AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i054_Arginine_Biosynthesis_ecoli_hinf_reg_300.orf -a/home/amcguire/genomes/ORF_ecoli.txt -z/home/amcguire/genomes/ecoli.fna -g0.46 -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 = 0.46 maxlen = 30 weight = 0.8 exclude = 0 Input sequences: #1 cstC 300 acetylornithine delta-aminotransferase #2 argG 300 argininosuccinate synthetase #3 argD 85 acetylornithine delta-aminotransferase #4 pabA 31 p-aminobenzoate synthetase, component II #5 yhfG 104 orf, hypothetical protein #6 ppiA 270 peptidyl-prolyl cis-trans isomerase A (rotamase A) #7 argC 153 N-acetyl-gamma-glutamylphosphate reductase #8 argH 60 argininosuccinate lyase #9 ppa 300 inorganic pyrophosphatase #10 argI 161 ornithine carbamoyltransferase 1 #11 HI0124 234 inorganic pyrophosphatase (ppa) #12 HI0596 300 ornithine carbamoyltransferase (arcB) #13 HI0811 134 argininosuccinate lyase (argH) #14 HI0812 21 glucosephosphate uridylyltransferase (galU) #15 HI0813 77 carbon storage regulator (csrA) #16 HI0814 187 alanyl-tRNA synthetase (alaS) #17 HI0815 101 universal stress protein A (uspA) #18 HI0817 170 conserved hypothetical protein #19 HI0819 37 galactokinase (galK) #20 HI0820 207 galactose-1-phosphate uridylyltransferase (galT) #21 HI1723 135 conserved hypothetical protein #22 HI1726 124 phosphoribosylaminoimidazole-succinocarboxamide synthase (purC) #23 HI1727 155 argininosuccinate synthetase (argG) Motif number 1 TTTTTTATTCTTTTTATTCACCCACATCGC 1 94 1 TTTTTATTCA 0.967975 -207 ACGTATTCACTTTATATGCACTTTAAATGC 1 126 1 TTTATATGCA 0.913226 -175 TTATATGCACTTTAAATGCATATGGTTTGG 1 137 1 TTTAAATGCA 0.831682 -164 GTGAACTGGATATTCATTCACATGATTAGC 2 94 0 TATTCATTCA 0.792081 -207 TCTCACTGAATTTTTATGCAAAATAAATGA 2 234 0 TTTTTATGCA 0.979871 -67 ATTTAGTGATTTTTTATGCATATTTTGTGG 3 23 1 TTTTTATGCA 0.979871 -63 TGTTTAAATGTTTTATTGCAATCGGTTGCT 6 87 1 TTTTATTGCA 0.76398 -184 TGACGATCACTTTTTATTCCGTGATCAAAA 6 138 0 TTTTTATTCC 0.772221 -133 ATAGTATCAATATTCATGCAGTATTTATGA 7 33 1 TATTCATGCA 0.859855 -121 CGTTAGTGTATTTTTATTCATAAATACTGC 7 50 0 TTTTTATTCA 0.967975 -104 ATAAATTGAATTTTAATTCATTGAGGCGTT 10 125 1 TTTTAATTCA 0.93417 -37 CATATTTTCGTTTAAATTCATCTACTATTA 12 62 1 TTTAAATTCA 0.754178 -239 TTATTGTGCATATTTATTCATAAAGCAATA 13 82 0 TATTTATTCA 0.92342 -53 TAAGTCGCCCTATTTTTGCATATTTTTGAA 16 130 0 TATTTTTGCA 0.733371 -58 AAATTAGGATTTTTTATGCACAAAGCTAAA 23 11 1 TTTTTATGCA 0.979871 -145 AGATTTTTGCTTTTAATGCACAAAACACTA 23 44 1 TTTTAATGCA 0.958079 -112 CTCTATAGAATTTTTATTCACAAAAATCGA 23 99 1 TTTTTATTCA 0.967975 -57 AAAAATCGATTATTTATTCAATTCTAATTA 23 120 1 TATTTATTCA 0.92342 -36 ********** Masking position 7 Map Score: 26.6387 Number of sites scoring better than the average of aligned sites = 173 Number in coding regions = 110 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 84 Fraction of orfs with sites within 600 bp upstream = 0.0134918 Motif number 2 TAACATTGCGTTTTTTATTCTTTTTATTCACCCAC 1 84 1 TTTTTTTTTT 0.939713 -217 GAATATCCAGTTCACTTTCATTTGTTGAATACTTT 2 109 1 TTCTCTTTGT 0.866775 -192 TGGTTATAATTTCACATTTGTTTATGCGTAACAGG 3 50 1 TTCATTTTAT 0.456706 -36 TTAGAATCTCTTCACTTGCTTTTTTTCTGCTCTGT 6 230 1 TTCTCTTTTT 0.967424 -41 ACATAACGAATTGTCTATAGTTTTTTCGCGAACAT 9 41 0 TTCTATTTTT 0.880329 -260 TGATTAACGTTTTATTTACTTTTTTGAAGTGTGAT 9 91 0 TTTTCTTTTT 0.952835 -210 TGTTTTCGTCTTCATTTTCCTTTTTCACCAGTTTT 9 203 0 TTTTCTTTTT 0.952835 -98 CGGCACTTGTTTGCCACATATTTTTAAAGGAAACA 9 273 1 TTCATTTTTT 0.805529 -28 GCGCACCTTATTACTTCCAATTTTTTACTTAACTT 11 22 0 TTTTATTTTT 0.833451 -213 ACGCAAACGTTTACTTATCGTTTTTATGATGTAAA 11 60 0 TTTTCTTTTT 0.952835 -175 TTTGTTTCCTTCATTTTATCAAGTTAAAA 11 216 0 TTCTATTTAT 0.598861 -19 AATCTAACTCTTTATTGTTATTTGTTTGATTTCTA 12 90 0 TTTTTTTTGT 0.773489 -211 TAAAATGAAATTTGTTGTCGTTTTTCAACTGGTAA 12 182 0 TTTTCTTTTT 0.952835 -119 AATTTTTCCTTTTTGTTTTAATTAATTAT 13 116 0 TTCTTGTTTT 0.697326 -19 TTTTATCTCCTTAGTTTGCATTTATTAGATATCCT 15 52 0 TTTTCTTTAT 0.803918 -26 ATAGGGCGACTTAGTTTTTATTTTTATTATGGGTA 16 147 1 TTTTTTTTTT 0.939713 -41 AAAATTTTGCTTATTTTCTTATTTTGTGACAAAGA 20 112 1 TTTTTATTTT 0.51396 -96 TTTGACTCCTGTTTTTTATCAATGTA 20 192 0 TTCTTTTTTT 0.958182 -16 TTTTATCTCACTTTTTTGAAAAAACTT 21 3 1 TTCTCTTTTT 0.967424 -133 TTTCAGAGGATTTTTATTTCTTTTTAAAAAATAGC 22 74 1 TTTATTTTTT 0.738068 -51 CTTTTCCTCTTTGTCTAGTGTTTTGTGCATTAAAA 23 54 0 TTCTTTTTTG 0.686564 -102 ** ** * ***** Masking position 12 Map Score: 19.086 Number of sites scoring better than the average of aligned sites = 263 Number in coding regions = 171 Number in noncoding regions = 92 Number of orfs with sites within 600 bp upstream = 108 Fraction of orfs with sites within 600 bp upstream = 0.0173466 Motif number 3 ACAGGAAGAGTTTAGTGTGTTTTTTGTAAAATA 2 173 0 TTTAGGTTTT 0.808413 -128 CTGATTGCCATTTAGTGATTTTTTATGCATATT 3 14 1 TTTAGTTTTT 0.877952 -72 AGCGGGCGATTTTAGGTGATTTTGTGATCTGTT 6 58 1 TTTAGATTTT 0.963968 -213 AGGCCATCCCTTTACCTAATTTTACGTATCTGA 6 181 0 TTTACATTTT 0.805026 -90 TACGCTCAACGTTAGTGTATTTTTATTCATAAA 7 56 0 GTTAGATTTT 0.946636 -98 AACTCTGTTTCCTTATTTTGAAATTCAAT 8 42 0 GTTTCATTTT 0.682502 -19 AGATGGATCTATTTGCTGATTTTCTCTACAAAT 11 141 1 ATTTGATTTT 0.824759 -94 GAAAATATGTTTTAGTTTATTTTTGATGAAGAG 12 38 0 TTTAGATTTT 0.963968 -263 ACAATAAAGAGTTAGATTATTTTATTAAATTCT 12 107 1 GTTAGATTTT 0.946636 -194 AAATCTTTCATTTTGTCCATTTTATTTGTATTA 13 18 0 TTTTGATTTT 0.954557 -117 AAATGAAAGATTTTGTCCATTTTTGTTTTATTA 13 38 1 TTTTGATTTT 0.954557 -97 GTCGCCCTATTTTTGCATATTTTTGAAATTTAT 16 124 0 TTTTGATTTT 0.954557 -64 TCATAAAAAATTTTGCTTATTTTCTTATTTTGT 20 106 1 TTTTGATTTT 0.954557 -102 CCCCTAACATTTCAGAGGATTTTTATTTCTTTT 22 65 1 TTCAGATTTT 0.772352 -60 TAAAGCAAACGTTTGCTATTTTTTAAAAAGAAA 22 90 0 GTTTGTTTTT 0.789259 -35 AAATTAGGATTTTTTATGCACAAAG 23 3 1 ATTAGTTTTT 0.617113 -153 ***** ***** Masking position 10 Map Score: 17.896 Number of sites scoring better than the average of aligned sites = 115 Number in coding regions = 73 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 4 CACCCACATCGCAAACGTATTCACTTTATATGC 1 112 1 GCAACGATCA 0.981712 -189 GCAGGAGAAGGCAAAAGTATTCAACAAATGAAA 2 124 0 GCAAAGATCA 0.84032 -177 ATGCAATTTAGCAACCGATTGCAATAAAACATT 6 93 0 GCAACGTTCA 0.994148 -178 GTGATGTAACGCAATCTGTTACATAACGAATTG 9 63 0 GCAACTTTCA 0.943354 -238 TCACAAGTTTGTAATCGCTTTCATCTCACTATG 9 123 1 GTAACGTTCA 0.982355 -178 TAAAACTCACGCAAACGTTTACTTATCGTTTTT 11 70 0 GCAACGTTCT 0.981712 -165 ACTTATGAAAGTAACCGCTTTCAATTTATCGTA 20 63 0 GTAACGTTCA 0.982355 -145 ATAAATTAATGTAATCGTTTACATTGATAAAAA 20 173 1 GTAACGTTCA 0.982355 -35 ATCAAATAAAGCAAACGTTTGCTATTTTTTAAA 22 96 0 GCAACGTTCT 0.981712 -29 **** ** ** ** Masking position 4 Map Score: 14.0527 Number of sites scoring better than the average of aligned sites = 109 Number in coding regions = 73 Number in noncoding regions = 36 Number of orfs with sites within 600 bp upstream = 43 Fraction of orfs with sites within 600 bp upstream = 0.00690652 Motif number 5 ACAGATTGCGTTACATCACACTTCAAAAAAGTA 9 77 1 TTATCCACTT 0.977564 -224 TTGTAATCGCTTTCATCTCACTATGAAAAATGC 9 131 1 TTATCCACTA 0.886472 -170 TATTCATAATTTTGACCGCACTTTATCCTAAAT 11 102 0 TTACCCACTT 0.991109 -133 ACAAATTTCATTTTACCTCTCTTATAATGCAAC 12 202 1 TTACCCTCTT 0.952327 -99 TAACTTAAATTTTAACCGCACTTCTCAAATAGC 16 44 1 TTACCCACTT 0.991109 -144 AACTCCAAAATAAAACCGCACTTCACGACGCTA 16 73 0 TAACCCACTT 0.976081 -115 TTTTATCTCACTTTTTTGAAAAA 21 1 1 TTATCCACTT 0.977564 -135 TTCTATAGAGTATAACCGCACTTTTCCTCTTTG 23 76 0 TAACCCACTT 0.976081 -80 ** *** ***** Masking position 5 Map Score: 10.4137 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 Motif number 6 AATAGCGCGGTTCTTTTGTA 4 1 1 AATAGCGCGG 0.940784 -31 CCGGGAGAGCAGAAGCGCGGGCAAGATTGC 5 26 0 AGAAGCGCGG 0.989295 -79 TCTCACTATGAAAAATGCGGCTACGGTTAT 9 146 1 AAAAATGCGG 0.936512 -155 TTATTTAGGATAAAGTGCGGTCAAAATTAT 11 100 1 TAAAGTGCGG 0.980187 -135 ACGCTATTTGAGAAGTGCGGTTAAAATTTA 16 49 0 AGAAGTGCGG 0.992771 -139 AATAGCGTCGTGAAGTGCGGTTTTATTTTG 16 71 1 TGAAGTGCGG 0.983537 -117 GACAAAGAGGAAAAGTGCGGTTATACTCTA 23 74 1 AAAAGTGCGG 0.991283 -82 ********** Masking position 4 Map Score: 10.1274 Number of sites scoring better than the average of aligned sites = 73 Number in coding regions = 61 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 7 ATAATTCGTTATTTATATGTTAATAATAAGTAATGTTTGCGCTG 1 250 0 ATTAATATAT 0.95787 -51 AAAATAAATGAGTTTTCATTTAATCATCTTTTATCGGAGACAGG 2 201 0 ATTAATATAT 0.957903 -100 TATGCTTTAGACTTGCAAATGAATAATCATCCATATAAATTGAA 10 91 1 ATTAATATAT 0.957903 -71 CAAACGTTTACTTATCGTTTTTATGATGTAAAATAGCGCACCTT 11 48 0 CTTTATATAT 0.716435 -187 CTAACTCTTTATTGTTATTTGTTTGATTTCTAATAGTAGATGAA 12 78 0 ATTTTTATAT 0.629981 -223 TTTTGTTTTAATTAATTATTCTATTATTGTGCATATTTATTCAT 13 91 0 ATTTATATAT 0.930378 -44 TTAACAAGAAATTGTTTTTTGAATAATCTGAAATAACTTAAATT 16 11 1 ATTAATATAT 0.95668 -177 TAGATCTTGTAATGACATTTTTATTATAAATAATGGC 18 4 0 ATTTATATAT 0.930628 -167 AACCGCTTTCAATTTATCGTAAATTATTTATGATCAAAATATAA 20 40 0 ATTAATATAT 0.957904 -168 TACTTTCATAAGTATGAACTAAATCATAAAAAATTTTGCTTATT 20 83 1 ATTAATATAT 0.95787 -125 CGATTACATTAATTTATACTAAATTATTGTAAATAAACCGTGAT 20 146 0 ATTAATATAT 0.95787 -62 * * * *** ** ** Masking position 16 Map Score: 10.0352 Number of sites scoring better than the average of aligned sites = 32 Number in coding regions = 18 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 8 TTGTTGAATACTTTTGCCTTCTCCTGCTCT 2 130 1 CTTTTGCCTT 0.881902 -171 AACTCTGTTTCCTTATTTTGAAAT 8 47 0 CTGTTTCCTT 0.965792 -14 TTTTCGTCTTCATTTTCCTTTTTCACCAGT 9 206 0 CATTTTCCTT 0.907739 -95 GTCTGTTTCCTTTAAAAATATG 9 289 0 CTGTTTCCTT 0.965792 -12 TTTGACCGCACTTTATCCTAAATAAAACTC 11 95 0 CTTTATCCTA 0.667429 -140 TTTGTTTCCTTCATTTTATCA 11 224 0 TTGTTTCCTT 0.88847 -11 AATTTTTCCTTTTTGTTTTAA 13 124 0 ATTTTTCCTT 0.815773 -11 AACTTTTTCCTTGTTATAATCT 20 3 1 CTTTTTCCTT 0.975402 -205 TGCAATCCAGTTTTTTCCTAGAAATCGTGC 21 50 0 TTTTTTCCTA 0.816734 -86 AACTATTTCCTACTTTCCTAAA 21 124 0 CTATTTCCTA 0.738937 -12 ATATTTTCCTTACTAATAATT 23 145 0 TATTTTCCTT 0.735176 -11 ********** Masking position 4 Map Score: 9.81745 Number of sites scoring better than the average of aligned sites = 167 Number in coding regions = 136 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 9 TTTACTGGAAATTACTGCGCCATTCTGAC 1 10 0 ATTACTGCGC 0.647173 -291 ACTTTTGCCTTCTCCTGCTCTCCCTTAAGC 2 139 1 TCTCCTGCTC 0.913875 -162 ATGAGCCTGGATTTCCGCTCTCACTGAATT 2 252 0 ATTTCCGCTC 0.786172 -49 GCGGGCAAGATTGCCCGCGCGAGAAATCA 5 10 0 TTGCCCGCGC 0.981755 -95 GCGGGCAATCTTGCCCGCGCTTCTGCTCTC 5 22 1 TTGCCCGCGC 0.981755 -83 TCACCTAAAATCGCCCGCTCGCGGCATATC 6 47 0 TCGCCCGCTC 0.964079 -224 CACTTGCTTTTTTTCTGCTCTGTTTGTTAA 6 242 1 TTTTCTGCTC 0.85553 -29 GGTTATGGATTTTCCTGCTCTGTATACCGT 9 170 1 TTTCCTGCTC 0.955963 -131 ATTCATAATTTTGACCGCACTTTATCCTAA 11 104 0 TTGACCGCAC 0.787025 -131 ********** Masking position 5 Map Score: 5.05314 Number of sites scoring better than the average of aligned sites = 797 Number in coding regions = 729 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 63 Fraction of orfs with sites within 600 bp upstream = 0.0101189 Motif number 10 TGAACGTGTCCATTTGCCACAAGTATAAGCG 5 72 0 CTTTGCCACA 0.972336 -33 ACTCGGCACTTGTTTGCCACATATTTTTAAA 9 270 1 TTTTGCCACA 0.981211 -31 GCCGATACTCTTATTGTCACACACCACTGAC 10 33 1 TATTGTCACA 0.840012 -129 AAAGCATAAATCTTTGTCACAAAGGTGGAGG 10 68 0 TTTTGTCACA 0.961963 -94 TTCATTGAGGCGTTAGCCACAGGAGGGATCT 10 141 1 CTTAGCCACA 0.879474 -21 ATAAAAAGGCTTTTTGCCAAAACTCCAAAAT 16 95 0 TTTTGCCAAA 0.871386 -93 TAAACCGTGATCTTTGTCACAAAATAAGAAA 20 126 0 TTTTGTCACA 0.961963 -82 * ********* Masking position 9 Map Score: 4.4682 Number of sites scoring better than the average of aligned sites = 39 Number in coding regions = 29 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 11 TAATTCTGGAATTGTGATCATTGACGAAAT 1 39 0 ATTGTGATCA 0.789416 -262 TCCACGCCACATTTTGTCAACGTTTATTGC 2 66 1 ATTTTGTCAA 0.669426 -235 TTAAGAGGTGATTTTGATCACGGAATAAAA 6 127 1 ATTTTGATCA 0.94133 -144 ACTATTCATAATTTTGACCGCACTTTATCC 11 107 0 ATTTTGACCG 0.856032 -128 AAAATCTTTCATTTTGTCCATTTTATTTGT 13 22 0 ATTTTGTCCA 0.953824 -113 AAAATGAAAGATTTTGTCCATTTTTGTTTT 13 37 1 ATTTTGTCCA 0.953824 -98 CAATGCTAACATTTTGAGCAATAAAAAACT 17 41 0 ATTTTGAGCA 0.87846 -61 TAAATCTTATATTTTGATCATAAATAATTT 20 34 1 ATTTTGATCA 0.94133 -174 ATTTTTTATGATTTAGTTCATACTTATGAA 20 87 0 ATTTAGTTCA 0.672449 -121 ********** Masking position 3 Map Score: 5.11377 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 12 TTATTTTGCATAAAAATTCAGTGAGAGCGGAAAT 2 238 1 TAAAAATATA 0.810698 -63 AATCACCTCTTAAAATGCAATTTAGCAACCGATT 6 106 0 TAAAATGATA 0.745337 -165 TATTTATGAATAAAAATACACTAACGTTGAGCGT 7 54 1 TAAAAATATA 0.810661 -100 CTCAATGAATTAAAATTCAATTTATATGGATGAT 10 116 0 TAAAATTATA 0.923953 -46 GATTATTTTATTAAATTCTAATAATACTAAAAAT 12 121 1 TTAAATTATA 0.871672 -180 AATCTCGCAATAAAATTCTACATACTGGCATTAC 12 152 1 TAAAATTAAA 0.68885 -149 GAAGTGCGGTTAAAATTTAAGTTATTTCAGATTA 16 34 0 TAAAATTATA 0.950171 -154 GCTTGACCAATTAAATTAGATTAAGAGGCTGGTG 18 88 0 TTAAATTATA 0.870134 -83 ATTTCCTGAGTAAATTTGAAATTAGTGTAAACCT 18 142 0 TAAATTTATA 0.867675 -29 AACGATTACATTAATTTATACTAAATTATTGTAA 20 158 0 TTAATTTATA 0.697931 -50 CCTACTTTCCTAAAATTTCAATCCCGCCATTATC 21 104 0 TAAAATTATC 0.766425 -32 TAGGATTTACTAAATTTCCAATAATAAACATTTT 22 19 1 TAAATTTATA 0.871449 -106 ******* * * * Masking position 10 Map Score: 5.03821 Number of sites scoring better than the average of aligned sites = 42 Number in coding regions = 20 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 30 Fraction of orfs with sites within 600 bp upstream = 0.0048185 Motif number 13 GGCGGCTCCGGTACAAAAGAA 4 21 0 GCGGCTCCGG 0.990393 -11 CCGGAAAGCTGCGCCTCCGGCCAACAAAAC 8 11 0 GCGCCTCCGG 0.994107 -50 TATGAAAAATGCGGCTACGGTTATGGATTT 9 152 1 GCGGCTACGG 0.991571 -149 ********** Masking position 6 Map Score: 1.04697 Number of sites scoring better than the average of aligned sites = 16 Number in coding regions = 14 Number in noncoding regions = 2 Number of orfs with sites within 600 bp upstream = 2 Fraction of orfs with sites within 600 bp upstream = 0.000321234 Motif number 14 TGCGATGTGGGTGAATAAAAAGAATAAAAAA 1 94 0 GTGAATAAAA 0.884013 -207 GACCTCTACAGTAAATAATTCGTTATTTATA 1 277 0 GTAAATAATC 0.828453 -24 CTTCAAAAAAGTAAATAAAACGTTAATCACA 9 97 1 GTAAATAAAC 0.968389 -204 GCACTTTATCCTAAATAAAACTCACGCAAAC 11 87 0 CTAAATAAAC 0.940432 -148 GCCAAAACTCCAAAATAAAACCGCACTTCAC 16 80 0 CAAAATAAAC 0.713366 -108 GTAAACCTTTGTAAATAAAAAAGCCATCGCT 18 119 0 GTAAATAAAA 0.939732 -52 CTAAATTATTGTAAATAAACCGTGATCTTTG 20 141 0 GTAAATAAAC 0.968389 -67 ATGCACAAAGCTAAATAAAGATTTTTGCTTT 23 26 1 CTAAATAAAA 0.889326 -130 ATCGATTTTTGTGAATAAAAATTCTATAGAG 23 99 0 GTGAATAAAA 0.884013 -57 ********* * Masking position 6 Map Score: 4.76376 Number of sites scoring better than the average of aligned sites = 76 Number in coding regions = 56 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 15 TGCATAACATTGCGTTTTTTATTCTTTTTA 1 80 1 TGCGTTTTTT 0.970317 -221 CAGTAAATAATTCGTTATTTATATGTTAAT 1 270 0 TTCGTTATTT 0.896864 -31 AAGAGTTTAGTGTGTTTTTTGTAAAATAAT 2 171 0 TGTGTTTTTT 0.762169 -130 TCTCTTCACTTGCTTTTTTTCTGCTCTGTT 6 236 1 TGCTTTTTTT 0.865536 -35 CTATAGACAATTCGTTATGTAACAGATTGC 9 56 1 TTCGTTATGT 0.670158 -245 AGTAATAAGGTGCGCTATTTTACATCATAA 11 42 1 TGCGCTATTT 0.875735 -193 CTATACTTGTTGCGTTTTTTAACTTGATAA 11 200 1 TGCGTTTTTT 0.970317 -35 AACTGATTGGTTCGGTTTTTAACTGGCTCC 17 70 0 TTCGGTTTTT 0.739962 -32 AGCAAACGTTTGCTTTATTTGATTTAAAA 22 106 1 TGCTTTATTT 0.83935 -19 ********** Masking position 6 Map Score: 3.3189 Number of sites scoring better than the average of aligned sites = 335 Number in coding regions = 271 Number in noncoding regions = 64 Number of orfs with sites within 600 bp upstream = 74 Fraction of orfs with sites within 600 bp upstream = 0.0118856