AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00500_synecho_reg_300.orf -o00500_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: slr1196 27 hypothetical protein. slr0361 26 hypothetical protein. Input sequences: #1 sll1393 223 glgA; glycogen (starch) synthase. [EC:2.4.1.11] #2 sll1392 95 hypothetical protein. #3 slr1501 100 hypothetical protein. #4 slr1113 300 ABC transporter. #5 sll1045 96 mutT; mutator MutT protein. [EC:3.6.1.-] #6 sll1043 127 pnp; polyribonucleotide nucleotidyltransferase. [EC:2.7.7.8] #7 sll0716 202 lepB; leader peptidase I. [EC:3.4.21.89] #8 sll0712 112 cysM; cysteine synthase. [EC:4.2.99.8] #9 sll0711 98 hypothetical protein. #10 sll0710 40 hypothetical protein. #11 sll0709 300 llaI.2; 2nd component required for LlaI restriction activity. #12 sll1676 97 malQ; 4-alpha-glucanotransferase. [EC:2.4.1.25] #13 sll1675 49 hypothetical protein. #14 slr1787 300 hypothetical protein. #15 slr1610 34 hypothetical protein. #16 slr1611 50 hypothetical protein. #17 slr1612 151 hypothetical protein. #18 slr1613 300 hypothetical protein. #19 sll1920 188 pacS; cation-transporting ATPase pacs. [EC:3.6.1.-] [SP:ATCS_SYNY3] #20 slr2023 281 fabD; malonyl CoA-acyl carrier protein transacylase (MCT). #21 slr2024 66 regulatory component of sensory transduction system. #22 slr2025 92 hypothetical protein. #23 sll1916 39 hypothetical protein. #24 sll1915 169 hypothetical protein. #25 sll1913 60 hypothetical protein. #26 ssl3615 208 hypothetical protein. #27 sll1911 128 hypothetical protein. #28 sll1910 300 zam; acetazolamide conferring resistance protein zam. [SP:ZAM_SYNY3] #29 sll1121 98 putative DNA helicase. [EC:3.6.1.-] #30 sll1120 194 chromosome segregation protein SMC1. #31 sll1119 142 hypothetical protein. #32 slr1194 153 hypothetical protein. #33 slr1195 28 hypothetical protein. #34 slr1197 42 hypothetical protein. #35 sll1118 46 hypothetical protein. #36 ssr2009 198 hypothetical protein. #37 slr1198 103 rehydrin. #38 slr1199 184 mutL; DNA mismatch repair protein MutL. #39 slr1200 97 livM; high-affinity branched-chain amino acid transport permease #40 slr1201 115 hypothetical protein. #41 slr1202 109 malF; putative maltose transport permease protein. #42 slr1203 105 hypothetical protein. #43 slr1204 47 htrA; serine protease HtrA. [EC:3.4.21.-] #44 slr1205 273 hypothetical protein. #45 slr1206 67 hypothetical protein. #46 slr1207 221 hypothetical protein. #47 ssr2016 251 hypothetical protein. #48 slr1211 91 cobN; CobN protein. #49 slr1212 48 ETR1; ethylene response sensor protein. #50 slr1213 300 LumQ. #51 slr1536 289 recQ; ATP-dependent DNA helicase recQ. [EC:3.6.1.-] [SP:RECQ_SYNY3] #52 slr1537 99 hypothetical protein. #53 slr1538 89 cbiD; CbiD protein. #54 slr1540 73 hypothetical protein. #55 slr1541 111 hypothetical protein. #56 slr1542 105 hypothetical protein. #57 sll1468 300 hypothetical protein. #58 sll1143 165 uvrD; DNA helicase II. [EC:3.6.1.-] #59 sll1142 76 hypothetical protein. #60 slr1223 68 sulA; cell division inhibitor. #61 slr1224 106 malK; putative maltose transport ATP-binding protein. #62 sll1138 111 gph; phosphoglycolate phosphatase. [EC:3.1.3.18] #63 slr1226 212 purC; phosphoribosyl aminoidazole succinocarboxamide synthetase. #64 slr1227 114 IAP75; chloroplast import-associated channel IAP75. #65 slr1228 47 prfC; peptide chain release factor 3 (RF-3). [SP:RF3_SYNY3] #66 slr1229 99 hypothetical protein. #67 sll1135 153 hypothetical protein. #68 slr1232 300 hypothetical protein. #69 sll1356 300 glgP; glycogen phosphorylase. [EC:2.4.1.1] #70 slr1448 300 cscK; fructokinase. [EC:2.7.1.4] #71 slr1367 151 glgP; glycogen phosphorylase. [EC:2.4.1.1] #72 slr1368 133 cbiT; precorrin decarbocylase. #73 slr1369 102 cdsA; phosphatidate cytidylyltransferase. [EC:2.7.7.41] #74 sll1268 260 hypothetical protein. #75 sll1267 39 hypothetical protein. #76 sll1265 300 hypothetical protein. #77 sll1757 144 hypothetical protein. [EC:2.7.1.69] #78 ssr3188 159 hypothetical protein. #79 ssl3364 164 hypothetical protein. #80 slr1884 150 trpS; tryptophanyl-tRNA synthetase (tryptophan--tRNA ligase) #81 ssr3189 125 hypothetical protein. #82 slr1885 85 hypothetical protein. #83 slr1886 32 iojap protein. #84 sll1755 76 hypothetical protein. #85 slr1887 129 hemC; porphobilinogen deaminase (PBG) (hydroxymethylbilane synthase) #86 slr1888 265 hypothetical protein. #87 slr2132 57 pta; phosphotransacetylase. [EC:2.3.1.8] #88 sll2015 61 hypothetical protein. #89 sll2014 53 sfsA; sugar fermentation stimulation protein. #90 sll2013 159 hypothetical protein. #91 sll2012 300 rpoD; RNA polymerase sigma factor. #92 sll1614 198 pma1; cation-transporting ATPase pma1. [EC:3.6.1.-] [SP:ATA1_SYNY3] #93 sll1613 248 hypothetical 15.8 kD protein sll1613. [SP:YG13_SYNY3] #94 sll1612 34 folC; folyl-polyglutamate synthetase. [EC:6.3.2.17] #95 sll1611 209 hypothetical protein. #96 slr1716 23 transposase. #97 sll1609 94 hypothetical 20.5 kD protein sll1609. [SP:YG09_SYNY3] #98 sll1608 300 hypothetical protein. #99 slr1349 214 pgi; glucose-6-phosphate isomerase (GPI) (phosphoglucose isomerase) #100 slr1350 156 desA; fatty acid desaturase. [EC:1.14.99.-] [SP:DESA_SYNY3] #101 sll1247 252 hypothetical 52.7 kD protein sll1247. [SP:YC47_SYNY3] #102 slr1351 170 murF; UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D- #103 sll1245 243 cytM; cytochrome c553-like precursor. [SP:C55L_SYNY3] #104 sll1244 121 rplI, rpl9; 50S ribosomal protein L9. [SP:RL9_SYNY3] #105 slr1353 64 hypothetical 31.3 kD protein slr1353. [SP:YD53_SYNY3] #106 sll1242 132 hypothetical protein. #107 slr1956 300 hypothetical protein. #108 sll1566 300 otsA; alpha,alpha-trehalose-phosphate synthase. [EC:2.4.1.15] #109 sll1538 116 bgl; beta-glucosidase. [EC:3.2.1.21] #110 slr1627 118 hypothetical 22.0 kD protein slr1627. [SP:YG27_SYNY3] #111 sll1536 135 moeB; molybdopterin biosynthesis MoeB protein. #112 slr1629 124 hypothetical protein. #113 sll1535 99 rfbP; galactosyl-1-phosphate transferase. #114 sll1533 300 pilT; twitching mobility protein. #115 sll0945 203 glgA; glycogen synthase (starch (bacterial glycogen) synthase). #116 sll0944 145 hypothetical protein. #117 slr0320 40 hypothetical protein. #118 sll0306 300 rpoD; RNA polymerase sigma factor. #119 sll0158 224 glgB; 1,4-alpha-glucan branching enzyme (glycogen branching enzyme). #120 sll0157 64 hypothetical protein. #121 sll0156 202 hypothetical protein. #122 slr0184 100 hypothetical protein. #123 slr0185 38 umpS; uridine 5-monophosphate synthase. [EC:2.4.2.10 2.7.1.48] #124 sll0154 185 hypothetical 51.0 kD protein sll0154. [SP:Y154_SYNY3] #125 slr0186 84 leuA; 2-isopropylmalate synthase (alpha-isopropylmalate synthase) #126 slr0359 95 hypothetical protein. #127 slr0360 37 hypothetical protein. #128 slr0362 300 hypothetical protein. #129 slr0020 100 recG; DNA recombinase. [EC:3.6.1.-] #130 slr0021 65 putative protease slr0021. [EC:3.4.-.-] [SP:Y021_SYNY3] #131 sll0002 226 ponA; penicillin-binding protein 1A. #132 tRNA-Ser-4 225 tRNA-Ser. #133 slr0213 87 guaA; probable GMP synthase (glutamine-hydrolysing) (glutamine #134 sll0210 114 bacA; bacitracin resistance; possibly phosphorylates undecaprenol. #135 slr0216 127 cobU; cobinamide kinase. #136 slr0217 238 hypothetical protein. #137 ssr0349 258 hypothetical protein. #138 sll0209 218 hypothetical protein. #139 sll0208 257 hypothetical protein. #140 sll0207 157 rfbA; glucose-1-phosphate thymidylyltransferase. [EC:2.7.7.24] #141 slr0220 175 glyS; glycyl-tRNA synthetase beta chain (glycine--tRNA ligase beta #142 sll0205 286 hypothetical protein. #143 sll0204 136 gidA; glucose inhibited division protein A. #144 sll0202 129 gidA; glucose inhibited division protein A. [SP:GIDA_SYNY3] #145 sll0200 300 transposase. #146 slr0897 300 endo-1,4-beta-glucanase. [EC:3.2.1.4] #147 slr0833 196 dnaB; replicative DNA helicase. [EC:3.6.1.-] [SP:DNAB_SYNY3] #148 slr0835 30 moxR; MoxR. #149 slr0836 66 rfbB; dTDP-glucose 4,6-dehydratase. [EC:4.2.1.46] #150 ssl1552 107 hypothetical protein. #151 sll0830 133 fus; elongation factor EF-G. #152 sll0829 112 rapQ; methyltransferase. [EC:2.1.1.64] #153 slr0839 71 hemH; probable ferrochelatase (protoheme ferro-lyase) (hemE #154 sll0827 266 hypothetical protein. #155 slr0841 300 hypothetical protein. #156 sll0593 206 glk; glucokinase. [EC:2.7.1.2] #157 slr0615 300 ABC transporter. #158 slr0798 26 cadA; cadmium-transporting ATPase. [EC:3.6.1.-] #159 sll0788 221 merR; hypothetical protein. #160 slr0800 180 merR; transposase. #161 sll0785 30 merR; hypothetical protein. #162 sll0784 137 merR; nitrilase. [EC:3.5.5.7] #163 sll0783 300 merR; hypothetical protein. #164 sll0776 77 probable serine/threonine-protein kinase sll0776. [EC:2.7.1.-] #165 sll0775 222 merR; hypothetical protein. #166 ssr1169 91 ESI3; hypothetical 9.1 kD protein ssr1169. [SP:YB69_SYNY3] #167 slr0698 209 merR; hypothetical protein. #168 slr0699 140 merR; hypothetical protein. #169 slr0700 229 merR; hypothetical protein. #170 slr0701 106 hypothetical 15.7 kD protein slr0701. [SP:Y701_SYNY3] #171 slr0702 300 hypothetical protein. #172 sll0045 81 sps; sucrose phosphate synthase. [EC:2.4.1.14] #173 slr0023 124 hypothetical protein. #174 sll0044 31 hypothetical protein. #175 sll0042 45 tar; methyl-accepting chemotaxis protein II. #176 sll0041 300 tsr; methyl-accepting chemotaxis protein I. #177 sll0726 300 pgm; phosphoglucomutase. [EC:5.4.2.2] #178 slr1176 28 glgC, agp; glucose-1-phosphate adenylyltransferase (ADP-glucose #179 slr1177 109 hypothetical protein. #180 slr1178 118 hypothetical protein. #181 slr1179 35 hypothetical protein. #182 sll1110 88 prfA; peptide chain release factor 1 (RF-1). [SP:RF1_SYNY3] #183 sll1109 65 hypothetical protein. #184 sll1108 300 surE; survival protein sure homolog. [SP:SURE_SYNY3] Motif number 1 AATTTCCGGTGGCGATCGCCCCTTGGCCAG 1 98 1 GGCGATCGCC 0.499998 -126 TCGGCTCGACGGCGATCGAGTTGATTGTAT 1 173 0 GGCGATCGAG 0.838099 -51 AACATTTTACGGCGATTGGCGAATCCTAAT 9 18 0 GGCGATTGGC 0.893072 -81 GGCATTGTATGGCGATCAACGGCTTGGTGT 18 251 1 GGCGATCAAC 0.798356 -50 TCCGGCCAATGGCGATCGCCAAGCGTCGTA 30 97 1 GGCGATCGCC 0.499998 -98 TCTGGGGTAAGGCGATCGCCTTAGGTCAAA 36 174 1 GGCGATCGCC 0.499998 -25 CTCAACGAAGGGCGATTGCCATGGAAACGG 58 70 1 GGCGATTGCC 0.549786 -96 CTGAGAACGGCGATCAGCCTCTTGACGC 69 9 1 GGCGATCAGC 0.919969 -292 TCTTTCCCCTGGCGATCGCCTTTGGCCCTG 74 39 1 GGCGATCGCC 0.499998 -222 GGCCGCAACTGGCGATCGCCAGGATTTCCA 78 33 1 GGCGATCGCC 0.499998 -127 CATAAAAAACGGCGATCGGTGGGTTTCGGC 81 69 0 GGCGATCGGT 0.911862 -57 TAGCATCAGAGGCTATCGGCCTTGGTTTTC 84 52 1 GGCTATCGGC 0.832419 -25 GGTTTGTAGTGGCGATCGCCTGATGTTAGT 92 53 1 GGCGATCGCC 0.499998 -146 ATTGCTCCCTGGCGATCGCCAATTTTGGCG 104 81 1 GGCGATCGCC 0.499998 -41 TGATCATATTGGCGATCGCCATTTTCCTGG 110 43 1 GGCGATCGCC 0.499998 -76 CTGATCCCCAGGCGATCGCCGCTTTTTTTA 128 159 1 GGCGATCGCC 0.499998 -142 GGCGATCGGCAGTCAGGAAT 132 1 1 GGCGATCGGC 0.56348 -225 GCAACGGTGGGGCGATCACAATTCTAGGGG 134 17 1 GGCGATCACA 0.820658 -98 TCTACTCAAAGGCGATCGAACAGCAAACAC 136 199 1 GGCGATCGAA 0.859183 -40 AAAGCTTTATGGCGATCGGAGTCGTTAACT 138 155 1 GGCGATCGGA 0.941647 -64 TCTGCGTTTTGGCGATCGCATCTTTTAAGC 145 86 1 GGCGATCGCA 0.559636 -215 CAATGGACTAGGCGATCGCCTTTGGTTGAT 149 42 1 GGCGATCGCC 0.499998 -25 GGGCTATTTTGGCGATCGCCCTAAAATTTT 150 88 1 GGCGATCGCC 0.499998 -20 GGCGATCGCCAGGATCATTA 157 1 1 GGCGATCGCC 0.499998 -300 TTTGCTCCATGGCGATCGCCTAAGGAAAAC 165 98 1 GGCGATCGCC 0.499998 -125 TTCGTAATTTGGCGATCGCCTACCTAACCC 169 181 1 GGCGATCGCC 0.499998 -49 CAACTTCCTTGGCGATCGCTGTCCCAAT 173 9 0 GGCGATCGCT 0.554752 -116 TGGCCAATGGGGCGATCGGGGAAAAATGGC 184 151 0 GGCGATCGGG 0.934378 -150 ********** Masking position 5 Map Score: 95.9004 Number of sites scoring better than the average of aligned sites = 5863 Number in coding regions = 5323 Number in noncoding regions = 540 Number of orfs with sites within 600 bp upstream = 332 Fraction of orfs with sites within 600 bp upstream = 0.0533248 Motif number 2 TGGAGGAGAATTCCCCTGGCCAAGGGGCGA 1 113 0 TTCCCCTGGC 0.919202 -111 CTATATTGCCCCTCCCTTGCAAGCACTGGA 1 139 0 CCTCCCTTGC 0.902621 -85 ACGCAAAACTTTCCCCAAGGGGTC 2 5 0 TTCCCCAAGG 0.612632 -91 ATCAGCCCATCCTCCCTGGGGTAGGATAAC 8 47 1 CCTCCCTGGG 0.951674 -66 TCCCCCCTAGCCCCCCTTGGAAAGGAGGGA 22 39 0 CCCCCCTTGG 0.931751 -54 GATTTTTCCCTGGGCAACTATGCG 31 5 1 TTTCCCTGGG 0.875191 -138 ATTGTCTCGCCCCCCCTAGCCTGACCTCTG 39 44 0 CCCCCCTAGC 0.917348 -54 GGTCAATATGTCCCCCAAGGGCT 41 97 1 TCCCCCAAGG 0.799409 -13 GCCTGTTGGGGCTCCCTTGGCGTTAGATGC 46 190 1 GCTCCCTTGG 0.860207 -32 ATAAAGTAATCCCCCCATGGACGTAGAGTT 47 125 1 CCCCCCATGG 0.851497 -127 GTTTGAAAAGCCCCCCTGGCTCCCCAAGTT 51 117 0 CCCCCCTGGC 0.96965 -173 GCCAGAGTAATCTCCCTGGCGCGGATGTTA 57 170 0 TCTCCCTGGC 0.948837 -131 GAAAAAATAATTTCCCTTGGTTGATTGCTA 58 108 1 TTTCCCTTGG 0.758734 -58 TACTCCTACTCCCCCCAGGGTC 59 3 0 CCCCCCAGGG 0.927459 -74 GGCTCCTCTTTCTCCCTAGGCCAATGGGGT 62 86 0 TCTCCCTAGG 0.859913 -26 TTACCCTTCTTTCCCCTGGCGATCGCCTTT 74 32 1 TTCCCCTGGC 0.919202 -229 TGTTCTAATTTCCCCCTAGGCCACTTTCTT 76 185 1 TCCCCCTAGG 0.904661 -116 TAAAGGATATCTTCCCTGGGGTTAAC 78 144 1 CTTCCCTGGG 0.886556 -16 CCCGGTGGTGGCCCCCAGGGCCGTATGGGG 79 17 1 GCCCCCAGGG 0.899072 -148 CTAACATGGCGTTCCCTGGGTTTATTGGTC 91 243 1 GTTCCCTGGG 0.844841 -58 CAAAGGAAACGCCCCCATGGTATCAACTGG 92 166 0 GCCCCCATGG 0.799801 -33 CTGGTATTTCTCTCCCTGGGGATCAGTCAA 100 88 1 TCTCCCTGGG 0.946438 -69 ATCTAGATCACCTCCCATGGGTGCTTGCAT 101 100 1 CCTCCCATGG 0.787653 -153 CGGAGGGCCGTCCCCCATGGTAACAGAGTA 104 18 1 TCCCCCATGG 0.837264 -104 GGTAAAAATTGCTCCCTGGCGATCGCCAAT 104 74 1 GCTCCCTGGC 0.935066 -48 CAATTTTTAACTCCCCTTGCCCACGCCCTA 107 99 0 CTCCCCTTGC 0.850437 -202 TCTCCGACAGTTTCCCAAGCCCGTCGATCA 107 127 0 TTTCCCAAGC 0.517786 -174 GTTTGAAAAGCCCCCCTGGCCCTCCAAATT 107 193 1 CCCCCCTGGC 0.96965 -108 TTTTTGCAGTTTTCCCTGGCTCACTGTATT 119 51 0 TTTCCCTGGC 0.880376 -174 GCAAGTTGTCTTCCCCTAGCTTTGGGCGGG 119 159 1 TTCCCCTAGC 0.798066 -66 TCCCCCTCTGCTTCCCTAGCCC 124 174 1 CTTCCCTAGC 0.740213 -12 CCGACCCATTGCTCCCTTGCCCT 140 4 0 GCTCCCTTGC 0.865919 -154 GTTATCCAAATCCCCCTAGCCTGCGGCGCT 147 22 0 TCCCCCTAGC 0.90875 -175 AATTACCTAATCCCCCAAGCATCTCTTAAG 150 19 0 TCCCCCAAGC 0.807049 -89 CCATGGAAAGCCTCCCTGGCAGAAGTTTTG 154 192 0 CCTCCCTGGC 0.953849 -75 TTGTTGCTTTGCCCCCATGGTTGAAGGTTA 155 30 1 GCCCCCATGG 0.799801 -271 GCTGTAATTTTTTCCCTGGCTCTATTGTAG 157 106 0 TTTCCCTGGC 0.880376 -195 ATCAAGCCCATTTCCCTTGCCACTTGGCTT 160 139 0 TTTCCCTTGC 0.767472 -42 AAACTTACTTGCTCCCTGGGAGGGATTTAA 171 279 1 GCTCCCTGGG 0.932069 -22 AGTATTGCCGGTTCCCAGGCTTACAACCCA 173 68 0 GTTCCCAGGC 0.705893 -57 CCCCTGCTTTTTCCCCTTGCATTGATCGCC 182 17 0 TTCCCCTTGC 0.836122 -72 ********** Masking position 5 Map Score: 58.956 Number of sites scoring better than the average of aligned sites = 1558 Number in coding regions = 1342 Number in noncoding regions = 216 Number of orfs with sites within 600 bp upstream = 217 Fraction of orfs with sites within 600 bp upstream = 0.0348538 Motif number 3 CCGGTGGCGATCGCCCCTTGGCCAGGGGAATTC 1 103 1 TCGCCCCTCC 0.791106 -121 CTGTCAGGGTTTGCCCATGTATCTAGCCCCATC 7 130 1 TTGCCCATTC 0.767153 -73 GCGGCAGAAATTCCCCCTACATCAGCCCATCCT 8 27 1 TTCCCCCTTC 0.935077 -86 AACTGATTTATTGCCCCTCTTTCACCCCCAACT 9 74 1 TTGCCCCTTC 0.855647 -25 GATCCTATGGTTCCCCTTCTCCCGTCTAGGCTT 20 155 0 TTCCCCTTCC 0.830443 -127 GGCTGCTTAATCCCCCCTAGCCCCCCTTGGAAA 22 46 0 TCCCCCCTCC 0.901981 -47 TGGCGCGGTGTTCCCCCTCCACCAATCCCTGGA 28 137 0 TTCCCCCTCC 0.945443 -164 AATTCTAACGCTTCCCTTCACCCCGTAAGCCCA 28 261 1 CTTCCCTTCC 0.314138 -40 GGGAAACTTGTCCCCCATGTATCCTCGTCCAGT 30 14 1 TCCCCCATTC 0.80956 -181 ATCCTCACCACTCCCCTTGACCCC 31 129 1 CTCCCCTTCC 0.68578 -14 CAATTTTTCTTTGCCCCATTGTCTCGCCCCCCC 39 58 0 TTGCCCCATC 0.451026 -40 TCCGGAAATTTCCCCCCTAACTCTACGTCCATG 47 140 0 TCCCCCCTTC 0.884366 -112 AGTTTTATTTTGCCCCCTAAATCCCCCAATAAT 51 58 1 TGCCCCCTTC 0.822878 -232 AAATGGCAACTTTCCCATTATCCCCTAGGCTGT 53 29 1 TTTCCCATCC 0.669034 -61 TTACTCCTACTCCCCCCAGGGTC 59 1 0 TCCCCCCATC 0.514576 -76 GCGTGGCCAGTTCCCCCAATTTCGCTCTAGTTC 66 60 1 TTCCCCCATC 0.666257 -40 GACTTTCACCTTGCCCATCTGGCTAAGTATCTT 68 58 1 TTGCCCATGC 0.623789 -243 TACAATATCATTTCCCATTTTTCCA 68 286 1 TTTCCCATTC 0.626873 -15 CTGGTTTGACTGCCCCCTGATTCTAAAGTTAGG 71 121 0 TGCCCCCTTC 0.822878 -31 ACCCCTAGGCCTTCCCTTACATCTCCCCGA 72 114 1 CTTCCCTTTC 0.275711 -20 GCAAACTGATTTTCCCCTCAGTCAGAAGAGTTT 73 76 1 TTTCCCCTTC 0.751404 -27 ATTAGGCATACTGCCCATTGACCATTGTAGAGA 74 142 0 CTGCCCATCC 0.638531 -119 TTGTTCTAATTTCCCCCTAGGCCACTTTCTTCG 76 184 1 TTCCCCCTCC 0.945443 -117 CCATTGGGTTTGCCCCATCAGCCC 78 2 0 TGCCCCATCC 0.756516 -158 GACCTCAACTTGCCCCATACGGCCCTGGGGGCC 79 26 0 TGCCCCATGC 0.565137 -139 AACGCAAAAATCCCCCATAAAGCTTG 91 4 0 TCCCCCATGC 0.681464 -297 ATCCCAGTCATTCCCCATCAATCGTCCGTTTCC 91 139 1 TTCCCCATTC 0.888957 -162 GCACGAAAAATCCCCCACTAGGCAGGGAGGACC 92 111 0 TCCCCCACGC 0.276287 -88 GGCGTTTCCTTTGCCCCCAAATCAGT 92 183 1 TTGCCCCCTC 0.514029 -16 CTGAGCCATATCGCCCCTGCGTCAAGGATAATG 93 107 1 TCGCCCCTTC 0.758891 -142 CGAGCCGCTGCTTCCCATTTTGCTGTTCTTTTT 98 169 1 CTTCCCATGC 0.273662 -132 TTGTCAATGCTCCCCCCCCGACCTAGGAAAATT 103 57 1 TCCCCCCCCC 0.621512 -187 AGTTTTATTCCGCCCCCTAAATCGACCCACTAA 107 264 0 CGCCCCCTTC 0.674292 -37 TAATTACCTTTTCCCCTTACTCCA 108 2 0 TTCCCCTTCC 0.830443 -299 CTTCCCCTACACCTAGGGATGAT 121 190 0 CTTCCCCTCC 0.618409 -13 AGCGATTGGTTTCCCCTTAATGCGTTAAGGAGT 124 109 1 TTCCCCTTGC 0.671975 -77 TATCGTCCCATTGCCCTTTCTTCTCCCCCTCTG 124 151 1 TTGCCCTTTC 0.6262 -35 ACGATGGACATTCCCCATGTATCTCTGG 129 83 1 TTCCCCATTC 0.888957 -18 TATTTATGTCTTCCCCATTGTTCTGA 133 72 1 TTCCCCATTC 0.888957 -16 AGAAGGGCAACTCCCCACCAGCCCCAAATTTTT 146 252 0 CTCCCCACCC 0.433732 -49 TGGTGGGGAGTTGCCCTTCTCCCCGCAGCATTC 146 265 1 TTGCCCTTCC 0.668396 -36 AATTACCTAATCCCCCAAGCATCTCTTAAGGAA 150 16 0 TCCCCCAATC 0.370758 -92 GAGGAGAGCTTTTCCCCTCTGTCCCATGCTTTG 155 251 1 TTTCCCCTTC 0.751404 -50 GATTCAACTATTGCCCATTCTGCATCGCTCAGG 159 12 1 TTGCCCATGC 0.623789 -210 TTCTTCCGTTTTTCCCTTTGCTCCATGGCGATC 165 82 1 TTTCCCTTTC 0.460698 -141 TCTATTCTAACTCCCCCAAGACCCCCCTGCTTT 182 37 0 CTCCCCCACC 0.516991 -52 TTTCCCCGATCGCCCCATTGGCCAAAGGAACAA 184 157 1 CGCCCCATCC 0.580632 -144 ******** ** Masking position 6 Map Score: 42.2041 Number of sites scoring better than the average of aligned sites = 1404 Number in coding regions = 1183 Number in noncoding regions = 221 Number of orfs with sites within 600 bp upstream = 204 Fraction of orfs with sites within 600 bp upstream = 0.0327658 Motif number 4 GCACATCTTGACAGTAGCGCCGCCAAAACCAGTA 12 10 1 GCGTAGCCCC 0.865907 -88 CCAAGGCGGGGCCCGGAGCTATTCCTGAGCTTGCC 19 103 1 GCGGAGCACC 0.849869 -86 TGCTGGCTCCAGCGGTGGCAAAGCCTAATGATCCT 24 92 1 ACGTGGCACC 0.769144 -78 TCCCAATCCTGACAGTGGCAAGGCCCAGCGGCTCA 30 141 0 GCGTGGCACC 0.979222 -54 CCATGACAATGGCCGTGGATAAGCCAAAAGTTTTC 40 83 1 GCGTGGAACC 0.961007 -33 TGACCCCCAGGACAATGGCTTTCCCCCTGTACATT 44 34 0 GCATGGCTCC 0.958726 -240 AGACGCCAGGGTCTGGGGAATGACCATTTGATGTC 57 202 1 GCGGGGATCC 0.969005 -99 ACGCCGCGATGGCTAGAGATTCGCCGCGATTGCTT 63 81 1 GCAGAGATCC 0.58907 -132 CCTGGCGATCGCCTTTGGCCCTGCCTTTTCAGGCT 74 46 1 GCTTGGCCCC 0.713565 -215 GGAACGCGATGTCTGTGGACTCGCCCAGGACGTAA 108 113 1 GCGTGGATCC 0.97444 -188 TAGTCTTTTTGGCGGCGGCACTACCATGGTTTTGG 111 54 0 GCGCGGCCCC 0.855046 -82 TCCATTGCCGGCCGGTGGCATGGCCTAAGTATTCC 115 28 0 GCGTGGCTCC 0.985576 -176 TTAGTGCTTTGTCCGTGGACTATCCATTGCCGGCC 115 50 0 GCGTGGATCC 0.974448 -154 TGTGGTTCTAGGCTGGGGCGTTACCGCCGAAACCA 118 133 0 GCGGGGCTCC 0.983552 -168 AGCGGCGATCGCCTGGGGATCAGCCATAATTGATC 128 147 0 GCGGGGACCC 0.949741 -154 CAAAGGCTGGGACGATGGACATTCCCCATGTATCT 129 72 1 GCATGGAACC 0.886138 -29 TCTGAGGTGTGCCTGGGGATTCGCCCTCACCTCCA 132 37 0 GCGGGGATCC 0.969005 -189 GATTGTTGACGACCATGGCCTTGCCGTCAGTTAGA 132 101 0 GCATGGCTCC 0.957391 -125 CTTCTCCTTGGGCGGTAGACTGTCCCCTGCTTTAA 143 71 1 GCGTAGATCC 0.847055 -66 CAATCCCGTCGCCAATGGCGAGACCCTTGATGGCG 176 25 1 GCATGGCACC 0.937551 -276 CGCTAAACCAATCCAGGGCATCCCCTACCTCACTT 176 151 0 ACAGGGCTCC 0.571792 -150 TTATCTCTTTGCCCATGGATAGCCCTTGGCTAGTT 177 253 1 GCATGGAACC 0.886138 -48 * * ***** * ** Masking position 8 Map Score: 24.5854 Number of sites scoring better than the average of aligned sites = 523 Number in coding regions = 484 Number in noncoding regions = 39 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 5 AAATCCTAATTAATCCCCCATTTGCTCAGT 4 60 1 TAATCCCCCA 0.885128 -241 AATGAGCAAAAAATCCCCCAAGATATCGAA 5 55 0 AAATCCCCCA 0.974338 -42 TTTTATTGCTAAATCCCGCATTTACTACAC 18 277 0 AAATCCCGCA 0.789349 -24 TTATCCCCTAAATTCCCCAATACTGGGAGG 20 242 0 AATTCCCCAA 0.774378 -40 ATTTCGGGTTCTATCCCCCAGTTTCCTAAC 24 149 1 CTATCCCCCA 0.671166 -21 GACAACCGAAAAATCCCGAAAGTTTCTCAC 32 94 1 AAATCCCGAA 0.494094 -60 ATTATGATGGAATTCCCCCATATCGTAGTG 41 34 0 AATTCCCCCA 0.929421 -76 CAGGGTCAATATGTCCCCCAAGGGCT 41 94 1 ATGTCCCCCA 0.572002 -16 AGATTAATCAAAATCCCCCAAAGTTTGAGG 44 187 1 AAATCCCCCA 0.974338 -87 GTAATTTAGGTAATCCCCCAAACCATTTGG 45 38 1 TAATCCCCCA 0.885128 -30 TTTGCCCCCTAAATCCCCCAATAATGGGTG 51 66 1 AAATCCCCCA 0.974338 -224 CCAATCCCCAAAATAGCCCCA 60 58 0 CAATCCCCAA 0.837074 -11 AGAGCCGACTCAATCCCCCAATCCACCAGA 71 54 1 CAATCCCCCA 0.95172 -98 AAAAACGCAAAAATCCCCCATAAAGCTTG 91 10 0 AAATCCCCCA 0.974338 -291 ACTGCACGAAAAATCCCCCACTAGGCAGGG 92 117 0 AAATCCCCCA 0.974338 -82 CTTAGAATCCCAATCCCCAAC 123 2 0 CAATCCCCAA 0.837074 -37 GACATAAATAAATTCCCCAATTTTTAAGCA 133 52 0 AATTCCCCAA 0.774378 -36 AACTGAGTGAAAGTCCCCCAGTATTGCCGG 141 114 0 AAGTCCCCCA 0.928096 -62 TTTGTTATCCAAATCCCCCTAGCCTGCGGC 147 25 0 AAATCCCCCT 0.680896 -172 CAAAATTACCTAATCCCCCAAGCATCTCTT 150 22 0 TAATCCCCCA 0.885128 -86 GCAATAATCTAATTCCCCCATCATTGGGGG 153 30 1 AATTCCCCCA 0.929421 -42 AAACTTTTGAAAGTCCCCAAACCCCCAATG 153 51 0 AAGTCCCCAA 0.770861 -21 TTGACGCCTCCATTCCCCAACGGCGGTGAA 155 218 1 CATTCCCCAA 0.640539 -83 CTTCTATTCTAACTCCCCCAAGACCCCCCT 182 42 0 AACTCCCCCA 0.828032 -47 ********** Masking position 4 Map Score: 32.5556 Number of sites scoring better than the average of aligned sites = 401 Number in coding regions = 295 Number in noncoding regions = 106 Number of orfs with sites within 600 bp upstream = 74 Fraction of orfs with sites within 600 bp upstream = 0.0118856 Motif number 6 CAACGGCTGTTCTGCCCTGGTTAAGACTGATAATT 4 270 0 TCGCCTGGAG 0.916466 -31 ATAGCTGGCCTCAGCGGTGGAGTTCTCCACTTTAA 17 73 1 TCGCGTGGTC 0.854346 -79 ACGGACGATGTCAGCAGTGGAACTCTTTGGCAGTG 19 49 0 TCGCATGGTC 0.862486 -140 TTTGCTGGCTCCAGCGGTGGCAAAGCCTAATGATC 24 90 1 CCGCGTGGAG 0.75678 -80 GTCAATGCACCCGGCCATGGTTTGTTTGCGAAAAA 26 41 0 CCGCCTGGGT 0.880473 -168 TTTACCTTAGTCTGCGTTGGTTTGCAGGTTTTGGC 27 23 0 TCGCGTGGGC 0.805437 -106 TTATTTGCCCTCTGCCATGGCTCACCCACTTTCCA 28 106 1 TCGCCTGGAC 0.880542 -195 ATGCCTAGGGCCAGCAATGGTTATGTTAGTTTGAT 40 32 0 CCGCATGGTG 0.899661 -84 TCTGCCCTGGAAATGGGTTTGGAAA 44 1 1 TCGCCTGGTG 0.967284 -273 TTACTTCCAACCAGCCTTGGCCATGAAGGTTAACT 68 200 0 CCGCCTGGTG 0.965984 -101 CTAACCGTCCCCGGCGGTGGTCTAGTCCCTTTAGA 76 229 1 CCGCGTGGAG 0.75678 -72 AGGCGCAATTTCAGCTTTGGGGGTGCCTCCTATCG 77 119 0 TCGCTTGGTG 0.746835 -26 GCAAACGGACTCAGCAGTGGTCTGTAAACTATATT 80 26 0 TCGCATGGGT 0.707734 -125 CAGGAAATATTCGGCCGTGGAGGCGCATCCCAAAC 80 87 1 TCGCCTGGCG 0.880706 -64 TCAGAGGCTATCGGCCTTGGTTTTCCTTCT 84 57 1 TCGCCTGGTC 0.952072 -20 AAATTTAAACTCTGCCATGGTGATTAA 92 3 0 TCGCCTGGTT 0.915732 -196 CCCCAATGGATCAGCAAGGGCCCGCCGGC 103 5 0 TCGCAGGGGC 0.626883 -239 CAAGTTAATTCCCGCCGGGGCATTTTAGTACGTTG 108 189 0 CCGCCGGGTT 0.79845 -112 ATGCCACCGGCCGGCAATGGATAGTCCACGGACAA 115 42 1 CCGCATGGGT 0.699322 -162 TCGGCTATGGTGATTTTTTGACGTT 119 210 0 TCGCTTGGTT 0.520209 -15 ACAAAAATAGTCCGCCATGGGAATGTTTGAGC 122 79 1 TCGCCTGGTG 0.967284 -22 AATCTATTGGCCAGCCTTGGCAATCAAAAATCCGG 136 45 1 CCGCCTGGTC 0.950198 -194 ACAGGCAAAATCTGCCTGGGCACTGCTTCAAAACC 136 98 0 TCGCCGGGTG 0.918181 -141 ATCCTGATTTTCCGCCTTGGCAAAGGCCAAAATTA 150 44 0 TCGCCTGGAG 0.916466 -64 CTTATTTTTCCCTGCAATGGTGAGCACTCCGAGCT 154 150 1 CCGCATGGGC 0.809581 -117 TCCCAAAACTTCTGCCAGGGAGGCTTTCCATGGCT 154 189 1 TCGCCGGGCT 0.507364 -78 CGAAAGGGTTCCAGCAGGGGTTTTGTCCAGCGCCC 171 155 0 CCGCAGGGTG 0.772892 -146 ** *** *** ** Masking position 9 Map Score: 23.5199 Number of sites scoring better than the average of aligned sites = 744 Number in coding regions = 702 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 52 Fraction of orfs with sites within 600 bp upstream = 0.00835207 Motif number 7 GCCCATGTATCTAGCCCCATCAATCTCCCCAGATTCTAA 7 142 1 CTCCATCCCC 0.849999 -61 ACCCGAGGAGCTTTTCCCGTTCGATTCCCTTTT 7 180 1 CTCCGATCCC 0.722353 -23 TGCCAACGCCCTCTACCTGCATTAGTCCCTGGGCAGTTT 30 59 1 CTCCGAGCCC 0.946635 -136 GTTTTCTCTGTCCCCATCATTTTCCCCT 33 3 0 CTCCATTCCC 0.852534 -26 AATAGCGGGTTTGAGCCTGGATTAGGCCCACCTTTCTCC 38 27 0 TTCCGAGCCC 0.731505 -158 AACTATAAAGGCTAACCTGGTTTTGTCCCACGGCATTTT 38 82 0 GCCCGTGCCC 0.710443 -103 GTAGCAACAGCAACCCCAGCAATTGACCGGAGGCGTT 47 9 0 CACCGTGCCG 0.861085 -243 TCCCCGAAAGCTTATCCGGAAATTTCCCCCCTAACTCTA 47 148 0 CTCCGTTCCC 0.92801 -104 ATAGAAGATTCTTGTCCTATCCATGCCACTGGTAAAGGT 56 62 0 CTCCATGCAC 0.664396 -44 CCAATCCCCAAAATAGCCCCAATGAAGATG 60 49 0 CACCAAGCCC 0.575321 -20 GCGAAATACCCTCAACCGGGCGCTGTCCGCTAGTTAAAG 68 163 1 CTCCGTGCCG 0.973263 -138 CTTGGACTAGCTCTCCCAGGAGTTGCCACACTTCATCCG 69 73 1 CTCCGTGCAC 0.815304 -228 TTACTTAGGATTTAGCCTACTTATTCCCCATTTTAAGGG 69 127 1 TTCCATTCCC 0.470317 -174 GATACAGGTTCTATCCCAAACGGTGACCCCTTAAAATGG 69 154 0 CTCCATGCCC 0.975258 -147 ACTTTTTCCGATGTTGACCGATGCGTTATG 70 2 1 CTTCGTGCCG 0.491891 -299 TTTCTCGACCATAACCCTGATTTTGCCCGACGGGTTTTG 70 120 0 ATCCGTGCCG 0.5797 -181 AGACTTCTAACTCATCCAACGCTTGTCCGGGTTGGTAGT 70 245 1 CTCCATGCCG 0.942279 -56 GACCATTGTAGAGATCCAGGCCGTGGCCCTCTGTGATCT 74 117 0 GACCGTGCCC 0.747444 -144 ACTATCCCCGGTGGTGGCCCCCAGGGCCGT 79 2 1 CTCCGTGCCC 0.98875 -163 TATTAGTGGATTGATCCCAGTCATTCCCCATCAATCGTC 91 126 1 TTCCATTCCC 0.470317 -175 TCGGATTGATCCTGCTTTTGTCCCAGGGTTGGTA 105 41 0 TTCCGTGCCC 0.931031 -24 GCTAGCACACCCTTGCCAGGAAGTCCCCGAAAGCCAGAC 106 31 0 CCCCGTCCCG 0.424878 -102 CGACGCATTTGTTTCCCCACGTTTGTCCCTATGTCCTTA 114 88 0 GTCCATGCCC 0.886289 -213 CGTTGCTGATCTCACCCTACCAGTGCCCCAACGCC 116 7 0 CTCCATGCCC 0.975258 -139 CTTGGCCAGATGCTGGCCGAGTGGCACCG 117 22 0 CTCCGTGCCG 0.973263 -19 GGTAATCTTCCTACTCCTGGCTATGACTGCGGAGAAAGG 119 114 0 CTCCGTGCTG 0.509025 -111 AAATGGAAAGCTGAGCCGACTGGTCGCCGACATACAAAG 126 24 1 CTCCATCCCG 0.70121 -72 TGGAAAATTTCTAGCCCAGCCAGTGTCCCCCAGTCTACT 136 166 1 CTCCGTGCCC 0.98875 -73 TGATTCAAAAGTTTACCTAAGACAGTCCCTCTTTGAGCT 137 187 0 GTCCAAGCCC 0.611359 -72 TCTTTTATCTCTTTGCCCATGGATAGCCCTTGGCTAGTT 177 249 1 CTCCATACCC 0.587842 -52 AGGAACAAAATACTGCCTGGTTGTGGCCCCATGGAGCCC 184 182 1 TACCGTGCCC 0.696856 -119 ** ** * ** *** Masking position 7 Map Score: 27.727 Number of sites scoring better than the average of aligned sites = 542 Number in coding regions = 494 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 52 Fraction of orfs with sites within 600 bp upstream = 0.00835207 Motif number 8 TGGAAAGAGATTTTCCTTCCTAGGCTTGC 12 79 1 TTTTCCTTCT 0.611737 -19 GAGTTGCTTATTTTCTTTACCTGCTCAACAT 15 13 1 TTTTCTTTCC 0.883902 -22 AGTGGCAATCTTTGCTTTTCCTTCCAGACC 26 189 1 TTTGCTTTCC 0.80767 -20 CAATGGCAATTTTTCTTTGCCCCATTGTCTC 39 66 0 TTTTCTTTCC 0.883902 -32 ACTTTTTGCACTTCCTTTTCTTCCACTACGA 41 11 1 CTTCCTTTCT 0.395154 -99 ATGGGGGAAACTTTCTTTGCCTTATGTAAAT 46 78 1 CTTTCTTTCC 0.854593 -144 CCCTAGTTGTCTTCCTTTCCCCAGCATTTTT 57 248 1 CTTCCTTTCC 0.731043 -53 CCATGGTAATCTTTCCTTTCCTCCTACCAGG 62 38 0 CTTTCCTTCC 0.83499 -74 AGATTTGGGATTTTCTGTTCCTAGAGCCGAC 71 32 1 TTTTCTGTCC 0.672818 -120 TAGTAGTAAATTTTCCTTGCC 81 1 0 TTTTCCTTCC 0.867639 -125 CATGGGGGCGTTTCCTTTGCCCCCAAATCAG 92 177 1 TTTCCTTTCC 0.778809 -22 GCGGCCAAGGTTTGCCGTGCCTAGGAATTAA 99 76 1 TTTGCCGTCC 0.494081 -139 TGTATTCCTTTTTTCTTTTCTTGGTGAGGAA 100 20 0 TTTTCTTTCT 0.646637 -137 ACAGAGTAACTTTGCCTTTCTGTCCATTGCC 104 40 1 TTTGCCTTCT 0.464972 -82 CGTAATCAATTTTTCTGTACCGATATTAGCG 108 143 1 TTTTCTGTCC 0.672818 -158 TTCAAATCTGTTTTCCTTACTGTAGCTGGGT 128 280 1 TTTTCCTTCT 0.611737 -21 CAAATTCGGCCTTCCCGTGCCTATCCACCGC 131 205 1 CTTCCCGTCC 0.387294 -22 ATTTCTTAACCTTTCTTTACTTTGATTCTCT 139 188 1 CTTTCTTTCT 0.585518 -70 GGTGGTGGCTTTTGCCTTCCCTAACCGACCC 140 27 0 TTTGCCTTCC 0.783346 -131 GTGGGTAAAACTTTCTTTACTCAAT 147 182 1 CTTTCTTTCT 0.585518 -15 CCAAATCGTTCTTTCTTTCCC 148 1 0 CTTTCTTTCC 0.854593 -30 TGATTTTTCAGTTTCTTTACCAAGTGTAACA 152 31 1 GTTTCTTTCC 0.750423 -82 TGGAGGGCTTGTTGCTTTGCCCCCATGGTTG 155 22 1 GTTGCTTTCC 0.623847 -279 CTGATTTCATTTTGCTTTGCCAGACTGGAAT 159 172 1 TTTGCTTTCC 0.80767 -50 ATCAAGCCCATTTCCCTTGCCACTTGGCTTA 160 138 0 TTTCCCTTCC 0.751956 -43 AGCAAGTAAGTTTTCTTTCCCTTCCTCAGCT 171 261 0 TTTTCTTTCC 0.883902 -40 GTTGATGTCAGTTTCCTTGCCATCGCTAAAC 176 178 0 GTTTCCTTCC 0.721357 -123 GGCCAGTTTCTTTCCTCGCACCATAG 178 13 0 GTTTCTTTCT 0.419519 -16 TTTATTTTATTTTTCTTTGCCTGGGTTTCTG 180 86 1 TTTTCTTTCC 0.883902 -33 ******** ** Masking position 8 Map Score: 22.1237 Number of sites scoring better than the average of aligned sites = 462 Number in coding regions = 370 Number in noncoding regions = 92 Number of orfs with sites within 600 bp upstream = 111 Fraction of orfs with sites within 600 bp upstream = 0.0178285 Motif number 9 CCCCTAAATTCCCCAATACTGGGAGGCTTTGGAATT 20 232 0 CCCCATGGGG 0.963774 -50 CGAGCTAAAACGCCAATGGTTGAAGGCGAT 38 165 1 CGCCATTGGG 0.964792 -20 AATCAAAATCCCCCAAAGTTTGAGGGATTAAGAAAA 44 192 1 CCCCATTGGG 0.978288 -82 GCAACAGCAACCCCAGCAATTGACCGGAGGCGTT 47 9 0 CCCCGTTGCG 0.857087 -243 GCATCGACTTAGCCAAGGTTTGGTGGCCAAGGGTAA 50 16 1 AGCCATTGGG 0.591582 -285 AAGTAAAAGTCACCCATTATTGGGGGATTTAGGGGG 51 70 0 CACCATTGGG 0.853266 -220 CCCCCCTGGCTCCCCAAGTTTGGGGGAAGTTAAGTA 51 101 0 TCCCATTGGG 0.599238 -189 AGGCTGTGCCTCCCCGGAATTGTGGGGTTTTCTTTA 53 55 1 TCCCGTTGGG 0.805144 -35 CATTACGTTACCCCTGGTTTTGACGGGATCAATGGC 90 26 1 CCCCGTTGGG 0.977942 -134 CCCTGGCGATCGCCAATTTTGGCGGGATTCCCCCTA 104 87 1 CGCCATGGGG 0.85721 -35 CACTCATTTCCCCCCAAATTTGGAGGGCCAGGGGGG 107 203 0 CCCCATTGGG 0.53768 -98 GAGTGAAAGTCCTCCAGTATTGCCGGAGCTTTAGTG 107 234 1 CCTCATTGGG 0.850389 -67 AAGTTGTCTTCCCCTAGCTTTGGGCGGGCAAACCCC 119 161 1 CCCCATTGCG 0.938297 -64 GAGTGAAAGTCCCCCAGTATTGCCGGAGCTTTAGTG 141 104 0 CCCCATTGGG 0.991613 -72 CACTCAGTTTCCCCCCAAATTGGAGGCCAGGAGGAC 141 135 1 CCCCCTTGGG 0.61352 -41 CCCCACCAGCCCCAAATTTTTGCTGGCGATAAATAT 146 237 0 CCCAATTGGG 0.850601 -64 TAATCTAATTCCCCCATCATTGGGGGTTTGGGGACT 153 34 1 CCCCATTGGG 0.593963 -38 TGTTGCTTTGCCCCCATGGTTGAAGGTTAACGGATT 155 31 1 CCCCATTGGG 0.990809 -270 **** * *** ** Masking position 10 Map Score: 27.059 Number of sites scoring better than the average of aligned sites = 311 Number in coding regions = 138 Number in noncoding regions = 173 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 10 ATCGTTGCTCCTGGGATAATTGTTAAAATTTA 27 105 0 CGGGATAATG 0.93501 -24 ACCCACTTTCCAGGGATTGGTGGAGGGGGAAC 28 129 1 CGGGATTGTG 0.938695 -172 GGAAACTGCCCAGGGACTAATGCAGGTAGAGG 30 68 0 CGGGACTATG 0.903952 -127 AGACCGAAAGCAGGGATAATAGCCTTGGTAGC 47 43 0 CGGGATAAAG 0.744881 -209 TGCTTTCGGTCTGGGACAATTGTGACTGTTTT 47 63 1 CGGGACAATG 0.858815 -189 TGGTTGGTAACTGGGATTAATGATTTAGATAT 51 249 0 CGGGATTATG 0.957007 -41 TTCCTCCTACCAGGGATTAATGCCCATCTCCG 62 20 0 CGGGATTATG 0.957007 -92 CGCGGGTAGCCAGGGATAGATGTCCGATGAAT 68 134 0 CGGGATAGTG 0.908228 -167 GCTAGAACCCCTGGGAATATTGTGC 82 71 1 CGGGAATATG 0.88628 -15 CTAGGCAGGGATCAGTGTGGGATCTAA 83 6 1 CGGGATCATG 0.792578 -27 ATGGCGTTCCCTGGGTTTATTGGTCTACCACT 91 248 1 CGGGTTTATG 0.614282 -53 TTTAAATTTGCCGGGATTGATGTCGGTTTGTA 92 29 1 CGGGATTGTG 0.938695 -170 TAAAATGTCCCGGGGATTTATGTTTTACCAAC 105 16 1 CGGGATTTTG 0.806839 -49 TTTACCAACCCTGGGACAAAAGCAGGATCAAT 105 39 1 CGGGACAAAG 0.552469 -26 TACAGTGAGCCAGGGAAAACTGCAAAAAAGTG 119 53 1 CGGGAAAATG 0.834359 -172 GGGTAGAATACGGGGATTGTTGACGACCATGG 132 118 0 CGGGATTGTG 0.938695 -108 CATTGGGTAACAGGGATTGCAGAGATTGACAA 149 15 0 CGGGATTGAG 0.756534 -52 AGGTTTGAGGCCGGGAATTCTGGGTTAGGCTC 151 83 1 CGGGAATTTG 0.593904 -51 ATGGGGCGATCGGGGAAAAATGGCTTGATCTG 184 143 0 CGGGAAAATG 0.83436 -158 * ******* ** Masking position 5 Map Score: 17.8863 Number of sites scoring better than the average of aligned sites = 134 Number in coding regions = 113 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 11 AATTTCCGGTGGCGATCGCCCCTTGGCCAGG 1 98 1 GGCGACGCCC 0.850068 -126 GACACCCGGTGGACAAGGCCCATTTCCCCGG 6 16 1 GGACAGGCCC 0.641364 -112 CAAACCCTTTTTCCATCGCCCT 7 2 0 TTCCACGCCC 0.861799 -201 CTTCAATTTTAGCCACCGCCCATTGGCAAGC 19 131 0 AGCCACGCCC 0.921452 -58 TGTCGAGGTTTGCCATTGACCATGAAGTTTG 28 231 0 TGCCATGACC 0.6464 -70 AAAGTACCCTTGCCAACGCCCTCTACCTGCA 30 49 1 TGCCACGCCC 0.98138 -146 ATCCTGACAGTGGCAAGGCCCAGCGGCTCAA 30 140 0 TGGCAGGCCC 0.551112 -55 AAAGAAAAATTGCCATTGCCTCCGGGAAG 39 79 1 TGCCATGCCT 0.499491 -19 CCCATAAGGAAGCCAATGCCCCAGAAATAAT 46 52 0 AGCCATGCCC 0.875357 -170 CCGTTTCCATGGCAATCGCCCTTCGTTGAGA 58 69 0 GGCAACGCCC 0.674961 -97 GTGGGCCCATTGCTAATGCCCGCTTATTTTT 64 20 0 TGCTATGCCC 0.519027 -95 AAAAAAGCGTGGCCAGTTCCCCCAATTTCGC 66 54 1 GGCCATTCCC 0.531975 -46 TTTAACTAGCGGACAGCGCCCGGTTGAGGGT 68 170 0 GGACACGCCC 0.878183 -131 TAGAGATCCAGGCCGTGGCCCTCTGTGATCT 74 117 0 GGCCGGGCCC 0.668548 -144 ATTTCCATTTTGCCATTGCCC 77 1 0 TGCCATGCCC 0.966394 -144 CACTAAAAAATGGCAGCGCCCTATACGAGAT 98 135 1 TGGCACGCCC 0.825526 -166 TATAACACGTTGCCATTGACCAGGAACCGAA 99 133 1 TGCCATGACC 0.6464 -82 ATTTGTTGGATGCCACTGCCAACCAACCCCA 102 78 1 TGCCATGCCA 0.497836 -93 TTGCCTTTCTGTCCATTGCCCCAGGTAAAAA 104 51 1 GTCCATGCCC 0.820484 -71 TAACTCCCCTTGCCCACGCCCTAGTTTTACT 107 91 0 TGCCCCGCCC 0.801367 -210 ACTTAGGCCATGCCACCGGCCGGCAATGGAT 115 33 1 TGCCACGGCC 0.7081 -171 GATCTCACCCTACCAGTGCCCCAACGCC 116 8 0 TACCATGCCC 0.539634 -138 TGCTTTATCGTCCCATTGCCCTTTCTTCTCC 124 146 1 TCCCATGCCC 0.634675 -40 ATCCACAGGAGTCCAACGCCCCT 139 245 1 GTCCACGCCC 0.881333 -13 ATCCCATGACAGACACCGCCCTACTAGAAAA 142 70 1 AGACACGCCC 0.574082 -217 GGGCTATTTTGGCGATCGCCCTAAAATTTT 150 88 1 GGCGACGCCC 0.850068 -20 CAGGGGTTTTGTCCAGCGCCCCCCGAAGGAC 171 145 0 GTCCACGCCC 0.881333 -156 GTCCTGACACTGCCCAATCCCGTCG 176 5 1 TGACATGCCC 0.793458 -296 TGACGGACACGGCCGCTGCCCAGGACGAATC 176 75 1 GGCCGTGCCC 0.698729 -226 ***** ***** Masking position 10 Map Score: 20.8459 Number of sites scoring better than the average of aligned sites = 1696 Number in coding regions = 1593 Number in noncoding regions = 103 Number of orfs with sites within 600 bp upstream = 120 Fraction of orfs with sites within 600 bp upstream = 0.019274 Motif number 12 TAAATATTAGCCCCCAGACTTGTTTTACTAAGT 14 47 0 CCCCCAGTGT 0.970057 -254 CGGGTTCTATCCCCCAGTTTCCTAACC 24 153 1 CCCCCAGTCT 0.983212 -17 TGGAAATCCGCCCTCAGTAAAGTACTGAACTAT 28 195 0 CCCTCAGAGT 0.785672 -106 TAAAGTAATCCCCCCATGGACGTAGAGTTAGGG 47 126 1 CCCCCATAGT 0.694842 -126 TACCAACCATCCCCTAGGCTCCTGAAAA 51 272 1 CCCCTAGTCT 0.899998 -18 ATTCAAGTAACCCTTAGTAAGCTAATTATTCTC 55 55 0 CCCTTAGACT 0.504545 -57 TTCTAATTTCCCCCTAGGCCACTTTCTTCGCTA 76 187 1 CCCCTAGCCT 0.757227 -114 GCAGTAACAACCCCCAGGTAATTGTCACTGCTT 78 81 0 CCCCCAGATT 0.92584 -79 CCGGTGGTGGCCCCCAGGGCCGTATGGGGCAAG 79 18 1 CCCCCAGCGT 0.918219 -147 ACGCAAAAATCCCCCATAAAGCTTG 91 3 0 CCCCCATACT 0.804544 -298 GGAGCCGCCACCCTCAGCATTCTGACCGTTCTA 116 98 1 CCCTCAGTCT 0.880076 -48 TTTAAACTGTCCCCTAGAATTGTGATCGCCCCA 134 24 0 CCCCTAGTGT 0.832732 -91 CAGCCAGTGTCCCCCAGTCTACTCAAAGGCGAT 136 182 1 CCCCCAGTCT 0.983212 -57 CCTCCCCCCCAGCAACTTAGACTAGTTT 139 6 1 CCCCCAGATT 0.92584 -252 GAGTGAAAGTCCCCCAGTATTGCCGGAGCTTTA 141 107 0 CCCCCAGTGC 0.75592 -69 TGCCCTTCTCCCCGCAGCATTCTGAGCTTGTTT 146 276 1 CCCGCAGTCT 0.887918 -25 ATTACCTAATCCCCCAAGCATCTCTTAAGGAAG 150 15 0 CCCCCAAACT 0.700089 -93 TTGCGCATACCCCGCAGCTTGCTGCGATTGGGT 157 260 0 CCCGCAGTCT 0.887918 -41 ATCGCACCGCCCCCCAGAAATCTGAGATTCGCT 168 106 0 CCCCCAGACT 0.981442 -35 GCCTACCTAACCCCCAGTAATTTTTGTCTTAGT 169 198 1 CCCCCAGATT 0.92584 -32 CCCCCAAGACCCCCCTGCTTTTTCCCCTTGCAT 182 25 0 CCCCCTGTTT 0.471387 -64 ******* * ** Masking position 3 Map Score: 14.1651 Number of sites scoring better than the average of aligned sites = 441 Number in coding regions = 393 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 13 AGAAATTTACAAAATGAGCAAAAAATCCCCCAA 5 64 0 AAAAACAAAA 0.812333 -33 GGGGTATGGAAAAATACCCAAAAACAACGCCGC 63 55 1 AAAACCAAAA 0.705373 -158 TTAGGTAATTAAAATTAACAAAAATTTAACAGA 67 130 1 AAAAACAAAA 0.812333 -24 ACTTCTTAACAAAACACCGAAAAAATAACAAAC 69 207 0 AAAACGAAAA 0.566172 -94 TATGGTCGAGAAAATCATCAAAAGTATGGACTG 70 146 1 AAAAACAAAA 0.812333 -155 GGTAAAGGTAAAAAAGACCAAAAATAAGGAAAA 72 11 1 AAAAACAAAA 0.812333 -123 TTCTAAAATAAAAACTAAGAAAAGGTTAACAAA 72 72 0 AAAAAGAAAA 0.702342 -62 AGAAGGCAATAAAAAACGCAAAAATCCCCCATA 91 18 0 AAAACCAAAA 0.705373 -283 AACTGGGCCGAAAAGAACCAAAATTACTGCACG 92 139 0 AAAAACAAAA 0.812333 -60 TAGCAATGGGAAGAATAACAAAATAAATAAGTA 93 200 0 AAGAACAAAA 0.824522 -49 CCCTTTTTGCAAGATTATCAAAATAAAATCCGT 98 48 1 AAGAACAAAA 0.824522 -253 GTTCAGGAAAAAGAACAGCAAAATGGGAAGCAG 98 176 0 AAGAACAAAA 0.824522 -125 CATAGCTAAAAAGATACCCAAAAAATCAATATC 118 80 0 AAGACCAAAA 0.722133 -221 CCTTCGTTACAAAACCACCAAAATTCTTTT 122 8 0 AAAAACAAAA 0.812333 -93 AACATTGATCAAGACAAGGAAAATTCCATTCTT 143 25 1 AAGAAGAAAA 0.719205 -112 ACACTTGGTAAAGAAACTGAAAAATCATTCTAC 152 25 0 AAGACGAAAA 0.586205 -88 GAAGGAGACAAAGAGCATGAAAAGTCGACAGCC 159 56 0 AAGAAGAAAA 0.719205 -166 GTAGGAGAAGAAAAAAAGGAAAACTAAGAGTAA 159 94 0 AAAAAGAAAA 0.702342 -128 CAGGGAGGATAAAATAAAGAAAAAAGGTAAAAT 167 93 1 AAAAAGAAAA 0.702342 -117 TATCCGTTGGAAGATTAACAAAAATCTGCTTGC 171 217 0 AAGAACAAAA 0.824522 -84 **** * ***** Masking position 4 Map Score: 14.372 Number of sites scoring better than the average of aligned sites = 127 Number in coding regions = 94 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912 Motif number 14 GGGCAATATAGGAAAATACAATCAACTCGAT 1 158 1 GGAAAATCAA 0.635529 -66 AAGTGGGGCAGGAAAAAGCAAAAAATTAAGT 4 13 1 GGAAAAACAA 0.772817 -288 GCGATGGGAAAAAATAAGCGGGCATTA 64 7 1 GGAAAAATAA 0.607587 -108 GGCAAAACCCAACCCACCATT 64 104 0 GGCAAAACCA 0.930297 -11 GGATACTTGGCAAAATCAACTCAGTTCAC 76 282 0 GGCAAAACAA 0.881988 -19 TTTGGAGGGCAAAATCAAGGTAATTCAA 87 8 1 GGCAAAACAA 0.881988 -50 CATCAATCCCGGCAAATTTAAACTCTGCCAT 92 20 0 GGCAAATTAA 0.635529 -179 AATTATTGTTGGCAAAATTCAGTTGATGCAT 94 11 0 GGCAAAATCA 0.858654 -24 CAAAAAGATCGGCAAAATTCAGTAAAACTAG 107 71 1 GGCAAAATCA 0.858654 -230 TGCTAGTCAAGGCAAAAGTCAATCCCCGTAG 128 248 0 GGCAAAATCA 0.858654 -53 TTTCAGTAAGGGCAAATCTAAAGTGCAGATT 131 90 0 GGCAAATTAA 0.635529 -137 ATTATGTCAAGGAAAATTTCAGTAAGGGCAA 131 106 0 GGAAAATTCA 0.586317 -121 TCCAGAATAGGGAAAAACCCACAGATCCTAA 138 64 0 GGAAAAACCA 0.858654 -155 GGTTAGGGAAGGCAAAAGCCACCACCAATAA 140 32 1 GGCAAAACCA 0.930297 -126 ATCAAGACAAGGAAAATTCCATTCTTCAGGA 143 32 1 GGAAAATCCA 0.756922 -105 TTTCCGCCTTGGCAAAGGCCAAAATTACCTA 150 40 0 GGCAAAGCCA 0.677947 -68 TAATGGCAAAGGCAAAAACAATTGGGAAACT 154 102 0 GGCAAAACAA 0.881988 -165 TCCATTTCCAGGAAAATTCCAAGCCTTGAAA 163 66 1 GGAAAATCCA 0.756922 -235 GATTTTAATAGGAAAAAATAAATCATTAAAA 184 88 1 GGAAAAATAA 0.607587 -213 ******* *** Masking position 6 Map Score: 13.0305 Number of sites scoring better than the average of aligned sites = 368 Number in coding regions = 325 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 15 TAACCTAACAGGGTTTTAACCCCCGCTTGACC 8 73 1 GGGTTTACCC 0.807598 -40 GATTCGGAATGGGTTCTAGCCCGATAGAGAGA 14 80 0 GGGTTCACCC 0.732633 -221 CGGAAAAGTCTGGATTTATCCCCTAAATTCCC 20 255 0 TGGATTACCC 0.821898 -27 CTCAACACAAAGGTTTCACCCCAAGTCTAACG 21 22 1 AGGTTTACCC 0.871843 -45 TGATTATTTCGGGTTCTATCCCCCAGTTTCCT 24 144 1 GGGTTCACCC 0.701136 -26 GTTGGTTTGCAGGTTTTGGCCCTAGGCAACAA 27 11 0 AGGTTTGCCC 0.8686 -118 GGTTTGAGCCTGGATTAGGCCCACCTTTCTCC 38 27 0 TGGATTGCCC 0.815768 -158 AAGGCTAACCTGGTTTTGTCCCACGGCATTTT 38 82 0 TGGTTTGCCC 0.917544 -103 AAGTTCTTGCAGGTTTGAATCCTAACCGACAT 50 81 0 AGGTTTATCC 0.478893 -220 TGGCAAGGTTGGGATTTGAGCCAATGGCATTC 50 149 1 GGGATTGGCC 0.744758 -152 CCTCCTACCAGGGATTAATGCCCATCTCCGCT 62 18 0 GGGATTAGCC 0.728 -94 GCAGAGATACAGGTTCTATCCCAAACGGTGAC 69 166 0 AGGTTCACCC 0.615928 -135 TGGTTAGTCCAGGTTTGACGCCTCTGCCAAAG 74 213 1 AGGTTTAGCC 0.806345 -48 TCCCCGGCGGTGGTCTAGTCCCTTTAGACCCC 76 236 1 TGGTCTGCCC 0.449901 -65 TTGCGGCCATTGGGTTTGCCCCATCAGCCC 78 9 0 TGGGTTGCCC 0.541382 -151 GGCGATCGGTGGGTTTCGGCCCGCCGTTTGTT 81 57 0 GGGTTTGCCC 0.909473 -69 GTATTATTAGTGGATTGATCCCAGTCATTCCC 91 122 1 TGGATTACCC 0.815685 -179 AAAAACATCCTGGTTTTATTCCGATGGGACCA 101 186 1 TGGTTTATCC 0.607534 -67 CTTAACCATCTGGTTTTAGGCCATTTGTTGGA 102 56 1 TGGTTTAGCC 0.875193 -115 CAGGTCATTTTGGCTTGATCCCTTTAAAATTG 128 54 0 TGGCTTACCC 0.546969 -247 GTGAATTCAGAGGATTCGTGCCTAAAACTGCT 137 150 1 AGGATTGGCC 0.614904 -109 GATTGCGGAGAGGTTTGAGGCCGGGAATTCTG 151 73 1 AGGTTTAGCC 0.806345 -61 GGAGGTGTTAGGGTTTAGGGCCTTTGGCGCCG 155 71 0 GGGTTTGGCC 0.879076 -230 GCGTTCCACATGGATTGACGCCTCCATTCCCC 155 204 1 TGGATTAGCC 0.736804 -97 CCTCCCTTTCTGGTTTTAATCCCCAGAAAATA 170 18 1 TGGTTTATCC 0.607531 -89 TCAAAATAATGGGTTGTAAGCCTGGGAACCGG 173 59 1 GGGTTGAGCC 0.548707 -66 AAATACTGCCTGGTTGTGGCCCCATGGAGCCC 184 189 1 TGGTTGGCCC 0.640668 -112 ****** * *** Masking position 3 Map Score: 15.9441 Number of sites scoring better than the average of aligned sites = 358 Number in coding regions = 319 Number in noncoding regions = 39 Number of orfs with sites within 600 bp upstream = 46 Fraction of orfs with sites within 600 bp upstream = 0.00738837