AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00010_synecho_reg_300.orf -o00010_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: slr0944 151 hypothetical 42.4 kD protein slr0944. [SP:Y944_SYNY3] sll0744 21 hypothetical protein. sll1851 102 hypothetical protein. Input sequences: #1 slr1124 51 gpmB; phosphoglycerate mutase. [EC:5.4.2.1] #2 slr1125 117 crtX; zeaxanthin glucosyl transferase. #3 sll1052 106 hypothetical protein. #4 sll1051 156 cpcF; phycocyanin alpha phycocyanobilin lyase cpcF. [SP:CPCF_SYNY3] #5 sll1049 107 hypothetical protein. #6 slr1127 105 hypothetical protein. #7 slr1128 300 hypothetical 35.7 kD protein slr1128. [SP:YB28_SYNY3] #8 slr1097 57 hypothetical protein. #9 slr1098 67 hypothetical protein. #10 slr1099 300 ubiX; 3-octaprenyl-4-hydroxybenzoate carboxy-lyase. [EC:4.1.1.-] #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 sll1275 187 pykF; pyruvate kinase. [EC:2.7.1.40] #16 slr1362 300 glgP; hypothetical protein. #17 slr0884 300 gap1; glyceraldehyde 3-phosphate dehydrogenase 1 (gapdh 1) (GAP-1). #18 sll1757 144 hypothetical protein. [EC:2.7.1.69] #19 ssr3188 159 hypothetical protein. #20 ssl3364 164 hypothetical protein. #21 slr1884 150 trpS; tryptophanyl-tRNA synthetase (tryptophan--tRNA ligase) #22 ssr3189 125 hypothetical protein. #23 slr1885 85 hypothetical protein. #24 slr1886 32 iojap protein. #25 sll1755 76 hypothetical protein. #26 slr1887 129 hemC; porphobilinogen deaminase (PBG) (hydroxymethylbilane synthase) #27 slr1888 265 hypothetical protein. #28 slr2132 57 pta; phosphotransacetylase. [EC:2.3.1.8] #29 sll2015 61 hypothetical protein. #30 sll2014 53 sfsA; sugar fermentation stimulation protein. #31 sll2013 159 hypothetical protein. #32 sll2012 300 rpoD; RNA polymerase sigma factor. #33 slr1349 214 pgi; glucose-6-phosphate isomerase (GPI) (phosphoglucose isomerase) #34 slr1350 156 desA; fatty acid desaturase. [EC:1.14.99.-] [SP:DESA_SYNY3] #35 sll1247 252 hypothetical 52.7 kD protein sll1247. [SP:YC47_SYNY3] #36 slr1351 170 murF; UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D- #37 sll1245 243 cytM; cytochrome c553-like precursor. [SP:C55L_SYNY3] #38 sll1244 121 rplI, rpl9; 50S ribosomal protein L9. [SP:RL9_SYNY3] #39 slr1353 64 hypothetical 31.3 kD protein slr1353. [SP:YD53_SYNY3] #40 sll1242 132 hypothetical protein. #41 slr1956 300 hypothetical protein. #42 slr0942 42 aldehyde reductase. [EC:1.1.1.2] #43 slr0943 121 fda; fructose-bisphosphate aldolase. [EC:4.1.2.13] #44 sll0914 213 hypothetical protein. #45 slr0945 89 hypothetical protein. #46 slr0946 154 arsC; arsenate reductase. #47 slr0947 52 ycf27; regulatory components of sensory transduction system. #48 sll0913 120 hypothetical protein. #49 sll0912 285 ABC transporter. #50 slr0950 62 hypothetical protein. #51 sll0909 216 hypothetical protein. #52 slr0951 83 hypothetical 24.6 kD protein slr0951. [SP:Y951_SYNY3] #53 slr0952 206 fbp; fructose-1,6-bisphosphatase (D-fructose-1,6-bisphosphate 1- #54 slr0953 251 hypothetical protein. #55 ssr1600 72 hypothetical protein. #56 slr0955 79 hypothetical protein. #57 slr0957 136 hypothetical protein. #58 slr0958 30 cysS; cysteinyl-tRNA synthetase (cysteine--tRNA ligase) (cysRS). #59 sll0905 87 maf; MAF. #60 slr0959 112 hypothetical protein. #61 slr0960 26 hypothetical protein. #62 sll1541 127 lignostilbene-alpha,beta-dioxygenase. [EC:1.13.11.42] #63 ssr2723 59 hypothetical protein. #64 slr1622 263 ppa, ipyR; inorganic pyrophosphatase (pyrophosphate phospho- #65 slr1623 41 hypothetical protein. #66 slr1624 60 hypothetical protein. #67 sll1538 116 bgl; beta-glucosidase. [EC:3.2.1.21] #68 slr1627 118 hypothetical 22.0 kD protein slr1627. [SP:YG27_SYNY3] #69 sll1536 135 moeB; molybdopterin biosynthesis MoeB protein. #70 slr1629 124 hypothetical protein. #71 sll1535 99 rfbP; galactosyl-1-phosphate transferase. #72 sll1533 300 pilT; twitching mobility protein. #73 slr0394 268 pgk; phosphoglycerate kinase. [EC:2.7.2.3] [SP:PGK_SYNY3] #74 sll0362 180 alaS; alanyl-tRNA synthetase (alanine--tRNA ligase) (alaRS). #75 sll0361 81 hypothetical protein. #76 sll0360 187 hypothetical protein. #77 sll0359 300 hypothetical protein. #78 slr1934 123 pyruvate dehydrogenase E1 component, alpha subunit. [EC:1.2.4.1] #79 sll1853 30 hypothetical protein. #80 sll1852 224 ndk, ndkR; nucleoside diphosphate kinase (NDK) (ndp kinase). #81 tRNA-Ala-1 21 tRNA-Ala. #82 sll1849 79 hypothetical protein. #83 slr1938 87 hypothetical protein. [SP:YJ38_SYNY3] #84 sll1848 284 hypothetical protein. #85 slr1939 91 hypothetical protein. #86 slr1940 97 hypothetical protein. #87 ssr3300 112 hypothetical protein. #88 sll1845 121 hypothetical protein. #89 slr1942 38 hypothetical protein. #90 ssr3304 52 hypothetical protein. #91 slr1943 235 dpm1; dolichol phosphate mannose synthase. [EC:2.4.1.83] #92 slr1944 94 hypothetical protein. #93 slr1945 64 yibO; 2,3-bisphosphoglycerate-independent phosphoglycerate mutase. #94 ssr3307 236 ycf47; hypothetical protein. #95 slr1946 160 hypothetical protein. #96 sll1841 210 odhB; dihydrolipoamide acetyltransferase component (E2) of pyruvate #97 slr1949 300 hypothetical protein. #98 sll0325 222 hypothetical protein. #99 slr0342 130 petB; cytochrome b6. [EC:1.10.99.1] [SP:CYB6_SYNY3] #100 slr0343 251 petD; cytochrome b6-F complex subunit 4 (17 kD polypeptide). #101 slr0344 127 rfbW; mannosyl transferase. #102 slr0345 204 hypothetical protein. #103 sll0322 45 hypF; transcriptional regulatory protein hypF. [SP:HYPF_SYNY3] #104 sll0321 138 hypothetical protein. #105 sll0320 33 rnd; ribonuclease D. [EC:3.1.26.3] #106 sll0319 276 hypothetical protein. #107 sll0318 164 hypothetical protein. #108 slr0350 174 transposase. #109 slr0351 152 hypothetical protein. #110 sll0317 139 transposase. #111 sll0315 123 transposase. #112 slr0353 300 hypothetical protein. #113 sll0018 283 fda; fructose-bisphosphate aldolase. [EC:4.1.2.13] [SP:ALF_SYNY3] #114 sll0017 300 hemL, gsa; glutamate-1-semialdehyde 2,1-aminomutase (GSA) #115 sll0891 37 citH; 2-ketoacid dehydrogenase (malate dehydrogenase, lactate #116 ssl1690 300 hypothetical protein. #117 sll0593 206 glk; glucokinase. [EC:2.7.1.2] #118 slr0615 300 ABC transporter. #119 sll0587 42 pyk1; pyruvate kinase 1. [EC:2.7.1.40] [SP:KPY1_SYNY3] #120 sll0586 300 hypothetical protein. #121 sll0745 111 pfkA; phosphofructokinase. [EC:2.7.1.11] #122 sll0742 73 hypothetical protein. #123 sll0741 300 nifJ; putative pyruvate-flavodoxin oxidoreductase. [EC:1.-.-.-] #124 slr0752 192 eno; enolase (2-phosphoglycerate dehydratase) (2-phospho-D-glycerate #125 sll0732 300 hypothetical protein. #126 sll0726 300 pgm; phosphoglucomutase. [EC:5.4.2.2] Motif number 1 GGAACAAATGGGGGGATAATTGGCTATGGAC 1 27 1 GGGGGAAATT 0.652121 -25 CCGCTGTGACTGGGAAAAAGGTCAATGTTTA 6 20 1 TGGGAAAAGG 0.425355 -86 GCAGTTAGCTTGGGGGCTGGGCTTTCTTGCT 7 280 0 TGGGGGTGGG 0.879111 -21 CTAGCCTAGGGGGGGAAATTTC 8 2 0 GGGGGAATTT 0.837384 -56 GAAAATAGTTGGGGGACAAAGGCTTTAGTGA 10 186 0 GGGGGAAAAG 0.70159 -115 CGGCAAGGTTGGGGGATTTGGACTTACACTT 10 227 1 GGGGGATTGG 0.941577 -74 TTGGGGGCCAGGGGGGCTTTTGAAAC 16 6 0 GGGGGGTTTT 0.900361 -295 CCCCAAGTTTGGGGGGAAGTTAAGTAAAATT 16 31 1 GGGGGGAGTT 0.868749 -270 CGGCAATACTGGGGGAATTTTACTTAACTTC 16 46 0 GGGGGATTTT 0.825297 -255 AGGGGATTTAGGGGGATAAATACCTAGCCTT 16 104 0 GGGGGAAAAT 0.42103 -197 CTTTAAAAAAGGGGACTTTTGCGACAATTCC 16 133 1 GGGGACTTTG 0.703871 -168 CCCTTGGGAAGGGGGGAATTGTCGCAAAAGT 16 147 0 GGGGGGATTG 0.969555 -154 CCCTTCCCAAGGGGGGCTAGGGGGGATTAAA 16 165 1 GGGGGGTAGG 0.918182 -136 TTCTTGGGGATGGGAGTTTTGCCAGGGTTCC 16 270 1 TGGGAGTTTG 0.771762 -31 GACAATTACCTGGGGGTTGTTACTGCTCTTT 19 88 1 TGGGGGTGTT 0.680671 -72 CAGGGCCGTATGGGGCAAGTTGAGGTCAGCA 20 32 1 TGGGGCAGTT 0.364417 -133 CTAGAACCCCTGGGAATATTGTGC 23 72 1 TGGGAAATTG 0.658348 -14 GTTCTTGACCGGGGAAGATATGAGTGAAGCT 26 12 1 GGGGAAATAT 0.3971 -118 CAAGCTTTATGGGGGATTTTTGCGTTTTTTA 32 11 1 GGGGGATTTT 0.825297 -290 CCTGTCCGATGGGGGCGTTTGGGACAACTGG 32 170 0 GGGGGCTTTG 0.878183 -131 TTTATTCCGATGGGACCAGGGTGTATCTTAC 35 200 1 TGGGACAGGG 0.392075 -53 TAGGTCGGGGGGGGAGCATTGACAAAAATCT 37 51 0 GGGGAGATTG 0.913043 -193 TATCGATATCGGGGGAGTTTTAGTTTGTCAA 37 95 1 GGGGGATTTT 0.825297 -149 AATTTTTACCTGGGGCAATGGACAGAAAGGC 38 53 0 TGGGGCATGG 0.744307 -69 TGGAGGGCCAGGGGGGCTTTTCAAACACGTT 41 188 0 GGGGGGTTTT 0.900361 -113 CTCCAAATTTGGGGGGAAATGAGTGAAAGTC 41 214 1 GGGGGGAATG 0.92059 -87 AATGGAACAATGGGGGCAATGAGATTTCCAT 44 137 0 TGGGGGAATG 0.802745 -77 ATAGCCAAATTGGGGGTTTGGTATCGTTGGT 46 114 1 TGGGGGTTGG 0.915412 -41 TAGCCACTCTGGGGAATTTTGCAGAGCCGAT 51 119 0 GGGGAATTTG 0.834319 -98 CGGCAAATTTGGGGGACTTTGAACACTATTC 53 111 1 GGGGGATTTG 0.938549 -96 CCCCAATTCTGGGGGGAATAGTGTTCAAAGT 53 126 0 GGGGGGATAG 0.925116 -81 CCCCAGAATTGGGGGGCTAGGGGGCTTTTAA 53 143 1 GGGGGGTAGG 0.918182 -64 CTGGCCAAAAGGGGGCGATGGGTT 59 4 0 GGGGGCATGG 0.892384 -84 TATCCCCCTCGGGGAGCATTGCCTTTGTAGT 59 41 1 GGGGAGATTG 0.913043 -47 CCACAGGTTAGGGGGCTAGAGGAAAATTCGG 60 39 1 GGGGGCAGAG 0.671971 -74 TCTCCGCTCCGGGGAACTGGGGGTTAAAATC 62 58 0 GGGGAATGGG 0.781216 -70 GGTCAATGGGGAAGTTTGTTACATTTCT 62 110 0 GGGGAATTTG 0.834319 -18 CTAATAGGAGGGGGGCTTTAGGGCCAGGGGA 64 146 1 GGGGGCTTAG 0.736608 -118 TTCTTAATTTGGGGGGCTATGGGCTCAAATC 64 185 0 GGGGGGTATG 0.914052 -79 TCGAATTCAATGGGGACATTGGGGACATTAT 72 176 0 TGGGGAATTG 0.853894 -125 ACCCCTAAAATGGGAAAATAGCCACAGTGCC 74 127 1 TGGGAAATAG 0.427764 -54 CCCTATGCAAGGGGGACTAAGTGCTTTTTCG 76 28 1 GGGGGATAAG 0.683228 -160 TAGTTAACCGTGGGAGTTTGTTTATGATTGT 78 56 0 TGGGAGTTGT 0.524633 -68 GTTCACCGTTTGGGAGAATGGAATAGTTAAC 78 79 0 TGGGAGATGG 0.795479 -45 CCCCTATCGATGGGGGCTGGTTACCATTCAT 80 127 1 TGGGGGTGGT 0.692239 -98 GTTACTTTTGTGGGGAAATAGACAGCAAAA 83 68 1 TGGGGAATAG 0.69393 -20 ATATTGGGGGTGGGAGAATGGAATTTTTGCC 84 60 0 TGGGAGATGG 0.795479 -225 TCCCTGACTGGGGGAAGTTGGGGGTTGGTTC 85 37 1 GGGGAATTGG 0.841616 -55 TGCTAGGGATTGGGGGAAAGGCTTAATTCCA 86 75 1 TGGGGGAAGG 0.811118 -23 AGGTAAATCATGGGGGTAGTGAGACAATTTT 91 196 1 TGGGGGAGTG 0.882521 -40 TTGGCCCTGGGGGGAGAATTT 94 1 0 GGGGAGATTT 0.764577 -236 CGGCAAGTTTGGGGGACTTTGAACACCATTC 94 175 1 GGGGGATTTG 0.938549 -62 CCCCAATTCTGGGGGGAATGGTGTTCAAAGT 94 190 0 GGGGGGATGG 0.971102 -47 CCCCAGAATTGGGGGGCTAGGGGAGCATTTA 94 207 1 GGGGGGTAGG 0.918182 -30 CGAACGAGTTGGGGGACTTTTCCAAACAAAC 95 30 0 GGGGGATTTT 0.825297 -131 GATTTCTGCCGGGGGGTTAGTTAAGGAGCAC 96 108 0 GGGGGGTAGT 0.776342 -103 TTGCCAAGTTTGGGAGCTTTTCCACCCTTGG 98 105 0 TGGGAGTTTT 0.511212 -118 CTTCAAGCCCTGGGGAAAGGGAAGTCCGGCT 98 170 1 TGGGGAAGGG 0.805604 -53 GTCTAGCGGTTGGGGGGAGAGGATGGCAAAA 106 48 0 TGGGGGAGAG 0.744521 -229 GGGCTCCGTTGGGGAACATTTTCGGGCTTGA 106 217 1 GGGGAAATTT 0.629333 -60 TGATGGCCAATGGGAGCTGGGAAAGTCCAAA 112 99 1 TGGGAGTGGG 0.705682 -202 CTGATCCACTGGGGAATTATGACTTTGATTG 112 213 0 GGGGAATATG 0.647035 -88 GCCTATTGCCGGGGGGAAGAGATATAGAACC 113 29 1 GGGGGGAGAG 0.892492 -255 AAGTCCAGGATGGGGGAAGGTTTTGGGTAAT 113 68 0 TGGGGGAGGT 0.710301 -216 CCCTAGGGGTGGGGGAATTTTTTAGGGTTTT 116 81 0 GGGGGATTTT 0.825297 -220 TGCTCCCCAGGGGGAAAAGTGTGACGCCAAC 120 63 0 GGGGAAAGTG 0.786717 -238 TTTTCCCCCTGGGGAGCAGATAAGAAGAAAC 120 76 1 GGGGAGAGAT 0.458466 -225 AGGTTGGGACGGGGGGCATAGGGTTTTTGCC 120 182 1 GGGGGGATAG 0.925116 -119 CGGTGAACTGTGGGAATTTTTATGCCTAACC 124 15 0 TGGGAATTTT 0.353492 -178 ****** **** Masking position 4 Map Score: 75.2752 Number of sites scoring better than the average of aligned sites = 5114 Number in coding regions = 4398 Number in noncoding regions = 716 Number of orfs with sites within 600 bp upstream = 427 Fraction of orfs with sites within 600 bp upstream = 0.0685834 Motif number 2 TCCTGTCCATAGCCAATTATCCCC 1 38 0 GTCCATAGCC 0.627838 -14 GCTATTCCCAGCCCTTAGCCATGGATCGTA 4 40 0 GCCCTTAGCC 0.664071 -117 ACTAACCCCGGCCCCTAGCCTAGGGGGGGA 8 17 0 GCCCCTAGCC 0.927692 -41 GCCAAACTTTGCCCACAGCCGCCGACACTG 10 104 1 GCCCACAGCC 0.909417 -197 GGGAAAAATTGCCCAAAGCCCAGCCTACCA 15 40 1 GCCCAAAGCC 0.739081 -148 ATTTCCATTTTGCCATTGCCC 18 2 0 TGCCATTGCC 0.846647 -143 GGCCGCAACTGGCGATCGCCAGGATTTCCA 19 33 1 GGCGATCGCC 0.498788 -127 GCCGAAACCCACCGATCGCCGTTTTTTATG 22 69 1 ACCGATCGCC 0.704918 -57 GAAAACCAAGGCCGATAGCCTCTGATGCTA 25 52 0 GCCGATAGCC 0.913975 -25 ATTTGTTGGATGCCACTGCCAACCAACCCC 36 78 1 TGCCACTGCC 0.667522 -93 TTGCCTTTCTGTCCATTGCCCCAGGTAAAA 38 51 1 GTCCATTGCC 0.607846 -71 ATTGCTCCCTGGCGATCGCCAATTTTGGCG 38 81 1 GGCGATCGCC 0.498788 -41 AATTTTTAACTCCCCTTGCCCACGCCCTAG 41 98 0 TCCCCTTGCC 0.765896 -203 CGGTGAAACTTGCCCCTGCCATCCTCTTGT 43 43 0 TGCCCCTGCC 0.482331 -79 GGAATTTTCAGCCCATTGCCAGTTAATTGC 47 15 0 GCCCATTGCC 0.961869 -38 CACCATGATTTGCCCTAGCCAAAATCGAAA 49 168 0 TGCCCTAGCC 0.736353 -118 CAGGCCCAACGGCGATCGCCAGGAATTGGG 57 71 1 GGCGATCGCC 0.498788 -66 AACCCATCGCCCCCTTTTGGC 59 2 1 ACCCATCGCC 0.859502 -86 TGCCCTCCGCCGCTGAAGTTC 63 2 1 GCCCTCCGCC 0.620543 -58 GCTGGATTCTTGCCATTGCCTGGTGACCGA 64 67 0 TGCCATTGCC 0.846647 -197 TCGAGGGTCTTCCCCTGGCCCTAAAGCCCC 64 157 0 TCCCCTGGCC 0.60088 -107 CTCGATTTGAGCCCATAGCCCCCCAAATTA 64 182 1 GCCCATAGCC 0.964837 -82 TGATCATATTGGCGATCGCCATTTTCCTGG 68 43 1 GGCGATCGCC 0.498788 -76 GGTTCGTTGCGGCCATAGTCCCGACGATGA 69 97 1 GGCCATAGTC 0.593484 -39 AACTGAGGACTCCCACCGCCA 71 2 0 TCCCACCGCC 0.863897 -98 AACGAAAATTGGCGATCGCCAGTGGGATGG 76 164 1 GGCGATCGCC 0.498788 -24 TGAAAGTGGTGCCCATTGTCAAGCTTTTTA 80 33 1 GCCCATTGTC 0.631333 -192 GTTCTGGAACAGCGATCGCCAGGGTGGTTT 80 96 1 AGCGATCGCC 0.606737 -129 GCCAATATTAGCCCCTCGTCTTACTTAACC 82 60 1 GCCCCTCGTC 0.663379 -20 CTCCCCCCAGGGCCAATGCCTGACTCTCCA 94 16 1 GGCCAATGCC 0.668564 -221 TTTTAAATGCTCCCCTAGCCCCCCAATTCT 94 211 0 TCCCCTAGCC 0.780743 -26 TTTTCCTTTGGGCGATCGCCTAGATGGTCG 96 74 1 GGCGATCGCC 0.498788 -137 GTTTCCATCTTGCCAATGCCTTCAATTGAT 97 137 1 TGCCAATGCC 0.361626 -164 AGATAAAGGGGGCGATCGCCGATCCTTGGG 102 31 1 GGCGATCGCC 0.498788 -174 CAAGCTCAAAGCCCATTGCCGTTGCTCGAT 106 78 1 GCCCATTGCC 0.961869 -199 CCAGGGCTTTACCCATGGCCGAAAAATCGA 106 103 0 ACCCATGGCC 0.531703 -174 TTCAATAAATTCCCATAGCCAGTCTTTACA 114 198 1 TCCCATAGCC 0.8847 -103 TTCCCCAGGCGGCGATCGCCAGAAAAATAT 116 32 1 GGCGATCGCC 0.498788 -269 CCCCTAGGGTGCCCACGGCCCAGTCAGGGT 116 103 1 GCCCACGGCC 0.808994 -198 GGCGATCGCCAGGATCATTA 118 1 1 GGCGATCGCC 0.498788 -300 AAAACCCTATGCCCCCCGTCCCAACCTGTA 120 179 0 GCCCCCCGTC 0.417094 -122 GTTTTAAAGTTCCCCTAGCCCAAGGGTTGG 124 168 0 TCCCCTAGCC 0.780743 -25 GCCATACACGGCCCAGCGCCAAGATGGGGA 126 167 0 GCCCAGCGCC 0.784789 -134 ********** Masking position 3 Map Score: 58.268 Number of sites scoring better than the average of aligned sites = 7362 Number in coding regions = 6677 Number in noncoding regions = 685 Number of orfs with sites within 600 bp upstream = 458 Fraction of orfs with sites within 600 bp upstream = 0.0735625 Motif number 3 CTTTACATATCTTTACAAACCAATCGACGTA 9 47 1 CTTTCAAACC 0.947707 -21 TAGCCTTGCACTTTTCAAACACTTTCTAAAG 16 80 0 CTTTCAAACA 0.984236 -221 CAAAACTCAACTTTCCAAACATGCTCTTAGC 16 200 1 CTTTCAAACA 0.984236 -101 CAAAATAAAACTTTTCAAACAAATTCTTGGG 16 247 1 CTTTCAAACA 0.984236 -54 GCCAGGGGGGCTTTTCAAACACGTTCTTAAA 41 182 0 CTTTCAAACA 0.984236 -119 CGGAATAAAACTTTCCAAACAGGCTC 41 285 1 CTTTCAAACA 0.984236 -16 TGGATCATGACTTTTCAAACATACTCTAACG 53 54 0 CTTTCAAACA 0.984236 -153 CAATTCTTCCCTTTGTAAACCTGGAGGCAAT 89 17 0 CTTTTAAACC 0.751003 -22 AATTTTTAGACTTTTTAAACAGACT 91 221 1 CTTTTAAACA 0.91221 -15 TTCTTTGCAAACTAAGTCAGTTT 95 3 1 CTTTCAAACT 0.869184 -158 GTTGGGGGACTTTTCCAAACAAACTGACTTA 95 23 0 TTTTCAAACA 0.779385 -138 AAAAAAATTCCTTTGCAAACAAAATAAGCTG 100 64 1 CTTTCAAACA 0.984236 -188 CTTCACCCTACTTTTCAAACACGCTCTTAAA 107 52 1 CTTTCAAACA 0.984236 -113 AACTTTTCAAACACTTTCTAAGG 108 162 0 CTTTCAAACA 0.984236 -13 CAAATTCAAACTTTGTAAACAGGCCGGAAGC 126 133 0 CTTTTAAACA 0.912211 -168 **** ****** Masking position 7 Map Score: 26.9099 Number of sites scoring better than the average of aligned sites = 122 Number in coding regions = 16 Number in noncoding regions = 106 Number of orfs with sites within 600 bp upstream = 69 Fraction of orfs with sites within 600 bp upstream = 0.0110826 Motif number 4 TGATCGCTCGGTGCGCCATGGTTGGGATTAG 10 158 0 GTCGCCATGG 0.715192 -143 TGGCAAAACCAACCGCCAGGGACACTCGCCT 14 163 1 AACGCCAGGG 0.705881 -138 CCCCAAACTTGGGGGCCAGGGGGGCTTTTGA 16 14 0 GGGGCCAGGG 0.964403 -287 CCTTCCCAAGGGGGGCTAGGGGGGATTAAAC 16 166 1 GGGGCTAGGG 0.732558 -135 CGCAACTGGCGATCGCCAGGATTTCCAAAAC 19 36 1 GACGCCAGGA 0.944618 -124 GTTAACCCCAGGGAAGATATCCT 19 147 0 TACCCCAGGG 0.923003 -13 CCCCGGTGGTGGCCCCCAGGGCCGTATGGGG 20 16 1 GGCCCCAGGG 0.978054 -149 CCCGTCATCGGGGCACCAGGAGCCGTGTTAG 21 128 0 GGCACCAGGA 0.572122 -23 AGTGTAGCTAGAACCCCTGGGAATATTGTGC 23 65 1 GACCCCTGGG 0.673293 -21 TAAACCCAGGGAACGCCATGTTAGTAATATT 32 236 0 GACGCCATGT 0.229339 -65 AACTTTGACTGATCCCCAGGGAGAGAAATAC 34 91 0 GACCCCAGGG 0.982795 -66 GATTGGTCAAGGTGGCCAGAACCACCACTCA 37 212 0 GGGGCCAGAA 0.257901 -32 GCGGAGGGCCGTCCCCCATGGTAACAGAGTA 38 17 1 GTCCCCATGG 0.638321 -105 CAAAATTGGCGATCGCCAGGGAGCAATTTTT 38 77 0 GACGCCAGGG 0.987846 -45 CCCAAATTTGGAGGGCCAGGGGGGCTTTTCA 41 196 0 GAGGCCAGGG 0.972009 -105 AATCATGGTGGAAGACCAGGGGTAAACCCAG 49 188 1 GAGACCAGGG 0.777246 -98 CCCAGAATTGGGGGGCTAGGGGGCTTTTAAA 53 144 1 GGGGCTAGGG 0.732558 -63 GCCCAACGGCGATCGCCAGGAATTGGGCCAG 57 74 1 GACGCCAGGA 0.944618 -63 TTTTTCCACTTTCGCCCAGGGAGGTAA 62 7 0 TTGCCCAGGG 0.560682 -121 AGGGGGGCTTTAGGGCCAGGGGAAGACCCTC 64 154 1 TAGGCCAGGG 0.879337 -110 GAAAATTGGCGATCGCCAGTGGGATGGGCCG 76 167 1 GACGCCAGTG 0.662859 -21 AAAGATTTTTGGCCGCCATGGAGCAATGATG 77 176 0 GGCGCCATGG 0.887165 -125 CGCTGTTCCAGAACCCTAGGGGAAAAGAAGA 80 79 0 GACCCTAGGG 0.852402 -146 CTGGAACAGCGATCGCCAGGGTGGTTTTCCC 80 99 1 GACGCCAGGG 0.987846 -126 CTATGGCTCCTTTGCCCAGGGGAGTTTCTCA 87 75 1 TTGCCCAGGG 0.560682 -38 ATTGTCTCACTACCCCCATGATTTACCTTGG 91 193 0 TACCCCATGA 0.23777 -43 CCCAGAATTGGGGGGCTAGGGGAGCATTTAA 94 208 1 GGGGCTAGGG 0.732558 -29 CGGACTTCCCTTTCCCCAGGGCTTGAAGCTG 98 167 0 TTCCCCAGGG 0.749188 -56 CTACCAAACGGGCCCCCAGGGCTTTACCCAT 106 117 0 GGCCCCAGGG 0.978054 -160 TTCCCCAACGGAGCCCCAGAGAGACAGTCTG 106 202 0 GACCCCAGAG 0.777357 -75 CCCAGGCGGCGATCGCCAGAAAAATATTCCT 116 35 1 GACGCCAGAA 0.510417 -266 TTTAGGGTTTTGACGCTAGGGATAGTAGGAA 116 61 0 TGCGCTAGGG 0.573633 -240 TAGCGGATTTTATCCCCAGGAGGTTAAGGTT 116 149 0 TACCCCAGGA 0.715564 -152 GGCGATCGCCAGGATCATTAGAAT 118 4 1 GACGCCAGGA 0.944618 -297 CTTCTTATCTGCTCCCCAGGGGGAAAAGTGT 120 72 0 GCCCCCAGGG 0.838824 -229 GACCCAGAGAGAACGCCATGACCAAACACCA 123 25 1 GACGCCATGA 0.678963 -276 ATTTTTTCTCTATGACCAGGGATTTGGAGAC 126 214 1 TAGACCAGGG 0.422719 -87 ** ******** Masking position 6 Map Score: 43.6228 Number of sites scoring better than the average of aligned sites = 2540 Number in coding regions = 2350 Number in noncoding regions = 190 Number of orfs with sites within 600 bp upstream = 202 Fraction of orfs with sites within 600 bp upstream = 0.0324446 Motif number 5 AGCAAACAAGAGTTAGGGAACAAATGGGGGGATAATT 1 8 1 AAGTGGAAGG 0.731246 -44 ATTTTTTGACAATGCCCGGGATATTTTGGGGGGACTCCAA 7 187 0 AGCCGGTAGG 0.911458 -114 TATTTTCACTAAAGCTCCGGCAAGGTTGGGGGATTTGGAC 10 210 1 AGCTGGAAGG 0.973341 -91 CAAAGTTCAGAGCGGTGTGGATATTTATGGAATTGGGGAA 12 69 0 AGGTGGTAGG 0.746081 -81 GTAACAATTCATTGCCTTGGTTATAGGAGACAATTC 13 169 1 AGCCGGTAGA 0.509393 -26 AACACTTTCTAAAGCTCCGGCAATACTGGGGGAATTTTAC 16 54 0 AGCTGGAAGG 0.973341 -247 CAAACATGCTCTTAGCGAGGAAATTTAGGGAGCAAAATAA 16 215 1 CAGCGGAAGG 0.746643 -86 GGATTACTTTATTACCCCGGTAAATCTAGACTAACTGAGA 17 202 1 AACCGGAAGA 0.490179 -99 GTTAAGTTATCAAGCCCAGGAAAATCAGAGCAGTCATCGT 17 260 0 CGCCGGAAAG 0.841781 -41 TTTAGGGAATATCGCTGTGGGAAAAATCGAGATCATTTTC 27 52 0 AGCTGGAAGA 0.786442 -214 TCGAGACGGACTGGGCTAGGTAAATGACGGATAATGCCTG 32 197 0 CGGCGGAAGG 0.92459 -104 GTATTAATTCCTAGGCACGGCAAACCTTGGCCGCTTTATA 33 70 0 CGGCGGAAGG 0.92459 -145 TGCTCCCCCCCCGACCTAGGAAAATTCTGGGTATCGATAT 37 64 1 CACCGGAAGG 0.904807 -180 AATTGATCGACGGGCTTGGGAAACTGTCGGAGAAGTTGAG 41 124 1 CGCTGGAAGG 0.973266 -177 TCGACCCACTAAAGCTCCGGCAATACTGGAGGACTTTCAC 41 236 0 AGCTGGAAGA 0.786442 -65 ATTTTCGATTTTGGCTAGGGCAAATCATGGTGGAAGACCA 49 166 1 TGCTGGAAGG 0.723158 -120 ATCATGGTGGAAGACCAGGGGTAAACCCAGTTTTTCGATA 49 189 1 AACCGGTAAG 0.249749 -97 AGGCAAATTTCGGGGTTCGGAAAGATCAAGCTAGGATGGA 52 50 0 CGGTGGAAAG 0.602955 -34 TGTCTTCACTAAAGCTCCGGCAAATTTGGGGGACTTTGAA 53 94 1 AGCTGGAAGG 0.973341 -113 AGGCTCAAGCAATACTCTGGGAAACCATAGCGCTGGTAAT 66 25 1 AACTGGAAAG 0.541426 -36 ACTAATTTCCCTGACTGGGGGAAGTTGGGGGTTGGTTCCG 85 30 1 CACTGGAAGG 0.89744 -62 CCAAGATTGGCTCGCTTGGGTTAGGCAGGGCATTATTGAC 86 14 0 CGCTGGTAGG 0.904302 -84 ATAACGAAGGAAAGCTTGGGAAAAAAAAGGCTGGAGTCTA 87 28 1 AGCTGGAAGG 0.973341 -85 AATTTTTCTCCTTTCCAAGGTAAATCATGGGGGTAGTGAG 91 179 1 CTCCGGAAGG 0.599741 -57 TCTCCTCACTAAAGCTCCGGCAAGTTTGGGGGACTTTGAA 94 158 1 AGCTGGAAGG 0.973341 -79 GGTGTAAAGACTGGCTATGGGAATTTATTGAACCTGTGCC 114 190 0 CGCTGGAATG 0.547174 -111 AACTGGGGGAATCACTGGGGAAAGTCTGGGGAATGGCCTG 116 179 1 AACTGGAAGG 0.897705 -122 ATTCTTAATTAAGGCCGGGGAAAGAGATAGCCCAAAAAAC 123 95 0 AGCCGGAAAG 0.842164 -206 CCCACAGTTCACCGGTAGGGTAACCATGGGAAAAATTAAG 124 32 1 AGGTGGAAGG 0.918831 -161 TGGGCCGTGTATGGCCTGGGGTAACTTTGGCAATTTTTTC 126 182 1 AGCCGGTAGG 0.911458 -119 * *** ** ** ** Masking position 13 Map Score: 37.748 Number of sites scoring better than the average of aligned sites = 903 Number in coding regions = 787 Number in noncoding regions = 116 Number of orfs with sites within 600 bp upstream = 116 Fraction of orfs with sites within 600 bp upstream = 0.0186315 Motif number 6 TAAACATTGACCTTTTTCCCAGTCACAGCG 6 21 0 CCTTTTTCCC 0.68991 -85 GGCTTTGGGCAATTTTTCCCAATAGTCTGC 15 30 0 AATTTTTCCC 0.830219 -158 GAATTAGTGGAATTTTTACCATGACCGCCG 17 64 1 AATTTTTACC 0.752908 -237 AAATGATCTCGATTTTTCCCACAGCGATAT 27 54 1 GATTTTTCCC 0.878824 -212 GAATTACCTTGATTTTGCCCTCCAAA 28 7 0 GATTTTGCCC 0.833852 -51 GCCAGGGAGCAATTTTTACCTGGGGCAATG 38 64 0 AATTTTTACC 0.752908 -58 TTTGAGGGACACTTTTTGCCCACAAATTTG 41 37 0 ACTTTTTGCC 0.880232 -264 TAGGGAAATGGCTTTTTGCCACGAAACTTC 46 79 0 GCTTTTTGCC 0.915968 -76 ACTGTCCATTGATTTTTGCCTTCCCTGCCC 57 11 0 GATTTTTGCC 0.930092 -126 GAAAGCGTTACCTTTTTACCACGCTCAGTT 57 113 0 CCTTTTTACC 0.580957 -24 CCCATCGCCCCCTTTTGGCCAGGCCGGTTA 59 13 1 CCTTTTGGCC 0.738523 -75 AATGTGGTCTAATTTTGGCCACATCAAGGA 70 57 0 AATTTTGGCC 0.861259 -68 AAAACCAACGAATTTTTGCCCAGATTAGCG 77 101 0 AATTTTTGCC 0.899705 -200 TTAGCCGAGGAATTTTTCCCTCTGAAAAAA 77 238 0 AATTTTTCCC 0.830219 -63 CCATTGTCAAGCTTTTTACCAAAATTATCC 80 45 1 GCTTTTTACC 0.78735 -180 GGGAGAATGGAATTTTTGCCTCCATACTAG 84 50 0 AATTTTTGCC 0.899705 -235 GAGTAGTTCTCATTTTTGCCAAGTTTGGGA 98 121 0 CATTTTTGCC 0.832825 -102 ATGCAATCAGGATTTTTACCAGCAAAAAAA 100 41 1 GATTTTTACC 0.818815 -211 TGATATCTTGAATTTTGGCCAATCGTTCTG 100 116 1 AATTTTGGCC 0.861259 -136 TGCAAATATAACTTTTTGCCGAACAATATC 101 102 1 ACTTTTTGCC 0.880232 -26 GTCCCCTTGAGCTTTTGGCCTGTGCCCTTC 108 30 0 GCTTTTGGCC 0.882946 -145 AATCAGAAGAGATTTTTGCCGCCGCTCAAC 114 276 1 GATTTTTGCC 0.930092 -25 GGTTTTGCCCTCGTTGGGAG 116 291 0 GGTTTTGCCC 0.615612 -10 GGGGGCATAGGGTTTTTGCCGGTGGGGAGT 120 193 1 GGTTTTTGCC 0.809366 -108 AGTTTTGACCAACCTTTATC 120 291 0 AGTTTTGACC 0.402229 -10 ATTGGGGTTCGATTTTGACCATGGGTCAGC 121 40 1 GATTTTGACC 0.757713 -72 TTCAAGACTTAATTTTTCCCATGGTTACCC 124 49 0 AATTTTTCCC 0.830219 -144 ********** Masking position 5 Map Score: 27.1161 Number of sites scoring better than the average of aligned sites = 692 Number in coding regions = 598 Number in noncoding regions = 94 Number of orfs with sites within 600 bp upstream = 110 Fraction of orfs with sites within 600 bp upstream = 0.0176678 Motif number 7 CTATTTTCACTAAAGCTCCGGCAAGGTTGGG 10 209 1 TAAAGCCCGG 0.975641 -92 AAACACTTTCTAAAGCTCCGGCAATACTGGG 16 64 0 TAAAGCCCGG 0.975641 -237 GTTAACCCCAGGGAAGATATCC 19 148 0 TTAACCCAGG 0.725415 -12 TGGTAAAACATAAATCCCCGGGACATTTTAT 39 15 0 TAAATCCCGG 0.838586 -50 ATCGACCCACTAAAGCTCCGGCAATACTGGA 41 246 0 TAAAGCCCGG 0.975641 -55 GCTCCATTGTTTAACCACCTGTTTAGGCATC 49 132 0 TTAACCCCTG 0.833658 -154 ATGTCTTCACTAAAGCTCCGGCAAATTTGGG 53 93 1 TAAAGCCCGG 0.975641 -114 CGTATAGATTTTAACCCCCAGTTCCCCGGAG 62 52 1 TTAACCCCAG 0.739729 -76 TGTGGCACAGCTAACCCCCGGTAAACCTTTG 72 254 0 CTAACCCCGG 0.855516 -47 TAACTCCGGTTTAACCTCCGGTCAGAAAGGG 74 86 1 TTAACCCCGG 0.979031 -95 ATCTCCTCACTAAAGCTCCGGCAAGTTTGGG 94 157 1 TAAAGCCCGG 0.975641 -80 GCTCCTTAACTAACCCCCCGGCAGAAATCTG 96 110 1 TAACCCCCGG 0.88292 -101 CGGCCATGGGTAAAGCCCTGGGGGCCCGTTT 106 112 1 TAAAGCCTGG 0.693843 -165 CCTAAAAACCTTAACCTCCTGGGGATAAAAT 116 143 1 TTAACCCCTG 0.833658 -158 TAAACCGCCGGATTAGGGATT 121 1 1 TAAACCCCGG 0.983461 -111 TAGCGCTCCATTAACCCCCGGCAGTATCCCC 123 199 1 TTAACCCCGG 0.979031 -102 ****** **** Masking position 3 Map Score: 21.288 Number of sites scoring better than the average of aligned sites = 103 Number in coding regions = 63 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 8 CTGAGCTATTCCCAGCCCTTAGCCATGGATC 4 43 0 CCAGCCCTTA 0.193302 -114 TTGGTTTGACCCCAACCCCTGCACAAATACC 4 89 0 CCAACCCCTG 0.698316 -68 GCAAGAAAGCCCAGCCCCCAAGCTAACTGC 7 281 1 CCGCCCCCAA 0.748297 -20 GAAATTTCCCCCCCTAGGCTAGGGGCC 8 7 1 TCCCCCCTAG 0.422054 -51 CGGACTAACCCCGGCCCCTAGCCTAGGGGGG 8 19 0 CCGCCCCTAG 0.872916 -39 AGATGGTCAGCCGTGCCCCAAGAATATACAA 13 73 1 CCTGCCCCAA 0.48152 -122 TATGGCAAAACCAACCGCCAGGGACACTCGC 14 161 1 CCACCGCCAG 0.690687 -140 GACAATTCCCCCCTTCCCAAGGGGGGCTAGG 16 155 1 CCTTCCCAAG 0.474308 -146 GGCAAAACTCCCATCCCCAAGAATTTGTTTG 16 262 0 CCTCCCCAAG 0.860175 -39 AAGAGCAGTAACAACCCCCAGGTAATTGTCA 19 87 0 ACACCCCCAG 0.450144 -73 TTTCAGCAAACCTCACCCCTGGAATAAAAGG 31 125 1 CCCACCCCTG 0.668908 -35 TTGCGGAGGGCCGTCCCCCATGGTAACAGAG 38 15 1 CCTCCCCCAT 0.59141 -107 CTCCCCTTGCCCACGCCCTAGTTTTACTGAA 41 88 0 CCCGCCCTAG 0.717129 -213 AAGTTTTATTCCGCCCCCTAAATCGACCCAC 41 267 0 CCCCCCCTAA 0.815628 -34 AAGAATCCAGCCAAACCCTTGTTTGAAGAAG 64 86 1 CCAACCCTTG 0.57294 -178 AGTGTTAAGCCTCCCTCCAGTTATGGTCAA 65 10 1 CCCCCTCCAG 0.416749 -32 GGGTCAGGAACCAACCCCTAAAATGGGAAAA 74 114 1 CCACCCCTAA 0.835215 -67 TATTTTTCCTCCTACCCCCTGTGC 78 4 0 CCACCCCCTG 0.919771 -120 ATTCCATTCTCCCACCCCCAATATGAGTTAT 84 67 1 CCACCCCCAA 0.897384 -218 TAGAACGGAACCAACCCCCAACTTCCCCCAG 85 44 0 CCACCCCCAA 0.897384 -48 TAATGCCCTGCCTAACCCAAGCGAGCCAATC 86 19 1 CCAACCCAAG 0.627057 -79 AGCCTTTCCCCCAATCCCTAGCAATTTTCCC 86 67 0 CCATCCCTAG 0.74769 -31 TAGCGCTTTTCCATCCCCCTAC 93 53 1 CCTCCCCCTA 0.679949 -12 AAATTCTCCCCCCAGGGCCAATGCC 94 5 1 TCCCCCCCAG 0.557516 -232 AGGCTATGACCCGCCCCCTAAATCTCCTCAC 94 136 1 CCCCCCCTAA 0.815628 -101 GCCGGACTTCCCTTTCCCCAGGGCTTGAAGC 98 169 0 CCTTCCCCAG 0.790667 -54 CTACTGTCGACCTTACCCAAGAGTGGAAAAT 100 226 1 CCTACCCAAG 0.553987 -26 TCCTCTCCCCCCAACCGCTAGACAAGCTCAA 106 56 1 CCACCGCTAG 0.56412 -221 CCTAAGCATTCCGTCCCCTTGAGCTTTTGGC 108 41 0 CCTCCCCTTG 0.830755 -134 TTACCCAAAACCTTCCCCCATCCTGGACTTG 113 69 1 CCTCCCCCAT 0.59141 -215 GTATTTTTACCCCCACCCTAGTCTATGGCTG 113 107 0 CCCACCCTAG 0.780732 -177 TCTTTTTTGTCCTGCCCCAAGGAATTTGTGC 113 158 0 CCGCCCCAAG 0.73897 -126 AAAAAATTCCCCCACCCCTAGGGTGCCCACG 116 89 1 CCACCCCTAG 0.952841 -212 TCTCCCCAGGCCATTCCCCAGACTTTCCCCA 116 194 0 CCTTCCCCAG 0.790667 -107 CAATCTATCGCCAATCCCTAATCCGGCGGTT 121 13 0 CCATCCCTAA 0.426401 -99 CCGAAGTAACCCCAACCCTTGGGCTAGGGGA 124 157 1 CCAACCCTTG 0.57294 -36 TCAATCATCTCCTTCCCCATGCTTCTTCGTT 125 280 1 CCTCCCCATG 0.66921 -21 ** ******** Masking position 6 Map Score: 33.9406 Number of sites scoring better than the average of aligned sites = 1478 Number in coding regions = 1312 Number in noncoding regions = 166 Number of orfs with sites within 600 bp upstream = 186 Fraction of orfs with sites within 600 bp upstream = 0.0298747 Motif number 9 CCTTAACATTGGTTTGACCCCAACCCCTGC 4 98 0 GGTTTGACCC 0.751374 -59 CTGAGGGGTTGGAGTCCCCCCAAAATATCC 7 179 1 GGAGTCCCCC 0.666971 -122 GGGCAATTATTGACTTCCCCAATTCCATAA 12 55 1 TGACTTCCCC 0.396556 -95 AATAGTCGATGGTTTCCTCCGTCCATATTC 14 61 1 GGTTTCCTCC 0.581763 -240 CCATAGGGTTTGTCCCTCACTTGGGC 17 7 1 GGTTTGTCCC 0.829008 -294 GCGGCCATTGGGTTTGCCCCATCAGCCC 19 9 0 GGTTTGCCCC 0.964409 -151 TGAGTGAAGCTGTTTCCCCCATCAAGGCCA 26 32 1 TGTTTCCCCC 0.942507 -98 AATTTTGGCGGGATTCCCCCTAAAGGTTAA 38 101 1 GGATTCCCCC 0.954442 -21 ATGTCAACTCGGTCTGTCCCCGGTCTACTG 44 64 1 GGTCTGTCCC 0.669025 -150 TGTTTTTCCCACTGAAACTA 45 80 0 TGTTTTTCCC 0.370048 -10 CGAAAAACTGGGTTTACCCCTGGTCTTCCA 49 196 0 GGTTTACCCC 0.726496 -90 TCAAATCGAGGGTCTTCCCCTGGCCCTAAA 64 162 0 GGTCTTCCCC 0.784669 -102 CTCTAAATTTTGTTTGCCCCCGGACTTCTT 64 211 0 TGTTTGCCCC 0.910548 -53 AAGCTGATTCACCCAGGCTCAAGC 66 5 1 TGATTCACCC 0.467443 -56 TGTTTCCCCACGTTTGTCCCTATGTCCTTA 72 88 0 CGTTTGTCCC 0.411413 -213 ACGACGCATTTGTTTCCCCACGTTTGTCCC 72 98 0 TGTTTCCCCA 0.661198 -203 GGCAGATTTTGGACTCCCCATGGCTTAGTT 74 55 1 GGACTCCCCA 0.509768 -126 TTTTGTTTCAGGTCTCCCCCCCGGCGAAAA 76 53 0 GGTCTCCCCC 0.947903 -135 GAAACAAAAAGGTTTCTCCCTTTTTTTATC 76 74 1 GGTTTCTCCC 0.886467 -114 TTTAAAGCAATGATTCCCCCTGAGATAAAT 77 39 1 TGATTCCCCC 0.887261 -262 TCGCCAGGGTGGTTTTCCCCTATCGATGGG 80 111 1 GGTTTTCCCC 0.897331 -114 GTACTATGACGGTTTGACCAAGGGTGGAAA 98 88 1 GGTTTGACCA 0.264582 -135 ATTTTTTCTGGGATTCCCCAGGCGGCGATC 116 19 1 GGATTCCCCA 0.713799 -282 CTTTCCCCAGTGATTCCCCCAGTTAGCGGA 116 173 0 TGATTCCCCC 0.887261 -128 AACCGATTAACGTTTGCCCCCTAATGCCGA 122 13 0 CGTTTGCCCC 0.796199 -61 GCCCCAGAATTGGTTCCCCCGCTTTCTGTT 125 149 1 TGGTTCCCCC 0.647734 -152 ********** Masking position 5 Map Score: 17.2467 Number of sites scoring better than the average of aligned sites = 1188 Number in coding regions = 1052 Number in noncoding regions = 136 Number of orfs with sites within 600 bp upstream = 140 Fraction of orfs with sites within 600 bp upstream = 0.0224863 Motif number 10 TTTTCACTAAAGCTCCGGCAAGGTTGGGGG 10 212 1 AGCTCCGGCA 0.984972 -89 CACTTTCTAAAGCTCCGGCAATACTGGGGG 16 62 0 AGCTCCGGCA 0.984972 -239 GACCCACTAAAGCTCCGGCAATACTGGAGG 41 244 0 AGCTCCGGCA 0.984972 -57 TCTTCACTAAAGCTCCGGCAAATTTGGGGG 53 96 1 AGCTCCGGCA 0.984972 -111 TAGTCTTTTTGGCGGCGGCACTACCATGGT 69 59 0 GGCGGCGGCA 0.866822 -77 CCTCCATACTAGTTCCGGCTCCTCTGTTCT 84 32 0 AGTTCCGGCT 0.670514 -253 TCCTCACTAAAGCTCCGGCAAGTTTGGGGG 94 160 1 AGCTCCGGCA 0.984972 -77 AAAAATGCACAGTGGCGGCAAACTCAGCCC 97 237 1 AGTGGCGGCA 0.845854 -64 TAAATGTTGAGCGGCGGCAAAAATCTCTT 114 282 0 AGCGGCGGCA 0.965164 -19 ********** Masking position 6 Map Score: 11.747 Number of sites scoring better than the average of aligned sites = 37 Number in coding regions = 16 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 11 ACGGCTAATCCCAACCATGGCGCACCGAGCG 10 154 1 CCAACCTGGC 0.695009 -147 AAAAACCACCCCAAACAAGGCAAAGTTCAGA 12 98 0 CCAAACAGGC 0.531161 -52 CCCCTGGCCCCCAAGTTTGGGGGGAAGTTAA 16 23 1 CCAAGTTGGG 0.916372 -278 GGCCACTAGCCCAAGTGAGGGACAAACCCTA 17 14 0 CCAAGTAGGG 0.830129 -287 AGCTGTTTCCCCCATCAAGGCCAGATTATCT 26 39 1 CCCATCAGGC 0.658585 -91 TAATTACTGACCAATCATGGGTCAAAAATTA 34 121 1 CCAATCTGGG 0.859541 -36 CTGGCGATCGCCAATTTTGGCGGGATTCCCC 38 89 1 CCAATTTGGC 0.830237 -33 TTATGTTTTACCAACCCTGGGACAAAAGCAG 39 33 1 CCAACCTGGG 0.749409 -32 CCCTGGCCCTCCAAATTTGGGGGGAAATGAG 41 206 1 CCAAATTGGG 0.787743 -95 ATACCAAACCCCCAATTTGGCTATATGCTTA 46 107 0 CCCAATTGGC 0.738587 -48 TGCAAAATTCCCCAGAGTGGCTAGCTGGTTT 51 127 1 CCCAGATGGC 0.610851 -90 CCCTAGCCCCCCAATTCTGGGGGGAATAGTG 53 134 0 CCAATTTGGG 0.849832 -73 GCTCAGTTTTCCCAGTCTGGCCCAATTCCTG 57 90 0 CCCAGTTGGC 0.882485 -47 CCCAACTTCCCCCAGTCAGGGAAATTAGTTT 85 28 0 CCCAGTAGGG 0.805547 -64 GTCAGTACAACCAAGATTGGCTCGCTTGGGT 86 33 0 CCAAGATGGC 0.626418 -65 CCCTAGCCCCCCAATTCTGGGGGGAATGGTG 94 198 0 CCAATTTGGG 0.849832 -39 CTCATTTTTGCCAAGTTTGGGAGCTTTTCCA 98 112 0 CCAAGTTGGG 0.916372 -111 GTGCCCACGGCCCAGTCAGGGTTAAGAAATA 116 111 1 CCCAGTAGGG 0.805547 -190 TTCCCAGTCTCCCAACGAGGGCAAAACC 116 283 1 CCCAACAGGG 0.600688 -18 AGCGGGGGAACCAATTCTGGGGCTTATTTCT 125 141 0 CCAATTTGGG 0.849832 -160 ATTTGTGCTCCCCATCTTGGCGCTGGGCCGT 126 159 1 CCCATCTGGC 0.823249 -142 ****** **** Masking position 4 Map Score: 20.0369 Number of sites scoring better than the average of aligned sites = 482 Number in coding regions = 369 Number in noncoding regions = 113 Number of orfs with sites within 600 bp upstream = 82 Fraction of orfs with sites within 600 bp upstream = 0.0131706 Motif number 12 TTACTAAACATTGACCTTTTTCCCAGTCACAGCG 6 21 0 TTGTTTTCCC 0.392207 -85 GCCGCCGACACTGGGCGGTTTTTCTCTAGCTTAA 10 121 1 CTGGTTTTTC 0.798307 -180 TCTGCCATCGCTGAATTTTTTTCCCTAGATGCTA 14 275 0 CTGTTTTTCC 0.769431 -26 AGGCTGGGCTTTGGGCAATTTTTCCCAATAGTCT 15 32 0 TTGATTTTTC 0.887895 -156 ATTTGCCAGTCTGCTCAATTTTTCCTGGTAAATT 49 255 1 CTGATTTTTC 0.920903 -31 TCAATTTTTCCTGGTAAATTTCCCCGT 49 269 1 CTGATTTCCC 0.814389 -17 GCTAGCCACTCTGGGGAATTTTGCAGAGCCGATC 51 118 0 CTGATTTTGC 0.666522 -99 CGGTTAATTTCTGAGGAGTTTTTCAGCGTTCTAA 73 148 1 CTGATTTTTC 0.920903 -121 GATCGATTAACTGCCTATTTTTCCTCCTACCCCC 78 16 0 CTGATTTTCC 0.939156 -108 CTGACTAGTTTTCCATTTAAA 81 1 1 CTGATTTTCC 0.939156 -21 GAAAAGCGTTTTGCTTAATTTTCCTTGCCATCAT 84 99 1 TTGATTTTCC 0.913045 -186 TTTGCCGCCACTGTGCATTTTTCCACAACCATCG 97 225 0 CTGATTTTCC 0.939156 -76 TTTGCCAAGTTTGGGAGCTTTTCCACCCTTGGTC 98 103 0 TTGGTTTTCC 0.781163 -120 CCCATTGCCGTTGCTCGATTTTTCGGCCATGGGT 106 89 1 TTGGTTTTTC 0.729183 -188 ATAGTTATCATTGGCTAATTTTTCTAGCTTTATA 110 116 0 TTGATTTTTC 0.887895 -24 ATTCTTATTTTTGGCTAGTTTCTCCCCAGGCCAT 116 211 0 TTGATTTCTC 0.692437 -90 AGACAGGATTTTGTGTAGTTTTTCAATGGCTTTG 117 178 1 TTGATTTTTC 0.887895 -29 ATTGATAGAGCTGTAATTTTTTCCCTGGCTCTAT 118 111 0 CTGTTTTTCC 0.769431 -190 AATCTTGACGTTGTTTAATTTTTCTTGGCATTAG 123 145 1 TTGATTTTTC 0.887895 -156 TGGGGTAACTTTGGCAATTTTTTCTCTATGACCA 126 198 1 TTGATTTTTC 0.887895 -103 GACCAGGGATTTGGAGACTTTTTCTTTTATCTCT 126 227 1 TTGATTTTTC 0.887895 -74 *** * ****** Masking position 9 Map Score: 19.0568 Number of sites scoring better than the average of aligned sites = 249 Number in coding regions = 194 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 68 Fraction of orfs with sites within 600 bp upstream = 0.0109219 Motif number 13 ACTTTGATAGATTGTCAAAACCTGGACCCAG 3 35 1 ATTGTCAAAC 0.609724 -72 AAGCTGTAGAATTGCCTAAACTGTCCTGCCA 5 83 1 ATTGCCAAAC 0.841979 -25 TATCCCGGGCATTGTCAAAAAATAAACCTAA 7 204 1 ATTGTCAAAA 0.788463 -97 ATTGGGAAAAATTGCCCAAAGCCCAGCCTAC 15 37 1 ATTGCCAAAG 0.602113 -151 CTTAAAAAATATTGTTAAAAATAGACTCGAT 25 15 1 ATTGTTAAAA 0.364183 -62 GACGGGATCAATGGCCTAAAAACCGTATAAT 31 47 1 ATGGCCAAAA 0.906066 -113 GGTTAAGAACATGGCTAAAAACGTCTATCCA 36 32 0 ATGGCTAAAA 0.597145 -139 CATCCAACAAATGGCCTAAAACCAGATGGTT 36 59 0 ATGGCCAAAA 0.906066 -112 GGGGGGGAGCATTGACAAAAATCTATCCAGC 37 44 0 ATTGACAAAA 0.577079 -200 AGTTTCATTGATTGCCAAAAAAAACTGATTT 67 20 0 ATTGCCAAAA 0.927072 -97 CGGTGACATGATGGACAAAAAACTTCGGAGT 74 19 0 ATGGACAAAA 0.50869 -162 GCTAGCTTGTATTGCCCAAACCTAACTCATC 77 149 1 ATTGCCAAAC 0.841979 -152 GATAGTTTTTATTGCTAAAAATTGCGTTTTA 91 84 1 ATTGCTAAAA 0.661417 -152 GATCGCCTAGATGGTCGAAAAGTGCTCCTTA 96 87 1 ATGGTCAAAA 0.738783 -124 TCCTGATTGCATTGCCAAACATCCTCTCAAT 100 22 0 ATTGCCAACA 0.548582 -230 GGCTTTACCCATGGCCGAAAAATCGAGCAAC 106 98 0 ATGGCCAAAA 0.906066 -179 ACAGCTATAAATTGCCCAAACTCTCACCAAG 114 65 1 ATTGCCAAAC 0.841979 -236 GGGTTAAGAAATAGCCTAAAAACCTTAACCT 116 129 1 ATAGCCAAAA 0.688108 -172 GGGGAAAGAGATAGCCCAAAAAACTTAGTCG 123 88 0 ATAGCCAAAA 0.688108 -213 GCGCTAAAAAATTGTTGAAAATAACACTAAT 123 174 0 ATTGTTAAAA 0.364183 -127 GTTGCTTAGGATTGTCTAAAATTCCTCAGTT 124 84 0 ATTGTCAAAA 0.788463 -109 ****** **** Masking position 2 Map Score: 12.4288 Number of sites scoring better than the average of aligned sites = 412 Number in coding regions = 356 Number in noncoding regions = 56 Number of orfs with sites within 600 bp upstream = 76 Fraction of orfs with sites within 600 bp upstream = 0.0122069 Motif number 14 ATTCAGTTTAAATTCCTTGGGTATTAGGTT 7 228 0 AATTCCTTGG 0.927247 -73 TTTAAAGACGATTTCCTCGGTGGGCCCAGT 30 22 1 ATTTCCTCGG 0.947347 -32 CCTGAGTATTAATTCCTAGGCACGGCAAAC 33 85 0 AATTCCTAGG 0.794822 -130 ATGGGCTGAAAATTCCTCGGTAAATCCCTA 47 29 1 AATTCCTCGG 0.971981 -24 CAGAGGGAAAAATTCCTCGGCTAAATAATC 77 244 1 AATTCCTCGG 0.971981 -57 CCAGCAAAAAAATTCCTTTGCAAACAAAAT 100 59 1 AATTCCTTTG 0.759445 -193 TTACCACATAAATTCCTTTGTCAGCTTATT 100 86 0 AATTCCTTTG 0.759445 -166 GTGGATCAGGATTTCCTCGGTGATGCCTCC 112 235 1 ATTTCCTCGG 0.947347 -66 CCCTAGCACAAATTCCTTGGGGCAGGACAA 113 153 1 AATTCCTTGG 0.927247 -131 TTAACGGTTAATTTCCTCTGGCCCAGGTGG 117 52 1 ATTTCCTCTG 0.816741 -155 CTTGGTGACCCTTTCCTCGGTGACCTAAAC 117 141 1 CTTTCCTCGG 0.755423 -66 GATTGTCTAAAATTCCTCAGTTTTTTATTC 124 76 0 AATTCCTCAG 0.77277 -117 ********** Masking position 4 Map Score: 9.25549 Number of sites scoring better than the average of aligned sites = 103 Number in coding regions = 89 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 15 GCAGTTAGCTTGGGGGCTGGGCTTTCT 7 284 0 GCTTGGGGGC 0.622083 -17 CCGGCCCCTAGCCTAGGGGGGGAAATTTC 8 10 0 GCCTAGGGGG 0.793297 -48 ACAGCATTGAGTCAGGGGGGACAAAATAGC 14 108 0 GTCAGGGGGG 0.830189 -193 CTGACTCAATGCTGTTGGGGGGTTCACCTA 14 123 1 GCTGTTGGGG 0.301892 -178 AAACTTGGGGGCCAGGGGGGCTTTTGAAAC 16 11 0 GCCAGGGGGG 0.98033 -290 TTCCCCCCTTCCCAAGGGGGGCTAGGGGGG 16 160 1 CCCAAGGGGG 0.672694 -141 CCCAAGGGGGGCTAGGGGGGATTAAACAGC 16 170 1 GCTAGGGGGG 0.912553 -131 GGGCTGATGGGGCAAACCCAAT 19 3 1 GCTGATGGGG 0.421356 -157 GCCCCATACGGCCCTGGGGGCCACCACCGG 20 18 0 GCCCTGGGGG 0.824699 -147 GAAATATTCGGCCGTGGAGGCGCATCCCAA 21 90 1 GCCGTGGAGG 0.73987 -61 GCCGGCGGGCCCTTGCTGAT 37 1 1 GCCGGCGGGC 0.868263 -243 ATTTTCCTAGGTCGGGGGGGGAGCATTGAC 37 59 0 GTCGGGGGGG 0.904554 -185 ATTGGCGATCGCCAGGGAGCAATTTTTACC 38 74 0 GCCAGGGAGC 0.835054 -48 AATTTGGAGGGCCAGGGGGGCTTTTCAAAC 41 193 0 GCCAGGGGGG 0.98033 -108 CCTTTAAGGAGCTAAGGGGCACCCGAATCA 43 78 0 GCTAAGGGGC 0.730524 -44 GAATTGGGGGGCTAGGGGGCTTTTAAAAGA 53 148 1 GCTAGGGGGC 0.883901 -59 AGGGTGTAAAGCCGAGGAGGGCGTTATTGC 54 162 0 GCCGAGGAGG 0.827277 -90 CCTGGCGATCGCCGTTGGGCCTGGGTGTGG 57 64 0 GCCGTTGGGC 0.601085 -73 GGCAATGCTCCCCGAGGGGGATAACCGGCC 59 34 0 CCCGAGGGGG 0.799358 -54 CTCACCACAGGTTAGGGGGCTAGAGGAAAA 60 35 1 GTTAGGGGGC 0.42746 -78 TCCACTTTCGCCCAGGGAGGTAA 62 4 0 CCCAGGGAGG 0.445499 -124 GGTCAATGGGGAAGTTTGTTA 62 117 0 GTCAATGGGG 0.149654 -11 AAATTAAGAAGTCCGGGGGCAAACAAAATT 64 206 1 GTCCGGGGGC 0.614128 -58 GTGCTTTTTCGCCGGGGGGGAGACCTGAAA 76 48 1 GCCGGGGGGG 0.989751 -140 ATTTTTGGCCGCCATGGAGCAATGATGAGT 77 173 0 GCCATGGAGC 0.517026 -128 TATGCTGGGGGAGCGGCGCAATA 78 111 0 GCTGGGGGAG 0.293012 -13 AACAGCGATCGCCAGGGTGGTTTTCCCCTA 80 103 1 GCCAGGGTGG 0.554285 -122 GGTTAAGTAAGACGAGGGGCTAATATTGGC 82 60 0 GACGAGGGGC 0.51715 -20 ACCGATCTCAGCCAGGGGGCGATGATAGAA 88 82 1 GCCAGGGGGC 0.973179 -40 CTGTATGATCGCCGAGGGGCGCTGAATTGT 93 12 0 GCCGAGGGGC 0.96163 -53 TCAGGCATTGGCCCTGGGGGGAGAATTT 94 9 0 GCCCTGGGGG 0.824699 -228 TCAGATTTCTGCCGGGGGGTTAGTTAAGGA 96 112 0 GCCGGGGGGT 0.777633 -99 CATGGGTAAAGCCCTGGGGGCCCGTTTGGT 106 116 1 GCCCTGGGGG 0.824699 -161 ATCGCCTATTGCCGGGGGGAAGAGATATAG 113 26 1 GCCGGGGGGA 0.777633 -258 CACTTTTCCCCCTGGGGAGCAGATAAGAAG 120 73 1 CCTGGGGAGC 0.192142 -228 TACAGGTTGGGACGGGGGGCATAGGGTTTT 120 179 1 GACGGGGGGC 0.750502 -122 TAGGGTTTTTGCCGGTGGGGAGTTCCGTAT 120 200 1 GCCGGTGGGG 0.906879 -101 CTCCCTCAATGCCTACGGGGTTAGCTGACG 125 75 1 GCCTACGGGG 0.275295 -226 TACGGGGTTAGCTGACGGGCTAGAAATGAG 125 88 1 GCTGACGGGC 0.342079 -213 AAGCTATCCGGCCAAGGAGCACTCAGATTG 126 107 0 GCCAAGGAGC 0.643195 -194 ********** Masking position 7 Map Score: 48.1717 Number of sites scoring better than the average of aligned sites = 1704 Number in coding regions = 1514 Number in noncoding regions = 190 Number of orfs with sites within 600 bp upstream = 193 Fraction of orfs with sites within 600 bp upstream = 0.030999