AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00190_synecho_reg_300.orf -o00190_synecho_300.ace -a/home/amcguire/genomes/ORF_synecho.txt -z/home/amcguire/genomes/synecho.fna -g0.48 -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 = 0.48 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: slr0264 99 hypothetical 41.0 kD protein slr0264. [SP:Y264_SYNY3] Input sequences: #1 sll0223 141 ndhB; NADH-plastoquinone oxidoreductase chain 2. [EC:1.6.5.3] #2 sll0222 74 phoA; alkaline phosphatase. [EC:3.1.3.1] #3 sgl0002 42 bcp; hypothetical protein. #4 sml0004 164 ycf6; hypothetical protein. #5 slr0254 29 bcp; hypothetical protein. #6 sll0221 125 bcp; bacterioferritin comigratory protein. #7 sll0220 300 glmS; glucosamine--fructose-6-phosphate aminotransferase #8 sll1327 130 atpG, atpC; ATP synthase gamma chain. [EC:3.6.1.34] [SP:ATPG_SYNY3] #9 sll1326 60 atpA; ATP synthase alpha chain. [EC:3.6.1.34] [SP:ATPA_SYNY3] #10 sll1324 25 atpF; ATP synthase B chain (subunit I). [EC:3.6.1.34] #11 sll1323 116 atpG; ATP synthase subunit b. [EC:3.6.1.34] #12 ssl2615 191 atpE, atpH; ATP synthase C chain (lipid-binding protein). #13 sll1322 68 atpB, atpI; ATP synthase A chain (protein 6). [EC:3.6.1.34] #14 sll1321 198 atp1; ATP synthase protein I. [SP:ATPZ_SYNY3] #15 slr1413 51 hypothetical protein. #16 slr1414 25 sensory transduction histidine kinase. #17 slr1415 132 hypothetical protein. #18 slr1416 194 morR; MorR protein. #19 slr1417 85 hypothetical 12.9 kD protein slr1417. [SP:YE17_SYNY3] #20 sll1319 43 hypothetical protein. #21 sll1318 135 hypothetical protein. #22 sll1041 46 ABC transporter. #23 sll1040 229 hypothetical protein. #24 slr1093 164 folK; 7, 8-dihydro-6-hydroxymethylpterin-pyrophosphoki nase. #25 tRNA-Pro-1 79 tRNA-Pro. #26 sll1039 181 hypothetical protein. #27 slr1095 86 hypothetical protein. #28 slr1097 57 hypothetical protein. #29 slr1098 67 hypothetical protein. #30 slr1099 300 ubiX; 3-octaprenyl-4-hydroxybenzoate carboxy-lyase. [EC:4.1.1.-] #31 slr1291 85 ndhD2; NADH dehydrogenase subunit 4. [EC:1.6.5.3] #32 sll1200 217 hypothetical protein. #33 slr1293 56 hypothetical protein. #34 ssr2142 300 ycf19; hypothetical protein. #35 slr2007 111 ndhD; NADH dehydrogenase subunit 4. [EC:1.6.5.3] #36 slr2008 49 hypothetical protein. #37 slr2012 247 hypothetical protein. #38 slr2013 142 hypothetical protein. #39 sll1924 300 hypothetical protein. #40 slr1136 88 ctaC, coxB; cytochrome C oxidase polypeptide II precursor #41 slr1137 47 ctaD; cytochrome C oxidase polypeptide I (cytochrome aa3 subunit 1) #42 slr1138 151 ctaE; cytochrome C oxidase polypeptide III (cytochrome aa3 subunit #43 slr1139 72 trxA; thioredoxin. [SP:THI2_SYNY3] #44 slr1140 31 3-amino-5-hydroxybenzoic acid synthase. #45 sll1082 56 putative taurine transport ATP-binding protein. [SP:NRTD_SYNY3] #46 sll1081 102 putative taurine transport permease protein. #47 sll1080 53 putative taurine transport substrate-binding protein. #48 sll1079 60 hypB; hydrogenase expression/formation protein HypB. #49 sll1078 75 hypothetical protein. #50 sll1077 300 speB; agmatine ureohydrolase. [EC:3.5.3.11] #51 sll1733 116 ndhD; NADH dehydrogenase subunit 4. [EC:1.6.5.3] #52 sll1732 300 ndhF; NADH dehydrogenase subunit 5. [EC:1.6.5.3] #53 slr1233 47 frdA; succinate dehydrogenase flavoprotein subunit. [EC:1.3.99.1] #54 ssr2049 51 bchB; protochlorophillide reductase 57 kD subunit. #55 slr1234 45 hypothetical hit-like protein slr1234. [SP:YHIT_SYNY3] #56 slr1235 36 hypothetical protein. #57 slr1236 66 hypothetical protein. #58 ssl2250 221 glycoprotein 64. #59 sll1132 35 hypothetical protein. #60 sll1131 174 hypothetical protein. #61 slr1237 48 codA; cytosine deaminase. [EC:3.5.4.1] #62 ssl2245 300 hypothetical protein. #63 sll1625 293 sdhB; succinate dehydrogenase iron- sulphur protein subunit. #64 sll1623 163 phr; ABC transporter. #65 slr1736 58 phr; hypothetical protein. #66 slr1737 71 phr; hypothetical protein. #67 sll1621 300 phr; membrane protein. [SP:YG21_SYNY3] #68 slr1728 56 kdpA; potassium-transporting ATPase A chain. [EC:3.6.1.36] #69 slr1729 28 kdpB; potassium-transporting ATPase B chain. [EC:3.6.1.36] #70 ssr2912 189 hypothetical protein. #71 slr1730 231 kdpC; potassium-transporting ATPase C chain. [EC:3.6.1.36] #72 slr1731 76 kdpD; potassium-transporting ATPase D chain. [EC:2.7.3.-] #73 sll1586 269 hypothetical protein. #74 sll0254 105 hypothetical protein. #75 sll0253 65 hypothetical protein. #76 slr0260 78 cobA; cob(I)alamin adenosyltransferase. [EC:2.5.1.17] #77 ssl0467 95 hypothetical protein. #78 sll0252 221 hypothetical protein. #79 slr0261 42 ndhH; NADH-plastoquinone oxidoreductase 49 kD subunit. [EC:1.6.5.3] #80 slr0262 50 hypothetical protein. #81 slr0263 38 hypothetical protein. #82 slr0265 119 transposase. #83 ssl0461 66 hypothetical 9.5 kD protein ssl0461. [SP:Y461_SYNY3] #84 sll0249 234 hypothetical 28.9 kD protein ssl0249. [SP:Y249_SYNY3] #85 sll0248 300 isiB; flavodoxin. [SP:FLAV_SYNY3] #86 slr2082 56 ctaD; cytochrome c oxidase subunit I. [EC:1.9.3.1] #87 slr2083 98 ctaE; cytochrome c oxidase subunit III. [EC:1.9.3.1] #88 slr2084 55 hypothetical protein. #89 sll1988 48 hypothetical protein. #90 sll1987 203 katG; catalase hpi. [EC:1.11.1.6] #91 slr2087 300 ycf44; hypothetical protein. #92 slr1329 60 atpD, atpB; ATP synthase beta chain. [EC:3.6.1.34] [SP:ATPB_SYNY3] #93 slr1330 159 atpC, atpE; ATP synthase epsilon chain. [EC:3.6.1.34] #94 slr1332 206 fabF; beta ketoacyl-acyl carrier protein synthase. [EC:2.3.1.41] #95 sll1226 89 hoxH; hydrogenase large subunit. #96 ssl2420 51 hypothetical protein. #97 sll1224 45 hoxY; hydrogenase small subunit. #98 sll1223 26 hoxU; hydrogenase subunit. [EC:1.12.1.2] #99 sll1222 40 hypothetical protein. #100 sll1221 76 hoxF; hydrogenase subunit. #101 sll1220 300 potential NAD-reducing hydrogenase subunit. [EC:1.6.5.3] #102 sll0813 79 ctaC; cytochrome c oxidase subunit II. [EC:1.9.3.1] #103 slr0812 44 hypothetical protein. #104 sll0812 300 hypothetical protein. #105 sll1899 150 ctaB; cytochrome c oxidase folding protein. [EC:1.9.3.1] #106 sll1898 249 hypothetical protein. #107 slr1959 29 hypothetical protein. #108 sll1897 300 hypothetical protein. #109 slr1279 71 ndhC; NADH-plastoquinone oxidoreductase chain 3. [EC:1.6.5.3] #110 slr1281 300 ndhJ; NADH-plastoquinone oxidoreductase subunit J (orf 155). #111 slr1622 263 ppa, ipyR; inorganic pyrophosphatase (pyrophosphate phospho- #112 slr1623 41 hypothetical protein. #113 slr1624 60 hypothetical protein. #114 sll1538 116 bgl; beta-glucosidase. [EC:3.2.1.21] #115 slr1627 118 hypothetical 22.0 kD protein slr1627. [SP:YG27_SYNY3] #116 sll1536 135 moeB; molybdopterin biosynthesis MoeB protein. #117 slr1629 124 hypothetical protein. #118 sll1535 99 rfbP; galactosyl-1-phosphate transferase. #119 sll1533 300 pilT; twitching mobility protein. #120 slr0331 178 ndhD; NADH-plastoquinone oxidoreductase chain 4. [EC:1.6.5.3] #121 slr0333 64 hypothetical protein. #122 slr0334 283 hypothetical protein. #123 ssr0536 131 hypothetical protein. #124 sll0295 290 hypothetical protein. #125 slr0335 273 apcE; phycobilisome LCM core-membrane linker polypeptide. #126 slr0337 26 hypothetical protein. #127 sll0294 35 hypothetical protein. #128 sll0293 228 hypothetical protein. #129 slr0338 73 hypothetical protein. #130 slr0168 191 hypothetical protein. #131 slr0169 227 hypothetical protein. #132 slr0171 59 ycf37; ycf37 gene product. #133 sll0176 189 hypothetical protein. #134 ssl0312 49 hypothetical protein. #135 sll0175 44 ORF1. #136 sll0174 41 hypothetical protein. #137 sll0173 61 hypothetical protein. #138 sll0172 300 hypothetical protein. #139 slr0844 151 ndhF; NADH-plastoquinone oxidoreductase chain 5. [EC:1.6.5.3] #140 ssl1533 210 hypothetical protein. #141 slr0845 28 hypothetical protein. #142 sll0823 166 sdhB; succinate dehydrogenase iron-sulfur protein. [EC:1.3.99.1] #143 sll0822 163 hypothetical protein. #144 slr0846 61 hypothetical protein. #145 sll0821 300 hypothetical protein. #146 sll0290 300 ppk; polyphosphate kinase. [EC:2.7.4.1] #147 sll0672 253 pacL; cation-transporting ATPase PacL. [EC:3.6.1.38] #148 sll0671 107 magnesium and cobalt transport protein. #149 sll0670 204 hypothetical protein. #150 sll0669 37 hypothetical protein. #151 slr0707 182 polA; DNA polymerase I. [EC:2.7.7.7] #152 slr0708 149 hypothetical protein. #153 sll0667 37 transposase. #154 sll0666 63 transposase. #155 sll0665 300 transposase. #156 sll0027 164 ndhD; NADH dehydrogenase subunit 4. [EC:1.6.5.3] #157 sll0026 244 ndhF; NADH dehydrogenase subunit 5. [EC:1.6.5.3] #158 sll0518 170 hypothetical protein. #159 sll0517 300 rbpA; RNA binding protein. #160 sll0522 139 ndhE; NADH-plastoquinone oxidoreductase chain 4l. [EC:1.6.5.3] #161 sll0521 94 ndhG; NADH-plastoquinone oxidoreductase chain 6. [EC:1.6.5.3] #162 sll0520 110 ndhI; NADH-plastoquinone oxidoreductase subunit I (frxb protein). #163 sll0519 254 ndhA; NADH-plastoquinone oxidoreductase chain 1. [EC:1.6.5.3] #164 slr1418 102 pyrD; dihydroorotate dehydrogenase. #165 slr1420 250 hypothetical protein. #166 slr1421 300 hypothetical protein. Motif number 1 TAAAATTTTGCCCGATCGCCGTAAGATAAA 4 102 1 CCCGATCGCC 0.973467 -63 CTAATGATGGCGATCGCCGTCTTGGCTA 7 9 1 GGCGATCGCC 0.499997 -292 AATTTTCTTTGGCGATCGCCAGGGGGATTG 14 26 1 GGCGATCGCC 0.499997 -173 GTTTTTACCGTTCGATCGCCAAAACTAGAA 19 59 1 TTCGATCGCC 0.881303 -27 CGATTTTCACCCCAATCGCCAACCCAGAGA 23 121 1 CCCAATCGCC 0.850305 -109 TCCACAAAGACCCGATCGCCAGGGGGGAA 26 163 1 CCCGATCGCC 0.973467 -19 CCCCCGTCCTGGCGATCGCCCATTGTCTTC 27 65 1 GGCGATCGCC 0.499997 -22 TGAAATAATCGGCGATCGCCTTTGGGAGAG 49 50 1 GGCGATCGCC 0.499997 -26 ACTTTAGTTTGGCGATCGCCGATAAAAAGT 50 43 1 GGCGATCGCC 0.499997 -258 GGATTTTAGGGGCGATCGCCTTGGGAATTT 63 119 1 GGCGATCGCC 0.499997 -175 ATGGCCCGTAGGCGATCGCCGTGGTGAACC 71 176 1 GGCGATCGCC 0.499997 -56 GCCAGATGCAGGCGATCGCCAACGATGGCA 85 164 1 GGCGATCGCC 0.499997 -137 ATCATTGTGCCCCGATCGCCGGCCCCATGG 90 41 1 CCCGATCGCC 0.973467 -163 GCCATAGGGAGCCCATCGCCGATTGAGTTA 91 40 0 GCCCATCGCC 0.941708 -261 AAATTTCGGTTCCCATCGCCGGGAT 107 15 1 TCCCATCGCC 0.793342 -15 TCCCGGTCGCCCACGGCAAAA 110 290 0 CCCGGTCGCC 0.926228 -11 TGATCATATTGGCGATCGCCATTTTCCTGG 115 43 1 GGCGATCGCC 0.499997 -76 TTAACAAAATTGCGATCGCCTTAAAACGAG 124 30 1 TGCGATCGCC 0.566078 -261 GGTCATGCTTATCGATCGCCGGTTTGGTTT 125 31 0 ATCGATCGCC 0.844683 -243 TTCTGGGGTTAGCGATCGCCAAAGATGTTG 131 80 0 AGCGATCGCC 0.563477 -148 CTCTATCCCTCTCGATCGCCGAAGAAACGT 131 170 0 CTCGATCGCC 0.953114 -58 CTTATGCCAAGGTGATCGCCT 136 31 1 GGTGATCGCC 0.556439 -11 CCCGATCGCCTAACAATTAA 144 1 1 CCCGATCGCC 0.973467 -61 GTAAGATCAACCTGATCGCCTATCCCTATG 146 262 1 CCTGATCGCC 0.905628 -39 GACCGACAACGGCGATCGCCAAAGTCAGAA 157 139 1 GGCGATCGCC 0.499997 -106 TGTTGTTCTTGGCGATCGCCTCTTCTTATT 165 14 1 GGCGATCGCC 0.499997 -237 ********** Masking position 6 Map Score: 80.3448 Number of sites scoring better than the average of aligned sites = 6455 Number in coding regions = 5873 Number in noncoding regions = 582 Number of orfs with sites within 600 bp upstream = 371 Fraction of orfs with sites within 600 bp upstream = 0.0595888 Motif number 2 GGTTTCTAGCTTTGGGGGAGAAAAAAGG 4 9 1 GCTTTGGGGG 0.824774 -156 CAATGATGGTTCCAGGGGAGATTAGCTCGG 4 48 1 TCCAGGGGAG 0.761082 -117 CGTCAGCATGGCATTGGGGGATTTAGGAAT 7 118 0 GCATTGGGGG 0.842885 -183 CCAGCTAATTGCCATGGGGGGCGATAGATT 7 209 1 GCCATGGGGG 0.978421 -92 ATCTTCACTATCATTGGGGAATCTCC 7 285 1 TCATTGGGGA 0.426781 -16 GATATCTGCGGCCATGGTGGTTTGACCCCT 12 24 1 GCCATGGTGG 0.809946 -168 TTTGGCGATCGCCAGGGGGATTGCCGTCCT 14 33 1 GCCAGGGGGA 0.974713 -166 TGTGGCCATGGCCTTGGGAGAACCTAAC 15 34 1 GCCTTGGGAG 0.835429 -18 AACGGGGGAGGCTGTGGGCGGAAATTCCCT 18 90 1 GCTGTGGGCG 0.647804 -105 ATTATAAGCTTCCAGGGGAGGCTTTTCCCA 24 38 1 TCCAGGGGAG 0.761082 -127 GGAGGCTTTTCCCATGGTGACCATTGGCTT 24 54 1 CCCATGGTGA 0.488642 -111 GCTCGGCCAAGCTTGGGGAGCAATACTGCA 26 125 0 GCTTGGGGAG 0.626005 -57 AGACCCGATCGCCAGGGGGGAA 26 170 1 GCCAGGGGGG 0.982102 -12 CGGCCCCTAGCCTAGGGGGGGAAATTTC 28 9 0 CCTAGGGGGG 0.826755 -49 AGTGTCGGCGGCTGTGGGCAAAGTTTGGCA 30 103 0 GCTGTGGGCA 0.563718 -198 CAAATCCTATTCAAGGGGGATTTAAGTTGC 32 189 0 TCAAGGGGGA 0.702813 -29 AGTGGCAATGGTGATATCGATAGC 33 5 1 GCAATGGTGA 0.481781 -52 CCTCTGTTACGCCAGGGGGATTTTATTTGT 34 196 0 GCCAGGGGGA 0.974713 -105 CCCAAGGGGGGCTAGGGGGGATTAAACGGC 37 84 0 GCTAGGGGGG 0.937307 -164 CCCCTAGCCCCCCTTGGGAAGGGAGGAAAT 37 96 1 CCCTTGGGAA 0.532332 -152 CAAACACTTTCCAGTGGGGAAATTTGCGGT 37 199 1 CCAGTGGGGA 0.7436 -49 GACTTTTCGACCCATGGGGAATTAACCAAA 38 12 0 CCCATGGGGA 0.91045 -131 TTTGAGAGGGTCTAGGGGAGAATTTAGTTA 39 263 1 TCTAGGGGAG 0.464652 -38 TGGGTTAATGCCCAGGGGGCAGCGAATGAT 63 56 0 CCCAGGGGGC 0.576392 -238 AGGGGCGATCGCCTTGGGAATTTTAGTGGC 63 126 1 GCCTTGGGAA 0.780993 -168 AAATGGTCCGGCCTTGGTGGGTTTAGGTAC 64 46 0 GCCTTGGTGG 0.618856 -118 TTTTGGGGGGGCAGGGGGCGTTTGAAAGAT 70 101 1 GCAGGGGGCG 0.717274 -89 GTAGGCGATCGCCGTGGTGAACCACAAGAA 71 183 1 GCCGTGGTGA 0.733326 -49 AAAAATAAGAGCTAGGGGGGCAGTAAATAG 74 70 0 GCTAGGGGGG 0.937307 -36 TATGGCATGGCCATTGGGGAGGCAAGGCGG 78 77 1 CCATTGGGGA 0.546058 -145 CCCCCAAAAGGCCGGCGGGGATCACCAAAG 78 117 0 GCCGGCGGGG 0.647128 -105 TAGGAGTCCGGCTGGGGGGAGATTCTTAGA 84 213 0 GCTGGGGGGA 0.906078 -22 AATTTTTTAGGCAATGGGAGAGTGAAAATT 85 43 0 GCAATGGGAG 0.805361 -258 AAATTCCATTGCCATGGGGCCGGCGATCGG 90 52 0 GCCATGGGGC 0.778884 -152 AGACTCTAATCCTGTGGGAAATTCTACCCA 90 106 1 CCTGTGGGAA 0.427825 -98 GTCCCAGTGGCCCATGGGGACTAGGA 93 7 0 CCCATGGGGA 0.91045 -153 AGCACTGTTAGCATTGGGGAGGCTTTTGCC 93 70 0 GCATTGGGGA 0.790297 -90 GAAAGGGTAAGCAGGGGGGAGATCAAAAAT 105 119 0 GCAGGGGGGA 0.916635 -32 CAACACTCTCCCCAGGGGAAAGAAAACTTG 106 216 0 CCCAGGGGAA 0.783339 -34 TGGGAACTGGGCCGGGGGAATAAAATTATC 108 252 0 GCCGGGGGAA 0.912315 -49 GTTTAATTTTGCCGTGGGCGACCGGGA 110 284 1 GCCGTGGGCG 0.87098 -17 GGGCTTTAGGGCCAGGGGAAGACCCTCGAT 111 158 1 GCCAGGGGAA 0.918877 -106 AATTAAGAAGTCCGGGGGCAAACAAAATTT 111 207 1 TCCGGGGGCA 0.531349 -57 TATTGCTTGAGCCTGGGTGAATCAGCTT 113 9 0 GCCTGGGTGA 0.579888 -52 CCGGTCGAATTCAATGGGGACATTGGGGAC 119 181 0 TCAATGGGGA 0.661496 -120 ATTTTGCTTAGCCTTGGGAATGCCTAAGGG 124 204 0 GCCTTGGGAA 0.780993 -87 AGAAAATAAGGCAATGGGGAAAACCAAACC 125 11 1 GCAATGGGGA 0.908186 -263 CAAAAACCGACCCAGGGGAGATTATCGCCG 128 106 1 CCCAGGGGAG 0.837313 -123 ACAATTAATCGCAGTGGGGAAAACTATTAC 130 74 1 GCAGTGGGGA 0.900852 -118 AAAGATGTTGGCCGTCGGGGCCGTTGCCTA 131 60 0 GCCGTCGGGG 0.602449 -168 AACCCATGGTGGGAGCGTGTAC 138 3 1 CCCATGGTGG 0.576324 -298 TCCAAGAGGGGCTAGGGGGGATTAAACAGC 138 110 0 GCTAGGGGGG 0.937307 -191 GCTTAGCTTTGCAATGGGGGAAGTGGCAAC 140 103 1 GCAATGGGGG 0.933691 -108 TGCTGTTTCCGCCATGGTAACCCAGCTAAC 140 175 0 GCCATGGTAA 0.468005 -36 ATTCCATAGATCAATGGGGAATTGTAGGAG 142 57 0 TCAATGGGGA 0.661496 -110 TTACGGAAGGGCCGGGGGCAATAATTTTTA 142 104 0 GCCGGGGGCA 0.851608 -63 GTTTATATTTTCCATGGGAAATATATGCGA 146 128 1 TCCATGGGAA 0.649017 -173 TGGAAAAACCGCAATGGGGGTCAAAATGGG 157 32 1 GCAATGGGGG 0.933691 -213 CCGTTGTCGGTCTGGGGGAGGTTTTATTAC 157 121 0 TCTGGGGGAG 0.443595 -124 TTCTGGTTACTCTGGGGGAGGAACTTTCGT 159 94 1 TCTGGGGGAG 0.443595 -207 AATATCCCCAGCCGAGGGGAGAACGTGTTA 159 150 1 GCCGAGGGGA 0.520491 -151 CGATCATTACTCTATGGGGGCATAGTAACA 159 175 0 TCTATGGGGG 0.709362 -126 ********** Masking position 7 Map Score: 57.5453 Number of sites scoring better than the average of aligned sites = 4055 Number in coding regions = 3641 Number in noncoding regions = 414 Number of orfs with sites within 600 bp upstream = 382 Fraction of orfs with sites within 600 bp upstream = 0.0613556 Motif number 3 AGCTTAGCGCAGGTTTGCCGCAAAGGAGAA 1 94 0 AGGTTTGCCG 0.832763 -48 GACGCGGGGGAATTTTGCCCTCTTGTGCCA 2 37 1 AATTTTGCCC 0.889638 -38 CAAGCTTTAAAATTTTGCCCGATCGCCGTA 4 95 1 AATTTTGCCC 0.889638 -70 AATAAAAACAAGCTTTGCCAGCCTTTATCT 4 125 0 AGCTTTGCCA 0.62845 -40 AACCGATGCTTACCTTGGCCAATGCTCACC 12 71 1 TACCTTGGCC 0.437201 -121 GGCTATGGACTGGCTTGGCCCCAGGACAGT 13 37 1 TGGCTTGGCC 0.506204 -32 TTAGCCATGGAACTTTGCCATTGTCTTTG 18 176 1 AACTTTGCCA 0.623933 -19 TTTTCATTCTAGTTTTGGCGATCGAACGGT 19 65 0 AGTTTTGGCG 0.703247 -21 CACCCCATCAAAGTTTGGCATTTTCACTGT 26 51 1 AAGTTTGGCA 0.574204 -131 ATTGCTCCCCAAGCTTGGCCGAGCCGGCAG 26 131 1 AAGCTTGGCC 0.791171 -51 GGCAATGCCAAACTTTGCCCACAGCCGCCG 30 98 1 AACTTTGCCC 0.891506 -203 CAAATCCCCCAACCTTGCCGGAGCTTTAGT 30 217 0 AACCTTGCCG 0.681574 -84 TCAAAAGTCGAGTTTTGGCCGTTTAATCCC 37 67 1 AGTTTTGGCC 0.837677 -181 GCAACTGCTGAGGTTTGGCCTCGGCAACTT 38 55 0 AGGTTTGGCC 0.871945 -88 ATCACAAGGTAGGTTTGCCCTAACGCCCAA 42 122 1 AGGTTTGCCC 0.915566 -30 TTTTAAACTTTAGTTTGGCGATCGCCGATA 50 37 1 TAGTTTGGCG 0.448746 -264 GATGAAGGTAAATCTTGCCAATGGAAAATC 51 71 0 AATCTTGCCA 0.480042 -46 AAAGATGATTTAGTTTGCCAGTTTGCCGTT 60 14 1 TAGTTTGCCA 0.36305 -161 AAATATGATTAGCTTTGGCCGGACTGACTG 61 27 1 AGCTTTGGCC 0.840267 -22 ATGGTTCCTGAGGTTTGCCCAGAGGGACTT 67 51 0 AGGTTTGCCC 0.915566 -250 TGAAAGGTTTTATTTTGCCCCCTAAATTTC 70 32 1 TATTTTGCCC 0.681477 -158 GAATTGGATCTGGTTTGCCCAGGATTTTGC 73 196 1 TGGTTTGCCC 0.742135 -74 TGCAAAGTCTTATTTTGCCCCCTAAATCCC 82 70 0 TATTTTGCCC 0.681477 -50 GGAGATTCTATATCTTGCCCAAAAAGTTAT 87 27 1 TATCTTGCCC 0.548248 -72 CTACCGGAGGAACTTTGGCGGGTAGCCTGC 91 266 1 AACTTTGGCG 0.703221 -35 GTGCCTCCACAATCTTGCCCACAATAACGA 101 162 0 AATCTTGCCC 0.820549 -139 TTTGATGTTTAATTTTGCCGTGGGCGACCG 110 278 1 AATTTTGCCG 0.787314 -23 AATGTGGTCTAATTTTGGCCACATCAAGGA 117 57 0 AATTTTGGCC 0.835035 -68 AAAAAAGTAAAGTTTTGCCAACGGCTTTCT 123 68 1 AGTTTTGCCA 0.623961 -64 CCTTTAAATAAGCCTTGGCCGGGCGGCTTT 124 64 0 AGCCTTGGCC 0.748992 -227 TACCCTAGCTAGGTTTGGCGTTACAAGATT 134 18 0 AGGTTTGGCG 0.757686 -32 TGATCTATGGAATTTTGCCGGGACCAGGAA 142 74 1 AATTTTGCCG 0.787314 -93 CAAAATTTTAAGGTTTGCCCTTGCAGCCAT 145 152 1 AGGTTTGCCC 0.915566 -149 CCTCCCAATCAACTTTGGCAATCCACAAAG 157 62 1 AACTTTGGCA 0.510242 -183 CAGCTTCTTCAATCTTGCCGGTTAATTGGG 160 34 1 AATCTTGCCG 0.677397 -106 TTTTTGCTTAAGTTTTGCCCAATTAACCGG 160 51 0 AGTTTTGCCC 0.891518 -89 GTTGTGAACCAATTTTGCCCTTCCACTATC 161 53 1 AATTTTGCCC 0.889638 -42 CCCAGCTTCTAACTTTGGCCGACTTAAACC 162 59 1 AACTTTGGCC 0.83766 -52 TCAGCTCAGCAAGCTTGCCGATTATTGTAA 163 195 0 AAGCTTGCCG 0.734791 -60 ********** Masking position 5 Map Score: 36.962 Number of sites scoring better than the average of aligned sites = 948 Number in coding regions = 829 Number in noncoding regions = 119 Number of orfs with sites within 600 bp upstream = 125 Fraction of orfs with sites within 600 bp upstream = 0.0200771 Motif number 4 CATTACTGGGGCCCTTTGCCATGGCCCAAAA 1 26 1 GCCCTTGCCA 0.792167 -116 CTTTGCCATGGCCCAAAACCAGGAAAATACT 1 39 1 GCCCAAACCA 0.473182 -103 TTCCTAAATCCCCCAATGCCATGCTGACGTC 7 119 1 CCCCATGCCA 0.830882 -182 ATATAGTCCGCCCCTGTGCCAAGTTCCTCCC 7 160 1 CCCCTTGCCA 0.824897 -141 CCTCCCGAAAGCCCATTACCATACCCAGCTA 7 185 1 GCCCATACCA 0.459948 -116 CTTAGCCCTAGCCCTTTCCCCAACTCACCGA 8 23 0 GCCCTTCCCC 0.950322 -108 TTGATCGCGTCTCCTCCCCCCGCCAATCCGC 11 38 1 CTCCTCCCCC 0.715611 -79 CCCAGGAGTTGCCCTTTTCCCAGAGATGTTT 12 100 1 GCCCTTTCCC 0.857161 -92 GGCCAAGCCAGTCCATAGCCCAGACCTTTCT 13 26 0 GTCCAAGCCC 0.695439 -43 TTTGTTTTTTGCCTAGACCCCCAACAAGGAC 14 58 0 GCCTAACCCC 0.859811 -141 CCAGAGGTTGCCCTTAACCCCTAAACTAAAG 27 26 0 CCCTTACCCC 0.879061 -61 GGAAGTGTAAGTCCAAATCCCCCAACCTTGC 30 229 0 GTCCAATCCC 0.461719 -72 ATTCCCCCACTCCCCTTTATTTAAT 31 5 1 CCCCATCCCC 0.961025 -81 TTTCCCCACTGTCCTTTTCCC 32 1 0 GTCCTTTCCC 0.438167 -217 TGGTAATACTCCCCTTTACCCTGGGTTGTCA 34 105 1 CCCCTTACCC 0.808804 -196 GTTTAATCCCCCCTAGCCCCCCTTGGGAAGG 37 87 1 CCCTACCCCC 0.854782 -161 TCCTACAATCCCCCTCCCCCCCATCTATTCC 39 17 0 CCCCTCCCCC 0.950888 -284 CAACTGAATAGCCCAAACCCCTAAGTAATCA 42 32 0 GCCCAACCCC 0.954628 -120 GGTAGGTTTGCCCTAACGCCCAAGGTCTTTC 42 129 1 CCCTACGCCC 0.83095 -23 GCCCTAACCCACCGAGACTAA 48 1 1 GCCCTACCCA 0.82799 -60 GGGGTCTACCCCCTATAGCCCTTAAATAATA 58 51 0 CCCTAAGCCC 0.863578 -171 TATTAGATAAGCCCTTTGCCCGGGACGACAA 62 40 0 GCCCTTGCCC 0.941089 -261 CCATTTTCCTGCCCTAATCCAGAGCAAAGGC 64 70 1 GCCCTATCCA 0.601595 -94 CAAAGGCAAAGTCCATTGCCCATCGACCCAC 64 94 1 GTCCATGCCC 0.684061 -70 GAATTGGAGAGCCTTATTCCATCACATTTCC 64 143 1 GCCTTTTCCA 0.294473 -21 TTTCAAACGCCCCCTGCCCCCCCAAAAAAAT 70 97 0 CCCCTCCCCC 0.950888 -93 TTCTGCAAATCCCCTCTGCCCCATCACC 71 8 0 CCCCTTGCCC 0.951793 -224 GCTATTCATTCCCCACAACCACCCTGTTAGG 73 239 0 CCCCAAACCA 0.526094 -31 GAAGAATAGCGCCCTAACCCCTAGGGTAACC 76 47 0 GCCCTACCCC 0.952773 -32 AAAGCCCCCCTGACCCCCCAAATTTGG 82 7 1 CCCCTACCCC 0.961442 -113 TTATTTTGCCCCCTAAATCCCTCAATACTGG 82 60 0 CCCTAATCCC 0.703962 -60 CTTGCCGGGGCCCTAGTGCCATGCTGCCCCG 90 154 0 CCCTATGCCA 0.588845 -50 TTTGCTTCCGCCCCAGTCCCAGTGGCCCATG 93 21 0 CCCCATCCCA 0.854722 -139 GTACCGAAACCCCTAGAACCCGTGCCCTTAA 94 90 1 CCCTAAACCC 0.575601 -117 TGGCTGGTGTGCCTTGCGCCCTAGCTTCAAT 104 106 0 GCCTTCGCCC 0.792247 -195 TATTCCCCCGGCCCAGTTCCCACCGCAGTTG 108 260 1 GCCCATTCCC 0.862227 -41 AAGTATTGGCCTCCATTGCCAATAATCCCAA 110 72 1 CTCCATGCCA 0.389689 -229 GTTTTAGCTCCCCCTTCCCCCACTGTTGCCA 110 243 0 CCCCTCCCCC 0.950888 -58 CTTCCCCTGGCCCTAAAGCCCCCCTCCTATT 111 148 0 CCCTAAGCCC 0.863578 -116 CTCGATTTGAGCCCATAGCCCCCCAAATTAA 111 182 1 GCCCAAGCCC 0.946149 -82 TGTTTAATCCCCCCTAGCCCCTCTTGGAAAG 138 112 1 CCCCTGCCCC 0.714867 -189 GTATTTATCCCCCTAAATCCCACTTAAAAAG 138 167 0 CCCTAATCCC 0.703962 -134 ACTTCAATGTCCCTTGCTCCCCATCTGCTAC 146 164 1 CCCTTCTCCC 0.639057 -137 TGCCATTGGTGTCCTGCCCCC 146 290 1 GTCCTCCCCC 0.67061 -11 TCATAATACTGCCTTAACCCCTAGTAAGATT 149 38 0 GCCTTACCCC 0.854671 -167 CTTAAAAATTCTCCACTGCCCAAGGTAATAC 151 127 0 CTCCATGCCC 0.72797 -56 ATCAACCAAACCCTACACCCAAATTTTATGA 165 191 0 CCCTAACCCA 0.643962 -60 ***** ***** Masking position 3 Map Score: 52.0531 Number of sites scoring better than the average of aligned sites = 2974 Number in coding regions = 2577 Number in noncoding regions = 397 Number of orfs with sites within 600 bp upstream = 277 Fraction of orfs with sites within 600 bp upstream = 0.0444908 Motif number 5 CAGCAGCCTGCTGTCCCCAAAAAGCTGTGG 6 40 1 CTGTCCCCAA 0.536822 -86 AGCCCTAGCCCTTTCCCCAACTCACCGACT 8 21 0 CTTTCCCCAA 0.393575 -110 ATCGCGTCTCCTCCCCCCGCCAATCCGCTA 11 41 1 CTCCCCCCGC 0.626206 -76 TTGGCCAATGCTCACCCCAGGAGTTGCCCT 12 85 1 CTCACCCCAG 0.937016 -107 CCAAAAACTTCTAACCCCAAGCTCCCAGAC 23 43 1 CTAACCCCAA 0.60976 -187 ATAGGACGGACTAACCCCGGCCCCTAGCCT 28 26 0 CTAACCCCGG 0.486322 -32 TTAATCCCCCCTAGCCCCCCTTGGGAAGGG 37 89 1 CTAGCCCCCC 0.313463 -159 TTGCGGTTAGCTAACCCCAGACCAACGCAT 37 222 1 CTAACCCCAG 0.849541 -26 TACAATCCCCCTCCCCCCCATCTATTCCCT 39 15 0 CTCCCCCCCA 0.829273 -286 CTTAGCCCCGTTGGTAAGTT 54 42 0 CTTAGCCCCG 0.466136 -10 AAATCATTCGCTGCCCCCTGGGCATTAACC 63 54 1 CTGCCCCCTG 0.709194 -240 GTGAGGTAGCCTCCGCCCATATTGCTTTTC 63 260 1 CTCCGCCCAT 0.37793 -34 CAAACGCCCCCTGCCCCCCCAAAAAAATTA 70 95 0 CTGCCCCCCC 0.886299 -95 CACTAACATGCTCCCCCCATAAAGTTGAGA 72 28 0 CTCCCCCCAT 0.818921 -49 GAACTATTTACTGCCCCCCTAGCTCTTATT 74 67 1 CTGCCCCCCT 0.779169 -39 TTCCAGTTTTCTCACCCCCAGCAAAACT 77 78 1 CTCACCCCCA 0.762585 -18 AAAGCCCCCCTGACCCCCCAAATTTGGGG 82 10 1 CTGACCCCCC 0.837521 -110 GTCTAAGAATCTCCCCCCAGCCGGACTCCT 84 212 1 CTCCCCCCAG 0.957442 -23 AATTTTTGATCTCCCCCCTGCTTACCCTTT 105 118 1 CTCCCCCCTG 0.709194 -33 CTAACCAACACTCTCCCCAGGGGAAAGAAA 106 221 0 CTCTCCCCAG 0.807252 -29 CTTGCCTTGCCTGCCCCCCCTATTGTCTTC 109 22 0 CTGCCCCCCC 0.886299 -50 TTAGCTCCCCCTTCCCCCACTGTTGCCAAT 110 241 0 CTTCCCCCAC 0.848365 -60 TGTGGCACAGCTAACCCCCGGTAAACCTTT 119 255 0 CTAACCCCCG 0.814992 -46 CTTAACTAATCTGCGCCCAGTCTAACATAA 122 66 1 CTGCGCCCAG 0.749502 -218 TGTTTCTCTTCTTTCCCCAGTCAAAAACCG 128 85 1 CTTTCCCCAG 0.701068 -144 GGGGTTAAAACTGACCCCAATAATTGTGCT 128 148 1 CTGACCCCAA 0.804573 -81 TTGGCGATCGCTAACCCCAGAAGCCCATTG 131 88 1 CTAACCCCAG 0.849541 -140 TTAGCATTGTCTCCCCCCAAAAAGGGGCTA 139 101 0 CTCCCCCCAA 0.861607 -51 AGAATCTCGGCTTACCCCATTTTAACGATG 140 31 1 CTTACCCCAT 0.62612 -180 GCCGTTGCCACTTCCCCCATTGCAAAGCTA 140 106 0 CTTCCCCCAT 0.71691 -105 TCAGGTTGATCTTACCCCAGCTTAACCTGA 146 247 0 CTTACCCCAG 0.892828 -54 TTAAATTTCTCTTACCCCACT 160 129 1 CTTACCCCAC 0.787221 -11 TGAAATTTGTCTTAGCCCAGCTTCTAACTT 162 44 1 CTTAGCCCAG 0.528103 -67 GGGTTCGATGCTGGCCCCAGATCAACCCAC 164 13 1 CTGGCCCCAG 0.774448 -90 TGTCTACCATCTGACCCCCGTTGTGGTCGC 166 100 0 CTGACCCCCG 0.920678 -201 ********** Masking position 2 Map Score: 34.4674 Number of sites scoring better than the average of aligned sites = 1389 Number in coding regions = 1240 Number in noncoding regions = 149 Number of orfs with sites within 600 bp upstream = 169 Fraction of orfs with sites within 600 bp upstream = 0.0271442 Motif number 6 AATTCCCTATGGCAACAATTGGGTCTTGGCTA 18 112 1 GGACAATTGG 0.702301 -83 CCAAGCCAATGGTCACCATGGGAAAAGCCTCC 24 54 0 GGACCATGGG 0.763446 -111 CTGCCGGCTCGGCCAAGCTTGGGGAGCAATAC 26 129 0 GGAAGCTTGG 0.638263 -53 GCCCACAGCCGCCGACACTGGGCGGTTTTTCT 30 114 1 GCACACTGGG 0.822077 -187 GGTCGGGTTAAGATGGGGAGAAATTGT 33 40 0 GGAAGATGGG 0.944812 -17 GGAAAAAATGGGTTTAAAAGCC 36 1 1 GGAAAATGGG 0.913915 -49 GGGGTTATGATGGGAAAATAAATT 55 32 0 GGATGATGGG 0.66476 -14 GGCAAACGGTGGGGATCAACCCC 56 2 1 GCACGGTGGG 0.898851 -35 AGGTTACCGAGCCAAATGTGGGTCGATGGGCA 64 110 0 GCAATGTGGG 0.433382 -54 AGCAAACCGGGGCTAAACTGGGCCAAC 83 6 0 GGAAACTGGG 0.88825 -61 TCAGTCCATTGGCAACAGTGGGGGAAGGGGGA 110 234 1 GGACAGTGGG 0.938663 -67 CGAATTCAATGGGGACATTGGGGACATTATTT 119 174 0 GGACATTGGG 0.664992 -127 TTTGACTCCAGCCGAAGATGGGAGAAGTGGAC 125 127 0 GCAAGATGGG 0.860428 -147 ATGGCGGCGGGCTGACGGTGGGGCAGTCCCTC 130 31 1 GCACGGTGGG 0.898851 -161 TACCGTCAGTGGAGACAATGGGGTTAAAGCTA 130 101 1 GGACAATGGG 0.944866 -91 ACGATGGGCGGGAAACGATGGGCAAA 137 5 0 GGACGATGGG 0.965079 -57 ATTTTCGTCAGGTTAAGCTGGGGTAAGATCAA 146 240 1 GGAAGCTGGG 0.927629 -61 CCGCAATGGGGGTCAAAATGGGCCTCCCAATC 157 40 1 GGAAAATGGG 0.913915 -205 ATTTGAGTTAGGTAAAGGTTGGTATAAGCTAT 159 28 1 GGAAGGTTGG 0.677878 -273 ATTCTTTTCTGGTTACTCTGGGGGAGGAACTT 159 88 1 GGACTCTGGG 0.741927 -213 GATAGTGGAAGGGCAAAATTGGTTCACAACGA 161 51 0 GGAAAATTGG 0.593728 -44 CTAAAGCTCCGGTGACAATGGGCATTATGTAG 164 42 1 GGACAATGGG 0.944866 -61 ACCTGCGGAAGGTGGGCTTTCGTTAT 166 5 1 GCAAGGTGGG 0.84627 -296 ** ******** Masking position 9 Map Score: 21.3364 Number of sites scoring better than the average of aligned sites = 633 Number in coding regions = 562 Number in noncoding regions = 71 Number of orfs with sites within 600 bp upstream = 80 Fraction of orfs with sites within 600 bp upstream = 0.0128493 Motif number 7 TGGGGCCCTTTGCCATGGCCCAAAACCAGG 1 32 1 TGCCATGGCC 0.802983 -110 CCCTGATGTCTGCCATAGCCAAGACGGCGA 7 24 0 TGCCATAGCC 0.831686 -277 TTGCTAGAAGTACCATTGCCATCAATTTCT 17 36 0 TACCATTGCC 0.87133 -97 CATGGAACTTTGCCATTGTCTTTG 18 181 1 TGCCATTGTC 0.857652 -14 GGGCAAAGTTTGGCATTGCCGCCAGAAAAG 30 88 0 TGGCATTGCC 0.697788 -213 CAACCTCCAGTTCCACTGACCATGGTTCAC 34 234 0 TTCCACTGAC 0.462432 -67 TCCCTAGTCCTTCCATTGCCCAACTGAATA 42 53 0 TTCCATTGCC 0.96797 -99 AAATTTGATTTTCCATTGGCAAGATTTACC 51 65 1 TTCCATTGGC 0.833843 -52 ATCTAGGTTATACCATTGTCGCTTGACTAT 52 93 1 TACCATTGTC 0.510186 -208 CAAAGGCAAAGTCCATTGCCCATCGACCCA 64 94 1 GTCCATTGCC 0.751986 -70 ATTTTCACTCTCCCATTGCCTAAAAAATTA 85 44 1 TCCCATTGCC 0.850563 -257 TTTGTGCTGTTGCCATTGTCTTTTGCGGCA 85 93 1 TGCCATTGTC 0.857652 -208 ATCGGCCAAATTCCATTGCCATGGGGCCGG 90 59 0 TTCCATTGCC 0.96797 -145 TTTCGGTACCTTCCATTGACATTGAGTTCT 94 69 0 TTCCATTGAC 0.822969 -138 TCTGTCGGGTTTCCATAGCCTTATGTTTTT 94 139 1 TTCCATAGCC 0.792235 -68 AAGTATTGGCCTCCATTGCCAATAATCCCA 110 72 1 CTCCATTGCC 0.752415 -229 GCTGGATTCTTGCCATTGCCTGGTGACCGA 111 67 0 TGCCATTGCC 0.975076 -197 TTTAGGGCAATGCCATTGGCTATGCTGAGA 125 66 0 TGCCATTGGC 0.866739 -208 AGTTTTGCATTTCCACTGCC 130 1 0 TTCCACTGCC 0.848322 -191 TTTGCCTTGTTGCCGTTGCCACTTCCCCCA 140 117 0 TGCCGTTGCC 0.789245 -94 TTTCGCGTTTTTCCATTGACAGGCATTTCT 159 237 1 TTCCATTGAC 0.822969 -64 ********** Masking position 4 Map Score: 17.9667 Number of sites scoring better than the average of aligned sites = 478 Number in coding regions = 435 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 53 Fraction of orfs with sites within 600 bp upstream = 0.00851269 Motif number 8 TTTATTAGTATTTTCCTGGTTTTGGGCCAT 1 46 0 TTTTCCTGGT 0.930951 -96 AATAAATTGCTTTACCTGTTATTGTTCCAC 6 66 0 TTTACCTGTT 0.604058 -60 CTACCCTAATTTTTTCTGGTGTTTTTACCG 19 39 1 TTTTTCTGGT 0.925532 -47 TTGCAGTTGATTTTCCTGGTCTTGGGC 51 8 0 TTTTCCTGGT 0.930951 -109 GTTTGAAAAATTTTTCTGGTGGC 78 209 1 TTTTTCTGGT 0.925532 -13 CGCAATCAAATTTACCTGGTTTAGGCTCTC 101 234 1 TTTACCTGGT 0.783797 -67 TGCAGTTTACTTTTTCTGTTCAGCCGGACT 104 240 0 TTTTTCTGTT 0.839494 -61 CTTAAGCTATTTTATCTGGTGAATTAAATT 106 61 0 TTTATCTGGT 0.769685 -189 TCAAAGCCTTTTTTTCTGTTGTTTTAACCG 110 164 1 TTTTTCTGTT 0.839494 -137 GCGATCGCCATTTTCCTGGTAGTGGAGATG 115 54 1 TTTTCCTGGT 0.930951 -65 GTTAAAGACTTTTTTCTGTTTTTCGTCAGT 119 139 0 TTTTTCTGTT 0.839494 -162 CAATAATTTTTATTCCTGGTCCCGGCAAAA 142 86 0 TATTCCTGGT 0.700593 -81 CTTTCTACTATTTTTCTGTTAGAGCGTGTT 155 223 1 TTTTTCTGTT 0.839494 -78 GAGCTACCCGTATTTCTGGTGGGAAATCGG 158 69 1 TATTTCTGGT 0.683246 -102 AATTCATCATTTTTTCTGTTTGAATCAGCT 166 61 1 TTTTTCTGTT 0.839494 -240 ********** Masking position 7 Map Score: 14.2331 Number of sites scoring better than the average of aligned sites = 85 Number in coding regions = 75 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 9 GTCCCTAAAACCAGGGGCGGGGAAAAGTAGAGCTT 8 51 0 CAGGGGGAAA 0.967717 -80 TTTACAAAAACTAGGTCAGGGATTAGCGGAATAAT 11 89 0 CAGGGGGTTA 0.67657 -28 GGCCCCTAGCCTAGGGGGGGAAATTTC 28 3 0 CAGGGGAATT 0.839064 -55 AAAGCTCCGGCAAGGTTGGGGGATTTGGACTTACA 30 220 1 CAGGGGGATT 0.922226 -81 TCATCCCTAGCTAGGGTAGGGGATATTGTTTCTAG 50 96 1 CAGGGGGATA 0.955064 -205 TATGCTCTAGGACTGGGTGAAAAGTAGTCAT 63 7 1 CAGGGGGGAA 0.813876 -287 AACCTGGGGTCTAGGTTAGGAAATAGTTAGGGGGA 92 30 0 CAGGGGAATA 0.903334 -31 TTAAGTCTCCCTAGGGAGGGAAATTTCTGCCGTTG 105 23 1 CAGGGGAATT 0.839064 -128 AATCAATCGCCTAGGGCAGGGAAATCTGAAGTAAA 106 157 1 CAGGGGGAAT 0.94358 -93 GCGGTGGGAACTGGGCCGGGGGAATAAAATTATCC 108 251 0 CGGGGGGAAT 0.665652 -50 GGGGGGCAGGCAAGGCAAGGACAATGGATTGGTGG 109 33 1 CAGGGGAAAT 0.880287 -39 GCTATGGATGCAAGGAAGGGATAAATAGACTCTAA 117 95 0 CAGGGGAAAA 0.929478 -30 GGGATTGATACCAGGACCGGAAAAACATGACTGAT 124 253 1 CAGGGGAAAA 0.929478 -38 CTAATTGCTTAGAGGATAGGGTAAACATAGACGGT 145 108 1 AAGGGGGAAA 0.597846 -193 TCTTTGTTCTCAAGGCAAGGGGCTAGATCCGAGAC 151 34 1 CAGGGGGCTA 0.850874 -149 AGAGGGCTGCCCAGGGTAGGGAAAAAACCCTAGGG 163 54 1 CAGGGGGAAA 0.967717 -201 TAGCTTTTCTCCAGGGTTGGAGCAATCGGTAACTA 164 71 1 CAGGGGACAA 0.779651 -32 * *** *** *** Masking position 9 Map Score: 15.3998 Number of sites scoring better than the average of aligned sites = 252 Number in coding regions = 218 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 10 AGACCGTTGCCCAAACTCCATTTCTCACCT 14 163 1 CCAAACTCCA 0.69037 -36 AGAAGTTTAGCCAAGACCCAATTGTTGCCA 18 121 0 CCAAGACCCA 0.844497 -74 AATGGGATGGCTAAACCCCAGAGTCTGAGT 35 72 1 CTAAACCCCA 0.869011 -40 ACTGAATAGCCCAAACCCCTAAGTAATCAA 42 31 0 CCAAACCCCT 0.655358 -121 CTGATCTTATCCAGGCCCCAAAGGGGCATT 52 126 0 CCAGGCCCCA 0.978211 -175 TCTGGGACTGCCAGAACCCAGACAGGGAAA 52 187 0 CCAGAACCCA 0.934159 -114 CAATTCAGGGCCAAGCTCCAAAACTTTGCG 60 48 1 CCAAGCTCCA 0.669747 -127 GGTGTGCTGGCCAGGACCCATGGTTCCTGA 67 70 0 CCAGGACCCA 0.928083 -231 CTATCTAAACCCAGGTCCCAGTAAATACTA 91 127 0 CCAGGTCCCA 0.873682 -174 ATTTCCTAACCTAGACCCCAGGTTATTAAC 92 41 1 CTAGACCCCA 0.940351 -20 TCCTAGTCCCCATGGGCCACTG 93 3 1 CTAGTCCCCA 0.689271 -157 ATCTAGACCCCATAGATCCTAA 127 3 1 CTAGACCCCA 0.940351 -33 ATTTATCCCCCTAAATCCCACTTAAAAAGG 138 166 0 CTAAATCCCA 0.505457 -135 TGCGGTTTTTCCAGACCCCAAGGAGCAACA 157 15 0 CCAGACCCCA 0.980143 -230 ACACCAGAACCCAAACAAAAATT 166 288 0 CCAGAACCCA 0.934159 -13 ********** Masking position 3 Map Score: 10.2535 Number of sites scoring better than the average of aligned sites = 406 Number in coding regions = 369 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 11 CAACGAATGAGGGATTAGCCATGGAACTTT 18 162 1 GGGATTAGCC 0.934506 -33 TGGTCACCATGGGAAAAGCCTCCCCTGGAA 24 47 0 GGGAAAAGCC 0.975338 -118 CGCCATGGTTGGGATTAGCCGTTAAGCTAG 30 146 0 GGGATTAGCC 0.934506 -155 TCAGACTCTGGGGTTTAGCCATCCCATTGG 35 70 0 GGGTTTAGCC 0.736875 -42 GAAATACCCTGGGAAAAGCAATATGGGCGG 63 272 0 GGGAAAAGCA 0.877991 -22 GTTCAACGGCGGAAAAAGCCCATA 86 43 1 GGAAAAAGCC 0.83387 -14 AATAGTTAGGGGGAATAGCAGTGGTTTTCT 92 14 0 GGGAATAGCA 0.750516 -47 CTAGTGCCAAGGCAAAAGCCTCCCCAATGC 93 60 1 GGCAAAAGCC 0.803103 -100 CCAATTTACTGGGACAAGCCAGTGGCTGGT 104 129 0 GGGACAAGCC 0.913359 -172 TTAAAACGAGGGAAAAAGCCGCCCGGCCAA 124 50 1 GGAAAAAGCC 0.83387 -241 TCGTTAAAATGGGGTAAGCCGAGATTCTAA 140 29 0 GGGGTAAGCC 0.854507 -182 GGTTGCCAAAGGGATAAGCCAGGATTTTGA 145 182 1 GGGATAAGCC 0.971432 -119 TTACTTTAACGGGTAAAGCCAAGGAATAAA 161 19 0 GGGTAAAGCC 0.886519 -76 ATTTGGGATTGGGATAAGCAAATGATTAAA 162 89 0 GGGATAAGCA 0.861335 -22 ********** Masking position 7 Map Score: 11.3264 Number of sites scoring better than the average of aligned sites = 267 Number in coding regions = 231 Number in noncoding regions = 36 Number of orfs with sites within 600 bp upstream = 43 Fraction of orfs with sites within 600 bp upstream = 0.00690652 Motif number 12 TGATGGTTCCAGGGGAGATTAGCTCGGGCGTT 4 51 1 AGGGAGATAG 0.861435 -114 AGCATCGGTTAGGAGAGATCAACCGCAAGGGG 12 49 0 AGGAAGATAA 0.550249 -143 GTCGATTATGAGGGAAGTGTAAGTCCAAATCC 30 240 0 AGGGAGTGAA 0.584469 -61 TTTGATAACCTGGGGAGATTAATCAAACTGAG 35 22 0 TGGGAGATAA 0.887478 -90 AAGGGGGGCTAGGGGGGATTAAACGGCCAAAA 37 79 0 AGGGGGATAA 0.861435 -169 AAGGAAGGTTAGGGGAGATTAACCAGTCGTAC 38 89 0 AGGGAGATAA 0.97248 -54 TACCCTAGCTAGGGATGATTAAGTTAACTGTG 50 82 0 AGGGTGATAA 0.80076 -219 ACCATATCATAGGGGAAATAAAATTCCAGATC 52 36 0 AGGGAAATAA 0.771851 -265 GGGGTTATGATGGGAAAATAAATTCACTTAAC 55 24 0 TGGGAAATAA 0.430234 -22 ATGCATCAACAGGGCAGAAAAAACAATTTTTT 58 137 0 AGGGAGAAAA 0.69505 -85 AAGTCAGTAAAGGGCAGATAATCCGGCTATTA 60 149 0 AGGGAGATAT 0.80076 -26 ATCGGATTTAAGGGTAGAGAAAAGGTAGCAAC 68 25 1 AGGGAGAGAA 0.900552 -32 CTCATAGGTAAGGGAAGTTGAATGCAAACTCT 71 136 1 AGGGAGTTAA 0.845886 -96 TGGCCATTTCTGGGTAGATGAAT 88 2 0 TGGGAGATAA 0.887478 -54 TTTTGCTCAATGGGCTGATAAACACAATCAAA 104 189 1 TGGGTGATAA 0.472869 -112 GGGTAAGCAGGGGGGAGATCAAAAATTTTTCC 105 113 0 GGGGAGATAA 0.780366 -38 CACTCTCCCCAGGGGAAAGAAAACTTGGCTAC 106 211 0 AGGGAAAGAA 0.464372 -39 CAACTAGAAGAGGGTAGATAAATACCAACAAT 120 114 1 AGGGAGATAA 0.97248 -65 ACCAAGAAAAAGGGTAGTTAAACACAGTTAAC 120 153 0 AGGGAGTTAA 0.845886 -26 AAACCGACCCAGGGGAGATTATCGCCGATTTT 128 109 1 AGGGAGATAT 0.80076 -120 AAGAGGGGCTAGGGGGGATTAAACAGCCAAAA 138 105 0 AGGGGGATAA 0.861435 -196 TTGGTAAGCAAGGGAAGATTAGTCGAAGGAAT 143 111 0 AGGGAGATAG 0.861435 -53 ACTTATGGGAAAGGAAGATAAAATTTAACCTA 145 76 0 AAGGAGATAA 0.550249 -225 TTGAGGGAAGATCAAAACTAATTAA 156 4 1 AGGGAGATAA 0.97248 -161 **** **** ** Masking position 11 Map Score: 19.6627 Number of sites scoring better than the average of aligned sites = 211 Number in coding regions = 149 Number in noncoding regions = 62 Number of orfs with sites within 600 bp upstream = 70 Fraction of orfs with sites within 600 bp upstream = 0.0112432 Motif number 13 TTACAGTTGGGTGGAGGGTAAGAA 30 3 1 AATTGGGTGG 0.724807 -298 TTTAGTGAAAATAGTTGGGGGACAAAGGCTTT 30 191 0 AATTGGGGGA 0.833235 -110 TCACAGGGAATAGATGGGGGGGAGGGGGATT 39 10 1 AAATGGGGGG 0.820833 -291 CATTATTGGGAAATTTAGGGGGCAAAATAAAA 70 39 0 AATTAGGGGG 0.966673 -151 CCCCCCCAAAAAAATTAGGGGGAAGTTAAGTA 70 80 0 AATTAGGGGG 0.966673 -110 GGTAAAAATAAGAGCTAGGGGGGCAGTAAATA 74 71 0 AACTAGGGGG 0.808839 -35 GTTTCCCCCCAAATTTGGGGGGTCAGGGGGGC 82 14 0 AATTGGGGGG 0.978969 -106 CAGTATTGAGGGATTTAGGGGGCAAAATAAGA 82 61 1 GATTAGGGGG 0.893836 -59 AGGTTAGGAAATAGTTAGGGGGAATAGCAGTG 92 21 0 AATTAGGGGG 0.966673 -40 ATAGGAGAAGACAATAGGGGGGGCAGGCAAGG 109 16 1 AATAGGGGGG 0.809931 -56 AATGGACTGAAAACTTTGGGGGAATATTTTTG 110 212 0 AATTTGGGGG 0.838658 -89 CCGGACTTCTTAATTTGGGGGGCTATGGGCTC 111 190 0 TATTGGGGGG 0.832033 -74 TTTTTAAGTGGGATTTAGGGGGATAAATACCT 138 168 1 GATTAGGGGG 0.893836 -133 AATGGGGATAAAATTTAAGGGGGACATCCTCC 142 29 1 AATTAAGGGG 0.621386 -138 CCTGGATGTCACACTTGGGGGAATAGTTACGA 165 100 0 AATTGGGGGA 0.833235 -151 * * ******** Masking position 3 Map Score: 11.4367 Number of sites scoring better than the average of aligned sites = 275 Number in coding regions = 163 Number in noncoding regions = 112 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 14 GTTTCTAGCTTTGGGGGAGAAAAAAGGGGA 4 12 1 TTGGGGGAGA 0.58405 -153 CAGCATGGCATTGGGGGATTTAGGAATTGC 7 115 0 TTGGGGGATT 0.56903 -186 TGCGTTGGGTTTGTGGGGATTATTCCGCTA 11 71 1 TTGTGGGGAT 0.795642 -46 GGGTTGGCGATTGGGGTGAAAATCGGTTTA 23 116 0 TTGGGGTGAA 0.505516 -114 GTGAAAATAGTTGGGGGACAAAGGCTTTAG 30 189 0 TTGGGGGACA 0.879574 -112 TCCGGCAAGGTTGGGGGATTTGGACTTACA 30 225 1 TTGGGGGATT 0.56903 -76 CAAGGGGGGCTAGGGGGGATTAAACGGCCA 37 82 0 TAGGGGGGAT 0.789958 -166 CTTTCTGTGCTTAGGGGGATGGCTAGCTTA 41 19 0 TTAGGGGGAT 0.855458 -29 GGGGGTTGTGGGAAATTTTGTTAAC 52 286 0 TTGTGGGAAA 0.657848 -15 ATTGGGAAATTTAGGGGGCAAAATAAAACC 70 37 0 TTAGGGGGCA 0.813746 -153 CCCAAAAAAATTAGGGGGAAGTTAAGTAAA 70 78 0 TTAGGGGGAA 0.88219 -112 CTAATTTTTTTGGGGGGGCAGGGGGCGTTT 70 94 1 TGGGGGGGCA 0.619564 -96 AACAGGGTGGTTGTGGGGAATGAATAGCGC 73 242 1 TTGTGGGGAA 0.831255 -28 AAATAAGAGCTAGGGGGGCAGTAAATAGTT 74 68 0 TAGGGGGGCA 0.735195 -38 CGCCGGCCTTTTGGGGGAAACCGGCCTACA 78 130 1 TTGGGGGAAA 0.926027 -92 CCCCCCAAATTTGGGGGGAAACACAGTCAA 82 24 1 TTGGGGGGAA 0.969764 -96 ATTGAGGGATTTAGGGGGCAAAATAAGACT 82 65 1 TTAGGGGGCA 0.813746 -55 TAGGAAATAGTTAGGGGGAATAGCAGTGGT 92 19 0 TTAGGGGGAA 0.88219 -42 AAATATATCATTGTGGGAATATTAAGTGAT 108 58 0 TTGTGGGAAT 0.603111 -243 ACTGAAAACTTTGGGGGAATATTTTTGTGT 110 209 0 TTGGGGGAAT 0.908207 -92 ACTTCTTAATTTGGGGGGCTATGGGCTCAA 111 188 0 TTGGGGGGCT 0.936669 -76 CAAGAGGGGCTAGGGGGGATTAAACAGCCA 138 108 0 TAGGGGGGAT 0.789958 -193 TAAGTGGGATTTAGGGGGATAAATACCTAG 138 172 1 TTAGGGGGAT 0.855458 -129 TAGCCCCTTTTTGGGGGGAGACAATGCTAA 139 101 1 TTGGGGGGAG 0.813145 -51 GCAATTAGACTTATGGGAAAGGAAGATAAA 145 86 0 TTATGGGAAA 0.309817 -215 GATGTCACACTTGGGGGAATAGTTACGATC 165 98 0 TTGGGGGAAT 0.908207 -153 ********** Masking position 1 Map Score: 22.8939 Number of sites scoring better than the average of aligned sites = 1111 Number in coding regions = 890 Number in noncoding regions = 221 Number of orfs with sites within 600 bp upstream = 170 Fraction of orfs with sites within 600 bp upstream = 0.0273049 Motif number 15 GCAATCATGCCATTACTGGGGCCCTTTGCCATG 1 16 1 CAACGGGGCC 0.615259 -126 TGACCTGCAACAACCCAGGGGCCAA 6 3 0 CACCGGGGCC 0.876663 -123 GGCCAATGCTCACCCCAGGAGTTGCCCTTTTCC 12 87 1 CACCGGAGTT 0.620955 -105 CTAGGAGGTACTGTCCTGGGGCCAAGCCAGTCC 13 43 0 CTCCGGGGCC 0.951217 -26 CGGGGGTCAACTTTCCAGAGGTTGCCCTTAACC 27 38 0 CTCCGAGGTT 0.698942 -49 GGGCGATCGCCAGGACGGGGGTCAACTTTCCAG 27 53 0 CAACGGGGTC 0.833645 -34 GTTGGAACACCTAACCTTGAGTCGTACTGGTCA 40 62 0 CTCCTGAGTC 0.359794 -27 ACAACAAAATCTGCCCAGGAGTTATTAATGACA 50 261 0 CTCCGGAGTT 0.82708 -40 CCATGGGTTAATGCCCAGGGGGCAGCGAATGAT 63 56 0 ATCCGGGGGC 0.642344 -238 ATTTTCCATACTTTCCATGGGTTAATGCCCAGG 63 70 0 CTCCTGGGTT 0.698942 -224 CCTTTGCTAGCCGGAGGTCTCAACTTTAT 72 7 1 CTCCGAGGTC 0.803252 -70 ATTTTCGTCGCTGACTAGGGGGCTTGCAGCATT 80 23 1 CTCTGGGGGC 0.779034 -28 TAGTGCCATGCTGCCCCGGGGTCGCAGATTAGT 90 139 0 CTCCGGGGTC 0.983897 -65 GTTAATAACCTGGGGTCTAGGTTAGGA 92 44 0 ATCCGGGGTC 0.81078 -17 GCATCAAAGGTTTACCGGGGGTTAGCTGTGCCA 119 250 1 TTCCGGGGTT 0.580149 -51 AACTGCTGAGCTAGACTGGGGGTTCTTGTACTC 122 184 0 CTACGGGGGT 0.766173 -100 ATTGCCTGAGCTTTACTGGGGTTGACCTAAGAA 123 36 1 CTACGGGGTT 0.886588 -96 CGCCGATTTTCTGGACCGGGGTTAAAACTGACC 128 131 1 CTACGGGGTT 0.886588 -98 AGCCGAGATTCTAACCAGGAGGTGTTGATTCC 140 10 0 CTCCGGAGGT 0.667204 -201 AAATAGAAATCTTACTAGGGGTTAAGGCAGTAT 149 31 1 CTCTGGGGTT 0.827083 -174 TAAATTAGTTCAACCTAGGGGTTCTTGCCGTGT 158 124 1 CACTGGGGTT 0.635513 -47 AAGGGTATAGCTCTCTTGGGGTCGGTGGTGTCC 163 103 0 CTCTGGGGTC 0.893744 -152 ATTAAGCGACCACAACGGGGGTCAGATGGTAGA 166 95 1 CAACGGGGTC 0.833645 -206 ** ** ****** Masking position 11 Map Score: 15.3975 Number of sites scoring better than the average of aligned sites = 604 Number in coding regions = 536 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813