AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00051_synecho_reg_300.orf -o00051_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: sll0744 21 hypothetical protein. slr0944 151 hypothetical 42.4 kD protein slr0944. [SP:Y944_SYNY3] Input sequences: #1 slr1118 38 rffM; UDP-N-acetyl-D-mannosaminuronic acid transferase. [EC:2.4.1.-] #2 sll1063 224 hypothetical protein. #3 slr1119 30 hypothetical protein. #4 sll1062 26 hypothetical protein. #5 ssl2069 268 hypothetical protein. #6 ssr1853 209 hypothetical protein. #7 slr1120 150 hofD; type 4 prepilin peptidase. [EC:3.4.99.-] #8 sll1059 79 adk; adenylate kinase. [EC:2.7.4.3] #9 sll1058 86 dapB; dihydrodipicolinate reductase. [EC:1.3.1.26] [SP:DAPB_SYNY3] #10 sll1057 300 trx; thioredoxin M. #11 sll1196 112 pfkA; phosphofructokinase. [EC:2.7.1.11] #12 slr1298 149 hypothetical 84.3 kD protein slr1298. [SP:YC98_SYNY3] #13 sll1194 194 psbU; photosystem II 12 kD extrinsic protein precursor. #14 sll1193 300 putative deoxyribonuclease. [EC:3.1.21.4] #15 sll0648 127 lim; lipophilic protein. [EC:2.4.1.-] #16 sll0646 38 cyaA; adenylate cyclase. [EC:4.6.1.1] #17 sll0645 74 hypothetical protein. #18 sll0644 195 esterase. #19 slr0686 254 hypothetical protein. #20 sll0643 300 ureG; urease accessory protein ureG. [SP:UREG_SYNY3] #21 slr2074 300 manA; mannose-6-phosphate isomerase. [EC:5.3.1.8] #22 slr1448 300 cscK; fructokinase. [EC:2.7.1.4] #23 sll1757 144 hypothetical protein. [EC:2.7.1.69] #24 ssr3188 159 hypothetical protein. #25 ssl3364 164 hypothetical protein. #26 slr1884 150 trpS; tryptophanyl-tRNA synthetase (tryptophan--tRNA ligase) #27 ssr3189 125 hypothetical protein. #28 slr1885 85 hypothetical protein. #29 slr1886 32 iojap protein. #30 sll1755 76 hypothetical protein. #31 slr1887 129 hemC; porphobilinogen deaminase (PBG) (hydroxymethylbilane synthase) #32 slr1888 265 hypothetical protein. #33 slr2132 57 pta; phosphotransacetylase. [EC:2.3.1.8] #34 sll2015 61 hypothetical protein. #35 sll2014 53 sfsA; sugar fermentation stimulation protein. #36 sll2013 159 hypothetical protein. #37 sll2012 300 rpoD; RNA polymerase sigma factor. #38 sll1605 262 fabZ; (3R)-hydroxymyristol acyl carrier protein dehydrase. #39 slr1718 78 hypothetical protein. #40 slr1719 129 drgA; drgA protein. [SP:DRGA_SYNY3] #41 slr1720 25 aspS; aspartyl-tRNA synthetase (aspartate--tRNA ligase) (aspRS). #42 slr1721 102 hypothetical protein. #43 slr1722 126 guaB; IMP dehydrogenase subunit. [EC:1.1.1.205] #44 sll1601 96 hypothetical protein. #45 slr1724 167 hypothetical protein. #46 ssl3127 285 hypothetical protein. #47 sll1599 98 mntA; manganese transport system ATP-binding protein mntA. #48 sll1598 143 mntC; Mn transporter MntC. #49 ssr2898 300 transposase. #50 sll1370 50 rfbM; GDP-mannose pyrophosphorylase. [EC:2.7.7.22] #51 sll1369 59 hypothetical protein. #52 sll1182 96 petC; cytochrome b6/f complex iron-sulfur subunit. #53 sll1181 156 hlyD; HlyD family of secretion proteins. #54 sll1180 300 hlyB; HlyB family. #55 slr1271 251 rffM; UDP-N-acetyl-D-mannosaminuronic acid transferase. [EC:2.4.1.-] #56 slr1272 29 hypothetical protein. #57 slr1273 184 hypothetical protein. #58 slr1274 81 pilM; membrane protein. #59 slr1275 39 hypothetical protein. #60 slr1276 80 hypothetical protein. #61 sll1173 66 hypothetical protein. #62 slr1278 49 hypothetical protein. #63 sll1172 282 thrC; threonine synthase. [EC:4.2.99.2] #64 slr1279 71 ndhC; NADH-plastoquinone oxidoreductase chain 3. [EC:1.6.5.3] #65 slr1281 300 ndhJ; NADH-plastoquinone oxidoreductase subunit J (orf 155). #66 slr0943 121 fda; fructose-bisphosphate aldolase. [EC:4.1.2.13] #67 sll0914 213 hypothetical protein. #68 slr0945 89 hypothetical protein. #69 slr0946 154 arsC; arsenate reductase. #70 slr0947 52 ycf27; regulatory components of sensory transduction system. #71 sll0913 120 hypothetical protein. #72 sll0912 285 ABC transporter. #73 slr0950 62 hypothetical protein. #74 sll0909 216 hypothetical protein. #75 slr0951 83 hypothetical 24.6 kD protein slr0951. [SP:Y951_SYNY3] #76 slr0952 206 fbp; fructose-1,6-bisphosphatase (D-fructose-1,6-bisphosphate 1- #77 slr0953 251 hypothetical protein. #78 ssr1600 72 hypothetical protein. #79 slr0955 79 hypothetical protein. #80 slr0957 136 hypothetical protein. #81 slr0958 30 cysS; cysteinyl-tRNA synthetase (cysteine--tRNA ligase) (cysRS). #82 sll0905 87 maf; MAF. #83 slr0959 112 hypothetical protein. #84 slr0960 26 hypothetical protein. #85 sll1541 127 lignostilbene-alpha,beta-dioxygenase. [EC:1.13.11.42] #86 ssr2723 59 hypothetical protein. #87 slr1622 263 ppa, ipyR; inorganic pyrophosphatase (pyrophosphate phospho- #88 slr1623 41 hypothetical protein. #89 slr1624 60 hypothetical protein. #90 sll1538 116 bgl; beta-glucosidase. [EC:3.2.1.21] #91 slr1627 118 hypothetical 22.0 kD protein slr1627. [SP:YG27_SYNY3] #92 sll1536 135 moeB; molybdopterin biosynthesis MoeB protein. #93 slr1629 124 hypothetical protein. #94 sll1535 99 rfbP; galactosyl-1-phosphate transferase. #95 sll1533 300 pilT; twitching mobility protein. #96 sll0325 222 hypothetical protein. #97 slr0342 130 petB; cytochrome b6. [EC:1.10.99.1] [SP:CYB6_SYNY3] #98 slr0343 251 petD; cytochrome b6-F complex subunit 4 (17 kD polypeptide). #99 slr0344 127 rfbW; mannosyl transferase. #100 slr0345 204 hypothetical protein. #101 sll0322 45 hypF; transcriptional regulatory protein hypF. [SP:HYPF_SYNY3] #102 sll0321 138 hypothetical protein. #103 sll0320 33 rnd; ribonuclease D. [EC:3.1.26.3] #104 sll0319 276 hypothetical protein. #105 sll0318 164 hypothetical protein. #106 slr0350 174 transposase. #107 slr0351 152 hypothetical protein. #108 sll0317 139 transposase. #109 sll0315 123 transposase. #110 slr0353 300 hypothetical protein. #111 sll0018 283 fda; fructose-bisphosphate aldolase. [EC:4.1.2.13] [SP:ALF_SYNY3] #112 sll0017 300 hemL, gsa; glutamate-1-semialdehyde 2,1-aminomutase (GSA) #113 sll0456 93 hypothetical protein. #114 sll0455 127 hom; homoserine dehydrogenase (HDH). [EC:1.1.1.3] [SP:DHOM_SYNY3] #115 slr0495 40 lipopeptide antibiotics iturin a biosynthesis protein. #116 slr0496 158 hypothetical protein. #117 sll0454 202 pheS; phenylalanyl-tRNA synthetase alpha chain (phenylalanine--tRNA #118 sll0691 135 hypothetical protein. #119 ssl1300 255 hypothetical protein. #120 sll0689 300 NaH-antiporter protein. #121 sll0593 206 glk; glucokinase. [EC:2.7.1.2] #122 slr0615 300 ABC transporter. #123 sll0745 111 pfkA; phosphofructokinase. [EC:2.7.1.11] #124 sll0742 73 hypothetical protein. #125 sll0741 300 nifJ; putative pyruvate-flavodoxin oxidoreductase. [EC:1.-.-.-] #126 slr1556 152 ddh; 2-hydroxyaciddehydrogenase. [EC:1.1.1.-] #127 sll1498 50 carA; carbamoyl-phosphate synthetase subunit A. [EC:6.3.5.5] #128 slr1557 99 hypothetical protein. #129 sll1496 146 mannose-1-phosphate guanyltransferase. [EC:2.7.7.-] #130 sll1495 154 hypothetical protein. #131 tRNA-Val 51 tRNA-Val. #132 slr1559 126 aroE; shikimate 5-dehydrogenase. [EC:1.1.1.25] #133 slr1560 77 hiss2; probable histidyl-tRNA synthetase 2 (histidine--tRNA ligase #134 slr1562 30 probable glutaredoxin slr1562. [SP:GLR1_SYNY3] #135 slr1563 300 hypothetical protein. #136 slr1656 300 murG; UDP-N-acetylglucosamine-N-acetylmuramyl-(pentape ptide) Motif number 1 TTTGCCCCCCGGCGATCGCCAAATTGGGGC 2 115 1 GGCGATCGCC 0.499997 -110 TTAACAGCTTGGCGATCGCCCACTGCCCCG 5 96 1 GGCGATCGCC 0.499997 -173 GCCACTTCACGGCGATCGCCCGTCGTCTGG 10 228 1 GGCGATCGCC 0.499997 -73 GGCCGCAACTGGCGATCGCCAGGATTTCCA 24 33 1 GGCGATCGCC 0.499997 -127 CATAAAAAACGGCGATCGGTGGGTTTCGGC 27 69 0 GGCGATCGGT 0.873492 -57 TAGCATCAGAGGCTATCGGCCTTGGTTTTC 30 52 1 GGCTATCGGC 0.942044 -25 CTCCTCCAGAGGCTATCGTCTGGGTTAAGA 37 48 0 GGCTATCGTC 0.793518 -253 GGTTTTCGGTGGCGATCGGGCCTAGAACCT 38 139 1 GGCGATCGGG 0.946316 -124 CAACTATTATGGCGATCGCCAGTTTGGTGG 46 186 1 GGCGATCGCC 0.499997 -100 TGATGGTCGGAGCGATGGGCACCATGGACG 49 186 1 AGCGATGGGC 0.782201 -115 CATCATCTTTGGCGATCGCCCCCAGAATT 53 138 1 GGCGATCGCC 0.499997 -19 CGGAGGTGTGGGCGATCGCCTGCCAATCAA 55 97 1 GGCGATCGCC 0.499997 -155 CGGACTTGTGGGCGATCGCCTGGGGGCATT 63 99 1 GGCGATCGCC 0.499997 -184 GGGGGGCAATGGCCCGAGGTTCCA 63 269 0 GGCAATGGCC 0.919616 -14 GCAATTAACTGGCAATGGGCTGAAAATTCC 70 15 1 GGCAATGGGC 0.939654 -38 CAGGCCCAACGGCGATCGCCAGGAATTGGG 80 71 1 GGCGATCGCC 0.499997 -66 GCCAAAAGGGGGCGATGGGTT 82 2 0 GGCGATGGGT 0.877988 -86 TAATTTGGGGGGCTATGGGCTCAAATCGAG 87 182 0 GGCTATGGGC 0.922906 -82 TGATCATATTGGCGATCGCCATTTTCCTGG 91 43 1 GGCGATCGCC 0.499997 -76 AGATAAAGGGGGCGATCGCCGATCCTTGGG 100 31 1 GGCGATCGCC 0.499997 -174 ATCGAGCAACGGCAATGGGCTTTGAGCTTG 104 78 0 GGCAATGGGC 0.939654 -199 CCCGGCAATAGGCGATCGGGGATCAAACAG 111 12 0 GGCGATCGGG 0.946316 -272 GCAAGGATTTGGCGATCGCCTTTTTTGGTT 113 39 1 GGCGATCGCC 0.499997 -55 TTAGGTTACTGGCGATCGGCTCCCCATTCT 114 80 0 GGCGATCGGC 0.568855 -48 GTAGACCAGGGGCAATGGTCAATAGAAGTT 120 170 0 GGCAATGGTC 0.684761 -131 GGCGATCGCCAGGATCATTA 122 1 1 GGCGATCGCC 0.499997 -300 ********** Masking position 6 Map Score: 83.5211 Number of sites scoring better than the average of aligned sites = 6080 Number in coding regions = 5526 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 CCCCGGCGATCGCCAAATTGGGGCAAAAAATTAGAT 2 121 1 CATGGGGCAA 0.923679 -104 AGTTTATCGGGGATAGGATGGGGCAAATGCGCCGCA 2 160 0 GATGGGGCAA 0.931243 -65 ACTGCCCCGGGCCATGGTTGGGGACAAACGATTGGT 5 117 1 GTTGGGGACA 0.575298 -152 TTCCCGTCGTCGAAATTAGGGGGAAAAGGGCTTGGC 6 54 0 CAGGGGGAAA 0.535372 -156 AAGTTCCGATCTGCCAAGTTGGGCGAAACAAGATGC 7 83 0 CCTTGGGCGA 0.645567 -68 TGATTAATCTCTCCATTGTTGGGCAACCGTTAACCC 9 30 0 CATTGGGCAA 0.780122 -57 GAGCAATTCGGATAAAGCTGGGGCAATT 9 69 1 GATGGGGCAA 0.931243 -18 ACAATAGATTGTATATTCTTGGGGCACGGCTGACCA 13 76 0 GATTGGGGCA 0.886396 -119 GCATCGGAGCCAAATTCTAGGGGCCATACCAAAGTC 15 17 1 CTAGGGGCCA 0.621009 -111 CCCTAGCCCCCCTTAGAAAGGGGGGAACTCTTACAA 19 65 1 CAAGGGGGGA 0.834676 -190 GCTTTAGTGAGGAGATTTAGGGGGCAGAATAAAACT 19 122 1 GAAGGGGGCA 0.865706 -133 AGTATTTTCTGAATTGCTGTGGGCCAAGACTTCTAA 22 219 1 GTGTGGGCCA 0.541508 -82 GTGGCCCCCAGGGCCGTATGGGGCAAGTTGAGGTCA 25 24 1 GCTGGGGCAA 0.870132 -141 GAGATAATCTGGCCTTGATGGGGGAAACAGCTTCAC 31 35 0 GTTGGGGGAA 0.913888 -95 CAAGCTTTATGGGGGATTTTTGCGTT 37 1 1 CCATGGGGGA 0.422693 -300 ACTGGAAACGGACGATTGATGGGGAATGACTGGGAT 37 139 0 GAATGGGGAA 0.614805 -162 AGGATTTGGCGGATTGTTTGGGGAATGAACAACCC 38 10 1 CTTTGGGGAA 0.735458 -253 GGGTAATAGCGGGTAGTGGTGGGGCATTGGTCAACA 43 18 1 GAGTGGGGCA 0.805898 -109 AACCCCCTGGGATTATTCTGGGGGGATTTTTATTGG 43 81 0 GATGGGGGGA 0.958894 -46 CAGTTTCTCTCCAAATTTTGGGGGGATTAGGGGGAC 45 127 1 CATGGGGGGA 0.954223 -41 TGGCGATCGCCAGTTTGGTGGGGGCATTATTTGCTT 46 195 1 CTTGGGGGCA 0.918223 -91 TCGAAACTTTGGCTAAACTGGGGGCAGTTCTTTTTA 52 62 1 GATGGGGGCA 0.963788 -35 CCGATCTGTTGTAATGTCTGGGGGGAAGTGGAGACC 54 135 1 GTTGGGGGGA 0.91676 -166 GTCAGCGTAACCGGAGGTGTGGGCGATCGCCTGCCA 55 86 1 CAGTGGGCGA 0.662076 -166 GTGGATAAAGGTTACGGCTGGGGGAAATTGGGTTAC 55 157 0 GCTGGGGGAA 0.917493 -95 AGGAGTGAAGCAATAGGTGTGGGCAAGGTGAACAAA 58 48 1 CAGTGGGCAA 0.653737 -34 GACTTGTGGGCGATCGCCTGGGGGCATTCTGCCAAT 63 101 1 CCTGGGGGCA 0.921663 -182 AATAGGAGAAGACAATAGGGGGGGCAGGCAAGGCAA 64 15 1 GAGGGGGGCA 0.934049 -57 CCAATGGACTGAAAACTTTGGGGGAATATTTTTGTG 65 210 0 GATGGGGGAA 0.957409 -91 TCAGTCCATTGGCAACAGTGGGGGAAGGGGGAGCTA 65 234 1 GATGGGGGAA 0.957409 -67 GGATGTGAATGGAACAATGGGGGCAATGAGATTTCC 67 139 0 GCGGGGGCAA 0.780958 -75 ACCTTACCATGTTTACTTTGGGGAAATCTCAGTACA 74 50 1 GATGGGGAAA 0.707881 -167 ACTAAAGCTCCGGCAAATTTGGGGGACTTTGAACAC 76 101 1 CATTGGGGGA 0.85937 -106 CCCCTAGCCCCCCAATTCTGGGGGGAATAGTGTTCA 76 130 0 CATGGGGGGA 0.954223 -77 TAACCGGCCTGGCCAAAAGGGGGCGATGGGTT 82 7 0 GAGGGGGCGA 0.882064 -81 AAGGACATAGGGACAAACGTGGGGAAACAAATGCGT 95 89 1 GAGTGGGGAA 0.778106 -212 CGAATTCAATGGGGACATTGGGGACATTATTTAATA 95 170 0 GATGGGGACA 0.741546 -131 TTGAGCTTGTCTAGCGGTTGGGGGGAGAGGATGGCA 104 51 0 CCTGGGGGGA 0.911597 -226 TGTCTCTCTGGGGCTCCGTTGGGGAACATTTTCGGG 104 207 1 GTTTGGGGAA 0.756763 -70 CCCCGATCGCCTATTGCCGGGGGGAAGAGATATAGA 111 21 1 CTGGGGGGAA 0.834612 -263 AGTTAACCAAGTCCAGGATGGGGGAAGGTTTTGGGT 111 71 0 GATGGGGGAA 0.957409 -213 CTCAGCCATAGACTAGGGTGGGGGTAAAAATACGGG 111 105 1 GATGGGGGTA 0.568951 -179 TGCCCTAGCACAAATTCCTTGGGGCAGGACAAAAAA 111 151 1 CTTTGGGGCA 0.766992 -133 CTGTTAACCTCCATTTGTTTGGGCCAAGACTCTGAG 112 33 0 CTTTGGGCCA 0.664801 -268 CCCCCTGGCCCCCAAGTTTGGGGGGAAGTTAAAAAT 116 60 1 CATGGGGGGA 0.954223 -99 GATTTAATGAGGAGATTTAGGGGACAAAATAAAACT 116 119 1 GAAGGGGACA 0.410002 -40 TTTGAGTAGGGATTTTAGTGGGGCGATTGAGCGGGA 120 62 0 GTTGGGGCGA 0.869037 -239 AATCGGCATTAGGGGGCAAACGTTAATCG 124 4 1 CAGGGGGCAA 0.865594 -70 ATTAGTGGAACAGACGACAGGGGCGAATCTGCTAAT 127 25 1 CCAGGGGCGA 0.600772 -26 TGGGGGTTGCCTAGTCCTTTGGGCCAAACGCCTGTA 128 15 1 CTTTGGGCCA 0.664801 -85 GACGGCTTTGTTTCGGCAGGGGCAAGTTTAAACAT 132 10 1 GCAGGGGCAA 0.618728 -117 TAATTATCCTCTGCTTAGTTGGGGCAGGGAAACGGA 136 60 1 CTTTGGGGCA 0.766992 -241 CCTAATTTTCCCCAAGCTTGGGGGAAACTCGGGAAA 136 212 0 CATGGGGGAA 0.952577 -89 * * ******** Masking position 16 Map Score: 64.2444 Number of sites scoring better than the average of aligned sites = 2395 Number in coding regions = 2072 Number in noncoding regions = 323 Number of orfs with sites within 600 bp upstream = 257 Fraction of orfs with sites within 600 bp upstream = 0.0412785 Motif number 3 GATCGCCCACTGCCCCGGGCCATGGTTGGG 5 109 1 TGCCCCGGGC 0.806226 -160 AAACTTAAAGTCCCCCGGCATTGGAAAATT 6 91 1 TCCCCCGGCA 0.905786 -119 TAACTCATTGTCCCCAGACAACAA 10 5 0 TCCCCAGACA 0.850969 -296 ACAAAAAACCACCCCAAACAAGGCAAAGTT 12 102 0 ACCCCAAACA 0.641783 -48 TGGTCAGCCGTGCCCCAAGAATATACAATC 13 76 1 TGCCCCAAGA 0.453697 -119 CATAGGTGAACCCCCCAACAGCATTGAGTC 14 125 0 CCCCCCAACA 0.839612 -176 CCCTTTGTCCTGCCCAGGCAGCGTTAATT 17 56 1 TGCCCAGGCA 0.835358 -19 CTGTTTAATCCCCCCTAGCCCCCCTTAGAA 19 53 1 CCCCCTAGCC 0.920938 -202 TAACCAACCCTGCCCCGGCAAATCAACGGA 20 209 1 TGCCCCGGCA 0.805901 -92 ATAGGAGGCACCCCCAAAGCTGAAATTGCG 23 121 1 CCCCCAAAGC 0.865214 -24 GTTAACCCCAGGGAAGATATCCTT 24 146 0 ACCCCAGGGA 0.800439 -14 CCGGTGGTGGCCCCCAGGGCCGTATGGGGC 25 18 1 CCCCCAGGGC 0.955531 -147 GTCTCCAAAAACCCCAGACAACAAACGGCG 27 38 1 ACCCCAGACA 0.744198 -88 TGTAGCTAGAACCCCTGGGAATATTGTGC 28 67 1 ACCCCTGGGA 0.702476 -19 GGTTGTTCATTCCCCAAACAATCCGCCAAA 38 15 0 TCCCCAAACA 0.778583 -248 CATTGGGATCCCCCCTGGGCCATGAGCCCA 38 98 0 CCCCCTGGGC 0.926735 -165 TGGTCAACAAGGCCCAGACCAGGGTAACAA 43 45 1 GGCCCAGACC 0.751815 -82 CAACTATCAACCCCCTGGGATTATTCTGGG 43 95 0 CCCCCTGGGA 0.89398 -32 GAATTTTCAGACCCCTGGGATTCCTGTCGT 50 18 1 ACCCCTGGGA 0.702476 -33 TCTCCACTTCCCCCCAGACATTACAACAGA 54 139 0 CCCCCAGACA 0.912205 -162 TAACCCAATTTCCCCCAGCCGTAACCTTTA 55 158 1 TCCCCCAGCC 0.89896 -94 CCGCTGGACCCCCCCTGACCACCATTAGCC 63 31 0 CCCCCTGACC 0.901719 -252 TTGGCAGAATGCCCCCAGGCGATCGCCCAC 63 106 0 GCCCCCAGGC 0.829781 -177 CACCATGATTTGCCCTAGCCAAAATCGAAA 72 168 0 TGCCCTAGCC 0.734269 -118 GATAAAATGGGCCCCAGACCAAGGCTTGTA 72 225 1 GCCCCAGACC 0.875276 -61 CTTTTAAAAGCCCCCTAGCCCCCCAATTCT 76 147 0 CCCCCTAGCC 0.920938 -60 TTTCCTCTAGCCCCCTAACCTGTGGTGAGT 83 34 0 CCCCCTAACC 0.849627 -79 TTTCCACTTTCGCCCAGGGAGGTAA 85 6 0 CGCCCAGGGA 0.860788 -122 TCGAGGGTCTTCCCCTGGCCCTAAAGCCCC 87 157 0 TCCCCTGGCC 0.912119 -107 GACTTCCCTTTCCCCAGGGCTTGAAGCTGT 96 166 0 TCCCCAGGGC 0.921647 -57 GCCGCAAGAAACCCCAAACATCCTGCAATA 100 130 1 ACCCCAAACA 0.641783 -75 GCCATCCTCTCCCCCCAACCGCTAGACAAG 104 52 1 CCCCCCAACC 0.887043 -225 ACCAAACGGGCCCCCAGGGCTTTACCCATG 104 116 0 CCCCCAGGGC 0.955531 -161 CCCCAACGGAGCCCCAGAGAGACAGTCTGC 104 201 0 GCCCCAGAGA 0.757785 -76 TATATCTCTTCCCCCCGGCAATAGGCGATC 111 25 0 CCCCCCGGCA 0.946017 -259 TCGAATTCAATGCCCTAGCACAAATTCCTT 111 141 1 TGCCCTAGCA 0.648135 -143 TTTTTGTCCTGCCCCAAGGAATTTGTGCTA 111 156 0 GCCCCAAGGA 0.798872 -128 TCAGAGTCTTGGCCCAAACAAATGGAGGTT 112 34 1 GGCCCAAACA 0.554282 -267 TTTGAAAAGCCCCCCTGGCCCCCAAGTTTG 116 50 1 CCCCCTGGCC 0.949785 -109 AAAATAAAAGTGCCCCAGCATTGTCGAAGA 116 91 1 TGCCCCAGCA 0.719111 -68 CTCGTAATTCCGCCCTAGCAAAGGCCTTGT 117 169 0 CGCCCTAGCA 0.77021 -34 AAATTGCCTTGGCCCAGAGCTTTTGAGTTA 118 59 0 GGCCCAGAGC 0.669515 -77 GGCCCCAAAGCCATTGAAAAA 121 196 0 GCCCCAAAGC 0.742944 -11 CGCTCCATTAACCCCCGGCAGTATCCCCAA 125 202 1 ACCCCCGGCA 0.830708 -99 GACTAGGCAACCCCCAAACA 128 1 0 CCCCCAAACA 0.864838 -99 TTTTCCCGCAACCCCAAGGAACATTTCTCC 132 59 1 ACCCCAAGGA 0.711826 -68 TGATTAGAGTCGCCCAAACCTAAAACC 135 8 0 CGCCCAAACC 0.805571 -293 TGCCAACCGATGCCCTAGGCAATGCTAATG 135 109 1 TGCCCTAGGC 0.648868 -192 GAGAGGATGATGCCCAAACCTAAACAAAGC 135 146 0 TGCCCAAACC 0.694839 -155 TTCCCGAGTTTCCCCCAAGCTTGGGGAAAA 136 213 1 TCCCCCAAGC 0.742675 -88 ********** Masking position 5 Map Score: 56.7103 Number of sites scoring better than the average of aligned sites = 3716 Number in coding regions = 3323 Number in noncoding regions = 393 Number of orfs with sites within 600 bp upstream = 367 Fraction of orfs with sites within 600 bp upstream = 0.0589464 Motif number 4 CACTGCCCCGGGCCATGGTTGGGGACAAACGATT 5 116 1 GCAGTTGGGG 0.827659 -153 ACCTGGCATAGGTATTAATGGGGGACCCCACCGC 5 195 1 GTTATGGGGG 0.465669 -74 TTTTCCCGTCGTCGAAATTAGGGGGAAAAGGGCT 6 58 0 GCAATAGGGG 0.911743 -152 TTAAGATTCAGTACAAACTAGGGGAAAACGTTCA 10 172 0 GAAATAGGGG 0.794258 -129 ACAATAGATTGTATATTCTTGGGGCACGGCTGAC 13 78 0 GAATTTGGGG 0.747096 -117 TGCCGACTGCGCCGATTTTGGGAGGTCAAACCAG 13 120 0 GCATTGGGAG 0.669613 -75 AGCATCGGAGCCAAATTCTAGGGGCCATACCAAA 15 16 1 CAATTAGGGG 0.53765 -112 GCTAAGCACCGTACAAATATGGGGTAAACTTTAT 15 74 1 GAAAATGGGG 0.503318 -54 CCCTAGCCCCCCTTAGAAAGGGGGGAACTCTTAC 19 65 1 CTAAAGGGGG 0.516789 -190 CTAAAGCTCCGGCAATACTGGGGGTCTTTTGTAA 19 95 0 GCAATGGGGG 0.970648 -160 GCTTTAGTGAGGAGATTTAGGGGGCAGAATAAAA 19 122 1 GAATAGGGGG 0.855952 -133 TCGAACAGAGGCTGAGGCAAGGGGCATGGGCTAT 21 63 1 GTAGAAGGGG 0.485725 -238 GAGATAATCTGGCCTTGATGGGGGAAACAGCTTC 31 37 0 GCTGTGGGGG 0.666976 -93 ACTGGAAACGGACGATTGATGGGGAATGACTGGG 37 141 0 GCATATGGGG 0.762502 -160 AACCCCCTGGGATTATTCTGGGGGGATTTTTATT 43 83 0 GTATTGGGGG 0.92455 -44 GCGTTAGTAAGGAGATTTAGGGGGCGGAATAAAA 45 66 0 GAATAGGGGG 0.855952 -102 CAGTTTCTCTCCAAATTTTGGGGGGATTAGGGGG 45 127 1 CAATTGGGGG 0.788247 -41 TCGAAACTTTGGCTAAACTGGGGGCAGTTCTTTT 52 62 1 GCAATGGGGG 0.970648 -35 CCGATCTGTTGTAATGTCTGGGGGGAAGTGGAGA 54 135 1 GATTTGGGGG 0.551962 -166 TGTTCCAGGGGTTAATAATCGGGGGAAATTGTGG 55 189 0 GTAATCGGGG 0.505312 -63 GGAAATAGGAGAAGACAATAGGGGGGGCAGGCAA 64 12 1 GAAATAGGGG 0.794258 -60 CCAATGGACTGAAAACTTTGGGGGAATATTTTTG 65 212 0 GAATTGGGGG 0.936024 -89 TCAGTCCATTGGCAACAGTGGGGGAAGGGGGAGC 65 234 1 GCAATGGGGG 0.970648 -67 CTAAGCATATAGCCAAATTGGGGGTTTGGTATCG 69 106 1 ACAATGGGGG 0.592583 -49 CCGTAAGCTACCCTACTTTAGGGGATTTTCGTTC 72 43 1 CCATTAGGGG 0.756794 -243 AAATAGGCAAATTTCGGGGTTCGGAAAGA 75 65 0 GCATTCGGGG 0.79441 -19 CTAAAGCTCCGGCAAATTTGGGGGACTTTGAACA 76 102 1 GCATTGGGGG 0.975095 -105 CCCCTAGCCCCCCAATTCTGGGGGGAATAGTGTT 76 132 0 CCATTGGGGG 0.908754 -75 TGGCGACTCACCACAGGTTAGGGGGCTAGAGGAA 83 29 1 CAAGTAGGGG 0.413987 -84 TCTCATTTTTGCCAAGTTTGGGAGCTTTTCCACC 96 110 0 GCATTGGGAG 0.669613 -113 AAAAGAGAGTGTAGATAAAGGGGGCGATCGCCGA 100 19 1 GAAAAGGGGG 0.833858 -186 ACCGGATTGAATCTAGAATAGGGGGGTTAAAGCT 102 90 1 ACAATAGGGG 0.312416 -49 AATTATTGCCGTTGATTAAGGGAGTAACGGAATT 110 66 1 GTATAGGGAG 0.20485 -235 AGTTAACCAAGTCCAGGATGGGGGAAGGTTTTGG 111 73 0 GCAGTGGGGG 0.959654 -211 CTCAGCCATAGACTAGGGTGGGGGTAAAAATACG 111 105 1 GCAGTGGGGG 0.959654 -179 CTGATTTAGTGGTAATAAAAGGGGTTGCGTTAAC 112 248 0 GTAAAAGGGG 0.567687 -53 CCCCCTGGCCCCCAAGTTTGGGGGGAAGTTAAAA 116 60 1 CCATTGGGGG 0.90877 -99 TGATGGGAGCGATAATTCAAGGGGAAAATTATGA 119 171 0 GTATAAGGGG 0.608561 -85 TCAAATTAAGGATAAATTAAGGGGGTTTGGT 123 91 1 GTATAAGGGG 0.608561 -21 AAAAAACTTAGTCGAGAAATGGGGCTGCGAATTA 125 68 0 GCAAATGGGG 0.730586 -233 AGTCAAGTTTGTTAACAGTTGGGGATACTGCCGG 125 216 0 GTAATTGGGG 0.676349 -85 CCCGAGTTTCCCCCAAGCTTGGGGAAAATTAGGT 136 215 1 CCAGTTGGGG 0.398718 -86 * * * * ****** Masking position 11 Map Score: 42.0087 Number of sites scoring better than the average of aligned sites = 1307 Number in coding regions = 1067 Number in noncoding regions = 240 Number of orfs with sites within 600 bp upstream = 167 Fraction of orfs with sites within 600 bp upstream = 0.026823 Motif number 5 AAAATAACAAGGGCAGCAAAATAC 7 137 1 GGAGCAAAAT 0.848259 -14 GATCGATAAAGTCCAGCAAAAACTCAACCTTT 8 47 1 GTAGCAAAAA 0.451866 -33 GGGTAATGGCGGTAGGCAAGAAACTTTCTCAG 20 42 1 GGGGCAAGAA 0.843065 -259 CAAAACCATGGGAGGGCCAGATAGGATGATCT 21 219 0 GGGGCCAGAT 0.580044 -82 TCCAAAACCCGTCGGGCAAAATCAGGGTTATG 22 118 1 GTGGCAAAAT 0.710043 -183 CTATCGTTGCGGCCAGCTAAAAAACACGCATT 22 189 0 GGAGCTAAAA 0.615095 -112 GACAACAAACGGCGGGCCGAAACCCACCGATC 27 54 1 GGGGCCGAAA 0.795827 -72 GCGCTCCTAAGGGTGGCTAAAACTTTGCATAA 27 94 0 GGGGCTAAAA 0.862573 -32 TTTGGAGGGCAAAATCAAGGTAATT 33 4 1 GGGGCAAAAT 0.956439 -54 CCTTGAATGTGGTCAGCAAAAAGTAGGGACAA 49 32 0 GGAGCAAAAA 0.880832 -269 GTGGGGGAAGGGGGAGCTAAAACTAATTTTGA 65 251 1 GGAGCTAAAA 0.615095 -50 ATCCCTTTTAGGGCGGCAAAAACACGACCCAT 72 97 1 GGGGCAAAAA 0.966702 -189 GGGCAGGGAAGGCAAAAATCAATGGACA 80 7 1 GGGGCAAAAA 0.966702 -130 GAATGGTGCTGGCAGGCCGAATTTTCCTCTAG 83 54 0 GGGGCCGAAT 0.746701 -59 GCAGGTTCATGGTTGGCAAAATAGTTTAATCT 99 73 0 GGGGCAAAAT 0.956439 -55 ACCGGATATTGTTCGGCAAAAAGTTATATTTG 99 104 0 GTGGCAAAAA 0.764031 -24 TGGGGGGAGAGGATGGCAAAATGGAACAACAT 104 37 0 GGGGCAAAAT 0.956439 -240 AAATGTTGAGCGGCGGCAAAAATCTCTTCTGA 112 278 0 CGGGCAAAAA 0.63115 -23 TTTTGGTTAGGGTGAGCAAAATTAATTTATTT 113 61 1 GGAGCAAAAT 0.848259 -33 GGTTTTCCTTGGTGGGCAGAATTATCCAAAAC 132 89 1 GGGGCAGAAT 0.896602 -38 CTAGGGCATCGGTTGGCAGAAAGTTTTTATTT 135 95 0 GGGGCAGAAA 0.919779 -206 ** ******** Masking position 11 Map Score: 20.9174 Number of sites scoring better than the average of aligned sites = 377 Number in coding regions = 332 Number in noncoding regions = 45 Number of orfs with sites within 600 bp upstream = 54 Fraction of orfs with sites within 600 bp upstream = 0.00867331 Motif number 6 TTGCTCAAACTTTCCTTGGAGAAACTAACC 5 14 0 TTTCCTTGGA 0.652272 -255 CTACGACGATTTTCCCTGGTTTAAAAACGC 10 43 1 TTTCCCTGGT 0.846227 -258 GGTTTTCCTTGCCGATATAGTTC 11 100 0 TTTCCTTGCC 0.940091 -13 TAACAATTCATTGCCTTGGTTATAGGAGAC 13 170 1 TTGCCTTGGT 0.753047 -25 AGTAGTAAATTTTCCTTGCC 27 1 0 TTTCCTTGCC 0.940091 -125 TTAAAGACGATTTCCTCGGTGGGCCCAGTT 35 23 1 TTTCCTCGGT 0.895382 -31 GGGGGCATTATTTGCTTGGCATTTGACCAG 46 214 1 TTTGCTTGGC 0.839691 -72 GCCTAAATAATTTCCTCGCCCAATCAACTC 53 102 1 TTTCCTCGCC 0.91861 -55 TCCATTGTCCTTGCCTTGCCTGCCCCCCCT 64 31 0 TTGCCTTGCC 0.800849 -41 TGGGCTGAAAATTCCTCGGTAAATCCCTAG 70 30 1 ATTCCTCGGT 0.48126 -23 ATTTGTAACTTTTCCTTGACTTCTAATGTC 77 99 1 TTTCCTTGAC 0.63667 -153 TGTAGCTTACTTTGCTTGCCCATTCGGAAT 77 218 1 TTTGCTTGCC 0.712588 -34 TGGATCAGGATTTCCTCGGTGATGCCTCCG 110 236 1 TTTCCTCGGT 0.895382 -65 TCAGTATTCTTTTCCCTGCCCAAGTCCAGA 114 49 1 TTTCCCTGCC 0.878893 -79 ATAATTGGTCTTTCCTCGGCCATGGTCAAG 117 86 0 TTTCCTCGGC 0.95975 -117 TAATACCAAATTGCCTTGGCCCAGAGCTTT 118 66 0 TTGCCTTGGC 0.894689 -70 ATTTTAGCTTTTTGCTTGGTGACCCTTTCC 121 127 1 TTTGCTTGGT 0.652786 -80 TTGGTGACCCTTTCCTCGGTGACCTAAACT 121 142 1 TTTCCTCGGT 0.895382 -65 GCTGTAATTTTTTCCCTGGCTCTATTGTAG 122 106 0 TTTCCCTGGC 0.93877 -195 GGGCTATCTCTTTCCCCGGCCTTAATTAAG 125 102 1 TTTCCCCGGC 0.916857 -199 GGAACGGAGGATTCCTTGGCCACAGGGAGA 129 55 1 ATTCCTTGGC 0.782308 -92 TTTCTCCGGTTTTCCTTGGTGGGCAGAATT 132 82 1 TTTCCTTGGT 0.922476 -45 GCCAGCTCCGTTTCCCTGCCCCAACTAAGC 136 72 0 TTTCCCTGCC 0.878893 -229 ********** Masking position 2 Map Score: 24.3515 Number of sites scoring better than the average of aligned sites = 761 Number in coding regions = 676 Number in noncoding regions = 85 Number of orfs with sites within 600 bp upstream = 94 Fraction of orfs with sites within 600 bp upstream = 0.015098 Motif number 7 TCCAGTGCTTGCCCTGGGTTAACGGTTGCC 9 15 1 GCCCTGGGTT 0.8055 -72 CCAACTGATCCCCTTGGTTTTGCTAGCCCA 10 255 0 CCCTTGGTTT 0.893328 -46 ACAATTCATTGCCTTGGTTATAGGAGACAA 13 172 1 GCCTTGGTTA 0.818062 -23 TGAGGCAAGGGGCATGGGCTATCAAACCTT 21 75 1 GGCATGGGCT 0.521411 -226 ATCTGGCCCTCCCATGGTTTTGGGAAAGGA 21 229 1 CCCATGGTTT 0.867995 -72 GAGGCTATCGGCCTTGGTTTTCCTTCT 30 60 1 GCCTTGGTTT 0.91069 -17 CATTACGTTACCCCTGGTTTTGACGGGATC 36 26 1 CCCCTGGTTT 0.860128 -134 ACAGTGTGCCCCCATGGGTTTTAAAACTTT 53 53 1 CCCATGGGTT 0.784337 -104 CGGCTTGGTTTGTTCACCTTG 58 71 0 GGCTTGGTTT 0.654253 -11 TATAGTTCAGGGCTTGGTCTGTCCTGGTTG 63 156 0 GGCTTGGTCT 0.714994 -127 GGCGACATCGCCCTTGGTCTCACGTTAGGA 72 15 0 CCCTTGGTCT 0.917372 -271 ACTGGGTTTACCCCTGGTCTTCCACCATGA 72 190 0 CCCCTGGTCT 0.89074 -96 CAAATTACAAGCCTTGGTCTGGGGCCCATT 72 230 0 GCCTTGGTCT 0.931123 -56 AGCTTTTCCACCCTTGGTCAAACCGTCATA 96 92 0 CCCTTGGTCA 0.830383 -131 CTTATGCATGGCCATGGTTTACCGGATTGA 102 70 1 GCCATGGTTT 0.888969 -69 CGATTTTTCGGCCATGGGTAAAGCCCTGGG 104 104 1 GCCATGGGTA 0.661324 -173 TCTTTCCTCGGCCATGGTCAAGGCCAACAT 117 78 0 GCCATGGTCA 0.823959 -125 TTTTAGCTCAGCCTTGGGTAGTTAAAATTT 119 228 0 GCCTTGGGTA 0.713215 -28 TTGACCATTGCCCCTGGTCTACAGTGAAAA 120 178 1 CCCCTGGTCT 0.89074 -123 CAATAGCTGACCCATGGTCAAAATCGAACC 123 45 0 CCCATGGTCA 0.793557 -67 ********** Masking position 5 Map Score: 18.1699 Number of sites scoring better than the average of aligned sites = 641 Number in coding regions = 560 Number in noncoding regions = 81 Number of orfs with sites within 600 bp upstream = 90 Fraction of orfs with sites within 600 bp upstream = 0.0144555 Motif number 8 AACAGATTTTGAAGTTAATTTTAAAGTTAAATTTTG 18 117 1 GATTTTAAAG 0.694015 -79 TCAAGCTTAAGAGCCTTTTTAAAAAGTTGAGTTTTG 19 16 1 GATTTAAAAG 0.961205 -239 ACTAGCGTTAGAACTTATTTGAAAAGTTTTATTCTG 19 146 0 GATTTAAAAG 0.961205 -109 TTCCCACAGCGATATTCCCTAAAAAGTTAAGTATCA 32 69 1 GATCTAAAAG 0.877925 -197 TTCCAGGGGTGAGGTTTGCTGAAAAGGAGAATTGTT 36 113 0 GATCTAAAAG 0.877925 -47 TAGGACAAACGAAAATTTTTGAAAAACTTTGGCAAA 38 215 0 GATTTAAAAA 0.583663 -48 GAACGTGTTTGAAAAGTCCCCCTAAT 45 152 0 GATTTAAAAG 0.961205 -16 TCCGGCGTTAGAGTATGTTTGAAAAGTCATGATCCA 76 49 1 GATTTAAAAG 0.961205 -158 TGAGGTCTAGGAACGTCTTTTAAAAGCCCCCTAGCC 76 157 0 GATTTAAAAG 0.961205 -50 GTTTTGGTGTGAAGATTGTTAAATAGAATTCTTATT 92 25 0 GATTTAATAG 0.694015 -111 CGATGTTTAAGAGCGTGTTTGAAAAGTAGGGTGAAG 105 52 0 GATTTAAAAG 0.961205 -113 CAATCCCTTAGAAAGTGTTTGAAAAGTT 106 157 1 GATTTAAAAG 0.961205 -18 GCGATTCAACGATTCTGAATCAAAAGGTATTTATTA 107 64 1 GATATAAAAG 0.72502 -89 TTAACTCTCAGAGCGTGTTTGAAAAGCCCCCCTGGC 116 33 1 GATTTAAAAG 0.961205 -126 GAATCTGTTTGAAAAGTTTTATTTTG 116 143 0 GATTTAAAAG 0.961205 -16 ** * ** ***** Masking position 13 Map Score: 16.2588 Number of sites scoring better than the average of aligned sites = 110 Number in coding regions = 23 Number in noncoding regions = 87 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 9 GGCGATCGCCGGGGGGCAAATGTGTATAAA 2 105 0 GGGGGGCAAA 0.987479 -120 AAAATAACAAGGGCAGCAAAATAC 7 137 1 GGGCAGCAAA 0.938165 -14 ATTGAGTCAGGGGGGACAAAATAGCCAGAG 14 103 0 GGGGGACAAA 0.919699 -198 GGCAAGTTGAGGTCAGCAAAGTGAGGAAAA 25 45 1 GGTCAGCAAA 0.699837 -120 CTATATTTATGAGGAACAAACA 26 3 0 GAGGAACAAA 0.35129 -148 TTTGGAGGGCAAAATCAAGGTAA 33 4 1 GGAGGGCAAA 0.866588 -54 CCTTGAATGTGGTCAGCAAAAAGTAGGGAC 49 34 0 GGTCAGCAAA 0.699837 -267 CACTGCCAAAGGGGAGCAAACCAGGTGCCA 49 141 1 GGGGAGCAAA 0.981541 -160 TAATCCAGTCGGAGGGCAATCAACAAAGC 57 166 1 GGAGGGCAAT 0.591807 -19 GTGTGGGCAAGGTGAACAAACCAAGCCG 58 64 1 GGTGAACAAA 0.54269 -18 GGGGGGCAATGGCCCGAGGT 63 273 0 GGGGGGCAAT 0.946245 -10 GTGGGGGAAGGGGGAGCTAAAACTAATTTT 65 251 1 GGGGAGCTAA 0.852163 -50 ATCCCTTTTAGGGCGGCAAAAACACGACCC 72 97 1 GGGCGGCAAA 0.957451 -189 TTCTTAATTTGGGGGGCTATGGGCTCAAAT 87 186 0 GGGGGGCTAT 0.65614 -78 TTAAGAAGTCCGGGGGCAAACAAAATTTAG 87 209 1 CGGGGGCAAA 0.895338 -55 GGATAGAGGAGCAAAATTTAGAACA 96 208 0 GAGGAGCAAA 0.788534 -15 ATAGGCGATCGGGGATCAAACAGT 111 5 0 GGGGATCAAA 0.701239 -279 AAATGTTGAGCGGCGGCAAAAATCTCTTCT 112 280 0 CGGCGGCAAA 0.709371 -21 TTTTGGTTAGGGTGAGCAAAATTAATTTAT 113 61 1 GGTGAGCAAA 0.890967 -33 AATCGGCATTAGGGGGCAAACGTTAATCGG 124 11 1 AGGGGGCAAA 0.758238 -63 CCGATGGGTAGGGGAACAAATAACCGATTA 124 34 0 GGGGAACAAA 0.885352 -40 TTTCCAAGGAGTGGGGCAAAA 130 144 1 GTGGGGCAAA 0.758238 -11 GGGGAGCAATTGTTAATTTA 131 1 1 GGGGAGCAAT 0.922293 -51 ********** Masking position 9 Map Score: 19.7478 Number of sites scoring better than the average of aligned sites = 986 Number in coding regions = 870 Number in noncoding regions = 116 Number of orfs with sites within 600 bp upstream = 137 Fraction of orfs with sites within 600 bp upstream = 0.0220045 Motif number 10 AACCTTTAGTTTATCGGGGATAGGATGGGGCAAAT 2 168 0 TACGGGAGGA 0.813004 -57 CCAATAAAAATGATTGGCGGTTGGCTCAATGACAT 10 93 0 TATGGGGGGC 0.984485 -208 GTTAGCTGGGGTAATGGCGGTAGGCAAGAAACTTT 20 34 1 GATGGGGGGC 0.889465 -267 TGTCCGGTTCTAAGCGGAGGCTGGATTTGGCATCC 31 103 0 TACGGGGGGA 0.963133 -27 CCCTCCCATCTTATCGGTAGTGGGCCAACCCGGAA 38 43 1 TACGGAGGGC 0.913697 -220 AAGTAAGCGTTAAATGGGAGTCGGAGCGGGTTCAG 40 62 1 TATGGAGGGA 0.787415 -68 GCCGCTTGGATAATTGGTGGGAGGAAAAAGCTAAG 51 33 1 TATGGGGGGA 0.960131 -27 GGGATGGTTTCAGTGGAGTATGGCATCGGACAAG 58 10 1 TATGGGTGGC 0.806926 -72 GGTGGCAATTAACTGGCAATGGGCTGAAAATTCC 70 10 1 TATGGAAGGC 0.618932 -43 CGGTGGAACTTCAGCGGCGGAGGGCA 86 2 0 TACGGGGGGC 0.98568 -58 CCCTATCAACTAATAGGAGGGGGGCTTTAGGGCCA 87 137 1 TAAGGGGGGC 0.899278 -127 CAATTGACCATAACTGGAGGGAGGCTTAACACT 88 9 0 TATGGGGGGC 0.984485 -33 CATCAAAGGTTTACCGGGGGTTAGCTGTGCCACAA 95 251 1 TACGGGGAGC 0.784406 -50 TTTCTTTAGGTTACTGGCGATCGGCTCCCCATTCT 114 80 0 TATGGGAGGC 0.913495 -48 CCATTGACTATGACTGGTGGGGGGACGATCTCCCT 129 78 0 TATGGGGGGA 0.960131 -69 CTAATCAACTTTACCGATGGTTGGACTCTGCCTAC 135 31 1 TACGAGGGGA 0.579984 -270 * * *** ** *** Masking position 3 Map Score: 16.316 Number of sites scoring better than the average of aligned sites = 224 Number in coding regions = 204 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 11 TACAAACTAGGGGAAAACGTTCAGGATGTT 10 165 0 GGGAAAACGT 0.683871 -136 AGTCAATCCAGGGAAGATGGTCAGCCGTGC 13 59 1 GGGAAGATGG 0.658904 -136 GTTAACCCCAGGGAAGATATCCTTTACCAC 24 140 0 GGGAAGATAT 0.658282 -20 TTCTTGACCGGGGAAGATATGAGTGAAGCT 31 13 1 GGGAAGATAT 0.658282 -117 GGCCTTGATGGGGGAAACAGCTTCACTCAT 31 31 0 GGGGAAACAG 0.682534 -99 GGGGGCGTTTGGGACAACTGGAAACGGACG 37 161 0 GGGACAACTG 0.684631 -140 GGGAAAACTTTTGCTAAAAA 38 253 0 GGGAAAACTT 0.76274 -10 GTTTTTCGGTGGGACAACAGGTGTTTTGCC 54 59 1 GGGACAACAG 0.808247 -242 ATTTAAAGACGGGAAAATTGATTTGGCAAA 54 270 0 GGGAAAATTG 0.76274 -31 GGAGAATAATGGGAAGACTGTCCATTGATT 80 27 0 GGGAAGACTG 0.892544 -110 GGGCCAGACTGGGAAAACTGAGCGTGGTAA 80 98 1 GGGAAAACTG 0.902928 -39 TCAGATCGGTGGGAAGACAGGAA 97 118 1 GGGAAGACAG 0.941614 -13 GAAACCTAAAGGGAAAACAGCTTTGATCGT 121 15 1 GGGAAAACAG 0.947535 -192 TTGGGGTTGCGGGAAAACATTATATTGAGA 132 46 0 GGGAAAACAT 0.861915 -81 AGGGGAAAACAGGACAGGGACA 134 3 1 GGGAAAACAG 0.947535 -28 TACCAGCAACGGGAAGATATGGCATAGGAA 135 212 1 GGGAAGATAT 0.658282 -89 CACCAATCTAGGGAAAATAGTCCTGGGTAA 136 28 0 GGGAAAATAG 0.861915 -273 ********** Masking position 7 Map Score: 13.1984 Number of sites scoring better than the average of aligned sites = 247 Number in coding regions = 201 Number in noncoding regions = 46 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084 Motif number 12 CTCGTTACAATCCATCCCATTGGTTTTGATTTTACCCGC 2 32 0 TCCCTTGTGA 0.847105 -193 CAACTGATTAATCTCTCCATTGTTGGGCAACCGTTAACC 9 31 0 ATCCTTGGCA 0.486001 -56 CTGATCCCAACTGATCCCCTTGGTTTTGCTAGCCCAGAC 10 252 0 CCCCTTGTGC 0.824323 -49 TGTTGGTGTTCAACCCTTTGACGGTGAGATTTTAGTA 14 9 1 TCCCTTGGGA 0.836566 -292 ATGACTCTGTTTTTGCCCTTTGTCCTGCCCAGGCAGCGT 17 41 1 TCCCTTGTCC 0.953426 -34 TAATTTATATTTTCTTCCGTTGATTTGCCGGGGCAGGGT 20 215 0 TTCCTTGTCC 0.84216 -86 CGATCGCCAGTTGCGGCCATTGGGTTTGCCCCATCAGCC 24 12 0 TGCCTTGTGC 0.565373 -148 GGAAAACCGCATATTCCCGTTGTGGTTCCTTCTACCCAA 25 69 1 ACCCTTGTCC 0.93016 -96 AATTAGTTAAAATGATCCCTTGAATTACCTTGATTTTGC 33 19 0 ATCCTTGTCC 0.77635 -39 AAAACCAGTTTAAAGCCCATTGGGATCCCCCCTGGGCCA 38 106 0 TCCCTTGTCC 0.953248 -157 TACCAAATAATCTGACCCTTTGGACGTCAGCACAGCCTA 42 46 1 TCCCTTGGCA 0.847931 -57 GCACCTGGTTTGCTCCCCTTTGGCAGTGCCTGCAAGTTA 49 130 0 TCCCTTGGGC 0.945283 -171 GTATAAGAAATTAGACCCATTGATTGACCCGGTTTCCCA 54 12 0 TCCCTTGGCC 0.949545 -289 TTGACCCAGGTGTAATCCCTTGGGGTGCAACACCGCTGG 63 54 0 TTCCTTGTCA 0.611977 -229 AGTAATGGCCACCAATCCATTGTCCTTGCCTTGCCTGCC 64 37 0 ATCCTTGTGC 0.761137 -35 CCGAGGAATTTTCAGCCCATTGCCAGTTAATTGCCACC 70 10 0 TCCCTTGGTA 0.39307 -43 TTGTATGGAATTTACCCAATTGATTGACCTTCG 91 96 1 TCCATTGGCC 0.534666 -23 AATGTCCCCAATGTCCCCATTGAATTCGACCGGTTATAT 95 178 1 ACCCTTGTGA 0.783663 -123 TAGACAAGCTCAAAGCCCATTGCCGTTGCTCGATTTTTC 104 74 1 CCCCTTGTGC 0.824323 -203 GTTCACCAAAACGGTTCCTTTGACGTCGAGCTTTAGCTC 106 108 1 ATCCTTGTGA 0.485631 -67 TATAGCTGTTAACCTCCATTTGTTTGGGCCAAGACTCTG 112 35 0 ACCATTGGGC 0.406952 -266 AATTTTCCTCCCGTTGCCTTTCCTTTCTTTAGG 114 105 0 TCCCTTGTCC 0.953426 -23 TAGAGTCATAATTTTCCCCTTGAATTATCGCTCCCATCA 119 166 1 ACCCTTGTTC 0.607362 -90 TTCTCTTTATTCATATCCATTGATAGAGCTGTAATTTTT 122 124 0 TTCCTTGGGC 0.818271 -177 AAGGACAAAGACAACCCCGTTGCAGTTCCCAGGTAAAAT 133 38 0 ACCCTTGTCC 0.93016 -40 * *** *** * ** Masking position 10 Map Score: 18.8064 Number of sites scoring better than the average of aligned sites = 475 Number in coding regions = 415 Number in noncoding regions = 60 Number of orfs with sites within 600 bp upstream = 74 Fraction of orfs with sites within 600 bp upstream = 0.0118856 Motif number 13 CGGTATTGTTAGAGCTTTAGCCAAAAGATT 7 44 0 AGAGCTTTAG 0.800446 -107 CAGTATTGCCGGAGCTTTAGTGAGGAGATT 19 109 1 GGAGCTTTAG 0.971859 -146 GCTTTAGTGAGGAGATTTAGGGGGCAGAAT 19 122 1 GGAGATTTAG 0.909457 -133 CAATTTATTCGGAGAGTTAAAATAGACTAT 34 11 1 GGAGAGTTAA 0.461775 -51 CTGTCCGATGGGGGCGTTTGGGACAACTGG 37 170 0 GGGGCGTTTG 0.543579 -131 GCGTTAGTAAGGAGATTTAGGGGGCGGAAT 45 70 0 GGAGATTTAG 0.909457 -98 TCGTACCGCCGGAGCGTTAGTAAGGAGATT 45 83 0 GGAGCGTTAG 0.950445 -85 CAAAGGGAAACGAGCGTTAGGGCC 56 16 1 CGAGCGTTAG 0.775063 -14 CAAATTTGCCGGAGCTTTAGTGAAGACATT 76 92 0 GGAGCTTTAG 0.971859 -115 TAATAGGAGGGGGGCTTTAGGGCCAGGGGA 87 147 1 GGGGCTTTAG 0.896088 -117 TTTATCCATGGGAGCTTTAACCCCCCTATT 102 106 0 GGAGCTTTAA 0.841568 -33 CCTTTGACGTCGAGCTTTAGCTCAAAGGAC 106 124 1 CGAGCTTTAG 0.861199 -51 GATTTAATGAGGAGATTTAGGGGACAAAAT 116 119 1 GGAGATTTAG 0.909457 -40 GCCTTGGCCCAGAGCTTTTGAGTTAGATTA 118 54 0 AGAGCTTTTG 0.499379 -82 CAAACAAGGGGGAGATTTAACTGCCACACC 120 94 1 GGAGATTTAA 0.607059 -207 TAAAAATTGGGGAGCTTTTGCCTTATCCTG 120 258 1 GGAGCTTTTG 0.895709 -43 ********** Masking position 7 Map Score: 12.7185 Number of sites scoring better than the average of aligned sites = 208 Number in coding regions = 124 Number in noncoding regions = 84 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 14 TAGTTTATCGGGGATAGGATGGGGCAAATGCGCCGC 2 161 0 GGTAGTGGCA 0.554808 -64 ATCCACCAAAGGATTAAGATGGGAAACAAGTACCTG 5 164 1 GGTAGTGGAA 0.739709 -105 GTTATTTTTTCGCAAAGATTGGTAAAAAGTTCCGAT 7 109 0 CGAAATGGAA 0.658101 -42 TGAGCAATTCGGATAAAGCTGGGGCAATT 9 68 1 GGAAGTGGCA 0.912416 -19 TTTACTGCCTGGGTAACAGTGGCTAAGCACCGTACA 15 53 1 GGAAATGGAA 0.951227 -75 GTGTATATTTGGTTAACATTGGACCATTGTACAGAG 18 26 1 GGAAATGGCA 0.895317 -170 CCATGGTTTTGGGAAAGGATGGTCCATAAGGGTTTC 21 240 1 GGAAGTGGCA 0.912416 -61 ATAACGCATCGGTCAACATCGGAAAAAGT 22 4 0 GGAAACGGAA 0.900197 -297 GACTGGGCTAGGTAAATGACGGATAATGCCTGTCCG 37 193 0 GGAAGCGGAA 0.916573 -108 AGCGGCGGGGTAATAGCGGGTAGTGGTGGGGCA 43 8 1 GGAAACGGAG 0.68779 -119 AAATTACCCGGGTAAATACTGGTCAAATGCCAAGCA 46 226 0 GGAAATGGAA 0.951227 -60 TAATAATCGGGGGAAATTGTGGATAAAGGTTACGGC 55 175 0 GGAATTGGAA 0.674849 -77 GTCTCCTCACGGCTAATGGTGGTCAGGGGGGGTCCA 63 21 1 GGAAGTGGAG 0.852987 -262 TGGCTTTGATGGAGAATAATGGGAAGACTGTCCATT 80 31 0 GGAAATGGAG 0.826493 -106 GCCAGGAATTGGGCCAGACTGGGAAAACTGAGCGTG 80 88 1 GGCAATGGAA 0.662278 -49 TTACCTCCCTGGGCGAAAGTGGAAAAACTTCAGATT 85 11 1 GGGAATGGAA 0.783029 -117 AAGGACATAGGGACAAACGTGGGGAAACAAATGCGT 95 89 1 GGAACTGGAA 0.849875 -212 AAGGCTCCCAGGAGAACGAGGGTTAAAATCAGGGGT 100 72 1 GGAAGGGGAA 0.715834 -133 AGCGGTTGGGGGGAGAGGATGGCAAAATGGAACAAC 104 39 0 GGGAGTGGAA 0.814672 -238 TGAAAAGTAGGGTGAAGAATGGAAAATGGTGAAAAG 105 33 0 GGAAATGGAA 0.951227 -132 ATTAAATCTTCGACAATGCTGGGGCACTTTTATTTT 116 91 0 CGAAGTGGCA 0.506938 -68 CCATGGTCAAGGCCAACATCGGCTAAACCTAGGAAA 117 61 0 GGAAACGGAA 0.900197 -142 GCAAATACATGGAGAAAATTGGAAAAAATAAAAACT 135 70 1 GGAAATGGAA 0.951227 -231 CCCAAGCTTGGGGGAAACTCGGGAAAGGTTTCCTAG 136 202 0 GGAACCGGAA 0.723613 -99 ** ** * *** ** Masking position 6 Map Score: 21.8892 Number of sites scoring better than the average of aligned sites = 399 Number in coding regions = 325 Number in noncoding regions = 74 Number of orfs with sites within 600 bp upstream = 84 Fraction of orfs with sites within 600 bp upstream = 0.0134918 Motif number 15 GATTTTGGGAGGTCAAACCAGCGCTAATTA 13 111 0 GGTCAAACCA 0.751463 -84 TCGATTGAACACTCCACCCCCATAACGCAT 22 31 0 ACTCCACCCC 0.799247 -270 GGGCTGATGGGGCAAACCCAATGGCCGCA 24 10 1 GGGCAAACCC 0.88687 -150 TATCGGTAGTGGGCCAACCCGGAAGAAGAA 38 54 1 GGGCCAACCC 0.940068 -209 AAGGCTTTGAAGTCCTACCC 49 1 0 AGTCCTACCC 0.461426 -300 CCACATTCAAGGTCCAACCAAAAGTATGCT 49 52 1 GGTCCAACCA 0.85814 -249 GGGCCACCCAAGGTTTTTCA 51 1 1 GGGCCACCCA 0.910408 -59 TGATTATAGGACTCCAACCAGGACAGACCA 63 142 1 ACTCCAACCA 0.605575 -141 CATCGAAGCAGGGCCTCCCCAT 77 3 0 GGGCCTCCCC 0.742194 -249 GTTCACGGGTGGTCCAACCATGGTGGTGCT 78 41 0 GGTCCAACCA 0.85814 -32 GGTTCAGTTAGCTCCACCCCAACTA 87 249 1 GCTCCACCCC 0.888458 -15 GCTCCGCCGGAGTCAACCCCCTCCATCCCT 96 36 0 AGTCAACCCC 0.796697 -187 AACTTATAGGACTCAAACCACTACTGTCGA 98 206 1 ACTCAAACCA 0.434198 -46 GAATTGGTTAACGCAACCCCTTTTATTACC 112 242 1 ACGCAACCCC 0.720601 -59 TGCGGGGTATGCGCAACCCATTTTTAGATC 122 277 1 GCGCAACCCA 0.720601 -24 CCAAAGGACTAGGCAACCCCCAAACA 128 7 0 AGGCAACCCC 0.835501 -93 ATGTAGGCAGAGTCCAACCATCGGTAAAGT 135 38 0 AGTCCAACCA 0.751463 -263 GTCGATTTAAGGGCAAACCCGAACTTTGCC 136 169 0 GGGCAAACCC 0.88687 -132 ********** Masking position 4 Map Score: 10.9459 Number of sites scoring better than the average of aligned sites = 594 Number in coding regions = 543 Number in noncoding regions = 51 Number of orfs with sites within 600 bp upstream = 53 Fraction of orfs with sites within 600 bp upstream = 0.00851269