AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i054_aful_mthe_300.orf -o054_aful_mthe_300.ace -a/home/amcguire/alignace/lib/ORF_aful.txt -z/skink1/amcguire/genomes/aful.fna -g0.49 -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 = 0.49 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: RAG47711 27 Archaeoglobus_fulgidus RAG47320 27 Archaeoglobus_fulgidus RTH00115 20 M.thermo Input sequences: #1 RAG47710 69 Archaeoglobus_fulgidus #2 RAG09686 71 Archaeoglobus_fulgidus #3 RAG48909 68 Archaeoglobus_fulgidus #4 RAG02411 38 Archaeoglobus_fulgidus #5 RAG47340 36 Archaeoglobus_fulgidus #6 RAG02631 207 Archaeoglobus_fulgidus #7 RAG02630 133 Archaeoglobus_fulgidus #8 RAG47432 74 Archaeoglobus_fulgidus #9 RAG47453 272 Archaeoglobus_fulgidus #10 RAG47477 46 Archaeoglobus_fulgidus #11 RAG17481 39 Archaeoglobus_fulgidus #12 RAG46689 78 Archaeoglobus_fulgidus #13 RTH01478 169 M.thermo #14 RTH02111 128 M.thermo #15 RTH00507 168 M.thermo #16 RTH01222 117 M.thermo #17 RTH00669 49 M.thermo #18 RTH02113 36 M.thermo #19 RTH01449 18 M.thermo #20 RTH02062 231 M.thermo #21 RTH02064 195 M.thermo #22 RTH01737 64 M.thermo #23 RTH00128 23 M.thermo #24 RTH00136 54 M.thermo #25 RTH02067 22 M.thermo #26 RTH01815 75 M.thermo #27 RTH00552 206 M.thermo #28 RTH01769 269 M.thermo #29 RTH00704 49 M.thermo #30 RTH02072 18 M.thermo #31 RTH01577 19 M.thermo #32 RTH00727 24 M.thermo #33 RTH01200 24 M.thermo #34 RTH01872 170 M.thermo #35 RTH00804 135 M.thermo #36 RTH00893 81 M.thermo #37 RTH00026 64 M.thermo Motif number 1 GGAATCAGACCAGCCCCACCAGCTAAAAGA 6 88 1 CAGCCCCACC 0.983672 -120 ATAAACACCAATGCCCCCCTACCCTTAAGG 9 12 1 ATGCCCCCCT 0.957161 -261 CGCAGCATGTCTGCCCCACTATGTTATTAA 13 88 0 CTGCCCCACT 0.985175 -82 GATTTACATCATGCCCCTCTGTGGAGGAAC 13 122 0 ATGCCCCTCT 0.948724 -48 CCCCACCTACATCACCCCCCGATTTACATC 13 142 0 ATCACCCCCC 0.94189 -28 GGGAAAACCCCCACCTACATCACCC 13 155 0 AACCCCCACC 0.921246 -15 TTATGATTTTCAGACCCTCCAAGACCCACA 14 35 0 CAGACCCTCC 0.956884 -94 CTTCAGGGCGCTGACACCCCAGATAGAGTT 21 139 0 CTGACACCCC 0.835566 -57 ATCTCAAACCCTGACCCTCCAGGGGAAATC 21 169 0 CTGACCCTCC 0.98574 -27 AAGTTAATTTCTCACCCTCCAAGCACTCGT 27 76 1 CTCACCCTCC 0.966014 -131 TATAAAGGTACTCACCCACTTCATGTTAAT 28 190 1 CTCACCCACT 0.944668 -80 TATGGGTGGGAGGCCCCACCATACCCTCGC 34 99 1 AGGCCCCACC 0.943463 -72 CTGAATTGCTGGCCCACTTCCGGAAAAA 35 9 1 CTGGCCCACT 0.927409 -127 TTATAAGTGTATGTCCCACCTGCCGCAGGT 35 46 0 ATGTCCCACC 0.919961 -90 ********** Masking position 5 Map Score: 17.816 Number of sites scoring better than the average of aligned sites = 420 Number in coding regions = 400 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 2 CCGACTCTGATTCAGGGGTAATGGCAAAATT 14 80 1 TTCAGGGGAA 0.963008 -49 TGATGAGGATTCCATGAGAATAGTTCTCAAT 16 78 1 TCCATGAGAT 0.787012 -40 TTACCTATAATCCAGGGGAGAGTGTGAC 20 214 1 TCCAGGGGGA 0.942514 -18 GAGTGTTGAGTTCCTGAGGAATATTATACCT 21 23 1 TTCCTGAGAA 0.56703 -173 GCCTTCCGTGTTCCTGGGGAATATTCCGCTG 21 86 1 TTCCTGGGAA 0.943124 -110 CCAGCACCCCTCCAGCGGAATATTCCCCAGG 21 98 0 TCCAGCGGAT 0.726181 -98 CAGATAGAGTTCCCTGGAAAACCAGCACCCC 21 119 0 TCCCTGGAAA 0.915457 -77 ACCCTGACCCTCCAGGGGAAATCCTTCAGGG 21 161 0 TCCAGGGGAA 0.976705 -35 GCTGCAGTCATCCATGGAAGACCCCTTTAAC 22 13 1 TCCATGGAGA 0.837696 -52 CCGTTTAATTTCCCTGGTTAATTCAGGTACA 26 14 1 TCCCTGGTAA 0.766856 -62 TTTTCTATTTTTCATCGGACAACTTGAAGTT 27 50 1 TTCATCGGCA 0.697608 -157 CATCGGTTGGTTCATGGGGCACCTTCAACCC 27 118 0 TTCATGGGCA 0.916508 -89 AATCCTTGTTTTCCTGGGCGTCTTACTGGAT 28 89 1 TTCCTGGGGT 0.798136 -181 GATACAGATTTTCATGAGAAATCGTATTCTG 28 134 0 TTCATGAGAA 0.883224 -136 TTTTCTACCATCCATCGGTAATTACACCAAT 28 244 0 TCCATCGGAA 0.932582 -26 CCTTTAACTGTCCATGGGGATATCTTCCCC 34 10 0 TCCATGGGAT 0.952026 -161 TTATAAGTATTTCATGGACAACCTTTAACTG 34 31 0 TTCATGGAAA 0.891248 -140 GCTGGCCCACTTCCGGAAAAATCCGTATACC 35 18 1 TTCCGGAAAA 0.443293 -118 ******** ** Masking position 1 Map Score: 17.1169 Number of sites scoring better than the average of aligned sites = 323 Number in coding regions = 306 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 3 AAAATTTTAAGGTATAAGTTAATTAATTATT 1 49 1 GGATATTAAT 0.67501 -21 ATACATTTGCGGTAAGAATTAATAACCTCTGCAC 2 37 1 GGAAGTTAAA 0.961842 -35 CAATTCGGAAGGTGAAATTAAAAACTTTCTGAAA 3 16 1 GGGAATAAAA 0.808719 -53 AGTAAAAAAAGAAAAACCTAAACTTTCAAAGCTG 6 25 0 GAAAATAAAT 0.721495 -183 GTCCTGTCTAGGGAAAAGTAAAAAAAGAAAAACC 6 41 0 GGAAATAAAA 0.940295 -167 TGCCGACACGGAAAAAGCTTAAAAGATTGCGGTT 6 172 1 GAAAATTAAA 0.881255 -36 CATTGCTGGAGGCAAGTGTTAAAAACTGCCTGGA 9 207 0 GGAAGTTAAA 0.961842 -66 AGTAAGATTGGGAAAAGGTAAATATTAGGTTTTT 10 12 1 GGAAATAAAA 0.940295 -35 GAGGAAAAGGTTAAGAGGCAAAATAA 11 24 0 GGAAATTAAA 0.95874 -16 CCCGTCATGCGGAGAGGTTTAAATCTTTTGAGAT 12 50 0 GGGAGTTAAT 0.777046 -29 CAGGGGTAATGGCAAAATTTAAGTTGTAATTACT 14 92 1 GGAAATTAAT 0.922885 -37 TTAAGCAACAGAAATGACTTAATAACGGTGATAT 24 29 1 GAATGTTAAA 0.582852 -26 TTTACCGGTAAGAATAAAGTTTCTGATTCA 26 56 0 GGAAGTAAAT 0.89795 -20 ATGAAAAATAGAAAAGCTTAAAAAAGAGAAAGGT 27 31 0 GAAAGTAAAA 0.845117 -176 CGATGGCTCAGAAAAACCTTAAAATTAGCGATAT 27 144 1 GAAAATTAAA 0.881255 -63 ** *** **** * Masking position 11 Map Score: 13.4024 Number of sites scoring better than the average of aligned sites = 200 Number in coding regions = 136 Number in noncoding regions = 64 Number of orfs with sites within 600 bp upstream = 80 Fraction of orfs with sites within 600 bp upstream = 0.0128493 Motif number 4 GCTCTATCCATGCTGAGCCACGGGCCCTTAA 9 36 0 TCTGAGCCAC 0.983165 -237 TCAGGCAATCTGCTGAGCAATTGTAAAGCTG 9 153 0 TCTGAGCAAT 0.95858 -120 TCAGCAGATTGCCTGAGCCATCCACGCCGAT 9 168 1 GCTGAGCCAT 0.944767 -105 CTTCCAGTGTTTCTGAGGCATGGATTATGTG 15 28 1 TCTGAGGCAT 0.982307 -141 GTAACCGGAATCATGGGCCATCCCCTGGGCA 20 27 0 TATGGGCCAT 0.938881 -205 AGTGTTGAGTTCCTGAGGAATATTATACCTT 21 24 1 TCTGAGGAAT 0.939995 -172 CCTTCCGTGTTCCTGGGGAATATTCCGCTGG 21 87 1 TCTGGGGAAT 0.944357 -109 ATCGGTTGGTTCATGGGGCACCTTCAACCCA 27 117 0 TATGGGGCAC 0.881003 -90 TTTAAGGTTTTTCTGAGCCATCGGTTGGTTC 27 136 0 TCTGAGCCAT 0.987955 -71 CTGAATTGCTGGCCCACTTCCGGAAAA 35 7 1 TCTGGCCCAC 0.891218 -129 * ********* Masking position 4 Map Score: 9.78987 Number of sites scoring better than the average of aligned sites = 97 Number in coding regions = 91 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 4 Fraction of orfs with sites within 600 bp upstream = 0.000642467 Motif number 5 GTGTCCAGATTCAGGTTGGGATACTTA 9 256 0 AGATCAGGTT 0.838082 -17 AATTCTGGATGGAAACTGATTGAACAGAATA 13 18 0 GGAACTGATT 0.900008 -152 AGGATTTTTAGGGTGCTGATTACATATTAAT 15 61 1 GGGTCTGATT 0.939092 -108 ATATCCACGATGATACTGATTAATATGTAAT 15 79 0 TGATCTGATT 0.953374 -90 GCAGAATGATACTGATTAACAGGTACT 15 152 0 TGATCTGATT 0.953374 -17 GGATGGCCCATGATTCCGGTTACATGTGTTT 20 35 1 TGATCCGGTT 0.752237 -197 CGGTCAGTATAGAATCTGATTTTTTTTCTCA 20 132 1 AGAACTGATT 0.778679 -100 TCCGCTGGAGGGGTGCTGGTTTTCCAGGGAA 21 110 1 GGGTCTGGTT 0.896044 -86 GTAAGAATAAAGTTTCTGATTCACCTTATCA 26 48 0 AGTTCTGATT 0.68843 -28 AAGGAATAATGGATGCAGATGAGAG 28 5 0 GGATCAGATG 0.802611 -265 AAAACTTGCTGGATACAGATTTTCATGAGAA 28 145 0 GGATCAGATT 0.959491 -125 CTTGGATTATTGATCCAGATTGGTGTAATTA 28 226 1 TGATCAGATT 0.923405 -44 **** ****** Masking position 10 Map Score: 8.36717 Number of sites scoring better than the average of aligned sites = 106 Number in coding regions = 98 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 6 AATTAAAATTTTCAGAAAGTTTTTAATTTCACC 3 26 0 TTCGAGTTTT 0.728416 -43 TACTTAAGAATCCTGAAAGTTTATTTTCAGTTA 7 57 0 TCCGAGTTTA 0.81237 -77 TTGGAGCGGACCCGGCGGGATTTGAACCCGCGA 9 88 0 CCCGGGATTT 0.962028 -185 ATTTTGGGAATCCAGGCAGTTTTTAACACTTGC 9 197 1 TCCGAGTTTT 0.973945 -76 CCTCTGAAAACCCAGGAAGTTTTTTAACTTTTG 12 13 1 CCCGAGTTTT 0.98356 -66 TTGAGGGTATTCCTGTGGGTCTTGGAGGGTCTG 14 22 1 TCCGGGTCTT 0.956322 -107 GGGAGACGACCCCAGCGAACTTTTTTTACGGGA 18 12 1 CCCGAACTTT 0.677249 -25 TCCCGTGATGCCCGGGAGGCCTTCCGTGTTCCT 21 68 1 CCCGGGCCTT 0.944842 -128 GCGCTGACACCCCAGATAGAGTTCCCTGGAAAA 21 129 0 CCCGAGAGTT 0.863567 -67 GGTGTCAGCGCCCTGAAGGATTTCCCCTGGAGG 21 151 1 CCCGGGATTT 0.962028 -45 ATCCTTGTTTTCCTGGGCGTCTTACTGGATGAT 28 90 1 TCCGCGTCTT 0.861465 -180 AAAATCTGTATCCAGCAAGTTTTATATACCGAG 28 153 1 TCCGAGTTTT 0.973945 -117 *** * ****** Masking position 12 Map Score: 8.63817 Number of sites scoring better than the average of aligned sites = 169 Number in coding regions = 159 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 7 CCCATACTATATAAATCTATAGCAT 8 6 1 ACTATATAAA 0.593628 -69 TATCATACATCAGATATAAATTGATGGAAT 13 55 0 CAGATATAAA 0.693949 -115 TAAAAATCCTCCCACATAATCCATGCCTCA 15 41 0 CCCACATAAT 0.790874 -128 AAGATATTAACTCATATAATACATATTACA 16 47 1 CTCATATAAT 0.710867 -71 TTCATATAATCCTATATAAATATATCGCTA 27 169 0 CCTATATAAA 0.913185 -38 AAAGCTTCATCACATATAAAGTTTTGCTGC 28 49 0 CACATATAAA 0.939778 -221 ATATACCGAGAACATATAAAGGTACTCACC 28 176 1 AACATATAAA 0.684359 -94 AGATTACACCTATAAACGCTTTTA 32 9 0 CACCTATAAA 0.728183 -16 GGGCCTCCCACCCATATAATGTCCATCACT 34 85 0 CCCATATAAT 0.956574 -86 CTATACCCACCTATATAATGTCCATCACT 34 152 0 CCTATATAAT 0.844997 -19 TATAACTTATCCCATATTAATATCTATAGT 35 71 1 CCCATATTAA 0.831073 -65 AATACAGGTCCCCATATAAATTTTTGGTGA 36 58 1 CCCATATAAA 0.976998 -24 ********** Masking position 6 Map Score: 6.35634 Number of sites scoring better than the average of aligned sites = 62 Number in coding regions = 48 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 8 CTTTTAGCTGGTGGGGCTGGTCTGATTCCT 6 87 0 GTGGGGCTGG 0.774304 -121 CGTGTCGGCAGCGTTGATGTTCTGCACTCT 6 152 0 GCGTTGATGT 0.733308 -56 CCCAAAATCGGCGTGGATGGCTCAGGCAAT 9 175 0 GCGTGGATGG 0.915929 -98 TTATCAGACCGCATTGCTGGAGGCAAGTGT 9 222 0 GCATTGCTGG 0.884054 -51 TGTAAATCGGGGGGTGATGTAGGTGGGGGT 13 144 1 GGGGTGATGT 0.880086 -26 CTCTGATTCAGGGGTAATGGCAAAATTTAA 14 84 1 GGGGTAATGG 0.793668 -45 AACACTGGAAGCAGGGCTGGATCACATA 15 9 0 GCAGGGCTGG 0.915821 -160 CTGGCTGAAGGTGTTTTT 19 2 1 TGGCTGAAGG 0.528945 -17 ACAATATTTATCGCTGATGGTAAATAAATA 20 175 0 TCGCTGATGG 0.874224 -57 TTCCGCTGGAGGGGTGCTGGTTTTCCAGGG 21 109 1 GGGGTGCTGG 0.982899 -87 ACCTCCCGTGAGTGCTGGTTGAG 23 6 0 TGAGTGCTGG 0.878169 -18 ATATACTGCTGGGTTGAAGGTGCCCCATGA 27 108 1 GGGTTGAAGG 0.792732 -99 CACGACCGGGTCAGTGATGGACATTATATG 34 73 1 TCAGTGATGG 0.902007 -98 AGTACCCAGGTCAGTGATGGACATTATATA 34 140 1 TCAGTGATGG 0.902007 -31 ********** Masking position 9 Map Score: 9.23956 Number of sites scoring better than the average of aligned sites = 986 Number in coding regions = 937 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405 Motif number 9 TAAGCTTTTTCCGTGTCGGCAGCGTTGATG 6 163 0 CCGTGTCGGC 0.927038 -45 TCAAATCCCGCCGGGTCCGCTCCAATCTAA 9 96 1 CCGGGTCCGC 0.989805 -177 CTGCCGGGACGGTCTCATCCCTC 16 4 1 CCGGGACGGT 0.910057 -114 TCTATACTGACCGGTGCAGCATCTAAACCC 20 115 0 CCGGTGCAGC 0.949277 -117 ATCACGGGACCCGGGGCCCCTCAAGGTATA 21 47 0 CCGGGGCCCC 0.961105 -149 CGGAAGGCCTCCCGGGCATCACGGGACCCG 21 64 0 CCCGGGCATC 0.911984 -132 TCCTTGTTTTCCTGGGCGTCTTACTGGATG 28 91 1 CCTGGGCGTC 0.872652 -179 CTGAATTATCCCGGATCATCCAGTAAGACG 28 107 0 CCGGATCATC 0.826597 -163 GTGGCCACGACCGGGTCAGTGATGGACATT 34 68 1 CCGGGTCAGT 0.97664 -103 TCCAGAGTACCCAGGTCAGTGATGGACATT 34 135 1 CCAGGTCAGT 0.823786 -36 ********** Masking position 7 Map Score: 4.36088 Number of sites scoring better than the average of aligned sites = 139 Number in coding regions = 129 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 5 Fraction of orfs with sites within 600 bp upstream = 0.000803084 Motif number 10 GCTACCCCCTTTTCCCTTCATTTTGAAT 4 21 0 CTTTTCCCTT 0.967243 -18 TCTTTTTTTACTTTTCCCTAGACAGGACGA 6 47 1 CTTTTCCCTA 0.959947 -161 TGGTCTGATTCCTTTCTCTAAGATCGTCCT 6 70 0 CCTTTCTCTA 0.85638 -138 ACCTCATAGCCTTTTCTCCACAAATTATAT 8 49 0 CTTTTCTCCA 0.891407 -26 TAATATTTACCTTTTCCCAATCTTACTT 10 9 0 CTTTTCCCAA 0.912483 -38 GAGTTAATATCTTTACCCCTCAGTTTGAGG 16 30 0 CTTTACCCCT 0.758003 -88 CTTGAAGATACCTTTCTCTTTTTTAAGCTT 27 22 1 CCTTTCTCTT 0.880186 -185 CTTTTTTAAGCTTTTCTATTTTTCATCGGA 27 39 1 CTTTTCTATT 0.595694 -168 ACACTTATAACTTATCCCATATTAATATCT 35 66 1 CTTATCCCAT 0.669419 -70 ********** Masking position 3 Map Score: 2.11596 Number of sites scoring better than the average of aligned sites = 359 Number in coding regions = 327 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 34 Fraction of orfs with sites within 600 bp upstream = 0.00546097 Motif number 11 TTTCACCTTCCGAATTGAAGTG 3 3 0 CGAATTGAAG 0.72591 -66 TTATATTATTCAAAATGAAGGGAAAAGGGG 4 14 1 CAAAATGAAG 0.779245 -25 GAATTCTTTTCAAATTGATGCCGTTACTAG 6 116 1 CAAATTGATG 0.911553 -92 ACATCAGATATAAATTGATGGAATTGATGA 13 49 0 TAAATTGATG 0.904891 -121 CTGAAAATCATAACTTGATGAGCAGGCACC 14 52 1 TAACTTGATG 0.938153 -77 TAATACATATTACATTGATGAGGATTCCAT 16 63 1 TACATTGATG 0.823027 -55 CCCTTAATATTATCTTGAAGTATCCTTAAA 17 22 0 TATCTTGAAG 0.770095 -28 AGGAATATTATACCTTGAGGGGCCCCGGGT 21 39 1 TACCTTGAGG 0.769634 -157 TTTCATCGGACAACTTGAAGTTAATTTCTC 27 59 1 CAACTTGAAG 0.952922 -148 AGTTATGGATTAACATGAAGTGGGTGAGTA 28 198 0 TAACATGAAG 0.838597 -72 ********** Masking position 6 Map Score: 2.027 Number of sites scoring better than the average of aligned sites = 41 Number in coding regions = 32 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 12 GAACCAATTCTGAGCAGGTAAAT 3 56 0 GACATTCTGA 0.950859 -13 ATGAAATTCTGGATGGAAACTGATTGAACAGAA 13 20 0 GATAAACTGA 0.919707 -150 TGATGAGCAGGCACCGACTCTGATTCAGGGGTA 14 67 1 GACACTCTGA 0.977577 -62 GTATCATCGTGGATATACACTGATCTGAGCATG 15 94 1 GATACACTGA 0.93258 -75 GCACCGGTCAGTATAGAATCTGATTTTTTTTCT 20 128 1 GATAATCTGA 0.933828 -104 GCGGCAGGTGGGACATACACTTATAACTTATCC 35 50 1 GACACACTTA 0.776243 -86 CTTATAAATGGAATCATTCTGATACGCTCATG 35 114 0 GAAATTCTGA 0.749588 -22 TATTAATGTTGAACCTAAACTGATAATAAATAT 36 29 0 GACAAACTGA 0.967001 -53 CTTGAACGGAATCTGTCATTATTATT 37 4 1 GACAATCTGT 0.850551 -61 * ** ******* Masking position 7 Map Score: 2.67546 Number of sites scoring better than the average of aligned sites = 23 Number in coding regions = 19 Number in noncoding regions = 4 Number of orfs with sites within 600 bp upstream = 5 Fraction of orfs with sites within 600 bp upstream = 0.000803084 Motif number 13 GCTACCCCCTTTTCCCTTCA 4 29 0 GCTACCCCCT 0.980178 -10 GCTTTCACCTCATAGCCTTT 8 65 0 GCTTTCACCT 0.920909 -10 ATTTTTCAAGGCTACTACCATTCAGCAGCT 9 128 1 GCTACTACCA 0.776853 -145 CTCTGCAGTGGCTACCACCAGATACTACAT 15 124 0 GCTACCACCA 0.96892 -45 GGAATCATGGGCCATCCCCTGGGCACAGCC 20 22 0 GCCATCCCCT 0.930553 -210 CGCCCTGAAGGATTTCCCCTGGAGGGTCAG 21 159 1 GATTTCCCCT 0.878333 -37 GGGGAAGATATCCCCATGGACAGTTA 34 7 1 GATATCCCCA 0.951737 -164 GATATCACCAAAAATTTATA 36 72 0 GATATCACCA 0.925554 -10 ********** Masking position 8 Map Score: 3.48983 Number of sites scoring better than the average of aligned sites = 234 Number in coding regions = 217 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 14 AGTAAAAAAAGAAAAACCTAAACTTTCAAA 6 29 0 GAAAAACCTA 0.789552 -179 TGCCGACACGGAAAAAGCTTAAAAGATTGC 6 172 1 GAAAAAGCTT 0.715664 -36 TAGTAGCCTTGAAAAATCTTTAGATTGGAG 9 115 0 GAAAAATCTT 0.810997 -158 CTCAGAAAACTCTTTATTTTGCCT 11 5 1 GAAAACTCTT 0.800513 -35 AACCTCTGAAAACCCAGGAAGTTTTTT 12 8 1 GAAAACCCAG 0.919444 -71 GGGAAAACCCCCACCTACATCA 13 158 0 GAAAACCCCC 0.835989 -12 AGAGTTCCCTGGAAAACCAGCACCCCTCCA 21 115 0 GGAAAACCAG 0.696818 -81 GTCATCCATGGAAGACCCCTTTAACAGATG 22 19 1 GAAGACCCCT 0.724154 -46 CGATGGCTCAGAAAAACCTTAAAATTAGCG 27 144 1 GAAAAACCTT 0.9383 -63 ATGGATGGTAGAAAAACCAG 28 260 1 GAAAAACCAG 0.924268 -10 CCCACTTCCGGAAAAATCCGTATACCTGCG 35 23 1 GAAAAATCCG 0.84411 -113 ********** Masking position 5 Map Score: 2.03256 Number of sites scoring better than the average of aligned sites = 292 Number in coding regions = 264 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 15 ATTAAAATTTTCAGAAAGTTTTTAATTTCA 3 28 0 TCAGAAAGTT 0.944045 -41 ACTTAAGAATCCTGAAAGTTTATTTTCAGT 7 59 0 CCTGAAAGTT 0.878556 -75 TTTTGGGAATCCAGGCAGTTTTTAACACTT 9 198 1 CCAGGCAGTT 0.944008 -75 CTCTGAAAACCCAGGAAGTTTTTTAACTTT 12 14 1 CCAGGAAGTT 0.982076 -65 ATAAGGTGAATCAGAAACTTTATTCTTACC 26 50 1 TCAGAAACTT 0.764345 -26 AAATCTGTATCCAGCAAGTTTTATATACCG 28 154 1 CCAGCAAGTT 0.953358 -116 TCAGGAAGGTGTTTACCA 30 1 1 TCAGGAAGGT 0.890866 -18 ********** Masking position 7 Map Score: 1.54179 Number of sites scoring better than the average of aligned sites = 59 Number in coding regions = 48 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987