AlignACE version 2.2 July 7, 1998 AlignACE -jECM.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 YAL059W 300 bp YAL059W ECM1 1-639 ExtraCellular Mutant #2 YBL101C 600 bp YBL101C ECM21 1-3354 ExtraCellular Mutant #3 YBL043W 321 bp YBL043W ECM13 1-774 ExtraCellular Mutant #4 YBL001C 600 bp YBL001C ECM15 1-315 ExtraCellular Mutant #5 YBR065C 358 bp YBR065C ECM2 1-1095 ExtraCellular Mutant #6 YBR076W 600 bp YBR076W ECM8 1-1020 ExtraCellular Mutant #7 YBR078W 600 bp YBR078W ECM33 1-58, 389-1737 Homolog to sporulation specific protein SPS2 (S. cerevisiae) #8 YBR176W 364 bp YBR176W ECM31 1-939 Alpha-Ketoisovalerate Hydroxymethyltransferase #9 YDR125C 475 bp YDR125C ECM18 1-1362 ExtraCellular Mutant #10 YDR446W 498 bp YDR446W ECM11 1-909 ExtraCellular Mutant #11 YEL030W 600 bp YEL030W ECM10 1-1935 ExtraCellular Mutant #12 YER176W 600 bp YER176W ECM32 1-3366 DNA Helicase I #13 YHL043W 600 bp YHL043W ECM34 1-513 ExtraCellular Mutant #14 YHL030W 597 bp YHL030W ECM29 1-5607 ExtraCellular Mutant #15 YHR021W-A 555 bp YHR021W-A ECM12 1-456 ExtraCellular Mutant #16 YHR132C 600 bp YHR132C ECM14 1-1293 Carboxypeptidase #17 YIL146C 580 bp YIL146C ECM37 1-1590 ExtraCellular Mutant #18 YJL201W 300 bp YJL201W ECM25 1-1800 ExtraCellular Mutant #19 YJR106W 300 bp YJR106W ECM27 1-2178 ExtraCellular Mutant #20 YJR137C 600 bp YJR137C ECM17 1-4329 ExtraCellular Mutant #21 YKR004C 600 bp YKR004C ECM9 1-879 ExtraCellular Mutant #22 YKR076W 600 bp YKR076W ECM4 1-1113 ExtraCellular Mutant #23 YLR228C 600 bp YLR228C ECM22 1-2445 #24 YLR299W 600 bp YLR299W ECM38 1-1983 gamma-glutamyltransferase homolog #25 YLR390W 405 bp YLR390W ECM19 1-339 ExtraCellular Mutant #26 YLR436C 376 bp YLR436C ECM30 1-3825 ExtraCellular Mutant #27 YLR443W 373 bp YLR443W ECM7 1-1347 ExtraCellular Mutant #28 YMR062C 600 bp YMR062C ECM40 1-1326 acetylornithine acetyltransferase #29 YMR128W 350 bp YMR128W ECM16 1-3804 ExtraCellular Mutant #30 YMR176W 484 bp YMR176W ECM5 1-4236 ExtraCellular Mutant #31 YNR030W 310 bp YNR030W ECM39 1-1656 ExtraCellular Mutant #32 YOR092W 600 bp YOR092W ECM3 1-1842 ExtraCellular Mutant #33 YPL021W 600 bp YPL021W ECM23 1-564 ExtraCellular Mutant\; similar to SRD1 Motif number 1 AAGAAGAAAAAAAAAAATAATATAGTCGCAGAAA 1 207 0 AAAAAAAAAA 0.942346 -94 AATAAAGGAAAAAAAAAGAAGAAAAAAAAAAATA 1 222 0 AAAAAAAAAA 0.942346 -79 TATTGCCGCAAAAAAAAAAAAAGAGCATCTTGAT 2 193 1 AAAAAAAAAA 0.942346 -408 AAGGGACGAGAAAAAAAAAATAGAACGACTCATT 2 451 1 AAAAAAAAAA 0.942346 -150 ATGACCAAAGAAAAAATAAAAAGACAGCTACATA 3 199 1 AAAAAAAAAA 0.942346 -123 TAATTCGAATAAAAAGTAAAAGAAACGAAAGGTT 4 394 0 AAAAAGAAGA 0.832943 -207 AATAAGGACTAAAAAAAAAAAAAAGAAATGCTAT 5 235 1 AAAAAAAAAA 0.942346 -124 TTGATAGCAAAAAAATGCAAAATATCGTATAAGT 6 79 1 AAAAATAAAA 0.853522 -522 GCGTTACCACAACAAACAAAGGCAACGTGCAGTA 7 166 1 AACAAAAAGA 0.712585 -435 TATTAAATACAAAAATGCAAGAGAGGTCCGTTGA 7 321 0 AAAAATAAAA 0.853522 -280 TTGTTGAAAGAAAAATGGAAAAGATTAAACTGTG 7 504 0 AAAAATAAAA 0.853522 -97 AGCAGCAGTGAAAAATAAAAAAAAAAATTAGAAT 8 134 0 AAAAATAAAA 0.853522 -231 ATTATCCGCGAAAAAAAGAATATAAAAAATACAA 10 417 1 AAAAAAAAAA 0.942346 -82 GTATACAACTAAAAAGCAAACAAAAGAACATCCT 10 472 1 AAAAAGAAAA 0.927547 -27 CTGCGCCTAAAAAAAGTAAACATATAAATTGGGA 11 88 1 AAAAAGAAAA 0.927547 -513 AGGTGGTTAACAAAAATTAAGAAAACAGAACAAC 11 243 1 CAAAAAAAAA 0.787671 -358 ATCTCCCCTGCAAAAATCAAAGTAAAAATTTAAG 11 380 0 CAAAAAAAGA 0.590967 -221 GTAGAACATCAAAAAAAGAACAAATCTCAAAAAT 11 451 1 AAAAAAAAAA 0.942346 -150 CTCATTTGTTAAAAATCTAAAAAAGAATCAATTT 12 149 0 AAAAATAAAA 0.853522 -452 CGGAAATATAAAAAAAAAAAAATAGCGGCATCTT 12 415 0 AAAAAAAAAA 0.942346 -186 AAAAAGAGATAAAAAGACAAGGAAAAAATAAACT 14 58 0 AAAAAGAAGA 0.832943 -540 GAGAACGAAAAACAAAAAAAAAGAGATAAAAAGA 14 75 0 AACAAAAAAA 0.864238 -523 TTATAAAGAAAAAAATTTAATAAAAATCTGCCGG 15 383 0 AAAAATAAAA 0.853522 -173 CCCCTTTTACAAAAAAAAAAAAAAGAAACAGATC 17 327 1 AAAAAAAAAA 0.942346 -254 GTCCTAATCACAAAAGCAAAAAAAATCTGCCAGG 17 545 1 CAAAAGAAAA 0.743955 -36 GAAAAAAAATAACAAGCAAAGGAACCTTTCTATA 20 490 0 AACAAGAAGA 0.660081 -111 ATGAAAAGTACACAAAAGAACAAACAAAAGCCAA 21 173 1 CACAAAAAAA 0.590967 -428 CGCATAATTAAAAAAATAAGGTATTTTAAAGTT 22 10 1 AAAAAAAAGA 0.864238 -591 ATGTAAAAAAAAAAAGGAAAGAAAATCACTCCAT 22 201 0 AAAAAGAAAA 0.927547 -400 GAGAAACATCAACAAATGAAAAAAAAAGGCTACA 23 19 1 AACAAAAAAA 0.864238 -582 CCCCAATCGTAACAAAAAAAAACAAGGGGAAATA 23 368 0 AACAAAAAAA 0.864238 -233 ATAATAGAATAAAAAGCTAACGCAGATTCAAGTG 24 519 1 AAAAAGAAGA 0.832943 -82 TCAGGCACACAAAAAGACAAGACAAAAAGTAGCG 24 561 1 AAAAAGAAAA 0.927547 -40 AATTGTGGCCAAAAATACAAGAGAAGGGGATGAC 25 306 0 AAAAATAAAA 0.853522 -100 AAAATGTGCGAACAAGAGAAAAGACTATATAAAG 26 85 0 AACAAGAAAA 0.832943 -292 ACCTATGGAGAAAAAAAAAAAAAAAGACCTCTAT 26 235 1 AAAAAAAAAA 0.942346 -142 CAAATCAGAGAAAAAGCTAATAGAGAAAGAAATA 26 310 1 AAAAAGAAAA 0.927547 -67 CATAGTATGAAAAAGAAAAACACATAAGCAGCCC 27 75 0 AAAAGAAAAA 0.434459 -299 TAAAGAAGTCCAAAATTCAACATAGC 28 585 1 CAAAATAAAA 0.569428 -16 TAAACCATTAAAAAAATAAAAGGACTTGGTTAAT 30 32 0 AAAAAAAAGA 0.864238 -453 TCCAATAGTGAAAAAAAAAAAAAAATGAAAATGA 31 116 1 AAAAAAAAAA 0.942346 -195 AACCAACACAAACAAAACAATAGAAGACAAAGAG 32 556 1 AACAAAAAAA 0.864238 -45 ****** ** * * Masking position 9 Map Score: 53.4536 Number of sites scoring better than the average of aligned sites = 6811 Number in coding regions = 1176 Number in noncoding regions = 5635 Number of orfs with sites within 600 bp upstream = 1681 Fraction of orfs with sites within 600 bp upstream = 0.269997 Motif number 2 TTTTTCTTCTTTTTTTTTCCTTTATTCAACTTGGCGATGAGC 1 230 1 TTTTTTTTTT 0.948762 -71 CTGGTATGTAGCTGTCTTTTTATTTTTTCTTTGGTCATACAG 3 195 0 GTGTCTTTTT 0.769669 -127 ACATCCAAGTTTTTTCACAATTATTTATTGTTTTTCTCACAT 3 264 1 TTTTCTTTTT 0.931099 -58 TGGGAAATGGGATTTTAAGTTTTGTTAGCATTCTGGTTTGCC 4 86 1 GTTTTTTTTT 0.902036 -515 TGCAACGAGATTTGTCTCTTTGATTTTCTATTTATGATTTCT 4 161 1 TTGTCTTTTT 0.870464 -440 ACCTTTCGTTTCTTTTACTTTTTATTCGAATTATATAGCTCT 4 395 1 TTTTTTTTTT 0.948762 -206 CGTCTTTCCCGTTTTTGCACTCCATTTCATTTCTTTTTCCGG 7 60 0 GTTTTTTTTT 0.902036 -541 TTCAGCCAGATATTTTTTACTTTATTCTAATTTTTTTTTTTA 8 111 1 TTTTTTTTTT 0.948762 -254 AAATAATTAATGTTTTGGTCTGAATTTTTATTTTTCAAAAAT 9 274 0 TTTTTTTTTT 0.948762 -202 GAATCTCGTGGTTGTTCTGTTTTCTTAATTTTTGTTAACCAC 11 245 0 GTGTTTTTTT 0.820748 -356 GGCTTTTCCCTGTGTCTAGTTAGTTTATTTTTTCCTTGTCTT 14 37 1 TTGTCTTTTT 0.870464 -561 TCTTTTTTTTTGTTTTTCGTTCTCTTTATTTTCAACAACGCC 14 85 1 TTTTTTTTTT 0.948762 -513 ATCTTTGAAAGCTTTTATACTTATTTGATCTTTGTATATATC 14 364 1 GTTTTTTTTT 0.902036 -234 GGTACGTATTTTTGTTTATATGTGTTGTATTTCTGAACCCCA 16 380 1 TTGTTTTTTT 0.902036 -221 CCGTCGAAAATATTTTATCCTTCCTTCCATTTAGTTGGACCA 16 516 0 TTTTTTTTTT 0.948762 -85 ACTTAATAGATCTGTTTCTTTTTTTTTTTTTTGTAAAAGGGG 17 327 0 TTGTTTTTTT 0.902036 -254 ATGAGGCTTATTTTTTACTTTTCTTTAACCTTGTCTCTCCCA 18 81 0 TTTTTTTTTT 0.948762 -220 ACGGCGTACGTATTTTGGCGTTTTTTCATGTTGATGTTATTT 18 194 1 TTTTTTTTTT 0.948762 -107 CCTTTTAGCATTTTTTTGTTTGGCTTTTGTTTGTTCTTTTGT 21 184 0 TTTTTTTTTT 0.948762 -417 TTTTCTTTCCTTTTTTTTTTTACATTTAGTTTCATTATTATG 22 210 1 TTTTTTTTTT 0.948762 -391 ATTGTAGCCTTTTTTTTTCATTTGTTGATGTTTCTCTAGTAT 23 13 0 TTTTTTTTTT 0.948762 -588 GATTTGTGTGTATTTCTTTCTCTATTAGCTTTTTCTCTGATT 26 312 0 TTTTCTTTTT 0.931099 -65 TGTGTTTTTCTTTTTCATACTATGTTCATTTTAACTTTTTTG 27 85 1 TTTTCTTTTT 0.931099 -289 TGGAGGCTCCTATTTTCTAGTTGCTTTTTGTTTTCACTCGCA 29 17 0 TTTTTTTTTT 0.948762 -334 AAGACTTAATGATTTCATCATCTCTTCTGATTAACGATTCTG 29 130 1 GTTTCTTTTT 0.870464 -221 AAGGGCCGAATTTTTCATTTTCATTTTCATTTTTTTTTTTTT 31 128 0 TTTTCTTTTT 0.931099 -183 * **** * ** ** Masking position 11 Map Score: 31.1514 Number of sites scoring better than the average of aligned sites = 3556 Number in coding regions = 918 Number in noncoding regions = 2638 Number of orfs with sites within 600 bp upstream = 1070 Fraction of orfs with sites within 600 bp upstream = 0.17186 Motif number 3 AATCACGGTGAAATGAAGTAATGACAAAATAATATTTGGGG 1 85 1 AAAAGAAAAA 0.901791 -216 AAGGAAAAAAAAAGAAGAAAAAAAAAAATAATATAGTCGCA 1 211 0 AAAAAAAAAA 0.927923 -90 AGAGGGGACAAAAAAAGGGACGAGAAAAAAAAAATAGAACG 2 437 1 AAAAGAAAAA 0.901791 -164 AGTTTAACTAAAAGTAAAAAGTTAGAAATCATAAATAGAAA 4 185 0 AAAAAAAAAA 0.927923 -416 GTAGTTCAGAAAAGAAATTATTTAAAAATTACTCGCTCTCT 4 264 1 AAAATAAAAA 0.801481 -337 TTAAATATTCAAATAACGTACAAATAAAAGACTGATAAATA 5 36 1 AAAAGAAAAA 0.901791 -323 TAGGCAATAAGGACTAAAAAAAAAAAAAAGAAATGCTATGG 5 230 1 GGAAAAAAAA 0.754802 -129 CCAAATCTTGATAGCAAAAAAATGCAAAATATCGTATAAGT 6 72 1 ATAAAAAAAA 0.802616 -529 GAAAAGCCAAGAAAGATAAAGAAGGAAAGAAAATGCAGAGG 7 368 0 GAAAAAAAAA 0.889127 -233 TGCGGAATAATAGTAAAATTAAAACTAGATCTTTAAA 7 574 0 ATAATAAAAA 0.560474 -27 CAGCAGCAGTGAAAAATAAAAAAAAAAATTAGAATAAAGTA 8 128 0 GAAAAAAAAA 0.889127 -237 ATTATCCGCGAAAAAAAGAATATAAAAAATACAAATGTGCA 10 417 1 AAAAGAAAAA 0.901791 -82 AGATCCTCACATAGTATACAACTAAAAAGCAAACAAAAGAA 10 459 1 ATAAAAAAAA 0.802616 -40 TTCCTGTGCTAAACCACTCAGTTGGAAAATAAATTGTGTAA 11 325 0 AAAATAAAAA 0.801481 -276 TGTATATTTGATATCACAAATACCAAAATTAGCCGCTTTTT 12 86 1 ATAAAAAAAA 0.802616 -515 TGCAGTTCAAGTAGGATTTAGTTGGAAATGATAACTTGTTT 12 232 0 GTAATAAAAA 0.442685 -369 AGAGATAAAAAGACAAGGAAAAAATAAACTAACTAGACACA 14 47 0 AGAAGAAAAA 0.778995 -551 TTGAAAATAAAGAGAACGAAAAACAAAAAAAAAGAGATAAA 14 79 0 AGAAGAAAAA 0.778995 -519 CCCATCGCTCAAAACACAAATATGGAAAGGACAAATCGTCT 17 154 1 AAAAAAAAAA 0.927923 -427 CAATAACCCAAAAATATAGATTTTAAAAGTATAATGATTAT 17 416 0 AAAAAAAAAA 0.927923 -165 AGACGATGGAAAAAAAATAACAAGCAAAGGAACCTTTCTAT 20 491 0 AAAATAAAAA 0.801481 -110 TAGGGAACGGGAACCAGAGAAAAACAAAAGATTGGCGA 20 573 1 GAAAAAAAAA 0.889127 -28 TGCACATGGAAGATCAAATACATGAAAAGTACACAAAAGAA 21 152 1 AGAAAAAAAA 0.831704 -449 CCATTCCATAGAACTAATTATCTTCAAAACAACATTTTTAT 21 386 1 GAAATAAAAA 0.715493 -215 GAAACTAAATGTAAAAAAAAAAAGGAAAGAAAATCACTCCA 22 202 0 GTAAAAAAAA 0.716947 -399 GGAGAACAACAGAGAACAGATGATAAAACTATATTGATACG 22 390 0 AGAAAAAAAA 0.831704 -211 AATCGTAACAAAAAAAAACAAGGGGAAATAAACTATTAGAT 23 357 0 AAAAAAAAAA 0.927923 -244 ATTCACATATAAAAGAGTGAAAATAAAAATAACTTTTAAGA 24 183 1 AAAATAAAAA 0.801481 -418 CTTCCTGAATGAATCAGAGAAAGTGAAATCAAATAGTAAGT 25 64 0 GAAAAAAAAA 0.889127 -342 AAAAGAGAGAAAAAAAGAGAGAGATAAAAAAAATTGTGCAA 26 16 0 AAAAAAAAAA 0.927923 -361 AGAAAAGACTATATAAAGAATCTATAAAAGAGAAAGTAAAG 26 62 0 ATAAGAAAAA 0.743606 -315 GGTTTACCCGAAAGAAAAAACACCGAAATTAAGCACGTAAA 26 197 0 AAAAAAAAAA 0.927923 -180 GTAAACCTATGGAGAAAAAAAAAAAAAAAGACCTCTATTTA 26 231 1 GGAAAAAAAA 0.754802 -146 AGCTAATAGAGAAAGAAATACACACAAATCAAACCATAAAA 26 324 1 GAAAAAAAAA 0.889127 -53 TAAAATGAACATAGTATGAAAAAGAAAAACACATAAGCAGC 27 77 0 ATAAGAAAAA 0.743606 -297 TTTTGAGTATAAAGAACATAAACATAAACAATTCATAAATA 30 64 0 AAAAAAAAAA 0.927923 -421 AATAGTGAAAAAAAAAAAAAAATGAAAATGAAAATGAAAAA 31 119 1 AAAAAAAAAA 0.927923 -192 CAAATGGTACAAAGTAGGAAACAACAAATAAGGAAAGCTTT 33 25 1 AAAAGAAAAA 0.901791 -576 GAAAATAGAAGAAATATAAAATTTAAAAGGAATTACTGTTT 33 115 0 GAAAAAAAAA 0.889127 -486 ATATTAAAGGAAATAATGAACGCTAAAAAGAATGCCTTTTA 33 402 0 AAAAGAAAAA 0.901791 -199 *** * * * *** * Masking position 10 Map Score: 43.1739 Number of sites scoring better than the average of aligned sites = 4311 Number in coding regions = 1077 Number in noncoding regions = 3234 Number of orfs with sites within 600 bp upstream = 1284 Fraction of orfs with sites within 600 bp upstream = 0.206232 Motif number 4 TTTTTTTTTTCTTCTTTTTTTTTCCTTTATTCA 1 225 1 CCTTTTTTTT 0.755337 -76 TTTTTTCTCGTCCCTTTTTTTGTCCCCTCTTAA 2 434 0 TCTTTTTTGT 0.755337 -167 TAATAAAACCTTTCGTTTCTTTTACTTTTTATT 4 388 1 TCTTTCTTTT 0.925254 -213 AAATTTGCCATAGCATTTCTTTTTTTTTTTTTT 5 245 0 TCTTTCTTTT 0.925254 -114 ATACGATATTTTGCATTTTTTTGCTATCAAGAT 6 76 0 TCTTTTTTTG 0.925254 -525 CTGTGCCGCCCTTCCCTTTTTTGAAAGCTGCTA 6 142 1 CCCTTTTTTG 0.543399 -459 GTAAGACGTACGACCCTTTTTTTAGTGTCAGTA 6 234 0 CCCTTTTTTT 0.48908 -367 TTGCACTCCATTTCATTTCTTTTTCCGGAGGGC 7 55 0 TCTTTCTTTT 0.925254 -546 TTACTGCACGTTGCCTTTGTTTGTTGTGGTAAC 7 168 0 TCTTTGTTTG 0.718724 -433 CTTTTCACCCTTTCTCTTCTTTTTAGAACATCA 7 403 1 TCCTTCTTTT 0.793312 -198 CAAATACCAATATCATTTCTTTGTACTGGATGC 13 23 0 TCTTTCTTTG 0.938986 -578 ATCGTCCCGGTGACATTTTTTTGCAGTTACAAC 13 566 0 TCTTTTTTTG 0.925254 -35 TGTCTTTTTATCTCTTTTTTTTTGTTTTTCGTT 14 73 1 TCTTTTTTTT 0.908732 -525 TATATCCATATGCCTTTTCTTGGTGGCAAAAAA 14 456 1 TCTTTCTTGG 0.826745 -142 TATCAGGAAGTACCTTTTTTTTGCCACCAAGAA 14 472 0 TCTTTTTTTG 0.925254 -126 TGCTTCCCGCTGACCTTTCTTGGGCCCAGTTTA 15 167 0 TCTTTCTTGG 0.826745 -389 GAAATATTGACATCCTTTCTTGTATTTAGCCCA 15 443 0 CCTTTCTTGT 0.543399 -113 ATCACTTTTATAACACTTCTTTGGTACGTATTT 16 358 1 TCCTTCTTTG 0.826745 -243 TCACGCTTGATGACTTTTTTTTTAGACGGCTGA 17 109 1 TCTTTTTTTT 0.908732 -472 AATAGATCTGTTTCTTTTTTTTTTTTTTGTAAA 17 332 0 TCTTTTTTTT 0.908732 -249 GGCTTATTTTTTACTTTTCTTTAACCTTGTCTC 18 86 0 TCTTTCTTTA 0.622915 -215 TTTTTTTGTTTGGCTTTTGTTTGTTCTTTTGTG 21 183 0 TCTTTGTTTG 0.718724 -418 CGTTTCCTTTTAGCATTTTTTTGTTTGGCTTTT 21 198 0 TCTTTTTTTG 0.925254 -403 GTGATTTTCTTTCCTTTTTTTTTTTACATTTAG 22 206 1 TCTTTTTTTT 0.908732 -395 CTCAACCCTTTTCCATTTCTTGTATAAAGGTAG 22 499 1 TCTTTCTTGT 0.793312 -102 CCGAGGATTGTAGCCTTTTTTTTTCATTTGTTG 23 28 0 TCTTTTTTTT 0.908732 -573 TCGACTTTTATAGCCTTTTTTTTAACTTAACGA 23 315 1 TCTTTTTTTT 0.908732 -286 TTTTTTTATCTCTCTCTTTTTTTCTCTCTTTTT 26 25 1 TCCTTTTTTT 0.755337 -352 GTTTCATTTACACCATTTCTTTGTGTATCAGTC 27 312 1 CCTTTCTTTG 0.826745 -62 ATACAAAACATGACTTTTCTTTATCACTAAAAG 28 101 0 TCTTTCTTTA 0.622915 -500 TGTTACGTTTTTTTGGGCGCAATTA 30 3 1 TCTTTTTTTG 0.925254 -482 TCATTTTCATTTTCATTTTTTTTTTTTTTTCAC 31 123 0 TCTTTTTTTT 0.908732 -188 * * ******** Masking position 7 Map Score: 32.5887 Number of sites scoring better than the average of aligned sites = 2132 Number in coding regions = 639 Number in noncoding regions = 1493 Number of orfs with sites within 600 bp upstream = 1033 Fraction of orfs with sites within 600 bp upstream = 0.165917 Motif number 5 ACTATATTATTTTTTTTTTTCTTCTTTTTTT 1 215 1 TTTTTTTTTC 0.797742 -86 TTTTTTTCTTCTTTTTTTTTCCTTTATTCAA 1 228 1 CTTTTTTTTC 0.716473 -73 TCGTTCTATTTTTTTTTTCTCGTCCCTTTTT 2 448 0 TTTTTTTCTC 0.904591 -153 CAATTATTTATTGTTTTTCTCACATAGAAAA 3 281 1 TTTTTTTCTC 0.904591 -41 TAATGATATTCTGTTTTTCACGGGGTGGAAA 4 475 0 CTTTTTTCAC 0.900204 -126 ATTTTTTTTTTTATTTTTCACTGCTGCTGTC 8 140 1 TTTTTTTCAC 0.933684 -225 TGGTCTGAATTTTTATTTTTCAAAAATGAGG 9 270 0 TTTATTTTTC 0.654395 -206 ATTTTTTATATTCTTTTTTTCGCGGATAATT 10 416 0 TTTTTTTTTC 0.797742 -83 ATAGAAAAGTTTCTATTTCACCACGAACAAC 14 574 1 TTTATTTCAC 0.871118 -24 ATGTCAATATTTCTTTTTTACGCGGAAGGTT 15 463 1 TTTTTTTTAC 0.854163 -93 TTCATGAGGCTTATTTTTTACTTTTCTTTAA 18 95 0 TTTTTTTTAC 0.854163 -206 TTTGTCCACGTGATATTTCACAGAATGAATT 20 272 1 TGTATTTCAC 0.611926 -329 TATATCCCAATTTTATTTCACATTAAAAACT 20 463 0 TTTATTTCAC 0.871118 -138 CGCCAATCTTTTGTTTTTCTCTGGTTCCCGT 20 579 0 TTTTTTTCTC 0.904591 -22 TTTAGTTCAGCTCTTTTTCACTTATTTTTGC 21 124 1 CTTTTTTCAC 0.900204 -477 CAATAGTTTTTTGTATTTTACCGTTGAGACA 21 481 0 TTTATTTTAC 0.737654 -120 AAAAAACTATTGCTATTTTACAATACGCATT 21 500 1 TGTATTTTAC 0.39612 -101 TTCTTTCCTTTTTTTTTTTACATTTAGTTTC 22 212 1 TTTTTTTTAC 0.854163 -389 ACTTTTCCATCTTTATTTCACCTCTTCAGAC 22 340 1 CTTATTTCAC 0.812399 -261 GGATTGTAGCCTTTTTTTTTCATTTGTTGAT 23 26 0 CTTTTTTTTC 0.716473 -575 TTATCTCTCTCTTTTTTTCTCTCTTTTTCCT 26 30 1 CTTTTTTCTC 0.858648 -347 GTCTTTTTTTTTTTTTTTCTCCATAGGTTTA 26 232 0 TTTTTTTCTC 0.904591 -145 TCATTTTTTTTTTTTTTTCACTATTGGAATA 31 113 0 TTTTTTTCAC 0.933684 -198 GTTGTTGAGGTGTTTTTTCACCTCGGATCCG 32 126 1 TGTTTTTCAC 0.766605 -475 GAGTTTTGCTCTCTATTTCACAATCGGTGAT 32 186 1 CTTATTTCAC 0.812399 -415 ** ******** Masking position 6 Map Score: 19.5068 Number of sites scoring better than the average of aligned sites = 1389 Number in coding regions = 530 Number in noncoding regions = 859 Number of orfs with sites within 600 bp upstream = 677 Fraction of orfs with sites within 600 bp upstream = 0.108738 Motif number 6 TTCTTCTCTATTTAAAAGAGTCACCTTTCCGAT 2 547 0 TTTAAAAGAA 0.84885 -54 ATATTAGCTATTTAAAAGCCTTAAGATGGACTA 6 438 1 TTTAAAAGCA 0.790752 -163 AAACTAGATCTTTAAAAGTCAAATAAACGTATT 7 557 0 TTTAAAAGTA 0.915994 -44 ATTATAGACGTTTAAAAGTTTTAAGGGATCGGA 8 76 1 TTTAAAAGTA 0.915994 -289 GAATGATACATATATAAGTTATATGCTTTCACT 10 122 1 TATATAAGTA 0.692415 -377 ATGCTTTCACTTTATAAGTATTAGCGTTTTTAC 10 144 1 TTTATAAGTA 0.716084 -355 TTACGAGCTGTATAAAAGAACTACAAGGAAGTT 13 536 1 TATAAAAGAA 0.833686 -65 AAAGAAGTGTTATAAAAGTGATATAACTATGTC 16 347 0 TATAAAAGTA 0.906827 -254 TTTTCGACGGTTTAAAAGACCAAGTTAACACTA 16 548 1 TTTAAAAGAA 0.84885 -53 AAATATAGATTTTAAAAGTATAATGATTATGCC 17 413 0 TTTAAAAGTA 0.915995 -168 AAAAAAAGGCTATAAAAGTCGAAGAACGAATGA 23 304 0 TATAAAAGTA 0.906828 -297 TCTATTCACATATAAAAGAGTGAAAATAAAAAT 24 180 1 TATAAAAGAA 0.833686 -421 ATAAAGAATCTATAAAAGAGAAAGTAAAGTAGG 26 58 0 TATAAAAGAA 0.833686 -319 TCGTCGAGTATATAAAAGCCTCATCCTCGGCTC 28 494 1 TATAAAAGCA 0.77133 -107 TCTACGAATATATATAAGTCATATCTAAGACTT 30 135 1 TATATAAGTA 0.692427 -350 TCTTCCGCTTTAAAAGTTGAAAATTCCTCAA 31 9 1 TTTAAAAGTA 0.915994 -302 AATATGATTTAAAAGTTCTATCACTCAGCA 33 581 0 TTTAAAAGTA 0.915994 -20 ********* * Masking position 7 Map Score: 8.50977 Number of sites scoring better than the average of aligned sites = 223 Number in coding regions = 101 Number in noncoding regions = 122 Number of orfs with sites within 600 bp upstream = 88 Fraction of orfs with sites within 600 bp upstream = 0.0141343 Motif number 7 CAAAAAAGGGAAGGGCGGCACAGAACCTTACATT 6 131 0 AAGCGCACGA 0.95264 -470 CGTACGTCTTACTGGCAGCGCGAAAAATGTTTCG 6 255 1 ACGCGCGCAA 0.981521 -346 AACGGAATTTACCTGCAGCACTAAGTGAGCAGTG 10 329 0 ACGCGCACAA 0.986773 -170 GCAGGTCATAACAAGCGGAACCAAAGCTTACTCA 12 199 1 ACGCGAACAA 0.928038 -402 ATTTGCAAATAATCGCTGCGCTGAACTTGGAGGA 13 311 0 AAGCGCGCGA 0.934733 -290 GTAAGCTATAAAATGCCGCACAAAGTGTGCGTAC 13 488 0 AAGCGCACAA 0.979071 -113 AGAAAAAAGGACAAGCAGCGCTAAGAACAAAATA 19 224 1 ACGCGCGCAA 0.981521 -77 ATAAGTGAAAAAGAGCTGAACTAAATGTAGTATT 21 115 0 AAGCGAACAA 0.889951 -486 TAAGCGGGCAAAAGGCGGCACTAAGACGTTCGAA 24 311 0 AAGCGCACAA 0.979071 -290 CTCATCCTCGGCTCGCCGCACAAAGGTGACGATT 28 513 1 GCGCGCACAA 0.939605 -88 ** ** **** ** Masking position 14 Map Score: 4.2559 Number of sites scoring better than the average of aligned sites = 66 Number in coding regions = 42 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 8 GCGATGAGCTGAAAATTTTTTTGGTTAAGG 1 263 1 GAAAATTTTT 0.85325 -38 GCACGCTACCGAAAATTTTTCAGTTCGATC 7 244 0 GAAAATTTTT 0.85325 -357 GTTATCGCGGGAGAATATTTGGGGTTCAGA 16 411 0 GAGAATATTT 0.909487 -190 TTAAACCGTCGAAAATATTTTATCCTTCCT 16 533 0 GAAAATATTT 0.913417 -68 GGCTTTGTAAGAAAATATTTCAACAATAAC 17 450 0 GAAAATATTT 0.913417 -131 GAAAATATTTTTTATAGGCT 21 1 1 GAAAATATTT 0.913417 -600 CCCCTTTGCAGAGAATTTTTTGAAAAAATA 21 267 1 GAGAATTTTT 0.89285 -334 CATTTCTAATGAGAATATTTATTAC 21 586 1 GAGAATATTT 0.909487 -15 AAGGATAACAGAAAATATTCTTGCTATACT 24 29 0 GAAAATATTC 0.741778 -572 TAGCCTAAGGGAGAATTTTTATGGTTTGAT 26 351 0 GAGAATTTTT 0.89285 -26 TGGGTGTTCCGAAAATTTTCATTGGCGATG 29 211 1 GAAAATTTTC 0.474997 -140 ********** Masking position 5 Map Score: 4.40447 Number of sites scoring better than the average of aligned sites = 785 Number in coding regions = 420 Number in noncoding regions = 365 Number of orfs with sites within 600 bp upstream = 341 Fraction of orfs with sites within 600 bp upstream = 0.0547703 Motif number 9 GAGTCAGATCAGAGATTGGAAAAATTAAGACCAA 2 358 0 AGAATGAAAA 0.946632 -243 CTGTAAGCAGAGAAAGTCGAACAAAGACGTAACA 3 159 0 AGAATGAAAA 0.946632 -163 ATCTCGTTGCAAAAGCTTGAAAAATAGTGCTTTA 4 138 0 AAAGTGAAAA 0.842119 -463 AAATAAAAAAAAAAATTAGAATAAAGTAAAAAAT 8 122 0 AAAATGAAAA 0.905133 -243 CGGTGATCTAAGATATTTGAGAAAGCACGAAACA 17 260 0 AGAATGAGAA 0.848575 -321 ATAAATATCAAGACGATGGAAAAAAAATAACAAG 20 508 0 AGAGTGAAAA 0.908394 -93 AAAGGAAAGGAGAAAATGGAACAATTGCTTAGTC 21 60 0 AGAATGAAAA 0.946632 -541 AAATACTAGAGAAACATCAACAAA 23 1 1 AAAATGAGAA 0.75089 -600 CAGTTATCTTAAATAATAGAATAAAAAGCTAACG 24 507 1 AAAATGAAAA 0.905133 -94 GTTTATGCGGAAAAGATAGAAGAAGCGCACAGGC 25 361 0 AAAGTGAAAA 0.842119 -45 ACGATAATCTAGAATTTGGAACAAAAAGCGAAGT 30 424 0 AGATTGAAAA 0.713949 -61 AGTGTTGTTAAAAGAGTTGAATAAAGCCATTAAA 31 270 1 AAAATGAAAA 0.905133 -41 AAAAAAGTTCAGAAAATAGAAGAAATATAAAATT 33 133 0 AGAATGAAAA 0.946632 -468 *** * * *** ** Masking position 10 Map Score: 4.05889 Number of sites scoring better than the average of aligned sites = 286 Number in coding regions = 197 Number in noncoding regions = 89 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813 Motif number 10 CTCACATAGAAAATTCCGCATACTGCGATT 3 299 1 AAATTCCGCA 0.964197 -23 ATTAAAGAATAATTTCCGCAAGGTACATAG 4 226 1 AATTTCCGCA 0.823753 -375 TAGACTGTGTAAATTCAGCATTACTGTCTA 6 527 0 AAATTCAGCA 0.81758 -74 TTCAAGGATAAAATGCCGAATAAATGCTTT 9 180 1 AAATGCCGAA 0.735832 -296 TGCTAAGTCAAATTGCAGCACCCTTTAAAG 11 413 1 AATTGCAGCA 0.5871 -188 GTAAGCTATAAAATGCCGCACAAAGTGTGC 13 492 0 AAATGCCGCA 0.980091 -109 GATCAGGCACAAACTCCGCAGCCAAAACAA 14 300 0 AAACTCCGCA 0.822163 -298 ACGTGGTGGGAAATGCAGCAATTCCCCTCT 15 199 0 AAATGCAGCA 0.891219 -357 AGTTCTTCGTAAAATCCGCAGTCAGCGCAG 16 480 0 AAAATCCGCA 0.887406 -121 TCAGTTGGTGAAATTCCGCAGATAAAACAG 20 177 0 AAATTCCGCA 0.964197 -424 TTCTCATTAGAAATGCCGCCTAATTTACAT 21 571 0 AAATGCCGCC 0.929655 -30 AGAATGCAGGAAAAGCCTCAACTATTTATC 22 109 0 AAAAGCCTCA 0.772785 -492 TCGAGTATATAAAAGCCTCATCCTCGGCTC 28 497 1 AAAAGCCTCA 0.772785 -104 TAAAAGTTGAAAATTCCTCAATGAAAAGGG 31 21 1 AAATTCCTCA 0.864083 -290 CTCAAGTCATAAATGCCTCCCTTTTAAGTT 33 472 0 AAATGCCTCC 0.757271 -129 ********** Masking position 2 Map Score: 4.95113 Number of sites scoring better than the average of aligned sites = 415 Number in coding regions = 305 Number in noncoding regions = 110 Number of orfs with sites within 600 bp upstream = 88 Fraction of orfs with sites within 600 bp upstream = 0.0141343 Motif number 11 ACTCTTGGAATCCCTTTTCCCAACCGT 1 6 0 TCCTTTCCCA 0.967345 -295 TTTAAAAGAGTCACCTTTCCGATGGACCTTCA 2 538 0 TCCTTTCCGA 0.967345 -63 AAACTTAAAATCCCATTTCCCAAGAGGATCAA 4 76 0 TCCTTTCCCA 0.967345 -525 TTGGCTAATTTTACTTTTCCCACAACCGTAGA 10 56 1 TTCTTTCCCA 0.926696 -443 TCAAACAAGTTATCATTTCCAACTAAATCCTA 12 230 1 TACTTTCCAA 0.648919 -371 GGTAACCAATTCACGTTGCCGATCGAGGTGTG 12 353 0 TCCTTGCCGA 0.835673 -248 CTGGTGGGAGTTTCCTTTCCGAGAGCCACATT 15 230 1 TTCTTTCCGA 0.926696 -326 AACATTTTTATCTCTTTTCCAAGAAGCACATA 21 416 1 TCCTTTCCAA 0.889881 -185 CAGGGAACCCTTGCTTTTCCCCAATCGTAACA 23 388 0 TTCTTTCCCC 0.912281 -213 GCGCTTCTTCTATCTTTTCCGCATAAACTAGG 25 367 1 TACTTTCCGC 0.847886 -39 TTCTTCATCGCGTTTCCCCTAGTTTATGC 25 387 0 TCCTTTCCCC 0.960583 -19 GGGTTTTTCCTTGCTTTTCCGCCGGTTTACGT 26 172 1 TTCTTTCCGC 0.912281 -205 ** * ******* Masking position 6 Map Score: 4.02913 Number of sites scoring better than the average of aligned sites = 80 Number in coding regions = 52 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 30 Fraction of orfs with sites within 600 bp upstream = 0.0048185 Motif number 12 TGCATTTTTTTGCTATCAAGATTTGGTTAAT 6 67 0 TGCTATCAAA 0.777968 -534 GATATCTAGCAGCTTTCAAAAAAGGGAAGGG 6 150 0 AGCTTTCAAA 0.964769 -451 AGTCCCTTTGAGCTATCAAGAATACGTTTAT 7 537 1 AGCTATCAAA 0.956946 -64 AAGTTCGGGCAGCTTTCAACATTAAGTGTTC 8 210 1 AGCTTTCAAA 0.964769 -155 GACAGATGCTAGCTATCAATGCAGTAGGTAA 8 294 0 AGCTATCAAG 0.915715 -71 GGAAATTCGTAGCTATCAACAAAGGTAGTGT 9 101 0 AGCTATCAAA 0.956946 -375 GATCTCTATCAGCTTCCAAAAGGAAGCTTAG 10 263 0 AGCTTCCAAA 0.864829 -236 TAAGTATAAAAGCTTTCAAAGATGCTTATGA 14 356 0 AGCTTTCAAG 0.930485 -242 TACTATAATGAGCTTTCAATACTCAGCTCAT 29 238 0 AGCTTTCAAA 0.964769 -113 ********* * Masking position 4 Map Score: 2.84236 Number of sites scoring better than the average of aligned sites = 151 Number in coding regions = 109 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 13 TTTTTTTAGTCCTTATTGCCTAAACGTCATC 5 221 0 CCTTATTCCT 0.786101 -138 TTAATCTTTTCCATTTTTCTTTCAACAAGTC 7 510 1 CCATTTTCTT 0.903831 -91 CTGACAGTTTCCTTATGCCTTTCCAGTTTAA 9 438 1 CCTTATGCTT 0.786101 -38 AAGGGTGCTGCAATTTGACTTAGCATCTCCC 11 407 0 CAATTTGCTT 0.641795 -194 TGTAATGTTACAATATTACTTTTACTGTATA 13 214 1 CAATATTCTT 0.853704 -387 CCCGGTATATCCATATGCCTTTTCTTGGTGG 14 451 1 CCATATGCTT 0.823963 -147 AACACACCTTCCTTTTTTCTTCTGAAATTTC 15 351 1 CCTTTTTCTT 0.880659 -205 GAAAGGATGTCAATATTTCTTTTTTACGCGG 15 457 1 CAATATTCTT 0.853704 -99 TAAATTCTTTCCATATTACTTACGTCTATTA 15 495 0 CCATATTCTT 0.922897 -61 GCTTACTGCACCTTATTTCCTAAATAACTTT 17 375 0 CCTTATTCCT 0.786101 -206 TCGTTTTTGACAATTTTTCTTATCAGTTGTG 17 486 1 CAATTTTCTT 0.820849 -95 ATTAGGACTTCAATATTGCTTATCGATAAGA 17 522 0 CAATATTCTT 0.853704 -59 ACTATCTCCTCCTTTTTGCTTACCTTGGTCG 18 22 0 CCTTTTTCTT 0.880659 -279 CGCTGCTTGTCCTTTTTTCTTGAAGCTGTAC 19 213 0 CCTTTTTCTT 0.880659 -88 AGAAGCCTCGCAATTTTTCTTTATATTAGGT 32 431 1 CAATTTTCTT 0.820849 -170 TTTTAGCGTTCATTATTTCCTTTAATATGAT 33 415 1 CATTATTCCT 0.641795 -186 ******* *** Masking position 6 Map Score: 5.29103 Number of sites scoring better than the average of aligned sites = 635 Number in coding regions = 413 Number in noncoding regions = 222 Number of orfs with sites within 600 bp upstream = 185 Fraction of orfs with sites within 600 bp upstream = 0.0297141 Motif number 14 ********** No masking Map Score: 3.64959e-11 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 Motif number 15 CAATACTTCTAAAGGGTCCTTAACCAAAAA 1 280 0 AAAGGGTCCT 0.889108 -21 TTGATAGCTCAAAGGGACTTGTTGAAAGAA 7 526 0 AAAGGGACTT 0.833594 -75 TCAGCTTCCAAAAGGAAGCTTAGCCATTAG 10 256 0 AAAGGAAGCT 0.855776 -243 CTGACCCTTTAAAGGGTGCTGCAATTTGAC 11 419 0 AAAGGGTGCT 0.946195 -182 CCTGATACAGAAAGGAAGCTCACTTATAAT 13 83 0 AAAGGAAGCT 0.855776 -518 GTGGCAAAAAAAAGGTACTTCCTGATATAA 14 478 1 AAAGGTACTT 0.758528 -120 TGGGATATAGAAAGGTTCCTTTGCTTGTTA 20 485 1 AAAGGTTCCT 0.834101 -116 TTTCTTGTATAAAGGTAGTTAATTAGGTAA 22 514 1 AAAGGTAGTT 0.873254 -87 TAGAAAGCCCAAAGGGTGTTAAATAGTACA 25 213 1 AAAGGGTGTT 0.927159 -193 CGTGGAAGATAAAGGTTGTTTTAAGCTCAA 30 350 1 AAAGGTTGTT 0.888662 -135 TCCTCAATGAAAAGGGTGTTCTTGGCTTTA 31 35 1 AAAGGGTGTT 0.927159 -276 CCGGCTGGTAAAAGGTTGTTCATTTTTAAG 31 167 0 AAAGGTTGTT 0.888662 -144 AGATGCAGTGAAAGGAAGCTCAACTATCAC 32 212 0 AAAGGAAGCT 0.855776 -389 ********** Masking position 3 Map Score: 4.93338 Number of sites scoring better than the average of aligned sites = 383 Number in coding regions = 289 Number in noncoding regions = 94 Number of orfs with sites within 600 bp upstream = 82 Fraction of orfs with sites within 600 bp upstream = 0.0131706