AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00150_mtub_reg_300.orf -o00150_mtub_300.ace -a/home/amcguire/genomes/ORF_mtub.txt -z/home/amcguire/genomes/mtub.fna -g0.66 -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 = 0.66 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 Rv0187 300 hypothetical protein Rv0187 #2 Rv0552 77 hypothetical protein Rv0552 #3 menD 42 menD #4 Rv0557 61 hypothetical protein Rv0557 #5 Rv1008 85 hypothetical protein Rv1008 #6 Rv1009 207 hypothetical protein Rv1009 #7 cobG 224 cobG #8 cobL 67 cobL #9 Rv2073c 29 hypothetical protein Rv2073c #10 Rv2689c 173 hypothetical protein Rv2689c #11 Rv2690c 134 hypothetical protein Rv2690c Motif number 1 CGCTGCACCTGCGGCGACGAATTG 1 5 0 GCGGCGACGA 0.953858 -296 CGCAGGTGCAGCGGTAGGCGTCACCGGCGC 1 22 1 GCGGTAGGCG 0.900755 -279 CACTGTGCTGGCGCCGGTGACGCCTACCGC 1 32 0 GCGCCGGTGA 0.97996 -269 GAACCCGACAGCCACAGCCCTCGTGGCTGC 1 79 1 GCCACAGCCC 0.879649 -222 CGACCGTCGCGCGCCAGCAGGCAACCGCCC 1 265 0 GCGCCAGCAG 0.854651 -36 CTGCTGGCGCGCGACGGTCGGTGGTCGCGC 1 275 1 GCGACGGTCG 0.985638 -26 GTCGGTGGTCGCGCTAGCGT 1 291 1 GCGCTAGCGT 0.805813 -10 ATTTGGATCTGCCGTGCCCTCGTAATCTCG 2 35 1 GCCGTGCCCT 0.716608 -43 GCGCGGCCCGGCCATACGGT 3 1 1 GCGCGGCCCG 0.988221 -42 ACTGTCAGCGCCGGCTGTCGAAATGGT 4 45 0 GCGCCGGCTG 0.953509 -17 GTGCGGGTGAGCTCCGACCGCCCAGCCAGA 5 30 1 GCTCCGACCG 0.81665 -56 AGGGGTTCCGGAGCGGGCGGTGGATCTCGT 5 59 0 GAGCGGGCGG 0.749955 -27 CGGCGCCAGGGGTTCCGGAGCG 5 74 0 GCGCCAGGGG 0.864435 -12 GCGCGCCGAGCGGCCCATAACA 6 3 1 GCGCCGAGCG 0.989432 -205 CAACTCCGGCGCGCGGGTGTTATGGGCCGC 6 20 0 GCGCGGGTGT 0.931443 -188 AAACCTAGAGGCCCCACCCGTTCGATCACA 6 78 0 GCCCCACCCG 0.961703 -130 GCGACAGGTGGCCGGAGTGGG 7 2 0 GCCGGAGTGG 0.675093 -223 TTCTGAGGGCGCGACAGGTGGCCGGAGTGG 7 12 0 GCGACAGGTG 0.675406 -213 ACGAGCGACCGCGCGGACGCCGCGGCACAC 7 66 0 GCGCGGACGC 0.94464 -159 GGTCGCTCGTGCCCGACTCGTGGAGCGACT 7 86 1 GCCCGACTCG 0.744966 -139 GGGTTTGAGGGCGCCGAGTCGCTCCACGAG 7 102 0 GCGCCGAGTC 0.84501 -123 CCTCAAACCCGCCACGATGCGCGCAATCGA 7 122 1 GCCACGATGC 0.788132 -103 AATCGAAAACGCCCTGACCCTGATCCTCGG 7 146 1 GCCCTGACCC 0.909002 -79 TCGCCGCCTCGCCGCGCTCAGGTCCCGTCG 7 181 0 GCCGCGCTCA 0.884916 -44 GCGCGGCGAGGCGGCGACCCATTCTCCCGT 7 194 1 GCGGCGACCC 0.969321 -31 TCCGCGACGATGCAGAGCGCAGC 8 4 1 GCGACGATGC 0.91669 -64 GCGCAGCGATGCGGTGGGGGTACCGCCCGC 8 27 1 GCGGTGGGGG 0.914282 -41 CGGCGCCGCTCTCCCCCGCAAG 8 56 0 GCGCCGCTCT 0.96731 -12 ATTATTGCCTGCGCTAGCGTGA 9 3 0 GCGCTAGCGT 0.805813 -27 CGATTGACCCGCGCCGGCGACGATGCAGAG 10 22 1 GCGCCGGCGA 0.611036 -152 GCAGAGCAAAGCGATGGGGAGGAGCGGCGC 10 46 1 GCGATGGGGA 0.899812 -128 CGGGTCACTGGCGCCGCTCCTCCCCATCGC 10 56 0 GCGCCGCTCC 0.985038 -118 CCAGTGACCCGCGCCGGCGACGATGCAGAG 10 75 1 GCGCCGGCGA 0.611036 -99 GCAGAGCAAAGCGATGGGGAGGAGCGGCGC 10 99 1 GCGATGGGGA 0.899812 -75 CGGGTCACTGGCGCCGCTCCTCCCCATCGC 10 109 0 GCGCCGCTCC 0.985038 -65 CCAGTGACCCGCGCCGGCGACGATGCAGAG 10 128 1 GCGCCGGCGA 0.611036 -46 GCAGAGCAAAGCGATGGGGAGGAGCGGCGC 10 152 1 GCGATGGGGA 0.899812 -22 TGGCGCCGCTCCTCCCCATCGC 10 162 0 GCGCCGCTCC 0.985038 -12 TGTCCGGTGCGCCGTACGCGATCGGCAACC 11 29 1 GCCGTACGCG 0.618203 -106 TCGGCAACCCGCGGTGGCCAGCCGATTTAC 11 50 1 GCGGTGGCCA 0.964049 -85 GAACGCTACCGCCACGCTCGGATAGGCCTA 11 103 1 GCCACGCTCG 0.924431 -32 ********** Masking position 1 Map Score: 77.3023 Number of sites scoring better than the average of aligned sites = 72033 Number in coding regions = 67563 Number in noncoding regions = 4470 Number of orfs with sites within 600 bp upstream = 1467 Fraction of orfs with sites within 600 bp upstream = 0.235625 Motif number 2 CAATTCGTCGCCGCAGGTGCAGCGGTAG 1 9 1 CGCCGCAGGT 0.907694 -292 ACTGTGCTGGCGCCGGTGACGCCTACCGCT 1 31 0 CGCCGGTGAC 0.648433 -270 CGAGGGCTGTGGCTGTCGGGTTCGCATCGA 1 72 0 GGCTGTCGGG 0.547702 -229 CAGCCCTCGTGGCTGCAGGTCAGCAAGGTC 1 93 1 GGCTGCAGGT 0.669859 -208 TGACGAACTACGAGGCTGGGACCTTGCTGA 1 112 0 CGAGGCTGGG 0.959984 -189 ACCCCCAGGCCGGTGGGCGGTTGCCTGCTG 1 251 1 CGGTGGGCGG 0.987914 -50 TGCTGGCGCGCGACGGTCGGTGGTCGCGCT 1 276 1 CGACGGTCGG 0.915182 -25 GCGCGGCCCGGCCATACGGTC 3 2 1 CGCGGCCCGG 0.914626 -41 TTTCGACAGCCGGCGCTGACAGT 4 49 1 CGGCGCTGAC 0.860993 -13 GATCTCGTCTGGCTGGGCGGTCGGAGCTCA 5 37 0 GGCTGGGCGG 0.904659 -49 CCAGGGGTTCCGGAGCGGGCGGTGGATCTC 5 61 0 CGGAGCGGGC 0.815736 -25 CGGCGCCAGGGGTTCCGGAG 5 76 0 CGGCGCCAGG 0.857772 -10 GGGTGTTATGGGCCGCTCGGCGCGC 6 6 0 GGCCGCTCGG 0.804961 -202 TGAGCAACTCCGGCGCGCGGGTGTTATGGG 6 24 0 CGGCGCGCGG 0.917432 -184 TGAGTGTTGCCGAGGTCGGGGATATAGCGC 6 148 1 CGAGGTCGGG 0.794022 -60 AGGGCGCGACAGGTGGCCGGAGTGGG 7 7 0 AGGTGGCCGG 0.568684 -218 GCGCGGACGCCGCGGCACACCGCGACGCTA 7 56 0 CGCGGCACAC 0.652658 -169 GCGGGTTTGAGGGCGCCGAGTCGCTCCACG 7 104 0 GGGCGCCGAG 0.935597 -121 AAACCCGCCACGATGCGCGCAATCGAAAAC 7 126 1 CGATGCGCGC 0.943481 -99 GGTCCCGTCGGGAGGCCGAGGATCAGGGTC 7 161 0 GGAGGCCGAG 0.847644 -64 CTGAGCGCGGCGAGGCGGCGACCCATTCTC 7 190 1 CGAGGCGGCG 0.853447 -35 TTCTCCCGTACGGTGGACGG 7 215 1 CGGTGGACGG 0.970752 -10 TCCGCGACGATGCAGAGCGCAGCGATG 8 8 1 CGATGCAGAG 0.963983 -60 CGCAGCGATGCGGTGGGGGTACCGCCCGCT 8 28 1 CGGTGGGGGT 0.960406 -40 CGCCCGCTTGCGGGGGAGAGCGGCGCCG 8 50 1 CGGGGGAGAG 0.949118 -18 GCATCGTCGCCGGCGCGGGTCAATCGAAGA 10 18 0 CGGCGCGGGT 0.977665 -156 GCGCCGGCGACGATGCAGAGCAAAGCGATG 10 32 1 CGATGCAGAG 0.963983 -142 CAGAGCAAAGCGATGGGGAGGAGCGGCGCC 10 47 1 CGATGGGGAG 0.973586 -127 GCATCGTCGCCGGCGCGGGTCACTGGCGCC 10 71 0 CGGCGCGGGT 0.977665 -103 GCGCCGGCGACGATGCAGAGCAAAGCGATG 10 85 1 CGATGCAGAG 0.963983 -89 CAGAGCAAAGCGATGGGGAGGAGCGGCGCC 10 100 1 CGATGGGGAG 0.973586 -74 GCATCGTCGCCGGCGCGGGTCACTGGCGCC 10 124 0 CGGCGCGGGT 0.977665 -50 GCGCCGGCGACGATGCAGAGCAAAGCGATG 10 138 1 CGATGCAGAG 0.963983 -36 CAGAGCAAAGCGATGGGGAGGAGCGGCGCC 10 153 1 CGATGGGGAG 0.973586 -21 CGGCTGTGTCCGGTGCGCCGTACGCGATCG 11 23 1 CGGTGCGCCG 0.515028 -112 CGGCAACCCGCGGTGGCCAGCCGATTTACG 11 51 1 CGGTGGCCAG 0.954061 -84 ********** Masking position 5 Map Score: 71.3032 Number of sites scoring better than the average of aligned sites = 38553 Number in coding regions = 35940 Number in noncoding regions = 2613 Number of orfs with sites within 600 bp upstream = 1221 Fraction of orfs with sites within 600 bp upstream = 0.196113 Motif number 3 CATGGGACTTCGATGCGAACCCGACAGCCACA 1 63 1 CGATCGACCC 0.951233 -238 CCTGGGATTCCTCGGGGATCCCCGACACGGAT 1 156 0 CTCGGGTCCC 0.904083 -145 CCTGCTGGCGCGCGACGGTCGGTGGTCGCGCT 1 274 1 CGCGCGTCGG 0.961324 -27 AGGATCACTACGCTTGGAGCCC 2 66 1 CGCTGGGCCC 0.991542 -12 CGCGGCCCGGCCATACGGTCCGGCTGTGACAC 3 12 1 CCATCGTCCG 0.803389 -31 CGCCGTATGCCGCTACGCAACCATTTCGACAG 4 26 1 CGCTCGAACC 0.956852 -36 TCTGGCTGGGCGGTCGGAGCTCACCCGCACAC 5 28 0 CGGTGGGCTC 0.929541 -58 GACCGCCCAGCCAGACGAGATCCACCGCCCGC 5 45 1 CCAGCGGATC 0.717316 -41 ATCCACCGCCCGCTCCGGAACCCCTGGCGCCG 5 64 1 CGCTCGAACC 0.956852 -22 TGTTATGGGCCGCTCGGCGCGC 6 1 0 CGCTGGGCGC 0.971925 -207 CAACATTGGCCGGTTCGTTACCGTCTTGTGAT 6 52 1 CGGTCGTACC 0.915012 -156 TGTGATCGAACGGGTGGGGCCTCTAGGTTTCG 6 78 1 CGGGGGGCCT 0.592258 -130 GCAAAATGGGCCCTCCGAAACCTAGAGGCCCC 6 93 0 CCCTCGAACC 0.861994 -115 ACTCCGGCCACCTGTCGCGCCCTCAGAAGGTG 7 14 1 CCTGCGGCCC 0.77545 -211 CGCGGCACACCGCGACGCTATCGGCAGCTACA 7 44 0 CGCGCGTATC 0.9704 -181 CGCGGTGTGCCGCGGCGTCCGCGCGGTCGCTC 7 62 1 CGCGCGCCGC 0.951312 -163 AGTCGCTCCACGAGTCGGGCACGAGCGACCGC 7 84 0 CGAGCGGCAC 0.796443 -141 TTGAGGGCGCCGAGTCGCTCCACGAGTCGGGC 7 96 0 CGAGCGTCCA 0.699321 -129 TCCTCGGCCTCCCGACGGGACCTGAGCGCGGC 7 169 1 CCCGCGGACC 0.954728 -56 GGGTCGCCGCCTCGCCGCGCTCAGGTCCCGTC 7 182 0 CTCGCGGCTC 0.897441 -43 CCCACCGCATCGCTGCGCTCTGCATCGTCGCG 8 13 0 CGCTCGTCTG 0.966769 -55 CCCCCGCAAGCGGGCGGTACCCCCACCGCATC 8 34 0 CGGGGGACCC 0.940743 -34 CGGCGCCGCTCTCCCCCGCAAGC 8 55 0 GGCGCGTCTC 0.832302 -13 TCCTCCCCATCGCTTTGCTCTGCATCGTCGCC 10 37 0 CGCTTGTCTG 0.774489 -137 TCCTCCCCATCGCTTTGCTCTGCATCGTCGCC 10 90 0 CGCTTGTCTG 0.774489 -84 TCCTCCCCATCGCTTTGCTCTGCATCGTCGCC 10 143 0 CGCTTGTCTG 0.774489 -31 CGGACACAGCCGAGAGGACCTCTA 11 3 0 CGAGGGCCTC 0.826747 -132 GCGCCGTACGCGATCGGCAACCCGCGGTGGCC 11 37 1 CGATGGAACC 0.765939 -98 GCTACCGCCACGCTCGGATAGGCCTACCCTTG 11 107 1 CGCTGGTAGG 0.737384 -28 GATAGGCCTACCCTTGGCTCTC 11 123 1 CCCTGGTCTC 0.934133 -12 **** ** **** Masking position 7 Map Score: 44.2405 Number of sites scoring better than the average of aligned sites = 25377 Number in coding regions = 23297 Number in noncoding regions = 2080 Number of orfs with sites within 600 bp upstream = 1050 Fraction of orfs with sites within 600 bp upstream = 0.168648 Motif number 4 CAATTCGTCGCCGCAGGTGCAGCG 1 5 1 TCGTCGCCGC 0.873656 -296 TGCCACTGTGCTGGCGCCGGTGACGCCTAC 1 35 0 CTGGCGCCGG 0.649211 -266 TCACCCTCATCCGTGTCGGGGATCCCCGAG 1 148 1 CCGTGTCGGG 0.971002 -153 TAAATATATACCCTATACGGGTATCTGGTA 1 220 1 CCCTATACGG 0.345284 -81 CTGGTAAACCCCCAGGCCGGTGGGCGGTTG 1 244 1 CCCAGGCCGG 0.93556 -57 CGACCACCGACCGTCGCGCGCCAGCAGGCA 1 272 0 CCGTCGCGCG 0.789457 -29 GTACAGAGTGTCACAGCCGGACCGTATGGC 3 21 0 TCACAGCCGG 0.551921 -22 CACCACCCTATTGTGTGCGGGTGAGCTCCG 5 16 1 TTGTGTGCGG 0.430247 -70 AGATCCACCGCCCGCTCCGGAACCCCTGGC 5 62 1 CCCGCTCCGG 0.539092 -24 TTGAGTGTTGCCGAGGTCGGGGATATAGCG 6 147 1 CCGAGGTCGG 0.689258 -61 CCCACTCCGGCCACCTGTCG 7 1 1 CCCACTCCGG 0.829916 -224 GAGTCGCTCCACGAGTCGGGCACGAGCGAC 7 87 0 ACGAGTCGGG 0.515585 -138 ATTGCGCGCATCGTGGCGGGTTTGAGGGCG 7 119 0 TCGTGGCGGG 0.979943 -106 CGCGCTCAGGTCCCGTCGGGAGGCCGAGGA 7 169 0 TCCCGTCGGG 0.913729 -56 CGACCCATTCTCCCGTACGGTGGACGG 7 208 1 TCCCGTACGG 0.807594 -17 GCGCTCTGCATCGTCGCGGA 8 1 0 TCGTCGCGGA 0.645347 -67 GGGGTACCGCCCGCTTGCGGGGGAGAGCGG 8 43 1 CCGCTTGCGG 0.444176 -25 TTGCTCTGCATCGTCGCCGGCGCGGGTCAA 10 25 0 TCGTCGCCGG 0.781977 -149 TTGCTCTGCATCGTCGCCGGCGCGGGTCAC 10 78 0 TCGTCGCCGG 0.781977 -96 TTGCTCTGCATCGTCGCCGGCGCGGGTCAC 10 131 0 TCGTCGCCGG 0.781977 -43 GTCCTCTCGGCTGTGTCCGGTGCGCCGTAC 11 16 1 CTGTGTCCGG 0.890361 -119 GGGTTGCCGATCGCGTACGGCGCACCGGAC 11 30 0 TCGCGTACGG 0.919928 -105 AATCGGCTGGCCACCGCGGGTTGCCGATCG 11 47 0 CCACCGCGGG 0.85169 -88 ACGAGAATGTTCGCCGACGTAAATCGGCTG 11 68 0 TCGCCGACGT 0.445325 -67 GCGAACATTCTCGTCTAGGGAACGCTACCG 11 84 1 TCGTCTAGGG 0.833095 -51 ********** Masking position 9 Map Score: 35.2506 Number of sites scoring better than the average of aligned sites = 37747 Number in coding regions = 35457 Number in noncoding regions = 2290 Number of orfs with sites within 600 bp upstream = 1075 Fraction of orfs with sites within 600 bp upstream = 0.172663 Motif number 5 CGTCGCCGCAGGTGCAGCGGTAGGCGTCACC 1 16 1 GGGCAGCGGT 0.854457 -285 TCGAGATTACGAGGGCACGGCAGATCCAAAT 2 35 0 GAGGCACGGC 0.722624 -43 CGGACCGTATGGCCGGGCCGCGC 3 3 0 GGCGGGCCGC 0.803247 -40 TCGAAATGGTTGCGTAGCGGCATACGGCGTG 4 24 0 TGGTAGCGGC 0.843349 -38 CATTTCGACAGCCGGCGCTGACAGT 4 47 1 GCGGCGCTGA 0.68023 -15 TATTGTGTGCGGGTGAGCTCCGACCGCCCAG 5 24 1 GGTGAGCTCC 0.300835 -62 CGCCAGGGGTTCCGGAGCGGGCGGTGGATCT 5 62 0 TCGGAGCGGG 0.886183 -24 GCGCGCCGAGCGGCCCATAACACC 6 4 1 CGCGAGCGGC 0.922384 -204 ACACCCGCGCGCCGGAGTTGCTCAACATTGG 6 30 1 GCGGAGTTGC 0.763945 -178 TGATCGAACGGGTGGGGCCTCTAGGTTTCGG 6 80 1 GGGGGGCCTC 0.523497 -128 GCGACAGGTGGCCGGAGTGGG 7 1 0 GCGGAGTGGG 0.877697 -224 TACACCTTCTGAGGGCGCGACAGGTGGCCGG 7 17 0 GAGGCGCGAC 0.885176 -208 GCCCTCAGAAGGTGTAGCTGCCGATAGCGTC 7 32 1 GGGTAGCTGC 0.917092 -193 CGACCGCGCGGACGCCGCGGCACACCGCGAC 7 60 0 GAGCCGCGGC 0.635503 -165 CACGAGTCGGGCACGAGCGACCGCGCGGACG 7 77 0 GCCGAGCGAC 0.867128 -148 GTGCCCGACTCGTGGAGCGACTCGGCGCCCT 7 94 1 CGGGAGCGAC 0.888083 -131 ACCTGAGCGCGGCGAGGCGGCGACCCATTCT 7 188 1 GGGAGGCGGC 0.876162 -37 CGATGCGGTGGGGGTACCGCCCGCTTGCGGG 8 33 1 GGGTACCGCC 0.461426 -35 CCGCTTGCGGGGGAGAGCGGCGCCG 8 53 1 GGAGAGCGGC 0.967985 -15 CTGCATCGTCGCCGGCGCGGGTCAATCGAAG 10 19 0 GCGGCGCGGG 0.841231 -155 AAAGCGATGGGGAGGAGCGGCGCCAGTGACC 10 53 1 GGGGAGCGGC 0.996934 -121 CTGCATCGTCGCCGGCGCGGGTCACTGGCGC 10 72 0 GCGGCGCGGG 0.841231 -102 AAAGCGATGGGGAGGAGCGGCGCCAGTGACC 10 106 1 GGGGAGCGGC 0.996934 -68 CTGCATCGTCGCCGGCGCGGGTCACTGGCGC 10 125 0 GCGGCGCGGG 0.841231 -49 AAAGCGATGGGGAGGAGCGGCGCCA 10 159 1 GGGGAGCGGC 0.996934 -15 GATCGCGTACGGCGCACCGGACACAGCCGAG 11 21 0 GGGCACCGGA 0.470422 -114 ** ******** Masking position 8 Map Score: 49.6638 Number of sites scoring better than the average of aligned sites = 15636 Number in coding regions = 14537 Number in noncoding regions = 1099 Number of orfs with sites within 600 bp upstream = 731 Fraction of orfs with sites within 600 bp upstream = 0.117411 Motif number 6 CCTCATCCGTGTCGGGGATCCCCGAGGAAT 1 152 1 GTCGGGGATC 0.674168 -149 ATCCCAGGTGGTCAGCTGTCGGTAATCCAG 1 180 1 GTCAGCTGTC 0.758053 -121 AAACCCCCAGGCCGGTGGGCGGTTGCCTGC 1 249 1 GCCGGTGGGC 0.987935 -52 GTGGGCGGTTGCCTGCTGGCGCGCGACGGT 1 263 1 GCCTGCTGGC 0.516866 -38 GCGCGCGACGGTCGGTGGTCGCGCTAGCGT 1 281 1 GTCGGTGGTC 0.920107 -20 ACTGTCAGCGCCGGCTGTCGAAATGGTTG 4 43 0 GCCGGCTGTC 0.967256 -19 CCTATTGTGTGCGGGTGAGCTCCGACCGCC 5 22 1 GCGGGTGAGC 0.64397 -64 GGCGGTGGATCTCGTCTGGCTGGGCGGTCG 5 44 0 CTCGTCTGGC 0.390546 -42 GGGTTCCGGAGCGGGCGGTGGATCTCGTCT 5 57 0 GCGGGCGGTG 0.843802 -29 TTATGGGCCGCTCGGCGCGC 6 1 0 CTCGGCGCGC 0.95584 -207 GTTGAGCAACTCCGGCGCGCGGGTGTTATG 6 26 0 TCCGGCGCGC 0.967619 -182 GCCTCTAGGTTTCGGAGGGCCCATTTTGCT 6 96 1 TTCGGAGGGC 0.593907 -112 CCCACTCCGGCCACCTGTCGCGCCCTCAG 7 10 1 GCCACCTGTC 0.446573 -215 CTCAGGTCCCGTCGGGAGGCCGAGGATCAG 7 165 0 GTCGGGAGGC 0.732962 -60 AGAATGGGTCGCCGCCTCGCCGCGCTCAGG 7 189 0 GCCGCCTCGC 0.915615 -36 GCTCTCCCCCGCAAGCGGGCGGTACCCCCA 8 41 0 GCAAGCGGGC 0.750559 -27 CTGCATCGTCGCCGGCGCGGGTCAATCGAA 10 20 0 GCCGGCGCGG 0.986462 -154 CTGCATCGTCGCCGGCGCGGGTCACTGGCG 10 73 0 GCCGGCGCGG 0.986462 -101 CTGCATCGTCGCCGGCGCGGGTCACTGGCG 10 126 0 GCCGGCGCGG 0.986462 -48 GCCGACGTAAATCGGCTGGCCACCGCGGGT 11 56 0 ATCGGCTGGC 0.841414 -79 GCCGATTTACGTCGGCGAACATTCTCGTCT 11 70 1 GTCGGCGAAC 0.748685 -65 ********** Masking position 10 Map Score: 30.8009 Number of sites scoring better than the average of aligned sites = 31879 Number in coding regions = 29757 Number in noncoding regions = 2122 Number of orfs with sites within 600 bp upstream = 1058 Fraction of orfs with sites within 600 bp upstream = 0.169933 Motif number 7 TCACCGGCGCCAGCACAGTGGCATGGGACT 1 42 1 CAGCACAGTG 0.960833 -259 CAGTACAGAGTGTCACAGCC 3 33 0 CAGTACAGAG 0.831695 -10 GCAGCAGAGTTCGCACGCCGT 4 2 1 CAGCAGAGTT 0.965693 -60 ACCGCCCAGCCAGACGAGATCCACCGCCCG 5 46 1 CAGACGAGAT 0.921326 -40 GAAGGTGTAGCTGCCGATAGCGTCGCGGTG 7 39 1 CTGCCGATAG 0.898343 -186 GCACCGGACACAGCCGAGAGGACCTCTA 11 9 0 CAGCCGAGAG 0.993488 -126 CCGCGGTGGCCAGCCGATTTACGTCGGCGA 11 58 1 CAGCCGATTT 0.940668 -77 ********** Masking position 7 Map Score: 3.44699 Number of sites scoring better than the average of aligned sites = 892 Number in coding regions = 810 Number in noncoding regions = 82 Number of orfs with sites within 600 bp upstream = 76 Fraction of orfs with sites within 600 bp upstream = 0.0122069 Motif number 8 CTGACCACCTGGGATTCCTCGGGGATCCCCGAC 1 162 0 GGGATCTCGG 0.993924 -139 TCCAAGCGTAGTGATCCTTCGAGATTACGAGGG 2 51 0 GTGATCTCGG 0.98223 -27 GTTGCGTAGCGGCATACGGCGTGCGAACTCTGC 4 14 0 GGCATCGCGG 0.98243 -48 CGGCGCCAGGGGTTCCGGAGCGGGCGGTGGAT 5 64 0 GGGTTCGAGG 0.900969 -22 TTACCGTCTTGTGATCGAACGGGTGGGGCCTCT 6 69 1 GTGATGACGG 0.902253 -139 GCCGAGGTCGGGGATATAGCGCGTTGACTCTAC 6 156 1 GGGATTGCGG 0.981226 -52 CGGCGTCCGCGCGGTCGCTCGTGCCCGACTCGT 7 74 1 GCGGTGTCGG 0.917362 -151 GCAGAGCGCAGCGATGCGGTGGGGGTACCGCCC 8 22 1 GCGATCGTGG 0.958167 -46 ***** * *** * Masking position 5 Map Score: 3.09332 Number of sites scoring better than the average of aligned sites = 1242 Number in coding regions = 1140 Number in noncoding regions = 102 Number of orfs with sites within 600 bp upstream = 96 Fraction of orfs with sites within 600 bp upstream = 0.0154192 Motif number 9 ********** No masking Map Score: -3.24475e-12 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 10 ********** No masking Map Score: -3.24475e-12 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 11 ********** No masking Map Score: -3.24475e-12 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0