AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00251_mjan_reg_100.orf -o00251_mjan_100.ace -a/home/amcguire/genomes/ORF_mjan.txt -z/home/amcguire/genomes/mjan.fna -g0.31 -x5 -e Parameter values: expect = 5 ncols = 10 npass = 1000 maxnpass = 100 nruns = 1000 maxnruns = 100 repeat = 15 maxreps = 3 nread = 500 ncycles = 1 fragment = 1 psfact = 0.1 gcback = 0.31 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 MJ0002 300 M. jannaschii predicted coding region MJ0002 #2 MJ0050 109 group II decarboxylase #3 MJ0203 120 phosphoribosylformylglycinamidine cyclo-ligase (purM) #4 MJ0204 99 amidophosphoribosyltransferase (purF) #5 MJ0684 68 aspartate aminotransferase (aspB2) #6 MJ1019 132 carbamoyl-phosphate synthase, small (or glutamine) subunit (carA) #7 MJ1132 188 conserved hypothetical protein #8 MJ1345 300 O-linked GlnNAc transferase #9 MJ1346 87 glutamine synthetase (glnA) #10 MJ1351 300 glutamate synthase (gltB) #11 MJ1352 300 NH(3)-dependent NAD+ synthetase (nadE) #12 MJ1377_MJ1378 184 MJ1377: glutamyl-tRNA synthetase (gltX), MJ1378: carbamoyl-phosphate synthase, medium subunit (carB1) #13 MJ1381 124 carbamoyl-phosphate synthase, large subunit (carB2) #14 MJ1420 100 glucosamine--fructose-6-phosphate aminotransferase (isomerizing) (glmS) #15 MJ1479 259 putative aminotransferase #16 MJ1575 300 GMP synthase (guaA) Motif number 1 TGATTGGATATATTATATTTAGTGCTACTG 1 64 0 TATTATATTT 0.913799 -237 TTATATAATTTTTTATAATTGGTATTTTGA 1 203 0 TTTTATAATT 0.945872 -98 ATGTAATTTTTTATATAATTTTTTATAATT 1 213 0 TTATATAATT 0.874667 -88 TTAGAATTTCTAATAATTTTGGAGATATTA 1 268 1 TAATAATTTT 0.524629 -33 TAGTATATTGTATTATATTTATACCTAAGA 2 33 1 TATTATATTT 0.913799 -77 CATTAAATACTTATAAATTTAATCATGATG 2 66 1 TTATAAATTT 0.810361 -44 TAAATTATCTTTTTAATTTTACTAATTCTT 4 14 1 TTTTAATTTT 0.777659 -86 ACATTATGCATTTTATAATTTATGGTTGTT 6 37 0 TTTTATAATT 0.945872 -96 CCACCAAAGTTTTTATAGTTTTTTGCAAAG 7 15 1 TTTTATAGTT 0.824359 -174 TTTTGCAAAGTAATAAAATTTATTAAGGAA 7 35 1 TAATAAAATT 0.813419 -154 ATAAGATTAATATTAAAATTGGCTAAGAAA 7 142 0 TATTAAAATT 0.916091 -47 ATTTATGGACTTTTATAATTAAATTTTTAT 8 49 1 TTTTATAATT 0.945872 -252 ATAATTAAATTTTTATATTTATAATTATAT 8 63 1 TTTTATATTT 0.931227 -238 TTATACGCTATAATATAATTATAAATATAA 8 75 0 TAATATAATT 0.845191 -226 TGATATTATTTATTAAAATTATTTTAGTGT 8 218 0 TATTAAAATT 0.916091 -83 ATTTTTATATTTTAATTTAAAT 9 3 1 TTTTATATTT 0.931227 -85 TTCCTCATGTTTTTATTTTTAATCTTTTAA 10 273 0 TTTTATTTTT 0.815679 -28 TTTACAATATTTATATATTTAACTATTATT 12 32 1 TTATATATTT 0.843905 -153 TATATTTAACTATTATTATTCAGATTATCT 12 45 1 TATTATTATT 0.818666 -140 GAGGATGAGCTTTTAAAATTGCATAACTAT 12 82 1 TTTTAAAATT 0.932514 -103 CAGTTAAGGTTTTTAAAGTTAATGGTAGGT 12 152 1 TTTTAAAGTT 0.787663 -33 TATATAATATATTTAAAAGAGAAT 14 5 1 TAATATATTT 0.809842 -96 TTAAAATTAGTATTAATATTATTGTTTATG 14 38 1 TATTAATATT 0.781119 -63 AGACACTATATTTTAAAATTTCTTTTATTA 16 42 0 TTTTAAAATT 0.932514 -259 AAATATCCATTATTAATATTAATTTTAACA 16 80 0 TATTAATATT 0.781119 -221 ********** Masking position 4 Map Score: 31.8217 Number of sites scoring better than the average of aligned sites = 977 Number in coding regions = 643 Number in noncoding regions = 334 Number of orfs with sites within 600 bp upstream = 315 Fraction of orfs with sites within 600 bp upstream = 0.0505943 Motif number 2 TATTGGATTTTTAATATCTCCAAAATTATTAGAAA 1 274 0 TATTCCAAAA 0.636919 -27 AAATAAATTATCTTTTTAATTTTACTAAT 4 5 1 AATTCTTTAA 0.58417 -95 TATAAAATGCATAATGTCCTCTAAAAGCAGTAGAT 6 50 1 AATTCTTAAA 0.948883 -83 CAAAGTTTTTATAGTTTTTTGCAAAGTAATAAAAT 7 19 1 AATTTTCAAA 0.762134 -170 AGAAATATATATAGTTTTTTGCAAAACATTTTAGG 7 112 0 AATTTTCAAA 0.762134 -77 TTTATTAAAATTATTTTAGTGTAAAATATAAATTT 8 205 0 TATTATTAAA 0.740604 -96 ATTTTTATATTTTAATTTAAATTGAATATAC 9 7 1 AATTATTAAA 0.740604 -81 TAATTTAAATTGAATATACCGTAAATTATATATAT 9 23 1 TATTACTAAA 0.492544 -65 ACGTCTTCTTTAACTATCTTCCAAAGAAGGATATA 13 34 0 TATTCTCAAA 0.967585 -91 TTTTTTATTTTCAATATCTTTTAAAACTATCTCAA 13 89 0 TATTCTTAAA 0.948883 -36 TAATTTTAAATAATTCTCTTTTAAATATATTATAT 14 12 0 TATTCTTAAA 0.948883 -89 CGATAAACCTAAATATCTCCTAAAGTAATAAATA 14 77 0 TATTCCTAAA 0.863213 -24 AAATTACACAAAAGTGTCATACAAAATAGAGTTCC 15 219 1 AATTCTCAAA 0.967585 -41 TCTTTTATTATGATTATCCTCCAAATTTATTGAAG 16 17 0 TATTCTCAAA 0.967585 -284 ATTTTAAAATATAGTGTCTTTCAAAGTTGTTAAAA 16 53 1 AATTCTCAAA 0.967585 -248 CCTTTTAGTAAAAGGTTCATCAAAAATCTAACACC 16 227 0 AAGTCTAAAA 0.530619 -74 CCTTTTACTAAAAGGTTCTTTCAAAATGTTTTTGA 16 247 1 AAGTCTCAAA 0.867363 -54 TTATATTTTATTAGTATCTTTCAAAAACATTTTGA 16 267 0 TATTCTCAAA 0.967585 -34 * * * ** * **** Masking position 7 Map Score: 16.7492 Number of sites scoring better than the average of aligned sites = 440 Number in coding regions = 345 Number in noncoding regions = 95 Number of orfs with sites within 600 bp upstream = 97 Fraction of orfs with sites within 600 bp upstream = 0.0155798 Motif number 3 TATTTATACCTAAGAACGCATTAAATACTTATAAATTTA 2 48 1 TAAATAAAAT 0.857639 -62 TCATGATGTTTATCAACTAAAAAAATTAAAGG 2 88 1 TAAAAAAATA 0.843955 -22 TTTAGACTTTTAGCAAATAAATAAAAAGAAAGAAGAAAA 4 49 0 TAAAAAAAAA 0.888639 -51 GCTAAAAGTCTAAAAAACTAAAAAAGGGTTTTTAAT 4 74 1 TAAAAAAAGT 0.917912 -26 TTATGGTTGTTAATAATTGATGAAATGGTGAATAGAC 6 9 0 TAAATAAAGT 0.771058 -124 TTATAGTTTTTTGCAAAGTAATAAAATTTATTAAGGAAA 7 27 1 TAAAAAAATT 0.931303 -162 TCACTTTAAATATTAAGCAAAGAATAAGATTAATATTAA 7 156 0 TAAAAAATAA 0.760967 -33 GGAAATGCAAAATAAACAAATATTGGGATAAACA 8 6 1 TAAAAAAAAT 0.952386 -295 ATAATATAATTATAAATATAAAAATTTAATTATAAAAGT 8 57 0 TAAAAAATTA 0.683301 -244 GGAAATAATATGGAAATAAAAGAAAATATCCAGTATTCA 8 157 1 TAAAAAAATT 0.931303 -144 TAGCAAGACCTTGGAAATAAACAAAGATTAAAAGATTAA 10 246 1 TAAAAAAAAT 0.952386 -55 ATCCAGATGATGCCAAATCATTAAAAATTGAGAATGGTG 11 36 1 TAAATAAAAT 0.857639 -265 GAGAGATAACTGCCAAAGCAAGAATAACTGAAGACATTA 11 102 1 TAAAAAATAT 0.888639 -199 TTAAAAGATATTGAAAATAAAAAATAGGTGATTAT 13 100 1 TAAAAAATGT 0.816886 -25 CCTAAATATCTCCTAAAGTAATAAATAGTTAAAACCCAT 14 65 0 TAAAAAAAAT 0.952386 -36 TAACTGCAATTTTTAAGGTAAGAATATAAAAGTCTTTGG 15 49 1 TAAAAAATTA 0.683312 -211 TATATAACACTTCAAACATATAAAAAAATAGAACTCTAT 15 143 1 TAAATAAAAT 0.857639 -117 TGGAGGATAATCATAATAAAAGAAATTTTAAAATATAGT 16 29 1 TAAAAAAATT 0.931303 -272 * ** ** *** * * Masking position 1 Map Score: 18.8148 Number of sites scoring better than the average of aligned sites = 602 Number in coding regions = 421 Number in noncoding regions = 181 Number of orfs with sites within 600 bp upstream = 168 Fraction of orfs with sites within 600 bp upstream = 0.0269836 Motif number 4 CTGGGATTGGTGAAAACCATTATCAACAAACCA 1 11 1 TAACCATTAT 0.664855 -290 ACTAAATATAATATATCCAATCAATGCGTCAAC 1 71 1 AATCCAATCA 0.678437 -230 AAACAATCCAAATAAACCTTTAATTAACTAAAC 1 104 1 ATACCTTTAA 0.481892 -197 ATAGAGCATCAAAATACCAATTATAAAAAATTA 1 195 1 AAACCAATTA 0.91443 -106 AAAAAATTACATAAGTCCTATTATAAAATACTA 1 231 1 AATCCTATTA 0.758952 -70 CTATTATAAAATACTACCAATTAGAATTTCTAA 1 248 1 AAACCAATTA 0.914436 -53 AAAATTTTTTAAACATCCAATTTGCATTATGGA 3 48 0 AATCCAATTT 0.79053 -73 TTAATTAATAATAATTCCTTTTAGTGTTTATAA 5 35 1 AATCCTTTTA 0.875387 -34 GACATCACCATTTATAAACACTAA 5 55 0 AAACCATTTA 0.95975 -14 ATATTTCACCAAAATACCTATAAACTATCACAT 6 110 0 AAACCTATAA 0.718927 -23 AAGGCGTTCATAAATACCTTTTTATCCTAAAAT 7 87 1 TAACCTTTTT 0.709445 -102 TGCTATTGCGAAAGGACCATTTAGCAT 10 5 0 AAACCATTTA 0.95975 -296 GTCTTTCTCAATATCTCCATTCATAAAGATTAA 10 56 0 AATCCATTCA 0.824789 -245 TAGAATTAAGTTAAGACCATTAATTGCAGCTGA 10 112 1 TAACCATTAA 0.75304 -189 ATTAATGAACCATTTATTGAAATAAA 11 4 1 ATACCATTTA 0.795338 -297 CACCTTAACTAAATCACCATTCTCAATTTTTAA 11 56 0 AAACCATTCT 0.849452 -245 TGGCATAAATACAACTCCTTTTTTAATGTCTTC 11 131 0 AATCCTTTTT 0.820481 -170 ATTATCACCATTTACCTACCATTA 12 171 0 TAACCATTTA 0.87366 -14 ATAATCACCTATTTTTTATTTTCA 13 111 0 TAACCTATTT 0.522551 -14 ACTTTTGTGTAATTTACCATTATCCCAGTAGTA 15 201 0 ATACCATTAT 0.527152 -59 CATACAAAATAGAGTTCCATTTTGAGATGAAAA 15 236 1 AATCCATTTT 0.893847 -24 GAGAGCGTTCAAATATCCATTATTAATATTAAT 16 87 0 AATCCATTAT 0.787816 -214 AAACATTTTGAAAGAACCTTTTAGTAAAAGGTT 16 245 0 AAACCTTTTA 0.928277 -56 * * ******** Masking position 11 Map Score: 19.8122 Number of sites scoring better than the average of aligned sites = 559 Number in coding regions = 498 Number in noncoding regions = 61 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 5 CAATTATAAAAAATTATATAAAAAATTACATA 1 212 1 AAATATAAAA 0.850912 -89 ATTATATAAAAAATTACATAAGTCCTATTATA 1 224 1 AAATACAAAG 0.874615 -77 TGATGTTTATCAACTAAAAAAATTAAAGG 2 91 1 CAATAAAAAA 0.825708 -19 TGGAATATTTAAACTACAGAAAGTCTTATACT 3 20 0 AAATACAAAA 0.921801 -101 AAGAATTAGTAAAATTAAAAAGATAATTTATT 4 12 0 AAATTAAAAG 0.73377 -88 AAGAAAGAAGAAAATTAAGAAGAATTAGTAAA 4 31 0 AAATTAAAAG 0.73377 -69 AGACTTTTAGCAAATAAATAAAAAGAAAGAAG 4 53 0 CAATAAAAAA 0.825708 -47 AAAGTCTAAAAAACTAAAAAAGGGTTTTTAAT 4 78 1 AAATAAAAAG 0.931417 -22 ACTTTGCAAAAAACTATAAAAACTTTGGTGGT 7 14 0 AAATATAAAA 0.850912 -175 AGTTTTTTGCAAAGTAATAAAATTTATTAAGG 7 31 1 AAATAATAAA 0.608913 -158 GGAAATGCAAAATAAACAAATATTGGGATA 8 9 1 AAATAAAAAA 0.958247 -292 TTTAATTATAAAAGTCCATAAATTACTTGTTT 8 40 0 AAATCCAAAA 0.583898 -261 TAGTTTATTTAAAGTTAATAAGATTGGGGTAT 8 121 0 AAATTAAAAG 0.73377 -180 AATAATATGGAAATAAAAGAAAATATCCAGTA 8 160 1 AAAAAAAAAA 0.608913 -141 AATTTAAATTAAAATATAAAAAT 9 2 0 AAATATAAAA 0.850912 -86 CAAGACCTTGGAAATAAACAAAGATTAAAAGA 10 249 1 GAATAAAAAA 0.720221 -52 TAAAAGATTAAAAATAAAAACATGAGGAAGTG 10 274 1 AAATAAAACA 0.697668 -27 AGACGTTCCTAAAATAAAGAAAGAAGTTGAGA 13 63 1 AAATAAAAAA 0.958247 -62 AAAGATATTGAAAATAAAAAATAGGTGATTAT 13 103 1 AAATAAAAAT 0.677523 -22 GGATAATGGTAAATTACACAAAAGTGTCATAC 15 209 1 AAATACAAAA 0.921801 -51 *** **** *** Masking position 3 Map Score: 19.7614 Number of sites scoring better than the average of aligned sites = 608 Number in coding regions = 412 Number in noncoding regions = 196 Number of orfs with sites within 600 bp upstream = 183 Fraction of orfs with sites within 600 bp upstream = 0.0293929 Motif number 6 TTGATAATGGTTTTCACCAATCCCAG 1 7 0 TTTTCACCAA 0.844765 -294 AAACGCTAAATATTCTCCATAATCAGTTCT 1 133 1 TATTCTCCAT 0.656875 -168 TGGATTTTTAATATCTCCAAAATTATTAGA 1 276 0 ATATCTCCAA 0.877551 -25 GACATCACCATTTATAAACAC 5 58 0 ACATCACCAT 0.840638 -11 GTCTATTCACCATTTCATCAATT 6 4 1 TATTCACCAT 0.82077 -129 ATATTTCACCAAAATACCTATA 6 121 0 ATTTCACCAA 0.877551 -12 GATACCACCAAAGTTTTTATA 7 2 1 ATACCACCAA 0.71435 -187 GTCTTTCTCAATATCTCCATTCATAAAGAT 10 59 0 ATATCTCCAT 0.904198 -242 CACCTTAACTAAATCACCATTCTCAATTTT 11 59 0 AAATCACCAT 0.935177 -242 CCTCTCCTTGAAATCACCTTAACTAAATCA 11 73 0 AAATCACCTT 0.857771 -228 ATTATCACCATTTACCTACCA 12 174 0 TTATCACCAT 0.944884 -11 ATAATCACCTATTTTTTATTT 13 114 0 TAATCACCTA 0.77665 -11 ATAAACCTAAATATCTCCTAAAGTAATAAA 14 79 0 ATATCTCCTA 0.749747 -22 TTTATCACCTTATATTTTATT 16 290 0 TTATCACCTT 0.877551 -11 ********** Masking position 5 Map Score: 10.4913 Number of sites scoring better than the average of aligned sites = 438 Number in coding regions = 329 Number in noncoding regions = 109 Number of orfs with sites within 600 bp upstream = 130 Fraction of orfs with sites within 600 bp upstream = 0.0208802 Motif number 7 TATCAACTAAAAAAATTAAAGG 2 98 1 AAAAATTAAA 0.508912 -12 AAAGATAATAGTATAAGACT 3 1 1 AAAGATAATA 0.770011 -120 AAATAAATAAAAAGAAAGAAGAAAATTAAG 4 44 0 AAAGAAAGAA 0.922896 -56 ATATAATTATAAATATAAAAATTTAATTAT 8 63 0 AAATATAAAA 0.712556 -238 TATGGAAATAAAAGAAAATATCCAGTATTC 8 165 1 AAAGAAAATA 0.583266 -136 TCCAGTATTCACAGATAGAAAAATTTATAT 8 185 1 ACAGATAGAA 0.892599 -116 ATTTAAATTAAAATATAAAAAT 9 3 0 AAATATAAAA 0.712556 -85 CTCCATTCATAAAGATTAAACCTTGAGGAG 10 45 0 AAAGATTAAA 0.881776 -256 GTTTGGTTTAACAGATAGAATTAAGTTAAG 10 97 1 ACAGATAGAA 0.892599 -204 ACAAAGATTAAAAGATTAAAAATAAAAACA 10 266 1 AAAGATTAAA 0.881776 -35 GATAACTGCCAAAGCAAGAATAACTGAAGA 11 106 1 AAAGCAAGAA 0.635837 -195 TGTGTGCTGTAAAGATTGAACGAATTTAAT 11 243 1 AAAGATTGAA 0.922896 -58 TTCCTAAAATAAAGAAAGAAGTTGAGATAG 13 68 1 AAAGAAAGAA 0.922896 -57 AAACATATAAAAAAATAGAACTCTATTTTA 15 156 1 AAAAATAGAA 0.799123 -104 ********** Masking position 3 Map Score: 7.24764 Number of sites scoring better than the average of aligned sites = 848 Number in coding regions = 759 Number in noncoding regions = 89 Number of orfs with sites within 600 bp upstream = 73 Fraction of orfs with sites within 600 bp upstream = 0.011725 Motif number 8 TTAGTTAATTAAAGGTTTATTTGGATTGTTT 1 104 0 AAAGTTTATT 0.673507 -197 ACAATATACTAAACATTTATTTGAGGTTTAA 2 13 0 AAAATTTATT 0.710404 -97 GATGTTTAAAAAATTTTTATTCCTACAAAAA 3 64 1 AAATTTTATT 0.928734 -57 GCCACCACGAAAAGTATTATTAATTAATAAT 5 16 1 AAATATTATT 0.950693 -53 ACACTAAAAGGAATTATTATTAATTAATAAT 5 31 0 GAATATTATT 0.752696 -38 CTTTCCTTAATAAATTTTATTACTTTGCAAA 7 36 0 TAATTTTATT 0.710467 -153 AATGCAAAATAAACAAATATTGGGATAAACA 8 14 1 AAAAAATATT 0.601881 -287 TATAAATATAAAAATTTAATTATAAAAGTCC 8 55 0 AAATTTAATT 0.543383 -246 ACAGATAGAAAAATTTATATTTTACACTAAA 8 195 1 AAATTATATT 0.844229 -106 ATTTTACACTAAAATAATTTTAATAAATAAT 8 213 1 AAATAATTTT 0.34542 -88 GAATTTCGTTAAATTATTATTACTATGATAT 8 242 0 AAATATTATT 0.950567 -59 TAAATATTGTAAAATATTATTGTGGTGGATA 12 14 0 AAATATTATT 0.948931 -171 TTTATATATTTAACTATTATTATTCAGATTA 12 41 1 TAATATTATT 0.783605 -144 GAATTATTTAAAATTAGTATTAATATTATTG 14 31 1 AAATAGTATT 0.784189 -70 AAAGTTGTTAAAATTAATATTAATAATGGAT 16 75 1 AAATAATATT 0.888887 -226 *** ******* Masking position 3 Map Score: 8.22161 Number of sites scoring better than the average of aligned sites = 442 Number in coding regions = 277 Number in noncoding regions = 165 Number of orfs with sites within 600 bp upstream = 165 Fraction of orfs with sites within 600 bp upstream = 0.0265018 Motif number 9 GAACGCTGAAATATTTCCAGTAGCACTAAA 1 47 1 ATATTTCCAG 0.813078 -254 ACTAAATATAATATATCCAATCAATGCGTC 1 71 1 ATATATCCAA 0.910672 -230 TGCGTCAACAAACAATCCAAATAAACCTTT 1 95 1 AACAATCCAA 0.68882 -206 ATAGAGCATCAAAATACCAATTATAAAAAA 1 195 1 AAAATACCAA 0.700322 -106 CTATTATAAAATACTACCAATTAGAATTTC 1 248 1 ATACTACCAA 0.53321 -53 TGGATTTTTAATATCTCCAAAATTATTAGA 1 276 0 ATATCTCCAA 0.704311 -25 TGGAGATATTAAAAATCCAATAGC 1 287 1 AAAAATCCAA 0.933486 -14 AAAATTTTTTAAACATCCAATTTGCATTAT 3 51 0 AAACATCCAA 0.888235 -70 AAATAAAAGAAAATATCCAGTATTCACAGA 8 170 1 AAATATCCAG 0.906681 -131 ATTTATTGAAATAAATCCAGATGATGCCAA 11 22 1 ATAAATCCAG 0.908811 -279 TGAGTTGTGTAAAATTCCAGAGCTTAAGGT 11 214 1 AAAATTCCAG 0.856901 -87 AAAGGCACTTATAAAACCAAAGACTTTTAT 15 74 0 ATAAAACCAA 0.795474 -186 GAGAGCGTTCAAATATCCATTATTAATATT 16 90 0 AAATATCCAT 0.650569 -211 ********** Masking position 9 Map Score: 4.7358 Number of sites scoring better than the average of aligned sites = 630 Number in coding regions = 577 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 10 TTTTAATATCTCCAAAATTATTAGAAATTCTAAT 1 267 0 TCCAATATTG 0.743222 -34 TTATTAACAACCATAAATTATAAAATGCATAATG 6 32 1 CCAAATATAA 0.529861 -101 AGATGATTATCCCAATCATATATATATGTGATAG 6 85 1 CCCATTATAA 0.883592 -48 CAATTAATACCCCAATCTTATTAACTTTAAATAA 8 115 1 CCCATTATTA 0.869742 -186 GTTTCCTACTTCCATATATATATAATTTACGGTA 9 39 0 TCCTATATAA 0.737448 -49 GAAACTTACTTCCAGAATTATTCAATCAAA 9 68 1 TCCGATATTA 0.907554 -20 GAAGAATCTGCCCTGACTTAGATAGAGTTTGGAT 10 189 1 CCCGATAGAA 0.591125 -112 TTGAGGCAAATCCTAACGTATTAACCAATACTGC 11 174 1 TCCAATATTA 0.955222 -127 GAAATATGATTCCTATTATATAAACAATTCTATA 11 274 0 TCCATTATAA 0.90236 -27 ATATAATCAATCCCAAAATATTTATGAA 13 5 0 TCCAATATTA 0.955223 -120 AAGAAGACGTTCCTAAAATAAAGAAAGAAGTTGA 13 59 1 TCCAATAAAA 0.819843 -66 CCTAAATATCTCCTAAAGTAATAAATAGTTAAAA 14 70 0 TCCAATAATA 0.800128 -31 TATATAACACTTCAAACATATAAAAAAATAGAAC 15 143 1 TTCAATATAA 0.578451 -117 TTACCATTATCCCAGTAGTATATAAACTTTACTC 15 187 0 CCCGTTATAA 0.777435 -73 ATGATTATCCTCCAAATTTATTGAAGTCAGTT 16 9 0 TCCAATATTA 0.955109 -292 *** ** **** * Masking position 10 Map Score: 6.97495 Number of sites scoring better than the average of aligned sites = 299 Number in coding regions = 250 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084 Motif number 11 GGCGTTTAAACTTTCCTTAATAAATTTTATT 7 46 0 CTTTCTTAAT 0.913815 -143 TAATCTTATTCTTTGCTTAATATTTAAAGTG 7 163 1 CTTTCTTAAT 0.913679 -26 CCCCAATCTTATTAACTTTAAATAAACTAAT 8 124 1 ATTACTTTAA 0.671267 -177 AATTAATGGTCTTAACTTAATTCTATCTGTT 10 106 0 CTTACTTAAT 0.953321 -195 TTGAAATCACCTTAACTAAATCACCATTCTC 11 65 0 CTTACTAAAT 0.765133 -236 TATTATTCAGATTATCTTAATATTGAGGATG 12 58 1 ATTACTTAAT 0.865048 -127 ATTTATGTTACTTAACTTTAAGTATCCTTTT 12 112 1 CTTACTTTAA 0.878695 -73 TTTAAGTATCCTTTTCCTAATAATCAGTTAA 12 128 1 CTTTCCTAAT 0.688643 -57 TTTACCTACCATTAACTTTAAAAACCTTAAC 12 154 0 ATTACTTTAA 0.671267 -31 CTTTTATATTCTTACCTTAAAAATTGCAGTT 15 50 0 CTTACTTAAA 0.941157 -210 **** ****** Masking position 3 Map Score: 4.5039 Number of sites scoring better than the average of aligned sites = 169 Number in coding regions = 143 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 30 Fraction of orfs with sites within 600 bp upstream = 0.0048185 Motif number 12 GGAAAGTTTAAACGCCTTCCAAAAGGAAGG 7 61 1 AACGCCTTCC 0.988714 -128 GGTATTTATGAACGCCTTCCTTTTGGAAGG 7 75 0 AACGCCTTCC 0.988714 -114 TTATTTTAGGAACGTCTTCTTTAACTATCT 13 50 0 AACGTCTTCT 0.881662 -75 GGCATTAATGAACACCTCCCTATAGGAGAG 16 115 0 AACACCTCCC 0.976729 -186 TCAAAAATCTAACACCTCCTCGCTTACGCT 16 213 0 AACACCTCCT 0.949052 -88 ********** Masking position 7 Map Score: 2.80119 Number of sites scoring better than the average of aligned sites = 53 Number in coding regions = 19 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 13 ATTATCAACAAACCATGGGAACGCTGAAATA 1 29 1 AACATGGGAA 0.763995 -272 CAATTAGAGAAACATTGAGAACTGATTATGG 1 149 0 AAATTGAGAA 0.953955 -152 TATTGAAACAAATAATGAGGAGATATT 3 104 1 AAAATGAGGA 0.91718 -17 AAGAAAGAAGAAAATTAAGAAGAATTAGTAA 4 32 0 AAATTAAGAA 0.620123 -68 AAAATAAACAAATATTGGGATAAACAAGTAA 8 19 1 AAATTGGGAT 0.763012 -282 TAAAGTTAATAAGATTGGGGTATTAATTGTT 8 113 0 AAATTGGGGT 0.812054 -188 ATAAAGATTAAACCTTGAGGAGTTCCAACTG 10 36 0 AACTTGAGGA 0.945692 -265 TATGAATGGAGATATTGAGAAAGACACAACA 10 64 1 GAATTGAGAA 0.795985 -237 TTAAAAATAAAAACATGAGGAAGTGAAATC 10 281 1 AACATGAGGA 0.873994 -20 CAAATCATTAAAAATTGAGAATGGTGATTTA 11 49 1 AAATTGAGAA 0.953955 -252 AGATTATCTTAATATTGAGGATGAGCTTTTA 12 66 1 AAATTGAGGA 0.965281 -119 ** ******** Masking position 2 Map Score: 7.66538 Number of sites scoring better than the average of aligned sites = 202 Number in coding regions = 179 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 14 TTTTGCAAAAAACTATATATATTTCTTAGC 7 121 1 AACTATATAT 0.89963 -68 CAGGCATCCAAACTCTATCTAAGTCAGGGC 10 198 0 AACTCTATCT 0.901647 -103 AAAATTGCATAACTATATTTATGTTACTTA 12 96 1 AACTATATTT 0.926836 -89 TATGGGTTTTAACTATTTATTACTTTAGGA 14 64 1 AACTATTTAT 0.652242 -37 AAAAAAATAGAACTCTATTTTAAGAGTAAA 15 164 1 AACTCTATTT 0.952415 -96 CTCAAAATGGAACTCTATTTTGTATGACAC 15 232 0 AACTCTATTT 0.952415 -28 CTTTGAAAGACACTATATTTTAAAATTTCT 16 49 0 CACTATATTT 0.837702 -252 ********** Masking position 2 Map Score: 2.64061 Number of sites scoring better than the average of aligned sites = 115 Number in coding regions = 102 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 15 CCAATTATAAAAAATTATATAAAAAATTACA 1 211 1 AAAATATATA 0.683769 -90 AATTATATAAAAAATTACATAAGTCCTATTA 1 223 1 AAAATACATA 0.884571 -78 AAAGATAATAGTATAAGACTTTCTG 3 5 1 ATAATGTATA 0.743431 -116 TATTCCTACAAAAATCGTATAGTTATTGAAA 3 81 1 AAAATGTATA 0.86485 -40 ATTATAGCGTATAATGTCATAAAACAATTAA 8 91 1 ATAATTCATA 0.86621 -210 ATTTTAATAAATAATATCATAGTAATAATAA 8 229 1 ATAATTCATA 0.86621 -72 TAGGGGGATTAAAATCGCATATTGCTAAAAC 8 279 1 AAAATGCATA 0.957769 -22 TCACTTGAAATAAATATCATATCATCCTTTT 10 144 0 TAAATTCATA 0.667985 -157 ATGAGCTTTTAAAATTGCATAACTATATTTA 12 86 1 AAAATGCATA 0.957769 -99 AAATTACACAAAAGTGTCATACAAAATAGAG 15 219 1 AAAGTTCATA 0.748864 -41 ***** ***** Masking position 5 Map Score: 4.05099 Number of sites scoring better than the average of aligned sites = 177 Number in coding regions = 147 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974