AlignACE version 2.2 July 7, 1998 AlignACE -jKRE.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 YDR483W 318 bp YDR483W kre2 1-1329 alpha-1,2-mannosyltransferase #2 YGR166W 361 bp YGR166W kre11 1-1683 Involved in biosynthetic pathway for cell wall beta-glucans #3 YJL174W 530 bp YJL174W kre9 1-831 Cell wall beta-glucan assembly #4 YNL322C 460 bp YNL322C kre1 1-942 Cell wall beta-glucan assembly #5 YOR336W 600 bp YOR336W KRE5 1-4098 Appears to function early in (1,6)-beta-D-glucan synthesis pathway #6 YPR159W 600 bp YPR159W kre6 1-2163 potential beta-glucan synthase Motif number 1 TATAGTGCCATTCTTGAGGTCTTACTTGATTCTTCC 1 98 1 TTTTAGTCTT 0.902766 -221 ACCAAATTTCTTTTTTTTTTCCTACTAGAAGAAGGC 1 182 0 TTTTTTTCTT 0.980824 -137 ATTTTTCTGTCTTTTCACATCTTTCTATTTTAGTGC 2 172 1 CTTTAATCTT 0.575373 -190 CTGATATAGTTTGTTTTCGTCTTTTCGCCAATGGCC 3 73 1 TTTTTGTCTC 0.890804 -458 GCCAATGATGTTATTTTAGTTTGAATTGATTACTTT 3 183 0 TTTTTGTTGT 0.707845 -348 TTATTTACATTTCTTTTTTTTTTTCCTCGAAAAAGA 3 318 1 TTTTTTTTTC 0.856404 -213 TACTCTTTCGCTTTTTACTTCCTTCTCAGAGAATCA 3 482 1 CTTTATTCTT 0.854186 -49 TCCCTCATGTTTATTATCTTCTTTATCTAATATAAA 4 62 1 TTTTTTTCTT 0.980824 -399 GGTGAGGGGATTATTTAGTTCCTAATTTATATTAGA 4 87 0 TTTTATTCTT 0.940084 -374 GATTTTTATTTTCTTTTTTTCATAATACACGTTATA 4 367 0 TTTTTTTCTT 0.980824 -94 TTTTTTTTTGATTGTCTTGCAGAAGTTG 4 443 0 TTTTTATTTT 0.83655 -18 AAGCACGCCTTTTTTGTAATTCTATTTAAAAAAAAC 5 48 1 TTTTTATTTT 0.83655 -553 GCCAACTGCGTTTTTCTTGTTTTACTCATCATCCAT 5 126 1 TTTTTGTTTT 0.929045 -475 GGCCGTTTCTTTTTTCTCTTTTTTTTCATCCGCTCG 5 162 0 TTTTTTTTTT 0.95676 -439 AATCTGCAAATTATTCAGGTCATCGTTGACTTTTTT 5 249 1 TTTTAGTCTT 0.902766 -352 AAAATTATCTTTATTGTTTTTGTGGCTTAGTGATTT 6 45 1 TTTTTTTTTC 0.856404 -556 TTTCATTCCCCTCTTTTCTTTTTCCTCTCAGCCTGC 6 79 1 CTTTTTTTTT 0.892025 -522 GACAGTTTTTTTTTTTTTTTCATATTCCTGATCAGA 6 213 1 TTTTTTTCTT 0.980824 -388 TTATCAGAAGCTGTTTTATTCTGTGTTTTCACCAAA 6 266 0 CTTTTTTCGT 0.779428 -335 ATTTTAACGGTTGTTGTTTTCGACGTTCCTAGTTAA 6 305 0 TTTTTTTCAT 0.776279 -296 CACTAACGTTTTCTTCTTTTTTTATTTTCAGTCCAA 6 370 1 TTTTTTTTTT 0.95676 -231 CTGCATATTGTTATTGTATTCGTCCTCTCGTACTAG 6 438 1 TTTTTTTCTT 0.980824 -163 ** ** * *** * * Masking position 10 Map Score: 24.7908 Number of sites scoring better than the average of aligned sites = 7441 Number in coding regions = 2356 Number in noncoding regions = 5085 Number of orfs with sites within 600 bp upstream = 1723 Fraction of orfs with sites within 600 bp upstream = 0.276743 Motif number 2 CGTAGCAGATAAGAAGGAAAAATTATATTA 1 153 0 AAGAAGGAAA 0.957487 -166 AGTAGGAAAAAAAAAAGAAATTTGGTGAAG 1 192 1 AAAAAAGAAA 0.973921 -127 AAGCACTCATAAGACAAAAAGTGG 2 5 0 AAGACAAAAA 0.899667 -357 AAGATGTGAAAAGACAGAAAAATAAGCCTT 2 165 0 AAGACAGAAA 0.949972 -197 TTCTCGCACTAAAATAGAAAGATGTGAAAA 2 183 0 AAAATAGAAA 0.90259 -179 CATTGGCGAAAAGACGAAAACAAACTATAT 3 76 0 AAGACGAAAA 0.856025 -455 CGAGGAAAAAAAAAAAGAAATGTAAATAAA 3 317 0 AAAAAAGAAA 0.973921 -214 TGTATTATGAAAAAAAGAAAATAAAAATCA 4 374 1 AAAAAAGAAA 0.973921 -87 ATGATGAGTAAAACAAGAAAAACGCAGTTG 5 128 0 AAACAAGAAA 0.844902 -473 AAAAAAAGAGAAAAAAGAAACGGCCAATCC 5 173 1 AAAAAAGAAA 0.973921 -428 GGCTGAGAGGAAAAAGAAAAGAGGGGAATG 6 82 0 AAAAAGAAAA 0.921216 -519 ATATGAAAAAAAAAAAAAAACTGTCCAAAT 6 208 0 AAAAAAAAAA 0.946336 -393 AAAATAAAAAAAGAAGAAAACGTTAGTGAT 6 368 0 AAGAAGAAAA 0.914055 -233 CTTTGGACTGAAAATAAAAAAAGAAGAAAA 6 378 0 AAAATAAAAA 0.81397 -223 ********** Masking position 8 Map Score: 17.1156 Number of sites scoring better than the average of aligned sites = 2941 Number in coding regions = 1204 Number in noncoding regions = 1737 Number of orfs with sites within 600 bp upstream = 1217 Fraction of orfs with sites within 600 bp upstream = 0.195471 Motif number 3 TGATATCCATATTCGCAAGCAGTTCCACTC 1 293 1 ATTCGCAAGC 0.969154 -26 AAGCAGTTCCACTCGAAAGC 1 309 1 ACTCGAAAGC 0.96444 -10 ATACGCATATACAAGAAAGCACTCATAAGA 2 21 0 ACAAGAAAGC 0.852372 -341 ACTATATCAGATACGCAAGAGGAATGTGTA 3 53 0 ATACGCAAGA 0.968241 -478 CTGCTATCAGATATGAAAGCAGTTTGATTG 5 94 0 ATATGAAAGC 0.921949 -507 AATTGGATATATACGTAAGACAGAGCGTGC 5 416 0 ATACGTAAGA 0.91788 -185 ATTTCAGTTGATTCGAAAGACATGAAAGAT 5 443 1 ATTCGAAAGA 0.965802 -158 AGATAATTTTATACGAAATATACATTTTGT 6 25 0 ATACGAAATA 0.840715 -576 ACTTGCAGCAATACGAAAGCTTTGGACTGA 6 397 0 ATACGAAAGC 0.990635 -204 ********** Masking position 7 Map Score: 4.34247 Number of sites scoring better than the average of aligned sites = 440 Number in coding regions = 307 Number in noncoding regions = 133 Number of orfs with sites within 600 bp upstream = 106 Fraction of orfs with sites within 600 bp upstream = 0.0170254 Motif number 4 ATTATAATACCACACTTATAGTGCCATTCTTGAGGT 1 82 1 CCTAAGTGCA 0.922333 -237 AAAACACCTAATCGTCAAAAGTGATATTATATTGAA 3 284 0 ACAAAGTGTA 0.986887 -247 AGTTCCAAGAAGCGCTAAAAGTGGCAGTTCACACTT 3 426 1 ACAAAGTGCA 0.989785 -105 TTCTCAGAGAATCAGCAACTGTGACATATTATAGAT 3 504 1 ACAATGTGCA 0.945546 -27 AATAACTGCTAGCTAGAAGAGCGGTAAGCAGCA 4 8 0 ACAAAGCGTA 0.984147 -453 TAATCCCCTCACCGTATAAAGCGACAGTTCCGTGAC 4 110 1 ACTAAGCGCA 0.976703 -351 GGCACAATTGAGCAGTAAAAGTGTTAAAATATAGTG 4 229 0 ACAAAGTGTA 0.986887 -232 CCCCTACCTCAGCGTGTATGGTGATATCGCGTTTTT 4 305 1 ACTAGGTGTA 0.912937 -156 CTGTGTTTTCACCAAAAATAGCGTTAACTTTCATCT 6 246 0 ACAAAGCGTA 0.984147 -355 * * ** **** ** Masking position 8 Map Score: 4.47202 Number of sites scoring better than the average of aligned sites = 255 Number in coding regions = 192 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 5 ATTATAATCTGTGTAATCCTAATTTGAGCTCTACACAA 1 52 0 GTGTAATTAG 0.97794 -267 TTTTGAGCTAGTTTAAATTCGATTTAAGAGCCATTAAG 3 148 0 GTTTAATTAG 0.942308 -383 ATAAGGCGAAGTATATGGCACAATTGAGCAGTAAAAGT 4 243 0 GTATAATTAG 0.989147 -218 TTTCTATAACGTGTATTATGAAAAAAAGAAAATAAAAA 4 363 1 GTGTAAAAAG 0.774908 -98 TTAAGCACTTGTATATGCTACAGTAAAGACCTCTTCAA 4 408 1 GTATAATAAG 0.961988 -53 AATTTGCAGATTAAACCTAACAATTCAGAACCCTATAT 5 223 0 TTAAAATTAG 0.68877 -378 ACATAGGACGGTATATTGCTGATTTTAGACTTAACTTC 5 306 1 GTATAATTAG 0.986478 -295 TCTGTCTTACGTATATATCCAATTTCAGTTGATTCGAA 5 422 1 GTATAATTAG 0.989111 -179 TAGTTAATTAGTATACTAACTATATGAGTTATTGACAA 5 496 0 GTATAAATAG 0.962035 -105 TCCTGAAGCGGTAAATTCTAGACTTCAGATCACATACG 6 166 1 GTAAAATTAG 0.957489 -435 ***** * ** ** Masking position 12 Map Score: 4.22967 Number of sites scoring better than the average of aligned sites = 381 Number in coding regions = 261 Number in noncoding regions = 120 Number of orfs with sites within 600 bp upstream = 85 Fraction of orfs with sites within 600 bp upstream = 0.0136524 Motif number 6 CTTCTAGTAGGAAAAAAAAAAGAAATTTGG 1 187 1 GAAAAAAAAA 0.950758 -132 ATTATTACTTGTACATAAAATATTCTACAT 2 71 1 GTACATAAAA 0.855793 -291 TGAAAAATTGGTAACAAAAATAATTAAAAG 2 225 1 GTAACAAAAA 0.772273 -137 AAAATTGTGGGTAAATAAAAGTGGAACAAG 2 265 1 GTAAATAAAA 0.962161 -97 AAAAAGAAATGTAAATAAAACACCTAATCG 3 306 0 GTAAATAAAA 0.962161 -225 CTTTTTCGAGGAAAAAAAAAAAGAAATGTA 3 323 0 GAAAAAAAAA 0.950758 -208 GAGGGATGCTGTAAATGAAAGTGAAATAAC 4 38 0 GTAAATGAAA 0.855793 -423 ATGAAAAAAAGAAAATAAAAATCAAGAATT 4 380 1 GAAAATAAAA 0.945157 -81 TGCAAGACAATCAAAAAAAAA 4 450 1 TCAAAAAAAA 0.672485 -11 TCGTCTTGTCTTAAATAAGAAGATGTTGGA 5 19 1 TTAAATAAGA 0.51128 -582 TTAAATAGAATTACAAAAAAGGCGTGCTTC 5 47 0 TTACAAAAAA 0.696773 -554 GTAATTCTATTTAAAAAAAACCGACTTTGT 5 63 1 TTAAAAAAAA 0.907798 -538 ATCGAGCGGATGAAAAAAAAGAGAAAAAAG 5 160 1 TGAAAAAAAA 0.672485 -441 TTGATCATGATTAAATAAAATATAGGGTTC 5 204 1 TTAAATAAAA 0.897835 -397 AGGCTGAGAGGAAAAAGAAAAGAGGGGAAT 6 83 0 GAAAAAGAAA 0.818387 -518 TCAGGAATATGAAAAAAAAAAAAAAACTGT 6 214 0 GAAAAAAAAA 0.950758 -387 GCTTTGGACTGAAAATAAAAAAAGAAGAAA 6 379 0 GAAAATAAAA 0.945157 -222 ********** Masking position 3 Map Score: 14.9037 Number of sites scoring better than the average of aligned sites = 3952 Number in coding regions = 1073 Number in noncoding regions = 2879 Number of orfs with sites within 600 bp upstream = 1798 Fraction of orfs with sites within 600 bp upstream = 0.288789 Motif number 7 TTATGAATCTATAATACTGGAAGTGATATC 1 270 1 ATAATACTGG 0.938227 -49 TATATATCCCATGAAAGAGCCATGGTCACG 2 106 1 ATGAAAGAGC 0.810141 -256 TTGTGGGTAAATAAAAGTGGAACAAGAGCT 2 269 1 ATAAAAGTGG 0.859919 -93 AGAAATGTAAATAAAACACCTAATCGTCAA 3 302 0 ATAAAACACC 0.897221 -229 ATCTTCAAGGATAATACAGGAATAGAACAG 3 353 1 ATAATACAGG 0.962631 -178 TAATACAGGAATAGAACAGGAGTCTCAAAG 3 364 1 ATAGAACAGG 0.891632 -167 TCTTGGAACTATCAAACTGGAGCAAATCTG 3 406 0 ATCAAACTGG 0.926426 -125 TCTTTTTTTCATAATACACGTTATAGAAAA 4 362 0 ATAATACACG 0.859919 -99 ACTTTGTTCAATCAAACTGCTTTCATATCT 5 86 1 ATCAAACTGC 0.913476 -515 TGAACATGGCATGATACAGCTTTGGTGGGT 5 360 1 ATGATACAGC 0.913476 -241 AAAACACAGAATAAAACAGCTTCTGATAAA 6 273 1 ATAAAACAGC 0.973427 -328 ********** Masking position 6 Map Score: 3.26354 Number of sites scoring better than the average of aligned sites = 1036 Number in coding regions = 742 Number in noncoding regions = 294 Number of orfs with sites within 600 bp upstream = 240 Fraction of orfs with sites within 600 bp upstream = 0.038548 Motif number 8 ATTTTATGTACAAGTAATAATGGCTGAAAATATGA 2 57 0 CAAGTATACT 0.975492 -305 AACGAGTATTCAAGAAATGTGCCCAACGTGACCAT 2 127 0 CAAGAATTCA 0.873417 -235 AAAAGTGGAACAAGAGCTGAGTTCACAACTCTACA 2 281 1 CAAGAGTACA 0.954721 -81 AACTAGCTCAAAAGTAATCAATTCAAACTAAAATA 3 173 1 AAAGTATACA 0.776657 -358 GAGTAGATTCCTAGTAATCAAAACAAAGTGTGAAC 3 452 0 CTAGTATACA 0.964522 -79 GCTCTTCTAGCTAGCAGTTATTTCACTTTCATTTA 4 22 1 CTAGCATACA 0.924512 -439 AAATAAAAATCAAGAATTAAGCACTTGTATATGCT 4 392 1 CAAGAATACT 0.980015 -69 ACGACTACACCAAGAAGTTAAGTCTAAAATCAGCA 5 322 0 CAAGAATACT 0.980015 -279 GATCTGAAGTCTAGAATTTACCGCTTCAGGATGAT 6 162 0 CTAGAATACT 0.97101 -439 TCCTCTCGTACTAGTGTTCATTACTTTATCGTCTA 6 460 1 CTAGTGTACT 0.921197 -141 ****** * * ** Masking position 8 Map Score: 1.8896 Number of sites scoring better than the average of aligned sites = 369 Number in coding regions = 292 Number in noncoding regions = 77 Number of orfs with sites within 600 bp upstream = 80 Fraction of orfs with sites within 600 bp upstream = 0.0128493 Motif number 9 TCTTCTAGTAGGAAAAAAAAAAGAAATTTGGTG 1 186 1 GGAAAAAAAG 0.819916 -133 AAAGAAATTTGGTGAAGAAACAGTCTGAAAAGG 1 205 1 GGTAAAACAG 0.986875 -114 AATAGAAAGATGTGAAAAGACAGAAAAATAAGC 2 168 0 TGTAAAACAG 0.983165 -194 ATTCGAATATTGTCCATATAGAGTGTAGAGTTG 2 306 0 TGTCAAAGAG 0.956012 -56 ATGGAATAATGGTCAATACGCAGTTTAGATGGC 3 237 0 GGTAAAGCAG 0.946142 -294 GCAGTAAAAGTGTTAAAATATAGTGATATATAT 4 221 0 TGTAAAATAG 0.917973 -240 ATCGAGCGGATGAAAAAAAAGAGAAAAAAGAAA 5 160 1 TGAAAAAGAG 0.933557 -441 AAAAAAAAACTGTCCAAATAGAGCGTATGTGAT 6 194 0 TGTCAAAGAG 0.956012 -407 CGCTATTTTTGGTGAAAACACAGAATAAAACAG 6 259 1 GGTAAAACAG 0.986875 -342 *** ** * **** Masking position 6 Map Score: 2.33548 Number of sites scoring better than the average of aligned sites = 267 Number in coding regions = 193 Number in noncoding regions = 74 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 10 AGAAGAAGGCGTAGCAGATAAGAAGGAAAA 1 162 0 GTAGCAGATA 0.934887 -157 ATAAATTTATGTAGAATATTTTATGTACAA 2 79 0 GTAGAATATT 0.907199 -283 ATCAGCAACTGTGACATATTATAGATA 3 514 1 GTGACATATT 0.87004 -17 CTGCTCAATTGTGCCATATACTTCGCCTTA 4 250 1 GTGCCATATA 0.928161 -211 GGTCTTTACTGTAGCATATACAAGTGCTTA 4 409 0 GTAGCATATA 0.979019 -52 ACTATATAACGTGGCATATTAAAGATTAAT 5 534 1 GTGGCATATT 0.977414 -67 AATTGTCCTGGTAGAATATAGACGTATCAG 5 561 1 GTAGAATATA 0.927162 -40 ********** Masking position 6 Map Score: 0.909989 Number of sites scoring better than the average of aligned sites = 293 Number in coding regions = 209 Number in noncoding regions = 84 Number of orfs with sites within 600 bp upstream = 67 Fraction of orfs with sites within 600 bp upstream = 0.0107613 Motif number 11 GATTACACAGATTATAATACCACACTTATAGTG 1 72 1 ATTATACCAC 0.970115 -247 CTGCTTGCGAATATGGATATCACTTCCAGTATT 1 282 0 ATAATATCAC 0.977792 -37 TTCTACATAAATTTATATATCCCATGAAAGAGC 2 93 1 ATTATATCCC 0.938376 -269 ATTAAGCGCAATTGATAAATCACAACTCATTGA 2 337 1 ATTAAATCAC 0.911301 -25 ACGGCGGTTCAATATAATATCACTTTTGACGAT 3 277 1 AATATATCAC 0.954521 -254 CGTATTTTATATATATATATCACTATATTTTAA 4 209 1 ATAATATCAC 0.977792 -252 TTTATGAAAAAACGCGATATCACCATACACGCT 4 315 0 AACATATCAC 0.90435 -146 AGTTTACAGAATAGGTATACCACTCACTCCTTT 6 572 1 ATAATACCAC 0.961438 -29 *** ******* Masking position 7 Map Score: 0.040521 Number of sites scoring better than the average of aligned sites = 255 Number in coding regions = 179 Number in noncoding regions = 76 Number of orfs with sites within 600 bp upstream = 58 Fraction of orfs with sites within 600 bp upstream = 0.00931577 Motif number 12 ACAGCTACTGCATCACCGTCCAGTC 1 5 0 CTCACCGTCC 0.946376 -314 TTCTTATCTGCTACGCCTTCTTCTAGTAGGA 1 168 1 CACGCCTTCT 0.959767 -151 TAAATAATCCCCTCACCGTATAAAGCGACAG 4 106 1 CTCACCGTAT 0.962296 -355 GTGCCATATACTTCGCCTTATTGCGTACATT 4 260 1 CTCGCCTTAT 0.962297 -201 TGCGTACATTCTTCACCTTGTATCCCCCTAC 4 281 1 CTCACCTTGT 0.98586 -180 TATCCCCCTACCTCAGCGTGTATGGTGATAT 4 301 1 CTCAGCGTGT 0.9295 -160 GTAAAGACCTCTTCAACTTCTGCAAGACAAT 4 430 1 CTCAACTTCT 0.934067 -31 AGTTGACGTCGTCTTGTCTTAAATAAG 5 7 1 CTCGTCTTGT 0.940075 -594 GGCGTGCTTCCAACATCTTCTTATTTAAGAC 5 26 0 CACATCTTCT 0.887568 -575 * ********* Masking position 9 Map Score: 0.608392 Number of sites scoring better than the average of aligned sites = 1050 Number in coding regions = 918 Number in noncoding regions = 132 Number of orfs with sites within 600 bp upstream = 108 Fraction of orfs with sites within 600 bp upstream = 0.0173466 Motif number 13 ********** No masking Map Score: 3.76831e-12 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 14 ********** No masking Map Score: 3.76831e-12 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: 3.76831e-12 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