AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/genomes/ORF_ecoli.txt -z/home/amcguire/genomes/ecoli.fna -imalT_ecoli_bsub_300.orf -g0.5 -x5 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 = 0 Input sequences: #1 malP 300 maltodextrin phosphorylase #2 malS 300 alpha-amylase #3 malF 153 part of maltose permease, periplasmic #4 malE_malK 364 malE: periplasmic maltose-binding protein; substrate recognition for transport and chemotaxis, malK: ATP-binding component of transport system for maltose #5 lamB 71 phage lambda receptor protein; maltose high-affinity receptor #6 malM 242 periplasmic protein of mal regulon #7 glgD 23 ADP-glucose pyrophosphorylase #8 glgB 300 1,4-alpha-glucan branching enzyme #9 yurJ 181 similar to multiple sugar ABC transporter (ATP-binding protein) #10 yurN 57 similar to sugar permease #11 yurO 80 similar to multiple sugar-binding protein #12 yurP 215 similar to opine catabolism #13 yurQ 102 yurQ #14 yurR 300 similar to opine catabolism #15 yvfL 39 similar to maltodextrin transport system permease #16 yvfK 140 similar to maltose/maltodextrin-binding protein #17 lacR 179 transcriptional regulator (LacI family) #18 yvfI 300 similar to transcriptional regulator (GntR family) #19 yvdH 39 similar to maltodextrin transport system permease #20 yvdG 95 similar to maltose/maltodextrin-binding protein #21 yvdF 112 similar to glucan 1,4-alpha-maltohydrolase #22 yvdE 205 similar to transcriptional regulator (LacI family) #23 yvdD 116 similar to hypothetical proteins #24 msmX 120 multiple sugar-binding transport ATP-binding protein #25 yxkF 183 similar to hypothetical proteins Motif number 1 CTCATCCTGCGGGGGATTAGGCAGGGAGGAGTT 1 208 0 GGGGAAGGCA 0.873258 -93 GCTGTGAAATGCCGGATGCGGCGTGAACGCCTT 3 12 1 GCGGACGGCG 0.998708 -142 GGTTTTGTAGGCCGGACAAGGCGTTCACGCCGC 3 29 0 GCGGAAGGCG 0.998734 -125 ACGTATGTAGGCCTGATAAGACGCGTCAGCGTC 3 65 1 GCTGAAGACG 0.980287 -89 GACAACAACTGCCTGATGCGACGCTGACGCGTC 3 84 0 GCTGACGACG 0.979884 -70 GGCAGTTGTTGTCGGATAAGGCGTGAAAGCCTT 3 104 1 GCGGAAGGCG 0.998734 -50 CTCATTCCAGGACGGATAAGGCTTTCACGCCTT 3 121 0 GCGGAAGGCT 0.978091 -33 ATTCATGATGGGCTGACTATGCGTCATCAGGAG 4 50 1 GCTGAATGCG 0.923835 -315 GCTTTTTTATGGGGGAGGAGGCGGGAGGATGAG 4 107 1 GGGGAAGGCG 0.991855 -258 CAAAACCTGGGCCGGATAAGGCGTTTACGCCGC 6 14 1 GCGGAAGGCG 0.998734 -229 GGCGTTGGTTGCCGAATGCGGCGTAAACGCCTT 6 31 0 GCGAACGGCG 0.976107 -212 GGCAACCAACGCCTGATGCGACGCTTGCGCGTC 6 51 1 GCTGACGACG 0.979884 -192 GCCGTTGTAGGCCTGATAAGACGCGCAAGCGTC 6 70 0 GCTGAAGACG 0.980287 -173 TCAAATGTAGGCCGGATAAGGCGTTTACGCCGC 6 105 1 GCGGAAGGCG 0.998734 -138 CTGTTTTTATGCCGGATGCGGCGTAAACGCCTT 6 122 0 GCGGACGGCG 0.998708 -121 GTTCGTATCATTCGGAACCGGCGGAATTGCCCG 17 24 0 TCGGACGGCG 0.976107 -156 * **** ***** Masking position 6 Map Score: 50.4983 Number of sites scoring better than the average of aligned sites = 828 Number in coding regions = 358 Number in noncoding regions = 470 Number of orfs with sites within 600 bp upstream = 103 Fraction of orfs with sites within 600 bp upstream = 0.0165435 Motif number 2 AATTTGTGAAAAATATAAGGTGTTGGAATGAT 2 13 0 AAATAAGGTG 0.964655 -288 CACAGGATGAGAAGCAAGGGTGAGCGATCTCG 2 198 0 GAAGCAGGTG 0.841659 -103 CCCCCATAAAAAAGCCAGGGGGTGGAGGATTT 4 90 0 AAAGCAGGGG 0.975123 -275 GAGATCACACAAAGCGACGGTGGGGCGTAGGG 4 253 1 AAAGCAGGTG 0.976698 -112 AAGAAAAACGAAATATATGGAGATTTTTGTAG 8 166 0 AAATAAGGAG 0.951982 -135 TAACGGGTCAAAAGATAGGGGGACTTTTCTG 9 161 1 AAAGAAGGGG 0.981257 -21 ATCAAAGAAAAGGTGAAGCTTCGCA 10 4 1 AAAGAAGGTG 0.982451 -54 TCCTTTATAAAAAGAAAAGGTGCGAAGCTTCA 10 24 0 AAAGAAGGTG 0.982451 -34 AGACATTATAATAGAAAAGGTGTTTGCAT 14 282 1 ATAGAAGGTG 0.836731 -19 TAAAACAAAAAAATATATGAAGAAGTAGCGGA 18 134 1 AAATAAGAAG 0.753042 -167 TTCTGCGCTAAAAGCGATGGGGCTTGTCGAA 18 280 1 AAAGCAGGGG 0.975123 -21 ATAGTTTCGTAAATAGAAGGAGGAAAAGAG 20 76 1 AAATAAGGAG 0.951982 -20 AATAAAACGGAAATCAAAGGGGGAAAC 21 96 1 AAATCAGGGG 0.950274 -17 TATTACTGCTAAATATACGATGCAGGCCAAAG 22 132 0 AAATAAGATG 0.80761 -74 GATAATAAGCACAGATAAGGAGGGGATGAAA 22 185 1 ACAGAAGGAG 0.846567 -21 GCTTCAGCGGAAATAGAAGAAGACATGCAGGA 25 29 0 AAATAAGAAG 0.753042 -155 ***** * **** Masking position 7 Map Score: 24.2302 Number of sites scoring better than the average of aligned sites = 163 Number in coding regions = 143 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 3 ATGCCGGATGCGGCGTGAACGCCTTGTCCGGC 3 20 1 CGGCGTAAGC 0.994788 -134 TTGTCGGATAAGGCGTGAAAGCCTTATCCGTC 3 112 1 AGGCGTAAGC 0.937648 -42 TTGCCGAATGCGGCGTAAACGCCTTATCCGGC 6 24 0 CGGCGTAAGC 0.994788 -219 ATGCCGGATGCGGCGTAAACGCCTTATCCGGC 6 115 0 CGGCGTAAGC 0.994788 -128 ACGCCGCATCCGGCATAAAAACAGGTTGTCAT 6 131 1 CGGCATAAAC 0.846743 -112 CGCCCTTTCACGGCGGTAACACGGGTTCGAAT 8 34 1 CGGCGGAAAC 0.989485 -267 AAGTCGTGGTCAGCGTGAACACAGATCAGGAT 14 42 0 CAGCGTAAAC 0.945561 -259 AAGTCCAAAACAGCGGTAATGCAAAAGTCGTG 14 66 0 CAGCGGAAGC 0.984482 -235 CATTCGGAACCGGCGGAATTGCCCGGGAAATG 17 17 0 CGGCGGATGC 0.984508 -163 AACGGCGGGATAGCGTCCGGAAGA 19 3 1 CGGCGGATGC 0.984508 -37 ATATTGGCTTCAGCGGAAATAGAAGAAGACAT 25 35 0 CAGCGGAAAG 0.731331 -149 ****** ** ** Masking position 8 Map Score: 21.7422 Number of sites scoring better than the average of aligned sites = 763 Number in coding regions = 561 Number in noncoding regions = 202 Number of orfs with sites within 600 bp upstream = 80 Fraction of orfs with sites within 600 bp upstream = 0.0128493 Motif number 4 GGGAGGAGTTGCGGGGATGAGCAAGGAAAT 1 188 0 GCGGGGATGA 0.985421 -113 GGGGGATTAGGCAGGGAGGAGTTGCGGGGA 1 201 0 GCAGGGAGGA 0.972255 -100 AGGATGAGAAGCAAGGGTGAGCGATCTCGC 2 197 0 GCAAGGGTGA 0.909397 -104 GACTTACCGCTCAGGGATGAGTTTTGTTTG 2 230 1 TCAGGGATGA 0.747119 -71 AAAAGCCAGGGGGTGGAGGATTTAAGCCAT 4 83 0 GGGTGGAGGA 0.80795 -282 GGCTTTTTTATGGGGGAGGAGGCGGGAGGA 4 106 1 TGGGGGAGGA 0.680324 -259 GGGAGGAGGCGGGAGGATGAGAACACGGCT 4 119 1 GGGAGGATGA 0.93586 -246 GGGCGTAGGGGCAAGGAGGATGGAAAGAGG 4 275 1 GCAAGGAGGA 0.956125 -90 TATGATGTCAGAAAGGATGATTAC 8 287 1 GAAAGGATGA 0.898391 -14 ATTAAAGTCCGCGGGTAGGATTGTCAATAT 12 141 0 GCGGGTAGGA 0.810163 -75 TAAAAACGAGGAGTGAAGGAT 12 205 1 GAGTGAAGGA 0.50531 -11 TATCAATAGAGAAAGGATGATACCATGAGC 14 147 0 GAAAGGATGA 0.898391 -154 CATTCCTACCGAAAGGGTGACAATCA 16 125 1 GAAAGGGTGA 0.808573 -16 GATGGAAGTGGAGAGAATGAGTCTGCCACC 22 25 1 GAGAGAATGA 0.779869 -181 CACAGATAAGGAGGGGATGAAA 22 194 1 GAGGGGATGA 0.966038 -12 CATAAAGAATGCAGGAGTGATGAGG 23 6 0 GCAGGAGTGA 0.763728 -111 ATATATAGATGCGGAGATGACAAG 23 103 1 GCGGAGATGA 0.759447 -14 GCCCATTTTAGCGAGAGGGAATTGCTGTTA 24 56 1 GCGAGAGGGA 0.806632 -65 ********** Masking position 10 Map Score: 19.0675 Number of sites scoring better than the average of aligned sites = 899 Number in coding regions = 810 Number in noncoding regions = 89 Number of orfs with sites within 600 bp upstream = 97 Fraction of orfs with sites within 600 bp upstream = 0.0155798 Motif number 5 AAGGAGGATGGAAAGAGGTTGCCGTATAAA 4 287 1 GAAAGAGGTT 0.944384 -78 GCCCTTTCCTGAAAGCGCTTATACTTATAG 8 218 0 GAAAGCGCTT 0.987916 -83 GCGCTTTCAGGAAAGGGCTTTTTTTTATTT 8 230 1 GAAAGGGCTT 0.949358 -71 AAGGTCGAAGGAAAGCATTTGATTTGGTAA 14 245 1 GAAAGCATTT 0.730288 -56 CGGTAGGAATGAAAGCGCTTTAAAGATAAT 16 106 0 GAAAGCGCTT 0.987916 -35 TTTTAGCGCAGAAAGTGCTTCGCGAACCGC 18 263 0 GAAAGTGCTT 0.926731 -38 TTGTCCTATAGAAAGCGGTTACAACAACTT 20 36 0 GAAAGCGGTT 0.984188 -60 CTCAATATAAGAAAGCGTTTACAATAACAA 24 88 1 GAAAGCGTTT 0.965052 -33 ATATGTAAACGAATGAGGTTTCCCTTTCAG 25 63 1 GAATGAGGTT 0.728027 -121 ********** Masking position 3 Map Score: 11.2465 Number of sites scoring better than the average of aligned sites = 111 Number in coding regions = 102 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 6 CCTGCAAGGTTTTTTTGTTTTTATAAATCA 8 97 1 TTTTTTGTTT 0.848739 -204 TTAGATTTTGTTCTTTATTTTAAAAACAGA 8 136 1 TTCTTTATTT 0.933941 -165 GAAAGGGCTTTTTTTTATTTCTTCGAATAA 8 240 1 TTTTTTATTT 0.928824 -61 CAAATTTACATTTTTTATTTTAGAAATATA 9 68 1 TTTTTTATTT 0.928824 -114 TGCATAATGGTTCTTCATTTTCAGA 11 6 0 TTCTTCATTT 0.85874 -75 CGCGTCTGTTTTCTTCATTTTCATGACGAT 14 113 1 TTCTTCATTT 0.85874 -188 CACTAAGTCATTTTTTATTTAGGTAAAAAA 16 24 1 TTTTTTATTT 0.928824 -117 CTTCATATATTTTTTTGTTTTAATCTGTTT 18 126 0 TTTTTTGTTT 0.848739 -175 GGGAAATCTCTTTTTTATTTCTCTTTGGCC 22 110 1 TTTTTTATTT 0.928824 -96 CACTCCTGCATTCTTTATGTATTTCATATT 23 17 1 TTCTTTATGT 0.746737 -100 ********** Masking position 5 Map Score: 10.5743 Number of sites scoring better than the average of aligned sites = 108 Number in coding regions = 63 Number in noncoding regions = 45 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 7 GTTTCGGTTTTGTAGGCCGGACAAGGCGTT 3 37 0 TGTAGGCCGG 0.995335 -117 CCGAAACGTATGTAGGCCTGATAAGACGCG 3 60 1 TGTAGGCCTG 0.992684 -94 TGACAGCCGTTGTAGGCCTGATAAGACGCG 6 78 0 TGTAGGCCTG 0.992684 -165 GGCTGTCAAATGTAGGCCGGATAAGGCGTT 6 100 1 TGTAGGCCGG 0.995335 -143 TACTCTGTTTTGTGGGCCGCCAAAAGATTT 18 40 0 TGTGGGCCGC 0.947053 -261 CCCCGTAACTTGTAGGTCTGGCTGTTTACG 18 78 0 TGTAGGTCTG 0.954525 -223 ********** Masking position 3 Map Score: 10.4564 Number of sites scoring better than the average of aligned sites = 197 Number in coding regions = 18 Number in noncoding regions = 179 Number of orfs with sites within 600 bp upstream = 52 Fraction of orfs with sites within 600 bp upstream = 0.00835207 Motif number 8 CGTTGCGTATTTTCAAAAAGCGGAAGGTAACT 1 59 0 TTCAAAAACG 0.823372 -242 CTGTATCTAAGTGCAAAAAATGGCCGTTGCGT 1 83 0 GGCAAAAATG 0.93588 -218 GAGCGATCTCGCGCAAAAAACGGCTGAATTTT 2 177 0 GGCAAAAACG 0.986688 -124 GTGATGTTGCTTGCAAAAATCGTGGCGATTTT 4 184 1 TGCAAAAACG 0.971057 -181 TAGCAAAACCTGGGCCGGATAA 6 1 1 TGCAAAACTG 0.69602 -242 AGGCAATAGCGCGCTAAACCCGATAATCAGAG 6 185 0 GGCTAAACCG 0.910971 -58 TTTAGAAATATAGCAAAAATGGGAATCGATTA 9 86 1 TGCAAAAAGG 0.93705 -96 ATGATACCATGAGCGAAAATCGTCATGAAAAT 14 129 0 GGCGAAAACG 0.94541 -172 TTGCCCTAATGTGGAAAAACCGCGAAGTTCGT 14 213 0 GGGAAAAACG 0.88742 -88 TATTAGATATGATCAAAAATGGCGAATTGAAG 18 171 1 GTCAAAAAGG 0.820442 -130 AGCACTTTCTGCGCTAAAAGCGATGGGGCTTG 18 274 1 GGCTAAAACG 0.967239 -27 CAATTCCCTCTCGCTAAAATGGGCAGCGTTCA 24 48 0 TGCTAAAAGG 0.855683 -73 * ******* ** Masking position 6 Map Score: 10.54 Number of sites scoring better than the average of aligned sites = 607 Number in coding regions = 547 Number in noncoding regions = 60 Number of orfs with sites within 600 bp upstream = 71 Fraction of orfs with sites within 600 bp upstream = 0.0114038 Motif number 9 GTATCTAAGTGCAAAAAATGGCCGTTGCGT 1 83 0 GCAAAAAATG 0.752961 -218 GCAATACAGCGCAGAAAATCTGTATCTAAG 1 104 0 GCAGAAAATC 0.939314 -197 GCGCTAAATCGCAGAAAATGTGGGGGTTAT 2 144 1 GCAGAAAATG 0.972134 -157 TTCGCCCCTTTCAGATAATGACAACCTGTT 6 150 0 TCAGATAATG 0.82578 -93 TCGTTTTTCTTCAGAAAATGAAGTTAATTG 8 187 1 TCAGAAAATG 0.973893 -114 TCTGAAAATGAAGAACCATT 11 1 1 TCTGAAAATG 0.82578 -80 TTGAGAAATTTCAGAAAATAATATTGACAA 12 121 1 TCAGAAAATA 0.806415 -95 ATAGCATGCCTGAGAAAATGTGTAAACAAA 16 76 0 TGAGAAAATG 0.813307 -65 CGCTTTTAGCGCAGAAAGTGCTTCGCGAAC 18 266 0 GCAGAAAGTG 0.867897 -35 TCCACTTCCATCAGAAAATCTCTTTT 22 7 0 TCAGAAAATC 0.943022 -199 TGGGCAGCGTTCATAAAATCACCCAGCCAT 24 31 0 TCATAAAATC 0.591166 -90 ********** Masking position 5 Map Score: 8.68984 Number of sites scoring better than the average of aligned sites = 285 Number in coding regions = 258 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 36 Fraction of orfs with sites within 600 bp upstream = 0.0057822 Motif number 10 ATTTGATGCTAATCCTGTGGTTTGCACTAG 1 138 1 AATCCTGTGG 0.589001 -163 TGACCTTCCTCATCCTGCGGGGGATTAGGC 1 219 0 CATCCTGCGG 0.872999 -82 CCTTGCTTCTCATCCTGTGGACTTACCGCT 2 211 1 CATCCTGTGG 0.956059 -90 GCCCTTCTCCCTTTGTAACAACCTGT 4 7 1 CTCCCTTTGT 0.612899 -358 TTAAATCCTCCACCCCCTGGCTTTTTTATG 4 88 1 CACCCCCTGG 0.777626 -277 GCCGTGTTCTCATCCTCCCGCCTCCTCCCC 4 118 0 CATCCTCCCG 0.758106 -247 GTAATCATCCTTTCTGACATCATAG 8 286 0 CATCCTTTCT 0.817978 -15 AGGGTTGGCCTCCTCTGGACATTAGACT 11 63 0 CCTCCTCTGG 0.947088 -18 CTCATGGTATCATCCTTTCTCTATTGATAG 14 148 1 CATCCTTTCT 0.817978 -153 TGATTGTCACCCTTTCGGTAGGAATGA 16 124 0 CACCCTTTCG 0.934199 -17 GTTTCCCCCTTTGATTTCCGTTTT 21 99 0 CCCCCTTTGA 0.71521 -14 CTAACATCCCCCTTTGTTATTGTAAAC 24 104 0 CCCCCTTTGT 0.892039 -17 AAGATGACCCTCCTTTGGTCCTGCATGT 25 9 1 CCTCCTTTGG 0.961744 -175 ********** Masking position 5 Map Score: 6.55346 Number of sites scoring better than the average of aligned sites = 406 Number in coding regions = 343 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 65 Fraction of orfs with sites within 600 bp upstream = 0.0104401 Motif number 11 ACTCCTTTACTTAATTTATAGAGTTACCTTCCGCTT 1 38 1 TTTATAGGTA 0.870593 -263 TGGAAAGAGGTTGCCGTATAAAGAAACTAGAGTCCG 4 295 1 TTTATAAGAA 0.809268 -70 AACCTATTATTTATATTATAATGTATTATGACGTTA 9 27 1 TTTATAAGTT 0.896031 -155 AAATGTAAATTTGTATTATAACGTCATAATACATTA 9 45 0 TTTATAAGTA 0.971343 -137 CCATTATGCATTAGACTATAATGTTATATAACATTA 11 26 1 TTTATAAGTA 0.966805 -55 CCTCTGGACATTAGACTATAATGTTATATAACATTA 11 44 0 TTTATAAGTA 0.966805 -37 CTCCTCGTTTTTATTATATAACGTTATATAACATTA 12 182 0 TTTATAAGTA 0.971343 -34 CAAACACCTTTTCTATTATAATGTCTATTCATTTTA 14 272 0 TTTATAAGTT 0.917034 -29 GTAAAAAAATTTACTCTATGAAGTAAATAGTTTGTT 16 46 1 TTTATGAGTA 0.737279 -95 ** ***** ** * Masking position 8 Map Score: 5.55671 Number of sites scoring better than the average of aligned sites = 5 Number in coding regions = 3 Number in noncoding regions = 2 Number of orfs with sites within 600 bp upstream = 3 Fraction of orfs with sites within 600 bp upstream = 0.00048185 Motif number 12 GCGGTGTCTTAACCGCTTGACCAACG 8 5 0 AACGCTGACC 0.956433 -296 CTCTAAAAATAACAGAAAGACCAAGTTGTTTC 9 118 1 AAAGAAGACC 0.922765 -64 TGCCCAAATCAAAAGCCAGAACTTGACTTAAG 12 46 0 AAAGCAGAAC 0.965888 -170 TAAGTAAGAGCATGACAAACAAATATA 13 6 1 AAAGCTGACA 0.814916 -97 TACAGAAAAGAAAAGCTAGAACAGCTTTATTA 13 36 0 AAAGCAGAAC 0.965888 -67 TAGGAGAGTAAAGAGATTGGACGAACTTCGCG 14 193 1 AAAGATGGAC 0.727616 -108 CTGCCATGTAAAAAGACTGAACCATTTGCGGC 17 69 0 AAAGATGAAC 0.91957 -111 ATAGATCGTAAACAGCCAGACCTACAAGTTAC 18 72 1 AAAGCAGACC 0.973301 -229 AGCTCTCAGCAAGCGCCTGAACAGAGTCCAGT 18 214 0 AACGCTGAAC 0.944604 -87 ** *** ***** Masking position 2 Map Score: 4.49904 Number of sites scoring better than the average of aligned sites = 141 Number in coding regions = 133 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 13 TTACTTATGAAACTGTTTCACTCCTTTACTTAATTT 1 19 1 AACTTCCCTT 0.966807 -282 TTTTCAACACAACGTTATCGCTAGTTTGCCAGGCTC 1 254 0 AACGTCCGTT 0.969841 -47 CCAAATCTGAAACTATGTCACGTGTTAACGATTCAG 2 104 1 AACTTCCGTT 0.944406 -197 TGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTA 3 72 0 GACGTCCCTT 0.990608 -82 CAGGACGGATAAGGCTTTCACGCCTTATCCGACAAC 3 111 0 AAGGTCCCTT 0.866186 -43 CGCCTGATGCGACGCTTGCGCGTCTTATCAGGCCTA 6 60 1 GACGTCCCTT 0.990606 -183 TGACTCTGCCCCCTCTTCAGTAA 7 7 0 GACTTCCCTT 0.982286 -17 GCCCTTTCACGGCGGTAACACGGGTTCGAATCCCGT 8 35 1 GGCGTCCGTT 0.920475 -266 TATTCTTCCGGACGCTATCCCGCCGTT 19 2 0 GACGTCCCGT 0.952066 -38 GATACTTTCAAACTATGAGCCGGCTTCAATAAAACG 21 69 1 AACTTGCCTT 0.772973 -44 AGTAATAGAGGACTTTATCACTAGTTTGGATAATAA 22 157 1 GACTTCCGTT 0.96998 -49 **** * * * *** Masking position 6 Map Score: 10.7299 Number of sites scoring better than the average of aligned sites = 249 Number in coding regions = 148 Number in noncoding regions = 101 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084 Motif number 14 CAGATTTTCTGCGCTGTATTGCATTGATTTGA 1 112 1 GCGCTATTGC 0.888872 -189 ATTCAGATTGGCGCTAAATCGCAGAAAATGTG 2 134 1 GCGCTATCGC 0.879793 -167 CAGAAAATGTGGGGGTTATCGCAAAATTCAGC 2 155 1 GGGGGATCGC 0.976701 -146 GCCGTTTTTTGCGCGAGATCGCTCACCCTTGC 2 185 1 GCGCGATCGC 0.98771 -116 ATGCCGGATGCGGCGTGAACGCCTTGTCCGGC 3 20 1 CGGCGAACGC 0.982507 -134 TTGCCGAATGCGGCGTAAACGCCTTATCCGGC 6 24 0 CGGCGAACGC 0.982507 -219 ATGCCGGATGCGGCGTAAACGCCTTATCCGGC 6 115 0 CGGCGAACGC 0.982507 -128 TATCTGAAAGGGGCGAAAGCCCCTCTGATTAT 6 163 1 GGGCGAGCCC 0.808083 -80 ATCGGGTTTAGCGCGCTATTGCCTGGCTACCG 6 193 1 GCGCGATTGC 0.973457 -50 CATTCGGAACCGGCGGAATTGCCCGGGAAATG 17 17 0 CGGCGATTGC 0.981068 -163 TACAAGTTACGGGGTGAATTGCATTGAAATAT 18 94 1 GGGGTATTGC 0.773012 -207 AACGGCGGGATAGCGTCCGGAAGA 19 3 1 CGGCGATAGC 0.9403 -37 ***** ***** Masking position 8 Map Score: 16.1392 Number of sites scoring better than the average of aligned sites = 1068 Number in coding regions = 834 Number in noncoding regions = 234 Number of orfs with sites within 600 bp upstream = 103 Fraction of orfs with sites within 600 bp upstream = 0.0165435 Motif number 15 GTTTCTTTATACGGCAACCTCTTTCCATCCT 4 291 0 ACGGAACCTC 0.972441 -74 AGGGTAGCCTCCTTTTAACCT 9 1 1 AGGGAGCCTC 0.982528 -181 CATATCTAATAGGGCATCCGCTACTTCTTCA 18 151 0 AGGGATCCGC 0.933075 -150 GATTTCCCTTAAGGAAACCTCACTTTGTTAA 22 87 0 AAGGAACCTC 0.959583 -119 GGTTTCCTTAAGGGAAATCTCTTTTTTATTT 22 99 1 AGGGAATCTC 0.951046 -107 AGAAACTGAAAGGGAAACCTCATTCGTTTAC 25 67 0 AGGGAACCTC 0.992069 -117 **** ****** Masking position 6 Map Score: 3.29234 Number of sites scoring better than the average of aligned sites = 8 Number in coding regions = 8 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