AlignACE version 2.2 July 7, 1998 AlignACE -jSPT.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 YBR081C 600 bp YBR081C spt7 1-3999 transcription factor, member of the histone acetyltransferase SAGA complex #2 YDR392W 600 bp YDR392W spt3 1-1014 transcription factor, member of the histone acetyltransferase SAGA complex #3 YER148W 460 bp YER148W spt15 1-723 TATA-binding protein (tfIId) #4 YER161C 300 bp YER161C spt2 1-1002 non-specific DNA binding protein (sin1) #5 YGL207W 383 bp YGL207W spt16 1-3108 transcription factor #6 YGR063C 300 bp YGR063C spt4 1-309 Zn-finger protein, transcriptional regulator #7 YGR116W 507 bp YGR116W SPT6 1-4356 transcriptional regulator, interacts with histones, primarily histone H3, possesses nucleosome assembly activity #8 YJL127C 300 bp YJL127C spt10 1-1923 negative transcriptional regulator #9 YKL020C 487 bp YKL020C SPT23 1-3249 suppressor protein #10 YLR055C 600 bp YLR055C spt8 1-1809 transcription factor, probable member of histone acetyltransferase SAGA complex #11 YML010W 300 bp YML010W spt5 1-3192 transcription factor #12 YMR179W 554 bp YMR179W spt21 1-2277 non-specific DNA binding protein #13 YOL148C 358 bp YOL148C SPT20 1-1815 transcription factor, member of the histone acetyltransferase SAGA complex #14 YPL175W 300 bp YPL175W spt14 1-14, 69-1440 N-acetylglucosaminyl-phosphatidylinositol biosynthetic protein Motif number 1 CAGTGGGGTATTTTACCTTTAAAAAAATTT 1 197 0 TTTTACCTTT 0.916918 -404 CCAATGATCTTTTTTCCTTTGTACATCTAA 1 440 0 TTTTTCCTTT 0.960974 -161 GCCGGCGGCATTTCATTTTTTTCACTTATC 2 59 1 TTTCATTTTT 0.723066 -542 TGGTTCGGATTTTCTTCTTTTCTGTGCGCT 2 469 0 TTTCTTCTTT 0.873142 -132 CAACCTTACTTTTTACTTTTCGTTTCCGCC 2 512 0 TTTTACTTTT 0.903298 -89 TCTTCAAATTTTTTTCTTTTCCCAAAAAGC 3 172 0 TTTTTCTTTT 0.954216 -289 CTGCATTTTATTTTTCTTTTCTAGTCCAAC 3 407 1 TTTTTCTTTT 0.954216 -54 GGCTTCAAACTTTTTCGTTTAACATGATTA 4 134 1 TTTTTCGTTT 0.926458 -167 TCGCGTGATCTTTTTTTTTTTCGGAAAATG 5 192 1 TTTTTTTTTT 0.908965 -192 TAGCTGAACTTTTTACCTTTTAGTCCCGTG 5 300 0 TTTTACCTTT 0.916918 -84 CTTTCTTAAATTTCACTTTTTCACTCGATT 6 202 0 TTTCACTTTT 0.844961 -99 CTTTTATATTTTTCATTTTTTTATTATTTT 8 157 0 TTTCATTTTT 0.723066 -144 TATTCCCGCTTTTTTCGTTTCAATTTTAAC 9 343 1 TTTTTCGTTT 0.926458 -145 CGAGCCTGAATTTTTCGTTTATCGCAGCCA 10 114 1 TTTTTCGTTT 0.926458 -487 TTTCGTATCATTTTTTTTTTCAGTTTTTCT 10 348 1 TTTTTTTTTT 0.908965 -253 TTTTTCAGTTTTTCTTCTTTCGGCTATGAA 10 363 1 TTTCTTCTTT 0.873142 -238 AAAGGCTCAGTTTTTTTTTTTTTCTTCTTT 10 575 1 TTTTTTTTTT 0.908965 -26 TTTTTTTTTTTTTCTTCTTTTACGTA 10 585 1 TTTCTTCTTT 0.873142 -16 TAGATATAGATTTTTTTTTTGGGAGCAAAG 12 36 1 TTTTTTTTTT 0.908965 -519 TAAATGAAGGTTTTTCCTTTCATGGAGCAG 12 261 0 TTTTTCCTTT 0.960974 -294 GACGCGTTTTTTTTACCTTTTTTATATCAC 12 308 0 TTTTACCTTT 0.916918 -247 TCTTTTCATCTTTTTTTTTTATTTGGCTAT 13 14 1 TTTTTTTTTT 0.908965 -345 CTATTTTAAGTTTTTCGTTTGCAACCCGAG 14 128 1 TTTTTCGTTT 0.926458 -173 ********** Masking position 3 Map Score: 33.9254 Number of sites scoring better than the average of aligned sites = 3885 Number in coding regions = 1582 Number in noncoding regions = 2303 Number of orfs with sites within 600 bp upstream = 1356 Fraction of orfs with sites within 600 bp upstream = 0.217796 Motif number 2 TCCTGTAGAGATTTATTTCAGTTAAAGCTG 1 278 0 ATTTATTTCA 0.84945 -323 GCGGCATTTCATTTTTTTCACTTATCTCAG 2 63 1 ATTTTTTTCA 0.91698 -538 TAGATAACTCTTTTTTATCGTAATATTTCT 2 162 0 TTTTTTATCG 0.727274 -439 AGATCTTCAAATTTTTTTCTTTTCCCAAAA 3 175 0 ATTTTTTTCT 0.863009 -286 GTAGTTACTGTTTTTTTTGGACTATAAGAT 3 301 1 TTTTTTTTGG 0.844564 -160 CTAGTAGTCGTTTTATTTCTTATGTGTTAT 3 341 0 TTTTATTTCT 0.837515 -120 CGTGATCTTTTTTTTTTTCGGAAAATGAGA 5 195 1 TTTTTTTTCG 0.957066 -189 ACATGAATATATTTATTTGAGGTATGGTGT 6 98 0 ATTTATTTGA 0.578999 -203 TAACTGTCATTTTTTTTTCGTTATGTATGG 7 354 1 TTTTTTTTCG 0.957066 -154 TGGGTATGAATTTTATTTCACCTCTATTCA 8 66 1 TTTTATTTCA 0.90037 -235 TCGTATCATTTTTTTTTTCAGTTTTTCTTC 10 350 1 TTTTTTTTCA 0.946499 -251 CAGCTCTGCCATTTTTTTCATAGCCGAAAG 10 379 0 ATTTTTTTCA 0.91698 -222 CTCAGTTTTTTTTTTTTTCTTCTTTTACGT 10 580 1 TTTTTTTTCT 0.90983 -21 ACCTTCCGAGTTTTTTTTCAATGAGCAAAT 11 53 0 TTTTTTTTCA 0.946499 -248 GTTCATCCAAATTTTTTTCTATGTCGCATA 11 195 0 ATTTTTTTCT 0.863009 -106 GATATAGATTTTTTTTTTGGGAGCAAAGTC 12 38 1 TTTTTTTTGG 0.844564 -517 TACGGTCGCGTTTTTTTTCGTGATATAAAA 12 289 1 TTTTTTTTCG 0.957066 -266 TTTTTACCTTTTTTATATCACGAAAAAAAA 12 299 0 TTTTATATCA 0.519483 -256 CATCTTTTTTTTTTATTTGGCTATTCTCCG 13 20 1 TTTTATTTGG 0.735142 -339 CTTCTTTATAATTTATTTCTTATGTATATG 13 68 1 ATTTATTTCT 0.762927 -291 AGACCCTGAGATTTTTTTCAAGCTGTTATT 14 75 0 ATTTTTTTCA 0.91698 -226 ********** Masking position 6 Map Score: 22.5399 Number of sites scoring better than the average of aligned sites = 4150 Number in coding regions = 1311 Number in noncoding regions = 2839 Number of orfs with sites within 600 bp upstream = 1982 Fraction of orfs with sites within 600 bp upstream = 0.318342 Motif number 3 CAAGAATATAATCGCAGCCCTAATAATTATT 1 333 0 ATGCAGCCCT 0.839923 -268 AAAAAAATGAAATGCCGCCGGCGTATATATA 2 50 0 AAGCCGCCGG 0.831294 -551 GACGCCCGCTAATGCTGCCGGAAATGTACGG 2 243 0 AAGCTGCCGG 0.934283 -358 AAAGAAACTAAGAGACGCCCGCTAATGCTGC 2 256 0 AGGACGCCCG 0.851143 -345 CGTCTTGTTCAAAGCTGCCCTTTCTTGAGGC 2 429 1 AAGCTGCCCT 0.959831 -172 TTAGTGTGCCATAGCTGCCAAAAATATATAC 5 41 0 ATGCTGCCAA 0.881659 -343 TATTGTCGCTATTGCTGCCCTTTTCTCTGCT 9 292 1 ATGCTGCCCT 0.938817 -196 TTTTTCGTTTATCGCAGCCATCGGCCTCGTA 10 124 1 ATGCAGCCAT 0.723067 -477 AACGACCGAGATCGGTGCCCGGGGCAGACCA 10 216 0 ATGGTGCCCG 0.96072 -385 TGTCCCTTGCATCGCTGCCGTGTGGCACGAC 10 260 0 ATGCTGCCGT 0.963528 -341 AAAAAATGGCAGAGCTGCCCTAATCTATTTT 10 392 1 AGGCTGCCCT 0.854709 -209 ATCTATTTTTATGGATGCCCTAATATATTGT 10 414 1 ATGATGCCCT 0.908975 -187 ATTATAGCGTAGTGGTGCCAGATGCTGGGCT 10 512 1 AGGGTGCCAG 0.815155 -89 TTTAAAAATAATCGATGCCAGTAATAGCCTC 14 189 1 ATGATGCCAG 0.904911 -112 ACGCTATATTGAAGCCCATTGTTTTATA 14 283 0 ATGAAGCCCA 0.684227 -18 ** ******** Masking position 1 Map Score: 10.6978 Number of sites scoring better than the average of aligned sites = 485 Number in coding regions = 355 Number in noncoding regions = 130 Number of orfs with sites within 600 bp upstream = 120 Fraction of orfs with sites within 600 bp upstream = 0.019274 Motif number 4 TGAATAATTATTAGGGCTGCGATTATATTC 1 331 1 TTAGGGCTGC 0.975191 -270 ACGTTGGTGTGAACGGCATCAGAGTCCCAG 2 96 0 GAACGGCATC 0.786048 -505 CACCGTACATTTCCGGCAGCATTAGCGGGC 2 241 1 TTCCGGCAGC 0.893591 -360 AAGCCTCAAGAAAGGGCAGCTTTGAACAAG 2 432 0 AAAGGGCAGC 0.934638 -169 ATTCAAGAGATTAGGGCAGGA 2 590 1 TTAGGGCAGG 0.892345 -11 AGATAACTATTTACGGCTTCACAATTAAAA 3 122 0 TTACGGCTTC 0.830218 -339 CAGTCTTGCAGTAGGTCTGCACCAACAGTT 9 63 1 GTAGGTCTGC 0.843457 -425 CATGATGAATATAGGTCAGCATAGGGCTCT 9 241 1 ATAGGTCAGC 0.849294 -247 CGAGCAGAGAAAAGGGCAGCAATAGCGACA 9 295 0 AAAGGGCAGC 0.934638 -193 TGTTGCGATTGTCGGGCATCGCAAGTTACG 10 297 0 GTCGGGCATC 0.920311 -304 TAAAAATAGATTAGGGCAGCTCTGCCATTT 10 395 0 TTAGGGCAGC 0.98836 -206 TGACAATATATTAGGGCATCCATAAAAATA 10 417 0 TTAGGGCATC 0.971215 -184 CACTCTGTACGTAGGGCTTCCAGAATGCCC 10 445 1 GTAGGGCTTC 0.944132 -156 ********** Masking position 7 Map Score: 8.45981 Number of sites scoring better than the average of aligned sites = 499 Number in coding regions = 355 Number in noncoding regions = 144 Number of orfs with sites within 600 bp upstream = 122 Fraction of orfs with sites within 600 bp upstream = 0.0195952 Motif number 5 GAAACCTTATGCTCTTTTATTGTACATATA 1 226 1 GCTCTTTTAT 0.894853 -375 TGGCAAAATACATCTTTTATTTATTTAGCA 1 476 1 CATCTTTTAT 0.892295 -125 TTCGGATTTTCTTCTTTTCTGTGCGCTGCG 2 466 0 CTTCTTTTCT 0.92975 -135 TCCCTCTCATCAACTTTTATTTTCAAATTA 4 242 0 CAACTTTTAT 0.841113 -59 ATGAGAATCGCCACTTTTCTAACGAAAGAA 5 219 1 CCACTTTTCT 0.887752 -165 ACTCTCTTAGCTACTTTTATTCCTCTTCTC 5 270 0 CTACTTTTAT 0.943669 -114 CTGTCCGTATCTTCTTTTATATAGATATAT 7 207 0 CTTCTTTTAT 0.963258 -301 GAATTTTCCCGCACTTTTATTGAAGACGTT 7 309 0 GCACTTTTAT 0.844676 -199 AATGAATTTTGCTCTTTTATATTTTTCATT 8 170 0 GCTCTTTTAT 0.894853 -131 TTTTTTTTTTCTTCTTTTACGTA 10 588 1 CTTCTTTTAC 0.805257 -13 TACTACATCTCTTCTTTTATAAGCAACGCT 12 432 1 CTTCTTTTAT 0.963258 -123 TACTTTTCTCATTCTTTTATCTCTGCTGGT 13 280 0 ATTCTTTTAT 0.696092 -79 CTCTTGAAGGCTACTTTTCTCATTCTTTTA 13 291 0 CTACTTTTCT 0.894257 -68 ********** Masking position 5 Map Score: 7.72348 Number of sites scoring better than the average of aligned sites = 775 Number in coding regions = 454 Number in noncoding regions = 321 Number of orfs with sites within 600 bp upstream = 256 Fraction of orfs with sites within 600 bp upstream = 0.0411179 Motif number 6 TCTTGAATTTTGGCACGGTACCTTGTATGCACTCTTCCCC 2 558 0 TGAGCCTGTC 0.959602 -43 ACTACTGTAATTTTCACGTCCCTTGTTTACTCTTACCATC 3 266 0 TTCGCCTGTC 0.96842 -195 TTACTACTATTTAAAGCGGTCCTCGTAGTCCAATTTACGT 6 31 1 TTAGCCTGTC 0.993896 -270 CTCTTACACTGTACCTCGTTCGCTTTTGCCAAA 6 278 0 TTAGCCTGTC 0.993896 -23 AATTCTTTGGTTGGGTTGGGCGTAGTCATCTGAAGGGGGG 7 19 0 TTGGCGTGTC 0.946429 -489 TCATGTTTCGTTGTAATGCGGGTTGTGCCCATGCACTGCT 7 168 0 TTAGGGTGTC 0.908897 -340 GCAAAATTCATTACATTGGCGTTAGTTCACTGCTCGGGGG 8 188 1 TTAGGTTGTC 0.865762 -113 CGCGCCGGTTTTCGATTGGGCCTCGTGATAAAACACATCA 9 132 0 TTAGCCTGTA 0.967214 -356 ATCATCTTACTTTCATGGTTGCTCCTTGCCGTTAAAATTG 9 363 0 TTAGGCTCTC 0.929743 -125 GAACCTCTTGTTTCAATGCACCTGCTGTTCTTCTTCACCT 10 56 1 TTAGCCTCTC 0.978912 -545 GAACTCTCCATTCAATGGGTCTTTCTCTTCACACACACCT 12 350 0 TTAGCTTCTC 0.865767 -205 TAAGCAACGCTTAAGCTGAACCTAGTCAACACACATAACT 12 451 1 TTGGCCTGTC 0.987981 -104 CAATCCAGGTTTCAGTTGCACCTGGTCAAATTGACTTCAG 12 489 0 TTGGCCTGTA 0.93712 -66 AACTAAGCAGTTATAGCGATCCCAGTTTTACTTTAAAGAT 13 181 0 TTAGCCCGTA 0.811495 -178 ** * * *** ** * Masking position 16 Map Score: 8.01327 Number of sites scoring better than the average of aligned sites = 343 Number in coding regions = 274 Number in noncoding regions = 69 Number of orfs with sites within 600 bp upstream = 61 Fraction of orfs with sites within 600 bp upstream = 0.00979762 Motif number 7 TACAAGCCGACACCAAAAACAAATGAATTGTC 1 66 0 CACCAAAAAA 0.945228 -535 TGGGGTATTTTACCTTTAAAAAAATTTCGTCT 1 192 0 TACCTTAAAA 0.8907 -409 AAGTTACCCGTACCATCAAGAATATAATCGCA 1 348 0 TACCATAAAA 0.951204 -253 CCTATTTTGGCGGCATAAAAAACTTGTTTTCG 2 352 0 CGGCATAAAA 0.831283 -249 TGTTTACTCTTACCATCAAGAATACCTATCAA 3 251 0 TACCATAAAA 0.951204 -210 ATATACAATACGCCTTTAAAAAGTAGGAATCC 5 15 0 CGCCTTAAAA 0.833589 -369 TTCCTCTTCTCACCAATATTAAGATTTCAATA 5 249 0 CACCAAATAA 0.764061 -135 ATATATAATATACCATAATTAACAGTCTTGCA 9 41 1 TACCATATAA 0.785317 -447 TACATAATAGCAGCAACAACAATACCCGATCG 10 19 1 CAGCAAAAAA 0.876482 -582 ATGCAGGTGTCAGCATTAAGAAGCCGCAAGGT 11 92 0 CAGCATAAAA 0.944365 -209 GGTAGAAAGGTACCTTGAAAAATTAAAGATCA 12 125 1 TACCTTAAAA 0.8907 -430 TTGTTATCCGCACCATTAATAACTAACTAACT 13 149 1 CACCATAAAA 0.976349 -210 ATACAATGTATACCAAAAATAACAGCTTGAAA 14 58 1 TACCAAAAAA 0.8907 -243 CCAAAAATAACAGCTTGAAAAAAATCTCAGGG 14 70 1 CAGCTTAAAA 0.876482 -231 ****** ** ** Masking position 8 Map Score: 7.74266 Number of sites scoring better than the average of aligned sites = 873 Number in coding regions = 697 Number in noncoding regions = 176 Number of orfs with sites within 600 bp upstream = 147 Fraction of orfs with sites within 600 bp upstream = 0.0236107 Motif number 8 AGTTAGATCTATCAGCAAAGGGAATCCCGA 3 78 0 ATCAGCAAAG 0.934784 -383 CAGTACACATATCAGCAGTGCATGGGCACA 7 155 1 ATCAGCAGTG 0.958061 -353 TACTCATCCCCCGAGCAGTGAACTAACGCC 8 205 0 CCGAGCAGTG 0.905197 -96 GATAAAACACATCAGCAAAGTTTCGCTTTT 9 116 0 ATCAGCAAAG 0.934784 -372 GTCACCTTACACGAGCAGAGAAAAGGGCAG 9 306 0 ACGAGCAGAG 0.982955 -182 CCTTTCTACCACGAGCAGTGTACTTTTTTG 12 105 0 ACGAGCAGTG 0.972936 -450 AAAGGACCAAACCAGCAAAAGGTATATAAT 12 214 1 ACCAGCAAAA 0.803756 -341 AAGATGATCGACCAGCAGAGATAAAAGAAT 13 270 1 ACCAGCAGAG 0.989434 -89 ********** Masking position 4 Map Score: 2.88086 Number of sites scoring better than the average of aligned sites = 337 Number in coding regions = 276 Number in noncoding regions = 61 Number of orfs with sites within 600 bp upstream = 54 Fraction of orfs with sites within 600 bp upstream = 0.00867331 Motif number 9 ATGCTGGCCAGCTTTAACTGAAATAAATCT 1 270 1 GCTTTAACTG 0.970143 -331 GGCGGTCGAGGCTATTACTGTGCCACTATG 7 236 1 GCTATTACTG 0.982865 -272 GGTAATATTTTCTATAACTGTCATTTTTTT 7 340 1 TCTATAACTG 0.906439 -168 TCCTCCTTTTGCTTTAACCGTTGTCCAGTT 7 402 0 GCTTTAACCG 0.909075 -106 GGTTATTGTCGCTATTGCTGCCCTTTTCTC 9 289 1 GCTATTGCTG 0.946381 -199 AACTGGGATCGCTATAACTGCTTAGTTCTG 13 194 1 GCTATAACTG 0.986788 -165 GTTTTTTGAGGCTATTACTGGCATCGATTA 14 197 0 GCTATTACTG 0.982865 -104 ********** Masking position 5 Map Score: 3.81004 Number of sites scoring better than the average of aligned sites = 83 Number in coding regions = 65 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 10 ATAAATAAAAGATGTATTTTGCCAACTTCTC 1 469 0 GATGTATTTG 0.903718 -132 TGCTGCCGGAAATGTACGGTGATCTCTTAAA 2 231 0 AATGTACGTG 0.926449 -370 CGCCAAAATAGGTATACATTGCGTTCAATGC 2 372 1 GGTATACTTG 0.854624 -229 GAGTGCATACAAGGTACCGTGCCAAAATTCA 2 564 1 AAGGTACGTG 0.921751 -37 ATATTTATTTGAGGTATGGTGTCTAAAGCGT 6 89 0 GAGGTATGTG 0.921751 -212 GGGCTCGAAGGATGTACTGTGTAATAATTAC 6 231 1 GATGTACGTG 0.980714 -70 AAAAGCGAACGAGGTACAGTGTAAGAG 6 284 1 GAGGTACGTG 0.979405 -17 GCATGCTAGCGATATATTTTGTGAGGAGGAT 7 59 0 GATATATTTG 0.699248 -449 TTTCGATGGTGTACGTTGTATCAGCACT 9 8 1 GGTGTACTTG 0.959568 -480 TCGTGGTAGAAAGGTACCTTGAAAAATTAAA 12 121 1 AAGGTACTTG 0.897729 -434 TGTTATTTTTGGTATACATTGTATTAGACAA 14 51 0 GGTATACTTG 0.854624 -250 ******* *** Masking position 6 Map Score: 3.46907 Number of sites scoring better than the average of aligned sites = 397 Number in coding regions = 297 Number in noncoding regions = 100 Number of orfs with sites within 600 bp upstream = 91 Fraction of orfs with sites within 600 bp upstream = 0.0146161 Motif number 11 TTCCTACTGTATTGCAAAGAAACTAAGAGAC 2 271 0 ATTGCAAGAA 0.863476 -330 TGAATGTAGCGAGGAGACGAACAAAAAATTG 2 305 0 GAGGAACGAA 0.750456 -296 TGCGTGAGTTATGGATAAGAAGAATATTTGA 7 87 1 ATGGAAAGAA 0.928005 -421 GGCAAACCAAATTGACAAGAAACTGGACAAC 7 382 1 ATTGAAAGAA 0.971086 -126 TGCCGTTAAAATTGAAACGAAAAAAGCGGGA 9 346 0 ATTGAACGAA 0.969144 -142 TGAAAAAAAAAATGATACGAAAAAACCGCGA 10 339 0 AATGAACGAA 0.925984 -262 GGATTTGCTCATTGAAAAAAAACTCGGAAGG 11 51 1 ATTGAAAAAA 0.725747 -250 GATTGGTAGCATTGACAAGAACCATTCATAC 11 234 1 ATTGAAAGAA 0.971086 -67 GTACTTTTTTGTTGAGAAGAAAGCGCAACTA 12 85 0 GTTGAAAGAA 0.954618 -470 AAAAAAAAAAGATGAAAAGAAAG 13 3 0 GATGAAAGAA 0.893374 -356 AGAAAATTTCATTGATACGATTTAAAAATAA 14 169 1 ATTGAACGAT 0.799626 -132 ***** ***** Masking position 7 Map Score: 2.19519 Number of sites scoring better than the average of aligned sites = 775 Number in coding regions = 550 Number in noncoding regions = 225 Number of orfs with sites within 600 bp upstream = 181 Fraction of orfs with sites within 600 bp upstream = 0.0290716 Motif number 12 TCCAGTATTATTCTTGTATGACAATTCATTTGTTTT 1 47 1 TTTTATGCAT 0.943527 -554 AAAAAGCCAATTGAAATATGCTAACTTTCATTTAAT 1 149 0 TTATATGTAT 0.851686 -452 ACGGGTAACTTTCTAATATTTCAGATCCAAGTAATG 1 369 1 TTTTATTCAT 0.923619 -232 CTCGTAAGTCTTCAATTATGTTAGATGTACAAAGGA 1 420 1 TTATATGTAT 0.851686 -181 CTTAATTTCTTTGTAGTGTTACAGTTTAAAGAGTAA 1 567 0 TTTTGTTCAT 0.898783 -34 AACTCATCTCTTTACGTATTTTAATTGTGAAGCCGT 3 104 1 TTATATTTAT 0.806066 -357 GTCGTTTTATTTCTTATGTGTTATCTTTCCCCCGAT 3 329 0 TTTTGTGTAT 0.868403 -132 TATTCATATATTAATCTGTGGCACTTGTCCATGTGG 4 189 0 TTATGTGCAT 0.886869 -112 AGGTAAAAAGTTCAGCTATTCCAACTTTACTCCTTT 5 312 1 TTATATTCAT 0.885416 -72 CTTTACTCCTTTCTGATATTGCACCTTTCGTGAACT 5 336 1 TTTTATTCAT 0.923622 -48 TTTTTCATTTTTTTATTATTTTAGCTCACGATCCGC 8 143 0 TTTTATTTAT 0.866749 -158 CTTCTTCACCTTCTATTGTGCCACTTATACGAGCCT 10 85 1 TTTTGTGCAT 0.924632 -516 AATAATCTCATTCTGCTATTTTAAGTTTTTCGTTTG 14 113 1 TTTTATTTAT 0.866749 -188 ** * **** ** * Masking position 13 Map Score: 2.03445 Number of sites scoring better than the average of aligned sites = 734 Number in coding regions = 438 Number in noncoding regions = 296 Number of orfs with sites within 600 bp upstream = 220 Fraction of orfs with sites within 600 bp upstream = 0.0353357 Motif number 13 GAGCATAAGGTTTCAGTGGGGTATTTTACCTT 1 208 0 TTTCATGGGT 0.983275 -393 CCTAATAATTATTCACTGGAGTTAGTCCCAAC 1 314 0 ATTCATGGGT 0.913311 -287 AATTTCACTTTTTCACTCGATTTCACTCATAG 6 192 0 TTTCATCGTT 0.892067 -109 GCAAAATTCATTACATTGGCGTTAGTTCACTG 8 188 1 TTACATGGGT 0.9556 -113 TTTCGATGGTGTACGTTGTATC 9 1 1 TTTCGTGGGT 0.982937 -487 TTTCAGTGGTGTACTACTGTTG 9 476 0 TTTCATGGGT 0.983275 -12 CCGGGCATTATTTCGGTCGTTTAGTTGCGCCC 10 173 0 TTTCGTCGTT 0.890121 -428 AAACCTTCATTTACGGTCGCGTTTTTTTTCGT 12 278 1 TTACGTCGGT 0.928399 -277 ***** *** ** Masking position 7 Map Score: 0.809392 Number of sites scoring better than the average of aligned sites = 162 Number in coding regions = 129 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912 Motif number 14 TTCACTTATCTCAGCCCCTGGGACTCTGAT 2 79 1 TCAGCCCCTG 0.973271 -522 TTGTATGCACTCTTCCCCGGGTTCAGAGTG 2 546 0 TCTTCCCCGG 0.989421 -55 CACTTTTTACTCATCCCCCGAGCAGTGAAC 8 212 0 TCATCCCCCG 0.98039 -89 TTTCGGGTGGTCTGCCCCGGGCACCGATCT 10 209 1 TCTGCCCCGG 0.990182 -392 GTCATCTCAGTCATCGCCGGTAGTTGCGCT 12 65 1 TCATCGCCGG 0.97439 -490 ********** Masking position 1 Map Score: 0.309639 Number of sites scoring better than the average of aligned sites = 35 Number in coding regions = 23 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 15 TTACAGTTTAAAGAGTAACCAACAATTTTC 1 555 0 AAGAGTAACC 0.941033 -46 AAGCTCGCGTAAGAGAAACTTGGAAGATAA 3 146 0 AAGAGAAACT 0.958627 -315 GTCCAAAAAAAACAGTAACTACTGTAATTT 3 293 0 AACAGTAACT 0.908331 -168 CAGGTGTATCAAGAGAAACTTTTTTAATT 3 442 1 AAGAGAAACT 0.958627 -19 TTGTGCTTTGAAGAATAACCCAAGCGAACA 7 446 1 AAGAATAACC 0.778903 -62 TGTACCGATCAAGAACAACTCTAGACTTCC 8 240 1 AAGAACAACT 0.86066 -61 AGAATGTCAAAAGCGAAACTTTGCTGATGT 9 108 1 AAGCGAAACT 0.928332 -380 TTTAACGGCAAGGAGCAACCATGAAAGTAA 9 367 1 AGGAGCAACC 0.844265 -121 TAGCCGAAAGAAGAAAAACTGAAAAAAAAA 10 359 0 AAGAAAAACT 0.836464 -242 AAAAGGCTGTAGCAGTAACTGTAGTGTACT 10 545 1 AGCAGTAACT 0.774475 -56 GTTGAGAAGAAAGCGCAACTACCGGCGATG 12 76 0 AAGCGCAACT 0.939912 -479 GGCGCAAATTAACCGTAACTATTCCTTCCT 13 325 0 AACCGTAACT 0.847083 -34 ********** Masking position 7 Map Score: 3.55413 Number of sites scoring better than the average of aligned sites = 528 Number in coding regions = 389 Number in noncoding regions = 139 Number of orfs with sites within 600 bp upstream = 122 Fraction of orfs with sites within 600 bp upstream = 0.0195952