AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00650_synecho_reg_100.orf -o00650_synecho_100.ace -a/home/amcguire/alignace/lib/ORF_synecho.txt -z/skink1/amcguire/genomes/synecho.fna -g0.48 -x5 -e Parameter values: expect = 5 ncols = 10 npass = 1000 maxnpass = 100 nruns = 1000 maxnruns = 100 repeat = 15 maxreps = 3 nread = 500 ncycles = 1 fragment = 1 psfact = 0.1 gcback = 0.48 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 sll1641 157 gad; glutamate decarboxylase. [EC:4.1.1.15] #2 slr1233 47 frdA; succinate dehydrogenase flavoprotein subunit. [EC:1.3.99.1] #3 ssr2049 51 bchB; protochlorophillide reductase 57 kD subunit. #4 slr1234 45 hypothetical hit-like protein slr1234. [SP:YHIT_SYNY3] #5 slr1235 36 hypothetical protein. #6 slr1236 66 hypothetical protein. #7 ssl2250 221 glycoprotein 64. #8 sll1625 293 sdhB; succinate dehydrogenase iron- sulphur protein subunit. #9 sll1605 262 fabZ; (3R)-hydroxymyristol acyl carrier protein dehydrase. #10 slr2088 213 ilvG; acetohydroxy acid synthase. [EC:4.1.3.18] #11 sll1981 299 ilvB; acetolactate synthase. [EC:4.1.3.18] #12 ssr1391 77 hypothetical protein. #13 slr0820 145 glucosyltransferase. #14 slr1934 123 pyruvate dehydrogenase E1 component, alpha subunit. [EC:1.2.4.1] #15 slr0370 171 gabD; succinate-semialdehyde dehydrogenase (NADP+). [EC:1.2.1.16] #16 slr0776 107 lpxD; UDP-3-o-[3-hydroxymyristoyl] glucosamine n-acyltransferase. #17 sll0065 181 ilvN; acetolactate synthase. [EC:4.1.3.18] #18 sll0823 166 sdhB; succinate dehydrogenase iron-sulfur protein. [EC:1.3.99.1] #19 slr0092 117 hisB; hypothetical protein. #20 sll0481 71 hypothetical protein. [SP:Y481_SYNY3] #21 sll0480 182 hypothetical protein. #22 slr1556 152 ddh; 2-hydroxyaciddehydrogenase. [EC:1.1.1.-] Motif number 1 TTACAAGTTACTTTTGCCGGGGTCTACCCCCT 7 68 0 CTTTGCCGGG 0.976627 -154 AAATCATTCGCTGCCCCCTGGGCATTAACCCA 8 54 1 CTCCCCCGGG 0.995612 -240 ATTTTAGGGGCGATCGCCTTGGGAATTTTAGT 8 121 1 CGTCGCCTGG 0.942327 -173 GCCCATATTGCTTTTCCCAGGGTATTTCCT 8 274 1 CTTTCCCGGG 0.98567 -20 GCCCATTGGGATCCCCCCTGGGCCATGAGCCC 9 99 0 ATCCCCCGGG 0.99104 -164 GGAACGCCGCATCTTGCCTTGGTTAGGGGTTT 10 57 1 ATTTGCCTGG 0.908519 -157 AATTGAATTCATCCTCCCAGCGGTGGGGTCAG 10 180 0 ATCTCCCGCG 0.851511 -34 ATCCGGAAGGATTTTGGCATGGAAGTTTGGGG 11 193 0 ATTTGGCTGG 0.605167 -107 TCGTTCATTGCGCCCCCCAGGGACAACGG 12 8 0 CGCCCCCGGG 0.988846 -70 GCGCAATGAACGATCGCCGTTGCGTTCAATCT 12 27 1 CGTCGCCTTG 0.794088 -51 ATTTTTCCTCCTACCCCCTGTGC 14 2 0 CTCCCCCGTG 0.981671 -122 AAAGCTTTATTTTCCCTTTGGGCAAGGCTG 16 9 1 ATTTCCCTTG 0.794215 -99 ATATCCTACCATGCCCGCCGGGCAAGCTTGCA 17 100 0 ATCCCGCGGG 0.944662 -82 TGACCTGAAACTGCCGCCCTGGAGCAAAGCCA 19 27 1 CTCCGCCTGG 0.985335 -91 CCAATCAATACTGCTCCCGTTGGTTTAATCAT 21 76 0 CTCTCCCTTG 0.927165 -107 ACCCATTGCCATTTCCCCTGGGGCGAGGGGTA 21 119 1 ATTCCCCGGG 0.98567 -64 ** ***** *** Masking position 8 Map Score: 24.2564 Number of sites scoring better than the average of aligned sites = 3000 Number in coding regions = 2726 Number in noncoding regions = 274 Number of orfs with sites within 600 bp upstream = 285 Fraction of orfs with sites within 600 bp upstream = 0.0457758 Motif number 2 ATACGGAAATTTTGTTAGGGAGGAGAAAAT 1 71 0 TTTGTTAGGG 0.817544 -87 GGCAAACGGTGGGGATCAACCCCA 5 5 1 AACGGTGGGG 0.776664 -32 TCCCCTATGGTTTGGGGTTGATCCCCA 5 20 0 TGGTTTGGGG 0.951067 -17 ACAAGTTACTTTTGCCGGGGTCTACCCCCT 7 68 0 TTTGCCGGGG 0.749246 -154 GAAAAAACAATTTTTTGGGGCCGGTTTGCC 7 123 0 TTTTTTGGGG 0.740871 -99 ATTTGGCGGATTGTTTGGGGAATGAACAAC 9 14 1 TTGTTTGGGG 0.923729 -249 AGATAACAGATGGATTAGGGAACGCCGCAT 10 39 1 TGGATTAGGG 0.616866 -175 GCATCTTGCCTTGGTTAGGGGTTTGCAAAA 10 65 1 TTGGTTAGGG 0.949952 -149 TCATCCTCCCAGCGGTGGGGTCAGACTTCA 10 174 0 AGCGGTGGGG 0.866045 -40 GGATATGATTTAGGTCGGGGAGACAATGGC 11 163 0 TAGGTCGGGG 0.947577 -137 TTTGGCATGGAAGTTTGGGGGGATATGATT 11 183 0 AAGTTTGGGG 0.821743 -117 TATGCTGGGGGAGCGGCGCA 14 114 0 TATGCTGGGG 0.895594 -10 CCCAGTTACCTAGGGTGGGGAGTTTCTTTT 16 66 0 TAGGGTGGGG 0.965114 -42 CCTAGGTAACTGGGATGGGGTTTTTCGTTG 16 82 1 TGGGATGGGG 0.95803 -26 ATTCCTCACTAGAGTTAGGGAAGCTGAAGA 17 61 0 AGAGTTAGGG 0.629549 -121 CGGTCTGGGTTAGGGCCCAGTCGTG 17 167 0 TGGGTTAGGG 0.968214 -15 CTATTACGGAAGGGCCGGGGGCAATAATTT 18 107 0 AGGGCCGGGG 0.899565 -60 AGTTAGGGGTAAGGCTGGGGCAGTTTGATC 19 90 0 AAGGCTGGGG 0.941255 -28 AGTAAGTTAGTTAGGGGTAAGGCTGG 19 102 0 TTAGTTAGGG 0.706015 -16 AAATGTTCGATGGGGGTGTTAAGGA 21 6 1 TTCGATGGGG 0.802174 -177 ********** Masking position 8 Map Score: 19.3916 Number of sites scoring better than the average of aligned sites = 3074 Number in coding regions = 2791 Number in noncoding regions = 283 Number of orfs with sites within 600 bp upstream = 290 Fraction of orfs with sites within 600 bp upstream = 0.0465789 Motif number 3 TTACCCTGAAGGGAAAGTTAATCTCCATTGGC 1 118 1 GGGAAAGTTT 0.875024 -40 AATCTCCATTGGCAAAATTGTAATAATCATT 1 137 1 GGCAAAATTA 0.973903 -21 TGGGAAAATAGGCACAATTCTAGGGGGTTCTC 8 191 1 GGCACAATTA 0.854914 -103 AACCTGGTTTGCCAAAGTTTTTCAAAAATTTT 9 208 1 GCCAAAGTTT 0.92798 -55 GGACAAAGTTGTAAATTTTTCTT 10 2 1 GACAAAGTTA 0.84548 -212 CCCATAAGCCAAAATTGAATTCATCCTCC 10 195 0 GCCAAAATTA 0.889242 -19 GTTAGTTATGGGCAAAGTTGCAAATTATGGGC 11 13 0 GGCAAAGTTA 0.985451 -287 CTCCGGCAAAGGCAAAGTTAGTTATGGGCAAA 11 29 0 GGCAAAGTTT 0.983594 -271 GTGAGCTATTTGAAAAATTTGAAATAAAACTA 11 253 0 TGAAAAATTA 0.508088 -47 GCTTGCATTTTGCAAAATTCCTCACTAGAGTT 17 75 0 TGCAAAATTT 0.865155 -107 GGCCCAGTCGTGCAAAGTTAGTGAAATTCGTT 17 147 0 TGCAAAGTTT 0.922695 -35 TCCTGGTCCCGGCAAAATTCCATAGATCAATG 18 71 0 GGCAAAATTA 0.97389 -96 AGCAAAGCCAGGAAAAGTTTATCCAAACCGGC 19 49 1 GGAAAAGTTT 0.89282 -69 ********* * Masking position 6 Map Score: 12.0856 Number of sites scoring better than the average of aligned sites = 896 Number in coding regions = 752 Number in noncoding regions = 144 Number of orfs with sites within 600 bp upstream = 150 Fraction of orfs with sites within 600 bp upstream = 0.0240925 Motif number 4 TAGAAAAATTGAGTATTAGGCTGAAAAGATA 6 19 1 GAGTATAGGC 0.89613 -48 AGGACTGGGTGAAAAGTAGTCATGGTTACCC 8 19 1 GAAAATAGTC 0.846079 -275 GGAAAGTATGGAAAATACGGCTAATTTAGAT 8 87 1 GAAAAACGGC 0.909761 -207 CAAAGACTTGGGAAAATAGGCACAATTCTAG 8 183 1 GGAAATAGGC 0.979067 -111 CATGAGCCCAGAAAAATTGGCCAATTCTTCT 9 77 0 GAAAATTGGC 0.948843 -186 ACACAGCTAGGGGAACTAGGCACCACC 11 283 1 GGGAATAGGC 0.959416 -17 CAAAATCTTTGAGAAATAGGCGTTTCAGCCT 13 84 0 GAGAATAGGC 0.976873 -62 AGATTAGAAAATATAGCGATTGTCAGT 13 129 0 GAAAAATAGC 0.624975 -17 GGGGTAGGAGGAAAAATAGGCAGTTAATCGA 14 17 1 GAAAATAGGC 0.988082 -107 ACAGACGTTAGAAAATTATGCTTCAAAAACT 15 52 1 GAAAATATGC 0.864872 -120 TGCCCAAAGGGAAAATAAAGCTTT 16 4 0 GAAAAAAAGC 0.881488 -104 GGGCATGGTAGGATATAAGGCTGGATTTATC 17 116 1 GGATAAAGGC 0.859404 -66 AATCAACAGGGCAAAAAAGGCTCGACCTTCC 18 136 0 GCAAAAAGGC 0.917753 -31 ***** ***** Masking position 5 Map Score: 13.2083 Number of sites scoring better than the average of aligned sites = 309 Number in coding regions = 244 Number in noncoding regions = 65 Number of orfs with sites within 600 bp upstream = 79 Fraction of orfs with sites within 600 bp upstream = 0.0126887 Motif number 5 GGTCTACCCCCTATAGCCCTTAAATAATAGACTC 7 46 0 CATGCCTTAA 0.963307 -176 ATTCCCAAGGCGATCGCCCCTAAAATCCAATCTA 8 113 0 CATGCCCTAA 0.923556 -181 GCCTCCGCCCATATTGCTTTTCCCAGGGTATTTC 8 268 1 AATGCTTTCC 0.612899 -26 GGGGGGATCCCAATGGGCTTTAAACTGGTTTTCG 9 113 1 CATGGCTTAA 0.849449 -150 GTTCTAGGCCCGATCGCCACCGAAAACCAGTTTA 9 133 0 CATGCCCCAA 0.605078 -130 GCGCAATGAACGATCGCCGTTGCGTTCAATCTAA 12 27 1 CATGCCTTCG 0.939379 -51 AAAAGAGACTCAATCGCTTTTCCATCAATGGGTA 13 47 0 CATGCTTTCA 0.963307 -99 AATCTTTGAGAAATAGGCGTTTCAGCCTTTTAAA 13 78 0 AATGGCTTCA 0.659356 -68 GAAAATATAGCGATTGTCAGTCCAGGAAAGTAGA 13 116 0 CATGTCGTCA 0.850245 -30 CTGGAAGTTCCCATAGACTTTACCGCCTACACTG 15 114 1 CATGACTTCC 0.811288 -58 GGATCTTAAACGATTGTTTTTGCCCTTGCCATAG 17 17 0 CATGTTTTCC 0.759574 -165 ACGCCTTTATCAATTGCCATTCCAGTTTGAAAGG 20 39 1 CATGCCTTCA 0.989043 -33 ATGGTGACGGCCATAGCTAGTCCAAATTTCTGCT 21 44 0 CATGCTGTCA 0.892406 -139 GAGCATAAACCCATTGCCATTTCCCCTGGGGCGA 21 111 1 CATGCCTTCC 0.982002 -72 TTTATAATGGCGATCGCCCTTTAATCACCAAGCC 21 159 1 CATGCCTTAA 0.963307 -24 GCCGTTAATACTATCGTTGCTTCATTTTTAGGAA 22 62 1 CATGTTCTCA 0.706339 -91 * ** *** ** ** Masking position 4 Map Score: 13.9661 Number of sites scoring better than the average of aligned sites = 1505 Number in coding regions = 1373 Number in noncoding regions = 132 Number of orfs with sites within 600 bp upstream = 151 Fraction of orfs with sites within 600 bp upstream = 0.0242531 Motif number 6 AGATTAACTTACCAACGGGGCTAAG 3 37 1 ACCAACGGGG 0.992645 -15 TTCATTATGCATCAACAGGGCAGAAAAAAC 7 145 0 ATCAACAGGG 0.962405 -77 AAAAAAAGCCAGCAACGGGGTCTTAATCTA 8 226 1 AGCAACGGGG 0.980552 -68 TCGCTTTTCCATCAATGGGTAGTTTTATTC 13 38 0 ATCAATGGGT 0.850025 -108 ATTTGCTGGGACTAATGGGGATAAAATTTA 18 16 1 ACTAATGGGG 0.855058 -151 AATTCCATAGATCAATGGGGAATTGTAGGA 18 58 0 ATCAATGGGG 0.977646 -109 GTATGAGGAAATCAACAGGGCAAAAAAGGC 18 146 0 ATCAACAGGG 0.962405 -21 CCATGATTAAACCAACGGGAGCAGTATTGA 21 74 1 ACCAACGGGA 0.946026 -109 ********** Masking position 5 Map Score: 10.0625 Number of sites scoring better than the average of aligned sites = 407 Number in coding regions = 378 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 7 ACCCCCTATAGCCCTTAAATAATAGACTCT 7 45 0 GCCCTTAAAT 0.97708 -177 AAGGCGATCGCCCCTAAAATCCAATCTAAA 8 111 0 CCCCTAAAAT 0.977393 -183 ACTAAGCCTGCCACTAAAATTCCCAAGGCG 8 135 0 CCACTAAAAT 0.828415 -159 TGTCGAGAACCCCCTAGAATTGTGCCTATT 8 197 0 CCCCTAGAAT 0.930086 -97 TAAGGGCTGTCCCGTTAAATATGGCTTCGA 15 82 0 CCCGTTAAAT 0.919868 -90 TAACGGGACAGCCCTTAAACTGGAAGTTCC 15 95 1 GCCCTTAAAC 0.918851 -77 GGAGGATGTCCCCCTTAAATTTTATCCCCA 18 31 0 CCCCTTAAAT 0.985787 -136 AATGGCGATCGCCCTTTAATCACCAAGCC 21 164 1 GCCCTTTAAT 0.898482 -19 ********** Masking position 8 Map Score: 6.21273 Number of sites scoring better than the average of aligned sites = 142 Number in coding regions = 109 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 8 CTTCCCTTAGCTTCAAACAAAA 2 36 0 TTCCCTTGCT 0.784791 -12 GGTTGATCCCCACCGTTTGCC 5 1 0 CACCGTTGCC 0.740268 -36 TAATTCTGTCTAGCCTTTGCACCTACGGCAA 7 97 1 TAGCCTTGCA 0.856157 -125 AACTGTGAGGTAGCCTCCGCCCATATTGCTT 8 256 1 TAGCCTCGCC 0.947564 -38 TCCGCCCATATTGCTTTTCCCAGGGTATTTC 8 271 1 TTGCTTTCCC 0.500731 -23 ATAACTAACTTTGCCTTTGCCGGAGTTAGGA 11 36 1 TTGCCTTGCC 0.967634 -264 TGGTGCCTAGTTCCCCTAGCTGTGTGAGCTA 11 277 0 TTCCCCTGCT 0.798219 -23 CGATCGTTCATTGCGCCCCCCAGGGACAACG 12 12 0 TTGCGCCCCC 0.642057 -66 AATCTAAGCCTACCCTTTCCATTACCCAGGG 12 54 1 TACCCTTCCA 0.726877 -24 TATTGCGCCGCTCCCCCAGCATA 14 111 1 CTCCCCCGCA 0.674372 -13 CTAAATCGGTCAGCCTTGCCCAAAGGGAAAA 16 20 0 CAGCCTTCCC 0.901998 -88 ACGATTGTTTTTGCCCTTGCCATAGATTTTT 17 11 0 TTGCCCTGCC 0.970088 -171 TAAAAATTATTGCCCCCGGCCCTTCCGTAAT 18 104 1 TGCCCCCGCC 0.820493 -63 CAAACTGCCCCAGCCTTACCCCTAACTAACT 19 93 1 CAGCCTTCCC 0.901998 -25 AAAGGTGAGTTACCCCTCGCCCCAGGGGAAA 21 130 0 TACCCCTGCC 0.966069 -53 ******* *** Masking position 4 Map Score: 10.3104 Number of sites scoring better than the average of aligned sites = 3352 Number in coding regions = 3001 Number in noncoding regions = 351 Number of orfs with sites within 600 bp upstream = 361 Fraction of orfs with sites within 600 bp upstream = 0.0579827 Motif number 9 TAGGGGGTAGACCCCGGCAAAAGTAACTTGTAA 7 67 1 ACCCGGAAAG 0.975388 -155 CCTGGGCATTAACCCATGGAAAGTATGGAAAAT 8 70 1 AACCATAAAG 0.90848 -224 AGGAAATACCCTGGGAAAAGCAATATGGGC 8 274 0 ACCCGGAAAG 0.975388 -20 GTAGTGGGCCAACCCGGAAGAAGAATTGGCCAA 9 59 1 AACCGGGAAG 0.951528 -204 CGCCACCGAAAACCAGTTTAAAGCCCATTGGGA 9 120 0 AACCGTAAAG 0.940786 -143 TCGGGCCTAGAACCTGGCCAAAGTGCTGGACCT 9 154 1 AACCGGAAAG 0.991331 -109 GCAAACCCCTAACCAAGGCAAGATGCGGCGTTC 10 58 0 AACCAGAAGA 0.730276 -156 GGTCAAGAAAAACCGAGGAAAAAAGTATTCTGA 10 144 1 AACCAGAAAA 0.940375 -70 TAGATAATTGAACCAAGAAAAAGAAACTCCCCA 16 48 1 AACCAGAAAG 0.986196 -60 TGAGGAAATCAACAGGGCAAAAAAGGCTCGACC 18 140 0 AACAGGAAAA 0.644286 -27 CCCTGGAGCAAAGCCAGGAAAAGTTTATCCAAA 19 43 1 AAGCAGAAAG 0.883691 -75 TAAAACCTAGTAACAGCTACGATTTA 22 4 1 AACCAGACAG 0.924613 -149 **** ** **** Masking position 1 Map Score: 12.8164 Number of sites scoring better than the average of aligned sites = 436 Number in coding regions = 394 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 10 ATACGAGTAAGATTTTTTTATACTACATCGCAT 1 32 1 GATTTTTTTC 0.910545 -126 CGCATTTTTTGATTTTCTCCTCCCTAACAAAAT 1 60 1 GATTTCTCTC 0.967397 -98 ATTGTTAAGTGAATTTATTTTCCCATCATAACC 4 21 1 GATTTATTTC 0.762839 -25 GCCTAATACTCAATTTTTCTAACTCCCAT 6 7 0 CATTTTTCAC 0.724115 -60 AAAAATTGGCCAATTCTTCTTCCGGGTTGGCCC 9 64 0 CATTCTTCTC 0.753171 -199 CTATTGGGAAGAATTTTTTTTGCAAACCCCTAA 10 79 0 GATTTTTTTC 0.910545 -135 AGCCAAAATTGAATTCATCCTCCCAGCGGTGGG 10 185 0 GATTCATCTC 0.842946 -29 AACGTCTGTGGATTTTTTTAAGCATAGCTTGAC 15 28 0 GATTTTTTAC 0.85306 -144 ATATGGCTTCGAGTTTTTGAAGCATAATTTTCT 15 61 0 GATTTTTGAC 0.679771 -111 CTAGGGTGGGGAGTTTCTTTTTCTTGGTTCAAT 16 54 0 GATTTCTTTC 0.921821 -54 ATTTATCAACGAATTTCACTAACTTTGCACGAC 17 140 1 GATTTCACAC 0.62486 -42 ATTTAAGGGGGACATCCTCCTACAATTCCCCAT 18 41 1 GAATCCTCTC 0.786874 -126 TTGCCCTGTTGATTTCCTCATACC 18 153 1 GATTCCTCTC 0.951632 -14 AGTTAACATTGATATTTTCTAACC 22 139 1 GAATTTTCAC 0.732729 -14 ** ****** * * Masking position 2 Map Score: 5.86304 Number of sites scoring better than the average of aligned sites = 487 Number in coding regions = 419 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 67 Fraction of orfs with sites within 600 bp upstream = 0.0107613 Motif number 11 TAGACTCTATGCACTATCTTGCTGAATGGT 7 23 0 GCACTATCTT 0.762155 -199 TGGCCAAAGTGCTGGACCTTAACTAAGCGT 9 168 1 GCTGGACCTT 0.953433 -95 CCAAAGGTCTGCTCCACCTATTGGGAAGAA 10 99 0 GCTCCACCTA 0.873667 -115 CAAAGATTTTGCTCTACTTTCCTGGACTGA 13 104 1 GCTCTACTTT 0.880469 -42 TTTAAGCATAGCTTGACCTTCTGTTGGTCG 15 15 0 GCTTGACCTT 0.932497 -157 GGCAAAAAAGGCTCGACCTTCCTATTACGG 18 128 0 GCTCGACCTT 0.988925 -39 AGTATTAACGGCACTACCTTGGTGATCGAT 22 44 0 GCACTACCTT 0.961096 -109 ********** Masking position 6 Map Score: 2.50007 Number of sites scoring better than the average of aligned sites = 93 Number in coding regions = 78 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 12 Fraction of orfs with sites within 600 bp upstream = 0.0019274 Motif number 12 ATTTTTTGGGGCCGGTTTGCCGTAGGTGCA 7 114 0 GCCGGTTTGC 0.924828 -108 GTCGAACTGGGCCAGTTTCAGGGATCTACT 11 89 0 GCCAGTTTCA 0.961636 -211 ATTTTGGCATGGAAGTTTGGGGGGATATGA 11 185 0 GGAAGTTTGG 0.732917 -115 TATGGGAACTTCCAGTTTAAGGGCTGTCCC 15 99 0 TCCAGTTTAA 0.677683 -73 GCTCCAGGGCGGCAGTTTCAGGTCACAGGA 19 22 0 GGCAGTTTCA 0.939062 -96 CAACTCCATAGCCGGTTTGGATAAACTTTT 19 61 0 GCCGGTTTGG 0.957703 -57 GTAAGGCTGGGGCAGTTTGATCAACTCCAT 19 82 0 GGCAGTTTGA 0.973342 -36 CAATTGCCATTCCAGTTTGAAAGGTTTGAA 20 49 1 TCCAGTTTGA 0.931419 -23 ********** Masking position 6 Map Score: 2.1142 Number of sites scoring better than the average of aligned sites = 486 Number in coding regions = 433 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 58 Fraction of orfs with sites within 600 bp upstream = 0.00931577 Motif number 13 AAGTCAGTCAGCCGTTACCCTGAAGGGAAA 1 104 1 GCCGTTACCC 0.816432 -54 ACTAAGCGTTGCTGGGAATAACCTGGTTTG 9 189 1 GCTGGGAATA 0.921443 -74 AATCATCTGCTCTGGGACCACCCAAGCGTC 11 116 0 TCTGGGACCA 0.900726 -184 GGCTAATTTGCTGGGACTAATGGGGATAA 18 10 1 GCTGGGACTA 0.972818 -157 ATGGAATTTTGCCGGGACCAGGAATAAAAA 18 80 1 GCCGGGACCA 0.983422 -87 ACTAGCTATGGCCGTCACCATGATTAAACC 21 57 1 GCCGTCACCA 0.895564 -126 ATAAATCGTAGCTGTTACTAGGTTTTA 22 8 0 GCTGTTACTA 0.919901 -145 CCAAGGTAGTGCCGTTAATACTATCGTTGC 22 52 1 GCCGTTAATA 0.828939 -101 AGGAAAAATATCTGGTAATAAAAGGCTAAA 22 91 1 TCTGGTAATA 0.592864 -62 ********** Masking position 7 Map Score: 1.94331 Number of sites scoring better than the average of aligned sites = 502 Number in coding regions = 473 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 14 ATTTTGTTAGGGAGGAGAAAATCAAAAAAT 1 63 0 GGAGGAGAAA 0.93466 -95 CCCACCGCTGGGAGGATGAATTCAATTTTG 10 185 1 GGAGGATGAA 0.93466 -29 GCACAGGGGGTAGGAGGAAAAATAGGCAG 14 10 1 GTAGGAGGAA 0.98733 -114 TCTATTCAGTGTAGGCGGTAAAGTCTATGG 15 124 0 GTAGGCGGTA 0.912518 -48 GGCGGGCATGGTAGGATATAAGGCTGGATT 17 113 1 GTAGGATATA 0.716128 -69 ATGGGGAATTGTAGGAGGATGTCCCCCTTA 18 44 0 GTAGGAGGAT 0.941785 -123 GGTATGAGGAAATCAACAGGG 18 156 0 GTATGAGGAA 0.909972 -11 ********** Masking position 3 Map Score: 1.61733 Number of sites scoring better than the average of aligned sites = 170 Number in coding regions = 143 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 15 TCCTCCCTAACAAAATTTCCGTATCAAAAGT 1 77 1 CAAAATTTCG 0.939283 -81 CACTAACGATAATAATCTTCAAA 6 54 1 AATAATCTCA 0.62541 -13 GCATAATGAAAATAATTTGCAATAGCTTTCT 7 165 1 AATAATTTCA 0.88896 -57 AATCTTCTCTCAAAATTTACGGAAAAGTCCT 7 200 1 CAAAATTTCG 0.939052 -22 CCGTATTTTCCATACTTTCCATGGGTTAATG 8 76 0 CATACTTTCA 0.814232 -218 AAAGTTTTTCAAAAATTTTCGTTTGTCCTAG 9 221 1 AAAAATTTCG 0.868424 -42 CTTTGTAAAGAAAAATTTACAACTTTGTCC 10 10 0 AAAAATTTCA 0.888958 -204 CAGCCCATAATTTGCAACTTTGCCCA 11 6 1 CATAATTTCA 0.949391 -294 AGTTTTATTTCAAATTTTTCAAATAGCTCAC 11 254 1 CAAATTTTCA 0.747302 -46 GTTTTTGAAGCATAATTTTCTAACGTCTGTG 15 51 0 CATAATTTCT 0.795606 -121 ******** ** Masking position 6 Map Score: 3.58066 Number of sites scoring better than the average of aligned sites = 270 Number in coding regions = 230 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405