 CGACAAAGAGGGACAAGAGCAAACGGCAGA 6 563 1 GGACAAGAGC 0.988397 -38 AATTTCCTGCGGCCCAGCGCAAAAGTGCCT 7 48 0 GGCCCAGCGC 0.938857 -553 GCTTAATATAGGACAACAGGTGCTGAACAG 7 85 0 GGACAACAGG 0.858997 -516 ********** Masking position 6 Map Score: 3.69739 Number of sites scoring better than the average of aligned sites = 587 Number in coding regions = 424 Number in noncoding regions = 163 Number of orfs with sites within 600 bp upstream = 134 Fraction of orfs with sites within 600 bp upstream = 0.0215226 Motif number 9 GTAGATTATAGGATATTCACCATTTACTTTC 1 242 0 GGATATTCAC 0.846359 -106 GTAGAATCGATGATTTACAGCAGGACATTGA 3 181 1 TGATTTACAC 0.930747 -420 CCTTGATATGTCCTTGTCATCTGTCTCTTCC 3 469 0 TCCTTGTCAC 0.858163 -132 AAGAGCGTAGGCCTTTTCAACTTGAAAGAAG 4 204 0 GCCTTTTCAC 0.895562 -97 TTTCCTTGAAGCATTTTCATCCTACTGCTCG 4 234 1 GCATTTTCAC 0.95716 -67 TCGCTATTTGGTATTGTCATCTAAGTTCGTC 5 395 1 GTATTGTCAC 0.930106 -206 CATTCTTAAGTGATTTACAGCGAGTATCTTA 5 519 1 TGATTTACAC 0.930747 -82 ACTAATATCAGGATTGTGAACGGGTTGCAAA 6 166 0 GGATTGTGAC 0.871704 -435 GTGAATTGATGGATTGACATCTGGACTTTTT 6 297 1 GGATTGACAC 0.971674 -304 ACTTAGAAAATGATTTACAACAACGAGTAAT 7 257 0 TGATTTACAC 0.930747 -344 CGGCTATCATTTATTGTCAACATGCATCATC 8 202 0 TTATTGTCAC 0.874948 -99 ********* * Masking position 9 Map Score: 2.31984 Number of sites scoring better than the average of aligned sites = 1009 Number in coding regions = 839 Number in noncoding regions = 170 Number of orfs with sites within 600 bp upstream = 136 Fraction of orfs with sites within 600 bp upstream = 0.0218439 Motif number 10 ATAGTGGGATGATCTGGTCGACTGCATGGT 2 237 1 GATCTGGTCG 0.929524 -64 CTGCATGGTTGATTTGATTGTCTATAGGTA 2 258 1 GATTTGATTG 0.938111 -43 ATCTATCATAGAATTGGTCGG 3 2 0 GAATTGGTCG 0.980259 -599 TTCTTCTAATGAATTGACTGTGAAGATTCT 3 299 0 GAATTGACTG 0.936938 -302 TCAACTGTGGGAATTGATCGAATAGATCTT 3 408 0 GAATTGATCG 0.969046 -193 ATATATTAGTGAATTGATGGATTGACATCT 6 289 1 GAATTGATGG 0.898902 -312 ATCAACGTCTGATTTGGCCTCCCTTGATGA 6 378 0 GATTTGGCCT 0.844606 -223 AAAAAATAGAGATTTGGCTGTCTCGTAAAG 8 128 0 GATTTGGCTG 0.959294 -173 ********** Masking position 2 Map Score: 1.10147 Number of sites scoring better than the average of aligned sites = 722 Number in coding regions = 649 Number in noncoding regions = 73 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 11 CAGTAGGATGAAAATGCTTCAAGGAAAAGAGCGTA 4 226 0 AAAACAAGGA 0.950964 -75 GATATCGTATAAAACACAAGAAAGGATAACAGCAC 5 176 0 AAAACAAAGG 0.920961 -425 AATGCAAGATAAATAACGTAATGGGGTGATGTATG 5 210 0 AAATCATGGG 0.946759 -391 AATATGATATAAATCGCGAAAAGGGTAAACCCAGT 5 254 0 AAATCAAGGG 0.991213 -347 TCCTTTTTGGAAGTGTCATCAAGGGAGGCCAAATC 6 363 1 AAGTCAAGGG 0.989367 -238 AAACGGCAGAAAGTCTCACAAAGGAAAC 6 583 1 AAGTCAAGGA 0.968249 -18 CTTTTGAGAAAAATTACTCAAAGGGGGACACTCCG 7 13 0 AAATCAAGGG 0.991213 -588 GTTATAGGGAAAAAAACGGGAAAGGAAAGAGAAAA 7 478 1 AAAACAAAGG 0.920961 -123 ATTGTTAGTAAAGTGACCGTAAGGATTCTGCATAA 8 32 1 AAGTCAAGGA 0.968249 -269 **** * ***** Masking position 11 Map Score: 5.04132 Number of sites scoring better than the average of aligned sites = 226 Number in coding regions = 148 Number in noncoding regions = 78 Number of orfs with sites within 600 bp upstream = 71 Fraction of orfs with sites within 600 bp upstream = 0.0114038 Motif number 12 AGGTATTTAATCCATTTAGATGAAAAG 1 4 0 TCCTAATGAA 0.890654 -344 TCCATCCAAAGGAAGTACGTTGAT 2 287 0 TCCTAAGGAA 0.981247 -14 TTAGGCGCTTTTCCTAAAAAGGAAATTTAATAGA 5 424 0 TTCTAAGGAA 0.602331 -177 CACTTCGCCACCGGTGGATAGGAAAAATAGACTT 5 550 1 CCGTAAGGAA 0.930015 -51 GAGTTATTTGCCCTTTATGCTGAAGAATCCCTTT 6 22 1 CCCTTCTGAA 0.795649 -579 GCTGAAGAATCCCTTTTAAAGAAACCTTGGACAT 6 40 1 CCCTAAGAAA 0.899656 -561 TTGCAAAACACCCGTTAATATGAAACCGATTTAT 6 139 0 CCCTAATGAA 0.984673 -462 CTTCAATACTTCCATATAAATGAATGTTTCCATC 6 458 1 TCCTAATGAA 0.890654 -143 CCCGTTTTTTTCCCTATAACTGAATCGAAAAAAA 7 464 0 TCCTACTGAA 0.940248 -137 GGTATGAACTCCCCACGACAGGAAGAAATGGTTA 8 267 0 CCCAAAGGAA 0.935228 -34 *** * * ***** Masking position 13 Map Score: 2.4371 Number of sites scoring better than the average of aligned sites = 438 Number in coding regions = 305 Number in noncoding regions = 133 Number of orfs with sites within 600 bp upstream = 117 Fraction of orfs with sites within 600 bp upstream = 0.0187922 Motif number 13 TAGATTTCCTAAAAAAGGCATATGATAAAT 1 161 0 AAAAAAGGCA 0.944476 -187 TACTTCTTAGAAAAGAGGCAAAGAGGTGTG 1 306 0 AAAAGAGGCA 0.984216 -42 TGAACCAAAGAAAAGAGCTAAGCTGGAGAA 3 535 1 AAAAGAGCTA 0.883145 -66 GAACGGCAAAAGAATAGGTACACAAATGTT 5 363 0 AGAATAGGTA 0.856345 -238 ATAAACAAAAAGAGTTATTTGCCCTTT 6 8 1 AAAAGAGTTA 0.836044 -593 GAAGTATTGAAGAAGAGGTAAAAAGGAAAA 6 440 0 AGAAGAGGTA 0.974705 -161 AATTTTTCTCAAAAGAGGCACTTTTGCGCT 7 33 1 AAAAGAGGCA 0.984216 -568 GTAAAAAAGCAGACAAGGCAAATTGAAGTA 7 196 0 AGACAAGGCA 0.815785 -405 ********** Masking position 6 Map Score: 1.37803 Number of sites scoring better than the average of aligned sites = 959 Number in coding regions = 611 Number in noncoding regions = 348 Number of orfs with sites within 600 bp upstream = 288 Fraction of orfs with sites within 600 bp upstream = 0.0462576 Motif number 14 ********** No masking Map Score: 1.33038e-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 15 ********** No masking Map Score: 1.33038e-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