AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i099_bsub_mtub_300.orf -o099_bsub_mtub_300.ace -a/home/amcguire/genomes/ORF_bsub.txt -z/home/amcguire/genomes/bsub.fna -g0.55 -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 = 0.55 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: Rv0823c 87 hypothetical protein Rv0823c Input sequences: #1 yqgH 68 alternate gene name: yzmC; similar to phosphate ABC transporter (permease) #2 yqgG 153 alternate gene name: yzmB; similar to phosphate ABC transporter (binding protein) #3 pbpA 113 penicillin-binding protein 2A #4 yqgE 33 similar to hypothetical proteins #5 sodA 178 superoxide dismutase #6 yqgC 109 yqgC #7 phoY2 57 phoY2 #8 Rv0822c 165 hypothetical protein Rv0822c #9 desA1 161 desA1 #10 Rv0825c 80 hypothetical protein Rv0825c #11 phoS2 271 phoS2 #12 pstB 215 pstB #13 pstC 59 pstC #14 phoY1 107 phoY1 #15 lpdA 202 lpdA Motif number 1 AATAAAAAGAGGAGTGCGGGGACAACCGTTT 1 15 1 GGAGTGCGGG 0.806255 -54 AATGAAGAAAGGCTCGCTGTGAAGCGTCATT 5 128 1 GGCTCGCTGG 0.914276 -51 GCTGCATTGTGCGGCGCCGACTCGTGGCGGT 8 67 1 GCGGCGCCGC 0.988361 -99 CCGACTCGTGGCGGTGCTGCGCGAAGGTGCG 8 83 1 GCGGTGCTGG 0.971922 -83 GCGGACGCCCGCGGTGTTGGCTGCGTGTCCT 8 117 0 GCGGTGTTGC 0.84835 -49 GGCCCCGGTGGCCGCGTGGGGTGAACCCCAG 9 17 0 GCCGCGTGGG 0.99513 -145 CGGCCACCGGGGCCCGCCGATGCCAGCATCC 9 34 1 GGCCCGCCGT 0.871903 -128 AGCTCAACATGCCGCGCGAAGCCCAAACTTG 9 79 1 GCCGCGCGAG 0.984599 -83 CTTCCCCTGAGACCCGCGGTCGAACCAGCCA 11 125 1 GACCCGCGGC 0.822277 -147 CGGCGAACTTGGCGTGCCGTCGCCCTTGGCC 11 182 0 GGCGTGCCGC 0.965163 -90 CCTCTCGAGGGGGTCGTGGTGGCGGATCCAC 12 17 1 GGGTCGTGGG 0.728608 -199 GACCACCGGTGGCGAGTGGATCCGCCACCAC 12 32 0 GGCGAGTGGT 0.830898 -184 ACCGGTGGTCGCCGAGCCACCGACCCGGGGT 12 53 1 GCCGAGCCAC 0.836635 -163 CGTTCAGGAGGGGCCGCTGATACTGAGGGTC 12 141 1 GGGCCGCTGT 0.699028 -75 TGGACAAAGCGCGCCGTCGACCCTCAGTATC 12 159 0 GCGCCGTCGC 0.831482 -57 GGAGGTTGCTGTCGCGTGGTGGTCAACGAGG 13 11 0 GTCGCGTGGG 0.9647 -49 AAGCGGGTATGTCGCGCGGTGCCGCCATGGT 14 21 1 GTCGCGCGGG 0.989858 -87 GTCGATGATGGCGGTGTGGATCCGCGGCAGC 14 50 1 GCGGTGTGGT 0.804067 -58 ACCCTGAGTCGTCGTGTGGTGCTGCCGCGGA 14 70 0 GTCGTGTGGG 0.881634 -38 TACCCATCGCGCCGCGCTGCGGTGCGGGTCA 15 44 1 GCCGCGCTGG 0.996897 -159 GTGAGGAGGAGCCGAGCAGTCAAGCACAGCT 15 81 0 GCCGAGCAGC 0.967513 -122 GACGATGCACGCCGCGCAGCGGCGTGAGGAG 15 104 0 GCCGCGCAGG 0.994749 -99 GTGCATCGTCGCCGAGCTGTGTTGGACTGCT 15 125 1 GCCGAGCTGG 0.98871 -78 GTGAGGAGGAGCCGAGCAGTCCAACACAGCT 15 139 0 GCCGAGCAGC 0.967513 -64 GACGATGCACGCCGCGCAGCGGCGTGAGGAG 15 162 0 GCCGCGCAGG 0.994749 -41 GTGCATCGTCGCCGAGCTAGGTTATGGGCT 15 183 1 GCCGAGCTAG 0.884542 -20 ********* * Masking position 6 Map Score: 46.3531 Number of sites scoring better than the average of aligned sites = 1661 Number in coding regions = 1564 Number in noncoding regions = 97 Number of orfs with sites within 600 bp upstream = 64 Fraction of orfs with sites within 600 bp upstream = 0.0102795 Motif number 2 CCGATAATCTGCCCCATTAAACCTGCCGCCAGCATTTC 5 10 0 GCCCCGCCGC 0.921579 -169 CCTACGTTCCCGACCTTGGAAAATGCCGTAAGCGTCGTG 7 20 0 CGACAGCCGT 0.614169 -38 TCGGTCCAGACGCGATTTCGACAGGGTCTCGAT 8 5 0 CGCGCGGTCT 0.549229 -161 CGCCACGAGTCGGCGCCGCACAATGCAGCAAGGCCCACA 8 57 0 CGGCAGCAGC 0.932384 -109 TGCGCGAAGGTGCGCGTAGGACACGCAGCCAACACCGCG 8 100 1 TGCGCGCAGC 0.930052 -66 AGAGTCTAGGTGGCGGACGCCCGCGGTGTTGGCTGCGTG 8 121 0 TGGCCGGTGT 0.819564 -45 CACCCCACGCGGCCACCGGGGCCCGCCGATGCCAGCATC 9 25 1 GGCCCGCCGA 0.783447 -137 CCCGCCGATGCCAGCATCCTGCCCGCTGCTGGCAGCTCA 9 46 1 CCAGCGCTGC 0.674916 -116 TGCCCGCTGCTGGCAGCTCAACATGCCGCGCGAAGCCCA 9 65 1 TGGCCGCCGC 0.995592 -97 GGCGCCCTCTTTTCCGGCTGTCGGCCGAAAC 11 3 1 CGCCCGCTGT 0.986126 -269 CTCCCGAAACCTGGGGGTGTGCCTGCTGTGTATGCACGG 11 74 1 CTGGCGCTGT 0.59808 -198 CCCCTGAGACCCGCGGTCGAACCAGCCACGTGTCCATCA 11 128 1 CCGCCGCCAC 0.912659 -144 GGCGACGGCACGCCAAGTTCGCCGACCGTTAACCTAGTG 11 189 1 CGCCCACCGT 0.948834 -83 AACGGCCGACCAGCTGTTTTGCTCGCAGCAAATGAAGCT 11 233 0 CAGCCGCAGC 0.898289 -39 GGGGTCGTGGTGGCGGATCCACTCGCCACCGGTGGTCGC 12 26 1 TGGCCGCCAC 0.935693 -190 ACAACGGTGACGGCTCGAATACCGACCCCGGGTCGGTGG 12 69 0 CGGCCACCCC 0.9516 -147 GGGTCGACGGCGCGCTTTGTCCAAGGAGCATCCCAAGGA 12 167 1 CGCGCGGAGC 0.939522 -49 CAGCAACCTCCGTCGGGCCATCGGGCTGCTTTGCGGAGC 13 31 1 CGTCCGCTGC 0.954753 -29 CTACGCCAAGCGGGTATGTCGCGCGGTGCCGCCATGGTC 14 14 1 CGGGCGGTGC 0.972885 -94 CGTGTGGTGCTGCCGCGGATCCACACCGCCATCATCGAC 14 50 0 TGCCCACCGC 0.930476 -58 GGTGTCACGCCTCTCTGACCCTGAGTCGTCGTGTGG 14 82 0 CGCCCTGAGT 0.382932 -26 CCCGAGCCCCCGCCGTCTAAGCTTTCCCCC 15 2 0 CGCCCTCCCC 0.902031 -201 CGCGGCGCGATGGGTACCACCCGAGCCCCCGCCGTCTAA 15 21 0 TGGGCGCCCC 0.945604 -182 CGCTGCGGTGCGGGTCATCGTCAAGCTGTGCTTGACTGC 15 58 1 CGGGCGCTGT 0.977261 -145 CTTGACTGCTCGGCTCCTCCTCACGCCGCTGCGCGGCGT 15 88 1 CGGCCGCCGC 0.999147 -115 CAACACAGCTCGGCGACGATGCACGCCGCGCAGCGGCGT 15 110 0 CGGCCGCCGC 0.999136 -93 TTGGACTGCTCGGCTCCTCCTCACGCCGCTGCGCGGCGT 15 146 1 CGGCCGCCGC 0.999147 -57 TAACCTAGCTCGGCGACGATGCACGCCGCGCAGCGGCGT 15 168 0 CGGCCGCCGC 0.999136 -35 **** * ***** Masking position 12 Map Score: 51.3679 Number of sites scoring better than the average of aligned sites = 2289 Number in coding regions = 2126 Number in noncoding regions = 163 Number of orfs with sites within 600 bp upstream = 91 Fraction of orfs with sites within 600 bp upstream = 0.0146161 Motif number 3 ACACATTATACGCAGGGGGAATTCAGGAA 2 135 1 CGCAGGGGGA 0.823281 -19 GAAATGCTGGCGGCAGGTTTAATG 5 5 1 TGCTGGCGGC 0.887429 -174 CGCCACGAGTCGGCGCCGCACAATGCAGCA 8 66 0 CGGCGCCGCA 0.906289 -100 CGACTCGTGGCGGTGCTGCGCGAAGGTGCG 8 84 1 CGGTGCTGCG 0.759942 -82 CGGACGCCCGCGGTGTTGGCTGCGTGTCCT 8 117 0 CGGTGTTGGC 0.816384 -49 CCGAGAGTCTAGGTGGCGGACGCCCGCGGT 8 133 0 AGGTGGCGGA 0.848424 -33 CCTAGACTCTCGGAGGCCGGTAGGAC 8 150 1 CGGAGGCCGG 0.929126 -16 CGGCGGGCCCCGGTGGCCGCGTGGGGTGAA 9 23 0 CGGTGGCCGC 0.978721 -139 ATGCTGGCATCGGCGGGCCCCGGTGGCCGC 9 33 0 CGGCGGGCCC 0.934474 -129 GCATCCTGCCCGCTGCTGGCAGCTCAACAT 9 59 1 CGCTGCTGGC 0.925618 -103 CACAGATAACTGGAGGCGCC 9 152 1 TGGAGGCGCC 0.950836 -10 GAGGGGGTCGTGGTGGCGGATCCACTCGCC 12 23 1 TGGTGGCGGA 0.848423 -193 CACTCGCCACCGGTGGTCGCCGAGCCACCG 12 45 1 CGGTGGTCGC 0.945818 -171 GACCCCGGGTCGGTGGCTCGGCGACCACCG 12 55 0 CGGTGGCTCG 0.844735 -161 CGATGCACAACGGTGACGGCTCGAATACCG 12 84 0 CGGTGACGGC 0.921352 -132 CCTAGCGTTCAGGAGGGGCCGCTGATACTG 12 136 1 AGGAGGGGCC 0.931719 -80 CGGCGCAGGGTACTACATGC 12 206 0 CGGCGCAGGG 0.838105 -10 GATGGCCCGACGGAGGTTGCTGTCGCGTGG 13 23 0 CGGAGGTTGC 0.804913 -37 GTATGTCGCGCGGTGCCGCCATGGTCGATG 14 27 1 CGGTGCCGCC 0.991279 -81 AGTCGTCGTGTGGTGCTGCCGCGGATCCAC 14 65 0 TGGTGCTGCC 0.862649 -43 AAAGCTTAGACGGCGGGGGCTCGGGTGGTA 15 16 1 CGGCGGGGGC 0.987703 -187 CGCCGCGCTGCGGTGCGGGTCATCGTCAAG 15 53 1 CGGTGCGGGT 0.833145 -150 CAGCGGCGTGAGGAGGAGCCGAGCAGTCAA 15 89 0 AGGAGGAGCC 0.793825 -114 ATGCACGCCGCGCAGCGGCGTGAGGAGGAG 15 101 0 CGCAGCGGCG 0.525979 -102 CAGCGGCGTGAGGAGGAGCCGAGCAGTCCA 15 147 0 AGGAGGAGCC 0.793825 -56 ATGCACGCCGCGCAGCGGCGTGAGGAGGAG 15 159 0 CGCAGCGGCG 0.525979 -44 ********** Masking position 5 Map Score: 39.5083 Number of sites scoring better than the average of aligned sites = 2419 Number in coding regions = 2205 Number in noncoding regions = 214 Number of orfs with sites within 600 bp upstream = 136 Fraction of orfs with sites within 600 bp upstream = 0.0218439 Motif number 4 CACATCATGTGAGCGTTTTTT 2 1 0 GGCGTTTTTT 0.990302 -153 CACATGATGTGGGCGTTTTTTTTATACAAAA 2 21 1 GGCGTTTTTT 0.990302 -133 TTGTAAATCAGTGCGTTTTTTTGTATAAAAA 2 39 0 GGCGTTTTTT 0.990302 -115 GAGCCAAATCGTGAGCTTTTTCATTGATTAC 5 75 1 GGAGCTTTTT 0.941161 -104 GCTTCACAGCGAGCCTTTCTTCATTCAATGT 5 122 0 GGCCTTTCTT 0.929868 -57 GGCGCCCTCTTTTCCGGCTGTC 11 2 1 GGCCCTCTTT 0.941216 -270 AGGGTCGACGGCGCGCTTTGTCCAAGGAGCA 12 166 1 GGCGCTTTGT 0.974323 -50 * ********* Masking position 7 Map Score: 7.16531 Number of sites scoring better than the average of aligned sites = 227 Number in coding regions = 185 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 5 GAAATGCTGGCGGCAGGTTTAAT 5 4 1 ATGCTGGCGG 0.856171 -175 GCGGCGCCGACTCGTGGCGGTGCTGCGCGA 8 77 1 CTCGTGGCGG 0.985048 -89 TCCTACGCGCACCTTCGCGCAGCACCGCCA 8 91 0 ACCTTCGCGC 0.796379 -75 TCGGCGGGCCCCGGTGGCCGCGTGGGGTGA 9 24 0 CCGGTGGCCG 0.991639 -138 ACACAGATAACTGGAGGCGCC 9 151 1 CTGGAGGCGC 0.684953 -11 CGTGCCGTCGCCCTTGGCCGGGGTTGACCC 11 171 0 CCCTTGGCCG 0.958912 -101 CACTAGGTTAACGGTCGGCGAACTTGGCGT 11 198 0 ACGGTCGGCG 0.749978 -74 CGAGGGGGTCGTGGTGGCGGATCCACTCGC 12 22 1 GTGGTGGCGG 0.914828 -194 TCGGCGACCACCGGTGGCGAGTGGATCCGC 12 38 0 CCGGTGGCGA 0.917176 -178 TCGATGCACAACGGTGACGGCTCGAATACC 12 85 0 ACGGTGACGG 0.838323 -131 GCATGTAGTACCCTGCGCCG 12 206 1 CCCTGCGCCG 0.620752 -10 GCAAAGCAGCCCGATGGCCCGACGGAGGTT 13 35 0 CCGATGGCCC 0.921389 -25 GCCATCATCGACCATGGCGGCACCGCGCGA 14 32 0 ACCATGGCGG 0.964008 -76 GCCATGGTCGATGATGGCGGTGTGGATCCG 14 44 1 ATGATGGCGG 0.929648 -64 TCGGGTGGTACCCATCGCGCCGCGCTGCGG 15 36 1 CCCATCGCGC 0.891171 -167 CGCGGCGTGCATCGTCGCCGAGCTGTGTTG 15 119 1 ATCGTCGCCG 0.941145 -84 CGCGGCGTGCATCGTCGCCGAGCTAGGTTA 15 177 1 ATCGTCGCCG 0.941145 -26 ********** Masking position 7 Map Score: 18.7023 Number of sites scoring better than the average of aligned sites = 1344 Number in coding regions = 1229 Number in noncoding regions = 115 Number of orfs with sites within 600 bp upstream = 63 Fraction of orfs with sites within 600 bp upstream = 0.0101189 Motif number 6 AGAGGAGTGCGGGGACAACCGTTTCTCCTC 1 22 1 GGGGACAACC 0.988997 -47 ATGTAAAAAGGGTTTGAACCGAATGTTAAG 2 73 0 GGTTTGAACC 0.645443 -81 CAACACCGCGGGCGTCCGCCACCTAGACTC 8 129 1 GGCGTCCGCC 0.908592 -37 GTGGCCGCGTGGGGTGAACCCCAGTCGTCC 9 11 0 GGGGTGAACC 0.977481 -151 CGCGGCCACCGGGGCCCGCCGATGCCAGCA 9 32 1 GGGGCCCGCC 0.909089 -130 CCGAAACCTGGGGGTGTGCCTGCTGTGTAT 11 77 1 GGGGTGTGCC 0.917587 -195 TCCATCATCAGGGGTCAACCCCGGCCAAGG 11 160 1 GGGGTCAACC 0.99094 -112 TCGGTGGCTCGGCGACCACCGGTGGCGAGT 12 46 0 GGCGACCACC 0.934101 -170 CCTCGTTGACCACCACGCGACAGC 13 5 1 GTTGACCACC 0.787408 -55 GCGGCGCGATGGGTACCACCCGAGCCCCCG 15 29 0 GGGTACCACC 0.96825 -174 ********** Masking position 9 Map Score: 13.8174 Number of sites scoring better than the average of aligned sites = 139 Number in coding regions = 115 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 7 TTTACTCTATACGTGTAGGACAAATTACAC 2 109 1 ACGTGTAGGA 0.930965 -45 GCGCGAAGGTGCGCGTAGGACACGCAGCCA 8 101 1 GCGCGTAGGA 0.983876 -65 ACTCTCGGAGGCCGGTAGGAC 8 155 1 GCCGGTAGGA 0.985647 -11 GCTGCCAGCAGCGGGCAGGATGCTGGCATC 9 52 0 GCGGGCAGGA 0.990955 -110 TGTCACTATGGAGTTTAGGAGAGCT 10 66 1 GAGTTTAGGA 0.867263 -15 CAGCTGGTCGGCCGTTAGGAACTGAA 11 256 1 GCCGTTAGGA 0.970943 -16 TGAAATCCTAGCGTTCAGGAGGGGCCGCTG 12 130 1 GCGTTCAGGA 0.971258 -86 ********** Masking position 7 Map Score: 7.39996 Number of sites scoring better than the average of aligned sites = 109 Number in coding regions = 93 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 8 ACGGTTGTCCCCGCACTCCTCTTTTTATTA 1 14 0 CCGCACTCCT 0.723325 -55 AAAAAACGCTCACATGATGTGGGCG 2 6 1 ACGCTCACAT 0.896434 -148 TATAAAAAAAACGCCCACATCATGTGAGCG 2 17 0 ACGCCCACAT 0.959365 -137 ATACAAAAAAACGCACTGATTTACAAAACC 2 44 1 ACGCACTGAT 0.896626 -110 CAATGCAGCAAGGCCCACATCGTACTGATT 8 46 0 AGGCCCACAT 0.941102 -120 TGCGTGTCCTACGCGCACCTTCGCGCAGCA 8 97 0 ACGCGCACCT 0.968973 -69 TGCGCGTAGGACACGCAGCCAACACCGCGG 8 110 1 ACACGCAGCC 0.716351 -56 TGCTACCGAGAGACACAGATATATTGACTG 9 111 1 AGACACAGAT 0.854256 -51 TGCAACCATTAGACACAGATAACTGGAGGC 9 139 1 AGACACAGAT 0.854256 -23 CATACACAGCAGGCACACCCCCAGGTTTCG 11 78 0 AGGCACACCC 0.935626 -194 CCGAGCAGTCAAGCACAGCTTGACGATGAC 15 71 0 AAGCACAGCT 0.858855 -132 ********** Masking position 6 Map Score: 4.73569 Number of sites scoring better than the average of aligned sites = 348 Number in coding regions = 302 Number in noncoding regions = 46 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 9 TTTACAGAAAGAAAAGACACTCAAGTAAGAG 3 77 0 GAAAGACACT 0.719185 -37 TATATGTACTGAAATGACGCTTCACAGCGAG 5 140 0 GAAAGACGCT 0.967012 -39 CCGCATTGACACGACGCTTACGGCATTT 7 8 1 GACAGACGCT 0.990466 -50 GTGCGCGTAGGACACGCAGCCAACACCGCGG 8 109 1 GACAGCAGCC 0.874775 -57 GCCAGCAGCGGGCAGGATGCTGGCATCGGCG 9 48 0 GGCAGATGCT 0.809866 -114 CGGGAGCAGTCACAGGAAGCTGCAGCAAGCT 11 49 0 CACAGAAGCT 0.964899 -223 CCTGATGATGGACACGTGGCTGGTTCGACCG 11 141 0 GACAGTGGCT 0.831803 -131 TTGCTCGCAGCAAATGAAGCTAACAGCACTA 11 223 0 CAAAGAAGCT 0.885795 -49 TCGGCTCCTCCTCACGCCGCTGCGCGGCGTG 15 97 1 CTCAGCCGCT 0.948268 -106 TCGGCTCCTCCTCACGCCGCTGCGCGGCGTG 15 155 1 CTCAGCCGCT 0.948268 -48 **** ****** Masking position 4 Map Score: 5.38175 Number of sites scoring better than the average of aligned sites = 506 Number in coding regions = 478 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 10 GAAATGCTGGCGGCAGGTTTAATGGGG 5 6 1 GCTGGCGAGG 0.905726 -173 GGGCCTTGCTGCATTGTGCGGCGCCGACTCGT 8 60 1 GCATTGGGGC 0.614492 -106 CCTACGCGCACCTTCGCGCAGCACCGCCACGA 8 88 0 CCTTCGGAGC 0.476429 -78 CGAGAGTCTAGGTGGCGGACGCCCGCGGTGTT 8 130 0 GGTGGCGCGC 0.92645 -36 GGCCACCGGGGCCCGCCGATGCCAGCATCCTG 9 35 1 GCCCGCGTGC 0.610933 -127 GGCATGTTGAGCTGCCAGCAGCGGGCAGGATG 9 60 0 GCTGCCGAGC 0.697203 -102 TCAAGTTTGGGCTTCGCGCGGCATGTTGAGCT 9 79 0 GCTTCGGGGC 0.516432 -83 TGGTGGTTTTGCCTGCTGAATCTTCATTGGCC 10 11 1 GCCTGCGATC 0.796078 -70 ACGGTAACAAGCTTGCTGCAGCTTCCTGTGAC 11 40 1 GCTTGCGAGC 0.986856 -232 CACACCCCCAGGTTTCGGGAGCAGTCACAGGA 11 63 0 GGTTTCGAGC 0.941762 -209 GGCGAACTTGGCGTGCCGTCGCCCTTGGCCGG 11 180 0 GCGTGCGCGC 0.972197 -92 TGAAATCCTAGCGTTCAGGAGGGGCCGCTGAT 12 130 1 GCGTTCGAGG 0.786974 -86 GCCCGACGGAGGTTGCTGTCGCGTGGTGGTCA 13 17 0 GGTTGCGCGC 0.966819 -43 CCATCGGGCTGCTTTGCGGAGC 13 48 1 GCTTTGGAGC 0.900114 -12 CGACATACCCGCTTGGCGTAGCCT 14 3 0 GCTTGGGAGC 0.97718 -105 ****** * *** Masking position 8 Map Score: 15.5296 Number of sites scoring better than the average of aligned sites = 1499 Number in coding regions = 1406 Number in noncoding regions = 93 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 11 TTACATAGAACCTTTACTCTATACGTGTAG 2 97 1 CCTTTACTCT 0.955425 -57 AACATCACCTTTTCTATTTACAGAAAG 3 97 0 CCTTTTCTAT 0.864468 -17 CCTTTACTATCCCTTAGTCTGTC 4 4 0 CCCTTAGTCT 0.971184 -30 TACTGACTCCCCTTTACTATCCCTTAGTCT 4 14 0 CCTTTACTAT 0.962762 -20 GATAATTCCTCCTTAGTATATATGTACTG 5 160 0 TCCTTAGTAT 0.862811 -19 GCGCCGTCGACCCTCAGTATCAGCGGCCCC 12 150 0 CCCTCAGTAT 0.936968 -66 ********** Masking position 4 Map Score: 0.38577 Number of sites scoring better than the average of aligned sites = 42 Number in coding regions = 21 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295 Motif number 12 ********** No masking Map Score: -5.68191e-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 13 ********** No masking Map Score: -5.68191e-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 14 ********** No masking Map Score: -5.68191e-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