AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00440_mjan_reg_100.orf -o00440_mjan_100.ace -a/home/amcguire/genomes/ORF_mjan.txt -z/home/amcguire/genomes/mjan.fna -g0.31 -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 = 0.31 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 MJ0102 300 Phenylacrylic acid decarboxylase #2 MJ0771 88 cobalamin biosynthesis precorrin-2 methyltransferase (cbiL) #3 MJ1027 125 formate hydrogenlyase, subunit 5 #4 MJ1028 60 DNA topoisomerase VI, subunit B (top6B) #5 MJ1029 47 dimethyladenosine transferase (ksgA) #6 MJ1054 300 UDP-glucose dehydrogenase, putative #7 MJ1391 300 putative aminotransferase #8 MJ1522 146 cobalamin biosynthesis precorrin-6Y methylase (cbiE) #9 MJ1575 300 GMP synthase (guaA) #10 MJ1576 80 LemA protein #11 MJ1577 29 M. jannaschii predicted coding region MJ1577 #12 MJ1578 66 cobalamin biosynthesis precorrin-3 methylase (cbiF) #13 MJ1656 300 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (hpcE) Motif number 1 ATGAAAACTCTTTTAGTTTTCATTTAACCG 1 83 1 TTTTAGTTTT 0.897865 -218 CGGCACCATTTTATTATTTTATTTTAGGTT 1 189 1 TTATTATTTT 0.92461 -112 TAGGTTGTTATATTTATTTTTTTAGATTTA 1 213 1 TATTTATTTT 0.921191 -88 ATTTATGGATTAACTATTTTTAAATAGTAT 1 238 1 TAACTATTTT 0.715488 -63 TTTTAAATAGTATTTATTTTTTAAATCTTA 1 255 1 TATTTATTTT 0.921191 -46 AATCTTAACTTAACAGTTTTTAATGGTGAA 1 278 1 TAACAGTTTT 0.424471 -23 AAGTTTTTAATTGTAATTTTATAAAATCGT 2 66 1 TTGTAATTTT 0.741301 -23 CTTACGATTTTATAAAATTAC 2 78 0 TTACGATTTT 0.716051 -11 GTTTAGTTAATTTCTATTTTGTTACATTAT 4 23 1 TTTCTATTTT 0.940339 -38 TTTGTTACATTATTTATTTTACTGATATTT 4 40 1 TATTTATTTT 0.921191 -21 ATTTTTATTTTCTTTTCTCTT 5 2 1 TTTTTATTTT 0.967716 -46 TTTATTTTCTTTTCTCTTTTTTAGAATAAA 5 14 1 TTTCTCTTTT 0.707262 -34 TGTTTCACTTTTTATTTATTCT 5 36 0 TTTCACTTTT 0.707262 -12 ATAGCATTACTTATAATTTTCGTTATCAAT 6 147 0 TTATAATTTT 0.92461 -154 TTGTATAATATTATTATATTTCTCTTACAT 6 252 0 TTATTATATT 0.676217 -49 TATAAAATTTTTATTATTTTTGAAAGATAC 7 68 1 TTATTATTTT 0.92461 -233 AATAGCGAAATTTTTATATTTGTTAAAATT 7 144 1 TTTTTATATT 0.836182 -157 GTAAGGTATTTTTTAATTTTAATAACTTTT 7 202 0 TTTTAATTTT 0.967716 -99 AAATTGGCATTTTTAGTTTTTGCGGAGCAT 7 272 0 TTTTAGTTTT 0.897865 -29 TTTCAATTTTTAAATTTTTA 8 1 1 TTTCAATTTT 0.940339 -146 TTAACTTATATTTTTATATTCTTATTTTAT 8 40 1 TTTTTATATT 0.836182 -107 TACCTTATCTTTTTAATTTTATTGATATTT 8 89 1 TTTTAATTTT 0.967716 -58 CCATTATTAATATTAATTTTAACAACTTTG 9 74 0 TATTAATTTT 0.921191 -227 TTATTAATTTTAATTTTTAGGGGATTT 11 8 1 TTTTAATTTT 0.967716 -22 AAGTAAATTTTATTAATTTTGAAAGACCTA 12 18 1 TATTAATTTT 0.921191 -49 TCTCCTCTTGTTTTTGTTTTTATAGTAGGT 12 43 0 TTTTTGTTTT 0.897865 -24 TAAGCTTTGGTTTTGATATTGAAGAACTAT 13 85 1 TTTTGATATT 0.666222 -216 TATCTCTTAATATTGATTTTGAGGAGGAAT 13 112 1 TATTGATTTT 0.820493 -189 AGAGATTGTTTTATAATTTTAGAGGACTAT 13 218 1 TTATAATTTT 0.92461 -83 ********** Masking position 7 Map Score: 43.4016 Number of sites scoring better than the average of aligned sites = 1561 Number in coding regions = 991 Number in noncoding regions = 570 Number of orfs with sites within 600 bp upstream = 403 Fraction of orfs with sites within 600 bp upstream = 0.0647286 Motif number 2 GCTTCGGTTAAATGAAAACTAAAAGAGTTTTCAT 1 83 0 AAAACTAAAA 0.486101 -218 GATTTTGTTTAACTTTTTCTAAAAGTTTCGTTTG 1 144 1 AATTCTAAAA 0.917085 -157 TTAAAAAATAAATACTATTTAAAAATAGTTAATC 1 245 0 AATTTTAAAA 0.943855 -56 ATTTATATAGTAAGTTATCTAAAAAAGTTTTTAA 2 42 1 TATTCTAAAA 0.912145 -47 GATTTTATAAAATTACAATTAAAAACTTTTTTAG 2 60 0 AACATTAAAA 0.505842 -29 CTCGATAACTTTATTAAAACAAAACTATA 3 6 1 TATATTAAAA 0.797332 -120 TTATTAAAACAAAACTATATAAAAGGTTAAGCTA 3 21 1 AATTATAAAA 0.732604 -105 ATATACCTATTATCATGTTTATAATTGTTGG 3 105 1 TATTTTATAA 0.868164 -21 AGAAATTAACTAAACTATTTTTAAACT 4 4 0 TATTTTTTAA 0.73917 -57 TTTCACTTTTTATTTATTCTAAAAAAGAGAAAAG 5 22 0 TAATCTAAAA 0.780774 -26 TATTACTTGGAAATCTATTTAAAACCTCTTTAAT 6 28 0 AATTTTAAAA 0.943855 -273 TTCGCAGGAATAAAATCTTTAAAAGAAATC 7 7 0 TATTTTAAAA 0.940406 -294 TAACTTTATTAATAATCTTTATAAAATTTTTATT 7 49 1 AATTTTATAA 0.875239 -252 GACTTTCGTATAGTATCTTTCAAAAATAATAAAA 7 76 0 TATTTTCAAA 0.848179 -225 TATTGTTTTGTATTAAATCTTTAATGCGAGTATT 7 114 0 TAATCTTTAA 0.390083 -187 AAGTAAATTTTAACAAATATAAAAATTTCGCTAT 7 145 0 TAATATAAAA 0.468703 -156 TGTTAAAATTTACTTACATTAAAACAAGTAGTTT 7 164 1 TAAATTAAAA 0.574386 -137 TAGTTTTTGCAAAAGTTATTAAAATTAAAAAATA 7 192 1 AATATTAAAA 0.807365 -109 TTCCTTTAGTAAGGTATTTTTTAATTTTAATAAC 7 206 0 AAATTTTTAA 0.508748 -95 TTACTACCCATATATTCTTTTAAAATGCTCCGCA 7 248 1 TATTTTTAAA 0.871647 -53 AATTTATTACTATTATGTTTTTAAATATCAATAA 8 107 0 TATTTTTTAA 0.739169 -40 ATCATAATAAAAGAAATTTTAAAATATAGTGTCT 9 38 1 AAATTTAAAA 0.852218 -263 TTTTAAAATATAGTGTCTTTCAAAGTTGTTAAAA 9 54 1 TATTTTCAAA 0.848179 -247 ATCCATTATTAATATTAATTTTAACAACTTTGAA 9 72 0 AATATTTTAA 0.429441 -229 CTTTTACTAAAAGGTTCTTTCAAAATGTTTTTGA 9 248 1 AATTTTCAAA 0.856149 -53 TATATTTTATTAGTATCTTTCAAAAACATTTTGA 9 267 0 TATTTTCAAA 0.848179 -34 CTAATAATAAAATTTATATAAGTTGATATCA 10 8 1 TATTATATAA 0.517651 -73 CCTCATCTCTAAAAGTGTCTAAAATAATACACAA 13 48 0 AATTCTAAAA 0.917085 -253 GGAACTTTAAAATCTCTTTTTTAACAGCTCCATT 13 143 0 AACTTTTTAA 0.424415 -158 AAAATTATAAAACAATCTCTTAAATAATAAGTTA 13 204 0 AATTCTTAAA 0.826386 -97 CTCCCTAAATGCATCTAAAACTCCCCTACT 13 281 0 AACTCTAAAA 0.729834 -20 ** * ******* Masking position 10 Map Score: 26.8124 Number of sites scoring better than the average of aligned sites = 2598 Number in coding regions = 1948 Number in noncoding regions = 650 Number of orfs with sites within 600 bp upstream = 437 Fraction of orfs with sites within 600 bp upstream = 0.0701895 Motif number 3 AAACTTTTAGAAAAAGTTAAACAAAATCTTTCAGA 1 137 0 AAAATAAAAA 0.897974 -164 AAATAAATATAACAACCTAAAATAAAATAATAAAA 1 197 0 AAAATAATAA 0.906148 -104 TAGTTAATCCATAAATCTAAAAAAATAAATATAAC 1 219 0 ATAATAAAAA 0.729722 -82 ATTTATTTTTTAAATCTTAACTTAACAGTTTTTAA 1 266 1 TAATTAATAA 0.831621 -35 TAGCTAAATTTATATAGTAAGTTATCTAAAAAAGT 2 35 1 TAATTAATAT 0.741478 -54 AAAACTATATAAAAGGTTAAGCTAATTATCATTAT 3 31 1 AAAGTAATAA 0.668165 -95 ATCATTATTAATTATGATAAATTATCTATTCATTA 3 58 1 ATATTAATAT 0.694576 -68 TGTAACAAAATAGAAATTAACTAAACTATTTTTAA 4 14 0 TAAATAAAAA 0.77299 -47 CAGTAAAATAAATAATGTAACAAAATAGAAATTAA 4 29 0 AAAATAAAAA 0.897974 -32 ATTGATAACGAAAATTATAAGTAATGCTATATTTA 6 147 1 AAATTAAAAT 0.871102 -154 TTAATGTAAGTAAATTTTAACAAATATAAAAATTT 7 151 0 TAATTAAAAT 0.72334 -150 GCAAAAGTTATTAAAATTAAAAAATACCTTACTAA 7 200 1 TTAATAAAAT 0.377555 -101 ATAAGAATATAAAAATATAAGTTAAATTTTGAATT 8 30 0 AAAATAATAA 0.906148 -117 ATATCAGAATAAGAATATAAAATAAGAATATAAAA 8 51 0 AAAATAATAA 0.906148 -96 CAATAAAATTAAAAAGATAAGGTAAAGATATCAGA 8 78 0 AAAATAATAA 0.906148 -69 ATTTAAAAACATAATAGTAATAAATTATTTGAATG 8 115 1 ATATTAAAAT 0.674595 -32 AATTTGGAGGATAATCATAATAAAAGAAATTTTAA 9 25 1 ATATTAAAAA 0.781178 -276 ATGTTTTTGAAAGATACTAATAAAATATAAGGTGA 9 272 1 AAATTAAAAA 0.920871 -29 GTTGATATCAAACATACTAAACTATCCAAATAATT 10 32 1 AAATTAATAT 0.881144 -49 GAGAAAAATCCTAATCTATATAACAATGG 13 5 1 AAATTAATAT 0.881144 -296 AACAATCTCTTAAATAATAAGTTAATGATTCATTA 13 193 0 TAATTAATAA 0.831622 -108 ATAGTCCTCTAAAATTATAAAACAATCTCTTAAAT 13 213 0 AAATTAACAA 0.686676 -88 ** ** *** *** Masking position 8 Map Score: 23.9197 Number of sites scoring better than the average of aligned sites = 1050 Number in coding regions = 722 Number in noncoding regions = 328 Number of orfs with sites within 600 bp upstream = 269 Fraction of orfs with sites within 600 bp upstream = 0.0432059 Motif number 4 TTTTAATTGTAATTTTATAAAATCGTAAG 2 70 1 AATTTTATAA 0.593526 -19 GGTTAAGCTAATTATCATTATTAATTATGA 3 45 1 ATTATCATTA 0.549271 -81 TAAATATCAGTAAAATAAATAA 4 49 0 AATATCAGTA 0.498543 -12 ATAATTGTATAATATTATTATATTTCTCTT 6 256 0 AATATTATTA 0.899297 -45 ATATTATACAATTATTAATAAATAAACTCA 6 271 1 ATTATTAATA 0.841112 -30 TTTTATAAAGATTATTAATAAAGTTAATGG 7 45 0 ATTATTAATA 0.841112 -256 TCTTTATAAAATTTTTATTATTTTTGAAAG 7 64 1 ATTTTTATTA 0.687387 -237 ACAATAGCGAAATTTTTATATTTGTTAAAA 7 142 1 AATTTTTATA 0.442334 -159 AATGTAAGTAAATTTTAACAAATATAAAAA 7 154 0 AATTTTAACA 0.741606 -147 GGTATTTTTTAATTTTAATAACTTTTGCAA 7 198 0 AATTTTAATA 0.924797 -103 TATGTTTTTAAATATCAATAAAATTAAAAA 8 98 0 AATATCAATA 0.872047 -49 TTAAAAACATAATAGTAATAAATTATTTGA 8 117 1 AATAGTAATA 0.608521 -30 AATTTCTTTTATTATGATTATCCTCCAAAT 9 26 0 ATTATGATTA 0.257114 -275 TAATAAAAGAAATTTTAAAATATAGTGTCT 9 42 1 AATTTTAAAA 0.726678 -259 TATTAATATTAATTTTAACAACTTTGAAAG 9 70 0 AATTTTAACA 0.741606 -231 TGTTAAAATTAATATTAATAATGGATATTT 9 80 1 AATATTAATA 0.942063 -221 AACTTATATAAATTTTATTATTAG 10 5 0 AATTTTATTA 0.871032 -76 CCTAAAAATTAAAATTAATAA 11 2 0 AAAATTAATA 0.511905 -28 TTCATAAGTAAATTTTATTAATTTTGAAAG 12 13 1 AATTTTATTA 0.871032 -54 ATAGTTCTTCAATATCAAAACCAAAGCTTA 13 85 0 AATATCAAAA 0.595711 -216 CCTCAAAATCAATATTAAGAGATAGTTCTT 13 106 0 AATATTAAGA 0.673423 -195 ********** Masking position 1 Map Score: 13.6006 Number of sites scoring better than the average of aligned sites = 1184 Number in coding regions = 795 Number in noncoding regions = 389 Number of orfs with sites within 600 bp upstream = 316 Fraction of orfs with sites within 600 bp upstream = 0.0507549 Motif number 5 ACCTAAAATAAAATAATAAAATGGTGCCGA 1 188 0 AAATAATAAA 0.796071 -113 TTAGCTAAATTGACAATAAATTTTTGGTGA 2 12 0 TGACAATAAA 0.690647 -77 TATAGTTTTGTTTTAATAAAGTTATCGAG 3 10 0 TTTTAATAAA 0.580291 -116 TTATCATAATTAATAATGATAATTAGCTTA 3 48 0 TAATAATGAT 0.45029 -78 TAAATATCAGTAAAATAAATAATG 4 47 0 TATCAGTAAA 0.498714 -14 TTTAATCTTGTGATAATAAATTC 6 4 0 TGATAATAAA 0.874939 -297 GATTTCCAAGTAATAGTAAATTCGATACGG 6 47 1 TAATAGTAAA 0.798816 -254 ATTATACAATTATTAATAAATAAACTCAGG 6 273 1 TATTAATAAA 0.9379 -28 TTATAAAGATTATTAATAAAGTTAATGGGG 7 43 0 TATTAATAAA 0.9379 -258 TATCTTTCAAAAATAATAAAAATTTTATAA 7 67 0 AAATAATAAA 0.796071 -234 AATATATGGGTAGTAATGAATGCCTTCCTT 7 234 0 TAGTAATGAA 0.702012 -67 TGTTTTTAAATATCAATAAAATTAAAAAGA 8 96 0 TATCAATAAA 0.828167 -51 AAAAACATAATAGTAATAAATTATTTGAAT 8 119 1 TAGTAATAAA 0.880703 -28 TGGAGGATAATCATAATAAAAGAAATTTTA 9 29 1 TCATAATAAA 0.722979 -272 TTAAAATTAATATTAATAATGGATATTTGA 9 82 1 TATTAATAAT 0.668379 -219 TTTTGAAAGATACTAATAAAATATAAGGTG 9 276 1 TACTAATAAA 0.800458 -25 CTAATAATAAAATTTATATAA 10 2 1 TAATAATAAA 0.950581 -79 GGTCTTTCAAAATTAATAAAATTTACTTAT 12 16 0 AATTAATAAA 0.754002 -51 AAACAGAGGTTGATAATGAATCATTAACTT 13 180 1 TGATAATGAA 0.690647 -121 ********** Masking position 7 Map Score: 16.0047 Number of sites scoring better than the average of aligned sites = 626 Number in coding regions = 443 Number in noncoding regions = 183 Number of orfs with sites within 600 bp upstream = 170 Fraction of orfs with sites within 600 bp upstream = 0.0273049 Motif number 6 ACAAGATTAAAGAGGTTTTAAATAGATTTCC 6 23 1 AGAGGTTTTA 0.843164 -278 AGAACATTATGGAGCTTTTTACTCAACTAAC 6 79 0 GGAGCTTTTA 0.976609 -222 AATTGTTGGAGGAGTAGTTTATTTTGGAGTT 6 187 1 GGAGTAGTTA 0.93909 -114 TAGTTTTTGCGGAGCATTTTAAAAGAATATA 7 258 0 GGAGCATTTA 0.956334 -43 TCTCCTATAGGGAGGTGTTCATTAATGCCTT 9 116 1 GGAGGTGTTA 0.988633 -185 GCGTAAGCGAGGAGGTGTTAGATTTTTGATG 9 214 1 GGAGGTGTTG 0.953102 -87 TTGATTTTGAGGAGGAATTAATGGAGCTGTT 13 124 1 GGAGGAATTA 0.897366 -177 AGGAATTAATGGAGCTGTTAAAAAAGAGATT 13 136 1 GGAGCTGTTA 0.985124 -165 ATTCAGTAGGGGAGTTTTAGATGCATTTAGG 13 277 1 GGAGTTTTAA 0.74497 -24 ********* * Masking position 8 Map Score: 7.21974 Number of sites scoring better than the average of aligned sites = 312 Number in coding regions = 257 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405 Motif number 7 GCTTTCCATTTCATCAAAATAGGATGCATT 1 39 0 TCATCAAAAT 0.936706 -262 GTCACCAAAAATTTATTGTCA 2 2 1 TCACCAAAAA 0.953372 -87 GTTAACGACTTCACCCAATTGTAGAACATT 6 102 0 TCACCCAATT 0.595562 -199 TTTAAAATGCTCCGCAAAAACTAAAAATGC 7 266 1 TCCGCAAAAA 0.826906 -35 TTTATCACCAAATTGGCATTTTTA 7 287 0 TCACCAAATT 0.793253 -14 ATTATGATTATCCTCCAAATTTATTGAAGT 9 16 0 TCCTCCAAAT 0.873466 -285 AGTAAAAGGTTCATCAAAAATCTAACACCT 9 226 0 TCATCAAAAA 0.936706 -75 AATTTCACCACAAAAAAGAATTTG 10 67 0 TCACCACAAA 0.748908 -14 AAAAATCCCCTAAAAATTAAAATTA 11 15 0 TCCCCTAAAA 0.89832 -15 CATTAATTCCTCCTCAAAATCAATATTAAG 13 117 0 TCCTCAAAAT 0.94733 -184 GATTTTAAAGTTCCCAAAAACAGAGGTTGA 13 163 1 TTCCCAAAAA 0.602012 -138 ATCAACATAGTCCTCTAAAATTATAAAACA 13 224 0 TCCTCTAAAA 0.864766 -77 ATCTAAATAATCATCAACATAGTCCTCTAA 13 236 0 TCATCAACAT 0.683425 -65 TTCATCACCCTCATCTAAATAATCATCAAC 13 248 0 TCATCTAAAT 0.840296 -53 ********** Masking position 1 Map Score: 12.6284 Number of sites scoring better than the average of aligned sites = 492 Number in coding regions = 382 Number in noncoding regions = 110 Number of orfs with sites within 600 bp upstream = 116 Fraction of orfs with sites within 600 bp upstream = 0.0186315 Motif number 8 CTTTTAGAAAAAGTTAAACAAAATCTTTCA 1 139 0 AAGTTAAACA 0.64441 -162 TTTATATAGTAAGTTATCTAAAAAAGTTTT 2 43 1 AAGTTATCTA 0.652927 -46 TGTTTTAATAAAGTTATCGAG 3 2 0 AAGTTATCGA 0.943979 -124 ATGACTCACTAAGGTAATGAATAGATAATT 3 77 0 AAGGTAATGA 0.915417 -49 AGAGGCTGTTAAGTTAACGACTTCACCCAA 6 114 0 AAGTTAACGA 0.960966 -187 ATTATTAATAAAGTTAATGGGGCTTTCGCA 7 35 0 AAGTTAATGG 0.839977 -266 GTTTTTGCAAAAGTTATTAAAATTAAAAAA 7 194 1 AAGTTATTAA 0.657517 -107 TTAAAAAGATAAGGTAAAGATATCAGAATA 8 75 0 AAGGTAAAGA 0.824813 -72 TTATCCTCCAAATTTATTGAAGTCAGTT 9 9 0 AATTTATTGA 0.600326 -292 CTTAAATAATAAGTTAATGATTCATTATCA 13 190 0 AAGTTAATGA 0.961787 -111 ********** Masking position 5 Map Score: 4.03088 Number of sites scoring better than the average of aligned sites = 366 Number in coding regions = 332 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 9 TTTCGTTATCAATACCAGAGGCTGTTAAGTT 6 129 0 AATACCAAGG 0.949572 -172 GATTTAATACAAAACAATAGCGAAATTTTTA 7 129 1 AAAACAAAGC 0.93094 -172 AGTTATTCCAGAAACCATAGGGCTTCGCCTA 9 147 1 GAAACCAAGG 0.965408 -154 TATAAAAACAAAAACAAGAGGAGAAATA 12 49 1 AAAACAAAGG 0.962674 -18 CTTCAATATCAAAACCAAAGCTTATAGCCTC 13 78 0 AAAACCAAGC 0.975546 -223 TAAAGTTCCCAAAAACAGAGGTTGATAATGA 13 168 1 AAAAACAAGG 0.921923 -133 ******* *** Masking position 7 Map Score: 2.46645 Number of sites scoring better than the average of aligned sites = 80 Number in coding regions = 71 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 10 CTTTCCATTTCATCAAAATAGGATGCATTGC 1 37 0 CATCAAATAG 0.958749 -264 TATAGTAAGTTATCTAAAAAAGTTTTTAATT 2 47 1 TATCAAAAAA 0.66218 -42 ATAAATAATGTAACAAAATAGAAATTAACTA 4 26 0 TAACAAATAG 0.639962 -35 TAAATATCAGTAAAATAAATAATGTAAC 4 43 0 CAGTAAATAA 0.733924 -18 CATAAAATTACAGCTAAATAAACTCCAAAAT 6 207 0 CAGCAAATAA 0.941024 -94 AAGGTAAAGATATCAGAATAAGAATATAAAA 8 64 0 TATCGAATAA 0.743931 -83 AGTTTCACATTCAAATAATTTATTACTA 8 129 0 CATTAAATAA 0.849466 -18 CATACTAAACTATCCAAATAATTCAAATTCT 10 44 1 TATCAAATAA 0.933023 -37 TCTAAATAATCATCAACATAGTCCTCTAAAA 13 234 0 CATCACATAG 0.828974 -67 TCATCACCCTCATCTAAATAATCATCAACAT 13 246 0 CATCAAATAA 0.970276 -55 **** ****** Masking position 8 Map Score: 3.40486 Number of sites scoring better than the average of aligned sites = 252 Number in coding regions = 204 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 47 Fraction of orfs with sites within 600 bp upstream = 0.00754899 Motif number 11 ********** No masking Map Score: -7.23089e-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 12 ********** No masking Map Score: -7.23089e-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 13 ********** No masking Map Score: -7.23089e-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