AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00252_synecho_reg_300.orf -o00252_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: slr1724 167 hypothetical protein. slr0220 175 glyS; glycyl-tRNA synthetase beta chain (glycine--tRNA ligase beta slr0049 25 hypothetical protein. Input sequences: #1 sll0938 40 aspartate transaminase. [EC:2.6.1.1] #2 ssl1792 33 hypothetical protein. #3 sll0936 83 hypothetical protein. #4 slr0969 102 cbiH; precorrin methylase. #5 slr0971 82 hypothetical protein. #6 sll0934 195 ccmA; carboxysome formation protein. [EC:5.4.99.5] #7 ssl1784 164 rpsO, rps15; 30S ribosomal protein S15. [SP:RS15_SYNY3] #8 sll0932 100 hypothetical protein. #9 sll0931 171 hypothetical protein. [EC:2.1.1.45] #10 sll0930 43 hypothetical protein. #11 sll0928 111 apcD; allophycocyanin-B. #12 sll0927 168 metX; S-adenosylmethionine synthetase. [EC:2.5.1.6] #13 sll0925 266 hypothetical 23.0 kD protein sll0925. [SP:Y925_SYNY3] #14 slr0974 300 infC; translation initiation factor IF-3. [SP:IF3_SYNY3] #15 sll1641 157 gad; glutamate decarboxylase. [EC:4.1.1.15] #16 sll1639 146 ureD; urease accessory protein D. [SP:URED_SYNY3] #17 sll1638 300 hypothetical protein. #18 slr1134 300 hypothetical protein. #19 sll1823 238 purA; adenylosuccinate synthetase (IMP--aspartate ligase). #20 ssl3446 300 hypothetical protein. #21 slr1720 25 aspS; aspartyl-tRNA synthetase (aspartate--tRNA ligase) (aspRS). #22 slr1721 102 hypothetical protein. #23 slr1722 126 guaB; IMP dehydrogenase subunit. [EC:1.1.1.205] #24 sll1601 96 hypothetical protein. #25 ssl3127 285 hypothetical protein. #26 sll1599 98 mntA; manganese transport system ATP-binding protein mntA. #27 sll1598 143 mntC; Mn transporter MntC. #28 ssr2898 300 transposase. #29 tRNA-Ser-3 146 tRNA-Ser. #30 sll1378 41 hypothetical protein. [EC:3.4.21.19] #31 sll1377 168 hypothetical protein. #32 sll1376 300 hypothetical protein. #33 sll0422 120 asparaginase. [EC:3.5.1.1] #34 sll0421 109 purB; adenylosuccinate lyase (adenylosuccinase) (ASL). [EC:4.3.2.2] #35 slr0445 56 hypothetical protein. #36 sll0420 35 ureB; urease beta subunit (ureA amidohydrolase). [EC:3.5.1.5] #37 sll0419 77 hypothetical protein. #38 sll0418 68 sterol-C-methyltransferase. [EC:2.1.1.41] #39 slr0446 300 dnaX_and_dnaZ; DNA polymerase III subunit. [EC:2.7.7.7] #40 sll0362 180 alaS; alanyl-tRNA synthetase (alanine--tRNA ligase) (alaRS). #41 sll0361 81 hypothetical protein. #42 sll0360 187 hypothetical protein. #43 sll0359 300 hypothetical protein. #44 sll0006 103 aspC; aspartate aminotransferase. [EC:2.6.1.1] #45 sll0005 187 hypothetical 77.3 kD protein sll0005. [SP:Y005_SYNY3] #46 slr0020 100 recG; DNA recombinase. [EC:3.6.1.-] #47 slr0021 65 putative protease slr0021. [EC:3.4.-.-] [SP:Y021_SYNY3] #48 sll0002 226 ponA; penicillin-binding protein 1A. #49 tRNA-Ser-4 225 tRNA-Ser. #50 slr0213 87 guaA; probable GMP synthase (glutamine-hydrolysing) (glutamine #51 sll0210 114 bacA; bacitracin resistance; possibly phosphorylates undecaprenol. #52 slr0216 127 cobU; cobinamide kinase. #53 slr0217 238 hypothetical protein. #54 ssr0349 258 hypothetical protein. #55 sll0209 218 hypothetical protein. #56 sll0208 257 hypothetical protein. #57 sll0207 157 rfbA; glucose-1-phosphate thymidylyltransferase. [EC:2.7.7.24] #58 sll0205 286 hypothetical protein. #59 sll0204 136 gidA; glucose inhibited division protein A. #60 sll0202 129 gidA; glucose inhibited division protein A. [SP:GIDA_SYNY3] #61 sll0200 300 transposase. #62 sll0402 122 aspC; aspartate aminotransferase. [EC:2.6.1.1] #63 sll0401 193 gltA; citrate synthase. [EC:4.1.3.7] [SP:CISY_SYNY3] #64 sll0400 62 hypothetical protein. [SP:Y400_SYNY3] #65 slr0440 93 hypothetical protein. #66 ssr0102 74 ycf40; hypothetical protein. #67 sll0072 31 hypothetical protein. #68 sll0071 93 hypothetical protein. #69 sll0070 90 purU; formyltetrahydrofolate deformylase (formyl-fh(4) hydrolase). #70 sll0069 26 hypothetical protein. #71 sll0068 157 hypothetical protein. #72 sll0067 93 gst; glutathione S-transferase. [EC:2.5.1.18] #73 sll0066 99 hypothetical protein. #74 sll0065 181 ilvN; acetolactate synthase. [EC:4.1.3.18] #75 slr0053 64 hypothetical 20.1 kD protein slr0053. [SP:Y053_SYNY3] #76 slr0054 135 dgkA; probable diacylglycerol kinase (DAGK) (diglyceride kinase) #77 slr0055 143 trpG; anthranilate synthase component II. [EC:4.1.3.27] #78 slr0056 146 G4; chlorophyll synthase 33 kD subunit. #79 sll0064 300 hypothetical protein. #80 sll0892 50 panD; aspartate 1-decarboxylase precursor (aspartate alpha- #81 sll0891 37 citH; 2-ketoacid dehydrogenase (malate dehydrogenase, lactate #82 ssl1690 300 hypothetical protein. #83 slr0827 294 alr; probable alanine racemase. [EC:5.1.1.1] [SP:ALR_SYNY3] #84 sll0834 284 low affinity sulfate transporter. #85 sll0832 300 hypothetical protein. #86 sll0034 62 hypothetical protein. #87 sll0033 160 hypothetical protein. #88 sll0031 300 hypothetical protein. #89 sll0495 39 asnS; probable asparaginyl-tRNA synthetase (asparagine--tRNA ligase) #90 tRNA-Thr-3 210 tRNA-Thr. #91 sll0494 293 clpP; hypothetical protein. #92 sll0493 25 clpP; hypothetical protein. #93 sll0902 112 argF; ornithine carbamoyltransferase chain f. [EC:2.1.3.3] #94 sll0901 100 purE; phosphoribosylaminoimidazole carboxylase catalytic subunit #95 slr0925 300 ssb; single-stranded DNA-binding protein. #96 sll0631 107 nadB; L-aspartate oxidase (quinolinate synthetase B). [EC:1.4.3.16] #97 sll0630 95 hypothetical protein. #98 sll0629 300 psaK; photosystem I subunit X. #99 slr0585 118 argG; argininosuccinate synthase (citrulline--aspartate ligase). #100 slr0586 151 hypothetical protein. #101 slr0587 41 hypothetical protein. #102 sll0578 75 purK; phosphoribosylaminoimidazole carboxylase ATPase subunit (air #103 sll0577 195 hypothetical protein. #104 slr0588 29 hypothetical protein. #105 slr0589 108 hypothetical protein. #106 slr0590 113 hypothetical protein. #107 sll0576 79 HrEpiB. #108 sll0574 206 rfbA; integral membrane O-antigen translocator protein. #109 sll0572 300 hypothetical protein. Motif number 1 AATTCTCGTTGGAGATCGCCATCCTGGTCG 3 18 1 GGAGATCGCC 0.545822 -66 GCTAGCCAATGGCGATCGTAAAGATATTTA 13 188 1 GGCGATCGTA 0.923433 -79 TTTATAAAGTGGCGATCGTTTGCTCAATCT 18 102 0 GGCGATCGTT 0.891916 -199 GGTCCAAATTGGCGATCGTCTCTCATCCGA 18 182 0 GGCGATCGTC 0.57641 -119 TCGCCCCCCAGGCGATCGCCATCAGAGTTG 20 218 1 GGCGATCGCC 0.499995 -83 CAACTATTATGGCGATCGCCAGTTTGGTGG 25 186 1 GGCGATCGCC 0.499995 -100 ATTAAAATCAGGCGATCGCCGC 35 45 1 GGCGATCGCC 0.499995 -12 AACGAAAATTGGCGATCGCCAGTGGGATGG 42 164 1 GGCGATCGCC 0.499995 -24 GGCGATCGGCAGTCAGGAAT 49 1 1 GGCGATCGGC 0.579212 -225 GCAACGGTGGGGCGATCACAATTCTAGGGG 51 17 1 GGCGATCACA 0.705687 -98 TCTACTCAAAGGCGATCGAACAGCAAACAC 53 199 1 GGCGATCGAA 0.907401 -40 AAAGCTTTATGGCGATCGGAGTCGTTAACT 55 155 1 GGCGATCGGA 0.950734 -64 TCTGCGTTTTGGCGATCGCATCTTTTAAGC 61 86 1 GGCGATCGCA 0.576723 -215 GGAAGTTAGAGGCGATGGGCCGGCAAACTC 64 23 0 GGCGATGGGC 0.859363 -40 ATTTTAGGACGGCGATCGCCGGGGATAATT 78 11 1 GGCGATCGCC 0.499995 -136 TTCCCCAGGCGGCGATCGCCAGAAAAATAT 82 32 1 GGCGATCGCC 0.499995 -269 TTGTTTTTCGGGCGATCGCCTGTGGGTAAA 83 153 1 GGCGATCGCC 0.499995 -142 GCAGTTGGCGATCGTTGCAGCTCATT 86 47 0 GGCGATCGTT 0.891916 -16 GGGGTGGCTCGGCGATCGAGTGCTCCCTGT 87 56 1 GGCGATCGAG 0.875556 -105 ATGGCTAAACGGCGATCGGCGATCGTTTAG 90 163 0 GGCGATCGGC 0.579212 -48 CCCCAACACTGGCGATCGCCGATTGATCCA 95 86 1 GGCGATCGCC 0.499995 -215 GGCTAGCAATGGCGATCGCCGTAGTTTACC 95 258 1 GGCGATCGCC 0.499995 -43 TTAACTTTTTGGCGATCGATGTCCCCTTAG 98 273 0 GGCGATCGAT 0.868151 -28 TCATATCCCTGGCGATCGGGGTCTAACTAG 99 36 1 GGCGATCGGG 0.936779 -83 ********** Masking position 6 Map Score: 77.9639 Number of sites scoring better than the average of aligned sites = 6193 Number in coding regions = 5635 Number in noncoding regions = 558 Number of orfs with sites within 600 bp upstream = 353 Fraction of orfs with sites within 600 bp upstream = 0.0566977 Motif number 2 ACCAAAGACGTTGGGGGGCAAATCATTCCA 7 25 0 TTGGGGGGCA 0.903593 -140 CAGAGTCAGCCCAGGGGACAAAAACTTCCT 8 62 0 CCAGGGGACA 0.941318 -39 CCAGAGTACCCTAGGGGAGAGCGAGTAAAT 13 107 0 CTAGGGGAGA 0.931526 -160 CCCCCTAAATTTGGGGGTCAGGGGGGCTTT 14 136 0 TTGGGGGTCA 0.590429 -165 GTGAGGAGATTTAGGGGGCAGAATAAAACT 14 204 1 TTAGGGGGCA 0.82409 -97 GATTGGCCTGCCAGGGGGCGGAAGGGTTAA 16 89 0 CCAGGGGGCG 0.896376 -58 GACTATTATTCCTGGGGAGAACTTGCCGTC 17 77 1 CCTGGGGAGA 0.93853 -224 TGGCGATCGCCTGGGGGGCGACACTGGGCC 20 209 0 CTGGGGGGCG 0.931341 -92 TAACCCTAATCCAGTGGGGATCAGAGC 22 86 1 CCAGTGGGGA 0.793438 -17 CTGGGATTATTCTGGGGGGATTTTTATTGG 23 81 0 TCTGGGGGGA 0.850502 -46 TGCTTGTTGGCTGGTGGGGAGGAGTTTATT 39 29 1 CTGGTGGGGA 0.857619 -272 TGCTTTTTCGCCGGGGGGGAGACCTGAAAC 42 49 1 CCGGGGGGGA 0.987695 -139 GATCACAATTCTAGGGGACAGTTTAAAAAC 51 30 1 CTAGGGGACA 0.926323 -85 TTTGAGTAGACTGGGGGACACTGGCTGGGC 53 179 0 CTGGGGGACA 0.961765 -60 GTCTAAGTTGCTGGGGGGGAGG 56 3 0 CTGGGGGGGA 0.984354 -255 TGGGCTCAATCCAGGGGTGAAGGTAAATTT 63 58 1 CCAGGGGTGA 0.860547 -136 AAGCTAATATTTGGGGGACAGCTTTTGGGG 65 28 0 TTGGGGGACA 0.802165 -66 AGAAAAATTCCCTGGGGGCACTAAGTGGGA 69 15 1 CCTGGGGGCA 0.970253 -76 TCAGGACAACCCTGGGGAGACGTGCTTGAG 73 50 0 CCTGGGGAGA 0.93853 -50 GCAAGCTTGCCCGGCGGGCATGGTAGGATA 74 101 1 CCGGCGGGCA 0.80643 -81 CGTGGGCACCCTAGGGGTGGGGGAATTTTT 82 90 0 CTAGGGGTGG 0.530155 -211 TGGGGAATGGCCTGGGGAGAAACTAGCCAA 82 205 1 CCTGGGGAGA 0.93853 -96 GGTTAATGGTCTTGGGGGGATGGCAGTGAT 93 19 0 CTTGGGGGGA 0.965111 -94 TTCAGTCCAGCTTGGGGACATTTACCCAGA 96 47 0 CTTGGGGACA 0.91708 -61 AACTAAGGCCCTGGTGGGGAGTGAAAATCA 100 51 0 CTGGTGGGGA 0.857619 -101 ********** Masking position 6 Map Score: 30.0677 Number of sites scoring better than the average of aligned sites = 1265 Number in coding regions = 1098 Number in noncoding regions = 167 Number of orfs with sites within 600 bp upstream = 183 Fraction of orfs with sites within 600 bp upstream = 0.0293929 Motif number 3 TGACCAACAGGACTGGGCAATTATTATTGACC 6 56 0 GACGGGAATT 0.915005 -140 AGAAAAGGGGAAAATTCCCAATAAC 9 157 0 AAAGGGAAAT 0.883735 -15 CCGTTCCCGTACCAGGGAAAATAACCTGTATG 12 31 1 ACCGGGAAAT 0.943452 -138 CTGGCTTTGGGAAAGGGTAAATGGGGTTATCC 13 133 1 GAAGGGAAAT 0.947895 -134 CCCTGTCCTAGAATGGGGAAATTAGCAGAGCC 14 14 0 GAAGGGAAAT 0.947895 -287 TTAAGCGATGGAATGGGTAATTAGTTATTTAT 17 124 1 GAAGGGAATT 0.848038 -177 TACCTTCTATATCAGGGCAATTCAATCCCAGT 18 27 0 ATCGGGAATT 0.652821 -274 TGTCAAAATTACCCGGGTAAATACTGGTCAAA 25 235 0 ACCGGGAAAT 0.943452 -51 GTGGCATCTATCCAGGGAAAATCCTTGCCGTT 31 73 0 TCCGGGAAAT 0.822626 -96 TAGTTAAAACAGCAGGGAAAATTAAGTATTAA 38 43 0 AGCGGGAAAT 0.734138 -26 GCAGTGGATTTCCAGGGTAAATCCGCCGGAAA 39 115 1 TCCGGGAAAT 0.822626 -186 CCAACCCCTAAAATGGGAAAATAGCCACAGTG 40 124 1 AAAGGGAAAT 0.883735 -57 GAAAATTTCAGTAAGGGCAAATCTAAAGTGCA 48 94 0 GTAGGGAAAT 0.883789 -133 TCTATGGAAAGCACGGGGAAATATTGACTACT 54 65 0 GCAGGGAAAT 0.953916 -194 CAGGTGTTCTAAAGGGGAAAATTTGGATGGCA 58 220 1 AAAGGGAAAT 0.883735 -67 AGAACCGTTGGCCGGGGCAAATAATTACCGAC 71 111 0 GCCGGGAAAT 0.975569 -47 GACGGCGATCGCCGGGGATAATTGACCAACCA 78 18 1 GCCGGGTAAT 0.710541 -129 CTCGTTGGGAGACTGGGAAATTAACTCTAAAT 82 270 0 GACGGGAATT 0.915005 -31 AAGCCGAGTGGAATGGGGAAATTTCATCTGAT 90 78 1 GAAGGGAAAT 0.947895 -133 CCCTAACTCTGTCTGGGTAAATGTCCCCAAGC 96 36 1 GTCGGGAAAT 0.936187 -72 CCAAAGATTTGTCCGGGTAAATTAAGTCTGAC 103 17 0 GTCGGGAAAT 0.936187 -179 TTCTCCATCAAAATGGGCAATTTTTTGGCCGA 109 81 1 AAAGGGAATT 0.699851 -220 *** *** **** Masking position 12 Map Score: 23.0157 Number of sites scoring better than the average of aligned sites = 433 Number in coding regions = 380 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 4 TATTCGATAGGTTGGGACAGGGAGGGTTAAAAGCTTAGCT 6 153 0 GGGGAGGGAA 0.783424 -43 GGGTATTTAGCCTGGGGCAGTATGGGGCAACTCAGGCTAA 11 49 1 CGGGAGGGAA 0.989563 -63 AGGTTATTTTCCCTGGTACGGGAACGGAAAGGGCTAAAAT 12 18 0 CTGGCGCGAA 0.817359 -151 TTACGATCGCCATTGGCTAGCCATGGGAAGCTAAAATACA 13 169 0 CTGGAGGGAG 0.959921 -98 GATTGGCCTGCCAGGGGGCGGAAGGGTTAACAGTGGAAGC 16 79 0 CGGGCGGGAA 0.97861 -68 TATCGGCGCTCAGTGGGGCGACGAGGGAAAAGGTAAAATC 19 182 1 CTGGCGGGAA 0.967855 -57 GCTAGGAAAGCTCTGCCCAAGGTCGGTAAATACCCCATTG 20 56 1 CTGCAAGGAA 0.672984 -245 CATTGGTCAACAAGGCCCAGACCAGGGTAACAAATAAACC 23 42 1 CGGCAGGGAA 0.93374 -85 GTCAAAATTACCCGGGTAAATACTGGTCAAATGCCAAGCA 25 226 0 CGGGAAGGAA 0.954626 -60 CCGGTTTAACCTCCGGTCAGAAAGGGTCAGGAACCAACCC 40 91 1 CCGGAGGGAG 0.740338 -90 CCTAACTCATCATTGCTCCATGGCGGCCAAAAATCTTTAG 43 169 1 CTGCCAGGAA 0.498266 -132 GCCCTGGCTACCTGGGTTAGGATGGGGAAAACCGTCTTTA 45 15 0 CGGGAGGGAA 0.989563 -173 CGGGAGCCAACATTGGCAAGGATTGAGGAGGAACCCGTTA 45 115 0 CTGGAGGAAG 0.64977 -73 GGCGGTGGATAGGCACGGGAAGGCCGAATTTG 48 205 0 CTGGAGGGAG 0.959921 -22 CAGATATCTTCTATGGAAAGCACGGGGAAATATTGACTAC 54 66 0 CTGGAGGGAA 0.984226 -193 TTCCCGTTGGCATGGGCCAGCTTCCTAAAAGCACTCCAGA 55 89 0 CGGGAGCTAA 0.521894 -130 GGCAAGGGAGCAATGGGTCGGTTAGGGAAGGCAAAAGCCA 57 13 1 CTGGCGGGAG 0.920368 -145 TGCTTGAGGCCAATGGATATCAATGGTTAAAGAAGGAAGG 73 18 0 CTGGATGGAA 0.909564 -82 GCTAGGAATGCCATGGAACAATGGGGGTAACTTGGTTGGG 77 71 1 CTGGCAGGAA 0.869816 -73 GCGATCGCCGCCTGGGGAATCCCAGAAAAAATTAGAGAGA 82 11 0 CGGGATGAAA 0.542089 -290 CTAGGGTGCCCACGGCCCAGTCAGGGTTAAGAAATAGCCT 82 106 1 CGGCAGGGAA 0.93374 -195 CCTTAACCTCCTGGGGATAAAATCCGCTAACTGGGGGAAT 82 151 1 CGGGAACGAA 0.757701 -150 AATCCGCTAACTGGGGGAATCACTGGGGAAAGTCTGGGGA 82 171 1 CGGGATGGAA 0.938586 -130 TGGGGAAAGTCTGGGGAATGGCCTGGGGAGAAACTAGCCA 82 194 1 CGGGTGGGAG 0.662298 -107 CGGTAAACAGCGAGGGGTAGTTGAGGAAAACAAATAACTT 85 18 1 CGGGAGGGAA 0.989563 -283 CGCCAACATTCTCTGGCACAATGGGGCCAAGCAATGAGCT 86 15 1 CTGGCAGGAA 0.869816 -48 AACTCTCCCTCTTGGGCAAGCCGAGTGGAATGGGGAAATT 90 61 1 CGGGAGGTAA 0.880155 -150 TCGACCACCACATTGGACAATCGGGGATAACGGCT 93 88 1 CTGGAAGGAA 0.932641 -25 GGGGTTCTGGCATGGGTAAGGGATGGAAAAATTCGGCTAG 95 224 1 CGGGAGGGAA 0.989563 -77 AAGTTCATATCCCTGGCGATCGGGGTCTAACTAGTTGGCA 99 32 1 CTGGATGTAA 0.437909 -87 ACCTTGGCAATCCGTCGGTAAAGTTGTCATT 106 93 0 CTGGATCGAA 0.599182 -21 AACCCAGTTTCTTTGGGCAGTCTTGATCAACCAAGAGTAA 108 52 1 CTGGAGGAAA 0.828565 -155 * *** ** ** ** Masking position 19 Map Score: 44.2576 Number of sites scoring better than the average of aligned sites = 860 Number in coding regions = 744 Number in noncoding regions = 116 Number of orfs with sites within 600 bp upstream = 129 Fraction of orfs with sites within 600 bp upstream = 0.0207196 Motif number 5 CTTCCCATGGCTAGCCAATGGCGATCGTAAAGA 13 179 1 CACAATGGCG 0.927176 -88 TTCTTTTGGCTGTTACAACGGGGTCAATGTTGC 14 70 0 TTCAACGGGG 0.724246 -231 TTTTTAAGAACCATTCAACGGCGTAGGTTCATC 14 266 1 CACAACGGCG 0.765406 -35 CCCCCCAGAATAATCCCAGGGGGTTGATAGTTG 23 92 1 TACCAGGGGG 0.7045 -35 TTCCAACTGCCAAGGCAATGGCGTTTTCCAGGT 34 21 0 CACAATGGCG 0.927176 -89 GCTAAGCCTCCCTGACAATGGGGACAAAACAGG 39 231 0 CTCAATGGGG 0.959899 -70 GGAGTTAAAACTAAGCCATGGGGAGTCCAAAAT 40 60 0 CACCATGGGG 0.942996 -121 CTGCGGTTCCCTATGCAAGGGGGACTAAGTGCT 42 20 1 CACAAGGGGG 0.936185 -168 TAACTCATCATTGCTCCATGGCGGCCAAAAATC 43 171 1 TGCCATGGCG 0.645842 -130 TACAAAACAATTAATCAATGGGGAACTATTCTA 46 34 1 TACAATGGGG 0.949138 -67 TCAGAACAATGGGGAAGACATAAA 50 74 0 CGCAATGGGG 0.974628 -14 CTTCAATTTTCATGGCATCGGGGAGAGCATTGA 58 103 0 CTCATCGGGG 0.455105 -184 TAAACTATGATGGGGCCATGGGGTTAGGGTTTC 71 32 0 TGCCATGGGG 0.861929 -126 AGGAATGCCATGGAACAATGGGGGTAACTTGGT 77 74 1 TGCAATGGGG 0.942684 -70 CTTGGTTTTACTATTCAATGGGAGAAATGGTTG 78 44 0 CACAATGGGA 0.710115 -103 AATTTGAACCCATTACCAGGGCGGATGCCAAAC 79 31 1 CTCCAGGGCG 0.471832 -270 GCTCGAAGGTCAACTAAATGGGGCCGATTCGCT 83 197 0 CAAAATGGGG 0.785187 -98 AGAGAAAAATTTGCTCAATGGGGGCTGGGGAAG 84 12 1 TGCAATGGGG 0.942684 -273 CAACATTCTCTGGCACAATGGGGCCAAGCAATG 86 18 1 TGCAATGGGG 0.942684 -45 GGCTATAACTTCAATCAATGGGAGGATAACATT 91 250 1 TACAATGGGA 0.51192 -44 TAACCGAGTATGGCAAAATGGGGCTTAATTCGA 93 44 1 TGAAATGGGG 0.579719 -69 CGGGGGCCAGCTTGGCATTGGGGACAACAAAAA 95 132 1 CTCATTGGGG 0.765214 -169 ACAGTATCCTCAACCCAAGGGGGAGGAGTGGGG 95 177 1 CACAAGGGGG 0.936185 -124 ATCGCCGTAGTTTACCAATGGGGTGAATGGGGC 95 272 1 TTCAATGGGG 0.911102 -29 GCCTCGATAACAAAAAAATGGGGCTTAATTGTG 98 34 1 CAAAATGGGG 0.785187 -267 AGACTACCGCCTAATCAATGGCGAAGTTTACAA 102 45 0 CACAATGGCG 0.927176 -31 ATAACCTCTCCCTGCCATTGGGGGTATGCCCGC 103 109 1 CTCATTGGGG 0.765214 -87 * * ******** Masking position 10 Map Score: 28.7233 Number of sites scoring better than the average of aligned sites = 950 Number in coding regions = 805 Number in noncoding regions = 145 Number of orfs with sites within 600 bp upstream = 154 Fraction of orfs with sites within 600 bp upstream = 0.024735 Motif number 6 ACAGATTAAACCAGGCCCGACGGAAAAACC 5 33 1 CCAGGCCCGA 0.860993 -50 TTTCTGCAATCCAATGCCGATGATAACGCG 9 100 0 CCAATGCCGA 0.866161 -72 TTACCCTTTCCCAAAGCCAGAGTACCCTAG 13 123 0 CCAAAGCCAG 0.516525 -144 CCATGGCTAGCCAATGGCGATCGTAAAGAT 13 183 1 CCAATGGCGA 0.481962 -84 AAAGCTCTGCCCAAGGTCGGTAAATACCCC 20 62 1 CCAAGGTCGG 0.90563 -239 CGAGATCAAGCCAGTGCCGGTCAATGAGAC 44 51 1 CCAGTGCCGG 0.935934 -53 ACCCAGGTAGCCAGGGCCAACCCATTCTCG 45 38 1 CCAGGGCCAA 0.772574 -150 CTAAATACTGCCAAGCCTAGGCTTCCAGTG 45 77 0 CCAAGCCTAG 0.775556 -111 TCAATCCTTGCCAATGTTGGCTCCCGCTGA 45 129 1 CCAATGTTGG 0.531171 -59 ACAGTCCTGGCCAATCCTAACTAAGCTATG 48 47 0 CCAATCCTAA 0.342133 -180 TTTTTGATTGCCAAGGCTGGCCAATAGATT 53 45 0 CCAAGGCTGG 0.735815 -194 AGGAAGCTGGCCCATGCCAACGGGAAGTTC 55 103 1 CCCATGCCAA 0.408246 -116 GGGTTCCAAGGTCAAACATTGATCA 59 6 1 CCAAGGTCAA 0.558333 -131 ACAGAGCATGCCAACCCCAGCAAGGGAGCT 62 50 0 CCAACCCCAG 0.823125 -73 GACAGGCTGGCCCGGGCCGGCGCAATTTTT 63 124 1 CCCGGGCCGG 0.863719 -70 GATCGGTTTCCCAAGCCAGGACAACATCTA 72 42 1 CCAAGCCAGG 0.544509 -52 AATAGTAAAACCAAGCCCGGTCTACTCTTT 78 62 1 CCAAGCCCGG 0.962561 -85 GCGTGCAATTCCAAGCCCAGGAAGCTAGCA 78 92 0 CCAAGCCCAG 0.944004 -55 CCTTAAAATCCCCGGCCCGGCGTAGAAACC 79 85 0 CCCGGCCCGG 0.840007 -216 AAGGGTTTATCCAGGCTCAGGGTAGCGCAA 79 248 0 CCAGGCTCAG 0.704642 -53 AAAAAATCAGCCAATGCCGGTTAGGAAAAT 83 57 1 CCAATGCCGG 0.959558 -238 TTTATGGTTGCCAAGCTCGACAGCAGAGCA 84 46 1 CCAAGCTCGA 0.697788 -239 GAAGTAAAAACCAGCCCTAGAATATTCTCT 84 203 1 CCAGCCCTAG 0.365744 -82 GCAACTTTACCCAATGTCGGAACAAGAAGA 88 12 1 CCAATGTCGG 0.844939 -289 GTCCACAGTCCCAGGGGCGGCACAAACAGT 88 41 0 CCAGGGGCGG 0.796571 -260 TCCAGGCCCACCAACCCTGACCACATTCAC 95 19 1 CCAACCCTGA 0.366157 -282 TCGGCGATCGCCAGTGTTGGGGGATGATCG 95 78 0 CCAGTGTTGG 0.404314 -223 GCCGATTGATCCAAGCCCGGAGGGCCTGAC 95 103 1 CCAAGCCCGG 0.962561 -198 TTTGTTGTCCCCAATGCCAAGCTGGCCCCC 95 133 0 CCAATGCCAA 0.747337 -168 CCATCCCTTACCCATGCCAGAACCCCATGG 95 220 0 CCCATGCCAG 0.716859 -81 GTCAAAAGCTCCAACCCCAGTTAGGTCAAT 98 135 0 CCAACCCCAG 0.823125 -166 GGGCATACCCCCAATGGCAGGGAGAGGTTA 103 110 0 CCAATGGCAG 0.609448 -86 AACCTTCTCCCCAATCTTGGTTCGGCCAAA 109 104 0 CCAATCTTGG 0.479171 -197 ********** Masking position 2 Map Score: 22.1519 Number of sites scoring better than the average of aligned sites = 2764 Number in coding regions = 2598 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 7 GTCAATAATAATTGCCCAGTCCTGTTGGTC 6 57 1 ATTGCCCAGT 0.805356 -139 AACGAAATTTATCGCCCAATACTTTACAGC 7 123 1 ATCGCCCAAT 0.701739 -42 GAAGGTCTTGTTTGCCCAATAGCCTTTATC 12 96 1 TTTGCCCAAT 0.929177 -73 GTGGCGATCGTTTGCTCAATCTACTTTTGT 18 94 0 TTTGCTCAAT 0.795285 -207 AAGTACACCAACTGCTCAATATCTGAAGCT 18 145 0 ACTGCTCAAT 0.71481 -156 ATACAAAATATTTGCTCAATAAGAAATGCA 18 276 1 TTTGCTCAAT 0.795285 -25 CTAGGAAAGCTCTGCCCAAGGTCGGTAAAT 20 57 1 TCTGCCCAAG 0.722234 -244 AAAAGTATGCTCCGCCCAATGGATAAAATC 28 71 1 TCCGCCCAAT 0.86937 -230 GGCAGATCCATTTGCTCAGATATTTTTCAA 32 218 0 TTTGCTCAGA 0.61514 -83 AGAGAATCTGCCCAAAAGATTAGGTT 35 7 1 TCTGCCCAAA 0.917021 -50 GAGCACTGTTTCCGCCCAATAAACTCCTCC 39 46 0 TCCGCCCAAT 0.86937 -255 GAGTCCAAAATCTGCCCACTGCGGTGACAT 40 41 0 TCTGCCCACT 0.693301 -140 CCAACGAATTTTTGCCCAGATTAGCGCCAA 43 97 0 TTTGCCCAGA 0.843615 -204 GCTAGCTTGTATTGCCCAAACCTAACTCAT 43 149 1 ATTGCCCAAA 0.796219 -152 GGTATCGCTTTCCGCTCAGTTAACGACTCC 55 172 0 TCCGCTCAGT 0.564255 -47 TCCTGAGCTCTTTGCCCAGTATTTGCAAAC 73 74 1 TTTGCCCAGT 0.896465 -26 TGGCTGATTTTTTGCCCAAAAAACATATTC 83 40 0 TTTGCCCAAA 0.890992 -255 GACCGGAAAAACTGCCCAGTTGCCAAGCCC 83 240 0 ACTGCCCAGT 0.848306 -55 TAGAGAAAAATTTGCTCAATGGGGGCTGGG 84 11 1 TTTGCTCAAT 0.795285 -274 ACGGATATTTTTTGCTCAAAAATAGTTAAA 107 46 1 TTTGCTCAAA 0.707871 -34 AATTTTCCTTACTGCCCAAATTCC 108 5 0 ACTGCCCAAA 0.840834 -202 GTTGATCAAGACTGCCCAAAGAAACTGGGT 108 53 0 ACTGCCCAAA 0.840834 -154 ********** Masking position 8 Map Score: 16.8085 Number of sites scoring better than the average of aligned sites = 677 Number in coding regions = 598 Number in noncoding regions = 79 Number of orfs with sites within 600 bp upstream = 90 Fraction of orfs with sites within 600 bp upstream = 0.0144555 Motif number 8 TCAGCCCAGGGGACAAAAACTTCCTGAAGC 8 57 0 GGACAAAAAC 0.623949 -44 ACTCGTTTTCGGTCAGAAAAGCACGTATGA 17 209 1 GGTCAGAAAA 0.838283 -92 ACTGCTCCTGGGGCAAGAATTAATTTTTGC 20 279 0 GGGCAAGAAT 0.600401 -22 GTGGGGCATTGGTCAACAAGGCCCAGACCA 23 36 1 GGTCAACAAG 0.784731 -91 AAGTTTTAGTGGTCAGAAAAAGCCCACGAG 27 23 1 GGTCAGAAAA 0.838283 -121 CAAAAAGTAGGGACAAAAAGGCTTTGAAGT 28 18 0 GGACAAAAAG 0.809881 -283 CCTTGAATGTGGTCAGCAAAAAGTAGGGAC 28 34 0 GGTCAGCAAA 0.741405 -267 CCTAGGATGTGGTCAGGAAAACTAGACATT 31 144 0 GGTCAGGAAA 0.741405 -25 AGTTTATTTTGGTCAACAAGGCAGTGGATT 39 95 1 GGTCAACAAG 0.784731 -206 GTGACATGATGGACAAAAAACTTCGGAGTT 40 18 0 GGACAAAAAA 0.766721 -163 TTTAACCTCCGGTCAGAAAGGGTCAGGAAC 40 95 1 GGTCAGAAAG 0.87044 -86 GGTCAGAAAGGGTCAGGAACCAACCCCTAA 40 105 1 GGTCAGGAAC 0.591396 -76 GCGCTAATCTGGGCAAAAATTCGTTGGTTT 43 100 1 GGGCAAAAAT 0.730933 -201 AACCAATGATGGACAAAAAAAATATCGTCA 58 188 1 GGACAAAAAA 0.766721 -99 TAGATGGCTTGGTCAAGAATCTGTTTTGTA 61 44 0 GGTCAAGAAT 0.5916 -257 ACAAACTAATGGACAAAAAAATCGCATCTC 61 116 0 GGACAAAAAA 0.766721 -185 TCTATGGCAAGGGCAAAAACAATCGTTTAA 74 16 1 GGGCAAAAAC 0.726977 -166 AGGCGAATTGGGGCAGAAATACGCCGTAGC 76 24 0 GGGCAGAAAT 0.734688 -112 TATGTTTTTTGGGCAAAAAATCAGCCAATG 83 43 1 GGGCAAAAAA 0.840625 -252 CAGTTTTTCCGGTCAGCAATTATGGTTGCA 83 256 1 GGTCAGCAAT 0.596225 -39 TTTCAACCCCGGTCAAGAAGTTTTGTGAAA 85 168 1 GGTCAAGAAG 0.784731 -133 GGTCTGGTTAGGGCAAAAAGTTAACAACGG 87 133 0 GGGCAAAAAG 0.872387 -28 TTGGCATTGGGGACAACAAAAACCCCTGGC 95 143 1 GGACAACAAA 0.645122 -158 TGGTGAGCGGGGACAGAAAGACTTAAAATT 98 95 1 GGACAGAAAG 0.812816 -206 GGAATTTGGGCAGTAAGGAAAATTGTG 108 8 1 GGGCAGTAAG 0.373537 -199 ATCTTGGTTCGGCCAAAAAATTGCCCATTT 109 91 0 GGCCAAAAAA 0.466089 -210 ********** Masking position 5 Map Score: 16.8874 Number of sites scoring better than the average of aligned sites = 732 Number in coding regions = 612 Number in noncoding regions = 120 Number of orfs with sites within 600 bp upstream = 133 Fraction of orfs with sites within 600 bp upstream = 0.021362 Motif number 9 GCCCCATACTGCCCCAGGCTAAATACCCTC 11 47 0 GCCCCAGGCT 0.664452 -65 CGGCAAGTTCTCCCCAGGAATAATAGTCCA 17 75 0 TCCCCAGGAA 0.953073 -226 CCAGTGTCGCCCCCCAGGCGATCGCCATCA 20 212 1 CCCCCAGGCG 0.806162 -89 ATTAATTCTTGCCCCAGGAGCAGTCC 20 285 1 GCCCCAGGAG 0.964172 -16 AATAGTTGTCTCCCAAGGAGAACTGTTTTT 25 164 0 TCCCAAGGAG 0.926884 -122 TGAGGGCGAATCCCCAGGCACACCTCAGAG 49 43 1 TCCCCAGGCA 0.94992 -183 TTGAAGCAGTGCCCAGGCAGATTTTGCCTG 53 102 1 GCCCAGGCAG 0.60551 -137 TAACCGTCCATCCACAGGAGTCCAACGCCC 56 236 1 TCCACAGGAG 0.776321 -22 CTGCATTTCTTCCAAAGGAGCATCAAAGTC 58 255 0 TCCAAAGGAG 0.572683 -32 ACAGTCTACCGCCCAAGGAGAAGGCCCCAT 59 64 0 GCCCAAGGAG 0.912222 -73 AAGGAATACAGCCCTAGGAATATGAGACGA 69 63 0 GCCCTAGGAA 0.503929 -28 GTAATTATTTGCCCCGGCCAACGGTTCTAG 71 115 1 GCCCCGGCCA 0.697132 -43 GGGAAACCGATCCCCAGCAGAGTTTTGCAA 72 24 0 TCCCCAGCAG 0.908358 -70 GGGATCGGTTTCCCAAGCCAGGACAACATC 72 40 1 TCCCAAGCCA 0.689089 -54 AACGGCATAATCCCCGGGAACATTTACCAA 79 166 0 TCCCCGGGAA 0.90708 -135 TTTCTGGGATTCCCCAGGCGGCGATCGCCA 82 23 1 TCCCCAGGCG 0.968396 -278 GCGGATTTTATCCCCAGGAGGTTAAGGTTT 82 148 0 TCCCCAGGAG 0.970426 -153 GGCTAGTTTCTCCCCAGGCCATTCCCCAGA 82 203 0 TCCCCAGGCC 0.781592 -98 TAGACTGACTGCCCAGGGAAAAATTCACTT 85 140 1 GCCCAGGGAA 0.759178 -161 TCAGACCGAATCCACAGGCATTTTGTTTTT 88 160 1 TCCACAGGCA 0.667747 -141 ATCTTCAAGATCCCAAGGAAAGATTTTT 94 9 0 TCCCAAGGAA 0.887146 -92 GGGAGAAGGTTCCCAGGCAAAGTATTGTAA 109 123 1 TCCCAGGCAA 0.53727 -178 ********** Masking position 7 Map Score: 20.5073 Number of sites scoring better than the average of aligned sites = 1363 Number in coding regions = 1232 Number in noncoding regions = 131 Number of orfs with sites within 600 bp upstream = 157 Fraction of orfs with sites within 600 bp upstream = 0.0252168 Motif number 10 AGAAAAGGGGAAAATTCCCAATAACAAC 9 154 0 GGAAAATTCC 0.933832 -18 AACAGCCAAAAGAAAAATCCCCTCAGATCGT 14 89 1 AGAAAATCCC 0.895511 -212 CGAGGGAAAAGGTAAAATCACCGACTTATTA 19 203 1 GGAAAATCAC 0.590527 -36 AAATCCCCCCAGAATAATCCCAGGGGGTTGA 23 88 1 AGATAATCCC 0.594379 -39 TTTAGTGGTCAGAAAAAGCCCACGAGCTTAC 27 27 1 AGAAAAGCCC 0.490335 -117 CATCTATCCAGGGAAAATCCTTGCCGTTCAC 31 70 0 GGAAAATCCT 0.523578 -99 CGCTAATCTGGGCAAAAATTCGTTGGTTTTC 43 101 1 GGAAAAATTC 0.43004 -200 TTTTTCAGAGGGAAAAATTCCTCGGCTAAAT 43 239 1 GGAAAATTCC 0.93573 -62 CATTATGTCAAGGAAAATTTCAGTAAGGGCA 48 107 0 AGAAAATTTC 0.471956 -120 CTCCAGAATAGGGAAAAACCCACAGATCCTA 55 65 0 GGAAAAACCC 0.878599 -154 GATCAAGACAAGGAAAATTCCATTCTTCAGG 59 31 1 AGAAAATTCC 0.816257 -106 CAGGGGTGAAGGTAAATTTCCAGAATTCCTT 63 69 1 GGAAATTTCC 0.480789 -125 AGTCAGAAAAATTCCCTGGGGGCAC 69 5 1 AGAAAATTCC 0.81632 -86 GTTCTAAAACGGCATAATCCCCGGGAACATT 79 172 0 GGATAATCCC 0.832012 -129 CTTGGGCCCAGATAAAATCCCATAGGAGACT 79 209 0 GAAAAATCCC 0.524227 -92 TGACTGCCCAGGGAAAAATTCACTTTCAACC 85 145 1 GGAAAAATTC 0.43004 -156 TAGAAGAATTGGAAAAATCTCGCCGATATTA 91 124 1 GGAAAATCTC 0.853852 -170 CATTCACACTGGTAAAATTCCTGCCATTTGC 95 42 1 GGAAAATTCC 0.937728 -259 AGCTTGACTAGGCAAAATTCCCCACACCAGT 98 213 0 GGAAAATTCC 0.937728 -88 AGCAAAAACCCCGACAGTCCA 99 1 1 AGAAAAACCC 0.681087 -118 AGGTAATATTGGAAAAATCTCCCAAAATATC 105 71 1 GGAAAATCTC 0.853852 -38 AAAGGTTCTGGGAATAATCCCGTTGCTGTTT 109 154 1 GGATAATCCC 0.805193 -147 ** ******** Masking position 6 Map Score: 16.4522 Number of sites scoring better than the average of aligned sites = 936 Number in coding regions = 815 Number in noncoding regions = 121 Number of orfs with sites within 600 bp upstream = 134 Fraction of orfs with sites within 600 bp upstream = 0.0215226 Motif number 11 GGTGCTCAAGCCCTCTAATCCCATAATTTTC 4 58 0 CCCTCAATCC 0.700132 -45 AGGCTAAATACCCTCTCATCCTGAGGCAGTG 11 31 0 CCCTCCATCC 0.716678 -81 CTTTAAAAGCCCCCCTGACCCCCAAATTTAG 14 131 1 CCCCCGACCC 0.66169 -170 CCTAAGTACACCAACTGCTCAATATCTGAAG 18 147 0 CCAACGCTCA 0.353232 -154 TCGCCCTATTCCAACAACTCCGGCCCAGTGT 20 188 1 CCAACACTCC 0.637203 -113 TGACCAATGCCCCACCACTACCCGCTATTAC 23 20 0 CCCACACTAC 0.485631 -107 GTCCATGGTGCCCATCGCTCCGACCATCAGG 28 184 0 CCCATGCTCC 0.941876 -117 TAAGTTCCAGCCCTCGACCCCTAAGTGAACG 31 46 1 CCCTCACCCC 0.81763 -123 TCGACTAATACCCATAGCTCAACTAACCAT 36 16 1 CCCATGCTCA 0.65664 -20 TATATTTTGACCCACTGCTCCGCTTAATTTT 43 68 1 CCCACGCTCC 0.983459 -233 TGGGGATTCGCCCTCACCTCCAGTATAAATT 49 28 0 CCCTCCCTCC 0.873134 -198 ATTTCATGAGCCCACAAATCCCAAGCTTCTT 55 35 1 CCCACAATCC 0.8924 -184 TAGGGAAAAACCCACAGATCCTAAGAAGCTT 55 57 0 CCCACGATCC 0.956241 -162 CCCTAACCGACCCATTGCTCCCTTGCCCT 57 9 0 CCCATGCTCC 0.941876 -149 AAACCCTAACCCCATGGCCCCATCATAGTTT 71 33 1 CCCATGCCCC 0.919592 -125 CCAAGTTACCCCCATTGTTCCATGGCATTCC 77 75 0 CCCATGTTCC 0.516282 -69 CCCTAGGGTGCCCACGGCCCAGTCAGGGTTA 82 104 1 CCCACGCCCA 0.831995 -197 CTGCTCCAGGCCCACCAACCCTGACCACATT 95 15 1 CCCACAACCC 0.854087 -286 AGTCTTTGACCCCACTCCTCCCCCTTGGGTT 95 188 0 CCCACCCTCC 0.960704 -113 TCATCGGCCCCATTCACCCCATTGGTAAA 95 282 0 CCCATCACCC 0.633482 -19 ***** ***** Masking position 2 Map Score: 15.9639 Number of sites scoring better than the average of aligned sites = 962 Number in coding regions = 872 Number in noncoding regions = 90 Number of orfs with sites within 600 bp upstream = 115 Fraction of orfs with sites within 600 bp upstream = 0.0184709 Motif number 12 CTGCTAATTTCCCCATTCTAGGACAGGGGCC 14 18 1 CCCCATTCAG 0.946235 -283 CTAGGTTTCGCCCTATTCCAACAACTCCGGC 20 181 1 CCCTATTCAA 0.572237 -120 AGCCTAATAACCCTAATCCAGTGGGGATCAG 22 79 1 CCCTAATCAG 0.533008 -24 GCAAATAATGCCCCCACCAAACTGGCGATCG 25 198 0 CCCCCACCAA 0.593596 -88 TTTTTGCTGACCACATTCAAGGTCCAACCAA 28 42 1 CCACATTCAG 0.715599 -259 GTTTTCCTGACCACATCCTAGGTACCT 31 152 1 CCACATCCAG 0.879231 -17 AGACGGTTTTCCCCATCCTAACCCAGGTAGC 45 18 1 CCCCATCCAA 0.950803 -170 AATTTTCCGCCCCCATCTTAGCGCAGATTTG 49 179 0 CCCCATCTAG 0.845345 -47 AATCTCTATGCCCCATCTCAACTTGCCTGAT 57 67 0 CCCCATCTAA 0.674745 -91 CTATACCACTCCCCATTAAAAG 66 63 1 CCCCATTAAA 0.417582 -12 AACCCCATGGCCCCATCATAGTTTATTTTTA 71 40 1 CCCCATCAAG 0.845345 -118 CACGACTGGGCCCTAACCCAGACCG 74 167 1 CCCTAACCAG 0.767573 -15 AAGGTTTAACCCCCAACCAAGTTACCCCCAT 77 91 0 CCCCAACCAG 0.942823 -53 TGTGGACGCTCCCCCTCCAAGCCAATCGGCA 88 64 1 CCCCCTCCAG 0.922388 -237 GATGAAATTTCCCCATTCCACTCGGCTTGCC 90 75 0 CCCCATTCAC 0.672699 -136 TGGTCAATACCCCCATCCAAAATATTGATGC 97 22 0 CCCCATCCAA 0.950803 -74 TTTAAATTTGCCATATCCTAGCGGTTTTTCT 109 54 1 CCATATCCAG 0.593173 -247 ******** ** Masking position 10 Map Score: 9.07991 Number of sites scoring better than the average of aligned sites = 578 Number in coding regions = 523 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 64 Fraction of orfs with sites within 600 bp upstream = 0.0102795 Motif number 13 CATTGGTCAACAAGGCCCAGACCAGGGTAA 23 42 1 CAAGGCCCAG 0.94264 -85 CATGTCACCGCAGTGGGCAGATTTTGGACT 40 40 1 CAGTGGGCAG 0.756657 -141 GCAAAATTTGCAAGGCCCAGCTTGACAGTA 42 125 0 CAAGGCCCAG 0.94264 -63 ATCACAATTCTAGGGGACAGTTTAAAAACG 51 31 1 TAGGGGACAG 0.540842 -84 GGTTTTGAAGCAGTGCCCAGGCAGATTTTG 53 98 1 CAGTGCCCAG 0.958598 -141 AGGTCTGAAACAGTGGCCAGTAGTCAATAT 54 47 1 CAGTGGCCAG 0.963727 -212 TTCCCGTTGGCATGGGCCAGCTTCCTAAAA 55 99 0 CATGGGCCAG 0.867872 -120 CATTTTAAAGCAGGGGACAGTCTACCGCCC 59 80 0 CAGGGGACAG 0.902801 -57 CCAGTGACCAGATCAACCTGG 71 2 1 CAGTGACCAG 0.775406 -156 CGGTCTGGGTTAGGGCCCAGTCGTGCAAAG 74 162 0 TAGGGCCCAG 0.893984 -20 CTAGGGTGCCCACGGCCCAGTCAGGGTTAA 82 106 1 CACGGCCCAG 0.906341 -195 GACACGTCAACAATGCCCAGAGCAATTCAC 88 263 0 CAATGCCCAG 0.868274 -38 GAGGGCCTGACGGGGGCCAGCTTGGCATTG 95 122 1 CGGGGGCCAG 0.91304 -179 ********** Masking position 9 Map Score: 8.8025 Number of sites scoring better than the average of aligned sites = 440 Number in coding regions = 404 Number in noncoding regions = 36 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405 Motif number 14 AGCGGGCCTTTTTTTGTTGGATGGTGCGGA 5 63 1 TTTTTGTTGG 0.893581 -20 CTAGCGCACTTTTTTTCTGGAGCGCCACCC 19 68 0 TTTTTTCTGG 0.885987 -171 CGGTCTGGTTTTTTTGCTGGCTAGGAAAGC 20 37 1 TTTTTGCTGG 0.959532 -264 CAAGAATTAATTTTTGCTGGCAACTCTAGT 20 266 0 TTTTTGCTGG 0.959532 -35 GTAGCCCTGTTTTTTATTGGCCCCC 21 6 0 TTTTTATTGG 0.815321 -20 TCTGGGGGGATTTTTATTGGGTTTATTTGT 23 71 0 TTTTTATTGG 0.815321 -56 CGGAGCATACTTTTGGTTGGACCTTGAATG 28 55 0 TTTTGGTTGG 0.709074 -246 ACGTTAAAAATTTTTACTGGTATGTTAAGT 32 281 0 TTTTTACTGG 0.925741 -20 CTCAGCAAAATTTTGACTGGAACCTATGGC 44 20 0 TTTTGACTGG 0.783481 -84 TAATTACTTAATTTTGCTGGCTGGTTCAGC 45 154 0 ATTTTGCTGG 0.874042 -34 TCTCTCTAATTTTTTCTGGGATTCCCCAG 82 10 1 TTTTTTCTGG 0.885987 -291 TAGTAGGAATATTTTTCTGGCGATCGCCGC 82 40 0 ATTTTTCTGG 0.694586 -261 ATATAAGACGTTTTTGTTGGTTGCCACTGC 85 69 0 TTTTTGTTGG 0.893581 -232 AGAAATCATCATTTTACTGGTGAACTTTCA 91 182 1 ATTTTACTGG 0.784873 -112 ********** Masking position 4 Map Score: 10.6148 Number of sites scoring better than the average of aligned sites = 275 Number in coding regions = 231 Number in noncoding regions = 44 Number of orfs with sites within 600 bp upstream = 46 Fraction of orfs with sites within 600 bp upstream = 0.00738837 Motif number 15 CCATTGAACATAGGGGATGGGTATCAAAGAC 18 222 1 TAGGGGTGGG 0.766731 -79 GGCGATCGCCTGGGGGGCGACACTGGGCCGG 20 207 0 TGGGGGCGAC 0.708781 -94 GCGATATTTTCGGGGAGTGGCATCTATCCAG 31 90 0 CGGGGATGGC 0.79994 -79 TTTCCCATTTTAGGGGTTGGTTCCTGACCCT 40 113 0 TAGGGGTGGT 0.87054 -68 CAGAGATACATGGGGAATGTCCATCGTCCCA 46 79 0 TGGGGATGTC 0.798702 -22 AAGTGCAGATTAGGGACTGGAGAAACAGTCC 48 70 0 TAGGGATGGA 0.63564 -157 GAGGTGTGCCTGGGGATTCGCCCTCACCTCC 49 38 0 TGGGGATCGC 0.700946 -188 GATTCCTGAGTGGGGACTGATATTTGTTTAC 52 76 1 TGGGGATGAT 0.800406 -52 TCAGAATAAATAGGGGAAGGTATCGCTTTCC 55 189 0 TAGGGGAGGT 0.577107 -30 AATATGGATATGGGGACAGGCTGGCCCGGGC 63 110 1 TGGGGAAGGC 0.889752 -84 CTTTTAATGGGGAGTGGTATAGCACCGC 66 57 0 TGGGGATGGT 0.945901 -18 AAAACTCTGCTGGGGATCGGTTTCCCAAGCC 72 28 1 TGGGGACGGT 0.792983 -66 GGGGAATCACTGGGGAAAGTCTGGGGAATGG 82 184 1 TGGGGAAGTC 0.446054 -117 GGGGAAAGTCTGGGGAATGGCCTGGGGAGAA 82 195 1 TGGGGATGGC 0.97547 -106 ATTTGCTCAATGGGGGCTGGGGAAGATTTAT 84 20 1 TGGGGGTGGG 0.912359 -265 TTTTTAGGGATAGGGATTGATCGGTGCTCTG 84 69 0 TAGGGATGAT 0.558726 -216 AAGGATTCAGTAGGGGGTGGCTCGGCGATCG 87 43 1 TAGGGGTGGC 0.938627 -118 TAATGGTCTTGGGGGGATGGCAGTGATGTCA 93 15 0 GGGGGGTGGC 0.829653 -98 TCGCCAGTGTTGGGGGATGATCGACGGCGCA 95 70 0 TGGGGGTGAT 0.830065 -231 AAGGCCCTGGTGGGGAGTGAAAATCAATAAC 100 46 0 TGGGGATGAA 0.558935 -106 ACTGGATTTCTAGGGGTTGGCACAAAACTTA 100 113 1 TAGGGGTGGC 0.938627 -39 ****** **** Masking position 5 Map Score: 14.8757 Number of sites scoring better than the average of aligned sites = 849 Number in coding regions = 755 Number in noncoding regions = 94 Number of orfs with sites within 600 bp upstream = 97 Fraction of orfs with sites within 600 bp upstream = 0.0155798