AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00290_mtub_reg_300.orf -o00290_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 leuS 196 leuS #2 ilvD 147 ilvD #3 ileS 300 ileS #4 ilvG 70 ilvG #5 ilvE 71 ilvE #6 aceE 51 aceE #7 valS 87 valS #8 Rv2449c 89 hypothetical protein Rv2449c #9 Rv2450c 81 hypothetical protein Rv2450c #10 pdhA 258 pdhA #11 scoA 82 scoA #12 fadD35 115 fadD35 #13 leuD 24 leuD #14 leuC 71 leuC #15 serA 29 serA #16 ilvC 37 ilvC #17 ilvB 300 ilvB #18 Rv3510c 300 hypothetical protein Rv3510c #19 leuA 256 leuA Motif number 1 CTCCGAATGGCCGGGCGACGGTGCCCGTCG 1 23 1 CCGGGCGACG 0.845461 -174 CGAGACCAACCCGTGGCCGGTAGCGCGGCC 1 140 1 CCGTGGCCGG 0.627787 -57 CGGGAACCTCCGGGGCCGCGCTACCGGCCA 1 153 0 CGGGGCCGCG 0.666851 -44 CCGGAGGTTCCCGGGCCACCCTTATACCCT 1 170 1 CCGGGCCACC 0.691842 -27 GGCCCTGCTTTCGGGTTGGCGAGTATCTCT 2 26 0 TCGGGTTGGC 0.788285 -122 AGGTCCGATACCCCGCTGGGGTACAAGATA 2 74 0 CCCCGCTGGG 0.854006 -74 AACCGTGCCGCGGCGAGCGCATCCTTGGGC 2 114 1 CGGCGAGCGC 0.967003 -34 CGACCTTGCGCCGCGATGTGGATTTGCGGC 3 22 1 CCGCGATGTG 0.956087 -279 TGTGGATTTGCGGCGCTGGGCGACAATCCC 3 38 1 CGGCGCTGGG 0.95979 -263 CGGCGATCACCGGGGAGCCTTCGGAAGAAC 3 95 1 CGGGGAGCCT 0.889277 -206 CCGCTTGCCACGCCGATGCGCGGCCGCTCG 3 177 0 CGCCGATGCG 0.877879 -124 GGTGGTACCGCGGCGTTCGCGCACCGGCGT 3 207 1 CGGCGTTCGC 0.892233 -94 GTTCGCGCACCGGCGTGGCGTCGTCCCCGA 3 221 1 CGGCGTGGCG 0.875904 -80 GTGGCGTCGTCCCCGAGCCTGGATTGCAGG 3 235 1 CCCCGAGCCT 0.659578 -66 CAGCACCGTTCGGCACTGCGTGCCTGCAAT 3 257 0 CGGCACTGCG 0.750476 -44 CAGTGCCGAACGGTGCTGGGGCCTGGGGAG 3 269 1 CGGTGCTGGG 0.884375 -32 TGCTGGGGCCTGGGGAGACGACGCGCAAA 3 282 1 TGGGGAGACG 0.619348 -19 TTATTGACGGCCCGGAGGCCACTCCGCTGC 5 25 0 CCCGGAGGCC 0.8057 -47 CCGAACTCGGTCGGGTTCGCTTGCGCTGTT 6 17 0 TCGGGTTCGC 0.612169 -35 TTCGGGTGATCCGCGAGGGT 6 42 1 CCGCGAGGGT 0.983941 -10 ATCCGGGCGGTTTCGGGCGCTT 7 3 1 CCGGGCGGTT 0.795438 -85 TAGAATTGATCGGTGACCGCCAGCCCTCAC 7 56 1 CGGTGACCGC 0.538969 -32 ATCGGCGGCAGGGTGAGGGCTG 7 76 0 CGGCGGCAGG 0.74402 -12 TGACGCTACTCCGGGGTGCGCGAGCAGACG 8 65 0 CCGGGGTGCG 0.9734 -25 GTTGTTCCTTTCGCGGTGCGCGCGCGCCAA 9 61 0 TCGCGGTGCG 0.948448 -21 CGCAGATCCCCCGCGACACGGTTGCGATGC 10 14 1 CCGCGACACG 0.903931 -245 CGCGACACGGTTGCGATGCGTTCGCGATCG 10 25 1 TTGCGATGCG 0.684316 -234 TGCGATGCGTTCGCGATCGGTCCGGACTCT 10 36 1 TCGCGATCGG 0.940962 -223 GCCAGTGTTGCGGCGAGCGGAAGCTTTGGT 10 94 1 CGGCGAGCGG 0.810477 -165 GCGGAAGCTTTGGTGCGGCCGGCGATCAAC 10 110 1 TGGTGCGGCC 0.583159 -149 TGGGAAACCGCTGCGAGCCGAAGTTGATCG 10 132 0 CTGCGAGCCG 0.837268 -127 TCCTTAGCGTCGGCGCTGGTGGTGCGGCGC 10 179 0 CGGCGCTGGT 0.962058 -80 TGACGCGTAACCGCGTTGTGATCGCGAGCT 10 228 1 CCGCGTTGTG 0.891529 -31 CGCGTTGTGATCGCGAGCTGAGGAGACGGT 10 239 1 TCGCGAGCTG 0.758519 -20 ACCATTGCCCCCGCGGTGCGTCTAGGGACC 11 11 0 CCGCGGTGCG 0.98676 -72 GGCGTCGAGTTCGCGAGCGTAACGCCACCG 17 14 1 TCGCGAGCGT 0.865148 -287 ATGCGAATTTTCGCGGTGGCGTTACGCTCG 17 27 0 TCGCGGTGGC 0.907973 -274 GCGAGCGTGACGGCACTGCGAAATCCCATG 17 54 0 CGGCACTGCG 0.750476 -247 CAGTCTTGATCCGCGAGCGTGACGGCACTG 17 66 0 CCGCGAGCGT 0.961979 -235 GCAGTCAAATCCGCGGTGTCAGTCTTGATC 17 85 0 CCGCGGTGTC 0.851035 -216 GCCGGAAAGCCCGGGATGCTCGTAGTAATT 17 154 1 CCGGGATGCT 0.956045 -147 TGCACGAGGGTCGCGTTGGTGCTCGCTTGG 17 210 0 TCGCGTTGGT 0.804837 -91 GCAGCTGAGCTGGCGAGGGTTTTTTCTTGT 17 240 1 TGGCGAGGGT 0.905152 -61 CCCGTGTAATTTGGGATGGGCAAAAAGGCG 18 67 1 TTGGGATGGG 0.514624 -234 AGGCGAAGCACCGCGTGGCCACGAACGCCG 18 92 1 CCGCGTGGCC 0.976655 -209 TTGTCCCTCCCGGCGTTCGTGGCCACGCGG 18 102 0 CGGCGTTCGT 0.817726 -199 AGGGACAATCTCGGGCGGCTAGGGCTTCTC 18 124 1 TCGGGCGGCT 0.870384 -177 GGGCTTCTCGCGGGAAGGCCCGAACGTACG 18 145 1 CGGGAAGGCC 0.554415 -156 TTTCAACACGTCGCGTCGCCCTCCGACCGC 18 178 1 TCGCGTCGCC 0.822515 -123 CCCCGAATGTTCGCGGTCGGAGGGCGACGC 18 190 0 TCGCGGTCGG 0.886351 -111 CGCGAACATTCGGGGATGGCAGCAACCTGG 18 205 1 CGGGGATGGC 0.962003 -96 AGCACCCTGGCCGGGCGATGATCTGCAGCG 18 236 1 CCGGGCGATG 0.575153 -65 CGACTACCCGCGGCGACGCTGCAGATCATC 18 252 0 CGGCGACGCT 0.944638 -49 CTGTAGCCGCCCGGGCGGCGACTACCCGCG 18 270 0 CCGGGCGGCG 0.609476 -31 CAGCGCAGGCCGGCGCGCCCCCTATTCTGG 19 44 0 CGGCGCGCCC 0.815514 -213 TCTGCGTCCACCGTGTGGGCTACTCGCACA 19 95 0 CCGTGTGGGC 0.789787 -162 TCCTCGGACGCCGCGACGGGGTCTGATCCA 19 163 1 CCGCGACGGG 0.979792 -94 CGCGAACGTCCCGCGACGGGAAGCCGGTCT 19 192 0 CCGCGACGGG 0.979792 -65 CGCGGGACGTTCGCGATGCGCCGGTCTGAG 19 207 1 TCGCGATGCG 0.974094 -50 GGTAGTTGCTCCGGGATGGTGAGAAGGAAC 19 237 0 CCGGGATGGT 0.956045 -20 ********** Masking position 5 Map Score: 89.9515 Number of sites scoring better than the average of aligned sites = 68667 Number in coding regions = 63891 Number in noncoding regions = 4776 Number of orfs with sites within 600 bp upstream = 1510 Fraction of orfs with sites within 600 bp upstream = 0.242531 Motif number 2 CCTCGACGACGGGCACCGTCGCCCGGCCATTCG 1 26 0 GGCCGTCGCC 0.972302 -171 TGCGCTCGCCGCGGCACGGTTGCCAAATTCTAG 2 102 0 GGGCGGTTGC 0.9234 -46 CCACATCGCGGCGCAAGGTCGGCTGCCTGCCC 3 10 0 GGCGGTCGGC 0.893791 -291 GCGCCGCGATGTGGATTTGCGGCGCTGGGCGAC 3 29 1 GGGTTGCGGC 0.974372 -272 CTGATTCTACGGGGATTGTCGCCCAGCGCCGCA 3 46 0 GGGTGTCGCC 0.928161 -255 CGTAGAATCAGGGGAACGGCATCGATCCGGCGA 3 68 1 GGGCGGCATC 0.841269 -233 CGCTTGCCACGCCGATGCGCGGCCGCTCGACTT 3 173 0 GCGGCGCGGC 0.760219 -128 GGCAAGCGGGGTGGTACCGCGGCGTTCGCGCAC 3 198 1 GGGCCGCGGC 0.994902 -103 TCGCGCACCGGCGTGGCGTCGTCCCCGAGCCTG 3 223 1 GGTCGTCGTC 0.780489 -78 GGCACGCAGTGCCGAACGGTGCTGGGGCCTGGG 3 263 1 GCGCGGTGCT 0.510886 -38 TTTGCGCGTCGTCTCCCCAGGCCCCA 3 285 0 GGCCGTCTCC 0.911616 -16 GGTCGACGTCTCCTCACAAACAG 4 1 1 GTCCGTCTCC 0.552486 -70 GACAACCTTCGGGTACCTTCGCCCGAAGGATTT 4 34 0 GGTCTTCGCC 0.812249 -37 CCCGAAGGTTGTCGATAGGCTGCCGAT 4 54 1 GCGAGGCTGC 0.624432 -17 CTTGGTGGCAGCGGAGTGGCCTCCGGGCCGTCA 5 18 1 GGGTGGCCTC 0.482281 -54 TCATGCCGGTGTGAAGCGGTTCCTAGAATTGAT 7 33 1 GGACGGTTCC 0.484002 -55 GCGGCAGGGTGAGGGCTGGCGGTCACCGATCAA 7 61 0 GGGTGGCGGT 0.931535 -27 CCGGATTTGGGAGCTTTTGCGTCTTTTCGCGGT 8 13 0 GGCTTGCGTC 0.845249 -77 TCGGATTTGGGAGCTTTTGCGTCTGCTCGCGCA 8 46 1 GGCTTGCGTC 0.845249 -44 ACCCATGCCCGTGGGTTGGCTTTGGCGCGCGCG 9 40 1 GGGTGGCTTT 0.489895 -42 TCCTTTCGCGGTGCGCGCGCGCCAAAGCCAACC 9 53 0 GGCGCGCGCC 0.934892 -29 CCGTGTCGCGGGGGATCTGCGCCC 10 2 0 GGGCTGCGCC 0.991184 -257 CAGATCCCCCGCGACACGGTTGCGATGCGTTCG 10 16 1 GGACGGTTGC 0.563934 -243 GCGAGCGGAAGCTTTGGTGCGGCCGGCGATCAA 10 106 1 GTTGTGCGGC 0.388371 -153 TGCGGCCGGCGATCAACTTCGGCTCGCAGCGGT 10 123 1 GTCCTTCGGC 0.711263 -136 CATCCCGCCTGGGAAACCGCTGCGAGCCGAAGT 10 138 0 GGACCGCTGC 0.855772 -121 GTCGGCGCTGGTGGTGCGGCGCTCACAGCACAT 10 168 0 GGGCGGCGCT 0.979106 -91 CGATCACAACGCGGTTACGCGTCAGAAGATGCC 10 219 0 GGGACGCGTC 0.738609 -40 GGTCCCTAGACGCACCGCGGGGGCAATGGTA 11 9 1 GCGCCGCGGG 0.632157 -74 GAAATGCTAGGAGGCTCTGCGGT 11 70 1 GGGCTGCGGT 0.964024 -13 GCCGATAGCGTATCGGCTGTAATTGACGA 15 10 0 GGTCGGCTGT 0.758492 -20 TAATTGGTCGGCGCGTTGGTGCCTGACTAGCCC 17 179 1 GGCTGGTGCC 0.791729 -122 ACCCTCGCCAGCTCAGCTGCTGCACGAGGGTCG 17 227 0 GTCCTGCTGC 0.783187 -74 TCGTGGCCACGCGGTGCTTCGCCTTTTTGCCCA 18 83 0 GGGCTTCGCC 0.960039 -218 CTGGCCGGGCGATGATCTGCAGCGTCGCCGCGG 18 242 1 GTGCTGCAGC 0.558416 -59 CCCGGGCGGCGACTACCCGCGGCGACGCTGCAG 18 258 0 GCTCCGCGGC 0.879173 -43 TAGGGGGCGCGCCGGCCTGCGCTGACTCTGCGT 19 50 1 GCGCTGCGCT 0.815211 -207 GTCCGAGGAGGAGCACCCGCTGCACATGAAGCA 19 139 0 GGCCCGCTGC 0.970374 -118 * ** ******* Masking position 1 Map Score: 44.8347 Number of sites scoring better than the average of aligned sites = 43225 Number in coding regions = 40199 Number in noncoding regions = 3026 Number of orfs with sites within 600 bp upstream = 1242 Fraction of orfs with sites within 600 bp upstream = 0.199486 Motif number 3 TTGCGTCGGTCCCTCCGAATGGC 1 3 1 GCGTCGTCCC 0.427801 -194 GTCGGTCCCTCCGAATGGCCGGGCGACGGTG 1 15 1 CCGAAGGCCG 0.934795 -182 GAATGGCCGGGCGACGGTGCCCGTCGTCGAG 1 27 1 GCGACGTGCC 0.557377 -170 TAGCGCGGCCCCGGAGGTTCCCGGGCCACCC 1 160 1 CCGGAGTTCC 0.444296 -37 TTTCGGGTTGGCGAGTATCTCTGGAGATGGC 2 17 0 GCGAGATCTC 0.652687 -131 CCACATCGCGGCGCAAGGTCGGCTGCCTGCC 3 12 0 GCGCAGGTCG 0.664737 -289 GCGGCGCTGGGCGACAATCCCCGTAGAATCA 3 47 1 GCGACATCCC 0.933991 -254 CAGCCTCAAGTCGAGCGGCCGCGCATCGGCG 3 166 1 TCGAGGGCCG 0.82038 -135 GTGCTGGGGCCTGGGGAGACGACGCGCAAA 3 281 1 CTGGGAGACG 0.339461 -20 ATTTCTGTTTGTGAGGAGACGTCGACC 4 7 0 GTGAGAGACG 0.837399 -64 AATCCTTCGGGCGAAGGTACCCGAAGGTTGT 4 35 1 GCGAAGTACC 0.930998 -36 CCACCGCGAAAAGACGCAAAAGCTCC 8 6 1 GCGAAAGACG 0.958682 -84 TCCGGGGTGCGCGAGCAGACGCAAAAGCTCC 8 55 0 GCGAGAGACG 0.974052 -35 CGCGCGCACCGCGAAAGGAACAACG 9 67 1 GCGAAGGAAC 0.683406 -15 GGGCGCAGATCCCCCGCGACACG 10 3 1 GCGCAATCCC 0.764837 -256 CGATGCGTTCGCGATCGGTCCGGACTCTTCA 10 38 1 GCGATGGTCC 0.628035 -221 GCCCCCAAATGTGAAGAGTCCGGACCGATCG 10 49 0 GTGAAAGTCC 0.70484 -210 CAGTGTTGCGGCGAGCGGAAGCTTTGGTGCG 10 96 1 GCGAGGGAAG 0.734358 -163 TGATCGCGAGCTGAGGAGACGGT 10 246 1 CTGAGAGACG 0.614903 -13 ATTAACTGAGGTGAGAATACCATTGCCCCCG 11 28 0 GTGAGATACC 0.738651 -55 CGCGTTAACATCGAATAGCTCGTGCTACGTT 12 60 0 TCGAAAGCTC 0.14034 -56 CGTCGAGTTCGCGAGCGTAACGCCACCGCGA 17 16 1 GCGAGGTAAC 0.602718 -285 TAACGCCACCGCGAAAATTCGCATGGGATTT 17 33 1 GCGAAATTCG 0.856842 -268 ATGGACAAGGCCGGAAAGCCCGGGATGCTCG 17 145 1 CCGGAAGCCC 0.846184 -156 ACCAATTACTACGAGCATCCCGGGCTTTCCG 17 156 0 ACGAGATCCC 0.702871 -145 GCGTTGGTGCCTGACTAGCCCAAGCGAGCAC 17 191 1 CTGACAGCCC 0.581105 -110 GGGCCTTCCCGCGAGAAGCCCTAGCCGCCCG 18 135 0 GCGAGAGCCC 0.988911 -166 GCGGGAAGGCCCGAACGTACGGCGTTTCAAC 18 154 1 CCGAAGTACG 0.768051 -147 CGGTCGGAGGGCGACGCGACGTGTTGAAACG 18 176 0 GCGACCGACG 0.567574 -125 CCCTCCGACCGCGAACATTCGGGGATGGCAG 18 196 1 GCGAAATTCG 0.856842 -105 CAGCGTCGCCGCGGGTAGTCGCCGCCCGGGC 18 261 1 GCGGGAGTCG 0.877669 -40 ACGGGAATGTGCGAGTAGCCCACACGGTGGA 19 88 1 GCGAGAGCCC 0.988911 -169 ACGTCCCGCGACGGGAAGCCGGTCTGGATCA 19 186 0 ACGGGAGCCG 0.581118 -71 CCGGCGCATCGCGAACGTCCCGCGACGGGAA 19 200 0 GCGAAGTCCC 0.962077 -57 ***** ***** Masking position 3 Map Score: 30.9988 Number of sites scoring better than the average of aligned sites = 15932 Number in coding regions = 14489 Number in noncoding regions = 1443 Number of orfs with sites within 600 bp upstream = 919 Fraction of orfs with sites within 600 bp upstream = 0.147607 Motif number 4 GGCCGGGCGACGGTGCCCGTCGTCGAGGCT 1 31 1 CGGTGCCCGT 0.86226 -166 AACCGTGCCGCGGCGAGCGCATCCTTGGGC 2 114 1 CGGCGAGCGC 0.922113 -34 GGATTTGCGGCGCTGGGCGACAATCCCCGT 3 41 1 CGCTGGGCGA 0.960451 -260 GAAGGCTCCCCGGTGATCGCCGGATCGATG 3 87 0 CGGTGATCGC 0.911085 -214 GACGCCACGCCGGTGCGCGAACGCCGCGGT 3 213 0 CGGTGCGCGA 0.982214 -88 TTCTAGGAACCGCTTCACACCGGCATGAAA 7 31 0 CGCTTCACAC 0.409367 -57 GGGTGAGGGCTGGCGGTCACCGATCAATTC 7 58 0 TGGCGGTCAC 0.807572 -30 CGCTACTCCGGGGTGCGCGAGCAGACGCAA 8 62 0 GGGTGCGCGA 0.796635 -28 GTTCCTTTCGCGGTGCGCGCGCGCCAAAGC 9 58 0 CGGTGCGCGC 0.995694 -24 CGAAGTTGATCGCCGGCCGCACCAAAGCTT 10 114 0 CGCCGGCCGC 0.905495 -145 CCTGGGAAACCGCTGCGAGCCGAAGTTGAT 10 134 0 CGCTGCGAGC 0.78614 -125 GCTGGTGGTGCGGCGCTCACAGCACATCCC 10 165 0 CGGCGCTCAC 0.935614 -94 ACACGACTCATGCTGGACACTTCGGTTAAT 12 23 1 TGCTGGACAC 0.840826 -93 GTCAGACATGCGGTAGGCACCAGGCGGAGG 12 92 1 CGGTAGGCAC 0.842662 -24 GTTCGCGACTCGCTGGTCATCTCAAAATAC 14 30 0 CGCTGGTCAT 0.644917 -42 TCGTAGTAATTGGTCGGCGCGTTGGTGCCT 17 173 1 TGGTCGGCGC 0.790331 -128 AGGGTCGCGTTGGTGCTCGCTTGGGCTAGT 17 204 0 TGGTGCTCGC 0.965153 -97 CCAGCTCAGCTGCTGCACGAGGGTCGCGTT 17 223 0 TGCTGCACGA 0.785348 -78 GAAGTCTCGTTGGTGGACAAGAAAAAACCC 17 256 0 TGGTGGACAA 0.725731 -45 ATTACACGGGTGGTACTCACGAGAAAGCTT 18 47 0 TGGTACTCAC 0.410587 -254 TGTTCGCGGTCGGAGGGCGACGCGACGTGT 18 183 0 CGGAGGGCGA 0.775681 -118 CAGCGCAGGCCGGCGCGCCCCCTATTCTGG 19 44 0 CGGCGCGCCC 0.88268 -213 CACATTCCCGTGGTGGACGCAGAGTCAGCG 19 69 0 TGGTGGACGC 0.967172 -188 GTAGCCCACACGGTGGACGCAGAGTCAACG 19 102 1 CGGTGGACGC 0.989451 -155 GAGGAGCACCCGCTGCACATGAAGCACTTT 19 135 0 CGCTGCACAT 0.696244 -122 ********** Masking position 2 Map Score: 29.0136 Number of sites scoring better than the average of aligned sites = 20632 Number in coding regions = 19323 Number in noncoding regions = 1309 Number of orfs with sites within 600 bp upstream = 813 Fraction of orfs with sites within 600 bp upstream = 0.130581 Motif number 5 CGAATGGCCGGGCGACGGTGCCCGTCGTCGAG 1 26 1 GGCAGGTGCC 0.875173 -171 AACCCGTGGCCGGTAGCGCGGCCCCGGAGGTT 1 147 1 CGGACGCGGC 0.737445 -50 AAGATATGATGGGTAGCATGCCTGGGCCCTGC 2 48 0 GGGACATGCC 0.857919 -100 CCTAGAATTTGGCAACCGTGCCGCGGCGAGCG 2 101 1 GGCACGTGCC 0.89259 -47 GGCGCAAGGTCGGCTGCCTGCCC 3 2 0 CGGTCCTGCC 0.958925 -299 TGATTCTACGGGGATTGTCGCCCAGCGCCGCA 3 46 0 GGGTGTCGCC 0.859521 -255 CGGTGATCGCCGGATCGATGCCGTTCCCCTGA 3 75 0 CGGTGATGCC 0.839721 -226 CGAGCGGCCGCGCATCGGCGTGGCAAGCGGGG 3 177 1 CGCTGGCGTG 0.536924 -124 GTGGTACCGCGGCGTTCGCGCACCGGCGTGGC 3 208 1 GGCTCGCGCA 0.863184 -93 ATCCAGGCTCGGGGACGACGCCACGCCGGTGC 3 227 0 GGGAGACGCC 0.711833 -74 AAATCCTTCGGGCGAAGGTACCCGAAGGTTGT 4 34 1 GGCAGGTACC 0.585436 -37 CGAAGGTTGTCGATAGGCTGCCGAT 4 56 1 CGAAGCTGCC 0.47383 -15 GCAGCGGAGTGGCCTCCGGGCCGTCAATAACC 5 25 1 GGCTCGGGCC 0.904623 -47 CGGTTTCGGGCGCTTTCATGCCGGTGTGAAGC 7 18 1 CGCTCATGCC 0.928581 -70 GGGTTTGACGCTACTCCGGGGT 8 78 0 GGGTGACGCT 0.528798 -12 CCACGGGCATGGGTTAGCTGCCAGGTGCATTC 9 22 0 GGGTGCTGCC 0.969973 -60 CCCGTGGGTTGGCTTTGGCGCGCGCGCACCGC 9 47 1 GGCTGGCGCG 0.937841 -35 CGTGTCGCGGGGGATCTGCGCCC 10 2 0 GGGTTGCGCC 0.783583 -257 GCGAACGCATCGCAACCGTGTCGCGGGGGATC 10 18 0 CGCACGTGTC 0.803701 -241 GATCACAACGCGGTTACGCGTCAGAAGATGCC 10 219 0 CGGTCGCGTC 0.854331 -40 AGTCTTGATCCGCGAGCGTGACGGCACTGCGA 17 63 0 CGCACGTGAC 0.554825 -238 GAGCATCCCGGGCTTTCCGGCCTTGTCCATAG 17 143 0 GGCTCCGGCC 0.900744 -158 AATTGGTCGGCGCGTTGGTGCCTGACTAGCCC 17 180 1 CGCTGGTGCC 0.986848 -121 GCACGAGGGTCGCGTTGGTGCTCGCTTGGGCT 17 207 0 CGCTGGTGCT 0.857351 -94 TGTCCCTCCCGGCGTTCGTGGCCACGCGGTGC 18 99 0 GGCTCGTGGC 0.881345 -202 CCCGCGAGAAGCCCTAGCCGCCCGAGATTGTC 18 127 0 GCCTGCCGCC 0.697522 -174 CGTACGTTCGGGCCTTCCCGCGAGAAGCCCTA 18 143 0 GGCTCCCGCG 0.875424 -158 AGGGTGCTACCAGGTTGCTGCCATCCCCGAAT 18 212 0 CAGTGCTGCC 0.389786 -89 ATCATCGCCCGGCCAGGGTGCTACCAGGTTGC 18 226 0 GGCAGGTGCT 0.814178 -75 GACTACCCGCGGCGACGCTGCAGATCATCGCC 18 249 0 GGCAGCTGCA 0.602144 -52 AGCGTCGCCGCGGGTAGTCGCCGCCCGGGCGG 18 262 1 CGGTGTCGCC 0.830792 -39 AGTCAGCGCAGGCCGGCGCGCCCCCTATTCTG 19 45 0 GGCGCGCGCC 0.819301 -212 TGATCCAGACCGGCTTCCCGTCGCGGGACGTT 19 186 1 CGGTCCCGTC 0.74767 -71 ACCGGCGCATCGCGAACGTCCCGCGACGGGAA 19 200 0 CGCACGTCCC 0.609148 -57 *** * ****** Masking position 10 Map Score: 46.2248 Number of sites scoring better than the average of aligned sites = 21666 Number in coding regions = 20110 Number in noncoding regions = 1556 Number of orfs with sites within 600 bp upstream = 901 Fraction of orfs with sites within 600 bp upstream = 0.144716 Motif number 6 CTGGTTACATTCAGCCTCGACGACGGGCACC 1 42 0 TCGCCTCGAC 0.869322 -155 CCCGGGAACCTCCGGGGCCGCGCTACCGGCC 1 154 0 TCGGGGCCGC 0.902865 -43 CAAGGATGCGCTCGCCGCGGCACGGTTGCCA 2 110 0 CTGCCGCGGC 0.73817 -38 GCCACGCCGATGCGCGGCCGCTCGACTTGAG 3 170 0 TGGCGGCCGC 0.97589 -131 GGGTGGTACCGCGGCGTTCGCGCACCGGCGT 3 206 1 GCGCGTTCGC 0.6115 -95 TTTGCGCGTCGTCTCCCCAGGCC 3 288 0 TGGCGTCGTC 0.467622 -13 CGGAGGCCACTCCGCTGCCACCAAGTGGTGA 5 12 0 TCGCTGCCAC 0.902229 -60 TATTGACGGCCCGGAGGCCACTCCGCTGCCA 5 23 0 CCGAGGCCAC 0.599463 -49 TAGGAACCGCTTCACACCGGCATGAAAGCGC 7 27 0 TTACACCGGC 0.116324 -61 CTAGAATTGATCGGTGACCGCCAGCCCTCAC 7 55 1 TCGTGACCGC 0.427559 -33 TTTGGGAGCTTTTGCGTCTGCTCGCGCACCC 8 51 1 TTGCGTCTGC 0.659164 -39 TGGGTTGGCTTTGGCGCGCGCGCACCGCGAA 9 51 1 TTGCGCGCGC 0.605608 -31 GGGCGCAGATCCCCCGCGACACGGTTGCGA 10 10 1 TCCCCGCGAC 0.622955 -249 CCGAAGTTGATCGCCGGCCGCACCAAAGCTT 10 114 0 TCCCGGCCGC 0.953581 -145 CGGCCGGCGATCAACTTCGGCTCGCAGCGGT 10 125 1 TCACTTCGGC 0.34627 -134 CGCTGGTGGTGCGGCGCTCACAGCACATCCC 10 165 0 GCGCGCTCAC 0.478648 -94 CGTTCCATCCTTAGCGTCGGCGCTGGTGGTG 10 185 0 TTGCGTCGGC 0.94732 -74 TGAGAATACCATTGCCCCCGCGGTGCGTCTA 11 17 0 ATGCCCCCGC 0.291804 -66 AAGGAGAGATTCAGCGGTGGCACTAGAG 16 20 1 TCGCGGTGGC 0.965909 -18 GCTCGCGAACTCGACGCCCAC 17 1 0 TCACGCCCAC 0.785032 -300 CATGCGAATTTTCGCGGTGGCGTTACGCTCG 17 27 0 TTGCGGTGGC 0.877281 -274 AGCAGTCAAATCCGCGGTGTCAGTCTTGATC 17 85 0 TCGCGGTGTC 0.690443 -216 CCTCGCCAGCTCAGCTGCTGCACGAGGGTCG 17 227 0 TCGCTGCTGC 0.685494 -74 GGATCATAATTCAGCACCCGCCCAATACGTC 18 15 1 TCGCACCCGC 0.892036 -286 CCTCCCGGCGTTCGTGGCCACGCGGTGCTTC 18 96 0 TTGTGGCCAC 0.575923 -205 GCGGCGACTACCCGCGGCGACGCTGCAGATC 18 255 0 CCGCGGCGAC 0.947009 -46 TGTAGCCGCCCGGGCGGCGACTACCCGCGGC 18 268 0 CGGCGGCGAC 0.782813 -33 GGACGCAGAGTCAGCGCAGGCCGGCGCGCCC 19 54 0 TCGCGCAGGC 0.769937 -203 CTGCGCTGACTCTGCGTCCACCACGGGAATG 19 66 1 TCGCGTCCAC 0.97093 -191 ACACGTTGACTCTGCGTCCACCGTGTGGGCT 19 104 0 TCGCGTCCAC 0.97093 -153 GTGCTCCTCCTCGGACGCCGCGACGGGGTCT 19 156 1 TCGACGCCGC 0.724254 -101 ** ******** Masking position 11 Map Score: 26.1858 Number of sites scoring better than the average of aligned sites = 39977 Number in coding regions = 37769 Number in noncoding regions = 2208 Number of orfs with sites within 600 bp upstream = 945 Fraction of orfs with sites within 600 bp upstream = 0.151783 Motif number 7 GGCCGGGCGACGGTGCCCGTCGTCGAGGCTG 1 31 1 CGGTGCCCGC 0.937017 -166 CATTTCAAGCCTGTGCACTGCCATGGAGCGC 1 72 0 CTGTGCACTC 0.6248 -125 AAGGGTGGCCCGGGAACCTCCGGGGCCGCGC 1 162 0 CGGGAACCTC 0.945751 -35 GCGAGTATCTCTGGAGATGGCGAGTAA 2 7 0 CTGGAGATGC 0.602094 -141 GGTAGCATGCCTGGGCCCTGCTTTCGGGTTG 2 38 0 CTGGGCCCTC 0.980592 -110 GGCGCAAGGTCGGCTGCCTGCCC 3 3 0 CGGCTGCCTC 0.78153 -298 GGCGATCACCGGGGAGCCTTCGGAAGAACGG 3 96 1 GGGGAGCCTC 0.851382 -205 TTCGGTTCTACTGGGCCTAACCGGCCGTTCT 3 120 0 CTGGGCCTAC 0.552244 -181 CCGAACGGTGCTGGGGCCTGGGGAGACGACG 3 274 1 CTGGGGCCTG 0.844752 -27 CGACAACCTTCGGGTACCTTCGCCCGAAGGA 4 37 0 CGGGTACCTC 0.887565 -34 CGGGCGGTTTCGGGCGCTTTCATGCCGGTGT 7 14 1 CGGGCGCTTC 0.934639 -74 TAGAATTGATCGGTGACCGCCAGCCCTCACC 7 56 1 CGGTGACCGC 0.829812 -32 CGCCGCAACACTGGCGCTTCCTCCATTATGC 10 78 0 CTGGCGCTTC 0.907685 -181 ACGACTCATGCTGGACACTTCGGTTAATCGT 12 25 1 CTGGACACTC 0.830073 -91 GTTCCTCCGCCTGGTGCCTACCGCATGTCTG 12 94 0 CTGGTGCCTC 0.964612 -22 TAGTGTCCGACGGTAGCCTTCACACAGCTCA 17 115 0 CGGTAGCCTC 0.955765 -186 TGTAGCCGCCCGGGCGGCGACTACCCGCGGC 18 268 0 CGGGCGGCGC 0.80029 -33 GCGTTTCAGACTGTAGCCGCCCGGGCGGCGA 18 279 0 CTGTAGCCGC 0.924178 -22 GCCCCCTATTCTGGACCTGTCTCCAATCTTC 19 27 0 CTGGACCTGC 0.873134 -230 ********* * Masking position 3 Map Score: 20.333 Number of sites scoring better than the average of aligned sites = 9129 Number in coding regions = 8570 Number in noncoding regions = 559 Number of orfs with sites within 600 bp upstream = 432 Fraction of orfs with sites within 600 bp upstream = 0.0693864 Motif number 8 TCCACATCGCGGCGCAAGGTCGGCTGCCTGC 3 13 0 GGCGCAAGGC 0.879233 -288 GTCGCCCAGCGCCGCAAATCCACATCGCGGC 3 31 0 GCCGCAAATC 0.949801 -270 GCTCGGGGACGACGCCACGCCGGTGCGCGAA 3 222 0 GACGCCACGC 0.93649 -79 ACCGCGAAAAGACGCAAAAGCTCCCAAATCC 8 13 1 GACGCAAAAC 0.958309 -77 TGCGCGAGCAGACGCAAAAGCTCCCAAATCC 8 48 0 GACGCAAAAC 0.958309 -42 GGGTTTGACGCTACTCCGGGGTGCGCG 8 73 0 GACGCTACTC 0.801296 -17 GGGCGCAGATCCCCCGCGACAC 10 2 1 GGCGCAGATC 0.921783 -257 CACCAGCGCCGACGCTAAGGATGGAACGCAC 10 188 1 GACGCTAAGA 0.667719 -71 ACCGCAGAGCCTCCTAGCATT 11 72 0 ACCGCAGAGC 0.913627 -11 CTCTAGTGCCACCGCTGAATCTCTCCTTACC 16 17 0 ACCGCTGAAC 0.487099 -21 TATGGACAAGGCCGGAAAGCCCGGGATGCTC 17 144 1 GCCGGAAAGC 0.873284 -157 TCCCGTGGTGGACGCAGAGTCAGCGCAGGCC 19 63 0 GACGCAGAGC 0.81716 -194 CCACACGGTGGACGCAGAGTCAACGTGTAAA 19 107 1 GACGCAGAGC 0.81716 -150 CTCCTCCTCGGACGCCGCGACGGGGTCTGAT 19 159 1 GACGCCGCGC 0.897147 -98 ********* * Masking position 3 Map Score: 15.8144 Number of sites scoring better than the average of aligned sites = 4351 Number in coding regions = 3939 Number in noncoding regions = 412 Number of orfs with sites within 600 bp upstream = 280 Fraction of orfs with sites within 600 bp upstream = 0.0449727 Motif number 9 CGGCCCAAGGATGCGCTCGCCGCGGCACGG 2 116 0 ATGCGCTCGC 0.890281 -32 GATCACCGGGGAGCCTTCGGAAGAACGGCC 3 99 1 GAGCCTTCGG 0.589443 -202 TGACGGGCCAACCCGTTCGGTTCTACTGGG 3 136 0 ACCCGTTCGG 0.971455 -165 CAGGCCCCAGCACCGTTCGGCACTGCGTGC 3 264 0 CACCGTTCGG 0.806548 -37 CACAAACAGAAATCCTTCGGGCGAAGGTAC 4 25 1 AATCCTTCGG 0.71571 -46 GGCCGTCAATAACCGTTCGCCCACGGATAG 5 43 1 AACCGTTCGC 0.944397 -29 GATCACCCGAACTCGGTCGGGTTCGCTTGC 6 23 0 ACTCGGTCGG 0.946382 -29 ATCCGGGCGGTTTCGGGCGC 7 1 1 ATCCGGGCGG 0.893153 -87 AAGCTCCCAAATCCGGTCGGATTTGGGAGC 8 30 1 ATCCGGTCGG 0.986759 -60 CACGGTTGCGATGCGTTCGCGATCGGTCCG 10 30 1 ATGCGTTCGC 0.949676 -229 GCACCAAAGCTTCCGCTCGCCGCAACACTG 10 96 0 TTCCGCTCGC 0.774926 -163 CGAGTCAGACATGCGGTAGGCACCAGGCGG 12 89 1 ATGCGGTAGG 0.68807 -27 GCCTCTATTCATTCGTTCGCGACTCGCTGG 14 44 0 ATTCGTTCGC 0.905705 -28 TGCTCGTAGTAATTGGTCGGCGCGTTGGTG 17 170 1 AATTGGTCGG 0.390377 -131 TTGAAACGCCGTACGTTCGGGCCTTCCCGC 18 154 0 GTACGTTCGG 0.568748 -147 CCCCGAATGTTCGCGGTCGGAGGGCGACGC 18 190 0 TCGCGGTCGG 0.903136 -111 TCTGGATCAGACCCCGTCGCGGCGTCCGAG 19 165 0 ACCCCGTCGC 0.912146 -92 CCAGACCGGCTTCCCGTCGCGGGACGTTCG 19 190 1 TTCCCGTCGC 0.791751 -67 ********** Masking position 9 Map Score: 15.7834 Number of sites scoring better than the average of aligned sites = 5930 Number in coding regions = 5530 Number in noncoding regions = 400 Number of orfs with sites within 600 bp upstream = 350 Fraction of orfs with sites within 600 bp upstream = 0.0562159 Motif number 10 AACGGAACCGAGACCAACCCGTGGCCGGTA 1 132 1 AGACCAACCC 0.849109 -65 TGCCGCGGCGAGCGCATCCTTGGGCCGCAT 2 119 1 AGCGCATCCT 0.862458 -29 AACTCAAACAGCGCAAGCGAACCCGACCG 6 10 1 AGCGCAAGCG 0.975017 -42 CCTGGCAGCTAACCCATGCCCGTGGGTTGG 9 29 1 AACCCATGCC 0.893054 -53 TCGCGAACGCATCGCAACCGTGTCGCGGGG 10 22 0 ATCGCAACCG 0.84978 -237 CGGCGCTCACAGCACATCCCGCCTGGGAAA 10 155 0 AGCACATCCC 0.902569 -104 GCACTGCGAAATCCCATGCGAATTTTCGCG 17 42 0 ATCCCATGCG 0.90882 -259 GTGCCTGACTAGCCCAAGCGAGCACCAACG 17 197 1 AGCCCAAGCG 0.98295 -104 TTCGCCTTTTTGCCCATCCCAAATTACACG 18 69 0 TGCCCATCCC 0.90074 -232 TCCCGCGAGAAGCCCTAGCCGCCCGAGATT 18 130 0 AGCCCTAGCC 0.915417 -171 ACGCAGAGTCAGCGCAGGCCGGCGCGCCCC 19 53 0 AGCGCAGGCC 0.954705 -204 ********** Masking position 5 Map Score: 8.49031 Number of sites scoring better than the average of aligned sites = 1172 Number in coding regions = 1070 Number in noncoding regions = 102 Number of orfs with sites within 600 bp upstream = 89 Fraction of orfs with sites within 600 bp upstream = 0.0142949 Motif number 11 CTCTGATCGTGGTGCAACGGAACCGAGACC 1 117 1 GGTGCAACGG 0.916542 -80 GGCAGCCGACCTTGCGCCGCGATGTGGATT 3 16 1 CTTGCGCCGC 0.961218 -285 TACCACCCCGCTTGCCACGCCGATGCGCGG 3 184 0 CTTGCCACGC 0.68585 -117 CCGCGGCGTTCGCGCACCGGCGTGGCGTCG 3 214 1 CGCGCACCGG 0.938849 -87 ACCGAGTTCGGGTGATCCGCGAGGGT 6 36 1 GGTGATCCGC 0.947573 -16 CTTTGGCGCGCGCGCACCGCGAAAGGAACA 9 59 1 CGCGCACCGC 0.978102 -23 CGGCGCTGGTGGTGCGGCGCTCACAGCACA 10 169 0 GGTGCGGCGC 0.911089 -90 TCGAATAGCTCGTGCTACGTTAGTGACGAT 12 51 0 CGTGCTACGT 0.704525 -65 GGTTCCTCCGCCTGGTGCCTA 12 105 0 GTTCCTCCGC 0.919225 -11 CTCTAGTGCCACCGCTGAATCTCTC 16 23 0 GTGCCACCGC 0.624068 -15 CGGTGTCAGTCTTGATCCGCGAGCGTGACG 17 72 0 CTTGATCCGC 0.823015 -229 GTGGCCACGCGGTGCTTCGCCTTTTTGCCC 18 84 0 GGTGCTTCGC 0.944825 -217 GACGCGACGTGTTGAAACGCCGTACGTTCG 18 165 0 GTTGAAACGC 0.630793 -136 CAGAATAGGGGGCGCGCCGGCCTGCGCTGA 19 45 1 GGCGCGCCGG 0.944467 -212 GTTGACTCTGCGTCCACCGTGTGGGCTACT 19 101 0 CGTCCACCGT 0.679604 -156 ATGTGCAGCGGGTGCTCCTCCTCGGACGCC 19 145 1 GGTGCTCCTC 0.863414 -112 ACCTCAGACCGGCGCATCGCGAACGTCCCG 19 209 0 GGCGCATCGC 0.897911 -48 GGTAGTTGCTCCGGGATGGTGAGA 19 243 0 GTTGCTCCGG 0.949046 -14 ********** Masking position 8 Map Score: 17.9497 Number of sites scoring better than the average of aligned sites = 9869 Number in coding regions = 9128 Number in noncoding regions = 741 Number of orfs with sites within 600 bp upstream = 529 Fraction of orfs with sites within 600 bp upstream = 0.0849663 Motif number 12 CGGTCCCTCCGAATGGCCGGGCGACGGTGC 1 17 1 GAATGGCCGG 0.899469 -180 GGTGGCCCGGGAACCTCCGGGGCCGCGCTA 1 160 0 GAACCTCCGG 0.739246 -37 TCGCCAACCCGAAAGCAGGGCCCAGGCATG 2 34 1 GAAAGCAGGG 0.874168 -114 ATGATGGGTAGCATGCCTGGGCCCTGCTTT 2 45 0 GCATGCCTGG 0.677954 -103 ACATCGCGGCGCAAGGTCGGCTGCCTGCCC 3 11 0 GCAAGGTCGG 0.469395 -290 GCCTTCGGAAGAACGGCCGGTTAGGCCCAG 3 111 1 GAACGGCCGG 0.984709 -190 CATCGGCGTGGCAAGCGGGGTGGTACCGCG 3 189 1 GCAAGCGGGG 0.515307 -112 GCCGGTGCGCGAACGCCGCGGTACCACCCC 3 205 0 GAACGCCGCG 0.950861 -96 AACGGTTATTGACGGCCCGGAGGCCACTCC 5 30 0 GACGGCCCGG 0.870245 -42 AAGCGCCCGAAACCGCCCGGAT 7 3 0 AACCGCCCGG 0.740136 -85 GACCGATCGCGAACGCATCGCAACCGTGTC 10 28 0 GAACGCATCG 0.688642 -231 GCTAAGGATGGAACGCACGGCATCTTCTGA 10 201 1 GAACGCACGG 0.983077 -58 GACAAGGCCGGAAAGCCCGGGATGCTCGTA 17 148 1 GAAAGCCCGG 0.987436 -153 GTACTCACGAGAAAGCTTGGACGTATTGGG 18 35 0 GAAAGCTTGG 0.64321 -266 GCGTGGCCACGAACGCCGGGAGGGACAATC 18 104 1 GAACGCCGGG 0.989263 -197 GGGAAGGCCCGAACGTACGGCGTTTCAACA 18 156 1 GAACGTACGG 0.90626 -145 CGCTGCAGATCATCGCCCGGCCAGGGTGCT 18 236 0 CATCGCCCGG 0.607478 -65 GGCGCATCGCGAACGTCCCGCGACGGGAAG 19 199 0 GAACGTCCCG 0.895838 -58 ********** Masking position 10 Map Score: 19.4876 Number of sites scoring better than the average of aligned sites = 4666 Number in coding regions = 4280 Number in noncoding regions = 386 Number of orfs with sites within 600 bp upstream = 331 Fraction of orfs with sites within 600 bp upstream = 0.0531642 Motif number 13 ********** No masking Map Score: 2.34722e-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: 2.34722e-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 15 ********** No masking Map Score: 2.34722e-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