AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00230_mjan_reg_100.orf -o00230_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 Purged sequences: MJ0191 25 SSU ribosomal protein S11P (rpsK) MJ0194 31 LSU ribosomal protein L13P (rplM) MJ1648 143 phosphoribosylformylglycinamidine synthase I, (purQ) Input sequences: #1 MJ0102 300 Phenylacrylic acid decarboxylase #2 MJ0107 167 dihydropteroate synthase #3 MJ0189 300 SSU ribosomal protein S13P (rpsM) #4 MJ0190 57 SSU ribosomal protein S4P (rpsD) #5 MJ0193 77 LSU ribosomal protein L18E #6 MJ0196 57 DNA-directed RNA polymerase, subunit N (rpoN) #7 MJ0197 140 DNA-directed RNA polymerase, subunit K (rpoK) #8 MJ0203 120 phosphoribosylformylglycinamidine cyclo-ligase (purM) #9 MJ0204 99 amidophosphoribosyltransferase (purF) #10 MJ0388 90 conserved hypothetical protein #11 MJ0397 300 DNA-directed RNA polymerase, subunit E' (rpoE1) #12 MJ0479 142 adenylate kinase (adk) #13 MJ0561 281 adenylosuccinate synthetase (purA) #14 MJ0616 108 phosphoribosylaminoimidazole carboxylase, (purE) #15 MJ0640 158 conserved hypothetical protein #16 MJ0667 91 thymidine phosphorylase (deoA) #17 MJ0832 259 anaerobic ribonucleoside-triphosphate reductase (nrdD) #18 MJ0885 38 DNA polymerase B1 #19 MJ0888 88 conserved hypothetical protein #20 MJ0929 300 adenylosuccinate lyase (purB) #21 MJ0934 300 polyferredoxin (mvhB) #22 MJ0936 94 conserved hypothetical protein #23 MJ0937 63 phosphoribosylamine--glycine ligase (purD) #24 MJ1039 174 DNA-directed RNA polymerase, subunit H (rpoH) #25 MJ1041 85 DNA-directed RNA polymerase, subunit B' (rpoB1) #26 MJ1042 108 DNA-directed RNA polymerase, subunit A' (rpoA1) #27 MJ1043 74 DNA-directed RNA polymerase, subunit A'' (rpoA2) #28 MJ1132 188 conserved hypothetical protein #29 MJ1149 59 mutator MutT protein, putative (mutT) #30 MJ1264 76 phosphoribosylformylglycinamidine synthase II (purL) #31 MJ1265 189 nucleoside diphosphate kinase, (ndk) #32 MJ1368 122 sulfate transport system permease protein (cysT) #33 MJ1390 187 DNA-directed RNA polymerase, subunit I (rpoI) #34 MJ1459 137 adenine deaminase (adeC) #35 MJ1575 300 GMP synthase (guaA) #36 MJ1592 300 phosphoribosylaminoimidazolesuccinocarboxamide synthase (purC) #37 MJ1616 228 inosine-5'-monophosphate dehydrogenase, (guaB) #38 MJ1652 76 DNA topoisomerase I (topA) {Bacillus subtilis #39 MJ1654 64 M. jannaschii predicted coding region MJ1654 #40 MJ1656 300 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (hpcE) Motif number 1 CTCGGCACCATTTTATTATTTTATTTTAGG 1 187 1 TTTTATTATT 0.93265 -114 GGTTGTTATATTTATTTTTTTAGATTTATG 1 215 1 TTTATTTTTT 0.839401 -86 ATTAACTATTTTTAAATAGTATTTATTTTT 1 246 1 TTTAAATAGT 0.79381 -55 TTAAATAGTATTTATTTTTTAAATCTTAAC 1 257 1 TTTATTTTTT 0.839401 -44 ATATATTCTTTTTATATATTCCCACAATAC 3 99 0 TTTATATATT 0.888752 -202 TGTTTCATTTTTTATATATTCTTTTTATAT 3 112 0 TTTATATATT 0.888752 -189 CGCCACTTCTTTTTATTTTTTAATATCTAT 3 235 1 TTTTATTTTT 0.905843 -66 TCAAACCTTTTATAATTATTATAAGGTTTG 5 38 0 TATAATTATT 0.753993 -40 CATTTGATATTTTATATATTTCAGAGGTGA 7 117 1 TTTATATATT 0.888752 -24 CTTTCTGTAGTTTAAATATTCCATAATGCA 8 29 1 TTTAAATATT 0.928771 -92 TAAATTATCTTTTTAATTTTACTAATTCTT 9 14 1 TTTTAATTTT 0.910843 -86 CTTCTTTCTTTTTATTTATTTGCTAAAAGT 9 53 1 TTTATTTATT 0.882674 -47 TTAATGTAATTATTAATTTTGCCACAAACC 11 194 0 TATTAATTTT 0.718364 -107 TTAGTTACTCTTTTTTTATTAAATTTAACT 11 261 1 TTTTTTTATT 0.894564 -40 ACTTTCGCAGTTTATATATTTTTTAGAATA 12 89 0 TTTATATATT 0.888752 -54 CATAAATAGATTTTATTAGTTTTGAAAAGA 13 88 0 TTTTATTAGT 0.803485 -194 TATGTTATACTATTTATATTCCAAAATATA 13 156 1 TATTTATATT 0.692254 -126 TTTATAGTTCTATATATTTTGGAATATAAA 13 168 0 TATATATTTT 0.580841 -114 TATTATAAGTTTTTTATAGTTCTATATATT 13 180 0 TTTTTATAGT 0.726785 -102 ATTAATTAACTTTAAATATTACAATTACAA 13 241 1 TTTAAATATT 0.928771 -41 TTCAAAACCTTATATTTTTTTGTAATTGTA 13 260 0 TATATTTTTT 0.566151 -22 ATAATTTATTTATAATTAGTTTTAAAATCT 14 55 1 TATAATTAGT 0.475115 -54 AGTAAATTAATTTAATTTTTAATTTTAATA 15 13 1 TTTAATTTTT 0.895077 -146 TAATTTTTAATTTTAATATTCTACTAGTTT 15 25 1 TTTTAATATT 0.936326 -134 AATATCGTCTTTTTAATTTTTAATACCATT 15 118 0 TTTTAATTTT 0.910843 -41 TTTTCTAAACTTTATATATTTTCTTTAATA 16 32 0 TTTATATATT 0.888752 -60 ATCTATTAAATTTTTATATTTTCTAAACTT 16 50 0 TTTTTATATT 0.900096 -42 CTACAAATAATTTTATTTTTTACTATTTTT 17 229 1 TTTTATTTTT 0.905843 -31 ATAAATAAAGTATAAATATTGTTAAAAACT 19 38 0 TATAAATATT 0.764981 -51 ATATTTATACTTTATTTATTTATAATTTAT 19 49 1 TTTATTTATT 0.882674 -40 TAGATAATTATTTAATTTTTATTTTCAAAA 20 12 1 TTTAATTTTT 0.895077 -289 GTTTTAGGATTTTTAATTTTGTTGTTTGGT 20 188 0 TTTTAATTTT 0.910843 -113 TTGCTAATGATTTTTATAGTTTGATGTTTA 20 277 0 TTTTTATAGT 0.726785 -24 GCCGGCCACTTTTTATTATTTTAAATTCTC 21 109 1 TTTTATTATT 0.93265 -192 GCCGGGCTTCTTTTTATTTTAGAACAATTA 21 243 1 TTTTTATTTT 0.862245 -58 AATCGATAAATTTAAATATTTTTAAAATAT 21 272 1 TTTAAATATT 0.928771 -29 TTTTTTACTTTTTTATTATTACATTAATCC 23 25 1 TTTTATTATT 0.93265 -39 TTTTCTCATATTTATTTTTTACTTTTATTG 24 45 0 TTTATTTTTT 0.839401 -130 AAGAAACTTTATTTATTATGTTTTTTC 25 8 1 TTTATTTATT 0.882674 -78 TATTTTTACTTTTTATTTTTCTAAAAATAT 26 59 0 TTTTATTTTT 0.905843 -50 AAGGATTTGCTTTTATTTTTACTTTTTATT 26 72 0 TTTTATTTTT 0.905843 -37 TTTTTACATCTTTTAATTTTTTAAGGTGAG 27 50 1 TTTTAATTTT 0.910843 -25 ACCACCAAAGTTTTTATAGTTTTTTGCAAA 28 14 1 TTTTTATAGT 0.726785 -175 TGCAAAAAACTATATATATTTCTTAGCCAA 28 124 1 TATATATATT 0.666038 -65 TCTTAGCCAATTTTAATATTAATCTTATTC 28 144 1 TTTTAATATT 0.936326 -45 GTTATCACTTTAAATATTAAGCAAAGAA 28 171 0 TTTAAATATT 0.928771 -18 AGTTAATTAATATTATTTGTGGATATACAA 30 43 0 TATTATTTGT 0.414931 -34 TCTCGAAAAATTTAAATATTGCTCATATAT 31 61 0 TTTAAATATT 0.928771 -129 ATATAATTACTATTATTATTACTAATACTT 31 149 0 TATTATTATT 0.775655 -41 TTTTATTTATTTTAAATTTTTCATATTTTT 33 16 1 TTTAAATTTT 0.900585 -172 TTTTTCATATTTTTATTTTTACTATTCTTT 33 32 1 TTTTATTTTT 0.905843 -156 CTATTCTTTATTTATATATTCGGATTAATA 33 53 1 TTTATATATT 0.888752 -135 AGGTTTTAGATATTTTTATTAATCCGAATA 33 69 0 TATTTTTATT 0.679314 -119 ATGATTTTCATTTAATTTTTTCCTATTAAT 34 68 1 TTTAATTTTT 0.895077 -70 AATTTTTTCCTATTAATTTTCTCCTAAAAA 34 81 1 TATTAATTTT 0.718364 -57 AAATATCCATTATTAATATTAATTTTAACA 35 80 0 TATTAATATT 0.785933 -221 TCACCTTATATTTTATTAGTATCTTTCAAA 35 277 0 TTTTATTAGT 0.803485 -24 TTTGATATATTTTTATTTTTTATTTCACTG 36 71 1 TTTTATTTTT 0.905843 -230 AACTATAAATTTTTTATATTACATTGTAAG 36 214 1 TTTTTATATT 0.900096 -87 AAAACTCTCATTTAATTTTTAATCTTTATA 36 244 0 TTTAATTTTT 0.895077 -57 AACTTTAAATTTTAATTATTAAAACTCTCA 36 264 0 TTTAATTATT 0.924694 -37 TAGATAATTATTTTATTTTTTGTCAATCAA 37 45 1 TTTTATTTTT 0.905843 -184 TGTCAATCAATTTTTATATTATTGATGCCC 37 65 1 TTTTTATATT 0.900096 -164 ATTAACTTTATTTTATTTTTTATTGAATTA 37 101 1 TTTTATTTTT 0.905843 -128 TATATGATTATTTAAATAGTTTATGAACTT 37 136 0 TTTAAATAGT 0.79381 -93 AACAATGGACTTTTATTTGTGTATTATTTT 40 32 1 TTTTATTTGT 0.739619 -269 ********** Masking position 7 Map Score: 93.8791 Number of sites scoring better than the average of aligned sites = 2294 Number in coding regions = 1503 Number in noncoding regions = 791 Number of orfs with sites within 600 bp upstream = 510 Fraction of orfs with sites within 600 bp upstream = 0.0819146 Motif number 2 TTTAGCTAAGTATAAATTATGTTTTAATTT 2 12 1 TATAAATTAT 0.892424 -156 CTTTCGTAGAAATAAATTTTTTAAAGAAAA 2 120 0 AATAAATTTT 0.836502 -48 AACATTCAACAAAAAATTATTGAAGGTGAT 4 35 1 AAAAAATTAT 0.765736 -23 CTCTGAAATATATAAAATATCAAATGGTGG 7 113 0 TATAAAATAT 0.883069 -28 TTTGTAGGAATAAAAATTTTTTAAACATCC 8 63 0 TAAAAATTTT 0.668475 -58 AAATAAATTATCTTTTTAATT 9 2 1 AATAAATTAT 0.892424 -98 TAGCTTATATAATAAAGTTTTGCATGAACA 10 32 0 AATAAAGTTT 0.753962 -59 CAATATATTCTAAAAAATATATAAACTGCG 12 84 1 TAAAAAATAT 0.748511 -59 TATTTGAAGGTTTAAATTATTTATCATTTT 13 43 1 TTTAAATTAT 0.847533 -239 TTACAATTACAAAAAAATATAAGGTTTTGA 13 259 1 AAAAAAATAT 0.748511 -23 TAGAGTAAGCTATAAAATATCAGGAGGGAT 14 14 0 TATAAAATAT 0.883069 -95 ACTAATTATAAATAAATTATGGTTTTGATT 14 45 0 AATAAATTAT 0.892424 -64 AATCTCTTACATAAAAATTTAGACCTTTTT 14 80 1 ATAAAAATTT 0.551568 -29 AAAGAAAATATATAAAGTTTAGAAAATATA 16 36 1 TATAAAGTTT 0.753962 -56 TTCTTTATCTATTAAATTTTTATATTTTCT 16 56 0 ATTAAATTTT 0.774179 -36 ATCGCACTTATTTAAAATATTTAAGCGGAA 17 116 1 TTTAAAATAT 0.834996 -144 ATAGTAAAAAATAAAATTATTTGTAGATTT 17 225 0 ATAAAATTAT 0.686537 -35 AAATAAATTATTTAAACTATT 18 2 1 AATAAATTAT 0.892424 -37 ACTTAAGTTAATTAAATTTTCAAATTTATT 19 11 0 ATTAAATTTT 0.774179 -78 ATTATAAATAAATAAAGTATAAATATTGTT 19 45 0 AATAAAGTAT 0.832461 -44 AACTAAAAAGTATAAATTATAAATAAATAA 19 60 0 TATAAATTAT 0.892424 -29 AAACCCAAATAATAAATTATAAACAGACTT 20 214 1 AATAAATTAT 0.892424 -87 TTTAAATATTTTTAAAATATCTTAAGTAA 21 282 1 TTTAAAATAT 0.834996 -19 TAGATAGTGTTATAAAATATTCTCCATTAT 22 53 1 TATAAAATAT 0.883069 -42 TATTCTCCATTATAAAATATCTTCGAGGCG 22 70 1 TATAAAATAT 0.883069 -25 TTATTGTCCTATAAAAATATTTCTTTATTT 24 21 0 ATAAAAATAT 0.666039 -154 TAAATATGAGAAAAAAATATTTGTAAGGAT 24 61 1 AAAAAAATAT 0.748511 -114 AAACATAATAAATAAAGTTTCTT 25 4 0 AATAAAGTTT 0.753962 -82 AACTTTCCTTAATAAATTTTATTACTTTGC 28 39 0 AATAAATTTT 0.836502 -150 GGGAGAGATATTTAAAATTT 29 1 0 TTTAAAATTT 0.757339 -59 AAAAACTTCATTAAAAATATAGGGAGAGAT 29 22 0 TTAAAAATAT 0.666039 -38 ATGAGCAATATTTAAATTTTTCGAGATAGA 31 65 1 TTTAAATTTT 0.77418 -125 ATCAAAAAGCTTTAAAGTATTAGTAATAAT 31 135 1 TTTAAAGTAT 0.769024 -55 TTTAATAAATTTTTAATGAAAAT 32 4 1 AATAAATTTT 0.836502 -119 TACCTAATTATATAAAATTTGTGTTAAACA 32 60 0 TATAAAATTT 0.823248 -63 TTTTATTTATTTTAAATTTTTCATATTTTT 33 16 1 TTTAAATTTT 0.77418 -172 AATAGTAAAAATAAAAATATGAAAAATTTA 33 28 0 ATAAAAATAT 0.666039 -160 ATTCGGATTAATAAAAATATCTAAAACCTG 33 70 1 ATAAAAATAT 0.666039 -118 TTTTAGTATAAATAAATTTTAGAACAGGTT 33 94 0 AATAAATTTT 0.836502 -94 ATCAAAAATTATTAAATTATCT 34 3 0 ATTAAATTAT 0.847532 -135 AATTTTCTCCTAAAAAGTTTCTTTAACATA 34 95 1 TAAAAAGTTT 0.547041 -43 TAAAAGAAATTTTAAAATATAGTGTCTTTC 35 45 1 TTTAAAATAT 0.834996 -256 GAAAGATACTAATAAAATATAAGGTGATAA 35 280 1 AATAAAATAT 0.883069 -21 GAAATAAAAAATAAAAATATATCAAAGATT 36 67 0 ATAAAAATAT 0.666039 -234 TATAGTTCTTTTTAAAATATTTTGTAATAA 36 108 1 TTTAAAATAT 0.834996 -193 TTCAAATGTTAATAAAGTTTATTAATTAAG 36 181 0 AATAAAGTTT 0.753962 -120 TGAAAAGAACTATAAATTTTTTATATTACA 36 207 1 TATAAATTTT 0.836502 -94 TAGCTATAACTTTAAATTTTAATTATTAAA 36 271 0 TTTAAATTTT 0.77418 -30 GGGCATCATATAAAAAGTATAAATACCCCT 37 171 1 TAAAAAGTAT 0.661959 -58 AGAAATCATATATAAATTATAATATATTCA 38 46 1 TATAAATTAT 0.892424 -31 ********** Masking position 5 Map Score: 57.5965 Number of sites scoring better than the average of aligned sites = 1142 Number in coding regions = 773 Number in noncoding regions = 369 Number of orfs with sites within 600 bp upstream = 331 Fraction of orfs with sites within 600 bp upstream = 0.0531642 Motif number 3 GGCTTTGCCCCGCGGGGGTTCAAATCCCCCCCT 3 199 1 CGGGGTTCAA 0.964748 -102 GGGGGCGTGCGACCCGGGTTCAAGTCCCGGCGG 7 78 1 GACGGTTCAA 0.938235 -63 TAAGCCGGGGGTCGGGGGTTCAAATCCCCTCGG 11 21 0 GTGGGTTCAA 0.961873 -280 CCTTCCATTAGGAAGGAGTTCAAATTTACTCAT 13 115 0 GGGGGTTCAA 0.996129 -167 CCTTCCTAATGGAAGGAGTTTATCTATGTTATA 13 132 1 GGGGGTTTAT 0.948835 -150 TCACTCCCGTGACTCGGGTTCAAATCCCGGCCA 21 199 1 GACGGTTCAA 0.938235 -102 CCTTCCTTTTGGAAGGCGTTTAAACTTTCCTTA 28 58 0 GGGGGTTTAA 0.972793 -131 CCTTCCAAAAGGAAGGCGTTCATAAATACCTTT 28 75 1 GGGGGTTCAT 0.992563 -114 CCTCCCTATAGGAGAGCGTTCAAATATCCATTA 35 98 0 GGAGGTTCAA 0.957416 -203 CTCTCCTATAGGGAGGTGTTCATTAATGCCTTA 35 115 1 GGGGGTTCAT 0.992563 -186 CCTTCCTAATGGAAGGAGTTCATCAGTGCCTTA 36 139 0 GGGGGTTCAT 0.992563 -162 CTTCCATTAGGAAGGGAGTTCAAACTTAATTAA 36 157 1 GAGGGTTCAA 0.984555 -144 ** ** ****** Masking position 12 Map Score: 19.4023 Number of sites scoring better than the average of aligned sites = 38 Number in coding regions = 8 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 30 Fraction of orfs with sites within 600 bp upstream = 0.0048185 Motif number 4 AGAAATAAATTTTTTAAAGAAAATTTATGCT 2 112 0 TTTTAAAGAA 0.960811 -56 TTTTACAATTTTTGGAAAGATATTATCTTTT 6 16 1 TTTGAAAGAT 0.936998 -42 TTTTATTAGTTTTGAAAAGAACCATATAATT 13 77 0 TTTGAAAGAA 0.964387 -205 AAATCGAAAGTTTTAAAAGAAATGGTATTAA 15 98 1 TTTTAAAGAA 0.961449 -61 TTATATACTATTTTAAAAGATTATCGCACTT 17 94 1 TTTTAAAGAT 0.931977 -166 TATTCAGATTTTTGAAAATAAAAATTAAATA 20 20 0 TTTGAAATAA 0.895739 -281 ATGTTTGGATTTTGAAAATAAGAGCATTTAG 20 136 0 TTTGAAATAA 0.895739 -165 TGAAAATGCTTTTTTAAATAAACATCAAACT 20 259 1 TTTTAAATAA 0.887226 -42 ATTTAAATATTTTTAAAATATCTTAAGTAA 21 281 1 TTTTAAATAT 0.812971 -20 TTTTATTGATTTTGAAAAGATTAAAATTAAA 25 54 0 TTTGAAAGAT 0.936998 -32 ATTTTATTACTTTGCAAAAAACTATAAAAAC 28 23 0 TTTGAAAAAA 0.758747 -166 CCTAAAATGTTTTGCAAAAAACTATATATAT 28 112 1 TTTGAAAAAA 0.758747 -77 TCTCCCTATATTTTTAATGAAGTTTTTATAT 29 25 1 TTTTAATGAA 0.758865 -35 TTTAATAAATTTTTAATGAAAATATTATAC 32 10 1 TTTTAATGAA 0.758865 -113 TTTTTCAAATTTTTGAAAGAAATGAAAAAAG 33 167 1 TTTTAAAGAA 0.961449 -21 ATAAAAGAAATTTTAAAATATAGTGTCTTTC 35 44 1 TTTTAAATAT 0.812971 -257 TTCAAAAACATTTTGAAAGAACCTTTTAGTA 35 252 0 TTTTAAAGAA 0.961449 -49 TTCAAAATGTTTTTGAAAGATACTAATAAAA 35 266 1 TTTTAAAGAT 0.931977 -35 CTATAGTTCTTTTTAAAATATTTTGTAATAA 36 107 1 TTTTAAATAT 0.812971 -194 TTTATTAACATTTGAAAAGAACTATAAATTT 36 195 1 TTTGAAAGAA 0.964387 -106 **** ****** Masking position 3 Map Score: 28.3297 Number of sites scoring better than the average of aligned sites = 283 Number in coding regions = 230 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 52 Fraction of orfs with sites within 600 bp upstream = 0.00835207 Motif number 5 CCTCGCTACGCTCGGCAATGCCTCTTA 1 4 0 CTGGCAGCCC 0.987407 -297 CCGAGCGTAGCGAGGCAATGCATCCTATTTTGAT 1 23 1 CGGGCAGCAC 0.968295 -278 CACGCCTTGGCCGGGCTAGGCTACCTCCGCTCTG 3 147 0 CCGGCAGCTC 0.991717 -154 TGAACCCCCGCGGGGCAAAGCCCCATGGGATCTC 3 187 0 CGGGCAGCCC 0.9968 -114 CACAGGATATCCAGGCTACCCCACGGCCCCGTTA 7 38 0 CCGGCACCCC 0.994683 -103 GGGTTCAAGTCCCGGCGGCCCCACCATTTGATAT 7 93 1 CCGGCGCCCC 0.972496 -48 GGTGCCCTATCCAGGCTAGGCTACGGGTCCTCTT 11 61 1 CCGGCAGCTC 0.99181 -240 AGTTAAGCCCCCCAGCGATGCCCCGAGTACTGCC 21 51 1 CCAGCAGCCC 0.982246 -250 CTGGCGGGAAAGGGGCGACGCCGCCGGCCACTTT 21 87 1 AGGGCAGCCC 0.960855 -214 GTATGATAGGCCGGGCTACACCACCAGGGCATAG 21 158 0 CCGGCAACCC 0.985679 -143 GGGTTCAAATCCCGGCCAGGGCGCCATTTGCCGG 21 214 1 CCGGCAGGCC 0.987952 -87 ** *** * *** * Masking position 6 Map Score: 19.0969 Number of sites scoring better than the average of aligned sites = 27 Number in coding regions = 6 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 6 AACCCGGGTCGCACGCCCCCCAAGCGCACAG 7 67 0 GCACCCCCCC 0.943361 -74 GAGTAAATTTGAACTCCTTCCTAATGGAAGG 13 117 1 GAACCCTTCC 0.993692 -165 TAACATAGATAAACTCCTTCCATTAGGAAGG 13 132 0 AAACCCTTCC 0.964582 -150 GGCCACACCCGAACCCATCCCGAACTCGGAA 21 21 1 GAACCATCCC 0.916643 -280 AGGAAAGTTTAAACGCCTTCCAAAAGGAAGG 28 60 1 AAACCCTTCC 0.964582 -129 AGGTATTTATGAACGCCTTCCTTTTGGAAGG 28 75 0 GAACCCTTCC 0.993686 -114 ATGGATATTTGAACGCTCTCCTATAGGGAGG 35 100 1 GAACCTCTCC 0.916637 -201 AGGCATTAATGAACACCTCCCTATAGGAGAG 35 115 0 GAACCCTCCC 0.991164 -186 AGGCACTGATGAACTCCTTCCATTAGGAAGG 36 141 1 GAACCCTTCC 0.993692 -160 AATTAAGTTTGAACTCCCTTCCTAATGGAAG 36 157 0 GAACCCCTTC 0.907389 -144 **** ****** Masking position 3 Map Score: 15.7091 Number of sites scoring better than the average of aligned sites = 37 Number in coding regions = 10 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 7 ATTTATGGATTAACTATTTTTAAATAGTATTTAT 1 238 1 TAAATTTAAA 0.901079 -63 ACTATAAATGTAATTAAATTAAAACATAATTTAT 2 23 0 TAAATTAAAA 0.894428 -145 ATCAAATTAATAACTATCCTTTAACCTTACTAAA 3 19 1 TAAACTTTAA 0.763075 -282 TGTTTTATAGTAAATAGATATTAAAAAATAAAAA 3 244 0 TAAATATTAA 0.798397 -57 TTAAAAAGAATAATAAGTTTAAAAATCTAA 7 7 0 TAAATTAAAA 0.894425 -134 TTTGTAGGAATAAAAATTTTTTAAACATCCAATT 8 59 0 TAAATTTTAA 0.880696 -62 GCTAAAAGTCTAAAAAACTAAAAAAGGGTTTTTA 9 74 1 TAAATAAAAA 0.818954 -26 TCTCAGGTTGTAAGCACTCTTTAAAATGAATTTT 11 97 1 TAAACTTTAA 0.763076 -204 TATTTATAATTAACCATACAAAAATTGTTATAAG 11 158 0 TAAACAAAAA 0.662159 -143 TATAGAACTATAAAAAACTTATAATAACTTACTT 13 184 1 TAAATTATAA 0.872919 -98 TTCTTAATATTAATTAACTTTAAATATTACAATT 13 233 1 TAAATTTAAA 0.901076 -49 AATTTATTTATAATTAGTTTTAAAATCTCTTACA 14 57 1 TAAATTTAAA 0.901076 -52 AGTTTTTCAGTAATAACATATAAACCTAACGGAA 17 151 0 TAAATATAAA 0.829448 -109 TTAATCACCCAAAAAATAGTAAAAA 17 245 0 TAAACAAAAA 0.662159 -15 ACAACAAAATTAAAAATCCTAAAACCCAAATAAT 20 193 1 TAAACTAAAA 0.785909 -108 AAAACCCAAATAATAAATTATAAACAGACTTCTA 20 213 1 TAAATATAAA 0.829448 -88 TAAGATATTTTAAAAATATTTAAATTTATCGATT 21 272 0 TAAATTTAAA 0.901072 -29 ATCTCTTATATAACAATTTTTTAATGAGAGAAAT 22 12 0 TAAATTTTAA 0.881244 -83 AATGTAATAATAAAAAAGTAAAAAAGTGGTTTAA 23 16 0 TAAATAAAAA 0.818954 -48 AGACTCAAGGTAATGATGTAATAAATGTGATGCA 24 90 0 TAAATAATAA 0.786844 -85 TTTTTGTCATTAATTATATTTAAACAAAATGGTA 24 138 1 TAAATTTAAA 0.901076 -37 TTTATTTTTCTAAAAATATTGTAATAAGGCAAGA 26 44 0 TAAATTGTAA 0.64934 -65 CAAATAATATTAATTAACTAATAAGGTGTAATT 30 54 1 TAAATAATAA 0.786529 -23 TTTAATAAATTTTTAATGAAAATATT 32 3 1 TAAATTTTAA 0.880747 -120 TTAGGTAATTTAATTACCTTAAAAATGATTAAGA 32 83 1 TAAATTAAAA 0.894428 -40 ATATTAATTTTAACAACTTTGAAAGACACTATAT 35 61 0 TAAATTGAAA 0.694611 -240 CGGCACATCGTAAGAACGTTATAAAAACTGCC 36 9 0 TAAATTATAA 0.873629 -292 TAAATATAGTTAAAAAGGTTATAAAGGTGAGACT 37 205 1 TAAATTATAA 0.872919 -24 CAGAGGTTGATAATGAATCATTAACTTATTATTT 40 183 1 TAAACATTAA 0.632303 -118 *** * ****** Masking position 6 Map Score: 38.0484 Number of sites scoring better than the average of aligned sites = 567 Number in coding regions = 390 Number in noncoding regions = 177 Number of orfs with sites within 600 bp upstream = 168 Fraction of orfs with sites within 600 bp upstream = 0.0269836 Motif number 8 ATGCATCCTATTTTGATGAAATGGAAAGCT 1 40 1 TTTTGATGAA 0.908754 -261 ATCTGAAAGATTTTGTTTAACTTTTTCTAA 1 136 1 TTTTGTTTAA 0.900132 -165 TAAGCATAAATTTTCTTTAAAAAATTTATT 2 110 1 TTTTCTTTAA 0.581774 -58 ATACTCAACGTTATGATTAATGGATACCAT 3 73 0 TTATGATTAA 0.351468 -228 TTCAATAATTTTTTGTTGAATGTTATGCTA 4 29 0 TTTTGTTGAA 0.944904 -29 TCTTCTTTCTTTTTATTTATTTGCTAAAAG 9 52 1 TTTTATTTAT 0.57738 -48 TACTTTATTATTTTGGTGATACT 10 78 1 TTTTGGTGAT 0.643931 -13 TAAATTATGGTTTTGATTATAGAGTAAGCT 14 33 0 TTTTGATTAT 0.688508 -76 ATTTAGACCTTTTTGGTGAAAAG 14 96 1 TTTTGGTGAA 0.810691 -13 ACTTTATATATTTTCTTTAATATTACTTCT 16 24 0 TTTTCTTTAA 0.581774 -68 TATTGATTTATTATGTTGAAATATTGATAA 17 27 0 TTATGTTGAA 0.639738 -233 TTCAAAGGATTTTTATTTAATTTCTAAGGG 20 92 0 TTTTATTTAA 0.763879 -209 TAATGGATTGTCTTGTTGAATATGTTTGGA 20 158 0 TCTTGTTGAA 0.588225 -143 CTCCCTACCATTTTGTTTAAATATAATTAA 24 147 0 TTTTGTTTAA 0.900132 -28 TTTTCTGAGTTTTTGTTGATGTTTAATTTT 25 33 1 TTTTGTTGAT 0.878678 -53 TAAGAGAGATTTTTATTGATTTTGAAAAGA 25 65 0 TTTTATTGAT 0.722189 -21 CTCCCTATATTTTTAATGAAGTTTTTATAT 29 26 1 TTTTAATGAA 0.781408 -34 TTTAATAAATTTTTAATGAAAATATTATAC 32 11 1 TTTTAATGAA 0.781408 -112 ATGTCATCAATTTTGTTTAACACAAATTTT 32 47 1 TTTTGTTTAA 0.900132 -76 TTGATTTTTATTTATTTTAAATTTT 33 6 1 TTTTATTTAT 0.57738 -182 ATTTAATAATTTTTGATGAAACCGAAGCGT 34 16 1 TTTTGATGAA 0.908754 -122 GGTGTTAGATTTTTGATGAACCTTTTACTA 35 227 1 TTTTGATGAA 0.908754 -74 TAACTTTAAATTTTAATTATTAAAACTCTC 36 265 0 TTTTAATTAT 0.442389 -36 TTATTTTATTTTTTATTGAATTAATGTTAA 37 108 1 TTTTATTGAA 0.860252 -121 ********** Masking position 4 Map Score: 20.5986 Number of sites scoring better than the average of aligned sites = 386 Number in coding regions = 277 Number in noncoding regions = 109 Number of orfs with sites within 600 bp upstream = 107 Fraction of orfs with sites within 600 bp upstream = 0.017186 Motif number 9 TTTAGGTTGTTATATTTATTTTTTTAGATTTATGG 1 211 1 TATATTTTTT 0.623172 -90 CATATTATATATTATTTTCGGTTTTTAGTAAGGTT 3 41 0 ATTATTTTTT 0.939164 -260 TGTTTCATTTTTTATATATTCTTTTTATATATTCC 3 107 0 TTTATATTTT 0.567211 -194 TTGCACCTCCATAATTTCGTGTTTTATAGTAAATA 3 262 0 ATAATTTTTT 0.793822 -39 ATTTATTTTACAATTTTTGGAAAGAT 6 2 1 TTTATTTTTT 0.925358 -56 TTGGAAAGATATTATCTTTTCTTTTATTTTGGGTG 6 27 1 ATTATCTTTT 0.637913 -31 AAATAAATTATCTTTTTAATTTTACTAATTC 9 7 1 ATTATCTATT 0.23005 -93 CTAATTCTTCTTAATTTTCTTCTTTCTTTTTATTT 9 35 1 TTAATTTTTT 0.755615 -65 AATTACATTAATTATTTATTGTTTTTTATAATCTC 11 213 1 ATTATTTTTT 0.939164 -88 TAATATGACGATTAGTTACTCTTTTTTTATTAAAT 11 250 1 ATTAGTTTTT 0.459127 -51 GTTATGGTTTATTATTTGAAGGTTTAAATTATTTA 13 31 1 ATTATTTTTT 0.939164 -251 GAAGGTTTAAATTATTTATCATTTTGTGAAATTAT 13 48 1 ATTATTTTTT 0.939164 -234 ATTTTGTGAAATTATATGGTTCTTTTCAAAACTAA 13 68 1 ATTATATTTT 0.620063 -214 GTAAATTAATTTAATTTTTAATTTTAATATTCTAC 15 14 1 TTAATTTTTT 0.755612 -145 GATTCTTCCATTTATATACTATTTTAAAAGATTAT 17 83 1 TTTATATTTT 0.567211 -177 AAAAAATAAAATTATTTGTAGATTTTAATGGATGA 17 215 0 ATTATTTTTT 0.939164 -45 AAATAAATTATTTAAACTATTGTCCCCAAAA 18 7 1 ATTATTTATT 0.723495 -32 TTATTTATTTATAATTTATACTTTTTAGTTGGTGA 19 60 1 ATAATTTTTT 0.79382 -29 TTAGATAATTATTTAATTTTTATTTTCAAAAA 20 8 1 ATTATTTTTA 0.605371 -293 TGCTGGTTTGATTATTTAGAATATTTAAGTTTATT 20 55 0 ATTATTTATT 0.723596 -246 TTTAGGATTTTTAATTTTGTTGTTTGGTTAATGGA 20 181 0 TTAATTTTTT 0.755615 -120 TTTATAATTTATTATTTGGGTTTTAGGATTTTTAA 20 202 0 ATTATTTTTA 0.605371 -99 GTCCTATAAAAATATTTCTTTATTTGAATATTCTG 24 11 0 AATATTTTTT 0.673128 -164 TTTTCTCATATTTATTTTTTACTTTTATTGTCCTA 24 40 0 TTTATTTTTT 0.925358 -135 TTGTTGATGTTTAATTTTAATCTTTTCAAAATCAA 25 45 1 TTAATTTTTT 0.755615 -41 AGGATTTGCTTTTATTTTTACTTTTTATTTTTCTA 26 66 0 TTTATTTTTT 0.925358 -43 ATATATGAGCAATATTTAAATTTTTCGAGATAGAT 31 61 1 AATATTTTTT 0.672614 -129 TTGATTTTTATTTATTTTAAATTTTTCATATTTTT 33 11 1 TTTATTTTTT 0.925289 -177 TTTTCATATTTTTATTTTTACTATTCTTTATTTAT 33 33 1 TTTATTTATT 0.677679 -155 AGATAATTTAATAATTTTTGATGAAAC 34 3 1 ATAATTTTTT 0.793819 -135 TGAAAGACACTATATTTTAAAATTTCTTTTATTAT 35 41 0 TATATTTTTT 0.623126 -260 ATTTTTATTTTTTATTTCACTGTTTTGACTATAGT 36 79 1 TTTATTTTTT 0.925358 -222 GAACTAGATAATTATTTTATTTTTTGTCAATCAAT 37 41 1 ATTATTTTTT 0.939163 -188 ATATATTAACTTTATTTTATTTTTTATTGAATTAA 37 97 1 TTTATTTTTT 0.925357 -132 ACAATGGACTTTTATTTGTGTATTATTTTAGACAC 40 33 1 TTTATTTTTA 0.551952 -268 TCATTAACTTATTATTTAAGAGATTGTTTTATAAT 40 200 1 ATTATTTATT 0.723612 -101 ******* *** Masking position 7 Map Score: 50.0474 Number of sites scoring better than the average of aligned sites = 577 Number in coding regions = 380 Number in noncoding regions = 197 Number of orfs with sites within 600 bp upstream = 171 Fraction of orfs with sites within 600 bp upstream = 0.0274655 Motif number 10 TGCGAAAGTCTTAAAATGAAAACTATAAAT 2 48 0 TTAAAATGAA 0.729155 -120 GTGGGAATATATAAAAAGAATATATAAAAA 3 104 1 ATAAAAAGAA 0.908662 -197 AAGAATATATAAAAAATGAAACACGTTTCA 3 119 1 AAAAAATGAA 0.829566 -182 ATATTAAAAAATAAAAAGAAGTGGCGCGGA 3 231 0 ATAAAAAGAA 0.908662 -70 ATTATTAAATGAAACACTTAGCA 4 4 1 ATTAAATGAA 0.768653 -54 TCTCACCCAAAATAAAAGAAAAGATAATAT 6 35 0 AATAAAAGAA 0.768653 -23 CACGGCCCCGTTAAAAAGAATAATAAGTTT 7 21 0 TTAAAAAGAA 0.793764 -120 TAGCAAATAAATAAAAAGAAAGAAGAAAAT 9 48 0 ATAAAAAGAA 0.908662 -52 TAAGCACTCTTTAAAATGAATTTTCTCATA 11 107 1 TTAAAATGAA 0.729155 -194 TAAATTTAATAAAAAAAGAGTAACTAATCG 11 258 0 AAAAAAAGAG 0.772939 -43 AATCGAAAGTTTTAAAAGAAATGGTATTAA 15 99 1 TTTAAAAGAA 0.647599 -60 TTGTTCTAAAATAAAAAGAAGCCCGGCAAA 21 240 0 ATAAAAAGAA 0.908662 -61 GTGGATATACAAAAAATGAAGGATGTGTTA 30 25 0 AAAAAATGAA 0.829566 -52 AGGTGATACCATTAAAAGAATAA 31 4 0 ATTAAAAGAA 0.826087 -186 GCTCATATATAAAAAATGAAATTGCCATAA 31 41 0 AAAAAATGAA 0.829566 -149 AATCAAATAGAAAAAAAGAGGATGTAAAAT 33 138 1 AAAAAAAGAG 0.772939 -50 ATAGGAAAAAATTAAATGAAAATCATGGAG 34 64 0 ATTAAATGAA 0.768653 -74 GGATAATCATAATAAAAGAAATTTTAAAAT 35 33 1 AATAAAAGAA 0.768653 -268 ACAAAATATTTTAAAAAGAACTATAGTCAA 36 103 0 TTAAAAAGAA 0.793764 -198 AAGATTAAAAATTAAATGAGAGTTTTAATA 36 248 1 ATTAAATGAG 0.619097 -53 GTTTCAGGTGAAAAAATGAGATATGTAGCT 39 25 1 AAAAAATGAG 0.704236 -40 ATGGAGCTGTTAAAAAAGAGATTTTAAAGT 40 144 1 TAAAAAAGAG 0.568403 -157 ********** Masking position 5 Map Score: 26.4695 Number of sites scoring better than the average of aligned sites = 552 Number in coding regions = 456 Number in noncoding regions = 96 Number of orfs with sites within 600 bp upstream = 88 Fraction of orfs with sites within 600 bp upstream = 0.0141343 Motif number 11 CGGTTTTTAGTAAGGTTAAAGGATAGTTAT 3 28 0 TAAGGTTAAA 0.863318 -273 ATAATTATTATAAGGTTTGACAAATAATTA 5 27 0 TAAGGTTTGA 0.808656 -51 AATAATTATAAAAGGTTTGAAGGAAAACAC 5 48 1 AAAGGTTTGA 0.706781 -30 TATATATTTCAGAGGTGAGATA 7 129 1 AGAGGTGAGA 0.837237 -12 TCCAAAAGCAAAAGGTGAGATT 23 52 1 AAAGGTGAGA 0.942136 -12 TTTAATTTTTTAAGGTGAGAATAC 27 61 1 TAAGGTGAGA 0.966155 -14 GCATAAAGGTTTAATAACACATCC 30 5 1 AAAGGTTTAA 0.600957 -72 AATTAACTAATAAGGTGTAATT 30 65 1 TAAGGTGTAA 0.881741 -12 CATAACATTTTGAGGTGATACCATTAAAAG 31 16 0 TGAGGTGATA 0.673503 -174 TTAACATAAATAAGGTTAAAGGGAGAGCTC 34 117 1 TAAGGTTAAA 0.863318 -21 TAATAAAATATAAGGTGATAAA 35 289 1 TAAGGTGATA 0.867187 -12 AAGTTATAGCTAAGGTGAAAGT 36 289 1 TAAGGTGAAA 0.946909 -12 AAAAGGTTATAAAGGTGAGACT 37 217 1 AAAGGTGAGA 0.942136 -12 ACTAAAGGTTTCAGGTGAAAAAATGAGATA 39 18 1 TCAGGTGAAA 0.753806 -47 ********** Masking position 3 Map Score: 10.9025 Number of sites scoring better than the average of aligned sites = 101 Number in coding regions = 53 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 12 ATATATAATACTGCGAAAGTCTTAAAATGA 2 59 0 CTGCGAAAGT 0.986405 -109 AAATTTATTTCTACGAAAGTCCTAAATCTT 2 131 1 CTACGAAAGT 0.978788 -37 CTTATATTGACTATGAAAGT 2 158 1 CTATGAAAGT 0.939729 -10 ATATTTACTTCTGCGAAAGTTCTATTCAAT 12 15 0 CTGCGAAAGT 0.986405 -128 AATATATAAACTGCGAAAGTTCTATTGAAA 12 99 1 CTGCGAAAGT 0.986405 -44 CTGCAATATTCTATGAAAGTTAGGTGATGG 37 12 0 CTATGAAAGT 0.939729 -217 ********** Masking position 6 Map Score: 8.14556 Number of sites scoring better than the average of aligned sites = 44 Number in coding regions = 7 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 13 TAGTTAATCCATAAATCTAAAAAAATAAATA 1 223 0 ATAAATTAAA 0.729387 -78 AATGAAAACTATAAATGTAATTAAATTAAAA 2 33 0 ATAAATTAAT 0.684087 -135 AAGGATAGTTATTAATTTGATGTTGAAGT 3 9 0 ATTAATTGAT 0.675696 -292 ACAATAAATAATTAATGTAATTATTAATTTT 11 204 0 ATTAATTAAT 0.761519 -97 TTTAAAGTTAATTAATATTAAGAATTTCCAA 13 226 0 ATTAATTTAA 0.818867 -56 ATAGTAAATTAATTTAATTTTTAATTTT 15 8 1 ATTAATTAAT 0.725463 -151 AACATAATAAATCAATATAAATTGCTCTTTA 17 40 1 ATCAATTAAA 0.689755 -220 AATAAATTTGAAAATTTAATTA 19 2 1 ATAAATTGAA 0.657056 -87 CAATTAATCGATAAATTTAAATATTTTTAAA 21 267 1 ATAAATTAAA 0.72864 -34 TTGCTTTTGGATTAATGTAATAATAAAAAAG 23 32 0 ATTAATTAAT 0.761519 -32 TAATGATGTAATAAATGTGATGCATCCTTAC 24 83 0 ATAAATTGAT 0.607011 -92 ACTTTCCTTAATAAATTTTATTACTTTGCAA 28 37 0 ATAAATTTAT 0.684755 -152 AAAGAATAAGATTAATATTAAAATTGGCTAA 28 146 0 ATTAATTTAA 0.818867 -43 TTATTAGTTAATTAATATTATTTGTGGATAT 30 47 0 ATTAATTTAT 0.784182 -30 CCTATCCCTAATCAATCTTAATCATTTTTAA 32 101 0 ATCAATTTAA 0.716507 -22 CATTATTAATATTAATTTTAACAACTTTGAA 35 72 0 ATTAATTTAA 0.818366 -229 TTTTTATTGAATTAATGTTAAGTTCATAAAC 37 117 1 ATTAATTTAA 0.818867 -112 CCTCCTCAAAATCAATATTAAGAGATAGTTC 40 108 0 ATCAATTTAA 0.716507 -193 ****** **** Masking position 6 Map Score: 13.2921 Number of sites scoring better than the average of aligned sites = 343 Number in coding regions = 193 Number in noncoding regions = 150 Number of orfs with sites within 600 bp upstream = 154 Fraction of orfs with sites within 600 bp upstream = 0.024735 Motif number 14 TAGGATGCATTGCCTCGCTACGCTCGGCAA 1 20 0 TGCCTCGCTA 0.611042 -281 CCGGGTCGCACGCCCCCCAAGCGCACAGGA 7 65 0 CGCCCCCCAA 0.826125 -76 TAAATTTGAACTCCTTCCTAATGGAAGGAG 13 120 1 CTCCTTCCTA 0.93381 -162 CATAGATAAACTCCTTCCATTAGGAAGGAG 13 130 0 CTCCTTCCAT 0.874998 -152 GGTTACTCCTCCCTACCATTTTGTT 24 160 0 CTCCTCCCTA 0.964072 -15 AAAGTTTAAACGCCTTCCAAAAGGAAGGCG 28 63 1 CGCCTTCCAA 0.929898 -126 TATTTATGAACGCCTTCCTTTTGGAAGGCG 28 73 0 CGCCTTCCTT 0.949831 -116 CATTAATGAACACCTCCCTATAGGAGAGCG 35 113 0 CACCTCCCTA 0.868764 -188 AATCTAACACCTCCTCGCTTACGCTCGGAG 35 208 0 CTCCTCGCTT 0.843285 -93 GATTTCGATGTGCCTCCCTTAAAGGGTTCG 36 41 0 TGCCTCCCTT 0.847272 -260 CACTGATGAACTCCTTCCATTAGGAAGGGA 36 144 1 CTCCTTCCAT 0.874998 -157 ********** Masking position 4 Map Score: 6.93872 Number of sites scoring better than the average of aligned sites = 164 Number in coding regions = 133 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 15 ATATATCACCGTGTTTTCCTTCAAACC 5 61 0 ATTCCCGTTT 0.812194 -17 AATATCTCCTCATTATTTGTTTCAAT 8 105 0 ATTCCCATAT 0.928909 -16 GATATATCACCACAACATTTTTGTTCAT 10 4 1 ATTCCCAAAT 0.784117 -87 AAGCATCCATATTTCTCAATATATTCTAAAAAATA 12 68 1 ATTCCAATTT 0.777795 -75 GAACCATATAATTTCACAAAATGATAAATAATTTA 13 55 0 ATTCCAATAT 0.644819 -227 AATATCCCTCCTGATATTTTATAGCTTA 14 4 1 ATCCCCATTT 0.953971 -105 CAATATCACCAAAGATTAAGGATTTGC 26 92 0 ATTCCCAGTT 0.915488 -17 GATACCACCAAAGTTTTTATAGTTTT 28 2 1 ATCCCCAGTT 0.899108 -187 AATTTTAAATATCTCTCCCTATATTTTTAATGAAG 29 12 1 ATTCCCATTT 0.961822 -48 TTTATCACCTTATATTTTATTAGTAT 35 285 0 TTTCCCATTT 0.74477 -16 TATATTATTGATGCCCCCATATATTAACTTTATTT 37 79 1 ATCCCCATTT 0.953971 -150 AGCTCCATTAATTCCTCCTCAAAATCAATATTAAG 40 117 0 ATCCCCAAAT 0.749249 -184 ** ** ** ** ** Masking position 2 Map Score: 4.35547 Number of sites scoring better than the average of aligned sites = 127 Number in coding regions = 98 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282