AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00053_ecoli_reg_300.orf -o00053_ecoli_300.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 mhpA 76 3-(3-hydroxyphenyl)propionate hydroxylase #2 ycjL 121 probable amidotransferase subunit #3 ycjC 26 orf, hypothetical protein #4 aldH 274 aldehyde dehydrogenase, prefers NADP over NAD #5 rspA 205 starvation sensing protein #6 b1582 134 orf, hypothetical protein #7 gatD 47 galactitol-1-phosphate dehydrogenase #8 gatB 30 galactitol-specific enzyme IIB of phosphotransferase system #9 gatZ 28 putative tagatose 6-phosphate kinase 1 #10 gatY 197 tagatose-bisphosphate aldolase 1 #11 BIME96 27 BIME #12 b2097 184 orf, hypothetical protein #13 ubiX 94 3-octaprenyl-4-hydroxybenzoate carboxy-lyase #14 purF 36 amidophosphoribosyltransferase = PRPP amidotransferase #15 cvpA 165 membrane protein required for colicin V production #16 folC 69 dihydrofolate:folylpolyglutamate synthetase; dihydrofolate synthetase #17 accD 155 acetylCoA carboxylase, carboxytransferase component, beta subunit #18 dedA 82 orf, hypothetical protein #19 usg 65 putative PTS system enzyme II A component #20 pdxB 98 erythronate-4-phosphate dehyrogenase #21 b2789 300 putative transport protein #22 trxA 76 thioredoxin 1 #23 rhoL 140 rho operon leader peptide #24 rho 84 transcription termination factor Rho; polarity suppressor #25 rfe 239 UDP-GlcNAc:undecaprenylphosphate GlcNAc-1-phosphate transferase; synthesis of enterobacterial common antigen (ECA) Motif number 1 CCCGGGCCGTATGCCCGTTTATTTCTGGCGA 4 192 0 ATGCCGTTTA 0.908371 -83 GCGCAAATATACGCCTTTTTTTGTGATCACT 5 97 1 ACGCCTTTTT 0.971953 -109 GTAGCAAAGTGCGCGTGTTTTTATGCCGGAT 10 39 0 GCGCGGTTTT 0.973737 -159 CCCTATCGGGAGGCCGTTTTTTTGCCTTTCA 10 75 1 AGGCCTTTTT 0.946975 -123 TGGTCGTTACGGGCGAGTTTTTCCATCTTTT 12 159 0 GGGCGGTTTT 0.950266 -26 TATTTTTTCAGCGCCATTTTTATTGATGCGC 15 58 1 GCGCCTTTTT 0.972462 -108 GGGACGCATAATGCCATTTTTGCCCCCAACA 17 88 0 ATGCCTTTTT 0.947972 -68 ACCTGGTTCGATGCCAGTTTTATCTTTGGGG 17 116 0 ATGCCGTTTT 0.971325 -40 GCGTTCAATGAGGCCCGATTTTGGCATTAGC 21 87 0 AGGCCGATTT 0.765689 -214 AGCCGCTATGGCGCGCTTTTTATACTGCTAT 21 143 1 GCGCGTTTTT 0.952251 -158 GCCGAATACGGCGCGTGTTTATATCTGGCAA 21 173 0 GCGCGGTTTA 0.915617 -128 AGGGTGTTTTTTGCCGTTTTTATAGGTCGTT 21 205 0 TTGCCTTTTT 0.741754 -96 AGCGTGGCTAACGCGAATTTTCAGGAGTGCA 21 277 1 ACGCGATTTT 0.802491 -24 AGGATCATCCATGCCTGTTTACGG 24 4 0 ATGCCGTTTA 0.908371 -81 ***** ***** Masking position 9 Map Score: 16.1041 Number of sites scoring better than the average of aligned sites = 835 Number in coding regions = 710 Number in noncoding regions = 125 Number of orfs with sites within 600 bp upstream = 118 Fraction of orfs with sites within 600 bp upstream = 0.0189528 Motif number 2 AGCCGCCTCTGCCTTGGCTGCGTTCGCTCCCCCGAAT 4 128 0 GCTTGCGTGC 0.992489 -147 TACTTGTATGGTAGTAGCTCAGTTGCGTAGATTTCAT 5 148 1 GTGTGCGTCG 0.822617 -58 GGTACGTTTTGCGTCCGCAGTGGATGGTGTAGAATCA 6 40 0 GCTCGCGGGG 0.912547 -95 CGATAGGGAAGCCGTAGCAAAGTGCGCGTGTTTTTAT 10 46 0 GCGTGCGTGC 0.995394 -152 TGCCTTCGCTGAGGGTGCCGGTCTGGCA 13 2 1 GCTTGCGGGC 0.984185 -93 GACTTTTTATGCCTTTGCGGCATCGGGCAATGCGT 15 9 0 GCTTGCATGG 0.926857 -157 CATCTTTCAGGCTGTAACTACGTTGGCTACAGCCTGA 18 33 0 GCGTACGTGC 0.970839 -50 CATGCTCTCTGCTGTAACATTGGCAGGGAGCTTTGCT 19 20 1 GCGTACGGGG 0.973778 -46 CCCGATTTTGGCATTAGCCCTGGACGGTGGAATCCAC 21 68 0 GCTTGCGGGG 0.993427 -233 TTAATGTTGTGTTGTTGCACGGTGAGCCGCTATGGCG 21 119 1 GTGTGCGTGC 0.970842 -182 TCTTAATGCCGCGCTGGCGATGTTAGGAAAATTCCTG 25 70 1 GCCTGCGTGG 0.983362 -170 ** ** ** ** ** Masking position 8 Map Score: 14.6479 Number of sites scoring better than the average of aligned sites = 753 Number in coding regions = 727 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 3 TATATGCAGTTTGTGAACGTCAGGGCGCAGAG 4 226 0 TTGTGACGTA 0.801331 -49 TTGTCAACCATTCACAGCGCAAATATACGCCT 5 81 1 TTCACACGCA 0.905992 -125 GCCACGTATGTTTACACCGCATCCGGCATAAA 10 19 1 TTTACACGCT 0.901262 -179 ATTGTCGTTTTTGTGATCGTTATCTCGATATT 10 125 1 TTGTGACGTA 0.801214 -73 TTAAGTGGTATTGTCATCGCGTACCTTACATT 12 34 0 TTGTCACGCT 0.960016 -151 CGCGGTCAAGTTTTCACCGCAAAGGTATTTAA 12 75 0 TTTTCACGCA 0.982287 -110 CGGTGAAAACTTGACCGCGCTAACATTTTTTC 12 88 1 TTGACCCGCA 0.853479 -97 TTTGGATGTTTTTTCAGCGTTTTCTGTTGGCT 12 130 0 TTTTCACGTT 0.910732 -55 ACGTCTTTTTCCTCGTTAAGCCACATCT 14 19 0 TTTTCCCGTA 0.874409 -18 GCTGAAAAAATATTCAACGCCATCGACTTTTT 15 38 0 TATTCACGCA 0.855108 -128 GTTGAATATTTTTTCAGCGCCATTTTTATTGA 15 52 1 TTTTCACGCA 0.982288 -114 CCTTTTGCTATTCTCACCGTAACGAATCAGCG 16 42 1 TTCTCACGTA 0.915053 -28 AATCTTGTAATTTCCAACGCTTCCCGTTTTAT 23 114 1 TTTCCACGCT 0.842624 -27 ****** *** * Masking position 1 Map Score: 10.728 Number of sites scoring better than the average of aligned sites = 806 Number in coding regions = 741 Number in noncoding regions = 65 Number of orfs with sites within 600 bp upstream = 74 Fraction of orfs with sites within 600 bp upstream = 0.0118856 Motif number 4 TGCGCGCACAGTACAGCGCAACTTATTTTG 1 25 0 GTACAGCGCA 0.950636 -52 ACAAAATGTCGTTGCGCGCACAGTACAGCG 1 37 0 GTTGCGCGCA 0.891556 -40 TAAAGGTCATTTAAAGCGCAGTAATGGCGA 2 86 1 TTAAAGCGCA 0.692039 -36 TGTATAGATTGCCGGGCGCATTGCGCTTAC 4 32 0 GCCGGGCGCA 0.850694 -243 TTTGTGAACGTCAGGGCGCAGAGATCCCCG 4 219 0 TCAGGGCGCA 0.93966 -56 TGTCAACCATTCACAGCGCAAATATACGCC 5 82 1 TCACAGCGCA 0.976393 -124 CCACGTATGTTTACACCGCATCCGGCATAA 10 20 1 TTACACCGCA 0.798778 -178 GCGGTCAAGTTTTCACCGCAAAGGTATTTA 12 76 0 TTTCACCGCA 0.774092 -109 TTAAGCCACATCTCAGAGCAC 14 2 0 TCTCAGAGCA 0.893934 -35 TTGAATATTTTTTCAGCGCCATTTTTATTG 15 53 1 TTTCAGCGCC 0.737922 -113 AGGGATTTCCTTCCCGCGCATCAATAAAAA 15 74 0 TTCCCGCGCA 0.902226 -92 GTCATCCTGTTCGGGGCGCATTCTAACAGA 15 122 0 TCGGGGCGCA 0.805314 -44 AGCCTGAAATGTTCCGAGCATTATTCTCG 18 10 0 GTTCCGAGCA 0.74237 -73 CAATGTTACAGCAGAGAGCATGAAGAAGAG 19 12 0 GCAGAGAGCA 0.831191 -54 CCATAGCGGCTCACCGTGCAACAACACAAC 21 124 0 TCACCGTGCA 0.685449 -177 AATAATTTTCTCTGAGAGCATGCATT 25 224 1 TCTGAGAGCA 0.850228 -16 ********** Masking position 8 Map Score: 10.0621 Number of sites scoring better than the average of aligned sites = 2436 Number in coding regions = 2289 Number in noncoding regions = 147 Number of orfs with sites within 600 bp upstream = 156 Fraction of orfs with sites within 600 bp upstream = 0.0250562 Motif number 5 AGCGCAATGCGCCCGGCAATCTATACACAAAA 4 35 1 GCCGGCATCT 0.97153 -240 CGGGCATACGGCCCGGGGATCTCTGCGCCCTG 4 206 1 GCCGGGATCT 0.946196 -69 CCGGCATAAAAACACGCGCACTTTGCTACGGC 10 41 1 ACACGCCACT 0.773491 -157 CAGGGTGCCAGACCGGCACCCTCAGCGAAGGC 13 12 0 GCCGGCCCCT 0.973633 -83 CTGCAAGTCTGACAGGGCAACTATTT 13 79 1 GCAGGGAACT 0.980904 -16 AACTGATAAGGGCAGGGCCACTGGCTCTGCCC 16 12 1 GCAGGGCACT 0.985104 -58 TAATCTCGCGGCCAGGCATACTTGCGAAGATT 20 30 0 GCAGGCTACT 0.960922 -69 TGGCACACTTGTCCGGTTAACTCTCGTCTCAT 20 62 1 GCCGGTAACT 0.933365 -37 ATTCGCGTTAGCCACGCTCACTCTGGACTGCG 21 263 0 GCACGCCACT 0.975054 -38 CCCGGCGTGAGTCATGCTAACTTAGTGTTGAC 23 53 1 GCATGCAACT 0.917563 -88 * ***** **** Masking position 12 Map Score: 7.70251 Number of sites scoring better than the average of aligned sites = 283 Number in coding regions = 251 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 6 TGCAGTTTGTGAACGTCAGGGCGCAGAGATCC 4 222 0 GAGTCAGGGC 0.988741 -53 AATCGAAAACAAACGACAGGAT 10 186 1 AAGACAGGAT 0.742615 -12 GGCGGGAGTTGCAAGTCAGGGTGCCAGACCGG 13 28 0 GAGTCAGGGT 0.978121 -67 CTGCCTGCAAGTCTGACAGGGCAACTATTT 13 75 1 GCGACAGGGC 0.967109 -20 GCCCCGAACAGGATGACAGGGCGTAAAATCGT 15 135 1 GAGACAGGGC 0.992117 -31 TAACTGATAAGGGCAGGGCCACTGGCTCT 16 8 1 TAGGCAGGGC 0.971196 -62 GAGAATAGCAAAAGGGCAGAGCCAGTGGCCCT 16 25 0 AAGGCAGAGC 0.853561 -45 ACAAGAACAAGAAAGGAAGGGTTAAAACGAAG 21 21 0 GAGGAAGGGT 0.928422 -280 GTTGTGAATGGTATGGCAGGATCATCCATGCC 24 20 0 GAGGCAGGAT 0.963035 -65 * * ******** Masking position 8 Map Score: 6.31771 Number of sites scoring better than the average of aligned sites = 310 Number in coding regions = 283 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 7 GCGCAGTAATGGCGATAATTTAGTCCACTTT 2 101 1 GGCGAGTCAC 0.983621 -21 GTTGCATCAAGGCGGCAAGTGAGCGAATCCCGATGAGC 4 75 1 GGCGAGCAAT 0.942472 -200 TGCAAGTCAGGGTGCCAGACCGGCACCCTCAGCGAAGG 13 13 0 GGTGAGCCCC 0.948625 -82 TATGCCTGGCCGCGAGATTATGGCACACTTGTCCGGTT 20 42 1 CGCGAGCCAC 0.997171 -57 GTATAAAAAGCGCGCCATAGCGGCTCACCGTGCAACAA 21 130 0 CGCGAGCCAC 0.997171 -171 CCTGAAAATTCGCGTTAGCCACGCTCACTCTGGACTGC 21 264 0 CGCGAGCCAC 0.997171 -37 CTGGACGCCCGGCGTGAGTCATGCTAACTTAGTGTTGA 23 46 1 GGCGAGCAAC 0.992145 -95 **** * ** *** Masking position 7 Map Score: 5.58693 Number of sites scoring better than the average of aligned sites = 153 Number in coding regions = 137 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 8 TTCAATCTAGCAGTGGGTTTTCATTTTTGCA 2 42 0 CAGGGGTTTT 0.894888 -80 AAAACGTACCAGGAGGGTGTTTATATTGATG 6 67 1 AGGGGGTGTT 0.931053 -68 TGCAGGATTTCGGCGGGAGTTGCAAGTCAGG 13 40 0 CGGGGGAGTT 0.97791 -55 AAAACGTTTGCGTAGGGATTTCCTTCCCGCG 15 86 0 CGTGGGATTT 0.946226 -80 TCGCCGAATACGGCGCGTGTTTATATCTGGC 21 175 0 CGGGCGTGTT 0.986725 -126 TCAGAGGTGACGTAGGGTGTTTTTTGCCGTT 21 218 0 CGTGGGTGTT 0.987053 -83 CACGTAAACACGTGGCGTTTTTGGCATAAGA 25 16 0 CGTGCGTTTT 0.96726 -224 CACGTGTTTACGTGGCGTTTTGCTTTTATAT 25 33 1 CGTGCGTTTT 0.96726 -207 *** ******* Masking position 10 Map Score: 9.0392 Number of sites scoring better than the average of aligned sites = 179 Number in coding regions = 153 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 9 ATACAAGTATAAAGATCGAAAAAAGCCGGAG 5 126 0 AAAGATGAAA 0.879655 -80 AAAACATCCAAAAGATGGAAAAACTCGCCCG 12 150 1 AAAGATGAAA 0.879655 -35 TTAAAACATAACAGCCCGAAACTTTGGATAA 17 39 0 ACAGCCGAAA 0.985257 -117 CGAACCAGGTTCAGACAGAAAGGTCCCTA 17 137 1 TCAGACGAAA 0.91993 -19 TACGTTGGCTACAGCCTGAAATGTTCCGAGC 18 21 0 ACAGCCGAAA 0.985257 -62 CAACGTAGTTACAGCCTGAAAGATGACGAGT 18 45 1 ACAGCCGAAA 0.985257 -38 CATTAAGATTACAGATATAAAAGCAAAACGC 25 47 0 ACAGATTAAA 0.776562 -193 ****** **** Masking position 3 Map Score: 3.59024 Number of sites scoring better than the average of aligned sites = 120 Number in coding regions = 108 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 10 GCGCGCAACGACATTTTGTCCGAGTCGTGA 1 48 1 ACATTTTGTC 0.940275 -29 TTTATGTTCAATATTTTTTCAATCTAGCAG 2 60 0 ATATTTTTTC 0.83919 -62 GAAATAGAATACCTTTTGTCAGCTGACACT 5 46 0 ACCTTTTGTC 0.968683 -160 ATTCTATTTCATCTTTTGTCAACCATTCAC 5 66 1 ATCTTTTGTC 0.929577 -140 GTGTAGAATCACCTTTAATCATTCATACAG 6 21 0 ACCTTTAATC 0.728543 -114 GACCGCGCTAACATTTTTTCTGATGAATCG 12 100 1 ACATTTTTTC 0.924405 -85 CATCTTTTGGATGTTTTTTCAGCGTTTTCT 12 137 0 ATGTTTTTTC 0.701569 -48 ATGGCGTTGAATATTTTTTCAGCGCCATTT 15 47 1 ATATTTTTTC 0.83919 -119 AATAAAGTCAACCTTTAGTTGGTTA 22 62 1 ACCTTTAGTT 0.550286 -15 AACCACGAAGACCTTTATTCAGAAGGGAAA 25 183 0 ACCTTTATTC 0.915816 -57 ********** Masking position 5 Map Score: 5.51127 Number of sites scoring better than the average of aligned sites = 207 Number in coding regions = 172 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 11 TGTTCTGTAAGCCGGGTAAGCGCAATGCGCC 4 17 1 GCCGGGTAAC 0.982403 -258 AGCGCAATGCGCCCGGCAATCTATACACAAA 4 35 1 GCCCGGCAAC 0.992235 -240 CGGGCATACGGCCCGGGGATCTCTGCGCCCT 4 206 1 GCCCGGGGAC 0.979046 -69 TAATCTCGCGGCCAGGCATACTTGCGAAGAT 20 31 0 GCCAGGCATC 0.9675 -68 TTGTGTTGTTGCACGGTGAGCCGCTATGGCG 21 125 1 GCACGGTGAC 0.898334 -176 CTGCGACATCGCCAGGAAATCAGAGGTGACG 21 237 0 GCCAGGAAAC 0.953419 -64 CATGACTCACGCCGGGCGTCCAGTTTTTAGC 23 38 0 GCCGGGCGTC 0.96921 -103 AAAGCAAAACGCCACGTAAACACGTGGCGTT 25 28 0 GCCACGTAAC 0.895393 -212 ********* * Masking position 6 Map Score: 5.05979 Number of sites scoring better than the average of aligned sites = 857 Number in coding regions = 802 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 47 Fraction of orfs with sites within 600 bp upstream = 0.00754899 Motif number 12 GCTCAGTTGCGTAGATTTCATGCATCACGACA 5 164 1 GAATTTCATG 0.966658 -42 GTTTTAATGTGCAACATTCATGGTCTGTTGGG 17 63 1 GACATTCATG 0.912306 -93 ATAATGCTCGGAACATTTCAGGCTGTAGCCAA 18 16 1 GAATTTCAGG 0.978717 -67 CTTGTACTCGTCATCTTTCAGGCTGTAACTAC 18 49 0 TACTTTCAGG 0.834257 -34 GCATACTTGCGAAGATTTCAGGTATAAGGATA 20 15 0 GAATTTCAGG 0.978717 -84 GGGAATTTCATGTTCGGGTGCC 23 1 1 GGATTTCATG 0.885064 -140 TGGTATGGCAGGATCATCCATGCCTGTTTACG 24 12 0 GACATCCATG 0.854884 -73 TAACATGCCAGCAAATTCCAGGAATTTTCCTA 25 93 0 GAATTCCAGG 0.963018 -147 * * ******** Masking position 10 Map Score: 3.28763 Number of sites scoring better than the average of aligned sites = 103 Number in coding regions = 88 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 18 Fraction of orfs with sites within 600 bp upstream = 0.0028911 Motif number 13 AGTGATTCGGGGGAGCGAACGCAGCCAAGG 4 124 1 GGGAGCGAAC 0.960866 -151 AGCGATGCAAGGAATCGAAC 5 196 1 GGAATCGAAC 0.972404 -10 TTTTTTCTGATGAATCGAGCCAACAGAAAA 12 113 1 TGAATCGAGC 0.895526 -72 ATGCCTTTGCGGCATCGGGCAATGCGT 15 8 0 GGCATCGGGC 0.978559 -158 AGATAAAACTGGCATCGAACCAGGTTCAGA 17 122 1 GGCATCGAAC 0.987561 -34 CTGTAACATTGGCAGGGAGCTTTGCTATTT 19 31 1 GGCAGGGAGC 0.959564 -35 ********** Masking position 4 Map Score: 1.32887 Number of sites scoring better than the average of aligned sites = 318 Number in coding regions = 302 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 14 ACATTTTGTCCGAGTCGTGAGGTACTGAA 1 58 1 CGAGTCGTGG 0.826785 -19 TAAATTATCGCCATTACTGCGCTTTAAATGA 2 92 0 CCATTACTGG 0.62181 -30 GCAAAACGTACCAGGAGGGTGTTTATATTGA 6 65 1 CCAGGAGGGG 0.893011 -70 CTACGGCTTCCCTATCGGGAGGCCGTTTTTT 10 66 1 CCTATCGGGG 0.927115 -132 TGGTGTTGTTCGTATAAGGCGTA 11 3 0 CGTATAAGGG 0.62732 -25 GCCCTGTCATCCTGTTCGGGGCGCATTCTAA 15 126 0 CCTGTTCGGG 0.902842 -40 TGGCATTAGCCCTGGACGGTGGAATCCACTT 21 66 0 CCTGGACGGG 0.941848 -235 GGTCGTTCGCCGAATACGGCGCGTGTTTATA 21 181 0 CGAATACGGG 0.928453 -120 TTTACGAAAGCGTATCCGGTGAAATAAAGTC 22 40 1 CGTATCCGGG 0.943528 -37 TCCAAACCCACCAGTCCTGTGCAAAAATTAA 25 146 0 CCAGTCCTGG 0.931895 -94 ********* * Masking position 1 Map Score: 0.971866 Number of sites scoring better than the average of aligned sites = 1216 Number in coding regions = 1145 Number in noncoding regions = 71 Number of orfs with sites within 600 bp upstream = 63 Fraction of orfs with sites within 600 bp upstream = 0.0101189 Motif number 15 TAGCAGTGGGTTTTCATTTTTGCAAACTCAA 2 35 0 TTTTCTTTTT 0.571169 -87 ATTTGCATTTCCTTAAACTGTA 3 15 0 TTTGCTTTCC 0.973097 -12 AGGCCGTTTTTTTGCCTTTCACTCCTCGAAT 10 85 1 TTTGCTTTCA 0.876886 -113 CTGTCGTTTGTTTTCGATTTCAAAATATAAT 10 174 0 TTTTCATTTC 0.729306 -24 ATCGACTTTTTATGCCTTTGCGGCATCGGGC 15 18 0 TATGCTTTGC 0.659786 -148 TACGCAAACGTTTTCTTTTTCTGTTAGAATG 15 103 1 TTTTCTTTTC 0.8712 -63 GCTCTGCCCTTTTGCTATTCTCACCGTAACG 16 35 1 TTTGCATTCT 0.739382 -35 ATTTGCCTATGCCTTGTACTCG 18 71 0 TTTGCTATGC 0.791103 -12 GGCAGGGAGCTTTGCTATTTCTGGAGTAAAC 19 41 1 TTTGCATTTC 0.879997 -25 CTTGTTCTTGTTTTCATTTCCGTGAAGTGGA 21 42 1 TTTTCTTTCC 0.930018 -259 TGTTATGCAATTTGCATATCAAATGGTTAAT 25 120 1 TTTGCTATCA 0.638631 -120 ***** ***** Masking position 3 Map Score: 3.0408 Number of sites scoring better than the average of aligned sites = 596 Number in coding regions = 496 Number in noncoding regions = 100 Number of orfs with sites within 600 bp upstream = 118 Fraction of orfs with sites within 600 bp upstream = 0.0189528