AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00030_synecho_reg_300.orf -o00030_synecho_300.ace -a/home/amcguire/alignace/lib/ORF_synecho.txt -z/skink1/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: sll0596 35 hypothetical protein. slr1811 122 rpoD; hypothetical protein. slr0944 151 hypothetical 42.4 kD protein slr0944. [SP:Y944_SYNY3] sll0744 21 hypothetical protein. Input sequences: #1 slr1793 224 talB, tal; transaldolase. [EC:2.2.1.2] [SP:TAL_SYNY3] #2 ssr2998 116 hypothetical protein. #3 slr1794 55 hypothetical protein. #4 slr1795 224 msrA; peptide methionine sulfoxide reductase. #5 ssr3000 38 hypothetical protein. #6 sll1667 97 mom72; mitochondrial outer membrane 72K protein. #7 sll1666 56 dnaJ; DnaJ protein. #8 slr1796 101 hypothetical protein. #9 sll1665 300 hypothetical protein. #10 sll1196 112 pfkA; phosphofructokinase. [EC:2.7.1.11] #11 slr1298 149 hypothetical 84.3 kD protein slr1298. [SP:YC98_SYNY3] #12 sll1194 194 psbU; photosystem II 12 kD extrinsic protein precursor. #13 sll1193 300 putative deoxyribonuclease. [EC:3.1.21.4] #14 sll1070 122 tktA; transketolase. [EC:2.2.1.1] #15 sll1069 197 fabF; beta ketoacyl-acyl carrier protein synthase. [EC:2.3.1.41] #16 ssl2084 209 acpP, acp; acyl carrier protein (ACP). [SP:ACP_SYNY3] #17 sll1068 36 hypothetical protein. #18 ssl3451 130 hypothetical protein. #19 sll1825 212 hypothetical protein. #20 sll1823 238 purA; adenylosuccinate synthetase (IMP--aspartate ligase). #21 ssl3446 300 hypothetical protein. #22 slr1843 157 zwf; glucose-6-phosphate 1-dehydrogenase (G6PD). [EC:1.1.1.49] #23 slr1844 137 uvrA; excinuclease ABC subunit A. [SP:UVRA_SYNY3] #24 sll1717 93 hypothetical protein. #25 sll1716 134 transposase. #26 sll1714 300 hypothetical protein. #27 sll1776 51 deoC; deoxyribose-phosphate aldolase. [EC:4.1.2.4] #28 sll1775 300 hypothetical protein. #29 sll1709 125 gdh; glucose dehydrogenase. [EC:1.1.1.47] #30 ssl3291 49 rpoD; hypothetical protein. #31 sll1708 170 narL; nitrate/nitrite response regulator protein. #32 slr1805 24 rpoD; sensory transduction histidine kinase. #33 sll1704 23 csgA_ir_spoC; cell-cell signaling protein, C-factor. #34 sll1702 38 rpoD; hypothetical protein. #35 slr1807 25 rpoD; hypothetical protein. #36 slr1808 161 hemA; glutamyl-tRNA reductase (GLUTR). [EC:1.2.1.-] [SP:HEM1_SYNY3] #37 sll1698 276 rpoD; hypothetical protein. #38 sll1697 123 rpoD; hypothetical protein. #39 slr1812 74 hypothetical protein. #40 slr1813 122 rpoD; hypothetical protein. #41 slr1814 140 rpoD; hypothetical protein. #42 slr1815 41 rpoD; hypothetical protein. #43 sll1695 98 hofG; general secretion pathway protein G. #44 sll1694 143 hofG; general secretion pathway protein G. #45 sll1693 154 rpoD; hypothetical protein. #46 sll1691 49 rpoD; hypothetical protein. #47 sll1689 300 rpoD; RNA polymerase sigma factor. #48 sll0807 152 rpe; ribulose-phosphate 3-epimerase (pentose-5-phosphate 3- #49 slr0822 108 pacL; cation-transporting ATPase PacL. #50 slr0823 31 ycf3; hypothetical protein. #51 sll0803 30 hypothetical protein. #52 sll0802 92 hypothetical protein. #53 ssl1498 102 hypothetical protein. #54 sll1263 63 hypothetical 33.3 kD protein sll1263. [SP:YC63_SYNY3] #55 sll1262 224 hypothetical protein. #56 sll1261 153 tsf; elongation factor Ts (EF-TS). [SP:EFTS_SYNY3] #57 sll1260 224 rpsB, rps2; 30S ribosomal protein S2. [SP:RS2_SYNY3] #58 tRNA-Ile-1 185 tRNA-Ile. #59 slr1336 26 H+/Ca2+ exchanger. #60 sll1258 252 dcd; deoxycytidine triphosphate deaminase (dctp deaminase). #61 sll1256 300 transposase. #62 slr1349 214 pgi; glucose-6-phosphate isomerase (GPI) (phosphoglucose isomerase) #63 slr1350 156 desA; fatty acid desaturase. [EC:1.14.99.-] [SP:DESA_SYNY3] #64 sll1247 252 hypothetical 52.7 kD protein sll1247. [SP:YC47_SYNY3] #65 slr1351 170 murF; UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D- #66 sll1245 243 cytM; cytochrome c553-like precursor. [SP:C55L_SYNY3] #67 sll1244 121 rplI, rpl9; 50S ribosomal protein L9. [SP:RL9_SYNY3] #68 slr1353 64 hypothetical 31.3 kD protein slr1353. [SP:YD53_SYNY3] #69 sll1242 132 hypothetical protein. #70 slr1956 300 hypothetical protein. #71 slr0943 121 fda; fructose-bisphosphate aldolase. [EC:4.1.2.13] #72 sll0914 213 hypothetical protein. #73 slr0945 89 hypothetical protein. #74 slr0946 154 arsC; arsenate reductase. #75 slr0947 52 ycf27; regulatory components of sensory transduction system. #76 sll0913 120 hypothetical protein. #77 sll0912 285 ABC transporter. #78 slr0950 62 hypothetical protein. #79 sll0909 216 hypothetical protein. #80 slr0951 83 hypothetical 24.6 kD protein slr0951. [SP:Y951_SYNY3] #81 slr0952 206 fbp; fructose-1,6-bisphosphatase (D-fructose-1,6-bisphosphate 1- #82 slr0953 251 hypothetical protein. #83 ssr1600 72 hypothetical protein. #84 slr0955 79 hypothetical protein. #85 slr0957 136 hypothetical protein. #86 slr0958 30 cysS; cysteinyl-tRNA synthetase (cysteine--tRNA ligase) (cysRS). #87 sll0905 87 maf; MAF. #88 slr0959 112 hypothetical protein. #89 slr0960 26 hypothetical protein. #90 sll1541 127 lignostilbene-alpha,beta-dioxygenase. [EC:1.13.11.42] #91 ssr2723 59 hypothetical protein. #92 slr1622 263 ppa, ipyR; inorganic pyrophosphatase (pyrophosphate phospho- #93 slr1623 41 hypothetical protein. #94 slr1624 60 hypothetical protein. #95 sll1538 116 bgl; beta-glucosidase. [EC:3.2.1.21] #96 slr1627 118 hypothetical 22.0 kD protein slr1627. [SP:YG27_SYNY3] #97 sll1536 135 moeB; molybdopterin biosynthesis MoeB protein. #98 slr1629 124 hypothetical protein. #99 sll1535 99 rfbP; galactosyl-1-phosphate transferase. #100 sll1533 300 pilT; twitching mobility protein. #101 sll0329 189 gnd; 6-phosphogluconate dehydrogenase, decarboxylating. #102 sll0327 300 hypothetical protein. #103 sll0018 283 fda; fructose-bisphosphate aldolase. [EC:4.1.2.13] [SP:ALF_SYNY3] #104 sll0017 300 hemL, gsa; glutamate-1-semialdehyde 2,1-aminomutase (GSA) #105 slr0194 55 rpiA; ribose 5-phosphate isomerase. [EC:5.3.1.6] #106 slr0195 35 hypothetical protein. #107 slr0197 103 comE ORF1. #108 sll0185 300 hypothetical protein. #109 slr0207 69 putative gluconokinase 2. [EC:2.7.1.12] #110 slr0208 167 hypothetical protein. #111 ssr0330 126 ftrV; ferredoxin-thioredoxin reductase, variable chain (FTR-V) #112 slr0209 269 hypothetical protein. #113 slr0210 88 sensory transduction histidine kinase. #114 ssr0332 71 hypothetical protein. #115 slr0211 135 hypothetical protein. #116 ssl0331 209 hypothetical protein. #117 slr0212 236 metH; 5-methyltetrahydrofolate-homocysteine methyltransferase. #118 ssr0336 300 hypothetical protein. #119 sll0469 170 prsA; ribose-phosphate pyrophosphokinase (phosphoribosyl #120 slr0523 50 bioD; dethiobiotin synthetase. [EC:6.3.3.3] #121 sll0467 89 queA; queuosine biosynthesis protein QueA. [EC:5.-.-.-] #122 sll0597 116 hypothetical protein. #123 sll0595 70 hypothetical protein. #124 sll0594 180 cysR; regulatory protein cysr homolog. [SP:CYSR_SYNY3] #125 sll0593 206 glk; glucokinase. [EC:2.7.1.2] #126 slr0615 300 ABC transporter. #127 sll0745 111 pfkA; phosphofructokinase. [EC:2.7.1.11] #128 sll0742 73 hypothetical protein. #129 sll0741 300 nifJ; putative pyruvate-flavodoxin oxidoreductase. [EC:1.-.-.-] #130 sll0726 300 pgm; phosphoglucomutase. [EC:5.4.2.2] Motif number 1 GACTACTTTTCCCGATCGCCGTTGAAGTGT 2 67 0 CCCGATCGCC 0.929456 -50 TGGGTCAACGGCCGATCGCCAGCAAAACGG 16 153 0 GCCGATCGCC 0.53864 -57 TCGCCCCCCAGGCGATCGCCATCAGAGTTG 21 218 1 GGCGATCGCC 0.499999 -83 AATCTTGGCTGGCGATCGCCATTTACTTAG 22 63 1 GGCGATCGCC 0.499999 -95 TCATCGAGATGGCGATCGCCACATTAACTT 26 261 1 GGCGATCGCC 0.499999 -40 GGTTACCAGGGGCGATCGCCGTGGTGGGGG 37 213 1 GGCGATCGCC 0.499999 -64 CGGATCTCTGCGAGATCGCCAGATAATTCA 40 90 0 CGAGATCGCC 0.814386 -33 GGGTAATCGGGGCGATCGCCTGCTAAACTG 57 103 1 GGCGATCGCC 0.499999 -122 AACCTGGCGATCGCCATTGAAGCGG 58 6 1 GGCGATCGCC 0.499999 -180 TATTCCCGTCGGCGATCGCCATTGATGCAG 60 195 1 GGCGATCGCC 0.499999 -58 ATTGCTCCCTGGCGATCGCCAATTTTGGCG 67 81 1 GGCGATCGCC 0.499999 -41 CAGGCCCAACGGCGATCGCCAGGAATTGGG 85 71 1 GGCGATCGCC 0.499999 -66 TGATCATATTGGCGATCGCCATTTTCCTGG 96 43 1 GGCGATCGCC 0.499999 -76 CGGATCAAAAGGCGATCGCCGATGAACCTA 101 57 1 GGCGATCGCC 0.499999 -133 CAATCATCGAGGCGATCGCCATTTGGTAGG 102 68 1 GGCGATCGCC 0.499999 -233 CAGTCCAATAGGCGATCGCCGTTTAATCTT 102 239 1 GGCGATCGCC 0.499999 -62 CTGTTTGATCCCCGATCGCCTATTGCCGGG 103 12 1 CCCGATCGCC 0.929456 -272 GACTCTCTCCGGCGATCGCCCTGGCTCAAG 108 147 1 GGCGATCGCC 0.499999 -154 CTTAGGACTCGGCGATCGCCGGT 114 59 1 GGCGATCGCC 0.499999 -13 CCCCCCGATCGGCGATCGCCAAATGCCCCT 122 85 1 GGCGATCGCC 0.499999 -32 GGGAACTAAGCCCGATCGCCTGGATTGATT 124 141 1 CCCGATCGCC 0.929456 -40 GGCGATCGCCAGGATCATTA 126 1 1 GGCGATCGCC 0.499999 -300 ********** Masking position 6 Map Score: 112.048 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 CCTCAGTTTGGGGGCGAGGGAGGGCACAGA 1 68 0 GGGGCGAGGG 0.967388 -157 AACTACAACGGCGGCCATGGCAAAAAGCCC 1 139 1 GCGGCCATGG 0.667615 -86 CAGGGCCAGGGTGAACCAAAA 3 2 1 AGGGCCAGGG 0.96158 -54 CTACTTGCCATGGGCAATGGAATTCGTTTG 6 33 0 TGGGCAATGG 0.839174 -65 GGTAATGGTAGGGGCCAAGGCAGGCCAAAT 14 51 0 GGGGCCAAGG 0.976441 -72 GGGGGGAGTCGGGGCTATGGCCGGAAT 15 8 0 GGGGCTATGG 0.880549 -190 ATACAGCGACGGGGCCAGGGCCTAGCCCGA 15 125 0 GGGGCCAGGG 0.994424 -73 GGACTGCTCCTGGGGCAAGAATTAATTTTT 21 281 0 TGGGGCAAGA 0.432449 -20 CCGGGAATATGGGGGAAGGGACAGCGATTA 28 227 0 GGGGGAAGGG 0.938174 -74 TGGCGGCAGGGGCTGTGGATT 28 290 0 GGCGGCAGGG 0.632113 -11 TTTGTAATTATGGGCAATGATTTCGACTAC 29 16 1 TGGGCAATGA 0.4041 -110 TCGCCGTGGTGGGGGCAGGGGTTTTGTTAA 37 228 1 GGGGGCAGGG 0.982188 -49 AGGCAAATGAGGGGCGATGGGTAAGTTACA 44 67 1 GGGGCGATGG 0.873321 -77 GGAGCCAGGGAAATTTGCCA 51 21 0 GGAGCCAGGG 0.959651 -10 TTCTCACCGATGGGGCAGGGCAAACCCAGT 56 32 1 TGGGGCAGGG 0.961872 -122 CGGTAATTATTGGGCTAAGGGAAAAAAGTG 56 99 0 TGGGCTAAGG 0.771298 -55 TGGGTGAGCGTGAGGCAGGG 61 1 0 TGAGGCAGGG 0.770876 -300 GGGCTATAAAGCGGCCAAGGTTTGCCGTGC 62 66 1 GCGGCCAAGG 0.667615 -149 TTATTCCGATGGGACCAGGGTGTATCTTAC 64 201 1 GGGACCAGGG 0.756095 -52 ATTTTTACCTGGGGCAATGGACAGAAAGGC 67 53 0 GGGGCAATGG 0.91939 -69 AACTAGGGCGTGGGCAAGGGGAGTTAAAAA 70 96 1 TGGGCAAGGG 0.95736 -205 CCAAATTTGGAGGGCCAGGGGGGCTTTTCA 70 196 0 AGGGCCAGGG 0.96158 -105 ATACCTTTAAGGAGCTAAGGGGCACCCGAA 71 81 0 GGAGCTAAGG 0.495744 -41 TGGAACAATGGGGGCAATGAGATTTCCATA 72 136 0 GGGGCAATGA 0.597142 -78 CCAGAATTGGGGGGCTAGGGGGCTTTTAAA 81 145 1 GGGGCTAGGG 0.969437 -62 CGATCGCCGTTGGGCCTGGGTGTGGCTTTG 85 59 0 TGGGCCTGGG 0.859051 -78 TGGCCAAAAGGGGGCGATGGGTT 87 4 0 GGGGCGATGG 0.873321 -84 CACAGGTTAGGGGGCTAGAGGAAAATTCGG 88 40 1 GGGGCTAGAG 0.592865 -73 GGGGGGCTTTAGGGCCAGGGGAAGACCCTC 92 155 1 AGGGCCAGGG 0.96158 -109 CTTAATTTGGGGGGCTATGGGCTCAAATCG 92 184 0 GGGGCTATGG 0.880549 -80 GAGTATTGCTTGAGCCTGGGTGAATCAGCT 94 12 0 TGAGCCTGGG 0.448376 -49 CCTATTGCCGGGGGGAAGAGATATAGAACC 103 30 1 GGGGGAAGAG 0.410598 -254 AAGTCCAGGATGGGGGAAGGTTTTGGGTAA 103 69 0 TGGGGGAAGG 0.493725 -215 ACAAATTCCTTGGGGCAGGACAAAAAAGAT 103 160 1 TGGGGCAGGA 0.766279 -124 TCCATTTGTTTGGGCCAAGACTCTGAGAGC 104 30 0 TGGGCCAAGA 0.711339 -271 GCAAAACTCCTGGGCCAAGAGAATTAGAAT 106 11 0 TGGGCCAAGA 0.711339 -25 TTCCTGACCTTGAGCCAGGGCGATCGCCGG 108 155 0 TGAGCCAGGG 0.915833 -146 GGATACAGGGGGAGCAAAGGTGAATGTTGT 108 190 0 GGAGCAAAGG 0.603345 -111 TAGGTCAGCTTGGGCTAGGGTTATGGAGCA 109 46 0 TGGGCTAGGG 0.935531 -24 ACAAGGTCTAGGGGCCAGGAAACCAAAAAA 110 44 1 GGGGCCAGGA 0.958639 -124 ACATGGAAATGGAGCCATGGCATTATTTTT 116 86 1 GGAGCCATGG 0.846801 -124 ACCTGTAAATCGGGCAAGGGGAGTCATACA 117 139 0 CGGGCAAGGG 0.822525 -98 AACTAGGGGCTGGGTATTATTTAA 120 5 1 AGGGGCTGGG 0.366322 -46 CTGGGAATTGCGGGGAAGGGTTATGCTGAC 124 47 1 CGGGGAAGGG 0.588988 -134 TTCCTCCACCTGGGCCAGAGGAAATTAACC 125 57 0 TGGGCCAGAG 0.78928 -150 CTTCTACAATAGAGCCAGGGAAAAAATTAC 126 103 1 AGAGCCAGGG 0.769472 -198 GGGCTATCCATGGGCAAAGAGATAAAAGAA 130 248 0 TGGGCAAAGA 0.4041 -53 ********** Masking position 4 Map Score: 59.3 Number of sites scoring better than the average of aligned sites = 2500 Number in coding regions = 2240 Number in noncoding regions = 260 Number of orfs with sites within 600 bp upstream = 253 Fraction of orfs with sites within 600 bp upstream = 0.040636 Motif number 3 CACAGATTCCGCTAAACTGGGGGGGATTGCAAT 1 41 0 GCACTGGGGG 0.953591 -184 GCTGAGTTGCCCTCAGTTTGGGGGCGAGGGAGG 1 75 0 CCATTTGGGG 0.927772 -150 TGGGTAGTTGGCCTAGATTAGGGCAATCTACTT 6 57 0 GCAATTAGGG 0.656509 -41 ATTTGTTACCGGAAATTTAGGGGAAAAAGT 8 8 0 GGATTAGGGG 0.698841 -94 TTAAATGATAGGGAATTTTGGGAAAGCGATGCT 9 103 0 GGATTTGGGA 0.723104 -198 TCTGAACTTTGCCTTGTTTGGGGTGGTTTTTTG 11 98 1 GCTTTTGGGG 0.700187 -52 TGCCGACTGCGCCGATTTTGGGAGGTCAAACCA 12 121 0 GCATTTGGGA 0.87033 -74 GCAAAACGGGGGACAGCTTGGGGCTGTCGCAGG 16 129 0 GGACTTGGGG 0.892334 -81 CCCTTAGTCGGCCAGATTAGGGGGAGTTTTTTA 19 126 1 GCGTTAGGGG 0.650868 -87 TCGATAACAAGCCCATTTTAGGGTTTAGGTCTG 28 124 1 GCATTTAGGG 0.892051 -177 TAATCGAACCGGGAATATGGGGGAAGGGACAGC 28 232 0 GGAATGGGGG 0.833193 -69 GGAACACAGAGCCAGTTTTGGGACATTTATTGA 36 112 1 GCGTTTGGGA 0.677212 -50 GCCATGCACTGCTCGATTTGGGACGAATTTGAA 37 168 1 GCGTTTGGGA 0.677212 -109 GGCTCAAGATGCCAATTTTGGGGACAATTTTTG 38 38 0 GCATTTGGGG 0.982932 -86 TATTTTAAAGGCCGGGTTTGGGGGCCTACTACA 48 62 1 GCGTTTGGGG 0.947382 -91 GGGCAAAGTTCAGGGAAATAAAGCG 60 238 0 GCATTCAGGG 0.569928 -15 CCTGGCGATCGCCAATTTTGGCGGGATTCCCCC 67 88 1 GCATTTGGCG 0.77231 -34 GGGCAAATATGCAAATTTGTGGGCAAAAAGTGT 70 26 1 GCATTGTGGG 0.588532 -275 CGATCTTTTTGTCGATTTGAGGGACACTTTTTG 70 49 0 GTATTGAGGG 0.382048 -252 CCCTGGCCCTCCAAATTTGGGGGGAAATGAGTG 70 206 1 CCATTGGGGG 0.925432 -95 AGCTTTAGTGGGTCGATTTAGGGGGCGGAATAA 70 260 1 GGGTTTAGGG 0.501569 -41 TAAGCATATAGCCAAATTGGGGGTTTGGTATCG 74 107 1 GCATTGGGGG 0.982316 -48 CCGTAAGCTACCCTACTTTAGGGGATTTTCGTT 77 43 1 CCATTTAGGG 0.635582 -243 ACCTTACCATGTTTACTTTGGGGAAATCTCAGT 79 50 1 GTATTTGGGG 0.816912 -167 AAATAGGCAAATTTCGGGGTTCGGAAAGA 80 65 0 GCATTCGGGG 0.902204 -19 TAAAGCTCCGGCAAATTTGGGGGACTTTGAACA 81 103 1 GCATTGGGGG 0.982321 -104 ACTATTCCCCCCAGAATTGGGGGGCTAGGGGGC 81 135 1 CCATTGGGGG 0.925431 -72 TCTCCGCTCCGGGGAACTGGGGGTTAAAATCTA 90 56 0 GGACTGGGGG 0.888823 -72 CTAATAGGAGGGGGGCTTTAGGGCCAGGGGAAG 92 146 1 GGGTTTAGGG 0.50157 -118 CCCCGGACTTCTTAATTTGGGGGGCTATGGGCT 92 191 0 CTATTGGGGG 0.490145 -73 CGAATTCAATGGGGACATTGGGGACATTATTTA 100 173 0 GGAATTGGGG 0.83814 -128 TTCTGACCCGGCTTAGTTTGGCGGTGGCTAGGT 101 82 0 GCATTTGGCG 0.772311 -108 TGTAGTAGTCGGTGATCTTGGGGTTTTGATCCC 108 58 1 GGACTTGGGG 0.892334 -243 GGGCGAAGCTTGGGAGAAATTTCCA 111 3 1 GCACTTGGGA 0.712819 -124 GCAAAAAACTCCCGATATGGGGGAATTAGTTGC 115 80 1 CCAATGGGGG 0.741429 -56 TTTGGCGATCGCCGATCGGGGGGTTCAGTTTAT 122 75 0 GCACGGGGGG 0.510133 -42 GAAGGGTTATGCTGACTTTGGGGGAGATCTGGC 124 61 1 GCATTTGGGG 0.982936 -120 TAGGGATTGGCGATAGATTGGGGTTCGATTTTG 127 24 1 CGAATTGGGG 0.536307 -88 ACGGCCCAGCGCCAAGATGGGGAGCACAAATTC 130 157 0 GCAATGGGGA 0.599345 -144 ** * ******* Masking position 11 Map Score: 38.3083 Number of sites scoring better than the average of aligned sites = 1367 Number in coding regions = 1074 Number in noncoding regions = 293 Number of orfs with sites within 600 bp upstream = 167 Fraction of orfs with sites within 600 bp upstream = 0.026823 Motif number 4 ACAACGGCGGCCATGGCAAAAAGCCCCGTTGA 1 143 1 CCATGGAAAA 0.88854 -82 CAATTCATTGCCTTGGTTATAGGAGACAATTC 12 173 1 CCTTGGATAG 0.648756 -22 TTCCCCTGTCCCTTGGCCAGAAACATTTGTCA 16 22 0 CCTTGGAGAA 0.901424 -188 GGCAATTTTCCCAGGGGTAAAACATTAAAACA 18 63 0 CCAGGGAAAA 0.920004 -68 CGTTAGAAAGCATTGGAAAAAATAGTTGGGTT 19 45 1 CATTGGAAAA 0.61088 -168 AACAATTCACCATGGGGTAAAAACTCATTAAG 19 166 0 CATGGGAAAA 0.693707 -47 TATTTACCGACCTTGGGCAGAGCTTTCCTAGC 21 56 0 CCTTGGAGAG 0.882154 -245 GAACGACTATCCATGGCAAGAACTGAGTCTAT 28 193 1 CCATGGAGAA 0.913183 -108 TCTTTCCCCCCCATGGGGATAATGCAACAGCG 31 40 1 CCATGGATAA 0.721864 -131 TTTGAAATTTCCTGGGGCATAATAAATCGAAC 58 47 0 CCTGGGATAA 0.764989 -139 TTTATGGATTCATGGGCTATAAAGCGGCCAAG 62 53 1 CATGGGATAA 0.424414 -162 TGACTGATCCCCAGGGAGAGAAATACCAGATC 63 85 0 CCAGGGAGAA 0.938175 -72 ACTGACCAATCATGGGTCAAAAATTACTAGTT 63 126 1 CATGGGAAAA 0.693707 -31 TTACCTGGGGCAATGGACAGAAAGGCAAAGTT 67 47 0 CAATGGAGAA 0.704378 -75 TTTTACCAACCCTGGGACAAAAGCAGGATCAA 68 38 1 CCTGGGAAAA 0.909077 -27 CAACAGTAGACCGGGGACAGACCGAGTTGACA 72 65 0 CCGGGGAGAC 0.771138 -149 GAGTTAGTTTCAGTGGGAAAAACA 73 76 1 CAGTGGAAAA 0.543634 -14 TGGTGGAAGACCAGGGGTAAACCCAGTTTTTC 77 193 1 CCAGGGAAAC 0.794708 -93 TTACCTCCCTGGGCGAAAGTGGAAAAACT 90 8 1 CCTGGGAAAG 0.891122 -120 GAGAACGTTACAATGGTAAAAGTAAAGAAATG 90 85 1 CAATGGAAAG 0.596486 -43 GGTCACCAGGCAATGGCAAGAATCCAGCCAAA 92 69 1 CAATGGAGAA 0.704378 -195 GGCTTTAGGGCCAGGGGAAGACCCTCGATTTG 92 159 1 CCAGGGAGAC 0.836275 -105 ATTAAGAAGTCCGGGGGCAAACAAAATTTAGA 92 208 1 CCGGGGAAAC 0.718598 -56 GTTTGCTACCCCTGGGGCAAAATTTTTCTCCC 101 125 0 CCTGGGAAAA 0.909077 -65 AACCTAGAGTCCTTGGTGAGAGTTTGGGCAAT 104 75 0 CCTTGGAGAG 0.882154 -226 CACAATCAGCCCGTGGAAAGAGGATGGGTTTA 108 235 0 CCGTGGAGAG 0.8503 -66 AAAAATGGCGCCGTGGACATAGAGTTTCCATT 110 69 1 CCGTGGATAG 0.583594 -99 TAATCACTCGCAATGGAAAAAAAATAGTTGTA 112 157 1 CAATGGAAAA 0.643596 -113 AGTTCCTCCACCTGGGCCAGAGGAAATTAACC 125 57 0 CCTGGGAGAG 0.915249 -150 TACAATAGAGCCAGGGAAAAAATTACAGCTCT 126 107 1 CCAGGGAAAA 0.920004 -194 AATAGCTGACCCATGGTCAAAATCGAACCCCA 127 42 0 CCATGGAAAA 0.88854 -70 TTAATTAAGGCCGGGGAAAGAGATAGCCCAAA 129 99 0 CCGGGGAGAG 0.891238 -202 TTGCACCGTACCATGGTGAGAAAGCCTATCTG 130 11 0 CCATGGAGAA 0.913183 -290 CAAGGGCTATCCATGGGCAAAGAGATAAAAGA 130 249 0 CCATGGAAAG 0.867122 -52 ****** **** Masking position 9 Map Score: 39.2071 Number of sites scoring better than the average of aligned sites = 1355 Number in coding regions = 1206 Number in noncoding regions = 149 Number of orfs with sites within 600 bp upstream = 165 Fraction of orfs with sites within 600 bp upstream = 0.0265018 Motif number 5 CTTTTCCCGATCGCCGTTGAAGTGTTTTTA 2 62 0 TCGCCGTTGA 0.591037 -55 GTTTTGCTCTCCCCCATTGGTTTTGACTAC 2 91 0 CCCCCATTGG 0.838401 -26 GGCAATCTACTTGCCATGGGCAATGGAATT 6 39 0 TTGCCATGGG 0.883615 -59 AGACTGATTTTTCCCGTTGGTCAACCAGAC 9 206 1 TTCCCGTTGG 0.756437 -95 GCAAAACCAACCGCCAGGGACACTCGCCTA 13 165 1 CCGCCAGGGA 0.652612 -136 CCATTACCGCCCCCCGGTGGATATTGACCC 14 73 1 CCCCCGGTGG 0.511324 -50 AAAGGCAATTTTCCCAGGGGTAAAACATTA 18 68 0 TTCCCAGGGG 0.90988 -63 CCACAACAATTCACCATGGGGTAAAAACTC 19 172 0 TCACCATGGG 0.809011 -41 GACTCAGTTCTTGCCATGGATAGTCGTTCA 28 192 0 TTGCCATGGA 0.71913 -109 TGTTGCATTATCCCCATGGGGGGGAAAGAA 31 39 0 TCCCCATGGG 0.952181 -132 GGCGGGGCTTTTGCCAGGGGCACCAAAGGG 36 66 1 TTGCCAGGGG 0.879859 -96 GGCTCTGTGTTCCCCATGGAGTCGTTTTTC 36 95 0 TCCCCATGGA 0.870391 -67 CTGTAATTGGTTACCAGGGGCGATCGCCGT 37 205 1 TTACCAGGGG 0.682256 -72 ATAGATGGTATTACCATTGATTGGGTAGAA 40 51 0 TTACCATTGA 0.32816 -72 TAAATTTAGGTTCCCATTGGTTCTAATAGG 48 24 1 TTCCCATTGG 0.871998 -129 CAGAGTTTATTTCCCAGTGGTAAGCGTGGG 57 76 1 TTCCCAGTGG 0.867916 -149 AACCTGGCGATCGCCATTGAAGCGGTTTTT 58 11 1 TCGCCATTGA 0.760205 -175 CCGTCGGCGATCGCCATTGATGCAGCTATA 60 200 1 TCGCCATTGA 0.760205 -53 TTATAACACGTTGCCATTGACCAGGAACCG 62 132 1 TTGCCATTGA 0.624889 -83 CTTTGACTGATCCCCAGGGAGAGAAATACC 63 90 0 TCCCCAGGGA 0.853674 -67 TCTAGATCACCTCCCATGGGTGCTTGCATC 64 101 1 CTCCCATGGG 0.807344 -152 AGTTACTCTGTTACCATGGGGGACGGCCCT 67 21 0 TTACCATGGG 0.690028 -101 AAATTGGCGATCGCCAGGGAGCAATTTTTA 67 76 0 TCGCCAGGGA 0.824433 -46 TCTGCCCCATCCCCATTGATACCAACGAT 74 136 0 TCCCCATTGA 0.813836 -19 TTCCTGGCGATCGCCGTTGGGCCTGGGTGT 85 66 0 TCGCCGTTGG 0.810803 -71 AAGGCAATGCTCCCCGAGGGGGATAACCGG 87 36 0 TCCCCGAGGG 0.481812 -52 CTGTGGTGAGTCGCCAGTGGACTGGTGAGT 88 15 0 TCGCCAGTGG 0.900663 -98 GTAACAAACTTCCCCATTGACC 90 116 1 TCCCCATTGA 0.813836 -12 GTCCCCAATGTCCCCATTGAATTCGACCGG 100 181 1 TCCCCATTGA 0.813836 -120 CATCAAAGGTTTACCGGGGGTTAGCTGTGC 100 251 1 TTACCGGGGG 0.492767 -50 GAAAAATTTTGCCCCAGGGGTAGCAAACAA 101 129 1 GCCCCAGGGG 0.560012 -61 CGATCGCCTATTGCCGGGGGGAAGAGATAT 103 24 1 TTGCCGGGGG 0.769476 -260 CCCCCTGTATCCACCATTGGAAGTAACTAA 108 208 1 CCACCATTGG 0.524528 -93 CAGCCAAATTTCCCCAATGGGCGGATTACT 122 19 1 TCCCCAATGG 0.57307 -98 CCAAGCATGACTCCCATTGGGCCAGATCTC 124 84 0 CTCCCATTGG 0.731658 -97 TCGGGCTTAGTTCCCATTGGTCAAGCATCT 124 126 0 TTCCCATTGG 0.871998 -55 GTTGGGGATACTGCCGGGGGTTAATGGAGC 129 203 0 CTGCCGGGGG 0.571874 -98 ********** Masking position 5 Map Score: 39.2625 Number of sites scoring better than the average of aligned sites = 2469 Number in coding regions = 2230 Number in noncoding regions = 239 Number of orfs with sites within 600 bp upstream = 257 Fraction of orfs with sites within 600 bp upstream = 0.0412785 Motif number 6 AAAAACCACGCCGACGCAGGGATTGGGTCAA 3 28 1 CCGACCAGGG 0.969214 -28 AATACCCATTCCGACCAAGGAGCTCAGCAGT 9 248 0 CCGACAAGGA 0.922932 -53 TAAAATCTCACCGTCAAAGGGTTGAACACCA 13 14 0 CCGTCAAGGG 0.803288 -287 AAACCCAAAACCGGCATTGGGGCAGTCCTAA 15 81 0 CCGGCTTGGG 0.797879 -117 ACAAATGTTTCTGGCCAAGGGACAGGGGAAG 16 24 1 CTGGCAAGGG 0.63541 -186 TCACGGTCCGACGACGGAGTTATTTACT 18 8 1 CCGACACGGA 0.824034 -123 CCTAATCTGGCCGACTAAGGGGAATCGCAAA 19 116 0 CCGACAAGGG 0.972418 -97 GGGGTATTTACCGACCTTGGGCAGAGCTTTC 21 61 0 CCGACTTGGG 0.769646 -240 TCCAACAACTCCGGCCCAGTGTCGCCCCCCA 21 197 1 CCGGCCAGTG 0.608805 -104 TTAACTTAAGCCAACTAAGGGCTGTTG 26 284 1 CCAACAAGGG 0.732915 -17 CTAGTCACATCCGGCTCAAGATGCCAATTTT 38 52 0 CCGGCCAAGA 0.598571 -72 CCGGCAGATTCCGGCTCCGGGTAGCATAACA 53 40 1 CCGGCCCGGG 0.935671 -63 TGCTCCCCCCCCGACCTAGGAAAATTCTGGG 66 64 1 CCGACTAGGA 0.778014 -180 TTATGTTTTACCAACCCTGGGACAAAAGCAG 68 33 1 CCAACCTGGG 0.442426 -32 TGCCTGGTGACCGACCCCGGACAAATTTGTT 92 50 0 CCGACCCGGA 0.807013 -214 TCTCTTCCCCCCGGCAATAGGCGATCGGGGA 103 20 0 CCGGCATAGG 0.614176 -264 CATAAATTTCCCGGCCAAAGGATGTGAGTTA 107 57 1 CCGGCAAAGG 0.830965 -47 AAAAATCCCGACCAAGGAAACAGCAATA 107 86 0 CCGACAAGGA 0.922932 -18 TTCCGGGCACCCGACTAAGGGAAACACCAGT 119 126 1 CCGACAAGGG 0.972418 -45 CGGAAGCTATCCGGCCAAGGAGCACTCAGAT 130 109 0 CCGGCAAGGA 0.933989 -192 ***** ***** Masking position 5 Map Score: 18.9145 Number of sites scoring better than the average of aligned sites = 374 Number in coding regions = 336 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 7 TTCATTGTCTAGATAGGGCAATTATTGACTTCCCCAA 11 40 1 AGATGGAATG 0.600569 -110 ATATCCACCGGGGGGCGGTAATGGTAGGGGCCAAGGC 14 60 0 GGGGGGAATG 0.753863 -63 CACGTTAGAAAGCATTGGAAAAAATAGTTGGGTTGGG 19 43 1 AGCAGGAAAG 0.568436 -170 TAATGATGATGGCTTAGGTAATAAAAGGAGTGACCCG 45 128 1 GGCTGGAATG 0.957557 -27 CTTTTCTGGTAGCGTCGGCAAAACTCTCCTTTACCCT 49 48 1 AGCGGGAAAT 0.738285 -61 CGGATTAAGCAGCGCGGGGAAAAAGAGAG 50 13 1 AGCGGGAAAG 0.948339 -19 CCTGGCCTGTGGCGGTGGAAATCTGGGTTCAAAAGGT 55 56 0 GGCGGGAATG 0.977897 -169 GTAATTATTGGGCTAAGGGAAAAAAGTGATGGTCAAC 56 90 0 GGCTGGAAAT 0.718099 -64 CCCAGTGGTAAGCGTGGGTAATCGGGGCGATCGCCTG 57 88 1 AGCGGGAATG 0.961515 -137 ACCCATCGCTAGAGCTGGAAATTTCCGCCTAGAACAG 61 26 1 AGAGGGAATG 0.746743 -275 TGAAAAATATGGCGGAGGAAAACTGAGTTAGAATTGA 64 26 1 GGCGGGAAAG 0.970156 -227 GTAAAACTAGGGCGTGGGCAAGGGGAGTTAAAAATTG 70 92 1 GGCGGGAAGG 0.883655 -209 TTGATCGACGGGCTTGGGAAACTGTCGGAGAAGTTGA 70 126 1 GGCTGGAACG 0.794788 -175 GACCCACTAAAGCTCCGGCAATACTGGAGGACTTTCA 70 237 0 AGCTGGAATG 0.927221 -64 TTTCGATTTTGGCTAGGGCAAATCATGGTGGAAGACC 77 168 1 GGCTGGAAAG 0.943106 -118 TCTTCACTAAAGCTCCGGCAAATTTGGGGGACTTTGA 81 96 1 AGCTGGAAAG 0.903483 -111 GGGAAACCATAGCGCTGGTAATTCTTGC 94 43 1 AGCGGGAATG 0.961515 -18 AGACGGCATGGAGAAGGCAATTAATGCAAGACTCAG 100 10 1 GGAGGGAATG 0.839265 -291 AAATGGCTCTGGCTCTGGCGATCAGAGT 101 2 0 GGCTGGGATG 0.683219 -188 TGTAAAGACTGGCTATGGGAATTTATTGAACCTGTGC 104 191 0 GGCTGGAATT 0.776134 -110 TAAATGTTGAGCGGCGGCAAAAATCTCTTCTGATTT 104 275 0 AGCGGGAAAT 0.738285 -26 **** ** *** * Masking position 11 Map Score: 18.3124 Number of sites scoring better than the average of aligned sites = 582 Number in coding regions = 521 Number in noncoding regions = 61 Number of orfs with sites within 600 bp upstream = 59 Fraction of orfs with sites within 600 bp upstream = 0.00947639 Motif number 8 TGACTGTCAATCCACTCTCAGCCCCTCCTT 4 102 0 TCCACTCTCA 0.533222 -123 GCCTGCCTTGGCCCCTACCATTACCGCCCC 14 56 1 GCCCCTACCA 0.905364 -67 TCCAGGGGAGTCCCCTCCCCGATTCTATCT 15 168 1 TCCCCTCCCC 0.915461 -30 ACTAGATGCTTCCCCTGTCCCTTGGCCAGA 16 33 0 TCCCCTGTCC 0.878094 -177 TCCGTCAACATCCCCAACCCAACTATTTTT 19 62 0 TCCCCAACCC 0.859311 -151 TCGAGTAATTGCCCCTGTCCTTGCCATTTC 27 27 1 GCCCCTGTCC 0.8688 -25 AACTAACCAATCCACAGCCCCTGCCGCCA 28 282 1 TCCACAGCCC 0.759644 -19 TCCCTTTGGTGCCCCTGGCAAAAGCCCCGC 36 67 0 GCCCCTGGCA 0.646466 -95 TCTTAACAAAACCCCTGCCCCCACCACGGC 37 230 0 ACCCCTGCCC 0.606315 -47 ATTTGATTTTTCCCCTCTCAAAATTT 46 7 0 TCCCCTCTCA 0.74534 -43 AACCCAGATTTCCACCGCCACAGGCCAGGG 55 64 1 TCCACCGCCA 0.526408 -161 TTTGTTGGATGCCACTGCCAACCAACCCCA 65 79 1 GCCACTGCCA 0.831942 -92 GGTGAAACTTGCCCCTGCCATCCTCTTGTC 71 42 0 GCCCCTGCCA 0.926918 -80 GTTTCCAAGATCCACAACCCTCCTTTGATT 74 30 1 TCCACAACCC 0.704486 -125 TCTGCCCCATCCCCATTGATACC 74 142 0 GCCCCATCCC 0.39408 -13 AAAGTCATGATCCACTCTCCAAATGTCTTC 81 71 1 TCCACTCTCC 0.613558 -136 CTCCATCAAAGCCACACCCAGGCCCAACGG 85 53 1 GCCACACCCA 0.541412 -84 AAGTCTTATCGCCCCTATCAACTAATAGGA 92 125 1 GCCCCTATCA 0.782314 -139 TCGAGGGTCTTCCCCTGGCCCTAAAGCCCC 92 157 0 TCCCCTGGCC 0.734361 -107 GACCGCCATCTCCACTACCAGGAAAATGGC 96 60 0 TCCACTACCA 0.802436 -59 AGTTGATCAAGCCACAATCATCGAGGCGAT 102 54 1 GCCACAATCA 0.371996 -247 TTACCTTTTGTCCCCTACCAAATGGCGATC 102 81 0 TCCCCTACCA 0.912329 -220 CCCAAAACCTTCCCCCATCCTGGACTTGGT 103 72 1 TCCCCCATCC 0.528641 -212 ACTACGGGTTTCCACAATCAGCCCGTGGAA 108 249 0 TCCACAATCA 0.391848 -52 TCCTAGAAAGTCCCCTACCAAGGTAATGCT 110 128 0 TCCCCTACCA 0.912329 -40 GGTTATTTGTTCCCCTACCCATCGGGCAAA 128 39 1 TCCCCTACCC 0.935331 -35 ********** Masking position 5 Map Score: 17.924 Number of sites scoring better than the average of aligned sites = 1869 Number in coding regions = 1720 Number in noncoding regions = 149 Number of orfs with sites within 600 bp upstream = 161 Fraction of orfs with sites within 600 bp upstream = 0.0258593 Motif number 9 ACACCGCTCTGAACTTTGCCTTGTTTGGGG 11 91 1 GAACTTTGCC 0.964039 -59 ATTACTATCTCAACTTTGCCTAAACTGGA 31 152 1 CAACTTTGCC 0.877576 -19 GGAGCCAGGGAAATTTGCCAGAAAAATTA 51 12 0 GAAATTTGCC 0.904704 -19 TTATTTCCCTGAACTTTGCCC 60 242 1 GAACTTTGCC 0.964039 -11 GGTAACAGAGTAACTTTGCCTTTCTGTCCA 67 36 1 TAACTTTGCC 0.896336 -86 TAGTTTTACTGAATTTTGCCGATCTTTTTG 70 71 0 GAATTTTGCC 0.700788 -230 ACAACACGGTGAAACTTGCCCCTGCCATCC 71 49 0 GAAACTTGCC 0.911494 -73 TCCGAACCCCGAAATTTGCCTATTT 80 69 1 GAAATTTGCC 0.904704 -15 CAAAGTCCCCCAAATTTGCCGGAGCTTTAG 81 102 0 CAAATTTGCC 0.717401 -105 GATCGCCGATGAACCTAGCCACCGCCAAAC 101 70 1 GAACCTAGCC 0.886615 -120 TTAAGGAAATTAACCTTGCCCGACT 101 175 1 TAACCTTGCC 0.903659 -15 TCAAGGCGCAGAAACTAGCCTAAGATGAGA 103 202 1 GAAACTAGCC 0.734689 -82 CTTAACCTAGCCAGGGGCATTT 122 105 0 TAACCTAGCC 0.716079 -12 CTATCAAAAAAAACCTTGCCAATCCGGTTC 123 15 0 AAACCTTGCC 0.740323 -56 TTTTAGTTGTTAACTTTGCCTTTACCTGGG 124 22 1 TAACTTTGCC 0.896336 -159 ********** Masking position 3 Map Score: 12.1951 Number of sites scoring better than the average of aligned sites = 213 Number in coding regions = 173 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 10 GCTGTCCTCAACGGGGCTTTTTGCCATGGC 1 152 0 ACGGGGCTTT 0.841324 -73 GGACAAAAATAGTGGGCTTTGGCTAACTAC 4 35 0 AGTGGGCTTT 0.676508 -190 AATATCCACCGGGGGGCGGTAATGGTAGGG 14 68 0 GGGGGGCGGT 0.88501 -55 CGGCCAGATTAGGGGGAGTTTTTTATTGGC 19 134 1 AGGGGGAGTT 0.576199 -79 TAGGAATCTGGCGGGGCTTTTGCCAGGGGC 36 57 1 GCGGGGCTTT 0.915795 -105 GCAGTAAAAGAGGGGGCTTTTCCATTGTAG 45 20 1 AGGGGGCTTT 0.971716 -135 TGGAGGGCCAGGGGGGCTTTTCAAACACGT 70 189 0 GGGGGGCTTT 0.986008 -112 CGGCAATACTGGAGGACTTTCACTCATTTC 70 229 0 GGAGGACTTT 0.537766 -72 CGGCAAATTTGGGGGACTTTGAACACTATT 81 111 1 GGGGGACTTT 0.91553 -96 TTGGGGGGCTAGGGGGCTTTTAAAAGACGT 81 151 1 AGGGGGCTTT 0.971716 -56 GTAAAGCCGAGGAGGGCGTTATTGCTGAGC 82 157 0 GGAGGGCGTT 0.849924 -95 CCTGGCCAAAAGGGGGCGATGGGTT 87 6 0 AGGGGGCGAT 0.816989 -82 ACTAATAGGAGGGGGGCTTTAGGGCCAGGG 92 145 1 GGGGGGCTTT 0.986008 -119 TTCTTAATTTGGGGGGCTATGGGCTCAAAT 92 186 0 GGGGGGCTAT 0.924415 -78 AGGGGGGCGTTTAAAACGGGC 104 2 1 GGGGGGCGTT 0.981399 -299 TTACCTTGGTAGGGGACTTTCTAGGACAAT 110 132 1 AGGGGACTTT 0.840867 -36 ********** Masking position 10 Map Score: 19.9233 Number of sites scoring better than the average of aligned sites = 318 Number in coding regions = 240 Number in noncoding regions = 78 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 11 GGGCTTATCCGTTTTTTTGTTGTCGGAAAGAA 8 76 1 GTTTTTTTGG 0.970066 -26 TGTTTGGGGTGGTTTTTTGTTGTTGCCTCATT 11 112 1 GGTTTTTTGG 0.847635 -38 TCACGGTCTGGTTTTTTTGCTGGCTAGGAAAG 21 34 1 GTTTTTTTGG 0.970066 -267 CCATTTTTTTGTGGGCTAAAACC 33 3 1 ATTTTTTTGG 0.818267 -21 TTAAGGTTAAGTTTTTTTGAGGACACGTTTCG 41 73 0 GTTTTTTTGG 0.970066 -68 TTCCATTGTAGTTTTGTTGAAGCTGTGGAATT 45 39 1 GTTTTGTTGG 0.847635 -116 AATTTTGCCGATCTTTTTGTCGATTTGAGGGA 70 58 0 ATCTTTTTGG 0.633441 -243 ATTCCATCAAGTTTTTTTGATGAGTTGTC 72 8 0 GTTTTTTTGG 0.970066 -206 GACATATCAAGTTTTTTTGATGTAAGATTATT 72 37 0 GTTTTTTTGG 0.970066 -177 CCTATGGGTCGTGTTTTTGCCGCCCTAAAAGG 77 100 0 GTGTTTTTGG 0.871105 -186 TATCATTTTAGTCTTTTTGGCGGCGGCACTAC 97 65 0 GTCTTTTTGG 0.925581 -71 CTCCCCGTCTGTTTTTTTGATGTGGGCACAGG 104 166 1 GTTTTTTTGG 0.970066 -135 ********* * Masking position 7 Map Score: 10.5415 Number of sites scoring better than the average of aligned sites = 32 Number in coding regions = 19 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 12 TTGCTGGATTCTAGGAAATTGCT 2 3 0 CTAGGAAATG 0.369157 -114 TTCCTAGAATCCAGCAAAAATAATAAAGATT 2 17 1 CCAGCAAAAT 0.714467 -100 TGGCTAACTACCAGAGAAATTACTGAACAAA 4 15 0 CCAGAGAAAT 0.489348 -210 CTCAGTCAATCCAGGGAAGATGGTCAGCCGT 12 56 1 CCAGGGAAGT 0.82118 -139 CTACTAACTCCCTGGAAAAATAGGCGAGTGT 13 184 0 CCTGGAAAAT 0.68127 -117 CGGCCGATCGCCAGCAAAACGGGGGACAGCT 16 144 0 CCAGCAAAAG 0.646159 -66 ATGTTTTACCCCTGGGAAAATTGCCTTTTTC 18 70 1 CCTGGGAAAT 0.497112 -61 TTTTTGCTGGCTAGGAAAGCTCTGCCCAAGG 21 47 1 CTAGGAAAGT 0.603971 -254 AAACCTAGGACTAGGAAAGCGCAGACGGCAA 21 158 0 CTAGGAAAGG 0.526738 -143 ACTAGAGTTGCCAGCAAAAATTAATTCTTGC 21 266 1 CCAGCAAAAT 0.714467 -35 AATCCCCAGGAAAAAGTCGAGTAATT 27 6 1 CCAGGAAAAG 0.916565 -46 CTGAAATGCGCCAGGAAATTGCCATTATGCT 28 30 0 CCAGGAAATG 0.792103 -271 GCCGACGCTACCAGAAAAGTTAGAATAGTTG 49 36 0 CCAGAAAAGT 0.577502 -73 CTACTGTTTGCCTGGAAAATTGGATAATGGC 49 83 1 CCTGGAAAAT 0.68127 -26 GGGAAATTTGCCAGAAAAATTAA 51 3 0 CCAGAAAAAT 0.674487 -28 GGAGCCAGGGAAATTTGCCAGAAAA 51 16 0 CCAGGGAAAT 0.874394 -15 CCGCCACAGGCCAGGGAAGATTTGGGTTTTT 55 78 1 CCAGGGAAGT 0.82118 -147 GGGATAAACCCCAGAAAATCTTGGCAGCCCA 55 115 1 CCAGAAAATT 0.418152 -110 TTATTATGCCCCAGGAAATTTCAAAATTATC 58 54 1 CCAGGAAATT 0.839247 -132 TAATGGTGGACCAGGTAATCGCGGCTGAATT 62 173 0 CCAGGTAATG 0.407853 -42 CCCCCCCGACCTAGGAAAATTCTGGGTATCG 66 69 1 CTAGGAAAAT 0.698057 -175 GATCAACGTTCCAGGTAAGTTAAGCCAGCCA 76 51 0 CCAGGTAAGT 0.642223 -70 GGGAAATTTACCAGGAAAAATTGAGCAGACT 77 262 0 CCAGGAAAAT 0.937705 -24 ATCTCCACTACCAGGAAAATGGCGATCGCCA 96 52 0 CCAGGAAAAG 0.916565 -67 CTTAATCTTTCTAGGAAAACTGGCAGTAATA 122 47 1 CTAGGAAAAT 0.698057 -70 CCCGCAATTCCCAGGTAAAGGCAAAGTTAAC 124 30 0 CCAGGTAAAG 0.665091 -151 ********* * Masking position 7 Map Score: 16.5029 Number of sites scoring better than the average of aligned sites = 880 Number in coding regions = 781 Number in noncoding regions = 99 Number of orfs with sites within 600 bp upstream = 109 Fraction of orfs with sites within 600 bp upstream = 0.0175072 Motif number 13 AGGCCAACTACCCACCTCCGCCCATTGACCTG 6 76 1 CCCCCTCGCC 0.968334 -22 TGTACCACTGTCCCCCGCAACCCACAACAATT 19 191 0 TCCCCGCACC 0.973571 -22 TTTACAATCAACCTCCGCCACC 38 112 1 ACCCCGCACC 0.853094 -12 CTCTCTTTTTCCCCGCGCTGCTTAATCCGAA 50 10 0 CCCGCGCGCT 0.892936 -22 AACCCAGATTTCCACCGCCACAGGCCAGGGAA 55 64 1 TCCCCGCACA 0.783142 -161 CAAAAATCTATCCAGCTCGGCCCCAATGGATC 66 28 0 TCCGCTCGCC 0.806863 -216 TGTCAATGCTCCCCCCCCGACCTAGGAAAATT 66 58 1 CCCCCCCACC 0.914301 -186 TGGGGGACGGCCCTCCGCAACCAG 67 3 0 CCCCCGCACC 0.978151 -119 TCCATTCACATCCTCCGCTGCCTTAGGTAAAG 72 162 1 TCCCCGCGCC 0.988704 -52 AGCAATAACGCCCTCCTCGGCTTTACACCCTG 82 161 1 CCCCCTCGCT 0.935233 -91 TGCCCTCCGCCGCTGAAGTTCCAC 91 3 1 CCCCCGCGCT 0.980482 -57 TTCAGTTAGCTCCACCCCAACTA 92 251 1 TCCCCCCACT 0.805646 -13 CCCTTGACGTTCCGCCGCTGCTCCATGTTACA 108 89 1 TCCCCGCGCT 0.976376 -212 GAGCAGTTCCTCCACCTGGGCCAGAGGAAATT 125 61 0 TCCCCTGGCC 0.678465 -146 GGGTTGCGCATACCCCGCAGCTTGCTGCGATT 126 264 0 TACCCGCGCT 0.700492 -37 *** **** *** Masking position 6 Map Score: 13.2876 Number of sites scoring better than the average of aligned sites = 786 Number in coding regions = 767 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 30 Fraction of orfs with sites within 600 bp upstream = 0.0048185 Motif number 14 GTGTTCTCAGGGCCCAGCCCTTAAAAGTAT 1 205 0 CAGGCCAGCC 0.974969 -20 AAACGAATTCCATTGCCCATGGCAAGTAGATTG 6 34 1 CATGCCATGC 0.688102 -64 AACAACCCGTTACTGCTGAGCTCCTTGGTCGGA 9 237 1 TATGCTAGCC 0.77833 -64 CCATATTCCCTAATGCCTAGCTCTGGCTATTTT 13 83 1 TATGCCAGCC 0.946039 -218 GCGACGGGGCCAGGGCCTAGCCCGAGGGGCAAA 15 117 0 CAGGCCAGCC 0.974969 -81 GTGCTGGGTCAACGGCCGATCGCCAGCAAAACG 16 154 0 AAGGCCATCC 0.593349 -56 GATTTGATGTCAACGCCTAGCGCACTTTTTTTC 20 81 0 CACGCCAGCC 0.952545 -158 AAATCTTTCCTACTGCTAAGCTCTTAGAGCGTG 25 52 1 TATGCTAGCC 0.77833 -83 ATTTCACTTGCACGGCCTAGGACTCCATAGGAA 26 114 0 CAGGCCAGGC 0.925222 -187 AAGTACAAAGAATTGCTAAGCACTGTAGATTAC 31 124 1 AATGCTAGCC 0.525967 -47 AGAAAGACATTAGCGCCGAGGACAACTAGGCC 36 10 0 TACGCCAGGC 0.777192 -152 TATTCTAAACCACTGCCTACCACCCAGGAGAGT 58 132 0 CATGCCACCC 0.757787 -54 TTAGCCCAGCCATTGCCGATGGCGTCAATATTT 112 31 0 CATGCCATGC 0.688102 -239 GTTTCAACAATATGGCTTAGCCCTAAATCCCCA 118 65 1 TAGGCTAGCC 0.81015 -236 CCGATTTAAATAATACCCAGCCCCTAGTT 120 7 0 TATACCAGCC 0.465085 -44 AACCCCAATCTATCGCCAATCCCTAATCCGGCG 127 16 0 TACGCCATCC 0.704103 -96 CCAGGCCATACACGGCCCAGCGCCAAGATGGGG 130 168 0 CAGGCCAGCC 0.974969 -133 ** **** *** * Masking position 9 Map Score: 9.3883 Number of sites scoring better than the average of aligned sites = 422 Number in coding regions = 389 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 43 Fraction of orfs with sites within 600 bp upstream = 0.00690652 Motif number 15 AGTCGGTGATTTTACCTTTTCCCTCGTCGCCCCAC 20 194 0 TTACCTTTTC 0.764442 -45 CGGAAATTGATTATCCCGTTGAAGCAATCATCGAG 26 234 1 TTTCCCGTTC 0.887858 -67 ATGGAGTCGTTTTTCCCTTTGGTGCCCCTGGCAAA 36 75 0 TTTCCCTTTC 0.956079 -87 TGGTATCTGGTTCTCCCTTTTGATCGCCTAATTCC 45 65 0 TTTCCCTTTC 0.956079 -90 TTGCCACATCTTTTCCTTTCTCGATTGTTTCCGTT 47 261 1 TTTCCTTTCT 0.42215 -40 TTTTTTAAAGTTCTCCTGTTGTCGTAAATGACAAA 53 77 0 TTTCCTGTTT 0.42215 -26 ATTTTGTCCCTTTTTTCCTTTTTCTCAC 56 4 1 TTTCCCTTTC 0.956079 -150 CTTGTCTGACTTTACCCTTTAATATCATTCAAAAA 71 13 0 TTACCCTTTT 0.714848 -109 TCGTTGCGAATTTTCCTTTTGTACTGAGATTTCCC 79 70 0 TTTCCTTTTT 0.667619 -147 ATCTGCTACCTTGTCCCTTCTTTTC 84 65 1 TTTCCCTTCC 0.887858 -15 TAGAGTCTATTTATCCCTTCCTTGCATCCATAGCA 98 96 1 TTTCCCTTCC 0.887858 -29 GGCAAAATTTTTCTCCCTTTGCTTCCATTCTGACC 101 107 0 TTTCCCTTTC 0.956079 -83 TTTATGTTTCTTTACCTTTTGTCCCCTACCAAATG 102 87 0 TTACCTTTTC 0.764442 -214 GATCACGAACTTCACCTTTTGTAACATGGAGCAGC 108 105 0 TTACCTTTTC 0.764442 -196 ATCAAAGCTGTTTTCCCTTTAGGTTTCGTCC 125 7 0 TTTCCCTTTT 0.853193 -200 AAAGCTAAAATTCTCCCGTTTCAGCAAGTTTTAGC 125 103 0 TTTCCCGTTC 0.887858 -104 CCTTGGCTAGTTAACCCTTTTTGGCTAGGATTTGG 130 276 1 TTACCCTTTC 0.903751 -25 ** ******* * Masking position 9 Map Score: 10.9033 Number of sites scoring better than the average of aligned sites = 152 Number in coding regions = 117 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 36 Fraction of orfs with sites within 600 bp upstream = 0.0057822