AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00280_synecho_reg_300.orf -o00280_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 Input sequences: #1 sll1721 300 pdhB; pyruvate dehydrogenase E1 beta subunit. [EC:1.2.4.4] #2 ssr1391 77 hypothetical protein. #3 slr0820 145 glucosyltransferase. #4 ssl1507 78 transposase. #5 sll0808 300 transposase. #6 slr0776 107 lpxD; UDP-3-o-[3-hydroxymyristoyl] glucosamine n-acyltransferase. #7 sll0767 140 rplT, rpl20; 50S ribosomal protein L20. [SP:RL20_SYNY3] #8 ssl1426 96 rpmI, rpl35; 50S ribosomal protein L35. [SP:RL35_SYNY3] #9 sll0765 91 hypothetical protein. #10 tRNA-Ala-2 300 tRNA-Ala. #11 slr0229 300 mmsB; 3-hydroxyisobutyrate dehydrogenase. [EC:1.1.1.31] #12 slr0092 117 hisB; hypothetical protein. #13 slr0093 28 dnaJ-like protein slr0093. [SP:DNJH_SYNY3] #14 slr0095 161 hisB; O-methyltransferase. [EC:2.1.1.-] #15 slr0096 29 hisB; low affinity sulfate transporter. #16 slr0498 246 hisB; hypothetical protein. #17 sll0489 286 hisB; ABC transporter. #18 sll0488 116 hypothetical protein. #19 sll0487 109 hypothetical protein. #20 sll0486 173 hypothetical protein. #21 sll0485 247 hypothetical protein. #22 sll0484 130 ABC transporter. #23 slr0502 62 cobW; CobW. #24 slr0505 121 hypothetical protein. #25 slr0506 56 pcr; protochlorophyllide oxido-reductase. [EC:1.3.1.33] #26 sll0481 71 hypothetical protein. [SP:Y481_SYNY3] #27 sll0480 182 hypothetical protein. #28 slr0509 131 alkaline phosphatase-like. #29 slr0510 222 hypothetical protein. #30 ssr0871 55 transposase. #31 slr0511 300 transposase. #32 slr0032 56 ilvE; probable branched-chain amino acid aminotransferase (BCAT). #33 slr0033 57 hypothetical protein. #34 sll0037 233 putative peptidyl prolyl cis-trans isomerase. [EC:5.2.1.8] #35 sll0036 65 hypothetical 45.9 kD protein sll0036. [SP:Y036_SYNY3] #36 sll0034 62 hypothetical protein. #37 sll0033 160 hypothetical protein. #38 sll0031 300 hypothetical protein. Motif number 1 GTTCATTGCGCCCCCCAGGGACAACGG 2 1 0 CCCCCAGGGG 0.996825 -77 TTCATATCCCCGCCGCAAGCGAACGGGGCATTACGGA 5 27 1 CCCGCAGCGG 0.929399 -274 CTAAGACTTACGCCTCAAGGGGCGGGGAATTTACCCT 5 91 1 CCCTCAGGGG 0.971236 -210 CAAAACTTGAATTCCCATGGACATTGGCTCCGTGAGT 5 150 1 ATCCCAGGGG 0.980413 -151 AAGAAACTCCCCACCCTAGGTAACTGGGATGGGGTTT 6 68 1 CACCCTGGGG 0.949687 -40 CCCATCCCAACTTTCCATGGCACCCAGCGGAAAAGTG 7 36 0 CTTCCAGGAG 0.800126 -105 AGCTGGAAGCCCTTCCACGCATAGAAGAGAAGTTGGA 10 96 0 CTTCCAGCAG 0.648937 -205 AAATCCCTGGCTCCGTGGCCATCAAGCA 15 2 1 ATCCCTGCGG 0.934246 -28 CGAGAAAATTCATCCCTTGGCACAATGGTAAAAGCGA 16 212 0 CTCCCTGGTG 0.865077 -35 CCGCTATCCCCTAGGCGGTGGGCCGATATTAG 19 6 1 ACCCCTGGGG 0.982456 -104 ATCACGGCTAAGTTCCAAGGTGAGGGGTTTATGGGTT 21 218 0 ATTCCAGGGG 0.915588 -30 CCCCCCTGACCCCCCCAAGGCTGGGGGGAATTTATCG 25 25 1 CCCCCAGGGG 0.996809 -32 AGTTACCCCTCGCCCCAGGGGAAATGGCAATGGGTTT 27 117 0 CCCCCAGGGG 0.996831 -66 GACCGCCAACATTCTCTGGCACAATGGGGCCAAGCAA 36 12 1 ATCTCTGCGG 0.603978 -51 CTGTTTGTGCCGCCCCTGGGACTGTGGACGCTCCCCC 38 42 1 CCCCCTGGGG 0.994833 -259 TGGACGCTCCCCCTCCAAGCCAATCGGCAGGGACGGA 38 66 1 CCTCCAGCGG 0.969344 -235 * ***** ** ** Masking position 9 Map Score: 23.6108 Number of sites scoring better than the average of aligned sites = 824 Number in coding regions = 723 Number in noncoding regions = 101 Number of orfs with sites within 600 bp upstream = 115 Fraction of orfs with sites within 600 bp upstream = 0.0184709 Motif number 2 TGTTGTGCCCCGATCGCCCTTGCTTGGTTT 1 204 1 CGATCGCCCT 0.925616 -97 ATAACAATTTAGACCGCCGCCGCATCTCTC 1 254 0 AGACCGCCGC 0.851679 -47 GCGCAATGAACGATCGCCGTTGCGTTCAAT 2 27 1 CGATCGCCGT 0.981907 -51 ATGCTTGATGGCCACGGAGCCAGGG 15 15 0 TGATGGCCAC 0.767189 -15 CCCAAACTGGCGATCGCCAAGGATCATCAC 16 108 0 CGATCGCCAA 0.986545 -139 CCCAATCAAGCGACCGCAATACTGGAGTTT 17 117 0 CGACCGCAAT 0.746756 -170 ATTCCTCTGGCGATCGCCAAAGCTCCAGTT 19 79 1 CGATCGCCAA 0.986545 -31 CCGATTCTGTTGATGGCCGAAGGGGT 23 47 1 TGATGGCCGA 0.872931 -16 TTAATCATGGTGACGGCCATAGCTAGTCCA 27 54 0 TGACGGCCAT 0.816654 -129 GATTAAAGGGCGATCGCCATTATAAAAGGT 27 155 0 CGATCGCCAT 0.98157 -28 GACCTAGACTAGACCGCCGACATAGAAATT 34 112 0 AGACCGCCGA 0.921552 -122 TGACCGCCAACATTCTCTGG 36 1 1 TGACCGCCAA 0.955574 -62 TGAGCTGCAACGATCGCCAACTGC 36 49 1 CGATCGCCAA 0.986545 -14 AGGGAGCACTCGATCGCCGAGCCACCCCCT 37 54 0 CGATCGCCGA 0.986792 -107 ********** Masking position 3 Map Score: 19.9771 Number of sites scoring better than the average of aligned sites = 6646 Number in coding regions = 6039 Number in noncoding regions = 607 Number of orfs with sites within 600 bp upstream = 449 Fraction of orfs with sites within 600 bp upstream = 0.0721169 Motif number 3 GACCTTGCAGCTTGATTTGCCCGTGCCATGTT 1 23 0 CTGTTTGCCC 0.978767 -278 ATCGCCCTTGCTTGGTTTGCCTACACCGGACC 1 216 1 CTGTTTGCCT 0.709012 -85 TTATTAAAAACTAAGTTTTCCCCCAGAAATC 1 280 1 CTATTTTCCC 0.787589 -21 AGAGATTAAACTTGAATTTCCCAAAACTTGAA 5 129 1 CTGATTTCCC 0.947182 -172 AAAGCTTTATTTTCCCTTTGGGCAAG 6 5 1 CTTTTTTCCC 0.937615 -103 GTAGTTAGCGCTATTTTTGCTCACTTTTCCGC 7 15 1 CTTTTTGCTC 0.848202 -126 AGAACCCTAGCGGGATTTTCCCCATCCCAACT 7 61 0 CGGTTTTCCC 0.96338 -80 AAGGCAATTACATGCATTTCTC 8 1 0 CAGATTTCTC 0.759083 -96 TAAACTTTTCCTGGCTTTGCTCCAGGGCGGCA 12 38 0 CTGTTTGCTC 0.945932 -80 TCAATTTCACCAATCTTTTCCCC 17 2 0 CATTTTTCCC 0.874337 -285 AGAATAGCTTCTAGATTTGCTCATTTTTTCAA 17 185 0 CTGTTTGCTC 0.945932 -102 GTTGTTTACTCACTAATTTCCCCTGCC 17 270 1 CATATTTCCC 0.726138 -17 GCCAAAGCTCCAGTTTTTTCCCAATT 19 94 1 CATTTTTCCC 0.874337 -16 TAAGTTTAGCCGTGGTTTTCCCCTCGACAAAA 22 65 1 CGGTTTTCCC 0.96338 -66 ACCTTGAAAGCTTGTGTTTCTCTGCTCCATGG 23 12 1 CTGGTTTCTC 0.754058 -51 TAAACCTTTCCGTGAATTGCTCTGGGCATTGT 38 252 1 CGGATTGCTC 0.788459 -49 ** * ******* Masking position 7 Map Score: 15.2358 Number of sites scoring better than the average of aligned sites = 600 Number in coding regions = 533 Number in noncoding regions = 67 Number of orfs with sites within 600 bp upstream = 73 Fraction of orfs with sites within 600 bp upstream = 0.011725 Motif number 4 ATAGCCTTCGCCTTTGTGCCCTAATCGACAT 1 109 1 CCTTGTGCCC 0.977158 -192 TCGACATCCACCCTTGTCCCCTGACTAAAAT 1 133 1 CCTTGTCCCC 0.983179 -168 CCGTTGTCCCTGGGGGGCGCA 2 1 1 CCTTGTCCCT 0.755466 -77 CGGCGATCGTTCATTGCGCCCCCCAGGGACA 2 15 0 TCTTGCGCCC 0.571442 -63 AGGAAAAATTCCGTAATGCCCCGTTCGCTTG 5 42 0 CCTAATGCCC 0.919071 -259 CGGAACCCATTCTTTGTCCCCATTGTCGCCG 16 62 0 TCTTGTCCCC 0.886442 -185 TTCGCTTTTACCATTGTGCCAAGGGATGAAT 16 211 1 CCTTGTGCCA 0.851042 -36 CAACCTGGGCACATTATGCCCCTTTCTCGGC 17 243 0 ACTTATGCCC 0.558729 -44 CAATTTTAGTCCTTAGCCCCCGTCTGCGAAG 18 63 0 CCTAGCCCCC 0.866076 -54 CCGCTATCCCCTAGGCGGTGG 19 1 1 CCCTATCCCC 0.974792 -109 CCTGGTAATGTCCCTATGCCCGCAGTTTTGA 21 147 0 TCCTATGCCC 0.790791 -101 CTTAACTAACCCATAAACCCCTCACCTTGGA 21 211 1 CCTAAACCCC 0.7007 -37 TTGAACTGCCCCCCTGACCCCCCCAAGGCTG 25 17 1 CCCTGACCCC 0.912428 -40 GTTACCCATCCCCCTATCCCCATGAACCTTA 28 66 0 CCCTATCCCC 0.974792 -66 GGTCCTTCTCCAGCAATCCCCTGAACTGCCT 34 159 1 CACAATCCCC 0.601576 -75 TTGCTTGGCCCCATTGTGCCAGAGAATGTTG 36 18 0 CCTTGTGCCA 0.851042 -45 GGGGGAGCGTCCACAGTCCCAGGGGCGGCAC 38 48 0 CCCAGTCCCA 0.813861 -253 GTTTTTGCTTCCACTATCCGCCCGACAGCAG 38 184 1 CCCTATCCGC 0.716695 -117 CCCGACACGTCAACAATGCCCAGAGCAATTC 38 265 0 CACAATGCCC 0.524962 -36 ** ******** Masking position 9 Map Score: 20.3919 Number of sites scoring better than the average of aligned sites = 2200 Number in coding regions = 1961 Number in noncoding regions = 239 Number of orfs with sites within 600 bp upstream = 212 Fraction of orfs with sites within 600 bp upstream = 0.0340508 Motif number 5 AAACCATAAATAGCCTTCGCCTTTGTGCCCT 1 100 1 TAGCCTCGCC 0.898494 -201 AATCTAAGCCTACCCTTTCCATTACCCAGGG 2 54 1 TACCCTTCCA 0.897363 -24 CATCCTTCAAAACCCGTTGCATTTAAGCT 4 9 0 AACCCTTGCA 0.884338 -70 GCAACGAAAAACCCCATCCCAGTTACCTAGG 6 82 0 ACCCCTCCCA 0.968548 -26 AGCGGGATTTTCCCCATCCCAACTTTCCATG 7 54 0 TCCCCTCCCA 0.957674 -87 CTAACTCCAAAACACTTTCCCAGGTAAAGCT 7 91 1 AACACTTCCC 0.684396 -50 TCGACCATTCAAGCCTTCCAACTTCTCTTCT 10 80 1 AAGCCTCCAA 0.529942 -221 CGAAAGCTGGAAGCCCTTCCACGCATAGAAG 10 106 0 AAGCCTTCCA 0.790797 -195 TCTACCCCCGTCCACGTCCCCCATTACTAAA 14 114 1 TCCACTCCCC 0.804814 -48 TTCCGACAGAACCACTTCCCAAACTGGCGAT 16 124 0 ACCACTCCCA 0.794185 -123 GTTCTGAAAAAAGCCATTGCCACTCAATTTC 17 26 0 AAGCCTTGCC 0.779363 -261 CTAACCCATAAACCCCTCACCTTGGAACTTA 21 216 1 AACCCTCACC 0.808977 -32 ACCCCTTCGGCCATCAACAGA 23 52 0 ACCCCTCGGC 0.678985 -11 AATCCCTCCCAAAGGTAGCTC 26 1 1 AATCCTCCCA 0.813301 -71 AGCGAGCATAAACCCATTGCCATTTCCCCTG 27 108 1 AACCCTTGCC 0.917489 -75 AAAGGTGAGTTACCCCTCGCCCCAGGGGAAA 27 130 0 TACCCTCGCC 0.965356 -53 ATTTTTCAGTTACCCATCCCCCTATCCCCAT 28 74 0 TACCCTCCCC 0.97746 -58 TAAGTCTCTGTATCCTTCGCAGTATTTGTCA 29 20 1 TATCCTCGCA 0.672838 -203 CTGTGGACGCTCCCCCTCCAAGCCAATCGGC 38 63 1 TCCCCTCCAA 0.664277 -238 ***** ***** Masking position 7 Map Score: 13.9065 Number of sites scoring better than the average of aligned sites = 2092 Number in coding regions = 1878 Number in noncoding regions = 214 Number of orfs with sites within 600 bp upstream = 228 Fraction of orfs with sites within 600 bp upstream = 0.0366206 Motif number 6 CCGTTGTCCCTGGGGGGCGCAATG 2 5 1 TGTCCCTGGG 0.829878 -73 TTTCCCTGGGTAATGGAAAG 2 68 0 TTTCCCTGGG 0.948363 -10 TTGCTCACTTTTCCGCTGGGTGCCATGGAA 7 31 1 TTCCGCTGGG 0.963324 -110 ATGGGGAAAATCCCGCTAGGGTTCTAACTC 7 68 1 TCCCGCTAGG 0.717298 -73 TAATTTCAGCTTTACCTGGGAAAGTGTTTT 7 99 0 TTTACCTGGG 0.842311 -42 AATTGAAAAGTCCCCCTGGTTGCACAGAGG 18 89 1 TCCCCCTGGT 0.979879 -28 GGCAAAATTTTCGCCCTGGTTTTTAATAAT 19 46 0 TCGCCCTGGT 0.876189 -64 CTCTCTGGGGTTTACCTGGTAATGTCCCTA 21 162 0 TTTACCTGGT 0.809131 -86 TCAATACTGCTCCCGTTGGTTTAATCATGG 27 74 0 TCCCGTTGGT 0.815692 -109 CCATTGCCATTTCCCCTGGGGCGAGGGGTA 27 121 1 TTCCCCTGGG 0.971076 -62 TTCAATCCTATTTCGATGGTGAATTTTTCA 28 97 0 TTTCGATGGT 0.569794 -35 TGATGTTAACTTTAGCTGGTTGTAAATATC 31 139 1 TTTAGCTGGT 0.768335 -162 TAACTTTTTTTCCCGTTGGTTGATCAACTT 33 13 0 TCCCGTTGGT 0.815692 -45 AAAGTTAATCTCCACCTGGTGACTAGACTA 33 36 1 TCCACCTGGT 0.933959 -22 GTGCTGATGCTCTCCCTGGGCATAGTCCAG 34 19 1 TCTCCCTGGG 0.971076 -215 GGTGTTTCCAGATGGTGGAGTGGAGA 35 50 0 TCCAGATGGT 0.562681 -16 ********** Masking position 7 Map Score: 15.9953 Number of sites scoring better than the average of aligned sites = 1993 Number in coding regions = 1819 Number in noncoding regions = 174 Number of orfs with sites within 600 bp upstream = 194 Fraction of orfs with sites within 600 bp upstream = 0.0311597 Motif number 7 TCCCCTGACTAAAATCTCCGCTATGGTGGCC 1 149 1 AAATCTCCGC 0.677982 -152 ATTAAAAACTAAGTTTTCCCCCAGAAATC 1 282 1 AATTTTCCCC 0.540957 -19 GGCGATCGTTCATTGCGCCCCCCAGGGACAA 2 14 0 CATGCGCCCC 0.630753 -64 CGGGGATATGAATTTTAGCGCTCCGCTC 5 8 0 AATTTAGCGC 0.446509 -293 CGCTAAAATTCATATCCCCGCCGCAAGCGAA 5 19 1 CAATCCCCGC 0.846425 -282 CTCTCAGGGTAAATTCCCCGCCCCTTGAGGC 5 102 0 AATTCCCCGC 0.931157 -199 TGTGACCTGAAACTGCCGCCCTGGAGCAAAG 12 25 1 AATGCCGCCC 0.960817 -93 GAGAAGTCGTAAAAGCAGCCC 18 1 0 AAAGCAGCCC 0.845426 -116 ACTAAAATTGAAAAGTCCCCCTGGTTGCACA 18 84 1 AAAGTCCCCC 0.867312 -33 ATAATCACCTAATATCGGCCCACCGCCTAGG 19 20 0 AAATCGGCCC 0.89565 -90 ATGGGGGCAAAATTTTCGCCCTGGTTTTTAA 19 50 0 AATTTCGCCC 0.904918 -60 GCTAAACTTAAAGATCCGCCCCTAGATAGCC 22 44 0 AAATCCGCCC 0.975572 -87 TCGTTTTTGAACTGCCCCCCTGACCCCCCC 25 10 1 AATGCCCCCC 0.956242 -47 TTCACCGATAAATTCCCCCCAGCCTTGGGG 25 37 0 AATTCCCCCC 0.969483 -20 TTTTCCTGGCAAGATTAGCGCCTTTAAACTG 32 35 0 AAATTAGCGC 0.474733 -22 TGGCTGGGGTCAAATCCGCCCAATCAACTTA 34 77 1 CAATCCGCCC 0.935591 -157 TTTTGCTTCCACTATCCGCCCGACAGCAGAA 38 186 1 ACATCCGCCC 0.826214 -115 ** ******** Masking position 9 Map Score: 11.3281 Number of sites scoring better than the average of aligned sites = 1733 Number in coding regions = 1488 Number in noncoding regions = 245 Number of orfs with sites within 600 bp upstream = 226 Fraction of orfs with sites within 600 bp upstream = 0.0362994 Motif number 8 GGACCTTGCAGCTTGATTTGCCCGTGCCAT 1 26 0 GCTTGATTTG 0.735081 -275 CACGGTAATTAGTTGCTTGGACCAGTCTAA 1 69 1 AGTTGCTTGG 0.852112 -232 CCCCGATCGCCCTTGCTTGGTTTGCCTACA 1 211 1 CCTTGCTTGG 0.961942 -90 AATCAAGATTGATTTGATTGTTAATG 4 63 0 GATTGATTTG 0.556733 -16 GCGGAAAAATCCTTGCTTGTTGTGAACTTC 9 66 0 CCTTGCTTGT 0.808039 -26 ATGGGCATTACATTGATTGTGGCCATTATC 10 15 0 CATTGATTGT 0.601945 -286 AAGTTGGAAGGCTTGAATGGTCGAGTTAAT 10 74 0 GCTTGAATGG 0.817825 -227 ATATTCAATTCCTTGATTGAGATCAAAATC 11 103 1 CCTTGATTGA 0.569375 -198 TATTGCGGTCGCTTGATTGGGTCAGTTTAC 17 126 1 GCTTGATTGG 0.96529 -161 AATTATCTTTGCTTGATTGTTTAGTTGTTT 20 14 1 GCTTGATTGT 0.822325 -160 ACGGGAGCAGTATTGATTGGAGCGAGCATA 27 88 1 TATTGATTGG 0.584321 -95 AAGTAGATAAAATTGCATGGTTGATATTTA 31 256 0 AATTGCATGG 0.419423 -45 ATTATGCCAGGGTTGCTTGGTACTGGACTA 34 41 0 GGTTGCTTGG 0.953317 -193 AATTGCGGTAAGTTGATTGGGCGGATTTGA 34 86 0 AGTTGATTGG 0.820556 -148 CGTTGCAGCTCATTGCTTGGCCCCATTGTG 36 31 0 CATTGCTTGG 0.919673 -32 GGTTTCTTGGTCTGGTTAGG 37 151 0 GGTTTCTTGG 0.51909 -10 ********** Masking position 4 Map Score: 7.13705 Number of sites scoring better than the average of aligned sites = 698 Number in coding regions = 627 Number in noncoding regions = 71 Number of orfs with sites within 600 bp upstream = 68 Fraction of orfs with sites within 600 bp upstream = 0.0109219 Motif number 9 ACACACTGGCTGGCCACCATAGCGGAGATT 1 161 0 TGGCCACCAT 0.916585 -140 GTTCGATTACCAGCCACATT 8 87 1 CAGCCACATT 0.722811 -10 CCCCGATAATGGCCACAATCAATGTAATG 10 10 1 TGGCCACAAT 0.974264 -291 AAAGACATTTTAGCCAAAATTGACGAGAGA 10 152 0 TAGCCAAAAT 0.521108 -149 GAGGAATAAATGGCAACAATTGAAACTGAC 10 185 0 TGGCAACAAT 0.697371 -116 ACCCATTCTTTGTCCCCATTGTCGCCGCAC 16 59 0 TGTCCCCATT 0.642994 -188 GTAAACAACCTGGGCACATTATGCCCCTTT 17 249 0 TGGGCACATT 0.871812 -38 GCGAAAATTTTGCCCCCATTCCTCTGGCGA 19 62 1 TGCCCCCATT 0.83087 -48 ATTTGGGATTTAGCCACACTTATTATATGG 21 49 0 TAGCCACACT 0.910094 -199 CGCCCCTAGATAGCCACCATTTAATTTTTA 22 29 0 TAGCCACCAT 0.838418 -102 AATCGGGTCTTGGCCACATTCAAACATCCC 28 30 0 TGGCCACATT 0.974264 -102 CATTTTATCCTACCCACAATGATAGAAGAG 29 123 1 TACCCACAAT 0.777705 -100 AAAATCGAGCTAGGCCCACTGAATCCAAGG 34 187 0 TAGGCCCACT 0.546663 -47 GCTCATTGCTTGGCCCCATTGTGCCAGAGA 36 24 0 TGGCCCCATT 0.961688 -39 ********** Masking position 10 Map Score: 6.54474 Number of sites scoring better than the average of aligned sites = 1000 Number in coding regions = 938 Number in noncoding regions = 62 Number of orfs with sites within 600 bp upstream = 68 Fraction of orfs with sites within 600 bp upstream = 0.0109219 Motif number 10 TATTAAAAACTAAGTTTTCCCCCAGAAATC 1 281 1 TAAGTTTTCC 0.583316 -20 TCTAAATCGGTCAGCCTTGCCCAAAGGGAAA 6 21 0 TCAGCCTTCC 0.95303 -87 TTTCCCCATCCCAACTTTCCATGGCACCCAG 7 46 0 CCAACTTTCA 0.737429 -95 AAAGATAATTTCAGCTTTACCTGGGAAAGTG 7 103 0 TCAGCTTTCC 0.964413 -38 CTCGACCATTCAAGCCTTCCAACTTCTCTTC 10 79 1 CAAGCCTTCA 0.754333 -222 GGAAGGGCTTCCAGCTTTCGCTCAATCCGGT 10 117 1 CCAGCTTTGC 0.715094 -184 CCGGTTTGGATAAACTTTTCCTGGCTTTGCT 12 49 0 TAAACTTTCC 0.850753 -69 TCAAACTGCCCCAGCCTTACCCCTAACTAAC 12 92 1 CCAGCCTTCC 0.962359 -26 CCCACAACCATCAGCATTTCCGGACAGGAAT 14 78 1 TCAGCATTCC 0.758392 -84 TCAATTTCACCAATCTTTTCCCC 17 3 0 CAATCTTTCC 0.598582 -284 TGTTAGTGGTTAAACTTTGCCATTCTTTAGG 24 34 1 TAAACTTTCC 0.850753 -88 TAAGCAAAATTCAGTTTTACCAATGGTTGA 24 102 1 TCAGTTTTCC 0.716386 -20 GTTTTCAAACCTTTCAAACTGGAATG 26 56 0 CAAACCTTCA 0.538185 -16 AAATAAACCTCCAGCTTTCCTATTTTTATGA 29 170 0 CCAGCTTTCT 0.692228 -53 GGTATATTGATAAGCTTTACATATCAAAGAG 31 171 0 TAAGCTTTCA 0.764968 -130 AGCAACTTTACCCAATGTCGGA 38 2 1 GCAACTTTCC 0.682034 -299 TAGTTTACCCTAAACCTTTCCGTGAATTGCT 38 242 1 TAAACCTTCC 0.81017 -59 ******** ** Masking position 7 Map Score: 9.45946 Number of sites scoring better than the average of aligned sites = 1012 Number in coding regions = 876 Number in noncoding regions = 136 Number of orfs with sites within 600 bp upstream = 132 Fraction of orfs with sites within 600 bp upstream = 0.0212014 Motif number 11 CGCCGTTGCGTTCAATCTAAGCCTACCCTTTCC 2 41 1 TTACTAAGCC 0.890051 -37 GGGCGCAATCTTCAGACCTAGCCAAAAAACAAC 10 243 1 TTACCTAGCC 0.887378 -58 CGGACAGGAATTAAGTTCTACCCCCGTCCACGT 14 98 1 TTATCTACCC 0.640978 -64 CTTTTCAATTTTAGTCCTTAGCCCCCGTCTGCG 18 66 0 TTGCTTAGCC 0.955682 -51 ATGATTTAATTTGGGATTTAGCCACACTTATTA 21 54 0 TTGTTTAGCC 0.939788 -194 TTAGTTAAGTTTAATGCTATGCCTTTGCCTCTC 21 187 0 TTACTATGCC 0.722139 -61 ACCCCTCACCTTGGAACTTAGCCGTGATTAC 21 227 1 TTGCTTAGCC 0.955682 -21 GGGGCGGATCTTTAAGTTTAGCCGTGGTTTTCC 22 53 1 TTATTTAGCC 0.91868 -78 ACTTAAAGAATTAGAGTTAACCC 32 1 0 TTGTTAACCC 0.71705 -56 ATTGGGCGGATTTGACCCCAGCCATGGCTCATT 34 68 0 TTGCCCAGCC 0.717789 -166 ACTAATCAGTTTAAGGTTTTGCCGCCAAAAAAA 37 85 0 TTATTTTGCC 0.783872 -76 GTGTCCGTTGTTAACTTTTTGCCCTAACCAGAC 37 129 1 TTATTTTGCC 0.783872 -32 TCGGTCTGACTTAGGGTTAACCCATCAGGAGTC 38 136 0 TTGTTAACCC 0.71705 -165 ** * ******* Masking position 2 Map Score: 5.14419 Number of sites scoring better than the average of aligned sites = 404 Number in coding regions = 337 Number in noncoding regions = 67 Number of orfs with sites within 600 bp upstream = 88 Fraction of orfs with sites within 600 bp upstream = 0.0141343 Motif number 12 GATTAGAAAATATAGCGATTGTCAGTCCAGGAAAGTAGAGCAA 3 112 0 TGTTACCAGA 0.930031 -34 AAGGATGGCTTTAATTATTTTTAATACCAGCATTAACAATCAA 4 33 1 TATTACCAGT 0.972857 -46 CCTTAATTCATCTGAAAATTCCAACAGCAGGGTTAGCCATGGT 8 29 1 TATTAGCAGT 0.807183 -68 GATGGGTTAATGAACAAACTTCTAACCCAGTAATTAAAGTACC 11 36 1 TACTACCAGA 0.748579 -265 AATCAAGGAATTGAATATTTACAATCCCAGGATGACCGACTTG 11 78 0 TATTACCAGT 0.972861 -223 ATCACCTTCCTCGTCGGATTCGGAACCCATTCTTTGTCCCCAT 16 70 0 TGTTACCATT 0.892313 -177 CACTTTGTTTTAACTAGATTAATAATCCATTATTTGATTGTTT 20 59 1 TGTTACCATT 0.887046 -115 GCTCTACGCCTTTATCAATTGCCATTCCAGTTTGAAAGGTTTG 26 34 1 TATTACCAGT 0.972857 -38 AATTTTTATACTTGAAAAACCAGCATTATTTAAACG 31 4 1 TATTACCAGT 0.972861 -297 GGTAAGTTGATTGGGCGGATTTGACCCCAGCCATGGCTCATTA 34 67 0 TGATACCAGA 0.652644 -167 GCTCGATTTTTTTGTTATTTATCAGTCCATCATTCTA 34 207 1 TATTACCATT 0.89878 -27 * * ** * **** * Masking position 14 Map Score: 1.791 Number of sites scoring better than the average of aligned sites = 99 Number in coding regions = 86 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 13 AACAGCAGGGTTAGCCATGGTATAGTGGAAG 8 51 1 TTAGCCTGGT 0.83741 -46 TTCCTGGCTTTGCTCCAGGGCGGCAGTTTCA 12 32 0 TGCTCCGGGC 0.938066 -86 AAATCCCTGGCTCCGTGGCCATCAAGCAT 15 9 1 GGCTCCTGGC 0.938065 -21 AGGAAGGTGATGATCCTTGGCGATCGCCAGT 16 102 1 TGATCCTGGC 0.976898 -145 TCTGTCGGAATGATCGGTGGCGGAGACAACC 16 145 1 TGATCGTGGC 0.831602 -102 GGGCAAAATTTTCGCCCTGGTTTTTAATAAT 19 46 0 TTCGCCTGGT 0.907373 -64 ATCTTTAAGTTTAGCCGTGGTTTTCCCCTCG 22 60 1 TTAGCCTGGT 0.83741 -71 TGTGTTTCTCTGCTCCATGGTAGCCGATTCT 23 24 1 TGCTCCTGGT 0.976898 -39 CCTGGCATAATGAGCCATGGCTGGGGTCAAA 34 60 1 TGAGCCTGGC 0.975337 -174 GGCGATCGAGTGCTCCCTGTTTTTTTGGCGG 37 66 1 TGCTCCTGTT 0.866928 -95 TTAGTTGGATTGCTCCGTGTCCGTTGTTAAC 37 113 1 TGCTCCTGTC 0.925322 -48 ****** **** Masking position 5 Map Score: 8.80374 Number of sites scoring better than the average of aligned sites = 515 Number in coding regions = 465 Number in noncoding regions = 50 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 14 CCTTCAAAACCCGTTGCATTTAAGCT 4 4 0 CCGCATTTAA 0.972494 -75 GCTATTATAGCCATAGAAGTTCACAACAAGCAA 9 51 1 CCGAAGTTCA 0.938281 -41 TGATTTTACTCCCCATCATTTCAGATTAAAAGG 11 174 0 CCTCATTTCA 0.854547 -127 GTTGCCATAGAATTTAACAGGAAAGAC 13 12 0 CCGAATTTAA 0.948951 -17 AACGCAAATTCCCTTGCATTTAATACCATTACT 16 22 1 CCGCATTTAA 0.972494 -225 AAAGCCATTGCCACTCAATTTCACCAATCTTTT 17 15 0 CCCAATTTCA 0.82073 -272 CCATATACCACCTCTGCATTTCAGACTATCTTC 29 88 1 CCGCATTTCA 0.985347 -135 TTTGGAAAATCGCTTGAATTTAAAAACTATGTA 31 71 0 CGGAATTTAA 0.684627 -230 CCCACTGAATCCAAGGCAGTTCAGGGGATTGCT 34 170 0 CCGCAGTTCA 0.966571 -64 TGAATCTGAACCTGTGAATTTAAGGTAACGCTT 35 13 1 CCGAATTTAA 0.948951 -53 TCAACAATGCCCAGAGCAATTCACGGAAAGGTT 38 254 0 CCGCAATTCA 0.913798 -47 ** ******** Masking position 8 Map Score: 8.52459 Number of sites scoring better than the average of aligned sites = 96 Number in coding regions = 73 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 15 AGTGCGTTCCGAAGGAAAAATTCCGTAATGCCCC 5 51 0 GAGAAATTCC 0.917178 -250 TTTAATCTCTCAGGGTAAATTCCCCGCCCCTTGA 5 105 0 CAGAAATCCC 0.982955 -196 TACCTGCAACGAAAAACCCCATCCCAGTTA 6 88 0 CAGAAACCCC 0.923234 -20 TGCCTTAATTCATCTGAAAATTCCAACAGCAGGG 8 27 1 CATAAATTCC 0.862734 -70 TCCCTCCTGTGACCTGAAACTGCCGCCCTGGAGC 12 18 1 GATAAATGCC 0.613466 -100 TCGCTGTCAGCAACGCAAATTCCCTTGCATTTAA 16 11 1 CAGAAATCCC 0.982955 -236 TAAGGACTAAAATTGAAAAGTCCCCCTGGTTGCA 18 79 1 AAGAAATCCC 0.865588 -38 CCTGGTTGCACAGAGGAAATTGCC 18 103 1 CAGAAATGCC 0.967889 -14 GTAATCACGGCTAAGTTCCAAGGTGAGGG 21 229 0 CAGTAATTCC 0.909963 -19 TTCACCGATAAATTCCCCCCAGCCTT 25 41 0 CAGTAATTCC 0.909963 -16 ** * *** **** Masking position 8 Map Score: 3.2923 Number of sites scoring better than the average of aligned sites = 262 Number in coding regions = 233 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