AlignACE version 2.2 July 7, 1998 AlignACE -jATP.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 YBL099W 564 bp YBL099W ATP1 1-1638 mitochondrial F1F0-ATPase alpha subunit #2 YBR039W 600 bp YBR039W ATP3 1-936 gamma subunit of mitochondrial ATP synthase #3 YDL004W 600 bp YDL004W ATP16 1-483 ATP synthase delta subunit #4 YDR298C 600 bp YDR298C ATP5 1-639 ATP synthase subunit 5\; oligomycin sensitivity-conferring protein #5 YDR377W 307 bp YDR377W ATP17 1-306 ATP synthase subunit f #6 YJL180C 300 bp YJL180C ATP12 1-978 essential for assembly of a functional F1-ATPase #7 YJR121W 300 bp YJR121W ATP2 1-1536 F(1)F(0)-ATPase complex beta subunit, mitochondrial #8 YKL016C 554 bp YKL016C ATP7 1-525 ATP synthase d subunit #9 YLR295C 600 bp YLR295C ATP14 1-375 ATP synthase subunit h #10 YLR393W 600 bp YLR393W ATP10 1-840 essential for assembly of a functional mitochondrial ATPase complex #11 YML081C-A 600 bp YML081C-A ATP18 1-180 protein associated to the ATP synthase #12 YNL315C 300 bp YNL315C ATP11 1-957 essential for assembly of a functional F1-ATPase #13 YPL271W 600 bp YPL271W ATP15 1-189 nuclear gene for ATP synthase epsilon subunit #14 YPL078C 600 bp YPL078C ATP4 1-735 F(1)F(0)-ATPase complex delta subunit, mitochondrial #15 YPR020W 318 bp YPR020W ATP19 1-348 Protein associated with Mitochondrial ATP Synthase Motif number 1 CTAGCATTCTTTTTTTTTTCATTTCTAGGCCTG 1 21 1 TTTTTTTTCT 0.973182 -544 GAGGGTTTTCTTTTCTTTTCTTTCTTGACGTCG 1 414 0 TTTTTTTTCT 0.973182 -151 AACTTCTCGATTATATTTTTTATGAGGGTTTTC 1 437 0 TTATTTTTTT 0.594993 -128 AATAACAAGAGTTTATTCTCCTTAGTATGTATT 2 156 0 GTTTTTCTCT 0.745392 -445 TATCTTCTTACTTTTTTTTTGTTTTATCGACAA 2 262 0 CTTTTTTTTT 0.871841 -339 TTATAGTCTTCTTTCTTTTCTATATTATTTGAA 3 293 0 CTTTTTTTCT 0.963101 -308 GTTGACTGAATTTTGTTTTCAATGAGATAAAAA 4 480 0 TTTTTTTTCT 0.973182 -121 ACCTTAATTTTTTTCTTTTCTCTGAAGAAAATG 6 211 0 TTTTTTTTCT 0.973182 -90 CCTTCAAGTGTTTTGTTCTTATTTAGCCTTTTC 6 248 0 TTTTTTCTTT 0.865044 -53 GGAGGAGCACTTTTGTCTTCGTTTATGAGGGGG 7 183 0 TTTTTCTTCT 0.898612 -118 TCAAATTTGTCTTTCTTTTCTTTCATTTTTTAG 7 221 1 CTTTTTTTCT 0.963101 -80 TTTTTTTTATTTTTGTTTTCTCTCAAAGATTCA 7 276 0 TTTTTTTTCT 0.973182 -25 ACAAGAATTATTTTCTCTTCGATTTGATTGGAT 8 319 1 TTTTTCTTCT 0.898612 -236 AATCACCTAATTATATTTTTGTTCGACT 8 537 1 TTATTTTTTT 0.594993 -18 GTTTCCCGCTTTTTCTTCTCCTTACGTCGTCAG 9 14 0 TTTTTTCTCT 0.960927 -587 TATAGTTTAATTTTATTCTCATTTTCATTTTAC 9 84 0 TTTTTTCTCT 0.960927 -517 TTCCAATGCATTTTTTTTTCATTAGAACGCTGA 9 126 0 TTTTTTTTCT 0.973182 -475 CAACTTCTTCCTTTGTCCTCAATATCAAAGAAA 9 460 1 CTTTTCCTCT 0.812039 -141 AGTGGGTTTTTTTTTTTTTCTTTGATATTGAGG 9 476 0 TTTTTTTTCT 0.973182 -125 GTGGCTTAATCTTTTTTTTTGCTGAAAAACCCG 11 200 0 CTTTTTTTTT 0.871841 -401 TGATTGTTCCTTATATTTTCTCTAGGCCTTTTT 11 495 0 TTATTTTTCT 0.84932 -106 CTTAAATCTCTTTTGTTCTCTATTTTCAAGTCT 12 271 0 TTTTTTCTCT 0.960927 -30 CGGATCAACTCTTTTTTTTTTGTAAGCACTCTG 13 125 0 CTTTTTTTTT 0.871841 -476 GAGTGGGCGGCTTTTTTCTTATTCCTGATTGGC 15 133 1 CTTTTTCTTT 0.821756 -186 **** ***** * Masking position 6 Map Score: 31.9312 Number of sites scoring better than the average of aligned sites = 2206 Number in coding regions = 702 Number in noncoding regions = 1504 Number of orfs with sites within 600 bp upstream = 1073 Fraction of orfs with sites within 600 bp upstream = 0.172342 Motif number 2 ATCACCCGGGCGACCAATCAGCGCGGAGAA 1 55 0 CGACCAATCA 0.973414 -510 CGGCCGGCCCTGGCCAATCAGATCCCTTTA 1 92 1 TGGCCAATCA 0.852328 -473 ACGTGATGGAGAACCAATGAGCGGCGAGTA 2 403 1 GAACCAATGA 0.94529 -198 AATAGATGCCCAGCCAATCAAAGCGCATTA 3 434 1 CAGCCAATCA 0.973414 -167 ATTACGGAGAGAACCAATCATATCGAAGGA 5 76 1 GAACCAATCA 0.980306 -232 CGCCATACACGAACCAATTATGCATCATAA 9 401 1 GAACCAATTA 0.813043 -200 TTCTTTTACCCGACCAACCAACTTCTTCCT 9 442 1 CGACCAACCA 0.920428 -159 GAAAATATAAGGAACAATCAGCTGAGATGT 11 508 1 GGAACAATCA 0.769631 -93 GGTTTAGGCGGAGCCAACCATAATGGATGA 12 137 0 GAGCCAACCA 0.941262 -164 ACTTTTATACGAACCAATGAAATTTGATCC 13 465 1 GAACCAATGA 0.94529 -136 GTCGATTACCCGGCCAATGAGGCTCGCTCG 14 380 0 CGGCCAATGA 0.928318 -221 CATCAATATTGAACCAATCACGACGCTTTT 14 409 1 GAACCAATCA 0.980306 -192 TATTTTCTTTCAGCCAATCAGGAATAAGAA 15 148 0 CAGCCAATCA 0.973414 -171 ********** Masking position 6 Map Score: 9.90583 Number of sites scoring better than the average of aligned sites = 323 Number in coding regions = 256 Number in noncoding regions = 67 Number of orfs with sites within 600 bp upstream = 63 Fraction of orfs with sites within 600 bp upstream = 0.0101189 Motif number 3 TTCTTTTCTTTCTTGACGTCGAGTATATAT 1 405 0 TCTTGACGTC 0.988336 -160 CTCAAAAGCCTCTTGATGCCCAGCTCATAC 2 86 0 TCTTGATGCC 0.98126 -515 TAGTACATTTTCTAGACGTCGAAACGTAGA 2 228 1 TCTAGACGTC 0.938212 -373 ATTTCTTGATGTCATTGGAAACA 3 4 1 TCTTGATGTC 0.981624 -597 TATTTCTTTTTGACGTCCACTCCTTTC 5 291 0 TTTTGACGTC 0.958531 -17 TGGATATTTGTCTTGATGCCCCCAAAAAAG 8 347 1 TCTTGATGCC 0.98126 -208 ATAACGCTTATTTTGACGCCGTAATCGAAG 12 223 1 TTTTGACGCC 0.957728 -78 ATTGGTTCAATATTGATGTCGATTACCCGG 14 397 0 TATTGATGTC 0.892056 -204 ********** Masking position 6 Map Score: 5.91853 Number of sites scoring better than the average of aligned sites = 106 Number in coding regions = 82 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 4 TTTTCGTTTTTAACTGATTTCTCATATATTCCC 1 364 1 TAATGTTCTC 0.916097 -201 TTCCAAGTAGTAACTCATCTTTCTGAGTGTGCT 2 119 1 TAATCTTTTC 0.934509 -482 GGGCCTTCTTTAATCGTTATTGCGGTCCGGGTT 2 444 0 TAACGTTTGC 0.85306 -157 CGGGCCCGGGTAAATGATATTTCAAATATCAGC 4 328 0 TAATGTTTTC 0.976243 -273 TGTTACTTTTTAATTGCTATATCTTTAAACTCA 6 176 1 TAATGTTATC 0.960376 -125 GCGTTCTTTATAAGCGTTGTATCTAAGA 7 6 0 TAACGTTATC 0.952243 -295 TATGTCATTATAAACGATATTTCTCCGCGGCAA 8 196 0 TAACGTTTTC 0.971271 -359 CAGCAAGTGGTAATTGGTGTATCTTTTACTTTT 8 372 0 TAATGTTATC 0.960376 -183 GAATGATGTTTAAATGCTTTTTCGAGGAAAGCG 9 278 0 TAATGTTTTC 0.976251 -323 AAACATCCAATAAATCATGTATCACTCTTAACG 11 410 1 TAATCTTATC 0.893766 -191 GGCGTCAAAATAAGCGTTATTTCCATTCGGGTG 12 210 0 TAACGTTTTC 0.971279 -91 AACCTGCCGATAAATCATATTTCAGAACGCTAA 15 286 1 TAATCTTTTC 0.934501 -33 *** ** * **** Masking position 3 Map Score: 8.42307 Number of sites scoring better than the average of aligned sites = 194 Number in coding regions = 139 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084 Motif number 5 TTTTCATTTCTAGGCCTGTTTCTCCGCGCTG 1 36 1 TAGGCCTTTT 0.980616 -529 TCACGCCTTTTACGCCTTTTTCGAATCTTGT 1 150 1 TACGCCTTTT 0.96306 -415 GTCGAGTATATATGCCTGTTTGGGAATATAT 1 387 0 TATGCCTTTT 0.955731 -178 TTTTAGCTTATAGTCTTCTTTCTTTTCTATA 3 302 0 TAGTCTTTTT 0.743265 -299 CCTAGAAAATAATGCCTTTCTTTATAATCAA 5 205 0 AATGCCTTCT 0.835784 -103 GTAAAAGAACTACGCTTTTTTTATGATGCAT 9 420 0 TACGCTTTTT 0.88227 -181 TGTAGAGTCGAAGGCTTGTTTCTCTCTTACG 10 34 1 AAGGCTTTTT 0.823588 -567 TATGCTGAAATAGTCCTTTTTAAATATGCAC 10 525 0 TAGTCCTTTT 0.90968 -76 ATATTTTCTCTAGGCCTTTTTAAACCCTCGG 11 485 0 TAGGCCTTTT 0.980616 -116 GAATGGAAATAACGCTTATTTTGACGCCGTA 12 215 1 AACGCTTTTT 0.706394 -86 GATATGCCTATCTGAATACAATT 13 3 1 TATGCCTTCT 0.940663 -598 GAGATACAAGTAGGCCTTTCTATTGAGTACT 13 521 1 TAGGCCTTCT 0.973786 -80 TAGAGTAGAATATTCCTATCTTTACCGGACC 14 153 0 TATTCCTTCT 0.759392 -448 ******* *** Masking position 2 Map Score: 6.67152 Number of sites scoring better than the average of aligned sites = 382 Number in coding regions = 255 Number in noncoding regions = 127 Number of orfs with sites within 600 bp upstream = 97 Fraction of orfs with sites within 600 bp upstream = 0.0155798 Motif number 6 TAATAATTACAATAAATACAAGATTCGAAAAAG 1 165 0 AATAATAAGA 0.881542 -400 ACTCGACGTCAAGAAAGAAAAGAAAAGAAAACC 1 411 1 AAGAAGAAGA 0.852123 -154 GATAAAACAAAAAAAAAGTAAGAAGATATATGA 2 267 1 AAAAAAAAGA 0.907999 -334 TCAGTTAAAAAAGACAAATAAGAAACTATTGAG 2 505 1 AAGAAAAAGA 0.968353 -96 AATAATATAGAAAAGAAAGAAGACTATAAGCTA 3 297 1 AAAAAAAAGA 0.907999 -304 TGCAGCAGTTAAGAAATCTAAGAATGCATTGTA 4 24 1 AAGAATAAGA 0.949309 -577 CAAGGAATTAAAGATAATGAAGTGATCTTTTGG 4 372 1 AAGAAAAAGT 0.908328 -229 CAGATAGCACAAGAAATGACAGTGAGCTTAAGA 6 46 0 AAGAATCAGT 0.585976 -255 TTTGTTCTGTAATACAAAAAAGAGGTTAATGCA 7 45 0 AATAAAAAGA 0.924008 -256 TAAAAAATGAAAGAAAAGAAAGACAAATTTGAC 7 220 0 AAGAAAAAGA 0.968353 -81 AGAAAACAAAAATAAAAAAAAGA 7 288 1 AATAAAAAGA 0.924008 -13 GCTCGATTTCAATAAAAACAAGTGTGTATGCAC 9 210 0 AATAAAAAGT 0.797464 -391 CGCCTTCAGAAAAATATGGAAGAGTGCATATTT 10 502 1 AAAAATAAGA 0.857962 -99 TAGAGAACAAAAGAGATTTAAGAATAACT 12 282 1 AAGAATAAGA 0.949309 -19 TCTCTCGAAGAAAAAAACTAAGAAAGCTATAGC 13 302 1 AAAAAAAAGA 0.907999 -299 TAGTTAAATGAAGAGATACAAGTAGGCCTTTCT 13 509 1 AAGAATAAGT 0.858442 -92 ATAAAAGATAAATATAATTCAGAATGGCTGTGG 14 318 1 AATAAACAGA 0.739436 -283 **** ** **** Masking position 6 Map Score: 12.3624 Number of sites scoring better than the average of aligned sites = 2295 Number in coding regions = 1183 Number in noncoding regions = 1112 Number of orfs with sites within 600 bp upstream = 806 Fraction of orfs with sites within 600 bp upstream = 0.129457 Motif number 7 AGCGCACCGGGCCCATTTTTAAAGGGATCTG 1 110 0 GCCATTTTTA 0.917807 -455 CTCCCTTCCGGGCCTTCTTTAATCGTTATTG 2 455 0 GCCTTCTTTA 0.966829 -146 TTTCTTATTTGTCTTTTTTAACTGAGTGATA 2 499 0 GCTTTTTTAA 0.903848 -102 CGCATACGTTGACCATTTTAAAAACTATTAT 3 124 0 GCCATTTTAA 0.900632 -477 AGAAAATAATGCCTTTCTTTATAATCAAAAT 5 202 0 GCTTTCTTTA 0.905237 -106 ATTTTAACTTGCCCTTTTTTAAACTTTCTTT 7 79 1 GCCTTTTTTA 0.972479 -222 TGCTGAAATAGTCCTTTTTAAATATGCACTC 10 523 0 GCCTTTTTAA 0.966309 -78 ATTTTCTCTAGGCCTTTTTAAACCCTCGGAG 11 483 0 GCCTTTTTAA 0.966309 -118 ACGTAAATCAGACTTTCTTTAGCCGGATCAA 13 150 0 GCTTTCTTTA 0.905237 -451 * ********* Masking position 6 Map Score: 3.60988 Number of sites scoring better than the average of aligned sites = 196 Number in coding regions = 146 Number in noncoding regions = 50 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 8 ACTTTCTGAATAAGAGCCCTTCCCTTCATACAAGTAGA 1 244 1 TAAACTTCTA 0.966213 -321 ATCACGTGATAAACATTTCTTCCAAATAAATGAGAACG 2 372 0 AAAACTTCAA 0.766065 -229 GGCCTTGCAATAAAAATACTTATACACAACTTCAAATA 3 263 1 TAAACTTTCA 0.807372 -338 CTGGGAGCCGTAAAATCTCTTTCCCGTAAGATCTGGCT 4 86 1 TAAACTTCCA 0.970698 -515 TAGTAACTTATAAAACTACTTACGTCCAATAAATCGTT 4 230 1 TAAACTTCTA 0.966213 -371 GTACTAGTAGAAATATGTTTTACACCTACGCTAAGCAG 8 402 0 AAAATTTCCA 0.808218 -153 TTAGGATTTAAAAGAAATTTTTCGTGCACTTAATTGCA 8 498 1 AAAATTTCTA 0.784389 -57 GAGCTTATTGTAAGAGAACTTGCGCTTATCTTCAAATG 9 239 1 TAAACTTCCA 0.970373 -362 GTATATAAGTTAACACCCCTTCCTTATAACATCTGAGC 9 509 0 TAAACTTCTA 0.966213 -92 GAGAACTATTAAATATTTCTTACTTCGAAGTTTTATGT 10 344 0 AAAACTTCTA 0.948115 -257 ACCCGAATGGAAATAACGCTTATTTTGACGCCGTAATC 12 211 1 AAAACTTTTA 0.698068 -90 CTATACAGCATAACAGGTCTTCCACGCATGAGAAACTG 14 216 1 TAAACTTCCA 0.970698 -385 TTAGTGCGTTTAACAATATTTTCTTTCAGCCAATCAGG 15 156 0 TAAATTTCTA 0.850597 -163 *** * *** * * * Masking position 5 Map Score: 3.83133 Number of sites scoring better than the average of aligned sites = 416 Number in coding regions = 286 Number in noncoding regions = 130 Number of orfs with sites within 600 bp upstream = 103 Fraction of orfs with sites within 600 bp upstream = 0.0165435 Motif number 9 CACATCAGACTTCAATTTTTCAATTCACTT 1 218 1 TTCAATTTTT 0.788297 -347 AATTTTTCAATTCACTTTCTGAATAAGAGC 1 231 1 TTCACTTTCT 0.860347 -334 ACTGTTTTAGTACATTTTCTAGACGTCGAA 2 221 1 TACATTTTCT 0.877225 -380 TGAGGTTGTCTACATTTTTAGCTTATAGTC 3 318 0 TACATTTTTA 0.818326 -283 TCTCTTAAAGTTCATTTTTTTGCCGGAATA 4 191 1 TTCATTTTTT 0.930533 -410 TTTAAACTCATTCATTTTCTTCAGAGAAAA 6 199 1 TTCATTTTCT 0.907716 -102 TTTCTTTTCTTTCATTTTTTAGTCTGTTGT 7 232 1 TTCATTTTTT 0.930533 -69 GGTGGATGTTTTCATTTTTACTCCAATATT 8 156 1 TTCATTTTTA 0.861135 -399 ATTTTCATTTTACAATTTTAAGAGCCGCCG 9 67 0 TACAATTTTA 0.555753 -534 TTCCTTCCAATGCATTTTTTTTTCATTAGA 9 133 0 TGCATTTTTT 0.780599 -468 GCCGAAATACTTCATTTTCTGGGCATTGAC 9 165 1 TTCATTTTCT 0.907716 -436 GCCTTGCCTTTACACTTTTTAAATTCTTGA 10 303 0 TACACTTTTT 0.859043 -298 TGGGAATTCTTACACTTTTAATGTAGAATC 14 26 0 TACACTTTTA 0.738304 -575 ********** Masking position 4 Map Score: 3.17705 Number of sites scoring better than the average of aligned sites = 1474 Number in coding regions = 716 Number in noncoding regions = 758 Number of orfs with sites within 600 bp upstream = 572 Fraction of orfs with sites within 600 bp upstream = 0.0918728 Motif number 10 CGACCAATCAGCGCGGAGAAACAGGCCTAGA 1 44 0 GCGCGGGAAA 0.920453 -521 GTGTGAAATGCCTAGGAGATTGATGATTGAC 3 225 1 CCTAGGGATT 0.912163 -376 CAGGCGGTGACCGAGGTGAATAATATACAAA 3 386 0 CCGAGGGAAT 0.942294 -215 CGCGCGTGGTCCTCGGGGAAATAGAACGAGA 5 126 1 CCTCGGGAAA 0.989749 -182 CACCTCATTGCCGCGGAGAAATATCGTTTAT 8 189 1 CCGCGGGAAA 0.987599 -366 TCACCTAGGGCCTTGGTGAAAATTCTCAGCA 10 127 0 CCTTGGGAAA 0.93725 -474 TCACCAAGGCCCTAGGTGATATTAGATTCCA 10 139 1 CCTAGGGATA 0.951916 -462 CTTTTTAAACCCTCGGAGATTTATCCGTGTA 11 470 0 CCTCGGGATT 0.963725 -131 TAGTCGATAACCTCGGAGTAAGCAAAGCAAC 13 212 1 CCTCGGGTAA 0.938348 -389 ****** **** Masking position 2 Map Score: 3.60381 Number of sites scoring better than the average of aligned sites = 139 Number in coding regions = 106 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 11 TTAAAGCTTTCTAAGCAGCAATTAGTAAGTA 8 90 0 CTAAGCAGCA 0.989477 -465 TACACCTACGCTAAGCAGCAAGTGGTAATTG 8 389 0 CTAAGCAGCA 0.989477 -166 CGCCACATCACTATGCAGCTATATAAAAACT 10 381 1 CTATGCAGCA 0.951271 -220 CTTCTGTTCTATCAGCAGCGAATATTTCAGC 11 24 0 ATCAGCAGCA 0.891391 -577 TAAAAGTATTCAAAGCAGCCACAACCAAAGT 11 305 1 CAAAGCAGCA 0.986341 -296 TATTGGCAGACACAGCAGCGACAAGTCAGAG 13 99 1 CACAGCAGCA 0.979836 -502 TCGGAGTAAGCAAAGCAACAATATATTTGTT 13 224 1 CAAAGCAACA 0.903539 -377 ********* * Masking position 7 Map Score: 2.75813 Number of sites scoring better than the average of aligned sites = 186 Number in coding regions = 156 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 12 AAAGTTCTCCGGCGTTTTTTTATGTATGAG 2 63 1 GGCGTTTTTT 0.944363 -538 ATTGTGTCCTGGCGTTTCTTAAGCTCACTG 6 30 1 GGCGTTTCTT 0.974518 -271 TCTAGGCCTCGGCGGCTCTTAAAATTGTAA 9 58 1 GGCGGCTCTT 0.989364 -543 TACAAGATCAGGCGTCTCTTTACTAATACC 10 244 0 GGCGTCTCTT 0.988528 -357 CGATTGAGTGGGCGGCTTTTTTCTTATTCC 15 128 1 GGCGGCTTTT 0.976351 -191 ********** Masking position 7 Map Score: 1.13473 Number of sites scoring better than the average of aligned sites = 26 Number in coding regions = 20 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 13 ********** No masking Map Score: 3.32777e-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 Motif number 14 ATTAGGATATTACCCGCTTGTAACGAGAAA 3 41 0 TACCCGCTTG 0.855145 -560 TCCTAGGCATTTCACACTTGTCTTTCGTGT 3 212 0 TTCACACTTG 0.828443 -389 AATACATACTTACAAACATGTCACAGATAG 6 72 0 TACAAACATG 0.921481 -229 CTCTTGTGCATACACACTTGTTTTTATTGA 9 205 1 TACACACTTG 0.968387 -396 AAGCAGTCTGGACAAGCTTGATAGACTAAT 9 317 0 GACAAGCTTG 0.877408 -284 CACCAGTCCATACAAACTTGAACCGTCTGC 9 563 1 TACAAACTTG 0.973779 -38 TATTCTACTCTACAAGCATGAATATTTTTT 14 172 1 TACAAGCATG 0.906368 -429 CCTAGCACAGTATAAACTTGTCAACATAAA 14 517 0 TATAAACTTG 0.784519 -84 ATGTAAAAAATACAAACTTGCTATAATTAA 15 58 0 TACAAACTTG 0.973779 -261 ********** Masking position 9 Map Score: 0.892427 Number of sites scoring better than the average of aligned sites = 141 Number in coding regions = 104 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 30 Fraction of orfs with sites within 600 bp upstream = 0.0048185 Motif number 15 ACGCCTTTTACGCCTTTTTCGAATCTTGTA 1 152 1 CGCCTTTTTC 0.974838 -413 GTTCTTATTTAGCCTTTTCCTTTACCTTAA 6 237 0 AGCCTTTTCC 0.845274 -64 AATCCGTTTCCCGCTTTTTCTTCTCCTTAC 9 22 0 CCGCTTTTTC 0.978262 -579 TGAAGTATTTCGGCTTTTCCTTCCAATGCA 9 149 0 CGGCTTTTCC 0.962287 -452 TGATGTTTAAATGCTTTTTCGAGGAAAGCG 9 278 0 ATGCTTTTTC 0.760092 -323 TAAAAGAACTACGCTTTTTTTATGATGCAT 9 420 0 ACGCTTTTTT 0.718086 -181 GGAAGGTGCACGCCCTTTTCACAAGAGGTG 10 65 0 CGCCCTTTTC 0.879461 -536 TAATAATCTACGGGTTTTTCAGCAAAAAAA 11 190 1 CGGGTTTTTC 0.885896 -411 ATTTGATCCTCCCCTTTTTCGTCTAGTTAA 13 486 1 CCCCTTTTTC 0.963269 -115 ACCAATCACGACGCTTTTTCTCTTCACCGC 14 421 1 ACGCTTTTTC 0.942967 -180 ATTGAGTGGGCGGCTTTTTTCTTATTCCTG 15 130 1 CGGCTTTTTT 0.91105 -189 ********** Masking position 6 Map Score: 2.56253 Number of sites scoring better than the average of aligned sites = 1021 Number in coding regions = 744 Number in noncoding regions = 277 Number of orfs with sites within 600 bp upstream = 240 Fraction of orfs with sites within 600 bp upstream = 0.038548