AlignACE version 2.2 July 7, 1998 AlignACE -jRPC.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 YDL150W 300 bp YDL150W RPC53 1-1269 RNA polymerase III (C) subunit, homologus to human BN51 protein #2 YKL144C 300 bp YKL144C RPC25 1-639 Subunit of RNA polymerase III #3 YNL151C 600 bp YNL151C rpc31 1-756 31-kDa subunit of RNA polymerase III (C)\; HMG1 like protein #4 YNL113W 600 bp YNL113W rpc19 1-429 subunit common to RNA polymerases I (A) and III (C) #5 YNR003C 600 bp YNR003C rpc34 1-954 34-kDa subunit of RNA polymerase III (C) #6 YPR110C 470 bp YPR110C RPC40 1-1008 RNA polymerase III (C) subunit #7 YPR190C 339 bp YPR190C RPC82 1-1965 82-kDa subunit of RNA polymerase III (C) Motif number 1 AAAGCATCAGTGAGATGAGCTATGATGAGAT 1 43 1 TGAGATGAGT 0.995066 -258 TGAGCTATGATGAGATGAGCTTCATTATTGA 1 58 1 TGAGATGAGT 0.995066 -243 AAAAATTTTAAGCGATGAGCATCGCCTGAAT 2 105 0 AGCGATGAGA 0.975345 -196 TATAGGTTGCTGCGATGAGGAAACTATTTTC 3 516 0 TGCGATGAGA 0.992078 -85 GCTGTACAGAAGAGATAAGATGTAGCTTTAT 4 379 0 AGAGATAAGT 0.862039 -222 AATATTCACCTGCGATGAGCTGGAAAAAAAA 4 471 1 TGCGATGAGT 0.997482 -130 GATGTATTTGTGAGATGAGATCATTACAGAA 5 537 1 TGAGATGAGT 0.995066 -64 AAAAAATTATTGCGATGAGTTGAAAGAAAAA 6 385 1 TGCGATGAGT 0.997483 -86 TTTCCTTCAATGCGATGAGCTTTTGAAAAAT 7 216 0 TGCGATGAGT 0.997482 -124 ********* * Masking position 6 Map Score: 20.4266 Number of sites scoring better than the average of aligned sites = 272 Number in coding regions = 65 Number in noncoding regions = 207 Number of orfs with sites within 600 bp upstream = 231 Fraction of orfs with sites within 600 bp upstream = 0.0371025 Motif number 2 ATGTTTTCTCTTCCTCCAAAACTT 1 4 1 TTTTCTCTTC 0.927845 -297 TCTCTGGTCATTATCTTCTGCTGATCAAAAA 1 149 0 TTATCTTCTC 0.848033 -152 AAGCGTAATCTTGTTTTTTATTAAGCGGGAT 1 266 1 TTGTTTTTTT 0.781862 -35 TTCTTACCCATTTTCTTTTGCATTCTAGCCG 3 63 0 TTTTCTTTTC 0.977152 -538 GCGTAATCCTTTCTCTTCTACGTCACAGTAC 3 164 0 TTCTCTTCTC 0.956843 -437 GAACGAGATCTTCTTTTCTCTTATGAAGAAA 3 321 1 TTCTTTTCTT 0.826142 -280 GAGGAAACTATTTTCTTCTTTGAGATTTTTT 3 500 0 TTTTCTTCTT 0.951446 -101 TTCTGTCGTGTTGTTTTCTATAGGTTGCTGC 3 534 0 TTGTTTTCTT 0.826142 -67 TTTTTTTCGGTTTTTTTTTATATTTCTGCCC 4 264 0 TTTTTTTTTT 0.901632 -337 TTTGAAATTTTTTTTTTTTCCAGCTCATCGC 4 482 0 TTTTTTTTTC 0.963664 -119 ATTAGTATGGTTTTCTTTTGAAATTTTTTTT 4 498 0 TTTTCTTTTA 0.88576 -103 TTTATAATTTTTTTCTTTTTTTCTCACTTTT 5 21 1 TTTTCTTTTT 0.936632 -580 TTTAGTTAAGTTTTCTTCTAATTTTGAATAT 5 84 1 TTTTCTTCTA 0.911341 -517 AACGCTGTTTTTTTTTTTTGCACACCTTTAA 5 167 0 TTTTTTTTTC 0.963664 -434 GCCCCCTGCCTTTTCTTCTCAATTGCTCACA 5 243 0 TTTTCTTCTA 0.911341 -358 GCACAGGCACTTTTTTTTTCCTTCAAATCTT 5 474 1 TTTTTTTTTC 0.963664 -127 TACTTGTCGTTTGTCTTCTGCTACAATACAT 6 288 1 TTGTCTTCTC 0.956843 -183 ATGAGTGAAATTTTTTCTTTCAACTCATCGC 6 396 0 TTTTTTCTTC 0.88857 -75 CAACGTTCTTCTTTTTTCCTTTTAATAAT 7 9 1 TTCTTTTTTC 0.912054 -331 CCAAAATTATTTTTTTCCTTCAATGCGATGA 7 229 0 TTTTTTCCTC 0.913583 -111 ********* * Masking position 6 Map Score: 21.9274 Number of sites scoring better than the average of aligned sites = 6795 Number in coding regions = 2736 Number in noncoding regions = 4059 Number of orfs with sites within 600 bp upstream = 2262 Fraction of orfs with sites within 600 bp upstream = 0.363315 Motif number 3 CTTCTGCAATGAAAAAAAATTCAATAATGAA 1 78 0 GAAAAAAATT 0.859264 -223 TGCAGGGCGGATGAAAAATTTTCAAACTGCG 1 109 0 ATAAAAATTT 0.95033 -192 TCTTCTGCTGATCAAAAAATTGGACTTTGCA 1 136 0 ATAAAAAATT 0.928139 -165 AAATTTGTCAAATAAAAATTTTAAGCGATGA 2 118 0 AAAAAAATTT 0.965919 -183 TACTATTTAAATTAGAAAATTCATTGAACAA 2 274 1 ATAGAAAATT 0.844082 -27 GATGGTCGACAAGAAAAATCTCAATACAATG 3 358 1 AAAAAAATCT 0.740242 -243 ATGAAAAATGAAGAGAAATTTGAAAAAATCT 3 478 1 AAAGAAATTT 0.922358 -123 AGCTGGAAAAAAAAAAAATTTCAAAAGAAAA 4 488 1 AAAAAAATTT 0.965919 -113 AAACAAAAAGATTAAATAATTGCAATATCAT 5 429 0 ATAAATAATT 0.736312 -172 TTTTAATACAATAAAAGATTTGAAGGAAAAA 5 488 0 ATAAAGATTT 0.817028 -113 CTTTTATTGTATTAAAAATTTTCAAGTTGAT 5 502 1 ATAAAAATTT 0.95033 -99 TCCATTCAAAGACAAAAATTTATGATCTTGG 6 177 1 GAAAAAATTT 0.900442 -294 AAACGGAATTAATAAATATTTGCAACATAAA 6 324 0 AAAAATATTT 0.859686 -147 GACTTGGATTCACAAAAATTTTGTGAAAAAA 6 360 1 CAAAAAATTT 0.771372 -111 CAAAAATTTTGTGAAAAAATTATTGCGATGA 6 372 1 GTAAAAAATT 0.804748 -99 GATGAGTTGAAAGAAAAAATTTCACTCATAT 6 398 1 AAAAAAAATT 0.95033 -73 GTTGGGAATGATCAGAAATTTTTCAAAAGCT 7 199 1 ATAGAAATTT 0.889128 -141 CATTGAAGGAAAAAAATAATTTTGGATCAAA 7 235 1 AAAAATAATT 0.805296 -105 TATTGAGAACAATAGAGAATTGCTGACACAG 7 285 1 AAAGAGAATT 0.651766 -55 GATCTTGCTCAACAAAAATTTTTCCCTATTC 7 316 0 AAAAAAATTT 0.965919 -24 ** ******** Masking position 11 Map Score: 17.6815 Number of sites scoring better than the average of aligned sites = 2577 Number in coding regions = 1159 Number in noncoding regions = 1418 Number of orfs with sites within 600 bp upstream = 950 Fraction of orfs with sites within 600 bp upstream = 0.152586 Motif number 4 TGAATTGTTCTCTTGAATACCATAATTCTCTGGTCA 1 170 0 TTTATCATAT 0.929743 -131 CCTTAAAGTCTTTGAAATACTATACTGGTTGCTCGT 2 32 1 TTGATCATAT 0.949189 -269 ATAAAGACATTCTGTAGTACTATTTAAATTAGAAAA 2 257 1 TTGATCATTA 0.895511 -44 ATAGGTACATTTTTTAATTCCTTAAACATAACTTGC 4 186 1 TTTATCTTAA 0.910683 -415 GTTCCTTTTCTTTGAACTACGTTTTTTGGGCAGAAA 4 237 1 TTGATCTTTT 0.935039 -364 TCTTATCTCTTCTGTACAGCTTTATTGGGGTGAATC 4 390 1 TTGAACTTAT 0.916232 -211 TGGTACTTTATGTGAAGTTCAATTTTTCCGACTTTG 4 570 0 TTGATCATTT 0.926802 -31 TTTTTCTCACTTTTTAATACCTTTTAATAGCCGCTA 5 38 1 TTTATCTTTA 0.873588 -563 GTTTTTTTTTTTTGCACACCTTTAAAACCTATAGAA 5 156 0 TTGAACTTAA 0.88114 -445 CCACAGTAAATATGTAAATCGTTTATTAAAATGTTT 5 356 1 TTGAACTTTT 0.88114 -245 AACTTGAAAATTTTTAATACAATAAAAGATTTGAAG 5 494 0 TTTATCATAA 0.89969 -107 ACCGAATTATTGTTGAATACGATATTCTGGGTTGCT 6 15 1 TTTATCATAT 0.929743 -456 TGCAAATATTTATTAATTCCGTTTATAGTGACTTGG 6 331 1 TTTATCTTTT 0.910684 -140 AGCACACTGCTGTTAAAAACCTTATTAACTTCTAAA 7 66 1 TTTAACTTAT 0.885689 -274 GTGGAAGAAATATTGAGAACAATAGAGAATTGCTGA 7 275 1 TTTAACATAA 0.822042 -65 * ** * * * *** * Masking position 6 Map Score: 8.04953 Number of sites scoring better than the average of aligned sites = 1092 Number in coding regions = 765 Number in noncoding regions = 327 Number of orfs with sites within 600 bp upstream = 260 Fraction of orfs with sites within 600 bp upstream = 0.0417604 Motif number 5 GATTACGCTTCGACTTTCGGTTAGTCTAGC 1 246 0 CGACTTTCGG 0.962736 -55 TTTTCAGTCGCGTTATACGGATTAGTTAAT 2 146 1 CGTTATACGG 0.882067 -155 CTTGAATATTCGTTATTATGATACGAAATT 2 173 0 CGTTATTATG 0.811338 -128 ACGCAAGAAGCGTTATTCGGAAGAAACTAT 2 219 1 CGTTATTCGG 0.983298 -82 GGTAGTATAAAGACATTCTGTAGTACTATT 2 251 1 AGACATTCTG 0.713949 -50 TAAACCTTTTCGTTTCTCGGCTGTTTAAGG 3 127 0 CGTTTCTCGG 0.929454 -474 CTATAAAGCACGTTTTTCTGATATGTATAT 4 160 0 CGTTTTTCTG 0.981179 -441 CTTTGAACTACGTTTTTTGGGCAGAAATAT 4 246 1 CGTTTTTTGG 0.92363 -355 GATATTGTTGCGTCTTTTTGAATAAGCTTT 4 306 0 CGTCTTTTTG 0.849501 -295 CACTTGATTAAGATTTTCTGTAATGATCTC 5 553 0 AGATTTTCTG 0.825646 -48 TTGTTGAATACGATATTCTGGGTTGCTAAT 6 24 1 CGATATTCTG 0.962778 -447 ********** Masking position 2 Map Score: 4.32698 Number of sites scoring better than the average of aligned sites = 649 Number in coding regions = 451 Number in noncoding regions = 198 Number of orfs with sites within 600 bp upstream = 162 Fraction of orfs with sites within 600 bp upstream = 0.0260199 Motif number 6 TCCTCCAAAACTTTTTGTATAAAAGCATCA 1 22 1 CTTTTTGTAT 0.968651 -279 TCTTCGTGCTTTTTATATTCCCCTTAAA 2 9 1 CTTTTTATAT 0.977474 -292 ATCGCTTAAAATTTTTATTTGACAAATTTT 2 120 1 ATTTTTATTT 0.749251 -181 TTTTCGGTTTTTTTTTATATTTCTGCCCAA 4 262 0 TTTTTTATAT 0.809682 -339 ATTGTTGCGTCTTTTTGAATAAGCTTTCTT 4 303 0 CTTTTTGAAT 0.796996 -298 TATAAGATGACTTTTTATATTCAAAATTAG 5 101 0 CTTTTTATAT 0.977474 -500 ATAACTAGTACATTTTATATGAAGGAGTTT 5 128 1 CATTTTATAT 0.846486 -473 ATTATTTAATCTTTTTGTTTTTAAGTAACA 5 440 1 CTTTTTGTTT 0.924854 -161 CGCACAGGCACTTTTTTTTTCCTTCAAATC 5 473 1 CTTTTTTTTT 0.755962 -128 CTTCTGACTAATTTTTATATACAAACACCA 6 205 0 ATTTTTATAT 0.882301 -266 GGCCCTTGTTCTTTATATATATATTTGGTA 7 129 1 CTTTATATAT 0.84641 -211 ********** Masking position 6 Map Score: 5.21967 Number of sites scoring better than the average of aligned sites = 1302 Number in coding regions = 539 Number in noncoding regions = 763 Number of orfs with sites within 600 bp upstream = 579 Fraction of orfs with sites within 600 bp upstream = 0.0929971 Motif number 7 CAGTTTGAAAATTTTTCATCCGCCCTGCAAA 1 111 1 ATTTTCATCC 0.925299 -190 ATACCTCAATATCTTTCTAGCTGTCCTCTTT 1 206 0 ATTTTCTAGC 0.94039 -95 TTGTATTGAGATTTTTCTTGTCGACCATCAG 3 356 0 ATTTTCTTGT 0.884938 -245 ATTTCTCTTCATTTTTCATGCGGCCGCACAA 3 466 0 ATTTTCATGC 0.925299 -135 AAGTTACAATATCTTTCTGTCGTGTTGTTTT 3 548 0 ATTTTCTGTC 0.921966 -53 GTTTTTTTTTATATTTCTGCCCAAAAAACGT 4 255 0 ATTTTCTGCC 0.960633 -346 TTTTTGAATAAGCTTTCTTGCGTGCCGTTTT 4 291 0 AGTTTCTTGC 0.950397 -310 TCGCAGGTGAATATTTCTATCACTTGTTACG 4 455 0 ATTTTCTATC 0.884236 -146 ATTTTAGTTAAGTTTTCTTCTAATTTTGAAT 5 82 1 AGTTTCTTCT 0.746949 -519 ATGAGTGAAATTTTTTCTTTCAACTCATCGC 6 396 0 TTTTTCTTTC 0.754374 -75 ATTGTTCTCAATATTTCTTCCACTATTATTA 7 267 0 ATTTTCTTCC 0.980362 -73 ** ******** Masking position 6 Map Score: 3.59738 Number of sites scoring better than the average of aligned sites = 1079 Number in coding regions = 742 Number in noncoding regions = 337 Number of orfs with sites within 600 bp upstream = 252 Fraction of orfs with sites within 600 bp upstream = 0.0404754 Motif number 8 TTCTGCAATGAAAAAAAATTCAATAATGAA 1 78 0 AAAAAAAATT 0.952566 -223 AAATTTGTCAAATAAAAATTTTAAGCGATG 2 119 0 AATAAAAATT 0.831913 -182 CATTAGTATTGAAAATAATTTATATTTTCA 3 231 0 GAAAATAATT 0.85065 -370 AGCTGGAAAAAAAAAAAATTTCAAAAGAAA 4 488 1 AAAAAAAATT 0.952566 -113 GAGAAAAAAAGAAAAAAATTATAAACTTGA 5 16 0 GAAAAAAATT 0.93464 -585 AAGAAAACTTAACTAAAATTAAAAAAATAG 5 71 0 AACTAAAATT 0.802593 -530 TATCGTATTCAACAATAATTCGGTAGTC 6 9 0 AACAATAATT 0.927137 -462 TCCATTCAAAGACAAAAATTTATGATCTTG 6 177 1 GACAAAAATT 0.95799 -294 GACTTGGATTCACAAAAATTTTGTGAAAAA 6 360 1 CACAAAAATT 0.894813 -111 ATTGAAGGAAAAAAATAATTTTGGATCAAA 7 236 1 AAAAATAATT 0.888719 -104 GATCTTGCTCAACAAAAATTTTTCCCTATT 7 317 0 AACAAAAATT 0.969718 -23 ********** Masking position 5 Map Score: 8.81239 Number of sites scoring better than the average of aligned sites = 1628 Number in coding regions = 687 Number in noncoding regions = 941 Number of orfs with sites within 600 bp upstream = 707 Fraction of orfs with sites within 600 bp upstream = 0.113556 Motif number 9 GCAGAAGATAATGACCAGAGAATTATGGTAT 1 159 1 ATGACAGAGA 0.953893 -142 TATTCAAGCCATGTGCAGAAATAGACGCAAG 2 195 1 ATGTCAGAAA 0.903837 -106 GTTTAAAGAGATGTACTGTGACGTAGAAGAG 3 152 1 ATGTCTGTGA 0.91475 -449 GTGTAACTCAATGAACTGAAATTGCTTTCGT 3 420 1 ATGACTGAAA 0.977706 -181 CGCATGAAAAATGAAGAGAAATTTGAAAAAA 3 475 1 ATGAGAGAAA 0.875737 -126 CCACTTCAAAACGTGCTGAGAACATGCCATC 4 79 1 ACGTCTGAGA 0.765428 -522 TTCACCTGCGATGAGCTGGAAAAAAAAAAAA 4 475 1 ATGACTGGAA 0.911085 -126 ACGGTAGGCGATGTAGTGAGTAGTGCGGACG 5 296 0 ATGTGTGAGT 0.697478 -305 ACAGATCATGATGAACTGTATTGTCGCAACA 6 74 0 ATGACTGTAT 0.879554 -397 ACAGTTCATCATGATCTGTGATCTAGCCGAC 6 86 1 ATGACTGTGA 0.95864 -385 AAAATCTTGTATGAGGTGTATGGGTTAATTA 6 146 1 ATGAGTGTAT 0.717101 -325 AATTATTGCGATGAGTTGAAAGAAAAAATTT 6 389 1 ATGATTGAAA 0.793028 -82 TTCGTTGGGAATGATCAGAAATTTTTCAAAA 7 196 1 ATGACAGAAA 0.953058 -144 **** ****** Masking position 1 Map Score: 3.95682 Number of sites scoring better than the average of aligned sites = 1236 Number in coding regions = 894 Number in noncoding regions = 342 Number of orfs with sites within 600 bp upstream = 282 Fraction of orfs with sites within 600 bp upstream = 0.0452939 Motif number 10 GGTTGCTCGTAGGATTCGGTAAGAACCCTGATTTAGATG 2 58 1 AGTGAAACCT 0.964311 -243 GGCTAGACTACGAAATTTGGACAAGCCATTGCTGCGTAA 3 189 0 CGTGACGCCT 0.997476 -412 CACTTCAAAACGTGCTGAGAACATGCCATCAAGGTTGAC 4 80 1 CGTGACGCCT 0.997476 -521 TATAAAGTAACGAATTGGGGAAAGGCCATCAATCCAAAG 4 536 1 CGTGAAGCCT 0.996036 -65 CGATGTAGTGAGTAGTGCGGACGAACCGTAGCCGTAACG 5 280 0 AGTGACACCT 0.978315 -321 CGTCAGCAAACGCTCTGAGGAAAGGCCCTTGTTCTTTAT 7 106 1 CGTGAAGCCT 0.996036 -234 ** * * ** *** * Masking position 11 Map Score: 1.44678 Number of sites scoring better than the average of aligned sites = 20 Number in coding regions = 12 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 12 Fraction of orfs with sites within 600 bp upstream = 0.0019274 Motif number 11 GACAGCTAGAAAGATATTGAGGTATTTATAATT 1 212 1 AGATATTGGT 0.979385 -89 AATGGTAGCCATTGTATTGAGATTTTTCTTGTC 3 365 0 ATGTATTGAT 0.80803 -236 ACACGACAGAAAGATATTGTAACTTGATAGTAC 3 554 1 AGATATTGAC 0.968345 -47 AGAATAATCTATGATATTGTTGCGTCTTTTTGA 4 315 0 AGATATTGGC 0.9894 -286 ATCCAACTAGATGATATTGCAATTATTTAATCT 5 419 1 AGATATTGAT 0.93956 -182 ATTCAGGATATTGGCGCTGTAAATTCT 5 584 0 AGATATTGGC 0.9894 -17 ATCATGATGAACTGTATTGTCGCAACAAACTTG 6 68 0 ATGTATTGGC 0.961845 -403 ACAAAAATTTATGATCTTGGTGTTTGTATATAA 6 188 1 AGATCTTGGT 0.917355 -283 CATAAAGCACAATGTATTGTAGCAGAAGACAAA 6 297 0 ATGTATTGGC 0.961879 -174 * ******* ** Masking position 7 Map Score: 4.37506 Number of sites scoring better than the average of aligned sites = 395 Number in coding regions = 313 Number in noncoding regions = 82 Number of orfs with sites within 600 bp upstream = 65 Fraction of orfs with sites within 600 bp upstream = 0.0104401 Motif number 12 TTAGTCTAGCAAATTATAAATACCTCAATA 1 226 0 AAATTATAAA 0.959056 -75 AGTACTATTTAAATTAGAAAATTCATTGAA 2 272 1 AAATTAGAAA 0.97379 -29 TAGCCAATTGAAAATATAAATTATTTTCAA 3 223 1 AAAATATAAA 0.786895 -378 AAATGAAGAGAAATTTGAAAAAATCTCAAA 3 483 1 AAATTTGAAA 0.854161 -118 AAAAAGAAAAAAATTATAAACTTGAGAAAT 5 11 0 AAATTATAAA 0.959056 -590 AACTTAACTAAAATTAAAAAAATAGCGGCT 5 66 0 AAATTAAAAA 0.876839 -535 TTTATATTCAAAATTAGAAGAAAACTTAAC 5 88 0 AAATTAGAAG 0.896701 -513 GATTTTATATTAATTAGAAAGAGATGTTGC 6 249 1 TAATTAGAAA 0.854161 -222 GGGAGAGTTAAAATTATTAAAAGGAAAAAA 7 22 0 AAATTATTAA 0.786894 -318 ********** Masking position 5 Map Score: 2.33187 Number of sites scoring better than the average of aligned sites = 678 Number in coding regions = 349 Number in noncoding regions = 329 Number of orfs with sites within 600 bp upstream = 222 Fraction of orfs with sites within 600 bp upstream = 0.0356569 Motif number 13 TTACGCTTCGACTTTCGGTTAGTCTAGCAAATT 1 241 0 ACTTCGGTAT 0.94988 -60 TTCGGAAGAAACTATCGGGTAGTATAAAGACAT 2 234 1 ACTTCGGTAT 0.94184 -67 AACCTTTTCGTTTCTCGGCTGTTTAAGGAAAGT 3 122 0 TTTTCGGTGT 0.952041 -479 GAGGCACTTCTTTGTGGAATGGTAGCCATTGTA 3 382 0 TTTTGGATGT 0.818776 -219 CGTGTTGTTTTCTATAGGTTGCTGCGATGAGGA 3 526 0 TCTTAGGTGT 0.830433 -75 ACTTGCTTCTATTTTGGGATAGTTCCTTTTCTT 4 216 1 ATTTGGGTAT 0.956067 -385 GCGTGCCGTTTTTTTCGGTTTTTTTTTATATTT 4 270 0 TTTTCGGTTT 0.754361 -331 AATTTTTCCGACTTTGGATTGATGGCCTTTCCC 4 553 0 ACTTGGATGT 0.873612 -48 TGAATACGATATTCTGGGTTGCTAATCACTATT 6 28 1 ATTTGGGTGT 0.972106 -443 TTGTATGAGGTGTATGGGTTAATTATCCATTCA 6 152 1 TGTTGGGTAT 0.925229 -319 ACAAACGACAAGTATGGGATAATGCAACATCTC 6 269 0 AGTTGGGTAT 0.931517 -202 *** **** ** * Masking position 5 Map Score: 0.600242 Number of sites scoring better than the average of aligned sites = 782 Number in coding regions = 617 Number in noncoding regions = 165 Number of orfs with sites within 600 bp upstream = 147 Fraction of orfs with sites within 600 bp upstream = 0.0236107 Motif number 14 TATTTATAATTTGCTAGACTAACCGAAAGT 1 234 1 TTGCTAGACT 0.984432 -67 TATTTTCAATTGGCTAGACTACGAAATTTG 3 209 0 TGGCTAGACT 0.965789 -392 AATCTATTCCTTGCAAGGCTATTCGGACCC 4 27 0 TTGCAAGGCT 0.979455 -574 AACCAGATTCTTGGAAGACTTTGCTTACAT 5 214 1 TTGGAAGACT 0.968071 -387 ATATATATATTTGGTAGGCTAACGGATATA 7 143 1 TTGGTAGGCT 0.979122 -197 ********** Masking position 6 Map Score: 0.544787 Number of sites scoring better than the average of aligned sites = 114 Number in coding regions = 84 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 15 ********** No masking Map Score: 6.66732e-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