AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i199_mjan_pyro_300.orf -o199_mjan_pyro_300.ace -a/home/amcguire/genomes/ORF_mjan.txt -z/home/amcguire/genomes/mjan.fna -g0.37 -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 = 0.37 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: RMJ01689 25 M_jannaschii_chromosome RMJ13823 22 M_jannaschii_chromosome RMJ00466 27 M_jannaschii_chromosome RMJ00175 32 M_jannaschii_chromosome RMJ01164 22 M_jannaschii_chromosome RPH01425 17 Pyrococcus_OT3 Input sequences: #1 RMJ08301 300 M_jannaschii_chromosome #2 RMJ10183 41 M_jannaschii_chromosome #3 RMJ02887 33 M_jannaschii_chromosome #4 RMJ13792 59 M_jannaschii_chromosome #5 RMJ07518 85 M_jannaschii_chromosome #6 RMJ13714 300 M_jannaschii_chromosome #7 RMJ06988 57 M_jannaschii_chromosome #8 RMJ04045 82 M_jannaschii_chromosome #9 RMJ15889 300 M_jannaschii_chromosome #10 RMJ00474 155 M_jannaschii_chromosome #11 RMJ07853 273 M_jannaschii_chromosome #12 RMJ03993 155 M_jannaschii_chromosome #13 RMJ09839 97 M_jannaschii_chromosome #14 RMJ15198 300 M_jannaschii_chromosome #15 RMJ06275 300 M_jannaschii_chromosome #16 RMJ03510 25 M_jannaschii_chromosome #17 RMJ07702 84 M_jannaschii_chromosome #18 RMJ14130 96 M_jannaschii_chromosome #19 RMJ15668 198 M_jannaschii_chromosome #20 RMJ00821 42 M_jannaschii_chromosome #21 RMJ12447 38 M_jannaschii_chromosome #22 RMJ13379 57 M_jannaschii_chromosome #23 RMJ14726 32 M_jannaschii_chromosome #24 RMJ06762 126 M_jannaschii_chromosome #25 RMJ14744 37 M_jannaschii_chromosome #26 RMJ05778 300 M_jannaschii_chromosome #27 RMJ04788 300 M_jannaschii_chromosome #28 RMJ09060 71 M_jannaschii_chromosome #29 RMJ14877 185 M_jannaschii_chromosome #30 RMJ12218 174 M_jannaschii_chromosome #31 RMJ06687 85 M_jannaschii_chromosome #32 RMJ04756 147 M_jannaschii_chromosome #33 RMJ08379 300 M_jannaschii_chromosome #34 RMJ09467 141 M_jannaschii_chromosome #35 RMJ07626 57 M_jannaschii_chromosome #36 RMJ12537 110 M_jannaschii_chromosome #37 RMJ08709 49 M_jannaschii_chromosome #38 RMJ15425 296 M_jannaschii_chromosome #39 RMJ09366 300 M_jannaschii_chromosome #40 RMJ09720 283 M_jannaschii_chromosome #41 RMJ03708 300 M_jannaschii_chromosome #42 RMJ07630 116 M_jannaschii_chromosome #43 RPH01036 51 Pyrococcus_OT3 #44 RPH01035 67 Pyrococcus_OT3 #45 RPH01034 29 Pyrococcus_OT3 #46 RPH01033 49 Pyrococcus_OT3 #47 RPH01032 73 Pyrococcus_OT3 #48 RPH00918 178 Pyrococcus_OT3 #49 RPH00045 300 Pyrococcus_OT3 #50 RPH01140 48 Pyrococcus_OT3 #51 RPH01365 36 Pyrococcus_OT3 #52 RPH01366 281 Pyrococcus_OT3 #53 RPH01426 244 Pyrococcus_OT3 #54 RPH01427 286 Pyrococcus_OT3 #55 RPH01428 22 Pyrococcus_OT3 #56 RPH01431 27 Pyrococcus_OT3 #57 RPH01432 156 Pyrococcus_OT3 #58 RPH01507 26 Pyrococcus_OT3 #59 RPH01510 101 Pyrococcus_OT3 #60 RPH01511 63 Pyrococcus_OT3 #61 RPH01565 300 Pyrococcus_OT3 #62 RPH01566 76 Pyrococcus_OT3 #63 RPH01626 35 Pyrococcus_OT3 #64 RPH01636 139 Pyrococcus_OT3 #65 RPH01637 124 Pyrococcus_OT3 #66 RPH01638 57 Pyrococcus_OT3 #67 RPH01639 300 Pyrococcus_OT3 #68 RPH01746 82 Pyrococcus_OT3 #69 RPH01748 300 Pyrococcus_OT3 #70 RPH01754 99 Pyrococcus_OT3 #71 RPH01755 65 Pyrococcus_OT3 #72 RPH01756 40 Pyrococcus_OT3 #73 RPH01041 42 Pyrococcus_OT3 Motif number 1 GTTTCTGCATTTTTATTTTAT 3 2 0 TTTTATTTTA 0.83474 -32 CGCCACTTCTTTTTATTTTTTAATATCTAT 6 235 1 TTTTATTTTT 0.913388 -66 AAATCCCATTTTATATTTTTTTAATATTTT 8 41 1 TTATATTTTT 0.925775 -42 TATATTTTTTTAATATTTTAAAGCATTTGA 8 52 1 TAATATTTTA 0.747195 -31 TGATACTATATAATATTTTAGTATTGTGCT 9 74 0 TAATATTTTA 0.747195 -227 ATTATCACAATTATATTTATGAAATGTTGA 9 103 1 TTATATTTAT 0.836146 -198 TTTATTTTTATTATATTTATTCTAAAATGG 9 247 0 TTATATTTAT 0.836146 -54 TTTTTATCTTTTTTATTTTTATTATATTTA 9 258 0 TTTTATTTTT 0.913388 -43 ACTATAACCTTATTATTTTATATTAATTGA 10 70 0 TATTATTTTA 0.722955 -86 TTAATCACCATAATATTTTTTAGTAGCCCA 10 136 0 TAATATTTTT 0.865652 -20 AGTAATTTTTTATAATTTTTTAATGTTCAA 11 23 1 TATAATTTTT 0.789481 -251 AAAAAAAGTTTTATATTTTTAGGGATTAAA 12 79 0 TTATATTTTT 0.925775 -77 TAAACCTCTATTTTATTTTTTAAAATTTAT 12 123 1 TTTTATTTTT 0.913388 -33 TTTTATTTTTTAAAATTTATTTAAGGTGAG 12 133 1 TAAAATTTAT 0.631699 -23 TCTGAATCAGTTAAATTTAATAAAAAAAGA 14 269 0 TTAAATTTAA 0.430565 -32 GATAGCCTAATTATATTTATGAAACAATAT 15 79 1 TTATATTTAT 0.836146 -222 TCAAAATTAATAAAATTTATGAAGGAATGT 15 182 1 TAAAATTTAT 0.631699 -119 GATAGGGTATTTAAATTTTTTGTTA 17 6 0 TTAAATTTTT 0.891688 -79 AACTTTAACTTTAAATTTATTTTAACTTTC 18 11 1 TTAAATTTAT 0.771764 -86 ACCTCAAAATTTAAATTTAATTTAGAACGT 21 13 0 TTAAATTTAA 0.430565 -26 AATTAGTTATTTATATTTTTCGG 24 4 0 TTATATTTTT 0.925775 -123 CTCCTTTGTGTTTTATTTATTTGTTTTAAC 24 87 0 TTTTATTTAT 0.811835 -40 CTTAGCAATATAAAATTTTTCAAAATTTCC 26 135 1 TAAAATTTTT 0.807259 -166 CCTTTCTTTTTTATATTTAACAAAAAGCAT 26 245 0 TTATATTTAA 0.703626 -56 AAATAATAGTTATTATTTTTTAA 27 4 0 TATTATTTTT 0.844927 -297 AAATAATAACTATTATTTTTATTTAAGTTA 27 16 1 TATTATTTTT 0.844927 -285 ATTCACATTATTTTATTTTTGTTAATTTAA 27 206 0 TTTTATTTTT 0.913388 -95 CACCTAAATTTTATATTTTATCTTATATTA 27 275 0 TTATATTTTA 0.852809 -26 TTGTCATTAATTATATTTAAACAAAATGGT 30 141 1 TTATATTTAA 0.703626 -34 TTTGTTGATGTTTAATTTTAATCTTTTCAA 31 44 1 TTTAATTTTA 0.773193 -42 TATTTTTACTTTTTATTTTTCTAAAAATAT 32 59 0 TTTTATTTTT 0.913388 -89 AAGGATTTGCTTTTATTTTTACTTTTTATT 32 72 0 TTTTATTTTT 0.913388 -76 CAATTTTTGTTTAAATTTTTTAAAGGTCAG 33 53 0 TTAAATTTTT 0.891688 -248 CAAAAATTGATTTAATTTTTTGATGTTTTT 33 74 1 TTTAATTTTT 0.87892 -227 TTCTCTATATTTAAATTTATTAAAAATTTT 35 12 1 TTAAATTTAT 0.771764 -46 TTCTTTAATTTTTTACTTTTTTA 37 4 1 TTTAATTTTT 0.87892 -46 TTTTACTTTTTTAAATTTTAAAATTTAAAG 37 21 1 TTAAATTTTA 0.567368 -29 TAAAAATGTCTTTAATTTAAATAAGTAATA 38 122 1 TTTAATTTAA 0.582231 -175 TAAAATACCGTTAAATTTATATAAGATAAA 38 217 1 TTAAATTTAT 0.771764 -80 TATTGAGACATAATATTTTAAATAATTTTT 39 48 0 TAATATTTTA 0.747195 -253 TCCCTCCTATTTTTATTTTTGTTATTTGTT 39 276 0 TTTTATTTTT 0.913388 -25 TAGCTCCTAATTTTATTTTTATTTTATTTA 40 19 1 TTTTATTTTT 0.913388 -265 TTTATTTTTATTTTATTTATCTGTGTTTAA 40 30 1 TTTTATTTAT 0.811835 -254 TTCACATTTTTATAATTTTAGCTTATAAAG 40 115 0 TATAATTTTA 0.635528 -169 CTACGGGCTTTTATATTTATTCCTTAATTT 40 175 0 TTATATTTAT 0.836146 -109 TTTTCAAATATATAATTTTTGAAAAATGCA 40 217 0 TATAATTTTT 0.789481 -67 TGAAAAACACTTATATTTTACAGATAAATA 40 241 1 TTATATTTTA 0.852809 -43 AACTTATTTTTATTTTTGTTTAAGTAT 41 8 1 TTTTATTTTT 0.913388 -293 TCACTGAATCTTATATTTTTCAAATACTAT 41 101 1 TTATATTTTT 0.925775 -200 AGATACTAAATATTATTTTAATGGAATTTT 41 135 0 TATTATTTTA 0.722955 -166 TTTTGTCAATTTTAATTTTATGTAACATTT 41 168 1 TTTAATTTTA 0.773193 -133 ACCCTTTTGGTATTATTTAATTGTGTTATC 41 275 0 TATTATTTAA 0.516346 -26 ATGACTTTTTTATTATTTTTAAGGTTCCAC 42 30 0 TATTATTTTT 0.844927 -87 CTTTTCTTAAAATTTTTAAATTAAATA 43 8 1 TAAAATTTTT 0.807259 -44 CCGGTTTCCATAAAATTTTTCCATCTTCAA 49 18 1 TAAAATTTTT 0.807259 -283 GAATCACCCTTATTATTTTTATGCGTTGAA 49 255 1 TATTATTTTT 0.844927 -46 TAAGAATTAGTTAAATTTTTAAACTCCTCC 52 131 1 TTAAATTTTT 0.891688 -151 CTCCCCCAAATAAAATTTTTGAAGGTCTTT 67 276 0 TAAAATTTTT 0.807259 -25 AGGATTAACGTTAAATTTTAGAGCAACCTA 70 61 1 TTAAATTTTA 0.567368 -39 ********** Masking position 5 Map Score: 70.7139 Number of sites scoring better than the average of aligned sites = 1571 Number in coding regions = 994 Number in noncoding regions = 577 Number of orfs with sites within 600 bp upstream = 428 Fraction of orfs with sites within 600 bp upstream = 0.068744 Motif number 2 AAAGCCCCATGGGATCTCCAGTCCCACGCCTTGGCCG 6 168 0 GGGTCACCCC 0.986292 -133 TTGCCCCGCGGGGGTTCAAATCCCCCCCTCCGCGCCA 6 203 1 GGGTAACCCC 0.997243 -98 CCGGGGGTCGGGGGTTCAAATCCCCTCGGGTCCGCCA 14 13 0 GGGTAACCCC 0.997387 -288 CCCCGACCCCCGGCTTAGAAGGCCGGTGCCCTATCCA 14 37 1 CGGTAACCGT 0.936341 -264 CGGCAGGTCCCGGGTTCAAAGCCCGGCCGGGGCTCCA 53 104 1 CGGTAACCGC 0.994672 -141 CCGCGACCTGGGGATTACAAGTCCCCCGCCCCACCAG 54 98 0 GGGTAACCCC 0.997387 -189 CCCCAGGTCGCGGGTTCAAATCCCGCCCGGGGCTCCA 54 122 1 CGGTAACCGC 0.994672 -165 CCCGGGTCACGGGCTCCCAAAGCCCGCAGGATGGGCC 54 179 0 GGGTAACCCC 0.997389 -108 GCCCGTGACCCGGGTTCAAATCCCGGCGGCCCCACCA 54 202 1 CGGTAACCGC 0.994672 -85 AAACGCCCACGGGCTCTCAAGGCCCGCGCCCTACCAG 59 12 0 GGGTAACCCC 0.997389 -90 CGCCGGGACGGGGATTTGAACCCCGGCGGGCAAACGC 59 43 0 GGGTAACCGC 0.996888 -59 *** * ** *** * Masking position 10 Map Score: 24.674 Number of sites scoring better than the average of aligned sites = 15 Number in coding regions = 3 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 3 CAAAACACATAATAATTTAAGGTGACTAAAT 5 65 1 AAATAAGGTG 0.901347 -21 ATAAAACACGAAATTATGGAGGTGCAACCTTGAC 6 270 1 AATTGAGGTG 0.979952 -31 TTCAACAAAAAATTATTGAAGGTGATTAG 7 39 1 AAATAAGGTG 0.901347 -19 AAACCATTATAACAAATGGAGGGGTGATT 10 6 0 AAATGAGGGG 0.869443 -150 GGGCTACTAAAAAATATTATGGTGATTAA 10 137 1 AATTATGGTG 0.6919 -19 ATTTTTTAAAATTTATTTAAGGTGAGATT 12 137 1 ATATAAGGTG 0.648862 -19 AAATAAGATATAAAGGTGGAAATCC 16 5 1 AATTAAGGTG 0.965469 -21 GATGGCATATAAAATACAGAGGTGCAGTG 17 66 1 AATCGAGGTG 0.919376 -19 AAATTAAATTTAAATTTTGAGGTGAGTTT 21 20 1 TATTGAGGTG 0.927428 -19 CACAAAGGAGAACATTTGGAGGTGTAAATT 24 107 1 AATTGAGGTG 0.979946 -20 ATAATAATAAGTGAAGGGGATAGAAATGG 25 6 1 AAATAAGGGG 0.79207 -32 AGCTAAAATTATCTTTTTGGGGTGTCCATC 28 52 1 ATTTGGGGTG 0.890104 -20 TTTAAATTTTAAAATTTAAAGGTGGGTTTT 37 30 1 AATTAAGGTG 0.965469 -20 TTTTTTGAATTATATTCAGGGGTGATAACTTGCA 38 269 1 TATCGGGGTG 0.709521 -28 ATAAATAAGAAATTTATAAAGGGGATAATT 40 264 1 AATTAAGGGG 0.920994 -20 AAGGTTCCACAAATTTTTGAGGTGAAATG 42 6 0 AATTGAGGTG 0.979952 -111 CAAATATGAATTAATTTTAAGGTGGTAATTT 42 96 1 TTTTAAGGTG 0.596525 -21 CAACGCATAAAAATAATAAGGGTGATTCCCGTGC 49 249 0 AAATAGGGTG 0.882151 -52 CCCTTTTCTTTAATTCTTGGGGTGATTTAA 51 17 1 TATTGGGGTG 0.912817 -20 ACCTCCTCTTAAACTCTTAGGGGGTTGAAC 52 7 0 AATTAGGGGG 0.90522 -275 GGGTTAGGCAAAAATTTGGAGGTGATTCAAG 52 261 1 AATTGAGGTG 0.979952 -21 TCATCTTAAAAAACTTTTGGGGGGCAATTCTCC 53 222 1 AATTGGGGGG 0.943492 -23 ATTTTTCCTTTTTGTGGGGGTGAAACC 56 9 1 TTTTGGGGTG 0.679241 -19 AAGAATTATCAATCTTCGAGGGTGGAAACCTTCG 64 45 1 AATCAGGGTG 0.842372 -95 CACAAATAACAAAATCTGGAGGTG 67 1 0 AATTGAGGTG 0.979952 -300 ** * * ****** Masking position 11 Map Score: 30.2304 Number of sites scoring better than the average of aligned sites = 85 Number in coding regions = 52 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 47 Fraction of orfs with sites within 600 bp upstream = 0.00754899 Motif number 4 TGGGGCTTTGCCCCGCGGGGGTTCAAATCCCCCC 6 196 1 CCCCGGGGTC 0.961053 -105 TTCAAATCCCCCCCTCCGCGCCACTTCTTTTTAT 6 217 1 CCCCCGCGCC 0.993359 -84 GGGTTCAAATCCCCTCGGGTCCGCCAAT 14 5 0 CCCCGGGTCC 0.987627 -296 ATCCAGGCTAGGCTACGGGTCCTCTTTATCTCAG 14 69 1 GGCCGGGTCC 0.958989 -232 GCCCTCCTGGGGCATCCGCGTCCCCTTTATTTCA 18 41 0 GGCCCGCGCC 0.977685 -56 ACCAGGCTGAGCCACCGGGGCACCGCCGAAGATT 53 51 0 GCCCGGGGAC 0.970794 -194 CTGCCGCTTACCAAGCGGCCGCTCTACCAGGCTG 53 76 0 CCACGGCCCC 0.933035 -169 GGGTTCAAAGCCCGGCCGGGGCTCCATTCTAATA 53 115 1 CCCCCGGGCC 0.995948 -130 CACCAGGCTAGGCTACCGGGGCACCGAGAGATGG 54 70 0 GGCCCGGGCC 0.98581 -217 GGGATTACAAGTCCCCCGCCCCACCAGGCTAGGC 54 91 0 GTCCCGCCCC 0.893558 -196 GGGTTCAAATCCCGCCCGGGGCTCCAGCGGGGCC 54 133 1 CCCCCGGGCC 0.995948 -154 GGCCAAGCTACCCTACGGCCCCGCTGGAGCCCCG 54 149 0 CCCCGGCCCC 0.995955 -138 TTTGAACCCGGGTCACGGGCTCCCAAAGCCCGCA 54 188 0 GGTCGGGCCC 0.870249 -99 GGGTTCAAATCCCGGCGGCCCCACCAATTTTGTG 54 213 1 CCCCGGCCCC 0.995955 -74 GCGGGCAAACGCCCACGGGCTCTCAAGGCCCGCG 59 21 0 GCCCGGGCCC 0.996855 -81 GGATTTGAACCCCGGCGGGCAAACGCCCACGGGC 59 35 0 CCCCGGGCAC 0.977533 -67 *** ***** * * Masking position 8 Map Score: 23.4771 Number of sites scoring better than the average of aligned sites = 18 Number in coding regions = 3 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 5 TCAATGTTCCTTAAATTAATTTTATTGATTTTG 1 135 0 TTAAAATTTT 0.820005 -166 ACCTTAGTTATTTCAAAAGTTTTGAAAGACACT 1 191 1 TTTCAATTTT 0.818083 -110 TATTGATATCTTTAAAATCTTTTATTTGAGTGT 1 258 0 TTTAATTTTT 0.832445 -43 TCTCAATTATTTTAAAGTATTTTAT 2 3 0 TTTAATTTTT 0.832445 -39 TATCCCCTTGTTTCTGCATTTTTATTTTAT 3 8 0 TTTCTATTTT 0.812465 -26 ATTAAATAAATTTTTAAATAATTG 4 2 1 TTAAAATTTT 0.820005 -58 TCCTCTCTTATTTATTAAGTTTTTGAATAAAAT 5 13 1 TTTATATTTT 0.909419 -73 TTGTGTTTATTTTATCTAATTTTATTCAAAAAC 5 31 0 TTTATATTTT 0.909419 -55 GATACCATATTATATATTATTTTCGGTTTTTAG 6 48 0 TATATTTTTT 0.612461 -253 TTTCATTTTTTATATATTCTTTTTATATATTCC 6 107 0 TATATTTTTT 0.612461 -194 TAAATCCCATTTTATATTTTTTTAATATTTTAA 8 40 1 TTTATTTTTT 0.827177 -43 CTTAATAACTTTTATTAACTTTTAAAAAGAACA 9 28 1 TTTATATTTT 0.909419 -273 ATAATGATACTATATAATATTTTAGTATTGTGC 9 75 0 TATATTTTTT 0.612461 -226 CAAGTAATTTTTTATAATTTTTTAATGTTCAAT 11 21 1 TTTATTTTTT 0.827177 -253 AAACGTGATATAAAAAAAGTTTTATATTTTTAG 12 87 0 TAAAAATTTT 0.60068 -69 AATCTCACCTTAAATAAATTTTAAAAAATAAA 12 134 0 TTAAAATTTT 0.820005 -22 AAGCACTCTTTAAAATGAATTTTCTCATATATA 14 108 1 TAAAAATTTT 0.600647 -193 AATTTTCTCATATATATACTTTTCGTTTCATAA 14 125 1 TATATATTTT 0.768254 -176 TTTCATAACTTATAACAATTTTTGTATGGTTAA 14 150 1 TATAAATTTT 0.774829 -151 ACATTAATTATTTATTGTTTTTTATAATCTCAC 14 217 1 TTTATTTTTT 0.827177 -84 TGACGATTAGTTACTCTTTTTTTATTAAATTTA 14 255 1 TTACTTTTTT 0.474476 -46 CTGTAAGAAGTTTATATACTTTTATTGTTGTTT 15 132 0 TTTATATTTT 0.909419 -169 CTTCATAAATTTTATTAATTTTGAAAGGCACTA 15 173 0 TTTATATTTG 0.681858 -128 GCCTTAGTTATTTAAGAAGTTTGAAAGACACTA 15 245 1 TTTAAATTTG 0.689895 -56 AGATAGGGTATTTAAATTTTTTGTTA 17 4 0 TTTAATTTTG 0.5147 -81 AACTTTAACTTTAAATTTATTTTAACTTTCTGA 18 11 1 TTAAATTTTT 0.684725 -86 TTAAACAATTTTTATCAGGAAGG 23 1 1 TTAAAATTTT 0.820005 -32 TCAGAAACCATATATAAAATTTTCGGTTGAGTG 26 99 0 TATATATTTT 0.768254 -202 TGATGCATCCTTACAAATATTTTTTTCTCATAT 30 64 0 TTACATTTTT 0.483785 -111 AGAAACTTTATTTATTATGTTTTTTCTGAGTTT 31 12 1 TTTATTTTTT 0.827177 -74 AAGAGAGATTTTTATTGATTTTGAAAAGATTAA 31 61 0 TTTATATTTG 0.681858 -25 TCTTGCCTTATTACAATATTTTTAGAAAAATAA 32 44 1 TTACAATTTT 0.662829 -104 CATCAAAAAATTAAATCAATTTTTGTTTAAATT 33 66 0 TTAAAATTTT 0.820005 -235 TTTCTCTATATTTATATACTTTTTGGATAGGAT 33 104 0 TTTATATTTT 0.909419 -197 TTTCCAACTCTTTCAAAATTTTTAATAAATTTA 35 23 0 TTTCAATTTT 0.818083 -35 ACTTTTTATATATCTTTATTTTTAGTAATACTT 38 24 1 TATCTATTTT 0.588562 -273 ATTTTGTTTTTTTCATATTTTTTATTACTTATT 38 141 0 TTTCATTTTT 0.681918 -156 GACATAATATTTTAAATAATTTTTGGTTTTAAA 39 39 0 TTTAAATTTT 0.912445 -262 TTCTAATTTTTAAATTAACTTTTAAGTTTTGAT 39 239 0 TAAATATTTT 0.591699 -62 GTAGTGGTGATTTCTGTAGTTTTTTGACTATTT 40 65 1 TTTCTATTTT 0.812465 -219 TTCCTTAATTTTTATTAACTTTGAAAAACACTT 40 153 0 TTTATATTTG 0.681858 -131 AGGGCTTTTATAAATGCATTTTTCAAAAATTAT 40 203 1 TAAATATTTT 0.591699 -81 ATTGTAATATTTTCAGATATTTTTCAATCCAGT 41 60 1 TTTCATTTTT 0.681918 -241 AAATATTATTTTAATGGAATTTTTAATATAGTA 41 125 0 TTAATATTTT 0.814433 -176 GATAATACTATTTAAACTTTTTTGTTTAAAGTT 41 227 0 TTTAATTTTT 0.832445 -74 AAAAAAGTCATATAAATAGTTTTTTATTTTGTA 42 49 1 TATAAATTTT 0.774829 -68 GATGTTCATCTTAAAAAACTTTTGGGGGGCAAT 53 217 1 TTAAAATTTT 0.820005 -28 CGTCAAGCTTTTTAACTATTTTGGAGCTTGATG 60 35 1 TTTAAATTTG 0.689895 -29 TCTTAAAGCATTTAAGAATTTTTCTGGAGTTCT 61 188 0 TTTAAATTTT 0.912445 -113 CAAATAACTTTTTAAAATCTTTTAAGCAATTCA 61 246 1 TTTAATTTTT 0.832445 -55 TTGATAATTCTTAAAAAATTTTTGCAAAAGCCA 64 24 0 TTAAAATTTT 0.820005 -116 AAAATAGAGATATATAAACTTTTCGGAATTTGA 67 58 1 TATATATTTT 0.768254 -243 TTTCGCTTTATTTCTTAAGTTTTTAGGAGGGAT 72 11 1 TTTCTATTTT 0.812465 -30 ***** * **** Masking position 10 Map Score: 54.1822 Number of sites scoring better than the average of aligned sites = 1732 Number in coding regions = 1217 Number in noncoding regions = 515 Number of orfs with sites within 600 bp upstream = 422 Fraction of orfs with sites within 600 bp upstream = 0.0677803 Motif number 6 CTTAAAGGCGTTCAATGTTCCTTAAATTAATTTTATT 1 142 0 TTAATTAAAT 0.876405 -159 ATAACTATCCTTTAACCTTACTAAAAACCGAAAATAA 6 28 1 TTAATTAAAA 0.933189 -273 TAAATCCCATTTTATATTTTTTTAATATTTTAAAGCA 8 40 1 TTATTTAATA 0.699533 -43 GAAGGAGTTCAAATTTCCTTAATAACTTTTATTA 9 8 1 TTAATTAATA 0.853568 -293 TCTGTTCTTTTTAAAAGTTAATAAAAGTTATTAAGGA 9 26 0 TTAATTAAAG 0.710775 -275 TTTATATTAATTGAAGATTTTATAAAACATTAGATTA 10 47 0 TTAATTAAAA 0.933194 -109 TTTATAATTTTTTAATGTTCAATAATTTCAACCTAAA 11 31 1 TTAATTAATT 0.747414 -243 TATACCTCATTTTAAAATTGAATAATAATAATATGCA 11 104 1 TTAATTAATA 0.853568 -170 TATAGTGCCTTTCAAAATTAATAAAATTTATGAAGGA 15 171 1 TTAATTAAAT 0.876405 -130 TATAGTGTCTTTCAAACTTCTTAAATAACTAAGGCAC 15 243 0 TTAATTAATA 0.853568 -58 TTAAATTTATTTTAACTTTCTGAAATAAAGGGGACGC 18 21 1 TTAATTAATA 0.853568 -76 AAATTTGCTATTAAAGATTTATAAAATAGCCTCATCT 26 167 1 TTAATTAAAT 0.876405 -134 TCCTTTCTTTTTTATATTTAACAAAAAGCATCCATAT 26 239 0 TTATTTAAAA 0.847998 -62 GTATAATTAATTAATATTTGTAGAATATAGCCCTAAC 27 158 0 TTATTTAATA 0.699533 -143 GATGTTTAATTTTAATCTTTTCAAAATCAATAAAAAT 31 50 1 TTAATTAAAT 0.876405 -36 ATTTTTACTTTTTATTTTTCTAAAAATATTGTAATAA 32 51 0 TTATTTAAAT 0.739047 -97 ATTCTCTATATTTAAATTTATTAAAAATTTTGAAAGA 35 11 1 TTAATTAAAA 0.933189 -47 CAATAAGCTTTTAAACTTTTAACAAATTAATTAACTC 36 58 1 TTAATTAAAT 0.876405 -53 ACCTTTAAATTTTAAAATTTAAAAAAGTAAAAAATTA 37 16 0 TTAATTAAAG 0.710775 -34 AAAAGAAAAATTAATCATTATTAAAAATGTCTTTAAT 38 101 1 TTATTTAAAA 0.848003 -196 TTAACGGTATTTTATTATTAATAAAATAAACTTTAAT 38 194 0 TTATTTAAAT 0.739047 -103 TAAATTAACTTTTAAGTTTTGATAAAACAGATTTTTT 39 225 0 TTAATTAAAA 0.933193 -76 ATAAGTGTTTTTCAAAGTTAATAAAAATTAAGGAATA 40 151 1 TTAATTAAAA 0.933194 -133 GTAGAGGAGATTTATACTTAAACAAAAATAAAAATAA 41 14 0 TTATTTAAAA 0.848002 -287 TTTTGTCAATTTTAATTTTATGTAACATTTTTTTATA 41 168 1 TTAATTAACA 0.548665 -133 AACTTTTTTGTTTAAAGTTTATTAAAAATGTCTTGAG 41 209 0 TTAATTAAAA 0.933193 -92 TTTTATTATTTTTAAGGTTCCACAAATTTTTGAGGTG 42 16 0 TTAATTAAAT 0.876405 -101 TTTGTATATTTTCAAATTTACAAAATAAAAAACTATT 42 63 0 TTAATTAATA 0.853568 -54 CCCCCACAACTTGATGGTTATTTAATTTAAAAATTTT 43 19 0 TTATTTAATT 0.541672 -33 CCCTCGAAGATTGATAATTCTTAAAAAATTTTTGCAA 64 30 0 TTATTTAAAA 0.848003 -110 CGAAAGCCTTTTAAATCTTTTATAAAAACACCACAAC 64 77 1 TTAATTAAAA 0.933194 -63 AGAACCATATTTAAATCTTATTGAAAAATGTTGGGTA 65 69 0 TTAATTAAAA 0.933194 -56 ** ** ** **** Masking position 9 Map Score: 46.3821 Number of sites scoring better than the average of aligned sites = 413 Number in coding regions = 273 Number in noncoding regions = 140 Number of orfs with sites within 600 bp upstream = 136 Fraction of orfs with sites within 600 bp upstream = 0.0218439 Motif number 7 TGAATAAAATTAGATAAAATAAACACAAACAAAAC 5 36 1 TATAATAAAA 0.93861 -50 ACTTCAACATCAAATTAATAACTATCCTTT 6 6 1 AATAATTAAA 0.621146 -295 CATTTTAGAATAAATATAATAAAAATAAAAAAGAT 9 248 1 TATTATAAAA 0.592309 -53 ATAATAAAAATAAAAAAGATAAAAAAGAAGGTAAA 9 263 1 TAAAATAAAA 0.738699 -38 TATAAAACATTAGATTACATAAATAAACCATTATA 10 29 0 TATAATAAAA 0.93861 -127 TAGATTCAAATATGTTGTATAAATATCTTATCTAT 12 42 0 TATGATAAAA 0.549777 -114 GGTTTAGTGAAACGTGATATAAAAAAAGTTTTATA 12 94 0 AATAATAAAA 0.792091 -62 AATTAATGTGTAGATAAAATTAATATATTTGGTAT 13 36 0 TATAATTAAA 0.868067 -62 GAGTGCTTACAACCTGAGATAAAGAGGACCCGTAG 14 81 0 AATAATAAAA 0.792091 -220 CTGAATCAGTTAAATTTAATAAAAAAAGAGTAACT 14 263 0 TATTATAAAA 0.59231 -38 TTGAGTATAGTAAATAATATTAAGATAGGGTATTT 17 24 0 TATAATTAAA 0.86807 -61 TTGCAAACTCTACTTCAAATTAATATTGTTTAGAT 24 46 1 TATAATTAAA 0.868067 -81 ATATTACGGTTAAAACAAATAAATAAAACACAAAG 24 79 1 TAAAATAAAA 0.738699 -48 TATTATATGGTATCTGATATAAATATTTTACTTAA 26 207 0 TATAATAAAA 0.938595 -94 TTCTAATATATAACTTAAATAAAAATAATAGTTAT 27 21 0 TATAATAAAA 0.938611 -280 GAATAGTCAGAAATTAACATTAATAACCAAAGTTT 27 88 1 AATAATTAAA 0.621144 -213 TTTTATATTTTATCTTATATTAATAATATTCCAAC 27 262 0 TATAATTAAA 0.868067 -39 TATTAAGTATTACTAAAAATAAAGATATATAAAAA 38 26 0 TAAAATAAAA 0.738694 -271 TTTTATTACTTATTTAAATTAAAGACATTTTTAAT 38 120 0 TATATTAAAA 0.573694 -177 CCGTTAAATTTATATAAGATAAAGAGTACTATAAA 38 224 1 TATAATAAAA 0.938595 -73 ACCAAACAAATAACAAAAATAAAAATAGGAGGGAA 39 272 1 TAAAATAAAA 0.738699 -29 TAAACACAGATAAATAAAATAAAAATAAAATTAGG 40 24 0 TATAATAAAA 0.93861 -260 AAAAAAATGTTACATAAAATTAAAATTGACAAAAT 41 167 0 TATAATTAAA 0.86807 -134 AAAATGTCTTGAGCTAATATAAAAAAATGTTACAT 41 187 0 GATAATAAAA 0.582121 -114 AAATAATAAAAAAGTCATATAAATAGTTTTTTATT 42 42 1 AATAATAAAA 0.792091 -75 ACTTGATGGTTATTTAATTTAAAAATTTTAAGAAA 43 13 0 TATATTAAAA 0.573694 -39 AACTTTTCGCTAGTTTAGATTAAAAACCTTGGTTT 48 149 0 TATAATTAAA 0.86807 -30 ** * * ***** * Masking position 10 Map Score: 27.4931 Number of sites scoring better than the average of aligned sites = 193 Number in coding regions = 127 Number in noncoding regions = 66 Number of orfs with sites within 600 bp upstream = 72 Fraction of orfs with sites within 600 bp upstream = 0.0115644 Motif number 8 AACTTTTGAAATAACTAAGGTATTAATGAACGCCTT 1 176 0 AAAAGGATAA 0.97121 -125 ATAAAAATGCAGAAACAAGGGGATAAAA 3 16 1 AAAAGGGTAA 0.863998 -18 AACTTCTTAAATAACTAAGGCACTAATGAACGCCTT 15 230 0 AAAAGGATAA 0.97121 -71 ATCTTAAGAGACATTAAAGGGACTAAAAGCCCTTTA 29 35 1 AAAAGGATAA 0.97121 -151 GTTAAAAGAGAGACTCAAGGTAATGATGTAATAAAT 30 98 0 AAAAGGATGA 0.863998 -77 AAAGTTAATAAAAATTAAGGAATAAATATAAAAGCC 40 164 1 AAAAGGAAAA 0.84172 -120 CCCAAGAATTAAAGAAAAGGGAAGAAA 51 2 0 AAAAGGAGAA 0.935505 -35 AGTTTATTGTAAATTGAAGGGAAGAAAAGGAGG 62 8 0 AAAAGGAGAA 0.935505 -69 TGTAATGAAGATAGAAAAGGTAGTAAAATTG 65 6 0 AAAAGGATAA 0.97121 -119 GTTCATTCATAGAGAAAAGGAATTAAAGACCTTCAA 67 252 1 AAAAGGATAA 0.97121 -49 TCTTCTTCTAACATTAAAGGGATTAACTATGATGCT 69 157 1 AAAAGGATAA 0.97121 -144 * * **** * *** Masking position 8 Map Score: 11.2555 Number of sites scoring better than the average of aligned sites = 55 Number in coding regions = 44 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 9 TTTATTGATTTTGGAAGACACTATATTTTGCAA 1 115 0 TTGAACACTA 0.982452 -186 TTCAAAAGTTTTGAAAGACACTATAAAAAAGCT 1 202 1 TTGAACACTA 0.982452 -99 TTTATTAATTTTGAAAGGCACTATAATCTTACT 15 163 0 TTGAACACTA 0.982452 -138 TTTAAGAAGTTTGAAAGACACTATATAGTTAAA 15 255 1 TTGAACACTA 0.982452 -46 TGGCATTATTTTGAAAGACATTATAGATTAAAT 19 150 0 TTGAACATTA 0.862105 -49 GAAGTAGAGTTTGCAATTCACTATTTATAATTA 24 29 0 TTGAACACTA 0.982449 -98 TTTATTAACTTTGAAAAACACTTATGGTATTTT 40 143 0 TTGAACACTT 0.953479 -141 AATTATATATTTGAAAAACACTTATATTTTACA 40 230 1 TTGAACACTT 0.953479 -54 *** ** ***** Masking position 6 Map Score: 8.78292 Number of sites scoring better than the average of aligned sites = 36 Number in coding regions = 8 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 10 TGTAATAAAAGAAAAGGAGTGTATAAACAA 1 17 0 GAAAAGGAGT 0.530539 -284 TATTCAATTTTAAAATGAGGTATAAAAATC 11 98 0 TAAAATGAGG 0.761615 -176 TTTACTTAAAAAAGATGAGGCTATTTTATA 26 186 0 AAAGATGAGG 0.592985 -115 AATATAAAAAAGAAAGGAGGATGACTATGG 26 258 1 AGAAAGGAGG 0.781873 -43 AATTAATGACAAAAATTAGGTTAAAAGAGA 30 123 0 AAAAATTAGG 0.618068 -52 AGTAAAAAATGAGAAGGAGGGAGAAT 33 285 1 GAGAAGGAGG 0.840217 -16 TGAAAGAGTTGGAAATGAGGTGGTAAT 35 41 1 GGAAATGAGG 0.863719 -17 AAAATAAAAATAAAATTAGGAGCTATATTT 40 14 0 TAAAATTAGG 0.502178 -270 CTCAAGAATTGGAGATGAGGGAAAAGTTTT 48 95 0 GGAGATGAGG 0.643055 -84 GATGGGAGTGAAAAAGGAGGATGTCGTTAG 49 68 0 AAAAAGGAGG 0.900756 -233 CCTAAGAGTTTAAGAGGAGGTATATTTTAA 52 20 1 TAAGAGGAGG 0.616597 -262 TTCAAACAGGGAAAATGAGGCTTCCTTCAG 52 167 1 GAAAATGAGG 0.941341 -115 AAGATCTCCTCAAAAGTAGGGTTAGGCAAA 52 243 1 CAAAAGTAGG 0.737456 -39 AAATACATAGGAAAATTAGGTAAATA 54 7 0 GAAAATTAGG 0.83517 -280 CCGAGAGATGGAAAAGGAAGTTAGTATATA 54 51 0 GAAAAGGAAG 0.677067 -236 TCCAAAATGGGAAAATGAAGAG 58 3 0 GAAAATGAAG 0.542118 -24 TTAGGCGAGCCGAAAGTAGGGGTGATGGAG 61 281 1 CGAAAGTAGG 0.525915 -20 TTGAAGGGAAGAAAAGGAGG 62 1 0 GAAAAGGAGG 0.966007 -76 GGGTTTACTTAAAAAGTAGGGTTATAAAGC 68 38 0 AAAAAGTAGG 0.741314 -45 GTAAGATAGAGAGAATTAGGAATCACTCTC 69 250 0 GAGAATTAGG 0.483892 -51 AGATAGAATTCAAAAGGAGGGGGTATGA 71 48 1 CAAAAGGAGG 0.898952 -18 ********** Masking position 5 Map Score: 11.9256 Number of sites scoring better than the average of aligned sites = 352 Number in coding regions = 325 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 11 TAAAATCTTTTATTTGAGTGTTTTGTTTGGTTTAATATCT 1 239 0 TTTTTTTTTG 0.53257 -62 TATCCCCTTGTTTCTGCATTTTTATTTTAT 3 1 0 TTCTTTTTTT 0.598267 -33 TTGTGATAAATTTTTAAGTGTTTCAATTATTTAAAAATTT 4 18 0 TTTTTTTTTT 0.924333 -42 TATTATGTGTTTTGTTTGTGTTTATTTTATCTAATTTTAT 5 39 0 TTGTTTTTTT 0.447272 -47 CTCTGAAACGTGTTTCATTTTTTATATATTCTTTTTATAT 6 112 0 TTTTTTTTTT 0.924333 -189 CTTCTTTTTATTTTTTAATATCTATTTACTATAAAACACG 6 240 1 TTTTTTCTTT 0.6365 -61 TAAATCCCATTTTATATTTTTTTAATATTTTAAAGCATTT 8 40 1 TTATTTTTAT 0.439332 -43 AGTATTGTGCTATTTTTATAGTTCTGTTCTTTTTAAAAGT 9 45 0 TTTTTGTTTT 0.53257 -256 AAATAGGGGGTATATATATCTTTTGGTTATGCAAGAATCT 9 143 0 TTATTTTTTT 0.775957 -158 TTTACCTTCTTTTTTATCTTTTTTATTTTTATTATATTTA 9 258 0 TTTTTTTTTT 0.924333 -43 CCAAGTAATTTTTTATAATTTTTTAATGTTCAATAATTTC 11 20 1 TTTATTTTTT 0.430629 -254 AAAATATTCATATATAATTATTTGGTTAATAGTATTAGCG 11 184 1 TTATTTTTTT 0.775957 -90 TTATACAACATATTTGAATCTATATTTAATCCCTAAAAAT 12 55 1 TTTTTTATTT 0.305904 -101 ACTAAACCTCTATTTTATTTTTTAAAATTTATTTAAGGTG 12 121 1 TTTTTTTTAT 0.734309 -35 ACATTAATTATTTATTGTTTTTTATAATCTCACTAATATG 14 217 1 TTATTTTTAT 0.439332 -84 TTTATATACTTTTATTGTTGTTTAACTCATAACAACCCAG 15 115 0 TTATTTTTTT 0.775957 -186 TCACTATTTATAATTAGTTATTTATATTTTTCGG 24 5 0 TATTTTTTTT 0.289313 -122 CTTTGTGTTTTATTTATTTGTTTTAACCGTAATATCTAAA 24 74 0 TTTTTTTTCT 0.423323 -53 CCTATAAAAATATTTCTTTATTTGAATATTCTG 30 4 0 TTTTTTTTTT 0.924333 -171 ACAAATATTTTTTTCTCATATTTATTTTTTACTTTTATTG 30 45 0 TTTCTTTTTT 0.38864 -130 GATTTGCTTTTATTTTTACTTTTTATTTTTCTAAAAATAT 32 59 0 TTTTCTTTTT 0.53257 -89 AATCAATTTTTGTTTAAATTTTTTAAAGGTCAGAGAAGGG 33 46 0 TTTTTTTTAT 0.734309 -255 ATTGATTTAATTTTTTGATGTTTTTATCCTATCCAAAAAG 33 79 1 TTTTTTTTTT 0.924333 -222 TCGATAATAGTTTCTCTATATTTATATACTTTTTGGATAG 33 107 0 TTCTTTTTTT 0.598267 -194 CTTCACCTTATTTTTAGTTGTTGAGTTAATTAATTTGTTA 36 77 0 TTTTTTTGTT 0.53257 -34 TTCTTTAATTTTTTACTTTTTTAAATTTTAAAATTTAAA 37 10 1 TTTTTTTTTT 0.924333 -40 TAATAACTACTTTTTATATATCTTTATTTTTAGTAATACT 38 16 1 TTTTTTCTTT 0.6365 -281 GTTGCCTTACTATTTAAATAGTTTATTACTAAAAAAGAAA 38 69 1 TTTTTGTTTT 0.53257 -228 ATTAATGAGTTATTTTGTTTTTTTCATATTTTTTATTACT 38 145 0 TTTTTTTTTT 0.924333 -152 TATTCCCTCCTATTTTTATTTTTGTTATTTGTTTGGTTTC 39 269 0 TTTTTTTTAT 0.734309 -32 TTTTATTTTATTTATCTGTGTTTAAATATTGTAGTGGTGA 40 35 1 TTATTTTTTT 0.775957 -249 TTTCTGTAGTTTTTTGACTATTTTGATACTCCGAGTATAA 40 75 1 TTTTTTTTTT 0.924333 -209 ACACTTATGGTATTTTCACATTTTTATAATTTTAGCTTAT 40 119 0 TTTTCTTTTT 0.53257 -165 AATTATCCCCTTTATAAATTTCTTATTTATCTGTAAAATA 40 254 0 TTATTTCTTT 0.331753 -30 AACTTATTTTTATTTTTGTTTAAGTATAAATCTC 41 5 1 TTTTTTTTTG 0.53257 -296 AAAAACTATTTATATGACTTTTTTATTATTTTTAAGGTTC 42 33 0 TTATTTTTTT 0.775957 -84 AATTAATTCATATTTGTATATTTTCAAATTTACAAAATAA 42 72 0 TTTTTTTTAT 0.734309 -45 TCTTCCCTTTTCTTTAATTCTTGGGGTGATTTAA 51 13 1 TTTTTTTGTT 0.53257 -24 GGTTCATTGATATTAAAATGTTTCCATGATCTCAACCATA 57 50 1 TTTATTTTTT 0.430629 -107 TACGTCAAGCTTTTTAACTATTTTGGAGCTTGATGTTTTT 60 33 1 TTTTTTTTAT 0.734309 -31 * *** * *** * * Masking position 1 Map Score: 36.5659 Number of sites scoring better than the average of aligned sites = 860 Number in coding regions = 602 Number in noncoding regions = 258 Number of orfs with sites within 600 bp upstream = 190 Fraction of orfs with sites within 600 bp upstream = 0.0305172 Motif number 12 TTAAGGAACATTGAACGCCTTTAAGGCGTT 1 154 1 TTGAACGCCT 0.93573 -147 TAAGGTATTAATGAACGCCTTAAAGGCGTT 1 167 0 ATGAACGCCT 0.823765 -134 AGGGGGGGATTTGAACCCCCGCGGGGCAAA 6 202 0 TTGAACCCCC 0.97928 -99 TTAAGGAAATTTGAACTCCTTC 9 3 0 TTGAACTCCT 0.692531 -298 CCGAGGGGATTTGAACCCCCGACCCCCGGC 14 21 1 TTGAACCCCC 0.97928 -280 GAAGGAATGTTTGAACGCCCTCCTTTGGAA 15 202 1 TTGAACGCCC 0.971523 -99 TAAGGCACTAATGAACGCCTTCCAAAGGAG 15 221 0 ATGAACGCCT 0.823765 -80 AATATTGATGATGAACGCGCCCTTCTCTGA 33 27 1 ATGAACGCGC 0.833161 -274 GTTCAACCCCCTAAGAGTTTA 52 2 1 TTCAACCCCC 0.821871 -280 CGGCCGGGCTTTGAACCCGGGACCTGCCGC 53 103 0 TTGAACCCGG 0.91739 -142 CGGGCGGGATTTGAACCCGCGACCTGGGGA 54 121 0 TTGAACCCGC 0.955652 -166 CCGCCGGGATTTGAACCCGGGTCACGGGCT 54 201 0 TTGAACCCGG 0.91739 -86 GGACGGGGATTTGAACCCCGGCGGGCAAAC 59 45 0 TTGAACCCCG 0.960563 -57 ********** Masking position 5 Map Score: 16.151 Number of sites scoring better than the average of aligned sites = 42 Number in coding regions = 11 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 35 Fraction of orfs with sites within 600 bp upstream = 0.00562159 Motif number 13 AAACCTGTCATTGCCCTACCCGGGCTTTTCAG 1 85 0 TGCCCTCCCG 0.865644 -216 AGAGCGGAGGTAGCCTAGCCCGGCCAAGGCGT 6 148 1 TGCCTACCCG 0.984667 -153 AGAGGACCCGTAGCCTAGCCTGGATAGGGCAC 14 62 0 TGCCTACCTG 0.989028 -239 TTAAAAGACCTTGCTTAACCTTAATCTTGCCT 32 20 1 TGCTTACCTT 0.754579 -128 CTAACTTTGTTTGCATAACCTGAGGCCCTTAC 49 197 1 TGCATACCTG 0.909799 -104 CTCCAAATTTTTGCCTAACCCTACTTTTGAGG 52 250 0 TGCCTACCCT 0.917473 -32 GGTGCCCCGGTGGCTCAGCCTGGTAGAGCGGC 53 61 1 TGCTCACCTG 0.926812 -184 GGTGCCCCGGTAGCCTAGCCTGGTGGGGCGGG 54 79 1 TGCCTACCTG 0.989028 -208 TAGGGTAGCTTGGCCCATCCTGCGGGCTTTGG 54 168 1 TGCCCACCTG 0.984688 -119 TACTTTCGGCTCGCCTAACGTGAATTGCTTAA 61 267 0 TGCCTACGTG 0.921234 -34 * ***** **** Masking position 1 Map Score: 7.25968 Number of sites scoring better than the average of aligned sites = 13 Number in coding regions = 7 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 14 GTTTTCCCTCCATTAAGAATT 20 32 0 TTTTCCCTCC 0.968709 -11 ATTATTTTCAATCCCTCACTCTTT 22 5 1 TTTTCAATCC 0.806906 -53 TTAATTCTCATTTTCACTCAACCGAAAATT 26 85 1 TTTTCACTCA 0.72234 -216 ATTCTCCCTCCTTCTCATTTT 33 290 0 TTCTCCCTCC 0.853588 -11 AGTATTCCCTCCTATTTTTATT 39 289 0 TATTCCCTCC 0.797307 -12 TTTCAGATATTTTTCAATCCAGTGCATGAT 41 70 1 TTTTCAATCC 0.806906 -231 AATTAAAAACTTTTCCCTCATCTCCAATTC 48 90 1 TTTTCCCTCA 0.876251 -89 TCCATAAAATTTTTCCATCTTCAATATCAA 49 24 1 TTTTCCATCT 0.788482 -277 ACATCCTCCTTTTTCACTCCCATCTCCTGA 49 74 1 TTTTCACTCC 0.919186 -227 ACTAACTTCCTTTTCCATCTCTCGGTGCCC 54 56 1 TTTTCCATCT 0.788482 -231 TGGATAGTCTTTTTCCCTCTAGTAAGATAG 69 271 0 TTTTCCCTCT 0.910283 -30 ********** Masking position 4 Map Score: 8.12284 Number of sites scoring better than the average of aligned sites = 112 Number in coding regions = 96 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 18 Fraction of orfs with sites within 600 bp upstream = 0.0028911 Motif number 15 ACCTGTCATTGCCCTACCCGGGCTTTTCAGG 1 84 0 GCCCTACCGG 0.960363 -217 AGCGGAGGTAGCCTAGCCCGGCCAAGGCGTG 6 150 1 GCCTAGCCGG 0.990669 -151 AGGACCCGTAGCCTAGCCTGGATAGGGCACC 14 61 0 GCCTAGCCGG 0.990669 -240 TGCCCCGGTGGCTCAGCCTGGTAGAGCGGCC 53 63 1 GCTCAGCCGG 0.966964 -182 CGGGTTCAAAGCCCGGCCGGGGCTCCATTCT 53 114 1 GCCCGGCCGG 0.981164 -131 TGCCCCGGTAGCCTAGCCTGGTGGGGCGGGG 54 81 1 GCCTAGCCGG 0.990669 -206 GGGTAGCTTGGCCCATCCTGCGGGCTTTGGG 54 170 1 GCCCATCCGC 0.895508 -117 CAAGGCCCGCGCCCTACCAGG 59 1 0 GCCCTACCGG 0.960363 -101 GGGTTATAAAGCTTTTCCTGGGATTAGAAGT 68 19 0 GCTTTTCCGG 0.790071 -64 GAGGGAAAAAGACTATCCAGGAGCTCCTT 69 282 1 GACTATCCGG 0.783829 -19 ******** ** Masking position 7 Map Score: 9.40098 Number of sites scoring better than the average of aligned sites = 15 Number in coding regions = 5 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 12 Fraction of orfs with sites within 600 bp upstream = 0.0019274