AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00950_mjan_reg_300.orf -o00950_mjan_300.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 MJ0002 300 M. jannaschii predicted coding region MJ0002 #2 MJ0102 300 Phenylacrylic acid decarboxylase #3 MJ0684 68 aspartate aminotransferase (aspB2) #4 MJ0771 88 cobalamin biosynthesis precorrin-2 methyltransferase (cbiL) #5 MJ1027 125 formate hydrogenlyase, subunit 5 #6 MJ1028 60 DNA topoisomerase VI, subunit B (top6B) #7 MJ1029 47 dimethyladenosine transferase (ksgA) #8 MJ1521 88 Na+/H+ antiporter #9 MJ1522 146 cobalamin biosynthesis precorrin-6Y methylase (cbiE) #10 MJ1575 300 GMP synthase (guaA) #11 MJ1576 80 LemA protein #12 MJ1577 29 M. jannaschii predicted coding region MJ1577 #13 MJ1578 66 cobalamin biosynthesis precorrin-3 methylase (cbiF) #14 MJ1656 300 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (hpcE) Motif number 1 GGTTTGTTGATAATGGTTTTCACCAATCCC 1 13 0 TAATGGTTTT 0.599584 -288 TTAGAATTTCTAATAATTTTGGAGATATTA 1 268 1 TAATAATTTT 0.914533 -33 ATGAAAACTCTTTTAGTTTTCATTTAACCG 2 83 1 TTTTAGTTTT 0.926156 -218 AAAGATTTTGTTTAACTTTTTCTAAAAGTT 2 141 1 TTTAACTTTT 0.646699 -160 CGGCACCATTTTATTATTTTATTTTAGGTT 2 189 1 TTATTATTTT 0.875401 -112 TAGGTTGTTATATTTATTTTTTTAGATTTA 2 213 1 TATTTATTTT 0.934181 -88 ATTTATGGATTAACTATTTTTAAATAGTAT 2 238 1 TAACTATTTT 0.79647 -63 TTTTAAATAGTATTTATTTTTTAAATCTTA 2 255 1 TATTTATTTT 0.934181 -46 AATCTTAACTTAACAGTTTTTAATGGTGAA 2 278 1 TAACAGTTTT 0.750397 -23 TATTAATTAATAATACTTTTCGTGGTGGCA 3 15 0 TAATACTTTT 0.791156 -54 AAGTTTTTAATTGTAATTTTATAAAATCGT 4 66 1 TTGTAATTTT 0.741985 -23 CTTACGATTTTATAAAATTAC 4 78 0 TTACGATTTT 0.715623 -11 GTTTAGTTAATTTCTATTTTGTTACATTAT 6 23 1 TTTCTATTTT 0.912738 -38 TTTGTTACATTATTTATTTTACTGATATTT 6 40 1 TATTTATTTT 0.934181 -21 ATTTTTATTTTCTTTTCTCTT 7 2 1 TTTTTATTTT 0.942283 -46 TTTATTTTCTTTTCTCTTTTTTAGAATAAA 7 14 1 TTTCTCTTTT 0.787373 -34 TGTTTCACTTTTTATTTATTCT 7 36 0 TTTCACTTTT 0.866441 -12 TTAGAAAGCATATAAATTTTTTGGTGGTAA 8 12 0 TATAAATTTT 0.818013 -77 CCCACCAATCTTTTAGTTTTTAATATCTGG 8 66 0 TTTTAGTTTT 0.926156 -23 TTTCAATTTTTAAATTTTTA 9 1 1 TTTCAATTTT 0.948252 -146 TACCTTATCTTTTTAATTTTATTGATATTT 9 89 1 TTTTAATTTT 0.966217 -58 CCATTATTAATATTAATTTTAACAACTTTG 10 74 0 TATTAATTTT 0.961337 -227 TATCAACTTATATAAATTTTATTATTAG 11 9 0 TATAAATTTT 0.818013 -72 TTATTAATTTTAATTTTTAGGGGATTT 12 8 1 TTTTAATTTT 0.966217 -22 AAGTAAATTTTATTAATTTTGAAAGACCTA 13 18 1 TATTAATTTT 0.961337 -49 TCTCCTCTTGTTTTTGTTTTTATAGTAGGT 13 43 0 TTTTTGTTTT 0.87744 -24 TATCTCTTAATATTGATTTTGAGGAGGAAT 14 112 1 TATTGATTTT 0.888076 -189 AGAGATTGTTTTATAATTTTAGAGGACTAT 14 218 1 TTATAATTTT 0.924859 -83 ********** Masking position 7 Map Score: 38.4656 Number of sites scoring better than the average of aligned sites = 1817 Number in coding regions = 1178 Number in noncoding regions = 639 Number of orfs with sites within 600 bp upstream = 454 Fraction of orfs with sites within 600 bp upstream = 0.07292 Motif number 2 AACCATTATCAACAAACCATGGGAACGCTGAAATA 1 25 1 AAAAATGGAA 0.658978 -276 TCAATGCGTCAACAAACAATCCAAATAAACCTTTA 1 91 1 AAAAATCAAA 0.891397 -210 ACCACCCATTAATAGAGCATCAAAATACCAATTAT 1 184 1 AAAAATAAAA 0.962935 -117 TACCAATTATAAAAAATTATATAAAAAATTACATA 1 209 1 AAAAATTAAA 0.972351 -92 AACAACCTAAAATAAAATAATAAAATGGTGCCGAG 2 187 0 AAAAAAAAAA 0.894621 -114 ATTTAAAAAATAAATACTATTTAAAAATAGTTAAT 2 246 0 TAAAATTAAA 0.904943 -55 AAAAACTGTTAAGTTAAGATTTAAAAAATAAATAC 2 264 0 AATAATTAAA 0.884816 -37 AAATTCACCATTAAAAACTGTTAAGT 2 285 0 AATAATAAAA 0.850182 -16 TTTTTTAGATAACTTACTATATAAATTTAGCTAAA 4 33 0 AATAATTAAA 0.884816 -56 CGATTTTATAAAATTACAATTAAAAACTTTTTTAG 4 60 0 AATAATAAAA 0.850182 -29 CTTTATTAAAACAAAACTATATAAAAGGTTAAGCT 5 19 1 ACAAATTAAA 0.821471 -107 TGTAACAAAATAGAAATTAACTAAACTATTTTTAA 6 14 0 TAAAAATAAA 0.756744 -47 TAAATATCAGTAAAATAAATAATGT 6 46 0 TAAAAGAAAA 0.713451 -15 TAAAAAAGAGAAAAGAAAATAAAAAT 7 2 0 AAAAATAAAA 0.962936 -46 TTTTTTAGAATAAATAAAAAGTGAAACA 7 30 1 TAAAAATGAA 0.574079 -18 ACTTTACATTTAGAAAGCATATAAATTTTTTGGTG 8 16 0 TAAAATTAAA 0.904943 -73 TTAAATTTTGAATTAAAAATTTAAAAATTGAAA 9 9 0 AATAATTAAA 0.884815 -138 TAAGAATATAAAAATATAAGTTAAATTTTGAATTA 9 29 0 AAAAAGTAAA 0.925654 -118 TCAGAATAAGAATATAAAATAAGAATATAAAAATA 9 48 0 AAAAATAGAA 0.918409 -99 AATAAAATTAAAAAGATAAGGTAAAGATATCAGAA 9 77 0 AAAAAGTAAA 0.925654 -70 ATTATGTTTTTAAATATCAATAAAATTAAAAAGAT 9 95 0 TAAAAAAAAA 0.696797 -52 ACATAATAGTAATAAATTATTTGAATGTGAAACT 9 123 1 AAAAATTGAA 0.938402 -24 TAATCATAATAAAAGAAATTTTAAAATATAGTGTC 10 36 1 AAAATTTAAA 0.748408 -265 ATGTTTTTGAAAGATACTAATAAAATATAAGGTGA 10 272 1 AAAAAAAAAA 0.894621 -29 TATCAAACATACTAAACTATCCAAATAATTCAAAT 11 37 1 ACAAATCAAA 0.517814 -44 ATTTCACCACAAAAAAGAATTTGAATTATTTGGAT 11 55 0 AAAAATTGAA 0.938413 -26 TATAAAAACAAAAACAAGAGGAGAAATA 13 49 1 AAAAAGAGAA 0.799401 -18 TGTCTAAAATAATACACAAATAAAAGTCCATTGTT 14 32 0 AAAAAAAAAA 0.894621 -269 GAGCTGTTAAAAAAGAGATTTTAAAGTTCCCAAAA 14 147 1 AAAATTTAAA 0.748408 -154 ** * * ** **** Masking position 6 Map Score: 38.5791 Number of sites scoring better than the average of aligned sites = 1886 Number in coding regions = 1422 Number in noncoding regions = 464 Number of orfs with sites within 600 bp upstream = 335 Fraction of orfs with sites within 600 bp upstream = 0.0538066 Motif number 3 CTCAATGTTTCTCTAATTGGACAACCACCC 1 161 1 CTCTAATTGG 0.927912 -140 ATATAATTTTTTATAATTGGTATTTTGATG 1 201 0 TTATAATTGG 0.940788 -100 TGGTAGTATTTTATAATAGGACTTATGTAA 1 237 0 TTATAATAGG 0.954389 -64 TTATTAGAAATTCTAATTGGTAGTATTTTA 1 254 0 TTCTAATTGG 0.962261 -47 GTTTAACTTTTTCTAAAAGTTTCGTTTGTA 2 150 1 TTCTAAAAGT 0.89696 -151 CATTTATAAACACTAAAAGGAATTATTATT 3 41 0 CACTAAAAGG 0.775899 -28 CTTTTAGTGTTTATAAATGGTGATGTC 3 52 1 TTATAAATGG 0.940788 -17 AAACAAAACTATATAAAAGGTTAAGCTAAT 5 27 1 ATATAAAAGG 0.726677 -99 ATTATAAACATGATAATAGGTATATGACTC 5 100 0 TGATAATAGG 0.782233 -26 ATTATCATGTTTATAATTGTTGG 5 113 1 TTATAATTGT 0.804644 -13 TTTATATGCTTTCTAAATGTAAAGTTTAGT 8 26 1 TTCTAAATGT 0.868592 -63 ATGAACCTTTTACTAAAAGGTTCTTTCAAA 10 242 1 TACTAAAAGG 0.872747 -59 GTTTTTGTTTTTATAGTAGGTCTTTCAAAA 13 34 0 TTATAGTAGG 0.753228 -33 ATAGCCTCATCTCTAAAAGTGTCTAAAATA 14 56 0 CTCTAAAAGT 0.814625 -245 ********** Masking position 5 Map Score: 11.1662 Number of sites scoring better than the average of aligned sites = 242 Number in coding regions = 195 Number in noncoding regions = 47 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 4 AATTAAAGGTTTATTTGGATTGTTTGTTGA 1 99 0 TTATTTGGAT 0.909671 -202 TTTATATAATTTTTTATAATTGGTATTTTG 1 204 0 TTTTTATAAT 0.502736 -97 ACTTATGTAATTTTTTATATAATTTTTTAT 1 217 0 TTTTTTATAT 0.82955 -84 GCTATTGGATTTTTAATATCTCCAAAATT 1 282 0 TTTTTAATAT 0.758305 -19 TTATATTTATTTTTTTAGATTTATGGATTA 2 220 1 TTTTTTAGAT 0.924587 -81 ATAGTATTTATTTTTTAAATCTTAACTTAA 2 261 1 TTTTTTAAAT 0.82955 -40 AATTAAAAACTTTTTTAGATAACTTACTAT 4 48 0 TTTTTTAGAT 0.924587 -41 TCTTTTCTCTTTTTTAGAATAAATAAAAAG 7 21 1 TTTTTAGAAT 0.721166 -27 AATCTTTTAGTTTTTAATATCTGGATATAC 8 60 0 TTTTTAATAT 0.758305 -29 ATCTTTTTAATTTTATTGATATTTAAAAAC 9 95 1 TTTTATTGAT 0.45977 -52 TAGTAATAAATTATTTGAATGTGAAACT 9 129 1 TTATTTGAAT 0.800071 -18 AAAATTTCTTTTATTATGATTATCCTCCAA 10 28 0 TTATTATGAT 0.717855 -273 CAAATATCCATTATTAATATTAATTTTAAC 10 81 0 TTATTAATAT 0.758305 -220 ACCTTATATTTTATTAGTATCTTTCAAAAA 10 275 0 TTATTAGTAT 0.721166 -26 TGATATCAACTTATATAAATTTTATTATTA 11 12 0 TTATATAAAT 0.512849 -69 AGAATTTGAATTATTTGGATAGTTTAGTAT 11 45 0 TTATTTGGAT 0.909671 -36 AAGTCCATTGTTATATAGATTAGGATTTTT 14 14 0 TTATATAGAT 0.726087 -287 ATGTTGATGATTATTTAGATGAGGGTGATG 14 246 1 TTATTTAGAT 0.924587 -55 ********** Masking position 4 Map Score: 18.16 Number of sites scoring better than the average of aligned sites = 972 Number in coding regions = 747 Number in noncoding regions = 225 Number of orfs with sites within 600 bp upstream = 209 Fraction of orfs with sites within 600 bp upstream = 0.0335689 Motif number 5 CTAATTGGACAACCACCCATTAATAGAGCATC 1 173 1 AACACCCTTA 0.861882 -128 TGGAGATATTAAAAATCCAATAGC 1 287 1 AAAATCCATA 0.76883 -14 TCCAGCTATGAAAACTCTTTTAGTTTTCATTT 2 76 1 AAACTCTTTA 0.951964 -225 AATCCCACCAATCTTTTAGTTTTTAATA 8 71 0 ACCATCTTTA 0.836988 -18 CTATATTTTAAAATTTCTTTTATTATGATTAT 10 35 0 AAATTCTTTA 0.754048 -266 GAGAGCGTTCAAATATCCATTATTAATATTAA 10 88 0 AAAATCCTTA 0.959409 -213 TGGATATTTGAACGCTCTCCTATAGGGAGGTG 10 101 1 AACCTCTCTA 0.929755 -200 AAAAATCCCCTAAAAATTAAAA 12 18 0 AAAATCCCTA 0.945522 -12 ATTAATTTTGAAAGACCTACTATAAAAACAAA 13 29 1 AAAACCTCTA 0.805644 -38 GATATTGAAGAACTATCTCTTAATATTGATTT 14 99 1 AACATCTTTA 0.946492 -202 CTCTTTTTTAACAGCTCCATTAATTCCTCCTC 14 132 0 ACACTCCTTA 0.874861 -169 GGGAACTTTAAAATCTCTTTTTTAACAGCTCC 14 146 0 AAACTCTTTT 0.661059 -155 AAAATTATAAAACAATCTCTTAAATAATAAGT 14 206 0 AACATCTTTA 0.946492 -95 AAATGCATCTAAAACTCCCCTACTGAATTCAT 14 273 0 AAACTCCCTA 0.946483 -28 *** **** *** Masking position 1 Map Score: 10.9116 Number of sites scoring better than the average of aligned sites = 354 Number in coding regions = 313 Number in noncoding regions = 41 Number of orfs with sites within 600 bp upstream = 43 Fraction of orfs with sites within 600 bp upstream = 0.00690652 Motif number 6 ATTTTATTTTAGGTTGTTATATTTATTTTT 2 204 1 AGGTTGTTAT 0.662321 -97 GTGTTTATAAATGGTGATGTC 3 58 1 ATGGTGATGT 0.844007 -11 ATGACTCACTAAGGTAATGAATAGATAATT 5 77 0 AAGGTAATGA 0.826033 -49 GTGTCTTTCAAAGTTGTTAAAATTAATATT 10 66 1 AAGTTGTTAA 0.815473 -235 AATAAAATATAAGGTGATAAA 10 290 1 AAGGTGATAA 0.945127 -11 AAATTTATATAAGTTGATATCAAACATACT 11 20 1 AAGTTGATAT 0.878028 -61 CCAAAAACAGAGGTTGATAATGAATCATTA 14 176 1 AGGTTGATAA 0.939696 -125 CTTAAATAATAAGTTAATGATTCATTATCA 14 190 0 AAGTTAATGA 0.814219 -111 TTAGAGGACTATGTTGATGATTATTTAGAT 14 236 1 ATGTTGATGA 0.916868 -65 TATTTAGATGAGGGTGATGAATTCAGTAGG 14 257 1 AGGGTGATGA 0.964187 -44 ********** Masking position 5 Map Score: 6.15155 Number of sites scoring better than the average of aligned sites = 495 Number in coding regions = 446 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 7 TATAATTGGTATTTTGATGCTCTATTAATG 1 190 0 ATTTTGATGC 0.922064 -111 ATTTCTAATAATTTTGGAGATATTAAAAAT 1 273 1 ATTTTGGAGA 0.76457 -28 AATGCATCCTATTTTGATGAAATGGAAAGC 2 39 1 ATTTTGATGA 0.964931 -262 AACTTAACAGTTTTTAATGGTGAATTT 2 284 1 TTTTTAATGG 0.56803 -17 AATAATACTTTTCGTGGTGGCATAAA 3 7 0 TTCGTGGTGG 0.524568 -62 TGACAATAAATTTTTGGTGAC 4 2 0 TTTTTGGTGA 0.970133 -87 GCATATAAATTTTTTGGTGGTAAT 8 5 0 TTTTTGGTGG 0.953148 -84 AGGTGTTAGATTTTTGATGAACCTTTTACT 10 226 1 TTTTTGATGA 0.969582 -75 CAAATTCTTTTTTGTGGTGAAATT 11 67 1 TTTGTGGTGA 0.911204 -14 CTTAATATTGATTTTGAGGAGGAATTAATG 14 117 1 ATTTTGAGGA 0.825282 -184 TTAGAGGACTATGTTGATGATTATTTAGAT 14 236 1 ATGTTGATGA 0.825282 -65 GTTGATGATTATTTAGATGAGGGTGATGAA 14 248 1 ATTTAGATGA 0.848938 -53 AGTAGGGGAGTTTTAGATGCATTTAGGGAG 14 281 1 TTTTAGATGC 0.736798 -20 ********** Masking position 2 Map Score: 7.88694 Number of sites scoring better than the average of aligned sites = 499 Number in coding regions = 366 Number in noncoding regions = 133 Number of orfs with sites within 600 bp upstream = 138 Fraction of orfs with sites within 600 bp upstream = 0.0221651 Motif number 8 CTACTGGAAATATTTCAGCGTTCCCATGGTT 1 39 0 TATTTCAGCT 0.722199 -262 TTAAACAAAATCTTTCAGATTTTGTAGCCCG 2 125 0 TCTTTCAGAT 0.952025 -176 AAATAAATACTATTTAAAAATAGTTAATCCA 2 243 0 TATTTAAAAT 0.739213 -58 TTTAAATTTTTAATTCAAAATTTAACTTATA 9 19 1 TAATTCAAAT 0.889608 -128 AAAGACACTATATTTTAAAATTTCTTTTATT 10 43 0 TATTTTAAAT 0.739213 -258 AAATATAGTGTCTTTCAAAGTTGTTAAAATT 10 59 1 TCTTTCAAAT 0.974427 -242 ACTAAAAGGTTCTTTCAAAATGTTTTTGAAA 10 253 1 TCTTTCAAAT 0.978666 -48 TTTATTAGTATCTTTCAAAAACATTTTGAAA 10 265 0 TCTTTCAAAA 0.862031 -36 ACTATCCAAATAATTCAAATTCTTTTTTGTG 11 52 1 TAATTCAAAT 0.889529 -29 TTATAGTAGGTCTTTCAAAATTAATAAAATT 13 23 0 TCTTTCAAAT 0.978666 -44 ********* * Masking position 5 Map Score: 8.97379 Number of sites scoring better than the average of aligned sites = 106 Number in coding regions = 86 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 9 ATTGTTTGTTGACGCATTGATTGGATATATTATA 1 77 0 GAGCATTATG 0.979926 -224 TAAGAGGCATTGCCGAGCGTAGCGAGG 2 4 1 GAGCATTCGG 0.977701 -297 ATCAAAATAGGATGCATTGCCTCGCTACGCTCGG 2 23 0 GAGCATTCTG 0.965087 -278 TGGAATAACTAAGGCATTAATGAACACCTCCCTA 10 123 0 AAGCATTAGA 0.844991 -178 TGATTTTGAGGAGGAATTAATGGAGCTGTTAAAA 14 125 1 GAGAATTAGA 0.9178 -176 GGTTGATAATGAATCATTAACTTATTATTTAAGA 14 187 1 GATCATTATA 0.774611 -114 AGATGAGGGTGATGAATTCAGTAGGGGAGTTTTA 14 262 1 GAGAATTATG 0.9178 -39 GGGAGTTTTAGATGCATTTAGGGAG 14 286 1 GAGCATTAGA 0.979926 -15 ** ***** * * * Masking position 6 Map Score: 2.7836 Number of sites scoring better than the average of aligned sites = 86 Number in coding regions = 70 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 10 TTATATAATTTTTTATAATTGGTATTTTGA 1 203 0 TTTTATAATT 0.741609 -98 AATTATTAGAAATTCTAATTGGTAGTATTT 1 256 0 AATTCTAATT 0.510042 -45 CTCGGCACCATTTTATTATTTTATTTTAGG 2 187 1 TTTTATTATT 0.849241 -114 CCACGAAAAGTATTATTAATTAATAATAAT 3 20 1 TATTATTAAT 0.578993 -49 CACTAAAAGGAATTATTATTAATTAATAAT 3 31 0 AATTATTATT 0.688749 -38 GATTTTATAAAATTACAATTAAAAACTTTT 4 64 0 AATTACAATT 0.445315 -25 TTAAGCTAATTATCATTATTAATTATGATA 5 47 1 TATCATTATT 0.811192 -79 ATAGATAATTTATCATAATTAATAATGATA 5 57 0 TATCATAATT 0.680774 -69 TAGTGAGTCATATACCTATTATCATGTTTA 5 96 1 TATACCTATT 0.27147 -30 TATATTTTTATATTCTTATTTTATATTCTT 9 46 1 TATTCTTATT 0.899456 -101 TCTTATTTTATATTCTTATTCTGATATCTT 9 59 1 TATTCTTATT 0.899456 -88 TCAAATAATTTATTACTATTATGTTTTTAA 9 117 0 TATTACTATT 0.871996 -30 AAATTTCTTTTATTATGATTATCCTCCAAA 10 27 0 TATTATGATT 0.744525 -274 AAATATCCATTATTAATATTAATTTTAACA 10 80 0 TATTAATATT 0.631737 -221 CTTATATAAATTTTATTATTAG 11 3 0 TTTTATTATT 0.849241 -78 TAAGAGATTGTTTTATAATTTTAGAGGACT 14 216 1 TTTTATAATT 0.741609 -85 ********** Masking position 3 Map Score: 9.31275 Number of sites scoring better than the average of aligned sites = 896 Number in coding regions = 578 Number in noncoding regions = 318 Number of orfs with sites within 600 bp upstream = 290 Fraction of orfs with sites within 600 bp upstream = 0.0465789 Motif number 11 CGGCACCATTTTATTATTTTATTTTAGGTT 2 189 1 TTATTATTTT 0.945111 -112 GTTGTTATATTTATTTTTTTAGATTTATGG 2 216 1 TTATTTTTTT 0.79932 -85 TAAATAGTATTTATTTTTTAAATCTTAACT 2 258 1 TTATTTTTTA 0.689643 -43 ACGAAAAGTATTATTAATTAATAATAATTC 3 22 1 TTATTAATTA 0.863117 -47 CTAATTATCATTATTAATTATGATAAATTA 5 52 1 TTATTAATTA 0.863117 -74 TTTTGTTACATTATTTATTTTACTGATATT 6 39 1 TTATTTATTT 0.738486 -22 ATTTTTATTTTCTTTTCTCTT 7 2 1 TTTTTATTTT 0.810689 -46 TGTTTCACTTTTTATTTATTCTAAAAAA 7 30 0 TTTTTATTTA 0.704939 -18 TATTTTTATATTCTTATTTTATATTCTTAT 9 48 1 TTCTTATTTT 0.715255 -99 TTACCTTATCTTTTTAATTTTATTGATATT 9 88 1 TTTTTAATTT 0.752242 -59 CAAATATCCATTATTAATATTAATTTTAAC 10 81 0 TTATTAATAT 0.490118 -220 TTATTAATTTTAATTTTTAG 12 1 1 TTATTAATTT 0.924112 -29 TAAGTAAATTTTATTAATTTTGAAAGACCT 13 17 1 TTATTAATTT 0.924112 -50 TTTTATTTGTGTATTATTTTAGACACTTTT 14 42 1 GTATTATTTT 0.672118 -259 AATCATTAACTTATTATTTAAGAGATTGTT 14 198 1 TTATTATTTA 0.905555 -103 AGAGATTGTTTTATAATTTTAGAGGACTAT 14 218 1 TTATAATTTT 0.580373 -83 ACTATGTTGATGATTATTTAGATGAGGGTG 14 243 1 TGATTATTTA 0.533484 -58 ********** Masking position 4 Map Score: 19.7657 Number of sites scoring better than the average of aligned sites = 784 Number in coding regions = 430 Number in noncoding regions = 354 Number of orfs with sites within 600 bp upstream = 299 Fraction of orfs with sites within 600 bp upstream = 0.0480244 Motif number 12 ********** No masking Map Score: -7.17405e-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: -7.17405e-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 14 ********** No masking Map Score: -7.17405e-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