AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00450_bsub_reg_300.orf -o00450_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 metS 300 methionyl-tRNA synthetase #2 spoIIE 300 serine phosphatase #3 yabS 84 similar to hypothetical proteins #4 yabT 88 yabT #5 yacA 103 similar to cell-cycle protein #6 ftsH 97 cell-division protein and general stress protein (class III heat-shock) #7 yacB 194 similar to hypothetical proteins #8 yacC 85 similar to hypothetical proteins #9 yacD 46 similar to protein secretion PrsA homolog #10 cysK 75 cysteine synthetase A #11 yitA 300 similar to sulfate adenylyltransferase #12 yjcI 300 similar to cystathionine gamma-synthase #13 ggt 184 gamma-glutamyltranspeptidase #14 yrhA 64 similar to cysteine synthase #15 yrrT 192 yrrT #16 ytkP 148 similar to cysteine synthase #17 metK 300 S-adenosylmethionine synthetase #18 yvgR 170 similar to sulfite reductase #19 yvgS 197 yvgS #20 yvgT 186 similar to hypothetical proteins #21 yvgV 119 similar to hypothetical proteins #22 yvgW 159 similar to heavy metal-transporting ATPase #23 yvgX 80 similar to heavy metal-transporting ATPase #24 yvgY 73 similar to mercuric transport protein #25 yvgZ 127 similar to hypothetical proteins Motif number 1 CCTAACAAATCGGTTTCTCTTGCAGAAGCC 2 113 1 CGGTTTCTCT 0.959728 -188 TTGCAGAAGCCGATTTTTTTCATTTTTAGA 2 132 1 CGATTTTTTT 0.800329 -169 TTCGCTTTCTTTCTAAAAAAAC 7 3 1 CGCTTTCTTT 0.936559 -192 CGTCAGCCGGCAGTTTTTTTAGAAAGAAAG 7 15 0 CAGTTTTTTT 0.857066 -180 CTGACGCTGGCAGTTTTTTTATGTAAATGA 7 39 1 CAGTTTTTTT 0.857066 -156 ACTTCCTACGCGGTTTCTTTCATAAATCAA 8 49 0 CGGTTTCTTT 0.963882 -37 AGGGGTTTAACGCTTCTTCTTATCTTCCAA 12 230 0 CGCTTCTTCT 0.903669 -71 AGCGTTAAACCCCTTCTTCTTATGAAGAAG 12 246 1 CCCTTCTTCT 0.694073 -55 GTGCATAATGCCGTTTTTCTGTGCAGAATT 13 76 0 CCGTTTTTCT 0.923456 -109 ACGTTCTCCTCCGTTTTTCTCTAAAAACAA 14 21 1 CCGTTTTTCT 0.923456 -44 GCCCAGCAACCGGTTTCTCTGTTATTTATT 17 43 1 CGGTTTCTCT 0.959728 -258 TCGATGGAAAAGGTTTTTTTATTTCATAAA 17 172 1 AGGTTTTTTT 0.722931 -129 ACTTCGAAATCGGTTTTTTTGCTA 19 5 0 CGGTTTTTTT 0.982414 -193 GAAGTGAAATCGGTTTTTTTCTGCATAATA 19 30 1 CGGTTTTTTT 0.982414 -168 CATACGCGGGCGCTTTTTTTG 20 2 0 CGCTTTTTTT 0.968654 -185 GTATGCCGGGCGCTTTTTTAATTTCGCAAA 20 27 1 CGCTTTTTTA 0.700473 -160 AATTGCGATCCGCTTCTTTTTTAATTTTAA 21 83 1 CGCTTCTTTT 0.913083 -37 GGCTATATGCCGGTTTTTGTTTTTCATTGA 22 17 1 CGGTTTTTGT 0.90557 -143 ********** Masking position 5 Map Score: 25.9845 Number of sites scoring better than the average of aligned sites = 562 Number in coding regions = 461 Number in noncoding regions = 101 Number of orfs with sites within 600 bp upstream = 104 Fraction of orfs with sites within 600 bp upstream = 0.0167041 Motif number 2 TTGTCGTATATAATCAAATGAAATAAAAAACTTTG 1 61 0 TAAATGAAAA 0.864587 -240 TAAAAATCTTTAATGAAAATAAAAAAAGTCTGTTC 1 106 0 TAAAATAAAA 0.943053 -195 TGAAAAAGAATAATTAAAATTAAAAATCTTTAATG 1 126 0 TAAAATTAAA 0.698612 -175 CGGAATGTTGTCTAAAAATGAAAAAAATCGGCTTC 2 137 0 TAAATGAAAA 0.864555 -164 TCAGCCCCTTTTCTCAAATTAAAAACCCGCTAAAG 9 14 0 TAAATTAAAA 0.930086 -33 CCTCCACCTCTCACGATAAGAAATATCGATTTCAA 12 110 0 TATAAGAAAA 0.646939 -191 ACACCTTCCCTTTTCAAAATAAAAACCCCTTCTTC 12 269 0 TAAAATAAAA 0.938969 -32 CTCACTCAGTTGAACATAATAAATAACAGAGAAAC 17 55 0 TATAATAAAA 0.793199 -246 AATTGGCATATTTATGAAATAAAAAAACCTTTTCC 17 177 0 TGAAATAAAA 0.650288 -124 GGTTTTTTTCTGCATAATATAAATAACCCAAACCT 19 41 1 TAATATAAAA 0.556034 -157 TATAATTGGATACATATATTAAATATATGATGCAA 19 122 0 TATATTAAAA 0.755321 -76 GGACATGAGTTTGCGAAATTAAAAAAGCGCCCGGC 20 31 0 TAAATTAAAA 0.930384 -156 CTAGAGGTCGTCAGAAAATTTAACAAACATAAAAG 20 150 1 TAAATTTAAA 0.654308 -37 AGCGCTTGTCTTGTTAAAATAAAGAAGTGGGTCAA 21 50 1 TAAAATAAAA 0.939419 -70 CACCTCATCGTTTTAAAATTAAAAAAGAAGCGGAT 21 90 0 TAAATTAAAA 0.827643 -30 TATGCTCATATATATAAAATAAATACAATACTCAT 22 95 1 TAAAATAAAA 0.939419 -65 CTGGGGGGTATATAAAAATGAAAGAAATATCGCGC 23 36 0 TAAATGAAAA 0.864555 -45 AGGATGAAAATAGAAAGAATAAACAGGAGGAATTG 24 47 1 TAGAATAAAA 0.692296 -27 * ******** * Masking position 1 Map Score: 18.1091 Number of sites scoring better than the average of aligned sites = 392 Number in coding regions = 280 Number in noncoding regions = 112 Number of orfs with sites within 600 bp upstream = 118 Fraction of orfs with sites within 600 bp upstream = 0.0189528 Motif number 3 TCCTCTCATCTCCCACCTGTTATATTCG 2 283 0 TCTCCCACCT 0.612494 -18 TAACACTTTCAACCCCTCCAAGCAAAGAAG 5 38 0 AACCCCTCCA 0.756262 -66 TCCTTACCTCCTCCCACAGTAAGCA 6 83 0 ACCTCCTCCC 0.672834 -15 ACCTGCTTTCAGCCCCTTTTCTCAAATTAA 9 27 0 AGCCCCTTTT 0.62374 -20 TCTAAGGGCCAGTCCCTCCACCTCTCACGA 12 129 0 AGTCCCTCCA 0.783193 -172 AGAAGCGTTAAACCCCTTCTTCTTATGAAG 12 243 1 AACCCCTTCT 0.911336 -58 TCAAAATAAAAACCCCTTCTTCATAAGAAG 12 261 0 AACCCCTTCT 0.911336 -40 ATAGCAGTCCCTTCTTAATCCGTAT 13 6 1 AGTCCCTTCT 0.92288 -179 GTTCTCCCTCCTATATGAAGCT 13 173 0 TCTCCCTCCT 0.954308 -12 ATATGTCCTCCTCCTTAATAGAGGT 14 50 0 TCCTCCTCCT 0.801305 -15 CCGTCTGACACTCCCTTCTTTGACAGCTA 16 10 1 ACTCCCTTCT 0.976732 -139 TACGGAACTCGCTCCCTCTTATACAATGTA 17 232 0 GCTCCCTCTT 0.750696 -69 GATTTGCTTCCTCCTGCACAAGGCC 17 286 0 GCTTCCTCCT 0.807589 -15 AAAGAGAAGGACTCCCTTCTCT 18 3 0 ACTCCCTTCT 0.976732 -168 TCTGATGACTCCCTTTTATGTTTGTTA 20 170 0 ACTCCCTTTT 0.84863 -17 ATCGCAATTGACCCACTTCTTTATTTTAAC 21 62 0 ACCCACTTCT 0.791995 -58 ACTCACTCCTTTATATACAC 23 71 0 ACTCACTCCT 0.880159 -10 ATCAATTCCTCCTGTTTATTCTT 24 61 0 AATTCCTCCT 0.786818 -13 ********** Masking position 6 Map Score: 16.3118 Number of sites scoring better than the average of aligned sites = 508 Number in coding regions = 304 Number in noncoding regions = 204 Number of orfs with sites within 600 bp upstream = 217 Fraction of orfs with sites within 600 bp upstream = 0.0348538 Motif number 4 ATATAATCAAATGAAATAAAAAACTTTGGTTC 1 57 0 AAAATAAAAA 0.69959 -244 AAATCTTTAATGAAAATAAAAAAAGTCTGTTC 1 106 0 TAAATAAAAA 0.942669 -195 AAAGAATAATTAAAATTAAAAATCTTTAATGA 1 125 0 TAATTAAAAA 0.780455 -176 GAATGTTGTCTAAAAATGAAAAAAATCGGCTT 2 138 0 TAAATGAAAA 0.84825 -163 TAGAAAATCATTCCAATACAAACAATAACCAT 6 30 0 TCAATACAAA 0.80356 -68 GAGCCAATCATTTACATAAAAAAACTGCCAGC 7 44 0 TACATAAAAA 0.648383 -151 GCCCCTTTTCTCAAATTAAAAACCCGCTAAAG 9 14 0 TAATTAAAAA 0.780455 -33 ATATACATAATACCAATACAAATAGTCGGAAA 10 40 1 TCAATACAAA 0.80356 -36 CTTGGCGCTTTGCAAATGCAAAACAAGCCGGT 12 169 0 TAAATGCAAA 0.686109 -132 CCTTCCCTTTTCAAAATAAAAACCCCTTCTTC 12 269 0 TAAATAAAAA 0.942669 -32 GCTATTATTTTATCAATAAAGAGGCTGTGCGG 16 36 1 TCAATAAAGA 0.696209 -113 TGGCATATTTATGAAATAAAAAAACCTTTTCC 17 177 0 AAAATAAAAA 0.69959 -124 CTATGCTTCATGTAAATAGAAAAAAGAGAAGG 18 23 0 TAAATAGAAA 0.815297 -148 GCTTGTCTTGTTAAAATAAAGAAGTGGGTCAA 21 53 1 TAAATAAAGA 0.782713 -67 CTCATCGTTTTAAAATTAAAAAAGAAGCGGAT 21 90 0 TAATTAAAAA 0.780455 -30 TCCAAGAAAGTGTCAATGAAAAACAAAAACCG 22 27 0 TCAATGAAAA 0.780518 -133 CCGTAGGGTATTACAATAAAAAACGCT 24 6 0 TCAATAAAAA 0.912746 -68 TATGGTAGGATGAAAATAGAAAGAATAAACAG 24 41 1 TAAATAGAAA 0.815298 -33 * ********* Masking position 7 Map Score: 13.9566 Number of sites scoring better than the average of aligned sites = 426 Number in coding regions = 267 Number in noncoding regions = 159 Number of orfs with sites within 600 bp upstream = 180 Fraction of orfs with sites within 600 bp upstream = 0.028911 Motif number 5 ATTCTGATTAGGAGGTTTCAAG 1 289 1 GGAGGTTTCA 0.940971 -12 GCCGTGAAAGGGCGGTGTCTTAACCGCTTG 2 51 0 GGCGGTGTCT 0.97124 -250 AGAAATCTTCGACGGTTTCTGCCTTGATAT 2 192 0 GACGGTTTCT 0.785447 -109 ACACTTCCTACGCGGTTTCTTTCATAAATC 8 51 0 CGCGGTTTCT 0.802806 -35 GAAGTGTATAGGAGGTTTAGTA 8 74 1 GGAGGTTTAG 0.804751 -12 AGTCGGAAATTGAGGTGTCGAGA 10 63 1 TGAGGTGTCG 0.961022 -13 AGCCGGTTGCTGAGGTTTCTAAGGGCCAGT 12 146 0 TGAGGTTTCT 0.906958 -155 TTTGAAAAGGGAAGGTGTCAGCTAT 12 286 1 GAAGGTGTCA 0.814628 -15 ACTATTTTCTGGAGGTGCCGTTC 19 185 1 GGAGGTGCCG 0.940082 -13 TTTAAAACGATGAGGTGTCGGA 21 108 1 TGAGGTGTCG 0.961022 -12 ********** Masking position 6 Map Score: 4.94216 Number of sites scoring better than the average of aligned sites = 298 Number in coding regions = 232 Number in noncoding regions = 66 Number of orfs with sites within 600 bp upstream = 63 Fraction of orfs with sites within 600 bp upstream = 0.0101189 Motif number 6 TCGGCAGCCTGCTTCCGAGA 6 1 1 TCGGCAGCCT 0.852679 -97 AAAAAAACTGCCGGCTGACGCTGGCAGTTT 7 25 1 CCGGCTGACG 0.808672 -170 CCAGCTCTGCTTGGCACGCGCACCCTTCAA 11 180 0 TTGGCACGCG 0.745233 -121 TTTAAACGGTTCGGCACACGAAGAAAAAAG 12 34 1 TCGGCACACG 0.965188 -267 CTTAGAAACCTCAGCAACCGGCTTGTTTTG 12 153 1 TCAGCAACCG 0.929755 -148 GGTGCTAAATCCAGCAAGCGTTTTTTATGC 12 200 1 CCAGCAAGCG 0.934811 -101 TATATTAGAATCAGCATACGGATTAAGAAG 13 21 0 TCAGCATACG 0.916392 -164 CCTATGAAGCCCAGCAACCGGTTTCTCTGT 17 35 1 CCAGCAACCG 0.934811 -266 AAAAAAGCGCCCGGCATACGCGGGCGCTTT 20 16 0 CCGGCATACG 0.965309 -171 ATTTTTTGCGTCGGCATGCTTAGACAACCG 25 57 1 TCGGCATGCT 0.842808 -71 ********** Masking position 5 Map Score: 3.16556 Number of sites scoring better than the average of aligned sites = 881 Number in coding regions = 826 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084 Motif number 7 TTAAGACACCGCCCTTTCACGGCGGTAACACG 2 58 1 GCCCTTACGG 0.989206 -243 AATTCCATTGGCCCCTTTACCAAGCTGTTTAC 4 67 0 GCCCTTACCA 0.879618 -22 ATCAATTCCAGCCCTTTTAGGGTTAAGAATGG 8 22 0 GCCCTTAGGG 0.960795 -64 GCTCTTTAGCGGGTTTTTAATT 9 1 1 GCTCTTGCGG 0.883059 -46 TTTGACATCAGCGCCTTAACATCATTTCGATT 11 31 0 GCGCTTACAT 0.711733 -270 GGCGGCTACAGCCCGTTAACAGGTTTTTTGGG 11 248 1 GCCCTTACAG 0.961541 -53 GCTGGATTTAGCACCTTGGCGCTTTGCAAATG 12 183 0 GCACTTGCGC 0.824722 -118 ATCTCATATTGCGCATTGACCGCAAAAAAGCT 15 50 0 GCGCTTACCG 0.977215 -143 ATTTATAATAGCACATTCACCCAATACCAATC 19 77 0 GCACTTACCC 0.870709 -121 TCAAGGTATCGCGCCTTTAGGGAGGCGCGATA 23 12 1 GCGCTTAGGG 0.949127 -69 **** ** **** Masking position 6 Map Score: 3.77781 Number of sites scoring better than the average of aligned sites = 246 Number in coding regions = 212 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 8 CTTTCGAACCAAAGTTTTTTATTTCATTTG 1 52 1 AAAGTTTTTT 0.59381 -249 CGACACGAACAGACTTTTTTTATTTTCATT 1 100 1 AGACTTTTTT 0.653728 -201 CTCTTGCAGAAGCCGATTTTTTTCATTTTT 2 129 1 AGCCGATTTT 0.511207 -172 GCTCTTTAGCGGGTTTTTAATTTGAGA 9 8 1 AGCGGGTTTT 0.950361 -39 AAATCCAGCAAGCGTTTTTTATGCTTGGAA 12 206 1 AGCGTTTTTT 0.924879 -95 CTTATGAAGAAGGGGTTTTTATTTTGAAAA 12 264 1 AGGGGTTTTT 0.811862 -37 CCTCCTTAATAGAGGTTGTTTTTAGAGAAA 14 36 0 AGAGGTTGTT 0.671677 -29 TAAAATACACAAAGTGTTTTAGTACCTGCT 15 86 1 AAAGTGTTTT 0.517718 -107 CGTTTGTGCGAGAGTGTTTTCATACACTGT 16 76 0 AGAGTGTTTT 0.829434 -73 CCTCGATGGAAAAGGTTTTTTTATTTCATA 17 170 1 AAAGGTTTTT 0.755852 -131 TCACTTCGAAATCGGTTTTTTTGCTA 19 7 0 ATCGGTTTTT 0.800669 -191 TCGAAGTGAAATCGGTTTTTTTCTGCATAA 19 28 1 ATCGGTTTTT 0.800669 -170 ACCGGCATATAGCCGGTTTT 22 1 0 AGCCGGTTTT 0.84515 -159 AGCGTTTTTTATTGTAATAC 24 1 1 AGCGTTTTTT 0.924879 -73 ********** Masking position 1 Map Score: 7.6533 Number of sites scoring better than the average of aligned sites = 1138 Number in coding regions = 931 Number in noncoding regions = 207 Number of orfs with sites within 600 bp upstream = 174 Fraction of orfs with sites within 600 bp upstream = 0.0279473 Motif number 9 ATAAAGCTATTATCCTACTAAAAATCCTTT 1 12 1 TATCCTACTA 0.847584 -289 CCGTACGGGTCATCCTAACAAATCGGTTTC 2 100 1 CATCCTAACA 0.966689 -201 AAGATATTCATATCCTAACACTTTCAACCC 5 53 0 TATCCTAACA 0.964135 -51 TGTCATATAATATCCTAACATAATAAACGT 16 103 0 TATCCTAACA 0.964135 -46 TTTCTATTTTCATCCTACCATACCCCCGTA 24 33 0 CATCCTACCA 0.969067 -41 ********** Masking position 6 Map Score: 1.93786 Number of sites scoring better than the average of aligned sites = 19 Number in coding regions = 9 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 10 ATGGTGCAAACTGCAGAGCCTAT 5 4 1 GTGCAAACTG 0.984164 -100 GAACATAGTTGTGCTTACTGTGGGAGGAGG 6 72 1 GTGCTTACTG 0.891512 -26 AGATCACTCAGTGCAAGCTGATCCAGCTCT 11 202 0 GTGCAAGCTG 0.980944 -99 ATATTATATAGTGCATAATGCCGTTTTTCT 13 86 0 GTGCATAATG 0.837485 -99 CATATGACTTGTGAAAGCTGGAGGGTCAAG 15 13 0 GTGAAAGCTG 0.888531 -180 TAAATATATGATGCAAACTGGCAAATACAA 19 108 0 ATGCAAACTG 0.905793 -90 ********** Masking position 2 Map Score: 1.21142 Number of sites scoring better than the average of aligned sites = 63 Number in coding regions = 57 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 5 Fraction of orfs with sites within 600 bp upstream = 0.000803084 Motif number 11 GATCCCCTCCGCCGCTACCATATT 2 5 1 CCCTCCGCCG 0.989396 -296 TTAGGATGACCCGTACGGGATTCGAACCCG 2 88 0 CCGTACGGGA 0.857887 -213 CCTATACACTTCCTACGCGGTTTCTTTCAT 8 56 0 TCCTACGCGG 0.946117 -30 TGATTAATACCCCTCCGTGGGGTTCGTTTC 11 126 0 CCCTCCGTGG 0.978221 -175 TAGGGCCTGTCCCTCCGCCAGCTCGGGA 17 9 0 CCCTCCGCCA 0.969264 -292 TATTGTAATACCCTACGGGGGTATGGTAGG 24 20 1 CCCTACGGGG 0.987002 -54 ********** Masking position 4 Map Score: 1.18588 Number of sites scoring better than the average of aligned sites = 71 Number in coding regions = 48 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 12 ATGTCAAAAAGCTCCCGCCCAAAGGACGAGA 1 260 0 GCTCCCGCCA 0.988031 -41 CAACCGCTGTGATCCCGCATGCCATTTTGAA 11 154 1 GATCCCGCTG 0.846508 -147 AGTGCAAGCTGATCCAGCTCTGCTTGGCACG 11 192 0 GATCCAGCCT 0.811218 -109 ATCGCAATAAGCTCCAGATCACTCAGTGCAA 11 216 0 GCTCCAGACA 0.857211 -85 GCGATCGGCGGCTACAGCCCGTTAACAGGTT 11 242 1 GCTACAGCCG 0.831984 -59 GTCTTGACCCTCCAGCTTTCACAAGTCAT 15 9 1 CCTCCAGCTT 0.851014 -184 GCCTGTCCCTCCGCCAGCTCGGGA 17 4 0 CCGCCAGCCG 0.903797 -297 TACGGAACTCGCTCCCTCTTATACAATGTAC 17 231 0 GCTCCCTCTA 0.773738 -70 GATTTGCTTCCTCCTGCACAAGGCCTCCCG 17 281 0 CCTCCTGCCA 0.860355 -20 CAAAAAAAGCGCCCGCGTATGCCGGGCGC 20 9 1 GCGCCCGCTA 0.943365 -178 TTTTATAATCGCTCCAGCGTAAAATCAATAA 20 118 0 GCTCCAGCTA 0.975645 -69 ******** ** Masking position 5 Map Score: 4.19503 Number of sites scoring better than the average of aligned sites = 723 Number in coding regions = 681 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 13 ********** No masking Map Score: 6.6389e-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 GGTTCGAAAGTCTTGATTTAAAAGGATTTTT 1 31 0 TCTTGATTAA 0.736696 -270 ATGTATATATTCTTGATCTTAAAGGCTAAGA 1 167 1 TCTTGATTTA 0.946662 -134 CGACTATTTGTATTGGTATTATGTATATAAT 10 37 0 TATTGGTTTA 0.713518 -39 TGGCAGGTTCTTGATGTGAGAATCGAAAT 11 9 1 TCTTGATTGA 0.884145 -292 GAATTGATTATATTGATATGAGCCATGTGCT 13 50 0 TATTGATTGA 0.85045 -135 AGGTTTGGGTTATTTATATTATGCAGAAAAA 19 45 0 TATTTATTTA 0.766138 -153 ATGAAAATGTTATTGATTTTACGCTGGAGCG 20 109 1 TATTGATTTA 0.929704 -78 TCTGACGACCTCTAGATTTTATAATCGCTCC 20 134 0 TCTAGATTTA 0.692793 -53 TTGACCCACTTCTTTATTTTAACAAGACAAG 21 54 0 TCTTTATTTA 0.814691 -66 ATGAGTATTGTATTTATTTTATATATATGAG 22 99 0 TATTTATTTA 0.766139 -61 CACCTCTGTTTAATGATATTAATTCCCATTA 25 102 0 TAATGATTTA 0.626908 -26 ******* *** Masking position 11 Map Score: 4.46533 Number of sites scoring better than the average of aligned sites = 124 Number in coding regions = 106 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 15 TGATCTTAAAGGCTAAGATGGTATCATAGA 1 180 1 GGCTAAGATG 0.91045 -121 AATTTCTTCTGGCGAAGATGGGAATATATG 3 28 1 GGCGAAGATG 0.852011 -57 AAGAAGCATAGGCTCTGCAGTTTGCACCAT 5 11 0 GGCTCTGCAG 0.922628 -93 GTAAATGATTGGCTCAGCTGCGGCTTTTAC 7 61 1 GGCTCAGCTG 0.985194 -134 ATGATGTTAAGGCGCTGATGTCAAACTTTC 11 38 1 GGCGCTGATG 0.936422 -263 AAGCTGATCCAGCTCTGCTTGGCACGCGCA 11 188 0 AGCTCTGCTT 0.743887 -113 AAGCAGAGCTGGATCAGCTTGCACTGAGTG 11 198 1 GGATCAGCTT 0.743887 -103 ATGATAAAACGGCTATGCTTCATGTAAATA 18 37 0 GGCTATGCTT 0.91045 -134 ********** Masking position 7 Map Score: 0.640591 Number of sites scoring better than the average of aligned sites = 587 Number in coding regions = 544 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 34 Fraction of orfs with sites within 600 bp upstream = 0.00546097