AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00710_synecho_reg_300.orf -o00710_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: slr0944 151 hypothetical 42.4 kD protein slr0944. [SP:Y944_SYNY3] slr0220 175 glyS; glycyl-tRNA synthetase beta chain (glycine--tRNA ligase beta slr0049 25 hypothetical protein. sll0317 139 transposase. sll0072 31 hypothetical protein. Input sequences: #1 sll0938 40 aspartate transaminase. [EC:2.6.1.1] #2 ssl1792 33 hypothetical protein. #3 sll0936 83 hypothetical protein. #4 slr0969 102 cbiH; precorrin methylase. #5 slr0971 82 hypothetical protein. #6 sll0934 195 ccmA; carboxysome formation protein. [EC:5.4.99.5] #7 ssl1784 164 rpsO, rps15; 30S ribosomal protein S15. [SP:RS15_SYNY3] #8 sll0932 100 hypothetical protein. #9 sll0931 171 hypothetical protein. [EC:2.1.1.45] #10 sll0930 43 hypothetical protein. #11 sll0928 111 apcD; allophycocyanin-B. #12 sll0927 168 metX; S-adenosylmethionine synthetase. [EC:2.5.1.6] #13 sll0925 266 hypothetical 23.0 kD protein sll0925. [SP:Y925_SYNY3] #14 slr0974 300 infC; translation initiation factor IF-3. [SP:IF3_SYNY3] #15 sll1070 122 tktA; transketolase. [EC:2.2.1.1] #16 sll1069 197 fabF; beta ketoacyl-acyl carrier protein synthase. [EC:2.3.1.41] #17 ssl2084 209 acpP, acp; acyl carrier protein (ACP). [SP:ACP_SYNY3] #18 sll1068 36 hypothetical protein. #19 ssl3451 130 hypothetical protein. #20 sll1825 212 hypothetical protein. #21 sll1823 238 purA; adenylosuccinate synthetase (IMP--aspartate ligase). #22 ssl3446 300 hypothetical protein. #23 sll1275 187 pykF; pyruvate kinase. [EC:2.7.1.40] #24 slr1362 300 glgP; hypothetical protein. #25 sll0807 152 rpe; ribulose-phosphate 3-epimerase (pentose-5-phosphate 3- #26 slr0822 108 pacL; cation-transporting ATPase PacL. #27 slr0823 31 ycf3; hypothetical protein. #28 sll0803 30 hypothetical protein. #29 sll0802 92 hypothetical protein. #30 ssl1498 102 hypothetical protein. #31 sll1263 63 hypothetical 33.3 kD protein sll1263. [SP:YC63_SYNY3] #32 sll1262 224 hypothetical protein. #33 sll1261 153 tsf; elongation factor Ts (EF-TS). [SP:EFTS_SYNY3] #34 sll1260 224 rpsB, rps2; 30S ribosomal protein S2. [SP:RS2_SYNY3] #35 tRNA-Ile-1 185 tRNA-Ile. #36 slr1336 26 H+/Ca2+ exchanger. #37 sll1258 252 dcd; deoxycytidine triphosphate deaminase (dctp deaminase). #38 sll1256 300 transposase. #39 sll0920 300 ppc; phosphoenolpyruvate carboxylase. [EC:4.1.1.31] #40 slr0943 121 fda; fructose-bisphosphate aldolase. [EC:4.1.2.13] #41 sll0914 213 hypothetical protein. #42 slr0945 89 hypothetical protein. #43 slr0946 154 arsC; arsenate reductase. #44 slr0947 52 ycf27; regulatory components of sensory transduction system. #45 sll0913 120 hypothetical protein. #46 sll0912 285 ABC transporter. #47 slr0950 62 hypothetical protein. #48 sll0909 216 hypothetical protein. #49 slr0951 83 hypothetical 24.6 kD protein slr0951. [SP:Y951_SYNY3] #50 slr0952 206 fbp; fructose-1,6-bisphosphatase (D-fructose-1,6-bisphosphate 1- #51 slr0953 251 hypothetical protein. #52 ssr1600 72 hypothetical protein. #53 slr0955 79 hypothetical protein. #54 slr0957 136 hypothetical protein. #55 slr0958 30 cysS; cysteinyl-tRNA synthetase (cysteine--tRNA ligase) (cysRS). #56 sll0905 87 maf; MAF. #57 slr0959 112 hypothetical protein. #58 slr0960 26 hypothetical protein. #59 sll1541 127 lignostilbene-alpha,beta-dioxygenase. [EC:1.13.11.42] #60 ssr2723 59 hypothetical protein. #61 slr1622 263 ppa, ipyR; inorganic pyrophosphatase (pyrophosphate phospho- #62 slr1623 41 hypothetical protein. #63 slr1624 60 hypothetical protein. #64 sll1538 116 bgl; beta-glucosidase. [EC:3.2.1.21] #65 slr1627 118 hypothetical 22.0 kD protein slr1627. [SP:YG27_SYNY3] #66 sll1536 135 moeB; molybdopterin biosynthesis MoeB protein. #67 slr1629 124 hypothetical protein. #68 sll1535 99 rfbP; galactosyl-1-phosphate transferase. #69 sll1533 300 pilT; twitching mobility protein. #70 sll1525 300 prk, ptk; phosphoribulokinase (phosphopentokinase) (PRK). #71 slr0394 268 pgk; phosphoglycerate kinase. [EC:2.7.2.3] [SP:PGK_SYNY3] #72 sll0362 180 alaS; alanyl-tRNA synthetase (alanine--tRNA ligase) (alaRS). #73 sll0361 81 hypothetical protein. #74 sll0360 187 hypothetical protein. #75 sll0359 300 hypothetical protein. #76 sll0325 222 hypothetical protein. #77 slr0342 130 petB; cytochrome b6. [EC:1.10.99.1] [SP:CYB6_SYNY3] #78 slr0343 251 petD; cytochrome b6-F complex subunit 4 (17 kD polypeptide). #79 slr0344 127 rfbW; mannosyl transferase. #80 slr0345 204 hypothetical protein. #81 sll0322 45 hypF; transcriptional regulatory protein hypF. [SP:HYPF_SYNY3] #82 sll0321 138 hypothetical protein. #83 sll0320 33 rnd; ribonuclease D. [EC:3.1.26.3] #84 sll0319 276 hypothetical protein. #85 sll0318 164 hypothetical protein. #86 slr0350 174 transposase. #87 slr0351 152 hypothetical protein. #88 sll0315 123 transposase. #89 slr0353 300 hypothetical protein. #90 sll0018 283 fda; fructose-bisphosphate aldolase. [EC:4.1.2.13] [SP:ALF_SYNY3] #91 sll0017 300 hemL, gsa; glutamate-1-semialdehyde 2,1-aminomutase (GSA) #92 slr0009 201 rbcL; ribulose bisphosphate carboxylase large chain precursor. #93 slr0011 32 rbcX; #94 slr0012 300 rbcS; ribulose bisphosphate carboxylase small chain. [EC:4.1.1.39] #95 sll0006 103 aspC; aspartate aminotransferase. [EC:2.6.1.1] #96 sll0005 187 hypothetical 77.3 kD protein sll0005. [SP:Y005_SYNY3] #97 slr0020 100 recG; DNA recombinase. [EC:3.6.1.-] #98 slr0021 65 putative protease slr0021. [EC:3.4.-.-] [SP:Y021_SYNY3] #99 sll0002 226 ponA; penicillin-binding protein 1A. #100 tRNA-Ser-4 225 tRNA-Ser. #101 slr0213 87 guaA; probable GMP synthase (glutamine-hydrolysing) (glutamine #102 sll0210 114 bacA; bacitracin resistance; possibly phosphorylates undecaprenol. #103 slr0216 127 cobU; cobinamide kinase. #104 slr0217 238 hypothetical protein. #105 ssr0349 258 hypothetical protein. #106 sll0209 218 hypothetical protein. #107 sll0208 257 hypothetical protein. #108 sll0207 157 rfbA; glucose-1-phosphate thymidylyltransferase. [EC:2.7.7.24] #109 sll0205 286 hypothetical protein. #110 sll0204 136 gidA; glucose inhibited division protein A. #111 sll0202 129 gidA; glucose inhibited division protein A. [SP:GIDA_SYNY3] #112 sll0200 300 transposase. #113 sll0402 122 aspC; aspartate aminotransferase. [EC:2.6.1.1] #114 sll0401 193 gltA; citrate synthase. [EC:4.1.3.7] [SP:CISY_SYNY3] #115 sll0400 62 hypothetical protein. [SP:Y400_SYNY3] #116 slr0440 93 hypothetical protein. #117 ssr0102 74 ycf40; hypothetical protein. #118 sll0071 93 hypothetical protein. #119 sll0070 90 purU; formyltetrahydrofolate deformylase (formyl-fh(4) hydrolase). #120 sll0069 26 hypothetical protein. #121 sll0068 157 hypothetical protein. #122 sll0067 93 gst; glutathione S-transferase. [EC:2.5.1.18] #123 sll0066 99 hypothetical protein. #124 sll0065 181 ilvN; acetolactate synthase. [EC:4.1.3.18] #125 slr0053 64 hypothetical 20.1 kD protein slr0053. [SP:Y053_SYNY3] #126 slr0054 135 dgkA; probable diacylglycerol kinase (DAGK) (diglyceride kinase) #127 slr0055 143 trpG; anthranilate synthase component II. [EC:4.1.3.27] #128 slr0056 146 G4; chlorophyll synthase 33 kD subunit. #129 sll0064 300 hypothetical protein. #130 slr0194 55 rpiA; ribose 5-phosphate isomerase. [EC:5.3.1.6] #131 slr0195 35 hypothetical protein. #132 slr0197 103 comE ORF1. #133 sll0185 300 hypothetical protein. #134 sll0587 42 pyk1; pyruvate kinase 1. [EC:2.7.1.40] [SP:KPY1_SYNY3] #135 sll0586 300 hypothetical protein. #136 sll0034 62 hypothetical protein. #137 sll0033 160 hypothetical protein. #138 sll0031 300 hypothetical protein. Motif number 1 AATTCTCGTTGGAGATCGCCATCCTGGTCG 3 18 1 GGAGATCGCC 0.554631 -66 TAAATATCTTTACGATCGCCATTGGCTAGC 13 188 0 TACGATCGCC 0.898675 -79 TGGGTCAACGGCCGATCGCCAGCAAAACGG 17 153 0 GCCGATCGCC 0.590863 -57 TCGCCCCCCAGGCGATCGCCATCAGAGTTG 22 218 1 GGCGATCGCC 0.499993 -83 CATTATCCGCCACGATCGCCGTTTCAGTTG 23 92 0 CACGATCGCC 0.882455 -96 ACTCCCTAGTTGCGATGGCCAGTCAACTTC 29 46 1 TGCGATGGCC 0.721857 -47 GGGTAATCGGGGCGATCGCCTGCTAAACTG 34 103 1 GGCGATCGCC 0.499993 -122 AACCTGGCGATCGCCATTGAAGCGG 35 6 1 GGCGATCGCC 0.499993 -180 TATTCCCGTCGGCGATCGCCATTGATGCAG 37 195 1 GGCGATCGCC 0.499993 -58 CAGGCCCAACGGCGATCGCCAGGAATTGGG 54 71 1 GGCGATCGCC 0.499993 -66 TGATCATATTGGCGATCGCCATTTTCCTGG 65 43 1 GGCGATCGCC 0.499993 -76 AACGAAAATTGGCGATCGCCAGTGGGATGG 74 164 1 GGCGATCGCC 0.499993 -24 AGATAAAGGGGGCGATCGCCGATCCTTGGG 80 31 1 GGCGATCGCC 0.499993 -174 CTGTTTGATCCCCGATCGCCTATTGCCGGG 90 12 1 CCCGATCGCC 0.941553 -272 ATTCCTGACTGCCGATCGCC 100 1 0 GCCGATCGCC 0.590863 -225 CCCCTAGAATTGTGATCGCCCCACCGTTGC 102 17 0 TGTGATCGCC 0.715828 -98 GTGTTTGCTGTTCGATCGCCTTTGAGTAGA 104 199 0 TTCGATCGCC 0.866218 -40 AGTTAACGACTCCGATCGCCATAAAGCTTT 106 155 0 TCCGATCGCC 0.948695 -64 GCTTAAAAGATGCGATCGCCAAAACGCAGA 112 86 0 TGCGATCGCC 0.589403 -215 GAGTTTGCCGGCCCATCGCCTCTAACTTCC 115 23 1 GCCCATCGCC 0.762017 -40 ATTTTAGGACGGCGATCGCCGGGGATAATT 128 11 1 GGCGATCGCC 0.499993 -136 GACTCTCTCCGGCGATCGCCCTGGCTCAAG 133 147 1 GGCGATCGCC 0.499993 -154 AATGAGCTGCAACGATCGCCAACTGC 136 47 1 AACGATCGCC 0.67552 -16 ACAGGGAGCACTCGATCGCCGAGCCACCCC 137 56 0 CTCGATCGCC 0.844772 -105 ********** Masking position 6 Map Score: 73.2968 Number of sites scoring better than the average of aligned sites = 6166 Number in coding regions = 5612 Number in noncoding regions = 554 Number of orfs with sites within 600 bp upstream = 350 Fraction of orfs with sites within 600 bp upstream = 0.0562159 Motif number 2 GAGCGGTGCTCAAGCCCTCTAATCCCATAATTTTCA 4 57 0 CGCCCTTCCC 0.582232 -46 GCTAAGCTTTTAACCCTCCCTGTCCCAACCTATCGA 6 154 1 TCCCTCTCCC 0.929768 -42 CTGGAATGATTTGCCCCCCAACGTCTTTGGTTGTCG 7 24 1 TCCCCCGTCT 0.775244 -141 TTAGCCTGAGTTGCCCCATACTGCCCCAGGCTAAAT 11 53 0 TCCCCAGCCC 0.975563 -59 GAACAAATTTTAGCCCTTTCCGTTCCCGTACCAGGG 12 12 1 TCCCTTTTCC 0.385045 -157 ACAGGCCGGATAACCCCATTTACCCTTTCCCAAAGC 13 136 0 TCCCCACCCT 0.943206 -131 ATGCTTTAAAAGCCCCCCTGACCCCCAAATTTAGGG 14 128 1 ACCCCCCCCC 0.968511 -173 AGTTTTATTCTGCCCCCTAAATCTCCTCACTAAAGC 14 198 0 TCCCCTCTCC 0.859988 -103 ATTCCGGCCATAGCCCCGACTCCCCCCATAGATCT 16 10 1 AGCCCCCCCC 0.903185 -188 AGCCCCAAGCTGTCCCCCGTTTTGCTGGCGATCGGC 17 137 1 TCCCCCTGCT 0.898428 -73 CGGTATCCCCTAGGTTCCTGGGGATGATG 20 4 1 TCCCCTTCCT 0.874718 -209 AATAAAAAACTCCCCCTAATCTGGCCGACTAAGGGG 20 125 0 TCCCTAGGCC 0.693655 -88 TGTACCACTGTCCCCCGCAACCCACAACAATTCA 20 189 0 TCCCCCCCCA 0.92719 -24 GATTTTACCTTTTCCCTCGTCGCCCCACTGAGCGCC 21 186 0 TCCCTCCCCC 0.951103 -53 TCCAACAACTCCGGCCCAGTGTCGCCCCCCAGGCGA 22 197 1 CGCCCACGCC 0.556612 -104 AATGAGAATATTTCCCTAACACCGCTTAAAAGCAGA 23 118 1 TCCCTACGCT 0.485054 -70 GTTTCAAAAGCCCCCCTGGCCCCCAAGTTTGGGG 24 9 1 ACCCCCCCCC 0.968477 -292 TTAAGTAAAATTCCCCCAGTATTGCCGGAGCTTTAG 24 50 1 TCCCCATGCC 0.941854 -251 GCTAGGTATTTATCCCCCTAAATCCCCTTTAAAAAA 24 107 1 TCCCCCTCCC 0.988813 -194 GGCTGTTTAATCCCCCCTAGCCCCCCTTGGGAAGGG 24 165 0 TCCCCTCCCC 0.974887 -136 ACGGTGAAACTTGCCCCTGCCATCCTCTTGTCTGAC 40 38 0 TCCCCTTCCT 0.874718 -84 GGAAATCTCATTGCCCCCATTGTTCCATTCACATCC 41 139 1 TCCCCCTTCC 0.933268 -75 AACGATACCAAACCCCCAATTTGGCTATATGCTTAG 43 106 0 ACCCCAGGCT 0.486167 -49 AAAACTGGGTTTACCCCTGGTCTTCCACCATGATTT 46 187 0 TCCCCTTTCC 0.806968 -99 GCTCTGCAAAATTCCCCAGAGTGGCTAGCTGGTTTT 48 123 1 ACCCCAGGCT 0.486167 -94 CGTCTTTTAAAAGCCCCCTAGCCCCCCAATTCTGGG 50 144 0 ACCCCCCCCC 0.968511 -63 TCCATTGATTTTTGCCTTCCCTGCCC 54 1 0 TGCCTTGCCC 0.528355 -136 AACCCATCGCCCCCTTTTGGCCAGGCCGGTTA 56 7 1 TCCCCCGGCC 0.968983 -81 GTATAGATTTTAACCCCCAGTTCCCCGGAGCGGAGA 59 53 1 TCCCCCCCCC 0.992359 -75 GGTCTTCCCCTGGCCCTAAAGCCCCCCTCCTATTAG 61 146 0 TCCCTACCCC 0.903962 -118 ACCCTCGATTTGAGCCCATAGCCCCCCAAATTAAGA 61 179 1 TGCCCACCCC 0.950153 -85 TAAATTTTGTTTGCCCCCGGACTTCTTAATTTGGGG 61 202 0 TCCCCCTTCT 0.78704 -62 TATTAAATAATGTCCCCAATGTCCCCATTGAATTCG 69 170 1 TCCCCACCCC 0.984337 -131 CCGCCGGAGTCAACCCCCTCCATCCCTGATCCTTAA 76 27 0 CCCCCCTCCC 0.938919 -196 CCCCTGATTTTAACCCTCGTTCTCCTGGGAGCCTTA 80 71 0 TCCCTCTCCT 0.777698 -134 TTGCCGCAAGAAACCCCAAACATCCTGCAATAATTC 80 128 1 ACCCCATCCT 0.728041 -77 TTTGCCATCCTCTCCCCCCAACCGCTAGACAAGCTC 84 49 1 TCCCCCCGCT 0.928551 -228 GGCCATGGGTAAAGCCCTGGGGGCCCGTTTGGTAGA 84 113 1 AGCCCTGCCC 0.639072 -164 ATAGGATTGTTAACCCCATCAAGCCCGAAAATGTTC 84 230 0 TCCCCAGCCC 0.975563 -47 TAAAAGGTTACGTCCCCAAATTGCCTTGGTA 95 83 1 CCCCCAGCCT 0.647223 -21 TGCCTGGGGATTCGCCCTCACCTCCAGTATAAATTC 100 27 0 TGCCCTTCCA 0.440032 -199 AGAATTGTGATCGCCCCACCGTTGCAACTCC 102 6 0 TCCCCATGCA 0.613652 -109 AACTATTTCATGAGCCCACAAATCCCAAGCTTCTTA 106 31 1 TGCCCATCCC 0.928437 -188 GTTAAGAAATTAACCCCCGGTTGTCTTTATAATACA 107 162 0 TCCCCCGTCT 0.775244 -96 TGTTAAACCCTCCAGTGCCCCAAAAGCTGT 116 5 1 ACCCTCGCCC 0.745307 -89 TGGGAAACCCTAACCCCATGGCCCCATCATAGTTTA 121 29 1 TCCCCACCCA 0.860383 -129 ACGGCGTATTTCTGCCCCAATTCGCCTAAATACTGA 126 27 1 TGCCCCCGCC 0.937172 -109 CCCAACCAAGTTACCCCCATTGTTCCATGGCATTCC 127 75 0 TCCCCCTTCC 0.933268 -69 CAACACGTCATAGGCCTTAAAATCCCCGGCCCGGCG 129 93 0 TGCCTTTCCC 0.545512 -208 GCAAAAACCCTATGCCCCCCGTCCCAACCTGTACAA 135 176 0 TGCCCCCCCA 0.794344 -125 ATGGATCTAATCACCCCAAAAATCCCTTTAAAAAAC 135 237 0 TCCCCATCCC 0.977155 -64 AGCTCATTGCTTGGCCCCATTGTGCCAGAGAATGTT 136 19 0 TGCCCCTGCC 0.910333 -44 * ***** **** Masking position 6 Map Score: 58.3324 Number of sites scoring better than the average of aligned sites = 3378 Number in coding regions = 2856 Number in noncoding regions = 522 Number of orfs with sites within 600 bp upstream = 298 Fraction of orfs with sites within 600 bp upstream = 0.0478638 Motif number 3 TATATCACGTTTGCCGGAGGGCTCCTTTCCA 7 80 0 TTGCCGGAGG 0.831795 -85 GAAGTTTTTGTCCCCTGGGCTGACTCTGCCT 8 64 1 TCCCCTGGGT 0.822939 -37 GTATTTTAGCTTCCCATGGCTAGCCAATGGC 13 170 1 TTCCCATGGT 0.828204 -97 GGGGTCAATGTTGCCGGAGGGCCGCACAAGT 14 53 0 TTGCCGGAGG 0.831795 -248 TCCTCTAGTATTGCCGGAGCTTTAGTGAGGA 14 180 1 TTGCCGGAGT 0.88158 -121 AAAGGCAATTTTCCCAGGGGTAAAACATTAA 19 67 0 TTCCCAGGGT 0.92553 -64 ATCCCCTAGGTTCCTGGGGATGATGAAACAC 20 15 1 TTCCTGGGGT 0.708469 -198 CTGATGGCGATCGCCTGGGGGGCGACACTGG 22 212 0 TCGCCTGGGG 0.807711 -89 TCCCCCAGTATTGCCGGAGCTTTAGAAAGTG 24 61 1 TTGCCGGAGT 0.88158 -240 GATGGGAGTTTTGCCAGGGTTCCTAAATTCA 24 278 1 TTGCCAGGGT 0.944324 -23 TAAATTTAGGTTCCCATTGGTTCTAATAGGC 25 24 1 TTCCCATTGT 0.651575 -129 CAGAGTTTATTTCCCAGTGGTAAGCGTGGGT 34 76 1 TTCCCAGTGT 0.828645 -149 CAGGCGGAAATTCCCTTGGATGAAGGATAAA 34 182 1 TTCCCTTGGT 0.582 -43 CCGTCGGCGATCGCCATTGATGCAGCTATAA 37 200 1 TCGCCATTGT 0.766594 -53 CGCTCACCCATCGCTAGAGCTGGAAATTTCC 38 21 1 TCGCTAGAGT 0.525145 -280 TCTGCCCCATCCCCATTGATACCAACGATA 43 135 0 TCCCCATTGT 0.707094 -20 TTCCTAGGGATTTACCGAGGA 44 42 0 TTCCTAGGGT 0.651224 -11 TGTTTAGGCATCCCTATGGGTCGTGTTTTTG 46 113 0 TCCCTATGGT 0.482426 -173 TCTGCAAAATTCCCCAGAGTGGCTAGCTGGT 48 125 1 TCCCCAGAGG 0.782847 -92 TCCCCCAAATTTGCCGGAGCTTTAGTGAAGA 50 96 0 TTGCCGGAGT 0.88158 -111 TTCCTGGCGATCGCCGTTGGGCCTGGGTGTG 54 65 0 TCGCCGTTGG 0.739552 -72 AACCCCCAGTTCCCCGGAGCGGAGAACGTTA 59 64 1 TCCCCGGAGG 0.824317 -64 ATGTTGCTATGGATGCAAGGAAGG 67 111 0 TTGCTATGGT 0.495551 -14 GATTTTGGACTCCCCATGGCTTAGTTTTAAC 72 59 1 TCCCCATGGT 0.861558 -122 AAGTGCTTTTTCGCCGGGGGGGAGACCTGAA 74 46 1 TCGCCGGGGG 0.949823 -142 AAATTGGCGATCGCCAGTGGGATGGGCCG 74 169 1 TCGCCAGTGG 0.849437 -19 AGGACAAAACTCGCCAGAGGTCAAGGCTTGA 75 207 1 TCGCCAGAGT 0.880721 -94 GACTTCCCTTTCCCCAGGGCTTGAAGCTGTG 76 165 0 TCCCCAGGGT 0.941495 -58 TCAAAGCCCATTGCCGTTGCTCGATTTTTCG 84 83 1 TTGCCGTTGT 0.768058 -194 TAGACAATTATTGCCGTTGATTAAGGGAGTA 89 61 1 TTGCCGTTGT 0.768058 -240 CGATCGCCTATTGCCGGGGGGAAGAGATATA 90 24 1 TTGCCGGGGG 0.936158 -260 GCCATGGTTGCCATAGGTTCCAGTCAAA 95 8 1 TTGCCATAGT 0.688657 -96 TTAGAATAGTTCCCCATTGATTAATTGTTTT 97 37 0 TCCCCATTGT 0.707094 -64 TAGCGCAGATTTGCCGTGGGTTATTCTGGGC 100 161 0 TTGCCGTGGT 0.89514 -65 ATTTATGTCTTCCCCATTGTTCTGA 101 73 1 TCCCCATTGT 0.707094 -15 CAGGCAGATTTTGCCTGTGATTCTCGGGCAT 104 115 1 TTGCCTGTGT 0.6552 -124 TGCTGTTCGATCGCCTTTGAGTAGACTGGGG 104 193 0 TCGCCTTTGG 0.386547 -46 CTAGTCTAAGTTGCTGGGGGGGAGG 107 5 0 TTGCTGGGGG 0.687134 -253 GGATAGGTGTTCCCTATGGTTAGACCGCTAT 107 100 1 TCCCTATGGT 0.482426 -158 TCCAGCTCCCTTGCTGGGGTTGGCATGCTCT 113 47 1 TTGCTGGGGT 0.767782 -76 TAGCCATTTTTTGCTGTTGTTTACCCCAGGG 113 91 1 TTGCTGTTGT 0.331537 -32 GTCAGAAAAATTCCCTGGGGGCACTAAGTGG 119 12 1 TTCCCTGGGG 0.704606 -79 TCGTCTCATATTCCTAGGGCTGTATTCCTTT 119 63 1 TTCCTAGGGT 0.651224 -28 CAAGCACGTCTCCCCAGGGTTGTCCTGAGCT 123 52 1 TCCCCAGGGT 0.941495 -48 GTTTTTGCCCTTGCCATAGATTTTT 124 5 0 TTGCCATAGT 0.688657 -177 AGGACGGCGATCGCCGGGGATAATTGACCAA 128 16 1 TCGCCGGGGT 0.966098 -131 TAATTGAAAATCGCCTGAGGTTTCTACGCCG 129 67 1 TCGCCTGAGT 0.680772 -234 TTGGTAAATGTTCCCGGGGATTATGCCGTTT 129 166 1 TTCCCGGGGT 0.941939 -135 TCCAATTTATTTGCCATTGTTTAAACGAGAT 132 22 1 TTGCCATTGT 0.717854 -82 GCCAGGGCGATCGCCGGAGAGAGTCCTACGG 133 141 0 TCGCCGGAGG 0.864566 -160 TCTTATCTGCTCCCCAGGGGGAAAAGTGTGA 135 70 0 TCCCCAGGGG 0.914248 -231 CATAGGGTTTTTGCCGGTGGGGAGTTCCGTA 135 198 1 TTGCCGGTGG 0.850483 -103 ********* * Masking position 1 Map Score: 55.7302 Number of sites scoring better than the average of aligned sites = 2735 Number in coding regions = 2452 Number in noncoding regions = 283 Number of orfs with sites within 600 bp upstream = 287 Fraction of orfs with sites within 600 bp upstream = 0.046097 Motif number 4 AAACTTTGCCGACAGGCCCTCGCGTTATCATCG 9 80 1 GCAGCCCCGC 0.602584 -92 AGTTGCCCCATACTGCCCCAGGCTAAATACCCT 11 48 0 TCTCCCCGGC 0.964804 -64 CAATTTACTCGCTCTCCCCTAGGGTACTCTGGC 13 105 1 GTCCCCCAGG 0.768868 -162 GTAGCAATTTGGCCTGCCTTGGCCCCTACCATT 15 45 1 GCCGCCTGGC 0.768737 -78 CCCCTACCATTACCGCCCCCCGGTGGATATTGA 15 67 1 TCCCCCCCGG 0.742458 -56 GGGTTTATCAGTTTGCCCCTCGGGCTAGGCCCT 16 106 1 GTTCCCCCGG 0.773644 -92 TGCCCCTCGGGCTAGGCCCTGGCCCCGTCGCTG 16 119 1 GTAGCCCGGC 0.857699 -79 GCGGCCCTGCGACAGCCCCAAGCTGTCCCCCGT 17 124 1 GCACCCCAGC 0.743767 -86 TGTTTTAATGTTTTACCCCTGGGAAAATTGCCT 19 63 1 TTTCCCCGGG 0.931462 -68 CGGTATCCCCTAGGTTCCTGGGGA 20 2 1 GTACCCCAGG 0.590011 -211 CTTAATGAGTTTTTACCCCATGGTGAATTGTTG 20 166 1 TTTCCCCTGG 0.560153 -47 GGCTAGGAAAGCTCTGCCCAAGGTCGGTAAATA 22 55 1 GTCGCCCAGG 0.656414 -246 CGGCCCAGTGTCGCCCCCCAGGCGATCGCCATC 22 208 1 TGCCCCCGGC 0.588526 -93 CAAAAATTAATTCTTGCCCCAGGAGCAGTCC 22 280 1 TCTGCCCAGG 0.672804 -21 CTCTCTTTTTCCCCGCGCTGCTTAATCC 27 14 0 TTTCCCCCGC 0.794982 -18 GACCATCACTTTTTTCCCTTAGCCCAATAATTA 33 93 1 TTTCCCTAGC 0.426734 -61 GATTACCCACGCTTACCACTGGGAAATAAACTC 34 78 0 GTTCCACGGG 0.53754 -147 TTTCGGGTGTTTCTGCCACAGGCGGAAATTCCC 34 164 1 TCTCCACGGC 0.631858 -61 TGGTTTAGAATATATCCCTGGGCGCTTTCCCAC 35 153 1 TTACCCTGGC 0.584783 -33 CATTGTCTTCTTCCTCCCCCTGCTCCAGGGGTT 39 129 1 TCCCCCCTGC 0.694562 -172 CTTCCACCATGATTTGCCCTAGCCAAAATCGAA 46 169 0 GTTGCCCAGC 0.769827 -117 CTCCATCAAAGCCACACCCAGGCCCAACGGCGA 54 53 1 GCAACCCGGC 0.418678 -84 CCAGGCCGGTTATCCCCCTCGGGGAGCATTGCC 56 31 1 TTCCCCTGGG 0.67749 -57 TTACCTCCCTGGGCGAAAGTGGAA 59 2 1 TCCCCCTGGC 0.809057 -126 CAAATCGAGGGTCTTCCCCTGGCCCTAAAGCCC 61 158 0 GCTCCCCGGC 0.973989 -106 CTCTAAATTTTGTTTGCCCCCGGACTTCTTAAT 61 208 0 TTTGCCCCGG 0.589658 -56 AAGCTGATTCACCCAGGCTCAAGCAATA 63 6 1 GTTACCCGGC 0.590991 -55 TTGTTTCAGGTCTCCCCCCCGGCGAAAAAGCAC 74 48 0 TTCCCCCGGC 0.949096 -140 GTAACACAGCTTCAAGCCCTGGGGAAAGGGAAG 76 161 1 TCAGCCCGGG 0.79552 -62 GTTCTATATCTCTTCCCCCCGGCAATAGGCGAT 90 26 0 TTTCCCCGGC 0.954673 -258 ATCTTTTTTGTCCTGCCCCAAGGAATTTGTGCT 90 157 0 TCTCCCCAGG 0.781678 -127 TTGTCTCATTGACCGGCACTGGCTTGATCTCGC 95 50 0 GCCGCACGGC 0.543792 -54 AACGAGAATGGGTTGGCCCTGGCTACCTGGGTT 96 37 0 GTTGCCCGGC 0.942906 -151 ACTAAATACTGCCAAGCCTAGGCTTCCAGTGGC 96 75 0 GCAGCCTGGC 0.581088 -113 CTAATCTATTGGCCAGCCTTGGCAATCAAAAAT 104 43 1 GCCGCCTGGC 0.768719 -196 CAGTAGTCAATATTTCCCCGTGCTTTCCATAGA 105 64 1 TTTCCCCTGC 0.663711 -195 TGCTCTGTCTGACTAGCCTTAGCCATTTTTTGC 113 72 1 GCTGCCTAGC 0.431832 -51 TTTTGCTGTTGTTTACCCCAGGGATGTTTTGAT 113 99 1 GTTCCCCGGG 0.948886 -24 TATGGGGACAGGCTGGCCCGGGCCGGCGCAATT 114 118 1 GCTGCCCGGC 0.955258 -76 TGTCGGTAATTATTTGCCCCGGCCAACGGTTCT 121 110 1 TTTGCCCGGC 0.923641 -48 AAGAGCTCAGGACAACCCTGGGGAGACGTGCTT 123 53 0 GCACCCTGGG 0.617691 -47 TAAACGATTGTTTTTGCCCTTGCCATAGATTTT 124 12 0 TTTGCCCTGC 0.531285 -170 TGACCCAGCCTATCACCCTTGGGGCTAGGAATG 127 48 1 TTCCCCTGGG 0.67749 -96 AAACCCATCCTCTTTCCACGGGCTGATTGTGGA 133 236 1 TTTCCACGGC 0.568728 -65 GGCGTCACACTTTTCCCCCTGGGGAGCAGATAA 135 66 1 TTTCCCCGGG 0.931462 -235 AGACTGTTTGTGCCGCCCCTGGGACTGTGGACG 138 39 1 TCCCCCCGGG 0.939971 -262 * ** **** *** Masking position 7 Map Score: 39.9791 Number of sites scoring better than the average of aligned sites = 3477 Number in coding regions = 3204 Number in noncoding regions = 273 Number of orfs with sites within 600 bp upstream = 289 Fraction of orfs with sites within 600 bp upstream = 0.0464182 Motif number 5 CCCCCCTGACCCCCAAATTTAGGGGGAAACTGAC 14 140 1 CCCCAAAGGG 0.836281 -161 AATGTTTCTGGCCAAGGGACAGGGGAAGCATCTA 17 27 1 GCCAGGAGGG 0.933364 -183 GCCCCCCTGGCCCCCAAGTTTGGGGGGAAGTTAA 24 20 1 CCCCAATGGG 0.689785 -281 CCCCCTAGCCCCCCTTGGGAAGGGGGGAATTGTC 24 155 0 CCCCTGAGGG 0.944821 -146 GATTTCCACCGCCACAGGCCAGGGAAGATTTGGG 32 70 1 GCCAAGAGGG 0.941752 -155 CTTTTTCTCACCGATGGGGCAGGGCAAACCCAGT 33 28 1 CCGAGGAGGG 0.716278 -126 GCTATATTTTCCCCTAGTACTGGGACTGGGTTTG 33 52 0 CCCCAGTGGG 0.961379 -102 CAGAAAAAAACCCCTGGAGCAGGGGGAGGAAGAA 39 136 0 CCCCGGAGGG 0.983489 -165 GTCGATGCCCCTCCCAGATTAGGGCAGAAAAAAA 39 160 0 CTCCAGAGGG 0.654172 -141 GAACGAAAATCCCCTAAAGTAGGGTAGCTTACGG 46 43 0 CCCCAAAGGG 0.836897 -243 GATAAAATGGGCCCCAGACCAAGGCTTGTAATTT 46 225 1 GCCCAGAAGG 0.91131 -61 AACACTATTCCCCCCAGAATTGGGGGGCTAGGGG 50 132 1 CCCCAGTGGG 0.967181 -75 CTGGCGACTCACCACAGGTTAGGGGGCTAGAGGA 57 28 1 ACCAAGAGGG 0.537094 -85 GGCTTGTTAACCCCCTGTCAAGGGCCGAAGGAAA 70 178 0 CCCCTGAGGG 0.944218 -123 CATTATATCGCCCCGAGAAAAGTGCATCAATAAC 71 81 0 CCCCAGAGTG 0.836898 -188 GCACTTAGTCCCCCTTGCATAGGGAACCGCAGTC 74 18 0 CCCCTGAGGG 0.942503 -170 ATTGGCGATCGCCAGTGGGATGGGCCG 74 171 1 GCCATGTGGG 0.637553 -17 GACAAAACTCGCCAGAGGTCAAGGCTTGATTTTT 75 209 1 GCCAAGAAGG 0.787762 -92 ACAGCTTCAAGCCCTGGGGAAAGGGAAGTCCGGC 76 166 1 GCCCGGAAGG 0.898996 -57 ATATCTCTTCCCCCCGGCAATAGGCGATCGGGGA 90 20 0 CCCCGGTAGG 0.856063 -264 GGTTAACTCAGCCATAGACTAGGGTGGGGGTAAA 90 99 1 GCCAAGAGGG 0.941752 -185 ACAAAAACTGTCCAAAGAACAGGGCCGTATTGTG 94 174 1 TCCAAGAGGG 0.537099 -127 TTTAAACTGTCCCCTAGAATTGTGATCGCCCCAC 102 23 0 CCCCAGTGTG 0.691518 -92 GCCGACAGGATAGGGCGTGTGTGGA 105 2 1 CCGAAGAGGG 0.744536 -257 ACAGTCTACCGCCCAAGGAGAAGGCCCCATCTCC 110 60 0 GCCCAGAAGG 0.91131 -77 CTATGATGGGGCCATGGGGTTAGGGTTTCCCAGG 121 27 0 GCCAGGTAGG 0.584137 -131 TTTGGCATCCGCCCTGGTAATGGGTTCAAATTGG 129 29 0 GCCCGGTGGG 0.944223 -272 TCCGGCGATCGCCCTGGCTCAAGGTCAGGAACTT 133 154 1 GCCCGGAAGG 0.898996 -147 GTTTGTGCCGCCCCTGGGACTGTGGACGCTCCCC 138 44 1 CCCCGGTGTG 0.66007 -257 CACTATCCGCCCGACAGCAGAAGGTTCTCGAACT 138 195 1 CCGAAGAAGG 0.400822 -106 **** ** **** Masking position 14 Map Score: 35.2834 Number of sites scoring better than the average of aligned sites = 1106 Number in coding regions = 945 Number in noncoding regions = 161 Number of orfs with sites within 600 bp upstream = 147 Fraction of orfs with sites within 600 bp upstream = 0.0236107 Motif number 6 TATTAAAGGGCTTTCAAAACAAGCT 9 5 0 CTTTAAAACA 0.73901 -167 GAAACTAAAACTTTGCCGACAGGCCCTCGCG 9 73 1 CTTTCCGACA 0.729336 -99 CAGAATAAAACTTTCCAAACACCTTCTCAGG 14 222 1 CTTTCAAACA 0.965963 -79 GCTAGTTTATTTTTCCAAACATT 15 110 1 TTTTCAAACA 0.633367 -13 AGGTTTCGCCCTATTCCAACAACTCCGGCCC 22 183 1 CTATCCAACA 0.645149 -118 TAGCCTTGCACTTTTCAAACACTTTCTAAAG 24 80 0 CTTTCAAACA 0.965963 -221 CAAAACTCAACTTTCCAAACATGCTCTTAGC 24 200 1 CTTTCAAACA 0.965963 -101 CAAAATAAAACTTTTCAAACAAATTCTTGGG 24 247 1 CTTTCAAACA 0.965963 -54 ATCAATGTAGATTTACCAACAAAGTTGAATC 50 18 1 ATTTCCAACA 0.695191 -189 TGGATCATGACTTTTCAAACATACTCTAACG 50 54 0 CTTTCAAACA 0.965963 -153 AAAAAAATTCCTTTGCAAACAAAATAAGCTG 78 64 1 CTTTCAAACA 0.965963 -188 CTTCACCCTACTTTTCAAACACGCTCTTAAA 85 52 1 CTTTCAAACA 0.965963 -113 AACTTTTCAAACACTTTCTAAGG 86 162 0 CTTTCAAACA 0.965963 -13 TTTGCCCAGTATTTGCAAACATCTCC 123 84 1 ATTTCAAACA 0.752857 -16 TTTTATGTAACTTTGCCAACACGTCATAGGC 129 114 0 CTTTCCAACA 0.955052 -187 AGGTCAGGAACTTTAACAACATTCACCTTTG 133 175 1 CTTTACAACA 0.679489 -126 **** ****** Masking position 4 Map Score: 18.7901 Number of sites scoring better than the average of aligned sites = 158 Number in coding regions = 45 Number in noncoding regions = 113 Number of orfs with sites within 600 bp upstream = 75 Fraction of orfs with sites within 600 bp upstream = 0.0120463 Motif number 7 TATTTAGTGCCAAGTTTTGGCCGGGAAACTA 9 49 1 CAGTTTTGGC 0.684188 -123 TTTGTTTTGGCACGAAGATTA 10 1 1 TTGTTTTGGC 0.833675 -43 GGGGCAAGAATTAATTTTTGCTGGCAACTCT 22 269 0 TTATTTTTGC 0.73318 -32 TTTGGAAAGTTGAGTTTTGGCTGTTTAATCC 24 188 0 TGGTTTTGGC 0.889902 -113 GTGAAATAATCTTATTTTGGCCAACTATTCT 26 15 1 CTATTTTGGC 0.87744 -94 CTGCCGGAGCCAAGTTTTTGCATGATACCCC 30 16 0 CAGTTTTTGC 0.615985 -87 AGGGAAGATTTGGGTTTTTGCTTTTGGGATA 32 90 1 TGGTTTTTGC 0.856829 -135 TTATCACCGACGAATTTTGGCTTCATCAAAT 37 96 0 CGATTTTGGC 0.920287 -157 CCCTATGGGTCGTGTTTTTGCCGCCCTAAAA 46 102 0 CGGTTTTTGC 0.920287 -184 AGACTGTCCATTGATTTTTGCCTTCCCTGCC 54 12 0 TTATTTTTGC 0.73318 -125 AAATAGAATTCTTATTTTTGCTTAAACAAT 66 10 0 CTATTTTTGC 0.841291 -126 TGAATGTGGTCTAATTTTGGCCACATCAAGG 67 58 0 CTATTTTGGC 0.87744 -67 ACTGCTCCGCTTAATTTTGGCGCTAATCTGG 75 81 1 TTATTTTGGC 0.787741 -220 CGAAAACCAACGAATTTTTGCCCAGATTAGC 75 102 0 CGATTTTTGC 0.895267 -199 ATGAGTAGTTCTCATTTTTGCCAAGTTTGGG 76 122 0 CTATTTTTGC 0.841291 -101 AATGATATCTTGAATTTTGGCCAATCGTTCT 78 114 1 TGATTTTGGC 0.856829 -138 TCATCTTAGGCTAGTTTCTGCGCCTTGACAA 90 199 0 CTGTTTCTGC 0.658666 -85 CAGTAAGCAGTGGGTTTTGGCTGATTAACAA 92 51 1 TGGTTTTGGC 0.889902 -151 AACACTTTGTCGAATTTCTGCTGACTAAGCA 109 139 1 CGATTTCTGC 0.697338 -148 GAAAAACTTCTGCGTTTTGGCGATCGCATCT 112 78 1 TGGTTTTGGC 0.889902 -223 TCGGCTACGGCGTATTTCTGCCCCAATTCGC 126 21 1 CGATTTCTGC 0.697338 -115 CCACAGGCATTTTGTTTTTGCTTCCACTATC 138 171 1 TTGTTTTTGC 0.787741 -130 ** ******** Masking position 6 Map Score: 17.1324 Number of sites scoring better than the average of aligned sites = 291 Number in coding regions = 234 Number in noncoding regions = 57 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 8 GTTATTGGGAATTTTCCCCTTTTCT 9 157 1 ATTTTCCCCT 0.802054 -15 GGGCTCTGCTAATTTCCCCATTCTAGGACAG 14 13 1 AATTTCCCCT 0.895253 -288 ACTTTCAGTCAGTTTCCCCCTAAATTTGGGG 14 150 0 AGTTTCCCCT 0.554915 -151 TTGTTTTAATGTTTTACCCCTGGGAAAATTG 19 62 1 GTTTTACCCT 0.26205 -69 AAGTTAAGTAAAATTCCCCCAGTATTGCCGG 24 47 1 AAATTCCCCA 0.694077 -254 AATTGTCGCAAAAGTCCCCTTTTTTAAAGGG 24 131 0 AAAGTCCCCT 0.406685 -170 GCCACTTTCCCCCTTTCCTTAATT 29 79 0 ACTTTCCCCT 0.921407 -14 CACCAGCTATATTTTCCCCTAGTACTGGGAC 33 60 0 ATTTTCCCCA 0.811908 -94 AGTGATCAATAATTTCCCCTAGGAGGGATTG 35 104 0 AATTTCCCCA 0.90104 -82 CTCTTGTCTGACTTTACCCTTTAATATCATT 40 19 0 ACTTTACCCT 0.720271 -103 TTTCCTGGTAAATTTCCCCGT 46 275 1 AATTTCCCCT 0.895253 -11 TTTGTACTGAGATTTCCCCAAAGTAAACATG 48 57 0 GATTTCCCCA 0.784167 -160 AATAGTGTTCAAAGTCCCCCAAATTTGCCGG 50 110 0 AAAGTCCCCA 0.422037 -97 AAATGTAACAAACTTCCCCATTGACC 59 112 1 AACTTCCCCT 0.772533 -16 TTTTGTATGGAATTTACCCAATTGATTGACC 65 94 1 AATTTACCCA 0.66664 -25 CCTATTAAATAATGTCCCCAATGTCCCCATT 69 168 1 AATGTCCCCA 0.745579 -133 TATTATGCCAACTTTCCCCGAAAACTAACCT 71 11 0 ACTTTCCCCA 0.925868 -258 ACTACTGTCGACCTTACCCAAGAGTGGAAAA 78 225 1 ACCTTACCCA 0.521533 -27 GGCCCCCAGGGCTTTACCCATGGCCGAAAAA 84 107 0 GCTTTACCCT 0.506772 -170 AAAGGACTGAAATTTACCCTTAATAAATACC 87 89 0 AATTTACCCT 0.652434 -64 ATTACCCAAAACCTTCCCCCATCCTGGACTT 90 68 1 ACCTTCCCCA 0.832297 -216 GCTAAAGACGGTTTTCCCCATCCTAACCCAG 96 13 1 GTTTTCCCCT 0.617858 -175 GGGACGATGGACATTCCCCATGTATCTCTGG 97 80 1 ACATTCCCCT 0.744983 -21 TTGAGACATAAATTTACCCCAT 98 54 1 AATTTACCCA 0.66664 -12 AGACATAAATAAATTCCCCAATTTTTAAGCA 101 52 0 AAATTCCCCA 0.694077 -36 ATTTATTTATGTCTTCCCCATTGTTCTGA 101 69 1 GTCTTCCCCT 0.391163 -19 ACGTTTTTAAACTGTCCCCTAGAATTGTGAT 102 31 0 ACTGTCCCCA 0.800787 -84 GGAAAGCGATACCTTCCCCTATTTATTCTGA 106 189 1 ACCTTCCCCA 0.832297 -30 TGCCATCCAAATTTTCCCCTTTAGAACACCT 109 221 0 ATTTTCCCCT 0.802054 -66 TGCCCCAAAAGCTGTCCCCCAAATATTAGCT 116 26 1 GCTGTCCCCA 0.615977 -68 AGCAACTTTACCCAATGTCGGAACA 138 5 1 ACTTTACCCA 0.73284 -296 ********* * Masking position 5 Map Score: 22.6823 Number of sites scoring better than the average of aligned sites = 1079 Number in coding regions = 894 Number in noncoding regions = 185 Number of orfs with sites within 600 bp upstream = 192 Fraction of orfs with sites within 600 bp upstream = 0.0308384 Motif number 9 GGCACTAAATAAAAGCTCCGACAATATTAAAG 9 28 0 AAAGCTCCGC 0.969494 -144 ATCTCCTCACTAAAGCTCCGGCAATACTAGAG 14 182 0 TAAGCTCCGC 0.976665 -119 TGTCCCAGTAAATAACTCCGTCGTCGGACCGT 19 13 0 AAAACTCCGC 0.921113 -118 GGGAAAAGGTAAAATCACCGACTTATTAAGTC 21 206 1 AAATCACCGC 0.724088 -33 GCCCTATTCCAACAACTCCGGCCCAGTGTCGC 22 190 1 AAAACTCCGC 0.921113 -111 AAACACTTTCTAAAGCTCCGGCAATACTGGGG 24 63 0 TAAGCTCCGC 0.976665 -238 GCATTTTAAGTATAACTCCGCCATGATCAACG 45 74 0 TAAACTCCGC 0.938939 -47 ATGTCTTCACTAAAGCTCCGGCAAATTTGGGG 50 93 1 TAAGCTCCGC 0.976665 -114 TATGCGATTTTACGGCTCCGCCGGAGTCAACC 76 48 0 TAGGCTCCGC 0.923947 -175 AACGGACGAGTACAACTCCGACAATCCAAACA 92 175 1 TAAACTCCGC 0.938939 -27 CTAACAGCTAAATAGCTTCGCCGACAAGCCCT 99 157 0 AAAGCTTCGC 0.659234 -70 TGGGGAGTGGTATAGCACCGCCTAGAATGGTT 117 46 0 TAAGCACCGC 0.924523 -29 TCAAAACCCCAAGATCACCGACTACTACAGAG 133 55 0 AAATCACCGC 0.724088 -246 AACGGAAACTTACGTCTCCGCCCTCTTCATTG 135 147 1 TAGTCTCCGC 0.774157 -154 ** ******* * Masking position 2 Map Score: 14.2396 Number of sites scoring better than the average of aligned sites = 89 Number in coding regions = 44 Number in noncoding regions = 45 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 10 TGGAAAGGAGCCCTCCGGCAAACGTGATAT 7 80 1 CCCTCCGGCA 0.97605 -85 ACTAAATAAAAGCTCCGACAATATTAAAGG 9 27 0 AGCTCCGACA 0.447393 -145 CAGAAAGTCCGGCTCCCCCAGCTTAATTTT 9 124 1 GGCTCCCCCA 0.395224 -48 AGAAACCCACCGCCATCTTCGTTAA 10 29 0 CCCACCGCCA 0.787648 -15 ACTTGTGCGGCCCTCCGGCAACATTGACCC 14 53 1 CCCTCCGGCA 0.97605 -248 TCCTCACTAAAGCTCCGGCAATACTAGAGG 14 181 0 AGCTCCGGCA 0.93007 -120 CACTTTCTAAAGCTCCGGCAATACTGGGGG 24 62 0 AGCTCCGGCA 0.93007 -239 GCAAAAACTTGGCTCCGGCAGATTCCGGCT 30 26 1 GGCTCCGGCA 0.928757 -77 ACAAAGTTGAATCTCCGGCGTTAGAGTATG 50 36 1 ATCTCCGGCG 0.66132 -171 TCTTCACTAAAGCTCCGGCAAATTTGGGGG 50 96 1 AGCTCCGGCA 0.93007 -111 TAACGTTCTCCGCTCCGGGGAACTGGGGGT 59 65 0 CGCTCCGGGG 0.740317 -63 TGCCCTCCGCCGCTGAAGTTCC 60 3 1 CCCTCCGCCG 0.938581 -57 ACTGAGGACTCCCACCGCCA 68 1 0 CCCACCGCCA 0.787648 -99 TTCAGGTCTCCCCCCCGGCGAAAAAGCACT 74 47 0 CCCCCCGGCG 0.906457 -141 GCGATTTTACGGCTCCGCCGGAGTCAACCC 76 47 0 GGCTCCGCCG 0.830172 -176 TATATCTCTTCCCCCCGGCAATAGGCGATC 90 25 0 CCCCCCGGCA 0.910522 -259 AATGTTAGCCCGCTCCCGCGGGTTTTTTGT 94 241 0 CGCTCCCGCG 0.847373 -60 CCGTAGGACTCTCTCCGGCGATCGCCCTGG 133 141 1 CTCTCCGGCG 0.870361 -160 TACGGAACTCCCCACCGGCAAAAACCCTAT 135 199 0 CCCACCGGCA 0.904091 -102 ********** Masking position 5 Map Score: 18.8023 Number of sites scoring better than the average of aligned sites = 443 Number in coding regions = 389 Number in noncoding regions = 54 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 11 GGAAAATACTCCCGGTCAACGGACTCACTTCT 4 12 1 CCGGTCAAGG 0.852375 -91 ACAGATTAAACCAGGCCCGACGGAAAAACCAG 5 33 1 CCGGCCCGCG 0.961926 -50 CCAGGCAGAGTCAGCCCAGGGGACAAAAACTT 8 65 0 TCGCCCAGGG 0.261223 -36 GTTTTAGTTTCCCGGCCAAAACTTGGCACTAA 9 52 0 CCGGCCAAAC 0.435058 -120 GGGGCCAGGGCCTAGCCCGAGGGGCAAACTGA 16 113 0 CCAGCCCGGG 0.807621 -85 GACAAATGTTTCTGGCCAAGGGACAGGGGAAG 17 23 1 TCGGCCAAGG 0.692655 -187 GCTAGGAAAGCTCTGCCCAAGGTCGGTAAATA 22 56 1 CTTGCCCAGG 0.459786 -245 ACAATTCCCCCCTTCCCAAGGGGGGCTAGGGG 24 156 1 CCTCCCAAGG 0.640845 -145 CCAAATCTTCCCTGGCCTGTGGCGGTGGAAAT 32 71 0 CCGGCCTGGG 0.700426 -154 CTGGGTTTGCCCTGCCCCATCGGTGAGAAAAA 33 29 0 CCGCCCCACG 0.929174 -125 CCCTGCCTCACGCTCACCCATCG 38 2 1 CCGCCTCAGC 0.365361 -299 TCTTCCTCCCCCTGCTCCAGGGGTTTTTTTCT 39 137 1 CCGCTCCAGG 0.763599 -164 AAAGCCACACCCAGGCCCAACGGCGATCGCCA 54 60 1 CCGGCCCACG 0.978706 -77 GGATAACCGGCCTGGCCAAAAGGGGGCGATGG 56 14 0 CCGGCCAAAG 0.765163 -74 GCTGATTCACCCAGGCTCAAGCAATACTCTGG 63 13 1 CCGGCTCAGC 0.668539 -48 ATCTAGTCATCCTGGTCAACCCCAGATAACGC 70 134 0 CCGGTCAACC 0.407848 -167 CTTGTTAACCCCCTGTCAAGGGCCGAAGGAAA 70 178 0 CCTGTCAAGG 0.437185 -123 CGTTAAAAATCCTAGTCAGTGGCCTAAGCATT 86 62 0 CCAGTCAGGG 0.210218 -113 TCTTTTTTGTCCTGCCCCAAGGAATTTGTGCT 90 157 0 CCGCCCCAGG 0.962954 -127 GAGAAACAGTCCTGGCCAATCCTAACTAAGCT 99 50 0 CCGGCCAACC 0.847156 -177 GGAAGCTGGCCCATGCCAACGGGAAGTTCGTC 106 104 1 CCTGCCAAGG 0.862069 -115 GACAGGCTGGCCCGGGCCGGCGCAATTTTTTG 114 124 1 CCGGGCCGCG 0.534437 -70 GCTTGAGTTTGCCGGCCCATCGCCTCTAACTT 115 19 1 GCGGCCCACG 0.652025 -44 AATTATTTGCCCCGGCCAACGGTTCTAGGGTA 121 117 1 CCGGCCAAGG 0.978931 -41 TTATATCCTACCATGCCCGCCGGGCAAGCTTG 124 102 0 CCTGCCCGCG 0.772678 -80 CATGGCATTCCTAGCCCCAAGGGTGATAGGCT 127 54 0 CTGCCCCAGG 0.643691 -90 CCTTAAAATCCCCGGCCCGGCGTAGAAACCTC 129 83 0 CCGGCCCGCG 0.961926 -218 GGGATTTTATCTGGGCCCAAGCGAACTAATTG 129 219 1 CTGGCCCAGC 0.599345 -82 AAGGGTTTATCCAGGCTCAGGGTAGCGCAATT 129 246 0 CCGGCTCAGG 0.895102 -55 TCATAAATTTCCCGGCCAAAGGATGTGAGTTA 132 56 1 CCGGCCAAGG 0.978931 -48 CGGCGATCGCCCTGGCTCAAGGTCAGGAACTT 133 156 1 CCGGCTCAGG 0.895102 -145 CGCTCCCCCTCCAAGCCAATCGGCAGGGACGG 138 70 1 CCAGCCAACG 0.662927 -231 ** ****** ** Masking position 2 Map Score: 26.8601 Number of sites scoring better than the average of aligned sites = 2063 Number in coding regions = 1931 Number in noncoding regions = 132 Number of orfs with sites within 600 bp upstream = 155 Fraction of orfs with sites within 600 bp upstream = 0.0248956 Motif number 12 GGTTTAGCCCGACCAGGATGGCGATCTCCAACG 3 24 0 GACGATGGCG 0.863924 -60 ATCGACAACCAAAGACGTTGGGGGGCAAATCAT 7 29 0 AAAGTTGGGG 0.429666 -136 ATAACAACAAAATTAAGCTGGGGGAGCCGGACT 9 129 0 AATGCTGGGG 0.714647 -43 CACGAAGATTAACGAAGATGGCGGTGGGTTTCT 10 21 1 AACGATGGCG 0.924407 -23 AGCTGTCCCCCGTTTTGCTGGCGATCGGCCGTT 17 144 1 CGTGCTGGCG 0.48065 -66 TGGAAAAAATAGTTGGGTTGGGGATGTTGACGG 20 58 1 AGTGTTGGGG 0.8304 -155 CACTATGCTCAACTCTGATGGCGATCGCCTGGG 22 224 0 AACGATGGCG 0.924407 -77 GCAACTAGGGAGTGACGATGGCGATACCTTCTT 29 26 0 AGTGATGGCG 0.895079 -67 AGCAATGATGGCGATAATTATAA 32 212 0 AGCGATGGCG 0.951734 -13 TTTCCTTTTTCTCACCGATGGGGCAGGGCAAAC 33 24 1 CTCGATGGGG 0.635652 -130 CGTTGGTATCAATGGGGATGGGGCAGA 43 138 1 AATGATGGGG 0.880481 -17 TTTTCCTGGTAGTGGAGATGGCGGTCACTTTTT 65 64 1 AGTGATGGCG 0.895079 -55 ATTTCTCCTCACCCCAGATGGCGTGTTGGAGAG 70 229 0 ACCGATGGCG 0.697234 -72 GTCTCTCTGGGGCTCCGTTGGGGAACATTTTCG 84 208 1 GGCGTTGGGG 0.854568 -69 GGTTTTGGGTAATCAAGTTGGGGTTCTATATCT 90 48 0 AATGTTGGGG 0.752246 -236 AGTTAACCAAGTCCAGGATGGGGGAAGGTTTTG 90 74 0 GTCGATGGGG 0.739477 -210 TGGCTACCTGGGTTAGGATGGGGAAAACCGTCT 96 18 0 GGTGATGGGG 0.860487 -170 GGCAAATCTGCGCTAAGATGGGGGCGGAAAATT 100 177 1 CGCGATGGGG 0.897556 -49 ATATCAGGCAAGTTGAGATGGGGCATAGAGATT 108 65 1 AGTGATGGGG 0.922359 -93 AACCTAATCGAGAAATGATGGCGTAAGCATCTG 108 132 0 AGAGATGGCG 0.679149 -26 TATAAAAATAAACTATGATGGGGCCATGGGGTT 121 40 0 AACGATGGGG 0.944534 -118 TTTTTTGCAAAACTCTGCTGGGGATCGGTTTCC 122 20 1 AACGCTGGGG 0.852705 -74 CAATGGGGGTAACTTGGTTGGGGGTTAAACCTT 127 89 1 AACGTTGGGG 0.875288 -55 TTCATCTTTTGTCACAGTTGGCGTCACACTTTT 135 47 1 GTCGTTGGCG 0.456548 -254 *** ******* Masking position 9 Map Score: 17.6866 Number of sites scoring better than the average of aligned sites = 514 Number in coding regions = 456 Number in noncoding regions = 58 Number of orfs with sites within 600 bp upstream = 66 Fraction of orfs with sites within 600 bp upstream = 0.0106007 Motif number 13 GTTAAGCTAGAGAGCGTATTTGTTTAGACATC 3 58 1 AGAGTATTTG 0.757077 -26 CCTATCGAATAGAGGAAGTTTGTC 6 182 1 AGAGAGTTTG 0.834188 -14 GAATCCCCTGAGAAGGTGTTTGGAAAGTTTTA 14 227 0 AGAATGTTTG 0.951599 -74 CCGGAGCTTTAGAAAGTGTTTGAAAAGTGCAA 24 74 1 AGAATGTTTG 0.951599 -227 TTCCTCGCTAAGAGCATGTTTGGAAAGTTGAG 24 205 0 AGAGTGTTTG 0.977495 -96 CCCATCCCCAAGAATTTGTTTGAAAAGTTTTA 24 252 0 AGAATGTTTG 0.951599 -49 GGAGAAAAACTGAAAATGTTTGTTATCACCGA 37 117 0 TGAATGTTTG 0.694864 -136 CTCCGGCGTTAGAGTATGTTTGAAAAGTCATG 50 48 1 AGAGTGTTTG 0.977495 -159 GTCAAGATTGAGAGGATGTTTGGCAATGCAAT 78 16 1 AGAGTGTTTG 0.977495 -236 GCGATGTTTAAGAGCGTGTTTGAAAAGTAGGG 85 57 0 AGAGTGTTTG 0.977495 -108 ACAATCCCTTAGAAAGTGTTTGAAAAGTT 86 156 1 AGAATGTTTG 0.951599 -19 CCATTGTGCCAGAGAATGTTGGCGGTCA 136 7 0 AGAGTGTTGG 0.881747 -56 **** ****** Masking position 3 Map Score: 11.1563 Number of sites scoring better than the average of aligned sites = 112 Number in coding regions = 29 Number in noncoding regions = 83 Number of orfs with sites within 600 bp upstream = 61 Fraction of orfs with sites within 600 bp upstream = 0.00979762 Motif number 14 GCAACATTGACCCCGTTGTAACAGCCAAAA 14 70 1 CCCCGTTGTA 0.737902 -231 GATGAACCTACGCCGTTGAATGGTTCTTAA 14 269 0 CGCCGTTGAA 0.504766 -32 CCCCGACTCCCCCCATAGATCTTTGGAGCC 16 24 1 CCCCATAGAT 0.452075 -174 TCGGTAAATACCCCATTGCAGATTATGAGA 22 78 1 CCCCATTGCA 0.910269 -223 ACCTGGCGATCGCCATTGAAGCGGTTTTTT 35 12 1 CGCCATTGAA 0.7722 -174 CGTCGGCGATCGCCATTGATGCAGCTATAA 37 201 1 CGCCATTGAT 0.713522 -52 ATCTCATTGCCCCCATTGTTCCATTCACAT 41 143 1 CCCCATTGTT 0.873092 -71 TCTGCCCCATCCCCATTGATACCAACGATA 43 135 0 CCCCATTGAT 0.930659 -20 GAAAATGGCGCTCCATTGTTTAACCACCTG 46 142 0 CTCCATTGTT 0.361688 -144 GGCACCTCCCCATTGCAGTCAAAACGG 52 8 1 CCCCATTGCA 0.910269 -65 TAACAAACTTCCCCATTGACC 59 117 1 CCCCATTGAC 0.852312 -11 TCCCCAATGTCCCCATTGAATTCGACCGGT 69 182 1 CCCCATTGAA 0.948097 -119 AGGGCGCGCCCCCCCTTGAATCGGTCAATC 70 23 1 CCCCCTTGAA 0.790386 -278 TATGATGGTTCCCCGTTGCCATCTTTTCTC 73 50 1 CCCCGTTGCC 0.490744 -32 AGCACTTAGTCCCCCTTGCATAGGGAACCG 74 23 0 CCCCCTTGCA 0.676796 -165 AATTTTGGTGCTCCATTGAACAAACTTCTG 91 121 0 CTCCATTGAA 0.600717 -180 TAGAATAGTTCCCCATTGATTAATTGTTTT 97 37 0 CCCCATTGAT 0.930659 -64 TTTATGTCTTCCCCATTGTTCTGA 101 74 1 CCCCATTGTT 0.873092 -14 CTATACCACTCCCCATTAAAAG 117 63 1 CCCCATTAAA 0.409033 -12 ACCAAGTTACCCCCATTGTTCCATGGCATT 127 77 0 CCCCATTGTT 0.873092 -67 CAACCATTTCTCCCATTGAATAGTAAAACC 128 44 1 TCCCATTGAA 0.409033 -103 CATTGCTTGGCCCCATTGTGCCAGAGAATG 136 21 0 CCCCATTGTG 0.616477 -42 ********** Masking position 6 Map Score: 16.8788 Number of sites scoring better than the average of aligned sites = 383 Number in coding regions = 307 Number in noncoding regions = 76 Number of orfs with sites within 600 bp upstream = 89 Fraction of orfs with sites within 600 bp upstream = 0.0142949 Motif number 15 ACGAAATTTATCGCCCAATACTTTACAGCCTAGG 7 124 1 TGCCCAATTT 0.901844 -41 AAAGCCCCCCTGACCCCCAAATTTAGGGGGAAAC 14 136 1 TACCCCATTT 0.920604 -165 TGTCCAAATCTTAACCCTGAATTTGCGATTCCCC 20 95 1 TAACCCATTT 0.6834 -118 AAAGCCCCCCTGGCCCCCAAGTTTGGGGGGAAGT 24 17 1 TGCCCCATTT 0.966622 -284 ACAGACTAAGTTACCCACGATTTTGACACACTCT 32 162 0 TACCCAATTT 0.786265 -63 ATAGCTGGTGTTGACCATCACTTTTTTCCCTTAG 33 81 1 TGACCAATTT 0.631053 -73 TGATCTTTCCGAACCCCGAAATTTGCCTATTT 49 62 1 GACCCCATTT 0.717533 -22 AAAAGCCCCCTAGCCCCCCAATTCTGGGGGGAAT 50 138 0 TGCCCCATTC 0.764612 -69 TTTGAGCCCATAGCCCCCCAAATTAAGAAGTCCG 61 187 1 TGCCCCAATT 0.686683 -77 GCACACTAACTCCGAAGTTTTTTGTCCATC 72 7 1 TACTCCATTT 0.503472 -174 ATATTGGCTATTACCCCTGATTTTAACCCTCGTT 80 86 0 TACCCCATTT 0.920604 -119 GGCATTGAATTCGACCCGTATTTTTACCCCCACC 90 121 0 TGACCCATTT 0.843535 -163 TTTTCTCCATTCAACCCTTATTTTCAATCGACAA 94 46 1 TAACCCATTT 0.6834 -255 CTCTTTGAGCTAGCCCAGCAGTTTTAGGCACGAA 105 164 0 TGCCCAATTT 0.901844 -95 TGTCATGGGATTGCTCCTTAATTTTGACTTTGTA 109 47 0 TGCTCCATTT 0.716917 -240 GGGATCTTCCGTGCCCAAAATTTTATCCCAGAAA 112 197 1 GGCCCAATTT 0.668089 -104 GAATGGTTCTTAGCCCCAAATTTTTTTTGTAAGC 117 20 0 TGCCCCATTT 0.966622 -55 CTAATTCTCTTGGCCCAGGAGTTTTGCAATTG 131 14 1 TGCCCAATTT 0.901844 -22 * ***** * *** Masking position 13 Map Score: 12.6448 Number of sites scoring better than the average of aligned sites = 551 Number in coding regions = 425 Number in noncoding regions = 126 Number of orfs with sites within 600 bp upstream = 105 Fraction of orfs with sites within 600 bp upstream = 0.0168648