AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i02020_synecho_reg_300.orf -o02020_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: slr0265 119 transposase. slr0797 129 cadA; cadmium-transporting ATPase. slr0536 146 hemE; uroporphyrinogen decarboxylase. [EC:4.1.1.37] [SP:DCUP_SYNY3] Input sequences: #1 sll1672 193 sensory transduction histidine kinase. #2 sll1671 300 hypothetical protein. #3 slr1761 267 ytfC; FKBP-type peptidyl-prolyl cis-trans isomerase. [EC:5.2.1.8] #4 sll1643 243 hypothetical protein. #5 slr1762 99 hypothetical protein. #6 slr1763 39 hypothetical protein. #7 sll1642 206 hypothetical protein. #8 slr1764 125 capA; cAMP binding protein. #9 sll1641 157 gad; glutamate decarboxylase. [EC:4.1.1.15] #10 sll1639 146 ureD; urease accessory protein D. [SP:URED_SYNY3] #11 sll1638 300 hypothetical protein. #12 slr1728 56 kdpA; potassium-transporting ATPase A chain. [EC:3.6.1.36] #13 slr1729 28 kdpB; potassium-transporting ATPase B chain. [EC:3.6.1.36] #14 ssr2912 189 hypothetical protein. #15 slr1730 231 kdpC; potassium-transporting ATPase C chain. [EC:3.6.1.36] #16 slr1731 76 kdpD; potassium-transporting ATPase D chain. [EC:2.7.3.-] #17 sll1586 269 hypothetical protein. #18 sll0254 105 hypothetical protein. #19 sll0253 65 hypothetical protein. #20 slr0260 78 cobA; cob(I)alamin adenosyltransferase. [EC:2.5.1.17] #21 ssl0467 95 hypothetical protein. #22 sll0252 221 hypothetical protein. #23 slr0261 42 ndhH; NADH-plastoquinone oxidoreductase 49 kD subunit. [EC:1.6.5.3] #24 slr0262 50 hypothetical protein. #25 slr0263 38 hypothetical protein. #26 slr0264 99 hypothetical 41.0 kD protein slr0264. [SP:Y264_SYNY3] #27 ssl0461 66 hypothetical 9.5 kD protein ssl0461. [SP:Y461_SYNY3] #28 sll0249 234 hypothetical 28.9 kD protein ssl0249. [SP:Y249_SYNY3] #29 sll0248 300 isiB; flavodoxin. [SP:FLAV_SYNY3] #30 slr2098 89 sensory transduction histidine kinase. [EC:2.7.3.-] #31 slr2099 226 regulatory components of sensory transduction system. #32 slr2100 164 regulatory components of sensory transduction system. #33 slr2101 189 hypothetical protein. #34 slr2103 233 hypothetical protein. #35 slr2104 222 sensory transduction histidine kinase. [EC:2.7.3.-] #36 sll1973 172 hypothetical protein. #37 slr2105 172 hypothetical protein. #38 sll1430 300 apt; adenine phosphoribosyltransferase. [EC:2.4.2.7] #39 sll1229 107 regulatory components of sensory transduction system. #40 sll1228 232 sensory transduction histidine kinase. #41 slr1329 60 atpD, atpB; ATP synthase beta chain. [EC:3.6.1.34] [SP:ATPB_SYNY3] #42 slr1330 159 atpC, atpE; ATP synthase epsilon chain. [EC:3.6.1.34] #43 slr1332 206 fabF; beta ketoacyl-acyl carrier protein synthase. [EC:2.3.1.41] #44 sll1226 89 hoxH; hydrogenase large subunit. #45 ssl2420 51 hypothetical protein. #46 sll1224 45 hoxY; hydrogenase small subunit. #47 sll1223 26 hoxU; hydrogenase subunit. [EC:1.12.1.2] #48 sll1222 40 hypothetical protein. #49 sll1221 76 hoxF; hydrogenase subunit. #50 sll1220 300 potential NAD-reducing hydrogenase subunit. [EC:1.6.5.3] #51 sll1871 183 sensory transduction histidine kinase. #52 slr1982 244 regulatory components of sensory transduction system. #53 sll1869 149 cbaB; 3-chlorobenzoate-3,4-dioxygenase. [EC:1.14.-.-] #54 slr1984 300 rps1b; 30S ribosomal protein S1 homolog B. [SP:RS1B_SYNY3] #55 slr0474 189 rcp1; response regulator for phytochrome 1. #56 sll0459 191 uvrB; excinuclease ABC subunit B. [SP:UVRB_SYNY3] #57 slr0476 163 hypothetical protein. #58 sml0002 116 psbX; photosystem II PsbX protein. #59 slr0480 24 ycf46; hypothetical protein. #60 slr0482 57 hypothetical protein. #61 slr0483 177 hypothetical protein. #62 slr0484 76 sensory transduction histidine kinase. #63 slr0487 135 hypothetical protein. #64 slr0488 126 hypothetical protein. #65 slr0492 187 menE; O-succinylbenzoic acid-CoA ligase. [EC:6.2.1.26] #66 sll0456 93 hypothetical protein. #67 sll0455 127 hom; homoserine dehydrogenase (HDH). [EC:1.1.1.3] [SP:DHOM_SYNY3] #68 slr0495 40 lipopeptide antibiotics iturin a biosynthesis protein. #69 slr0496 158 hypothetical protein. #70 sll0454 202 pheS; phenylalanyl-tRNA synthetase alpha chain (phenylalanine--tRNA #71 sll0691 135 hypothetical protein. #72 ssl1300 255 hypothetical protein. #73 sll0689 300 NaH-antiporter protein. #74 sll0396 216 regulatory components of sensory transduction system. #75 sll0395 116 hypothetical protein. #76 sll0394 134 hypothetical protein. #77 slr0415 53 napA; K(+)/H(+) antiporter. #78 slr0416 300 hypothetical protein. #79 slr0081 300 hisB; regulatory components of sensory transduction system. #80 slr0312 221 nitrate/nitrite response regulator protein. #81 slr0313 42 hypothetical protein. #82 slr0314 245 bromoperoxidase. #83 slr0315 300 hypothetical protein. #84 sll0797 118 regulatory components of sensory transduction system. #85 slr0793 38 hypothetical protein. #86 slr0795 114 hypothetical protein. #87 slr0796 65 nreB; nickel resistance. #88 sll0794 81 merR; mercuric resistance operon regulatory protein. [EC:5.-.-.-] #89 sll0792 151 smtB; transcriptional repressor smtB homolog. [SP:SMTB_SYNY3] #90 slr0798 26 cadA; cadmium-transporting ATPase. [EC:3.6.1.-] #91 sll0788 221 merR; hypothetical protein. #92 slr0800 180 merR; transposase. #93 sll0785 30 merR; hypothetical protein. #94 sll0784 137 merR; nitrilase. [EC:3.5.5.7] #95 sll0783 300 merR; hypothetical protein. #96 slr0533 98 sensory transduction histidine kinase. [EC:2.7.3.-] #97 slr0534 240 slt; soluble lytic transglycosylase. [EC:3.2.1.-] #98 slr0535 106 serine protease. [EC:3.4.21.-] #99 sll0509 101 Ap-4-A phosphorylase II. #100 sll0508 235 hypothetical protein. #101 sll0507 131 magnesium and cobalt transport protein. #102 sll0505 42 hypothetical protein. #103 sll0504 168 lysA; diaminopimelate decarboxylase (dap decarboxylase). #104 sll0502 197 argS; arginyl-tRNA synthetase (arginine--tRNA ligase) (argRS). #105 sll0501 201 hypothetical 36.7 kD protein sll0501. [SP:Y501_SYNY3] #106 slr0541 79 hypothetical protein. #107 slr0542 77 clpP1; ATP-dependent clp protease proteolytic subunit 1 #108 slr0543 70 trpB; tryptophan synthase beta chain. [EC:4.2.1.20] [SP:TRPB_SYNY3] #109 sll0499 300 clpP; hypothetical protein. Motif number 1 TCCTACAAACGGCGATCGCCTTAGTTATAC 4 104 1 GGCGATCGCC 0.499999 -140 ATGGCCCGTAGGCGATCGCCGTGGTGAACC 15 176 1 GGCGATCGCC 0.499999 -56 AAAGGCCGGCGGGGATCACCAAAGAGCAGT 22 111 0 GGGGATCACC 0.847884 -111 GCCAGATGCAGGCGATCGCCAACGATGGCA 29 164 1 GGCGATCGCC 0.499999 -137 GGAATATTACGGCGATCGCCATACAGTCAC 32 113 1 GGCGATCGCC 0.499999 -52 CAAAATTCTAGGCGATCGCCCTGGGATGGA 33 37 1 GGCGATCGCC 0.499999 -153 AATTCCCGCAGGCGATCGCC 39 98 1 GGCGATCGCC 0.499999 -10 TAGGAGGATAGGCGATCGCCGGGGGGAGGT 40 134 1 GGCGATCGCC 0.499999 -99 GTTTGGAAACGGCGATCGCCAAAATGGTTG 55 44 1 GGCGATCGCC 0.499999 -146 CTATGCCCCTGGCGATCGCCTAGATGGGAG 57 104 1 GGCGATCGCC 0.499999 -60 GCAAGGATTTGGCGATCGCCTTTTTTGGTT 66 39 1 GGCGATCGCC 0.499999 -55 TTAGGTTACTGGCGATCGGCTCCCCATTCT 67 80 0 GGCGATCGGC 0.528313 -48 GGCAAACTAGGCGATCGCATAGCAAATAT 74 198 0 GGCGATCGCA 0.525218 -19 GAAGAGAAATGGCGATCGGGAGCCGGAACG 76 65 0 GGCGATCGGG 0.879285 -70 AAAAAAACTTGGCGATCGCCATGGTGAATC 78 211 1 GGCGATCGCC 0.499999 -90 GAAGTCAAATGGCGATCAACACAAATAAAA 78 280 1 GGCGATCAAC 0.774697 -21 ACGGTTTGAAGGCGATTGCCTATATTGAAT 80 87 0 GGCGATTGCC 0.521048 -135 TCTCGGCAGTGGCGATCGCCGCTCCTAACC 83 84 1 GGCGATCGCC 0.499999 -217 TTTTCCCAGGGGCGATCAGCCT 96 87 1 GGCGATCAGC 0.897175 -12 ACGTTAGCTTGGGGATCGCAGCAAAAATCT 97 159 0 GGGGATCGCA 0.824609 -82 ATAGACCACTGGCGATCGGCATGGTAACAG 105 84 1 GGCGATCGGC 0.528313 -118 ********** Masking position 6 Map Score: 84.3927 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 GCGGGCTTTGGCATTGGCTCCCCACC 1 7 0 GCATTGGCTC 0.576744 -187 CCATTATATCGCCTTGCCCAGTCCCAAATC 2 12 1 GCCTTGCCCA 0.908013 -289 TTGGTTTTCACCATTGCCAATGCAGAGATT 2 111 0 CCATTGCCAA 0.4272 -190 TTGAAAAGCCCCCCTGACCCCCCAAATTTG 3 144 0 CCCCTGACCC 0.795629 -124 GGGAAGATAGCCCTTGCCCGTCGTCCTGGT 5 34 0 CCCTTGCCCG 0.940023 -66 ACCCCCAACGGCCTAGCCCCAGCTTGAGCC 5 78 0 GCCTAGCCCC 0.765526 -22 ACCCTTCCGCCCCCTGGCAGGCCAATCTTT 10 92 1 CCCCTGGCAG 0.71702 -55 TTTCAAACGCCCCCTGCCCCCCCAAAAAAA 14 98 0 CCCCTGCCCC 0.992187 -92 CTGCAAATCCCCTCTGCCCCATCACC 15 7 0 CCTCTGCCCC 0.917433 -225 ACCCTTGCCTCTGATGTTTCA 15 221 0 CCCTTGCCTC 0.97595 -11 TTTTCCTAAACCCTTGCCTCAATAGTTTTT 20 12 1 CCCTTGCCTC 0.97595 -67 CAGTAATGCCGCCTTGCCTCCCCAATGGCC 22 85 0 GCCTTGCCTC 0.94428 -137 GTTGTTTCTAGCTCTGCCCGGTTTTGATCA 28 121 1 GCTCTGCCCG 0.445597 -114 TTTCACTCTCCCATTGCCTAAAAAATTATG 29 46 1 CCATTGCCTA 0.611375 -255 CCCGCTTGTTGCCCTGCCCAAA 31 215 1 GCCCTGCCCA 0.932674 -12 CCAAACTTTTCCCTTGGCTAGGCTTTTTGC 32 82 1 CCCTTGGCTA 0.851709 -83 TGGTTTTTAGCCCCTGCCTCCCCGGTGTGG 33 115 0 CCCCTGCCTC 0.982744 -75 CAGTACCCTCCCACTGCCCACTTTTTAGGT 35 138 1 CCACTGCCCA 0.831165 -85 ATTGGTGTTAGCCCTGCCATGCTGATTATT 36 140 1 GCCCTGCCAT 0.486018 -33 TGATTATTGTCCCCTGCCGCC 36 162 1 CCCCTGCCGC 0.966943 -11 GGAGGCTTTTGCCTTGGCACTAGTAACCGT 42 53 0 GCCTTGGCAC 0.813187 -107 GACTATAGCTCCTTTGCCGCC 56 181 1 CCTTTGCCGC 0.645862 -11 ATTAACTATGCCCCTGGCGATCGCCTAGAT 57 99 1 CCCCTGGCGA 0.805449 -65 CTCCAGACCGCCCCAGCCTCTTTTTCCTGC 61 155 0 CCCCAGCCTC 0.831097 -23 TTGAAAAGCCCCCCTGGCCCCCAAGTTTGG 69 51 1 CCCCTGGCCC 0.985674 -108 ATACCAAATTGCCTTGGCCCAGAGCTTTTG 71 64 0 GCCTTGGCCC 0.953431 -72 CTTCTATTGACCATTGCCCCTGGTCTACAG 73 172 1 CCATTGCCCC 0.930692 -129 TGAGACCTTCCCCTTGGCTTAACCCAGGTT 74 139 1 CCCTTGGCTT 0.648375 -78 CATTTCTCTTCCCTTTCCCCTAGCCGGTTT 76 84 1 CCCTTTCCCC 0.76575 -51 GCCATTGCGCCCCTTTCCCCCTTTATCCCC 76 115 1 CCCTTTCCCC 0.76575 -20 GCGGCGATCGCCACTGCCGAGATCTTCTGC 83 76 0 CCACTGCCGA 0.531392 -225 CCTGCTCTAGCCCTTGCCTTTATTGACCT 85 10 0 CCCTTGCCTT 0.772898 -29 AAGCCCATTTCCCTTGCCACTTGGCTTATG 92 136 0 CCCTTGCCAC 0.950589 -45 TTAACTCAGAGCCTTGGCACCGGGAATCTC 97 209 0 GCCTTGGCAC 0.813187 -32 TAAAACCCAGCCCCTGGCCGTATTTTCGGT 99 59 1 CCCCTGGCCG 0.922586 -43 TTGACTGGTTCCACTGGCCCATCAGGCCGG 101 33 1 CCACTGGCCC 0.9108 -99 TTAGGGTTTTGCTTTGCCCCCGGTTGTTGT 103 92 1 GCTTTGCCCC 0.767787 -77 TCCCCTGGCTCCCAATCCCTA 106 69 0 CCCCTGGCTC 0.968609 -11 GGATTAATTTCCCCAGGCCCAGGGAAAAAG 108 16 0 CCCCAGGCCC 0.856004 -55 CCATGCGCTGCCCTTGGCTATTAATTCTTA 109 85 1 CCCTTGGCTA 0.851709 -216 TTTCTTTCCTGCCCTGCCTATAGCCAAGAA 109 122 1 GCCCTGCCTA 0.861357 -179 ********** Masking position 8 Map Score: 51.2082 Number of sites scoring better than the average of aligned sites = 2302 Number in coding regions = 2033 Number in noncoding regions = 269 Number of orfs with sites within 600 bp upstream = 239 Fraction of orfs with sites within 600 bp upstream = 0.0383874 Motif number 3 AACTTGTTTGAAAAGCCCCCCTGACCCCCCAAA 3 148 0 AAAACCCCCG 0.967939 -120 TTTGTCTAAGAATCTCCCCCCAGCCGGACTCCT 28 209 1 AATCCCCCCG 0.737501 -26 TGGCAAAAGGAAAAATTGCCCTGGTTTTTAGCC 33 133 0 AAAATGCCCG 0.967225 -57 AATTTTTTTAAAAAGTACCCCCGGAACCCCAAG 37 140 0 AAAATCCCCG 0.982058 -33 TTTTGCTCCAAAACCTCCCCCCGGCGATCGCCT 40 143 0 AAACTCCCCG 0.960004 -90 AGACGGTCAAAAAAATACCCCGGCATCACCGAG 43 24 1 AAAATCCCCG 0.982058 -183 GAATTATAGCAATAGTTGCCCTGTTTTATTCCC 51 26 1 AATATGCCCG 0.862309 -158 TTTAGCCCCCAAAATTCACCCAGACAAGAAATG 51 75 1 AAAATACCCG 0.743138 -109 GAACAAAGCAAAAATTCCCACCGCAAGA 57 146 1 AAAATCCACG 0.654586 -18 ATGGGCCAGAAAAAATCCCCCGAACATCAAACC 61 110 1 AAAATCCCCA 0.921428 -68 TTTATCCTAAAAAATAGCCCTTACCTTTACCG 62 55 0 AAAATGCCCT 0.836926 -22 AGCGTGTTTGAAAAGCCCCCCTGGCCCCCAAGT 69 44 1 AAAACCCCCG 0.967939 -115 AGTTAAAAATAAAAGTGCCCCAGCATTGTCGAA 69 86 1 AAAATCCCCG 0.982058 -73 TAAACCTAGGAAAAATCGCCCGTTACCGATTCT 70 41 0 AAAATGCCCT 0.836926 -162 AGGATAAGGCAAAAGCTCCCCAATTTTTAGTGG 73 254 0 AAAACCCCCA 0.866104 -47 TGGCCCAGAAAAAATTTCCCCTGAGGAAGAAGC 74 82 0 AAAATCCCCG 0.982058 -135 AACCTTTCAAAAACATGGCCCAGAAAAAATTTC 74 97 0 AAACTGCCCG 0.928271 -120 AAATATGGCGAAAAATTCCCCCATTAGTCCCAT 79 226 1 AAAATCCCCA 0.921428 -75 GGCCCTCATCAATATCCCCCCTGGGGGCATAGA 86 44 0 AATACCCCCG 0.864989 -71 GGGATGGATAAAACCTGGCCCGAGTGCCTGACT 97 70 1 AAACTGCCCA 0.734942 -171 TCGGCGGCATAAAACTTGCCCGAGATTCCCGGT 97 188 1 AAAATGCCCA 0.863443 -53 GGCTCAAGTAAAACCCAGCCCCTGGCCGTATTT 99 51 1 AAACCGCCCT 0.553846 -51 TATCTGTATTAAAAATCCCCCTGCC 103 154 1 AAAATCCCCG 0.982058 -15 TGGGCTGGACAATAATGCCCCATGATAAGCCCC 104 125 0 AATATCCCCT 0.668869 -73 **** * **** * Masking position 2 Map Score: 35.5972 Number of sites scoring better than the average of aligned sites = 717 Number in coding regions = 568 Number in noncoding regions = 149 Number of orfs with sites within 600 bp upstream = 128 Fraction of orfs with sites within 600 bp upstream = 0.0205589 Motif number 4 CCAAATTTGGGGGGAAAGAGAGGCGAAATCCCCCAGAA 3 115 0 GGGAGGGAAA 0.798174 -153 AATTTTGTTAGGGAGGAGAAAATCAAAAAATGCGATGT 9 56 0 GGGAGAAAAA 0.897692 -102 AAAAAAATTAGGGGGAAGTTAAGTAAAAATCCTCCATT 14 67 0 GGGAGAAAAA 0.897692 -123 ATATCAGGTTAGTAATGGAGCATAAAAATTAACCAAAC 14 144 1 AGTGGAAAAA 0.412624 -46 TGTAGCTCATAGGTAAGGGAAGTTGAATGCAAACTCTG 15 131 1 AGGGGGGAAT 0.56832 -101 GGCTGGAGCGGGGTGTGGTTTGAAAAATTTTTCTGGTG 22 192 1 GGGGGGAAAT 0.975553 -30 GGGAAAAGGGAGAAAAATTTAATTAGAA 23 1 1 GGGAGGAAAT 0.932718 -42 TTGAAAAGTAGGGTGAAGAATGGAAAATGGTGAAAAGA 26 32 0 GGGAGGAAAT 0.932718 -68 GGGTGATGGCGAGAGAAAAAGTTAGTGGC 30 2 1 GGTGGGAAAA 0.905635 -88 ACAGGGTTTGGCCCGTAAAAACACTTTTGTC 34 213 0 GGGGGGAAAA 0.98292 -21 GGGTGACATTGGGCACGGATCAGCAAATAATTGGTGTT 36 111 1 GGGGGAAAAT 0.945989 -62 TGCGGGAATTGGTGGAGGGGGAAGAAAAGTTGAGTAAA 39 70 0 GGTGGAAAAA 0.808146 -38 TAATAACCTGGGGTCTAGGTTAGGAAATAGTTAGGGGG 41 31 0 GGGAGAAAAT 0.858847 -30 CAACAACAGCGGTAAAGGTAAAGCAAAAAACTGATCCT 53 114 0 GGTGGAAAAA 0.808146 -36 CCTCCAAGCTGGGATTGGGGAGCCAAATACCAAAAAGA 54 176 0 GGGGGGAAAT 0.975553 -125 CGATCGCCAGGGGCATAGTTAATCAAAACAGGTCTACT 57 84 0 GGGAGAAAAA 0.897692 -80 CGGGACGGTTGGTCATGGGCCAGAAAAAATCCCCCGAA 61 96 1 GGTGGAAAAA 0.808146 -82 TCAAACCCGGAGGATAGGCGCAGGAAAAAGAGGCTGGG 61 136 1 AGGGGAAAAA 0.808146 -42 CGCCTTTTTTGGTTAGGGTGAGCAAAATTAATTTATTT 66 55 1 GGTGGGAAAT 0.869368 -39 GACTTGGGCAGGGAAAAGAATACTGAAACTCTTTGATT 67 37 0 GGGAGAGAAA 0.634473 -91 AACCGGCTAGGGGAAAGGGAAGAGAAATGGCGATCGGG 76 75 0 GGGGGGAAAT 0.975553 -60 TGTGGGGGTTTGGGGTAGAAAATTGATCTCTAT 86 6 1 GGGGGAAAAT 0.945989 -109 AAGGTTGATAGGGAAAGGATGGTGAAAGTTTTGGACGC 87 18 1 GGGGGGAAAG 0.92651 -48 GTTAAGGTTTAGGCTGAGAAGGTAAAAATCCAAGTTAA 88 16 0 AGGAGGAAAA 0.769265 -66 ATGGTCGTTAGGGTGGGGGTAGGGAAAGGT 102 3 0 GGGGGGAAAG 0.92651 -40 CAAAAACTAAGGGCTGGGCTGGACAATAATGCCCCATG 104 134 0 GGGGGGAATA 0.726992 -64 ATGATGTTAGGGGAAGTGAACGTTAAATAATCAAAAAC 104 165 0 GGGTGGAAAT 0.637868 -33 GAGATCAGCTAGGGGAAGTGAGCAAAAACTATAATTAT 109 16 0 AGGAGGAAAA 0.769265 -285 GGCTATAGGCAGGGCAGGAAAGAAAAAAAAACTAAGAA 109 109 0 AGGGGGAAAA 0.905635 -192 *** ** * **** Masking position 16 Map Score: 35.9575 Number of sites scoring better than the average of aligned sites = 958 Number in coding regions = 799 Number in noncoding regions = 159 Number of orfs with sites within 600 bp upstream = 170 Fraction of orfs with sites within 600 bp upstream = 0.0273049 Motif number 5 CCCAGAAGCGGGCTTTGGCATTGGCTCCCCACC 1 10 0 GGCTGGCTGG 0.965421 -184 TCGAAAATTAGGGCTTGGATCTGGGTAAAAGTTT 4 39 1 GGGTGGATGG 0.854345 -205 CGCTATTAATGGCCATGGTACTGGCATTTTCCGG 4 147 0 GGCTGGTTGG 0.84247 -97 AGGGGGCGGAAGGGTTAACAGTGGAAGCGCTTAG 10 73 0 AGGTAACTGG 0.560004 -74 GCCAACATTAAGCGATGGAATGGGTAATTAGTTA 11 117 1 AGCTGGAGGG 0.686166 -184 ATGGCCCGTAGGCGATCGCCGTGGTGAACCACAA 15 176 1 GGCTCGCTGG 0.965421 -56 CTCTGCCGATAGCAGTTAACCGGGT 22 2 0 AGCTTAAGGG 0.546288 -220 AGAGCAAACCGGGGCTAAACTGGGCCAAC 27 6 0 GGGTAAAGGG 0.819023 -61 CTAAGCCGCTGGGGCTTAAAAGGGGTGACTGGGT 30 40 1 GGGTTAAGGG 0.832342 -50 CAAAATTCTAGGCGATCGCCCTGGGATGGAAATC 33 37 1 GGCTCGCTGG 0.965421 -153 ATGCCTAAGGAGGGCTTGCTTGGGTCATCCTCAG 35 89 0 AGGTTGCGGG 0.767339 -134 TACAGTTGGGAGCAATTAATTGGG 39 1 0 AGCTTAAGGG 0.546288 -107 CCATCTTTAAGGGTATCACTTTGGGGCTGTCCCC 40 77 1 GGGTCACTGG 0.917461 -156 TAGGAGGATAGGCGATCGCCGGGGGGAGGTTTTG 40 134 1 GGCTCGCGGG 0.977226 -99 AATAGTTAGGGGGAATAGCAGTGGTTTTCTAGG 41 10 0 GGGTAGCTGG 0.929484 -51 GCATTGGGGAGGCTTTTGCCTTGGCACTAGTAAC 42 56 0 GGCTTGCTGG 0.9594 -104 AGTGTGGGACGGCCCTTACCTGGGTAGGATCAGT 53 89 1 GGCTTACGGG 0.9594 -61 GCGGCAAAGGAGCTATAGTCTGGGATAATAGGGC 56 167 0 AGCTAGTGGG 0.484844 -25 CTCCCATCTAGGCGATCGCCAGGGGCATAGTTAA 57 100 0 GGCTCGCGGG 0.977226 -64 GACATCCGATGGCGATAGAATGGGGAGCGATGTC 58 69 1 GGCTAGAGGG 0.91914 -48 ACGGGGACTAAAACTGGTGCCATCGTC 62 4 1 GGGTAAATGG 0.746484 -73 AGCCGATGTTGGCCTTGACCATGGCCGAGGAAAG 70 73 1 GGCTGACTGG 0.947823 -130 CCATAAACAAGGCCTTTGCTAGGGCGGAATTACG 70 163 1 GGCTTGCGGG 0.973204 -40 ATTTTAGTGGGGCGATTGAGCGGGATGATCCTAT 73 53 0 GGCTTGAGGG 0.925759 -248 CAAATTCATTGGCTGTTGCCATGGCTTCTTCCTC 74 59 1 GGCTTGCTGG 0.9594 -158 GCCCCATTGCGGCTTTCAACCTGGGTTAAGCCAA 74 152 0 GGCTCAATGG 0.861819 -65 ACGGTTAATTGGCTTTAATACTGGCGGTTTTGCT 75 60 0 GGCTAATTGG 0.728609 -57 GGGGATAAAGGGGGAAAGGGGCGC 76 121 0 GGGTAAAGGG 0.819023 -14 AAAAAAACTTGGCGATCGCCATGGTGAATCAATT 78 211 1 GGCTCGCTGG 0.965421 -90 TTTCCTCAATGGGACTAATGGGGGAATTTTTCGC 79 233 0 GGGTAATGGG 0.716302 -68 CTGGTTACAGAGGGTTCACGCGGGTTAGGAGCGG 83 102 0 AGGTCACGGG 0.717141 -199 ATCTTTGTCTGGGTTTGACTGGGGAAGGTAAGCG 96 22 1 GGGTGACGGG 0.944702 -77 GAAGGTAAGCGGGGATTATTCTGGCTGAAAGTGT 96 45 1 GGGTTATTGG 0.643128 -54 CTTCTTTTTTGGCTGTAACTATGG 103 1 0 GGCTAACTGG 0.933403 -168 TGGTTACATCGGGGCTTATCATGGGGCATTATTG 104 115 1 GGGTTATTGG 0.643128 -83 TTCGTTCCTCGGCACTGGCTTGGGTAATTCCGTA 105 43 0 GGCTGGCGGG 0.977226 -159 CCTTAAAAGTGGCTTTGACAATGGATTAATTTCC 108 34 0 GGCTGACTGG 0.947823 -37 *** **** *** Masking position 6 Map Score: 52.5197 Number of sites scoring better than the average of aligned sites = 2769 Number in coding regions = 2573 Number in noncoding regions = 196 Number of orfs with sites within 600 bp upstream = 204 Fraction of orfs with sites within 600 bp upstream = 0.0327658 Motif number 6 GGTCGCCATTTTCCCCCTAAGAGCCGGTTT 3 41 1 TTCCCCCTAA 0.897179 -227 TCGCCTCTCTTTCCCCCCAAATTTGGGGGG 3 127 1 TTCCCCCCAA 0.859935 -141 GGATTTTGATTTTCCCCAAAATTAGGAAGC 3 202 1 TTTCCCCAAA 0.654133 -66 TTAACCCTTCCGCCCCCTGGCAGGCCAATC 10 89 1 CGCCCCCTGG 0.770735 -58 GGACGGCAAGTTCTCCCCAGGAATAATAGT 11 78 0 TTCTCCCCAG 0.797 -223 ATGGGGTGCTTGCTCCCTAGGGAGTTAGGG 11 170 1 TGCTCCCTAG 0.635588 -131 GGTTTTATTTTGCCCCCTAAATTTCCCAAT 14 37 1 TGCCCCCTAA 0.731721 -153 TTTACTTAACTTCCCCCTAATTTTTTTGGG 14 78 1 TTCCCCCTAA 0.897179 -112 AACTATTTACTGCCCCCCTAGCTCTTATTT 18 68 1 TGCCCCCCTA 0.452319 -38 TGTAGGCCGGTTTCCCCCAAAAGGCCGGCG 22 130 0 TTTCCCCCAA 0.773374 -92 GTCTAAGAATCTCCCCCCAGCCGGACTCCT 28 212 1 CTCCCCCCAG 0.888934 -23 AACCCCAAACTTTTCCCTTGGCTAGGCTTT 32 78 1 TTTTCCCTTG 0.57168 -87 AATCATCTGTCTCCCCCAGA 34 1 0 CTCCCCCAGA 0.653901 -233 GCTCCAAAACCTCCCCCCGGCGATCGCCTA 40 142 0 CTCCCCCCGG 0.883278 -91 ACCACTGCTATTCCCCCTAACTATTTCCTA 41 19 1 TTCCCCCTAA 0.897179 -42 ACACCAGCATTTCCCCCATGGGTTAAATCA 51 117 0 TTCCCCCATG 0.764731 -67 GTCAGAGAAACTCTCCCTGACTCCACCAAA 54 146 0 CTCTCCCTGA 0.582595 -155 ATTTAAAGGACTCTCCCCAGTTTGAACGAT 54 275 0 CTCTCCCCAG 0.697493 -26 GTTTTTCCCTGGACAATTTAGA 57 3 1 TTTTCCCTGG 0.745702 -161 AGCAAAGAAATTTTCCCAAGGGCAATGAAA 64 105 0 TTTTCCCAAG 0.547396 -22 TATTTTTAACTTCCCCCCAAACTTGGGGGC 69 67 0 TTCCCCCCAA 0.859935 -92 AGTTTTATTTTGTCCCCTAAATCTCCTCAT 69 125 0 TGTCCCCTAA 0.602545 -34 GAGTCATAATTTTCCCCTTGAATTATCGCT 72 168 1 TTTCCCCTTG 0.822477 -88 GCAGTTAAATCTCCCCCTTGTTTGAGTAGG 73 88 0 CTCCCCCTTG 0.83037 -213 CCAGAAAAAATTTCCCCTGAGGAAGAAGCC 74 81 0 TTTCCCCTGA 0.820968 -136 GTTTTGAGACCTTCCCCTTGGCTTAACCCA 74 135 1 CTTCCCCTTG 0.731248 -82 TTCTCTTCCCTTTCCCCTAGCCGGTTTTGC 76 87 1 TTTCCCCTAG 0.915009 -48 TGCTTTTCTCCCATAAACTAACTAT 77 6 1 TTCTCCCATA 0.296686 -48 TTTCAGGCGGTTTCCCCTTAACGTTGAGGA 78 91 0 TTTCCCCTTA 0.676079 -210 CTCTATTCTATGCCCCCAGGGGGGATATTG 86 38 1 TGCCCCCAGG 0.690618 -77 CAGTTTAAATTTTTCCCTAGCTCCTAACGC 89 124 1 TTTTCCCTAG 0.756184 -28 GTTACAAACATTTTCCCAGGGGCGATCAGC 96 77 1 TTTTCCCAGG 0.533475 -22 TAGCTTATCATTTCCCCCGGTGCCCCCAAT 98 54 1 TTTCCCCCGG 0.877484 -53 TTAACGTTCACTTCCCCTAACATCATCGTC 104 177 1 CTTCCCCTAA 0.740144 -21 TACCGTAGTATTCTCCCTAGATTGTGCCAT 106 27 1 TTCTCCCTAG 0.848021 -53 TTATTCTTTTTCCCTGGGCCTGGGGAA 108 8 1 TTTTCCCTGG 0.745702 -63 AATGGATTAATTTCCCCAGGCCCAGGGAAA 108 19 0 TTTCCCCAGG 0.798769 -52 TTTTTGCTCACTTCCCCTAGCTGATCTCGA 109 26 1 CTTCCCCTAG 0.863436 -275 ********** Masking position 5 Map Score: 37.2896 Number of sites scoring better than the average of aligned sites = 2897 Number in coding regions = 2526 Number in noncoding regions = 371 Number of orfs with sites within 600 bp upstream = 350 Fraction of orfs with sites within 600 bp upstream = 0.0562159 Motif number 7 TATCGCCTTGCCCAGTCCCAAATCATTTTG 2 18 1 CCCAGTCCCA 0.883221 -283 AAGTCCTGTTCCCAGACCCTAGGGGACTTG 2 68 1 CCCAGACCCT 0.942515 -233 GAGGGTTAAACCAAGTCCCCTAGGGTCTGG 2 79 0 CCAAGTCCCC 0.790271 -222 TGAAAAGCCCCCCTGACCCCCCAAATTTGG 3 143 0 CCCTGACCCC 0.564274 -125 TTACCCAGATCCAAGCCCTAATTTTCGATA 4 37 0 CCAAGCCCTA 0.484072 -207 CCCCCAACGGCCTAGCCCCAGCTTGAGCCG 5 77 0 CCTAGCCCCA 0.813852 -23 TTCAAACGCCCCCTGCCCCCCCAAAAAAAT 14 97 0 CCCTGCCCCC 0.653187 -93 TTTTTCCTAAACCCTTGCCTCAATA 20 6 1 CCTAAACCCT 0.720902 -73 AGAATAGCGCCCTAACCCCTAGGGTAACCA 20 46 0 CCTAACCCCT 0.789762 -33 AACTACTAAACCAAGCCCTACTTAACGGTT 29 221 1 CCAAGCCCTA 0.484072 -80 AACTTTTGCTCCAAAACCTCCCCCCGGCGA 40 149 0 CCAAAACCTC 0.34107 -84 CGCTGTGGCCCAGTCCTTTTCCAGCAAA 40 215 0 CCCAGTCCTT 0.807113 -18 TATTTCCTAACCTAGACCCCAGGTTATTAA 41 40 1 CCTAGACCCC 0.846044 -21 TCCTAGTCCCCATGGGCCACT 42 2 1 CCTAGTCCCC 0.832281 -158 TTGCTTCCGCCCCAGTCCCAGTGGCCCATG 42 21 0 CCCAGTCCCA 0.883221 -139 ATGGAAGGTACCGAAACCCCTAGAACCCGT 43 83 1 CCGAAACCCC 0.360426 -124 TATTTGGCTCCCCAATCCCAGCTTGGAGGA 54 185 1 CCCAATCCCA 0.768494 -116 GCTCCGGGGCCCAAGCCCCTAATTTTTAAC 58 13 0 CCAAGCCCCT 0.866647 -104 TCCAGACCGCCCCAGCCTCTTTTTCCTGCG 61 154 0 CCCAGCCTCT 0.404462 -24 CCCATAGGAACCTAAACCCTAACTAAGCCG 65 74 0 CCTAAACCCT 0.720902 -114 AAGGCGATCGCCAAATCCTTGCCATTATTG 66 31 0 CCAAATCCTT 0.333576 -63 GAAGCTGTACCCTAAACCTTGGTAAGCAGT 75 20 1 CCTAAACCTT 0.421966 -97 AATTTTCTACCCCAAACCCCCACA 86 5 0 CCCAAACCCC 0.870464 -110 ACCTTCTCAGCCTAAACCTTAACATTAGTG 88 31 1 CCTAAACCTT 0.421966 -51 CCCCGGTGCCCCCAATCCTTGAGGATCAGG 98 68 1 CCCAATCCTT 0.64746 -39 TCAAGTAAAACCCAGCCCCTGGCCGTATTT 99 54 1 CCCAGCCCCT 0.959751 -48 TATTGTCCAGCCCAGCCCTTAGTTTTTGAT 104 144 1 CCCAGCCCTT 0.870787 -54 TCCCCTGGCTCCCAATCCCTAGAAGCGGAG 106 60 0 CCCAATCCCT 0.866636 -20 GATTAATTTCCCCAGGCCCAGGGAAAAAGA 108 15 0 CCCAGGCCCA 0.611994 -56 ********** Masking position 7 Map Score: 23.7073 Number of sites scoring better than the average of aligned sites = 1517 Number in coding regions = 1333 Number in noncoding regions = 184 Number of orfs with sites within 600 bp upstream = 184 Fraction of orfs with sites within 600 bp upstream = 0.0295535 Motif number 8 AAGAAATTTTTCTTCCCATTCATTTTTCAA 8 49 0 TCTTCCCATT 0.703228 -77 AAGAAAAATTTCTTCCCATTCCACAAAAAA 8 65 1 TCTTCCCATT 0.703228 -61 TGCCGCCTTGCCTCCCCAATGGCCATGCCA 22 79 0 CCTCCCCAAT 0.93776 -143 AAGGCAAAAGCCTCCCCAATGCTAACAGTG 42 68 1 CCTCCCCAAT 0.93776 -92 TGGTTATTTCTGTCCCCAATTT 54 3 0 TGTCCCCAAT 0.746101 -298 TTGGTATTTGGCTCCCCAATCCCAGCTTGG 54 181 1 GCTCCCCAAT 0.977057 -120 TTTAAAGGACTCTCCCCAGTTTGAACGATG 54 274 0 TCTCCCCAGT 0.879629 -27 TAAAGACATCGCTCCCCATTCTATCGCCAT 58 77 0 GCTCCCCATT 0.966514 -40 CGGCCTAATGTTTCCCCAATCAAAGGGGAT 63 62 1 TTTCCCCAAT 0.664732 -74 CTGGCGATCGGCTCCCCATTCTATCTGGAC 67 72 0 GCTCCCCATT 0.966514 -56 GTCCCCTAAATCTCCTCATTAAATCTTCGA 69 114 0 TCTCCTCATT 0.703228 -45 GGCAGTTAAATCTCCCCCTTGTTTGAGTAG 73 89 0 TCTCCCCCTT 0.750738 -212 TAAGGCAAAAGCTCCCCAATTTTTAGTGGC 73 253 0 GCTCCCCAAT 0.977057 -48 CTCTCCGATTGCTCCTCAATTTTCACTCTA 78 40 1 GCTCCTCAAT 0.809489 -261 TCTCCCCAATCTTTGCCTCC 81 33 0 TCTCCCCAAT 0.972254 -10 CGCTGTATTAGCTCCCCAATAGCTGTTACA 107 57 0 GCTCCCCAAT 0.977057 -21 ********** Masking position 3 Map Score: 18.9074 Number of sites scoring better than the average of aligned sites = 157 Number in coding regions = 126 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 9 CTCTGCAATTCTGGGGGATTTCGCCTCTCT 3 107 1 CTGGGGGATT 0.694126 -161 TGGGGGGTCAGGGGGGCTTTTCAAACAAGT 3 150 1 GGGGGGCTTT 0.801178 -118 TCCCGCCATACTGGGGATTTTGATTTTCCC 3 188 1 CTGGGGATTT 0.884647 -80 TGATGGGGCAGAGGGGATTTGCAGAAAGCA 15 13 1 GAGGGGATTT 0.859171 -219 TGGGCAATATCGGGAGAATTTAATCCGATT 37 100 1 CGGGAGAATT 0.534894 -73 CGGTGGGGTACAGGGGAATTCTCTACAAGC 38 183 0 CAGGGGAATT 0.716356 -118 CGATCGCCGGGGGGAGGTTTTGGAGCAAAA 40 146 1 GGGGAGGTTT 0.786464 -87 AATAGCTATTCAGGAGATTTAATA 45 38 1 CAGGAGATTT 0.782128 -14 GGAAATCTCAGTGGCGGTTTCCCAACTCGC 54 100 0 GTGGCGGTTT 0.700055 -201 GAACCTACTTCAGGGGCTTTAATATCATCA 55 83 1 CAGGGGCTTT 0.838894 -107 CTATGGCCGACTGGAGGTTTTCACTATCTA 57 29 0 CTGGAGGTTT 0.76335 -135 GTTTGATGTTCGGGGGATTTTTTCTGGCCC 61 112 0 CGGGGGATTT 0.941997 -66 TTGGGGGCCAGGGGGGCTTTTCAAACACGC 69 45 0 GGGGGGCTTT 0.801178 -114 AAGATTTAATGAGGAGATTTAGGGGACAAA 69 117 1 GAGGAGATTT 0.659348 -42 GAATCGGTAACGGGCGATTTTTCCTAGGTT 70 42 1 CGGGCGATTT 0.873651 -161 CTCAAACAAGGGGGAGATTTAACTGCCACA 73 92 1 GGGGAGATTT 0.735316 -209 GGCTTTAATACTGGCGGTTTTGCTAGCTAG 75 54 0 CTGGCGGTTT 0.812339 -63 AGGTAAATTTCAGGCGGTTTCCCCTTAACG 78 98 0 CAGGCGGTTT 0.864624 -203 TGTGGGGGTTTGGGGTAGAAA 86 2 1 GTGGGGGTTT 0.845723 -113 CCTTGAGGATCAGGGGATTTAGTCTTTATC 98 84 1 CAGGGGATTT 0.918799 -23 GATTTTATCGCAGGCGGTTTAAAGTTTGTT 101 88 0 CAGGCGGTTT 0.864624 -44 GGCAGGGGGATTTTTAATACAG 103 157 0 CAGGGGGATT 0.770022 -12 GAGTTGGAAGCGGGGGATTTAAGTGCGGAC 109 182 1 CGGGGGATTT 0.941997 -119 ********** Masking position 9 Map Score: 23.591 Number of sites scoring better than the average of aligned sites = 622 Number in coding regions = 530 Number in noncoding regions = 92 Number of orfs with sites within 600 bp upstream = 101 Fraction of orfs with sites within 600 bp upstream = 0.0162223 Motif number 10 CATGGTGCTGACCCCCTCTGCTTTTTAACT 2 222 1 ACCCCCTCTG 0.91467 -79 TTGTTTGAAAAGCCCCCCTGACCCCCCAAA 3 148 0 AGCCCCCCTG 0.98023 -120 GAACTGGATAAGCCCCCTTGCTTCCTAATT 3 221 0 AGCCCCCTTG 0.964443 -47 CATCTTTCAAACGCCCCCTGCCCCCCCAAA 14 102 0 ACGCCCCCTG 0.751737 -88 CTTTCTGCAAATCCCCTCTGCCCCATCACC 15 11 0 ATCCCCTCTG 0.892773 -221 GACCGAGGCAGGCCCCTCTGCTTTCTGCAA 15 31 0 GGCCCCTCTG 0.821319 -201 ACTATTTACTGCCCCCCTAGCTCTTATTTT 18 69 1 GCCCCCCTAG 0.480498 -37 CAAGACCCCTTGATTTTCGTCG 24 3 1 AGACCCCTTG 0.622797 -48 TAATGCTGCAAGCCCCCTAGTCAGCGACGA 24 27 0 AGCCCCCTAG 0.824791 -24 AGTCCTTGCTATCCCCTTTGATTGGGGAAA 63 72 0 ATCCCCTTTG 0.819973 -64 GTGTTTGAAAAGCCCCCCTGGCCCCCAAGT 69 47 1 AGCCCCCCTG 0.98023 -112 GCAGTTAAATCTCCCCCTTGTTTGAGTAGG 73 88 0 CTCCCCCTTG 0.692241 -213 TGAATTTCATACCCCCTTTGGCAGACTGGG 84 44 0 ACCCCCTTTG 0.854311 -75 CCTCATCAATATCCCCCCTGGGGGCATAGA 86 44 0 ATCCCCCCTG 0.963057 -71 AGGCTGATCGCCCCTGGGAAAATGTT 96 83 0 ATCGCCCCTG 0.686146 -16 ********** Masking position 5 Map Score: 12.2356 Number of sites scoring better than the average of aligned sites = 438 Number in coding regions = 361 Number in noncoding regions = 77 Number of orfs with sites within 600 bp upstream = 69 Fraction of orfs with sites within 600 bp upstream = 0.0110826 Motif number 11 CTAGGGTCTGGGAACAGGACTTTGCATTTG 2 60 0 GGAACAGGAC 0.870764 -241 AAAGCAGAGGGGGTCAGCACCATGGTTAAA 2 216 0 GGGTCAGCAC 0.920511 -85 ATTTTCGATAAGGACGGCACTCTGGAAAAT 4 17 0 AGGACGGCAC 0.831517 -227 TCACCAGTTGGGGACAGCCCCAAAGTGATA 40 90 0 GGGACAGCCC 0.970374 -143 GTTCCAGTGTGGGACGGCCCTTACCTGGGT 53 84 1 GGGACGGCCC 0.954604 -66 CCACACCGATGGGACGGGACGGTTGGTCAT 61 82 1 GGGACGGGAC 0.973326 -96 GGTTCCTATGGGGACAGCACCAATCAACGT 65 92 1 GGGACAGCAC 0.979018 -96 TACTATTGCGGGGACAGGACGTTTCTCAAG 86 76 0 GGGACAGGAC 0.96454 -39 GTAAATGCGGGGAACGGGACCCATTTTTCC 97 12 1 GGAACGGGAC 0.900418 -229 GTAGGATCAAGGGACGGCTCAAGTAAAACC 99 36 1 GGGACGGCTC 0.91781 -66 AATTAACGGCGGATCAGCCCGTCTTAATTT 109 243 1 GGATCAGCCC 0.671323 -58 ********** Masking position 5 Map Score: 10.5982 Number of sites scoring better than the average of aligned sites = 130 Number in coding regions = 116 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295 Motif number 12 GTTTCGGCTCAAGCTGGGGCTAGGCCGTTGGG 5 73 1 AACTGGGCTA 0.567104 -27 AATCTTAGGTAAAAATCGGATT 12 1 1 AACTAGGTAA 0.430788 -56 GTTGAATGCAAACTCTGGCTAACCATGGCCCG 15 152 1 AATCGGCTAA 0.392073 -80 CGGCGCAGAAAAACTAGGGTAAAAGGAACAAG 17 117 1 AACTGGGTAA 0.865098 -153 TAGCCAGCAAAATCCTGGGCAAACCAGATCCA 17 200 0 AACCGGGCAA 0.970372 -70 AACCGGGGCTAAACTGGGCCAAC 27 2 0 AACTGGCCAA 0.898579 -65 AATTCAATCAAAAATAGGGCAACATAAACGGC 31 49 1 AAATGGGCAA 0.790838 -178 TTCCGGCAAAAAGCCTAGCCAAGGGAAAAGTT 32 85 0 AACCAGCCAA 0.627719 -80 CAGGGGCTAAAAACCAGGGCAATTTTTCCTTT 33 129 1 AACCGGGCAA 0.970372 -61 TGACCCATTAAAGATTGGGCAATATCGGGAGA 37 85 1 AAATGGGCAA 0.790838 -88 CTAAGGGTGAAAATCAGGCTAACTTTCGCAAT 50 208 1 AATCGGCTAA 0.392073 -93 GATGGGGAATAAAACAGGGCAACTATTGCTAT 51 31 0 AAACGGGCAA 0.859099 -153 AATTTTTTCTAACCCAGGCTAACACAACGGCT 65 47 1 AACCGGCTAA 0.818546 -141 GGATTCAAGTAAGTCGGGGTAAACAAATTTTT 65 123 0 AATCGGGTAA 0.596522 -65 GACTTACTTGAATCCTAGGCAAAGTCGGTAAA 65 140 1 AACCAGGCAA 0.794464 -48 GGTCAAGGCCAACATCGGCTAAACCTAGGAAA 70 61 0 AAATGGCTAA 0.342436 -142 CCTGAGGAAGAAGCCATGGCAACAGCCAATGA 74 64 0 AACCTGGCAA 0.604709 -153 CGACCCACGGAAGCTCGGGCAATACTAGGTAA 78 122 0 AACTGGGCAA 0.953075 -179 AGACTGGGAAAATCTTGGACAAATTCCCAATT 84 20 0 AACTGGACAA 0.534713 -99 TGGCACCGGGAATCTCGGGCAAGTTTTATGCC 97 193 0 AACTGGGCAA 0.953075 -48 GAGCTACAACAACCGGGGGCAAAGCAAAACCC 103 95 0 AACGGGGCAA 0.79274 -74 ** ** ****** Masking position 2 Map Score: 12.4208 Number of sites scoring better than the average of aligned sites = 896 Number in coding regions = 802 Number in noncoding regions = 94 Number of orfs with sites within 600 bp upstream = 101 Fraction of orfs with sites within 600 bp upstream = 0.0162223 Motif number 13 GGGAAGATAGCCCTTGCCCGTCGTCCTGGT 5 34 0 CCCTTGCCCG 0.759975 -66 CAGTTATTGTCCGTTGCTCAATTTACCGAG 10 30 1 CCGTTGCTCA 0.49867 -117 CTCTGGCTAACCATGGCCCGTAGGCGATCG 15 164 1 CCATGGCCCG 0.946306 -68 GTGACGTTGCCCAGTTCTAATTA 23 30 0 ACGTTGCCCA 0.733371 -13 CCATGGCCGGATTCCCTCGC 35 1 1 CCATGGCCGG 0.785291 -222 CAGTACCCTCCCACTGCCCACTTTTTAGGT 35 138 1 CCACTGCCCA 0.682438 -85 AATTCTCCCGATATTGCCCAATCTTTAATG 37 90 0 ATATTGCCCA 0.269244 -83 AAAGTTCTCGCAATTGCCCGCAGACAATCT 40 188 0 CAATTGCCCG 0.640262 -45 CGCTGTGGCCCAGTCCTTTTCC 40 221 0 CTGTGGCCCA 0.883363 -12 GCCCCAGTCCCAGTGGCCCATGGGGACTAG 42 13 0 CAGTGGCCCA 0.883363 -147 TTGGTCAGCACCATGGCCCAACCCAGCTTG 42 125 0 CCATGGCCCA 0.97443 -35 GCTTCGGAAACTATGGCCGACTGGAGGTTT 57 39 0 CTATGGCCGA 0.56339 -125 CAGGATTGCTCCGGGGCCCAAGCCCCTAAT 58 20 0 CCGGGGCCCA 0.886144 -97 AGAAGCTAAACAGTGCCCCAATATGGGAAG 60 13 0 CAGTGCCCCA 0.532744 -45 TTGGCCTTGACCATGGCCGAGGAAAGACCA 70 81 1 CCATGGCCGA 0.887748 -122 TACCAAATTGCCTTGGCCCAGAGCTTTTGA 71 63 0 CCTTGGCCCA 0.80219 -73 CTTCTATTGACCATTGCCCCTGGTCTACAG 73 172 1 CCATTGCCCC 0.714374 -129 CCTTTCAAAAACATGGCCCAGAAAAAATTT 74 98 0 ACATGGCCCA 0.784873 -119 GGTCTGACCACCGTTCCCCATCCGCAGGCT 79 41 0 CCGTTCCCCA 0.812207 -260 TGATTCAACTATTGCCCATTCTGCATCG 91 9 1 CTATTGCCCA 0.793748 -213 AAAATGGGTCCCGTTCCCCGCATTTACT 97 9 0 CCGTTCCCCG 0.666689 -232 TGACTGGTTCCACTGGCCCATCAGGCCGGC 101 34 1 CACTGGCCCA 0.64347 -98 ATTACCCAAGCCAGTGCCGAGGAACGAAAT 105 49 1 CCAGTGCCGA 0.450774 -153 TGCATTAACGCCGTTGCCCAATGGAGTGAT 105 150 0 CCGTTGCCCA 0.966363 -52 ********** Masking position 7 Map Score: 14.5732 Number of sites scoring better than the average of aligned sites = 2183 Number in coding regions = 2008 Number in noncoding regions = 175 Number of orfs with sites within 600 bp upstream = 192 Fraction of orfs with sites within 600 bp upstream = 0.0308384 Motif number 14 GAGGGATTTTCGTCGAAAGAAGGGCTGA 3 7 1 TTTCGTGAAA 0.917244 -261 TGTGAGGAAATTTAGGTAGCAAGATAAGACCT 3 74 0 TTTGGTGCAA 0.540735 -194 ACCCCCCAAATTTGGGGGGAAAGAGAGGCGAA 3 126 0 TTTGGGGAAA 0.682956 -142 GGGTAAAAGTTTTGCCTTGAACGGTGATATTA 4 61 1 TTTCCTGAAC 0.684223 -183 CCACAAGAATTTTTGCTTGAAACATCAGAGGC 15 204 1 TTTGCTGAAA 0.917349 -28 ATCATTTTTACCTAGGAACTGACTACCG 16 59 0 TTTCCTGGAA 0.540735 -18 CAAATTGAGTTTTGGGTAGAAAGTTTTGGGAT 18 14 1 TTTGGTGAAA 0.917378 -92 CCCGCCGGCCTTTTGGGGGAAACCGGCCTACA 22 128 1 TTTGGGGAAA 0.678944 -94 GCTTAATTTGTTTTCGTGGAAATAATTTTGGG 29 259 0 TTTCGTGAAA 0.917244 -42 GAATCTATAGTTTTGCTGGAAAATATCATTGT 34 115 0 TTTGCTGAAA 0.915833 -119 GATAGCACTATTTCCGTAGAACAAACCCTTAC 38 45 1 TTTCGTGAAC 0.684223 -256 ATTGCGAGAACTTTGCTGGAAAAGGACTGGGC 40 204 1 CTTGCTGAAA 0.527488 -29 TTACTGAAGATTTTGGTGGAAATAACACCAGC 51 139 0 TTTGGTGAAA 0.917244 -45 GTTTTTCCCTGGACAATTTAGATAG 57 4 1 TTTCCTGACA 0.695802 -160 GGATTCTTACTTTGGGTAGAAACCCTTGCTAG 72 85 1 TTTGGTGAAA 0.917378 -171 AGGCTTGGAATTTTCCTGGAAATGGATTTCTG 95 60 0 TTTCCTGAAA 0.915833 -241 CTGGCCGTATTTTCGGTGGACATAATCAGGGG 99 72 1 TTTGGTGACA 0.696193 -30 CCGGTCAAATTTTCCTTAAAAGTGGCTTTGA 108 50 0 TTTCCTAAAA 0.317191 -21 AATTCTGACTTTTGCCTGGAGAAACCACCATG 109 58 1 TTTCCTGAGA 0.554643 -243 CCCGTCTTAATTTACCTAGAAAGCCAAGATTT 109 260 1 TTTCCTGAAA 0.917371 -41 *** *** **** Masking position 3 Map Score: 8.6595 Number of sites scoring better than the average of aligned sites = 86 Number in coding regions = 63 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 15 TTTAAAGCTTGGTTGATGAACAATGGACTATT 11 52 1 GTTGATAACA 0.938396 -249 TGTTGATTCAGATTGATCAGCAGGATTGATCA 17 67 1 GTTGATAGCA 0.723982 -203 TGATCAGCAGGATTGATCAACTCTCCCGCGCC 17 80 1 GTTGATAACT 0.915441 -190 ATTATTTGCAGGTTGATCAAAACCGGGCAGAG 28 132 0 GTTGATAAAA 0.821533 -103 GTCGTAACTGGCTTGATAAAAATATTTGAAGC 34 184 0 GTTGATAAAA 0.831313 -50 CGTAAAACTAGGTTGATCAACTATAAGTTCTT 52 17 0 GTTGATAACT 0.84784 -228 ATATTCGATTAATTGATCAACAATAAAGCACT 56 33 1 ATTGATAACA 0.676564 -159 TGTTTTAAAATTGATCAACTAATTAACTCT 69 9 1 ATTGATAACT 0.586803 -150 GCGCTGGTCAGGTTGATCAACAGGGGATAATT 70 110 0 GTTGATAACA 0.92751 -93 AGGGAAATGGGCTTGATGAAAAGTGCCCTAAG 92 152 1 GTTGATAAAA 0.831313 -29 AAATGTGCTTGATTAAATATTTGGTGAA 94 7 1 GTTGATAAAT 0.78163 -131 TCATCCCTAAGATTGATAAACTGGGATATTAC 103 43 1 GTTGATAACT 0.917319 -126 * ***** **** Masking position 6 Map Score: 6.28955 Number of sites scoring better than the average of aligned sites = 62 Number in coding regions = 44 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357