AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00251_mthe_reg_100.orf -o00251_mthe_100.ace -a/home/amcguire/genomes/ORF_mthe.txt -z/home/amcguire/genomes/mthe.fna -g0.50 -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 = 0.5 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 MTH42 171 DNA-dependent RNA polymerase, subunit K #2 MTH43 51 enolase #3 MTH44 27 ribosomal protein Sa (E.coli S2) #4 MTH47 21 conserved protein #5 MTH48 73 conserved protein #6 MTH52 189 aspartate aminotransferase related protein #7 MTH106 137 tungsten formylmethanofuran dehydrogenase, subunit C homolog #8 MTH171 141 glutamine-fructose-6-phosphate transaminase #9 MTH187 142 conserved protein #10 MTH189 99 unknown #11 MTH648 65 ribosomal protein L37 #12 MTH649 300 conserved protein #13 MTH709 300 GMP synthetase, subunit A #14 MTH710 102 GMP synthetase, subunit B #15 MTH861 73 conserved protein #16 MTH997 31 carbamoyl-phosphate synthase, large subunit #17 MTH1116 146 glutamate decarboxylase #18 MTH1570 74 glutamine synthetase #19 MTH1571 300 molybdopterin biosynthesis protein MoeB homolog #20 MTH1601 246 aspartate aminotransferase #21 MTH1667 219 unknown #22 MTH1694 207 aspartate aminotransferase related protein #23 MTH1894 34 aspartate aminotransferase homolog #24 MTH1895 170 conserved protein Motif number 1 GAATTATAAACCCCAGAAAACAGAAAAA 6 6 0 CCCCAGACAG 0.977421 -184 TGCTGCGGCCCCCCTCCTAACAGATTTGTCACT 9 69 0 CCCCTCACAG 0.921448 -74 AAACCCTTCACCCCATCACACTGAACCGGA 10 8 0 CCCCATCCTG 0.988296 -92 TTTACGTGCACCACATGCATCTCTCATGGATGG 12 119 1 CCACATACTC 0.943468 -182 AATTACTGATCCACATATAACTTTTCTTACTGT 15 37 1 CCACATACTT 0.807713 -37 TTTATCCCCATTCCTCTCATCTAATATT 16 14 0 CCCCATCCTC 0.967008 -18 CAGAGGACCGCCCCAGACATCTGCTTTTCACTG 19 135 1 CCCCAGACTG 0.989419 -166 GTTATGAAATCCACTTTAATCTGGAGGTTTT 20 226 1 CCACTTACTG 0.972164 -21 ATCAGAATGTCCCCTGGAAACTGGGGATATCAA 21 43 1 CCCCTGACTG 0.985491 -177 GAAATATAATCCCCTTCTAACTCTGTAAAAAAG 21 87 1 CCCCTTACTC 0.976839 -133 AAAAAGGAAACCACTTTAACCAGTATCCACATA 21 114 1 CCACTTACAG 0.941753 -106 GTTTATATAACCCCCTCCCGCTGGTACTGTAAC 21 151 0 CCCCCTCCTG 0.957315 -69 CATGGTATTGCCCCATGGAGCAGTTTAAGTGCC 24 78 1 CCCCATACAG 0.98725 -93 ****** * *** Masking position 4 Map Score: 17.5784 Number of sites scoring better than the average of aligned sites = 308 Number in coding regions = 279 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 2 GATTTGAACTCGGGTCTCCAGCGTTCCGGTGCTGAC 1 86 0 CGCTCCAGGC 0.993541 -86 AGCAATTTTTATTAACTCCAGTGGACTACATGATAA 6 122 1 ATCTCCAGGC 0.958078 -68 CAATGTTACCCAGGGCTGCTGCGGCCCCCCTCCTAA 9 82 0 CACTGCTGGC 0.734867 -61 TTACCATGGCCGGACCTTCAGTGTGCATTCAACCTC 10 39 1 CGCTTCAGGC 0.980919 -61 ACCTCTTCAAATCCATTCCAGGGTCCGCCCTGGGAT 12 156 0 ATTTCCAGGC 0.788891 -145 GGATTTGAAGAGGTACTGCAGTGCAAGAAAACTTAT 12 178 1 AGCTGCAGGA 0.80964 -123 TGCGCATCTGCTACTCTCCAGATATGATTATTCAGG 13 56 1 CTCTCCAGTG 0.739231 -245 TGGTTGCACTCGTCCTTGCAGTTGTCGCTTTCTATG 13 193 0 CGTTGCAGTC 0.659649 -108 TGTTAGGGTGGGTACCTTCAGGTCCCAGT 14 4 0 GGCTTCAGTC 0.758206 -99 AATAGTTTAGAGGAGTTCCTGTGCGGCCTTGAGGAG 17 43 0 AGTTCCTGGG 0.570612 -104 TCGATTTCAGAATGGCTCCAGAGGACCGCCCCAGAC 19 117 1 AACTCCAGGC 0.958162 -184 CCTGTGGGAAAGATTCTTCAGATCAGTGAAAAGCAG 19 155 0 AGCTTCAGTG 0.743785 -146 TCTTTCCCACAGGATCTCCAGTGATAGGCTCATGCT 19 178 1 AGCTCCAGGA 0.93719 -123 AATCAGGCTCCTGAGCTCCAGCTCCCACCAGGAGAA 20 51 0 CTCTCCAGTC 0.901807 -196 ACTGATGGATCGCGGCTTCAGGGACCTGAATCAGGC 20 79 0 CGCTTCAGGC 0.981403 -168 ATCAGTTAATCACCTCTTCAGGGCCCCATGACTGGC 20 109 1 CACTTCAGGC 0.899663 -138 AAAACCTCCAGATTAAAGTGGATTTC 20 231 0 AACTCCAGTA 0.489825 -16 CTTGATATCCCCAGTTTCCAGGGGACATTCTGATGG 21 41 0 CCTTCCAGGC 0.730557 -179 TCTTTCGCATGGATACTCCTGTGCTGATGTGATAAA 22 182 1 GGCTCCTGGG 0.757611 -26 GAGAATCTTCTGAGATCAAAAATAAAT 23 2 1 AGCTTCTGGC 0.898591 -33 ** ****** * * Masking position 7 Map Score: 17.4616 Number of sites scoring better than the average of aligned sites = 1016 Number in coding regions = 952 Number in noncoding regions = 64 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 3 CTTGGTCCATCCTCCCAGCCATTGAAGAAGTT 1 26 1 CCCCAGCCAT 0.995472 -146 GAGGTCATTTCCTTCCATCTTTCAGTAACCCC 10 78 1 CCCCATCTTT 0.841009 -22 GAACAGACTGCAGACCATTCATAAAATGAACA 12 14 0 CACCATTCAT 0.916801 -287 GCCCTGGGATCCCCCCATCCATGAGAGATGCA 12 134 0 CCCCATCCAT 0.994178 -167 GGTCAGAACACCGTCCATCCTTAACATTAAAT 14 42 1 CCCCATCCTT 0.981804 -61 TCGGGTAGACCCTTTCATCCATTTTTACGCCC 17 82 0 CCTCATCCAT 0.943628 -65 GACCTGAAAATCAGCCAGTCATGGGGCCCTGA 20 126 0 TCCCAGTCAT 0.875977 -121 TACATGAGTCCCGGCCAGCCATCAGTAAATCC 20 158 0 CCCCAGCCAT 0.995471 -89 TGGCTAAAAACAGTCCAGTCATGGT 22 4 0 CACCAGTCAT 0.934154 -204 ** ******** Masking position 7 Map Score: 9.95456 Number of sites scoring better than the average of aligned sites = 149 Number in coding regions = 142 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 4 TAAAACACCTCATAATAAACT 2 41 0 TAAAACCCTC 0.906749 -11 GAACCCGCTGTTGAACAGCTCATTGAGGCCC 9 30 1 TTGAACGCTC 0.950342 -113 CCCAGAGCAGTTGAACCCCTCATAAAGGCT 9 123 1 TTGAACCCTC 0.98622 -20 TCCGGCCATGGTAAACCCTTCACCCCATCAC 10 22 0 GTAAACCTTC 0.819002 -78 ATTGACTCATTTAAACTCTTCTGCAAGTATA 12 65 1 TTAAACCTTC 0.921813 -236 GTGAACACCTCAAGATTATAA 15 1 1 GTGAACCCTC 0.964868 -73 GAAAAAGTACTTGAACTTCTCGCCGAATTTC 17 115 1 TTGAACTCTC 0.875241 -32 GATCCATCAGTTAATCACCTCTTCAGGGCCC 20 104 1 TTAATCCCTC 0.949971 -143 TGAACCTCAATTAAACTCCACTTTAGGGTTT 22 122 0 TTAAACCCAC 0.915025 -86 TGAAGGTTCATTAATCTCCGCTGTCTAGCAT 24 41 0 TTAATCCCGC 0.798385 -130 TTCATGGCACTTAAACTGCTCCATGGGGCAA 24 85 0 TTAAACGCTC 0.953409 -86 ****** **** Masking position 4 Map Score: 10.1175 Number of sites scoring better than the average of aligned sites = 258 Number in coding regions = 239 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 5 TCCAAGAAAAACATTAAAATAGAGGTTCTTGGA 1 144 0 ACTTAAAAGA 0.876212 -28 GAATATTTTATCATTAAATGAGAATTGTAA 7 8 0 TCTTAAATGA 0.949049 -130 TAAAATATTCTCCTTAAAATATATAATTATCTA 7 31 1 TCTTAAAATA 0.845234 -107 GAAATGGGAAACCTTAAATTACAGCATGGAAAA 7 77 1 ACTTAAATCA 0.527405 -61 GGAAAATTGTTCATTAAAAAACATGTTAAAACA 7 104 1 TCTTAAAACA 0.894148 -34 ATACTCAAATTCTTTAAAAGTGATAGT 8 5 0 TCTTAAAAGA 0.9693 -137 AATCAGTTAATCTGTAAAGTTGATCCACCCTTC 11 26 0 TCGTAAAGGA 0.873466 -40 ATTTAATTATTCGGTAAAATATAAATAGCTTTT 13 260 1 TCGTAAAATA 0.817945 -41 ACTTTTTTATCCTTAAAACAGAAAAGATGAAT 19 10 1 TCTTAAAAGA 0.968916 -291 AAATCACGTTTCTTTAAATTGGAGATAATAAAA 19 59 1 TCTTAAATGA 0.949049 -242 CGGCCAGCCATCAGTAAATCCGACCTGAAAATC 20 146 0 TCGTAAATGA 0.938729 -101 CCCTTCTAACTCTGTAAAAAAGGAAACCACTTT 21 98 1 TCGTAAAAGG 0.816892 -122 ** ****** ** Masking position 7 Map Score: 8.50833 Number of sites scoring better than the average of aligned sites = 44 Number in coding regions = 32 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 6 AAATCGAATCCAAGAACCTCTATTTTAATGT 1 136 1 CAGAACCTCT 0.875604 -36 CCCTAAGAAGCATGAATCTGATTTCGCAAGA 8 114 0 CAGAATCTGA 0.863349 -28 TCACTGTCATCAAGGGCCTCAATGAGCTGTT 9 43 0 CAGGGCCTCA 0.943234 -100 ACTGGGACCTGAAGGTACCCAC 14 2 1 CTGGACCTGA 0.864517 -101 GCCTCCATGGCATGAGCTTAACTTCACCGGA 18 47 0 CAGAGCTTAA 0.682255 -28 CTGCTTGCAGCATGAGCCTATCACTGGAGAT 19 191 0 CAGAGCCTAT 0.859114 -110 TAGTATTATGCAAGAACATGAAAGAGGGTTT 19 278 1 CAGAACATGA 0.875084 -23 AGCTGGAGCTCAGGAGCCTGATTCAGGTCCC 20 64 1 CAGAGCCTGA 0.98684 -183 ATCGCGGCTTCAGGGACCTGAATCAGGCTCC 20 76 0 CAGGACCTGA 0.980476 -171 GTTTAAGTGCCATGAACCTAAATATAATCTC 24 100 1 CAGAACCTAA 0.963342 -71 ATGTCATCATCAAGAACCCGAGAAGGTTGAT 24 150 1 CAGAACCCGA 0.937889 -21 ** ******** Masking position 1 Map Score: 8.16804 Number of sites scoring better than the average of aligned sites = 464 Number in coding regions = 445 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 7 GTTTTCTGGGGTTTATAATTCCTTTTTTAA 6 18 1 GTTTATAATT 0.743658 -172 CCAGGTAGATAATTATATATTTTAAGGAGA 7 39 0 AATTATATAT 0.729713 -99 GATTTCGCAAGATTATATAACTGAATCGCA 8 96 0 GATTATATAA 0.673936 -46 AATTTAGCCGGATTATATTTAAATCTAACT 12 267 0 GATTATATTT 0.901494 -34 CTGAAAAGCTATTTATATTTTACCGAATAA 13 266 0 ATTTATATTT 0.729713 -35 AACACCTCAAGATTATAATTATAAATTACT 15 14 1 GATTATAATT 0.743658 -60 CCTTCTACTGGTTTATATATTTTTTGT 18 8 0 GTTTATATAT 0.901494 -67 CTTTATCCACATTTATATATCATTCTTTGG 20 18 1 ATTTATATAT 0.729713 -229 GTTAGAAGGGGATTATATTTCCAGGAGATT 21 78 0 GATTATATTT 0.901494 -142 CCGTTTTTCTGTTTATATAACCCCCTCCCG 21 164 0 GTTTATATAA 0.673936 -56 GATCAGCTGAATTTATAAATCATGCTAGAC 24 20 1 ATTTATAAAT 0.381951 -151 AGTTCCATGAGATTATATTTAGGTTCATGG 24 109 0 GATTATATTT 0.901494 -62 ********** Masking position 5 Map Score: 7.83104 Number of sites scoring better than the average of aligned sites = 27 Number in coding regions = 8 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 8 AAAATTCTTTCTCAGGGATACCCTGTTAAAAA 6 41 0 CTCGGGATAC 0.978272 -149 AGCCGGATCACTGCTGGAAAACAAAAAATTCT 6 65 0 CTGTGGAAAC 0.931029 -125 GGTTCAACTGCTCTGGGATCTCCAATGTTACC 9 108 0 CTCGGGATCC 0.976802 -35 CCAGGGTCCGCCCTGGGATCCCCCCATCCATG 12 143 0 CCCGGGATCC 0.888011 -158 GTACTTTTTCCTCGGGTAGACCCTTTCATCCA 17 93 0 CTCGGTAGAC 0.834 -54 ACTGGAGATCCTGTGGGAAAGATTCTTCAGAT 19 168 0 CTGGGGAAAA 0.864125 -133 AGGTGATTAACTGATGGATCGCGGCTTCAGGG 20 92 0 CTGTGGATCC 0.89608 -155 CTGGCCGGGACTCATGTAAATCTTTTTAAATG 20 172 1 CTCTGTAAAC 0.895667 -75 ATCAAGGAATCTCCTGGAAATATAATCCCCTT 21 71 1 CTCTGGAAAA 0.895667 -149 ACAGAGGCTCCTCTGGTAAACAAAGTTTATTA 22 65 1 CTCGGTAAAA 0.801765 -143 TAAATATAATCTCATGGAACTCCGGGAATACA 24 118 1 CTCTGGAACC 0.97007 -53 *** ****** * Masking position 8 Map Score: 6.87579 Number of sites scoring better than the average of aligned sites = 664 Number in coding regions = 633 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 9 GGGACCGTAGGGTAGCTTGG 1 1 1 GGGACCGTAG 0.916993 -171 TCGATTTGATGGGACCGCCGAGATTTGAAC 1 113 0 GGGACCGCCG 0.992646 -59 TGTTAGGAGGGGGGCCGCAGCAGCCCTGGG 9 80 1 GGGGCCGCAG 0.986035 -63 TGCACACTGAAGGTCCGGCCATGGTAAACC 10 36 0 AGGTCCGGCC 0.897702 -64 ATCCATTCCAGGGTCCGCCCTGGGATCCCC 12 152 0 GGGTCCGCCC 0.985801 -149 ACTCCTCCTCAAGGCCGCACAGGAACTCCT 17 39 1 AAGGCCGCAC 0.832523 -108 ATGGCTCCAGAGGACCGCCCCAGACATCTG 19 128 1 AGGACCGCCC 0.988389 -173 GTCATCCTGTAGGACCACAGCCTTATATCT 19 220 0 AGGACCACAG 0.857063 -81 ********** Masking position 5 Map Score: 5.40788 Number of sites scoring better than the average of aligned sites = 154 Number in coding regions = 139 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 10 AGGCTGGGGATTCAGCACAGCAATTTTTATT 6 104 1 TTCAGCAAGC 0.95284 -86 GATATGATTATTCAGGATAGCATCAGCTTGA 13 76 1 TTCAGGAAGC 0.967138 -225 GCTTTTCAGAATCAGAAGAGGAGA 13 287 1 ATCAGAAAGG 0.941072 -14 CTCGCCGAATTTCAGAGGAGGGAC 17 133 1 TTCAGAGAGG 0.941957 -14 AACAGTTCGGTTCAGGGAAGGGGTTTTATTA 19 84 0 TTCAGGGAGG 0.951451 -217 GTTTTTCGATTTCAGAATGGCTCCAGAGGAC 19 112 1 TTCAGAAGGC 0.850614 -189 GATCAGGATAGCTGGGACAATC 21 208 0 ATCAGGAAGC 0.959819 -12 AACTTTGTTTACCAGAGGAGCCTCTGTAATA 22 61 0 ACCAGAGAGC 0.792194 -147 TTTATCACATCAGCACAGGAGTATCCATG 22 189 0 ATCAGCAAGG 0.929773 -19 ******* *** Masking position 4 Map Score: 4.96973 Number of sites scoring better than the average of aligned sites = 192 Number in coding regions = 175 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 11 TAAAACACCTCATAATAAACTCTAGA 2 36 0 CACCTCAAAT 0.957001 -16 TCTATCACCTCAAATAAGTTTCAATA 3 12 0 CACCTCAATA 0.70412 -16 AATTTTCCATCACCCTATAAATTCCTTTGAA 5 36 0 CACCCTAAAA 0.808947 -38 ATAAAATATTCTCCTTAAAATATATAATTAT 7 30 1 CTCCTTAAAT 0.835812 -108 TATTTCACCCTAAGAAGCATGAATCT 8 126 0 CACCCTAGAA 0.798378 -16 AGCAGTTGAACCCCTCATAAAGGCT 9 128 1 CCCCTCAAAA 0.96018 -15 ATCCACCCTTCCCCTTACAATTAAAT 11 6 0 CCCCTTAAAT 0.937754 -60 GTTCTAATCCTCCTTAAAATCAGTTAATCT 11 46 0 CTCCTTAAAT 0.835812 -20 AACACTCCTTCCCCGCAGGAAGATGTATATG 13 113 1 CCCCGCAGAA 0.840477 -188 GTGAACACCTCAAGATTATAATTATA 15 6 1 CACCTCAGAT 0.954158 -68 ACAGGATGACCCCCTCATGATTTATATCAAC 19 240 1 CCCCTCAGAT 0.964025 -61 ******* *** Masking position 7 Map Score: 6.53118 Number of sites scoring better than the average of aligned sites = 326 Number in coding regions = 297 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 12 AACAGGGTATCCCTGAGAAAGAATTTTTTG 6 46 1 CCCTGAGAAA 0.740072 -144 TTTTTGTTTTCCAGCAGTGATCCGGCTTCT 6 70 1 CCAGCAGTGA 0.870529 -120 ATCCCCCCATCCATGAGAGATGCATGTGGT 12 128 0 CCATGAGAGA 0.946507 -173 GAAAATCTTCCAATCAGATACTTCATTTTT 12 229 0 CAATCAGATA 0.744464 -72 TTGCAAGGGCCGAGCAGAGACTCCTCCTCA 17 20 1 CGAGCAGAGA 0.709788 -127 GCTCATGCTGCAAGCAGATATAAGGCTGTG 19 205 1 CAAGCAGATA 0.748028 -96 CCAGCTCCCACCAGGAGAAAACCCAAAGAA 20 40 0 CCAGGAGAAA 0.94844 -207 AAGCCGCGATCCATCAGTTAATCACCTCTT 20 97 1 CCATCAGTTA 0.870664 -150 TCCCGGCCAGCCATCAGTAAATCCGACCTG 20 152 0 CCATCAGTAA 0.870664 -95 TTCGTAATAGCCATCAGAATGTCCCCTGGA 21 31 1 CCATCAGAAT 0.870664 -189 GATTATATTTCCAGGAGATTCCTTGATATC 21 68 0 CCAGGAGATT 0.855191 -152 ACAGGAGTATCCATGCGAAAGAGAAGAAGG 22 174 0 CCATGCGAAA 0.740072 -34 TCCCGGAGTTCCATGAGATTATATTTAGGT 24 115 0 CCATGAGATT 0.852845 -56 ********** Masking position 1 Map Score: 6.51363 Number of sites scoring better than the average of aligned sites = 339 Number in coding regions = 305 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 13 TCAATGGCTGGGAGGATGGACCAAGCTACC 1 21 0 GGAGGATGGA 0.724725 -151 TCAACTGGAACGGGGATGGTCAGCACCGGA 1 68 1 CGGGGATGGT 0.972198 -104 GGAATTTATAGGGTGATGGAAAATTTTTAA 5 42 1 GGGTGATGGA 0.919747 -32 ATGTTAAAACAGGGGATGTTAG 7 126 1 AGGGGATGTT 0.671336 -12 CAGTGTGATGGGGTGAAGGGTTTACCATGG 10 18 1 GGGTGAAGGG 0.963481 -82 TTTAATTGTAAGGGGAAGGGTGGATCAACT 11 12 1 AGGGGAAGGG 0.954317 -54 CATCTTCCTGCGGGGAAGGAGTGTTTGATA 13 108 0 CGGGGAAGGA 0.975197 -193 AAGTTACTTCCGGTGAAGTTAAGCTCATGC 18 39 1 CGGTGAAGTT 0.790656 -36 CAGTTCGGTTCAGGGAAGGGGTTTTATTAT 19 83 0 CAGGGAAGGG 0.843782 -218 TACCATGTGAGGTTGAAGGTTCATTAATCT 24 55 0 GGTTGAAGGT 0.681715 -116 ********** Masking position 6 Map Score: 3.77753 Number of sites scoring better than the average of aligned sites = 610 Number in coding regions = 559 Number in noncoding regions = 51 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 14 CGCCGAGATTTGAACTCGGGTCTCCAGCGTT 1 97 0 TAACTCGGGT 0.953159 -75 TTTTTCTGTTTTCTGGGGTTTATAATTCC 6 9 1 TTTCTGGGGT 0.814311 -181 ATAATATCATTCTTCTCGTGTTGAATTAACT 6 154 1 TTTCTCGTGT 0.7474 -36 ATAAGGACCACTAACACGGGTAGCAGCCATA 13 156 1 CAACACGGGT 0.921971 -145 GGTACCCACCCTAACACGGGTCAGAACACCG 14 24 1 CAACACGGGT 0.921971 -79 TCAAGTACTTTTTCCTCGGGTAGACCCTTTC 17 98 0 TTCCTCGGGT 0.966219 -49 AATTGAGGTTCAGCCTCGGGTAGGTAAGAGA 22 141 1 CGCCTCGGGT 0.953353 -67 ATCAACCTTCTCGGGTTCTTGATGAT 24 155 0 CTTCTCGGGT 0.976759 -16 * ********* Masking position 11 Map Score: 1.75803 Number of sites scoring better than the average of aligned sites = 120 Number in coding regions = 111 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 15 TCCCAGCCATTGAAGAAGTTTCCGGACTTTTCA 1 38 1 TAAAGTTTCC 0.936497 -134 TTTAACGCCCTTAAAAATTTTCCATCACCCTAT 5 49 0 TAAATTTTCC 0.882442 -25 CATTTAATGATAAAATATTCTCCTTAAAATATA 7 21 1 TAAATTCTCC 0.946207 -117 TGTTTTTTAATGAACAATTTTCCATGCTGTAAT 7 94 0 TAAATTTTCC 0.882396 -44 TTAGTTAGATTTAAATATAATCCGGCTAAATTT 12 265 1 TAAATAATCC 0.559734 -36 GAAATGAGTTTAAATCAGGTTGCGCATCTGCTA 13 36 1 TAAAGGTTGC 0.527565 -265 TTCAGGGACCTGAATCAGGCTCCTGAGCTCCAG 20 66 0 TAAAGGCTCC 0.960945 -181 ACTGGGGATATCAAGGAATCTCCTGGAAATATA 21 62 1 TAAAATCTCC 0.931075 -158 GGAAACCACTTTAACCAGTATCCACATATTAGG 21 119 1 TAAAGTATCC 0.887696 -101 CCTGATTTTATTACAGAGGCTCCTCTGGTAAAC 22 53 1 TACAGGCTCC 0.808578 -155 AGGCTGAACCTCAATTAAACTCCACTTTAGGGT 22 124 0 TAAAAACTCC 0.810203 -84 AGGTTGAAGGTTCATTAATCTCCGCTGTCTAGC 24 43 0 TCAAATCTCC 0.698705 -128 * ** ******* Masking position 7 Map Score: 3.22279 Number of sites scoring better than the average of aligned sites = 130 Number in coding regions = 104 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912