AlignACE version 2.2 July 7, 1998 AlignACE -jMET.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 YBR213W 463 bp YBR213W met8 1-825 Effector in the expression of PAPS reductase and sulfite reductase #2 YDR253C 547 bp YDR253C MET32 1-576 zinc finger DNA binding factor, transcriptional regulator of sulfur amino acid metabolism, highly homologous to Met31p #3 YER091C 300 bp YER091C met6 1-2304 vitamin B12-(cobalamin)-independent isozyme of methionine synthase (also called N5-methyltetrahydrofolate homocysteine methyltransferase or 5-methyltetrahydropteroyl triglutamate homocysteine methyltransferase) #4 YFR030W 338 bp YFR030W met10 1-3108 subunit of assimilatory sulfite reductase #5 YGL125W 380 bp YGL125W met13 1-1800 putative methylenetetrahydrofolate reductase (mthfr) #6 YIL128W 568 bp YIL128W MET18 1-3099 Involved in nucleotide excision repair and regulation of TFIIH #7 YIL046W 600 bp YIL046W MET30 1-1923 Met30p contains five copies of WD40 motif and interacts with and regulates Met4p #8 YIR017C 489 bp YIR017C MET28 1-564 Transcriptional activator of sulfur amino acid metabolism #9 YJR010W 600 bp YJR010W met3 1-1536 ATP sulfurylase #10 YKL001C 600 bp YKL001C met14 1-609 adenylylsulfate kinase #11 YKR069W 600 bp YKR069W met1 1-1782 siroheme synthase #12 YLR303W 351 bp YLR303W MET17 1-1335 O-Acetylhomoserine-O-Acetylserine Sulfhydralase #13 YNL277W 600 bp YNL277W met2 1-1461 homoserine O-trans-acetylase #14 YNL103W 600 bp YNL103W met4 1-2019 member of the leucine zipper family of transcriptional activators #15 YOL064C 300 bp YOL064C MET22 1-1074 3'(2')5'-bisphosphate nucleotidase #16 YPL038W 359 bp YPL038W MET31 1-534 zinc finger DNA binding factor, transcriptional regulator of sulfur amino acid metabolism, highly homologous to Met32p #17 YPL023C 384 bp YPL023C MET12 1-1974 putative methylenetetrahydrofolate reductase (mthfr) #18 YPR167C 443 bp YPR167C MET16 1-786 3'phosphoadenylylsulfate reductase Motif number 1 GCTATTATAACACGTGAAATTATGACGCCAG 1 250 0 CACGTGAATT 0.991939 -214 GACTAACATGCACGTGACATTTTGTGATGGT 2 170 1 CACGTGAATT 0.991936 -378 TATACCACACCACGTGAGCTTATAGAAGCAC 4 90 1 CACGTGACTT 0.992564 -249 CTTATAGAAGCACGTGACCACAATTCACCCC 4 108 1 CACGTGACAC 0.88781 -231 GAGGTTGTAGCACGTGATCGGGAAGCCACAG 7 424 1 CACGTGACGG 0.946893 -177 AAAAATAAGTCACGTGCACTCAGTACCCCTT 8 266 0 CACGTGCCTC 0.942826 -224 CTTTTCTGGTCACGTGACCTTTTTTTCTGTC 9 219 0 CACGTGACTT 0.992561 -382 TACAAAATTACACGTGACTTTTCTGGTCACG 9 236 0 CACGTGATTT 0.945394 -365 ATATATTGATCACGTGAAATTAGTGGCACGG 10 368 0 CACGTGAATT 0.991939 -233 TGCCATTATGCACGTGACATTACAAATTGTG 11 333 1 CACGTGAATT 0.991936 -268 TCGACAGCTTCACGTGCCATTTGCCATTTTG 12 47 0 CACGTGCATT 0.97964 -305 TACTAATAATCACGTGATATTTCTTTTCACT 13 54 1 CACGTGAATT 0.991939 -547 TGAGGCGCATCACGTGAAAATACGTCAATGT 13 243 0 CACGTGAAAT 0.958489 -358 TCCTTTTAATCACGTGCGCGGGTAGCACCCG 14 271 1 CACGTGCCGG 0.874565 -330 AAAATCGCAACACGTGATATTGCTCGTCTGA 15 161 0 CACGTGAATT 0.991939 -140 TTTTACTAGCCACGTGAAATGATGATAAAAA 18 261 0 CACGTGAATG 0.982643 -183 ******* *** Masking position 5 Map Score: 30.8777 Number of sites scoring better than the average of aligned sites = 64 Number in coding regions = 27 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 2 ACACACACACATATATATATATATACATTT 1 358 1 ATATATATAT 0.499552 -106 TACATTGACGAGGTATATATAGATATAGTA 2 393 1 AGGTATATAT 0.888882 -155 CCATGGATAGATATGTATATCTACTATATC 2 414 0 ATATGTATAT 0.655394 -134 TATCCATGGTATATATGTATGCATCTGGAT 2 435 1 ATATATGTAT 0.592847 -113 CCTTAAACATACGTATATATTTAGATGCA 4 10 0 ACGTATATAT 0.888882 -329 TTCGAGCAAAAGGTATATATAAGCAACAGA 4 206 1 AGGTATATAT 0.888882 -133 CCAAAATTTGATATATATATATATATATAT 5 153 1 ATATATATAT 0.499552 -228 ATATATATATATATATATATATGTTTGTAT 5 163 1 ATATATATAT 0.499552 -218 GTTTGTATGTATATATATATATACGTATAT 5 185 1 ATATATATAT 0.499552 -196 ATATATATATACGTATATATATCATATATA 5 197 1 ACGTATATAT 0.888882 -184 ATGAATATGGATATATATATATATATATAT 9 429 1 ATATATATAT 0.499552 -172 ATATATATATATATATATATATATATATAT 9 439 1 ATATATATAT 0.499552 -162 ATATATATATATATATATATATATATATGT 9 449 1 ATATATATAT 0.499552 -152 AACCAAGTTTACATATATATATATATATAT 9 459 0 ACATATATAT 0.692769 -142 AAAAAATGATATATATATATAATTTACTTA 11 474 1 ATATATATAT 0.499552 -127 GAAAAAAATAAGATATATATAAGGTTAAGT 12 207 1 AGATATATAT 0.692769 -145 TATATATGTAATGTGTATATTTGTGGGTGT 13 365 0 ATGTGTATAT 0.811227 -236 CATTACATATATATATATATTCAAAATACA 13 382 1 ATATATATAT 0.499552 -219 ********** Masking position 6 Map Score: 24.3931 Number of sites scoring better than the average of aligned sites = 4240 Number in coding regions = 288 Number in noncoding regions = 3952 Number of orfs with sites within 600 bp upstream = 420 Fraction of orfs with sites within 600 bp upstream = 0.067459 Motif number 3 AGATTAAAATTTTCTTTTTTTGTCTTTTGT 1 13 0 TTTCTTTTTT 0.947479 -451 GATTTTCACATTTTTTTTCCGTCAGCATGG 1 280 0 TTTTTTTTCC 0.834754 -184 TTTTTTTTCTTTCCTTTTTTTCTTTCGCAG 3 112 0 TTCCTTTTTT 0.86761 -189 TATATAGAATTTTTTTTTCTTTCCTTTTTT 3 122 0 TTTTTTTTCT 0.896461 -179 CTAGCATTAGTTTCTCTTTTACGTATTCAA 3 175 1 TTTCTCTTTT 0.808009 -126 AATATCACCTTTTTTTTTCTACTTTTCGTA 5 225 0 TTTTTTTTCT 0.896461 -156 AATCCATTAGTTTTTTTTTTGGGATACAGA 7 279 0 TTTTTTTTTT 0.917697 -322 AGATATTTTATTTTTTTTCATCAGCGTAAG 7 464 1 TTTTTTTTCA 0.726475 -137 ACGTGACTTATTTTTTTTTTTTGGTTTTAG 8 282 1 TTTTTTTTTT 0.917697 -208 GTAAACTTGGTTCTTTTTTAGCTTGTGATC 9 477 1 TTCTTTTTTA 0.55408 -124 ACTTTCTTAGTTCCTTTTCAATTGTTAAGA 9 550 0 TTCCTTTTCA 0.60953 -51 AATTACCAATTTCTTTTTTTAAAATTGGT 10 10 1 TTTCTTTTTT 0.947479 -591 AAGATATCATTTTCTATTTTCGTTATTGGT 11 236 1 TTTCTATTTT 0.728001 -365 TTTATACGTTTTTCTCTTTCTAGAAATGCC 11 307 1 TTTCTCTTTC 0.710604 -294 AAGGAAGTTTTTCCTTTTTCTTGCTCTCTT 12 252 1 TTCCTTTTTC 0.792685 -100 TTTTTTTCAGTTTTTTTTTTCCCACTAATA 13 11 0 TTTTTTTTTT 0.917697 -590 GTCTGCGATTTTTTTTTTTTCAGTTTTTTT 13 24 0 TTTTTTTTTT 0.917697 -577 TCACGTGATATTTCTTTTCACTCTCTTCAT 13 63 1 TTTCTTTTCA 0.811217 -538 CCGTCTAAAGTTTCTCTTTATTTGGAATAA 13 547 1 TTTCTCTTTA 0.563513 -54 CGTTTTTTTCTTTCTTTTCTATTATTCCAA 13 568 0 TTTCTTTTCT 0.933369 -33 GGCCTTCTTTCTTTTCCTGCGCGTCGG 14 8 1 TTTCTTTTCC 0.890984 -593 AGCACTTTTATTCCTTTTTTTCCACTGTGA 14 578 1 TTCCTTTTTT 0.86761 -23 tcaagggtcatttttatttccatttatgat 16 41 1 tttttatttc 0.491144 -319 tttgttttgtttttttttcttgtgtataat 16 105 0 ttttttttct 0.896461 -255 agcccatcaattttttttttgttctaatgc 16 231 1 tttttttttt 0.917697 -129 ggaacggctttttctttttcttacccatgt 16 269 0 tttctttttc 0.913235 -91 TCGTCCCGACTTTTTTTTTTCATTAGACGC 17 143 1 TTTTTTTTTT 0.917697 -242 GTCGTTATTCTTTTTATTTTTATCATCATT 18 245 1 TTTTTATTTT 0.623252 -199 ********** Masking position 5 Map Score: 23.8098 Number of sites scoring better than the average of aligned sites = 12874 Number in coding regions = 2279 Number in noncoding regions = 10595 Number of orfs with sites within 600 bp upstream = 2523 Fraction of orfs with sites within 600 bp upstream = 0.405236 Motif number 4 AGAAAATATAAACTGTGGCGTACTAAGCGT 2 220 0 AACTGTGGCG 0.995119 -328 ACGAAACACAAGCTGTGGCATTAGCTTTTC 5 264 0 AGCTGTGGCA 0.919807 -117 TTGTAGTAGTAACTGTGGTGGTTCTGTTTG 5 349 0 AACTGTGGTG 0.985019 -32 TCTCCGCGCAAACTGTGGCTTCCCGATCAC 7 437 0 AACTGTGGCT 0.985251 -164 CGGGCCCCACAACTGTGGCATCTTTCAGAT 8 204 0 AACTGTGGCA 0.985254 -286 TCCCGCCCAAAACTGTGGTGTTAGAAAGTA 8 335 0 AACTGTGGTG 0.985019 -155 AGTGACCTACAACTATGGCGTTTCCGCTTC 8 363 0 AACTATGGCG 0.936008 -127 TAAGTTGTAAAACTGTGGCTTTGTTATACG 9 346 0 AACTGTGGCT 0.985251 -255 CCACCTCAAAAAATGTGGCAATGGAGAAGA 10 406 1 AAATGTGGCA 0.840371 -195 TGACATTACAAATTGTGGTGAAAAAAGGCT 11 347 1 AATTGTGGTG 0.838215 -254 GATATTGGGGAACTGTGGTGGTTGGCAAAT 12 76 1 AACTGTGGTG 0.985019 -276 ACGCGATATTGACTGTGGCTATAGCTTACT 17 169 1 GACTGTGGCT 0.919807 -216 ********** Masking position 6 Map Score: 16.0396 Number of sites scoring better than the average of aligned sites = 166 Number in coding regions = 109 Number in noncoding regions = 57 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 5 CACATATATATATATATACATTTACTTCAATAAAAGG 1 365 1 TTATCTTTCT 0.887473 -99 ATGCTTCTAATCTTTTACCATTTACCTTTGTTTATTT 2 90 1 TTTTCTTTCT 0.931418 -458 AATTTTTTTTTCTTTCCTTTTTTTCTTTCGCAGTTGG 3 108 0 TTTTTTTTCT 0.915772 -193 ATCTATCACTTATATAGAATTTTTTTTTCTTTCCTTT 3 125 0 TTATATTTTT 0.52045 -176 GCTCGTGGTCTATCGCCAACTTTTCCTGAG 5 4 0 TTCGATTTCT 0.73727 -377 TATATATATATATATATATGTTTGTATGTATATATAT 5 166 1 TTATTTTTTT 0.663988 -215 TATCACCTTTTTTTTTCTACTTTTCGTATATATGATA 5 216 0 TTTTATTTCT 0.856555 -165 ACAGCTTGTGTTTCGTGTAGTTTGCCTTGCTCCCCTT 5 278 1 TTCGATTTCT 0.73727 -103 ACATTTGCTTTCTCTCTTCATTTGCCTAATCCTTTAT 6 117 1 TTCTCTTTCT 0.926911 -452 TTTCTACAGTTCTATATGTATTTTCCTGTGTGGCTGT 6 159 1 TTATTTTTCT 0.863273 -410 TTACTGCACCTTTTTGTCCTTTTCCGTGGAATAAAAG 8 131 1 TTTTCTTTCT 0.931418 -359 CCCCTTCTATTGTATTTTAGTTTACCTATTGGGCCGG 8 235 0 TTATATTTCT 0.776167 -255 TAGGTTTCGCTTTTTTCACCTTTTTCTACTTTCTAAC 8 309 1 TTTTCTTTTT 0.809545 -181 CATTCTTGGTTGTTGGCTTATTTACATTTCTCGCGAG 10 222 0 TTTGTTTTCT 0.845482 -379 TATCCGTTAATGTCGTTCATTTTCTCTCTTTGTTCGA 10 523 1 TTCGATTTTT 0.467597 -78 GAATAGCGCTTATTTATCTATTTATATCCAAGATGTA 11 132 1 TTTTTTTTTT 0.772875 -469 TCGTTATTGGTTTCTCGACCTTTTTATATACGATACG 11 255 1 TTCTCTTTTT 0.79876 -346 CTTGAATCATTTTATACGTTTTTCTCTTTCTAGAAAT 11 297 1 TTATTTTTTT 0.663988 -304 TCTTTTGAAATTTTCTTAGTTTATTTA 11 584 0 TTTTATTTCT 0.856555 -17 TTATTTTTTGCTTTTTCTCTTGAGGTCACA 12 4 1 TTTTTTTTTT 0.772875 -348 ACCTTATATATATCTTATTTTTTTCATCGAGCGTGTT 12 195 0 TTCTTTTTCT 0.910336 -157 CGATTTTTTTTTTTTCAGTTTTTTTTTTCCCACTAAT 13 12 0 TTTTTTTTTT 0.772875 -589 CGTTGAAAAATATCGAATTTTTTACTTCATTTATCGA 14 193 1 TTCGTTTTCT 0.83632 -408 CCGCTATGGCTTTTTCCCCGTTTCCTTTTAATCACGT 14 249 1 TTTTCTTTCT 0.931418 -352 TGTAATAACGTATATCCTTGTTTACATGCATCTGTGC 14 422 1 TTATTTTTCT 0.863273 -179 AACAATAGCATATTTTGACATTTACATAGCCATCTAT 15 88 1 TTTTCTTTCT 0.931418 -213 tgttcttttgttttgtttttttttcttgtgtataatt 16 104 0 tttgttttct 0.845482 -256 TCGGTTTATTTTTCTATATATTTGCCTCTTTCTCAAA 18 15 1 TTCTTTTTCT 0.910336 -429 TGCTGAGTCATGTTGTGGCTTTTCTTTTACTAGCCAC 18 279 0 TTTGCTTTTT 0.681444 -165 TAATACTATCTCTATGAGCTTTTACTTTGTCGAGATT 18 316 0 TTATCTTTCT 0.887473 -128 * *** * *** * * Masking position 11 Map Score: 26.0539 Number of sites scoring better than the average of aligned sites = 3490 Number in coding regions = 1628 Number in noncoding regions = 1862 Number of orfs with sites within 600 bp upstream = 1269 Fraction of orfs with sites within 600 bp upstream = 0.203823 Motif number 6 ATATATGTGTGTGTGTGTGTCCATCATTTA 1 344 0 GTGTGTGTGT 0.987815 -120 CACCCCACAGGTGTGGCTTTTTTGGTGCCG 4 133 1 GTGTGGCTTT 0.934874 -206 GTATTTTCCTGTGTGGCTGTCGTTTCGTGG 6 176 1 GTGTGGCTGT 0.975045 -393 CCCATCATCGGTGTGGGTGTGAGGCATTTC 7 21 0 GTGTGGGTGT 0.986982 -580 AAGCCATGATGTGCGTCTGTATCCCAAAAA 7 264 1 GTGCGTCTGT 0.897043 -337 TTCATATGTCGTGTGTTTGTATATGTGTGG 7 328 1 GTGTGTTTGT 0.948829 -273 GTTTGTATATGTGTGGGAGTGATTGTGCGT 7 342 1 GTGTGGGAGT 0.905955 -259 GTGGTACAATGTGTGTGTTTTAATGTAGAA 7 392 1 GTGTGTGTTT 0.967516 -209 CGGTAAAGGGGTGTGTGTTTGGTGATTTAT 7 568 1 GTGTGTGTTT 0.967516 -33 TCATTCGATTGTGTGTTTTTAGCAACTTTA 13 92 0 GTGTGTTTTT 0.872 -509 GTGTATATTTGTGGGTGTGTGCCAAATCCA 13 353 0 GTGGGTGTGT 0.944155 -248 ********** Masking position 2 Map Score: 10.1715 Number of sites scoring better than the average of aligned sites = 729 Number in coding regions = 122 Number in noncoding regions = 607 Number of orfs with sites within 600 bp upstream = 131 Fraction of orfs with sites within 600 bp upstream = 0.0210408 Motif number 7 GACGATTCATGAATGAGTCTTTTCTACGGC 4 159 0 GAATGAGTCT 0.671709 -180 TAGGTGACCTCAATGAGTCAAAGAGAGCTA 6 288 1 CAATGAGTCA 0.730555 -281 TACGTGCAATGAAGGAGTCACCTCTATGAT 6 476 1 GAAGGAGTCA 0.942031 -93 ACTAAACGGGCAAGAAGCCATGATGTGCGT 7 250 1 CAAGAAGCCA 0.946128 -351 TATTTCTCGAGAAAGAGCCTCTATTTCTCA 9 400 0 GAAAGAGCCT 0.887339 -201 CACCTTGACAGCAGGAGCCAAAAATTTGAA 11 98 0 GCAGGAGCCA 0.928955 -503 TTAAGTTAGTCAAGGCGCCATCCTCATGAA 12 112 1 CAAGGCGCCA 0.959149 -240 TTCAATTGGACAAGGTGCCACCTTTTCGAC 12 167 0 CAAGGTGCCA 0.938191 -185 ACACACAATCGAATGAGCCTCTGAGCAGTA 13 106 1 GAATGAGCCT 0.918605 -495 CCTCACTGCGGAAGGCGCCACACATTGCCT 13 269 1 GAAGGCGCCA 0.968814 -332 AAAAGTGCTCGAAGAAGCCTCGATAAATGA 14 219 0 GAAGAAGCCT 0.929841 -382 AGGAAACGGGGAAAAAGCCATAGCGGAAAA 14 245 0 GAAAAAGCCA 0.781653 -356 TGAATGCCCTCAAGGAGCCTCTTGATGCTA 15 31 0 CAAGGAGCCT 0.974773 -270 CACCCGGTAACAAGATGCCATTCATGTTAA 18 159 0 CAAGATGCCA 0.797363 -285 ********** Masking position 3 Map Score: 5.70616 Number of sites scoring better than the average of aligned sites = 963 Number in coding regions = 801 Number in noncoding regions = 162 Number of orfs with sites within 600 bp upstream = 143 Fraction of orfs with sites within 600 bp upstream = 0.0229682 Motif number 8 ATAGGTAGTATAGAGGAAAAACAAATTTGAT 1 137 0 TAGGGAAAAA 0.925672 -327 GTTAGTCCAGTCGGGCAATAGATAGGGACTG 2 146 0 TCGGCAATAG 0.633006 -402 GTTAATAATATAGTGGAAAAAAGTCAAGAGG 2 501 1 TAGGGAAAAA 0.925672 -47 TTTTTTGGTGCCGTAGAAAAGACTCATTCAT 4 150 1 CCGAGAAAAG 0.676052 -189 ATAGTCATCTTCGAGCAAAAGGTATATATAA 4 197 1 TCGGCAAAAG 0.900202 -142 CGAGGAAAAGCAGTTGAAAAAAACTATGTGC 4 295 0 CAGTGAAAAA 0.68428 -44 TTGGGTGACCTCGAGGAAAAGCAGTTGAAAA 4 306 0 TCGGGAAAAG 0.979842 -33 AGTCTATAATCCGAGGGATAGAATGACTAAA 5 86 0 CCGGGGATAG 0.679548 -295 GATATTTCGCTCGTGGAAAAGCTAATGCCAC 5 249 1 TCGGGAAAAG 0.979842 -132 GACATCACTGCCGTGCAAAAAGACCATTCCA 8 100 1 CCGGCAAAAA 0.837734 -390 TTGTCCTTTTCCGTGGAATAAAAGTTCACTC 8 144 1 CCGGGAATAA 0.841767 -346 TACGTACATATCGTTGGAAAATCTAGATCAG 9 45 0 TCGTGGAAAA 0.716587 -556 GGTCTTTTATTCCTGGAAAAGCGTGCAGCTA 10 339 0 TCCGGAAAAG 0.750886 -262 TTGAACACGCTCGATGAAAAAAATAAGATAT 12 192 1 TCGTGAAAAA 0.893719 -160 AAGGAAATAGTAGATGAAAAGACAAGAGAGC 12 274 0 TAGTGAAAAG 0.791092 -78 TATTAGTGGGAAAAAAAAAACTGA 13 4 1 TAGGGGAAAA 0.789235 -597 CGTCTTATTGTCGTTGAAAAATATCGAATTT 14 182 1 TCGTGAAAAA 0.893719 -419 GAAAAAGCCATAGCGGAAAAGTGCTCGAAGA 14 234 0 TAGGGAAAAG 0.942892 -367 TTAAAAGGAAACGGGGAAAAAGCCATAGCGG 14 249 0 ACGGGAAAAA 0.783013 -352 CGTTCACAGTGGAAAAAAAGGAATAAA 14 584 0 CAGGGAAAAA 0.904305 -17 *** ******* Masking position 8 Map Score: 10.8675 Number of sites scoring better than the average of aligned sites = 1425 Number in coding regions = 946 Number in noncoding regions = 479 Number of orfs with sites within 600 bp upstream = 427 Fraction of orfs with sites within 600 bp upstream = 0.0685834 Motif number 9 GACGGAAAAAAAATGTGAAAATCGCTACAAAG 1 287 1 AATGTGAAAT 0.939437 -177 ATTGTTCATGAAGTGTGCAAAATAAGAGAGTG 1 426 1 AATGTGAAAA 0.95182 -38 GAGGTATTATAAATTTCAAAAAAGTACCAA 2 528 1 AATTTCAAAA 0.770029 -20 ATATATATCAAATTTTGGAAAAATTTGAGTCA 5 139 0 AATTTGAAAA 0.851759 -242 TGACTGGTTAAAGTGTGAAAATTCTGGTTGTT 6 60 0 AATGTGAAAT 0.939437 -509 ATACATATAGAACTGTAGAAATTGGGATAAAG 6 148 0 AATGTAAAAT 0.875331 -421 AACTTGTTTTAACTGGGAAAAAGCGGAACAAT 6 536 1 AATGGGAAAA 0.88539 -33 AACTACATATAAGTGTACAAATATAGTACAGA 9 145 1 AATGTAAAAT 0.87529 -456 TTATTTCACCAATTTTAAAAAAAGAAATTGGT 10 15 0 AATTTAAAAA 0.722274 -586 ATGCATAGGGAAATTTGAAAATGATTGTTATG 10 80 0 AATTTGAAAT 0.818559 -521 ATTTGCTCGCAACTGTAGAAATCACAACTACA 11 195 1 AATGTAAAAT 0.875331 -406 ATAATAACCGAAGTGTCGAAAAGGTGGCACCT 12 153 1 AATGTCAAAA 0.920081 -199 TCTCTTCATAAAGTTGCTAAAAACACACAATC 13 84 1 AATTGCAAAA 0.566977 -517 ATGGCTATGTAAATGTCAAAATATGCTATTGT 15 89 0 AATGTCAAAT 0.900389 -212 AGCATTTGCTAAATGTGTAAAAATAATATTGC 17 38 0 AATGTGAAAA 0.95182 -347 CTGACAAAAGAATTGGATAAAAGAGAATGGTG 18 99 1 AATGGAAAAA 0.777619 -345 ** **** **** Masking position 4 Map Score: 7.08703 Number of sites scoring better than the average of aligned sites = 994 Number in coding regions = 631 Number in noncoding regions = 363 Number of orfs with sites within 600 bp upstream = 262 Fraction of orfs with sites within 600 bp upstream = 0.0420816 Motif number 10 ATAAAAGGCTGTGCCAGACATTTTTGCCAT 1 394 1 GTGCCAGACA 0.932131 -70 TTGTGTTGCCGTGCCACACCCTGCAGTTAT 7 206 0 GTGCCACACC 0.956599 -395 CACACACATTGTACCACACACGCCAACACA 7 379 0 GTACCACACA 0.914993 -222 TGGGCCGGGCGGGCCCCACAACTGTGGCAT 8 213 0 GGGCCCCACA 0.980668 -277 ATTGTTAGTGGCTCCCCACATTGACGTATT 13 226 1 GCTCCCCACA 0.90552 -375 ACTGCGGAAGGCGCCACACATTGCCTGCAA 13 273 1 GCGCCACACA 0.992395 -328 GTGTGTCATCGGGCCACACAAGCATATTGC 14 335 1 GGGCCACACA 0.98896 -266 CCTCTCCTATGCGCCACGCAGACAAAAGTT 17 110 1 GCGCCACGCA 0.971955 -275 ********** Masking position 5 Map Score: 3.26303 Number of sites scoring better than the average of aligned sites = 64 Number in coding regions = 39 Number in noncoding regions = 25 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 11 CTCAAGATTATTTCCTGCTTATTTTAAACTAA 2 296 0 TTCCTGCTTT 0.965361 -252 ATGCTCTTAGATGCTTGCTTTTTTATGATAAA 3 225 0 ATCTTGCTTT 0.917826 -76 TTCATACCTATTACCCGCTTTTAACTTTTTCT 6 385 0 TTCCCGCTTT 0.939687 -184 GACTGCAAGGTTGCTTTCTTCTTACGCTGATG 7 482 0 TTCTTTCTTT 0.941449 -119 TTATTTTTTGCTTTTTCTCTTGAGG 12 4 1 TTTTTGCTTT 0.781512 -348 TTCCTTTTTCTTGCTCTCTTGTCTTTTCATCT 12 262 1 TTCTCTCTTT 0.899889 -90 CTTGTACTTATTTCTTGCTATTGTTAGTGGCT 13 207 1 TTCTTGCTAT 0.852378 -394 TTCACGGATATTTCTTGCTTTTAATAAACAAA 13 466 1 TTCTTGCTTT 0.980335 -135 ACTACGTTTTTTTCTTTCTTTTCTATTATTCC 13 570 0 TTCTTTCTTT 0.941449 -31 ctcataatatatacttgcttgtgtgaaagtgt 16 138 0 atcttgcttt 0.917826 -222 AGAAAAAGCTTTACTCGCTTATCTCCTGGAGT 17 196 0 TTCTCGCTTT 0.965361 -189 CTAGGACAAATTTCCTTCTTGTCCCCCCACCA 18 126 0 TTCCTTCTTT 0.899889 -318 ** ******* * Masking position 9 Map Score: 6.56375 Number of sites scoring better than the average of aligned sites = 333 Number in coding regions = 191 Number in noncoding regions = 142 Number of orfs with sites within 600 bp upstream = 131 Fraction of orfs with sites within 600 bp upstream = 0.0210408 Motif number 12 CTACAAAGTCCGATGACTACGGGCAGTAGC 1 311 1 CGATGACTAC 0.973765 -153 GCAGAACGAGCTATGACTACC 3 2 0 CTATGACTAC 0.784426 -299 GCTTCCGACTCGATGACTACCAACACATAG 7 50 1 CGATGACTAC 0.973765 -551 GCCGGGCAGCCAATGACTAAGAACACGAGG 8 406 1 CAATGACTAA 0.770571 -84 GTGGTAGTTACGAAGACAAATTGTTTTGTT 8 463 1 CGAAGACAAA 0.913764 -27 AAAAAAAAATCGCAGACTACTAATAATCAC 13 37 1 CGCAGACTAC 0.922879 -564 GTCGGTAGAGCGATGACTAACCTACTACTG 14 33 1 CGATGACTAA 0.971639 -568 TTGTGTGGCCCGATGACACACAATAGCATG 14 326 0 CGATGACACA 0.829938 -275 CTATGCGCCACGCAGACAAAAGTTTACTCG 17 116 1 CGCAGACAAA 0.882964 -269 CTTTAATGCGCGCTGACAAAAGAATTGGAT 18 87 1 CGCTGACAAA 0.94338 -357 ********** Masking position 6 Map Score: 2.63842 Number of sites scoring better than the average of aligned sites = 314 Number in coding regions = 263 Number in noncoding regions = 51 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 13 TCACAGTTCTCAATTGAGCAGAACGAGCTATG 3 17 0 CAATTAGAGA 0.952404 -284 GAGACTATTTCAATCAAGGGGAGCAAGGCAAA 5 298 0 CAATCAGGGA 0.865194 -83 ATTTTACGTGCAATGAAGGAGTCACCTCTATG 6 472 1 CAATGAGAGT 0.846903 -97 GCAGCGATAGCAACTAAGGGGATGGAAAGACA 7 162 1 CAACTAGGGA 0.939156 -439 GACGCCTTGGCAATGTAGCAGATAACTCTGCA 10 149 1 CAATGAGAGA 0.975195 -452 AAAAATGTGGCAATGGAGAAGAGGATGAACGA 10 414 1 CAATGAGAGA 0.975195 -187 ATGAAGCCTACAACTTTGCAGAAACACATAAG 11 500 0 CAACTTGAGA 0.857678 -101 GTAGGTTGTACAACGAAGCGGAAGCTCATCTA 13 423 0 CAACGAGGGA 0.968078 -178 AGTTTAAAGACAACTCAGAAGACATCAGCACT 15 274 1 CAACTAGAGA 0.955906 -27 TTTCTAACTTCAATGATGAAGAAAAGTCGCAA 17 223 1 CAATGTGAGA 0.916166 -162 ***** ** *** Masking position 3 Map Score: 2.46706 Number of sites scoring better than the average of aligned sites = 279 Number in coding regions = 231 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 14 TTATAATAATGATACAGAACTCAAGATTATTTCCTGCTTAT 2 306 0 GAAGAACTAT 0.955494 -242 TTCCGAGGGCGACAAAGAGAACAAATATAGTTTTATTTATA 2 342 0 GAAGAGCTAT 0.801706 -206 AACACTCTAAGAAACAAAATACCAATATAATTTCAAAGTAC 3 261 1 GAAAAACTAT 0.980365 -40 GCCCGCTACCGGGAGAAAAGTCGCTGTTATTTTTTCAGTCG 5 40 0 GAAAAACTAT 0.980365 -341 GTGTGGCACGGCAACACAAGGCTATTGTATTGCACTAAACG 7 217 1 GAACAACTAT 0.920965 -384 ATATGTAGTTGTGACAAAAGTCTCTGTTAGTACTAAATTAA 9 114 0 GAAAAACTAT 0.980363 -487 AGGTCACGTGACCAGAAAAGTCACGTGTAATTTTGTAACTC 9 230 1 AAAAAACTAT 0.797216 -371 CGCTTTTCCAGGAATAAAAGACCGTGCCACTAATTTCACGT 10 347 1 GAAAAACCAT 0.903872 -254 ACAAATTGTGGTGAAAAAAGGCTCTCATAATAAACTGTGAA 11 354 1 GAAAAACTAT 0.980363 -247 TAATAAACTCGCTACAAAAGTCGAGTATGCTTAAGTCAAAA 11 436 1 GAAAAACTGT 0.903853 -165 gagtacaaaaggcaaaaaaaacatgtataattatacacaag 16 76 1 gaaaaactat 0.980363 -284 * * **** * ** * Masking position 8 Map Score: 1.72566 Number of sites scoring better than the average of aligned sites = 157 Number in coding regions = 100 Number in noncoding regions = 57 Number of orfs with sites within 600 bp upstream = 53 Fraction of orfs with sites within 600 bp upstream = 0.00851269 Motif number 15 AGAGGGCAGTAGTTCTCGAGACCACCATCT 4 233 1 AGTTCTCGAG 0.932535 -106 CCATATTCATATTTCTCGAGAAAGAGCCTC 9 409 0 ATTTCTCGAG 0.981147 -192 GCTTATTTACATTTCTCGCGAGCTGGTGAT 10 214 0 ATTTCTCGCG 0.932535 -387 GCGTGCAGCTATTTTTCGAGAATAATGTAA 10 320 0 ATTTTTCGAG 0.961828 -281 CCATTGCCACATTTTTTGAGGTGGCTTGTA 10 400 0 ATTTTTTGAG 0.852143 -201 TTTTTACTTCATTTATCGAGGCTTCTTCGA 14 211 1 ATTTATCGAG 0.908862 -390 tccatttatgatttcttgagtacaaaaggc 16 59 1 atttcttgag 0.9225 -301 attatgagaattttttcgagtcttacagaa 16 162 1 ttttttcgag 0.818694 -198 ********** Masking position 6 Map Score: 1.04143 Number of sites scoring better than the average of aligned sites = 205 Number in coding regions = 108 Number in noncoding regions = 97 Number of orfs with sites within 600 bp upstream = 91 Fraction of orfs with sites within 600 bp upstream = 0.0146161