AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00290_aful_reg_300.orf -o00290_aful_300.ace -a/home/amcguire/genomes/ORF_aful.txt -z/home/amcguire/genomes/aful.fna -g0.49 -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 = 0.49 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 AF0219 180 2-isopropylmalate synthase (leuA-2) #2 AF0629 31 3-isopropylmalate dehydratase, small subunit (leuD-1) #3 AF0632 80 nifU protein (nifU-3) #4 AF0633 173 isoleucyl-tRNA synthetase (ileS) #5 AF0932 41 conserved hypothetical protein #6 AF0933 22 branched-chain amino acid aminotransferase (ilvE) #7 AF0957 53 2-isopropylmalate synthase (leuA-1) #8 AF1014 126 dihydroxy-acid dehydratase (ilvD) #9 AF1665 147 ornithine cyclodeaminase (arcB) #10 AF1667 158 sulfate adenylyltransferase (sat) #11 AF1669 48 adenylylsulfate reductase, subunit B (aprB) #12 AF1671 64 coenzyme F390 synthetase (ftsA-2) #13 AF1720 182 acetolactate synthase, large subunit (ilvB-1) #14 AF1778 105 stage V sporulation protein (spoVG) #15 AF1779 57 2-hydroxyacid dehydrogenase, putative #16 AF1962 116 conserved hypothetical protein #17 AF1963 174 aconitase (acn) #18 AF1985 45 ketol-acid reductoisomerase (ilvC) #19 AF2009 101 heme biosynthesis protein (nirJ-2) #20 AF2010 46 A. fulgidus predicted coding region AF2010 #21 AF2011 175 conserved hypothetical protein #22 AF2013 275 coenzyme F390 synthetase (ftsA-3) #23 AF2014 63 sugar transporter, putative #24 AF2100 106 acetolactate synthase, large subunit (ilvB-4) #25 AF2199 82 3-isopropylmalate dehydratase, large subunit (leuC) #26 AF2224 38 valyl-tRNA synthetase (valS) #27 AF2225 64 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (hpcE-2) #28 AF2421 58 leucyl-tRNA synthetase (leuS) #29 AF2425 85 methanol dehydrogenase regulatory protein (moxR) Motif number 1 CTATTTGAAAAAAGGTTTTTAAATCGGTGGCTTT 1 25 0 AAAGTTTTAT 0.945311 -156 AAGGCACCGAAAACGATTTACAGCTTAGCCTA 1 159 1 AAAGATTTAC 0.7475 -22 AACCTTTTTTAATTCCGCCCCTAC 2 1 1 AACTTTTTAT 0.799915 -31 GAAAGCTGATAACTTTTTTAATCCACCGGCTGTT 4 142 1 AACTTTTTTC 0.903182 -32 AACGGAAAAACGTTTTAAATCAGCTGATTAA 5 8 1 AAAGTTTTAC 0.979657 -34 CTGGAAGGCCAAAGTTTTTTTACCCACTCGTTAT 7 20 1 AAATTTTTAC 0.967566 -34 TAAAACAAATAAATGTTTTGTTTTTTGTCAAAAT 8 29 1 AAAGTTTTTT 0.935387 -98 AAGGGCAGGCAAAATTGTTTTATCTTTCTTATCT 9 21 0 AAATTGTTAC 0.731042 -127 ATTGAATAGAAAAATTTTTCTTACAGCATCTCAA 9 78 1 AAATTTTTTC 0.961517 -70 GTAGAAAATTTTTTGAACTCCTTTGCCT 10 5 1 AAATTTTTAC 0.967566 -154 TTTAATGATTAAAGGTTTTCGAATTTTCAAAGAC 10 78 0 AAAGTTTTAT 0.945311 -81 AGCTCTAAAATTTTTCTTTTTTCTAAATCT 12 7 1 AAATTTTTTT 0.899669 -58 TCTAAATCTAAAAGTTTTTATTGCATTGCCTTAA 12 32 1 AAATTTTTTC 0.961517 -33 ATGCGCTTTAAAAAGTTTTGGTTCGCCCAGGCAA 13 65 0 AAAGTTTTTC 0.975806 -118 GAAAAGATAAAAAGGTTTTGAAGCAAAAGCCAAA 15 18 0 AAAGTTTTAC 0.979657 -40 CAAATTAGATAACGGTTTTTGTTCAAAAAATATT 16 30 1 AACGTTTTTC 0.93773 -87 CCTAAATAGTAAAATTTTTATTTTTGTTAGCATG 20 13 1 AAATTTTTTT 0.899673 -34 AAGCTTAATAATAAGTTTTATAACCTTCACATCG 21 139 1 ATAGTTTTAC 0.7475 -37 CTGGCGGGAAAACCGTTTTTTAATACTGCCAGAT 22 54 0 AACGTTTTAT 0.865837 -222 CAACCTTAGCAAACTTTTTAAAATTATAATCATA 24 75 1 AAATTTTTAT 0.914586 -32 GCAAAAAGTTATATTTCAAGTTTCTGT 26 4 1 AAAGTTATTC 0.712591 -35 GCCAAACGCCAAATTTTTTAATCCCATTTATTAG 28 26 1 AAATTTTTTC 0.961517 -33 *** ***** * * Masking position 9 Map Score: 35.9077 Number of sites scoring better than the average of aligned sites = 110 Number in coding regions = 59 Number in noncoding regions = 51 Number of orfs with sites within 600 bp upstream = 67 Fraction of orfs with sites within 600 bp upstream = 0.0107613 Motif number 2 CTTTTTTAATTCCGCCCCTACTTAGCTC 2 14 1 TCGCCCCTAC 0.94471 -18 ACCTTCCCTCACTCTCCCTCC 4 1 0 ACCTCCCTCC 0.941247 -173 TTTTCAGCCTACTATCCCTCCTAATTTTTGC 4 63 1 ACATCCCTCC 0.929906 -111 CCTAATTTTTGCTGCCCCACCATGATGGTAT 4 82 1 GCGCCCCACC 0.981518 -92 TTATTGTTCTTCACACCATCCAACCAAAACT 8 78 1 TCCACCATCC 0.775257 -49 AACTTTTTCATCACTCCCACCACCAGCATGC 13 95 0 TCCTCCCACC 0.954256 -88 TTCTAACCCTCCTTTCAAATTT 14 94 0 TCAACCCTCC 0.977462 -12 CGGCGACGCTTCAGCCCCACCGAGGGCCGAA 16 84 0 TCGCCCCACC 0.991968 -33 GGGACTGTAGTCCGCCACTCCGCGGCAGGCG 17 91 0 TCGCCACTCC 0.940065 -84 CAGTAAGCTATCGAACCCGCCTTAGCTCAGA 17 132 0 TCAACCCGCC 0.910176 -43 TCAAATCTCGGCGGCCCCATCATTGAACTGG 22 84 0 GCGCCCCATC 0.792121 -192 AGGCTACCCTACGGCCCCTCTGTAATGATTA 22 152 1 ACGCCCCTCT 0.862022 -124 TTCCCATAGCTCTAACCCTCCTACCATTCTT 29 42 1 TCAACCCTCC 0.977462 -44 ** ******** Masking position 6 Map Score: 13.442 Number of sites scoring better than the average of aligned sites = 594 Number in coding regions = 557 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 3 AAAGGTTTTTAAATCGGTGGCTTTAGCCTTAAAA 1 15 0 AAGTGGCTTT 0.946337 -166 TTCTTGTTGCAATTACTTGGATTTTACGTATTCT 1 66 0 AATTGGATTT 0.880001 -115 CCCTTGACGGAAATAATAAGCTTTTTGGTTTGAA 3 47 0 AATAAGCTTT 0.807962 -34 TGGATTAAAAAAGTTATCAGCTTTCCTTTCCGGA 4 133 0 AATCAGCTTT 0.943911 -41 AGTGGGTAAAAAAACTTTGGCCTTCCAGAAGGTT 7 14 0 AATTGGCCTT 0.967795 -40 AAATTTTTTGAACTCCTTTGCCTTTTATTTTCGA 10 16 1 AATTTGCCTT 0.85804 -143 AATGCAATAAAAACTTTTAGATTTAGAAAAAAGA 12 25 0 AATTAGATTT 0.797751 -40 AAGTTTTAAAAACTACTTACCTTTGTAGGAAA 13 9 0 AATTACCTTT 0.754986 -174 TTAAGAGTTTGGCTTTTGCTTCAAAA 15 3 1 AATTGGCTTT 0.985521 -55 AGAATCAACCTGTCAGCTTTTCTGGAACTG 22 7 1 AATCAGCTTT 0.94417 -269 TAGCCTGGTGATCCTCTCGGCTTTGGGAGCCGGT 22 124 0 ATTCGGCTTT 0.742155 -152 GTAATGATTAAAGGCAGTGGCTTTTAAAGCCTTT 22 173 1 AAGTGGCTTT 0.89292 -103 TATTTGCATAAAATTTTTAGCTTTTTAATTCTTT 23 32 1 AATTAGCTTT 0.973372 -32 GATAACTCTTAAAACCTTTGCCTTCTTACGCCAC 27 13 0 AATTTGCCTT 0.85867 -52 AATGGGATTAAAAAATTTGGCGTTTGGCCTGATT 28 20 0 AATTGGCGTT 0.921422 -39 ** ******** Masking position 1 Map Score: 14.2342 Number of sites scoring better than the average of aligned sites = 132 Number in coding regions = 106 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 35 Fraction of orfs with sites within 600 bp upstream = 0.00562159 Motif number 4 ACCGATTTAAAAACCTTTTTTCAAATAGAACT 1 31 1 AAACCTTTTC 0.974562 -150 ATTGTCATGTAAACCCTTATTTTTCAGCCTAC 4 43 1 AAACCTTATT 0.977553 -131 AGCTGATTTAAAACGTTTTTCCGTT 5 4 0 AAACGTTTTC 0.90128 -38 ACAAAAAACAAAACATTTATTTGTTTTAATCA 8 25 0 AAACATTATT 0.870202 -102 AAGAAAGATAAAACAATTTTGCCTGCCCTTCG 9 25 1 AAACATTTTC 0.855117 -123 GAAAATTCGAAAACCTTTAATCATTAAAATAT 10 84 1 AAACCTTAAC 0.934422 -75 ATATTTTTCGAAACCTTTATATAAGGCTGTGA 10 112 1 AAACCTTATT 0.977556 -47 TTTTGCTTCAAAACCTTTTTATCTTTTCTGGG 15 24 1 AAACCTTTTT 0.974091 -34 TTTTGAACAAAAACCGTTATCTAATTTGACAT 16 26 0 AAACCTTATT 0.977556 -91 ACTGGCGGGAAAACCGTTTTTTAATACTGCCA 22 57 0 AAACCTTTTT 0.974089 -219 AGTGGCTTTTAAAGCCTTTTGCTGCAAACGCA 22 188 1 AAAGCTTTTC 0.882324 -88 GTTTCTTAGAAAAGCCTTAAATACTTTTTTAA 25 23 0 AAAGCTTAAT 0.732383 -60 TCTAAGAAACAAACGGTTAACTTAAAAAGCAC 25 45 1 AAACGTTAAT 0.769173 -38 ***** **** * Masking position 3 Map Score: 14.7066 Number of sites scoring better than the average of aligned sites = 100 Number in coding regions = 62 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 5 TCCCTCCTAATTTTTGCTGCCCCACCATGA 4 77 1 TTTTTGCTGC 0.91018 -97 GTAAAAAAACTTTGGCCTTCCAGAAGGTTT 7 13 0 TTTGGCCTTC 0.826486 -41 GATAAAACAATTTTGCCTGCCCTTCGAGAG 9 31 1 TTTTGCCTGC 0.955277 -117 TTCTATTCAATTTTTCCTTCAATAGATGCT 9 59 0 TTTTTCCTTC 0.960665 -89 TTTTGAACTCCTTTGCCTTTTATTTTCGAA 10 21 1 CTTTGCCTTT 0.773902 -138 TGTAGTACAGCTTTTACTTCTTTTCTAAAG 13 144 1 CTTTTACTTC 0.838375 -39 TTTAATCTAACGTTTCCTGCAATCAAAATT 14 35 1 CGTTTCCTGC 0.891077 -71 AAGAGTTTGGCTTTTGCTTCAAAACCTTTT 15 13 1 CTTTTGCTTC 0.953723 -45 TGCCTGCTCCTTTATCCTTCTTTACTTCAA 21 99 0 TTTATCCTTC 0.774595 -77 CTTTTAAAGCCTTTTGCTGCAAACGCATTC 22 193 1 CTTTTGCTGC 0.950675 -83 CTCTTAAAACCTTTGCCTTCTTACGCCACA 27 12 0 CTTTGCCTTC 0.977498 -53 ********** Masking position 3 Map Score: 9.27253 Number of sites scoring better than the average of aligned sites = 475 Number in coding regions = 445 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 6 AGTGAGGGAAGGTATTAAACTTTAATTGTC 4 19 1 GGTATTAAAC 0.784799 -155 AAAATTGCGCGGTTTTGAATGTCTTTGAAA 10 58 1 GGTTTTGAAT 0.909708 -101 AAGATAAAAAGGTTTTGAAGCAAAAGCCAA 15 19 0 GGTTTTGAAG 0.855281 -39 GACAGAATTGAACCCAGAAAAGA 15 45 0 AGAATTGAAC 0.806582 -13 AAATGAGTAGGGATATAAACCAAAGCATTC 17 19 1 GGATATAAAC 0.738698 -156 CCGGGAGGCGGGACTTGAATGCTTTGGTTT 17 35 0 GGACTTGAAT 0.799702 -140 CCCGCCTCCCGGATTTGAACCGGGGACCAT 17 53 1 GGATTTGAAC 0.983756 -122 GGGGCCCGATAGATTTGAACATCGAGGAGA 21 21 1 AGATTTGAAC 0.937507 -155 GGGGCCGCCGAGATTTGAACTCGGGTCACC 22 97 1 AGATTTGAAC 0.937507 -179 GAGGGAGGCAGGATTTAAATACTTCACCAT 22 233 0 GGATTTAAAT 0.862604 -43 GTATTCGATGGGTTTTAAACTCTTGCAGCC 24 36 1 GGTTTTAAAC 0.929154 -71 ********** Masking position 8 Map Score: 8.22739 Number of sites scoring better than the average of aligned sites = 255 Number in coding regions = 195 Number in noncoding regions = 60 Number of orfs with sites within 600 bp upstream = 64 Fraction of orfs with sites within 600 bp upstream = 0.0102795 Motif number 7 CAGTTCTATTTGAAAAAAGGTTTTTAAATCGGTG 1 30 0 TAAAAAGTTT 0.443192 -151 AATTTTGACATGCAAAAGCATATACCATCATGGT 4 100 0 TAAAAGATAA 0.910279 -74 GCCGGTGGATTAAAAAAGTTATCAGCTTTCCTTT 4 138 0 TAAAAGTATA 0.66617 -36 CAACCAAAACTTAAAAAATAATGAAGCACTTCTA 8 98 1 TAAAAAAATA 0.678034 -29 TCCTGTCTTCTTGAAAAGTATTAAAGTTAATGTC 9 120 0 TAAAAGATTA 0.955357 -28 GCAAAGGAGTTCAAAAAATTTTCTAC 10 3 0 TAAAAATTTT 0.541859 -156 TTTTCGAATTTTCAAAGACATTCAAAACCGCGCA 10 63 0 TAAAGAATTA 0.508091 -96 TATAAAGGTTTCGAAAAATATTTTAATGATTAAA 10 99 0 TAAAAAATTT 0.732774 -60 TATAAGGCTGTGAAAAAAAATACATCATAGGTTA 10 131 1 TAAAAAATAA 0.821996 -28 TACATTTTTCTAAAAAAAAATTAAA 11 2 0 TAAAAAATTA 0.906895 -47 TTTTTCTAAATCTAAAAGTTTTTATTGCATTGCC 12 28 1 TAAAAGTTTA 0.901129 -37 AAAAGTTCTCTGGAAAAGAGTTCATTGTAGTACA 13 119 1 TAAAAGGTTA 0.861339 -64 CTAACTCCTTTAGAAAAGAAGTAAAAGCTGTACT 13 147 0 TAAAAGAGTA 0.730747 -36 CGGTTTTTGTTCAAAAAATATTCTGTATACGCCA 16 42 1 TAAAAAATTT 0.732774 -75 ACTATTTAGTTCCAAAAGGTTAAATATCTGGATG 19 26 0 TAAAAGTTAA 0.814 -76 ACACTTGAAGTAAAGAAGGATAAAGGAGCAGGCA 21 95 1 TAGAAGATAA 0.518266 -81 ATTTAAAGAATTAAAAAGCTAAAAATTTTATGCA 23 36 0 TAAAAGTAAA 0.486169 -28 ATACGATTAATCAAAAAGAATAAATAATC 24 6 0 TAAAAGATAA 0.910278 -101 GAGAGTTCATTAAAAAAGTATTTAAGGCTTTTCT 25 14 1 TAAAAGATTA 0.955315 -69 * ***** *** * Masking position 1 Map Score: 11.0396 Number of sites scoring better than the average of aligned sites = 207 Number in coding regions = 130 Number in noncoding regions = 77 Number of orfs with sites within 600 bp upstream = 97 Fraction of orfs with sites within 600 bp upstream = 0.0155798 Motif number 8 TTCTTCACACCATCCAACCAAAACTTAAAAAA 8 84 1 CATCCACAAA 0.953045 -43 TCTAACGTTTCCTGCAATCAAAATTCTTATAT 14 40 1 CCTGCACAAA 0.938065 -66 TTCTAACCCTCCTTTCAAATTTCGTTACT 14 87 0 CCTCCTCAAA 0.981931 -19 AAATTAGCTACATGCTAACAAAAATAAAAATT 20 25 0 CATGCTCAAA 0.976856 -22 ACTCGGGTCACCGGCTCCCAAAGCCGAGAGGA 22 115 1 CCGGCTCAAA 0.959065 -161 AATACTTCACCATCCTGAAAAACGAATGCGTT 22 214 0 CATCCTAAAA 0.860943 -62 TAAACTCTTGCAGCCTGACAAAATCAACCTTA 24 51 1 CAGCCTCAAA 0.969132 -56 ACCCTCCTACCATTCTTCCAAAACACACATAT 29 56 1 CATTCTCAAA 0.913973 -30 ****** **** Masking position 10 Map Score: 5.21832 Number of sites scoring better than the average of aligned sites = 74 Number in coding regions = 62 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 9 CCAGTTTTAAGGCTAAAGCCACC 1 4 1 GTTTTAAGGC 0.887385 -177 GATAAATTGTTATCTAAGGCACCGAAAACG 1 144 1 TATCTAAGGC 0.971009 -37 TCGAAACCTTTATATAAGGCTGTGAAAAAA 10 119 1 TATATAAGGC 0.893957 -40 GATGCAGAGTTAAGGCAATGCAATAA 12 49 0 GAGTTAAGGC 0.977278 -16 CTCTACCTCTGAGCTAAGGCGGGTTCGATA 17 125 1 GAGCTAAGGC 0.981156 -50 GAAGGTTATGTAGCTCAGGCACTGGGGCAC 21 56 1 TAGCTCAGGC 0.897117 -120 CCTCTGTAATGATTAAAGGCAGTGGCTTTT 22 168 1 GATTAAAGGC 0.887435 -108 ATTAAAAAAGTATTTAAGGCTTTTCTAAGA 25 22 1 TATTTAAGGC 0.965199 -61 ********** Masking position 7 Map Score: 6.24111 Number of sites scoring better than the average of aligned sites = 67 Number in coding regions = 56 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 10 TAGGAGGGATAGTAGGCTGAAAAATAAGGG 4 56 0 AGTAGGCTGA 0.816713 -118 GCTCTCGAAGGGCAGGCAAAATTGTTTTAT 9 32 0 GGCAGGCAAA 0.719887 -116 GTTCAAATCCGGGAGGCGGGACTTGAATGC 17 43 0 GGGAGGCGGG 0.990777 -132 GCCACTCCGCGGCAGGCGGAGATCCCATGG 17 79 0 GGCAGGCGGA 0.988158 -96 TTGAACATCGAGGAGACGGATGAAGGTTAT 21 35 1 AGGAGACGGA 0.724453 -141 AGGATAAAGGAGCAGGCAGTCTTGTCGTAA 21 111 1 AGCAGGCAGT 0.800144 -65 TCTCGGCTTTGGGAGCCGGTGACCCGAGTT 22 114 0 GGGAGCCGGT 0.941539 -162 GGGGCCGTAGGGTAGCCTGGTGATCCTCTC 22 140 0 GGTAGCCTGG 0.900206 -136 TCTGTCATGAGGGAGGCAGGATTTAAATAC 22 241 0 GGGAGGCAGG 0.97674 -35 TTTAAACTCTTGCAGCCTGACAAAATCAAC 24 49 1 TGCAGCCTGA 0.617735 -58 TTGGAAGAATGGTAGGAGGGTTAGAGCTAT 29 47 0 GGTAGGAGGG 0.803859 -39 ********** Masking position 4 Map Score: 4.6168 Number of sites scoring better than the average of aligned sites = 608 Number in coding regions = 576 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 11 AAGGTTTTTAAATCGGTGGCTTTAGCCTTA 1 18 0 AATCGGTGGC 0.890323 -163 TAAATAAAATTCTCGGCAACTGCTACAAAT 1 110 0 TCTCGGCAAC 0.866214 -71 ACTCGGCGAGTTAATCAGCT 5 32 0 ACTCGGCGAG 0.975186 -10 TAATTTCGGCCCTCGGTGGGGCTGAAGCGT 16 80 1 CCTCGGTGGG 0.908879 -37 TGTGGAAAAAGTCGGCGACGCTTCAGCCC 16 98 0 AGTCGGCGAC 0.955266 -19 GTAGTCCGCCACTCCGCGGCAGGCGGAGAT 17 86 0 ACTCCGCGGC 0.973669 -89 CGAGTTCAAATCTCGGCGGCCCCATCATTG 22 90 0 TCTCGGCGGC 0.990393 -186 ********** Masking position 3 Map Score: 1.63302 Number of sites scoring better than the average of aligned sites = 122 Number in coding regions = 104 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 12 ACAATTTATCGAAATAAATAAAATTCTCGGCA 1 122 0 GAAAAATAAA 0.759952 -59 TTTTGTGATTAAAACAAATAAATGTTTTGTTT 8 20 1 AAAAAATAAA 0.952544 -107 GATTTTGACAAAAAACAAAACATTTATTTGTT 8 32 0 AAAAAAAACA 0.670605 -95 CCAAAACTTAAAAAATAATGAAGCACTTCTAA 8 101 1 AAAAAATGAA 0.863785 -26 TGTCTTCTTGAAAAGTATTAAAGTTAATGTCA 9 119 0 AAAAATTAAA 0.81809 -29 TAAGGCTGTGAAAAAAAATACATCATAGGTTA 10 133 1 AAAAAATACA 0.863785 -26 ATTTTTCTAAAAAAAAATTAAA 11 1 0 AAAAATTAAA 0.81809 -48 TTTTTTTAGAAAAATGTATGAAAAGGTTGGAG 11 18 1 AAAATATGAA 0.670605 -31 ACTCCTTTAGAAAAGAAGTAAAAGCTGTACTA 13 146 0 AAAAAGTAAA 0.790793 -37 TTGAACCCAGAAAAGATAAAAAGGTTTTGAAG 15 29 0 AAAATAAAAA 0.674145 -29 GCTACATGCTAACAAAAATAAAAATTTTACTA 20 19 0 AACAAATAAA 0.759952 -28 TAAAGAATTAAAAAGCTAAAAATTTTATGCAA 23 35 0 AAAATAAAAA 0.674145 -29 ACGATTAATCAAAAAGAATAAATAATC 24 6 0 AAAAAATAAA 0.952544 -101 **** ****** Masking position 4 Map Score: 4.54605 Number of sites scoring better than the average of aligned sites = 153 Number in coding regions = 66 Number in noncoding regions = 87 Number of orfs with sites within 600 bp upstream = 82 Fraction of orfs with sites within 600 bp upstream = 0.0131706 Motif number 13 ********** No masking Map Score: 5.11123e-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 ********** No masking Map Score: 5.11123e-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 15 ********** No masking Map Score: 5.11123e-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