AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00720_aful_reg_300.orf -o00720_aful_300.ace -a/home/amcguire/genomes/ORF_aful.txt -z/home/amcguire/genomes/aful.fna -g0.49 -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 = 0.49 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 AF0194 300 A. fulgidus predicted coding region AF0194 #2 AF0195 22 A. fulgidus predicted coding region AF0195 #3 AF0196 131 medium-chain acyl-CoA ligase (alkK-1) #4 AF0197 86 acetyl-CoA synthetase (acs-1) #5 AF0366 218 acetyl-CoA synthetase (acs-2) #6 AF0645 232 translation initiation factor eIF-5A (eif5A) #7 AF0647 132 isocitrate dehydrogenase, NADP (icd) #8 AF0677 165 acetyl-CoA synthetase (acs-3) #9 AF0681 145 succinate dehydrogenase, flavoprotein subunit A (sdhA) #10 AF0710 88 phosphoenolpyruvate synthase (ppsA) #11 AF0971 101 conserved hypothetical protein #12 AF0973 108 bile acid-inducible operon protein F (baiF-1) #13 AF1099 122 fumarase (fum-2) #14 AF1287 300 acetyl-CoA synthetase (acs-6) #15 AF1461 87 iron-sulfur cluster binding protein, putative #16 AF1462 136 A. fulgidus predicted coding region AF1462 #17 AF1540 143 succinyl-CoA synthetase, beta subunit (sucC-1) #18 AF1542 135 conserved hypothetical protein #19 AF1695 50 thiamine biosynthesis protein (apbA) #20 AF1696 28 small multidrug export protein (qacE) #21 AF1697 49 conserved hypothetical protein #22 AF1699 102 pyruvate ferredoxin oxidoreductase, subunit gamma (porG) #23 AF2186 65 succinyl-CoA synthetase, beta subunit (sucC-2) #24 AF2187 174 A. fulgidus predicted coding region AF2187 #25 AF2389-C 300 acetyl-CoA synthetase, putative Motif number 1 TTTGGATGAGTTCATTTATTGGTACAATTACGTTAAGCCTCAC 1 109 1 TATTAAAAGT 0.943749 -192 GAAAACTTTAACTTTTTGTCAAAATAAGTTTTTCTGTGAT 1 271 0 TATTAAAATT 0.965225 -30 GCACGATTTGTTTATTTATGATGATAAAGTATTTATGAATACT 3 61 1 TATTAAATTT 0.944407 -71 TGCTCACAATTGCACTGCAGTGCACAACAATGTACCTTGTTGT 5 53 0 TATAAAAAGT 0.730335 -166 AAGTCCGTCATCTATTCATCACCAAAAATAGGTTAAATTATTG 5 170 0 TATTAAAAGT 0.943749 -49 AGTCGCATTTTTAACTCTTCTTCAGAAAAATTTAAATTAACGC 6 182 1 TATTAAAATT 0.965225 -51 TTTATTCAATTAGAGTATTAGACAAAACATTTTTAACTAACAA 8 26 0 TATTAAATTT 0.944407 -140 AATAGATATATTTATTTATTGTTAAAATCTATTTTAAAAAACT 8 121 0 TATTAAATTT 0.944406 -45 TTTAAATTTTTTCATTTATGAACACAACTAATGTTGATTGATA 11 12 1 TATTAAAATG 0.91564 -90 ACAACTAATGTTGATTGATATTTAAAATGAGTGTATCTGCAAA 11 35 1 TATTAAAATG 0.91564 -67 ATGAAAAGTTTTAAGTTTTCAGAACAATGACATATGAACAATG 14 191 0 TATTAAAAAT 0.762749 -110 ATCAAAATTCTTAAATACTATGTAAAAGATGTGTGATTAAAAA 14 248 1 TATTAAATTG 0.869159 -53 GTTACTATTTAAATTTTTTGGAAAAGAAATTCCGAAAATTT 17 9 1 TATTAAAATT 0.965225 -135 TTTAACATTCTCAATTTTTCAATATAAAAAATTTTCGGAATTT 17 37 0 TATTAAAATT 0.965225 -107 ATTGAGAATGTTAAATCGAACTTAAAAGGTGGTTGGATGTGCA 17 65 1 TATAAAATGT 0.623715 -79 TTTAAGGTTCTGCAGTTTTCCCAATAAACTTTTGGTTTCGTAA 21 15 0 TATTAAATTT 0.944406 -35 * * * * * ** * ** Masking position 14 Map Score: 17.8092 Number of sites scoring better than the average of aligned sites = 55 Number in coding regions = 26 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 34 Fraction of orfs with sites within 600 bp upstream = 0.00546097 Motif number 2 GAAAACTTTAACTTTTTGTCAAAATAA 1 284 0 ATTAATTTTT 0.744573 -17 TTTCAAAGCTTTTCTTGAGGTT 2 1 1 TTAAACTTTT 0.861055 -22 CTTTGAGCATAATTCAATTTTTTAAGATGATAA 4 19 1 ATCAATTTTT 0.820905 -68 AACGATTAAAAATGAAAATTTTTGCGAAAATTA 5 115 0 ATAAATTTTT 0.908762 -104 ATTTTGCGTTAATTTAAATTTTTCTGAAGAAGA 6 197 0 ATTAATTTTT 0.744573 -36 TGTCAAAATGTGCAAAAGTTTTTACGGTATAAT 7 55 0 TCAAATTTTT 0.884741 -78 TCAGCACGCTTTCGCAAGTTTTTTAAAATAGAT 8 105 1 TCCAATTTTT 0.779369 -61 AGGTTTGTTATATAAAATCTTTTTTCTCGTGCG 9 23 1 TTAAACTTTT 0.861055 -123 ATTCCGCTCCACCTAAAATTTTTTAAGGCTTTG 10 42 1 ACAAATTTTT 0.872637 -47 ATTTAAATTTTTTCATTTATGAA 11 1 1 ATAAATTTTT 0.908762 -101 TATTTCTACAATTTTTTAAAGTTTGAA 12 5 1 TTCAATTTTT 0.837007 -104 AATTTTCAAATGTATAAGTTTTTCGATTTCAAA 12 32 0 TTTAATTTTT 0.765577 -77 TGTTCTGAAAACTTAAAACTTTTCATTTAATTC 14 208 1 ATAAACTTTT 0.846895 -93 GTTACTATTTAAATTTTTTGGAAAAGAAA 17 7 1 ATAAATTTTT 0.908762 -137 GAAAAGAAATTCCGAAAATTTTTTATATTGAAA 17 31 1 TCAAATTTTT 0.884741 -113 AGAATCGGCATTTAAAATATTTTTTTAGCTTTC 22 30 1 TTAAAATTTT 0.542859 -73 TTTTTTAGCTTTCAAAACCTTTTCCGTTAATTT 22 50 1 TCAAACTTTT 0.809991 -53 * * *** ***** Masking position 7 Map Score: 17.256 Number of sites scoring better than the average of aligned sites = 200 Number in coding regions = 98 Number in noncoding regions = 102 Number of orfs with sites within 600 bp upstream = 127 Fraction of orfs with sites within 600 bp upstream = 0.0203983 Motif number 3 AAAGAACCTCTCTATCTTCCCATTCGTTTGT 1 43 0 TCTTCTTCCC 0.973666 -258 GAGCTTCTGCTCCATCAGCCCAAAGAACCTC 1 64 0 TCCTCAGCCC 0.927187 -237 ACGGTAACTTCCTGTTTTCCC 3 1 0 CCTTTTTCCC 0.788616 -131 ACAGGAAGTTACCGTTTTCCCCCGAACAACA 3 17 1 ACCTTTTCCC 0.723482 -115 AGCTTCATGCTTTTTCTTCTCAGTCGCATTT 6 161 1 TTTTCTTCTC 0.770966 -72 GTTTATAAAATCCTTCCGCTCTTGGTTGAGT 7 95 0 TCCTCCGCTC 0.803386 -38 TTATATAAAATCTTTTTTCTCGTGCGTACTA 9 30 1 TCTTTTTCTC 0.865951 -116 GAACTTTTCTTCTCTCTGCCCAGCTTTTTGC 14 104 1 TCTTCTGCCC 0.975674 -197 GTTTGAGACATTTCTCTTCCCATTCTTTCCT 14 142 1 TTTTCTTCCC 0.860205 -159 TTCCCATTCTTTCCTTTTCTCATTTATATTC 14 158 1 TTCTTTTCTC 0.538375 -143 TGCACATTTTCCTTTCTTCCCGCTTTTATAG 15 56 1 CCTTCTTCCC 0.921142 -32 TTACGATCGTTCTCTTTTCTCTGCTGTGTTT 24 11 0 TCTTTTTCTC 0.865951 -164 AATAGGCAGAACCTTCTGCCCCCTCTACAAC 24 82 1 ACCTCTGCCC 0.898854 -93 TCTCAGCTCCTCCTTCAGCTCGTCCGACGGC 25 274 0 TCCTCAGCTC 0.874466 -27 ATGCTCTCTCAGCTCCTCCTTCAGC 25 286 0 TCTTCAGCTC 0.865255 -15 *** ******* Masking position 5 Map Score: 14.0346 Number of sites scoring better than the average of aligned sites = 933 Number in coding regions = 885 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 35 Fraction of orfs with sites within 600 bp upstream = 0.00562159 Motif number 4 AGCTTCTGCTCCATCAGCCCAAAGAACCTCT 1 63 0 CCACAGCCCA 0.717123 -238 CTCCCGTACTCAAACACCCTTTCAGCAGGTA 1 207 0 CAACACCCTT 0.952079 -94 CCTCAAACAACCACCTCCCGTACTCAAACAC 1 221 0 CCACTCCCGT 0.934908 -80 ACCACCACCCCTTTTTTATTGA 3 120 0 CCACACCCCT 0.984287 -12 CCGAGAATTACCAGCTGCCCTGATTTGGCCC 6 36 1 CCACTGCCCT 0.962626 -197 TTCATCACCTCTAATAGATATA 8 154 0 TCACACCTCT 0.673089 -12 AACAACCTCCCTTACCTACATTT 14 288 0 CAACTCCCTT 0.952079 -13 TTAAAGGAGGCTATCTCCTTT 16 126 1 CTACTCCTTT 0.658761 -11 CCTGCACATCCAACCACCTTTTAAGTTCGAT 17 79 0 CAACACCTTT 0.7827 -65 AGAACAGGCGTCATCAGCCTTAGCGGCGGTT 18 26 1 TCACAGCCTT 0.80124 -110 AAGGTGGACGCCATCACCCATACCGATTCAA 18 58 1 CCACACCCAT 0.906462 -78 GGTTCTAAATCGATCTGCCTTTCT 23 4 0 CGACTGCCTT 0.786331 -62 AATCTCCCCTCTAACTCCCTTAATCACCAAA 25 181 0 CTACTCCCTT 0.914151 -120 AGCTTAATCCTAATCTCCCCTCTAACTCCCT 25 192 0 TAACTCCCCT 0.806669 -109 *** ******* Masking position 3 Map Score: 11.4136 Number of sites scoring better than the average of aligned sites = 733 Number in coding regions = 696 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 36 Fraction of orfs with sites within 600 bp upstream = 0.0057822 Motif number 5 TGGATGGTTCACTCTCGCAAGAATGTGCCTTAC 1 10 0 ACGCAAGAAT 0.837286 -291 ACCTTGTTGTACCATCGAAAGAGTAATTAATCAG 5 29 0 ACGAAAGAGT 0.823215 -190 TTGTGAGCAAATTTGCGCAAAAGTGTTTTAATTT 5 87 1 ACGCAAAAGT 0.985763 -132 AAGTGTTTTAATTTTCGCAAAAATTTTCATTTTT 5 107 1 ACGCAAAAAT 0.877775 -112 AAAAAGCATGAAGCTCGCAAAAATCAGACGGCTG 6 142 0 ACGCAAAAAT 0.973487 -91 AAAAATTTAAATTAACGCAAAATTAGGCAGCAAG 6 207 1 ACGCAAAATT 0.937486 -26 AAGATTGTCAAAATGTGCAAAAGTTTTTACGGTA 7 59 0 ATGCAAAAGT 0.903382 -74 CCGGAGCACCATAGCCGCAAAGGTTTATAAGGTA 13 58 0 ACGCAAAGGT 0.957822 -65 AAACCAATCAAAAACCGCAAAAGTTATGTAGGAG 25 86 0 ACGCAAAAGT 0.989815 -215 * ********* Masking position 9 Map Score: 8.90188 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 = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 6 TGGAGCAGAAGCTCCATCTGTTTGATTCTTTGGAT 1 81 1 GCTTCTGTGA 0.978233 -220 AAATCAGACGGCTGGTTCTGTTCTACTTCATGGTG 6 121 0 GCTTCTGTTA 0.833845 -112 AAAAAATACGGTTTCCTCTGGAAGAGCCTCCTGTT 16 29 1 GTTTCTGGGA 0.948444 -108 GGCTGATGACGCCTGTTCTCAGAGAGGTGAGAGT 18 10 0 GCCTCTCAGA 0.934649 -126 TATTTTAAATGCCGATTCTGGTTGAATTCTGATTC 22 14 0 GCCTCTGGGA 0.996188 -89 GGCTGATATAGCCTTTTCTCGTCGAATTCTATTAA 24 113 0 GCCTCTCGGA 0.989299 -62 GGCTATTGCTGCTATATCTGGCTGATATAGCCTTT 24 132 0 GCTTCTGGGA 0.993966 -43 GGAGGCGTAAGCCTCCTCTGGGTGAAACAATGCAG 25 52 0 GCCTCTGGGA 0.996187 -249 *** ***** ** Masking position 15 Map Score: 7.36655 Number of sites scoring better than the average of aligned sites = 53 Number in coding regions = 44 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 7 GTACAATTACGTTAAGCCTCACATGAGCCT 1 130 1 GTTAAGCCTC 0.922446 -171 GTTCATCAAAATTCAGGCTCATGTGAGGCT 1 144 0 ATTCAGGCTC 0.93531 -157 AAGCTTTCAGCATCGAAATTCAGG 7 5 1 TTTCAGCATC 0.896885 -128 CAGCATCGAAATTCAGGCTCATGTGAGGCT 7 18 1 ATTCAGGCTC 0.93531 -115 GTATAATTGCTTTAAGCCTCACATGAGCCT 7 32 0 TTTAAGCCTC 0.974783 -101 CCTAAAATTTTTTAAGGCTTTGGCAAACTC 10 53 1 TTTAAGGCTT 0.824377 -36 GCTTTAAGGTTCTGCAGTTTTC 21 38 0 TTTAAGGTTC 0.928885 -12 TTTTTATTCTTTTAAGCATCCTCAGTTAAG 22 81 1 TTTAAGCATC 0.913383 -22 AAGTTTAGGTTTTAAGGTTCTAAATCGATC 23 20 0 TTTAAGGTTC 0.928885 -46 ********** Masking position 5 Map Score: 5.62641 Number of sites scoring better than the average of aligned sites = 162 Number in coding regions = 136 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 8 TGTTCCTTTTTAATATCGCTGATT 5 5 1 CCTTTTTAAT 0.845489 -214 CAAAAATTTTCATTTTTAATCGTTAATCCC 5 124 1 CATTTTTAAT 0.953708 -95 TTCTCAGTCGCATTTTTAACTCTTCTTCAG 6 177 1 CATTTTTAAC 0.952816 -56 TTAGACAAAACATTTTTAACTAACAACTAC 8 22 0 CATTTTTAAC 0.952816 -144 CAGATACACTCATTTTAAATATCAATCAAC 11 44 0 CATTTTAAAT 0.835597 -58 CCCTTACCTACATTTTTAATCACACATCTT 14 273 0 CATTTTTAAT 0.953708 -28 TTCGATTTAACATTCTCAATTTTTCAATAT 17 55 0 CATTCTCAAT 0.786425 -89 ACCACCCCATTTTCAACGAAACCAAAA 17 127 0 CATTTTCAAC 0.931453 -17 ********** Masking position 8 Map Score: 6.28139 Number of sites scoring better than the average of aligned sites = 49 Number in coding regions = 34 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 9 CCATCCACAAACGAATGGGAAGATAGAGAGGT 1 37 1 ACGATGGGAG 0.901974 -264 TTATTCAATAAAAAAGGGGTGGTGGT 3 116 1 AAAAGGGGGG 0.968463 -16 ATGACGGACTTTAAGGGGGGAGTTTAG 5 202 1 TTAAGGGGAG 0.836007 -17 AAATTAACGCAAAATTAGGCAGCAAGGT 6 215 1 AAAATAGGAG 0.760525 -18 GTGGTTGCAAAAAGCTGGGCAGAGAGAAGAAA 14 109 0 AAAGTGGGAG 0.88346 -192 GAGAAAAGGAAAGAATGGGAAGAGAAATGTCT 14 147 0 AAGATGGGAG 0.975237 -154 GAGCCCAATTAGACGGGGAAGTTTATAAAGA 15 10 1 TAGAGGGGAG 0.97225 -78 GAGGTGCTATAAAAGCGGGAAGAAAGGAAAAT 15 61 0 AAAACGGGAG 0.942446 -27 GGTTTCGTTGAAAATGGGGTGGT 17 131 1 AAAAGGGGGG 0.968463 -13 TATTAAGTTGTAGAGGGGGCAGAAGGTTCTGC 24 87 0 TAGAGGGGAG 0.97225 -88 **** **** ** Masking position 8 Map Score: 5.32083 Number of sites scoring better than the average of aligned sites = 370 Number in coding regions = 343 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 10 TCTCCAGTTCATCAAAATTCAGGCTCATGT 1 150 0 ATCAAAATTC 0.943037 -151 AGCTTTCAGCATCGAAATTCAGGCTCATGT 7 12 1 ATCGAAATTC 0.955185 -121 AAAGTTTGAAATCGAAAAACTTATACATTT 12 28 1 ATCGAAAAAC 0.815667 -81 TTCAATTCGAATCAAAATTCTTAAATACTA 14 238 1 ATCAAAATTC 0.943037 -63 GAAAATGTGCATCAAAAGTCCATTCTCTTT 15 37 0 ATCAAAAGTC 0.881767 -51 ATCCTTATAAATCGAGAACCGATATCGAAA 18 110 1 ATCGAGAACC 0.738217 -26 GAGAACCGATATCGAAAATCGAT 18 123 1 ATCGAAAATC 0.955185 -13 GTTGAATCAGAATTCAACCAGAATC 22 6 1 ATCAGAATTC 0.794579 -97 AAATAAACCAATCAAAAACCGCAAAAGTTA 25 94 0 ATCAAAAACC 0.903613 -207 ********** Masking position 7 Map Score: 5.20533 Number of sites scoring better than the average of aligned sites = 68 Number in coding regions = 55 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 11 AAGATAGAGAGGTTCTTTGGGCTGATGGAGCAGA 1 56 1 GGTTTTGCTG 0.954076 -245 TACGGGAGGTGGTTGTTTGAGGAGTGAAATTATT 1 230 1 GGTTTTGGAG 0.978206 -71 AGCACGATTTGTTTATTTATGATGATAAAGTATT 3 60 1 GTTTTTGATG 0.627776 -72 TCTACTTCATGGTGCTTTCAGGAGTAATTATAGC 6 101 0 GGTGTTGGAG 0.976731 -132 TTAATTGTTGGTTAGTTGGTGGTGAGTGAA 13 7 0 GTTATTGGTG 0.755082 -116 AAATAGTAGCGGTTTTTACCGGAGCACCATAGCC 13 76 0 GGTTTTGGAG 0.978206 -47 CTCGCTTGACGGTTTTCCAAGGCGGACTGCGTTA 16 95 1 GGTTTCGGCG 0.850477 -42 GAACTTAAAAGGTGGTTGGATGTGCAGGCAGAAT 17 82 1 GGTGTTTGTG 0.781616 -62 CAGCCTTAGCGGCGGTTGAAGGTGGACGCCATCA 18 40 1 GGCGTTGGTG 0.895432 -96 TCTTGTAACGGTTTTTCTAAGCAGCGTTACGATC 24 34 0 GTTTTCGCAG 0.661508 -141 TTTTTGATTGGTTTATTTCGGCTGGAGAAGGATT 25 106 1 GTTTTTGCTG 0.870143 -195 TTTGTAGTTTGGTGATTAAGGGAGTTAGAGGGGA 25 174 1 GGTGTTGGAG 0.976731 -127 **** ** **** Masking position 6 Map Score: 6.24086 Number of sites scoring better than the average of aligned sites = 307 Number in coding regions = 279 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 12 TCAGCAGGTAGCTTCCTCAGAAAAGCTTGG 1 187 0 GCTTCCTCAG 0.989085 -114 CATTTTTAACTCTTCTTCAGAAAAATTTAA 6 187 1 TCTTCTTCAG 0.792717 -46 AAAAAATACGGTTTCCTCTGGAAGAGCCTC 16 29 1 GTTTCCTCTG 0.836426 -108 CTGAGAACAGGCGTCATCAGCCTTAGCGGC 18 23 1 GCGTCATCAG 0.891579 -113 ATTCTTTTAAGCATCCTCAGTTAAGAG 22 86 1 GCATCCTCAG 0.984434 -17 GGAGGCGTAAGCCTCCTCTGGGTGAAACAA 25 57 0 GCCTCCTCTG 0.958548 -244 GTTGCCTTCGTCATCCTCAGGAAGGGATAC 25 242 1 TCATCCTCAG 0.945212 -59 ********** Masking position 4 Map Score: 3.01225 Number of sites scoring better than the average of aligned sites = 165 Number in coding regions = 155 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 13 GATGGAGCTTCTGCTCCATCAGCCCAAAGAA 1 68 0 CGCTCCATCA 0.902948 -233 GATGGAGCAGAAGCTCCATCTGTTTGATTCT 1 79 1 AGCTCCATCT 0.833456 -222 AAAAATCAGACGGCTGGTTCTGTTCTACTTC 6 127 0 CGCTGGTTCT 0.879714 -106 GCTTGCGATTCCGCTCCACCTAAAATTTTTT 10 35 1 CGCTCCACCT 0.986127 -54 TTACTCACCTCGTTCTGAGTTTGCCA 10 73 0 CCCTCGTTCT 0.939881 -16 AGGAGGCTTACGCCTCCTCCTACATAACTTT 25 70 1 CCCTCCTCCT 0.975813 -231 GCTCCTCCTTCAGCTCGTCCGACGGCTGGTA 25 269 0 CGCTCGTCCG 0.955686 -32 ATGCTCTCTCAGCTCCTCCTTCAGCTCGTC 25 281 0 CGCTCCTCCT 0.991307 -20 * ********* Masking position 5 Map Score: 3.17163 Number of sites scoring better than the average of aligned sites = 544 Number in coding regions = 513 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 14 GTCAACTTTTATTCAATTAGAGTATTAGAC 8 46 0 ATTCAATTAG 0.956259 -120 TCTCTTTAAAATTCACTTCGTATGCTTTGT 9 67 0 ATTCACTTCG 0.952007 -79 TTTTCATTTAATTCAATTCGAATCAAAATT 14 227 1 ATTCAATTCG 0.971278 -74 ACCCATACCGATTCAATTAGCCCGGTATTT 18 73 1 ATTCAATTAG 0.956259 -63 ********** Masking position 5 Map Score: 0.249878 Number of sites scoring better than the average of aligned sites = 3 Number in coding regions = 2 Number in noncoding regions = 1 Number of orfs with sites within 600 bp upstream = 1 Fraction of orfs with sites within 600 bp upstream = 0.000160617 Motif number 15 TCAAAATTCAGGCTCATGTGAGGCTTAACGTAA 1 136 0 GCTCTGTGAG 0.99123 -165 TCGAAATTCAGGCTCATGTGAGGCTTAAAGCAA 7 23 1 GCTCTGTGAG 0.99123 -110 AAAGGAGATAGCCTCCTTTAACGCAGTCCGCCT 16 114 0 GCTCTTTAAG 0.957014 -23 ATTTGTCTTTGAGTCTTGTAACGGTTTTTCTAA 24 48 0 GGTCTGTAAG 0.934411 -127 ATTACTGGATGTCTCTTTTGATGGGAGGGTTGG 25 137 1 GCTCTTTGAG 0.980454 -164 * *** ***** * Masking position 7 Map Score: 0.366124 Number of sites scoring better than the average of aligned sites = 19 Number in coding regions = 14 Number in noncoding regions = 5 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701