AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00760_bsub_reg_300.orf -o00760_bsub_300.ace -a/home/amcguire/alignace/lib/ORF_bsub.txt -z/skink1/amcguire/genomes/bsub.fna -g0.44 -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 = 0.44 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 spoIIE 300 serine phosphatase #2 yabS 84 similar to hypothetical proteins #3 yabT 88 yabT #4 amhX 300 amidohydrolase #5 ycgI 166 ycgI #6 nadE 139 NH3-dependent NAD+ synthetase #7 yfkN 242 similar to 2',3'-cyclic-nucleotide 2'-phosphodiesterase #8 ykvY 300 similar to Xaa-Pro dipeptidase #9 ykvZ 281 similar to transcriptional regulator (LacI family) #10 glcT 62 transcriptional antiterminator (BglG family) #11 ptsG 238 phosphotransferase system (PTS) glucose-specific enzyme IIABC component #12 ptsH 97 histidine-containing phosphocarrier protein of the phosphotransferase system (PTS) (HPr protein) #13 splA 90 transcriptional regulator #14 splB 77 spore photoproduct lyase #15 deoD 300 purine nucleoside phosphorylase #16 drm 160 phosphodeoxyribomutase #17 ripX 300 integrase/recombinase #18 nadB 102 L-aspartate oxidase #19 comQ 184 transcriptional regulator #20 degQ 300 alternate gene name: sacQ Motif number 1 TGGTATTGTTACCTTCTTTTGACAAAATCC 1 223 1 ACCTTCTTTT 0.79815 -78 GACGCCTATGTCCTCTTATTTATGATTGCT 4 72 0 TCCTCTTATT 0.706595 -229 ATGAATTTTTACCTTCTTTACTTTATTTAT 4 255 0 ACCTTCTTTA 0.652125 -46 AAGAAATACCTCCTTCTATCAGAATGAATT 4 278 0 TCCTTCTATC 0.783345 -23 GGTTTTTCCGTTCTCCTTTCATTTCTGATC 5 30 0 TTCTCCTTTC 0.799465 -137 GAACGGAAAAACCGCTTTTTACAATTGCGA 5 47 1 ACCGCTTTTT 0.529666 -120 CCCAATCATTCCTCCTGTACATTTTCCCT 6 121 0 TCCTCCTGTA 0.659632 -19 CAGTTCTCCACCTTTCAACGAAATTT 7 227 0 TCCACCTTTC 0.525424 -16 GAATTTCCGCTCCTTTTATCGGGATGAAGA 8 64 0 TCCTTTTATC 0.720062 -237 GAGAACAAAGTCCTTTTTTATTTCTA 9 7 0 TCCTTTTTTA 0.84257 -275 CTCGACATCGTCCTTTTTTATCTGCATTAA 9 34 1 TCCTTTTTTA 0.84257 -248 CCATGTGATCTTCTCCTTTCAGCTAAAAAC 9 182 1 TTCTCCTTTC 0.799465 -100 AGATTCCCTTCTTTCTAAATCCCCT 9 267 0 CCCTTCTTTC 0.749844 -15 TGCACGTCAAACCTTTTTTCAATGCATTCA 10 11 0 ACCTTTTTTC 0.760135 -52 GAATGAACTTCCCGTTTTTTTCCCTCAATC 11 68 0 CCCGTTTTTT 0.418089 -171 AGAATTGACCTCCTCTTTTTACTAGTCTGA 11 218 0 TCCTCTTTTT 0.922524 -21 TTTTATCATTCTCCTTTTAACTTAAAGC 12 80 0 TTCTCCTTTT 0.779681 -18 TGTTATTGTGTCCTTCTATACCCTTACTTA 13 54 0 TCCTTCTATA 0.603421 -37 TATATGATTGTTCTTTTTTTGGCCGGTGAT 15 56 1 TTCTTTTTTT 0.704751 -245 ACCCCGATTATCCGTTTTTCTGAGGAAGTG 15 150 1 TCCGTTTTTC 0.828389 -151 CCTCGAACATTTCTTTTTTCGATATATTCC 15 190 1 TTCTTTTTTC 0.728924 -111 CTCATATCCTCCTGTAAATCTAAATT 15 285 0 TCCTCCTGTA 0.659632 -16 CTTGAAAGCCTCCTTTTTTTCTATACGTCT 16 141 0 TCCTTTTTTT 0.918629 -20 GGTCGAACCATCCGCCTTTTTCATCCTGAT 17 242 0 TCCGCCTTTT 0.863997 -59 CGACCGGTTGATCTTTTTTTACCAAAACGG 17 267 1 ATCTTTTTTT 0.372955 -34 ATGCCATCCTCCTGTTGTTTACACCT 18 87 0 TCCTCCTGTT 0.803456 -16 CAGCAGGTTTTTCGTTTTTTAACAATCATA 19 73 0 TTCGTTTTTT 0.475338 -112 GTTTCCACACTCCTTTTTTTGAAAGATCAA 20 280 0 TCCTTTTTTT 0.918629 -21 ********** Masking position 7 Map Score: 24.4547 Number of sites scoring better than the average of aligned sites = 2588 Number in coding regions = 1880 Number in noncoding regions = 708 Number of orfs with sites within 600 bp upstream = 712 Fraction of orfs with sites within 600 bp upstream = 0.114359 Motif number 2 ACAGCCTATCTTCCTGTTTCAATATAAATAAAG 4 232 1 TCCTGTTCAT 0.881727 -69 AAAGCGGTTTTTCCGTTCTCCTTTCATTTCTGA 5 32 0 TCCGTTCCTT 0.824301 -135 CCGAGAAAGAAGCCTGTTCCAATCGTGCAGCCG 5 85 1 ACCTGTTCAT 0.951369 -82 CTCATTTTTCTCCCTTTTACAATAATCATAAAG 7 144 1 TCCTTTTCAT 0.925001 -99 ACACCGGTAAAACCTGTTACAATGGAAGACAGA 8 244 1 ACCTGTTCAT 0.951369 -57 TGTTCCTCCCTGCCATTTGCAATGCATTGTTCT 8 274 0 TCCATTTCAT 0.660358 -27 TGCACGTCAAACCTTTTTTCAATGCATTCA 10 8 0 ACTTTTTCAT 0.646802 -55 CTTCCAGTTTAACCGTTTACATTTGCCCTTTTA 11 142 0 ACCGTTTCTT 0.937459 -97 GATGCCACATCCTTTTCCTTTACTAACGTTA 14 57 0 ACCTTTTCTT 0.925001 -21 TTGGCCGGTGATCCGGTTACGATGTTTTTTACC 15 74 1 ACCGGTTCAT 0.959635 -227 CTCAAGTATAAACCGTTTTCATTCCCGTTGACA 16 83 0 ACCGTTTCTT 0.937459 -78 GTCCTAATCGATCCTTTCCCTATGGTTCCAGTT 17 44 0 ACCTTTCCAT 0.963745 -257 GTCTTCCTCCATCCGTTCTCCATAAAAAACTCT 18 14 1 ACCGTTCCAT 0.969976 -89 GGAGATTAAGAATCTTTCTCAATTTCAGCACAT 20 59 1 ATCTTTCCAT 0.740483 -242 AATACCTAGGACTCGTTCACCATACACAATTCA 20 247 1 ATCGTTCCAT 0.776173 -54 * ****** * ** Masking position 7 Map Score: 14.5465 Number of sites scoring better than the average of aligned sites = 572 Number in coding regions = 484 Number in noncoding regions = 88 Number of orfs with sites within 600 bp upstream = 89 Fraction of orfs with sites within 600 bp upstream = 0.0142949 Motif number 3 GATTCGAACCCGTGTTACCGCCGTGAAAGG 1 70 0 CGTGTTACCG 0.961031 -231 TGTAAAAAGCGGTTTTTCCGTTCTCCTTTC 5 40 0 GGTTTTTCCG 0.974599 -127 ATCGCAGGGGGGTTGTTCCGTTTGCTGATG 8 137 0 GGTTGTTCCG 0.910643 -164 CATTGTAACAGGTTTTACCGGTGTTTGCCT 8 238 0 GGTTTTACCG 0.988336 -63 TTGGTTGAGAGGTTTTACAGCAAGACAGCT 9 108 1 GGTTTTACAG 0.90442 -174 ATCCTTATAACGTGTTACTGATTCGATCAG 11 30 1 CGTGTTACTG 0.829248 -209 CCCGATTATCCGTTTTTCTGAGGAAGTGCC 15 152 1 CGTTTTTCTG 0.836447 -149 CCTGTTTACCGGTTTTACCGCTTTGTTCTA 17 124 1 GGTTTTACCG 0.988336 -177 AAAGGCGGATGGTTCGACCGGTTGATCTTT 17 253 1 GGTTCGACCG 0.896189 -48 TCTTTTTTTTCGTTCTACCGATACAATAAA 19 29 1 CGTTCTACCG 0.965287 -156 ********** Masking position 3 Map Score: 10.759 Number of sites scoring better than the average of aligned sites = 187 Number in coding regions = 169 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 4 CCAAACAAATATGGTAGCGGCGGAGGGGAT 1 12 0 ATGGTAGCGG 0.914767 -289 TTCATTTCTGATCGCAGGGATCGGTACGTA 5 13 0 ATCGCAGGGA 0.852169 -154 ATCTGGCTTGGTGGCAGCTGTCACTGATCG 5 122 0 GTGGCAGCTG 0.970986 -45 TTATTTTAGTGTGGCTGGGGTAGAGTGTTT 7 44 0 GTGGCTGGGG 0.970563 -199 GTAACGTTCAATCGCAGGGGGGTTGTTCCG 8 147 0 ATCGCAGGGG 0.970884 -154 TGCATTGCAAATGGCAGGGAGGAACAAGAA 8 281 1 ATGGCAGGGA 0.949813 -20 ACTGTTCTCGGTGGCAGCTGTCTTGCTGTA 9 123 0 GTGGCAGCTG 0.970986 -159 AAAAGATATCATTGCAGCTGAAGAAGCACA 15 21 0 ATTGCAGCTG 0.775253 -280 CCGCAGGTGGCTGCGGCTTTTTTGTT 16 7 1 GTGGCTGCGG 0.970563 -154 GTAAAATGGAATGGGAGGGGGGAAGTCGTT 19 123 1 ATGGGAGGGG 0.940853 -62 ********** Masking position 2 Map Score: 9.14139 Number of sites scoring better than the average of aligned sites = 464 Number in coding regions = 425 Number in noncoding regions = 39 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 5 ATATGGTAGCGGCGGAGGGGATC 1 3 0 GGCGGAGGGA 0.966762 -298 CAACGAATATAACAGGTGGGAGATGAGAGGA 1 280 1 AACAGGGGGA 0.838751 -21 TTTTCAAACAGAGGGGATGGATCGAAATATG 4 159 0 GAGGGGTGGA 0.958652 -142 TATACAGGAAGAGGAGCAGGAAATAAAATGC 8 183 1 GAGGAGAGGA 0.723579 -118 CATTGCAAATGGCAGGGAGGAACAAGAA 8 283 1 GGCAGGAGGA 0.960211 -18 AGGGGATTTAGAAAGAAGGGAATCT 9 267 1 GAAAGAGGGA 0.679597 -15 AAAAAAACCAGACAGGCCGGAGGCCGTCTGG 13 21 0 GACAGGCGGA 0.938028 -70 TTTCTCACTAGGCGGAAAGGATATGAGTTGT 14 24 0 GGCGGAAGGA 0.919156 -54 CCGCAGGAAGGAGGGGTGGGACATGGGTAAA 15 101 0 GAGGGGGGGA 0.988371 -200 TTGTAAAATGGACGGGCTGGATGATAATTTA 15 260 1 GACGGGTGGA 0.971633 -41 AAAATGGAATGGGAGGGGGGAAGTCGTTATT 19 125 1 GGGAGGGGGA 0.97663 -60 ****** **** Masking position 11 Map Score: 8.61795 Number of sites scoring better than the average of aligned sites = 224 Number in coding regions = 177 Number in noncoding regions = 47 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 6 AAGGTAAAAATTCATTCTGATAGAAGGAGGT 4 270 1 TTCATTCTGT 0.963625 -31 ACAGTCATGATTCATTTTCATTGATTTAGGG 6 75 1 TTCATTTTCT 0.655397 -65 GCCCACCATCTTCATCCCGATAAAAGGAGCG 8 56 1 TTCATCCCGT 0.939489 -245 AGGTTTGACGTGCATTCTGTTCGTTATGTAC 10 27 1 TGCATTCTGT 0.819831 -36 AAACGGGAAGTTCATTCTCGTTCTTTTGCGC 11 81 1 TTCATTCTCT 0.963645 -158 TTTTATCATTCTCCTTTTAACTTAA 12 83 0 ATCATTCTCT 0.855883 -15 TTCTTTCCCGTGTGCTTCTTC 15 1 1 TTCTTTCCCT 0.716368 -300 ATAAACCGTTTTCATTCCCGTTGACAATGTA 16 78 0 TTCATTCCCT 0.956152 -83 ATTGAAAGTTTTCATCCTGTTTACCGGTTTT 17 109 1 TTCATCCTGT 0.94968 -192 GATGATAGTTTTCATACTCTTGATTCACCCA 17 167 0 TTCATACTCT 0.893347 -134 CTTCCGGTTTATCATACCGATGATAGTTTTC 17 185 0 ATCATACCGT 0.606861 -116 ATCCGCCTTTTTCATCCTGATCCATTTCAAC 17 232 0 TTCATCCTGT 0.949677 -69 ********* * Masking position 5 Map Score: 9.70943 Number of sites scoring better than the average of aligned sites = 290 Number in coding regions = 241 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 7 GGTGTCTTAACCGCTTGACCAACGGGCCAA 1 38 0 CCGCTTGACC 0.966682 -263 ATTCCATTGGCCCCTTTACCAAGCTGTTTA 3 68 0 CCCCTTTACC 0.96526 -21 GTGAATTTGACCGCGTGACAAAGG 4 5 0 CCGCGTGACA 0.593752 -296 TCATAACCTCCCGCTTTATATGTCTACATA 7 14 1 CCGCTTTATA 0.738394 -229 TCATTTTTCTCCCTTTTACAATAATCATAA 7 145 1 CCCTTTTACA 0.669939 -98 CTTTCTAAATCCCCTTGATCTGGAATGCGT 9 252 0 CCCCTTGATC 0.941708 -30 TTTACATTTGCCCTTTTACACAACAAAAAG 11 130 0 CCCTTTTACA 0.669939 -109 AACATCGTAACCGGATCACCGGCCAAAAAA 15 70 0 CCGGATCACC 0.691113 -231 AAATTAACACCCCGATTATCCGTTTTTCTG 15 142 1 CCCGATTATC 0.718205 -159 CGTTTTCATTCCCGTTGACAATGTATTTGG 16 73 0 CCCGTTGACA 0.934389 -88 AAGTTTTCATCCTGTTTACCGGTTTTACCG 17 114 1 CCTGTTTACC 0.759845 -187 AGCGGAGCTTCCGGTTTATCATACCGATGA 17 193 0 CCGGTTTATC 0.911231 -108 GATGGTTCGACCGGTTGATCTTTTTTTACC 17 260 1 CCGGTTGATC 0.934134 -41 TTTCTCCTTGATCCGGACAGAAT 19 172 0 CTCCTTGATC 0.634243 -13 ATACCTAGGACTCGTTCACCATACACAATT 20 248 1 CTCGTTCACC 0.628716 -53 ********** Masking position 8 Map Score: 8.41905 Number of sites scoring better than the average of aligned sites = 684 Number in coding regions = 592 Number in noncoding regions = 92 Number of orfs with sites within 600 bp upstream = 80 Fraction of orfs with sites within 600 bp upstream = 0.0128493 Motif number 8 AAATATGAGTATGCCAGCAGCCGAAACACAGC 4 134 0 ATGCGCAGCC 0.945444 -167 TCACTGATCGGAGTCGGCTGCACGATTGGAAC 5 100 0 GAGCGCTGCA 0.943655 -67 ACTCCGATCAGTGACAGCTGCCACCAAGCCAG 5 118 1 GTGCGCTGCC 0.964036 -49 AAGGAAACCCGCTGCACAGCCTATGA 8 5 1 AAACGCTGCA 0.9491 -296 GTTTTACAGCAAGACAGCTGCCACCGAGAACA 9 119 1 AAGCGCTGCC 0.992326 -163 TCTAAACAAAAAAGCCGCAGCCACCTGCGG 16 9 0 AAACGCAGCC 0.967579 -152 AAGATTCCTGAAAACAGCTGTCGATGCATTGA 17 82 1 AAACGCTGTC 0.9491 -219 AAAAAACGAAAAACCTGCTGTCCTTTAAATGT 19 83 1 AAACGCTGTC 0.9491 -102 *** * ****** Masking position 7 Map Score: 5.83889 Number of sites scoring better than the average of aligned sites = 386 Number in coding regions = 353 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912 Motif number 9 ATATGGTAGCGGCGGAGGGGATC 1 4 0 GGCGGAGGGG 0.959697 -297 TAAACAGCTTGGTAAAGGGGCCAATGGAAT 3 68 1 GGTAAAGGGG 0.659286 -21 ACACAAATTTCGTTGAAAGGTGGAGAACTG 7 223 1 CGTTGAAAGG 0.666973 -20 AACGTTCAATCGCAGGGGGGTTGTTCCGTT 8 145 0 CGCAGGGGGG 0.959821 -156 CATTGCAAATGGCAGGGAGGAACAAGAA 8 283 1 GGCAGGGAGG 0.980326 -18 TCATGTTTTTGGTTGAGAGGTTTTACAGCA 9 100 1 GGTTGAGAGG 0.914201 -182 TTGTGTTTTTAGCTGAAAGGAGAAGATCAC 9 186 0 AGCTGAAAGG 0.607739 -96 ACAATAACATGGCTAGGAGGGATAGT 13 75 1 GGCTAGGAGG 0.916665 -16 TTTCTCACTAGGCGGAAAGGATATGAGTTG 14 25 0 GGCGGAAAGG 0.903252 -53 AAAACCTAACCGCAGGAAGGAGGGGTGGGA 15 111 0 CGCAGGAAGG 0.90353 -190 TCTATTGTATCGCTAAGAGGTCTGACAACT 16 114 0 CGCTAAGAGG 0.846946 -47 AAAATGGAATGGGAGGGGGGAAGTCGTTAT 19 125 1 GGGAGGGGGG 0.856242 -60 ********** Masking position 2 Map Score: 7.43068 Number of sites scoring better than the average of aligned sites = 526 Number in coding regions = 440 Number in noncoding regions = 86 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813 Motif number 10 AACGTATGACATTTAAAATGCCTGACGCCTATGTC 4 90 0 ATAAAACTGA 0.929949 -211 ACACAGCCTAAGAAAAAACGTATGACATTTAAAAT 4 106 0 AAAAAATTGA 0.839532 -195 TAATAGGGATACATAACAGTCATGATTCATTTTCA 6 60 1 ATAACACTGA 0.807468 -80 GCTTTTCGTCTGAAAAAATTCATCAGCAAACGGAA 8 117 1 TAAAAACTCA 0.793771 -184 TCTGCATTAAATAAAAAAATCATCAAATGTTCGAA 9 54 1 AAAAAACTCA 0.949629 -228 TGAATGCATTGAAAAAAGGTTTGACGTGCATTCT 10 10 1 TAAAAATTGA 0.516529 -53 CCTTTTACACAACAAAAAGGCATGAGCAAAATTGG 11 114 0 AAAAAACTGA 0.976387 -125 CTGACCTTACAGCTAAAAATCATGACAACGAATTC 11 187 0 ATAAAACTGA 0.929949 -52 ACCCTTACTTATGAAAAAAACCAGACAGGCCGGAG 13 30 0 AAAAAACAGA 0.827272 -61 GAATGTCATGATGAAACAAACTTCAGCATTGATTA 15 224 0 AAAACACTCA 0.856242 -77 TGTCGCTCTAAACAAAAAAGCCGCAGCCACCTGCG 16 12 0 AAAAAACGCA 0.763953 -149 TCCGTTCTCCATAAAAAACTCTTGAGTTTATTTTA 18 25 1 AAAAAACTGA 0.976387 -78 CGGTAGAACGAAAAAAAAGACTTGTTTCCAAGTCT 19 14 0 AAAAAACTGT 0.814828 -171 * ***** * *** Masking position 8 Map Score: 5.05781 Number of sites scoring better than the average of aligned sites = 633 Number in coding regions = 494 Number in noncoding regions = 139 Number of orfs with sites within 600 bp upstream = 136 Fraction of orfs with sites within 600 bp upstream = 0.0218439 Motif number 11 TACCGCCGTGAAAGGGCGGTGTCTTAACCGCTT 1 52 0 AAAGGGTGTC 0.864009 -249 GAAAGCACAGATAGGATTTTGTCAAAAGAAGGT 1 233 0 ATAGGATGTC 0.784603 -68 TACGACAATCAAAGGCAAGTGGAATGGAAACAC 3 23 1 AAAGGCTGGA 0.903562 -66 ATCAGAAATGAAAGGAGAACGGAAAAACCGCTT 5 31 1 AAAGGACGGA 0.734213 -136 GACCAGCCAAAAGGGAATCTGGCTTGGTGGCAG 5 135 0 AAGGGATGGC 0.950044 -32 GATCAGTAATAAGGGAAAATGTACAGGAGGAAT 6 110 1 AAGGGATGTA 0.876283 -30 TAGAAATAAAAAAGGACTTTGTTCTCGACATCG 9 11 1 AAAGGATGTT 0.912607 -271 TGCAGATAAAAAAGGACGATGTCGAGAACAAAG 9 27 0 AAAGGATGTC 0.973691 -255 TGTTGTGTAAAAGGGCAAATGTAAACGGTTAAA 11 135 1 AAGGGCTGTA 0.765231 -104 CTTTAAGTTAAAAGGAGAATGATAAAA 12 81 1 AAAGGATGAT 0.622097 -17 CATTGATTATAAAGGAATATATCGAAAAAAGAA 15 200 0 AAAGGATATC 0.692579 -101 GTATAGAAAAAAAGGAGGCTTTCAAG 16 145 1 AAAGGATTTC 0.692572 -16 TCAGGATGAAAAAGGCGGATGGTTCGACCGGTT 17 243 1 AAAGGCTGGT 0.853809 -58 GGTGTAAACAACAGGAGGATGGCAT 18 88 1 ACAGGATGGC 0.867748 -15 TCTTTCAAAAAAAGGAGTGTGGAAACG 20 284 1 AAAGGATGGA 0.953183 -17 ****** **** Masking position 1 Map Score: 8.82008 Number of sites scoring better than the average of aligned sites = 353 Number in coding regions = 286 Number in noncoding regions = 67 Number of orfs with sites within 600 bp upstream = 67 Fraction of orfs with sites within 600 bp upstream = 0.0107613 Motif number 12 TCTTCGACGGTTTCTGCCTTGATATTCGTT 1 187 0 TTTCTGCCTT 0.784095 -114 TGTCCTCTTATTTATGATTGCTTTCATTTG 4 64 0 TTTATGATTG 0.449448 -237 CGGTTTTTCCGTTCTCCTTTCATTTCTGAT 5 31 0 GTTCTCCTTT 0.705787 -136 ATACTGGGCATTTATGCTTATCGTTTGTCA 7 88 0 TTTATGCTTA 0.701656 -155 AATACTCATTTTTCTCCCTTTTACAATAAT 7 140 1 TTTCTCCCTT 0.865422 -103 TAGGTGTTTCTTTATGATTATTGTAAAAGG 7 156 0 TTTATGATTA 0.454408 -87 CCCATGTGATCTTCTCCTTTCAGCTAAAAA 9 181 1 CTTCTCCTTT 0.705787 -101 ATAAATTCAGTTTATCCTTATAACGTGTTA 11 17 1 TTTATCCTTA 0.806367 -222 TTTTATCATTCTCCTTTTAACTTAAAG 12 81 0 ATTCTCCTTT 0.61811 -17 TAACGTTACTTTTCTCACTAGGCGGAAAGG 14 35 0 TTTCTCACTA 0.657114 -43 AATATTGAAGTTTCTCATTATTTCCAAATA 16 50 1 TTTCTCATTA 0.806367 -111 TAAAACCTTTCTGATTTGGCATATGGT 17 8 1 TTTCTGATTT 0.736477 -293 TTGAGTTTATTTTATCCTTGTGTAAATATA 18 46 1 TTTATCCTTG 0.803222 -57 TTTCTCCTTGATCCGGACAG 19 175 0 TTTCTCCTTG 0.920168 -10 ********** Masking position 5 Map Score: 3.18186 Number of sites scoring better than the average of aligned sites = 1017 Number in coding regions = 842 Number in noncoding regions = 175 Number of orfs with sites within 600 bp upstream = 203 Fraction of orfs with sites within 600 bp upstream = 0.0326052 Motif number 13 CTTGACCAACGGGCCAAACAAATATGGTAGC 1 24 0 GGGCCAAACA 0.857349 -277 CTTGGTAAAGGGGCCAATGGAATT 3 75 1 GGGCCAATGA 0.979963 -14 TGAAGCGATTGCGCAAATGAAAGCAATCATA 4 51 1 GCGCAAATGA 0.968587 -250 TCAGTAATAAGGGAAAATGTACAGGAGGAAT 6 112 1 GGGAAAATGA 0.901246 -28 AAAATTGGGTGCGCAAAAGAACGAGAATGAA 11 91 0 GCGCAAAAGA 0.942941 -148 TTGTGTAAAAGGGCAAATGTAAACGGTTAAA 11 137 1 GGGCAAATGA 0.983331 -102 ********* * Masking position 6 Map Score: 0.818638 Number of sites scoring better than the average of aligned sites = 117 Number in coding regions = 109 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 14 CTCCGCCGCTACCATATTTGTTTGGCCCGTT 1 17 1 ACCATTTTGT 0.545484 -284 GGGTTCGAATCCCGTACGGGTCATCCTAACA 1 89 1 CCCGTCGGGT 0.931771 -212 GCATAAATGCCCAGTATTTGTCGTTTGATAC 7 101 1 CCAGTTTTGT 0.839966 -142 GAATGAACTTCCCGTTTTTTTCCCTCAATCA 11 67 0 CCCGTTTTTT 0.913364 -172 GTGTTAGTACGCCGTGCTTGTCAGATGACAA 12 13 1 GCCGTCTTGT 0.952879 -85 ATATCATACAACCGTACTTGTCATCTGACAA 12 30 0 ACCGTCTTGT 0.960089 -68 TATCATCCAGCCCGTCCATTTTACAACGAAT 15 255 0 CCCGTCATTT 0.787772 -46 TGATCTACTCCCCGTTTTGGTAAAAAAAGAT 17 277 0 CCCGTTTGGT 0.963193 -24 GAAAGATAGTCCCGTTCTTGTTGTGATTCCT 20 111 1 CCCGTCTTGT 0.990583 -190 ***** ***** Masking position 5 Map Score: 2.58689 Number of sites scoring better than the average of aligned sites = 165 Number in coding regions = 141 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 15 ATTCTCAGATTCATATATTCCCATCTTCGCC 2 38 0 TCATATATCC 0.942055 -47 GATTCATAACCTCCCGCTTTATAT 7 4 1 TCATAACTCC 0.9223 -239 TCAATACCTCATATCGTACATAACGAACA 10 44 0 TCATATCTAC 0.968353 -19 CTTCACAATATTATATCATACAACCGTACTT 12 42 0 TTATATCTAC 0.825588 -56 CTCATATCCTCCTGTAAATCTA 15 289 0 TCATATCTCC 0.979639 -12 TTTTTAACAATCATATAATACTTTATCCATT 19 57 0 TCATATATAC 0.911811 -128 ******* *** Masking position 5 Map Score: 0.579443 Number of sites scoring better than the average of aligned sites = 38 Number in coding regions = 28 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802