AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/genomes/ORF_ecoli.txt -z/home/amcguire/genomes/ecoli.fna -ifur_ecoli_hinf_100.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 entD 165 enterochelin synthetase, component D #2 fepA_fes 320 fepA: outer membrane receptor for ferric enterobactin (enterochelin) and colicins B and D, fes: enterochelin esterase #3 entF 217 ATP-dependent serine activating enzyme (may be part of enterobactin synthase as component F) #4 fepE 215 ferric enterobactin (enterochelin) transport #5 fepB_entC 374 fepB: ferric enterobactin (enterochelin) binding protein; periplasmic component, entC: isochorismate hydroxymutase 2, enterochelin biosynthesis #6 fur 288 negative regulator #7 tonB 127 energy transducer; uptake of iron, cyanocobalimin; sensitivity to phages, colicins #8 cirA 293 outer membrane receptor for iron-regulated colicin I receptor; porin; requires tonB gene product #9 sodA 284 superoxide dismutase, manganese #10 HI0190 28 ferric uptake regulation protein (fur) #11 HI0191 96 flavodoxin (fldA) #12 HI0253 168 biopolymer transport protein (exbB) #13 HI0262 300 heme-hemopexin utilization protein C #14 HI0866 300 H. influenzae predicted coding region HI0866 #15 HI1088 248 superoxide dismutase (sodA) Motif number 1 CAAATGCAAATAGTTATCAATAATATTATCAATATAT 2 134 0 TTTTATTATT 0.901879 -187 TGTAATTATGGGTTTATAAATAATATTAAT 4 4 0 GTTTATTATT 0.782337 -212 GCTTTAATAATGATTATCATTTATATTTTCGGTCGCT 5 35 1 TTTTTTTATT 0.937571 -340 CCATCAATAATGCTTCTCATTTTCATTGTAACCACAA 5 142 0 TTTTTTCATT 0.949808 -233 TTTGTAGCAATTATTTTGATTGGCATTATCTATTAAT 6 43 0 TTTTTTCATT 0.949808 -246 CTGTGCCACGTTTTTATTAACAATATTTGCCAGGGAC 6 150 1 TTTTACTATT 0.696519 -139 ATTTGCCAGGGACTTGTGGTTTTCATTTAGGCGTGGC 6 174 1 GTTTTTCATT 0.880951 -115 CTTGCCTTATTGAATATGATTGCTATTTGCATTTAAA 7 61 1 TATTTTTATT 0.707971 -67 AACCGAGAGGGCTTTTTCAATTCCATTTCCCTGACAA 8 40 1 GTTTATCATT 0.819134 -254 GGATTGATAATTGTTATCGTTTGCATTATCGTTACGC 8 104 1 TTTTTTCATT 0.949808 -190 CTTCTTATCCTCATCATTTTTCGTCGCG 9 2 1 TTTTTCCATT 0.825333 -283 GCATTGATAATCATTTTCAATATCATTTAATTAACTA 9 197 1 TTTTATCATT 0.92052 -88 TGATTGAAATTCATTCTCAATTATATTCTCAAAGAAA 12 118 1 TTTTATTATT 0.901879 -51 TTTTTTTCCTTGTTATTTGAGAAATTT 12 152 0 TTTTTTTATT 0.937571 -17 TTGATTATTATTATTATTATTATTATTATTATCGCCA 13 238 1 TTTTTTTATT 0.937571 -63 ATGATCTAAATCAATTTTTTTGCTATTATTTGCTCAA 15 163 1 TATTTTTATT 0.707971 -86 * ** * ** **** Masking position 7 Map Score: 16.6768 Number of sites scoring better than the average of aligned sites = 138 Number in coding regions = 90 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 58 Fraction of orfs with sites within 600 bp upstream = 0.00931577 Motif number 2 CGCCGTCACACCATAACCCCATGTTTACTG 2 80 1 CCATAACCCC 0.863015 -241 CCGTTCTGCCCCCTCTCCCTTCCAGGGTGA 5 209 1 CCCTCTCCCT 0.991696 -166 CTCACCCCAGCCCTCACCCTGGAAGGGAGA 5 222 0 CCCTCACCCT 0.994808 -153 CGAACATTAACCCTCACCCCAGCCCTCACC 5 234 0 CCCTCACCCC 0.995962 -141 CTGGCTGTTCCCCTCACCCTAACCCTCTCC 5 272 1 CCCTCACCCT 0.994808 -103 CTCACCCTAACCCTCTCCCCAAAGGGGCGA 5 284 1 CCCTCTCCCC 0.993538 -91 ACAATCCGTCCCCTCGCCCCTTTGGGGAGA 5 297 0 CCCTCGCCCC 0.989034 -78 TGTCATTACGCCCTTAACCTTATTAATAAC 5 342 1 CCCTTAACCT 0.811177 -33 TTTTTCAATTCCATTTCCCTGACAAATCAT 8 52 1 CCATTTCCCT 0.843232 -242 ********** Masking position 4 Map Score: 18.3967 Number of sites scoring better than the average of aligned sites = 134 Number in coding regions = 44 Number in noncoding regions = 90 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912 Motif number 3 AGTGCGCGTCGTTCATGCCGGATGCGGCGTG 1 34 1 GTTATGCCGG 0.900462 -132 CGGATAAGGCGTTCACGCCGCATCCGGCATG 1 47 0 GTTACGCCGC 0.990472 -119 ACTTCCTACTTTTAACGCCGTCACACCATAA 2 65 1 TTTACGCCGT 0.878834 -256 TTTGCAATAGCGTAATGGCGCGCCGTGGGAA 2 167 1 CGTATGGCGC 0.730613 -154 AGGGGGAAATCTCCACGGCGCTCACTTTACC 4 168 0 CTCACGGCGC 0.933004 -48 TATTAATAAGGTTAAGGGCGTAATGACAAAT 5 339 0 GTTAGGGCGT 0.770922 -36 GTAGACATGAGTCTACGCCGCATCACA 6 7 0 GTCACGCCGC 0.98707 -282 GTAGACTCATGTCTACGCCGTATTAATAGAT 6 22 1 GTCACGCCGT 0.979464 -267 TTTGCATTATCGTTACGCCGCAATCAAAAAA 8 123 1 CGTACGCCGC 0.950347 -171 CCTTTCGCCTGTTGCCGCCGTTGTCGATTTA 9 84 1 GTTCCGCCGT 0.911068 -201 AAATCACCCACTTAATGCCGTGATTGCCAGT 9 114 0 CTTATGCCGT 0.944852 -171 GAAAATGATTATCAATGCCGTACTTTTCGTA 9 184 0 ATCATGCCGT 0.706812 -101 GCGGCCGATTGTTAATGCCGCGTAAGCAGTT 9 243 0 GTTATGCCGC 0.979191 -42 *** ******* Masking position 9 Map Score: 12.8039 Number of sites scoring better than the average of aligned sites = 1417 Number in coding regions = 1169 Number in noncoding regions = 248 Number of orfs with sites within 600 bp upstream = 119 Fraction of orfs with sites within 600 bp upstream = 0.0191134 Motif number 4 GTCAGATTGTTGACAAAGTGCGCGTCGTTCATG 1 18 1 TGACAAGTGC 0.988579 -148 CAATGAAAAATTGCACAGTAAACATGGGGTTAT 2 92 0 TTGCAAGTAC 0.721437 -229 AGGGAGCGTTTTACATATTGCGCAATGCGCAGG 3 44 1 TTACAATTGC 0.832142 -174 AATTCGTCGGTGTCAGAGTACGCCAGTGGGCTT 3 173 0 TGTCAAGTGC 0.931721 -45 TATCACCAACTGGTAAAGTGAGCGCCGTGGAGA 4 157 1 TGGTAAGTGC 0.9001 -59 CCTCAAGAGTTGACATAGTGCGCGTTTGCTTTT 5 77 0 TGACAAGTGC 0.988579 -298 AAGGGCGTAATGACAAATTCGACAAAGCGCACA 5 324 0 TGACAATTAC 0.918452 -51 AATAAAAACGTGGCACAGCTTACATTTACAACG 6 135 0 TGGCAAGCAC 0.866075 -154 TTAGAAGAAGTGACAGAATTTGCTCTTGAGATA 6 231 0 TGACAAATGC 0.906248 -58 CTTAGTAACAGGACAGATTCCGC 6 276 1 GGACAATTGC 0.860723 -13 TCCATTTCCCTGACAAATCATGCGGATATAAAA 8 61 1 TGACAATCGC 0.925255 -233 AATGCTTTTATGATATAGTTCGCCAAATTTGGA 11 25 1 TGATAAGTGC 0.916334 -72 GCCAATAATGTGGCATATTCCACACGTGTAGGC 14 54 0 TGGCAATTAC 0.902585 -247 ***** *** ** Masking position 7 Map Score: 11.7943 Number of sites scoring better than the average of aligned sites = 430 Number in coding regions = 364 Number in noncoding regions = 66 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 5 AGGCTTTAATAATGATTATCATTTATATTTT 5 33 1 AATGATTATA 0.940769 -342 AATTTGTAGCAATTATTTTGATTGGCATTAT 6 51 0 AATTATTTTA 0.659644 -238 GTCTTGCCTTATTGAATATGATTGCTATTTG 7 59 1 ATTGAATATA 0.708016 -69 TTTCTACTGAAATGATTATGACTTCA 7 112 1 AATGATTATA 0.940769 -16 TGATATTGAAAATGATTATCAATGCCGTACT 9 191 0 AATGATTATA 0.940769 -94 TAGTTAATTAAATGATATTGAAAATGATTAT 9 203 0 AATGATATTA 0.623055 -82 AATTTAATCTATTGATTATAAGGCTTATCCA 11 54 0 ATTGATTATA 0.933207 -43 TATAATTGAGAATGAATTTCAATCATACGGG 12 112 0 AATGAATTTA 0.758083 -57 ACAGCAAGTTATTGATTTTTAACTTAAAAAA 13 69 0 ATTGATTTTA 0.940769 -232 GACTAAATATAATTATTTTGACAGCAAGTTA 13 89 0 AATTATTTTA 0.659644 -212 AGATTAAGGTATAGATTTTTATGACTAAATA 13 111 0 ATAGATTTTA 0.592502 -190 ATTAAATTCAAATGATTATAAATAAACCAAT 13 208 1 AATGATTATA 0.940769 -93 AAATAAACCAATTGATTATTATTATTATTAT 13 227 1 ATTGATTATA 0.933207 -74 CGATAGGTTTATTGATTTAAAACAAAATTTA 15 98 1 ATTGATTTAA 0.733799 -151 TAGCAAAAAAATTGATTTAGATCATTAAATG 15 157 0 ATTGATTTAA 0.733799 -92 ********* * Masking position 5 Map Score: 14.2007 Number of sites scoring better than the average of aligned sites = 184 Number in coding regions = 123 Number in noncoding regions = 61 Number of orfs with sites within 600 bp upstream = 74 Fraction of orfs with sites within 600 bp upstream = 0.0118856 Motif number 6 GACGGCGTTAAAAGTAGGAAGTGAGAGCTG 2 57 0 AAAGTAGGAA 0.927887 -264 TCGTGGCAAAAATGCAGGAATAAAACA 2 304 1 AATGCAGGAA 0.820475 -17 AACCTTATTAATAACAGGAAGCTGATTT 5 357 1 ATAACAGGAA 0.88559 -18 ATCATCCCAGAAAGCCGGAACAGCCTCTGA 8 164 0 AAAGCCGGAA 0.871361 -130 CATTTTGTGCATAATAGGAAGGAAAATT 10 11 1 ATAATAGGAA 0.774544 -18 AATTTAATATAAAAAAGGAAATAAAA 11 81 1 AAAAAAGGAA 0.924354 -16 AAATCTCTAGAAAGAAGGAAGTGCCTAAAT 14 134 0 AAAGAAGGAA 0.960012 -167 TTCACTTTTTAAAAAAGGAAAAACATTTAA 15 134 1 AAAAAAGGAA 0.924354 -115 GTTTTTAACAATAGAAGGAATACATT 15 233 1 ATAGAAGGAA 0.926436 -16 ********** Masking position 9 Map Score: 6.92257 Number of sites scoring better than the average of aligned sites = 94 Number in coding regions = 62 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 7 CATTCAGACGCTGCCATTCCGGGCCATGTTTCG 2 16 1 CTGCCACGGG 0.956561 -305 AAAAATTGCACAGTAAACATGGGGTTATGGTGT 2 87 0 CAGTAAAGGG 0.795893 -234 CAATATATTTCTGCAATCAATGAAAAATTGCAC 2 109 0 CTGCAAATGA 0.813582 -212 TGCCCGACAGTTGCAATTCGTGGCAAAAATGCA 2 287 1 TTGCAACTGG 0.882442 -34 CACAGGCGTCCTGCCAGCAGTGGCTGGAAGCCC 3 146 1 CTGCCAATGG 0.971432 -72 TAATTATTTTCTGTAATTATGGGTTTATAAATA 4 19 0 CTGTAAAGGG 0.907319 -197 AGAGTGAATGTTGCATTCAGTGGAAGGAATTTA 4 103 1 TTGCATATGG 0.750525 -113 GTAACGCAATCTGCAACTCGGGGTTGCATCTGG 5 109 1 CTGCAACGGG 0.975241 -266 GTGAGGGGAACAGCCAGCACTGGTGCGAACATT 5 256 0 CAGCCAATGG 0.931245 -119 TGAGAGGGCTTAGCAAGGAAGGGAGGAAAC 8 8 0 TAGCAAAGGG 0.861023 -286 CTGGCAATCACGGCATTAAGTGGGTGATTTGCT 9 115 1 CGGCATATGG 0.761001 -170 CAATCTGTACCTGCAAAAATTGGACTAAATAAG 13 146 0 CTGCAAATGG 0.983825 -155 ****** * *** Masking position 3 Map Score: 7.99538 Number of sites scoring better than the average of aligned sites = 673 Number in coding regions = 627 Number in noncoding regions = 46 Number of orfs with sites within 600 bp upstream = 51 Fraction of orfs with sites within 600 bp upstream = 0.00819146 Motif number 8 GTTGACAAAGTGCGCGTCGTTCATGCCGGATGC 1 26 1 TGCGCTCTCA 0.985766 -140 TGATAAGCGTAGCGCATCAGGCAGTTTTGCGTT 1 126 1 AGCGCTCGCA 0.970737 -40 CCAACTGCACTGCGTGTCTTTCAGGATCAAAGG 2 215 1 TGCGTTCTCA 0.937514 -106 GAATTGCCCCTGCGCATTGCGCAATATGTAAAA 3 52 0 TGCGCTTGCA 0.668429 -166 AGTACGCCAGTGGGCTTCCAGCCACTGCTGGCA 3 157 0 TGGGCTCGCC 0.918774 -61 TGTGCCTCCTGCAACTGGGTAAA 3 205 0 TGTGCTCGCA 0.98064 -13 ATTGCGCTTATGCGAATCCATCAATAATGCTTC 5 163 0 TGCGATCTCA 0.93821 -212 GATATTGGGTTGTGCCTCGTTCAACCGATTTCG 14 11 1 TGTGCTCTCA 0.969639 -290 ***** ** *** Masking position 7 Map Score: 4.45614 Number of sites scoring better than the average of aligned sites = 557 Number in coding regions = 462 Number in noncoding regions = 95 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084 Motif number 9 CTGACACCGACGAATTTTACCCAGTTGCAGGA 3 190 1 CGAATTTTCC 0.905862 -28 ATAGGTTTGATGAATATTTCTCTTAAATAGAG 4 75 1 TGAATATTCC 0.908981 -141 TACCAGTTGGTGATAATTATCCGAAGCTGAAG 4 140 0 TGATAATTTC 0.550839 -76 ACGCCAAAAATGACATTTTCACTGATCCTGAT 7 26 1 TGACATTTCC 0.831355 -102 ATCGACAGCACGATTTTTACACTCATCTCGTC 9 49 0 CGATTTTTCC 0.727884 -236 GAAAAATTTCTGAATTTTTTACCGCACTTTAT 12 40 0 TGAATTTTTC 0.929489 -129 CCCGTATGATTGAAATTCATTCTCAATTATAT 12 112 1 TGAAATTCTC 0.676277 -57 AAAATTAGTTTGAATTTTACGCAATTAAATTC 13 185 1 TGAATTTTCC 0.961645 -116 TTGGCGACAGTGAATTTTCTTCTGTAGCGTTA 14 82 1 TGAATTTTTC 0.929489 -219 TCTGTATGGGTGAAAATTATACTAAGGAGATG 14 186 1 TGAAAATTTC 0.81544 -115 TAATATTTGATGAAATTTTCGCAACTCAAACA 15 45 1 TGAAATTTCC 0.954749 -204 ******** * * Masking position 3 Map Score: 4.42478 Number of sites scoring better than the average of aligned sites = 275 Number in coding regions = 225 Number in noncoding regions = 50 Number of orfs with sites within 600 bp upstream = 53 Fraction of orfs with sites within 600 bp upstream = 0.00851269 Motif number 10 ATCAGGCAGTTTTGCGTTTGTCATCAGTCT 1 141 1 TTTGCGTTTG 0.931691 -25 TTGATAACTATTTGCATTTGCAATAGCGTA 2 151 1 TTTGCATTTG 0.941953 -170 ATAGTGCGCGTTTGCTTTTAGGTTAGCGAC 5 66 0 TTTGCTTTTA 0.936142 -309 ATTTGTAACTTTTGCTGTTGTACCTGTACA 6 79 1 TTTGCTGTTG 0.931691 -210 AGTGACAGAATTTGCTCTTGAGATAATGCG 6 226 0 TTTGCTCTTG 0.931691 -63 ATGATTGCTATTTGCATTTAAAATCGAGAC 7 76 1 TTTGCATTTA 0.887095 -52 AATCAATTTTTTTGCTATTATTTGCTCAAT 15 171 1 TTTGCTATTA 0.816706 -78 ********** Masking position 3 Map Score: 2.25131 Number of sites scoring better than the average of aligned sites = 147 Number in coding regions = 112 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 11 TGCGGCGTGAACGCCTTATCCGGCCTACAA 1 56 1 ACGCCTTATC 0.96812 -110 TGCCGGTAAGACGCATTGTTGCGGCCACAG 3 88 0 ACGCATTGTT 0.748889 -130 TGAAAATGAGAAGCATTATTGATGGATTCG 5 154 1 AAGCATTATT 0.858669 -221 ACTCATGTCTACGCCGTATTAATAGATAAT 6 26 1 ACGCCGTATT 0.804126 -263 CTATAATGATACGCATTATCTCAAGAGCAA 6 215 1 ACGCATTATC 0.950106 -74 CTTCCTTGCTAAGCCCTCTCAACCGAGAGG 8 20 1 AAGCCCTCTC 0.884761 -274 GGAATTGAAAAAGCCCTCTCGGTTGAGAGG 8 34 0 AAGCCCTCTC 0.884761 -260 TATATCATAAAAGCATTCTCACTTAAACTA 11 12 0 AAGCATTCTC 0.907753 -85 AAATTTGGATAAGCCTTATAATCAATAGAT 11 49 1 AAGCCTTATA 0.746574 -48 TTCAAGGTTTACGCATTATTTAGCCTTTGC 12 74 1 ACGCATTATT 0.906474 -95 ********** Masking position 7 Map Score: 3.83664 Number of sites scoring better than the average of aligned sites = 420 Number in coding regions = 190 Number in noncoding regions = 230 Number of orfs with sites within 600 bp upstream = 117 Fraction of orfs with sites within 600 bp upstream = 0.0187922 Motif number 12 TATTTTCTGTAATTATGGGTTTATAAATAATA 4 16 0 AATTTGGTTT 0.966083 -200 TACAGAAAATAATTATGGGTTTTTTATTTGTT 4 37 1 AATTTGGTTT 0.966083 -179 TTTGCCAGGGACTTGTGGTTTTCATTTAGGCG 6 175 1 ACTTTGGTTT 0.869376 -114 ATAGTTCGCCAAATTTGGATAAGCCTTATAAT 11 39 1 AAATTGGTAA 0.499173 -58 AATTCAAACTAATTTTGGATTTCAATCTGTAC 13 169 0 AATTTGGTTT 0.966079 -132 TTTTCAATATAAATATGTCTTTATTCTTCTGT 14 218 0 AAATTGTTTT 0.846182 -83 ACTTCTAAAGAGTTATGTGTTTGAGTTGCGAA 15 62 0 AGTTTGTTTT 0.739603 -187 GAATTTATTAAATTTTGTTTTAAATCAATAAA 15 105 0 AATTTGTTTA 0.77165 -144 TTATTTGCTCAATTTTGGTTATAGACCAAAAC 15 188 1 AATTTGGTAT 0.887873 -61 AACCTCAACGAAATCTGTTTTTAACAATAGAA 15 217 1 AAATTGTTTT 0.846077 -32 **** *** *** Masking position 6 Map Score: 3.35798 Number of sites scoring better than the average of aligned sites = 125 Number in coding regions = 103 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 13 GACATTAATTAACCAACTGCACTGCGTGTC 2 203 1 AACCAACTGC 0.878573 -118 CGCATTGTTGCGGCCACAGACTGAATTGCC 3 77 0 CGGCCACAGA 0.731126 -141 AGTGGGCTTCCAGCCACTGCTGGCAGGACG 3 152 0 CAGCCACTGC 0.939336 -66 AGTGGCTGGAAGCCCACTGGCGTACTCTGA 3 164 1 AGCCCACTGG 0.96779 -54 TGTGCCTCCTGCAACTGGGTAAAATTCG 3 200 0 CTGCAACTGG 0.846709 -18 GGATAATTATCACCAACTGGTAAAGTGAGC 4 150 1 CACCAACTGG 0.963903 -66 TACAACGGCAAGGCCACTTGAACACCGGGA 6 112 0 AGGCCACTTG 0.861883 -177 TCGACAACGGCGGCAACAGGCGAAAGGTTA 9 81 0 CGGCAACAGG 0.89857 -204 TGAAGCAAATCACCCACTTAATGCCGTGAT 9 121 0 CACCCACTTA 0.67 -164 AACTATAATGAACCAACTGCTTACGCGGCA 9 229 1 AACCAACTGC 0.878573 -56 GTTTTAATATAGCCAACTTGAAAGTTGTTT 13 18 1 AGCCAACTTG 0.847234 -283 ********** Masking position 6 Map Score: 3.47289 Number of sites scoring better than the average of aligned sites = 1618 Number in coding regions = 1551 Number in noncoding regions = 67 Number of orfs with sites within 600 bp upstream = 76 Fraction of orfs with sites within 600 bp upstream = 0.0122069 Motif number 14 TGGCAGTCGAAACATGGCCCGGAATGGCAGCG 2 24 0 AACATGCCCG 0.969361 -297 GTTGATGACGACCATGCCCGACAGTTGCAATT 2 273 1 ACCATGCCGC 0.918173 -48 CGGCTGACACACAATGTCCCAGCCTGCCGGTA 3 110 0 ACAATGCCCG 0.991223 -108 TTGTACCTGTACAATGTCCCGGTGTTCAAGTG 6 96 1 ACAATGCCCG 0.991223 -193 GTTTTGCAGGAAAATGCCCGAGATGTGAAGCA 9 144 0 AAAATGCCGG 0.952259 -141 AATTGACCATACAATGAACCTGATAACGCTAC 14 105 0 ACAATGACCG 0.945864 -196 ****** *** * Masking position 5 Map Score: 1.10863 Number of sites scoring better than the average of aligned sites = 70 Number in coding regions = 60 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 15 CCATTACGCTATTGCAAATGCAAATAGTTA 2 155 0 ATTGCAAATG 0.951407 -166 TTTGCCACGAATTGCAACTGTCGGGCATGG 2 284 0 ATTGCAACTG 0.699766 -37 CGCTAACCTAAAAGCAAACGCGCACTATGT 5 68 1 AAAGCAAACG 0.434462 -307 TTGTGGTTACAATGAAAATGAGAAGCATTA 5 142 1 AATGAAAATG 0.938029 -233 AAATATTGTTAATAAAAACGTGGCACAGCT 6 148 0 AATAAAAACG 0.338492 -141 GATCAGGATCAGTGAAAATGTCATTTTTGG 7 29 0 AGTGAAAATG 0.880936 -99 GTCTTGCCTTATTGAATATGATTGCTATTT 7 59 1 ATTGAATATG 0.580198 -69 CTCGATTTTAAATGCAAATAGCAATCATAT 7 74 0 AATGCAAATA 0.460664 -54 GGGAAATGGAATTGAAAAAGCCCTCTCGGT 8 41 0 ATTGAAAAAG 0.646789 -253 AACAATTATCAATCCAAATGTTAAATTTTA 8 89 0 AATCCAAATG 0.608435 -205 GCGTAACGATAATGCAAACGATAACAATTA 8 111 0 AATGCAAACG 0.905345 -183 ATTAAATGATATTGAAAATGATTATCAATG 9 198 0 ATTGAAAATG 0.945077 -87 GTAGTTTAAGTGAGAATGCTTTTATGAT 11 9 1 AGTGAGAATG 0.63327 -88 TGAGAATATAATTGAGAATGAATTTCAATC 12 119 0 ATTGAGAATG 0.800637 -50 TACGCAATTAAATTCAAATGATTATAAATA 13 202 1 AATTCAAATG 0.648962 -99 CTTTCTAGAGATTTAAAACGCCAGTTCTTA 14 150 1 ATTTAAAACG 0.506353 -151 ACATATTTATATTGAAAATGTAGTCTCTAA 14 232 1 ATTGAAAATG 0.945077 -69 ********** Masking position 1 Map Score: 8.17528 Number of sites scoring better than the average of aligned sites = 441 Number in coding regions = 367 Number in noncoding regions = 74 Number of orfs with sites within 600 bp upstream = 97 Fraction of orfs with sites within 600 bp upstream = 0.0155798