AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00410_aful_reg_100.orf -o00410_aful_100.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 Purged sequences: AF0672 27 medium-chain acyl-CoA ligase (alkK-3) Input sequences: #1 AF0196 131 medium-chain acyl-CoA ligase (alkK-1) #2 AF0197 86 acetyl-CoA synthetase (acs-1) #3 AF0438 79 3-ketoacyl-CoA thiolase (acaB-8) #4 AF0439 82 transcriptional regulatory protein, AsnC family #5 AF0442 300 succinoglycan biosynthesis regulator (exsB) #6 AF0498 197 acyl-coA dehydrogenase (acd-3) #7 AF0673 155 mercuric resistance operon regulatory protein (merR) #8 AF0685 140 enoyl-CoA hydratase (fad-2) #9 AF0845 73 acyl-CoA dehydrogenase (acd-5) #10 AF0846 112 Na+/H+ antiporter (nhe2) #11 AF0968 205 3-ketoacyl-CoA thiolase (acaB-10) #12 AF1026 150 acyl-CoA dehydrogenase (acd-7) #13 AF1141 35 acyl-CoA dehydrogenase (acd-8) #14 AF1142 221 glucose-1-phosphate cytidylyltransferase (rfbF) #15 AF1289 300 conserved hypothetical protein #16 AF1641 31 enoyl-CoA hydratase (fad-4) #17 AF1642 50 histidyl-tRNA synthetase (hisS) #18 AF2057 35 acyl-CoA dehydrogenase (acd-10) #19 AF2244 300 acyl-CoA dehydrogenase (acd-11) #20 AF2275 63 acyl-CoA dehydrogenase (acd-12) #21 AF2277 49 DNA polymerase, bacteriophage-type #22 AF2334 33 spermidine synthase (speE) #23 AF2426 85 conserved hypothetical protein #24 AF2429 30 enoyl-CoA hydratase (fad-5) Motif number 1 CTTTGAGCATAATTCAATTTTTTAAGATGATA 2 19 1 AATTCAATTT 0.731563 -68 TCACCTCCAATTTATAACATTTAATGAGCAAA 2 62 0 TTTATAATTT 0.905198 -25 GTTTTCGTGAAATATGAATTTTGCCTTGCAGC 3 30 0 AATATGATTT 0.831059 -50 AGTCGTGTAATATTTAATGTTTTCGTGAAATA 3 48 0 TATTTAATTT 0.905198 -32 AAACTAAAAATATAAAAATTTTATGTTTGCCA 4 50 0 TATAAAATTT 0.882344 -33 CTAGATTTGGTATATAACCTTTACTTAATGTT 6 166 0 TATATAATTT 0.945609 -32 TACTAAGGACTATATAAATTTTTTTGCATTTA 7 46 1 TATATAATTT 0.945609 -110 GCTTTAGGACTTTATAATATTTCCCATCTAAT 7 120 0 TTTATAATTT 0.905198 -36 TCATTTTCAAAATATAAGATTTGCCACTTTGT 9 40 0 AATATAATTT 0.921484 -34 CTTCAGGTGAATTAAAAGCTTTTTTGATGTTC 10 32 1 ATTAAAATTT 0.735477 -81 TTTGTCTGCAATTTTGAAATTTCATGAACATC 10 57 0 ATTTTGATTT 0.597391 -56 ATACTTGATATATTCAATTTTTACGCGTTTAG 11 107 0 TATTCAATTT 0.801472 -99 TCTTACTATTTTTACGAAATTTTTTCAAATAA 12 49 1 TTTACGATTT 0.628547 -102 ATTTTATCTCAATTTAAGATTTTGATTTGACA 12 92 0 AATTTAATTT 0.865694 -59 TTGCGAAAGATTTAAAACTTTTCGGTAGGAGT 12 123 1 TTTAAAATTT 0.804639 -28 GGCAAGGGTGTTTAAAAGGTTTTAGAGTTGAG 17 18 0 TTTAAAATTT 0.804639 -33 ACACGCAGAAAATATAAGGTTTTGGT 18 20 1 AATATAATTT 0.921484 -16 TTTTTGTGATTATTTAAATTTTGCCAAGTTAA 19 271 0 TATTTAATTT 0.905198 -30 GCGTAAAATTAATAAAATCTTTTGTATT 20 46 1 AATAAAATTT 0.835052 -18 AGCAATCTGCTATTTGACGTTTCCCATAGCTC 23 53 0 TATTTGATTT 0.800086 -33 ******* *** Masking position 3 Map Score: 18.6174 Number of sites scoring better than the average of aligned sites = 213 Number in coding regions = 52 Number in noncoding regions = 161 Number of orfs with sites within 600 bp upstream = 193 Fraction of orfs with sites within 600 bp upstream = 0.030999 Motif number 2 CAATAAAAAAGGGGTGGTGGT 1 121 1 GGGGTGGTGG 0.960807 -11 GAACTAAATGCGGGGGGAGGGATTCGAACC 5 135 1 CGGGGGGAGG 0.963303 -166 TGTCCCGTAGGGGTTCGAGGGTTCGAATCC 5 154 0 GGGTTCGAGG 0.937422 -147 CATCTGAGCGGGGGTTGCCGAGCGGACAAA 5 203 0 GGGGTTGCCG 0.981137 -98 GCTACCCCACGGGGGCGACGTGGAAAAATT 8 44 0 GGGGGCGACG 0.982563 -97 TCGCCCCCGTGGGGTAGCGGATATCCTGAG 8 56 1 GGGGTAGCGG 0.970542 -85 GATATCCTGAGGGGCTGCGGACTCCTCGAC 8 75 1 GGGGCTGCGG 0.976243 -66 GAGTTGAACCCGGGTCGAGGAGTCCGCAGC 8 88 0 CGGGTCGAGG 0.973975 -53 AACTCCCGGCGGGGGCATGGAATTTTTAAT 8 113 1 GGGGGCATGG 0.818719 -28 CCACCTCCTGCGGTGTGCGGTGAAGGCCA 15 10 0 CGGTGTGCGG 0.896282 -291 GAAAAAGATGGGGGTTGATGAAGTGTTTAT 15 212 1 GGGGTTGATG 0.891421 -89 TTTCCGAAATGGGGGTGCCGGGAATAAACA 15 235 0 GGGGGTGCCG 0.985871 -66 ********** Masking position 3 Map Score: 15.1179 Number of sites scoring better than the average of aligned sites = 433 Number in coding regions = 398 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 3 ATTGAAAGTGGACGTGTAAATCTTCTTTTCGTCA 5 46 1 GAGTGTATTT 0.709449 -255 TAGTTCTACTGCAGTGGCAATGTTGGAGAATGAA 6 83 0 GCGTGGATTT 0.985491 -115 CCACGGGGGCGACGTGGAAAAATTGGACTCTTGC 8 34 0 GAGTGGAATT 0.941426 -107 ATTGGGGGCAGCAGCGGTCATTGCAGCTGGAGAA 14 23 0 GCGCGGATGC 0.934873 -199 CACACCGCAGGAGGTGGCGATGGCTGCAGTGGAT 15 23 1 GAGTGGATGC 0.972849 -278 AGTGGATGAAGACGTGGATGTTGTGGGCATAAGT 15 50 1 GAGTGGGTGT 0.921587 -251 AGTCTTCACAGCGGTGCTCATCTTGCTTTAGTGC 15 81 1 GCGTGCATTT 0.888803 -220 TTTACCCGCCGCTGTGGGCATTGCGAGGAGCAGA 19 16 1 GCGTGGATGC 0.963509 -285 TCAGGCTGAGGCGGTGGAGAAGGTCTTTTCCGGC 19 55 0 GCGTGGAAGT 0.987412 -246 CTCAAGTTATGCTGTTGGCATTTTAAAGGAGGAG 19 112 0 GCGTTGATTT 0.830708 -189 TTGAAAACTTGAAGTGGTGAAGGTGGAGGAGCTT 19 157 0 GAGTGGAAGT 0.972609 -144 GAGGGTTAGAGCTATGGGAAACGTCAAATAGCAG 23 45 1 GCATGGAAGT 0.848982 -41 ** **** ** ** Masking position 1 Map Score: 9.50072 Number of sites scoring better than the average of aligned sites = 369 Number in coding regions = 343 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 4 TGATAATGAATTTAAATTTGCTCATTAAATG 2 46 1 TTTAAATTGC 0.921413 -41 TTAATTGCAATTAAAATTGCCATTTAATGGC 4 23 1 TTAAAATTCC 0.942007 -60 TTATTGACATTAAAAATTCCATGCCCCCGC 8 121 0 TTAAAAATCC 0.8524 -20 CAAAAAAGCTTTTAATTCACCTGAAGACCAA 10 27 0 TTTAATTCCC 0.873908 -86 ATTATCTATTTTTAAATCGGCACATTACGTA 11 166 1 TTTAAATCGC 0.906067 -40 ATAACGGTGATTAAATTCGGCGAAACACCTG 14 72 1 TTAAATTCGC 0.833412 -150 TCCCATTTGATTTAAATCACCTCCTTATGGG 14 168 1 TTTAAATCCC 0.930376 -54 GGAGAGTTATTTAAAATTACCCATAAGGAGG 14 187 0 TTAAAATTCC 0.942005 -35 ACCCTCCTCCTTTAAAATGCCAACAGCATAA 19 109 1 TTTAAAATCC 0.8524 -192 CAACGGTGCATTAAAAATTGCTCCTCGTTAA 19 188 1 TTAAAAATGC 0.806526 -113 TTGTGATTATTTAAATTTTGCCAAGTTAAAC 19 269 0 TTAAATTTGC 0.858779 -32 AGCAAACTATTTTAATTTGCCTTAAACATTA 21 24 1 TTTAATTTCC 0.893896 -26 ******** ** Masking position 5 Map Score: 12.7689 Number of sites scoring better than the average of aligned sites = 69 Number in coding regions = 42 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 5 AGAACTAAATGCGGGGGGAGGGATTCGAACC 5 134 1 GCGGGGGAGG 0.958057 -167 CCGAGCGGACAAAGGCGCAGGATTGAGGGTC 5 185 0 AAAGGGCAGG 0.925876 -116 ATTGTGGTTTAAAGGGCGATGACTTCATATA 5 259 1 AAAGGCGATG 0.842037 -42 GTAGAAGGTGGATTTCAAAGTTAT 5 287 0 GAAGGGGATT 0.948779 -14 CAAATTCGGTACAGGCGGATTATCTATTTTT 11 148 1 ACAGGGGATT 0.892128 -58 TAAGAATTATAAAGGAGGATTCCAAATATGA 12 23 0 AAAGGGGATT 0.920732 -128 ACCGCACACCGCAGGAGGTGGCGATGGCTGC 15 19 1 GCAGGGGTGG 0.939068 -282 TTGGCATTTTAAAGGAGGAGGGTATAGAAGA 19 101 0 AAAGGGGAGG 0.98974 -200 TTGAAGTGGTGAAGGTGGAGGAGCTTGCTGA 19 152 0 GAAGGGGAGG 0.993541 -149 GAGCAGGGTAGAATGGGGAGGTATAAACCT 24 10 0 GAATGGGAGG 0.930748 -21 ***** ***** Masking position 5 Map Score: 9.50598 Number of sites scoring better than the average of aligned sites = 842 Number in coding regions = 807 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 6 TACACGTCCACTTTCAATCCCATTTTGGTC 5 34 0 CTTTCAATCC 0.834379 -267 GGGATTCGAACCCTCGAACCCCTACGGGAC 5 153 1 CCCTCGAACC 0.92108 -148 CGGGACAGGACCCTCAATCCTGCGCCTTTG 5 177 1 CCCTCAATCC 0.99233 -124 AGTCCTAAAGCCGACAATCCTTAAA 7 141 1 CCGACAATCC 0.964283 -15 ACCGCTGCTGCCCCCAATCCGACGATTGTG 14 39 1 CCCCCAATCC 0.983132 -183 GTTTATAATCCCGTCAATCCTTTATTAGCT 22 13 1 CCGTCAATCC 0.988867 -21 ********** Masking position 7 Map Score: 3.91826 Number of sites scoring better than the average of aligned sites = 97 Number in coding regions = 89 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 7 ATTCAATTTTTTAAGATGATAATGAATTTAAATTTG 2 30 1 TTGATGAGAA 0.624219 -57 TTCGTTGAGTTTGGGAGGTTCAAGAAGCATGTCCAA 5 97 0 TTGAGGTGAA 0.943248 -204 GAAGGTGGATTTCAAAGTTATATGAAGTCATCGCCC 5 272 0 TTAAGTTGAA 0.951394 -29 TTGATGGAAGTTCAAAGTTATGCGAATATTCCAGAA 6 39 0 TTAAGTTGAA 0.961655 -159 GAGAATGAAATTGCAAGTTGATGGAAGTTCAAAGTT 6 56 0 TTAAGTTGAA 0.964929 -142 TCTACTGCAGTGGCAATGTTGGAGAATGAAATTGCA 6 77 0 TGAATGTGAA 0.733397 -121 AAATTTTATCTTTAAAATTTTAAGAATCAGATATAG 6 122 0 TTAAATTGAA 0.809729 -76 TCAAAAAAGCTTTTAATTCACCTGAAGACCAAACCA 10 23 0 TTAATTCGAA 0.80257 -90 TTAAAAGCTTTTTTGATGTTCATGAAATTTCAAAAT 10 43 1 TTGATGTGAA 0.934845 -70 TTTATAATTCTTACTATTTTTACGAAATTTTTTCAA 12 41 1 TTTATTTGAA 0.789088 -110 TTGACATACTTTGAAATTTATTTGAAAAAATTTCGT 12 62 0 TTAATTTGAA 0.958233 -89 TTTAAAAGGTTTTAGAGTTGAGCGAATTT 17 4 0 TTGAGTTGAA 0.95769 -47 CAGCAAACTATTTTAATTTGCCTTAAACATTAGAGC 21 23 1 TTAATTTTAA 0.610053 -27 ** ***** *** Masking position 6 Map Score: 5.09465 Number of sites scoring better than the average of aligned sites = 131 Number in coding regions = 99 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 36 Fraction of orfs with sites within 600 bp upstream = 0.0057822 Motif number 8 GATGATAATGAATTTAAATTTGCTCATTAAATG 2 44 1 AATTTATTTC 0.587586 -43 GTCGTGTAATATTTAATGTTTTCGTGAAATATG 3 46 0 ATTTAATTTC 0.741166 -34 AAATATAAAAATTTTATGTTTGCCATTAAATGG 4 42 0 ATTTTATTTC 0.946634 -41 AAATTTTTATATTTTTAGTTTACTTTCATACT 4 61 1 ATTTTTTTTC 0.952092 -22 CCTATGCAGAATTTTTCATCTGAGCGGGGGTTG 5 216 0 ATTTTTTCTA 0.525643 -85 GTCAAAACAAATTTTATCTTTAAAATTTTAAGA 6 133 0 ATTTTATTTA 0.886355 -65 TGCAAGATAAATCTTTCCTTTAAAAA 8 4 0 ATCTTTTTTA 0.525643 -137 GGGGCATGGAATTTTTAATGTCAATAA 8 124 1 ATTTTTTGTA 0.525643 -17 GATTTTAACTTCTCATTTTCAAAA 9 60 0 ATTTTATTCC 0.692268 -14 ATTTTTATTTTTATATTTTTGTT 11 1 1 ATTTTTTTTA 0.897308 -205 TTATTTTTATATTTTTGTTTTTAACACGCTGTT 11 15 1 ATTTTTTTTA 0.897308 -191 ACGCGTTTAGATTTTTCATTTGCTCTCGTAATT 11 84 0 ATTTTTTTTC 0.952092 -122 AAATGGGTCTATATTTCTTTTTC 13 1 0 ATATTTTTTC 0.629692 -35 ATATAGACCCATTTTTTACTTGAAGC 13 20 1 ATTTTTCTTA 0.509846 -16 TTTTGTGATTATTTAAATTTTGCCAAGTTAAAC 19 269 0 ATTTAATTTC 0.741166 -32 TCAGCAAACTATTTTAATTTGCCTTAAACATTA 21 22 1 ATTTTATTGC 0.692268 -28 GCAATCTGCTATTTGACGTTTCCCATAGCTCTA 23 51 0 ATTTGATTTC 0.706468 -35 ****** *** * Masking position 4 Map Score: 6.39699 Number of sites scoring better than the average of aligned sites = 147 Number in coding regions = 84 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 67 Fraction of orfs with sites within 600 bp upstream = 0.0107613 Motif number 9 TTATTGAATAATAATTTCGTATGAGTATTC 1 97 0 ATAATTTCGT 0.851452 -35 TTTATCTGACAAAATAGCGATTGGATATTA 7 88 0 AAAATAGCGA 0.884406 -68 AATAACTTTAATAATTTCGTACAGCCTTTC 10 87 1 ATAATTTCGT 0.851452 -26 CAGTACGCTAAAAACAGCGTGTTAAAAACA 11 30 0 AAAACAGCGT 0.847351 -176 TTTATTTGAAAAAATTTCGTAAAAATAGTA 12 52 0 AAAATTTCGT 0.929455 -99 AAATTGAGATAAAATTGCGAAAGATTTAAA 12 109 1 AAAATTGCGA 0.884406 -42 TTTCAGCTCGACAATATCGTCTGTCGGAAT 15 186 0 ACAATATCGT 0.824692 -115 TCTTTCACAAAAAATAGCGTAAAATTAATA 20 30 1 AAAATAGCGT 0.954333 -34 ********** Masking position 4 Map Score: 3.10057 Number of sites scoring better than the average of aligned sites = 67 Number in coding regions = 55 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 10 CAACATTAAGTAAAGGTTATATACCAAATC 6 165 1 TAAAGGTTAT 0.757343 -33 CAGGTGAATTAAAAGCTTTTTTGATGTTCA 10 35 1 AAAAGCTTTT 0.487809 -78 TTATCTCAATTTAAGATTTTGATTTGACAT 12 91 0 TTAAGATTTT 0.593675 -60 GAATGGATAAGGTTATGATTAATTAA 16 16 0 ATAAGGTTAT 0.82052 -16 AAGGGTGTTTAAAAGGTTTTAGAGTTGAGC 17 17 0 AAAAGGTTTT 0.863549 -34 CGCAGAAAATATAAGGTTTTGGT 18 23 1 ATAAGGTTTT 0.897027 -13 AAACAATTGAAAAAGGATTTAAATAGAACA 19 243 0 AAAAGGATTT 0.804825 -58 AATACAAAAGATTTTATTAATTTTA 20 49 0 AAAAGATTTT 0.779989 -15 ********** Masking position 4 Map Score: 1.76856 Number of sites scoring better than the average of aligned sites = 99 Number in coding regions = 72 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 11 GGGGTTCGAGGGTTCGAATCCCTCCCCCCGCATTT 5 140 0 GGTATCCCTC 0.974192 -161 GCAGGATTGAGGGTCCTGTCCCGTAGGGGTTCGAG 5 165 0 GGTTTCCCGA 0.959098 -136 CCTCGACCCGGGTTCAACTCCCGGCGGGGGCATGG 8 98 1 GGTATCCCGC 0.996471 -43 CTTGTTTATCGGAGGTTTTCCCGACCTCTGGCAAA 14 117 0 GGGTTCCCGC 0.974399 -105 GGTTGATGAAGTGTTTATTCCCGGCACCCCCATTT 15 224 1 GTTATCCCGC 0.989639 -77 AGGTTTATAATCCCGTCAATCCTTTAT 22 3 1 GTTATCCCGC 0.989639 -31 ** * * ***** * Masking position 9 Map Score: 2.64129 Number of sites scoring better than the average of aligned sites = 51 Number in coding regions = 29 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 12 GAACAACAACTGACGAAATGAGCACGATTTG 1 40 1 TGCGAAATGA 0.613882 -92 AATTCATATTTCACGAAAACATTAAATATTA 3 42 1 TCCGAAAACA 0.949361 -38 ATATCTCTGATGACGAAAAGAAGATTTACAC 5 59 0 TGCGAAAAGA 0.918693 -242 GCAAAGATTCTCTCGAAAACAGGTGTTTCGC 14 91 0 TCCGAAAACA 0.949361 -131 TTTCCCGACCTCTGGCAAAGATTCTCTCGAA 14 105 0 TCGGCAAAGA 0.876761 -117 TTGCCAGAGGTCGGGAAAACCTCCGATAAAC 14 118 1 TCGGAAAACC 0.75941 -104 ATATTGTCGAGCTGAAAAAGATGGGGGTTGA 15 199 1 GCGAAAAAGA 0.80765 -102 AAACCAAGCTGCCAGAAAAGAGGAAGAAAGA 15 280 1 GCAGAAAAGA 0.823146 -21 GCAGATTTTTGCCGGAAAAGACCTTCTCCAC 19 45 1 GCGGAAAAGA 0.960457 -256 ATTTAAATAATCACAAAAAGAGCCTGC 19 284 1 TCCAAAAAGA 0.879586 -17 ** ******** Masking position 7 Map Score: 1.83716 Number of sites scoring better than the average of aligned sites = 370 Number in coding regions = 342 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 13 TACACTTTAATTGCAATTAAAATTGCCATT 4 17 1 TTGCAATTAA 0.9469 -66 AATTTTATGTTTGCCATTAAATGGCAATTT 4 36 0 TTGCCATTAA 0.965563 -47 TTATTGACATTAAAAATTCCATG 8 128 0 TTGACATTAA 0.946815 -13 TAATTAATTATTGACATTAAAGCTAAATAC 11 59 0 TTGACATTAA 0.946815 -147 ACCGAATTTGTTCCAATTAATACTTGATAT 11 128 0 TTCCAATTAA 0.803496 -78 TTGACATACTTTGAAATTTATTTGAAAAAA 12 68 0 TTGAAATTTA 0.736701 -83 ********** Masking position 6 Map Score: 1.44398 Number of sites scoring better than the average of aligned sites = 21 Number in coding regions = 13 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 14 AAGAATCAGATATAGCCACATAGTTCTACT 6 107 0 TATAGCCACA 0.825592 -91 ATAAAGTCCTAAAGCCGACAATCCTTAAA 7 137 1 AAAGCCGACA 0.830914 -19 TAATCACCGTTATTGCCACAATCGTCGGAT 14 55 0 TATTGCCACA 0.888985 -167 TGTGAAGACTTATGCCCACAACATCCACGT 15 61 0 TATGCCCACA 0.982601 -240 TTGGTGGAGTTATTCCGACAGACGATATTG 15 175 1 TATTCCGACA 0.912388 -126 TGCTCCTCGCAATGCCCACAGCGGCGGGTA 19 18 0 AATGCCCACA 0.978365 -283 CCTCCTTTAAAATGCCAACAGCATAACTTG 19 114 1 AATGCCAACA 0.896665 -187 ********** Masking position 8 Map Score: 1.39516 Number of sites scoring better than the average of aligned sites = 92 Number in coding regions = 85 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701 Motif number 15 GCACTAAAGCAAGATGAGCACCGCTGTGAA 15 85 0 AAGATGAGCA 0.879288 -216 AACTCCACCAACGAGGATCAGCATCTCATC 15 156 0 ACGAGGATCA 0.9666 -145 TGTGGGCATTGCGAGGAGCAGATTTTTGCC 19 28 1 GCGAGGAGCA 0.98539 -273 CATGAGTTTAACGAGGAGCAATTTTTAATG 19 196 0 ACGAGGAGCA 0.991378 -105 ********** Masking position 4 Map Score: 0.0942768 Number of sites scoring better than the average of aligned sites = 60 Number in coding regions = 56 Number in noncoding regions = 4 Number of orfs with sites within 600 bp upstream = 3 Fraction of orfs with sites within 600 bp upstream = 0.00048185