AlignACE version 2.2 July 7, 1998 AlignACE -jGAL.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 YBR018C 600 bp YBR018C gal7 1-1101 galactose-1-phosphate uridyl transferase #2 YBR019C_YBR020W 668 bp YBR019C gal10 1-2100 UDP-glucose 4-epimerase YBR020W gal1 1-1587 galactokinase #3 YDR009W 600 bp YDR009W GAL3 1-1563 galactokinase #4 YER027C 459 bp YER027C GAL83 1-1254 glucose repression protein #5 YLR081W 600 bp YLR081W gal2 1-1725 galactose permease #6 YML051W 300 bp YML051W gal80 1-1308 transcriptional regulator #7 YOL051W 600 bp YOL051W gal11 1-3246 Component of the RNA polymerase II holoenzyme complex, positive and negative transcriptional regulator of genes involved in mating-type specialization #8 YPL248C 300 bp YPL248C gal4 1-2646 zinc-finger transcription factor of the Zn(2)-Cys(6) binuclear cluster domain type Motif number 1 AGCTATACTTCGGAGCACTGTTGAGCGAAGGCTCATT 1 322 1 CGGAGTTGCG 0.980567 -279 AAAAAGCGCTCGGACAACTGTTGACCGTGATCCGAAG 1 409 1 CGGACTTCCG 0.699729 -192 GTCGCCCGCTCGGCGGCTTCTAATCCGTACTTCAATA 2 216 0 CGGCGTTCCG 0.990037 -453 AGTCTTCCGTCGGAGGGCTGTCGCCCGCTCGGCGGCT 2 235 0 CGGAGTTCCG 0.904754 -434 AGCCCTCCGACGGAAGACTCTCCTCCGTGCGTCCTCG 2 253 1 CGGAATTCCG 0.517961 -416 CTCCTCCGTGCGTCCTCGTCTTCACCGGTCGCGTTCC 2 272 1 CGTCCTTCCG 0.926486 -397 CTTTATTGTTCGGAGCAGTGCGGCGCGAGGCACATCT 2 317 0 CGGAGTCGCG 0.983774 -352 ACCCCACGTTCGGTCCACTGTGTGCCGAACATGCTCC 3 313 1 CGGTCTTCCG 0.559905 -288 AACGTCAATTCGGAAAGCTTCCTTCCGGAATGGCTTA 5 71 1 CGGAATCCCG 0.596633 -530 AGGAAGGCACCGGCGGTCTTTCGTCCGTGCGGAGATA 5 185 1 CGGCGTTCCG 0.889051 -416 TTCGTCCGTGCGGAGATATCTGCGCCGTTCAGGGGTC 5 204 1 CGGAGTTCCG 0.787229 -397 AATCTCGGTTCGGAGTGATCCGCCCCGATACTGCCTT 5 268 0 CGGAGTCCCG 0.812047 -333 CTTCATTTACCGGCGCACTCTCGCCCGAACGACCTCA 6 129 1 CGGCGTTCCG 0.869556 -172 TCTTTGAGTACGGCACTATACGAAACGATACGCTTAT 7 539 0 CGGCATCACG 0.868833 -62 ***** * * *** Masking position 9 Map Score: 33.8008 Number of sites scoring better than the average of aligned sites = 67 Number in coding regions = 47 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 2 GAGGGGGTAATTTTTCCCCTTTATTTTGTTC 1 255 1 TTTTTCCCTT 0.883225 -346 ATTCAACTGTTTTTTTTTATCATGTTGATGC 1 568 0 TTTTTTTTTC 0.732276 -33 TATTGTAGAATCTTTATTGTTCGGAGCAGTG 2 334 0 TCTTTATTTT 0.625149 -335 TTACTGCCAATTTTTCCTCTTCATAACCATA 2 373 0 TTTTTCCTTT 0.928384 -296 TATAGTTTTTTCTCCTTGACGTTAAAG 2 652 0 TTTTTCTCTT 0.858258 -17 TTATTAACCGCTTTTACTATTATCTTCTACG 3 102 1 CTTTTACTTT 0.74213 -499 TTTACTTTTATTTTCTCTTTTTGCACTCCTG 3 560 0 TTTTCTCTTT 0.922411 -41 TTGCCCTACCTTTTTACTTTTATTTTCTCTT 3 572 0 TTTTTACTTT 0.89046 -29 CCCATTGTTATTTTCCTTCTTATATTCTATA 4 30 0 TTTTCCTTTT 0.858258 -430 CAATAATTTGTCTTTACCGTTAAAACACAGG 4 222 1 TCTTTACCTT 0.548621 -238 GGCCACGCTATTTTTTTTGTTGCACTAATTT 4 251 1 TTTTTTTTTT 0.942238 -209 GTTGCACTAATTTTCATCCTTAAGCGACCAA 4 269 1 TTTTCATCTT 0.68899 -191 GTTGCAATTTCTTTTTCTATTAGTAGCTAAA 5 113 1 CTTTTTCTTT 0.878253 -488 GAAAGAATTATTTTTTTTATTATGTTAATCT 5 577 0 TTTTTTTTTT 0.942238 -24 ATATCCTATATTTTCTTCATTTACCGGCGCA 6 115 1 TTTTCTTCTT 0.847397 -186 AAGCTCATAACTTTTTTTTTTGAACCTGAAT 6 194 1 CTTTTTTTTT 0.852401 -107 TGTGGCGGCCTCTTTTTTATTTCGAATCGGG 7 286 1 TCTTTTTTTT 0.806961 -315 GCTGGTATATTTTTCTTTGTTAGTTAAACCC 7 501 1 TTTTCTTTTT 0.90492 -100 TCGCCCAGTATTTTTTTTATTCTACAAACCT 8 51 1 TTTTTTTTTT 0.942238 -250 CATAATATCGTTTTCTTTGTTTAGTGCAATT 8 128 1 TTTTCTTTTT 0.90492 -173 GTGCAATTAATTTTTCCTATTGTTACTTCGG 8 151 1 TTTTTCCTTT 0.928384 -150 TACTTCGGGCCTTTTTCTGTTTTATGAGCTA 8 174 1 CTTTTTCTTT 0.878253 -127 TTATGAGCTATTTTTTCCGTCATCCTTCCCC 8 195 1 TTTTTTCCTC 0.665931 -106 ******** ** Masking position 4 Map Score: 15.632 Number of sites scoring better than the average of aligned sites = 14715 Number in coding regions = 3495 Number in noncoding regions = 11220 Number of orfs with sites within 600 bp upstream = 2726 Fraction of orfs with sites within 600 bp upstream = 0.437841 Motif number 3 CGTCCATATCTTTCCATAGATTTTCAATTTTTGATGTCT 1 76 0 TTCAATTTTT 0.961346 -525 CCCTTTATTTTGTTCATACATTCTTAAATTGCTTTGCCT 1 271 1 TTCAATTTAT 0.97958 -330 TTTGAGGGAATATTCAACTGTTTTTTTTTATCATGTTGA 1 571 0 TTCACTTTTT 0.810298 -30 TTATATTGAATTTTCAAAAATTCTTACTTTTTTTTTGGA 2 11 1 TTCAATTTTT 0.961346 -658 TATTACTTCTTATTCAAATGTCATAAAAGTATCAACAAA 2 591 1 TTCAATCTAG 0.902865 -78 CAACCCCAGGTATTCATACTTCCTATTAGCGGAATCAGG 3 525 1 TTCAATCTAG 0.902865 -76 GCAATGATTTTCTCCAAAGGTTTTCTTTGCGTCTTCATT 4 90 0 TTCAATTTTG 0.932931 -370 GAAAGTTAACTGTGCACATATTCTTAAATTATACAACAT 5 359 1 TTCAATTTAT 0.97958 -242 TTTATATATGTCTACAAAACTTATCCTATCTCCACATTT 5 440 0 TTCAATTTAT 0.97958 -161 GTCCACGGATGGTGCAGAAGTTATATGATTTGGGGGAAG 7 150 1 GTCAATTTAT 0.891723 -451 GGAAGACGCTTTTTCACATCTTCTTGCATGATAAGAGTA 7 184 1 TTCAATTTAT 0.979581 -417 TTTTTTTTATTCTACAAACCTTCTATAATTTCAAAGTAT 8 61 1 TTCAATTTAT 0.97958 -240 * * ** * ** * ** Masking position 6 Map Score: 8.01259 Number of sites scoring better than the average of aligned sites = 548 Number in coding regions = 334 Number in noncoding regions = 214 Number of orfs with sites within 600 bp upstream = 166 Fraction of orfs with sites within 600 bp upstream = 0.0266624 Motif number 4 ACGAAATGAACTCCGCGGCTCGTGCTATATTC 1 125 0 CTCCCGGTCG 0.95945 -476 ACGGTCAACAGTTGTCCGAGCGCTTTTTGGAC 1 405 0 GTTGCCGGCG 0.968779 -196 TCGGAGGGCTGTCGCCCGCTCGGCGGCTTCTA 2 231 0 GTCGCCGTCG 0.989495 -438 ACGGAAGACTCTCCTCCGTGCGTCCTCGTCTT 2 262 1 CTCCCCGGCG 0.99549 -407 GCGTCCTCGTCTTCACCGGTCGCGTTCCTGAA 2 281 1 CTTCCCGTCG 0.980338 -388 TCGCGCCGCACTGCTCCGAACAATAAAGATTC 2 326 1 CTGCCCGACA 0.937164 -343 TCGGCACACAGTGGACCGAACGTGGGGTAAGT 3 309 0 GTGGCCGACG 0.978004 -292 CCGGCGGTCTTTCGTCCGTGCGGAGATATCTG 5 194 1 TTCGCCGGCG 0.96625 -407 GCGGAGATATCTGCGCCGTTCAGGGGTCCATG 5 213 1 CTGCCCGTCA 0.951029 -388 CCGGCGCACTCTCGCCCGAACGACCTCAAAAT 6 138 1 CTCGCCGACG 0.992923 -163 **** *** *** Masking position 2 Map Score: 6.97983 Number of sites scoring better than the average of aligned sites = 97 Number in coding regions = 74 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 5 TCCAAAAGGAGAGGCAAAGCAATTTAAGAA 1 291 0 GAGGCAAAGC 0.986983 -310 TTTTTGGATGGACGCAAAGAAGTTTAATAA 2 42 1 GACGCAAAGA 0.949797 -627 TCGCATTGATGAGGCAACGCTAATTATCAA 3 254 0 GAGGCAACGC 0.993332 -347 AGCGACAAGTGAGGCAACACCTTTGTTACC 3 488 1 GAGGCAACAC 0.958412 -113 CTGGAATGAAGACGCAAAGAAAACCTTTGG 4 86 1 GACGCAAAGA 0.949797 -374 ACGAAAAAACGTGGCAAAGAAAACAATACC 4 323 1 GTGGCAAAGA 0.852665 -137 GTGCCTTCCTGAGGCAACCGCCCCTTTCGA 5 165 0 GAGGCAACCG 0.979532 -436 AAGAAGCGGCGAGGCAGCCCACATCAAGTG 7 33 1 GAGGCAGCCC 0.955343 -568 TTTTCTGATCGACGCAACCGGGGCCGGGGT 7 327 0 GACGCAACCG 0.961034 -274 ********** Masking position 6 Map Score: 6.26534 Number of sites scoring better than the average of aligned sites = 344 Number in coding regions = 264 Number in noncoding regions = 80 Number of orfs with sites within 600 bp upstream = 78 Fraction of orfs with sites within 600 bp upstream = 0.0125281 Motif number 6 CACAAAATAGCCAAGCTGAAAATAATGTGTAGCT 1 464 1 CCACTAAATA 0.935032 -137 TGCTAGCCAAACTAACTGAACATAGCTACACATT 1 487 0 ACACTAAATA 0.929993 -114 AAGAAGTAATACAAACTGAAAATGTTGAAAGTAT 2 568 0 ACACTAAATG 0.987154 -101 ATGCTCCTTCACTATTTTAACATGTGGAATTCTT 3 343 1 ACATTAAATG 0.870361 -258 TTTTTCTATTAGTAGCTAAAAATGGGTCACGTGA 5 124 1 AGACTAAATG 0.908681 -477 TTAAGCCCTTCCCATCTCAAGATGGGGAGCAAAT 5 307 1 CCACTAAATG 0.988131 -294 TCTCGCCCGAACGACCTCAAAATGTCTGCTACAT 6 147 1 ACACTAAATG 0.987154 -154 TTACATATTCCCCCGCTGAACCTGTACAGTCCAC 7 122 1 CCCCTAACTG 0.881875 -479 TTACGTAGACACAATCTGGAGATGAAGCTGAAAA 8 229 0 ACACTGAATG 0.941266 -72 GCTTCTCTGTCCTCTCTTAAAATGATGGCGTGCA 8 263 0 CCCCTAAATG 0.972824 -38 ** * ** ** *** Masking position 7 Map Score: 4.10033 Number of sites scoring better than the average of aligned sites = 205 Number in coding regions = 159 Number in noncoding regions = 46 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 7 GCTTTGCCTCTCCTTTTGGAAAGCTATACT 1 301 1 TCCTTTTGGA 0.940649 -300 TTGTCCGAGCGCTTTTTGGACCCTTTCCCT 1 396 0 GCTTTTTGGA 0.940656 -205 ATTCTTACTTTTTTTTTGGATGGACGCAAA 2 30 1 TTTTTTTGGA 0.9441 -639 AAAAAAACCTTCTCTTTGGAACTTTCAGTA 2 163 1 TCTCTTTGGA 0.908423 -506 AACACAGTGGTTTCTTTGCATAAACACCAT 3 165 1 TTTCTTTGCA 0.811593 -436 TTTTATTTTCTCTTTTTGCACTCCTGATTC 3 556 0 TCTTTTTGCA 0.962048 -45 TCTCACATGGGTTTTTTGAAGCACAGCTTT 4 136 0 GTTTTTTGAA 0.812719 -324 CGAAATGTTTGTTTTTTGAACAATAGCTCT 5 403 0 GTTTTTTGAA 0.812719 -198 TCATAACTTTTTTTTTTGAACCTGAATATA 6 198 1 TTTTTTTGAA 0.895792 -103 GCCTCGCCGCTTCTTTTGCAGTCCCTAACC 7 18 0 TTCTTTTGCA 0.873148 -583 CTTTTTCACATCTTCTTGCATGATAAGAGT 7 192 1 TCTTCTTGCA 0.799925 -409 AAATTCCTAGTCCTTGTGAATGGTTGACTA 7 412 0 TCCTTGTGAA 0.718202 -189 TGGAAGTACTTCTTTGTGGAACCAGCTGTT 7 451 0 TCTTTGTGGA 0.908423 -150 ********** Masking position 10 Map Score: 4.17174 Number of sites scoring better than the average of aligned sites = 1974 Number in coding regions = 1314 Number in noncoding regions = 660 Number of orfs with sites within 600 bp upstream = 524 Fraction of orfs with sites within 600 bp upstream = 0.0841632 Motif number 8 TTTCCTTAACCCAAAAATAAGGGAAAGGGTCC 1 377 1 CCAAAAAAGG 0.989734 -224 TTGCGTCCATCCAAAAAAAAAGTAAGAATTTT 2 27 0 CCAAAAAAAG 0.974173 -642 ACTGAAAGTTCCAAAGAGAAGGTTTTTTTAGG 2 160 0 CCAAGAAAGG 0.982028 -509 ATTAATTACCCCAGAAATAAGGCTAAAAAACT 2 467 0 CCAAAAAAGG 0.989734 -202 CGTCTTCATTCCAGGAAAAAGTATATCAAGTT 4 68 0 CCAGAAAAGT 0.909243 -392 TATTCAGGTTCAAAAAAAAAAGTTATGAGCTT 6 194 0 CAAAAAAAAG 0.808139 -107 CCAGCTGTTTCCAGAGACAAATTCCTAGTCCT 7 428 0 CCAAGAAAAT 0.893038 -173 ACAGCTGGTTCCACAAAGAAGTACTTCCACGA 7 452 1 CCAAAAAAGT 0.974173 -149 *** *** **** Masking position 7 Map Score: 3.20636 Number of sites scoring better than the average of aligned sites = 451 Number in coding regions = 324 Number in noncoding regions = 127 Number of orfs with sites within 600 bp upstream = 116 Fraction of orfs with sites within 600 bp upstream = 0.0186315 Motif number 9 CCGTCCATATCTTTCCATAGATTTTCAATT 1 86 0 CTTTCCATAG 0.758857 -515 CGAAGTATAGCTTTCCAAAAGGAGAGGCAA 1 304 0 CTTTCCAAAA 0.785641 -297 CTCTTTGGAACTTTCAGTAATACGCTTAAC 2 174 1 CTTTCAGTAA 0.901363 -495 GCACATCTGCGTTTCAGGAACGCGACCGGT 2 295 0 GTTTCAGGAA 0.955383 -374 CGATTTCATTCTTTCAAGAATTCCACATGT 3 362 0 CTTTCAAGAA 0.958862 -239 GATTATATACGTTTCAGTAAAAATTTTACT 3 452 0 GTTTCAGTAA 0.873524 -149 AGTATATCAAGTTTCAAGAACCCATTGTTA 4 51 0 GTTTCAAGAA 0.946291 -409 TAAAAGCTGTGCTTCAAAAAACCCATGTGA 4 134 1 GCTTCAAAAA 0.66883 -326 TCCTGCTCTACCTTCAATAATTTGTCTTTA 4 208 1 CCTTCAATAA 0.832934 -252 CGGAAAGCTTCCTTCCGGAATGGCTTAAGT 5 81 1 CCTTCCGGAA 0.944711 -520 AGGGGCGGTTGCCTCAGGAAGGCACCGGCG 5 170 1 GCCTCAGGAA 0.804738 -431 TGAACAATAGCTCTCCAGAATGTTGTATAA 5 387 0 CTCTCCAGAA 0.860201 -214 GGAACCAGCTGTTTCCAGAGACAAATTCCT 7 434 0 GTTTCCAGAG 0.88058 -167 CTTTCAGGAGGCTTGCTTCT 8 291 0 CTTTCAGGAG 0.92876 -10 ********** Masking position 9 Map Score: 5.28904 Number of sites scoring better than the average of aligned sites = 1351 Number in coding regions = 1060 Number in noncoding regions = 291 Number of orfs with sites within 600 bp upstream = 230 Fraction of orfs with sites within 600 bp upstream = 0.0369419 Motif number 10 GAGCACTGTTGAGCGAAGGCTCATTAGATA 1 334 1 GAGCGAAGGC 0.91861 -267 ACAGCCCTCCGACGGAAGACTCTCCTCCGT 2 251 1 GACGGAAGAC 0.988625 -418 CTTTTTCCTGGAATGAAGACGCAAAGAAAA 4 79 1 GAATGAAGAC 0.951542 -381 GAACCGGTCCGGATGAAGACCACTGGACCA 4 174 0 GGATGAAGAC 0.941851 -286 TCTCCGCACGGACGAAAGACCGCCGGTGCC 5 190 0 GACGAAAGAC 0.894978 -411 ACGATATTAAGGCAGAAGGCAGTATCGGGG 5 253 1 GGCAGAAGGC 0.901466 -348 TATATGATTTGGGGGAAGACGCTTTTTCAC 7 171 1 GGGGGAAGAC 0.980089 -430 GGCCGGGGTGGAAGGAAGGCCCGATTCGAA 7 306 0 GAAGGAAGGC 0.983437 -295 AAAATCTGGGGAAGGATGACGGAAAAAATA 8 203 0 GAAGGATGAC 0.919013 -98 ********** Masking position 6 Map Score: 3.47667 Number of sites scoring better than the average of aligned sites = 306 Number in coding regions = 229 Number in noncoding regions = 77 Number of orfs with sites within 600 bp upstream = 67 Fraction of orfs with sites within 600 bp upstream = 0.0107613 Motif number 11 CAAAGAAGTTTAATAATCATATTACATGGCA 2 56 1 TATAATCATA 0.900682 -613 TTACATGGCATTACCACCATATACATATCCA 2 77 1 TACCACCATA 0.967595 -592 TTTTTCCTCTTCATAACCATAAAAGCTAGTA 2 363 0 TATAACCATA 0.970798 -306 CGAATCAAATTAACAACCATAGGATGATAAT 2 430 1 TACAACCATA 0.949559 -239 GCAACGCTAATTATCAACATATAGATTGTTA 3 240 0 TATCAACATA 0.890799 -361 GAAACGTATATAATCATCATAAGCGACAAGT 3 467 1 TATCATCATA 0.934999 -134 GCTACATTCATAATAACCAAAAGCTCATAAC 6 174 1 TATAACCAAA 0.856271 -127 TGTATCAGTTTAATCACCATAATATCGTTTT 8 111 1 TATCACCATA 0.981388 -190 * ********* Masking position 6 Map Score: 2.54598 Number of sites scoring better than the average of aligned sites = 143 Number in coding regions = 112 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 12 AGCTTTCCAAAAGGAGAGGCAAAGCAATTTAA 1 294 0 AAGGAGGCAA 0.939341 -307 CAGTGGACCGAACGTGGGGTAAGTGCACTAGG 3 301 0 AAGGGGGTAA 0.969436 -300 TAAAAGTAAAAAGGTAGGGCAACACATAGT 3 581 1 AAGAGGGCAA 0.988691 -20 CAAATTATTGAAGGTAGAGCAGGACTTTGAAC 4 200 0 AAGAGAGCAG 0.936061 -260 GAGCTTTTCCAAAGGGGAGCAAATTGGTCGCT 4 291 0 AAGGGAGCAA 0.988691 -169 CCCATCTCAAGATGGGGAGCAAATGGCATTAT 5 317 1 GAGGGAGCAA 0.958714 -284 TAAGGTGCATAATGAAGAGCAATTCACAACAC 5 505 0 AAGAGAGCAA 0.982181 -96 AGGCCGCCACAATGTAGGGTAATGCCTAATTA 7 265 0 AAGAGGGTAA 0.952374 -336 ** * ******* Masking position 2 Map Score: 3.56579 Number of sites scoring better than the average of aligned sites = 300 Number in coding regions = 215 Number in noncoding regions = 85 Number of orfs with sites within 600 bp upstream = 84 Fraction of orfs with sites within 600 bp upstream = 0.0134918 Motif number 13 GTCCAAAAAGCGCTCGGACAACTGTTGACC 1 405 1 CGCTCGGACA 0.962086 -196 GGCTGTCGCCCGCTCGGCGGCTTCTAATCC 2 227 0 CGCTCGGCGG 0.990329 -442 AAGACGAGGACGCACGGAGGAGAGTCTTCC 2 264 0 CGCACGGAGG 0.985572 -405 CAGATATCTCCGCACGGACGAAAGACCGCC 5 196 0 CGCACGGACG 0.875879 -405 ATATCTGCGCCGTTCAGGGGTCCATGTGCC 5 219 1 CGTTCAGGGG 0.912867 -382 ATTTTGAGGTCGTTCGGGCGAGAGTGCGCC 6 140 0 CGTTCGGGCG 0.763727 -161 ********** Masking position 5 Map Score: 1.24377 Number of sites scoring better than the average of aligned sites = 39 Number in coding regions = 22 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 14 GGATGATAATGCGATTAGTTTTTTAGCCTTA 2 451 1 GCGATTATTT 0.953936 -218 AATCAGCGAAGCGATGATTTTTGATCTATTA 2 496 1 GCGATGATTT 0.96155 -173 CCGTATCCTCGTAATCATTTTCTTGTATTTA 3 25 1 GTAATCATTT 0.690308 -576 TTTTAAATTTGCAATGATTTTCTCCAAAGGT 4 108 0 GCAATGATTT 0.962276 -352 TCATCCTTAAGCGACCAATTTGCTCCCCTTT 4 282 1 GCGACCATTT 0.946825 -178 TGTTTTCTTTGCCACGTTTTTTCGTGAGCTT 4 317 0 GCCACGTTTT 0.772626 -143 GCAACTACTTTGCATCAAACT 5 1 1 GCAACTATTT 0.937668 -600 TAAGTAGGTTGCAATTTCTTTTTCTATTAGT 5 106 1 GCAATTTTTT 0.854505 -495 TTTGTTTAGTGCAATTAATTTTTCCTATTGT 8 143 1 GCAATTATTT 0.954808 -158 CGTAATGCACGCCATCATTTTAAGAGAGGAC 8 258 1 GCCATCATTT 0.94496 -43 ******* *** Masking position 4 Map Score: 1.25624 Number of sites scoring better than the average of aligned sites = 741 Number in coding regions = 562 Number in noncoding regions = 179 Number of orfs with sites within 600 bp upstream = 154 Fraction of orfs with sites within 600 bp upstream = 0.024735 Motif number 15 TCACATGTAGGGACCGAATTGTTTACAAGTT 1 29 1 GGCCGAATTG 0.971554 -572 GCTCAACAGTGCTCCGAAGTATAGCTTTCCA 1 317 0 GCCCGAAGTA 0.93969 -284 CCGTTTAACCGGACCCTAGTGCACTTACCCC 3 287 1 GGCCCTAGTG 0.945198 -314 ACTTTGAACCGGTCCGGATGAAGACCACTGG 4 178 0 GGCCGGATGA 0.899929 -282 AACTAATCTCGGTTCGGAGTGATCCGCCCCG 5 278 0 GGTCGGAGTG 0.963262 -323 ATTGCTCTTGGGACCGTAGTATCGCGACAAG 7 79 0 GGCCGTAGTA 0.985007 -522 GACGCAACCGGGGCCGGGGTGGAAGGAAGGC 7 316 0 GGCCGGGGTG 0.984218 -285 AACAGAAAAAGGCCCGAAGTAACAATAGGAA 8 164 0 GGCCGAAGTA 0.989489 -137 ** ******** Masking position 5 Map Score: 0.452134 Number of sites scoring better than the average of aligned sites = 177 Number in coding regions = 132 Number in noncoding regions = 45 Number of orfs with sites within 600 bp upstream = 35 Fraction of orfs with sites within 600 bp upstream = 0.00562159