AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i294_bsub_mtub_100.orf -o294_bsub_mtub_100.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: yqfA 21 yqfA kasB 30 kasB Input sequences: #1 yhfB 125 similar to 3-oxoacyl- acyl-carrier protein synthase #2 yjaX 164 similar to 3-oxoacyl- acyl-carrier protein synthase #3 yjaY 22 similar to 3-oxoacyl- acyl-carrier protein synthase #4 ylpC 108 ylpC #5 acpA 83 acyl carrier protein #6 rncS 139 ribonuclease III #7 rpsB 143 ribosomal protein S2 #8 tsf 101 elongation factor Ts #9 smbA 145 uridylate kinase #10 yluA 130 similar to hypothetical proteins #11 yluB 61 similar to hypothetical proteins #12 cdd 118 cytidine/deoxycytidine deaminase #13 yqfF 78 yqfF #14 yqfC 56 yqfC #15 yqfB 24 yqfB #16 yqeZ 130 yqeZ #17 yrkA 300 similar to hemolysin-like #18 yttI 300 similar to acetyl-CoA carboxylase #19 ywpB 191 similar to hydroxymyristoyl-(acyl carrier protein) dehydratase #20 fadD30 300 fadD30 #21 fabH 81 fabH #22 accD3 26 accD3 #23 fabG2 128 fabG2 #24 fabD 238 fabD #25 acpM 75 acpM #26 Rv2362c 61 hypothetical protein Rv2362c #27 bex 73 bex #28 Rv2370c 194 hypothetical protein Rv2370c #29 Rv2870c 57 hypothetical protein Rv2870c #30 cdsA 22 cdsA #31 frr 171 frr #32 pyrH 234 pyrH #33 rpsB 283 rpsB #34 Rv2926c 50 hypothetical protein Rv2926c #35 Rv2927c 238 hypothetical protein Rv2927c #36 echA20 54 echA20 #37 Rv3553 97 hypothetical protein Rv3553 Motif number 1 TGATGCTAAAAGTCCCGCCGAAACGCGGGG 6 13 1 AGTCCCGCCG 0.718352 -127 TGCCGCTTTTACGCGCGCTGTATCCGGTTT 6 76 1 ACGCGCGCTG 0.803616 -64 TTAGTCAGAGAAGCGCGGTGAACCTGATGT 6 104 1 AAGCGCGGTG 0.667762 -36 TTCGTCCTCACGCGGCGGCTTGTTGAAG 20 9 0 CGCGGCGGCT 0.349253 -292 AACTGCCCCAACGAGTGGCGTCTCCCCGGT 20 43 0 ACGAGTGGCG 0.528274 -258 TCGAATTTCCCGTCGGGCCGCTCATGTTTC 20 218 0 CGTCGGGCCG 0.476963 -83 GACAGCTCGGCGGCCTGGTGGCCAGGATCG 20 254 1 CGGCCTGGTG 0.940784 -47 TGGGAGTGGCGATCCCTTACC 20 290 0 GGGAGTGGCG 0.910164 -11 CGGGCTCCGTCGGCGTGTCGTCGCCGTAGG 21 31 1 CGGCGTGTCG 0.785575 -51 GCTATCTGCGTGGCGCGGTGGTTTCTCGCG 23 11 0 TGGCGCGGTG 0.947899 -118 ATTTTGCACCGTCGGCGGCGAAGCTCTTCT 23 98 0 GTCGGCGGCG 0.896314 -31 TGGACCCCCTCTGACCGGCGAGGGAATCTA 24 35 0 CTGACCGGCG 0.728329 -204 TCTTTCCGGGGCCCCTGCTGGACCCCCTCT 24 53 0 GCCCCTGCTG 0.561505 -186 GAAAGATACCAGGGGCGCCGTCGGACGGAA 24 77 1 AGGGGCGCCG 0.937839 -162 GAAGACGGTTTTGCGCGGTGTAACAGATTA 24 200 0 TTGCGCGGTG 0.768404 -39 CATCGCGGGTATCCGCGCCGATAGTCTCGT 26 16 0 ATCCGCGCCG 0.823381 -46 CGCGATGTCGTGGCGGGGTGCAAAACTATT 26 39 1 TGGCGGGGTG 0.874351 -23 AGCGGGCCGTGCGCCTGCCGAGTCGTCGAC 28 33 0 GCGCCTGCCG 0.832137 -162 GGCAGGCGCACGGCCCGCTGCCGCCGCGGT 28 44 1 CGGCCCGCTG 0.633033 -151 GGCCCGCTGCCGCCGCGGTGGGTAACCGTT 28 55 1 CGCCGCGGTG 0.534212 -140 GACGTTTAGCCGGTGTGGCGCGTTCGGGAT 28 95 0 CGGTGTGGCG 0.802069 -100 TTACTCCTTCAGCCGTGGTGGACGTTTAGC 28 115 0 AGCCGTGGTG 0.914484 -80 CGCGCTGCTTCGCGCCGGCGACGATGCAGA 31 19 1 CGCGCCGGCG 0.847041 -153 AGCGATGAGGAGGAGCGGCGCAGATGGTTG 31 53 1 AGGAGCGGCG 0.938317 -119 GCAGATGGTTGGCGCCGGCGACGATGCAGA 31 72 1 GGCGCCGGCG 0.975495 -100 AGCGATGAGGAGGAGCGGCGCAGATGGTTG 31 106 1 AGGAGCGGCG 0.938317 -66 GCAGATGGTTGGCGCCGGCGACGATGCAGA 31 125 1 GGCGCCGGCG 0.975495 -47 AGCGATGAGGAGGAGCGGCGCAG 31 159 1 AGGAGCGGCG 0.938317 -13 GGCCGAGGCCAGGCCCGTCGACTATCTCAA 32 98 0 AGGCCCGTCG 0.845379 -137 CAACAACGAGGGGCCGGCCGAGGCCAGGCC 32 113 0 GGGCCGGCCG 0.900389 -122 GCTCCGGCGTGGGCGGGGTGCGTTAGTCAC 32 144 0 GGGCGGGGTG 0.964288 -91 TCAATAGCCGCGCTCCGGCGTGGGCGGGGT 32 155 0 CGCTCCGGCG 0.755162 -80 TGTGAGATGCCGTCCTGGTGGTGCCGGGAT 32 192 1 CGTCCTGGTG 0.55411 -43 CCACAAAACGGGCGGCGGCGA 33 2 0 GGCGGCGGCG 0.980666 -282 CGCCGATGCGAGCTGCGCCGAGTAGTTTAC 33 85 0 AGCTGCGCCG 0.680225 -199 CAGCTCGCATCGGCGGGCTGACTTCGCGTG 33 100 1 CGGCGGGCTG 0.548438 -184 CGGAAAGGCGGGCCGCGGTGCAGACACGCG 33 124 0 GGCCGCGGTG 0.964378 -160 CGCAACAGCATGCCGGGGCGGTCCCGCGGC 33 159 1 TGCCGGGGCG 0.734419 -125 GCCGGGGCGGTCCCGCGGCGGTTCCCTTCG 33 170 1 TCCCGCGGCG 0.890904 -114 GCTGAAGCCGGGCCCTGGCGTCTGCCGCGA 33 223 0 GGCCCTGGCG 0.974739 -61 GCTTCAGCCGATGCCGGGCGAACAACCGAC 33 245 1 ATGCCGGGCG 0.828508 -39 CTTGATCCTTGCGCCGGGTGAATGGTG 34 8 0 GCGCCGGGTG 0.8363 -43 GCGTTGGGCGTTGGCCGGCGCTTGATCCTT 34 28 0 TTGGCCGGCG 0.674711 -23 GATCTTGCCCGAGCGTGCCGACAACGTAGG 35 16 0 GAGCGTGCCG 0.573098 -223 GGCCTGCTGGGCGCGTGTCGTAGACCGTTC 35 79 0 GCGCGTGTCG 0.512275 -160 TCAGATCACGCGGCCTGCTGGGCGCGTGTC 35 90 0 CGGCCTGCTG 0.863472 -149 ATATTCGACGAGCCCGGGCGACCACTCAGA 35 115 0 AGCCCGGGCG 0.712752 -124 CTGCACTGGTGGCGCCGGTGTGTCGGGACA 35 152 0 GGCGCCGGTG 0.939437 -87 TGTTACCAGTGTGCCTGGTGTTTCGTCTGT 35 184 0 GTGCCTGGTG 0.775485 -55 CCACTGCATTGTCGGCGGTGGCT 37 85 1 GTCGGCGGTG 0.766385 -13 ********** Masking position 7 Map Score: 65.8209 Number of sites scoring better than the average of aligned sites = 2835 Number in coding regions = 2659 Number in noncoding regions = 176 Number of orfs with sites within 600 bp upstream = 117 Fraction of orfs with sites within 600 bp upstream = 0.0187922 Motif number 2 TAAAAGTCCCGCCGAAACGCGGGGCTTTAGCCCTT 6 19 1 GCGAAAGGGC 0.806323 -121 GGCGCGGATACCCGCGATGTCGTGGCGGGGTGCAA 26 27 1 CCGCGAGGGG 0.992538 -35 ACCAACATTCCCCAGAACGTGGTGCACAACGCACC 28 150 1 CCAGAAGGGC 0.89181 -45 CATCGTCGCCGGCGCGAAGCAGCGCGTAGTCCCC 31 10 0 GGGCGAGGGC 0.92761 -162 CTTCGCGCCGGCGACGATGCAGAGCGCAGCGATGA 31 26 1 GCACGAGGGC 0.991921 -146 GATGCAGAGCGCAGCGATGAGGAGGAGCGGCGCAG 31 41 1 GCGCGAGGGG 0.994974 -131 GTTGGCGCCGGCGACGATGCAGAGCGCAGCGATGA 31 79 1 GCACGAGGGC 0.991921 -93 GATGCAGAGCGCAGCGATGAGGAGGAGCGGCGCAG 31 94 1 GCGCGAGGGG 0.994974 -78 GTTGGCGCCGGCGACGATGCAGAGCGCAGCGATGA 31 132 1 GCACGAGGGC 0.991921 -40 GATGCAGAGCGCAGCGATGAGGAGGAGCGGCGCAG 31 147 1 GCGCGAGGGG 0.994974 -25 CGTTAGTCACGCAACAACGAGGGGCCGGCCGAGGC 32 119 0 GCACAAGGGC 0.979342 -116 TAGCCGCGCTCCGGCGTGGGCGGGGTGCGTTAGTC 32 146 0 CCGCGTGGGG 0.895611 -89 TGTTGCGGATCCCGGAAAGGCGGGCCGCGGTGCAG 33 131 0 CCGGAAGGGC 0.935887 -153 CCTGGCGTCTGCCGCGATGCCGGACCCGGGAGGAA 33 205 0 GCGCGAGGAC 0.900954 -79 TTCACCCGGCGCAAGGATCAAGCGCCGGCCAACGC 34 16 1 GCAGGACGGC 0.885645 -35 CCCGAGCGTGCCGACAACGTAGGTGTCG 35 4 0 CCACAAGGTG 0.548238 -235 AATTTCATATTCGACGAGCCCGGGCGACCACTCAG 35 116 0 TCACGACGGC 0.663418 -123 CTTGCAAGATGCCAGGAGGGTGTGGCC 35 222 1 GCAGGAGGGG 0.966593 -17 CCTCCTCTCCCCCGCAAGCGGGAGGTGCGCCCACA 37 19 1 CCGCAACGGG 0.926033 -79 CGCTTCGTCCCCTGCAAGCGGGTGGTACCCCCACT 37 55 1 CCGCAACGGG 0.926033 -43 AGCCACCGCCGACAATGCAGTGGGGGTACCACC 37 75 0 CCACAAGGGG 0.966672 -23 ** **** * * ** Masking position 12 Map Score: 46.2384 Number of sites scoring better than the average of aligned sites = 247 Number in coding regions = 220 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 3 ACCGTCTGATCAAGCGAAGCACGATGTTCC 18 271 1 CAAGCGAAGC 0.395563 -30 CGACGACACGCCGACGGAGCCCGCCCTGAG 21 24 0 CCGACGGAGC 0.854968 -58 GGTGGCCGACCTCGCGATGCAGATTCACGG 23 49 0 CTCGCGATGC 0.697069 -80 TGCACCGTCGGCGGCGAAGCTCTTCTACAC 23 94 0 GCGGCGAAGC 0.978636 -35 CACTTTCCGTCCGACGGCGCCCCTGGTATC 24 81 0 CCGACGGCGC 0.67981 -158 GGCGCGGATACCCGCGATGTCGTGGCGGGG 26 27 1 CCCGCGATGT 0.802279 -35 GCCCGCTGCCGCCGCGGTGGGTAACCGTTC 28 56 1 GCCGCGGTGG 0.752939 -139 CATCGTCGCCGGCGCGAAGCAGCGCGTAGT 31 15 0 GGCGCGAAGC 0.812395 -157 CTTCGCGCCGGCGACGATGCAGAGCGCAGC 31 26 1 GCGACGATGC 0.979594 -146 GATGCAGAGCGCAGCGATGAGGAGGAGCGG 31 41 1 GCAGCGATGA 0.825064 -131 GTTGGCGCCGGCGACGATGCAGAGCGCAGC 31 79 1 GCGACGATGC 0.979594 -93 GATGCAGAGCGCAGCGATGAGGAGGAGCGG 31 94 1 GCAGCGATGA 0.825064 -78 GTTGGCGCCGGCGACGATGCAGAGCGCAGC 31 132 1 GCGACGATGC 0.979594 -40 GATGCAGAGCGCAGCGATGAGGAGGAGCGG 31 147 1 GCAGCGATGA 0.825064 -25 CTTTGTTGCTCGAGCGATGCTCACACCTTG 32 71 1 CGAGCGATGC 0.827783 -164 CGAAGTCAGCCCGCCGATGCGAGCTGCGCC 33 96 0 CCGCCGATGC 0.956634 -188 GGAAAGGCGGGCCGCGGTGCAGACACGCGA 33 123 0 GCCGCGGTGC 0.97495 -161 GGGCGGTCCCGCGGCGGTTCCCTTCGGGGA 33 174 1 GCGGCGGTTC 0.758549 -110 CCTGGCGTCTGCCGCGATGCCGGACCCGGG 33 210 0 GCCGCGATGC 0.986842 -74 GGCCCGGCTTCAGCCGATGCCGGGCGAACA 33 239 1 CAGCCGATGC 0.658938 -45 TGCACTGGTGGCGCCGGTGTGTCGGGACAC 35 151 0 GCGCCGGTGT 0.629902 -88 CCGCTTGCAGGGGACGAAGCGATGTGGGCG 37 46 0 GGGACGAAGC 0.743371 -52 AGCCACCGCCGACAATGCAGTGGGGGTA 37 80 0 CCGACAATGC 0.543882 -18 ********** Masking position 5 Map Score: 26.9277 Number of sites scoring better than the average of aligned sites = 1015 Number in coding regions = 939 Number in noncoding regions = 76 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 4 ATGAAAAAGAAAAAGGAGGCTGAAAA 1 7 0 AAAAGGAGGC 0.961522 -119 TCTGGTACTAAAAAGAAGGTTTTTTACAAA 1 62 0 AAAAGAAGGT 0.811525 -64 ATGGTATATGGAAAGGAGGCGT 2 3 0 GAAAGGAGGC 0.966608 -162 AAAAAGGTGAGGTGCACACAAG 3 4 1 AAGGTGAGGT 0.696204 -19 TATAATACTTGAGGGGAGGTGAATTGCT 5 66 1 GAGGGGAGGT 0.973683 -18 TTGATGTTTCAAGAGGAGGTTCTT 13 65 1 AAGAGGAGGT 0.98444 -14 TGTATGATTTGAAAGGAGGTTCTAACACT 14 10 0 GAAAGGAGGT 0.975261 -47 CACATGAGATGAAAGGGGGTTCTTTTTGT 14 38 1 GAAAGGGGGT 0.925675 -19 GTTACGTATGAAGAGAAGGCACTTATTATA 16 87 1 AAGAGAAGGC 0.854608 -44 ACCCTTCACAAAAGGGAGGTAATCATTTGT 18 201 1 AAAGGGAGGT 0.944993 -100 CCTCGCCGGTCAGAGGGGGTCCAGCAGGGG 24 42 1 CAGAGGGGGT 0.841495 -197 ACAAAAACCTAAGACGAGGTTCATAATCTG 24 177 1 AAGACGAGGT 0.870603 -62 GCTTGCGGGGGAGAGGAGGCGGAACAA 37 8 0 GAGAGGAGGC 0.981757 -90 ********** Masking position 2 Map Score: 14.4331 Number of sites scoring better than the average of aligned sites = 287 Number in coding regions = 126 Number in noncoding regions = 161 Number of orfs with sites within 600 bp upstream = 176 Fraction of orfs with sites within 600 bp upstream = 0.0282686 Motif number 5 AATTTTTTGACCTCGCCGTAAACGATGTAAACGG 20 82 0 CCTCGCGTCG 0.830806 -219 TCGACCACAGGCTGGTCGAAGCGGCTCTGGATCG 20 158 0 GCTGGCGAGG 0.926888 -143 TCGACCAGCCTGTGGTCGAAGCGGATCAGTTGAA 20 173 1 TGTGGCGAGG 0.944063 -128 TGCCCAGACAGCTCGGCGGCCTGGTGGCCAGGAT 20 248 1 GCTCGCGGGG 0.823668 -53 GTCGGCGTGTCGTCGCCGTAGGTGCACACTCGAC 21 39 1 CGTCGCGTTG 0.916264 -43 TCCTATCTGTTCTCGTCGAGTGTGCACCTACGGC 21 53 0 TCTCGCGATG 0.96953 -29 TAGCTGGCAAGGTGGCCGACCTCGCGATGCAGAT 23 55 0 GGTGGCGACG 0.890204 -74 AGAAGAGCTTCGCCGCCGACGGTGCAAAATATGA 23 98 1 CGCCGCGATG 0.922517 -31 ATGTGGTTGTTCTGGCCGAGTCCGCGG 25 4 0 TCTGGCGACG 0.874993 -72 GCCGGTTTCCTCGCCGAACGTGAACACAGGGA 27 52 0 CCTCGCGATG 0.980313 -22 GAACGCTAAATGTCGACGACTCGGCAGGCGCACG 28 22 1 TGTCGCGAGG 0.977229 -173 CACGGCCCGCTGCCGCCGCGGTGGGTAACCGTTC 28 52 1 TGCCGCGCGG 0.880017 -143 CGCTGCTTCGCGCCGGCGACGATGCAGAGCGCAG 31 21 1 CGCCGCGATG 0.848283 -151 AGATGGTTGGCGCCGGCGACGATGCAGAGCGCAG 31 74 1 CGCCGCGATG 0.848283 -98 AGATGGTTGGCGCCGGCGACGATGCAGAGCGCAG 31 127 1 CGCCGCGATG 0.848283 -45 TTGTGGACAATGTCGTCGCTGTGGATTCCGCTGC 33 26 1 TGTCGCGCGG 0.920122 -258 GCCTACGTCGTCTGGGCGATCTTGCCCGAGCGTG 35 29 0 TCTGGCGATG 0.926038 -210 GGTCGCCCGGGCTCGTCGAATATGAAATTGTGTC 35 122 1 GCTCGCGATG 0.967486 -117 ***** *** ** Masking position 7 Map Score: 29.2811 Number of sites scoring better than the average of aligned sites = 237 Number in coding regions = 218 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 6 TAAAGCCCCGCGTTTCGGCGGGACTTTTAG 6 18 0 CGTTTCGGCG 0.607967 -122 GGGAATGTAACCTTTTTGGGTGACGGAGGA 10 106 1 CCTTTTTGGG 0.360185 -25 CCCGATCGCCCGTTATCGGGTCATTTTTAT 13 21 1 CGTTATCGGG 0.851461 -58 TTCATACAAGCCTTTCCGAGCACGTCATCG 18 64 1 CCTTTCCGAG 0.679119 -237 TGAGGACGAACCCTACCGGGGAGACGCCAC 20 29 1 CCCTACCGGG 0.89959 -272 TGGCCAGGATCGTTACCGGGTAAGGGATCG 20 272 1 CGTTACCGGG 0.963539 -29 GCCCCTGGTATCTTTCCGGGGCCCCTGCTG 24 63 0 TCTTTCCGGG 0.788674 -176 CCCGCGATGTCGTGGCGGGGTGCAAAACTA 26 37 1 CGTGGCGGGG 0.891871 -25 GCCGGTGTGGCGCGTTCGGGATTATTGGGA 28 87 0 CGCGTTCGGG 0.862945 -108 TTGTGCACCACGTTCTGGGGAATGTTGGTG 28 149 0 CGTTCTGGGG 0.741177 -46 CGCGCTCCGGCGTGGGCGGGGTGCGTTAGT 32 147 0 CGTGGGCGGG 0.816489 -88 CTGTGGATTCCGCTGCCGGGAAAATCACCA 33 44 1 CGCTGCCGGG 0.965162 -240 CCGCGGCCCGCCTTTCCGGGATCCGCAACA 33 136 1 CCTTTCCGGG 0.977067 -148 CGCGGCGGTTCCCTTCGGGGATTTCCTCCC 33 183 1 CCCTTCGGGG 0.929816 -101 TTCGGGGATTTCCTCCCGGGTCCGGCATCG 33 196 1 TCCTCCCGGG 0.695714 -88 CGGCTTCAGCCGATGCCGGGCGAACAACCG 33 243 1 CGATGCCGGG 0.924316 -41 TCATATTCGACGAGCCCGGGCGACCACTCA 35 117 0 CGAGCCCGGG 0.814763 -122 GCGCACCTCCCGCTTGCGGGGGAGAGGAGG 37 19 0 CGCTTGCGGG 0.921 -79 ********** Masking position 8 Map Score: 16.5661 Number of sites scoring better than the average of aligned sites = 504 Number in coding regions = 424 Number in noncoding regions = 80 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 7 TAAATAAATCAAGACGGTTGGGTATTATTGAA 17 42 1 AAGAGTTGGG 0.600576 -259 TTCGCTTGATCAGACGGTACGGAAGCATACTT 18 257 0 CAGAGTACGG 0.86222 -44 GACCGAGCGGCAGCCTGTACGATTAACCGAAA 20 114 0 CAGCGTACGA 0.599104 -187 GCTTCGACCACAGGCTGGTCGAAGCGGCTCTG 20 163 0 CAGGGGTCGA 0.385809 -138 ATTCGATGCCCAGACAGCTCGGCGGCCTGGTG 20 242 1 CAGAGCTCGG 0.939903 -59 GACAGCTCGGCGGCCTGGTGGCCAGGATCGTT 20 254 1 CGGCGGTGGC 0.869066 -47 TCGACGAGAACAGATAGGACGGGT 21 68 1 CAGAGGACGG 0.876856 -14 GCCACCTTGCCAGCTAGTTCGGTGTAGAAGAG 23 73 1 CAGCGTTCGG 0.982663 -56 TCCGCCGTGAATGCACGTTCGGCG 27 3 0 ATGCGTTCGG 0.753913 -71 TTAGCCGGTGTGGCGCGTTCGGGATTATTGGG 28 88 0 TGGCGTTCGG 0.733515 -107 AGGAGCGGCGCAGATGGTTGGCGCCGGCGACG 31 63 1 CAGAGTTGGC 0.81443 -109 AGGAGCGGCGCAGATGGTTGGCGCCGGCGACG 31 116 1 CAGAGTTGGC 0.81443 -56 GGAAAATCACCAGCTGGGTCGGTGTAAACTAC 33 62 1 CAGCGGTCGG 0.984731 -222 GGATCCGCAACAGCATGCCGGGGCGGTCCCGC 33 154 1 CAGCGCCGGG 0.693902 -130 CCTACGTTGTCGGCACGCTCGGGCAAGATCGC 35 16 1 CGGCGCTCGG 0.954181 -223 GCGCGTGTCGTAGACCGTTCGGCGGCTGACGG 35 67 0 TAGAGTTCGG 0.67396 -172 TCAGATCACGCGGCCTGCTGGGCGCGTGTCGT 35 88 0 CGGCGCTGGG 0.91361 -151 GCCGCGTGATCTGAGTGGTCGCCCGGGCTCGT 35 106 1 CTGAGGTCGC 0.809568 -133 ATCTTGCAAGATGCCAGGAGGGTGTGGCC 35 220 1 ATGCGGAGGG 0.31822 -19 TGCACTCCTGCGGGTTCGCTACCTAAGCA 36 36 0 CTGCGTTCGC 0.899419 -19 GGTACCCCCACTGCATTGTCGGCGGTGGCT 37 78 1 CTGCTGTCGG 0.52523 -20 **** ****** Masking position 3 Map Score: 15.8937 Number of sites scoring better than the average of aligned sites = 1041 Number in coding regions = 990 Number in noncoding regions = 51 Number of orfs with sites within 600 bp upstream = 46 Fraction of orfs with sites within 600 bp upstream = 0.00738837 Motif number 8 GGTACTAAAAAGAAGGTTTTTTACAAAAAA 1 59 0 AGAAGGTTTT 0.855261 -67 CGATTTATGCAGAGGGTGCTGCAGGCGGCA 7 65 1 AGAGGGTGCT 0.850719 -79 TGTAAACATGAGAGGGTCTTTTCACTATTA 10 32 0 AGAGGGTCTT 0.905478 -99 TCATGTTTACAGGGGGTTTTTTTGTTAATA 10 51 1 AGGGGGTTTT 0.964557 -80 ATGTTTCAAGAGGAGGTTCTT 13 68 1 AGGAGGTTCT 0.954119 -11 ATGATTTGAAAGGAGGTTCTAACACT 14 7 0 AGGAGGTTCT 0.954119 -50 ATGAGATGAAAGGGGGTTCTTTTTGT 14 41 1 AGGGGGTTCT 0.977398 -16 CGCCGGTCAGAGGGGGTCCAGCAGGGGCCC 24 45 1 AGGGGGTCCA 0.849468 -194 AACACTGTGAAGACGGTTTTGCGCGGTGTA 24 208 0 AGACGGTTTT 0.726999 -31 TTTAGCGTTCAGGAGGTCTCG 28 2 0 AGGAGGTCTC 0.727486 -193 ********** Masking position 7 Map Score: 6.87125 Number of sites scoring better than the average of aligned sites = 101 Number in coding regions = 51 Number in noncoding regions = 50 Number of orfs with sites within 600 bp upstream = 59 Fraction of orfs with sites within 600 bp upstream = 0.00947639 Motif number 9 ATGAATCACTCCTTATGGTCAG 1 114 0 GAATCACTCC 0.711021 -12 TATAATGGTTTTTTTCCTCCGCTTAGGTCA 7 109 0 TTTTTCCTCC 0.778087 -35 GTTATTTCCTCCTAATATAATG 7 132 0 TATTTCCTCC 0.849054 -12 TTGTATTCCTCCTTATATGTTT 8 90 0 GTATTCCTCC 0.921899 -12 GAGATTCCTCCGTCACCCAAA 10 120 0 AGATTCCTCC 0.680509 -11 GGGCGGTGTATCCCTCCTTCCTTTTAT 16 114 0 GTATCCCTCC 0.916938 -17 TTTAACAAATGATTACCTCCCTTTTGTGAA 18 205 0 GATTACCTCC 0.867427 -96 CCGTGTCATAGATTCCCTCGCCGGTCAGAG 24 27 1 GATTCCCTCG 0.880072 -212 GCCGGTTTCCTCGCCGAACGTGA 27 61 0 GGTTTCCTCG 0.909929 -13 ATGTTGGTGAGGTTTACTCCTTCAGCCGTG 28 128 0 GGTTTACTCC 0.867187 -67 GTCCCGCGGCGGTTCCCTTCGGGGATTTCC 33 179 1 GGTTCCCTTC 0.75928 -105 TCCCTTCGGGGATTTCCTCCCGGGTCCGGC 33 192 1 GATTTCCTCC 0.973341 -92 ********** Masking position 4 Map Score: 6.14363 Number of sites scoring better than the average of aligned sites = 411 Number in coding regions = 268 Number in noncoding regions = 143 Number of orfs with sites within 600 bp upstream = 143 Fraction of orfs with sites within 600 bp upstream = 0.0229682 Motif number 10 TTTTCAGCCTCCTTTTTCTTTTTCATAGATTCCTATCTA 1 10 1 TTTCTTTCTA 0.789352 -116 GATTCCTATCTACACTTCTCTTTTTTTGTAAAAAACCTTC 1 38 1 TATTTTTTTA 0.727035 -88 CAGGTACTAATTCTATCCTATTTTTTTTCACATGGCAATA 2 71 0 TTTTTTTTTA 0.938825 -94 AATTTCATCGTAGTTTCTCTAGTTTTTTAAAAACGAATCC 5 24 1 TTTCATTTTA 0.560985 -60 GGGACACATTTTGTGTTCCCTATTTTTAAAACTATATTTA 9 58 1 TTTCTTTTTA 0.933149 -88 ATTCTTACATTTATTTTACATTTTTAGAAATGGGCGTGAA 12 20 1 TTTCTTTTGA 0.670639 -99 AATGTATCAAAGGTTTCATTTTTTTATGTATAAAAAAAGA 16 46 0 ATTTTTTTTA 0.584183 -85 CCGTCTTGATTTATTTAATGTCTTTATAAAGATTTTCTTT 17 19 0 TTTTTTTTTA 0.938825 -282 CACACCTGAATTTTCTGGTGTGTTTCAATAATACCCAACC 17 57 0 TTTTTTTTAA 0.601666 -244 GGTGTGTTTTTATTTTGCTTTCTTTTTTAAGCCTTAAAAC 17 91 1 TTTTTTTTTA 0.938825 -210 ATGTTATATATACTGTTTTTTGTTTATTCAATAAATATTT 17 233 1 TTTTTTTTTA 0.938825 -68 TTACCGAAACTATTGTACTTTTTTTGTCAAACGCTGTCAT 18 117 0 TTTTTTTTTA 0.938825 -184 TACGGAAGCATACTTTTTCTTTTTCGTGAATATATCCTTT 18 232 0 TTTCTTTCTA 0.789352 -69 AAGTATATTATGAATTAATCTCTTTTTCAACCGCGCTAAA 19 92 0 TATTTTTTTA 0.727031 -100 ATTATGAACCTCGTCTTAGGTTTTTGTATATAACCAACAA 24 164 0 TTTGTTTTTA 0.761934 -75 * * * * * *** * * Masking position 20 Map Score: 5.68469 Number of sites scoring better than the average of aligned sites = 227 Number in coding regions = 156 Number in noncoding regions = 71 Number of orfs with sites within 600 bp upstream = 80 Fraction of orfs with sites within 600 bp upstream = 0.0128493 Motif number 11 TGACCCGATCGCCCGTTATCGGGTCATTTT 13 18 1 GCCCGTTATC 0.749054 -61 GCCTTTCCGAGCACGTCATCGAATAAAAAG 18 73 1 GCACGTCATC 0.885785 -228 TCTCTTCACCGCATGTCATCAAACAGATAG 18 171 0 GCATGTCATC 0.674327 -130 CTGGCAAGGTGGCCGACCTCGCGATGCAGA 23 56 0 GGCCGACCTC 0.613936 -73 CCGACGGCGCCCCTGGTATCTTTCCGGGGC 24 71 0 CCCTGGTATC 0.288716 -168 GCATGGCATCTTAGCATCAA 29 1 1 GCATGGCATC 0.930854 -57 TCATCGCTGCGCTCTGCATCGTCGCCGGCG 31 31 0 GCTCTGCATC 0.847008 -141 TCATCGCTGCGCTCTGCATCGTCGCCGGCG 31 84 0 GCTCTGCATC 0.847008 -88 TCATCGCTGCGCTCTGCATCGTCGCCGGCG 31 137 0 GCTCTGCATC 0.847008 -35 TAGTCGACGGGCCTGGCCTCGGCCGGCCCC 32 104 1 GCCTGGCCTC 0.966487 -131 GCCTGGCCTCGGCCGGCCCCTCGTTGTTGC 32 114 1 GGCCGGCCCC 0.756685 -121 GGCACCACCAGGACGGCATCTCACATCCTG 32 187 0 GGACGGCATC 0.924213 -48 TTCCTCCCGGGTCCGGCATCGCGGCAGACG 33 205 1 GTCCGGCATC 0.922119 -79 AGACGCCAGGGCCCGGCTTCAGCCGATGCC 33 230 1 GCCCGGCTTC 0.953915 -54 TCGGTTGTTCGCCCGGCATCGGCTGAAGCC 33 244 0 GCCCGGCATC 0.994885 -40 CTGAGTGGTCGCCCGGGCTCGTCGAATATG 35 116 1 GCCCGGGCTC 0.900583 -123 GGCCACACCCTCCTGGCATCTTGCAAGATC 35 219 0 TCCTGGCATC 0.732969 -20 ********** Masking position 10 Map Score: 17.4659 Number of sites scoring better than the average of aligned sites = 643 Number in coding regions = 595 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 35 Fraction of orfs with sites within 600 bp upstream = 0.00562159 Motif number 12 AAAAAGGTGAGGTGCACACAAG 3 10 1 AGGTGCACAC 0.961702 -13 TAGGCACATCAGGTTCACCGCGCTTCTCTG 6 109 0 AGGTTCACCG 0.810529 -31 GAAAACGGCAATGTTTACACTTGGAGGTTA 9 124 1 ATGTTTACAC 0.593346 -22 TTACCTAGTAAGGCGTACACCTCCGATGTA 17 272 0 AGGCGTACAC 0.908285 -29 TCGTCGCCGTAGGTGCACACTCGACGAGAA 21 48 1 AGGTGCACAC 0.961702 -34 GAGGCTATATAGGCTGACCCA 22 2 0 AGGCTGACCC 0.873505 -25 AATGTTGGTGAGGTTTACTCCTTCAGCCGT 28 129 0 AGGTTTACTC 0.675567 -66 TGCTCGAGCGATGCTCACACCTTGAGATAG 32 77 1 ATGCTCACAC 0.828262 -158 CAGACGACGTAGGCTCACCCGTCAGCCGCC 35 49 1 AGGCTCACCC 0.972777 -190 CGCAAGCGGGAGGTGCGCCCACATCGCTTC 37 31 1 AGGTGCGCCC 0.861937 -67 ********** Masking position 1 Map Score: 3.92363 Number of sites scoring better than the average of aligned sites = 131 Number in coding regions = 109 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 13 TCATTTTTGTACAGAACTGCCGCCTGCAGCA 7 81 0 ACAGAACTGC 0.947923 -63 GCAGTTCTGTACAAAAATGACCTAAGCGGAG 7 92 1 ACAAAAATGC 0.944876 -52 ATAAGCAATCATAAAAATGACCCGATAACGG 13 30 0 ATAAAAATGC 0.62692 -49 ACAAAAAGAACCCCCTTTCAT 14 46 0 ACAAAAAGAC 0.683885 -11 AACGGAGTGTACAAAACTGCCCCAACGAGTG 20 56 0 ACAAAACTGC 0.956649 -245 CTCGACGAGAACAGATAGGACGGGT 21 67 1 ACAGATAGGC 0.741565 -15 AGCATCGACAGCAATGCCGTGTCATAGA 24 8 1 ACAGCAATGC 0.767623 -231 TATATAACCAACAAAACGGGCCTGTAAGCTA 24 147 0 ACAAAACGGC 0.965999 -92 GACATTGTCCACAAAACGGGCGGCGGCGA 33 9 0 ACAAAACGGC 0.965999 -275 ********* * Masking position 3 Map Score: 2.51729 Number of sites scoring better than the average of aligned sites = 150 Number in coding regions = 126 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 14 AATATACATACTCTTGTTTAAACATATAAG 8 71 1 CTCTTGTTTA 0.897628 -31 AAAAGACCCTCTCATGTTTACAGGGGGTTT 10 40 1 CTCATGTTTA 0.966497 -91 CCCCTTTCATCTCATGTGTATGATTTGAAA 14 26 0 CTCATGTGTA 0.968887 -31 CGTCGGGCCGCTCATGTTTCCACTCCTCCG 20 208 0 CTCATGTTTC 0.968888 -93 CTATGCCTTACTCATGTGTCGGTTGTTCGC 33 262 0 CTCATGTGTC 0.971112 -22 ********** Masking position 5 Map Score: 1.51717 Number of sites scoring better than the average of aligned sites = 33 Number in coding regions = 25 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 15 AAGAAAAAGGAGGCTGAAAA 1 1 0 AGGCTGAAAA 0.960508 -125 CGATTGTTTCTGGCTGAACACCAAAAACTT 4 18 0 TGGCTGAACA 0.922411 -91 ATGACCTAAGCGGAGGAAAAAAACCATTAT 7 108 1 CGGAGGAAAA 0.778888 -36 TCCCCTATACTGCCTGAAAAGAGCCGACTT 9 32 0 TGCCTGAAAA 0.779438 -114 TGGCTGAAAATTCTTACATT 12 1 1 TGGCTGAAAA 0.960508 -118 TGGCGTTTTAAGGCTTAAAAAAGAAAGCAA 17 105 0 AGGCTTAAAA 0.70452 -196 CATTTTAGCGCGGTTGAAAAAGAGATTAAT 19 89 1 CGGTTGAAAA 0.810269 -103 CGTGCATTCACGGCGGAAAAAAGCGGGAAA 27 18 1 CGGCGGAAAA 0.969273 -56 GGGGGAGAGGAGGCGGAACAA 37 2 0 AGGCGGAACA 0.907459 -96 ********** Masking position 7 Map Score: 3.66571 Number of sites scoring better than the average of aligned sites = 607 Number in coding regions = 552 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 58 Fraction of orfs with sites within 600 bp upstream = 0.00931577