AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00010_bbur_reg_100.orf -o00010_bbur_100.ace -a/home/amcguire/genomes/ORF_borburg.txt -z/home/amcguire/genomes/borburg.fna -g0.28 -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 = 0.28 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 BB0004 246 phosphoglucomutase (femD) #2 BB0057 72 glyceraldehyde 3-phosphate dehydrogenase (gap) #3 BB0060 83 conserved hypothetical protein #4 BB0061 73 thioredoxin (trxA) #5 BB0087 120 L-lactate dehydrogenase (ldh) #6 BB0116 173 PTS system, maltose and glucose-specific IIABC component (malX) #7 BB0337 115 enolase (eno) #8 BB0347 183 fibronectin/fibrinogen-binding protein, putative #9 BB0348 97 pyruvate kinase (pyk) #10 BB0445 166 fructose-bisphosphate aldolase (fba) #11 BB0557 138 phosphocarrier protein HPr (ptsH-2) #12 BB0644 154 conserved hypothetical protein #13 BB0645 45 PTS system, glucose-specific IIBC component (ptsG) #14 BB0658 133 phosphoglycerate mutase (gpmA) #15 BB0732 263 penicillin-binding protein (pbp-3) #16 BBB04_BBB05 276 BBB04: PTS system, cellobiose-specific IIC component (celB), BBB05: PTS system, cellobiose-specific IIA component (celC) #17 BBB29 300 PTS system, maltose and glucose-specific IIABC component (malX) Motif number 1 ATATAAGCAAAAAAACAAATTTTTAAGTAT 1 148 1 AAAAACAAAT 0.896845 -99 TATAATTTTAATAATCAATAGTATAGCCAC 1 188 0 ATAATCAATA 0.868317 -59 TAGTAAGAATAAAATCAAAAAATTGGAGGA 2 47 1 AAAATCAAAA 0.928891 -26 TTTGCAAAATAAAATAATTTAATTG 3 6 1 AAAATAAAAT 0.93861 -78 TTTAAAAATTAAAAACAAAT 5 1 0 AAAAACAAAT 0.896845 -120 TCACTTATTTATAAAAAATATATAATACCT 6 29 1 ATAAAAAATA 0.730771 -145 AAAAAGCTTTATAATAAAATAGTGT 6 159 1 ATAATAAAAT 0.864503 -15 TTTAATACATAAAATAAAAATTTAAAGCTT 8 135 1 AAAATAAAAA 0.917452 -49 TTTATGCAAAATAATAAATTTTTAATAAAT 10 22 1 ATAATAAATT 0.885292 -145 TAATAAATTTTTAATAAATTTTATGTTTGG 10 33 1 TTAATAAATT 0.733433 -134 AAATAATTATTAAATCAAAACCAAACATAA 10 53 0 TAAATCAAAA 0.823226 -114 TTTAAATCAAAAAATAAATAATTATTAAAT 10 68 0 AAAATAAATA 0.930768 -99 TCAAATGCCTATAATAAATTATACACCTAA 10 112 0 ATAATAAATT 0.885292 -55 GATAAAAGAAAAAATAAAATGGAAAGGAGT 10 140 1 AAAATAAAAT 0.93861 -27 ATAATACATAAAAATAAATTATATATTCCC 11 64 0 AAAATAAATT 0.948704 -75 GTTAATCAAAAAAAACAATATTCATAATGA 11 104 1 AAAAACAATA 0.884325 -35 AACTAAAAACAAAAACAATTTATCATTCAA 12 35 0 AAAAACAATT 0.913171 -120 TTATTTAAAAAAAAACAATTCTTTTAAAGA 12 76 0 AAAAACAATT 0.913171 -79 TGTTTTTTTTTAAATAAAAAATATAATCTG 12 89 1 TAAATAAAAA 0.798476 -66 ATTTATTTTCTTAAAAAATATAAAAACTTA 12 123 0 TTAAAAAATA 0.49178 -32 ATTTTTTAAGAAAATAAATTTTACAGGAGG 12 134 1 AAAATAAATT 0.948704 -21 CCTAAAATAAAAAATAAATTAACCCTTAAG 13 18 0 AAAATAAATT 0.948704 -28 TTAGTATTGGTAAATAAAATAAT 14 121 1 TAAATAAAAT 0.844976 -13 TAAAACTGTTTAAAACAATTTGAAGCT 15 8 0 TAAAACAATT 0.78944 -256 TAAAAAAGTTTAAAACAATTAAGCTATAAA 15 44 1 TAAAACAATT 0.78944 -220 CGCTTAGCCAAAAATCAATAAATCTACCCT 15 76 1 AAAATCAATA 0.940482 -188 ATCTACCCTTAAAATCAAAAACATACCATC 15 97 1 AAAATCAAAA 0.928891 -167 TTAGAAAGAAAAAATAAAAACCAATCTTAT 16 88 0 AAAATAAAAA 0.917452 -189 TTATAATAAAATAATAAAATTAGAAAGAAA 16 107 0 ATAATAAAAT 0.864503 -170 ACAGCAAATTAAAAAAAATAGCCAAAATGA 16 203 0 AAAAAAAATA 0.866746 -74 CATCCTATTATTAATCAAATGAGCTTTAAT 17 225 1 TTAATCAAAT 0.727771 -76 ********** Masking position 4 Map Score: 43.5161 Number of sites scoring better than the average of aligned sites = 2034 Number in coding regions = 1372 Number in noncoding regions = 662 Number of orfs with sites within 600 bp upstream = 153 Fraction of orfs with sites within 600 bp upstream = 0.0245744 Motif number 2 CTTGCCAGAATTAAGTTTTTCAAGTATCAT 1 49 1 TTAAGTTTTT 0.813226 -198 CATTTCAGAAAAAATTTTATCAACTTTAAC 1 76 1 AAAATTTTAT 0.745452 -171 ACCCTTAAAGAAAAGCTTATTAATATAAGC 1 126 1 AAAAGCTTAT 0.449952 -121 TATTATTGCTATAATTTTAATAATCAATAG 1 197 0 ATAATTTTAA 0.70805 -50 TAGCAATTAAATTATTTTATTTTGCAAA 3 9 0 ATTATTTTAT 0.688572 -75 TATTTGTGATATAATTTTAAGTCGATAGGG 4 39 1 ATAATTTTAA 0.70805 -35 ATTTGTTTTTAATTTTTAAAGGTATGTG 5 9 1 TTAATTTTTA 0.745526 -112 AATGCGATAGAATATTTTTATCATTACTTA 5 57 1 AATATTTTTA 0.708433 -64 TAGTTTTGTATATAGTTTTAATTTAATGGA 5 95 1 TATAGTTTTA 0.839461 -26 TAAGGTATTATATATTTTTTATAAATAAGT 6 31 0 TATATTTTTT 0.763367 -143 GTGTAGTAAGTAAAGTTTTTTTTTGCAAAA 6 131 1 TAAAGTTTTT 0.839363 -43 TTTTTGCAAAAAAAGCTTTATAATAAAATA 6 150 1 AAAAGCTTTA 0.421234 -24 TATAATGTTAAAAAGTTTAAATGTGTAGTA 7 53 0 AAAAGTTTAA 0.813032 -63 TACTTTAATGTATATTTTTAGTATAATGTT 7 74 0 TATATTTTTA 0.763366 -42 ACTCTTATTATTAAGCTTAAGCTATTAACA 8 18 1 TTAAGCTTAA 0.445809 -166 ATTGACAATAAATAGTTTAAATGTAGTTTT 8 47 0 AATAGTTTAA 0.812292 -137 ATTATGGAAATAAAGTTTATTGACAATAAA 8 65 0 TAAAGTTTAT 0.852771 -119 TACTATTAATAATAGTTTATTTCCATGATA 8 101 0 AATAGTTTAT 0.812316 -83 ATCTAAGCTTTAAATTTTTATTTTATGTAT 8 139 0 TAAATTTTTA 0.77955 -45 TCCACTTTTATAAATTTTATGCTTTTTGTC 9 67 0 TAAATTTTAT 0.795379 -31 TTTTGCATAAAAAAGTTTAAAA 10 3 0 AAAAGTTTAA 0.813032 -164 TGCAAAATAATAAATTTTTAATAAATTTTA 10 26 1 TAAATTTTTA 0.77955 -141 AAATTTTTAATAAATTTTATGTTTGGTTTT 10 37 1 TAAATTTTAT 0.795379 -130 TTAATAATTATTTATTTTTTGATTTAAATT 10 70 1 TTTATTTTTT 0.727697 -97 TCCTTTCCATTTTATTTTTTCTTTTATCAA 10 138 0 TTTATTTTTT 0.727697 -29 TTGTTAGAATAAGTTTAATTACTATCTT 11 9 1 ATAAGTTTAA 0.783592 -130 GAATATATAATTTATTTTTATGTATTATAA 11 66 1 TTTATTTTTA 0.727696 -73 GCCTAAATTATAGCTTAATGTGTATTGA 12 9 1 TATAGCTTAA 0.682182 -146 TGTTTTTGTTTTTAGTTTATGTTAGTTTTC 12 48 1 TTTAGTTTAT 0.826385 -107 AAATACAGATTATATTTTTTATTTAAAAAA 12 94 0 TATATTTTTT 0.763367 -61 TAATCTGTATTTAAGTTTTTATATTTTTTA 12 112 1 TTAAGTTTTT 0.813226 -43 AAATTAACCCTTAAGTTTAAAA 13 3 0 TTAAGTTTAA 0.824781 -43 TAAGGGTTAATTTATTTTTTATTTTAGGAG 13 20 1 TTTATTTTTT 0.727697 -26 TTGATAAACTTAAAGCTTAATGTATTTTAA 14 27 1 TAAAGCTTAA 0.469597 -107 ATTATTTTATTTACCAATAC 14 124 0 ATTATTTTAT 0.688572 -10 ACACAAATAAAAAAGTTTAAAACAATTAAG 15 37 1 AAAAGTTTAA 0.813032 -227 TAAGCGTGTTTATAGCTTAATTGTTTTAAA 15 52 0 TATAGCTTAA 0.682182 -212 AAGATTGGTTTTTATTTTTTCTTTCTAATT 16 90 1 TTTATTTTTT 0.727697 -187 TTCTAATTTTATTATTTTATTATAATATTC 16 112 1 ATTATTTTAT 0.688572 -165 TAAATGGCTTATTAGCTTTTCATTTTGGCT 16 184 1 ATTAGCTTTT 0.552506 -93 GTATTATTTCATTAGCTTTTGCGGAATTTA 16 231 1 ATTAGCTTTT 0.552506 -46 AAAGCGTAATAAAATTTTTACAAAGCTAAT 17 97 0 AAAATTTTTA 0.727111 -204 ********** Masking position 4 Map Score: 45.2817 Number of sites scoring better than the average of aligned sites = 2082 Number in coding regions = 1294 Number in noncoding regions = 788 Number of orfs with sites within 600 bp upstream = 164 Fraction of orfs with sites within 600 bp upstream = 0.0263412 Motif number 3 AATTTTTAAGTATAATAACATAAGTGGCTATACT 1 165 1 TAATACTAAG 0.79601 -82 AATTACTCCATTAAATTAAAACTATATACA 5 101 0 TCATAATAAA 0.802708 -20 AGAAAAAGCTACAATTAAAGTAAGGTATTATATA 6 47 0 ACATAATAAG 0.550856 -127 GCTTTTTCTCAAGATCAAATTAAATCTTGCTTGA 6 72 1 AAACAATAAA 0.855061 -102 TAAACTTTTTAACATTATACTAAAAATATACATT 7 64 1 AAATAATAAA 0.933643 -52 ACTAAAAATATACATTAAAGTAAATAATACGAGG 7 82 1 TAATAATAAA 0.954162 -34 ACACTGCTTATAGCAAAGTAAAGTTTTGAATT 9 9 1 TAACAATAAA 0.897238 -89 AAACCAAACATAAAATTTATTAAAAATTTATTAT 10 32 0 TAATTATAAA 0.585189 -135 ATCAAATGCCTATAATAAATTATACACCTAAGAA 10 109 0 TAATAATATA 0.667437 -58 ACATAAGAAATATAGCATAATAAAGATAGTAATT 11 27 0 TAACAATAAA 0.896103 -112 TATAATACATAAAAATAAATTATATATTCCCTTT 11 61 0 AAATAATATA 0.740624 -78 ATTAACTTTTTACATTATAATACATAAAAATAAA 11 76 0 TAATAATACA 0.712031 -63 TCTTTTAAAGAAAACTAACATAAACTAAAAACAA 12 53 0 AAATACTAAA 0.855061 -102 TCCTAAAATAAAAAATAAATTAACCCTTAAGTTT 13 15 0 AAATAATAAC 0.640925 -31 TGATATACTTTAAAATACATTAAGCTTTAAGTTT 14 32 0 TAATAATAAG 0.903006 -102 CTAATAATTATAAATTAGCATAAAATCTAGTCAA 14 91 0 TAATACTAAA 0.897321 -43 ACTTTTTACTAAAGTATACTATAAGTGCATAAG 15 241 0 TAATAATATA 0.763197 -23 TCCAATTTAGAATATTATAATAAAATAATAAAAT 16 117 0 AAATAATAAA 0.932314 -160 AATGAAATAATACAGCAAATTAAAAAAAATAGCC 16 210 0 TAACAATAAA 0.89732 -67 AATTGTATTAAACATTAACATAAGAACCGTAACA 17 252 1 AAATACTAAG 0.72484 -49 ** * ** * **** Masking position 11 Map Score: 18.3484 Number of sites scoring better than the average of aligned sites = 361 Number in coding regions = 207 Number in noncoding regions = 154 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 4 CAGAATTAAGTTTTTCAAGTATCATTTCAGA 1 54 1 TTTTTCAATA 0.36892 -193 CACTTATGTTATTATACTTAAAAATTTGTTT 1 160 0 ATTATACTAA 0.616081 -87 TACAAAACTAATTTTAAATAAGTAATGATAA 5 74 0 ATTTTAAAAA 0.888578 -47 TTATCACTTATTTATAAAAAATATATAATAC 6 26 1 TTTATAAAAA 0.671774 -148 TATAAAGCTTTTTTTGCAAAAAAAAACTTTA 6 141 0 TTTTTGCAAA 0.783051 -33 AGATTATACACAAAGCTCACAAT 7 3 1 ATTATACAAA 0.872078 -113 ATGTGTAGTATTTTTCCAAAAGAATTATTAT 7 32 0 TTTTTCCAAA 0.783051 -84 ACTTTTTAACATTATACTAAAAATATACATT 7 67 1 ATTATACTAA 0.616079 -49 AGTTTTGAATTTTTTACAAAATATTGTTATT 9 32 1 TTTTTACAAA 0.951336 -66 AAAATTTATTATTTTGCATAAAAAAGTTTAA 10 13 0 ATTTTGCAAA 0.812621 -154 AAATAATAAATTTTTAATAAATTTTATGTTT 10 30 1 TTTTTAATAA 0.609498 -137 TTTGATTAACTTTTTACATTATAATACATAA 11 83 0 TTTTTACATA 0.893042 -56 GAATTGTTTTTTTTTAAATAAAAAATATAAT 12 85 1 TTTTTAAAAA 0.877603 -70 AAGAAAATAAATTTTACAGGAGGT 12 141 1 ATTTTACAGA 0.738105 -14 AGCTTAATGTATTTTAAAGTATATCATTATT 14 40 1 ATTTTAAATA 0.766768 -94 AATACTAATAATTATAAATTAGCATAAAATC 14 98 0 ATTATAAATA 0.502114 -36 GTTTTAAACAGTTTTACACAAATAAAAAAGT 15 22 1 GTTTTACAAA 0.792319 -242 TATTGTTATAATTTTACACTATGTAAACAGC 15 171 0 ATTTTACATA 0.901569 -93 TATAACAATAATTTTACACTATAACAATCAA 15 192 1 ATTTTACATA 0.901569 -72 ACTTTTTACTAAAGTATACTATA 15 251 0 TTTTTACTAA 0.826216 -13 AAATATCGAAATTTTAAAGAA 16 1 0 ATTTTAAAAA 0.888578 -276 CGTAATAAAATTTTTACAAAGCTAATAAGAG 17 92 0 TTTTTACAAG 0.648569 -209 ******** ** Masking position 5 Map Score: 16.9478 Number of sites scoring better than the average of aligned sites = 1254 Number in coding regions = 813 Number in noncoding regions = 441 Number of orfs with sites within 600 bp upstream = 104 Fraction of orfs with sites within 600 bp upstream = 0.0167041 Motif number 5 GCTATAATTTTAATAATCAATAGTATAGCC 1 190 0 TAATAATCAA 0.689652 -57 ATTAAAATTATAGCAATAATATGACTAGAA 1 206 1 TAGCAATAAT 0.710971 -41 ATAATTCTAGTAAGAATAAAATCAAAAAAT 2 40 1 TAAGAATAAA 0.753644 -33 TTAATTGCTATAGCAATTAAATTATTTTAT 3 19 0 TAGCAATTAA 0.912294 -65 TTAATTGCTATAGCAATTAATCATACTTGT 3 29 1 TAGCAATTAA 0.912294 -55 CACATACCTTTAAAAATTAAAAACAAAT 5 9 0 TAAAAATTAA 0.715813 -112 TAAAGTTTATTGACAATAAATAGTTTAAAT 8 55 0 TGACAATAAA 0.590147 -129 GGTTTTGATTTAATAATTATTTATTTTTTG 10 61 1 TAATAATTAT 0.635552 -106 ATAATAAAGATAGTAATTAAACTTATTCTA 11 15 0 TAGTAATTAA 0.78649 -124 TTATAATACATAAAAATAAATTATATATTC 11 66 0 TAAAAATAAA 0.664172 -73 ATTTAAACCTTAGTAATTAAATAATGATAT 14 60 0 TAGTAATTAA 0.78649 -74 TTACCAATACTAATAATTATAAATTAGCAT 14 104 0 TAATAATTAT 0.635552 -30 AAAAAGTTTAAAACAATTAAGCTATAAACA 15 46 1 AAACAATTAA 0.567695 -218 TGTAAAATTATAACAATAATTTTACACTAT 15 184 1 TAACAATAAT 0.794511 -80 TTTTACACTATAACAATCAACCCATAACAT 15 203 1 TAACAATCAA 0.862542 -61 TATAAGTGCATAAGAATTAATAATGTTATG 15 225 0 TAAGAATTAA 0.795758 -39 AAAACGATATTAACAATAAAAATATCGAAA 16 21 0 TAACAATAAA 0.927732 -256 AGTAAATGGTCAACAATAAAGAGAAAAAAA 17 141 0 CAACAATAAA 0.604459 -160 ********** Masking position 7 Map Score: 13.3231 Number of sites scoring better than the average of aligned sites = 561 Number in coding regions = 319 Number in noncoding regions = 242 Number of orfs with sites within 600 bp upstream = 70 Fraction of orfs with sites within 600 bp upstream = 0.0112432 Motif number 6 GGAAAATATTTAATGGATTCAAAAGTATT 1 9 1 TTTAAGGATT 0.718336 -238 TAAGCTTTTCTTTAAGGGTTTTGGTTTTAAC 1 114 0 TTTAAGGTTT 0.919242 -133 ATGTGGATTATTTTAGGGTATATTTAAT 3 66 1 TTTTAGGTAT 0.798008 -18 GTTTTTAATTTTTAAAGGTATGTGATTGGCA 5 15 1 TTTAAGGTAT 0.96884 -106 ATAGTTTTAATTTAATGGAGTAATT 5 106 1 TTTAAGGAGT 0.883007 -15 AATACCTTACTTTAATTGTAGCTTTTTCTCA 6 52 1 TTTAATGTAG 0.887235 -122 TGTTAAAAAGTTTAAATGTGTAGTATTTTTC 7 47 0 TTTAATGTGT 0.938454 -69 CAATAAATAGTTTAAATGTAGTTTTGTTAAT 8 41 0 TTTAATGTAG 0.887235 -143 ATCCTAATTCTTTCAAGGTGTTTATATCTAA 8 163 0 TTTCAGGTGT 0.863831 -21 TTTAAACTTTTTTATTTGTGTAAAACTGTTT 15 27 0 TTTATTGTGT 0.638482 -237 TGTTTTTGATTTTAAGGGTAGATTTATTGAT 15 89 0 TTTAAGGTAG 0.9456 -175 TCAAATGAGCTTTAATTGTATTAAACATTAA 17 239 1 TTTAATGTAT 0.93366 -62 ***** ***** Masking position 3 Map Score: 8.50969 Number of sites scoring better than the average of aligned sites = 115 Number in coding regions = 69 Number in noncoding regions = 46 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 7 AAAGAAAAGCTTATTAATATAAGCAAAAAA 1 132 1 TTATTAATAT 0.910118 -115 ATACTATTGATTATTAAAATTATAGCAATA 1 194 1 TTATTAAAAT 0.427016 -53 TTGACACTTGTTGTTAATTTGTGATTTAAT 2 12 1 TTGTTAATTT 0.810556 -61 TAATTCCTTATTATTAATATTGTATTTGTG 4 17 1 TTATTAATAT 0.910118 -57 ATTTGTTTTTAATTTTTAAAGGTAT 5 6 1 TTTTTAATTT 0.729557 -115 TTATCTAACCTTATTATTTGGCTTGTGTAG 6 107 1 TTATTATTTG 0.546323 -67 ACATTTAAACTTTTTAACATTATACTAAAA 7 59 1 TTTTTAACAT 0.522918 -57 TTAATGTATATTTTTAGTATAATGTTAAAA 7 70 0 TTTTTAGTAT 0.551708 -46 AAATGTAGTTTTGTTAATAGCTTAAGCTTA 8 29 0 TTGTTAATAG 0.741794 -155 AAATAAACTATTATTAATAGTACTAGTTTA 8 109 1 TTATTAATAG 0.863653 -75 TCCTCCACTTTTATAAATTTTATGCTTTTT 9 70 0 TTATAAATTT 0.370704 -28 TATTAAAAATTTATTATTTTGCATAAAAAA 10 19 0 TTATTATTTT 0.660409 -148 AAACCCCTCATTATGAATATTGTTTTTTTT 11 111 0 TTATGAATAT 0.487236 -28 TAATTTATAATTATTAGTATTGGTAAATAA 14 108 1 TTATTAGTAT 0.813809 -26 TTTGTAAGTTTTGTTAATTGAAAGATGCTG 15 139 0 TTGTTAATTG 0.725986 -125 ACCCATAACATTATTAATTCTTATGCACTT 15 222 1 TTATTAATTC 0.532853 -42 GATATTTTTATTGTTAATATCGTTTTCATA 16 25 1 TTGTTAATAT 0.822426 -252 CTTTCTAATTTTATTATTTTATTATAATAT 16 110 1 TTATTATTTT 0.660409 -167 ATTAAATGGCTTATTAGCTTTTCATTTTGG 16 182 1 TTATTAGCTT 0.599942 -95 TTGGCTATTTTTTTTAATTTGCTGTATTAT 16 208 1 TTTTTAATTT 0.729557 -69 CCTTAGCCTTATTAACAGCTACCCTTAG 17 9 1 TTATTAACAG 0.706031 -292 GTTATTTCTCTTATTAGCTTTGTAAAAATT 17 85 1 TTATTAGCTT 0.599942 -216 GCTCATTTGATTAATAATAGGATGTTTGAC 17 219 0 TTAATAATAG 0.274809 -82 ********** Masking position 2 Map Score: 14.0196 Number of sites scoring better than the average of aligned sites = 1353 Number in coding regions = 860 Number in noncoding regions = 493 Number of orfs with sites within 600 bp upstream = 102 Fraction of orfs with sites within 600 bp upstream = 0.0163829 Motif number 8 TTTAACTTATGAATGTTAAAGTTGATAAAA 1 90 0 GAATGTTAAA 0.846743 -157 TTTAAATAAGTAATGATAAAAATATTCTAT 5 63 0 TAATGATAAA 0.921183 -58 TATACAAAACTAATTTTAAATAAGTAATGA 5 77 0 TAATTTTAAA 0.574031 -44 TTTTATAAATAAGTGATAAAACGGAGGCAA 6 15 0 AAGTGATAAA 0.357119 -159 AGCCAAATAATAAGGTTAGATAAATCAAGC 6 100 0 TAAGGTTAGA 0.431621 -74 ATTTTTAGTATAATGTTAAAAAGTTTAAAT 7 61 0 TAATGTTAAA 0.945396 -55 AAATGGAAAGGAGTGATATAA 10 156 1 GAGTGATATA 0.511315 -11 TTATGTATTATAATGTAAAAAGTTAATCAA 11 83 1 TAATGTAAAA 0.820634 -56 AATGTGTATTGAATGATAAATTGTTTTTGT 12 27 1 GAATGATAAA 0.78857 -128 AGTAATTAAATAATGATATACTTTAAAATA 14 49 0 TAATGATATA 0.847115 -85 ATTTAATTACTAAGGTTTAAATCTTGACTA 14 68 1 TAAGGTTTAA 0.498859 -66 CCAATACTAATAATTATAAATTAGCATAAA 14 101 0 TAATTATAAA 0.476358 -33 GCTGTTTACATAGTGTAAAATTATAACAAT 15 171 1 TAGTGTAAAA 0.730266 -93 AGTGTAAAATTATTGTTATAATTTTACACT 15 182 0 TATTGTTATA 0.429026 -82 TTGATTGTTATAGTGTAAAATTATTGTTAT 15 193 0 TAGTGTAAAA 0.730266 -71 TAAGAATTAATAATGTTATGGGTTGATTGT 15 215 0 TAATGTTATG 0.452144 -49 TTTCATGTATTAATGATTTATATGCTTCAT 16 60 1 TAATGATTTA 0.514443 -217 CCGCAAAAGCTAATGAAATAATACAGCAAA 16 225 0 TAATGAAATA 0.594146 -52 AATAGGGTTAAACGATGGTGGC 16 265 0 TAGGGTTAAA 0.754933 -12 GTTCTTATGTTAATGTTTAATACAATTAAA 17 249 0 TAATGTTTAA 0.768018 -52 ********** Masking position 2 Map Score: 6.32269 Number of sites scoring better than the average of aligned sites = 762 Number in coding regions = 510 Number in noncoding regions = 252 Number of orfs with sites within 600 bp upstream = 68 Fraction of orfs with sites within 600 bp upstream = 0.0109219 Motif number 9 ********** No masking Map Score: 7.27128e-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 10 ********** No masking Map Score: 7.27128e-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 11 ********** No masking Map Score: 7.27128e-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