AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00340_synecho_reg_300.orf -o00340_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: slr0089 23 erg6; delta(24)-sterol C-methyltransferase. slr0652 23 hisA; phosphoribosylformimino-5-aminoimidazole carboxamide ribotide Input sequences: #1 slr0723 78 hypothetical protein. #2 slr0724 83 sohA; HtaR suppressor protein. #3 slr0725 300 hypothetical protein. #4 sll1191 233 hypothetical protein. #5 ssr2153 300 hypothetical protein. #6 slr0682 33 hisD; histidinol dehydrogenase. [EC:1.1.1.23] #7 sll0650 159 transposase. #8 sll0648 127 lim; lipophilic protein. [EC:2.4.1.-] #9 sll0646 38 cyaA; adenylate cyclase. [EC:4.6.1.1] #10 sll0645 74 hypothetical protein. #11 sll0644 195 esterase. #12 slr0686 254 hypothetical protein. #13 sll0643 300 ureG; urease accessory protein ureG. [SP:UREG_SYNY3] #14 sll1508 300 lpxC; UDP-3-0-acyl N-acetylglcosamine deacetylase. [EC:3.5.1.-] #15 slr1848 300 hisD; histidinol dehydrogenase. [EC:1.1.1.23] #16 sll1713 61 hisC; histidinol-phosphate aminotransferase. [EC:2.6.1.9] #17 sll1712 170 DNA binding protein HU. [SP:DBH_SYNY3] #18 sll1469 167 hypothetical protein. #19 slr1535 98 hypothetical protein. #20 slr1536 289 recQ; ATP-dependent DNA helicase recQ. [EC:3.6.1.-] [SP:RECQ_SYNY3] #21 slr1537 99 hypothetical protein. #22 slr1538 89 cbiD; CbiD protein. #23 slr1540 73 hypothetical protein. #24 slr1541 111 hypothetical protein. #25 slr1542 105 hypothetical protein. #26 sll1468 300 hypothetical protein. #27 sll1958 138 hisC; histidinol phosphate aminotransferase. [EC:2.6.1.9] #28 sll1957 300 arsA; arsenical resistance operon repressor. #29 sll1909 77 prmA; probable methyltransferase. [EC:2.1.1.-] [SP:PRMA_SYNY3] #30 sll1908 260 serA; phosphoglycerate dehydrogenase. [EC:1.1.1.95] #31 slr1990 21 hypothetical protein. #32 slr1991 40 cyaA; adenylate cyclase. [EC:4.6.1.1] #33 slr1992 209 glutathione peroxidase. [EC:1.11.1.9] #34 slr1993 101 thl; acetyl coenzyme A acetyltransferase (thiolase). #35 slr1994 60 fabG; 3-oxoacyl-[acyl-carrier protein] reductase (3-ketoacyl-acyl #36 sll1906 60 428 aa (44.5 kD) bacteriochlorophyll synthase subunit. #37 sll1905 68 sensory transduction histidine kinase. #38 slr1998 32 hypothetical protein. #39 slr1999 38 hypothetical protein. #40 slr2000 257 hypothetical protein. #41 slr2001 147 pepE; peptidase E (alpha-aspartyl dipeptidase). [EC:3.4.-.-] #42 slr2002 32 hypothetical protein. #43 sll1902 300 hypothetical protein. #44 ssr1391 77 hypothetical protein. #45 slr0820 145 glucosyltransferase. #46 ssl1507 78 transposase. #47 sll0808 300 transposase. #48 sll1893 213 hisF; hisF protein (CYCLase). [EC:2.4.2.-] [SP:HIS6_SYNY3] #49 sll1892 142 hypothetical protein. #50 sll1891 143 hypothetical protein. #51 sll1890 191 cobN; CobN protein. #52 slr1969 104 sensory transduction histidine kinase. #53 ssr3341 185 hypothetical protein. #54 slr1970 203 hypothetical protein. #55 sll1888 86 sensory transduction histidine kinase. #56 ssl3549 182 hypothetical protein. #57 slr1972 59 hypothetical protein. #58 sll1886 274 hypothetical protein. #59 sll1885 177 hypothetical protein. #60 slr1974 300 hypothetical protein. #61 slr0776 107 lpxD; UDP-3-o-[3-hydroxymyristoyl] glucosamine n-acyltransferase. #62 sll0767 140 rplT, rpl20; 50S ribosomal protein L20. [SP:RL20_SYNY3] #63 ssl1426 96 rpmI, rpl35; 50S ribosomal protein L35. [SP:RL35_SYNY3] #64 sll0765 91 hypothetical protein. #65 tRNA-Ala-2 300 tRNA-Ala. #66 sll0310 77 rimI; ribosomal-protein-alanine acetyltransferase. [EC:2.3.1.128] #67 sll0309 299 hypothetical protein. #68 sll0024 32 hypothetical protein. #69 sll0022 222 hypothetical protein. #70 slr0001 66 hypothetical protein. #71 sll0021 80 hypothetical protein. #72 sll0020 300 clpC; ATP-dependent Clp protease regulatory subunit. #73 sll0084 193 hisB; imidazoleglycerol-phosphate dehydratase. [EC:4.2.1.19] #74 sll0083 216 gmhA; phosphoheptose isomerase. [EC:5.-.-.-] #75 slr0078 222 hisB; hypothetical protein. #76 slr0079 100 gspE; general secretion pathway protein E. #77 sll0082 80 hisB; hypothetical protein. #78 slr0080 182 rnhA; ribonuclease H. [EC:3.1.26.4] #79 slr0081 300 hisB; regulatory components of sensory transduction system. #80 sll0078 171 thrS; threonyl-tRNA synthetase (threonine--tRNA ligase) (thrRS). #81 slr0086 166 hisB; hypothetical protein. #82 slr0088 82 phytoene dehydrogenase. #83 slr0090 56 ppd; 4-hydroxyphenylpyruvic acid dioxgenase (HPD). [SP:Y090_SYNY3] #84 slr0092 117 hisB; hypothetical protein. #85 slr0093 28 dnaJ-like protein slr0093. [SP:DNJH_SYNY3] #86 slr0095 161 hisB; O-methyltransferase. [EC:2.1.1.-] #87 slr0096 29 hisB; low affinity sulfate transporter. #88 slr0498 246 hisB; hypothetical protein. #89 sll0489 286 hisB; ABC transporter. #90 sll0488 116 hypothetical protein. #91 sll0487 109 hypothetical protein. #92 sll0486 173 hypothetical protein. #93 sll0485 247 hypothetical protein. #94 sll0484 130 ABC transporter. #95 slr0502 62 cobW; CobW. #96 slr0505 121 hypothetical protein. #97 slr0506 56 pcr; protochlorophyllide oxido-reductase. [EC:1.3.1.33] #98 sll0481 71 hypothetical protein. [SP:Y481_SYNY3] #99 sll0480 182 hypothetical protein. #100 slr0509 131 alkaline phosphatase-like. #101 slr0510 222 hypothetical protein. #102 ssr0871 55 transposase. #103 slr0511 300 transposase. #104 sll0899 242 glmU; UDP-N-acetylglucosamine pyrophosphorylase. [EC:2.7.7.23] #105 ssr1562 65 clpP; hypothetical protein. #106 sll0897 106 dnaJ; DnaJ. #107 sll0895 300 cysQ; ammonium transport protein. #108 sll0631 107 nadB; L-aspartate oxidase (quinolinate synthetase B). [EC:1.4.3.16] #109 sll0630 95 hypothetical protein. #110 sll0629 300 psaK; photosystem I subunit X. #111 slr1560 77 hiss2; probable histidyl-tRNA synthetase 2 (histidine--tRNA ligase #112 slr1562 30 probable glutaredoxin slr1562. [SP:GLR1_SYNY3] #113 slr1563 300 hypothetical protein. #114 slr0608 104 hisI; phosphoribosyl-AMP cyclohydrolase / phosphoribosyl-ATP #115 slr0609 135 47 kD protein. #116 slr0610 300 hypothetical protein. Motif number 1 GATTCCAAATGGCGATCGCCAGTGTGAAAG 3 272 1 GGCGATCGCC 0.499999 -29 TGATTAGCTTGGCGATCGCCTGAATAACAA 15 203 1 GGCGATCGCC 0.499999 -98 AATCCCCCCCGGCGATCGCCTATGAGGATC 33 93 1 GGCGATCGCC 0.499999 -117 TGAACGCAACGGCGATCGTTCATTGCGCCC 44 25 0 GGCGATCGTT 0.801867 -53 GTGGCTTTGTGGTGATCGCCGTTGAATAAG 59 56 1 GGTGATCGCC 0.519159 -122 TGTGTGACCCGGCGATCGCC 69 213 1 GGCGATCGCC 0.499999 -10 GGTCATCAGGCGATCGCCAAAATATTTC 72 9 1 GGCGATCGCC 0.499999 -292 TAGAGCAATGGGTGATCCCCGTTTTGATTA 72 72 0 GGTGATCCCC 0.775943 -229 TCCTGACCGTGGCGATCGCCTGGAATGAAT 81 47 1 GGCGATCGCC 0.499999 -120 GATGATCCTTGGCGATCGCCAGTTTGGGAA 88 110 1 GGCGATCGCC 0.499999 -137 CCATTCCTCTGGCGATCGCCAAAGCTCCAG 91 77 1 GGCGATCGCC 0.499999 -33 CTTTTATAATGGCGATCGCCCTTTAATCAC 99 157 1 GGCGATCGCC 0.499999 -26 AAAGATCAGAGGCTATCGCTCTTCTATCAT 101 141 0 GGCTATCGCT 0.795238 -82 TTAACTTTTTGGCGATCGATGTCCCCTTAG 110 273 0 GGCGATCGAT 0.801867 -28 CCAACTCAGCGGCGATCGCCGTTTGCCAAA 115 40 1 GGCGATCGCC 0.499999 -96 ********** Masking position 5 Map Score: 52.3298 Number of sites scoring better than the average of aligned sites = 5646 Number in coding regions = 5126 Number in noncoding regions = 520 Number of orfs with sites within 600 bp upstream = 311 Fraction of orfs with sites within 600 bp upstream = 0.0499518 Motif number 2 TCCCATCTTTGGGGGGATGAACATGGAAAA 4 106 1 GGGGGGATGA 0.882965 -128 AGGGGGGCTAGGGGGGATTAAACAGCCAAA 12 48 0 GGGGGGATTA 0.871931 -207 AAAAATTCGTGGGGAAAAGTGATCCTACTT 17 74 1 GGGGAAAAGT 0.762918 -97 ACCCATTATTGGGGGATTTAGGGGGCAAAA 20 65 0 GGGGGATTTA 0.744106 -225 CCCCAAGTTTGGGGGAAGTTAAGTAAAAGT 20 96 0 GGGGGAAGTT 0.932215 -194 TGGGGAGCCAGGGGGGCTTTTCAAACACTC 20 121 1 GGGGGGCTTT 0.916666 -169 CAAAAATGCTGGGGAAAGGAAGACAACTAG 26 250 0 GGGGAAAGGA 0.788746 -51 GTTAGATGCTGGGGAAATGTAGCCAAATTC 28 100 0 GGGGAAATGT 0.900264 -201 CCAAGTCAATGGGGGGAGGAATTAATCTTC 29 27 1 GGGGGGAGGA 0.855264 -51 TTTTGCTCTGGGGGAACAGTAACCAGGGCA 30 57 1 GGGGAACAGT 0.733025 -204 GCGATCGCCGGGGGGGATTTGTTTATTTGT 33 82 0 GGGGGGATTT 0.928016 -128 CCCTAATTCTGGGGAGATTTTTT 35 4 0 GGGGAGATTT 0.856752 -57 CTCAAGGGGCGGGGAATTTACCCTGAGAGA 47 104 1 GGGGAATTTA 0.574291 -197 GGACTTGGATGGGGAAATGGAACTTCACCG 48 76 1 GGGGAAATGG 0.819583 -138 TGGTTAGGGGGGGGGAAAGTCGTTTTTCTT 49 83 0 GGGGGAAAGT 0.873998 -60 AGGATCTGTAGGGGAACGTAAAATTGGTTA 49 107 0 GGGGAACGTA 0.741923 -36 GGGGGGGCTTAGTGCGGGGTA 53 2 1 GGGGGGCTTA 0.853137 -184 GTGGCAGGAAGGGGGATGTTGACAAAAATT 56 46 1 GGGGGATGTT 0.811774 -137 TTTCGATGATGGGGGAATTTAAGCTTTATG 58 59 1 GGGGGAATTT 0.946116 -216 TTAGAGAAAAGGGGAAAATTAAGTATTCCG 59 87 1 GGGGAAAATT 0.743848 -91 TGATCATACTGGGGGAATTGTGTGCAACTT 60 25 0 GGGGGAATTG 0.898337 -276 TTGGGGGGTCGGGGGGCTTTTAAAACACTC 60 120 0 GGGGGGCTTT 0.916666 -181 CGACAATACTGGGGGACTTTCACTCAGTTT 60 160 0 GGGGGACTTT 0.937427 -141 TAAAATATAGGGGGAATAGTC 68 22 1 GGGGAATAGT 0.502276 -11 TTAGTTCGATGGGGGGTAGGACTGCGTCCC 73 29 1 GGGGGGTAGG 0.445611 -165 GCTTAAACTAGGGGAAAGTACTAAGTTTAG 75 140 0 GGGGAAAGTA 0.771131 -83 AATAGCAAACGGGGGAATTTTTTTCGTGCC 78 100 0 GGGGGAATTT 0.946116 -83 GCCTGCGGATGGGGAACGGTGGTCAGACCC 79 42 1 GGGGAACGGT 0.8578 -259 TGGGACTAATGGGGGAATTTTTCGCCATAT 79 228 0 GGGGGAATTT 0.946116 -73 TCAACCCAGTGGGGGGCGGGAGCGGATCAA 80 96 1 GGGGGGCGGG 0.827728 -76 ATTTAGTAATGGGGGACGTGGACGGGGGTA 86 116 0 GGGGGACGTG 0.855184 -46 GGGGAAAAGATTGGTGAAAT 89 1 1 GGGGAAAAGA 0.629547 -286 GGCAGGGGAAATTAGTGAGTAAAC 89 273 0 GGGGAAATTA 0.811383 -14 TGTGCAACCAGGGGGACTTTTCAATTTTAG 90 85 0 GGGGGACTTT 0.937427 -32 GGGGGGGTCAGGGGGGCAGTTCAAAAACGA 97 11 0 GGGGGGCAGT 0.812927 -46 CCCAAGGCTGGGGGGAATTTATCGGTGAA 97 38 1 GGGGGAATTT 0.946116 -19 CCTCGCCCCAGGGGAAATGGCAATGGGTTT 99 117 0 GGGGAAATGG 0.819583 -66 CATGGGGATAGGGGGATGGGTAACTGAAAA 100 73 1 GGGGGATGGG 0.706327 -59 TACAAACAAAGGGGGGCTTTGCTGTATTAT 104 51 1 GGGGGGCTTT 0.916666 -192 GTGGATTCACGGGGAAATTTTTTCACTTTT 107 23 0 GGGGAAATTT 0.890659 -278 CAACTGGTGTGGGGAATTTTGCCTAGTCAA 110 211 1 GGGGAATTTT 0.718665 -90 AGCCAGAGCAGGGGAGAGGATGATGCCCAA 113 159 0 GGGGAGAGGA 0.732719 -142 ********** Masking position 4 Map Score: 52.5919 Number of sites scoring better than the average of aligned sites = 1954 Number in coding regions = 1601 Number in noncoding regions = 353 Number of orfs with sites within 600 bp upstream = 275 Fraction of orfs with sites within 600 bp upstream = 0.0441696 Motif number 3 AGCATCGGAGCCAAATTCTAGGGGCCATACCAA 8 16 1 CCATCTAGGG 0.732098 -112 CAGTTACCAACCATCCCCTAGGCTCCTGAAAA 20 268 1 CCACCTAGGC 0.833068 -22 TTCCGGGGAGGCACAGCCTAGGGGATAATGGGA 22 41 0 GCACCTAGGG 0.947348 -49 ATGGTCATTCCCCAGACCCTGGCGTCTTTGCCA 26 196 0 CCCCCCTGGC 0.753037 -105 TAAAAAATAGCCCAAACAAAGGGCATTCTTTCC 27 58 1 CCCCAAAGGG 0.485068 -81 ACTGGGGGGGCCAAACCATAGGGAGTTTTCCCT 30 150 0 CCACATAGGG 0.781874 -111 GTTTGGCCCCCCCAGTCCCAGGGAATCAGAAAT 30 167 1 CCCCCCAGGG 0.977872 -94 AATAAAATACCCCGTGCCCAGGGCCGGGGTGAA 33 134 1 CCCCCCAGGG 0.990456 -76 AGGTAAGGTTCCCTGACCCTGGGGGCTGACTCG 41 111 0 CCCCCCTGGG 0.957407 -37 CCATGACCCAAGGCAGGTAAGGT 41 135 0 CCACCCAAGG 0.796297 -13 ATCGTTCATTGCGCCCCCCAGGGACAACGG 44 8 0 GCGCCCAGGG 0.8649 -70 CCTACCCTTTCCATTACCCAGGGAAA 44 62 1 CCACCCAGGG 0.992725 -16 ACTCACGGAGCCAATGTCCATGGGAATTCAAGT 47 154 0 CCATCCATGG 0.511426 -147 ATTTCCCCATCCAAGTCCCTTGGCCGACAAATA 48 61 0 CCACCCTTGG 0.778007 -153 TATGGTTCCAGCTTAGCCTAGGTCAACCCGGGG 50 97 0 GCTCCTAGGT 0.435337 -47 CATTCAACGACCAAGCCCCATGGATTTCTATTT 51 39 1 CCACCCATGG 0.940564 -153 GCATAGGGCGCCATGACCAATGGTATTGGGGAA 58 95 0 CCACCAATGG 0.60258 -180 AAAAGAAACTCCCCACCCTAGGTAACTGGGATG 61 66 1 CCCCCTAGGT 0.806555 -42 TGCCCGATCGCCATCGCCAAGGCGGATTTTTTG 67 41 0 CCACCAAGGC 0.615511 -259 TACACCCACGGCTGTACCCAGGGCAACAGCACA 72 217 1 GCTCCCAGGG 0.954141 -84 GTTAGAATCAGCAATACACAGGGCACGCTGAGG 72 263 1 GCACACAGGG 0.84083 -38 GACGATTTTCCCTCATCCTAGGGTGAGTAGACA 74 27 0 CCTCCTAGGG 0.933857 -190 GGTTAAATCCCCTAATCCCAGGGATTACGAAAA 75 200 1 CCTCCCAGGG 0.979202 -23 TGGATTATAACCTGTTCCCATGGGCCAGATTTC 80 40 1 CCTCCCATGG 0.845353 -132 ATCCGCTCCCGCCCCCCACTGGGTTGAAGGTTA 80 90 0 GCCCACTGGG 0.490892 -82 CCTCATCAATACCTTGCCCAGGGAAAAATTCAT 81 71 0 ACCCCCAGGG 0.789154 -96 CTAATCGTCAGCATAGACCAGGGTTATGAATCT 86 41 1 GCAACCAGGG 0.598178 -121 TAATATCGGCCCACCGCCTAGGGGATAGCGG 91 9 0 CCACCTAGGG 0.976167 -101 GATAAATTCCCCCCAGCCTTGGGGGGGTCAGGG 97 28 0 CCCCCTTGGG 0.880025 -29 GTGAGTTACCCCTCGCCCCAGGGGAAATGGCAA 99 124 0 CCTCCCAGGG 0.979316 -59 AACAACTCTGGCAAAGCCCTGGTAAGCCACCAT 109 52 0 GCACCCTGGT 0.625761 -44 ATTTCCAGTTCCAATTTCCAGGTGATGTC 111 7 0 CCATCCAGGT 0.534288 -71 CAACCCCGTTGCAGTTCCCAGGTAAAATTTCCA 111 33 0 GCACCCAGGT 0.882385 -45 ATTTTCATTAGCATTGCCTAGGGCATCGGTTGG 113 111 0 GCACCTAGGG 0.946478 -190 *** ******* Masking position 2 Map Score: 39.5329 Number of sites scoring better than the average of aligned sites = 1977 Number in coding regions = 1793 Number in noncoding regions = 184 Number of orfs with sites within 600 bp upstream = 194 Fraction of orfs with sites within 600 bp upstream = 0.0311597 Motif number 4 AAACTGCTTCTATTTTGCCTCCACACTGGC 5 129 1 TATTTTGCCT 0.799454 -172 AGGTGAAGGAGATTTTCCCTCGCCTGCCCT 5 180 1 GATTTTCCCT 0.927733 -121 AAATGACTCTGTTTTTGCCCTTTGTCCTGC 10 39 1 GTTTTTGCCC 0.774468 -36 TTATTCATCTTTTTTTCCCTGCACC 20 6 0 TTTTTTCCCT 0.7826 -284 TGAAAAGTTTTATTTTGCCCCCTAAATCCC 20 53 1 TATTTTGCCC 0.785628 -237 TAACGAAAAATATTTTCCCTCTCAGAATTT 26 132 0 TATTTTCCCT 0.875355 -169 AACCATAGGGAGTTTTCCCTAGAAAGCCTA 30 140 0 AGTTTTCCCT 0.904206 -121 TCATGCCTAGGTTTTTGCCTAACCCTTCAA 51 75 1 GTTTTTGCCT 0.78882 -117 ATCTGCTGGTGATTTTCCCTGACTTAATCG 54 110 0 GATTTTCCCT 0.927733 -94 TTATTCTCAATTTTTTGCCTTTAAATTTTT 59 12 0 TTTTTTGCCT 0.671418 -166 CGGAATACTTAATTTTCCCCTTTTCTCTAA 59 87 0 AATTTTCCCC 0.901047 -91 ACTTTCACTCAGTTTTCCCTTAAATTTGGG 60 145 0 AGTTTTCCCT 0.904206 -156 AAAGCTTTATTTTCCCTTTGGGCAAGG 61 8 1 TATTTTCCCT 0.875355 -100 ACCCTAGCGGGATTTTCCCCATCCCAACTT 62 60 0 GATTTTCCCC 0.921887 -81 CACTGGGGACGATTTTCCCTCATCCTAGGG 74 37 0 GATTTTCCCT 0.927733 -180 ACATTAGCCAATTTTTGCCTCCCTCGATTA 74 87 1 ATTTTTGCCT 0.7424 -130 CCAATTCAACGATTTTCCCTCAATAGCAAA 78 121 0 GATTTTCCCT 0.927733 -62 AAATTGGTTAAGTTTTGCCCC 78 172 1 AGTTTTGCCC 0.831244 -11 CCTGGAATGAATTTTTCCCTGGGCAAGGTA 81 65 1 ATTTTTCCCT 0.83545 -102 CCAGGGCGAAAATTTTGCCCCCATTCCTCT 91 57 1 AATTTTGCCC 0.837894 -53 GTTTAGCCGTGGTTTTCCCCTCGACAAAAG 94 68 1 GGTTTTCCCC 0.918347 -63 ACTGGCTGGTAGTTTTCCCCCTGAATTTGC 104 171 1 AGTTTTCCCC 0.896669 -72 TGGTGTGGGGAATTTTGCCTAGTCAAGCTT 110 215 1 AATTTTGCCT 0.848997 -86 GTCCCTGTCCTGTTTTCCCCT 112 2 0 TGTTTTCCCC 0.860191 -29 GGAGAATCCTAGTTTTCCCTTCCTCAAAAT 114 32 0 AGTTTTCCCT 0.904206 -73 ********** Masking position 5 Map Score: 28.814 Number of sites scoring better than the average of aligned sites = 661 Number in coding regions = 529 Number in noncoding regions = 132 Number of orfs with sites within 600 bp upstream = 161 Fraction of orfs with sites within 600 bp upstream = 0.0258593 Motif number 5 CAAGAAATAGGGGATGGGCAAATATCTTCC 2 28 1 GGGATGGGCA 0.815263 -56 TCCCATGGTTGGCTTAGGCAGGTAGACCTT 7 25 1 GGCTTAGGCA 0.703711 -135 AAGTCTTTACTGCCTGGGTAACAGTGGCTA 8 48 1 TGCCTGGGTA 0.888298 -80 AATTAACGCTGCCTGGGCAGGACAAAGGG 10 56 0 TGCCTGGGCA 0.926745 -19 TCCGTTGATTTGCCGGGGCAGGGTTGGTTA 13 209 0 TGCCGGGGCA 0.878343 -92 GTGGTAATTTGGGTTGGGCAGCGCAG 16 46 1 GGGTTGGGCA 0.933178 -16 GCCTAGGATGGGTTTGGGCACTTTGCCTAA 26 104 1 GGTTTGGGCA 0.775748 -197 CTTCACCCCGGCCCTGGGCACGGGGTATTT 33 138 0 GCCCTGGGCA 0.974724 -72 TTTCCCTGGGTAATGGAAAGGG 44 66 0 TCCCTGGGTA 0.801694 -12 AGATTTTGAAGGGTTAGGCAAAAACCTAGG 51 80 0 GGGTTAGGCA 0.59618 -112 TAAAAATTACTCCCTTGGCATCCCGTTACA 66 31 1 TCCCTTGGCA 0.533394 -47 TTGTGCTGTTGCCCTGGGTACAGCCGTGGG 72 221 0 GCCCTGGGTA 0.909533 -80 AAAATTGTCAGCCTTGGGTATTTAGCGCAA 75 105 0 GCCTTGGGTA 0.747817 -118 AATGAATTTTTCCCTGGGCAAGGTATTGAT 81 70 1 TCCCTGGGCA 0.938947 -97 TTAGGGGTAAGGCTGGGGCAGTTTGATCAA 84 88 0 GGCTGGGGCA 0.845992 -30 AGAAAATTCATCCCTTGGCACAATGGTAAA 88 217 0 TCCCTTGGCA 0.533394 -30 TGGGGATAGGGGGATGGGTAACTGAAAAAT 100 75 1 GGGATGGGTA 0.534929 -57 TCCAGGCGTTGGGCTGGGTAAGATTGTGTT 107 228 0 GGGCTGGGTA 0.92504 -73 CCCCTAACTCTGTCTGGGTAAATGTCCCCA 108 35 1 TGTCTGGGTA 0.551408 -73 GCCAACCGATGCCCTAGGCAATGCTAATGA 113 110 1 GCCCTAGGCA 0.802703 -191 GCTTTGTTTAGGTTTGGGCATCATCCTCTC 113 146 1 GGTTTGGGCA 0.775748 -155 TCCCCTGCTCTGGCTGGGCAACTAGCTTGC 113 174 1 TGGCTGGGCA 0.949747 -127 GAACTGACCGAGGCTGGGCACCG 114 92 1 AGGCTGGGCA 0.728186 -13 AGTTGTTAAGGGGCGGGGCAATGGTTTTCA 116 224 1 GGGCGGGGCA 0.920408 -77 ********** Masking position 10 Map Score: 18.824 Number of sites scoring better than the average of aligned sites = 1707 Number in coding regions = 1591 Number in noncoding regions = 116 Number of orfs with sites within 600 bp upstream = 138 Fraction of orfs with sites within 600 bp upstream = 0.0221651 Motif number 6 GAGTTCCCCCCTTTCTAAGGGGGGCTAGGGGGGATTAAAC 12 55 0 CAGGGGTGGG 0.928602 -200 ATTGCCGGAGCTTTAGTGAGGAGATTTAGGGGGCAGAATA 12 113 1 CTGGGATAGG 0.72273 -142 GCAGATATTCCGAAGTAGGGGTTAGCTGGGGTAATGGCGG 13 14 1 CAGGTACGGG 0.606895 -287 TAAGCCGGAGCTTTAGTGAGGAGATTTAGGGGGATAAATA 15 27 1 CTGGGATAGG 0.72273 -274 TGAGCGACCCCACCACGGTGGTAATTTGGGTTGGGCAGCG 16 29 1 CGGGAATGGG 0.913428 -33 GTGAAACAGCCAGTCTGCGGGGATTTCAGGGGTTTTTAAT 17 130 1 CGGGATTAGG 0.555081 -41 AAAAGTCACCCATTATTGGGGGATTTAGGGGGCAAAATAA 20 62 0 CTGGATTGGG 0.822387 -228 TTAACTTCCCCCAAACTTGGGGAGCCAGGGGGGCTTTTCA 20 104 1 CTGGAGCGGG 0.860387 -186 GACATTACCCCACTGTGCAGGCTGATTGGGCAAAGATTCC 28 149 0 CGGGTGTGGG 0.957989 -152 AATGTCGTAGCTAGATGGGGGGTGAATGGGATCAATTCAC 28 183 1 CGGGTGAGGG 0.905925 -118 AACGGTTATCCCCCAAGCCGCTAGAATGGGCTACGGAGAT 30 206 1 CGGCAGAGGG 0.58728 -55 AATAAAAATTCCGTTGGCTGGAGGTTAGGGGGTCTACAGT 50 25 0 CGGGGGTGGG 0.979885 -119 GGGGGGGCTTAGTGCGGGGTAGAAAGGCTGATTGGCG 53 8 1 CGGGTAAAGG 0.454298 -178 ATAAATTAATCCTATGGCCGGAGACTGGGGCTAAGACTAT 54 138 1 CGGGGATGGG 0.961874 -66 GCGTTGATAACTTGGAGGTGGCAGGAAGGGGGATGTTGAC 56 29 1 CGGGAGAGGG 0.895784 -154 AAAAGCACGGCCATGAATTGCGGGTTCGGGACAGAGCGGA 58 143 1 CAGCGGTGGG 0.683827 -132 TCAGTTTTCCCTTAAATTTGGGGGGTCGGGGGGCTTTTAA 60 127 0 CTGGGGTGGG 0.967898 -174 ATTGTCGGAGCTTCAGTGAGGAAATTTAGGGGGCGGAATA 60 183 1 CTGGAATAGG 0.521322 -118 CTTCCAACTTCTCTTCTATGCGTGGAAGGGCTTCCAGCTT 65 94 1 CTGCTGAGGG 0.4978 -207 AATCTGGGCACAGGATTATGGCGGTTGAGGTGAGGAAAAC 72 142 1 CTGGGGTAGG 0.834118 -159 CTAGTTTAAGCAATGGTTGGCCGACTGGGGTCAATTTGTT 75 159 1 CTGCGATGGG 0.722186 -64 ATCAAGCGACCGCAATACTGGAGTTTTGGGAAAACAGACT 89 103 0 CAGGGTTGGG 0.826968 -184 GGCTAAGTTCCAAGGTGAGGGGTTTATGGGTTAGTTAAGT 93 210 0 CGGGTTAGGG 0.779704 -38 AAATTCCCCCCAGCCTTGGGGGGGTCAGGGGGGCAGTTCA 97 18 0 CTGGGGCGGG 0.936507 -39 GATGCGGAGGTGGGGATTTCTGGGCAACCATCTG 106 5 1 CTGGTTCGGG 0.717325 -102 TTCGTAATCACTCCACAGTGGATTCACGGGGAAATTTTTT 107 30 0 CAGGTTAGGG 0.485846 -271 TCTGGGAAGACAATCTTTTGGGAATTTGGGGAT 108 85 1 CTGGAATGGG 0.867206 -23 GACTTTTTTTCACATTGCTGGTGAGCGGGGACAGAAAGAC 110 77 1 CGGGGACGGG 0.925111 -224 AAATTTTCTACCTACCGCCGGGTTTTAGGGCTATTTTGGC 115 64 0 CGGGTTTGGG 0.893403 -72 * * ** ** * *** Masking position 10 Map Score: 25.2848 Number of sites scoring better than the average of aligned sites = 1273 Number in coding regions = 1081 Number in noncoding regions = 192 Number of orfs with sites within 600 bp upstream = 151 Fraction of orfs with sites within 600 bp upstream = 0.0242531 Motif number 7 ATTTAATGTAAAATTATGGGGTGTACAAAAT 7 124 1 AAATTTGGGG 0.939661 -36 AATTTGGCTCCGATGCTGGGGG 8 2 0 CGATGTGGGG 0.77861 -126 CATCGGAGCCAAATTCTAGGGGCCATACCAA 8 18 1 AAATTTAGGG 0.566359 -110 AAGCACCGTACAAATATGGGGTAAACTTTAT 8 77 1 CAAATTGGGG 0.407423 -51 AAAGCTCCGGCAATACTGGGGGTCTTTTGTA 12 96 0 CAATATGGGG 0.675259 -159 TTTAGTGAGGAGATTTAGGGGGCAGAATAAA 12 124 1 AGATTAGGGG 0.898409 -131 TTTAGTGAGGAGATTTAGGGGGATAAATACC 15 38 1 AGATTAGGGG 0.898409 -263 CATTATTGGGGGATTTAGGGGGCAAAATAAA 20 61 0 GGATTAGGGG 0.659563 -229 CCTGGCTCCCCAAGTTTGGGGGAAGTTAAGT 20 102 0 CAAGTTGGGG 0.652216 -188 TGCCTCCCCGGAATTGTGGGGTTTTCTTTAA 22 61 1 GAATTTGGGG 0.773332 -29 TTTATAGCAAAAATGCTGGGGAAAGGAAGAC 26 256 0 AAATGTGGGG 0.839792 -45 GGAGTGGGTTAGATGCTGGGGAAATGTAGCC 28 106 0 AGATGTGGGG 0.811058 -195 GCCTCCAGCTCAATTATGGGGATTAATTTGG 33 18 1 CAATTTGGGG 0.92732 -192 TTCTCCTCCCTAATTCTGGGGAGATTTTTT 35 10 0 TAATTTGGGG 0.555717 -51 TAAGATATTAAGATTGAGGGGAATTGCAGGA 52 17 0 AGATTAGGGG 0.898409 -88 TTTGAGTTTTCGATGATGGGGGAATTTAAGC 58 52 1 CGATGTGGGG 0.77861 -223 GGGACTGCTAAAATTGTGGGGTCTTCAGGTC 58 201 1 AAATTTGGGG 0.939661 -74 CCGACCCCCCAAATTTAAGGGAAAACTGAGT 60 138 1 AAATTAAGGG 0.47525 -163 GAAGCTCCGACAATACTGGGGGACTTTCACT 60 166 0 CAATATGGGG 0.675259 -135 TTCAGTGAGGAAATTTAGGGGGCGGAATAAA 60 194 1 AAATTAGGGG 0.915247 -107 ATGATTTCTAAAATATAGGGGGAATAGTC 68 14 1 AAATAAGGGG 0.637676 -19 AAGATTGGTGAAATTGAGTGGCAATGGCTTT 89 17 1 AAATTAGTGG 0.256067 -270 TCAAACATCCCGATTCTGGGGAAACTTACT 100 10 0 CGATTTGGGG 0.912652 -122 GGGGCAAGGCAAATTCAGGGGGAAAACTACC 104 178 0 AAATTAGGGG 0.915247 -65 GTGGCATCGAAAATTAAAGGGGCGATTCTAA 107 267 0 AAATTAAGGG 0.47525 -34 TTACCCAGACAGAGTTAGGGGTTAAAAATTG 108 25 0 AGAGTAGGGG 0.565186 -83 TAAAACTGAGAAATTTTGAGGAAGGGAAAAC 114 20 1 AAATTTGAGG 0.331719 -85 ***** ***** Masking position 3 Map Score: 21.8896 Number of sites scoring better than the average of aligned sites = 579 Number in coding regions = 412 Number in noncoding regions = 167 Number of orfs with sites within 600 bp upstream = 105 Fraction of orfs with sites within 600 bp upstream = 0.0168648 Motif number 8 CGTAACTTAAACTGGGGATAAACCAGCTTTGG 11 74 0 ATGGGGTAAA 0.793053 -122 GGCAGGCAATGGGATTGATGATTTACCGG 19 8 1 ATGGGATGAT 0.814405 -91 TTTCCGGTTTACTGGGGACAATAAGCTTGGAC 19 75 0 ATGGGGCAAT 0.957764 -24 ATGGTTGGTAACTGGGATTAATGATTTAGATA 20 250 0 ATGGGATAAT 0.852573 -40 ATGGGGGGTGAATGGGATCAATTCACACCATA 28 197 1 ATGGGACAAT 0.927036 -104 GAGTTATGAAACTGGCGTTGATAACTTGGAGG 56 15 1 ATGGCGTGAT 0.741342 -168 TAGAGGACTAATTGGGGACAATACCTAATTTT 60 61 1 ATGGGGCAAT 0.956324 -240 AGGAGGAATAAATGGCAACAATTGAAACTGAC 65 185 0 ATGGCACAAT 0.822877 -116 GCGATCCTTCAATGGGGTTGATTAGAGGACAG 69 71 0 ATGGGGTGAT 0.88683 -152 TTTCAGCGCCATTGGGACCAAATGCGATCCTT 69 94 0 ATGGGACAAA 0.824935 -129 GCGTTTGGTCACTGGGGACGATTTTCCCTCAT 74 44 0 ATGGGGCGAT 0.945104 -173 TGGTTGGCCGACTGGGGTCAATTTGTTCGGTT 75 172 1 ATGGGGCAAT 0.957764 -51 GTAGGAGAATATTGGGAGTAATGTCAGGAAAT 79 142 0 ATGGGATAAT 0.852573 -159 CCATTTCCTCAATGGGACTAATGGGGGAATTT 79 238 0 ATGGGATAAT 0.852572 -63 GTGCGGCGACAATGGGGACAAAGAATGGGTTC 88 59 1 ATGGGGCAAA 0.893835 -188 TCGCCAGAGGAATGGGGGCAAAATTTTCGCCC 91 60 0 ATGGGGCAAA 0.893835 -50 CGATATACTCAATGGCGACGATCAGGACAGAA 104 214 1 ATGGCGCGAT 0.862938 -29 CCCATTGGTCATTGGCAGTAATATCGCTCAAA 107 170 0 ATGGCATAAT 0.678967 -131 GAATAAATGCAGTGGCATCGAAAATTAAAGGG 107 277 0 ATGGCACGAA 0.566806 -24 * ***** **** Masking position 3 Map Score: 19.9341 Number of sites scoring better than the average of aligned sites = 338 Number in coding regions = 302 Number in noncoding regions = 36 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 9 ATCAACAAAAATGTTTTAACAATGTTAATTTTTCTC 3 239 0 ATTTTTCAAT 0.528456 -62 TGCCCTATTCCACTTTTTTCCATGTTCATCCCCCCA 4 115 0 CATTTTCCAT 0.910589 -119 TTTTTTTTGACAATTTTTGCCAGTGTGGAGGCAAAA 5 141 0 CATTTTCCAT 0.910589 -160 AAAACAGAGTCATTTTTACCCAAGATAACAAACTAT 10 18 0 CATTTTCCAT 0.910589 -57 TTTTTCTATTAAGTTTTATCAAGCTTAATGGCAAAA 11 148 0 AATTTTCAAT 0.709709 -48 AGAGATACAGAACTTTTGCCCATAAATAAATTCTAA 13 165 1 AATTTTCCAA 0.479761 -136 TGTCCATTGTCAGTTTTACCTAAAGTAGTTTGCTCA 14 74 0 CATTTTCTAT 0.747604 -227 GAAGTAGGATCACTTTTCCCCACGAATTTTTGCAGT 17 69 0 CATTTTCCAA 0.736881 -102 AAAGGTAGCACTGTTTTGTCAAATTTTGTACAAAAT 28 36 1 CTTTTTCAAT 0.772846 -265 TCGAATAACTCACTTTTTGCTATAGTTAAAACACAA 43 220 1 CATTTTCTAT 0.747604 -81 GAGATTAGCTCAGTTTTATCAACGGGCCATAAAGAA 53 96 1 CATTTTCAAG 0.76503 -90 AATTGTGTGCAACTTTTCGCCAACCGCTG 60 4 0 AATTTTCCAG 0.595244 -297 AGTCTCTCGTCAATTTTGGCTAAAATGTCTTTTAAG 65 150 1 CATTTTCTAT 0.747604 -151 GCCAAGGCGGATTTTTTGTCCAAATTTGGCTAGCCA 67 23 0 ATTTTTCCAT 0.605874 -277 TAGGACTCTGCTCTTTTGGCAACTGTTCTAGGATAT 67 159 0 CTTTTTCAAT 0.772903 -141 GATATTTTCTCAAGATTGAATGACAAT 69 2 1 ATTTTTCAAT 0.528456 -221 TTTCGTAAATAATTTTTACCAATTAGTTTATTCCGA 69 146 1 AATTTTCAAG 0.517401 -77 CCAAGGCTGACAATTTTTCCTACTAAACTTAGTACT 75 118 1 CATTTTCTAA 0.44889 -105 CTAATGGGGGAATTTTTCGCCATATTTCTATCTATT 79 217 0 AATTTTCCAT 0.770304 -84 AACAGACTCTAACTTTTGGCAATCTTCTCTTTACCT 89 75 0 AATTTTCAAT 0.709709 -212 AAGTTAGAGTCTGTTTTCCCAAAACTCCAGTATTGC 89 96 1 CTTTTTCAAT 0.772902 -191 TGGATACAAGCTCTTTTTCCCACTATCTATTTGCCC 94 105 1 CTTTTTCCAT 0.823585 -26 AAGCAAAATTCAGTTTTACCAATGGTTGA 96 103 1 CATTTTCAAT 0.8813 -19 GAAAAGAATAAAATTTTCACCATAATTA 102 3 0 AATTTTCCAT 0.770304 -53 ATCAACCATGCAATTTTATCTACTTTTTGTAAGAAA 103 261 1 CATTTTCTAT 0.747604 -40 CTTTTTCAATCTTTTTTTGCAACTGGTGTGGGGAAT 110 192 1 CTTTTTCAAG 0.598792 -109 TTATTTTTTCCAATTTTCTCCATGTATTTGCTGATG 113 65 0 CATTTTCCAA 0.736881 -236 CAAAATTTCTCAGTTTTAGCAACAAAT 114 2 0 CATTTTCAAA 0.671233 -103 GGTTTTAGGGCTATTTTGGCAAACGGCGATCGCCGC 115 48 0 CTTTTTCAAG 0.59879 -88 ** **** *** * Masking position 7 Map Score: 18.5477 Number of sites scoring better than the average of aligned sites = 486 Number in coding regions = 416 Number in noncoding regions = 70 Number of orfs with sites within 600 bp upstream = 80 Fraction of orfs with sites within 600 bp upstream = 0.0128493 Motif number 10 TATTTGCCCATCCCCTATTTCTTGAGCAGG 2 22 0 TCCCCTATTT 0.403416 -62 CCAGTGGACTTGCCCTATTCCACTTTTTTC 4 131 0 TGCCCTATTC 0.590933 -103 CGGTTTTGGTTCCCATGGTTGGCTTAGGCA 7 15 1 TCCCATGGTT 0.623983 -145 TTACCAACCATCCCCTAGGCTCCTGAAAA 20 271 1 TCCCCTAGGC 0.955071 -19 TTTCCCATTATCCCCTAGGCTGTGCCTCCC 22 39 1 TCCCCTAGGC 0.955071 -51 GAATCTTCTATCCCATGGTCCGGTGT 25 90 1 TCCCATGGTC 0.779797 -16 GGGCATTCTTTCCCCTGTTTTTTCCTAGAC 27 78 1 TCCCCTGTTT 0.609846 -61 AACTTAAAATTGCCCTGGTTACTGTTCCCC 30 67 0 TGCCCTGGTT 0.891963 -194 TCTTCACCCCGGCCCTGGGCACGGGGTATT 33 139 0 GGCCCTGGGC 0.817285 -71 CCATGGTTACTGCCATGGTCAAAGCTAGTT 40 184 1 TGCCATGGTC 0.779999 -74 GAACCTTACCTGCCTTGGGTCATGG 41 133 1 TGCCTTGGGT 0.532867 -15 TTTCCCTGGGTAATGGAAAGG 44 67 0 TTCCCTGGGT 0.761672 -11 AATTAAGAACTGCCATAGGCCATAGTCTTA 54 169 0 TGCCATAGGC 0.810364 -35 ATTGTGCTGTTGCCCTGGGTACAGCCGTGG 72 222 0 TGCCCTGGGT 0.958336 -79 CACCTCAGCGTGCCCTGTGTATTGCTGATT 72 268 0 TGCCCTGTGT 0.813254 -33 CTTAGTACTTTCCCCTAGTTTAAGCAATGG 75 145 1 TCCCCTAGTT 0.781261 -78 TATAACCTGTTCCCATGGGCCAGATTTCGA 80 45 1 TCCCATGGGC 0.895697 -127 GAATGAATTTTTCCCTGGGCAAGGTATTGA 81 69 1 TTCCCTGGGC 0.872241 -98 CCGCTATCCCCTAGGCGGTGGGCCGA 91 7 1 TCCCCTAGGC 0.955071 -103 CATTGCCATTTCCCCTGGGGCGAGGGGTAA 99 122 1 TCCCCTGGGG 0.827471 -61 TGCCAACCGATGCCCTAGGCAATGCTAATG 113 109 1 TGCCCTAGGC 0.955072 -192 TTATTTATATTGCCCTATGCTTAGTTGAAT 116 107 0 TGCCCTATGC 0.800983 -194 ********** Masking position 6 Map Score: 18.1807 Number of sites scoring better than the average of aligned sites = 1526 Number in coding regions = 1398 Number in noncoding regions = 128 Number of orfs with sites within 600 bp upstream = 150 Fraction of orfs with sites within 600 bp upstream = 0.0240925 Motif number 11 CGGCTGCATTGTCTTGTCAACGAATGTGGAGGTTTGT 1 52 1 GCTTCAACAT 0.728065 -27 AACCCAGGTAGACTTCTCAAATATACTCTTTAGTATG 3 152 0 GCTTCAAAAT 0.954775 -149 GGCAGAATAAAACTTTTCAAATAAGTTCTAACGCTAG 12 144 1 ACTTCAAAAT 0.921219 -111 GGCAAAATAAAACTTTTCAAACAGATTCTTAGACATT 20 35 0 ACTTCAAAAT 0.921262 -255 GAGCCAGGGGGGCTTTTCAAACACTCTCTAAATTTAA 20 125 1 GCTTCAAAAT 0.954775 -165 TTGGTCAACAGACTTGACAAAAATCTTAACAATACGT 26 37 0 GCTTCAAAAT 0.954775 -264 AGGCGTTTCAGCCTTTTAAAAGAGACTCAATCGCTTT 45 61 0 GCTTAAAAAT 0.663045 -85 TTCTTGCAACATGTTACCAAAAAAAATTAGCAAAACC 47 241 0 AGTTCAAAAT 0.724543 -60 AGGAAGGGGGATGTTGACAAAAATTGTTCAATCTGGA 56 51 1 AGTTCAAAAT 0.724543 -132 GGGGTCGGGGGGCTTTTAAAACACTCTCTAATGTCAC 60 109 0 GCTTAAAAAT 0.663045 -192 GGCGGAATAAAACTTTCCAAACACGCTCTTAAAGATT 60 214 1 ACTTCAAAAT 0.921262 -87 CTGTTACAATGTCTTTACAAATAAAAAGGGTCTGACC 79 62 0 GCTTCAAAAA 0.629035 -239 GGATTGTGTTTACAAAAAGTTTTCAGACGAAG 80 150 0 GGTTCAAAAT 0.825967 -22 GCACAATTAAAACTTGGCAAATAAGCTTTGACTAATC 93 99 0 ACTTCAAAAT 0.921257 -149 AACTTTTCAAACACTTTCTTACAAAAA 103 284 0 ACTTCAAAAT 0.921262 -17 CGTTGGCAAAACCTTAACAAAAAGTTTAGAGTTGCCC 104 131 0 ACTTCAAAAT 0.921262 -112 CACTACAGAAGCCTTGTCAATTATTGTTAAGCAAAAC 106 69 1 GCTTCAATAT 0.643675 -38 * *** **** * * Masking position 9 Map Score: 12.1636 Number of sites scoring better than the average of aligned sites = 130 Number in coding regions = 32 Number in noncoding regions = 98 Number of orfs with sites within 600 bp upstream = 70 Fraction of orfs with sites within 600 bp upstream = 0.0112432 Motif number 12 CAAAGATGGGATTGGGAAGGGTTTAGGATA 8 105 0 ATTGGGAAGG 0.842996 -23 TAATGCTAGCATTGGGGCGGTTTCGGCATT 18 94 1 ATTGGGGCGG 0.87092 -74 GTATAACCAGATTGGGCAGAGATAGACTGA 21 18 1 ATTGGGCAGA 0.863474 -82 ATCTAAATAAATTGGGCAAGTAGAGAATAA 24 33 1 ATTGGGCAAG 0.672807 -79 TTAGGGATGGATTGGGACGACATGGAGATA 27 31 0 ATTGGGACGA 0.905981 -108 GTGCAGGCTGATTGGGCAAAGATTCCGTTC 28 145 0 ATTGGGCAAA 0.772828 -156 TTTGACAACTATTGGGGCGACTTAATCGGC 40 107 1 ATTGGGGCGA 0.91778 -151 AGTTATAGCCATTGGGACGATTAGGCAATA 53 144 0 ATTGGGACGA 0.905981 -42 AAAGTTACCAATTGGGAAAGTCCGTCCAGA 56 82 0 ATTGGGAAAG 0.742802 -101 GACCAATGGTATTGGGGAAAGCCGCCATAA 58 84 0 ATTGGGGAAA 0.846974 -191 TAGAGGACTAATTGGGGACAATACCTAATT 60 61 1 ATTGGGGACA 0.758115 -240 TTTCAGCGCCATTGGGACCAAATGCGATCC 69 96 0 ATTGGGACCA 0.745875 -127 ATGCCCTGAAATTGGGAAGATAAACTGAAA 90 33 1 ATTGGGAAGA 0.898815 -84 AATTGGGAAAAAACTGGAGCT 91 99 0 ATTGGGAAAA 0.82693 -11 GTATATCGTGATTGGGGCAAGGCAAATTCA 104 192 0 ATTGGGGCAA 0.857228 -51 ********** Masking position 1 Map Score: 11.1515 Number of sites scoring better than the average of aligned sites = 226 Number in coding regions = 188 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 13 TGGTCCCTCAGCCCATAAAACTATACGCCG 1 13 1 GCCCATAAAA 0.664381 -66 CTTTGGTATGGCCCCTAGAATTTGGCTCCG 8 21 0 GCCCCTAGAA 0.872439 -107 GTTTTATTCTGCCCCCTAAATCTCCTCACT 12 127 0 GCCCCCTAAA 0.936431 -128 CAGAACTTTTGCCCATAAATAAATTCTAAC 13 172 1 GCCCATAAAT 0.329889 -129 TAGGTATTTATCCCCCTAAATCTCCTCACT 15 41 0 TCCCCCTAAA 0.72757 -260 GTTTTATTTTGCCCCCTAAATCCCCCAATA 20 59 1 GCCCCCTAAA 0.936431 -231 TACTTGAATAACCCCCAAAAAAACCGGTTG 24 79 1 ACCCCCAAAA 0.752801 -33 CCAAATTCTTGCCCCCAAAAAGTAAAATTT 28 78 0 GCCCCCAAAA 0.96011 -223 TTGTCAAACTGCCCACAAAAACTCTTGGCA 40 85 0 GCCCACAAAA 0.839121 -173 CGGCGGTGGTTCCCCTAAAAAAGTATGAAG 54 41 1 TCCCCTAAAA 0.623513 -163 GTTTTATTCCGCCCCCTAAATTTCCTCACT 60 197 0 GCCCCCTAAA 0.936431 -104 GCTACAATTAACCCCTTAAATAGTTGAAGA 67 232 0 ACCCCTTAAA 0.414306 -68 CGTTGAAAATGCCCACAGAAAAGTCGCCTT 79 179 1 GCCCACAGAA 0.796132 -122 TTAAAGATCCGCCCCTAGATAGCCACCATT 94 38 0 GCCCCTAGAT 0.629748 -93 CTGGTAGTTTTCCCCCTGAATTTGCCTTGC 104 176 1 TCCCCCTGAA 0.666617 -67 GCAAACTCTCGCCCCCAGATGGTTGCCCAG 106 30 0 GCCCCCAGAT 0.817568 -77 ********** Masking position 9 Map Score: 10.682 Number of sites scoring better than the average of aligned sites = 632 Number in coding regions = 510 Number in noncoding regions = 122 Number of orfs with sites within 600 bp upstream = 105 Fraction of orfs with sites within 600 bp upstream = 0.0168648 Motif number 14 ATGCTTTGTCGCAAGGGCTTTTAGTCGCTGAG 13 129 0 GCAAGGTTTT 0.947028 -172 TCGCCTATGAGGATCGGATTTTTACCAATAAA 33 108 1 GGATGGTTTT 0.835386 -102 AAAACTCTTGGCATGGACTTTTTTTCTTTGTC 40 66 0 GCATGATTTT 0.627269 -192 TGCGCTTCTTGCATTGGTTCTTGACTGACACA 41 15 0 GCATGGTCTT 0.581168 -133 AGCTTAAATGCAACGGGTTTTGAAGGATGGC 46 10 1 GCAAGGTTTT 0.947028 -69 TAGGTAACTGGGATGGGGTTTTTCGTTGCAGG 61 84 1 GGATGGTTTT 0.835386 -24 TTCACAACAAGCAAGGATTTTTCCGCTTTCCT 64 70 1 GCAAGATTTT 0.733313 -22 TTGGAACGGGTTTAACGGGCCAAC 70 53 0 GGAAGGTTTA 0.759606 -14 GCCGAACAAAGCAATGGTTTTTGGG 76 86 1 GCAAGGTTTT 0.947028 -15 GCGATCGCCTGGAATGAATTTTTCCCTGGGCA 81 58 1 GGAAGATTTT 0.560504 -109 GGTATTAAATGCAAGGGAATTTGCGTTGCTGA 88 17 0 GCAAGGATTT 0.604697 -230 AAATTGAGTGGCAATGGCTTTTTTCAGAACAG 89 27 1 GCAAGGTTTT 0.947028 -260 CTAGATTTAAGCATTGGCTTTATTTGTTATCA 92 149 1 GCATGGTTTA 0.806563 -25 GGGGTGTTAAGGATAGGTTTTAGCAGAAATTT 99 23 1 GGATGGTTTA 0.659157 -160 AGGGGAAATGGCAATGGGTTTATGCTCGCTCC 99 106 0 GCAAGGTTTA 0.872005 -77 AAGGGGCGGGGCAATGGTTTTCATTTCTACTT 116 231 1 GCAAGGTTTC 0.754243 -70 **** ** **** Masking position 3 Map Score: 9.95303 Number of sites scoring better than the average of aligned sites = 259 Number in coding regions = 226 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 15 TTATCCTAAACCCTTCCCAATCCCATCTTT 8 104 1 CCCTTCCCAA 0.764073 -24 TTTAATCCCCCCTAGCCCCCCTTAGAAAGG 12 56 1 CCTAGCCCCC 0.696223 -199 GCCTAACCAACCCTGCCCCGGCAAATCAAC 13 206 1 CCCTGCCCCG 0.806669 -95 CTGCGCTGCCCAACCCAAATTACCACCG 16 44 0 CCCAACCCAA 0.665002 -18 AGTAGGATCACTTTTCCCCACGAATTTTTG 17 73 0 CTTTTCCCCA 0.37636 -98 CTCAGTCTATCTCTGCCCAATCTGGTTATA 21 19 0 CTCTGCCCAA 0.585997 -81 ATTATTCTCTACTTGCCCAATTTATTTAGA 24 34 0 ACTTGCCCAA 0.301097 -78 TAGTTGTCTTCCTTTCCCCAGCATTTTTGC 26 251 1 CCTTTCCCCA 0.841216 -50 TGAACGGAATCTTTGCCCAATCAGCCTGCA 28 144 1 CTTTGCCCAA 0.606246 -157 GTTTGGCCCCCCCAGTCCCAGGGAATCAGA 30 167 1 CCCAGTCCCA 0.436776 -94 TCCTGTGTCGTCTAGCCCCAAAGAAAAACG 49 63 1 TCTAGCCCCA 0.467244 -80 CATTCAACGACCAAGCCCCATGGATTTCTA 51 39 1 CCAAGCCCCA 0.795796 -153 AGGCCATAGTCTTAGCCCCAGTCTCCGGCC 54 153 0 CTTAGCCCCA 0.758125 -51 AATCGGTCAGCCTTGCCCAAAGGGAAAATA 61 18 0 CCTTGCCCAA 0.931111 -90 AACGAAAAACCCCATCCCAGTTACCTAGGG 61 81 0 CCCATCCCAG 0.494662 -27 CGGGATTTTCCCCATCCCAACTTTCCATGG 62 53 0 CCCATCCCAA 0.814264 -88 AATCTTCAGACCTAGCCAAAAAACAACAGC 65 249 1 CCTAGCCAAA 0.605436 -52 TACTCCTTAACCTTGCCACAATCTTCAACT 67 211 1 CCTTGCCACA 0.630275 -89 CTCATCAATACCTTGCCCAGGGAAAAATTC 81 73 0 CCTTGCCCAG 0.751116 -94 TTATTGATAACCTAACCCAAGTTA 83 43 1 CCTAACCCAA 0.683473 -14 AAAAGCGAAACCAAGCCCAAACAGTATTAC 88 190 0 CCAAGCCCAA 0.721553 -57 GTGAGTTACCCCTCGCCCCAGGGGAAATGG 99 127 0 CCTCGCCCCA 0.777257 -56 TACCCATCCCCCTATCCCCATGAACCTTAG 100 65 0 CCTATCCCCA 0.877624 -67 ACAACTATAACCTAACCCCAAATACAAACA 104 29 1 CCTAACCCCA 0.764557 -214 CCTGAATTTGCCTTGCCCCAATCACGATAT 104 190 1 CCTTGCCCCA 0.953111 -53 CACAATCTTACCCAGCCCAACGCCTGGAGT 107 230 1 CCCAGCCCAA 0.943885 -71 GGTCAATACCCCCATCCAAAATATTGATGC 109 22 0 CCCATCCAAA 0.268828 -74 ********** Masking position 7 Map Score: 18.0482 Number of sites scoring better than the average of aligned sites = 1606 Number in coding regions = 1416 Number in noncoding regions = 190 Number of orfs with sites within 600 bp upstream = 209 Fraction of orfs with sites within 600 bp upstream = 0.0335689