AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00790_mjan_reg_300.orf -o00790_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 Purged sequences: MJ0086 36 unspecified methyltransferase MJ1169 26 formylmethanofuran dehydrogenase, subunit A (tungsten) (fwdA) MJ1170 32 conserved hypothetical protein Input sequences: #1 MJ0030 300 coenzyme F420-reducing hydrogenase, delta subunit (frcD) #2 MJ0081 300 methyl coenzyme M reductase II, subunit beta (mrtB) #3 MJ0084 261 CODH nickel-insertion accessory protein (cooC) #4 MJ0085 134 iron transport periplasmic binding protein, putative (ceuE) #5 MJ0087 23 hemin permease (hemU) #6 MJ0090 80 collagenase (prtC) #7 MJ0091 95 Na+/Ca+ exchanger protein, putative #8 MJ0318 171 formylmethanofuran:tetrahydromethanopterin formyltransferase (ftr) #9 MJ0448 130 conserved hypothetical protein #10 MJ0511 300 thymidylate synthase (thyA) #11 MJ0655 169 LSU ribosomal protein L34E #12 MJ0656 88 cytidylate kinase (cmk) #13 MJ0657 86 LSU ribosomal protein L14E #14 MJ0658 134 M. jannaschii predicted coding region MJ0658 #15 MJ0822 300 S-layer structural protein #16 MJ0842 219 methyl coenzyme M reductase I, subunit beta (mcrB) #17 MJ0846 131 methyl coenzyme M reductase I, subunit alpha (mcrA) #18 MJ0847 219 N5-methyl-tetrahydromethanopterin:coenzyme M methyltransferase, subunit E (mtrE) #19 MJ0849 29 N5-methyl-tetrahydromethanopterin:coenzyme M methyltransferase, subunit C (mrtC) #20 MJ0869 119 DNA repair protein RAD51 (radA) #21 MJ0870 176 coenzyme F420-reducing hydrogenase, beta subunit (frhB) #22 MJ0968 55 copper transporting P type ATPase (copA) #23 MJ1035 300 N5,N10-methylene-tetrahydromethanopterin dehydrogenase (mtd) #24 MJ1149 59 mutator MutT protein, putative (mutT) #25 MJ1165 238 formylmethanofuran dehydrogenase, subunit E (tungsten) (fwdE) #26 MJ1167 47 formylmethanofuran dehydrogenase, subunit G (tungsten) (fwdG) #27 MJ1171 25 formylmethanofuran dehydrogenase, subunit C (tungsten) (fwdC) #28 MJ1243 91 conserved hypothetical protein #29 MJ1245 148 M. jannaschii predicted coding region MJ1245 #30 MJ1246 300 succinyl-CoA synthetase, alpha subunit (sucD) #31 MJ1335 214 phosphoheptose isomerase (gmhA) #32 MJ1336 67 M. jannaschii predicted coding region MJ1336 #33 MJ1337 238 M. jannaschii predicted coding region MJ1337 #34 MJ1338 76 H(2)-dependent methylenetetrahydromethanopterin dehydrogenase related protein #35 MJ1349 232 coenzyme F420-reducing hydrogenase, beta subunit #36 MJ1350 114 formylmethanofuran dehydrogenase, subunt C (tungsten) #37 MJ1351 300 glutamate synthase (gltB) #38 MJ1505 178 ATP dependent RNA helicase, putative #39 MJ1534 275 N5,N10-methylene-tetrahydromethanopterin reductase (mer) #40 MJ1574 300 ATP-dependent RNA helicase, eIF-4A family, putative #41 MJ1635 199 M. jannaschii predicted coding region MJ1635 #42 MJ1636 63 N5,N10-methenyl-tetrahydromethanopterin cyclohydrolase (mch) #43 MJ1662 94 methyl coenzyme M reductase system, component A2-like Motif number 1 AAATGATAAAATTAAAAAAATCTTTAAAAT 2 161 0 ATTAAAAAAA 0.913632 -140 AAATTTTAAAATTAAAAATAAAGTCCAAAA 3 39 0 ATTAAAAATA 0.954269 -223 TATGCCCTCCAATTAAAATTTTAAAATTAA 3 54 0 AATTAAAATT 0.861205 -208 TATATTAGATATTAAAAATTTTTGTTCATA 4 90 1 ATTAAAAATT 0.969548 -45 TTCAAATATAATTTAAAATTTAAAAAAATT 6 56 1 ATTTAAAATT 0.933446 -25 TACTTAGATTATTTAAAATTATTGTTGATA 8 50 1 ATTTAAAATT 0.933446 -122 TAAATCCATAAATAAAAATATATCAACAAT 8 70 0 AATAAAAATA 0.902242 -102 TTTGTTATAGATTAAAAATTGGTGAATATT 9 12 0 ATTAAAAATT 0.969548 -119 TTAATTTACCATTAAAAATTTAATATCATA 11 43 0 ATTAAAAATT 0.969548 -127 TTAATGGTAAATTAAAAATTAAGAAAACAT 11 58 1 ATTAAAAATT 0.969548 -112 ATTAATTAAAATTATTTTAATTA 12 4 1 AATTAAAATT 0.861205 -85 ATAGTTTCAAAATAAAAATAAAAAAGAAGA 14 25 0 AATAAAAATA 0.902242 -110 ATTTTTATCCATTTAAAAAAGTTGCAAACA 15 94 1 ATTTAAAAAA 0.823902 -207 ATATCGCTCTATTAAAAAATAAAAAAAGTT 15 129 0 ATTAAAAAAT 0.941658 -172 GAAATTTTTTATTAAAAATAACAGTTATAG 16 20 0 ATTAAAAATA 0.954269 -200 AAAGTTTTAAAATTAAAATAACATAAAATC 16 93 0 AATTAAAATA 0.803229 -127 AACTTAGAAAAATAAAAAATAAAAATCAAA 17 90 1 AATAAAAAAT 0.877132 -42 ATAATAAAAAATTAAAAAATTTAGAAT 18 8 0 ATTAAAAAAT 0.941658 -212 AAAAAAGTTAAATAAAAATTAAGTGAATTT 18 128 1 AATAAAAATT 0.933697 -92 ATATAACTTAAATAAAAATAATAGTTATTA 23 156 1 AATAAAAATA 0.902242 -145 AGATTTTGTTATTAAAAAATAATAACTATT 23 175 0 ATTAAAAAAT 0.941658 -126 AGGGAGAGATATTTAAAATTT 24 2 0 ATTTAAAATT 0.933446 -58 TAAAAACTTCATTAAAAATATAGGGAGAGA 24 23 0 ATTAAAAATA 0.954269 -37 TATCCTATTATTTAAAAATTTGAAAATTA 29 10 1 ATTTAAAAAT 0.876601 -139 TTAATATGTTATTAAAAAAAGAAATTTTAA 29 54 0 ATTAAAAAAA 0.913632 -95 GATTTAAGTTATTTAAAAAATGGTGGGGGT 30 26 1 ATTTAAAAAA 0.823902 -275 AAATTAATTTAATAAAAATTTACTAAAGGG 31 16 0 AATAAAAATT 0.933697 -199 TATATAATGCATTAAAAAATGGAAATAAAA 31 188 1 ATTAAAAAAT 0.941658 -27 AACTTTCACAAATAAAAATACTTTATTGAA 36 15 1 AATAAAAATA 0.902242 -100 CTTTAAAAATTAAAAAATTTAAATAGAA 36 97 0 ATTAAAAAAT 0.941658 -18 AGATTAAAAGATTAAAAATAAAAACATGAG 37 270 1 ATTAAAAATA 0.954269 -31 TGGTGAAATCATTTAAAATTTAAATAACCA 40 167 0 ATTTAAAATT 0.933446 -134 AGCATTAATCATTAAAAATTTATTTCCCAG 40 237 1 ATTAAAAATT 0.969548 -64 ********** Masking position 5 Map Score: 54.6291 Number of sites scoring better than the average of aligned sites = 784 Number in coding regions = 497 Number in noncoding regions = 287 Number of orfs with sites within 600 bp upstream = 271 Fraction of orfs with sites within 600 bp upstream = 0.0435271 Motif number 2 GAGGAATTCAAAATTTTTTTAAAGATTTTAAAGATTT 2 137 1 AAATTTTATT 0.591592 -164 TTAAAGATTTTTTTAATTTTATCATTTTAATATTATT 2 164 1 TTTATTTTTT 0.804836 -137 CATTTTAATATTATTATTTTAACATTTTTTAGTAATT 2 186 1 TTATTTTTTT 0.857726 -115 GTAATAGGTATATAAAATTTTCTATTTTATCCTAAAA 2 222 0 TATATTTTTT 0.836449 -79 TCTTTATTATCTTATTTTAAGTTTTATTTTTTGG 3 8 1 TATTTTTTTT 0.882028 -254 TGGACTTTATTTTTAATTTTAAAATTTTAATTGGAGG 3 42 1 TTTATTTTTT 0.804836 -220 ATTTATACTAAATAAGATATTAGGTTTTAATTAAATT 3 213 1 AATATATTTT 0.528899 -49 CTTTTTTCTATTTTTTATATAATTTTTATGAATAT 4 9 1 TATTTATTTT 0.783208 -126 AAATTTTTAATATCTAATATATATTTTTCGGTAGTTT 4 74 0 TATTTATTTT 0.783208 -61 TTATACTTCAAATATAATTTAAAATTTAAAAAAATTT 6 50 1 AATTTTTTTT 0.772542 -31 TTGTTGATATATTTTTATTTATGGATTTATCGAATAT 8 71 1 ATTTTTTATT 0.538765 -101 CTATAACAAAATATTTATTTGATGATTAACTAATTTA 9 32 1 ATATTTTATT 0.538765 -99 CTTATTTAATTAAAAACTTTGATAATTGGTTAAATGG 10 13 0 TAAATTTATT 0.685656 -288 AAGAAAATATTATTTACTATGGAATTTAGAAGCCCAA 10 66 0 TATTTATTTT 0.783208 -235 TAGTAAATAATATTTTCTTTGATAATTGGTTATAAGT 10 84 1 TATTTTTATT 0.761264 -217 GGAAGATATTTAAATCTTTTTTATATTTCATCAAATT 10 217 1 TAATTTTATT 0.761264 -84 TTGTTGTATCTATTTTTTATCATAATTAAATACAATT 10 261 1 TATTTATATT 0.606424 -40 TTCTTATGGTATTATGATATTAAATTTTTAATGGTAA 11 31 1 ATTTTATTTT 0.569598 -139 GTGTATTTCTATAATGTTTTCTTAATTTTTAATTTAC 11 64 0 ATATTTTATT 0.538765 -106 ATTAATTAAAATTATTTTAATTAATGCCATCA 12 6 1 TTAATATATT 0.459421 -83 AAAATGGATTTAATTAGTATAAATATTTTTTCATTGT 12 48 0 TAATTATATT 0.606424 -41 TATTTTCTTCTTTTTTATTTTTATTTTGAAACTATAT 14 20 1 TTTTTTTTTT 0.857726 -115 TTTGTTTTAAATTGTTATTTAAAGTTTCTATATTTGT 14 73 0 ATTTTTTTTT 0.732536 -62 TTATTTGTTCAATCTTATTTTTGTTTTAAATTGTTAT 14 92 0 AATTTTTTTT 0.772551 -43 TTATAATGAATTAGAAATTTTTTCTTTAAA 15 4 0 TTAATTTTTT 0.804836 -297 ATATATCAAAATTAATTTTTATCCATTTAAAAAAGTT 15 80 1 ATTATTTATT 0.444144 -221 CAAACATTTGTAACTTTTTTTATTTTTTAATAGAGCG 15 118 1 TAATTTTTTT 0.882028 -183 TATTGGATTTTATGTTATTTTAATTTTAAAACTTTGC 16 88 1 TATTTTTTTT 0.882028 -132 TTATCGCAGTTTATATATATCCAGTTTTTCATTTGAA 16 169 0 TTAATATTTT 0.665851 -51 AAGTTATATTTTTGAGATTTATAATTTATTTTTGTAG 17 58 0 TTTATTTTTT 0.804836 -74 GGAATTTTGATTTTTATTTTTTATTTTTCTAAGTTAT 17 88 0 TTTTTTTTTT 0.857726 -44 ATTCTAAATTTTTTAATTTTTTATTATGTTG 18 5 1 TAATTTTTTT 0.882028 -215 AATTTAAGTTTTTGTATTTTACGTTTTAATATGCTTA 18 49 0 TTTTTTTTTT 0.857726 -171 AATTCACTTAATTTTTATTTAACTTTTTTTTAGTTAT 18 120 0 ATTTTTTTTT 0.732536 -100 TAGGTTAATATATAAGGTTTTCTATTTGATTCTGTTA 18 158 0 TATATTTTTT 0.836449 -62 AATGTGTATTTATATTTTTTGATATTTTTTGAATTGA 21 39 0 TATTTTTTTT 0.882028 -138 AACACATTAGTAAGTTTTATATAGTTTTATTAAATAG 21 106 1 TAATTATTTT 0.783208 -71 TTATAGTCATTTATAGTTATTAGATTTTCTAATATAT 23 123 1 TTAATATTTT 0.665851 -178 TATTAAAAAATAATAACTATTATTTTTATTTAAGTTA 23 159 0 TAAATATTTT 0.71192 -142 ACCTGATATATAATATCTTTAGATTTTGTTATTAAAA 23 188 0 TAAATTTTTT 0.836449 -113 AGCTTGGATAATACTAATATCCCTATTAAGTAATAAA 23 262 1 ATATTATATT 0.360789 -39 TCTAAATCATTATAATATTTATTTTTTATGGTTGTAT 25 26 1 TATATTTTTT 0.836449 -213 TGGTTGTATTTTTATATTATTAGCTTTACCAATATAA 25 54 1 TTTTTATTTT 0.744447 -185 AATTATCGTATTATAATTTTCAAATTTTTAAATAATA 29 16 0 TTAATTTTTT 0.804836 -133 AAATATAGAATATAAAGTTTTTCATTTAGTTTCCTTA 29 81 0 TATATTTTTT 0.836449 -68 TTTAAATAACTTAAATCTTTCTGATTTATTTT 30 6 0 TTAATTTTTT 0.804836 -295 TCAAAGTGCCTTATAAATATATAAATTGTGAAAGTTC 30 219 1 TTAATATATT 0.459421 -82 AAAGGGGATATATAAATTTTACGGTTTAATAC 30 279 1 TATATTTTTT 0.836449 -22 TGAATTTTAGTTTCACATTTGCACTTTCCTCGAAATA 31 109 0 TTTATTTTTT 0.804836 -106 ATTAAAATTTTATTTCCATTTTTTAATGCATT 31 193 0 AATTTTTTTT 0.772542 -22 CTTGTTATTTATTATTTTATCTCCTTTTAAAATGGGT 33 181 0 ATTTTATTTT 0.569598 -58 GATTATTATATAAATACTTTATTATTTATTTTTCTTA 34 36 0 TAATTTTTTT 0.882028 -41 AATTTAATAGAAATTTTTATCAATTTTTAAAACTATT 35 179 1 AAATTATTTT 0.621354 -54 ATCACCCTTCAATAAAGTATTTTTATTTGTGAAAGTT 36 15 0 AATATATATT 0.32378 -100 AAGTTCTATTTAAATTTTTTAATTTTTAAAG 36 94 1 TAATTTTTTT 0.882028 -21 GTTTTTATTTTTAATCTTTTAATCTTTGTTTATTTCC 37 258 0 TTATTTTTTT 0.857726 -43 ATATTGCCAATAAATTATTTATTCATTACGAGAGTTC 38 14 0 TAATTTTATT 0.761264 -165 TTAGTATCTAATAGAACTTTTGTGTTTGCATATGACA 38 95 0 ATAATTTTTT 0.651989 -84 CTACTCTTCAATTGTTCTTTAAAAATTATAAAAGTAG 38 145 0 ATTTTTTATT 0.538765 -34 ATTAAACTTATAATATGTTTAGAATTTAAGATAATGA 39 11 1 TAAATTTTTT 0.836449 -265 ATAAACTTCCTAATTATTATTTATATTATTTAAATGA 39 71 1 TAATTATATT 0.606424 -205 TTATATTATTTAAATGATTTGGCATTTAAACGTTTTT 39 91 1 TAATTTTTTT 0.882028 -185 TAATTTATCTAAAAAAATATTTAATTTCAAGAAAAAA 39 123 0 AAAATATTTT 0.528867 -153 TTTACTCCTATAAATATTTTTCGATTTGCGGTAAATA 39 178 1 TAATTTTTTT 0.882028 -98 TTATGGTAGTAATTAAGTTTTCTATTTACCGCAAATC 39 200 0 AATATTTTTT 0.699099 -76 CAAATATCCATTATTAATATTAATTTTAACAACTTTG 40 22 1 TTATTATTTT 0.744447 -279 TATTTTAAAATTTCTTTTATTATGATTATCCTCCAAA 40 69 1 TTTTTATATT 0.554053 -232 AGTCAGTTTTATAATCATATTTCCTTTTATGGATATT 40 114 1 ATATTATTTT 0.569598 -187 ATACTGGGAAATAAATTTTTAATGATTAATGCTAAAT 40 233 0 ATAATTTATT 0.444144 -68 ATTATCACATTTAGTTATTTGATTACTCT 41 3 1 TATATTTATT 0.685656 -197 TTGTATTGTTTTTATAGTTTATGATTTAGGTTGATTT 41 44 0 TTTTTTTTTT 0.857726 -156 ATATCTTATATAACTTGTATTTGTATTGTTTTTATAG 41 64 0 TAATTATATT 0.606424 -136 TAAACTTAGCAAAAAGTTTTAGGTTTTAG 43 3 0 AAAATTTTTT 0.699105 -92 TATAAGTTATTAACATATTTAATAATTATTACTGCAA 43 38 1 TAAATTTATT 0.685656 -57 *** * *** *** Masking position 8 Map Score: 74.3711 Number of sites scoring better than the average of aligned sites = 3021 Number in coding regions = 2061 Number in noncoding regions = 960 Number of orfs with sites within 600 bp upstream = 526 Fraction of orfs with sites within 600 bp upstream = 0.0844844 Motif number 3 GAGATTATAGAAGTTAGAAAAATGTTATAAGCCT 1 112 1 AATTAAAATG 0.750098 -189 TGCACTTTGGAACTTTGACATCTTTGGATGTCTA 1 215 0 AATTTACATT 0.781418 -86 TAAAATGATAAAATTAAAAAAATCTTTAAAATCT 2 159 0 AATTAAAATC 0.813852 -142 CCTCCAATTAAAATTTTAAAATTAAAAATAAAGT 3 45 0 AATTTAAATA 0.86052 -217 TATAATTTAAAATTTAAAAAAATTTCTAA 6 62 1 AATTAAAATT 0.88575 -19 TGTAAATTTAAATTTACAAATATAGTTTCAAAAT 14 42 0 AATTAAAATA 0.927857 -93 TGTAAATTTAAATTTACAAATATAGAAACTTTAA 14 58 1 AATTAAAATA 0.927857 -77 ATTTAGTAGAAACTTATAAAAATATGTGGGGGTT 15 40 0 AATTAAAATA 0.926932 -261 AAAATAAAAAAAGTTACAAATGTTTGCAACTTTT 15 110 0 AATTAAAATT 0.886625 -191 TTTACAGGCAAAGTTTTAAAATTAAAATAACATA 16 98 0 AATTTAAATA 0.86052 -122 TAGTGGGAGAAAGTTATAAAGGTTAAATGGGCAA 17 21 0 AATTAAAATT 0.88575 -111 CTACAAAAATAAATTATAAATCTCAAAAATATAA 17 58 1 AATTAAAATC 0.813852 -74 TCAAAAATATAACTTAGAAAAATAAAAAATAAAA 17 80 1 AATTAAAATA 0.927847 -52 ACATAATAAAAAATTAAAAAATTTAGAAT 18 6 0 AATTAAAATT 0.88575 -214 AAATTTTAAATATCTCTCCCTATA 24 1 1 AATTTAAATC 0.791115 -59 AAATGAACTTTCACATGTGGTGTTTCTTT 28 6 1 AATTTACATG 0.578444 -86 TATTATTTAAAAATTTGAAAATTATAATACGATA 29 16 1 AATTTAAATA 0.91721 -133 TAAAAAAAGAAATTTTAACAATTATCGTATTATA 29 38 0 AATTTACATA 0.854622 -111 GTCGTTGTAGAACTTTCACAATTTATATATTTAT 30 231 0 AATTTACATT 0.780128 -70 AATTTTTATCAATTTTTAAAACTATTTAGAAGAA 35 190 1 AATTTAAATA 0.86052 -43 ATAGAACTTTCACAAATAAAAATACTTT 36 5 1 AATTTACATA 0.854622 -110 ATTTAAATAGAACTTTCACAGTTTATATGCTGAT 36 75 0 AATTTACATT 0.781418 -40 CTTTAAAAATTAAAAAATTTAAATAGAACT 36 95 0 AATTAAAATT 0.88575 -20 TATTTTTGTAAAGTTATAAATTTAATATTCTAAT 38 62 1 AATTAAAATA 0.927847 -117 TGTTCTTTAAAAATTATAAAAGTAGCAAAAAATA 38 136 0 AATTAAAATA 0.926932 -43 TCATTATCTTAAATTCTAAACATATTATAAGTTT 39 14 0 AATTCAAATA 0.619918 -262 TATTAATATTAATTTTAACAACTTTGAAAGACAC 40 33 1 AATTTACATT 0.780128 -268 TAATAAAAGAAATTTTAAAATATAGTGTCTTTCA 40 57 0 AATTTAAATA 0.917899 -244 ATATGTTAATAACTTATAAACTTAGCAAAAAGTT 43 22 0 AATTAAAATA 0.927847 -73 ** *** *** ** Masking position 8 Map Score: 42.9553 Number of sites scoring better than the average of aligned sites = 445 Number in coding regions = 290 Number in noncoding regions = 155 Number of orfs with sites within 600 bp upstream = 146 Fraction of orfs with sites within 600 bp upstream = 0.02345 Motif number 4 AAATCTTTAAAATCTTTAAAAAAATTTTGAATTCCT 2 138 0 AATAAAAAAT 0.644696 -163 AAATGATAGTAATAGGTATATAAAATTTTCTATTTT 2 231 0 AATATTAAAT 0.841452 -70 AATATATTACTACAGCTATAGAAAATGATAGTAATA 2 253 0 TATATGAAAT 0.327108 -48 AAAATACATCAATATTCATAAAAATTATATAAAAAA 4 21 0 AACATAAAAT 0.852571 -114 GTTTATCAAAAATAATCGTTAAAAATACATCAATAT 4 42 0 AACGTAAAAT 0.430191 -93 AATATAATTTAAAATTTAAAAAAATTTCTAA 6 60 1 AATAAAAAAT 0.645269 -21 ACACAAACATAACTGCTATAAAAAATATTTGGTGAC 9 102 1 AATATAAAAT 0.933588 -29 AAATAGATACAACAAGTATAAAAATTTGATGAAATA 10 240 0 AATATAAAAT 0.933593 -61 AATTGTATTTAATTATGATAAAAAATAGATACAACA 10 262 0 AAGATAAAAT 0.775006 -39 TTAATTTTTAATTTACCATTAAAAATTTAATATCAT 11 44 0 ATCATAAAAT 0.57584 -126 AAGCTAATTCTAATACTATCAAAATTCATACTAAAA 11 132 1 TATATAAAAT 0.872412 -38 TTATTTTAATTAATGCCATCAAAATTACAATGAAAA 12 22 1 TACATAAAAT 0.878719 -67 TTTTGTTTTAAATTGTTATTTAAAGTTTCTATATTT 14 75 0 AATATTAAAT 0.841327 -60 AAACCCCACCAAAATTTTATTTGTTC 14 119 0 AACACAAAAT 0.615084 -16 GCAACTTTTTTAAATGGATAAAAATTAATTTTGATA 15 83 0 TAGATAAAAT 0.636664 -218 TCGCTCTATTAAAAAATAAAAAAAGTTACAAATGTT 15 120 0 AATAAAAAAT 0.645273 -181 TTGTATAACAAAGATATAATAAAATTTTTCATTCAG 15 172 1 AATAAAAAAT 0.645273 -129 GTCAATCAAATAACAATACAAAAACTTAGGTGATAA 15 272 1 TATACAAAAT 0.423127 -29 TCTATCTGAAATTTTTTATTAAAAATAACAGTTATA 16 21 0 ATTATAAAAT 0.487488 -199 AAAAATAAAAAATAAAAATCAAAATTCCTCACAGAG 17 97 1 AAAATAAAAT 0.696102 -35 AACTAAAAAAAAGTTAAATAAAAATTAAGTGAATTT 18 122 1 AAAATAAAAT 0.669719 -98 TAATAAAACTAAGTCTTATGTAAAATGAGGTGATAG 18 193 1 AATATTAAAT 0.841386 -27 GTTCATGAATTACACACATATAAATTTCCCCCAAAT 21 73 0 TACATTAAAT 0.732278 -104 AAAATATAGGGAGAGATATTTAAAATTT 24 3 0 GATATTAAAT 0.428336 -57 ATATATATAAAAACTTCATTAAAAATATAGGGAGAG 24 24 0 AACATAAAAT 0.937082 -36 AATATAAAAATACAACCATAAAAAATAAATATTATA 25 36 0 TACATAAAAT 0.878719 -203 AAAATACCTTAAAGAATATTAAAAATCATTAAAAGG 26 15 1 AATATAAAAT 0.933593 -33 AAACGCAAAAAACTTCTATTTAAAATGAGGAGATTA 28 65 1 AATATTAAAT 0.841358 -27 CAAAGTGCCTTATAAATATATAAATTGTGAAAGTTC 30 220 1 TATATTAAAT 0.720775 -81 GTTCTACAACGACACATATAAAAAGTAAAAGGGGAT 30 252 1 GATATAAAAT 0.664964 -49 TAACATAAATTAATTTAATAAAAATTTACTAAAGGG 31 16 0 TAAATAAAAT 0.526587 -199 CTTTTAGTAAAAGTTTCATCAAAACTCGTCCATTAA 35 13 1 AACATAAAAT 0.936867 -220 AATAGTTTTAAAAATTGATAAAAATTTCTATTAAAT 35 180 0 AAGATAAAAT 0.782056 -53 TAAATTCCAAAATCAGCATATAAACTGTGAAAGTTC 36 64 1 AACATTAAAT 0.849028 -51 TAAACTGTGAAAGTTCTATTTAAATTTTTTAATTTT 36 84 1 AATATTAAAT 0.840379 -31 GATAAATTAATACCCCCATCAAAAATCTTTACTCCT 39 151 1 TACATAAAAT 0.878719 -125 AGCGGTAGCTTATGGTTATTTAAATTTTAAATGATT 40 155 1 TATATTAAAT 0.720776 -146 TCTATTTAGCATTAATCATTAAAAATTTATTTCCCA 40 230 1 ATCATAAAAT 0.5759 -71 TATAACAGTATAATATCATACAAAATACAATAACGA 41 169 1 TACATCAAAT 0.339976 -31 ** *** **** * Masking position 12 Map Score: 28.6307 Number of sites scoring better than the average of aligned sites = 792 Number in coding regions = 489 Number in noncoding regions = 303 Number of orfs with sites within 600 bp upstream = 279 Fraction of orfs with sites within 600 bp upstream = 0.0448121 Motif number 5 AACACACGTTATAGTTAAAGATGAAGAGACAAAA 1 78 1 ATATTAAATA 0.838895 -223 AAAGTTTTAGATAAAATAATATTAATGGAAGAGA 3 108 1 ATAAATAATA 0.636771 -154 TTCTGCAATAATATTTAAACTTAAGCAAAATTTT 7 30 0 ATATTAAATA 0.838895 -66 AAATCTGATGCTACACAAACATAACTGCTATAAA 9 90 1 CTAACAAATA 0.718275 -41 ATCAAAATTCATACTAAAAGGTGAGTTAAAC 11 149 1 ATATAAAATA 0.838895 -21 AAATTTACAAATATAGAAACTTTAAATAACAATT 14 67 1 ATAAGAAATA 0.671701 -68 TAATATCGCTCTATTAAAAAATAAAAAAAGTTAC 15 127 0 CTATAAAATA 0.732478 -174 TAATAGAGCGATATTATAAATTAAATTTTGTATA 15 145 1 ATATATAATA 0.584986 -156 CGACAAACTACTATATAAATCTTACGATATGAAA 15 226 0 CTAATAAATA 0.773 -75 AATCCATCCACTATATAAATGTTACGATTTTGTT 16 137 1 CTAATAAATA 0.773 -83 CAATATCAACATAATAAAAAATTAAAAAATTTAG 18 14 0 ATATAAAATA 0.838895 -206 ATTGTTAAGCATATTAAAACGTAAAATACAAAAA 18 44 1 ATATAAAATA 0.838895 -176 AAAACGTAAAATACAAAAACTTAAATTCTGACAT 18 59 1 ATAAAAAATA 0.866241 -161 ATTCCTATAACTAAAAAAAAGTTAAATAAAAATT 18 114 1 CTAAAAAATA 0.773 -106 AGAAAACCTTATATATTAACCTAATAAAACTAAG 18 172 1 ATAATTAATA 0.636768 -48 AAATCTTTATATAGTCAAATATGACAATTGATGT 20 96 1 ATATCAAATA 0.795861 -24 TTTAATAAAACTATATAAAACTTACTAATGTGTT 21 106 0 CTAATAAATA 0.773 -71 TTATTTTTTAATAACAAAATCTAAAGATATTATA 23 183 1 ATACAAAATA 0.601823 -118 TCACTTATATATATAAAAACTTCATTAAAAATAT 24 32 0 ATAAAAAATA 0.866241 -28 AAAAAAGTTTCTACTTAAACTTCATACATAGTAT 25 171 1 CTATTAAATA 0.732478 -68 GTAAAAGGGGATATATAAATTTTACGGTTTAATA 30 276 1 ATAATAAATA 0.866241 -25 TAATTGTAACATAAATTAATTTAATAAAAATTTA 31 24 0 ATAATTAATA 0.636607 -191 ATAATTGAAGATAGAGAAACGTTAAAAAAGAAGG 32 14 1 ATAAGAAATA 0.671701 -54 GGGTTTTCCAATAGTTAAATCTAAACCTTTTATT 33 151 0 ATATTAAATA 0.838893 -88 GACCTTGGAAATAAACAAAGATTAAAAGATTAAA 37 252 1 ATAACAAATA 0.829023 -49 TATAAATTTAATATTCTAATGTCATATGCAAACA 38 76 1 ATATCTAATA 0.513466 -103 AATTCTAAACATATTATAAGTTTAAT 39 3 0 ATATATAATA 0.584988 -273 GAGTAATCAAATAACTAAATGTGATAAT 41 5 0 ATACTAAATA 0.601823 -195 TGTTTAATCTATAAACAAATGTAACATAGAGGAA 41 121 1 ATAACAAATA 0.829023 -79 *** ***** * * Masking position 8 Map Score: 23.8311 Number of sites scoring better than the average of aligned sites = 531 Number in coding regions = 348 Number in noncoding regions = 183 Number of orfs with sites within 600 bp upstream = 191 Fraction of orfs with sites within 600 bp upstream = 0.0306778 Motif number 6 TCAAAATTTTTTTAAAGATTTTAAAGATTTTT 2 144 1 TTAAAATTTT 0.938756 -157 AATATTATTATTTTAACATTTTTTAGTAATTT 2 192 1 TTTAAATTTT 0.603669 -109 TTATTTTTAATTTTAAAATTTTAATTGGAGGG 3 48 1 TTTAAATTTT 0.603669 -214 TAATAATAGATTCAAACATTTTATCAAAAGTT 3 82 1 TCAAAATTTT 0.457359 -180 TATTATTTTATCTAAAACTTTTGATAAAATGT 3 97 0 TTAAACTTTT 0.92924 -165 TCTTATTTAGTATAAATCTTTTTCTAACAAGT 3 198 0 TTAAACTTTT 0.92924 -64 TATATTAGATATTAAAAATTTTTGTTCATATC 4 90 1 ATAAAATTTT 0.678456 -45 TTTGCTTAAGTTTAAATATTATTGCAGAATAT 7 35 1 TTAAAATTAT 0.507874 -61 TTCTATCCCTCTAAATCTTTTTAATTGTTAT 8 10 1 TTAAACTTTT 0.92924 -162 TTAATCATCAAATAAATATTTTGTTATAGATT 9 29 0 ATAAAATTTT 0.678449 -102 ATGGAAGATATTTAAATCTTTTTTATATTTCA 10 215 1 TTAAACTTTT 0.92924 -86 ATACAACAAGTATAAAAATTTGATGAAATATA 10 238 0 TTAAAATTTG 0.705452 -63 AGAATTAGTATTTAAAACTTTTGG 11 3 0 TTAAACTTTT 0.92924 -167 ATTTAATTAGTATAAATATTTTTTCATTGTAA 12 46 0 TTAAAATTTT 0.938756 -43 TTATTTTAATTTTAAAACTTTGCCTGTAAATT 16 102 1 TTAAACTTTG 0.672341 -118 ATTCTAAATTTTTTAATTTTTTAT 18 3 1 TTAAATTTTT 0.704216 -217 TATTTGACTATATAAAGATTTTGGTTTATAAC 20 85 0 TTAAAATTTT 0.938756 -35 AATAACAAAATCTAAAGATATTATATATCAGG 23 192 1 TTAAAATATT 0.603669 -109 GCTTTACCAATATAAAGCTTTTCTACCAAAAA 25 76 1 TTAAACTTTT 0.92924 -163 TTCCTCACCTTTTAATGATTTTTAATATTCTT 26 26 0 TTAATATTTT 0.362518 -22 TATCCTATTATTTAAAAATTTGAAAATTATAA 29 11 1 TTAAAATTTG 0.705452 -138 AAATATAGAATATAAAGTTTTTCATTTAGTTT 29 86 0 TTAAATTTTT 0.704216 -63 TAAAAGGGGATATATAAATTTTACGGTTTAAT 30 277 1 TTATAATTTT 0.362518 -24 ATATAGTAGGTATAAATAATTTGGTGATGATT 31 68 1 TTAAAAATTT 0.369183 -147 AATAGTTAAATCTAAACCTTTTATTGGCATAG 33 144 0 TTAAACTTTT 0.92924 -95 ATGATTATTATATAAATACTTTATTATTTATT 34 43 0 TTAAAACTTT 0.464498 -34 TTTATCAATTTTTAAAACTATTTAGAAGAAAC 35 194 1 TTAAACTATT 0.566152 -39 GAAAGTTCTATTTAAATTTTTTAATTTTTAAA 36 92 1 TTAAATTTTT 0.704216 -23 ATGTTTTTATTTTTAATCTTTTAATCTTTGTT 37 265 0 TTTAACTTTT 0.566152 -36 TCAATTGTTCTTTAAAAATTATAAAAGTAGCA 38 143 0 TTAAAATTAT 0.507874 -36 TATCTTAAATTCTAAACATATTATAAGTTTAA 39 12 0 TTAAAATATT 0.603669 -264 TGATTTGGCATTTAAACGTTTTTTCTTGAAAT 39 105 1 TTAAAGTTTT 0.582735 -171 TTTTCTTGAAATTAAATATTTTTTTAGATAAA 39 125 1 ATAAAATTTT 0.678456 -151 TATTTATAGGAGTAAAGATTTTTGATGGGGGT 39 162 0 ATAAAATTTT 0.678456 -114 TCTTTACTCCTATAAATATTTTTCGATTTGCG 39 176 1 TTAAAATTTT 0.938756 -100 CTAAAACCTAAAACTTTTTGCTAAGTTT 43 7 1 CTAAACTTTT 0.44884 -88 * **** ***** Masking position 6 Map Score: 40.9613 Number of sites scoring better than the average of aligned sites = 570 Number in coding regions = 378 Number in noncoding regions = 192 Number of orfs with sites within 600 bp upstream = 177 Fraction of orfs with sites within 600 bp upstream = 0.0284292 Motif number 7 TATTTATTCCTGCGAAAGTCCTGTTATGCCTCTC 1 169 0 TGCGAAGCGT 0.981656 -132 ATATATAAACTGCGAAAGTCCTGTTTCTTTGGAA 1 248 1 TGCGAAGCGT 0.981656 -53 GTATAGCCTCTGCGTAAGTTCCATTGTGGGAGTG 2 19 0 TGCGAAGCAT 0.990948 -282 TTCAAAAAAATGCGTAAGTTCTATTGAATAGGGC 2 93 1 TGCGAAGCAT 0.990948 -208 AAACACCACATGTGAAAGTTCATTT 28 2 0 TGTGAAGCTT 0.893306 -90 ATATATAAATTGTGAAAGTTCTACAACGACACAT 30 235 1 TGTGAAGCAC 0.90692 -66 GCCCTATGGTTGCGGAAGCTCTATACTCCCCGAC 35 138 1 TGCGAAGCAT 0.990948 -95 TATTTTTATTTGTGAAAGTTCTAT 36 1 0 TGTGAAGCAT 0.979045 -114 GCATATAAACTGTGAAAGTTCTATTTAAATTTTT 36 79 1 TGTGAAGCAT 0.979045 -36 CAACTGCTATTGCGAAAGGACCATTTAGCAT 37 8 0 TGCGAAGCAT 0.990948 -293 **** *** * ** Masking position 7 Map Score: 18.5003 Number of sites scoring better than the average of aligned sites = 51 Number in coding regions = 11 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 8 TATTAAAATGATAAAATTAAAAAAATCTTTAA 2 164 0 ATAAATAAAA 0.801163 -137 TGTTAAAATAATAATATTAAAATGATAAAATT 2 178 0 ATAAATAAAA 0.801163 -123 AATTTTTAGGATAAAATAGAAAATTTTATATA 2 219 1 ATAAATGAAA 0.701568 -82 CTGTAGTAATATATTAACAAAAAGGTTGGTGT 2 274 1 ATATAAAAAA 0.827505 -27 AGATTCAAACATTTTATCAAAAGTTTTAGATA 3 89 1 ATTTATAAAA 0.826804 -173 TCTGATTTAAATTTAATTAAAACCTAATATCT 3 227 0 ATTTATAAAA 0.826804 -35 ATTCATAAAAATTATATAAAAAATAGAAAAAA 4 12 0 ATTAATAAAA 0.757333 -123 AGGCTATATGATATGAACAAAAATTTTTAATA 4 99 0 ATATAAAAAA 0.827505 -36 ATATGACCTCATTATATAAAAAAGA 6 4 0 ATTAATAAAA 0.757333 -77 ATAGTGCCTTATTTAATTAAAAACTTTGATAA 10 25 0 ATTTATAAAA 0.826804 -276 CTATGGTTATATATAATTGAAATGGAAGATAT 10 194 1 ATATATGAAA 0.78324 -107 TGCCATCAAAATTACAATGAAAAAATATTTAT 12 35 1 ATTAAAGAAA 0.585156 -54 TAGTTTCAAAATAAAAATAAAAAAGAAGAAAA 14 22 0 ATAAAAAAAA 0.757345 -113 CCAGTTTTTCATTTGAACAAAATCGTAACATT 16 154 0 ATTTAAAAAA 0.787947 -66 CTAATATTATTAAAATAACATTCAA 21 4 1 ATATATAAAA 0.86097 -173 GGTAAAGCTAATAATATAAAAATACAACCATA 25 52 0 ATAAATAAAA 0.801163 -187 AGTTCAACATATATGAATAAAAGTTCTATTTT 25 104 0 ATATAAAAAA 0.827505 -135 GAATTTTAGCATATTAAAGAAACACCACATGT 28 23 0 ATATAAGAAA 0.73677 -69 TTTTAATAACATATTAAGGAAACTAAATGAAA 29 67 1 ATATAAGAAA 0.73677 -82 ACATAAATTAATTTAATAAAAATTTACTAAAG 31 18 0 ATTTATAAAA 0.826804 -197 GAATAGCATAATAATAAGAAAAATAAATAATA 34 22 1 ATAAAAAAAA 0.757345 -55 ACTTAATGTAATTTAATAGAAATTTTTATCAA 35 170 1 ATTTATGAAA 0.736756 -63 AAAATATTTAATTTCAAGAAAAAACGTTTAAA 39 115 0 ATTTAAAAAA 0.787947 -161 **** ** **** Masking position 2 Map Score: 24.5026 Number of sites scoring better than the average of aligned sites = 677 Number in coding regions = 466 Number in noncoding regions = 211 Number of orfs with sites within 600 bp upstream = 179 Fraction of orfs with sites within 600 bp upstream = 0.0287504 Motif number 9 GCGTAAGTTCCATTGTGGGAGTGATTCCTAT 2 9 0 CATGTGGGGG 0.98281 -292 GGAGTATCCCAATAGAGGGGGCTACGCCCCCTC 10 162 1 AATGAGGGGT 0.952713 -139 TATATATAACCATAGAGGGGGCGTAGCCCCCTC 10 176 0 CATGAGGGGG 0.992142 -125 TAATTAAATCCATTTTGGATGGGTGAATAG 12 69 1 CATTTGGAGG 0.630805 -20 AAACGAGGGGGCGATATTAAACC 13 1 1 AAAGAGGGGG 0.970057 -86 ACTCATCCTCCAATGAGGGAGGTTTAATATCGC 13 21 0 CAAGAGGGGT 0.85851 -66 GTAAATATATAATTGAGGAGGTGTAAGC 20 6 0 AATGAGGAGG 0.952713 -114 CTTCATTAAAAATATAGGGAGAGATATTTAAAA 24 14 0 AATTAGGGGG 0.952713 -46 TTATTTAAAAAATGGTGGGGGTGCTGGGATTTG 30 34 1 AATGTGGGGG 0.981403 -267 TAAATAACAAAATTGAGGGTGAGATT 39 260 1 AATGAGGGGG 0.991493 -16 *** ***** * * Masking position 2 Map Score: 7.97918 Number of sites scoring better than the average of aligned sites = 56 Number in coding regions = 41 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 10 ACAAAAGAGATTATAGAAGTTAGAAAAATGTT 1 106 1 TTATGAGTTA 0.836898 -195 ACTATCACATTTTTTGAATTATT 5 2 0 TTTTGATTAT 0.430499 -22 AGTTTAAATATTATTGCAGAATATATTCAAAA 7 43 1 TTATGAGAAT 0.653729 -53 ATTTATGGATTTATCGAATATTAAAAACCAAA 8 87 1 TTATGATATT 0.595912 -85 CAAATATTTTTTATAGCAGTTATGTTTGTGTA 9 101 0 TTATGAGTTA 0.836897 -30 ATACTAATTCTTATGGTATTATGATATTAAAT 11 24 1 TTATGATTAT 0.777601 -146 CGTAAGATTTATATAGTAGTTTGTCGAAGGTA 15 234 1 ATATGAGTTT 0.563182 -67 TCACCAAAAATTATTGGATTTTATGTTATTTT 16 77 1 TTATGATTTT 0.87214 -143 TCGATATTAGTTATCGCAGTTTATATATATCC 16 184 0 TTATGAGTTT 0.944556 -36 TTATAATTTATTTTTGTAGTTTTAGTGGGAGA 17 45 0 TTTTGAGTTT 0.786471 -87 AGAATTTAAGTTTTTGTATTTTACGTTTTAAT 18 56 0 TTTTGATTTT 0.595912 -164 CCCTATATTTTTAATGAAGTTTTTATATATAT 24 28 1 TTAAGAGTTT 0.563182 -32 ATTTTAACAATTATCGTATTATAATTTTCAAA 29 29 0 TTATGATTAT 0.777601 -120 GGAGATACATTTATCGCAGTTTTGGGCTATGC 33 24 1 TTATGAGTTT 0.944556 -215 CAGATTCTTCTTATAGCAGATTCTTCACTTGA 37 167 0 TTATGAGATT 0.786471 -134 CGAAAAATATTTATAGGAGTAAAGATTTTTGA 39 169 0 TTATGAGTAA 0.72453 -107 TATTATCAATTTATGGTAGTAATTAAGTTTTC 39 215 0 TTATGAGTAA 0.72453 -61 ATTAATCGTTATTGTATTTTGTATGATATT 41 180 0 TTATGATTTT 0.87214 -20 **** * ***** Masking position 2 Map Score: 12.2909 Number of sites scoring better than the average of aligned sites = 268 Number in coding regions = 225 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405 Motif number 11 GTTTTATTTTTTGGACTTTATTTTTAATTT 3 31 1 TTGGACTTTA 0.905009 -231 ATCTTATCATTTGGTTTTTAATATTCGATA 8 98 0 TTGGTTTTTA 0.642356 -74 ATTATTTACTATGGAATTTAGAAGCCCAAA 10 65 0 ATGGAATTTA 0.746681 -236 CAAATCTTGCTTGGACATTAATTGGGGCTG 10 130 0 TTGGACATTA 0.916924 -171 CCAAAAATTATTGGATTTTATGTTATTTTA 16 80 1 TTGGATTTTA 0.897894 -140 GTGGATGGATTTGGAATTTACAGGCAAAGT 16 118 0 TTGGAATTTA 0.821839 -102 AGCTAAAACTTTGGTTATTAATGTTAATTT 23 77 1 TTGGTTATTA 0.6754 -224 CGTCTCACATGGACATTATGTTAGTTGA 25 221 0 ATGGACATTA 0.875817 -18 TGTTATAATAATGGACATTAATTAGGACTG 35 59 0 ATGGACATTA 0.875817 -174 TATGCTGATTTTGGAATTTAGATGCCAAAG 36 54 0 TTGGAATTTA 0.821839 -61 AATATTAATAATGGATATTTGAACGCTCTC 40 13 0 ATGGATATTT 0.570733 -288 ATTTCCTTTTATGGATATTATAGAGCGGTA 40 132 1 ATGGATATTA 0.866838 -169 ATTTGTAATCTTGGATATTTAATATTGGGT 40 201 0 TTGGATATTT 0.6754 -100 ********** Masking position 8 Map Score: 6.11907 Number of sites scoring better than the average of aligned sites = 190 Number in coding regions = 146 Number in noncoding regions = 44 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 12 TAGATTAAAAATTGGTGAATATTT 9 4 0 ATGGTGAATA 0.80439 -127 TTCTTTGATAATTGGTTATAAGTTGGGGCTT 10 98 1 ATGGTTATAA 0.777812 -203 TCCATTTTGGATGGGTGAATAG 12 77 1 ATGGTGAATA 0.80439 -12 TACGATATGAAACGGTTATAACAATAGTTTC 15 207 0 AAGGTTATAA 0.554487 -94 ATACAAAAACTTAGGTGATAAAGT 15 287 1 TTGGTGATAA 0.849647 -14 TCCAATAATTTTTGGTGAAAAAATCCCTTAT 16 64 0 TTGGTGAAAA 0.72346 -156 ACAATATAGAATGGGTGATTAATT 19 16 1 ATGGTGATTA 0.898814 -14 TCACACATTTAGTGGTGAAAAA 21 165 1 AGGGTGAAAA 0.727612 -12 AAGTAATAAAAAAGGTGATAAC 23 289 1 AAGGTGATAA 0.907723 -12 GAATTACAATATTTGTGATAAACTTCCTAAT 39 54 1 ATTGTGATAA 0.777811 -222 TCAAATAACTAAATGTGATAAT 41 2 0 AATGTGATAA 0.554487 -198 TACATGTTCCATTGGTGATAAG 42 52 1 ATGGTGATAA 0.965118 -12 CATCACAGTTATGGGTGATAACC 43 82 1 ATGGTGATAA 0.965118 -13 ** ******** Masking position 8 Map Score: 6.82211 Number of sites scoring better than the average of aligned sites = 130 Number in coding regions = 77 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 71 Fraction of orfs with sites within 600 bp upstream = 0.0114038 Motif number 13 TAAGTTCCATTGTGGGAGTGATTCCTAT 2 9 0 TGTGGGAGTG 0.911233 -292 TAAATCAGACTGAGGGAGAGGT 3 250 1 TGAGGGAGAG 0.892467 -12 GTATCCCAATAGAGGGGGCTACGCCCCCTC 10 165 1 AGAGGGGGCT 0.763397 -136 ATATAACCATAGAGGGGGCGTAGCCCCCTC 10 176 0 AGAGGGGGCG 0.954428 -125 AAACGAGGGGGCGATATTAAACC 13 4 1 CGAGGGGGCG 0.946245 -83 TATAAAAATATGTGGGGGTTTATAATGAAT 15 30 0 TGTGGGGGTT 0.8486 -271 AATATATAATTGAGGAGGTGTAAGC 20 6 0 TGAGGAGGTG 0.925253 -114 TTTAAAAAATGGTGGGGGTGCTGGGATTTG 30 37 1 GGTGGGGGTG 0.90622 -264 TCTACATTGATGCGGGGGTGTGGTGTAGCC 30 140 0 TGCGGGGGTG 0.955239 -161 AATAAAAACATGAGGAAGTGAAATC 37 286 1 TGAGGAAGTG 0.777415 -15 ATAACAAAATTGAGGGTGAGATT 39 263 1 TGAGGGTGAG 0.766611 -13 ********** Masking position 5 Map Score: 3.80304 Number of sites scoring better than the average of aligned sites = 60 Number in coding regions = 43 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 14 ATTTTCTATTTTATCCTAAAAATTACTAAAAAA 2 210 0 TTTCTAAAAT 0.753175 -91 GTCCAAAAAATAAAACTTAAAATAAGATAATAA 3 14 0 TAACTAAAAT 0.454587 -248 GTTCATATCATATAGCCTAAAATGGTGACAAT 4 113 1 TAACCAAAAT 0.519289 -22 AATAATTCAAAAAATGTGATAGT 5 3 1 TATCAAAAAT 0.517998 -21 TATTGCTATTTTATACTTCAAATATAATTTAAA 6 40 1 TTTCTCAAAT 0.905821 -41 GATAAATTAGTTAATCATCAAATAAATATTTTG 9 38 0 TTACACAAAT 0.434659 -93 GATTAACTAATTTATCCTCAAATGCGGGAAAAT 9 55 1 TTACCCAAAT 0.756327 -76 TCTATTGGGATACTCCCCCAAATCTTGCTTGGA 10 145 0 TATCCCAAAT 0.931857 -156 ATCTTTTTTATATTTCATCAAATTTTTATACTT 10 230 1 TATCACAAAT 0.772072 -71 ACACATATAAATTTCCCCCAAATGTGTATTTAT 21 63 0 ATTCCCAAAT 0.75628 -114 AGTTAGGGCTATATTCTACAAATATTAATTAAT 23 15 0 ATTCTCAAAT 0.705409 -286 TATAAAGCTTTTCTACCAAAAATAGAACTTTTA 25 86 1 TTTCCAAAAT 0.798181 -153 TAATATGCTAAAATTCCTCAAATAAAAAACGCA 28 39 1 AATCCCAAAT 0.772981 -53 AGGAGTTAGTTAATACTCAAAATGAATAAATTG 33 83 1 TATCTAAAAT 0.769979 -156 ACAAATATTGTAATTCTTCAAATCATTATCTTA 39 37 0 TATCTCAAAT 0.913427 -239 ATTTAAACGTTTTTTCTTGAAATTAAATATTTT 39 114 1 TTTCTGAAAT 0.484236 -162 CAAAAATCTTTACTCCTATAAATATTTTTCGAT 39 170 1 TATCTTAAAT 0.550651 -106 TAAGTTTTCTATTTACCGCAAATCGAAAAATAT 39 191 0 ATTCCCAAAT 0.750122 -85 AAAACTTAATTACTACCATAAATTGATAATATA 39 216 1 TATCCTAAAT 0.613643 -60 TTTATTATGATTATCCTCCAAATTTATTGAAGT 40 84 1 TTTCTCAAAT 0.905821 -217 ATTTAATAATTATTACTGCAAATATTATCATCA 43 54 1 TATCTCAAAT 0.91341 -41 ** * ** ***** Masking position 13 Map Score: 9.70424 Number of sites scoring better than the average of aligned sites = 329 Number in coding regions = 287 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 15 TGATGATACTTTTAGGCTTTCTTTATGATT 2 65 1 TTTAGGCTTT 0.839023 -236 AGTTTTATTTTTTGGACTTTATTTTTAATT 3 30 1 TTTGGACTTT 0.721824 -232 TTGTCACCATTTTAGGCTATATGATATGAA 4 114 0 TTTAGGCTAT 0.808814 -21 TAGTTTATCTTAGGGGCTATTAATATCTTA 8 122 0 TAGGGGCTAT 0.657279 -50 ATAGAAGCCCTTTGGGCTTCTAAATTCCAT 10 55 1 TTTGGGCTTC 0.860807 -246 TGGTTATAAGTTGGGGCTTTCAGCCCCAAT 10 110 1 TTGGGGCTTT 0.937455 -191 GATTTGGGCTTTGCCCATTTAA 17 3 1 TTTGGGCTTT 0.963595 -129 CATAAATGAGTTAGGGCTATATTCTACAAA 23 26 0 TTAGGGCTAT 0.816856 -275 TTATCGCAGTTTTGGGCTATGCGTTAGAGA 33 34 1 TTTGGGCTAT 0.955524 -205 ********** Masking position 8 Map Score: 3.91099 Number of sites scoring better than the average of aligned sites = 108 Number in coding regions = 81 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548