AlignACE version 2.2 July 7, 1998 AlignACE -jMNN.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 YDR245W 398 bp YDR245W MNN10 1-1182 galactosyltransferase #2 YER001W 600 bp YER001W mnn1 1-2289 Alpha-1,3-mannosyltransferase #3 YJL183W 300 bp YJL183W MNN11 1-1269 A new gene encoding a protein that is related to Mnn10p, and that is in a complex containing other MNN gene products. #4 YKL201C 366 bp YKL201C mnn4 1-1620 #5 YKL200C 600 bp YKL200C mnn4 1-1197 #6 YPL050C 514 bp YPL050C MNN9 1-1188 Protein required for complex glycosylation Motif number 1 TCTTTGATTATTTTCTTGTTTTTTCGCTCTT 1 199 1 TTTTCTTTTT 0.986646 -200 TTAAACAATTTTTTCTGTTTTGTTTGTTATG 1 245 0 TTTTCTGTTT 0.926918 -154 AAAGAGTACTTTTTTTTTTTTCTGAC 2 6 0 TTTTTTTTTT 0.94413 -595 GCCTTGGTTGTTTTCTTTTTTTTTTCGCGAT 2 112 0 TTTTCTTTTT 0.986646 -489 AAAGTCTACCTTTTCTTCTTTAAGCCTTGAG 2 393 1 TTTTCTTTTT 0.986646 -208 TAAGCCTTGAGTTTCTTCTTTTGCGAAAACG 2 413 1 GTTTCTTTTT 0.962413 -188 CCCATCGTGTGTTTATTATTTTTTTATATCA 3 167 0 GTTTATTTTT 0.916158 -134 GCTTCTTTAATTTAATTGTTTAATATTGTTG 5 127 0 TTTAATTTTT 0.785036 -474 cagcattggtttgtctttttttttttttttt 6 210 1 ttgtcttttt 0.926918 -305 tcttttttttttttttttttttttcctttcc 6 223 1 tttttttttt 0.94413 -292 gtagaaaagcttttattattttctgttagcc 6 362 1 ttttattttt 0.969259 -153 atagcatcaattttagtatttttcaaacaga 6 457 1 ttttagtttt 0.844057 -58 ******* *** Masking position 9 Map Score: 11.959 Number of sites scoring better than the average of aligned sites = 2093 Number in coding regions = 734 Number in noncoding regions = 1359 Number of orfs with sites within 600 bp upstream = 962 Fraction of orfs with sites within 600 bp upstream = 0.154513 Motif number 2 GGCACGAGAAACGCGCACGCACTTTCCACCAT 2 224 0 ACGCCACCAC 0.989918 -377 TTATCTTTAGACACGCTCTCGCAGAACGATGA 2 293 1 ACACCTCCGC 0.983492 -308 TTGTATATACACTCTCTAGCGCTACATATCGT 3 66 0 ACTCCTACGC 0.97393 -235 acttacatacactcgcatacactcacctactc 6 32 1 actccatcac 0.976515 -483 acactcacctactcacacacgcactcacacac 6 50 1 actccaccgc 0.998202 -465 tcacacacgcactcacacacacactctcactc 6 62 1 actccaccac 0.996293 -453 tcacacacacactctcactcgcacaccaagga 6 74 1 actccaccgc 0.998202 -441 **** *** *** Masking position 1 Map Score: 8.99249 Number of sites scoring better than the average of aligned sites = 44 Number in coding regions = 20 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 3 GCACCTGAATTTTTGGATTGAAGGCCAAAGGAGGTTTATCAGGG 1 306 1 TTTTGAGGAG 0.993098 -93 GGCATCCCACTTTTCGAACCCTGGCGCTCGGAAGACTTAATCAT 2 140 1 TTTTGAGGAG 0.993096 -461 ATACCGCAAGATTACGTTTTTCGAGAGTACGAAGCAAGACCAGG 2 531 0 ATTAGTGGAG 0.859702 -70 ATTAACCAGCTATTAGATGGTGGTGACGGTGACGAAGATGCTGT 3 15 1 TATTGAGGAG 0.98285 -286 GTAAAAAACAATATCGATGCAAGATTCATTGACGTCGACACCGG 4 160 1 ATATGAGGAG 0.967785 -207 TTGAATTCTTATATTGAAGAGCGGTTGCAAGAGGAACATTTGGA 4 260 1 ATATGAGGAG 0.967785 -107 CAAATTTGATATCAGCTCTCGAGACGTCCTGATCTC 5 3 1 AATTGAGGAG 0.979686 -598 CTAATTAGTTTATTTGTGTGAAGGAATAGTGACGTTGTGATGCG 5 206 0 TATTGTGGAG 0.958031 -395 CTTGCGATCGTTTTTGAAAGACGAAGTCAGGATGCTATACCAGG 5 468 0 TTTTGAGGAG 0.993098 -133 GAATTTTAAATTTTCGTATAATGTCTTAGCGAACTGGATCTTGC 5 507 0 TTTTGTGGAC 0.931773 -94 gcgttgaagtattttgatataagtaaaacagaacaccaaatcaa 6 272 1 atttgaggac 0.966502 -243 **** ** * ** * Masking position 22 Map Score: 8.3406 Number of sites scoring better than the average of aligned sites = 358 Number in coding regions = 293 Number in noncoding regions = 65 Number of orfs with sites within 600 bp upstream = 51 Fraction of orfs with sites within 600 bp upstream = 0.00819146 Motif number 4 GTTGGGCAACACCTATTAAGTTGTAAAACA 2 82 1 ACCTATTAAG 0.978161 -519 TGGCGGTCCGGCCAATTGAGACCTCGCAAT 2 182 0 GCCAATTGAG 0.945736 -419 ATAGTTTGTATCCTATTTAGGTTAAAAGCA 2 259 0 TCCTATTTAG 0.855542 -342 TTGATATTCAACCTTTTAAGGTATCTCAGA 2 342 1 ACCTTTTAAG 0.889219 -259 ACTTGCAAATGCCCATTAAGCATTTACAAT 4 19 1 GCCCATTAAG 0.979336 -348 GTCAAGCACTACCCATTAAGGCGCATTCTC 5 308 1 ACCCATTAAG 0.986 -293 ATATTCATTGACCCATTTAGGGTTGGTGCC 5 551 0 ACCCATTTAG 0.974192 -50 aagcttttctaccaattgagaatccgcttg 6 344 0 accaattgag 0.962816 -171 ********** Masking position 9 Map Score: 5.09656 Number of sites scoring better than the average of aligned sites = 258 Number in coding regions = 199 Number in noncoding regions = 59 Number of orfs with sites within 600 bp upstream = 52 Fraction of orfs with sites within 600 bp upstream = 0.00835207 Motif number 5 GCACGAGAAACGCGCACGCACTTTCCACCAT 2 224 0 CGCGCACCAC 0.99117 -377 TATCTTTAGACACGCTCTCGCAGAACGATGA 2 294 1 CACGCTCCGC 0.97506 -307 tagccacacaggcacttataaactt 6 5 1 cacacagcac 0.962061 -510 cttacatacactcgcatacactcacctactc 6 33 1 ctcgcatcac 0.974716 -482 cactcacctactcacacacgcactcacacac 6 51 1 ctcacaccgc 0.99285 -464 cacacacgcactcacacacacactctcactc 6 63 1 ctcacaccac 0.995177 -452 cacacacactctcactcgcacaccaaggaca 6 77 1 ctcactccac 0.988983 -438 ******* *** Masking position 5 Map Score: 4.92347 Number of sites scoring better than the average of aligned sites = 404 Number in coding regions = 80 Number in noncoding regions = 324 Number of orfs with sites within 600 bp upstream = 99 Fraction of orfs with sites within 600 bp upstream = 0.0159011 Motif number 6 CAACTTAATAGGTGTTGCCCAACTATTCGT 2 75 0 GGTGTTGCCC 0.97798 -526 TTTTCTGCATGGTGGCGGTCCGGCCAATTG 2 194 0 GGTGGCGGTC 0.967599 -407 TAGACTTTGCGGTGGCGCCGGAGCCTCATT 2 371 0 GGTGGCGCCG 0.995414 -230 GCTATTAGATGGTGGTGACGGTGACGAAGA 3 23 1 GGTGGTGACG 0.981705 -278 GCATCATTTAGGAGTCGATCAATCCTTCTT 3 206 0 GGAGTCGATC 0.871723 -95 CTGCCGGTTTGTTGTTGGTGTTAGCTGTGT 3 267 1 GTTGTTGGTG 0.818671 -34 TTACTGTCAAGGAGTCGCTGACGTCTAGGA 4 115 0 GGAGTCGCTG 0.964583 -252 TGTAAAGGCCGGTGTCGACGTCAATGAATC 4 182 0 GGTGTCGACG 0.987932 -185 CCCATTTAGGGTTGGTGCCGAATTTTAAAT 5 540 0 GTTGGTGCCG 0.956235 -61 ********** Masking position 4 Map Score: 5.43335 Number of sites scoring better than the average of aligned sites = 932 Number in coding regions = 844 Number in noncoding regions = 88 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813 Motif number 7 TTTTATTGCCTTATATATAGGATAGCTTGTACT 1 68 0 TTATATAGGT 0.866952 -331 AAAAAATTGTTTAAATATAAAGTTTAAAAGTTA 1 262 1 TTATATAAAT 0.922491 -137 CCTTAAAAGGTTGAATATCAACTCAAAATGTCA 2 330 0 TTATATCAAT 0.94995 -271 TTTATTATTTTTTTATATCAACTCTTCCTAGTT 3 154 0 TTATATCAAT 0.94995 -147 GCAACCGCTCTTCAATATAAGAATTCAAGTAAT 4 255 0 TTATATAAGA 0.950123 -112 AGAGGAACATTTGGATATCAATAATATCCCTGA 4 289 1 TTATATCAAA 0.928387 -78 CAAATTTGATATCAGCTCTCGAGACGT 5 5 1 TTATATCAGT 0.97801 -596 TTCCCCCTTTTTATATATCTGCAACAATATTAA 5 106 1 TTATATCTGA 0.827254 -495 catacacaatttttatataagtttgataaacta 6 116 1 ttatataagt 0.965385 -399 gttgaagtattttgatataagtaaaacagaaca 6 274 1 ttatataaga 0.950123 -241 ** ******* * Masking position 7 Map Score: 4.1579 Number of sites scoring better than the average of aligned sites = 559 Number in coding regions = 371 Number in noncoding regions = 188 Number of orfs with sites within 600 bp upstream = 143 Fraction of orfs with sites within 600 bp upstream = 0.0229682 Motif number 8 CGCGCACGCACTTTCCACCATTTTTCTGCATGGT 2 211 0 CTTCACTTTT 0.984832 -390 TTGCCTAATACATTGCAACGTTTTCGCAAAAGAA 2 428 0 CATCACTTTT 0.910996 -173 AATTGGCTTTCTTCGCATCATTTAGGAGTCGATC 3 216 0 CTTCACTTTA 0.953527 -85 TAGCTAGTCACTTCTGCCCCTAGTAGGGATTACT 4 227 1 CTTGCCTAGT 0.848519 -140 ATCTTTGGTTCTTTCCCCCTTTTTATATATCTGC 5 94 1 CTTCCCTTTT 0.988179 -507 CGAACTGGATCTTGCGATCGTTTTTGAAAGACGA 5 488 0 CTTGACTTTT 0.970981 -113 tttttttttcctttccatcgttgtagcggatttg 6 238 1 cttcacttgt 0.98167 -277 tggttgacgacttttcctcctttattattcttga 6 312 0 cttcccttta 0.963524 -203 cctatttttccttccgcactttgtgaaagtaaga 6 418 1 cttgccttgt 0.972628 -97 *** ** * **** Masking position 11 Map Score: 4.09914 Number of sites scoring better than the average of aligned sites = 443 Number in coding regions = 307 Number in noncoding regions = 136 Number of orfs with sites within 600 bp upstream = 108 Fraction of orfs with sites within 600 bp upstream = 0.0173466 Motif number 9 TATAGTTGTACATGCACAATTATTCCTTATA 1 374 0 CATCACAATT 0.973117 -25 AAGACCAGGACATTTAGCATTACGAATATTA 2 509 0 CATTAGCATT 0.951282 -92 AAATATTTGTCATTTATCATTAGACTCTTTT 3 102 0 CATTATCATT 0.929605 -199 GCCCATTAAGCATTTACAATTGCTCAGTCAA 4 29 1 CATTACAATT 0.977685 -338 CGTTTTTTATCATATACCATTCCCCTAACCG 5 165 1 CATTACCATT 0.985698 -436 caattcagtacatacacaatttttatataag 6 106 1 catcacaatt 0.973213 -409 *** ******* Masking position 6 Map Score: 1.14559 Number of sites scoring better than the average of aligned sites = 220 Number in coding regions = 158 Number in noncoding regions = 62 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 10 ATAGAGCAGCAATTATGACCTTTGAATGCATGT 1 141 0 AATATACTTT 0.97275 -258 TACAGTCGTCCATAATGACATTTCTCTTTGATT 1 175 1 CATATACTTT 0.962867 -224 AAAATTGTTTAAATATAAAGTTTAAAAGTTATC 1 264 1 AAAATAATTT 0.708267 -135 GTGCGGAATCAAAGATAACTTTTAAACTTTATA 1 277 0 AAAATACTTT 0.95015 -122 ATATATGCAGAAAGAGTACTTTTTTTTTTTTCT 2 14 0 AAAAGACTTT 0.926582 -587 TTAAATACCGCAAGATTACGTTTTTCGAGAGTA 2 546 0 CAAATACTTT 0.954135 -55 CTAGTTCAACAATTATCACTTGTAACGAAATAT 3 127 0 AATATACTGT 0.894865 -174 GCAATAAAGAAATAATTACATCTTTGGTTCTTT 5 75 1 AATATACTCT 0.894865 -526 AATTAAATTAAAGAAGCACGTTTCCGTTTTTTA 5 141 1 AAGAGACTTT 0.851363 -460 TGCAGATCATCATTATAACGTTTATCTGGTCAA 5 354 1 CATATACTTT 0.962867 -247 *** ** ** *** Masking position 8 Map Score: 1.46376 Number of sites scoring better than the average of aligned sites = 603 Number in coding regions = 389 Number in noncoding regions = 214 Number of orfs with sites within 600 bp upstream = 142 Fraction of orfs with sites within 600 bp upstream = 0.0228076 Motif number 11 TATAAATACTATCAGCAAGATTTCAACCTT 1 106 1 ATCAGCAAGA 0.895893 -293 CAAGAAAATAATCAAAGAGAAATGTCATTA 1 187 0 ATCAAAGAGA 0.876941 -212 CAGGTGCGGAATCAAAGATAACTTTTAAAC 1 283 0 ATCAAAGATA 0.868031 -116 AAGGAGGTTTATCAGGGAGAGAAAAGCTCT 1 333 1 ATCAGGGAGA 0.968253 -66 TAGCTCATCGTTCTGCGAGAGCGTGTCTAA 2 299 0 TTCTGCGAGA 0.894493 -302 CGGAGCCTCATTCTGAGATACCTTAAAAGG 2 353 0 TTCTGAGATA 0.866312 -248 CACCGTTCGATTCAGGGATATTATTGATAT 4 303 0 TTCAGGGATA 0.965696 -64 TTAGTTATGCTTCAGCGATATCATCTAAAC 5 246 1 TTCAGCGATA 0.965696 -355 agaacaccaaatcaagaataataaaggagg 6 301 1 atcaagaata 0.69147 -214 gaaaaataggttcagaaataacgggtccca 6 398 0 ttcagaaata 0.868031 -117 ********** Masking position 8 Map Score: 1.898 Number of sites scoring better than the average of aligned sites = 1182 Number in coding regions = 943 Number in noncoding regions = 239 Number of orfs with sites within 600 bp upstream = 216 Fraction of orfs with sites within 600 bp upstream = 0.0346932 Motif number 12 TATATTTAAACAATTTTTTCTGTTTTGTTTG 1 250 0 CAATTTTTCT 0.913149 -149 TGTACATGCACAATTATTCCTTATAAAAATA 1 368 0 CAATTTTCCT 0.987813 -31 AGGTGTTGCCCAACTATTCGTAAAAGGATCA 2 65 0 CAACTTTCGT 0.960789 -536 TTTTTTATATCAACTCTTCCTAGTTCAACAA 3 148 0 CAACTTTCCT 0.992215 -153 TATTGATATCCAAATGTTCCTCTTGCAACCG 4 281 0 CAAATTTCCT 0.969771 -86 gcttggttgacgacttttcctcctttattat 6 318 0 cgactttcct 0.978994 -197 atttctgaacctatttttccttccgcacttt 6 409 1 ctattttcct 0.952375 -106 ***** ***** Masking position 3 Map Score: 3.9604 Number of sites scoring better than the average of aligned sites = 334 Number in coding regions = 252 Number in noncoding regions = 82 Number of orfs with sites within 600 bp upstream = 58 Fraction of orfs with sites within 600 bp upstream = 0.00931577 Motif number 13 ATTTATAAGATTTTTTATTGCCTTATATATA 1 82 0 TTTTTATTGC 0.911106 -317 AAGAGTACTTTTTTTTTTTTCTGAC 2 5 0 TTTTTTTTTC 0.935045 -596 GGTTGTTTTCTTTTTTTTTTCGCGATTGTTT 2 107 0 TTTTTTTTTC 0.935045 -494 ATTACGAATATTATTTATTTCACTTATGAGT 2 491 0 TTATTATTTC 0.899732 -110 TTACCGTTAATTCTTACTGTCAAGGAGTCGC 4 127 0 TTCTTCTGTC 0.871758 -240 TCTCTATACCTTATTGCTTGCTTTAGGTTGA 5 43 1 TTATTCTTGC 0.942346 -558 ATGTAATTATTTCTTTATTGCCTCAACCTAA 5 65 0 TTCTTATTGC 0.909471 -536 tttttttttttttttcctttccatcgttgta 6 232 1 tttttctttc 0.973564 -283 agaaaagcttttattattttctgttagccgc 6 364 1 ttattttttc 0.899732 -151 tctgaacctatttttccttccgcactttgtg 6 412 1 tttttcttcc 0.907248 -103 tgctattctcttcttactttcacaaagtgcg 6 432 0 ttcttctttc 0.973044 -83 ***** ***** Masking position 5 Map Score: 6.52609 Number of sites scoring better than the average of aligned sites = 3147 Number in coding regions = 1100 Number in noncoding regions = 2047 Number of orfs with sites within 600 bp upstream = 1461 Fraction of orfs with sites within 600 bp upstream = 0.234661 Motif number 14 TTTGCGAAAACGTTGCAATGTATTAGGCAAGATT 2 432 1 CGTCATGTTT 0.956071 -169 TTTAAGAAAGTGTTACTGTGTATTAA 2 585 1 TGTCGTGTTT 0.97862 -16 TGTTTTTTACCGTTACCGTTAATTCTTACTGTCA 4 136 0 CGTCGTTATT 0.984225 -231 AATCTTGCATCGATATTGTTTTTTACCGTTACCG 4 152 0 CGTTGTTTTT 0.913327 -215 TAAAGAAGCACGTTTCCGTTTTTTATCATATACC 5 149 1 CGTCGTTTTT 0.98784 -452 AGTGACGTTGTGATGCGGTGAGTTCGGCGGTTAG 5 189 0 TGTCGTGATT 0.972339 -412 AAGTCCGTTACGCTGCGGTGAATTTGACCAGATA 5 376 0 CGTCGTGATT 0.992299 -225 ** * * **** ** Masking position 9 Map Score: 0.968724 Number of sites scoring better than the average of aligned sites = 144 Number in coding regions = 105 Number in noncoding regions = 39 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 15 ATCAGCAAGATTTCAACCTTGGAAAACATG 1 116 1 TTTCAACCTT 0.920872 -283 GCGCACGCACTTTCCACCATTTTTCTGCAT 2 214 0 TTTCCACCAT 0.839809 -387 TTGAGTTGATATTCAACCTTTTAAGGTATC 2 337 1 ATTCAACCTT 0.890372 -264 GCCACCGCAAAGTCTACCTTTTCTTCTTTA 2 385 1 AGTCTACCTT 0.741392 -216 TCAGTCAATACTTCAACCAATCTCTTATAT 4 52 1 CTTCAACCAA 0.973321 -315 TTCTTTATTGCCTCAACCTAAAGCAAGCAA 5 56 0 CCTCAACCTA 0.901105 -545 CGCTGATTACCTTCTACCAAATTACAACGA 5 418 1 CTTCTACCAA 0.95788 -183 gaggaaaagtcgtcaaccaagcggattctc 6 327 1 cgtcaaccaa 0.953831 -188 aataaaagcttttctaccaattgagaatcc 6 349 0 tttctaccaa 0.916741 -166 ********** Masking position 6 Map Score: 0.582367 Number of sites scoring better than the average of aligned sites = 1015 Number in coding regions = 819 Number in noncoding regions = 196 Number of orfs with sites within 600 bp upstream = 141 Fraction of orfs with sites within 600 bp upstream = 0.022647