AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00550_synecho_reg_300.orf -o00550_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: sll0744 21 hypothetical protein. slr1876 27 hypothetical protein. slr1424 21 hypothetical protein. slr0220 175 glyS; glycyl-tRNA synthetase beta chain (glycine--tRNA ligase beta Input sequences: #1 slr1118 38 rffM; UDP-N-acetyl-D-mannosaminuronic acid transferase. [EC:2.4.1.-] #2 sll1063 224 hypothetical protein. #3 slr1119 30 hypothetical protein. #4 sll1062 26 hypothetical protein. #5 ssl2069 268 hypothetical protein. #6 ssr1853 209 hypothetical protein. #7 slr1120 150 hofD; type 4 prepilin peptidase. [EC:3.4.99.-] #8 sll1059 79 adk; adenylate kinase. [EC:2.7.4.3] #9 sll1058 86 dapB; dihydrodipicolinate reductase. [EC:1.3.1.26] [SP:DAPB_SYNY3] #10 sll1057 300 trx; thioredoxin M. #11 sll0648 127 lim; lipophilic protein. [EC:2.4.1.-] #12 sll0646 38 cyaA; adenylate cyclase. [EC:4.6.1.1] #13 sll0645 74 hypothetical protein. #14 sll0644 195 esterase. #15 slr0686 254 hypothetical protein. #16 sll0643 300 ureG; urease accessory protein ureG. [SP:UREG_SYNY3] #17 slr1756 218 glnA; glutamine synthetase (glutamate--ammonia ligase). [EC:6.3.1.2] #18 slr1761 267 ytfC; FKBP-type peptidyl-prolyl cis-trans isomerase. [EC:5.2.1.8] #19 sll1643 243 hypothetical protein. #20 slr1762 99 hypothetical protein. #21 slr1763 39 hypothetical protein. #22 sll1642 206 hypothetical protein. #23 slr1764 125 capA; cAMP binding protein. #24 sll1641 157 gad; glutamate decarboxylase. [EC:4.1.1.15] #25 sll1639 146 ureD; urease accessory protein D. [SP:URED_SYNY3] #26 sll1638 300 hypothetical protein. #27 slr1910 23 amiA; N-acetylmuramoyl-L-alanine amidase. [EC:3.5.1.28] #28 sll1837 264 hypothetical protein. #29 slr1912 131 hypothetical protein. #30 slr1914 211 hypothetical protein. #31 sll1835 123 hypothetical protein. #32 sll1834 300 hypothetical protein. #33 sll0864 180 hypothetical protein. #34 sll0862 53 hypothetical protein. #35 sll0861 157 hypothetical 32.2 kD protein sll0861. [SP:Y861_SYNY3] #36 sll0860 69 hypothetical protein. #37 sll1317 112 petA; apocytochrome F precursor. [SP:CYF_SYNY3] #38 sll1316 288 petC; cytochrome b6-F complex iron-sulfur subunit (rieske iron- #39 ssl2598 85 psbH; photosystem II 10 kD phosphoprotein. [SP:PSBH_SYNY3] #40 smr0009 45 psbN; photosystem II reaction centre N protein. [SP:PSBN_SYNY3] #41 ssl2595 181 hypothetical protein. #42 sll1315 58 hypothetical protein. #43 sll1314 300 dctP; C4-dicarboxylase binding protein. #44 slr1874 86 ddlA; D-alanine--D-alanine ligase (D-alanylalanine synthetase). #45 slr1875 119 exoD; exopolysaccharide synthesis protein ExoD. #46 ssl3379 107 hypothetical protein. #47 sll1767 300 rpsF, rps6; 30S ribosomal protein S6. [SP:RS6_SYNY3] #48 sll2010 180 murD; UDP-N-acetylmuramoylalanine-D-glutamate ligase. [EC:6.3.2.9] #49 sll2008 164 rpoD; processing protease. [EC:3.4.-.-] #50 slr2135 55 hupE; hydrogenase accessory protein. #51 slr2136 153 gcpE; GcpE. #52 sll2006 148 rpoD; hypothetical protein. #53 sll2005 128 gyrB; DNA gyrase subunit B. [EC:5.99.1.3] [SP:GYRB_SYNY3] #54 ssl3829 238 rpoD; hypothetical protein. #55 sml0007 79 ycf32; Ycf32. #56 sll2003 300 rpoD; hypothetical protein. #57 slr1734 57 opcA; putative oxppcycle protein opcA. [EC:3.5.1.28] [SP:OPCA_SYNY3] #58 slr1735 248 glnQ; glutamine transport ATP-binding protein. #59 sll1626 215 lexA; SOS function regulatory protein. [EC:3.4.21.88] #60 sll1625 293 sdhB; succinate dehydrogenase iron- sulphur protein subunit. #61 sll1623 163 phr; ABC transporter. #62 slr1736 58 phr; hypothetical protein. #63 slr1737 71 phr; hypothetical protein. #64 sll1621 300 phr; membrane protein. [SP:YG21_SYNY3] #65 slr1744 143 amiA; N-acetylmuramoyl-L-alanine amidase. [EC:3.5.1.28] #66 slr1746 209 murI; glutamate racemase. [EC:5.1.1.3] [SP:MURI_SYNY3] #67 slr1747 300 ndh; hypothetical protein. #68 slr1351 170 murF; UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D- #69 sll1245 243 cytM; cytochrome c553-like precursor. [SP:C55L_SYNY3] #70 sll1244 121 rplI, rpl9; 50S ribosomal protein L9. [SP:RL9_SYNY3] #71 slr1353 64 hypothetical 31.3 kD protein slr1353. [SP:YD53_SYNY3] #72 sll1242 132 hypothetical protein. #73 slr1956 300 hypothetical protein. #74 slr1271 251 rffM; UDP-N-acetyl-D-mannosaminuronic acid transferase. [EC:2.4.1.-] #75 slr1272 29 hypothetical protein. #76 slr1273 184 hypothetical protein. #77 slr1274 81 pilM; membrane protein. #78 slr1275 39 hypothetical protein. #79 slr1276 80 hypothetical protein. #80 sll1173 66 hypothetical protein. #81 slr1278 49 hypothetical protein. #82 sll1172 282 thrC; threonine synthase. [EC:4.2.99.2] #83 slr1279 71 ndhC; NADH-plastoquinone oxidoreductase chain 3. [EC:1.6.5.3] #84 slr1281 300 ndhJ; NADH-plastoquinone oxidoreductase subunit J (orf 155). #85 slr0288 163 glnN; glutamate-ammonia ligase. [EC:6.3.1.2] #86 slr0291 76 hypothetical protein. #87 sll0258 158 psbV, petK; cytochrome C-550 precursor (C550) (low potential #88 ssl0483 300 hypothetical protein. #89 sll0210 114 bacA; bacitracin resistance; possibly phosphorylates undecaprenol. #90 slr0216 127 cobU; cobinamide kinase. #91 slr0217 238 hypothetical protein. #92 ssr0349 258 hypothetical protein. #93 sll0209 218 hypothetical protein. #94 sll0208 257 hypothetical protein. #95 sll0207 157 rfbA; glucose-1-phosphate thymidylyltransferase. [EC:2.7.7.24] #96 sll0205 286 hypothetical protein. #97 sll0204 136 gidA; glucose inhibited division protein A. #98 sll0202 129 gidA; glucose inhibited division protein A. [SP:GIDA_SYNY3] #99 sll0200 300 transposase. #100 sll0657 112 mraY; phospho-N-acetylmuramoyl-pentapeptide-transferas e. #101 sll0745 111 pfkA; phosphofructokinase. [EC:2.7.1.11] #102 sll0742 73 hypothetical protein. #103 sll0741 300 nifJ; putative pyruvate-flavodoxin oxidoreductase. [EC:1.-.-.-] #104 slr0528 128 murE; UDP-MurNac-tripeptide synthetase. [EC:6.3.2.13] #105 sll0514 300 hypothetical 62.4 kD protein sll0514. [SP:Y514_SYNY3] #106 slr1423 71 murC; UDP-N-acetylmuramate-alanine ligase. [EC:6.3.2.8] #107 slr1425 134 hypothetical protein. #108 sll1341 191 bfr; bacterioferritin (BFR). [SP:BFR_SYNY3] #109 sll1340 60 hypothetical protein. #110 slr1426 117 recR; recombination protein recR. [SP:RECR_SYNY3] #111 sll1338 204 hypothetical protein. #112 sll1336 185 hypothetical protein. #113 sll1334 300 hypothetical protein. #114 slr1656 300 murG; UDP-N-acetylglucosamine-N-acetylmuramyl-(pentape ptide) Motif number 1 TTTGCCCCCCGGCGATCGCCAAATTGGGGC 2 115 1 GGCGATCGCC 0.499999 -110 TTAACAGCTTGGCGATCGCCCACTGCCCCG 5 96 1 GGCGATCGCC 0.499999 -173 GCCACTTCACGGCGATCGCCCGTCGTCTGG 10 228 1 GGCGATCGCC 0.499999 -73 TTATCCGTTTGGCGATCGCCGTTTAATTTA 17 83 1 GGCGATCGCC 0.499999 -136 TCCTACAAACGGCGATCGCCTTAGTTATAC 19 104 1 GGCGATCGCC 0.499999 -140 TAGTAATTTAGGCGATCGCCGTCAATTATG 28 64 1 GGCGATCGCC 0.499999 -201 CGAATTTGCCGGCGATCGCCAGGATTGTGG 32 175 1 GGCGATCGCC 0.499999 -126 TAGCTTTGAGGGGGATCACCGCCAACTAAC 48 81 0 GGGGATCACC 0.719235 -100 CGGTTAAGACGGCGATCGCCTAGGATAGAA 49 132 1 GGCGATCGCC 0.499999 -33 GGTTCACATTGGCGATCGCCAAAAGTGTCT 52 94 1 GGCGATCGCC 0.499999 -55 ACAACGTCTCGGCGATCGCCGATGAATCGA 54 14 1 GGCGATCGCC 0.499999 -225 CCCTGATTCTGGCGATCGCCGGTTTGGGCA 56 147 1 GGCGATCGCC 0.499999 -154 TCCCTAGGCTGGCGATCGCCTTTCGCTGGC 58 66 1 GGCGATCGCC 0.499999 -183 CAATCACAGCGGCGATCGCCTTCTGCTGGC 59 70 1 GGCGATCGCC 0.499999 -146 GGATTTTAGGGGCGATCGCCTTGGGAATTT 60 119 1 GGCGATCGCC 0.499999 -175 AGTTGAGCATGGCGATCGCCGTTATTGGAG 66 129 1 GGCGATCGCC 0.499999 -81 ATTGCTCCCTGGCGATCGCCAATTTTGGCG 70 81 1 GGCGATCGCC 0.499999 -41 CGGAGGTGTGGGCGATCGCCTGCCAATCAA 74 97 1 GGCGATCGCC 0.499999 -155 CGGACTTGTGGGCGATCGCCTGGGGGCATT 82 99 1 GGCGATCGCC 0.499999 -184 GCAACGGTGGGGCGATCACAATTCTAGGGG 89 17 1 GGCGATCACA 0.851402 -98 TCTACTCAAAGGCGATCGAACAGCAAACAC 91 199 1 GGCGATCGAA 0.724065 -40 AAAGCTTTATGGCGATCGGAGTCGTTAACT 93 155 1 GGCGATCGGA 0.859948 -64 TCTGCGTTTTGGCGATCGCATCTTTTAAGC 99 86 1 GGCGATCGCA 0.541237 -215 GGAAGCTTGGCGATCAGCCCTGGGGGCA 105 283 0 GGCGATCAGC 0.826127 -18 CGCTTTTTTTGGCGATCGCCGTCCAAACT 110 99 1 GGCGATCGCC 0.499999 -19 ********** Masking position 6 Map Score: 122.527 Number of sites scoring better than the average of aligned sites = 5646 Number in coding regions = 5126 Number in noncoding regions = 520 Number of orfs with sites within 600 bp upstream = 311 Fraction of orfs with sites within 600 bp upstream = 0.0499518 Motif number 2 TTCCCGTCGTCGAAATTAGGGGGAAAAGGGCT 6 58 0 CGATTAGGGG 0.923884 -152 TTAAATTTTCCAATGCCGGGGGACTTTAAGTT 6 92 0 CAACCGGGGG 0.925045 -118 AATTTGGCTCCGATGCTGGGGG 11 1 0 CGACTGGGGG 0.978709 -127 CCTTTCTAAGGGGGGCTAGGGGGGATTAAACA 15 54 0 GGGCTAGGGG 0.945762 -201 AAAGCTCCGGCAATACTGGGGGTCTTTTGTAA 15 95 0 CAACTGGGGG 0.972838 -160 CTTTAGTGAGGAGATTTAGGGGGCAGAATAAA 15 123 1 GAGTTAGGGG 0.893299 -132 CTTACAAACCGGCTCTTAGGGGGAAAATGGCG 18 44 0 GGCTTAGGGG 0.854169 -224 CACAGCTCTGCAATTCTGGGGGATTTCGCCTC 18 102 1 CAACTGGGGG 0.972838 -166 TCTTTCCCCCCAAATTTGGGGGGTCAGGGGGG 18 134 1 CAATTGGGGG 0.956655 -134 CCCAAAATTAGGAAGCAAGGGGGCTTATCCAG 18 216 1 GGACAAGGGG 0.862196 -52 GCTGGGGCTAGGCCGTTGGGGGTGT 20 85 1 GGCTTGGGGG 0.931831 -15 CCAAAGTTGGGTGGGTTGGGGGCTTTTAAAAG 33 64 0 GTGTTGGGGG 0.912525 -117 TATTACCGGAGTAATTTAGGGGCGGAATCAAA 33 122 1 GTATTAGGGG 0.834693 -59 AGCCTAGGTTCTCCCCTGGGGGCCATCGAAGA 36 48 1 CTCCTGGGGG 0.902229 -22 TTGTCTTATGGAGCATAGGGGGCCACAAACTG 38 99 1 GAGTAGGGGG 0.861228 -190 ACCAGCTGGGGTAATTTAGGGGAAACCTACTA 46 24 1 GTATTAGGGG 0.834693 -84 GTTAAAGAAAGTGATCAAGGGGACGGTAACCC 47 13 1 GTGCAAGGGG 0.697347 -288 AGGGTGGCCGGGGAGCTAGGGGTTAATCCCAT 47 119 0 GGGCTAGGGG 0.945762 -182 GGTGCGACATCGATGCCAGGGGCGTTCCCTTT 48 115 1 CGACCAGGGG 0.871585 -66 AAAAACTATTGAAAGTTGGGGGCAAAAAGGGA 48 140 0 GAATTGGGGG 0.956655 -41 CTTCCTGGCTCTGGGCTGGGGGGGCTACTCTT 54 64 1 CTGCTGGGGG 0.944224 -175 AATTTAGATTGGATTTTAGGGGCGATCGCCTT 60 109 1 GGATTAGGGG 0.923884 -185 AAAATAGGCACAATTCTAGGGGGTTCTCGACA 60 195 1 CAACTAGGGG 0.938827 -99 AAGGCTCCGGCAATACTGGGGGACTTTCAGTC 67 146 1 CAACTGGGGG 0.972838 -155 CCTTGACCCCCAAATTTGGGGGGACACTGACT 67 174 0 CAATTGGGGG 0.956655 -127 CCCAAATTTGGGGGTCAAGGGGGCTTTTAAAC 67 186 1 GGGCAAGGGG 0.847065 -115 CAGAATTTTCCTAGGTCGGGGGGGGAGCATTG 69 61 0 CTATCGGGGG 0.802389 -183 TTCTGGGTATCGATATCGGGGGAGTTTTAGTT 69 88 1 CGATCGGGGG 0.907069 -156 AAACTAGGGCGTGGGCAAGGGGAGTTAAAAAT 73 95 1 GTGCAAGGGG 0.697347 -206 CCCAAATTTGGAGGGCCAGGGGGGCTTTTCAA 73 195 0 GAGCCAGGGG 0.823987 -106 CCTGGCCCTCCAAATTTGGGGGGAAATGAGTG 73 207 1 CAATTGGGGG 0.956655 -94 TTTAGTGGGTCGATTTAGGGGGCGGAATAAAA 73 263 1 CGATAGGGGG 0.899977 -38 ACGGCTAATGGTGGTCAGGGGGGGTCCAGCGG 82 29 1 GTGCAGGGGG 0.843192 -254 AATAGGAGAAGACAATAGGGGGGGCAGGCAAG 83 15 1 GACTAGGGGG 0.771845 -57 CAAGCTTTTGGAAGTTTGGGGGGATTAATGAT 85 73 0 GAATTGGGGG 0.956655 -91 TGCATATCACCCCAGGGGGATGGGTAAAA 85 145 0 CACCAGGGGG 0.845909 -19 AAGATCCCGCCGCATTTGGGGGCTTTGGGCCG 88 150 0 CGCTTGGGGG 0.931831 -151 GGGGCGATCACAATTCTAGGGGACAGTTTAAA 89 25 1 CAACTAGGGG 0.938827 -90 TCGCCTTTGAGTAGACTGGGGGACACTGGCTG 91 182 0 GTACTGGGGG 0.950306 -57 GTATTATAAAGACAACCGGGGGTTAATTTCTT 94 163 1 GACCCGGGGG 0.856228 -95 AATCGGCATTAGGGGGCAAACGTTA 102 4 1 CGGTTAGGGG 0.914858 -70 GCTTGGCGATCAGCCCTGGGGGCAAAGCAAAA 105 275 0 CAGCTGGGGG 0.969425 -26 CAAGACCTAGGGATTTTAGGGGGGACGGTTTT 107 57 1 GGATTAGGGG 0.923884 -78 TAATTTTCCCCAAGCTTGGGGGAAACTCGGGA 114 214 0 CAATTGGGGG 0.956655 -87 *** ******* Masking position 9 Map Score: 70.6451 Number of sites scoring better than the average of aligned sites = 1391 Number in coding regions = 1089 Number in noncoding regions = 302 Number of orfs with sites within 600 bp upstream = 185 Fraction of orfs with sites within 600 bp upstream = 0.0297141 Motif number 3 CGATCGCCGGGGGGCAAATGTGTATAAATGCT 2 101 0 GGGGCAAAGG 0.974368 -124 GGGATAGGATGGGGCAAATGCGCCGCAATTAT 2 155 0 GGGGCAAAGG 0.974368 -70 ACCATGGCCCGGGGCAGTGGGCGATCGCCAAG 5 103 0 GGGGCAGTGC 0.821613 -166 TCGAAATTAGGGGGAAAAGGGCTTGGCAAACA 6 49 0 GGGGAAAAGC 0.970419 -161 TTGTTGTCTGGGGACAATGAGTTATTTTTGT 10 10 1 GGGGACAAGG 0.913753 -291 TTTTAAACCAGGGAAAATCGTCGTAGGACAAA 10 37 0 GGGAAAATGC 0.580734 -264 GTACAAACTAGGGGAAAACGTTCAGGATGTTT 10 164 0 GGGGAAAAGT 0.818707 -137 GGGCAAAGATGGGATTGGGAAG 11 116 0 GGGCAAAGTG 0.634092 -12 GGGGTTAGCTGGGGTAATGGCGGTAGGCAAGA 16 31 1 GGGGTAATGG 0.803666 -270 ATTTATTTATGGGCAAAAGTTCTGTATCTCTC 16 164 0 GGGCAAAATC 0.689927 -137 TTGATTTGCCGGGGCAGGGTTGGTTAGGCCGA 16 203 0 GGGGCAGGTG 0.510927 -98 CGGCTCTTAGGGGGAAAATGGCGACCTTTCAG 18 35 0 GGGGAAAAGC 0.970419 -233 CCAAATTTGGGGGGAAAGAGAGGCGAAATCCC 18 121 0 GGGGAAAGGG 0.962336 -147 GGAACTAAAGGGGCACAAAGACCCTCTGTATT 32 72 1 GGGCACAAGC 0.69807 -229 GCCTTAGTCAGGGGGAATGTCGGCAGGAAAAA 32 241 0 GGGGGAATTG 0.696698 -60 GTGAACAGTAGGGGAAAAAGACCAGTCTCAGA 37 65 0 GGGGAAAAGC 0.970419 -48 TTAACCAGCTGGGGTAATTTAGGGGAAACCTA 46 21 1 GGGGTAATTG 0.473099 -87 TGAAAGTTGGGGGCAAAAAGGGAACGCCCCTG 48 131 0 GGGCAAAAGG 0.934948 -50 CATGTTCTTGGGGGAAGTTGAGGTTTTTG 56 8 0 GGGGAAGTGG 0.888638 -293 CCCAAGAACATGGGAAAATGCCCCCCAAGTCC 56 28 1 TGGGAAAAGC 0.652317 -273 CCTAAATAGGTGGGAAAACGCCAATCTCCTCT 56 239 0 TGGGAAAAGC 0.652317 -62 TCAAAGACTTGGGAAAATAGGCACAATTCTAG 60 182 1 GGGAAAATGC 0.580734 -112 TGTGGGTCGATGGGCAATGGACTTTGCCTTTG 61 94 0 TGGGCAATGC 0.536104 -70 CCCAAATTTGGGGGTCAAGGGGGCTTTTAAAC 67 186 1 GGGGTCAAGG 0.553316 -115 ATTTTTACCTGGGGCAATGGACAGAAAGGCAA 70 51 0 GGGGCAATGC 0.952846 -71 CCCGAATCCAGGGCAAATATGCAAATTTGTGG 73 16 1 GGGCAAATTC 0.626291 -285 GCAAATTTGTGGGCAAAAAGTGTCCCTCAAAT 73 36 1 GGGCAAAAGG 0.934948 -265 ACTAGGGCGTGGGCAAGGGGAGTTAAAAATTG 73 97 1 GGGCAAGGGG 0.642942 -204 CAAATTTGGAGGGCCAGGGGGGCTTTTCAAAC 73 193 0 GGGCCAGGGG 0.595567 -108 TCCAAATTTGGGGGGAAATGAGTGAAAGTCCT 73 215 1 GGGGGAAAGG 0.932902 -86 GTTACGGCTGGGGGAAATTGGGTTACATTTAT 74 151 0 GGGGAAATGG 0.97223 -101 TTAATAATCGGGGGAAATTGTGGATAAAGGTT 74 180 0 GGGGAAATGG 0.97223 -72 ACTGCATAAAGGGCCAATTTTGTTTGAAGAAT 74 228 1 GGGCCAATTG 0.660084 -24 ATGTTTCCCGTGGGAAAAATTGAAAATTTAGT 80 28 0 TGGGAAAATG 0.368333 -39 AGGGCCAATGGTCTCCTCACGGC 82 2 1 GGGCCAATGC 0.862033 -281 GGGGGGCAATGGCCCGAGGTTCCA 82 269 0 GGGGCAATGC 0.952846 -14 TGGCAACAGTGGGGGAAGGGGGAGCTAAAACT 84 243 1 GGGGGAAGGG 0.884291 -58 TGGAAAGCACGGGGAAATATTGACTACTGGCC 92 61 0 GGGGAAATTG 0.884786 -198 GTGTTCTAAAGGGGAAAATTTGGATGGCAGAT 96 223 1 GGGGAAAATG 0.910683 -64 TCGGCATTAGGGGGCAAACGTTAATCGGTTAT 102 13 1 GGGGCAAAGT 0.786924 -61 AATTAAGGCCGGGGAAAGAGATAGCCCAAAAA 103 97 0 GGGGAAAGGT 0.712834 -204 TGCTCCCCTTGGGGGAAACGAGTTACGATGGG 105 63 1 GGGGGAAAGG 0.932902 -238 AGCGATCCCTGGGGCAGTCGGGAGGCTAAAAT 108 90 1 GGGGCAGTGG 0.867125 -102 ATTTTTAGCTGGGGCCAAAGTCTGGACCCCGA 111 153 0 GGGGCCAAGC 0.859453 -52 CCCATACCATGGGGACAATGTTTTTTGTTGGG 112 18 0 GGGGACAAGT 0.507221 -168 CCCATGGTATGGGCCCAGGGACAAAGTTTCAA 112 37 1 GGGCCCAGGC 0.509641 -149 TAGGATGGTTGGGGAAAAATCCCCATTCCCCA 113 63 0 GGGGAAAATC 0.877991 -238 CACCAATCTAGGGAAAATAGTCCTGGGTAAGC 114 26 0 GGGAAAATGC 0.580734 -275 CCCCAAGCTTGGGGGAAACTCGGGAAAGGTTT 114 207 0 GGGGGAAATG 0.753072 -94 CCCCAAGCTTGGGGAAAATTAGGTTGGATTTT 114 225 1 GGGGAAAATG 0.910683 -76 ******** * * Masking position 3 Map Score: 52.7414 Number of sites scoring better than the average of aligned sites = 2504 Number in coding regions = 2204 Number in noncoding regions = 300 Number of orfs with sites within 600 bp upstream = 274 Fraction of orfs with sites within 600 bp upstream = 0.044009 Motif number 4 TTATACACATTTGCCCCCCGGCGATCGCCAAA 2 106 1 TCCCCCCGGC 0.960091 -119 CGCCAAGCTGTTAACCCCCGGTTTGGTAAATT 5 78 0 TACCCCCGGT 0.855375 -191 CCAAAGCTGGTTTATCCCCAGTTTAAGTTACG 14 74 1 TATCCCCAGT 0.662394 -122 GTTAACCCTTCCGCCCCCTGGCAGGCCAATCT 25 88 1 CCCCCCTGGC 0.877433 -59 CGGACGGCAAGTTCTCCCCAGGAATAATAGTC 26 77 0 GCTCCCCAGG 0.680107 -224 TATGGGGTGCTTGCTCCCTAGGGAGTTAGGGT 26 169 1 TCTCCCTAGG 0.857494 -132 CAAAAAACTATTTATCCCCAGGGTAAGCCCAT 28 169 1 TATCCCCAGG 0.907066 -96 CCAGGGTAAGCCCATCCCTGGCCGTGGGCAAA 28 186 1 CATCCCTGGC 0.859752 -79 GAGCTGGATTTGCCTCCCTGGTCAATTTTTAT 29 90 0 TCTCCCTGGT 0.802222 -42 CGAATCGTGCCCAACCCCTGGGGGAACTAAAG 32 50 1 CACCCCTGGG 0.897493 -251 TCTTCGATGGCCCCCAGGGGAGAACCTAG 36 51 0 TCCCCCAGGG 0.640966 -19 TTTTTTATTGCAAATCCCCGGGGTAGCGGTAA 38 217 1 CATCCCCGGG 0.95354 -72 GATTAACCCCTAGCTCCCCGGCCACCCTAACG 47 123 1 TCTCCCCGGC 0.963979 -178 ATATCCCGGCTTTATCCCTGGGGGGGTTTTGG 48 50 1 TATCCCTGGG 0.939513 -131 ACCAAATACTCCGATCCCTAGGCACAGTGTCA 52 42 0 CATCCCTAGG 0.743884 -107 ACTTTTTACTTCTATCCCTAGGCTGGCGATCG 58 52 1 TATCCCTAGG 0.82244 -197 AAATCATTCGCTGCCCCCTGGGCATTAACCCA 60 54 1 CCCCCCTGGG 0.919186 -240 CAGGTAAAAATTGCTCCCTGGCGATCGCCAAT 70 72 1 TCTCCCTGGC 0.927007 -50 TGGTAAAACATAAATCCCCGGGACATTTTATA 71 14 0 TATCCCCGGG 0.970353 -51 TAATCATTTCTCCCCAGCTAAACTATGG 81 32 0 TCTCCCCAGC 0.888648 -18 TGGTTTTACCCATCCCCCTGGGGTGATATGCA 85 142 1 CCCCCCTGGG 0.919186 -22 ATATCTCGGTTAGATCCCCGGCGGCAGGCTGT 88 207 1 TATCCCCGGC 0.953704 -94 CCTCCCCCCCAGCAACTTAGACT 94 2 1 CCCCCCCAGC 0.818132 -256 GGTTAAGAAATTAACCCCCGGTTGTCTTTATA 94 167 0 TACCCCCGGT 0.855375 -91 TTGGGCTATCTCTTTCCCCGGCCTTAATTAAG 103 100 1 TTTCCCCGGC 0.638031 -201 TAGCGCTCCATTAACCCCCGGCAGTATCCCCA 103 199 1 TACCCCCGGC 0.948766 -102 TTGATTTTGCTTTGCCCCCAGGGCTGATCGCC 105 271 1 TGCCCCCAGG 0.748918 -30 CTACTGCCCAGCGATCCCTGGGGCAGTCGGGA 108 81 1 GATCCCTGGG 0.722562 -111 GCCCTGGATGTTAGTCCCCAGGGCCAGGGCTA 111 29 1 TGTCCCCAGG 0.768417 -176 CTGTTGAAACTTTGTCCCTGGGCCCATACCAT 112 40 0 TGTCCCTGGG 0.840774 -146 AGATTTAAGATTTATCCCCGGTTGTCTTGTCC 113 160 1 TATCCCCGGT 0.868063 -141 * ********* Masking position 6 Map Score: 37.5472 Number of sites scoring better than the average of aligned sites = 1215 Number in coding regions = 1103 Number in noncoding regions = 112 Number of orfs with sites within 600 bp upstream = 141 Fraction of orfs with sites within 600 bp upstream = 0.022647 Motif number 5 AAAAGACCCCCAGTATTGCCGGAGCTTTAGTGAG 15 99 1 CAGTGCCGGG 0.982577 -156 ATTTCTAGACCAACTTAGTCGGGGCCATAATCGG 17 123 1 CAATGTCGGG 0.696124 -96 AGATTTTTCCCAGGGCCACCGGAGCTAAAACTGG 17 180 1 CAGCACCGGG 0.560117 -39 CCTGACCCCCCAAATTTGGGGGGAAAGAGAGGCG 18 128 0 CAATGGGGGA 0.671279 -140 TCAAAATCCCCAGTATGGCGGGAGTTTTAGAACT 18 177 0 CAGTGCGGGG 0.950335 -91 TCAGAAAGGGCAAGATTAGCGGAGTTATCCACTG 19 214 0 CAATAGCGGG 0.829247 -30 TATGATTGAACAGAATTGCAGGGATAACTTTTCC 26 234 1 CAGTGCAGGA 0.329064 -67 GAGTTGAGGCCAGTTTTGCCGTTGCCTTTTTTTC 28 30 0 CAGTGCCGTG 0.732282 -235 CAATTTTTATCAGGGTCGCTGGGGTTGCATGGAC 29 66 0 CAGTGCTGGG 0.790266 -66 TACGGTTTCCCGAATTTGCCGGCGATCGCCAGGA 32 165 1 CGATGCCGGG 0.950179 -136 AAAGTTTCCTCAGTATTACCGGAGTAATTTAGGG 33 109 1 CAGTACCGGG 0.912625 -72 CTCTCTGTAACGATGTTGCCGGGGTTTCTCCGGT 38 263 1 CGATGCCGGG 0.950179 -26 TCATACTCGTTAGGGTGGCCGGGGAGCTAGGGGT 47 128 0 TAGTGCCGGG 0.599967 -173 CCTTTCGTGACAAGGTTGCCGGGAGTAAAATTTT 49 71 0 CAATGCCGGA 0.926293 -94 AACACCATGCCTACATTGCCGGAGAAAAAAGG 52 9 0 CTATGCCGGG 0.83878 -140 CCCGGCATTACCGGGAACAGCTCAAA 58 3 1 CGGTACCGGA 0.455067 -246 CTGGGAAAAGCAATATGGGCGGAGGCTACCTCAC 60 260 0 CAATGGCGGG 0.963263 -34 GAAAGTCCCCCAGTATTGCCGGAGCCTTAGTGAG 67 140 0 CAGTGCCGGG 0.982577 -161 CCTTGACCCCCAAATTTGGGGGGACACTGACTGA 67 172 0 CAATGGGGGA 0.671279 -129 TTCTGGGTATCGATATCGGGGGAGTTTTAGTTTG 69 88 1 CGATGGGGGG 0.756042 -156 TGGCGATCGCCAATTTTGGCGGGATTCCCCCTAA 70 90 1 CAATGGCGGA 0.857517 -32 CCTGGCCCTCCAAATTTGGGGGGAAATGAGTGAA 73 207 1 CAATGGGGGA 0.671279 -94 GAAAGTCCTCCAGTATTGCCGGAGCTTTAGTGGG 73 238 1 CAGTGCCGGG 0.982577 -63 TTTAGTGGGTCGATTTAGGGGGCGGAATAAAACT 73 263 1 CGATGGGGGG 0.756042 -38 AATATGTCGTCAGCGTAACCGGAGGTGTGGGCGA 74 78 1 CAGTACCGGG 0.912625 -174 CAATCAACACCAATTTAGACGGCGATACCTAATA 74 120 1 CAATGACGGG 0.801569 -132 ACACCTGGGTCAAGCTTACCGGACTTGTGGGCGA 82 80 1 CAATACCGGC 0.352261 -203 CAAAACTAGTCTAAGTTGCTGGGGGGGAGG 94 7 0 CTATGCTGGG 0.25795 -251 TCAACAAAAACAATCTTGACGTTGTTTAATTTTT 103 134 1 CAATGACGTG 0.163818 -167 TAGGCTAGGACAAGACAACCGGGGATAAATCTTA 113 165 0 CAACACCGGG 0.552826 -136 TAATTTTCCCCAAGCTTGGGGGAAACTCGGGAAA 114 212 0 CAATGGGGGA 0.671279 -89 *** * ***** * Masking position 11 Map Score: 26.3773 Number of sites scoring better than the average of aligned sites = 821 Number in coding regions = 729 Number in noncoding regions = 92 Number of orfs with sites within 600 bp upstream = 85 Fraction of orfs with sites within 600 bp upstream = 0.0136524 Motif number 6 TTTAAGGTGGTGTTTGCCAAGCCCTTTTCCC 6 39 1 TGTTGCCAAG 0.766484 -171 ACCATCCAGTGCTTGCCCTGGGTTAACGGT 9 10 1 TGTTGCCCTG 0.972 -77 CCCTTGGTTTTGCTAGCCCAGACGACGGGCG 10 244 0 TGTAGCCCAG 0.917654 -57 GCCAGGGATGGGCTTACCCTGGGGATAAATA 28 177 0 GGTTACCCTG 0.523768 -88 ACAAGGGCATAGCTAGCCCAATTAGCAATGA 30 176 0 AGTAGCCCAA 0.471008 -36 CTTTTGGTTGCCCTGACAAGGGCAT 30 197 0 TGTTGCCCTG 0.972 -15 TGCGGTCTAGTGCTTGCCCAAAATTATTTTG 41 39 1 TGTTGCCCAA 0.894133 -143 TGGATAAAAAAGGTTGCCCTAAATAGGTGGG 56 257 0 AGTTGCCCTA 0.735001 -44 TTTTTTAGTATGATTGCCCTGAATGTTATGA 59 142 1 TGTTGCCCTG 0.972 -74 TGGTTCCTGAGGTTTGCCCAGAGGGACTTAC 64 49 0 GGTTGCCCAG 0.918839 -252 TTTTCATCAATGCTTGCCCTCTTTTCTCAGA 64 229 0 TGTTGCCCTC 0.893567 -72 CAAATTTGCATATTTGCCCTGGATTCGGGAC 73 14 0 TATTGCCCTG 0.592239 -287 GCTTTGTTGATTGCCCTCCGACTGGATT 76 167 0 TGTTGCCCTC 0.893567 -18 GCCTATCTGTTGGTTGCCCACGGTAGCCGTG 88 14 0 TGTTGCCCAC 0.910707 -287 ACCGGATTTTTGATTGCCAAGGCTGGCCAAT 91 50 0 TGTTGCCAAG 0.766484 -189 TCCCTCTTTGAGCTAGCCCAGCAGTTTTAGG 92 170 0 AGTAGCCCAG 0.816374 -89 CCGGGGAAAGAGATAGCCCAAAAAACTTAGT 103 90 0 AGTAGCCCAA 0.471008 -211 CTAACAGCGGTGTTTACCCTGGCATGTCTAT 105 154 1 TGTTACCCTG 0.803799 -147 ACCCTAGGTTAGTTTGCCCAGC 106 60 1 AGTTGCCCAG 0.943896 -12 TAGGAATGACTGCTTACCCAGGACTATTTTC 114 15 1 TGTTACCCAG 0.832689 -286 ** ******** Masking position 4 Map Score: 18.7356 Number of sites scoring better than the average of aligned sites = 549 Number in coding regions = 501 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 58 Fraction of orfs with sites within 600 bp upstream = 0.00931577 Motif number 7 AAATAACAAGGGCAGCAAAATAC 7 138 1 GGCAGCAAAA 0.939113 -13 TCCAGATCGGGCCAATAAAAATGATTGGCG 10 109 0 GCCAATAAAA 0.353214 -192 CTGTTACCCAGGCAGTAAAGACTTTGGTAT 11 42 0 GGCAGTAAAG 0.547641 -86 ACGCTGCCTGGGCAGGACAAAGGGCAAAAA 13 50 0 GGCAGGACAA 0.690007 -25 AGGTGACAACGTCAGTAAAAAAACTCTATC 22 21 0 GTCAGTAAAA 0.490781 -186 AAAAATGAATGGGAAGAAAAATTTCTTCCC 23 52 1 GGGAAGAAAA 0.611935 -74 AATTTTGTTAGGGAGGAGAAAATCAAAAAA 24 64 0 GGGAGGAGAA 0.810369 -94 GGCAGATTTAGGGAGCAGAATAAAACTTTC 30 117 1 GGGAGCAGAA 0.711521 -95 GGGGAATGTCGGCAGGAAAAACTGGCCTAT 32 232 0 GGCAGGAAAA 0.963929 -69 ATAAAGCCTTGGGAGTGAAAAATTTAGCGT 44 22 1 GGGAGTGAAA 0.402874 -65 AATAGGCTTAGCCAGTAAAACCCGCAAGAG 45 24 1 GCCAGTAAAA 0.773541 -96 TGTGGAAAAAGGGAGGAAAATCC 49 4 0 GGGAGGAAAA 0.907946 -161 CAAGGTTGCCGGGAGTAAAATTTTTTGTCC 49 65 0 GGGAGTAAAA 0.779745 -100 CATCATTGAGGGCAGGAAAGTTCAAGGGCG 56 84 0 GGCAGGAAAG 0.771318 -217 ATAAAAACAGGCCAGCGAAAGGCGATCGCC 58 76 0 GCCAGCGAAA 0.511431 -173 CAAGAAAAAAGGGAGGAAAAGCAGAAAATT 58 168 1 GGGAGGAAAA 0.907946 -81 CTCATTTTCGGCCAGCAGAAGGCGATCGCC 59 80 0 GCCAGCAGAA 0.704124 -136 TCTGGATTAGGGCAGGAAAATGGTCCGGCC 61 63 0 GGCAGGAAAA 0.963929 -101 TCTTACTTTCGGCAATAAAATTATGCTCAA 67 242 1 GGCAATAAAA 0.60529 -59 AATCAAGTATGCCAAGAAAATCGAGGGTTT 87 59 0 GCCAAGAAAA 0.603408 -100 TCTCTAGGAAGGCAGGAATATTTTAGATTA 92 108 0 GGCAGGAATA 0.544292 -151 TGGTTGCTTAGTCAGCAGAAATTCGACAAA 96 144 0 GTCAGCAGAA 0.401727 -143 ATTTAAATCTGTCAGCAAAATCGACAGCCA 100 21 1 GTCAGCAAAA 0.607812 -92 TAACACTAATGCCAAGAAAAATTAAACAAC 103 154 0 GCCAAGAAAA 0.603408 -147 TTTCTGCAATGGCAACAAAAGCCAGAAATA 103 261 0 GGCAACAAAA 0.711475 -40 GGATGCAAATGGCAGGAAAATTCTGCTCCC 105 40 1 GGCAGGAAAA 0.963929 -261 TTCCCCCAAGGGGAGCAGAATTTTCCTGCC 105 50 0 GGGAGCAGAA 0.711521 -251 GTCGAGATCAGCCAGGAAAAAAG 107 122 1 GCCAGGAAAA 0.904912 -13 GGGATCGCTGGGCAGTAGAACAGAACTTGT 108 69 0 GGCAGTAGAA 0.806044 -123 GCTTAGTTGGGGCAGGGAAACGGAGCTGGC 114 72 1 GGCAGGGAAA 0.835875 -229 ********** Masking position 4 Map Score: 22.5932 Number of sites scoring better than the average of aligned sites = 716 Number in coding regions = 603 Number in noncoding regions = 113 Number of orfs with sites within 600 bp upstream = 126 Fraction of orfs with sites within 600 bp upstream = 0.0202377 Motif number 8 GAGCCGGTTTCCAGTGTCTTTGTTTATCCT 7 8 1 TTTCAGTCTT 0.856514 -143 TTAGAACTTATTTGAAAAGTTTTATTCTGCCCC 15 142 0 TTTGAGTTTT 0.917228 -113 GAGTTCAAAATTTCTGGAGTTTTCTCAGCGACT 16 106 1 TTTCGGTTTT 0.871685 -195 TAAGAGCCGGTTTGTAAGGTCTTATCTTGCTAC 18 58 1 TTTGAGTCTT 0.870099 -210 ATTTCTGTGGTTTGAGGAGTTTTT 28 251 1 TTTGGGTTTT 0.884028 -14 GAAGAACATGTTTGGAAAGTTTTATTCTGCTCC 30 128 0 TTTGAGTTTT 0.917228 -84 AATTTTTCGTTTTGGAAGGTCTTCAGAAAGTTT 33 151 0 TTTGAGTCTT 0.870099 -30 TTGATAGTTGTTTCTGTTGTCTTATATTATTAC 39 20 1 TTTCGGTCTT 0.80416 -66 AAACCCTTCATTTGTAGGGTTTTTCCCAGTAAT 43 139 1 TTTGAGTTTT 0.917228 -162 TGCCCCCAACTTTCAATAGTTTTTAACAGTAAA 48 148 1 TTTCAGTTTT 0.908051 -33 TTGGAACGTGTTTGGAAAGTTTTATTCCATCCT 67 98 1 TTTGAGTTTT 0.917228 -203 GAGCCTGTTTGGAAAGTTTTATTCCGCCCC 73 281 0 TTTGAGTTTT 0.917228 -20 AAAGCCTTTTTTTCTGTTGTTTTAACCGATTGA 84 166 1 TTTCGGTTTT 0.871685 -135 CTTCTGGATTTTTCAGGAGTATTATTCACC 90 8 0 TTTCGGTATT 0.581151 -120 AATTTAACCTTTTCTACGGTTTTGAAGCAGTGC 91 81 1 TTTCAGTTTT 0.908051 -158 GCTGTCCATTTTTGCAAGGTATTTTTT 108 175 1 TTTGAGTATT 0.693563 -17 CCTAAAATTTTTTCTAAAGTTTTACTGGGGGGG 113 199 1 TTTCAGTTTT 0.908051 -102 **** * ***** Masking position 10 Map Score: 15.0007 Number of sites scoring better than the average of aligned sites = 139 Number in coding regions = 73 Number in noncoding regions = 66 Number of orfs with sites within 600 bp upstream = 59 Fraction of orfs with sites within 600 bp upstream = 0.00947639 Motif number 9 GTAATGGCGGTAGGCAAGAAACTTTCTCAGAA 16 44 1 TGGCAAAAAC 0.625024 -257 CCCCAGGGGTTGGGCACGATTCGACTGAGGCA 32 41 0 TGGCACATTC 0.961813 -260 GTTTCCTGATGGGGCACCAATCTAAAATTTCT 54 146 0 GGGCACAATC 0.925666 -93 CTTGGGAAAATAGGCACAATTCTAGGGGGTTC 60 189 1 TGGCACATTC 0.961813 -105 TAACATCGGTGCGGCAACATTCGCTGATTTTT 64 12 1 GGGCAAATTC 0.759732 -289 GACAAAAAGATCGGCAAAATTCAGTAAAACTA 73 69 1 TGGCAAATTC 0.909162 -232 ATTAATCGTTTGGGCAATAATCCAATTCTGAA 82 202 1 TGGCAAAATC 0.939988 -81 AGTTTAGTAATGGCCACCAATCCATTGTCCTT 83 49 0 TGCCACAATC 0.885245 -23 TTGGCCTCCATTGCCAATAATCCCAAGACAAG 84 77 1 TGCCAAAATC 0.754025 -224 CCAGCAGTTTTAGGCACGAATCCTCTGAATTC 92 152 0 TGGCACAATC 0.975258 -107 GCGATTTGAGTTGGCACCATTCTAGCAAAACT 94 34 0 TGGCACATTC 0.961813 -224 CAGAACAACCTAGGCACAAATCTACCTAGACA 108 140 0 TGGCACAATC 0.975258 -52 TTTTAAGGGATGGGCACAAATCTTCCCTGTCT 111 94 1 TGGCACAATC 0.975258 -111 * ***** **** Masking position 6 Map Score: 13.5253 Number of sites scoring better than the average of aligned sites = 81 Number in coding regions = 67 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 18 Fraction of orfs with sites within 600 bp upstream = 0.0028911 Motif number 10 GCTCTGGTAAAACATATTTTCAATGTCATTGAGCC 10 71 1 ACTTTTAATG 0.707684 -230 CAAGCTTAAGAGCCTTTTTAAAAAGTTGAGTTTTG 15 17 1 ACTTTTAAAG 0.965863 -238 CTAGCGTTAGAACTTATTTGAAAAGTTTTATTCTG 15 146 0 ACTTTTAAAG 0.965863 -109 GGAGTTTTAGAACTTGTTTGAAAAGCCCCCCTGAC 18 156 0 ACTTTTAAAG 0.965863 -112 GGCATCCCAAGACTTGTTTTGAAAGCCTTTCAGAC 30 71 1 GCTTTTAAAG 0.876005 -141 TTCAGCGAAGAACATGTTTGGAAAGTTTTATTCTG 30 132 0 ACTTTTAAAG 0.965863 -80 AGGATTTTTCAACCTTTTTGCAAAATTGTTGATAG 33 18 1 ACTTTTAAAA 0.813146 -163 ATAGTCTAAAAGCCTCTTTTAAAAGCCCCCAACCC 33 49 1 ACTTTTAAAG 0.965863 -132 CCTTTTACTAACCATAATTTTAAAGCTTAGTCCCA 35 48 1 ACTATTAAAG 0.707684 -110 CTGACGTTGGAACGTGTTTGGAAAGTTTTATTCCA 67 92 1 ACTTTTAAAG 0.965863 -209 CCTATTTAAGAACGTGTTTGAAAAGCCCCCCTGGC 73 178 1 ACTTTTAAAG 0.965863 -123 GAGCCTGTTTGGAAAGTTTTATTCCG 73 285 0 ACTTTTAAAG 0.965863 -16 CTTGATTAAAACCCTATTTTTAAAAAGATTGAGAA 87 82 1 ACTTTTAAAA 0.813146 -77 TTAAGCAGATATCTTCTATGGAAAGCACGGGGAAA 92 76 0 ACTTATAAAG 0.707684 -183 GGCGTGTTTTAAAAACCGCCCGATG 104 1 1 GCTTTTAAAA 0.520757 -128 AGCCTACCTAAAATTTTTTCTAAAGTTTTACTGGG 113 193 1 AATTTTAAAG 0.599284 -108 * * * *** **** Masking position 9 Map Score: 12.7791 Number of sites scoring better than the average of aligned sites = 116 Number in coding regions = 19 Number in noncoding regions = 97 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 11 GGGAACTCTTACAAAAGACCCCCAGTATTGCCGG 15 87 1 AAAACCCCCA 0.697815 -168 TTTCCAAAAGAAAAATCGCCCCCCAGAAAAATTA 17 52 1 AAAACCCCCC 0.827266 -167 GGGAAAGAGAGGCGAAATCCCCCAGAATTGCAGA 18 108 0 GCGACCCCCA 0.906247 -160 TCCGTTCTAGGACAAAAATCCGCCAAAAA 18 249 1 GCAATCCGCC 0.720967 -19 AGCATCGGACGGCAAGTTCTCCCCAGGAATAATA 26 80 0 GCAACTCCCC 0.910858 -221 AGTTTTTCCTGCCGACATTCCCCCTGACTAAGGC 32 239 1 GCGATCCCCC 0.754778 -62 TCAGGAATATGTCAACAACCCCCCA 38 2 0 GCAACCCCCC 0.990583 -287 GGCCAAGAAGGGAAACCTCCCTCCGTTATGATTT 41 104 1 GAAACCCTCC 0.618231 -78 CCGCCAACTAACCAAAACCCCCCCAGGGATAAAG 48 59 0 ACAACCCCCC 0.943877 -122 GCTGTGGGATGGCAAAAGCCCTCAAAATCTTAGC 53 75 0 GCAACCCTCA 0.732758 -54 CAAAAACCTCAACTTCCCCCAAGAACATGGG 56 8 1 CCAACCCCCA 0.821171 -293 CAAGAACATGGGAAAATGCCCCCCAAGTCCAACA 56 30 1 GAAACCCCCC 0.967696 -271 AATAACCTTCGTCAAAATCCCGCAGGGGTACATT 56 176 0 GCAACCCGCA 0.890286 -125 GGGACTTTCAGTCAGTGTCCCCCCAAATTTGGGG 67 165 1 GCAGCCCCCC 0.925379 -136 GGATGCCACTGCCAACCAACCCCACACCTATTGA 68 85 1 GCAAACCCCA 0.617836 -86 CCAATGGATCAGCAAGGGCCCGCCGGC 69 4 0 ACAACCCGCC 0.729042 -240 ATAGATTTTTGTCAATGCTCCCCCCCCGACCTAG 69 49 1 GCAATCCCCC 0.941692 -195 ATAAATGTAACCCAATTTCCCCCAGCCGTAACCT 74 151 1 CCAACCCCCA 0.821171 -101 AGAAAAATTGGCAGAATGCCCCCAGGCGATCGCC 82 109 0 GAGACCCCCA 0.733525 -174 TGGAACCTCGGGCCATTGCCCCCC 82 269 1 GCCACCCCCC 0.932264 -14 CAGTCAACACAAAAATATTCCCCCAAAGTTTTCA 84 203 1 AAAATCCCCC 0.423729 -98 CGTAAAAACTAGCAAGATCTCCCCTCGATTCTGA 86 39 1 ACAACTCCCC 0.62034 -38 GCTTCCAACGGCCCAAAGCCCCCAAATGCGGCGG 88 142 1 GCCACCCCCA 0.869045 -159 GCCATTGCTGGAAAAGATCCCGCCGCATTTGGGG 88 161 0 GAAACCCGCC 0.827362 -140 TTCTAGCCCAGCCAGTGTCCCCCAGTCTACTCAA 91 174 1 GCAGCCCCCA 0.85672 -65 GTGGCCAGTAGTCAATATTTCCCCGTGCTTTCCA 92 59 1 GCAATTCCCC 0.610754 -200 GGTTAGGGAAGGCAAAAGCCACCACCAATAAACA 95 32 1 GCAACCACCA 0.566288 -126 CGCAAACAAAGCAAACGTCGCCCCCATCGTAACT 105 83 0 GAAACGCCCC 0.567297 -218 TTTTGTTATGGAAAACCGTCCCCCCTAAAATCCC 107 66 0 GAAATCCCCC 0.821401 -69 ATAAGAATTAGGAAAAGTCCCCCAATCATCTAGT 108 11 1 GAAACCCCCA 0.935249 -181 ACAGGAGGATGACAACCCCCCCCAGTAAAACTTT 113 214 0 GCAACCCCCA 0.980666 -87 CCCGAACTTTGCCAACACCTCCCAAATCAAGATA 114 148 0 GCAACTCCCA 0.831302 -153 * *** ****** Masking position 13 Map Score: 41.1933 Number of sites scoring better than the average of aligned sites = 963 Number in coding regions = 853 Number in noncoding regions = 110 Number of orfs with sites within 600 bp upstream = 113 Fraction of orfs with sites within 600 bp upstream = 0.0181497 Motif number 12 GTTAACCCCCGGTTTGGTAAATTGACAATAA 5 70 0 GGTTTGGAAA 0.787837 -199 GGGGGAAAAGGGCTTGGCAAACACCACCTTA 6 41 0 GGCTTGGAAA 0.801292 -169 GGTTTGGTCAGAAACAAAACA 14 185 0 GGTTTGGCAG 0.739015 -11 GGGCAGGGTTGGTTAGGCCGATGTTAGAATT 16 193 0 GGTTAGGCGA 0.62351 -108 CCCATCCCTGGCCGTGGGCAAAGCCAGCCTA 28 196 1 GCCGTGGCAA 0.835531 -69 CACTACTGTAGCCTTGGTTAAAAAATCAGCT 31 94 1 GCCTTGGTAA 0.564034 -30 GACTAAATTTGGTTTGGTTGATTTTGTTTAA 35 90 1 GGTTTGGTGA 0.611862 -68 TCTAGACAAGGCTTTGGGCGATATTCCCTGA 38 142 0 GCTTTGGCGA 0.792485 -147 GTTTACTAAAGGTTTGGACAACAACTCTTTT 45 62 1 GGTTTGGCAA 0.948646 -58 GGCGATCGCCGGTTTGGGCAATGTACCCCTG 56 157 1 GGTTTGGCAA 0.948646 -144 AATGAGGGGAGGTTTGGATAAAAAAGGTTGC 56 271 0 GGTTTGGTAA 0.750875 -30 GAAACAAAACGCCTAGGACGAATGCCCCGGT 58 123 0 GCCTAGGCGA 0.415504 -126 CCAACGTCAGGGTTTGGCCAAGAATAATCGA 67 71 0 GGTTTGGCAA 0.948646 -230 AGGCCAGATTGGTTTGGATAGACGTTTTTAG 68 18 1 GGTTTGGTAG 0.316014 -153 GTAAAACTAGGGCGTGGGCAAGGGGAGTTAA 73 92 1 GGCGTGGCAA 0.92781 -209 TTGATCGACGGGCTTGGGAAACTGTCGGAGA 73 126 1 GGCTTGGAAA 0.801292 -175 CGTAACCGGAGGTGTGGGCGATCGCCTGCCA 74 91 1 GGTGTGGCGA 0.860919 -161 TGAAGCAATAGGTGTGGGCAAGGTGAACAAA 77 53 1 GGTGTGGCAA 0.922089 -29 GTTTAATTTTGCCGTGGGCGACCGGGA 84 284 1 GCCGTGGCGA 0.726554 -17 CCGGCGGCAGGCTGTGGCAAAGGGAACCGAG 88 224 1 GCTGTGGAAA 0.484642 -77 CTAAGTAGATGGCTTGGTCAAGAATCTGTTT 99 48 0 GGCTTGGCAA 0.952517 -253 TCAATTTTTAGCTGGGGCCAAAGTCTGGACC 111 157 0 GCTGGGGCAA 0.557703 -48 GTTATAGGATGGTTGGGGAAAAATCCCCATT 113 68 0 GGTTGGGAAA 0.500221 -233 ATTTTAGGTAGGCTAGGACAAGACAACCGGG 113 176 0 GGCTAGGCAA 0.774703 -125 CGTTGCAGCAGGCTGGGTCAATG 114 288 1 GGCTGGGCAA 0.843919 -13 ******* *** Masking position 6 Map Score: 22.1129 Number of sites scoring better than the average of aligned sites = 896 Number in coding regions = 812 Number in noncoding regions = 84 Number of orfs with sites within 600 bp upstream = 95 Fraction of orfs with sites within 600 bp upstream = 0.0152586 Motif number 13 AATTATCTAATTTTTTGCCCCAATTTGGCG 2 131 0 TTTTTTGCCC 0.913496 -94 ACAATGAGTTATTTTTGTCCTACGACGATT 10 24 1 ATTTTTGTCC 0.853912 -277 AAATGACTCTGTTTTTGCCCTTTGTCCTGC 13 39 1 GTTTTTGCCC 0.687723 -36 TTTTTGGCGGATTTTTGTCCTAGAACGGAA 18 248 0 ATTTTTGTCC 0.853912 -20 GATTACCTAGATTTTAGTCCCCAAAGTCCA 29 41 1 ATTTTAGTCC 0.684439 -91 TGTAAAACTTATTTTTGCCTAGCAAAATAC 32 138 1 ATTTTTGCCT 0.762003 -163 ATCAGTTGTAATTTTAGCCTTAGTCAGGGG 32 259 0 ATTTTAGCCT 0.542975 -42 CCGCCGGGATTTTTTTGTCTTATGGAGCAT 38 85 1 TTTTTTGTCT 0.689863 -204 AATCTGAGAGTTTTTTGTCTAGTCTTGCTT 45 94 0 TTTTTTGTCT 0.689863 -26 GGGGCGTTCCCTTTTTGCCCCCAACTTTCA 48 133 1 CTTTTTGCCC 0.802096 -48 GGGAGTAAAATTTTTTGTCCCCCTACAGCT 49 55 0 TTTTTTGTCC 0.867524 -110 TGAACCTTGCTTTTTTGCCTCCATTAACCA 52 70 0 TTTTTTGCCT 0.781993 -79 TCAATTTTGCTTTTTCGCCCTCAATCACAG 59 49 1 TTTTTCGCCC 0.58895 -167 TTGAGGGACACTTTTTGCCCACAAATTTGC 73 36 0 CTTTTTGCCC 0.802096 -265 TTATATTATTTTTGTCCACTAAATTTT 80 8 1 ATTTTTGTCC 0.853912 -59 TGACGATATTTTTTTTGTCCATCATTGGTT 96 188 0 TTTTTTGTCC 0.867524 -99 TAAAAACTATATTTTAGTCTTTAGTTCAAC 98 83 0 ATTTTAGTCT 0.42421 -47 TAAAATATAGTTTTTAGCCCTGCTACCATT 98 97 1 TTTTTAGCCC 0.796688 -33 GAGATGCGATTTTTTTGTCCATTAGTTTGT 99 116 1 TTTTTTGTCC 0.867524 -185 GGCTGATCTAATTTTAGCCTCCCGACTGCC 108 102 0 ATTTTAGCCT 0.542975 -90 ********** Masking position 5 Map Score: 14.5791 Number of sites scoring better than the average of aligned sites = 462 Number in coding regions = 379 Number in noncoding regions = 83 Number of orfs with sites within 600 bp upstream = 91 Fraction of orfs with sites within 600 bp upstream = 0.0146161 Motif number 14 GGGATGATGTCCTAGGGTCGGGCGGGTAAAAT 2 11 1 CCTAGGTGGG 0.590707 -214 CTGCCCCGGGCCATGGTTGGGGACAAACGATT 5 118 1 CCATGGTGGG 0.975064 -151 CCCTAGCCCCCCTTAGAAAGGGGGGAACTCTT 15 65 1 CCTTAGAGGG 0.644849 -190 CTATTAATGGCCATGGTACTGGCATTTTCCGG 19 147 0 CCATGGATGG 0.595484 -97 CAACATTAAGCGATGGAATGGGTAATTAGTTA 26 119 1 CGATGGAGGG 0.969247 -182 TTTTGGGAGACCTTAGCTTGGGTGCCTCAGTC 32 19 1 CCTTAGTGGG 0.692478 -282 TTTAGTTCCCCCAGGGGTTGGGCACGATTCGA 32 49 0 CCAGGGTGGG 0.901244 -252 GGGAAGAACTCCATGGCACGGGGTCTTCTGTC 32 104 0 CCATGGAGGG 0.969243 -197 TCGTCATTAATCATGGCTTGGGAGTTTCCCAA 41 67 0 TCATGGTGGG 0.659771 -115 GGTGCGACATCGATGCCAGGGGCGTTCCCTTT 48 115 1 CGATGCAGGG 0.685715 -66 CCTGCTTGCCCGATGGCTCGGGATTCCTGAAC 66 165 0 CGATGGTGGG 0.975064 -45 AAAACTAGGGCGTGGGCAAGGGGAGTTAAAAA 73 94 1 CGTGGGAGGG 0.760361 -207 AAACAAAGTTCGGTGGCTAGGGATCA 78 24 1 CGGTGGTGGG 0.860479 -16 ACGAACTTCCCGTTGGCATGGGCCAGCTTCCT 93 103 0 CGTTGGAGGG 0.931484 -116 TAGGGATTGGCGATAGATTGGGGTTCGATTTT 101 24 1 CGATAGTGGG 0.83929 -88 CATATTTGCCCGATGGGTAGGGGAACAAATAA 102 41 0 CGATGGTGGG 0.975064 -33 AACATTGTCCCCATGGTATGGGCCCAGGGACA 112 28 1 CCATGGAGGG 0.969247 -158 AATCGTTATAGGATGGTTGGGGAAAAATCCCC 113 71 0 GGATGGTGGG 0.741877 -230 ****** * *** Masking position 11 Map Score: 17.8791 Number of sites scoring better than the average of aligned sites = 772 Number in coding regions = 700 Number in noncoding regions = 72 Number of orfs with sites within 600 bp upstream = 82 Fraction of orfs with sites within 600 bp upstream = 0.0131706 Motif number 15 TACTTGTTTCCCATCTTAATCCTTTGGTGGAT 5 164 0 CCACTTAACC 0.623397 -105 TTGGCAAACACCACCTTAAACCCTTGACATTC 6 27 0 CCACTTAACC 0.623397 -183 TTTGAAAAGCCCAATTTTATCCTTATTGACTG 6 185 1 CCATTTTACC 0.906485 -25 GATTGAGTGTTAATTTTTACCCTAAGTGA 8 8 0 TAATTTTACC 0.553602 -72 AGCAAAAACTCAACCTTTAACTATTAACT 8 61 1 CAACTTTACT 0.659475 -19 CATTGTTGGGCAACCGTTAACCCAGGGCAAGC 9 21 0 CAACGTTACC 0.671573 -66 AATTGCCCCAGCTTTATCCGAATTGCTCA 9 68 0 CCACTTTACC 0.91037 -19 CGGTGCTTAGCCACTGTTACCCAGGCAGTAAA 11 53 0 CCATGTTACC 0.774357 -75 AAATATGGGGTAAACTTTATCCTAAACCCTTC 11 88 1 TAACTTTACC 0.565114 -40 AAAAACAGAGTCATTTTTACCCAAGATAACAA 13 23 0 TCATTTTACC 0.685618 -52 GTACAATGGTCCAATGTTAACCAAATATACAC 14 26 0 CCATGTTACC 0.774357 -170 AAGACTTAAGTAAACTTTAACCGACAGTCAAC 15 188 1 TAACTTTACC 0.565114 -67 TCCATCTCACCCAGTTTTAGCTCCGGTGGCCC 17 192 0 CCATTTTACT 0.764719 -27 CTAAGCGCTTCCACTGTTAACCCTTCCGCCCC 25 73 1 CCATGTTACC 0.774357 -74 TATTCCTGACCCAATTTAATCCCAACTTAATT 38 27 1 CCATTTAACC 0.612371 -262 AGACTATAGCCAAATTTTATCCCGATACCCTA 46 65 0 CAATTTTACC 0.846444 -43 GAGATTAACCCCATTTTTAACTGACTCAAGCC 68 141 1 CCATTTTACT 0.764719 -30 CGCCAGGGAGCAATTTTTACCTGGGGCAATGG 70 63 0 CAATTTTACT 0.64891 -59 AGGTATGGGCTCAACTTTAGCTAAAGCTAGCA 72 63 0 TCACTTTACT 0.433814 -70 GCCCGTCGATCAATTTTTAACTCCCCTTGCCC 73 107 0 CAATTTTACT 0.64891 -194 CCCCCAGCCGTAACCTTTATCCACAATTTCCC 74 169 1 TAACTTTACC 0.565114 -83 TCACGAAAATCAATTTTTAGCTGGGGCCAAAG 111 165 0 CAATTTTACT 0.64891 -40 AAATAGTGATCAAGTTTTATCTTGATTTGGGA 114 131 1 CAATTTTACT 0.64891 -170 *** ***** ** Masking position 7 Map Score: 14.5132 Number of sites scoring better than the average of aligned sites = 454 Number in coding regions = 395 Number in noncoding regions = 59 Number of orfs with sites within 600 bp upstream = 67 Fraction of orfs with sites within 600 bp upstream = 0.0107613