AlignACE version 2.2 July 7, 1998 AlignACE -jPOP.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 YAL033W 600 bp YAL033W POP5 1-522 An integral subunit of RNase P and apparent subunit of RNase MRP #2 YBL018C 369 bp YBL018C POP8 1-47, 123-477 integral subunit of RNase P and apparent subunit of RNase MRP #3 YBR167C 480 bp YBR167C POP7 1-423 Pop7 protein, an integral subunit of RNase P and apparent subunit of RNase MRP #4 YBR257W 600 bp YBR257W POP4 1-840 Required for normal 5.8S rRNA processing and for tRNA processing\; associated with RNase MRP and RNase P #5 YGR030C 300 bp YGR030C POP6 1-477 integral subunit of RNase P and apparent subunit of RNase MRP #6 YNL282W 600 bp YNL282W POP3 1-588 #7 YNL221C 600 bp YNL221C POP1 1-2628 Component of nuclear RNase P and RNase MRP #8 YNR052C 472 bp YNR052C POP2 1-1302 Putative transcription factor Motif number 1 CTCACAAACATCGTCTTTCTTCCTTCACCCA 1 206 0 TCTCTTTCTT 0.97436 -395 CTCCAGTAAGTGCTCGTTTTTTTCTTCTTCC 1 374 1 TGTCGTTTTT 0.894822 -227 CTAAAGGATCTGCTCGTTTTTGTTTATGAAA 2 49 0 TGTCGTTTTT 0.894822 -321 ACTATTTATCTGCCTTTTCTTATTCTGATTA 2 329 0 TGCTTTTCTT 0.896882 -41 CTTCATACTTTCTCTTTTCTTTCATTGATCT 3 56 0 TCCTTTTCTT 0.928293 -425 TTCGAAAAAATGTTTTTTCTTCATTTTTTTC 3 346 1 TGTTTTTCTT 0.931391 -135 GGTGCAGAGTTCTCTTTTCTTCTTTGACCGT 3 456 0 TCCTTTTCTT 0.928293 -25 GCATGTTTTTTCCTCTTTTTTCATTTATGGC 4 171 0 TCTCTTTTTT 0.969574 -430 TAGCCAATATTCATTTTTTTTGAATCGATGT 4 263 1 TCTTTTTTTT 0.94427 -338 CAAATCGTGCTTATTTTCTTTAGTCTTTACA 4 561 0 TTTTTTCTTT 0.545513 -40 TCTTATTTTCTTTTCTTTTTTGTTGGCAGTT 5 110 1 TTTCTTTTTT 0.909993 -191 CTTTTTTTCTTCTTCTTCTTTTCAATCTCTT 5 264 0 TCTCTTCTTT 0.876777 -37 TGATTTGCTTTTATCTTTTTTTCTTCTTCTT 5 278 0 TTTCTTTTTT 0.909993 -23 CGTTTTTTCCTGTTTTTTTTTTTTTTCGCGG 6 214 0 TGTTTTTTTT 0.91925 -387 CTTGATTTCCTCACCTTCCTTCTTGTTACAG 6 568 0 TCCCTTCCTT 0.844633 -33 CTTACTAGTCTTTTCTTTTTTGACTTTCTCT 7 19 0 TTTCTTTTTT 0.909993 -582 AAAAAGTAATTTCTTTTTCTTACTAGTCTTT 7 37 0 TTTTTTTCTT 0.865056 -564 CGAATTCAGATCTGCTTTCTTCTAATGCGAA 7 468 0 TCGCTTTCTT 0.801181 -133 TCAATAAGTATCCCCGTTCTTCAAAGACATG 7 520 0 TCCCGTTCTT 0.906322 -81 AGGTCAATTCTCACCTTTCTTGCCAAATGTT 7 566 0 TCCCTTTCTT 0.960548 -35 ATACACCGGTTGTCCGTTTTTACCT 8 5 0 TGCCGTTTTT 0.844981 -468 AGATTACAAGTGATTTTTTTTTTCTTTTTTT 8 48 1 TGTTTTTTTT 0.91925 -425 ATTTTTTTTTTCTTTTTTTTTGTTATTTTTT 8 60 1 TCTTTTTTTT 0.94427 -413 TTTTTTTTTGTTATTTTTTTTTTTGTTCTTA 8 72 1 TTTTTTTTTT 0.843152 -401 AACTTCAAACTGATCTTTCTTGTCAGTTATC 8 341 0 TGTCTTTCTT 0.96231 -132 TATCAGGGCTTCCTTGTTTTTCATACTGGAA 8 388 1 TCTTGTTTTT 0.870682 -85 ** ******** Masking position 7 Map Score: 31.4293 Number of sites scoring better than the average of aligned sites = 5473 Number in coding regions = 2526 Number in noncoding regions = 2947 Number of orfs with sites within 600 bp upstream = 1802 Fraction of orfs with sites within 600 bp upstream = 0.289431 Motif number 2 GAATGGAAGAAGAAAAAAACGAGCACTTAC 1 379 0 AGAAAAAAAC 0.970064 -222 GCGCTAAGCAAGAACAAAACAAAACAAAGT 1 503 0 AGAACAAAAC 0.937155 -98 AAAAAAATGAAGAAAAAACATTTTTTCGAA 3 346 0 AGAAAAAACA 0.879136 -135 AAACAATCGCAGGAAAAAAATGAAGAAAAA 3 359 0 AGGAAAAAAA 0.970064 -122 ATGAAAAAAGAGGAAAAAACATGCAGATTG 4 178 1 AGGAAAAAAC 0.951425 -423 CGTTGATTTGAGAAAAAAAATGGTACTCAA 4 480 1 AGAAAAAAAA 0.981688 -121 CCAACAAAAAAGAAAAGAAAATAAGAATAT 5 106 0 AGAAAAGAAA 0.879136 -195 GAAAAGAAGAAGAAGAAAAAAAGATAAAAG 5 272 1 AGAAGAAAAA 0.901991 -29 CACCGCACCGCGAAAAAAAAAAAAAACAGG 6 207 1 CGAAAAAAAA 0.935031 -394 AAAAAAAAACAGGAAAAAACGCGAAATGTC 6 224 1 AGGAAAAAAC 0.951425 -377 TACTTTCAGTAGAACAAAAATCGGGGGAAA 6 336 1 AGAACAAAAA 0.961045 -265 AAGACTAGTAAGAAAAAGAAATTACTTTTT 7 38 1 AGAAAAAGAA 0.879136 -563 AATCCAGATACGGAAAAAAATTGTATTTAA 7 158 0 CGGAAAAAAA 0.896899 -443 ACAAAAAAAAAGAAAAAAAAAATCACTTGT 8 53 0 AGAAAAAAAA 0.981688 -420 CCATATAATAAGAACAAAAAAAAAAATAAC 8 81 0 AGAACAAAAA 0.961045 -392 ********** Masking position 6 Map Score: 18.7899 Number of sites scoring better than the average of aligned sites = 1905 Number in coding regions = 540 Number in noncoding regions = 1365 Number of orfs with sites within 600 bp upstream = 1032 Fraction of orfs with sites within 600 bp upstream = 0.165757 Motif number 3 CCCACCAAACCCTCTTACTCTTTTCTTACCAAGTAA 1 338 1 CTTTTTTTCT 0.987874 -263 TGCCTCCTGACTTTGTTTTGTTTTGTTCTTGCTTAG 1 494 1 CTTTTTTTGT 0.88024 -107 CAGTGGACATCATTTTGCTAATTTCAAGGAAAGAA 3 10 0 CTTTATTTCA 0.918581 -471 GTGATTGCACCTTCTTCATCAATTCTGTTTACCCTT 3 96 1 CTTTAATTCT 0.879258 -385 GACCGTCAATCTTATTGCTTATTTCTGAATAGTTAA 3 426 0 CTTTATTTCT 0.976722 -55 CCTGGGTGCAGAGTTCTCTTTTCTTCTTTGACCG 3 457 0 CGTTTTTTCT 0.917037 -24 TTACTATTGGCGTACTAATATATTCTTATTTTCTTT 5 87 1 CTTTTATTCT 0.933946 -214 ATCTTTTTTTCTTCTTCTTCTTTTCAATCTCTTCCA 5 261 0 CTTTTTTTCA 0.956343 -40 CGCGTTTTTTCCTGTTTTTTTTTTTTTTCGCGGTGC 6 211 0 CTTTTTTTTT 0.832191 -390 ATACCGTTCTCATAGTTCAATTTTCTCTGATTTTCT 6 453 1 CTTATTTTCT 0.881768 -148 TCTTTTTTGACTTTCTCTTTATTTCT 7 1 0 CTTTATTTCT 0.976722 -600 ATTTCTTTTTCTTACTAGTCTTTTCTTTTTTGACTT 7 24 0 CTTTTTTTCT 0.987874 -577 ATAATGTTTACTTATTATTATTTACTTTGTTAATCT 7 73 1 CTTTTTTACT 0.933946 -528 TGAGAATTGACCTCATTATAATTACAA 7 584 1 CTTTATTACA 0.661939 -17 CTTTTTTCATCATTATGATATTTTCTTTATTGAGTC 8 283 1 CTTTTTTTCT 0.987874 -190 * * * * ****** Masking position 6 Map Score: 14.5873 Number of sites scoring better than the average of aligned sites = 978 Number in coding regions = 517 Number in noncoding regions = 461 Number of orfs with sites within 600 bp upstream = 400 Fraction of orfs with sites within 600 bp upstream = 0.0642467 Motif number 4 CTAAACAAACACTTCACCAGCCATGGATGC 1 265 1 ACTTCACCAG 0.941859 -336 CCCCCAACGTACTACCACAGCAACCACTCT 1 438 1 ACTACCACAG 0.789893 -163 AGTTATTTGAATTGCACCAGTACTGATCAT 2 120 0 ATTGCACCAG 0.909153 -250 AAGTAAAGAAATTATCCCCGAAACAAATAC 3 174 0 ATTATCCCCG 0.952732 -307 TAATTTCTTTACTTCCCCACCAGGCTGTTG 3 190 1 ACTTCCCCAC 0.884945 -291 TGTGGGAACGATTACCCCCGGTAGTTATTT 4 71 0 ATTACCCCCG 0.98425 -530 AACTTCTTTAACTACCCCACAAAGCTGCCA 4 376 0 ACTACCCCAC 0.918438 -225 AATGTCCGTAACTTTACCCGGTAATAGTCA 6 248 1 ACTTTACCCG 0.893195 -353 AGTGCATCGCATTTCCCCCGATTTTTGTTC 6 347 0 ATTTCCCCCG 0.977108 -254 TGCACGTGACATTGCACCCGGGTAAGAGGG 7 409 1 ATTGCACCCG 0.941237 -192 CTGCTCAATAAGTATCCCCGTTCTTCAAAG 7 525 0 AGTATCCCCG 0.861149 -76 GGTAAATCTCATTATACCAGTCATTCCAAA 8 224 1 ATTATACCAG 0.850751 -249 ********** Masking position 1 Map Score: 5.50474 Number of sites scoring better than the average of aligned sites = 622 Number in coding regions = 480 Number in noncoding regions = 142 Number of orfs with sites within 600 bp upstream = 122 Fraction of orfs with sites within 600 bp upstream = 0.0195952 Motif number 5 TTAGCGCTCTTGAAAAATATTTTACTTTTC 1 526 1 TGAAAAATAT 0.902561 -75 AATCTGATAGTGAAAAGTAAAATATTTTTC 1 537 0 TGAAAAGTAA 0.937179 -64 ATCTACTCTATGTAAAGTAATCTCT 2 6 0 TGTAAAGTAA 0.88555 -364 TTTTTGTTTATGAAAAGTATATGGAATTAT 2 34 0 TGAAAAGTAT 0.963176 -336 CAGTAAAGCTTGTAAAATTACGCGATGACT 2 284 0 TGTAAAATTA 0.675391 -86 TGCTTATTTCTGAATAGTTAAGTAGCTCTT 3 417 0 TGAATAGTTA 0.768262 -64 TATAGCAGTATGAATAGTTTTACTAGCCAA 4 240 1 TGAATAGTTT 0.853213 -361 TTTGAATCGATGTAAAATTTTTGGATACAA 4 281 1 TGTAAAATTT 0.784852 -320 AGAAAGCTCATGCAAAGGATGGAAAACTGA 4 339 1 TGCAAAGGAT 0.765508 -262 ACTCATAATCTGAAAAATTTCACTTAAGCA 6 522 0 TGAAAAATTT 0.875522 -79 TGTGACTCAATGAAAAGGATCGCGATCAGT 7 108 1 TGAAAAGGAT 0.883616 -493 ATTAATTGGTTGCAAAGTAAATTACTATTG 7 317 1 TGCAAAGTAA 0.865131 -284 CGAATTTCACTGAAAAGTTTTCCCACAGTG 7 442 0 TGAAAAGTTT 0.952064 -159 GGACAACCGGTGTATAATATTAATTTAAGA 8 21 1 TGTATAATAT 0.584374 -452 ********** Masking position 6 Map Score: 4.27197 Number of sites scoring better than the average of aligned sites = 1829 Number in coding regions = 1298 Number in noncoding regions = 531 Number of orfs with sites within 600 bp upstream = 422 Fraction of orfs with sites within 600 bp upstream = 0.0677803 Motif number 6 GGTTTTTAAGCAGGTTTGAATGGAAGAAGAAAAAAA 1 390 0 CAGTATGGAG 0.911889 -211 TTTTCACTATCAGATTAATGTGATAGCAATAGTTAG 1 551 1 CAGTTTGAAG 0.789209 -50 CTTTACTGTTCAGCTTTATAGGATAATCAGAATAAG 2 306 1 CAGTTGGAAA 0.89709 -64 TACTGGAACACCAACTGCAAGGGTAAACAGAATTGA 3 114 0 CCATAGGGAA 0.883449 -367 TTCAATTCAACAGCCTGGTGGGGAAGTAAAGAAATT 3 191 0 CAGTTGGGAG 0.985563 -290 AGATTTTTACCAAATTGATTTGGGAATTTTAGACAT 3 251 0 CAATTTGGAA 0.956682 -230 GCATTACTGGCAGCTTTGTGGGGTAGTTAAAGAAGT 4 369 1 CAGTTGGGAG 0.985563 -232 AAATGGTACTCAAAATAGTATGGCAAATATACTCGA 4 497 1 CAATTTGGAA 0.956682 -104 AAGATGAGGCCAAGATTGTTTGGAAGAGATTGAAAA 5 241 1 CAATTTGGAG 0.952578 -60 TTTCGCGGTGCGGTGTTTTGTGGGAATGTGTTTGTT 6 186 0 CGGTTTGGAA 0.869696 -415 GCTCTCGTGACCAAATCGTCGGGAAAACATGTCCCA 7 204 0 CCATTGGGAA 0.959366 -397 GACATTGCACCCGGGTAAGAGGGTAACACTGTGGGA 7 416 1 CCGTGGGGAA 0.877079 -185 ATATGGCAGCAAACATTCTTGGGGAAACAACATAGA 8 105 1 AAATTGGGAA 0.740052 -368 CTTGGGGAAACAACATAGATGGGTAATTATTTAGTT 8 122 1 CAATAGGGAA 0.937559 -351 *** * * *** ** Masking position 15 Map Score: 6.05445 Number of sites scoring better than the average of aligned sites = 811 Number in coding regions = 644 Number in noncoding regions = 167 Number of orfs with sites within 600 bp upstream = 141 Fraction of orfs with sites within 600 bp upstream = 0.022647 Motif number 7 GGAAGAAGAAAAAAACGAGCACTTACTGGA 1 375 0 AAAAACGAGC 0.863154 -226 TTTCATAAACAAAAACGAGCAGATCCTTTA 2 49 1 AAAAACGAGC 0.863154 -321 TATTCAATTCAACAGCCTGGTGGGGAAGTA 3 199 0 AACAGCCTGG 0.8354 -282 GTGATCTTTTTACAGCGAGCTTGAACACAA 4 42 1 TACAGCGAGC 0.847019 -559 AAAGCTCAAAAACAATCTGCATGTTTTTTC 4 190 0 AACAATCTGC 0.900176 -411 GTAGAAATTTAACATTGTGCAATTTTTCTT 4 309 0 AACATTGTGC 0.796868 -292 AATTTTTTCCAAGAGCGTGCGGGGGTTGGT 5 164 0 AAGAGCGTGC 0.956354 -137 AAACGAAACAAAAAACCTGCTGTAAATGCA 6 24 1 AAAAACCTGC 0.863154 -577 AGAATGTTTCAACAGTGAGCCATTCTTGAT 6 133 0 AACAGTGAGC 0.952204 -468 TCACTGTTGAAACATTCTGCTTAATGTCGA 6 145 1 AACATTCTGC 0.796868 -456 CGTTGGCCAGAACAGCCAGCTAGACCAATG 6 291 0 AACAGCCAGC 0.982534 -310 GTAAACTTAAAGGAATCAGCAATTACCGCA 7 281 0 AGGAATCAGC 0.504831 -320 ATACTTATTGAGCAGCCTGCCACTTGAACA 7 540 1 AGCAGCCTGC 0.942293 -61 ATGATGAAAAAAGAGCGAGCAGCGGGTAAG 8 266 0 AAGAGCGAGC 0.956354 -207 ********** Masking position 4 Map Score: 5.91009 Number of sites scoring better than the average of aligned sites = 918 Number in coding regions = 687 Number in noncoding regions = 231 Number of orfs with sites within 600 bp upstream = 217 Fraction of orfs with sites within 600 bp upstream = 0.0348538 Motif number 8 GCCTGCACCTGTGGGTGAAGGAAGAAAGAC 1 195 1 GTGGGTGAAG 0.88976 -406 TGCATCCATGGCTGGTGAAGTGTTTGTTTA 1 266 0 GCTGGTGAAG 0.949573 -335 GTACAAGGAAGCGGGTGGGATATATCATAT 2 194 1 GCGGGTGGGA 0.966277 -176 AATTCAACAGCCTGGTGGGGAAGTAAAGAA 3 194 0 CCTGGTGGGG 0.941661 -287 AATCAACGGACCGGGTAAAAAGCGGATGAA 4 458 0 CCGGGTAAAA 0.944197 -143 GTGACTATTACCGGGTAAAGTTACGGACAT 6 249 0 CCGGGTAAAG 0.980998 -352 CTTCCTTATGGCCGGTAGAGTCAATAGTAA 7 338 0 GCCGGTAGAG 0.910236 -263 GACATTGCACCCGGGTAAGAGGGTAACACT 7 416 1 CCGGGTAAGA 0.956109 -185 AGAGCGAGCAGCGGGTAAGGACCGAATTCC 8 255 0 GCGGGTAAGG 0.987999 -218 ********** Masking position 6 Map Score: 3.0193 Number of sites scoring better than the average of aligned sites = 297 Number in coding regions = 175 Number in noncoding regions = 122 Number of orfs with sites within 600 bp upstream = 131 Fraction of orfs with sites within 600 bp upstream = 0.0210408 Motif number 9 AGAAAAAAACGAGCACTTACTGGAGTTACTTG 1 367 0 GGCATTACTG 0.807396 -234 AGAAAAACCAGAGTGGTTGCTGTGGTAGTACG 1 445 0 GGTGTTGCTG 0.985109 -156 GATGGAGATTCAGTACTTGCAGTTATTTGAAT 2 138 0 CGTATTGCAG 0.883111 -232 AAGTAGTTTCGAGTGATTGCACCTTCTTCATC 3 84 1 GGTGTTGCAC 0.872603 -397 AGTTTATTCTCCGTGGTTGCAGCTGTGGTGGT 4 402 1 CGTGTTGCAG 0.967736 -199 AGAAGGCATCGGACACTTGCTGATGAGTATTT 5 195 1 GACATTGCTG 0.926427 -106 TCTCCCAGAAGTGCATTTACAGCAGGTTTTTT 6 33 0 GGCATTACAG 0.807396 -568 AATAGGATGTGCATAATTGCAGTTAAAGAGTG 6 373 0 GATATTGCAG 0.946083 -228 TCTGGGGTTGCGGTAATTGCTGATTCCTTTAA 7 273 1 CGTATTGCTG 0.8281 -328 GTTTCCCCAAGAATGTTTGCTGCCATATAATA 8 101 0 GATGTTGCTG 0.950445 -372 * *** ****** Masking position 7 Map Score: 2.82462 Number of sites scoring better than the average of aligned sites = 763 Number in coding regions = 628 Number in noncoding regions = 135 Number of orfs with sites within 600 bp upstream = 121 Fraction of orfs with sites within 600 bp upstream = 0.0194346 Motif number 10 CGGAGGTGCACGGATGTACCAACAGTTT 1 9 1 CACGGATGTA 0.934749 -592 TTCCTTCACCCACAGGTGCAGGCGCCGCCA 1 188 0 CACAGGTGCA 0.988241 -413 CTTCACCAGCCATGGATGCATGCCTTGTCT 1 276 1 CATGGATGCA 0.967877 -325 CCTGGGTGCAGAGTTCTCTT 3 471 0 CCTGGGTGCA 0.969588 -10 TAATCGTTCCCACAGAGGCAACATTAATGA 4 87 1 CACAGAGGCA 0.94271 -514 AAAAGACCACCACAGCTGCAACCACGGAGA 4 409 0 CACAGCTGCA 0.968849 -192 TACCCTCTTACCCGGGTGCAATGTCACGTG 7 411 0 CCCGGGTGCA 0.991516 -190 ********** Masking position 10 Map Score: 2.0977 Number of sites scoring better than the average of aligned sites = 212 Number in coding regions = 155 Number in noncoding regions = 57 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 11 TTCTTTCCTTGAAATTAGCAAAATGATGT 3 5 1 TTCTGAATTC 0.983712 -476 TCTCTTTTCTTTCATTGATCTTAATTTAGTTCAGT 3 42 0 TTCTGATTTT 0.826349 -439 GTTCCAGTAATTCTTGGAAATAAGCATAAAAGGGT 3 141 1 TTCGGAATAC 0.903712 -340 GGGTATTTGTTTCGGGGATAATTTCTTTACTTCCC 3 172 1 TTCGGATATC 0.827773 -309 TAACCCAGGATTCATTAATGTTGCCTCTGTGGGAA 4 93 0 TTCTAATTTC 0.840676 -508 TGGCCTCATCTTCATGGAATTTTTCGAAATACTCA 5 218 0 TTCGGAATTC 0.974244 -83 CAGATATGTATTCCCTGATCTATACCGTTCTCATA 6 432 1 TTCTGATTAC 0.937442 -169 TAGTTCAATTTTCTCTGATTTTCTCGTGCGGGCAA 6 465 1 TTCTGATTTC 0.983712 -136 TAATTGCTGATTCCTTTAAGTTTACAGATTTATTA 7 286 1 TTCTTAATTC 0.840676 -315 GGGAAAACTTTTCAGTGAAATTCGCATTAGAAGAA 7 448 1 TTCTGAATTC 0.983712 -153 CAGATCTGAATTCGATGAGATTCTCGGAACGGTGG 7 485 1 TTCTGAGTTC 0.956678 -116 *** **** ** * Masking position 8 Map Score: 3.86047 Number of sites scoring better than the average of aligned sites = 603 Number in coding regions = 462 Number in noncoding regions = 141 Number of orfs with sites within 600 bp upstream = 129 Fraction of orfs with sites within 600 bp upstream = 0.0207196 Motif number 12 AGGTGCAGGCGCCGCCATGGGTGAGCCTGA 1 175 0 GCCGCCATGG 0.984805 -426 GGCGGCGCCTGCACCTGTGGGTGAAGGAAG 1 189 1 GCACCTGTGG 0.98522 -412 GACAAGGCATGCATCCATGGCTGGTGAAGT 1 275 0 GCATCCATGG 0.974725 -326 CATTAATGTTGCCTCTGTGGGAACGATTAC 4 86 0 GCCTCTGTGG 0.988688 -515 CTCCGTGGTTGCAGCTGTGGTGGTCTTTTT 4 410 1 GCAGCTGTGG 0.992065 -191 ********** Masking position 8 Map Score: 0.350688 Number of sites scoring better than the average of aligned sites = 104 Number in coding regions = 89 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 13 TTGGCATGATCAGTACTGGTGCAATTCAAA 2 115 1 CAGTACTGGT 0.97003 -255 GATGGAGATTCAGTACTTGCAGTTATTTGA 2 140 0 CAGTACTTGC 0.891859 -230 TAAAGCTGAACAGTAAAGCTTGTAAAATTA 2 294 0 CAGTAAAGCT 0.940017 -76 GTTGGTGTTCCAGTAATTCTTGGAAATAAG 3 135 1 CAGTAATTCT 0.944128 -346 ACAAAGCTGCCAGTAATGCTCAGTTTTCCA 4 358 0 CAGTAATGCT 0.953284 -243 GTTGGTTATCCAGTACATGTGTTGCTTGAA 5 140 0 CAGTACATGT 0.953669 -161 GGATCGCGATCAGTAAATGTAAAATCGAGA 7 124 1 CAGTAAATGT 0.944584 -477 ********** Masking position 5 Map Score: 0.863097 Number of sites scoring better than the average of aligned sites = 303 Number in coding regions = 221 Number in noncoding regions = 82 Number of orfs with sites within 600 bp upstream = 70 Fraction of orfs with sites within 600 bp upstream = 0.0112432 Motif number 14 GCTCTGAGTATGCCCAATGCTTCTTTAGTGAAT 1 50 0 TGCCAAGCTC 0.973592 -551 GTTAACATTAATACCTACGCGACAAAAATCAAT 4 124 1 ATCCTAGCGC 0.820644 -477 CTGCCTTTATATCCCAATTCATCCGCTTTTTAC 4 441 1 ATCCAATCAC 0.916076 -160 CAAATAGGGGAGTCCAAATCGTGCTTATTTTCT 4 573 0 AGCCAATCGG 0.954446 -28 CATTGTACCGTTACCAATTCTCCTCGTATATCA 5 25 1 TTCCAATCTC 0.90371 -276 AGGGCCCAGATGACCAAATCAAGAATGGCTCAC 6 116 1 TGCCAATCAG 0.925916 -485 ACAGCCAGCTAGACCAATGCACCTTTATCACGT 6 277 0 AGCCAAGCAC 0.977209 -324 CTGGCTGTTCTGGCCAACGCGACAGCAGGGTTC 6 302 1 TGCCAAGCGC 0.990918 -299 TTCGCTCTCGTGACCAAATCGTCGGGAAAACAT 7 210 0 TGCCAATCGC 0.988338 -391 ** **** *** * Masking position 7 Map Score: 0.918606 Number of sites scoring better than the average of aligned sites = 557 Number in coding regions = 495 Number in noncoding regions = 62 Number of orfs with sites within 600 bp upstream = 47 Fraction of orfs with sites within 600 bp upstream = 0.00754899 Motif number 15 ********** No masking Map Score: 4.91939e-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