AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00561_synecho_reg_300.orf -o00561_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: slr1876 27 hypothetical protein. slr0944 151 hypothetical 42.4 kD protein slr0944. [SP:Y944_SYNY3] ssr0871 55 transposase. 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 sll0222 74 phoA; alkaline phosphatase. [EC:3.1.3.1] #12 sgl0002 42 bcp; hypothetical protein. #13 sml0004 164 ycf6; hypothetical protein. #14 slr0254 29 bcp; hypothetical protein. #15 sll0221 125 bcp; bacterioferritin comigratory protein. #16 sll0220 300 glmS; glucosamine--fructose-6-phosphate aminotransferase #17 sll0654 300 alkaline phosphatase. [EC:3.1.3.1] #18 sll0648 127 lim; lipophilic protein. [EC:2.4.1.-] #19 sll0646 38 cyaA; adenylate cyclase. [EC:4.6.1.1] #20 sll0645 74 hypothetical protein. #21 sll0644 195 esterase. #22 slr0686 254 hypothetical protein. #23 sll0643 300 ureG; urease accessory protein ureG. [SP:UREG_SYNY3] #24 slr1755 28 gpsA; NAD+ dependent glycerol-3-phosphate dehydrogenase. #25 sll1647 210 hypothetical protein. #26 slr1756 218 glnA; glutamine synthetase (glutamate--ammonia ligase). [EC:6.3.1.2] #27 slr1761 267 ytfC; FKBP-type peptidyl-prolyl cis-trans isomerase. [EC:5.2.1.8] #28 sll1643 243 hypothetical protein. #29 slr1762 99 hypothetical protein. #30 slr1763 39 hypothetical protein. #31 sll1642 206 hypothetical protein. #32 slr1764 125 capA; cAMP binding protein. #33 sll1641 157 gad; glutamate decarboxylase. [EC:4.1.1.15] #34 sll1639 146 ureD; urease accessory protein D. [SP:URED_SYNY3] #35 sll1638 300 hypothetical protein. #36 sll1967 300 hypothetical protein. #37 slr1369 102 cdsA; phosphatidate cytidylyltransferase. [EC:2.7.7.41] #38 sll1268 260 hypothetical protein. #39 sll1267 39 hypothetical protein. #40 sll1265 300 hypothetical protein. #41 slr1874 86 ddlA; D-alanine--D-alanine ligase (D-alanylalanine synthetase). #42 slr1875 119 exoD; exopolysaccharide synthesis protein ExoD. #43 ssl3379 107 hypothetical protein. #44 sll1767 300 rpsF, rps6; 30S ribosomal protein S6. [SP:RS6_SYNY3] #45 sll1236 300 hypothetical protein. [EC:3.1.4.46] #46 ssr1391 77 hypothetical protein. #47 slr0820 145 glucosyltransferase. #48 ssl1507 78 transposase. #49 sll0808 300 transposase. #50 slr1271 251 rffM; UDP-N-acetyl-D-mannosaminuronic acid transferase. [EC:2.4.1.-] #51 slr1272 29 hypothetical protein. #52 slr1273 184 hypothetical protein. #53 slr1274 81 pilM; membrane protein. #54 slr1275 39 hypothetical protein. #55 slr1276 80 hypothetical protein. #56 sll1173 66 hypothetical protein. #57 slr1278 49 hypothetical protein. #58 sll1172 282 thrC; threonine synthase. [EC:4.2.99.2] #59 slr1279 71 ndhC; NADH-plastoquinone oxidoreductase chain 3. [EC:1.6.5.3] #60 slr1281 300 ndhJ; NADH-plastoquinone oxidoreductase subunit J (orf 155). #61 slr1168 76 hypothetical protein. #62 slr1169 118 hypothetical protein. #63 slr1170 202 hypothetical protein. #64 slr1171 300 glutathione peroxidase. [EC:1.11.1.9] #65 sll1085 145 glpD; glycerol-3-phosphate dehydrogenase. [EC:1.1.99.5] #66 sll1566 300 otsA; alpha,alpha-trehalose-phosphate synthase. [EC:2.4.1.15] #67 slr1673 105 spoU; rRNA methylase. #68 slr1674 149 hypothetical protein. #69 slr1675 127 hypA; putative hydrogenase expression/formation protein hypA. #70 slr1676 78 hypothetical protein. #71 slr1677 271 hypothetical protein. #72 slr1678 107 rplU, rpl21; 50S ribosomal protein L21. [SP:RL21_SYNY3] #73 ssr2799 78 rpmA, rpl27; 50S ribosomal protein L27. [SP:RL27_SYNY3] #74 slr1679 110 hypothetical protein. #75 sll1564 300 leuA; alpha-isopropylmalate synthase. [EC:4.1.3.12] #76 slr0942 42 aldehyde reductase. [EC:1.1.1.2] #77 slr0943 121 fda; fructose-bisphosphate aldolase. [EC:4.1.2.13] #78 sll0914 213 hypothetical protein. #79 slr0945 89 hypothetical protein. #80 slr0946 154 arsC; arsenate reductase. #81 slr0947 52 ycf27; regulatory components of sensory transduction system. #82 sll0913 120 hypothetical protein. #83 sll0912 285 ABC transporter. #84 slr0950 62 hypothetical protein. #85 sll0909 216 hypothetical protein. #86 slr0951 83 hypothetical 24.6 kD protein slr0951. [SP:Y951_SYNY3] #87 slr0952 206 fbp; fructose-1,6-bisphosphatase (D-fructose-1,6-bisphosphate 1- #88 slr0953 251 hypothetical protein. #89 ssr1600 72 hypothetical protein. #90 slr0955 79 hypothetical protein. #91 slr0957 136 hypothetical protein. #92 slr0958 30 cysS; cysteinyl-tRNA synthetase (cysteine--tRNA ligase) (cysRS). #93 sll0905 87 maf; MAF. #94 slr0959 112 hypothetical protein. #95 slr0960 26 hypothetical protein. #96 sll1541 127 lignostilbene-alpha,beta-dioxygenase. [EC:1.13.11.42] #97 ssr2723 59 hypothetical protein. #98 slr1622 263 ppa, ipyR; inorganic pyrophosphatase (pyrophosphate phospho- #99 slr1623 41 hypothetical protein. #100 slr1624 60 hypothetical protein. #101 sll1538 116 bgl; beta-glucosidase. [EC:3.2.1.21] #102 slr1627 118 hypothetical 22.0 kD protein slr1627. [SP:YG27_SYNY3] #103 sll1536 135 moeB; molybdopterin biosynthesis MoeB protein. #104 slr1629 124 hypothetical protein. #105 sll1535 99 rfbP; galactosyl-1-phosphate transferase. #106 sll1533 300 pilT; twitching mobility protein. #107 sll1522 39 pgsA; CDP-diacylglycerol-glycerol-3-phosphate 3- #108 sll1521 25 hypothetical protein. #109 sll1520 300 recN; DNA repair protein RecN. #110 slr0776 107 lpxD; UDP-3-o-[3-hydroxymyristoyl] glucosamine n-acyltransferase. #111 sll0767 140 rplT, rpl20; 50S ribosomal protein L20. [SP:RL20_SYNY3] #112 ssl1426 96 rpmI, rpl35; 50S ribosomal protein L35. [SP:RL35_SYNY3] #113 sll0765 91 hypothetical protein. #114 tRNA-Ala-2 300 tRNA-Ala. #115 sll0325 222 hypothetical protein. #116 slr0342 130 petB; cytochrome b6. [EC:1.10.99.1] [SP:CYB6_SYNY3] #117 slr0343 251 petD; cytochrome b6-F complex subunit 4 (17 kD polypeptide). #118 slr0344 127 rfbW; mannosyl transferase. #119 slr0345 204 hypothetical protein. #120 sll0322 45 hypF; transcriptional regulatory protein hypF. [SP:HYPF_SYNY3] #121 sll0321 138 hypothetical protein. #122 sll0320 33 rnd; ribonuclease D. [EC:3.1.26.3] #123 sll0319 276 hypothetical protein. #124 sll0318 164 hypothetical protein. #125 slr0350 174 transposase. #126 slr0351 152 hypothetical protein. #127 sll0317 139 transposase. #128 sll0315 123 transposase. #129 slr0353 300 hypothetical protein. #130 slr0054 135 dgkA; probable diacylglycerol kinase (DAGK) (diglyceride kinase) #131 slr0055 143 trpG; anthranilate synthase component II. [EC:4.1.3.27] #132 slr0056 146 G4; chlorophyll synthase 33 kD subunit. #133 sll0064 300 hypothetical protein. #134 slr0092 117 hisB; hypothetical protein. #135 slr0093 28 dnaJ-like protein slr0093. [SP:DNJH_SYNY3] #136 slr0095 161 hisB; O-methyltransferase. [EC:2.1.1.-] #137 slr0096 29 hisB; low affinity sulfate transporter. #138 slr0498 246 hisB; hypothetical protein. #139 sll0489 286 hisB; ABC transporter. #140 sll0488 116 hypothetical protein. #141 sll0487 109 hypothetical protein. #142 sll0486 173 hypothetical protein. #143 sll0485 247 hypothetical protein. #144 sll0484 130 ABC transporter. #145 slr0502 62 cobW; CobW. #146 slr0505 121 hypothetical protein. #147 slr0506 56 pcr; protochlorophyllide oxido-reductase. [EC:1.3.1.33] #148 sll0481 71 hypothetical protein. [SP:Y481_SYNY3] #149 sll0480 182 hypothetical protein. #150 slr0509 131 alkaline phosphatase-like. #151 slr0510 222 hypothetical protein. #152 slr0511 300 transposase. #153 slr1656 300 murG; UDP-N-acetylglucosamine-N-acetylmuramyl-(pentape ptide) Motif number 1 TTTGCCCCCCGGCGATCGCCAAATTGGGGC 2 115 1 GGCGATCGCC 0.5 -110 TTAACAGCTTGGCGATCGCCCACTGCCCCG 5 96 1 GGCGATCGCC 0.5 -173 GCCACTTCACGGCGATCGCCCGTCGTCTGG 10 228 1 GGCGATCGCC 0.5 -73 CTAATGATGGCGATCGCCGTCTTGGCTA 16 9 1 GGCGATCGCC 0.5 -292 GCTGTCCGTTGGCGATCGCCAGCACCGATT 17 233 1 GGCGATCGCC 0.5 -68 GCTCCATTCTGGCGATCGCCTAGAAATGAC 25 119 1 GGCGATCGCC 0.5 -92 TTATCCGTTTGGCGATCGCCGTTTAATTTA 26 83 1 GGCGATCGCC 0.5 -136 TCCTACAAACGGCGATCGCCTTAGTTATAC 28 104 1 GGCGATCGCC 0.5 -140 TCTTTCCCCTGGCGATCGCCTTTGGCCCTG 38 39 1 GGCGATCGCC 0.5 -222 CGGAGGTGTGGGCGATCGCCTGCCAATCAA 50 97 1 GGCGATCGCC 0.5 -155 CGGACTTGTGGGCGATCGCCTGGGGGCATT 58 99 1 GGCGATCGCC 0.5 -184 CAGGCCCAACGGCGATCGCCAGGAATTGGG 91 71 1 GGCGATCGCC 0.5 -66 TGATCATATTGGCGATCGCCATTTTCCTGG 102 43 1 GGCGATCGCC 0.5 -76 AGATAAAGGGGGCGATCGCCGATCCTTGGG 119 31 1 GGCGATCGCC 0.5 -174 ATTTTAGGACGGCGATCGCCGGGGATAATT 132 11 1 GGCGATCGCC 0.5 -136 GATGATCCTTGGCGATCGCCAGTTTGGGAA 138 110 1 GGCGATCGCC 0.5 -137 CCATTCCTCTGGCGATCGCCAAAGCTCCAG 141 77 1 GGCGATCGCC 0.5 -33 CTTTTATAATGGCGATCGCCCTTTAATCAC 149 157 1 GGCGATCGCC 0.5 -26 ********** Masking position 6 Map Score: 104.808 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 2 TTGCCAAGCCCTTTTCCCCCTAATTTCGAC 6 52 1 CTTTTCCCCC 0.751895 -158 GAAAAAACTTAAAGTCCCCCGGCATTGGAA 6 87 1 AAAGTCCCCC 0.942457 -123 AAAATAACTCATTGTCCCCAGACAACAA 10 9 0 ATTGTCCCCA 0.826467 -292 CAAGAGGGCAAAATTCCCCCGCGTCCGTAA 11 32 0 AAATTCCCCC 0.921512 -43 AGCAATTCCTAAATCCCCCAATGCCATGCT 16 114 1 AAATCCCCCA 0.855008 -187 TGACAAATCTATCGCCCCCCATGGCAATTA 16 214 0 ATCGCCCCCC 0.845372 -87 GGAGATTCCCCAATGATAGTGA 16 289 0 AGATTCCCCA 0.590755 -12 ACGGACAGCAAAATTCCCCATCGGTGAAGG 17 212 0 AAATTCCCCA 0.799027 -89 TTAATCCCCCCTAGCCCCCCTTAGAAAGGG 22 57 1 CTAGCCCCCC 0.846016 -198 CTTTTGTAAGAGTTCCCCCCTTTCTAAGGG 22 74 0 AGTTCCCCCC 0.878287 -181 CAAAAGAAAAATCGCCCCCCAGAAAAATTA 26 56 1 ATCGCCCCCC 0.845372 -163 ATTGAAACAGATTTTTCCCAGGGCCACCGG 26 172 1 ATTTTTCCCA 0.389608 -47 AAAGGTCGCCATTTTCCCCCTAAGAGCCGG 27 38 1 ATTTTCCCCC 0.909763 -230 AAGAGAGGCGAAATCCCCCAGAATTGCAGA 27 108 0 AAATCCCCCA 0.855008 -160 TTTCGCCTCTCTTTCCCCCCAAATTTGGGG 27 125 1 CTTTCCCCCC 0.818015 -143 ACTTGTTTGAAAAGCCCCCCTGACCCCCCA 27 150 0 AAAGCCCCCC 0.960463 -118 GGGGATTTTGATTTTCCCCAAAATTAGGAA 27 200 1 ATTTTCCCCA 0.77345 -68 TCGGACGGCAAGTTCTCCCCAGGAATAATA 35 80 0 AGTTCTCCCC 0.574308 -221 AATTTGTTCTAATTTCCCCCTAGGCCACTT 40 181 1 AATTTCCCCC 0.930554 -120 GGATTAACCCCTAGCTCCCCGGCCACCCTA 44 122 1 CTAGCTCCCC 0.506707 -179 AGCTGATACTATTTTTCCCCCGTTAATTGG 45 19 0 ATTTTTCCCC 0.65337 -282 AATGTAACCCAATTTCCCCCAGCCGTAACC 50 154 1 AATTTCCCCC 0.930554 -98 CTTTATCCACAATTTCCCCCGATTATTAAC 50 183 1 AATTTCCCCC 0.930554 -69 TAAATTTTCAATTTTTCCCACGGGAAACAT 56 30 1 ATTTTTCCCA 0.389608 -37 TAATCATTTCTCCCCAGCTAAACTA 57 35 0 ATTTCTCCCC 0.736547 -15 AAATTGGCAGAATGCCCCCAGGCGATCGCC 58 109 0 AATGCCCCCA 0.90374 -174 ACCTCGGGCCATTGCCCCCC 58 273 1 ATTGCCCCCC 0.954255 -10 CCTTGCCTTGCCTGCCCCCCCTATTGTCTT 59 23 0 CCTGCCCCCC 0.479614 -49 CAACACAAAAATATTCCCCCAAAGTTTTCA 60 207 1 ATATTCCCCC 0.89831 -94 TTTAGATGTCCATGTTCCCCTGGAGATTGG 61 40 0 CATGTTCCCC 0.512315 -37 TTAGGCTTGGAAAGTCCCCCAATCCGCTAG 62 43 0 AAAGTCCCCC 0.942457 -76 CGTTACCGTAATTGCCCCCACAGGGGAACG 66 89 1 ATTGCCCCCA 0.875991 -212 TCTGCCCCCTAAATCCCCCAACGTTGGGGG 71 84 1 AAATCCCCCA 0.855008 -188 GATCAATTTCAAAGTCCCCCAACGTTGGGG 71 99 0 AAAGTCCCCC 0.942457 -173 ATCTGTTTGTAATGCCCCCCTAGCCCCCCA 71 140 0 AATGCCCCCC 0.965187 -132 TAAAAACAGTAAATCCCCCAGAATTTGGAG 73 30 1 AAATCCCCCA 0.855008 -49 TGGAAATCTCATTGCCCCCATTGTTCCATT 78 138 1 ATTGCCCCCA 0.875991 -76 TTTTCCTGGTAAATTTCCCCGT 83 274 1 AAATTTCCCC 0.687018 -12 TTTTGTACTGAGATTTCCCCAAAGTAAACA 85 59 0 AGATTTCCCC 0.443512 -158 CGGCTCTGCAAAATTCCCCAGAGTGGCTAG 85 121 1 AAATTCCCCA 0.799027 -96 AATAGTGTTCAAAGTCCCCCAAATTTGCCG 87 111 0 AAAGTCCCCC 0.942457 -96 ACTTTGAACACTATTCCCCCCAGAATTGGG 87 126 1 CTATTCCCCC 0.72643 -81 TAAAAGCCCCCTAGCCCCCCAATTCTGGGG 87 143 0 CTAGCCCCCC 0.846016 -64 CTACAAAGGCAATGCTCCCCGAGGGGGATA 93 41 0 AATGCTCCCC 0.838279 -47 AAATGTAACAAACTTCCCCATTGACC 96 112 1 AACTTCCCCA 0.543215 -16 CCCTGGCCCTAAAGCCCCCCTCCTATTAGT 98 145 0 AAAGCCCCCC 0.960463 -119 ATTTGAGCCCATAGCCCCCCAAATTAAGAA 98 186 1 ATAGCCCCCC 0.948127 -78 CCTATTAAATAATGTCCCCAATGTCCCCAT 106 168 1 AATGTCCCCA 0.863572 -133 TCCGCCCCCTAAATCCCCCAATACTGGGGG 109 54 1 AAATCCCCCA 0.855008 -247 AAACTGAATGAAAGTCCCCCAGTATTGGGG 109 69 0 AAAGTCCCCC 0.942457 -232 ACTTTCATTCAGTTTCCCCCCAAATTTGGG 109 84 1 AGTTTCCCCC 0.829501 -217 GCCTGTTCGAAAAGCTCCCCTAACCTCCCA 109 110 0 AAAGCTCCCC 0.819552 -191 CCCTAGCGGGATTTTCCCCATCCCAACTTT 111 59 0 ATTTTCCCCA 0.77345 -82 CAAGGGTGGAAAAGCTCCCAAACTTGGCAA 115 106 1 AAAGCTCCCA 0.605985 -117 TAGGGGGGTTAAAGCTCCCATGGATAAATT 121 108 1 AAAGCTCCCA 0.605985 -31 TTTTGCCATCCTCTCCCCCCAACCGCTAGA 123 48 1 CTCTCCCCCC 0.540874 -229 CAAGCCCGAAAATGTTCCCCAACGGAGCCC 123 217 0 AATGTTCCCC 0.77752 -60 TTGACCAACCATTTCTCCCATTGAATAGTA 132 39 1 ATTTCTCCCA 0.486315 -108 TACCCCCGTCCACGTCCCCCATTACTAAAT 136 116 1 CACGTCCCCC 0.595568 -46 CTAAAATTGAAAAGTCCCCCTGGTTGCACA 140 85 1 AAAGTCCCCC 0.942457 -32 TCGTTTTTGAACTGCCCCCCTGACCCCCCC 147 11 1 ACTGCCCCCC 0.754065 -46 TTCACCGATAAATTCCCCCCAGCCTTGGGG 147 37 0 AATTCCCCCC 0.952095 -20 AGTAAGTTTCCCCAGAATCGGGAT 150 5 1 AGTTTCCCCA 0.622283 -127 ACCTTTCCCGAGTTTCCCCCAAGCTTGGGG 153 209 1 AGTTTCCCCC 0.829501 -92 ATCCAACCTAATTTTCCCCAAGCTTGGGGG 153 224 0 ATTTTCCCCA 0.77345 -77 ********** Masking position 7 Map Score: 87.0784 Number of sites scoring better than the average of aligned sites = 2307 Number in coding regions = 1943 Number in noncoding regions = 364 Number of orfs with sites within 600 bp upstream = 241 Fraction of orfs with sites within 600 bp upstream = 0.0387086 Motif number 3 TTATACACATTTGCCCCCCGGCGATCGCCA 2 106 1 TTGCCCCCCG 0.704099 -119 CTTTAAGTTTTTTCCCGTCGTCGAAATTAG 6 71 0 TTTCCCGTCG 0.423642 -139 CCATCCAGTGCTTGCCCTGGGTTAACGGTT 9 12 1 CTTGCCCTGG 0.820761 -75 AATTGCCCCAGCTTTATCCGAA 9 75 0 TTGCCCCAGC 0.868629 -12 CCCGAGCTAATCTCCCCTGGAACCATCATT 13 49 0 TCTCCCCTGG 0.90998 -116 GGACGATCACTTGGCCCCGCTCCAGTTTTT 17 184 0 TTGGCCCCGC 0.730973 -117 TGCCCTTTGTCCTGCCCAGGCAGCGTTAAT 20 54 1 CCTGCCCAGG 0.653626 -21 CCTACCGCCATTACCCCAGCTAACCCCTAC 23 28 0 TTACCCCAGC 0.643123 -273 CCTAACCAACCCTGCCCCGGCAAATCAACG 23 207 1 CCTGCCCCGG 0.521527 -94 TTTAGCTCCGGTGGCCCTGGGAAAAATCTG 26 179 0 GTGGCCCTGG 0.767229 -40 AAGATAGCCCTTGCCCGTCGTCCTGGTTCT 29 31 0 TTGCCCGTCG 0.411772 -69 GACGGCAAGTTCTCCCCAGGAATAATAGTC 35 77 0 TCTCCCCAGG 0.886407 -224 AGAGCCTTGGCCCAGGCTAAGGGCCT 36 7 1 TTGGCCCAGG 0.908287 -294 ACTTTAAAAATCTGCCCAGCGACGACAAGA 36 232 1 TCTGCCCAGC 0.725049 -69 TTTACCCTTCTTTCCCCTGGCGATCGCCTT 38 31 1 TTTCCCCTGG 0.949836 -230 GCGATCGCCTTTGGCCCTGCCTTTTCAGGC 38 50 1 TTGGCCCTGC 0.859032 -211 TTCCCCTAAATTACCCCAGCTGGTTAACGA 43 18 0 TTACCCCAGC 0.643123 -90 AAAGCGATACTCTCCCCAGGAGATTTCCCA 45 177 1 TCTCCCCAGG 0.886407 -124 CGTTCATTGCGCCCCCCAGGGACAACGG 46 9 0 GCCCCCCAGG 0.552886 -69 GTAACCCAATTTCCCCCAGCCGTAACCTTT 50 157 1 TTCCCCCAGC 0.810686 -95 AATCTTGATGTTTCCCGTGGGAAAAATTGA 56 37 0 TTTCCCGTGG 0.712947 -30 TAATCATTTCTCCCCAGCTAAACTATGG 57 32 0 TCTCCCCAGC 0.78753 -18 CTTGCCTTGCCTGCCCCCCCTATTGTCTTC 59 22 0 CTGCCCCCCC 0.277564 -50 GATGTTTAATTTTGCCGTGGGCGACCGGGA 60 281 1 TTTGCCGTGG 0.638598 -20 AGATGTCCATGTTCCCCTGGAGATTGGTGA 61 37 0 GTTCCCCTGG 0.829486 -40 TGTCTCCATTGTTGCCCTGGTTTTTGCTCG 64 29 1 GTTGCCCTGG 0.775831 -272 TTTGCCCAATTTGGCCCTCCAACTGGGGGT 64 94 0 TTGGCCCTCC 0.643295 -207 TGTCTGTGGACTCGCCCAGGACGTAATCAA 66 122 1 CTCGCCCAGG 0.685562 -179 GTTCGGTTCTTTGCCCTCCGGTTTTTTCC 67 87 0 TTTGCCCTCC 0.654413 -19 GACAGCGGTTCCTCCCCCGGTTAGGACTTG 69 100 1 CCTCCCCCGG 0.605076 -28 CTTTAAAATTTTTGCCCAGGAATAGTAAAA 75 222 1 TTTGCCCAGG 0.912272 -79 ACGGTGAAACTTGCCCCTGCCATCCTCTTG 77 44 0 TTGCCCCTGC 0.895456 -78 AAAACTGGGTTTACCCCTGGTCTTCCACCA 83 193 0 TTACCCCTGG 0.83093 -93 TTTTTCCACTTTCGCCCAGGGAGGTAA 96 8 0 TTCGCCCAGG 0.865119 -120 AATCGAGGGTCTTCCCCTGGCCCTAAAGCC 98 159 0 CTTCCCCTGG 0.865526 -105 TAAATTTTGTTTGCCCCCGGACTTCTTAAT 98 208 0 TTGCCCCCGG 0.889385 -56 GACGCATTTGTTTCCCCACGTTTGTCCCTA 106 96 0 TTTCCCCACG 0.812231 -205 CGGACTTCCCTTTCCCCAGGGCTTGAAGCT 115 168 0 TTTCCCCAGG 0.935965 -55 TTGAGCTCTGTTTGCCGTGCTTATGCATGG 121 51 1 TTTGCCGTGC 0.456319 -88 TAGTTTGGCATCCGCCCTGGTAATGGGTTC 133 36 0 TCCGCCCTGG 0.816035 -265 ACCTGAAACTGCCGCCCTGGAGCAAAGCCA 134 29 1 GCCGCCCTGG 0.532633 -89 GTTGATCAAACTGCCCCAGCCTTACCCCTA 134 87 1 CTGCCCCAGC 0.692083 -31 TACTCACTAATTTCCCCTGCC 139 276 1 TTTCCCCTGC 0.899938 -11 ATTTTAGTCCTTAGCCCCCGTCTGCGAAGT 140 62 0 TTAGCCCCCG 0.31572 -55 AAATTGAAAAGTCCCCCTGGTTGCACAGAG 140 88 1 GTCCCCCTGG 0.750029 -29 TCACCTAATATCGGCCCACCGCCTAGGGGA 141 17 0 TCGGCCCACC 0.426356 -93 GGGCAAAATTTTCGCCCTGGTTTTTAATAA 141 47 0 TTCGCCCTGG 0.892574 -63 ATCTTTAAGTTTAGCCGTGGTTTTCCCCTC 144 60 1 TTAGCCGTGG 0.314434 -71 TAGCCGTGGTTTTCCCCTCGACAAAAGGTC 144 71 1 TTTCCCCTCG 0.848567 -60 ACCGATAAATTCCCCCCAGCCTTGGGGGGG 147 34 0 TCCCCCCAGC 0.695695 -23 CCCATTGCCATTTCCCCTGGGGCGAGGGGT 149 120 1 TTTCCCCTGG 0.949836 -63 AAAAGGTGAGTTACCCCTCGCCCCAGGGGA 149 132 0 TTACCCCTCG 0.592583 -51 TGGTATATGGTTGCCCCACGTGAAGCAAAA 151 68 0 TTGCCCCACG 0.804674 -155 ********** Masking position 5 Map Score: 47.1461 Number of sites scoring better than the average of aligned sites = 4447 Number in coding regions = 4047 Number in noncoding regions = 400 Number of orfs with sites within 600 bp upstream = 427 Fraction of orfs with sites within 600 bp upstream = 0.0685834 Motif number 4 AAGGGTTTAAGGTGGTGTTTGCCAAGCCCTTTTCCC 6 34 1 GTGTTGCAAG 0.954985 -176 ATTTGTCTTAGAACCTGTTCGTCAAGTCCTATTGCA 6 134 0 GTGTTGCAAG 0.954985 -76 ACTAGCGTTAGAACTTATTTGAAAAGTTTTATTCTG 22 146 0 GTATTGAAAG 0.817233 -109 GGGAGTTTTAGAACTTGTTTGAAAAGCCCCCCTGAC 27 156 0 GTGTTGAAAG 0.987504 -112 ACTACAAATCTAAATTGTTCGTAAAGTCGAACTAGG 31 52 1 TTGTTGAAAG 0.929337 -155 TGTTTCCCTAGGATCTGTTTGTAATGCCCCCCTAGC 71 146 0 GTGTTGAATG 0.878558 -126 TCCGGCGTTAGAGTATGTTTGAAAAGTCATGATCCA 87 49 1 GTGTTGAAAG 0.987504 -158 AAACTTTTCAGAACATGTTTGGAAAGTTTTATTCCG 109 22 1 GTGTTGAAAG 0.987504 -279 AACCTTATAAGAGCCTGTTCGAAAAGCTCCCCTAAC 109 116 0 GTGTTGAAAG 0.987504 -185 TTTGTCAGCTTATTTTGTTTGCAAAGGAATTTTTTT 117 64 0 TTGTTGAAAG 0.929337 -188 CGATGTTTAAGAGCGTGTTTGAAAAGTAGGGTGAAG 124 52 0 GTGTTGAAAG 0.987504 -113 CAATCCCTTAGAAAGTGTTTGAAAAGTT 125 157 1 GTGTTGAAAG 0.987504 -18 TTAAGGCCTATGACGTGTTGGCAAAGTTACATAAAA 133 109 1 TTGTTGAAAG 0.929337 -192 CTTTTTGTAAGAAAGTGTTTGAAAAGTT 152 283 1 GTGTTGAAAG 0.987504 -18 TCTTGATTTGGGAGGTGTTGGCAAAGTTCGGGTTTG 153 150 1 GTGTTGAAAG 0.987504 -151 * **** * **** Masking position 14 Map Score: 25.5211 Number of sites scoring better than the average of aligned sites = 121 Number in coding regions = 29 Number in noncoding regions = 92 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 5 GCGATCGCCAAATTGGGGCAAAAAATTAGATAA 2 126 1 AAGGGCAAAA 0.964957 -99 CCGATCTGCCAAGTTGGGCGAAACAAGATGCCA 7 81 0 AAGGGCGAAA 0.789018 -70 GCGAAAAAATAACAAGGGCAGCAAAATAC 7 132 1 AAGGGCAGCA 0.672889 -19 GGTGGTGGCACAAGAGGGCAAAATTCCCCCGCG 11 39 0 CAGGGCAAAA 0.678702 -36 CCGTAAGATAAAGGCTGGCAAAGCTTGTTTTTA 13 120 1 AATGGCAAAG 0.678978 -45 GAACAGCTTTAAACTGAGCAAAACGGTGTTTCT 16 64 1 AAGAGCAAAA 0.917384 -237 AATCAGGAAAAAGTGGGGCAAAACCTTCAATCG 17 258 0 AAGGGCAAAA 0.964957 -43 CCTGGGCAGGACAAAGGGCAAAAACAGAGTCAT 20 41 0 ACGGGCAAAA 0.661897 -34 TGCACTCGGTAAATTGAGCAACGGACAATAACT 34 31 0 AAGAGCAACG 0.594385 -116 AATTACGGAGAAATGGAGCAAAAACTTGTCTAA 40 99 1 AAGAGCAAAA 0.917384 -202 TGTCCCTAGTAAAAGGAGCAAAAATCATTAATA 45 140 0 AAGAGCAAAA 0.917384 -161 CAGTCCAGGAAAGTAGAGCAAAATCTTTGAGAA 47 100 0 AAGAGCAAAA 0.917384 -46 GTTACCAAAAAAAATTAGCAAAACCTCTCATAA 49 233 0 AATAGCAAAA 0.701299 -68 TATAATCAGAAAAATTGGCAGAATGCCCCCAGG 58 117 0 AATGGCAGAA 0.544891 -166 ATCGAGCAAAAACCAGGGCAACAATGGAGACAA 64 28 0 AAGGGCAACA 0.909118 -273 TTGGAGGGCCAAATTGGGCAAAATCTCCGTCGG 64 102 1 AAGGGCAAAA 0.964957 -199 GGGATTGGTTAATACGGGCAAAGTTTGCAAAAC 70 47 1 AAGGGCAAAG 0.909118 -32 AATAAATTAAAACTTGAGCAACAGATTTTTTAA 74 29 0 AAGAGCAACA 0.801345 -82 CTTCCGATGGAAAAGGAGCAAAATAGAGTACTT 78 103 1 AAGAGCAAAA 0.917384 -111 ACCCAGCGGAAAAGTGAGCAAAAATAGCGCTAA 111 19 0 AAGAGCAAAA 0.917384 -122 AAAAGCTCCCAAACTTGGCAAAAATGAGAACTA 115 115 1 AATGGCAAAA 0.85342 -108 GTTGGGGGGAGAGGATGGCAAAATGGAACAACA 123 38 0 GATGGCAAAA 0.451139 -239 CATGGCCGAAAAATCGAGCAACGGCAATGGGCT 123 87 0 AAGAGCAACG 0.594385 -190 TATTTAGGCGAATTGGGGCAGAAATACGCCGTA 130 26 0 AAGGGCAGAA 0.849908 -110 CCAAGCCCAGGAAGCTAGCAAAAGAGTAGACCG 132 79 0 GATAGCAAAA 0.248943 -68 GATTATTAAAAACCAGGGCGAAAATTTTGCCCC 141 45 1 AAGGGCGAAA 0.789018 -65 TCGCCAGAGGAATGGGGGCAAAATTTTCGCCCT 141 59 0 AAGGGCAAAA 0.964957 -51 TGCGATCCTAAAGAATGGCAAAGTTTAACCACT 146 38 0 AATGGCAAAG 0.678978 -84 ** ******** Masking position 8 Map Score: 27.425 Number of sites scoring better than the average of aligned sites = 611 Number in coding regions = 510 Number in noncoding regions = 101 Number of orfs with sites within 600 bp upstream = 118 Fraction of orfs with sites within 600 bp upstream = 0.0189528 Motif number 6 ATACACATTTGCCCCCCGGCGATCGCCAAA 2 108 1 GCCCCCCGGC 0.845348 -117 AATCTATCGCCCCCCATGGCAATTAGCTGG 16 209 0 CCCCCATGGC 0.519451 -92 CAGTAAAGTGCCGCCCTTGAGCTTAGCTTT 17 47 1 CCGCCCTTGA 0.199177 -254 ACTTTGGTATGGCCCCTAGAATTTGGCTCC 18 22 0 GGCCCCTAGA 0.861014 -106 GCTGTTTAATCCCCCCTAGCCCCCCTTAGA 22 52 1 CCCCCCTAGC 0.974868 -203 CCCCCCTAGCCCCCCTTAGAAAGGGGGGAA 22 62 1 CCCCCTTAGA 0.581564 -193 GTTTTATTCTGCCCCCTAAATCTCCTCACT 22 127 0 GCCCCCTAAA 0.93472 -128 AAGAAAAATCGCCCCCCAGAAAAATTATCC 26 59 1 GCCCCCCAGA 0.875438 -160 GTTTGAAAAGCCCCCCTGACCCCCCAAATT 27 146 0 CCCCCCTGAC 0.884034 -122 AACTGGATAAGCCCCCTTGCTTCCTAATTT 27 220 0 GCCCCCTTGC 0.817049 -48 TTGATTTTCTCCTCCCTAACAAAATTTCCG 33 68 1 CCTCCCTAAC 0.307813 -90 TAACCCTTCCGCCCCCTGGCAGGCCAATCT 34 90 1 GCCCCCTGGC 0.962734 -57 GAGTACCAGACCACCCTAACTCCCTAGGGA 35 183 0 CCACCCTAAC 0.594005 -118 CTCTTCAATAGGCCCTTAGCCTGGGCCAAG 36 16 0 GGCCCTTAGC 0.392456 -285 CGTAATTAAGGCCCCATAGAGTATTGGTAA 36 271 1 GCCCCATAGA 0.670004 -30 TCCTTTGCATGGCCCCAAACAGGCAGATTA 38 171 0 GGCCCCAAAC 0.318197 -90 AACTGGCACCCTAGAAGCCGGAGCT 39 6 1 GCACCCTAGA 0.744013 -34 AGCTCCCCGGCCACCCTAACGAGTATGATA 44 134 1 CCACCCTAAC 0.594005 -167 ACCGCTGGACCCCCCCTGACCACCATTAGC 58 32 0 CCCCCCTGAC 0.884034 -251 TTGGCAGAATGCCCCCAGGCGATCGCCCAC 58 106 0 GCCCCCAGGC 0.72577 -177 AGTGGCCCATAGACCCTGCTCTT 62 4 1 GGCCCATAGA 0.274659 -115 AACGTGGTAAAGCCCCTAGCTTTAGTCATG 63 133 0 AGCCCCTAGC 0.402732 -70 CAGGCCGGAAGCCCCCAAGCCCAGGTAGAT 64 180 1 GCCCCCAAGC 0.853051 -121 CATTGTCCAAACCCCCTAAAAATTGCCCAA 65 57 1 ACCCCCTAAA 0.47742 -89 ATGGAAAAAAGCCCCCTAAACTCTAACTTT 65 85 0 GCCCCCTAAA 0.93472 -61 GCCTCTGCAGGCACCCTAAAGAATAGCTAG 68 93 0 GCACCCTAAA 0.556122 -57 TGTTAACTCTGCCCCCTAAATCCCCCAACG 71 77 1 GCCCCCTAAA 0.93472 -195 TGAAATTGATCCCCCCCAGAATTGGGGGGC 71 118 1 CCCCCCCAGA 0.827915 -154 GTTTGTAATGCCCCCCTAGCCCCCCAATTC 71 136 0 CCCCCCTAGC 0.974868 -136 TGATTCGGGTGCCCCTTAGCTCCTTAAAGG 77 78 1 GCCCCTTAGC 0.775967 -44 CGTGTTTTTGCCGCCCTAAAAGGGATGTTA 83 93 0 CCGCCCTAAA 0.576335 -193 TCTTTTAAAAGCCCCCTAGCCCCCCAATTC 87 148 0 GCCCCCTAGC 0.982659 -59 TTTTCCTCTAGCCCCCTAACCTGTGGTGAG 94 35 0 GCCCCCTAAC 0.960671 -78 TGAGCCCATAGCCCCCCAAATTAAGAAGTC 98 189 1 GCCCCCCAAA 0.751837 -75 GTTTTATTCCGCCCCCTAAATCCCCCAATA 109 47 1 GCCCCCTAAA 0.93472 -254 TCTGAAGATTGCGCCCTAGATATACTAGGA 114 229 0 GCGCCCTAGA 0.821749 -72 CCTGAAACTGCCGCCCTGGAGCAAAGCCAG 134 30 1 CCGCCCTGGA 0.589953 -88 CTTAAAGATCCGCCCCTAGATAGCCACCAT 144 39 0 CGCCCCTAGA 0.809186 -92 TTTTGAACTGCCCCCCTGACCCCCCCAAGG 147 15 1 CCCCCCTGAC 0.884034 -42 ********** Masking position 5 Map Score: 41.3078 Number of sites scoring better than the average of aligned sites = 1004 Number in coding regions = 799 Number in noncoding regions = 205 Number of orfs with sites within 600 bp upstream = 159 Fraction of orfs with sites within 600 bp upstream = 0.0255381 Motif number 7 TTTGCCCCCCGGCGATCGCCAAATTGGGGC 2 115 1 GGCGATCGCC 0.499827 -110 CATGGCCCGGGGCAGTGGGCGATCGCCAAG 5 103 0 GGCAGTGGGC 0.91423 -166 AAAAATGATTGGCGGTTGGCTCAATGACAT 10 93 0 GGCGGTTGGC 0.632059 -208 GCCACTTCACGGCGATCGCCCGTCGTCTGG 10 228 1 GGCGATCGCC 0.499827 -73 CTAATGATGGCGATCGCCGTCTTGGCTA 16 9 1 GGCGATCGCC 0.499827 -292 TCGCCGTCTTGGCTATGGCAGACATCAGGG 16 24 1 GGCTATGGCA 0.318353 -277 AGCTGGGTATGGTAATGGGCTTTCGGGAGG 16 185 0 GGTAATGGGC 0.489263 -116 GCTGTCCGTTGGCGATCGCCAGCACCGATT 17 233 1 GGCGATCGCC 0.499827 -68 CTGGGGTAATGGCGGTAGGCAAGAAACTTT 23 39 1 GGCGGTAGGC 0.493811 -262 GCTCCATTCTGGCGATCGCCTAGAAATGAC 25 119 1 GGCGATCGCC 0.499827 -92 TTATCCGTTTGGCGATCGCCGTTTAATTTA 26 83 1 GGCGATCGCC 0.499827 -136 TCCTACAAACGGCGATCGCCTTAGTTATAC 28 104 1 GGCGATCGCC 0.499827 -140 CCTTGGCCCAGGCTAAGGGCCTATTGAAGA 36 15 1 GGCTAAGGGC 0.319443 -286 AATTAGATAGGGCAATTGGCTGGTTAAATC 36 93 1 GGCAATTGGC 0.528567 -208 TCTTTCCCCTGGCGATCGCCTTTGGCCCTG 38 39 1 GGCGATCGCC 0.499827 -222 TAGAGATCCAGGCCGTGGCCCTCTGTGATC 38 118 0 GGCCGTGGCC 0.750996 -143 CTCTACAATGGTCAATGGGCAGTATGCCTA 38 143 1 GTCAATGGGC 0.489261 -118 AACCGTCCCCGGCGGTGGTCTAGTCCCTTT 40 231 1 GGCGGTGGTC 0.564716 -70 CGGAGGTGTGGGCGATCGCCTGCCAATCAA 50 97 1 GGCGATCGCC 0.499827 -155 CGGACTTGTGGGCGATCGCCTGGGGGCATT 58 99 1 GGCGATCGCC 0.499827 -184 GGGGGGCAATGGCCCGAGGTTCCA 58 269 0 GGCAATGGCC 0.753564 -14 AAAGAGCAGGGTCTATGGGCCACT 62 5 0 GTCTATGGGC 0.22392 -114 TCCAACTGGGGGTAGTGGCCCTGATGACTT 64 77 0 GGTAGTGGCC 0.420999 -224 GCAATTAACTGGCAATGGGCTGAAAATTCC 81 15 1 GGCAATGGGC 0.94938 -38 CAGGCCCAACGGCGATCGCCAGGAATTGGG 91 71 1 GGCGATCGCC 0.499827 -66 GCCAAAAGGGGGCGATGGGTT 93 2 0 GGCGATGGGT 0.8549 -86 GAACTTCAGCGGCGGAGGGCA 97 2 0 GGCGGAGGGC 0.70202 -58 TCGGTCACCAGGCAATGGCAAGAATCCAGC 98 67 1 GGCAATGGCA 0.607251 -197 TAATTTGGGGGGCTATGGGCTCAAATCGAG 98 182 0 GGCTATGGGC 0.853311 -82 TGATCATATTGGCGATCGCCATTTTCCTGG 102 43 1 GGCGATCGCC 0.499827 -76 TGGCGGTGGGAGTCCTCAGTT 105 2 1 GGCGGTGGGA 0.628955 -98 GGGGCAGAGGCTCCAAGTTAAG 116 3 1 GGCAGAGGCT 0.115048 -128 AGATAAAGGGGGCGATCGCCGATCCTTGGG 119 31 1 GGCGATCGCC 0.499827 -174 ATCGAGCAACGGCAATGGGCTTTGAGCTTG 123 78 0 GGCAATGGGC 0.94938 -199 TCGATTTTTCGGCCATGGGTAAAGCCCTGG 123 103 1 GGCCATGGGT 0.347957 -174 AAAAATCCTAGTCAGTGGCCTAAGCATTCC 125 60 0 GTCAGTGGCC 0.420995 -115 ATTTTAGGACGGCGATCGCCGGGGATAATT 132 11 1 GGCGATCGCC 0.499827 -136 CATCCGCCCTGGTAATGGGTTCAAATTGGG 133 28 0 GGTAATGGGT 0.0952536 -273 GATGATCCTTGGCGATCGCCAGTTTGGGAA 138 110 1 GGCGATCGCC 0.499827 -137 GAAATTGAGTGGCAATGGCTTTTTTCAGAA 139 26 1 GGCAATGGCT 0.746228 -261 CTATCCCCTAGGCGGTGGGCCGATATTAGG 141 14 1 GGCGGTGGGC 0.966949 -96 CCATTCCTCTGGCGATCGCCAAAGCTCCAG 141 77 1 GGCGATCGCC 0.499827 -33 CAGGGGAAATGGCAATGGGTTTATGCTCGC 149 109 0 GGCAATGGGT 0.68128 -74 CTTTTATAATGGCGATCGCCCTTTAATCAC 149 157 1 GGCGATCGCC 0.499827 -26 ********** Masking position 8 Map Score: 85.4846 Number of sites scoring better than the average of aligned sites = 6571 Number in coding regions = 5959 Number in noncoding regions = 612 Number of orfs with sites within 600 bp upstream = 384 Fraction of orfs with sites within 600 bp upstream = 0.0616768 Motif number 8 GGATGATGTCCTAGGGTCGGGCGGGTAAAAT 2 12 1 CTAGGTCGGG 0.723863 -213 CCGGCGATCGCCAAATTGGGGCAAAAAATTA 2 123 1 CCAAATGGGG 0.833536 -102 GGTTTCTAGCTTTGGGGGAGAAAAAA 13 6 1 CTAGCTTGGG 0.87966 -159 GGTATGGCCCCTAGAATTTGGCTCCGATGCT 18 16 0 CTAGATTTGG 0.698097 -112 CCCTGACCCCCCAAATTTGGGGGGAAAGAGA 27 132 0 CCAAATTGGG 0.910555 -136 AGAGCGTATTCCAGATTAGGGAGCGGGAATT 37 42 1 CCAGATAGGG 0.837865 -61 CCCTCTGACTCTAAACTTTGGGCAATGTTGG 44 47 0 CTAAATTTGG 0.581059 -254 CCCCTAAACTCTAACTTTGGGCAATTTTTAG 65 72 0 CTAACTTGGG 0.818871 -74 GATTTTGCTTCTAAGTTTTGGTTTTCCGCCG 68 63 0 CTAAGTTTGG 0.507943 -87 TCAAAGTCCCCCAACGTTGGGGGATTTAGGG 71 90 0 CCAACTTGGG 0.907911 -182 TTGATCCCCCCCAGAATTGGGGGGCTAGGGG 71 123 1 CCAGATTGGG 0.953665 -149 AGTAAATCCCCCAGAATTTGGAGGATTTTAA 73 37 1 CCAGATTTGG 0.578775 -42 CGAATAAGTTCCAGGATTTGGCCACGGAGAG 75 52 0 CCAGGTTTGG 0.776686 -249 AAGCATATAGCCAAATTGGGGGTTTGGTATC 80 108 1 CCAAATGGGG 0.833536 -47 CGAAAATCCCCTAAAGTAGGGTAGCTTACGG 83 43 0 CTAAATAGGG 0.593646 -243 ACTATTCCCCCCAGAATTGGGGGGCTAGGGG 87 135 1 CCAGATTGGG 0.953665 -72 TGAAAGTCCCCCAGTATTGGGGGATTTAGGG 109 60 0 CCAGTTTGGG 0.712386 -241 CAGTTTCCCCCCAAATTTGGGAGGTTAGGGG 109 93 1 CCAAATTGGG 0.910555 -208 TCCCAGTTACCTAGGGTGGGGAGTTTCTTTT 110 66 0 CTAGGTGGGG 0.723864 -42 CTCATTTTTGCCAAGTTTGGGAGCTTTTCCA 115 112 0 CCAAGTTGGG 0.921561 -111 CGGATTGAATCTAGAATAGGGGGGTTAAAGC 121 92 1 CTAGATAGGG 0.702568 -47 AAAACAGACTCTAACTTTTGGCAATCTTCTC 139 82 0 CTAACTTTGG 0.463968 -205 TAAATTCCCCCCAGCCTTGGGGGGGTCAGGG 147 28 0 CCAGCTTGGG 0.941113 -29 GTAAGTTTCCCCAGAATCGGGATGTTTGAAT 150 12 1 CCAGATCGGG 0.874835 -120 GAACCTTAGACTAAAATCGGGTCTTGGCCAC 150 43 0 CTAAATCGGG 0.696404 -89 CTAATTTTCCCCAAGCTTGGGGGAAACTCGG 153 216 0 CCAAGTTGGG 0.921561 -85 ***** ***** Masking position 7 Map Score: 23.7481 Number of sites scoring better than the average of aligned sites = 550 Number in coding regions = 393 Number in noncoding regions = 157 Number of orfs with sites within 600 bp upstream = 117 Fraction of orfs with sites within 600 bp upstream = 0.0187922 Motif number 9 CTTACTTTTTACTGCTAAAACATTAGGGA 1 6 1 TTTTTCTGTA 0.831307 -33 AAAGGTTGAGTTTTTGCTGGACTTTATCGATCAA 8 45 0 TTTTTCTGAT 0.557891 -35 TTTGCCCCACTTTTTCCTGATTGAGAAATTTCTA 17 269 1 TTTTTCTGTA 0.831307 -32 TCTTCATATTTTTTTCCTGTTAGTACCATTTAGT 23 274 1 TTTTTCTGTT 0.879094 -27 AGGGTAATTTTGCTGGTAGATTATCGCTAA 55 61 0 ATTTTCTGTA 0.717359 -20 CATTCTGCCAATTTTTCTGATTATAGGACTCCAA 58 125 1 ATTTTCTGTT 0.78924 -158 ATCAAAGCCTTTTTTTCTGTTGTTTTAACCGATT 60 163 1 TTTTTCTGTT 0.879094 -138 GACAAGTCTTTTTTTACTGTTTTTACTTCGCTAA 63 16 0 TTTTTCTGTT 0.879094 -187 GCCCTCCGGTTTTTTCCTGAAATTGTTACATTGT 67 70 0 TTTTTCTGAT 0.557889 -36 AGAGCTTAATATTTTTCTGTTGTTTCCCTAGGAT 71 168 0 ATTTTCTGTT 0.78924 -104 CATTCAACCTATTTTTCTGATAAAACA 78 197 1 ATTTTCTGTA 0.717359 -17 GTCTGCTCAATTTTTCCTGGTAAATTTCCCCGT 83 263 1 TTTTTCTGTA 0.831307 -23 GGCGATCGCCATTTTCCTGGTAGTGGAGATGGCG 102 53 1 ATTTTCTGTT 0.78924 -66 GGTTAAAGACTTTTTTCTGTTTTTCGTCAGTTGT 106 136 0 TTTTTCTGTT 0.879094 -165 CAAAGGAATTTTTTTGCTGGTAAAAATCCTGATT 117 45 0 TTTTTCTGTA 0.831307 -207 ***** *** * * Masking position 8 Map Score: 10.7048 Number of sites scoring better than the average of aligned sites = 169 Number in coding regions = 132 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405 Motif number 10 CCGTCGTCGAAATTAGGGGGAAAAGGGCTTGGCAAACA 6 49 0 AAGGGAAAGC 0.822782 -161 AAGCTCTAACAATACCGGGGATATTGGCATCTTGTTTC 7 57 1 AAGGGAATGC 0.977593 -94 GAGCGTTTTTAAACCAGGGAAAATCGTCGTAGGACAAA 10 37 0 AAGGGAATGC 0.977593 -264 ATTCAGTACAAACTAGGGGAAAACGTTCAGGATGTTTG 10 163 0 AAGGGAACTC 0.70023 -138 TTTGGGGGAGAAAAAAGGGGATAGAGACAATGATGGTT 13 21 1 AAGGGAAGGC 0.926813 -144 TGCTGACGTCAGTTTTGGGGATATAGTCCGCCCCTGTG 16 140 1 AGGGGAATGC 0.960208 -161 ACCGGAGCTAAAACTGGGTGAGATGGACTGGT 26 197 1 AAGGTAATGC 0.67081 -22 CCGAAACAACAAACGTGGGAAGATAGCCCTTGCCCGTC 29 42 0 AAGGGAATGC 0.977593 -58 CAGCTGGGGTAATTTAGGGGAAACCTACTAAAACTCGA 43 26 1 AAGGGAACTC 0.70023 -82 TCCCCAGCTAAACTATGGATAAATTGGCTGAAATTTAG 57 12 0 AAGGAAATGC 0.782291 -38 GCTATCAAAAAGAGCAGGGTCTATGGGCCACT 62 5 0 AGGGGCATGC 0.719004 -114 ACAAAAACTTAGAGGGGAGCAGATTGCCCCAAGGTTCC 63 86 1 AGGAGAATGC 0.740111 -117 TTTACCAGGAAAAATTGAGCAGACTGGCAAATTACAAG 83 249 0 AAGAGAACGC 0.779824 -37 TTTGATGGAGAATAATGGGAAGACTGTCCATTGATTTT 91 25 0 AAGGGAACGC 0.967754 -112 TATGGATGCAAGGAAGGGATAAATAGACTCTAACCAAA 104 90 0 AGGGAAATGC 0.665265 -35 ACGAGGGTTAAAATCAGGGGTAATAGCCAATATTTTTT 119 87 1 AAGGGTATGC 0.757363 -118 GCAATACTGGAGTTTTGGGAAAACAGACTCTAACTTTT 139 94 0 AGGGGAACGC 0.943179 -193 TTTGTCTCAAAACTGCGGGCATAGGGACATTACCAGGT 143 141 1 AAGGGAAGGC 0.926813 -107 TGGGTAGGATAAAATGGAGAAGATAGTCTGAAATGCAG 151 101 0 AAGAGAATGC 0.837368 -122 ATTAAACACCAATCTAGGGAAAATAGTCCTGGGTAAGC 153 26 0 AAGGGAATGC 0.977593 -275 ** *** * ** * * Masking position 13 Map Score: 17.4704 Number of sites scoring better than the average of aligned sites = 193 Number in coding regions = 156 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 43 Fraction of orfs with sites within 600 bp upstream = 0.00690652 Motif number 11 GTCAAGGGTTTAAGGTGGTGTTTGCCAAGCCCTT 6 31 1 TAGGTGTTTG 0.814832 -179 TACATTTGTCTTAGAACCTGTTCGTCAAGTCCTA 6 139 0 TAGATGTTCG 0.898109 -71 ACTACTAGCGTTAGAACTTATTTGAAAAGTTTTA 22 151 0 TAGATATTTG 0.647596 -104 ATTTTCCCCCTAAGAGCCGGTTTGTAAGGTCTTA 27 48 1 TAGAGGTTTG 0.814832 -220 GGCGGGAGTTTTAGAACTTGTTTGAAAAGCCCCC 27 161 0 TAGATGTTTG 0.965398 -107 ATCTCCGGCGTTAGAGTATGTTTGAAAAGTCATG 87 46 1 TAGATGTTTG 0.965398 -161 TAAAAACTTTTCAGAACATGTTTGGAAAGTTTTA 109 19 1 TAGATGTTTG 0.965398 -282 AATAACCTTATAAGAGCCTGTTCGAAAAGCTCCC 109 121 0 TAGATGTTCG 0.898109 -180 TTGTCAAGATTGAGAGGATGTTTGGCAATGCAAT 117 14 1 TAGATGTTTG 0.965398 -238 TGGCGATGTTTAAGAGCGTGTTTGAAAAGTAGGG 124 57 0 TAGATGTTTG 0.965398 -108 ATACAATCCCTTAGAAAGTGTTTGAAAAGTT 125 154 1 TAGATGTTTG 0.965398 -21 TTGCCAAAAGTTAGAGTCTGTTTTCCCAAAACTC 139 89 1 TAGATGTTTT 0.647596 -198 CTACTTTTTGTAAGAAAGTGTTTGAAAAGTT 152 280 1 TAGATGTTTG 0.965398 -21 * *** ****** Masking position 3 Map Score: 12.4858 Number of sites scoring better than the average of aligned sites = 106 Number in coding regions = 23 Number in noncoding regions = 83 Number of orfs with sites within 600 bp upstream = 64 Fraction of orfs with sites within 600 bp upstream = 0.0102795 Motif number 12 GCCCCAATTTGGCGATCGCCGGGGGGCAAATGTG 2 111 0 GGTCCCGGGG 0.710976 -114 ACCTGGCATAGGTATTAATGGGGGACCCCACCGC 5 195 1 GGTATGGGGG 0.770453 -74 CCCAGACGACGGGCGATCGCCGTGAAGTGGCCTT 10 225 0 GGATGCCGTG 0.235511 -76 CGCCCCCCATGGCAATTAGCTGGGTATGGTAATG 16 198 0 GGTTGCTGGG 0.862965 -103 GCTCAAGGGCGGCACTTTACTGTGCAAATTCTGC 17 35 0 GGTTACTGTG 0.330369 -266 CTAAAGCTCCGGCAATACTGGGGGTCTTTTGTAA 22 95 0 GGTATGGGGG 0.770453 -160 GCTTTAGTGAGGAGATTTAGGGGGCAGAATAAAA 22 122 1 GGTTAGGGGG 0.770226 -133 ACTTAGTCGGGGCCATAATCGGTGAACTAGGCCG 26 135 1 GGTATCGGTG 0.742776 -84 CCCAAATTTGGGGGGTCAGGGGGGCTTTTCAAAC 27 142 1 GGTCGGGGGG 0.899337 -126 GCTGGGGCTAGGCCGTTGGGGGTGT 29 85 1 GGTTGGGGTG 0.896731 -15 GATAATCGTAGGAAATTCTCCTTGTAATTGTGTT 32 99 0 GGTTTCCTTG 0.339722 -27 TTGCTCCCTAGGGAGTTAGGGTGGTCTGGTACTC 35 179 1 GGTTGGGTGG 0.812057 -122 CTCTTCAATAGGCCCTTAGCCTGGGCCAAGGCTC 36 12 0 GGTTGCCTGG 0.620525 -289 GCGTTTCAGCGGAGATTATCGGTGATTCCGATGG 41 48 1 GGTTTCGGTG 0.920526 -39 CCAGTCCGTTGGTCATTTTGGTTGAGGAGTGTTC 50 15 0 GGTTTGGTTG 0.576182 -237 AGGGTAATTTTGCTGGTAGATTATCG 55 65 0 GGTTTGCTGG 0.37423 -16 CACGGCTAATGGTGGTCAGGGGGGGTCCAGCGGT 58 28 1 GGTCGGGGGG 0.899337 -255 TTGCTTTTCAGGAGCTTGTCTTGGGATTATTGGC 60 89 0 GGTTTCTTGG 0.49646 -212 TTAGGAGATTGGAGTTAGGCTTGGAAAGTCCCCC 62 53 0 GGTAGCTTGG 0.260316 -66 TTTTCTGTACCGATATTAGCGGTGAAAAGTTTTA 66 153 1 CGTTGCGGTG 0.352877 -148 CCCAACGTTGGGGGATTTAGGGGGCAGAGTTAAC 71 78 0 GGTTAGGGGG 0.770226 -194 AAATAGGCAAATTTCGGGGTTCGGAAAGA 86 65 0 GGATTCGGGG 0.706761 -19 CTAAAGCTCCGGCAAATTTGGGGGACTTTGAACA 87 102 1 GGATTGGGGG 0.557918 -105 GGGCTTCTGCGGTGGCCATCTAGA 95 13 0 GGTCGCGGTG 0.884877 -14 GAATTCGACCGGTTATATTCGTTGCTGCAGGCTG 106 199 1 GGTATCGTTG 0.392944 -102 AAGGTTTACCGGGGGTTAGCTGTGCCACAAGTGC 106 256 1 GGTTGCTGTG 0.739376 -45 CCCAGTATTGGGGGATTTAGGGGGCGGAATAAAA 109 48 0 GGTTAGGGGG 0.770226 -253 GGTTATTTAATGGACTTATCGGGGCGGACATCGG 109 148 1 TGTTTCGGGG 0.363228 -153 TAACTGGGATGGGGTTTTTCGTTGCAGGTA 110 88 1 GGTTTCGTTG 0.721941 -20 CATTGATTGTGGCCATTATCGGGG 114 1 0 GGTTTCGGGG 0.962562 -300 CAGTGGATCAGGATTTCCTCGGTGATGCCTCCGT 129 233 1 GGTCTCGGTG 0.842977 -68 TAGCCCCAAGGGTGATAGGCTGGGTCAGTGTTTT 131 41 0 GGTAGCTGGG 0.610895 -103 ATTTTAGGACGGCGATCGCCGGGGATAATTGACC 132 11 1 GGTCCCGGGG 0.710976 -136 GTCTCCTATGGGATTTTATCTGGGCCCAAGCGAA 133 210 1 GGTTTCTGGG 0.81476 -91 TTAAATGCAAGGGAATTTGCGTTGCTGACAGCGA 138 11 0 GGTTGCGTTG 0.788016 -236 CCCTCACCTTGGAACTTAGCCGTGATTAC 143 229 1 GGTTGCCGTG 0.7667 -19 CCAGCCTTGGGGGGGTCAGGGGGGCAGTTCAAAA 147 15 0 GGTCGGGGGG 0.899337 -42 AAGGCTGGGGGGAATTTATCGGTGAA 147 41 1 GGTTTCGGTG 0.920526 -16 ** ** ****** Masking position 2 Map Score: 27.1183 Number of sites scoring better than the average of aligned sites = 1416 Number in coding regions = 1263 Number in noncoding regions = 153 Number of orfs with sites within 600 bp upstream = 127 Fraction of orfs with sites within 600 bp upstream = 0.0203983 Motif number 13 ATTTTTTGCCCCAATTTGGCGATCGCCGGGGGG 2 119 0 CCATTGGCAT 0.549156 -106 CGATCGCCCGTCGTCTGGGCTAGCAAAACCAAG 10 240 1 TCGCTGGCAG 0.858092 -61 ATGGCGATCGCCGTCTTGGCTATGGCAGACATC 16 17 1 CCGCTGGCAT 0.943443 -284 AATCTATCGCCCCCCATGGCAATTAGCTGGGTA 16 206 0 CCCCAGGCAT 0.593514 -95 AGAAAAATTATCCGTTTGGCGATCGCCGTTTAA 26 76 1 TCCTTGGCAT 0.866507 -143 GTTCTAATTTCCCCCTAGGCCACTTTCTTCGCT 40 186 1 CCCCTGGCAC 0.725034 -115 CTACTAAAACTCGATTAGGGTATCGGGATAAAA 43 50 1 TCGTTGGGAT 0.559861 -58 GCAACCATCATCGTCTGGGCTAGTTCAGTTGCC 44 235 0 TCGCTGGCAG 0.858092 -66 TGCTTATTAATCGTTTGGGCAATAATCCAATTC 58 197 1 TCGTTGGCAT 0.813239 -86 AGTCCCCCAATCCGCTAGGCTATCAAAAAGAGC 62 28 0 TCCCTGGCAT 0.9251 -91 CAAGTTAATTCCCGCCGGGGCATTTTAGTACGT 66 191 0 CCCCCGGGAT 0.387315 -110 TTCCCCTGGGCCATTGGACAGGAT 70 2 1 TCCCTGGCAT 0.9251 -77 TACCAAACCCCCAATTTGGCTATATGCTTAGGG 80 104 0 CCATTGGCAT 0.549156 -51 AATAGCTGTCGACTCGACTATTATTTCTGAT 84 9 1 TCGCTGACAT 0.202558 -54 GTTAACAATTCCGAATGGGCAAGCAAAGTAAGC 88 222 0 CCGATGGCAG 0.651864 -30 ACCCATCGCCCCCTTTTGGCCAGGCCGGTTATC 93 12 1 CCCTTGGCAG 0.905099 -76 GGCCGGTTATCCCCCTCGGGGAGCATTGCCTTT 93 34 1 CCCCTGGGAG 0.841301 -54 AATGATAGGTTCGTTGCGGCCATAGTCCCGACG 103 90 1 TCGTGGGCAT 0.503932 -46 AAAATCCATGCCGAATCGGGTATGAAAGGCTGA 109 189 1 CCGATGGGAT 0.428404 -112 GCTTTATTTTCCCTTTGGGCAAGGCTGACCGAT 110 14 1 CCCTTGGCAG 0.905099 -94 GTTTTGACTGTCCTCTAGGCGATTAACTCGACC 114 53 1 TCCCTGGCAT 0.9251 -248 CTTTCCCAGCTCCCATTGGCCATCAATTCCGTT 129 91 0 TCCATGGCAT 0.655134 -210 GAAATCCTGATCCACTGGGGAATTATGACTTTG 129 217 0 TCCCTGGGAT 0.782986 -84 CAGCCTATCACCCTTGGGGCTAGGAATGCCATG 131 53 1 CCCTGGGCAG 0.68992 -91 TATCGGCCCACCGCCTAGGGGATAGCGG 141 6 0 CCGCTGGGAT 0.829727 -104 ACCCCTTCGGCCATCAACAGAATC 145 49 0 CCCTTGGCAT 0.928919 -14 ATTGCCATTTCCCCTGGGGCGAGGGGTAACTCA 149 123 1 CCCTGGGCAG 0.68992 -60 *** ** *** ** Masking position 12 Map Score: 17.697 Number of sites scoring better than the average of aligned sites = 1057 Number in coding regions = 984 Number in noncoding regions = 73 Number of orfs with sites within 600 bp upstream = 84 Fraction of orfs with sites within 600 bp upstream = 0.0134918 Motif number 14 AATTGGGGCAAAAAATTAGATAATTGCGGCGCA 2 136 1 AAAATTGAAA 0.663541 -89 GTTGGGGACAAACGATTGGTTAACAGAGGTCAT 5 133 1 AACATTGTAA 0.788454 -136 ATTTTTTCGCAAAGATTGGTAAAAAGTTCCGAT 7 109 0 AAAATTGTAA 0.870778 -42 AACAGACCTTAAATATTTGAAAAATGAATGGGA 32 33 1 AAAATTGAAA 0.663541 -93 AAAGAAGGGTAAAAATTAGCTAATCAAATGGGG 38 11 0 AAAATTGCAA 0.857497 -250 AAGTAGAGCAAAATCTTTGAGAAATAGGCGTTT 47 90 0 AAACTTGAAA 0.581915 -56 TGTTACCAAAAAAAATTAGCAAAACCTCTCATA 49 234 0 AAAATTGCAA 0.857497 -67 AACGGCTCATAAATCTTTGTTAAAGATTACTTA 66 60 0 AAACTTGTAA 0.826264 -241 CTAGCCTGAAAAAAATTTGTTAACCATTAACAG 72 26 0 AAAATTGTAA 0.870778 -82 TAAACAAATTAAAGCTTTGTAAACAAAATTTGA 74 85 1 AAACTTGTAA 0.826264 -26 TAACTTGTATAACGATTAGTGAAGTTTCGTGGC 80 59 1 AACATTGTAA 0.788454 -96 GAAAAATTAGCCAATAATTTGAAC 109 287 0 AAAATTGCAA 0.857497 -14 TAACTCCCAGAACGATTGGCCAAAATTCAAGAT 117 120 0 AACATTGCAA 0.768956 -132 ATAAAGCTAGAAAAATTAGCCAATGATAACTAT 127 117 1 AAAATTGCAA 0.857497 -23 AGCCTGGATAAACCCTTAGTAAATTCAAGCGAA 133 261 1 AACCTTGTAA 0.724552 -40 GGGGAAAAGATTGGTGAAATTGAGTGGC 139 6 1 AAAATTGTAA 0.870778 -281 ACCGACATTAAAAACTTAGTTAAAAGCTCCATA 143 21 1 AAACTTGTAA 0.826264 -227 AAGCACAATTAAAACTTGGCAAATAAGCTTTGA 143 105 0 AAACTTGCAA 0.809409 -143 GGATTTCGTAAAAATTTGTAAAAATTAAATGG 144 10 1 AAAATTGTAA 0.870778 -121 TCAACCATTGGTAAAACTGAATTTT 146 107 0 AACATTGTAA 0.788454 -15 *** *** ** ** Masking position 7 Map Score: 14.7489 Number of sites scoring better than the average of aligned sites = 155 Number in coding regions = 115 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 15 CACTGCCCCGGGCCATGGTTGGGGACAAACGAT 5 116 1 GGCCATGGTG 0.937188 -153 GCAATTAGCTGGGTATGGTAATGGGCTTTCGGG 16 188 0 GGGTATGGTG 0.859645 -113 AACCAGCTTTGGCTATGGAAAAGTCTCTGTACA 21 53 0 GGCTATGGAG 0.76301 -143 TAGTACTTGCGGGTTGGGTATGGTCACTGATCT 25 178 0 GGGTTGGGTG 0.821604 -33 TCGAAAATTAGGGCTTGGATCTGGGTAAAAGTT 28 39 1 GGGCTTGGAG 0.914842 -205 CGCTATTAATGGCCATGGTACTGGCATTTTCCG 28 148 0 GGCCATGGTG 0.937188 -96 AAGCTTGGGTTACGGTGTTATTGA 35 287 0 AGCTTGGGTG 0.390206 -14 CAGAAAAAAAGGCTTTGATGGTGGCAAGAACGC 60 149 0 GGCTTTGATG 0.665423 -152 TGCCTGCAGAGGCTTTGATCTGGACAGATCCCA 68 110 1 GGCTTTGATG 0.665423 -40 GCCAAATTGGGGGTTTGGTATCGTTGGTATCAA 80 117 1 GGGTTTGGTG 0.911615 -38 GCAAATTACAAGCCTTGGTCTGGGGCCCATTTT 83 228 0 AGCCTTGGTG 0.758948 -58 ATCGCCGTTGGGCCTGGGTGTGGCTTTGATGGA 91 54 0 GGCCTGGGTG 0.918164 -83 CAGCAGGGTTAGCCATGGTATAGTGGAAGACTG 112 53 1 AGCCATGGTG 0.651525 -44 CCTTTCCCCAGGGCTTGAAGCTGTGTTACATTT 115 157 0 GGGCTTGAAG 0.651354 -66 GAACATTTTCGGGCTTGATGGGGTTAACAATCC 123 230 1 GGGCTTGATG 0.797602 -47 CTAGCTTCCTGGGCTTGGAATTGCACGCTTTTT 132 94 1 GGGCTTGGAG 0.914842 -53 TATCCAAACCGGCTATGGAGTTGATCAAACTGC 134 68 1 GGCTATGGAG 0.76301 -50 AATACTGTTTGGGCTTGGTTTCGCTTTTACCAT 138 192 1 GGGCTTGGTG 0.957735 -55 TGCTTAGTTGGGGCAGGGAAACGGAGCTGGCAT 153 71 1 GGGCAGGGAG 0.740163 -230 ********* * Masking position 7 Map Score: 11.6407 Number of sites scoring better than the average of aligned sites = 1020 Number in coding regions = 961 Number in noncoding regions = 59 Number of orfs with sites within 600 bp upstream = 66 Fraction of orfs with sites within 600 bp upstream = 0.0106007