AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i270_bsub_mtub_300.orf -o270_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 Input sequences: #1 bpr 300 bacillopeptidase F #2 spoIIGA 194 protease #3 sigE 62 RNA polymerase sporulation-specific sigma-29 factor (sigma-E) #4 sigG 139 RNA polymerase sporulation-specific sigma factor (sigma-G) #5 ylmA 147 similar to ABC transporter (ATP-binding protein) #6 ylmB 201 similar to acetylornithine deacetylase #7 ylmC 82 similar to hypothetical proteins #8 ylmD 162 similar to hypothetical proteins #9 ylmH 60 similar to cell-division protein #10 divIVA 93 cell-division initiation protein #11 ftsZ 172 ftsZ #12 murE 22 murE #13 hypothetical 267 hypothetical protein Rv2160c #14 Rv2161c 102 hypothetical protein Rv2161c #15 PE_PGRS 209 PE_PGRS #16 Rv2166c 300 hypothetical protein Rv2166c Motif number 1 GTGGAAAAAAAGCTGCCGTCATTGGCAGCT 2 11 1 AGCTGCCGTC 0.673983 -184 CACCGCTTCCCTCCGCTGGCATGATCCAGA 6 85 0 CTCCGCTGGC 0.947152 -117 AAATATGCAAATCGGCGCTCAACGAATGCA 8 77 1 ATCGGCGCTC 0.800205 -86 AAAGAGGCTTGGCTGCTGCCAAGCCCCTAT 9 23 0 GGCTGCTGCC 0.72137 -38 CGCGCCGATACGCGGCGGGCATTTTTTCGG 11 11 0 CGCGGCGGGC 0.740896 -162 CCCGCCGCGTATCGGCGCGCCTGCACGGTT 11 22 1 ATCGGCGCGC 0.942096 -151 TCTTCGGTGTGTCTGCTGGCAAACTCTCAA 11 123 0 GTCTGCTGGC 0.705838 -50 GTGTGCGCGCCCTGTCGGTAGG 12 3 1 GTGCGCGCCC 0.650222 -20 CGCCGACGTCGGCCGCCAAACCCGGGC 13 8 1 GTCGGCCGCC 0.646927 -260 CGCGCAGGATCTGCGCCCGGGTTTGGCGGC 13 22 0 CTGCGCCCGG 0.939307 -246 CGATATCCATCGCGGCGCGCAGGATCTGCG 13 37 0 CGCGGCGCGC 0.850058 -231 AAGGGGCTCTCGGGGCTGTCCATCGGCGAG 13 75 1 CGGGGCTGTC 0.599699 -193 GCTCATGCCCAGCCGCCCGGCAAGCTCGCC 13 99 0 AGCCGCCCGG 0.974911 -169 CGACCGTCGAGGCCGCCGTGAGCGTGTTCG 13 178 1 GGCCGCCGTG 0.548357 -90 GCGATGGCAGCGCCGCCCGGGGTGGACCGG 13 228 1 CGCCGCCCGG 0.924686 -40 GGTGGACCGGGTGCGCGCCCTCATGCATGC 13 248 1 GTGCGCGCCC 0.650222 -20 ACCGCTCGCTCGGGGCCCGGG 14 2 0 CGGGGCCCGG 0.847256 -101 CGGATTGCGTGACCGCTCGCTCGGGGCCCG 14 13 0 GACCGCTCGC 0.847042 -90 TTTAACGATGGTCCGCCTGGGGCGTGCTGT 14 49 0 GTCCGCCTGG 0.698631 -54 GCTTAATGAAAGCCGCCGCCG 14 92 1 AGCCGCCGCC 0.7897 -11 CCGTTACCGGCGCCGCCGCC 15 1 0 CGCCGCCGCC 0.514451 -209 GCGCCGGTAACGGCGCGCGCCGGTTCGTTT 15 18 1 CGGCGCGCGC 0.834239 -192 TGCGCAACATGTGCGCGCTGACGATCGGGT 15 64 1 GTGCGCGCTG 0.709307 -146 CGGCTGGGTGAACCGCCCCGGTGAGTCCGG 16 31 0 AACCGCCCCG 0.675421 -270 TAGCCGGGCTAGCCGCGCGCTTCAGTGGTA 16 170 1 AGCCGCGCGC 0.982724 -131 ********** Masking position 5 Map Score: 35.2055 Number of sites scoring better than the average of aligned sites = 3344 Number in coding regions = 3128 Number in noncoding regions = 216 Number of orfs with sites within 600 bp upstream = 150 Fraction of orfs with sites within 600 bp upstream = 0.0240925 Motif number 2 TATAAAAAAAGCTGCCAATGACGGCAGCTTTTTT 2 16 0 GCTGCTGCGG 0.864889 -179 GCCGCGTATCGGCGCGCCTGCACGGTTAGCAACC 11 25 1 GGCGGTGACG 0.675197 -148 AAGAACCGAGCCCCACCAGGGAGGAAGCCGAACG 11 149 1 CCCCCGGAGG 0.845566 -24 GTGTGCGCGCCCTGTCGGTAGG 12 9 1 GCCCGGGAGG 0.956021 -14 AGGATCTGCGCCCGGGTTTGGCGGCCGACGTCGG 13 13 0 CCCGGTGCGG 0.98529 -255 CCGATGGACAGCCCCGAGAGCCCCTTCACCGAGG 13 67 0 GCCCGAGCCC 0.97034 -201 GCTGTCCATCGGCGAGCTTGCCGGGCGGCTGGGC 13 89 1 GGCGGTGCGG 0.928958 -179 GCGCCGAAATGCCGGAACAGGCCCGACTTGCTCA 13 124 0 GCCGAAGCCC 0.782356 -144 GCTCACGGCGGCCTCGACGGTCGCCAGCTGCAGC 13 167 0 GCCTGGGCGC 0.923861 -101 CGTGTTCGAAGCCGAGGTCGTGGCTCCCGCGATG 13 200 1 GCCGGCGGGC 0.936624 -68 GGTCGTGGCTCCCGCGATGGCAGCGCCGCCCGGG 13 215 1 CCCGGGGAGC 0.685787 -53 GGCAGCGCCGCCCGGGGTGGACCGGGTGCGCGCC 13 233 1 CCCGGGGCCG 0.989184 -35 CCCGGGCCCCGAGCGAGCGGTCACGCAAT 14 6 1 GCCCGCGGCG 0.832254 -97 CCTGGGGCGTGCTGTCAATGCCGGATTGCGTGAC 14 30 0 GCTGCTGCGG 0.865328 -73 TGACAGCACGCCCCAGGCGGACCATCGTTAAACA 14 47 1 CCCCGGGCCA 0.779666 -56 GGCGGCGGCGCCGGTAACGGCGCGCGCCGGTTC 15 10 1 GCCGTCGCGC 0.921854 -200 CGAAAGCCCTGCCGACGGTGTCGCAGGTCTGGGA 15 150 1 GCCGCTGCGC 0.986514 -60 GTGAAGTTGTGCTGAGCTGGTCGGAGGTGCGGG 15 187 1 GCTGGGGCGG 0.953277 -23 GGGTGAACCGCCCCGGTGAGTCCGGAGACTCTCT 16 22 0 CCCCGAGCCG 0.940852 -279 ATCGCCGACAGCCGGTGACGACCCGGCTGGGTGA 16 50 0 GCCGTCGCCC 0.909535 -251 CCCAGTTGTGCCCCACTTGGCCCCACTTGCCACC 16 102 1 CCCCCGGCCC 0.964474 -199 TGAGGTCGTAGCCGGGCTAGCCGCGCGCTTCAGT 16 162 1 GCCGGAGCGC 0.986718 -139 GCGGCGTTTTGCCGTCTCTGTACCACTGAAGCGC 16 186 0 GCCGCTGACC 0.921573 -115 CCCCACAATCCCCCACTTTGCCCCATAACTGGGG 16 227 0 CCCCCTGCCC 0.944213 -74 **** * ** *** Masking position 10 Map Score: 36.1492 Number of sites scoring better than the average of aligned sites = 1550 Number in coding regions = 1457 Number in noncoding regions = 93 Number of orfs with sites within 600 bp upstream = 62 Fraction of orfs with sites within 600 bp upstream = 0.00995824 Motif number 3 AGTTAATATACAGCGATGTTCTGACAAACCATT 1 218 1 CAGCGATGCG 0.913939 -83 ACTGCACTCAGACCGAAAAACTGTCGAAATCAG 4 52 0 GACCGAAACG 0.852051 -88 CGGAGGGAAGCGGTGAAAAGCGGAGTACATCGG 6 100 1 CGGTGAAACG 0.904087 -102 GCCAATCTGCGGCAGACAAGCAGGT 8 3 0 GGCAGACACG 0.861299 -160 CGTGCAGGCGCGCCGATACGCGGCGGGCATTTT 11 16 0 CGCCGATACG 0.981401 -157 CCAGCAGACACACCGAAGAACCGAGCCCCACCA 11 134 1 CACCGAAGCG 0.952401 -39 CCGGCAAGCTCGCCGATGGACAGCCCCGAGAGC 13 80 0 CGCCGATGCG 0.979644 -188 TGCTCCTTGGCGCCGAAATGCCGGAACAGGCCC 13 134 0 CGCCGAAACG 0.988259 -134 CCCGCGATGGCAGCGCCGCCCGGGGTGGACCGG 13 225 1 CAGCGCCGCG 0.840301 -43 AACATGTGCGCGCTGACGATCGGGTTGGCGGAA 15 69 1 CGCTGACGCG 0.955719 -141 TTTAAGGAAAGTGCGACATCCTGTTTTCAGATT 15 107 1 GTGCGACACG 0.772467 -103 CCGGTGAGTCCGGAGACTCTCTGATCTGAGACC 16 11 0 CGGAGACTCG 0.731329 -290 GACTCAATATCGCCGACAGCCGGTGACGACCCG 16 59 0 CGCCGACACG 0.994696 -242 CCCATTTGCCCGGCGACATGCGGTTTTCTGAGG 16 134 1 CGGCGACACG 0.993949 -167 GGTACAGAGACGGCAAAACGCCGCTTTGATACC 16 196 1 CGGCAAAACG 0.72139 -105 ******** * * Masking position 11 Map Score: 21.9893 Number of sites scoring better than the average of aligned sites = 657 Number in coding regions = 612 Number in noncoding regions = 45 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 4 AAATCGAAAACGATTTTGTCCTTTAC 1 3 0 CGATTGCTTT 0.86288 -298 AAATCGTTTTCGATTTTGTCTTTTTTGTTTTTCT 1 21 1 CGATTGCTTT 0.86288 -280 CACTTCCTTCTTATAAAGTCTTTTTCCCTATTGC 1 60 1 TTATAGCTTT 0.94129 -241 GACCCATTTATTTTTGTGACATTTTTATCATTTT 1 126 1 TTTTTGCTTT 0.973982 -175 AACCCCTTGATTTTACAGGGATTTCCTGATTTCG 4 27 1 TTTTAGGTTT 0.760513 -113 AACAACATCGTTTTAAAGGCTTTTCA 5 3 0 TTTTAGCTTT 0.96453 -145 AACGATGTTGTTTTAAAGGCTTTTCTATTGATTA 5 25 1 TTTTAGCTTT 0.96453 -123 TGGTCCTCCTCTTTATTGCCTTTTATAATTGTTT 5 122 0 CTTTAGCTTT 0.957211 -26 CCGTTTGTTTTTATTAAGCCGTTTCATCACATTT 6 136 1 TTATTGCTTT 0.956657 -66 CATCACGTCCTTTTTCCGTCCTTTTGTTCAAGTA 7 57 0 TTTTTGCTTT 0.973982 -26 TCGGTTTTTCAGTTTTTTTCTCCATCTG 10 5 1 TTTTTGTTTT 0.74681 -89 CAAGTCGGGCCTGTTCCGGCATTTCGGCGCCAAG 13 128 1 CTGTTGCTTT 0.891063 -140 ***** * * *** Masking position 4 Map Score: 10.5627 Number of sites scoring better than the average of aligned sites = 324 Number in coding regions = 275 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 5 ATAAAGTCTTTTTCCCTATTGCTTTCCTTC 1 72 1 TTTCCCTATT 0.702978 -229 TTTCATCCCCCTTTTTCAACATGCT 1 286 0 TCCCCCTTTT 0.895413 -15 AAAAATTGTATTTTCCTCTCAACATTAATT 2 93 1 TTTTCCTCTC 0.668236 -102 CCTCACGCTGTTCCCCTTCTTGCTTCATAA 2 154 0 TTCCCCTTCT 0.949267 -41 CTTCCTCTCCCTTCTAAATGTCACG 3 48 0 TCTCCCTTCT 0.918732 -15 AGTGCATATTTTTCCCACCCAAGGAGATAC 4 82 1 TTTCCCACCC 0.910466 -58 TTTTTTCCCTCCCTACAGGAGCT 4 127 0 TTTCCCTCCC 0.946891 -13 CGTGGTCCTCCTCTTTATTGCCTTT 5 133 0 TCCTCCTCTT 0.796169 -15 TCACGTCCTTTTTCCGTCCTTTTGTTCAAG 7 59 0 TTTCCGTCCT 0.77755 -24 AAAAGCGGAATTTCCCACTTATTTTACCAC 8 114 0 TTTCCCACTT 0.932293 -49 CGTCTTTCCCTTCTATGTAAAGAG 9 47 0 TTTCCCTTCT 0.939008 -14 TTCAGTTTTTTTCTCCATCTGTGCGAAATT 10 18 1 TTCTCCATCT 0.659257 -76 GCCCCAGTTGTGCCCCACTTGGCCCCACTT 16 100 1 TGCCCCACTT 0.777281 -201 TACCCCACAATCCCCCACTTTGCCCCATAA 16 233 0 TCCCCCACTT 0.924745 -68 ********** Masking position 1 Map Score: 10.4409 Number of sites scoring better than the average of aligned sites = 981 Number in coding regions = 679 Number in noncoding regions = 302 Number of orfs with sites within 600 bp upstream = 336 Fraction of orfs with sites within 600 bp upstream = 0.0539672 Motif number 6 TCTAAATGTCACGCCGTTTGAGTATGATAA 3 31 0 ACGCCGTTTG 0.974788 -32 CATCGTTTTAAAGGCTTTTCA 5 2 0 AAGGCTTTTC 0.939094 -146 TGTTGTTTTAAAGGCTTTTCTATTGATTAT 5 30 1 AAGGCTTTTC 0.939094 -118 ACTTTGTCTCAACCCTTTTGACCTGATCTG 6 59 1 AACCCTTTTG 0.864473 -143 AGTACATCGGACTCCGTTTGTTTTTATTAA 6 123 1 ACTCCGTTTG 0.85676 -79 TGTTTTTATTAAGCCGTTTCATCACATTTG 6 141 1 AAGCCGTTTC 0.986922 -61 AAAATCAAAAAAGCCGTTTCAAATGTGATG 6 160 0 AAGCCGTTTC 0.986922 -42 ********** Masking position 1 Map Score: 4.07653 Number of sites scoring better than the average of aligned sites = 226 Number in coding regions = 203 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 7 ACAAAGTCTCTCTCAGCTTCGCAAAGCACC 6 36 0 TCTCAGCTTC 0.38482 -166 GCCCGCCGCGTATCGGCGCGCCTGCACGGT 11 21 1 TATCGGCGCG 0.743065 -152 CGTTCGGCTTCCTCCCTGGTG 11 162 0 GTTCGGCTTC 0.873687 -11 CGGCGCGCAGGATCTGCGCCCGGGTTTGGC 13 25 0 GATCTGCGCC 0.882907 -243 TGTTCCGGCATTTCGGCGCCAAGGAGCAGC 13 139 1 TTTCGGCGCC 0.969748 -129 TCGAACACGCTCACGGCGGCCTCGACGGTC 13 179 0 TCACGGCGGC 0.694787 -89 GGAGCCACGACCTCGGCTTCGAACACGCTC 13 197 0 CCTCGGCTTC 0.728449 -71 GTGACCGCTCGCTCGGGGCCCGGG 14 5 0 GCTCGGGGCC 0.931658 -98 CGCGCGCCGTTACCGGCGCCGCCGCC 15 7 0 TACCGGCGCC 0.970295 -203 CGCCGGTTCGTTTCGGCTCCAACAACTTTT 15 35 1 TTTCGGCTCC 0.919041 -175 ACGAATCCCAGACCTGCGACACCGTCGGCA 15 159 0 GACCTGCGAC 0.766294 -51 GCCCCGGTGAGTCCGGAGACTCTCTGATCT 16 17 0 GTCCGGAGAC 0.630576 -284 CCACCCATTTGCCCGGCGACATGCGGTTTT 16 131 1 GCCCGGCGAC 0.983796 -170 CGCGCGGCTAGCCCGGCTACGACCTCAGAA 16 159 0 GCCCGGCTAC 0.955566 -142 ********** Masking position 4 Map Score: 7.12585 Number of sites scoring better than the average of aligned sites = 1399 Number in coding regions = 1339 Number in noncoding regions = 60 Number of orfs with sites within 600 bp upstream = 52 Fraction of orfs with sites within 600 bp upstream = 0.00835207 Motif number 8 TTCATTATTAAAAGGAGGGACGACACTTTT 1 249 1 AAAGGAGGGA 0.917156 -52 GGCGTGACATTTAGAAGGGAGAGGAAG 3 46 1 TTAGAAGGGA 0.908023 -17 AAGTATCTCCTTGGGTGGGAAAAATATGCA 4 84 0 TTGGGTGGGA 0.98568 -56 GCAGCTCCTGTAGGGAGGGAAAAAA 4 125 1 TAGGGAGGGA 0.964026 -15 ATGTGGTAAAATAAGTGGGAAATTCCGCTT 8 112 1 ATAAGTGGGA 0.735989 -51 GCCTCTTTACATAGAAGGGAAAGACG 9 45 1 ATAGAAGGGA 0.88905 -16 CGCCGGGCAAATGGGTGGCAAGTGGGGCCA 16 119 0 ATGGGTGGCA 0.890323 -182 GCTGAGGTGTTTGGGTGAGATGGATTTGGC 16 268 1 TTGGGTGAGA 0.870932 -33 TGAGATGGATTTGGCAGGGAGGTGCCCC 16 283 1 TTGGCAGGGA 0.942206 -18 ********** Masking position 10 Map Score: 3.8679 Number of sites scoring better than the average of aligned sites = 293 Number in coding regions = 190 Number in noncoding regions = 103 Number of orfs with sites within 600 bp upstream = 115 Fraction of orfs with sites within 600 bp upstream = 0.0184709 Motif number 9 TTTCATCCCCCTTTTTCAACATGCTT 1 285 0 CCCCCTTTTT 0.909706 -16 TCACGCTGTTCCCCTTCTTGCTTCATAAGT 2 152 0 CCCCTTCTTG 0.875958 -43 CGTGGTCCTCCTCTTTATTGCCTTTT 5 132 0 CCTCCTCTTT 0.841625 -16 GATGCCACCTCCATTTTTACATTTCAG 10 77 0 CCTCCATTTT 0.79366 -17 GCCGGAACAGGCCCGACTTGCTCATGCCCA 13 118 0 GCCCGACTTG 0.939926 -150 TCCGGTTTGAGCCCCAGTTGTGCCCCACTT 16 90 1 GCCCCAGTTG 0.95392 -211 CCCCAGTTGTGCCCCACTTGGCCCCACTTG 16 101 1 GCCCCACTTG 0.990799 -200 GCCCCACTTGGCCCCACTTGCCACCCATTT 16 111 1 GCCCCACTTG 0.990799 -190 CCCCACTTGCCACCCATTTGCCCGGCGACA 16 122 1 CACCCATTTG 0.819986 -179 ACCCCACAATCCCCCACTTTGCCCCATAAC 16 232 0 CCCCCACTTT 0.985484 -69 ********** Masking position 8 Map Score: 11.3902 Number of sites scoring better than the average of aligned sites = 214 Number in coding regions = 171 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 10 TTTCCCTATTGCTTTCCTTCGCTTAGTAAC 1 82 1 GCTTTCCTTC 0.92446 -219 GAGGGACGACACTTTTTTTAAAAAGCATGT 1 263 1 ACTTTTTTTA 0.796764 -38 AATGACGGCAGCTTTTTTTCCAC 2 4 0 GCTTTTTTTC 0.954973 -191 GTCATTGGCAGCTTTTTTTATATCCTCTCA 2 28 1 GCTTTTTTTA 0.957767 -167 TTCCCACAGAGCTTGCTTTATACTTATGAA 2 131 1 GCTTGCTTTA 0.85144 -64 ATCTGACTCCTTTCTTTCTTGCCTCACG 2 177 0 CCTTTCTTTC 0.805275 -18 ATTTGAAACGGCTTTTTTGATTTTAAAGAA 6 166 1 GCTTTTTTGA 0.825464 -36 GGGAAATTCCGCTTTTTTAAATGTTTGTCG 8 128 1 GCTTTTTTAA 0.761395 -35 TACGCGGCGGGCATTTTTTCGG 11 3 0 GCATTTTTTC 0.729349 -170 CGGCGGCGGCTTTCATTAAGCACGAACG 14 85 0 GCTTTCATTA 0.827515 -18 AGGATGTCGCACTTTCCTTAAAAGAGCTTC 15 99 0 ACTTTCCTTA 0.693456 -111 ********** Masking position 4 Map Score: 4.56635 Number of sites scoring better than the average of aligned sites = 924 Number in coding regions = 755 Number in noncoding regions = 169 Number of orfs with sites within 600 bp upstream = 169 Fraction of orfs with sites within 600 bp upstream = 0.0271442 Motif number 11 TACAGATATTGTCGTTTCATGTCATTCAAT 1 173 0 GTCGTTTCAT 0.903258 -128 TTTTTATTAAGCCGTTTCATCACATTTGAA 6 143 1 GCCGTTTCAT 0.983701 -59 AATCAAAAAAGCCGTTTCAAATGTGATGAA 6 158 0 GCCGTTTCAA 0.937065 -44 GGTTCAGCCTGCCCGTTCATATACTTGAAC 7 36 1 GCCCGTTCAT 0.959942 -47 AACGGCGCGCGCCGGTTCGTTTCGGCTCCA 15 26 1 GCCGGTTCGT 0.988219 -184 GACTCACCGGGGCGGTTCACCCAGCCGGGT 16 34 1 GGCGGTTCAC 0.912667 -267 GGTTCACCCAGCCGGGTCGTCACCGGCTGT 16 47 1 GCCGGGTCGT 0.9627 -254 ********** Masking position 7 Map Score: 4.96779 Number of sites scoring better than the average of aligned sites = 266 Number in coding regions = 235 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 12 CCTCCCTACAGGAGCTGCTGTACAACGTTA 4 113 0 GGAGCTGCTG 0.986883 -27 GACGGAAAAAGGACGTGATGGA 7 71 1 GGACGTGATG 0.907053 -12 TCGGCGCCAAGGAGCAGCTGCAGCTGGCGA 13 151 1 GGAGCAGCTG 0.948878 -117 GTCCACCCCGGGCGGCGCTGCCATCGCGGG 13 225 0 GGCGGCGCTG 0.959739 -43 GGTCCGCCTGGGGCGTGCTGTCAATGCCGG 14 40 0 GGGCGTGCTG 0.964907 -63 TGAGCTGGTCGGAGGTGCGGG 15 199 1 GGAGGTGCGG 0.984893 -11 GATTTGGCAGGGAGGTGCCCC 16 290 1 GGAGGTGCCC 0.926089 -11 ********** Masking position 7 Map Score: 2.80247 Number of sites scoring better than the average of aligned sites = 335 Number in coding regions = 306 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 34 Fraction of orfs with sites within 600 bp upstream = 0.00546097 Motif number 13 AGAACCGTATGGCTACGACGGTTGCTAACC 11 48 0 GGCTACGACG 0.982587 -125 ATACGGTTCTGACTACGAGCAACTACTTGA 11 68 1 GACTACGAGC 0.882572 -105 CGCTCACGGCGGCCTCGACGGTCGCCAGCT 13 172 0 GGCCTCGACG 0.967341 -96 CCACGACCTCGGCTTCGAACACGCTCACGG 13 193 0 GGCTTCGAAC 0.914781 -75 CCATCGCGGGAGCCACGACCTCGGCTTCGA 13 205 0 AGCCACGACC 0.955542 -63 CCCGGGCCCCGAGCGAGCGGTCAC 14 5 1 GGCCCCGAGC 0.967419 -98 GCCGACAGCCGGTGACGACCCGGCTGGGTG 16 51 0 GGTGACGACC 0.888582 -250 CGGCTAGCCCGGCTACGACCTCAGAAAACC 16 155 0 GGCTACGACC 0.993745 -146 ********** Masking position 8 Map Score: 6.12759 Number of sites scoring better than the average of aligned sites = 101 Number in coding regions = 96 Number in noncoding regions = 5 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 14 TCTCATTATACTTCCTCGACAAATTAAGCA 2 53 1 CTTCCTCGAC 0.82198 -142 AGAATCGAGACTTCCGGCATTTGCCAATCT 8 28 0 CTTCCGGCAT 0.979191 -135 AGTCTCGATTCTTCCGGCACATTTCATTTA 8 46 1 CTTCCGGCAC 0.967108 -117 TTTACCACATCTTACTGCATTCGTTGAGCG 8 92 0 CTTACTGCAT 0.639854 -71 GATGCCACCTCCATTTTTACATTT 10 80 0 CCACCTCCAT 0.781927 -14 AAACTCTCAACCTCAACCATAGGCTTAGAG 11 103 0 CCTCAACCAT 0.605811 -70 CGTTCGGCTTCCTCCCTGGTGGGGCTC 11 156 0 CTTCCTCCCT 0.854836 -17 AGTCGGGCCTGTTCCGGCATTTCGGCGCCA 13 130 1 GTTCCGGCAT 0.83333 -138 GAGGTCGTGGCTCCCGCGATGGCAGCGCCG 13 213 1 CTCCCGCGAT 0.725305 -55 GGGTGCGCGCCCTCATGCATGC 13 256 1 CCTCATGCAT 0.818073 -12 CTTAAAAGAGCTTCCGCCAACCCGATCGTC 15 83 0 CTTCCGCCAA 0.911387 -127 CACCCAAACACCTCAGCCACCATACCCCAC 16 255 0 CCTCAGCCAC 0.881248 -46 ********** Masking position 9 Map Score: 3.06614 Number of sites scoring better than the average of aligned sites = 1483 Number in coding regions = 1344 Number in noncoding regions = 139 Number of orfs with sites within 600 bp upstream = 141 Fraction of orfs with sites within 600 bp upstream = 0.022647 Motif number 15 AATTTTTCAGGGAAATCTGCTTAATTTGTC 2 70 0 GGAAATCTGC 0.822961 -125 TGTTCGCAAATGTCCGTTACTTATC 3 6 1 GCAAATGTCC 0.467512 -57 TCTCAGCTTCGCAAAGCACCCCTAGGATGA 6 26 0 GCAAAGCACC 0.892188 -176 TGTAAATCCGCTCCTATTCTT 6 191 0 GTAAATCCGC 0.761913 -11 TCCGGCATTTGCCAATCTGCGGCAGACAAG 8 16 0 GCCAATCTGC 0.924599 -147 TTAGAAATATGCAAATCGGCGCTCAACGAA 8 73 1 GCAAATCGGC 0.838412 -90 CTTGGCTGCTGCCAAGCCCCTATCAAACTG 9 16 0 GCCAAGCCCC 0.983068 -45 CTTGGCAGCAGCCAAGCCTCTTTACATAGA 9 30 1 GCCAAGCCTC 0.917536 -31 GCTCGCCGATGGACAGCCCCGAGAGCCCCT 13 76 0 GGACAGCCCC 0.881667 -192 ACTTGCTCATGCCCAGCCGCCCGGCAAGCT 13 103 0 GCCCAGCCGC 0.975177 -165 GCATTTCGGCGCCAAGGAGCAGCTGCAGCT 13 146 1 GCCAAGGAGC 0.813889 -122 TCGTGCTTAATGAAAGCCGCCGCCG 14 88 1 TGAAAGCCGC 0.734616 -15 GTCGTAGCCGGGCTAGCCGCGCGCTTCAGT 16 166 1 GGCTAGCCGC 0.880634 -135 ********** Masking position 5 Map Score: 8.31736 Number of sites scoring better than the average of aligned sites = 1464 Number in coding regions = 1343 Number in noncoding regions = 121 Number of orfs with sites within 600 bp upstream = 75 Fraction of orfs with sites within 600 bp upstream = 0.0120463