AlignACE version 2.2 July 7, 1998 AlignACE -jSNF.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 YBR289W 300 bp YBR289W SNF5 1-2718 subunit of the chromatin remodeling Snf\/Swi complex #2 YDL194W 550 bp YDL194W snf3 1-2655 glucose transporter #3 YDR073W 600 bp YDR073W SNF11 1-510 component of SWI\/SNF global transcription activator complex #4 YDR477W 600 bp YDR477W snf1 1-1902 protein serine\/threonine kinase #5 YGL115W 391 bp YGL115W SNF4 1-969 associates with Snf1p #6 YHL025W 600 bp YHL025W SNF6 1-999 subunit of the chromatin remodeling Snf\/Swi complex #7 YLR025W 600 bp YLR025W snf7 1-723 involved in derepression of SUC2 in response to glucose limitation #8 YNR023W 300 bp YNR023W SNF12 1-1701 73 kDa subunit of the SWI\/SNF transcription activation complex, homolog of Rsc6p subunit of the RSC chromatin remodeling complex #9 YOR290C 600 bp YOR290C snf2 1-5112 transcriptional regulator #10 YPL002C 300 bp YPL002C SNF8 1-702 appears to be functionally related to SNF7 Motif number 1 GGACTTGGGCAACAACAGAGGCTGTAAACCT 1 128 0 AACAACAAGG 0.887362 -173 ACATAATAAGAAAAAAACAAGGCCAATACGC 2 42 0 AAAAAAAAAG 0.971499 -509 TGTACATGGTAAAAACATAAGGGAAAGGCTG 2 198 0 AAAAACAAAG 0.906449 -353 TTTATTGAAGAAAAACAGAGAGAGTCACTAT 2 430 1 AAAAACAAGA 0.699158 -121 CAATCATCAAAAAAAAACAGGTAGAAGAAGG 3 353 0 AAAAAAAAGG 0.980433 -248 AAGTAACTTCAAAAAAAGAGGAATTGCGTGG 4 69 1 AAAAAAAAGG 0.980433 -532 GCCTGAAAAAAAAAAAAAAAGCACGACAATA 4 459 1 AAAAAAAAAG 0.971499 -142 AATCATAGCGAAAGAAATAGAAGTTTTTTTT 4 542 1 AAAGAAAAGA 0.870169 -59 TAAAATAAAAAAAATAAAAGTTCATGTC 5 8 1 AAAAAAAAAA 0.8476 -384 AAGAAAGAAAGAGGAGAAATTGGT 6 4 1 AAAGAAAAGG 0.976234 -597 AAAACAGGAAAAAAAAATAGTGCAGTCCACA 6 130 0 AAAAAAAAGT 0.713053 -471 ACAAAAGTGGAAAAAAACAGGAAAAAAAAAT 6 143 0 AAAAAAAAGG 0.980433 -458 GAAAAACCGCAAAGAAAAAAGTAAACTTATC 6 203 1 AAAGAAAAAG 0.96545 -398 GTTGAGAAGCAACGAAACAAGGTTTGATCCA 6 509 1 AACGAAAAAG 0.93923 -92 CAACCGCATCAAAGAAAGAGGTAGATAGCTT 7 158 1 AAAGAAAAGG 0.976234 -443 CTAAATAACGAACGAAACAGGTCGACCAAAG 8 87 0 AACGAAAAGG 0.957841 -214 TGCAATAATAAACAAAAAAAATACAAAATAA 8 207 1 AACAAAAAAA 0.75467 -94 TTAAACCAAAAACAAAATAAGACAACTCTAA 8 248 1 AACAAAAAAG 0.94963 -53 CTAATAAAAAAAGCTATAGAGCC 9 3 1 AATAAAAAAG 0.744678 -598 GTTTCAATAAAAAGAAAAAAGCGAATATTTC 9 54 0 AAAGAAAAAG 0.96545 -547 AGTAATTGAAAAAAAAAGAAGAAGACATGAT 9 156 1 AAAAAAAAAG 0.971499 -445 ******* *** Masking position 5 Map Score: 30.7924 Number of sites scoring better than the average of aligned sites = 2766 Number in coding regions = 827 Number in noncoding regions = 1939 Number of orfs with sites within 600 bp upstream = 1221 Fraction of orfs with sites within 600 bp upstream = 0.196113 Motif number 2 ATTTATGTACTTATCCTTTTATGTTTAAAC 2 94 1 TTATCCTTTT 0.891998 -457 AATACCTCTTATATCTTTTTTACAGCCTTT 2 176 1 ATATCTTTTT 0.680226 -375 TCAGTAAAACTTTTCTGTTTTAATTTCTAT 2 475 0 TTTTCTGTTT 0.841979 -76 GAAGTAATCTTTAGCCGTTTATCGCCGCGC 3 22 1 TTAGCCGTTT 0.943166 -579 CTCAAGTGCAATTGCCGTTTTGCGCGGCGA 3 43 0 ATTGCCGTTT 0.94081 -558 GGCAAATTTTTTTTCCTTTTTTCTCCTAAC 3 410 1 TTTTCCTTTT 0.928188 -191 TCGTAGTAAGATTGCCGTTTATGATACCCT 3 491 1 ATTGCCGTTT 0.94081 -110 AAACACACAGATTTCCTTTTTTCCCAGAAA 3 580 1 ATTTCCTTTT 0.887774 -21 TATGTATTTTCCTTTTCGCTTCCTCC 5 376 0 TTTTCCTTTT 0.928188 -16 TACTTTTTTCTTTGCGGTTTTTCCCGCTTT 6 196 0 TTTGCGGTTT 0.770796 -405 ACGCTTTTCTTTCGCCTTTTTCGCCTTTAG 6 551 0 TTCGCCTTTT 0.943198 -50 CGTTATTTAGTTAGCCTTTTATATTCCTTA 8 108 1 TTAGCCTTTT 0.944262 -193 GCCCTTTGAGTTTGCTTTTTCATCGGAAAG 8 158 1 TTTGCTTTTT 0.917744 -143 AATCCGTTAGATCTCTGTTTGACAGCTTTA 8 276 0 ATCTCTGTTT 0.671319 -25 AAAAGGCTCTATAGCTTTTTTTATTAG 9 8 0 ATAGCTTTTT 0.813548 -593 TGTTGAAATATTCGCTTTTTTCTTTTTATT 9 50 1 TTCGCTTTTT 0.874811 -551 ********** Masking position 8 Map Score: 10.5881 Number of sites scoring better than the average of aligned sites = 2294 Number in coding regions = 1436 Number in noncoding regions = 858 Number of orfs with sites within 600 bp upstream = 703 Fraction of orfs with sites within 600 bp upstream = 0.112914 Motif number 3 ATCACTGATACAAAGAACAAACTTATTTTC 1 60 0 CAAAGAACAA 0.98043 -241 AATTTTTGGTCAAAGAACAAGAAGAGATTT 1 179 0 CAAAGAACAA 0.98043 -122 TCGCACATTCTAAAGAACAAAAGGAGGAGG 2 271 1 TAAAGAACAA 0.863734 -280 AGAAATTTAGCAAATAACAAAATTTAGGCC 5 202 1 CAAATAACAA 0.976315 -190 TCGTATACAGCAAATATCAATGAAGGAATG 6 82 1 CAAATATCAA 0.885521 -519 GGAAAAACCGCAAAGAAAAAAGTAAACTTA 6 202 1 CAAAGAAAAA 0.853342 -399 ATATTATACTCGAATAACAACCATTTATAG 7 126 0 CGAATAACAA 0.922869 -475 TCAACCGCATCAAAGAAAGAGGTAGATAGC 7 157 1 CAAAGAAAGA 0.728087 -444 AAGTATGCGGCATATAACAATATGACAAGT 7 277 0 CATATAACAA 0.885521 -324 TAAAATGATGCATATAACAAAAGCTATGTA 7 411 0 CATATAACAA 0.885521 -190 AAAGGCTAACTAAATAACGAACGAAACAGG 8 97 0 TAAATAACGA 0.705891 -204 TTTTTCATCGGAAAGAACAAATGAACTAAA 8 173 1 GAAAGAACAA 0.841963 -128 GTTTGAAAGACAAATATCAACAAATTGATT 9 391 1 CAAATATCAA 0.885521 -210 ATATTGTCTTCGAATAACGAATTTATTAGA 10 132 0 CGAATAACGA 0.8463 -169 ********** Masking position 6 Map Score: 9.68532 Number of sites scoring better than the average of aligned sites = 1560 Number in coding regions = 1191 Number in noncoding regions = 369 Number of orfs with sites within 600 bp upstream = 298 Fraction of orfs with sites within 600 bp upstream = 0.0478638 Motif number 4 TGTTGTTGCCCAAGTCCTGTTATCGCCAACT 1 142 1 CAATCCTGTT 0.925231 -159 ACTTTAAATAAATCTCTTCTTGTTCTTTGAC 1 170 1 AATTCTTCTT 0.883963 -131 CAAAACCAACCAATACCTCTTATATCTTTTT 2 165 1 CAAACCTCTT 0.915332 -386 TTATAAATTCTTCTTTCTATGCCAA 2 536 0 AAATCTTCTT 0.922612 -15 CAAATTATAGCAAGCCTTCTTCTACCTGTTT 3 339 1 CAACCTTCTT 0.940805 -262 CGCCGCCACGCAATTCCTCTTTTTTTGAAGT 4 74 0 CAATCCTCTT 0.964465 -527 TCTTTTTTCACATTTCCTCTTACTGCGCATT 4 379 1 CATTCCTCTT 0.945484 -222 GGGAGTGTAGCAAAACTTGTTACAAAAAAAA 4 566 0 CAAACTTGTT 0.87034 -35 CTTTCTGGATCAAACCTTGTTTCGTTGCTTC 6 514 0 CAACCTTGTT 0.878732 -87 TTTTTTTTTCAATTACTTGTTAGTTCTTAGT 9 142 0 AATACTTGTT 0.58044 -459 TCTTCTTCATCATGTCTTCTTCTTTTTTTTT 9 164 0 CATTCTTCTT 0.95938 -437 TTTTGCTCACTAATTCTTCTTCATCATGTCT 9 178 0 TAATCTTCTT 0.783718 -423 GTACGTCACAAATATCTTCTTTATTGAGACT 9 479 0 AATTCTTCTT 0.883962 -122 *** ******* Masking position 2 Map Score: 5.74718 Number of sites scoring better than the average of aligned sites = 1309 Number in coding regions = 1088 Number in noncoding regions = 221 Number of orfs with sites within 600 bp upstream = 188 Fraction of orfs with sites within 600 bp upstream = 0.030196 Motif number 5 TTACAGCCTCTGTTGTTGCCCAAGTCCTGTTATC 1 132 1 TGTTGTTCAG 0.867558 -169 AGTACTGTAGGCTTGTTACCAGAACTTTCATTTA 4 336 1 GCTTGTTCAA 0.982321 -265 AATATATAGAGGCTGTTTCAATAATCATAGCGAA 4 520 1 GGCTGTTCAA 0.988881 -81 GTGTAGCAAAACTTGTTACAAAAAAAAACTTCTA 4 559 0 ACTTGTTCAA 0.878162 -42 TTTATGCCCTGCTTGTTCCAGTATTCGCATTCGT 6 291 0 GCTTGTTCAT 0.908743 -310 CATGCACCACGGTTGTTCCGTCAAACGGTCAGAA 6 426 1 GGTTGTTCAA 0.990811 -175 AATAGTGATAGGCTGTTACCCGAATACCGTTGTT 9 338 1 GGCTGTTCAA 0.988881 -263 TCAGCTATTCTGTTGTTTCTCTAATCGCGACTTT 9 542 1 TGTTGTTCAA 0.961032 -59 TTTCGAAGTTGGCTGTTACGCCAAGCATTTTCAA 10 268 0 GGCTGTTCAA 0.988881 -33 ******* * ** Masking position 7 Map Score: 3.60475 Number of sites scoring better than the average of aligned sites = 117 Number in coding regions = 92 Number in noncoding regions = 25 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 6 AAGAACAAACTTATTTTCCAGTATCTTTTAGGTG 1 44 0 TTATTTTCGT 0.962637 -257 GAGGATAGGACTATTGTCTAGTTTTTCTCAGTAT 2 338 0 CTATTGTCGT 0.951753 -213 TGAAACCACCCTCTTTTCACGTTTCTTCAAGGCC 3 208 1 CTCTTTTCGT 0.975919 -393 TTATGATACCCTCTATTCAGGGCTCAGAGCGCAT 3 509 1 CTCTATTCGT 0.824379 -92 GCTTTTTTTTTTTTTTTCAGGCTTCAATCTATTG 4 447 0 TTTTTTTCGT 0.890611 -154 GAAACAATTTCTATTGTCGTGCTTTTTTTTTTTT 4 467 0 CTATTGTCGT 0.951753 -134 AAGATTGATACAATTTTCCAGTTTGCAGCAAAAC 5 304 0 CAATTTTCGT 0.957756 -88 CTGCACTATTTTTTTTTCCTGTTTTTTTCCACTT 6 136 1 TTTTTTTCGT 0.890611 -465 GTAATGTAATTGATTTTCACGGATAAGTTTACTT 6 221 0 TGATTTTCGT 0.857543 -380 TTCGTTTACTTACTTTTCTTGTTTGGATCTTGCC 6 262 0 TACTTTTCGT 0.879616 -339 TGCAGGTAGCCAATTTTCGCGTATATATACTAGG 9 279 1 CAATTTTCGT 0.957756 -322 CGACTTTCTGCTATTTTCACGACTTTCGATTAAT 9 569 1 CTATTTTCGT 0.982735 -32 ******** * * Masking position 7 Map Score: 5.34881 Number of sites scoring better than the average of aligned sites = 544 Number in coding regions = 365 Number in noncoding regions = 179 Number of orfs with sites within 600 bp upstream = 153 Fraction of orfs with sites within 600 bp upstream = 0.0245744 Motif number 7 AACAAGGCCAATACGCCACTTTTTGTACTGAAAGT 2 23 0 ACCCTTTTTG 0.932462 -528 TCTTTTTTACAGCCTTTCCCTTATGTTTTTACCAT 2 189 1 ACTCCTTATG 0.860455 -362 TAATTGACAGTTCCTCCTCCTTTTGTTCTTTAGAA 2 278 0 TCCCCTTTTG 0.98157 -273 ATGCCAACAAAGGCATATCCTTCTGTTTAAAAAGG 2 508 0 ACTCCTTCTG 0.96986 -43 TCCCATCATCACGCCCATCCTTTTGCATCCACGCC 4 101 0 ACCCCTTTTG 0.98157 -500 CGTTAAAAATTTCCATCCCCTTCCGCTACGAGAAA 4 229 0 TCTCCTTCCG 0.835399 -372 TTGGCCCCTATAACGCTACCTGTTGATGTGCCATA 4 284 0 TCCCCTGTTG 0.885962 -317 ATTGTTTCAGTGTCATTGGCTTTTGATAATATATA 4 493 1 TCTGCTTTTG 0.887296 -108 TGTATACGATTTGCATCGGCTTTTGAAAGATATAG 6 56 0 TCTGCTTTTG 0.887296 -545 TTTCGCCTTTAGCCTCCCCTTTCTGGATCAAACCT 6 528 0 ACCCTTTCTG 0.910218 -73 CGAAATACAATATCTTACCCTTTAGAAGCTCGTAC 7 535 0 TCTCCTTTAG 0.823428 -66 AGCCATTAAGAATCGTGTCTTTTTGGAAGTGAAGG 9 86 0 ACTCTTTTTG 0.919095 -515 TTGTTTCTCTAATCGCGACTTTCTGCTATTTTCAC 9 554 1 ACCCTTTCTG 0.910218 -47 TTCTGGGATATATTATAACCTTTTGAGGCGATGCA 10 209 1 TTTCCTTTTG 0.727337 -92 * * * ******* Masking position 11 Map Score: 3.4959 Number of sites scoring better than the average of aligned sites = 873 Number in coding regions = 667 Number in noncoding regions = 206 Number of orfs with sites within 600 bp upstream = 166 Fraction of orfs with sites within 600 bp upstream = 0.0266624 Motif number 8 CTTTGACCAAAAATTTCATTTTTCGTCGCA 1 194 1 AAATTTCATT 0.956709 -107 TTTATGTTTGAAATTTCAGTTTCTTTTAAA 1 224 0 AAATTTCAGT 0.926005 -77 TCAGTCTCAAAACTTTCAGTACAAAAAGTG 2 12 1 AACTTTCAGT 0.952038 -539 TATCCTCGGCAAATTGCATTGATAGTACTT 2 365 1 AAATTGCATT 0.854435 -186 TACTCTTACCAACTTTCTTTTACGTTAAAA 4 256 0 AACTTTCTTT 0.86267 -345 TTGTTACCAGAACTTTCATTTATCGAAATA 4 348 1 AACTTTCATT 0.972263 -253 CCTTGACATGAACTTTTATTTTTTTTATTT 5 13 0 AACTTTTATT 0.796517 -379 GCGTGTATGGAAATTTCATTATATGCCTTG 5 38 0 AAATTTCATT 0.956709 -354 ********** Masking position 2 Map Score: 2.49341 Number of sites scoring better than the average of aligned sites = 344 Number in coding regions = 243 Number in noncoding regions = 101 Number of orfs with sites within 600 bp upstream = 82 Fraction of orfs with sites within 600 bp upstream = 0.0131706 Motif number 9 AAAATGCTTCTTATCTGTCCTATGATCTCTC 2 402 0 TTATCTTCCT 0.904288 -149 TTTTTTTTCCTTTTTTCTCCTAACAGTATAT 3 416 1 TTTTTTTCCT 0.786883 -185 TACGTTAAAAATTTCCATCCCCTTCCGCTAC 4 235 0 ATTTCCTCCC 0.865592 -366 AAAAACTTCTATTTCTTTCGCTATGATTATT 4 539 0 ATTTCTTCGC 0.889655 -62 TATTTGCTAAATTTCTCTCCCTCCCAGTTCT 5 187 0 ATTTCTTCCC 0.974036 -205 AAGATATAGTTTATCTGTCCTTGATCTAAAA 6 34 0 TTATCTTCCT 0.904288 -567 ACTGCACTATTTTTTTTTCCTGTTTTTTTCC 6 135 1 TTTTTTTCCT 0.786883 -466 TCCGCGTGTGTTTTCTGACCGTTTGACGGAA 6 441 0 TTTTCTACCG 0.728424 -160 ACTTCATGTTTTTTCTCTCCCATCTTTTCCT 6 480 0 TTTTCTTCCC 0.986363 -121 TCTTAAACGCTTTTCTTTCGCCTTTTTCGCC 6 556 0 TTTTCTTCGC 0.939559 -45 AACACCGTTCTTTTCTTTCCCCCTTAATTTA 7 195 1 TTTTCTTCCC 0.986363 -406 CCGAAATACAATATCTTACCCTTTAGAAGCT 7 540 0 ATATCTACCC 0.749269 -61 ****** **** Masking position 4 Map Score: 5.02259 Number of sites scoring better than the average of aligned sites = 1190 Number in coding regions = 726 Number in noncoding regions = 464 Number of orfs with sites within 600 bp upstream = 353 Fraction of orfs with sites within 600 bp upstream = 0.0566977 Motif number 10 GGTGCTTGAAGGAGGGAGCTGTTGCACCTA 1 20 1 GGAGGGAGCT 0.86203 -281 ATATGCCTTTGTTGGCATAGAAAGAAGAAT 2 525 1 GTTGGCATAG 0.840726 -26 GCGAGAACTGGGAGGGAGAGAAATTTAGCA 5 184 1 GGAGGGAGAG 0.982783 -208 GTTAGCATTAGGAGGAAGCGAAAAGGAAAA 5 366 1 GGAGGAAGCG 0.961289 -26 CCACTTTTGTGTAGGAAGAGTATTGAATCA 6 164 1 GTAGGAAGAG 0.954503 -437 TATCAGGTTAGTTGGCAGCGGCTGGACCAT 6 362 1 GTTGGCAGCG 0.978873 -239 CAAAGGAAAAGATGGGAGAGAAAAAACATG 6 477 1 GATGGGAGAG 0.934926 -124 ATCATGAATAGTTGGCAGAGCAGGGGAAGT 7 507 1 GTTGGCAGAG 0.979283 -94 ********** Masking position 7 Map Score: 1.28508 Number of sites scoring better than the average of aligned sites = 625 Number in coding regions = 504 Number in noncoding regions = 121 Number of orfs with sites within 600 bp upstream = 101 Fraction of orfs with sites within 600 bp upstream = 0.0162223 Motif number 11 CTGTTGCACCTAAAAGATACTGGAAAATAA 1 38 1 TAAAAGATAC 0.867952 -263 TCGTCGCATTTAAAAGAAACTGAAATTTCA 1 216 1 TAAAAGAAAC 0.935551 -85 AAAAAACAGGTAGAAGAAGGCTTGCTATAA 3 343 0 TAGAAGAAGG 0.849128 -258 ATTTTTAACGTAAAAGAAAGTTGGTAAGAG 4 254 1 TAAAAGAAAG 0.970343 -347 AATATTTCGATAAATGAAAGTTCTGGTAAC 4 350 0 TAAATGAAAG 0.900941 -251 TAGCTAACGTTAAAAGATTGATACAATTTT 5 321 0 TAAAAGATTG 0.754643 -71 ACTAACCTGATAAATGAAGCACGTCGGCTA 6 344 0 TAAATGAAGC 0.768967 -257 TTCAACCGCATCAAAGAAAGAGGTAGATAG 7 156 1 TCAAAGAAAG 0.872177 -445 ACCCTTTTGATAAAAGATGGGATTTTTAAA 7 456 1 TAAAAGATGG 0.924357 -145 GACAATAAGTTAAAAGAAAGGTTACCTCTA 9 450 1 TAAAAGAAAG 0.970343 -151 ********** Masking position 4 Map Score: 1.87937 Number of sites scoring better than the average of aligned sites = 692 Number in coding regions = 408 Number in noncoding regions = 284 Number of orfs with sites within 600 bp upstream = 213 Fraction of orfs with sites within 600 bp upstream = 0.0342114 Motif number 12 ATGTTTGAAATTTCAGTTTCTTTTAAATGCGA 1 219 0 TTTCAGTCTT 0.793701 -82 ATATGTTCCCTTGATGATGCTTTGTTTTGGTG 1 254 0 TTGATGTCTT 0.974559 -47 GCAAATTGCATTGATAGTACTTACACATCGAG 2 373 1 TTGATATCTT 0.959894 -178 CTGTTTTTTTTTGATGATTGTTTTGCCGGGTA 3 364 1 TTGATGTGTT 0.802909 -237 TCCTCTTTTTTTGAAGTTACTTGCGTCATGTG 4 59 0 TTGAAGTCTT 0.965305 -542 GTATATATATTTGCTATTACTTACCAACATTA 7 379 0 TTGCTATCTT 0.937462 -222 TACTGTTATGTTTCTGCTGCTTCCGTCCGAAA 7 565 0 TTTCTGTCTT 0.84118 -36 TAGTTAGCCTTTTATATTCCTTACGGTATAAC 8 115 1 TTTATATCTT 0.840852 -186 TTTCTTTTTATTGAAACTCCTTCACTTCCAAA 9 68 1 TTGAAATCTT 0.945608 -533 TTTCAATTACTTGTTAGTTCTTAGTGTCCTTA 9 135 0 TTGTTATCTT 0.790487 -466 CAAAATACAGTTGAAGTTCCTAACGCTTATTT 9 204 1 TTGAAGTCTA 0.763168 -397 TTACCACGACTTGAAAATGCTTGGCGTAACAG 10 258 1 TTGAAATCTT 0.945609 -43 ****** * *** Masking position 8 Map Score: 3.31555 Number of sites scoring better than the average of aligned sites = 1083 Number in coding regions = 831 Number in noncoding regions = 252 Number of orfs with sites within 600 bp upstream = 194 Fraction of orfs with sites within 600 bp upstream = 0.0311597 Motif number 13 AAAAGTGGCGTATTGGCCTTGTTTTTTTCT 2 35 1 TATTGGCCTT 0.9694 -516 CAAGATGGATTATTGGCATTTACGAGTAAC 3 157 1 TATTGGCATT 0.974488 -444 TAGATATGTTTATTCGCGTTTGCACTGGCC 3 238 0 TATTCGCGTT 0.945082 -363 CTTGTTCCAGTATTCGCATTCGTTTACTTA 6 284 0 TATTCGCATT 0.974056 -317 TCTTTCGCCTTTTTCGCCTTTAGCCTCCCC 6 544 0 TTTTCGCCTT 0.850237 -57 AGTGTTGAAATATTCGCTTTTTTCTTTTTA 9 48 1 TATTCGCTTT 0.920711 -553 GTGGCGAATGTATTGGAATTAATCTGCAAG 9 238 0 TATTGGAATT 0.89708 -363 CATTCGCCACTATTGGAATTTTGCAGGTAG 9 258 1 TATTGGAATT 0.89708 -343 ********** Masking position 4 Map Score: 2.57442 Number of sites scoring better than the average of aligned sites = 338 Number in coding regions = 248 Number in noncoding regions = 90 Number of orfs with sites within 600 bp upstream = 72 Fraction of orfs with sites within 600 bp upstream = 0.0115644 Motif number 14 ATTTTAAACTTGCCGCATCGCACATTCTAAA 2 254 1 TGCCGCATGC 0.973877 -297 TAGAATACCCTGCTGCACAGCGCCGTTGGGG 3 74 0 TGCTGCACGC 0.987883 -527 TAACAAGTTTTGCTACACTCCCTTAATAAAG 4 575 1 TGCTACACCC 0.883569 -26 TAATAACGATTATTGCATTGCTATGGTTTCT 5 237 0 TATTGCATGC 0.883843 -155 CAAATATATATACTACATAGCTTTTGTTATA 7 398 1 TACTACATGC 0.96599 -203 CGACCAAAGATGCTACATTGCACCCAGGTGT 8 65 0 TGCTACATGC 0.983239 -236 GTCTTTGGTCTACTGCATCGCCTCAAAAGGT 10 226 0 TACTGCATGC 0.983239 -75 ******** ** Masking position 7 Map Score: 0.624727 Number of sites scoring better than the average of aligned sites = 220 Number in coding regions = 165 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 15 ********** No masking Map Score: -1.27305e-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