AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00860_ecoli_reg_100.orf -o00860_ecoli_100.ace -a/home/amcguire/alignace/lib/ORF_ecoli.txt -z/skink1/amcguire/genomes/ecoli.fna -g0.51 -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 = 0.51 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 hemL 224 glutamate-1-semialdehyde aminotransferase (aminomutase) #2 proB 287 gamma-glutamate kinase #3 hemB 136 5-aminolevulinate dehydratase = porphobilinogen synthase #4 hemH 235 ferrochelatase: final enzyme of heme biosynthesis #5 hemA 213 enzyme in alternate path of synthesis of 5-aminolevulinate #6 yciK 219 putative oxidoreductase #7 uidA 300 beta-D-glucuronidase #8 gltX 258 glutamate tRNA synthetase, catalytic subunit #9 amiA 102 N-acetylmuramoyl-l-alanine amidase I #10 epd 284 D-erythrose 4-phosphate dehydrogenase #11 nirC 300 nitrite reductase activity #12 hemX 21 uroporphyrinogen III methylase #13 hemC 300 porphobilinogen deaminase = hydroxymethylbilane synthase #14 hemG 163 protoporphyrin oxidase #15 fpr 96 ferredoxin-NADP reductase #16 glpX 97 unknown function in glycerol metabolism #17 glpK 22 glycerol kinase #18 glpF 300 facilitated diffusion of glycerol #19 yjaD 94 orf, hypothetical protein #20 hemE 39 uroporphyrinogen decarboxylase Motif number 1 AGGCTGCTTGTACTGGTGCAATCCTGATTTCTTAGAGTATAAAAG 1 110 0 TCGGCCGCAG 0.915199 -115 GTTAAAAACTTTCCTGTTTTCAACGGGACTCTCCCGCTGAATATT 2 39 0 TCGTACGCCC 0.898846 -249 CTGATAAGTTTGCTTGTGCGGGCCTGTTCCCCTCACCCTAACCCT 4 53 0 TCGGCCGCCA 0.990727 -183 TTGTCTTAATTGCCAGAATCTAACGGCTTTCGGCAATTACTCCAA 5 91 1 TCGAACGCCA 0.994057 -123 AGGGTTAGTCTGCTTGCATCATACAGGATGCGTAAGATCAATAAA 5 151 0 TCGAACGCAA 0.979916 -63 CGGCTTAACATGCCTGTTGTAAACTGTGAGCCAAAGCGTTGTTTA 6 27 0 TCGTACGCAA 0.931333 -193 TTCCATGGGTTTCTCACAGATAACTGTGTGCAACACAGAATTGGT 7 212 1 TCAAACGCCA 0.9179 -89 CACTTAATTTTTCCAGGATTTGCCGGTTGTCGGCATCTTTCTAAA 8 210 1 TCGACCGCCA 0.994225 -49 CGGCTAACGCTGCGCGCATTGCACGCCTGTCGGCAAATAACCCGC 11 87 1 TCGAACCCCA 0.943085 -214 CTGATAACTTTACCAGTATGAACCCGGTGGCTAAATGGATCCTGA 14 41 1 TCGACCGCAA 0.980283 -123 TCCCGAAACGTGCGGGGGCAACCCCGCACACATCAATAATCCCTC 16 13 1 TCGGCCGCCA 0.990854 -85 GCGGCACGCCTTGCAGATTACGGTTTGCCACACTTTTCATCC 18 8 1 GCGAACGCCA 0.963993 -293 GTTTGTTGTATGCGTGAAAGTCACGGACCTCCACGATGCTTGTAG 18 244 0 TCGAACGCCG 0.983286 -57 * * * * ** * * ** Masking position 14 Map Score: 17.6228 Number of sites scoring better than the average of aligned sites = 232 Number in coding regions = 212 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 2 TTGTACTGGTGCAATCCTGATTTCTTAGAGT 1 117 0 GCATCCTGAT 0.657604 -108 GGAGGGTTCCTGATTCGTAGAAAA 1 211 0 GGTTCCTGAT 0.94754 -14 TTTCATTCCTGATTTTAATTAAC 2 3 1 TCTTCCTGAT 0.855484 -285 CAGGTTAAAAACTTTCCTGTTTTCAACGGGA 2 56 0 ACTTCCTGTT 0.878211 -232 ACTGCCGCTAGGCTTGCTGATCCCGCGCAAC 2 167 1 GGTTGCTGAT 0.972575 -121 GAATATAAAATTATTGCTGTTTCTATTAAAA 3 31 1 TTTTGCTGTT 0.634746 -106 ATCCGGCCTGAGATTGCTGATAAGTTTGCTT 4 83 0 AGTTGCTGAT 0.941356 -153 TCCTTGAGATACGTTGCAGTTATAACCCTTA 5 23 1 ACTTGCAGTT 0.791964 -191 CACGCTGTGGGTATTGCAGTTTTTGGTTTTT 7 145 1 GTTTGCAGTT 0.623507 -156 CCGTTACGACGGTTTGCTGTTGAGAATTGTT 9 30 0 GGTTGCTGTT 0.964193 -73 TATGGCTTCCTGTTATGAGAG 12 8 0 GGTTCCTGTT 0.932042 -14 TCAATTTAACACCTTGCTGATTGACCGTAAA 13 104 1 ACTTGCTGAT 0.949095 -197 GGGCTTGGCGTGGTTGCTGATAACTTTACCA 14 25 1 TGTTGCTGAT 0.909141 -139 CGAGGTCTTTACATTGCTGGTGCTCTTTACC 14 111 1 ACTTGCTGGT 0.813306 -53 GCGGCACGCCTTGCAGATTACGGTTTGC 18 8 1 GCTTGCAGAT 0.91719 -293 ** ******** Masking position 5 Map Score: 14.5837 Number of sites scoring better than the average of aligned sites = 812 Number in coding regions = 757 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 57 Fraction of orfs with sites within 600 bp upstream = 0.00915516 Motif number 3 TACTCGTCAAACATCAGGCTGCTTGTACTGG 1 139 0 ACTCAGGCTG 0.973914 -86 CTTATCAGCAATCTCAGGCCGGATATTCATT 4 90 1 ATTCAGGCCG 0.980015 -146 CGGTGTTATCGCCCCAGGCTGATTGAAATGC 6 121 1 GCCCAGGCTG 0.950563 -99 AATGCGATCTATATCACGCTGTGGGTATTGC 7 131 1 ATTCACGCTG 0.936852 -170 CTACATTGAGGAATCAGGCGGGAGTGATAGA 8 171 1 GATCAGGCGG 0.955438 -88 TTATTATTACAACTCAGGCCGT 9 91 1 AATCAGGCCG 0.968322 -12 GGGAAGCTTTATTCCAGGCTGGCGTAATAAT 10 37 0 ATCCAGGCTG 0.935972 -248 CCGAGCGTGAAAATCAGGATGATCCCAAGAC 11 174 0 AATCAGGATG 0.785308 -127 GGTTTTTTTAGTTTCACGACGAAAAAATGGT 13 62 1 GTTCACGACG 0.797933 -239 CCTGACAGGCGTTTCACGCCGTTGTAATAAG 13 184 0 GTTCACGCCG 0.962451 -117 GTTCCTTAGTGCGTCAGGCGGTCAGTGTATC 20 12 0 GCTCAGGCGG 0.97119 -28 ** ******** Masking position 6 Map Score: 9.96006 Number of sites scoring better than the average of aligned sites = 795 Number in coding regions = 681 Number in noncoding regions = 114 Number of orfs with sites within 600 bp upstream = 91 Fraction of orfs with sites within 600 bp upstream = 0.0146161 Motif number 4 TTCCTGTTTTCAACGGGACTCTCCCGCTGA 2 44 0 CAACGGGACT 0.763527 -244 TTCTTGTCAACATCGCGACAACTTTCGTAA 3 89 1 CATCGCGACA 0.920849 -48 AAGTTTGCTTGTGCGGGCCTGTTCCCCTCA 4 63 0 GTGCGGGCCT 0.816939 -173 GTCTGCGGGAAATAATACCAAC 5 202 0 CTGCGGGAAA 0.858701 -12 AGTACACTGGCAGCGCGACAGACAACGTCG 6 187 1 CAGCGCGACA 0.948974 -33 CGTTGACAAATTGCGCAACACGGTCTGTTT 8 110 0 TTGCGCAACA 0.519022 -149 GCGGCTAACGCTGCGCGCATTGCACGCCTG 11 86 1 CTGCGCGCAT 0.874205 -215 CGTTACCACTTTTCGCGCCTGGTTTTTTTA 13 42 1 TTTCGCGCCT 0.904743 -259 CCTTCCAGTCCTTCGGGACTGGAATTTTTT 15 29 1 CTTCGGGACT 0.954745 -68 CCCCCGCACGTTTCGGGACT 16 1 0 TTTCGGGACT 0.893392 -97 CTGTGCTACACTTCGCGCCATTCCTTACTG 16 65 1 CTTCGCGCCA 0.958191 -33 TATGACTACGGGACAATTAAAC 17 6 1 CTACGGGACA 0.885368 -17 AATAAATTTGTTGCGCGAATGATCTAACAA 18 91 1 TTGCGCGAAT 0.697617 -210 AAATGAGCGTTATCGCGCCATTTATTCCAT 18 142 0 TATCGCGCCA 0.801165 -159 ********** Masking position 4 Map Score: 9.56527 Number of sites scoring better than the average of aligned sites = 1870 Number in coding regions = 1777 Number in noncoding regions = 93 Number of orfs with sites within 600 bp upstream = 108 Fraction of orfs with sites within 600 bp upstream = 0.0173466 Motif number 5 GAGAGGGTTAGGGTGAGGGGAACAGGCCCGCA 4 50 1 GGTGAGGGAA 0.89324 -186 AGAATCTAACGGCTTTCGGCAATTACTCCAAA 5 105 1 GGTTTGGCAA 0.869111 -109 GTTCGTTCGAGCGTATTGGGAACGATAAACTC 7 52 0 GCTATGGGAA 0.869111 -249 AGGATTTGCCGGTTGTCGGCATCTTTCTAAAC 8 224 1 GGTGTGGCAT 0.983461 -35 CGCATTGCACGCCTGTCGGCAAATAACCCGCT 11 101 1 GCTGTGGCAA 0.983461 -200 GCGCGTATGTGGGTCTTGGGATCATCCTGATT 11 162 1 GGTCTGGGAT 0.907761 -139 GGCGTGAAACGCCTGTCAGGATCCACTGCCAG 13 195 1 GCTGTAGGAT 0.911341 -106 ACTCTGGCAAGGATGTTAGGATGGACCACGG 13 280 1 GGTGTAGGAT 0.911341 -21 CGACCAAACAGCATGTTGGCAATCAGGATCCA 14 76 0 GCTGTGGCAA 0.983461 -88 CCTCCACGATGCTTGTAGGCATGCTGTAAACT 18 230 0 GCTGTGGCAT 0.983461 -71 ** *** ***** Masking position 4 Map Score: 7.79847 Number of sites scoring better than the average of aligned sites = 123 Number in coding regions = 109 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 6 TGTTATGAATAACATAGAATAGCAGCCATTCAC 1 177 1 AAAGAATAGC 0.953342 -48 GATTCGTAGAAAAAGTGAATGGCTGCTATTCTA 1 191 0 AAAGAATGGC 0.986825 -34 ACCATCTGCGAGCAAAGCATGGCGTTTTGTTGC 2 193 0 AGAGCATGGC 0.965316 -95 CATTTTTCCTAAAATTGAATGGCAGAGAATC 2 267 1 AAAGAATGGC 0.986825 -21 GATGTTGACAAGAAGAGAATGGAAGAGAGGCCA 3 70 0 AGAGAATGGA 0.921459 -67 GTCAAATCAGAAAAAGGAATAGCGCAGATTGAG 4 138 0 AAAGAATAGC 0.953342 -98 AACTCTAAGCAGTAAGGAATGGCGCGAAGTGTA 16 71 0 AGAGAATGGC 0.989065 -27 ** * ******* Masking position 9 Map Score: 5.40081 Number of sites scoring better than the average of aligned sites = 31 Number in coding regions = 25 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 7 GGGATCAGCAAGCCTAGCGGCAGTTGTTTACGCTTTTA 2 153 0 ACCTGGTGTT 0.741586 -135 GTCCCCTCGCCCCCTCGGGGAGAGGGTTAGGGTGAGGG 4 31 1 CCCTGGGGTT 0.988519 -205 TGCAGTTATAACCCTTAATGCTAGCGTTACCGTCCGCT 5 37 1 ACCTAGGGTT 0.891722 -177 AGTCTGCTTGCATCATACAGGATGCGTAAGATCAATAA 5 152 0 CTCAAGGGTA 0.686543 -62 GGGAAATAATACCAACGTTGATAGGGTTAGTCTGCTTG 5 180 0 ACAAGGGGTT 0.83404 -34 GGCTACTCCTCAACGACGTTGTCTGTCGCGCTG 6 197 0 CCCTAGTGTC 0.665756 -23 TGTGTGGAGTCGCATTATAGGGAGAGTTCAAAATGAGT 8 15 1 CCATAGGGTT 0.9531 -244 GCAAGATGATCGCAAAACAGACCGTGTTGCGCAATTTG 8 96 1 CCAAAGGGTT 0.953099 -163 TTCTACCTTACGCATTATTGTTTTCGTTGACAAATTGC 8 126 0 CCATAGTGTT 0.814945 -133 CGCCTGATTCCTCAATGTAGTTCGGGTTTCTACCTTAC 8 153 0 CCAAGGGGTT 0.970299 -106 CGGAGCTGACCCAAAAGCCGAGCGGGTTATTTGCCGAC 11 115 0 CAAAGGGGTT 0.665459 -186 GGGTCAGCTCCGCCATGGCGGGCGCGTATGTGGGTCTT 11 141 1 CCCAGGGGTA 0.970424 -160 CCTTTGGTATCGCCTTAACGCTGGTGATTATCGCCGGT 11 249 1 CCCTAGGGAT 0.820837 -52 CCACTTTTCGCGCCTGGTTTTTTTAGTTTCACGACGAA 13 47 1 CCCTGTTGTT 0.496533 -254 CCATCATTCACGCCAGAAAGTCGGGGTAAAGAGCACCA 14 128 0 CCCAAGGGTA 0.953281 -36 TTCCTTAGTGCGTCAGGCGGTCAGTGTATCA 20 4 0 CTCAGGGGTA 0.778855 -36 * *** * * * *** Masking position 16 Map Score: 8.94668 Number of sites scoring better than the average of aligned sites = 1061 Number in coding regions = 975 Number in noncoding regions = 86 Number of orfs with sites within 600 bp upstream = 80 Fraction of orfs with sites within 600 bp upstream = 0.0128493 Motif number 8 CGAATATTCAGCGGGAGAGTCCCGTTGAAAA 2 37 1 GCGGAGAGTC 0.972058 -251 AAAATTGAATGGCAGAGAATC 2 277 1 GGCGAGAATC 0.830243 -11 GCAATCTCAGGCCGGATATTCATTCGGCCTT 4 97 1 GCCGATATTC 0.897869 -139 CAGGCATAAAGCCCCAAAGTCATAAAGTACA 6 162 1 GCCCAAAGTC 0.858446 -58 TGAATATTTTGGGGGGAATTCT 7 2 0 GGGGGAATTC 0.750873 -299 AAAATTAAGTGGGCGATATTCTATCACTCCC 8 190 0 GGGGATATTC 0.848757 -69 AAATTACCGAGCGTGAAAATCAGGATGATCC 11 180 0 GCGGAAAATC 0.945856 -121 CATCATTCACGCCAGAAAGTCGGGGTAAAGA 14 134 0 GCCGAAAGTC 0.976602 -30 TTTGTTGTATGCGTGAAAGTCACGGACCTCC 18 257 0 GCGGAAAGTC 0.981024 -44 *** ******* Masking position 8 Map Score: 3.08859 Number of sites scoring better than the average of aligned sites = 317 Number in coding regions = 289 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912 Motif number 9 AATAAATTACCACATTTTAAGAATATTATTA 2 112 0 CACATTTTAG 0.972638 -176 CGTTCGGTTGCTTATTTTATGGCTTCTGTCA 7 83 1 CTTATTTTAG 0.885323 -218 TGTGTGGAGTCGCATTATAGGGAGAGTTCAA 8 15 1 CGCATTATAG 0.881045 -244 ACTGCCAGACCTCATTTTACGGTTTGCGCAG 13 219 1 CTCATTTTAG 0.980772 -82 CGCGATAACGCTCATTTTATGACGAGGCACA 18 155 1 CTCATTTTAG 0.980747 -146 ACGAGGCACACACATTTTAAGTTCGATATTT 18 176 1 CACATTTTAG 0.972638 -125 ********* * Masking position 6 Map Score: 2.90436 Number of sites scoring better than the average of aligned sites = 32 Number in coding regions = 15 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 10 GACAGTCCCCTCGCCCCCTCGGGGAGAGGGTT 4 27 1 TCCCCCTCGG 0.857867 -209 ATAAAAGAGAGCGCCCCCTTTTGGAGTAATTG 5 124 0 GCCCCCTTTT 0.880711 -90 GAGTCCCCACCTTGGTTAAACAACG 6 4 1 TCCCCCTTGG 0.962732 -216 GTTGTCTGTCGCGCTGCCAGTGTACTTTATGA 6 181 0 GCCTCCAGTG 0.812337 -39 TATTTCCATTTCTCTTCCATGGGTTTCTCACA 7 198 1 TCCTCCATGG 0.849929 -103 CAAATAACCCGCTCGGCTTTTGGGTCAGCTCC 11 120 1 GCCGCTTTTG 0.848965 -181 TTTTGGGTCAGCTCCGCCATGGCGGGCGCGTA 11 137 1 GCCCCCATGG 0.976446 -164 CGATCCATCCGTACGCCCTTTGGTGATGGGCG 11 214 1 GTCGCCTTTG 0.848965 -87 TTGGTGATGGGCGCGACCTTTGGTATCGCCTT 11 233 1 GCCGCCTTTG 0.984695 -68 AGCTCTTGCACTACCTTTGCATCACTGGC 19 76 0 GCCTCCTTTG 0.976143 -19 ** ** ****** Masking position 7 Map Score: 4.03425 Number of sites scoring better than the average of aligned sites = 430 Number in coding regions = 396 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 43 Fraction of orfs with sites within 600 bp upstream = 0.00690652 Motif number 11 AACATCCCTACCCTGCTTCAGGTATACT 3 119 1 CCTGCTCAGT 0.706098 -18 TTAAACAACGCTTTGGCTCACAGTTTACAACAG 6 26 1 CTTGGTCACG 0.732387 -194 GCAATAACATCTCTGCGAGACGGCTTAACATGC 6 59 0 CTTGCAGACG 0.973694 -161 ACAGATAACTGTGTGCAACACAGAATTGGTTAA 7 227 1 GTTGCACACG 0.964636 -74 ATCAGTCGCAGTTTGCGACAGGTAAGGTTTCCC 10 199 1 GTTGCACAGT 0.859821 -86 CCCTGAGCAAATTTGCCAGACAGAGTAATCCAG 10 243 0 ATTGCAGACG 0.784563 -42 AGAGAATAAACGGTGCTACACTTGTATGTAGCG 13 143 0 CGTGCACACT 0.913213 -158 TGTCAGGATCCACTGCCAGACCTCATTTTACGG 13 208 1 CATGCAGACT 0.785351 -93 ATCCTAACATCCTTGCCAGAGTGATGTCAGTGT 13 269 0 CCTGCAGAGG 0.847201 -32 CTCCCTTCCCCTGTGCTACACTTCGCGCCATTC 16 55 1 CTTGCACACT 0.977813 -43 GCAGATTACGGTTTGCCACACTTTTCATCCTTC 18 23 1 GTTGCACACT 0.94644 -278 CTTGCACTACCTTTGCATCACTGGCATGTTTAA 19 68 0 CTTGCTCACG 0.96258 -27 ** *** **** * Masking position 10 Map Score: 4.40938 Number of sites scoring better than the average of aligned sites = 368 Number in coding regions = 339 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 12 TTGTTTACGCTTTTATTACAGATTTAATAA 2 138 0 TTTTATTACA 0.707609 -150 GGCTTTCGGCAATTACTCCAAAAGGGGGCG 5 115 1 AATTACTCCA 0.889996 -99 TCGCCCACTTAATTTTTCCAGGATTTGCCG 8 205 1 AATTTTTCCA 0.61522 -54 TCTGGAACTTTATTATTACAACTCAGGCCG 9 82 1 TATTATTACA 0.707609 -21 CAATTTATTCCAGTTATTGTAG 10 3 1 ATTTATTCCA 0.919114 -282 GTAGGGTTATTATTACGCCAGCCTGGAATA 10 29 1 TATTACGCCA 0.675192 -256 TTGTGGGAAGCTTTATTCCAGGCTGGCGTA 10 42 0 CTTTATTCCA 0.836571 -243 CAAACATTCCTTTTATTCCACGTTTCGCTT 10 122 1 TTTTATTCCA 0.933331 -163 GTATTACTCCATCATTCACGC 14 153 0 TATTACTCCA 0.908823 -11 TTATCGCGCCATTTATTCCATCTGATTGTA 18 133 0 ATTTATTCCA 0.919114 -168 ********** Masking position 4 Map Score: 3.23038 Number of sites scoring better than the average of aligned sites = 137 Number in coding regions = 102 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 13 TTTCTACGAATCAGGAACCCTCC 1 212 1 TCAGGAACCC 0.970391 -13 GAAACGCCTGTCAGGATCCACTGCCAGACC 13 200 1 TCAGGATCCA 0.987664 -101 GGTAAAGTTATCAGCAACCACGCCAAGCCC 14 25 0 TCAGCAACCA 0.940718 -139 ATGTTGGCAATCAGGATCCATTTAGCCACC 14 66 0 TCAGGATCCA 0.987664 -98 CATTAACTCTTCAGGATCCGATT 18 288 1 TCAGGATCCG 0.97915 -13 ********** Masking position 6 Map Score: 3.52306 Number of sites scoring better than the average of aligned sites = 55 Number in coding regions = 49 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 14 GATGACGGCATTTTACTCGCACGTTCCATG 1 41 1 TTTTACTCGC 0.84979 -184 AAACGCCATGCTTTGCTCGCAGATGGTTGG 2 199 1 CTTTGCTCGC 0.93552 -89 GTTTTTGGTTTTTTGATCGCGGTGTCAGTT 7 163 1 TTTTGATCGC 0.906265 -138 ATTGTCGAACATTTAATCGACTGAAACGCT 10 163 0 ATTTAATCGA 0.704533 -122 TCCCCGGACGATTTGCTGGATTACTCTGTC 10 228 1 ATTTGCTGGA 0.815298 -57 ACGCTCGGTAATTTGCTCGATCCATCCGTA 11 197 1 ATTTGCTCGA 0.96386 -104 TTGATTTGATCGATTGAGCCTTC 15 4 1 ATTTGATCGA 0.912473 -93 TATTTCTCGTTTTTGCTCGTTAACGATAAG 18 202 1 TTTTGCTCGT 0.861601 -99 ********** Masking position 4 Map Score: 1.37293 Number of sites scoring better than the average of aligned sites = 243 Number in coding regions = 216 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 15 ACAAGTTAAATACTCGTCAAACATCAGGCT 1 150 0 TACTCGTCAA 0.914572 -75 GTATCTCAAGGACTTGTCATCACT 5 5 0 GACTTGTCAT 0.68969 -209 GGCTACTCCTCAACGACGTTGTC 6 207 0 TACTCCTCAA 0.929878 -13 AAGATAATAATACTGGTCAACCTTTAATCT 7 266 0 TACTGGTCAA 0.791129 -35 AAGGGACTCCTCATTAAGATAATA 7 287 0 GACTCCTCAT 0.955005 -14 ACTCCCGCCTGATTCCTCAATGTAGTTCGG 8 166 0 GATTCCTCAA 0.798656 -93 AAACGTAGACGCCTGCGCAAACCGTAAAAT 13 232 0 GCCTGCGCAA 0.773771 -69 AAATGTGTGTGCCTCGTCATAAAATGAGCG 18 163 0 GCCTCGTCAT 0.893341 -138 GATTGACTCCGCAAGTTTGTATTC 19 5 1 GACTCCGCAA 0.951871 -90 ********** Masking position 4 Map Score: 1.19505 Number of sites scoring better than the average of aligned sites = 193 Number in coding regions = 167 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