AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00272_ecoli_reg_100.orf -o00272_ecoli_100.ace -a/home/amcguire/alignace/lib/ORF_ecoli.txt -z/skink1/amcguire/genomes/ecoli.fna -g0.51 -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 = 0.51 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 cysS 173 cysteine tRNA synthetase #2 aspC 184 aspartate aminotransferase #3 sdaA 183 L-serine deaminase #4 cysK 184 cysteine synthase A, O-acetylserine sulfhydrolase A #5 yfeK 104 orf, hypothetical protein #6 b2420 32 orf, hypothetical protein #7 cysM 23 cysteine synthase B, O-acetylserine sulfhydrolase B #8 BIME116 74 BIME #9 cysW 300 sulfate transport system permease W protein #10 cysH 21 3'-phosphoadenosine 5'-phosphosulfate reductase #11 cysJ 300 sulfite reductase (NADPH), flavoprotein beta subunit #12 sdaC 300 probable serine transporter #13 sdaB 57 L-serine dehydratase (deaminase), L-SD2 #14 metC 103 cystathionine beta-lyase (beta-cystathionase) #15 yhaP 119 putative L-serine dehydratase #16 yhaQ 65 putative L-serine dehydratase #17 tdcE 33 probable formate acetyltransferase 3 #18 tdcC 21 anaerobically inducible L-threonine, L-serine permease #19 tdcB 98 threonine dehydratase, catabolic #20 tdcA 188 transcriptional activator of tdc operon #21 cysE 79 serine acetyltransferase #22 secB 62 protein export; molecular chaperone; may bind to signel sequence #23 grxC 141 glutaredoxin 3 #24 metB 276 cystathionine gamma-synthase Motif number 1 AGATGGAATAAGGGGCGGCATAAGCCACCCCTGTTTCAC 4 42 0 AGCGGCACCC 0.770638 -143 ATGTTAAACGCCCGGAGGCGCTTCCCGCGATCCGGGCTT 8 23 1 CCAGGCTCCG 0.951745 -52 GCAGCATGTCCGGATCGGCCAGATTCTGTAAAACCGGCA 9 36 0 CGCGGCACGT 0.862434 -265 CCAGGTTTACCGGTACGGCAATCAGCGCGATCATCACCG 9 90 0 CGCGGCCCCG 0.996466 -211 GGTAAACCTGGTGTTCGGCATTCTGCTGGCCTGGCTGGT 9 118 1 GGCGGCCCGG 0.951319 -183 GCAAATACACCAGACCGGCAACCACCGGCGATACGGCAA 9 213 0 CGCGGCCCGC 0.971058 -88 CTCTAACGGCCCGCTCGGCGGTTGGCTCGACGAGCATAA 9 262 1 CGCGGCTCCG 0.997995 -39 CTTTCCGGTACTCTACGGCGGTTTTATCG 11 1 0 CCCGGCTACG 0.96487 -300 CGTAGAGTACCGGAAAGGCTGTTTTTTCGCATTATCTAA 11 23 1 CGAGGCTTCG 0.96042 -278 TTCATTTTTACGGTCAGGCACCTTCCCGGGCTGAACTGG 12 233 1 CGAGGCTCGG 0.976819 -68 CGCGCCGCTTTCGGGCGGCGCTTCCTCCGTTTTAACGCG 13 18 1 TGCGGCTTCG 0.880961 -40 CGAAGAAGAACACTTCGGCCTGTCGCACGATGTCGAAAC 15 48 1 CCCGGCTCCG 0.99065 -72 TGAAGTGGAGCGGAACGACCTTACGACCGTCCCGCTCAC 16 17 0 CGCGACAACG 0.738771 -49 CTCCACTTCACTGAACGGCAATCCGAGGGT 16 46 1 CGCGGCCAGG 0.983695 -20 CGATGAGATAATGACCGGCCCGTTCTGCGCGGGCCGGGT 21 38 0 AGCGGCTTCG 0.928826 -42 TTTCATGTTGCAGGGCGGCAGCAAAATGGAGTGTCCCCA 23 84 0 CGCGGCAAGG 0.968489 -58 ACGGTAACGCCTGTACGGTAAACTATGCGGGTTTACGGT 24 73 0 CGCGGTCTCG 0.912242 -204 CATTATCACGCCGACAGGTGCATTACACGATGTCACGGT 24 107 0 CGAGGTTCCG 0.891466 -170 * * **** * * ** Masking position 7 Map Score: 27.1092 Number of sites scoring better than the average of aligned sites = 1778 Number in coding regions = 1728 Number in noncoding regions = 50 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 2 TTAAATGCCGAAAAAACAGGACTTTGGTCC 2 26 1 AAAAAACAGG 0.97324 -159 GAAGGTATAAAAAAAACAGGACCAAAGTCC 2 44 0 AAAAAACAGG 0.97324 -141 TCACGTCTTGCAAAAACAGCCTGCGTTTTC 2 84 1 CAAAAACAGC 0.954704 -101 TTAAACTAATCAAAAACCGCGATTTAACTA 3 64 0 CAAAAACCGC 0.877529 -120 AACCGTTTGTGTGAAACAGGGGTGGCTTAT 4 32 1 GTGAAACAGG 0.734715 -153 TGAAATTGGGATACAACAGGTAGCATACCC 4 147 0 ATACAACAGG 0.725019 -38 ATTTGACTGCCAGAATCAGGTAAAGTTTCG 5 53 0 CAGAATCAGG 0.753605 -52 GCCAGATTCTGTAAAACCGGCATCAGCCCC 9 28 0 GTAAAACCGG 0.734715 -273 CGATAAAACCGCCGTAGAGTAC 11 3 1 ATAAAACCGC 0.849364 -298 AGATAATGCGAAAAAACAGCCTTTCCGGTA 11 30 0 AAAAAACAGC 0.962493 -271 AATCATTAAGATAAATCAGCGATTTTGCGC 11 74 0 ATAAATCAGC 0.833209 -227 AAGACTATTGCTAAAACAGGTTAGTCGATT 11 154 1 CTAAAACAGG 0.950755 -147 GTCAGCGCCCATAAAACAGAAGAGAAGGTA 11 240 0 ATAAAACAGA 0.649388 -61 TGACAGGGCGCAGAAACAGCTTTGCTTACT 11 266 1 CAGAAACAGC 0.877529 -35 TCCAGACGTATAAAAACAGGAATCCCGAC 14 85 1 TAAAAACAGG 0.822099 -19 TTTTTTTGACAAAAATCAGGGTTTATGCTG 20 11 1 AAAAATCAGG 0.916346 -178 GTTAAAGTATAAAAATCAGCATAAACCCTG 20 27 0 AAAAATCAGC 0.88544 -162 TTTCAGGGTAAAAAAACAGGAGCTAATTT 23 123 1 AAAAAACAGG 0.97324 -19 ********** Masking position 5 Map Score: 24.4356 Number of sites scoring better than the average of aligned sites = 561 Number in coding regions = 441 Number in noncoding regions = 120 Number of orfs with sites within 600 bp upstream = 117 Fraction of orfs with sites within 600 bp upstream = 0.0187922 Motif number 3 ATGCTGATTCGCGCGGGAAATATGGGTATT 1 111 1 GCGCGGGAAA 0.905037 -63 ACGTGAGATTGCTCTGGAAGGTATAAAAAA 2 60 0 GCTCTGGAAG 0.745529 -125 AAAGCCCGGATCGCGGGAAGCGCCTCCGGG 8 33 0 TCGCGGGAAG 0.965555 -42 CGCTTTAACTTCCCTGGACGCCAGTTACTG 9 161 1 TCCCTGGACG 0.782227 -140 GCCAACCGCCGAGCGGGCCGTTAGAGCCGT 9 258 0 GAGCGGGCCG 0.985747 -43 CGCCGTAGAGTACCGGAAAGGCTGTTTTTT 11 20 1 TACCGGAAAG 0.539872 -281 TGTTTTATGGGCGCTGACAGGGCGCAGAAA 11 252 1 GCGCTGACAG 0.877148 -49 TTGCGCGCCCCGGAAGAAGTCAGATG 12 7 1 GCCCCGGAAG 0.942872 -294 AATAATTTGAGGGCGGAAAGATACACACAA 12 165 0 GGGCGGAAAG 0.849715 -136 AGCCAGTTCAGCCCGGGAAGGTGCCTGACC 12 244 0 GCCCGGGAAG 0.987146 -57 AACGGAGGAAGCGCCGCCCGAAAGCGGCGC 13 19 0 GCGCCGCCCG 0.830551 -39 AGCCTCGTGAGCGGGACGGTCGTAAGGT 16 9 1 GAGCGGGACG 0.988264 -57 CAGTGAAGTGGAGCGGAACGACCTTACGAC 16 29 0 GAGCGGAACG 0.956196 -37 GGCCCGTTCTGCGCGGGCCGGGTCATAGCG 21 31 0 GCGCGGGCCG 0.994905 -49 GGCCCGCGCAGAACGGGCCGGTCATTATCT 21 42 1 GAACGGGCCG 0.858001 -38 ********** Masking position 6 Map Score: 18.285 Number of sites scoring better than the average of aligned sites = 1926 Number in coding regions = 1838 Number in noncoding regions = 88 Number of orfs with sites within 600 bp upstream = 93 Fraction of orfs with sites within 600 bp upstream = 0.0149374 Motif number 4 GAAGGGAAGTCCGCTATCAGGGTAACGGGAGATTTACAAAATT 2 129 0 CGCAGGCGAT 0.980831 -56 ACAGCGCATAGTGTAAGAGGGAACGCGGCGACTGGCTTAACTA 3 104 0 GGTAGGCGCT 0.951011 -80 CAATCTACCGGTTATTTTGTAAACCGTTTGTGTGAAACAGG 4 9 1 CGTATGCGGT 0.980898 -176 CGGCCAGATTCTGTAAAACCGGCATCAGCCCCTTGCTGAATGC 9 17 0 CGTACGCGCT 0.900101 -284 TCATCACCGTCAGCCAGATGGCGTGCAGCATGTCCGGATCGGC 9 56 0 CGCAGGCGGT 0.996633 -245 CGGCAACCACCGGCGATACGGCAAACGGAATGTCCAGTAGCGT 9 194 0 CGCAGGCGGT 0.996633 -107 TATGCTCGTCGAGCCAACCGCCGAGCGGGCCGTTAGAGCCGTA 9 257 0 GGCAGCCGGT 0.900452 -44 AGGTGCCTGACCGTAAAAATGAAATCTGTCTATCGGCGATGGC 12 213 0 CGTATGCGAT 0.898755 -88 GTAAAACCTATTACTCTGTCGGCGGCGGGTTTATTGTCGA 15 8 1 CATATGCGGT 0.771807 -112 AGCAGTTCACCTGCTGAGTGGAAATCGTAAGGTACGGACGTTT 15 83 0 CGCGGGCTGT 0.907763 -37 AGCCTCGTGAGCGGGACGGTCGTAAGGTCGTTCCGCTCCAC 16 9 1 GGCGGGAGGT 0.754959 -57 AGGCCGTTAGCTGCAATTAGGCCCCCAGCGACTTATTGTTATA 23 35 1 CGCAGGCGCT 0.9914 -107 CCAGACCACACAGTTGATGTGGGTACTGACCGTAAACCCGCAT 24 45 1 CGTGTGCGGT 0.962857 -232 * ** * ** * * ** Masking position 23 Map Score: 11.1623 Number of sites scoring better than the average of aligned sites = 935 Number in coding regions = 900 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912 Motif number 5 ATCAAACGGAACAGGATGCAAAA 1 3 0 ACAGGATGAA 0.945109 -171 TATAAAAAAAACAGGACCAAAGTCCTGTTTT 2 38 0 ACAGGACCAA 0.930255 -147 CATTATGGTTACAGAAGGGAAGTCCGCTATC 2 154 0 ACAGAAGGAA 0.981781 -31 ATATCTATATACAGAAGGGAAATAATGACAT 4 84 0 ACAGAAGGAA 0.981781 -101 GAAGGCATTTACAGGAGGTAAC 6 21 1 ACAGGAGGAA 0.991095 -12 CGCCCATAAAACAGAAGAGAAGGTAAGGTTA 11 234 0 ACAGAAGAAA 0.911708 -67 GGGTAAAAAAACAGGAGCTAATTT 23 128 1 ACAGGAGCAA 0.9831 -14 ******** ** Masking position 6 Map Score: 7.03567 Number of sites scoring better than the average of aligned sites = 29 Number in coding regions = 16 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 6 AAGGGAAGTCCGCTATCAGGGTAACGGGAGATTTACA 2 134 0 CCTGTAACGG 0.981391 -51 AGGCATTCAGCAAGGGGCTGATGCCGGTTTTACAGAA 9 15 1 CAGGTGCCGG 0.815277 -286 ACATGCTGCACGCCATCTGGCTGACGGTGATGATCGC 9 66 1 CCTGTGACGG 0.983895 -235 GCATTCTGCTGGCCTGGCTGGTGACGCGCTTTAACTT 9 135 1 GCGGTGACGC 0.913268 -166 TCCCTGGACGCCAGTTACTGCTGACGCTACTGGACAT 9 171 1 CATGTGACGC 0.965461 -130 GGCAACCACCGGCGATACGGCAAACGGAATGTCCAGT 9 199 0 GCTGAAACGG 0.828523 -102 GCGCAACAAAGTCGTTTTAGATAATGCGAAAAAACAG 11 41 0 GCTGTAATGC 0.654589 -260 AAACAGAAGAGAAGGTAAGGTTAACGGGGCAAACGGT 11 220 0 GATGTAACGG 0.970469 -81 TGTCTGTCTTGCAGGTGTCGGTTACGGTTACCTACAT 19 45 1 GATGTTACGG 0.854847 -54 CGCTGGGGGCCTAATTGCAGCTAACGGCCTGCATCAT 23 28 0 CATGTAACGG 0.974471 -114 TCTGGGGACACTCCATTTTGCTGCCGCCCTGCAACAT 23 82 1 CCTGTGCCGC 0.924419 -60 GTGCATTACACGATGTCACGGTAACGCCTGTACGGTA 24 92 0 CATGTAACGC 0.960301 -185 GCGTGATAATGCATATAATTTTAACGGCTATTTGGGA 24 135 1 GATTTAACGG 0.683997 -142 * * * * ****** Masking position 16 Map Score: 8.63606 Number of sites scoring better than the average of aligned sites = 838 Number in coding regions = 797 Number in noncoding regions = 41 Number of orfs with sites within 600 bp upstream = 46 Fraction of orfs with sites within 600 bp upstream = 0.00738837 Motif number 7 GCGCGAATCAGCATACATTGCGTGATGATCCG 1 93 0 GCATACTTGG 0.908294 -81 CGGTTATTTTGTAAACCGTTTGTGTGAAACAG 4 19 1 GTAAACGTTG 0.926933 -166 CCAGAATCAGGTAAAGTTTCGGTTGGATTACG 5 42 0 GTAAAGTTCG 0.786079 -63 TGCCGTACCGGTAAACCTGGTGTTCGGCATTC 9 109 1 GTAAACTGGG 0.912558 -192 AAGGCAAACAGTGAGGAATCT 10 4 1 GCAAACGTGG 0.978665 -18 GGTTAACGGGGCAAACGGTGTGGATTAAAGAC 11 207 0 GCAAACGTGG 0.978665 -94 GATTTACAGAGTAAAGCGTTGGGATAATCTAT 12 81 1 GTAAAGGTTG 0.849111 -220 CGCCTGTACGGTAAACTATGCGGGTTTACGGT 24 73 0 GTAAACATGG 0.925069 -204 ACTTCTTTGCGTATAGATTGAGCAAATCCCAA 24 166 0 GTATAGTTGG 0.860564 -111 AGGCACCAGAGTAAACATTGTGTTAATGGACG 24 219 0 GTAAACTTGG 0.980408 -58 ****** *** * Masking position 5 Map Score: 5.76244 Number of sites scoring better than the average of aligned sites = 232 Number in coding regions = 214 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 8 GTGATGATCCGATCGTGCGGTTATGCTATA 1 74 0 GATCGTGCGG 0.919868 -100 AATCAGCATACATTGCGTGATGATCCGATC 1 90 0 CATTGCGTGA 0.916765 -84 AATAACAGCGCATAGTGTAAGAGGGAACGC 3 121 0 CATAGTGTAA 0.559416 -63 AAAAAGCCCGGATCGCGGGAAGCGCCTCCG 8 35 0 GATCGCGGGA 0.823893 -40 TGACGGTGATGATCGCGCTGATTGCCGTAC 9 87 1 GATCGCGCTG 0.856839 -214 AGGAAATACATCGCGTTAAAACGGAGGA 13 40 0 CATCGCGTTA 0.938076 -18 GACGTTTCGACATCGTGCGACAGGCCGAAG 15 60 0 CATCGTGCGA 0.969244 -60 GTCATTATCTCATCGTGTGGAGTAAGCA 21 62 1 CATCGTGTGG 0.964535 -18 GTTGGCATTACATTGCGCAGTATTTAAGGA 22 20 1 CATTGCGCAG 0.813502 -43 GTTACCGTGACATCGTGTAATGCACCTGTC 24 104 1 CATCGTGTAA 0.919161 -173 CCAGAGTAAACATTGTGTTAATGGACGTCA 24 216 0 CATTGTGTTA 0.762369 -61 ********** Masking position 2 Map Score: 4.94974 Number of sites scoring better than the average of aligned sites = 920 Number in coding regions = 870 Number in noncoding regions = 50 Number of orfs with sites within 600 bp upstream = 57 Fraction of orfs with sites within 600 bp upstream = 0.00915516 Motif number 9 CGGCATTTAACAAAGAGGTGTGCTA 2 6 0 CAAAGAGGTG 0.814771 -179 GGTTGGATTACGATGAGGATCATCGGCAAG 5 24 0 CGATGAGGAT 0.96029 -81 GGTTTATTGTCGAAGAAGAACACTTCGGCC 15 38 1 CGAAGAAGAA 0.78527 -82 TTAATTCGTTGAGGATAGGAT 18 7 1 CGTTGAGGAT 0.792193 -15 TTAATTCAGGCGAAGAGGTTTTATA 19 84 1 CGAAGAGGTT 0.973479 -15 TTCATGCCGTCAATGAGGTAATTAACGTAG 20 163 1 CAATGAGGTA 0.85889 -26 TTACTCCACACGATGAGATAATGACCGGCC 21 57 0 CGATGAGATA 0.645474 -23 AATTTATTGACGAAGAGGATTAAGTATCTC 24 11 0 CGAAGAGGAT 0.967525 -266 AATCTATACGCAAAGAAGTTTAGATGTCCA 24 179 1 CAAAGAAGTT 0.703164 -98 ********** Masking position 6 Map Score: 3.21252 Number of sites scoring better than the average of aligned sites = 299 Number in coding regions = 265 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405 Motif number 10 CTGACAAGGTGACTGGACTTCCAGTAACGAACTA 3 150 0 GTGACTCCAG 0.994484 -34 TGTGATAGCCGATTTGACTGCCAGAATCAGGTAA 5 60 0 GTGACGCCAG 0.99332 -45 AAGTTAAAGCGCGTCACCAGCCAGGCCAGCAGAA 9 138 0 GTACCGCCAG 0.890318 -163 ATTCATGCTAGTTTAGACATCCAGACGTATAAAA 14 66 1 GTGACTCCAG 0.994484 -38 AGGTACGGACGTTTCGACATCGTGCGACAGGCCG 15 63 0 GTGACTCGTG 0.805052 -57 ACCCTCGGATTGCCGTTCAGTGAAGTGGAG 16 46 0 GTGCCTTCAG 0.945514 -20 TAAACTATGCGGGTTTACGGTCAGTACCCACATC 24 60 0 GTTACGTCAG 0.765809 -217 ACGCAAAGAAGTTTAGATGTCCAGATGTATTGAC 24 186 1 GTGATTCCAG 0.946452 -91 ATGTCCAGATGTATTGACGTCCATTAACACAATG 24 202 1 GTGACTCCAT 0.946452 -75 * * *** ***** Masking position 4 Map Score: 5.4737 Number of sites scoring better than the average of aligned sites = 447 Number in coding regions = 426 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 11 TGTGAATAGTTAAGCCAGTCGCCGCGTTCCC 3 98 1 TAACCAGTCG 0.842367 -86 AGGGGCGGCATAAGCCACCCCTGTTTCACAC 4 40 0 TAACCACCCC 0.981856 -145 ATCCTCATCGTAATCCAACCGAAACTTTACC 5 34 1 TAACCAACCG 0.875297 -71 GAACAGCAAATACACCAGACCGGCAACCACC 9 226 0 TACCCAGACC 0.903043 -75 ATCCCGTCTTTAATCCACACCGTTTGCCCCG 11 202 1 TAACCACACC 0.976761 -99 ATTTGCCCATTAAACGACATCTGACTTCTTC 12 23 0 TAACGACATC 0.660204 -278 TCTTCGACAATAAACCCGCCGCCGACAGAGT 15 23 0 TAACCCGCCG 0.853283 -97 TAAACATAAATAATCCACCTGTCTGTCTTGC 19 26 1 TAACCACCTG 0.903425 -73 TAGGTAACCGTAACCGACACCTGCAAGACAG 19 48 0 TAACGACACC 0.918296 -51 TGCTTACTCCACACGATGAGATAAT 21 65 0 TACCCACACG 0.94757 -15 *** ******* Masking position 2 Map Score: 3.82705 Number of sites scoring better than the average of aligned sites = 257 Number in coding regions = 235 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 12 CTGTTTTTTCGGCATTTAACAAAGAGGTGTG 2 14 0 GGCATTAACA 0.943832 -171 GTATGAAATTGGGATACAACAGGTAGCATAC 4 149 0 GGGATAAACA 0.66243 -36 AGCGCCTCCGGGCGTTTAACATTCACTCAAC 8 14 0 GGCGTTAACA 0.955818 -61 TACAAACCTTGCCATTAAAAAGCCCGGATCG 8 50 0 GCCATTAAAA 0.461071 -25 GTGCAGGCATTCAGCAAGGGGCTGAT 9 6 1 GGCATTAGCA 0.94793 -295 TCAGCCAGATGGCGTGCAGCATGTCCGGATC 9 59 0 GGCGTGAGCA 0.965875 -242 GGCCGTTAGAGCCGTAGAACAGCAAATACAC 9 242 0 GCCGTAAACA 0.926509 -59 CGATAAAACCGCCGTAGAGTACCGGAAAGGC 11 11 1 GCCGTAAGTA 0.54407 -290 CTGAAGAATTGGCATAAAGCAGAAAATTTTC 14 20 0 GGCATAAGCA 0.947918 -84 TGCAGCTAACGGCCTGCATCATGAAAGACGA 23 19 0 GGCCTGATCA 0.739231 -123 TTTTGCTGCCGCCCTGCAACATGAAATTTCA 23 97 1 GCCCTGAACA 0.88836 -45 ****** **** Masking position 8 Map Score: 2.97483 Number of sites scoring better than the average of aligned sites = 939 Number in coding regions = 880 Number in noncoding regions = 59 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 13 CCGATCGTGCGGTTATGCTATAACACCACC 1 66 0 GGTTATGCTA 0.96031 -108 TTCTGTATATAGATATGCTAAATCCTTACT 4 99 1 AGATATGCTA 0.755419 -86 TTCTCTGAGCGGGTATGCTACCTGTTGTAT 4 137 1 GGGTATGCTA 0.963126 -48 CACAAAACAAGGATAAGGTAATTCA 5 90 1 GGATAAGGTA 0.705995 -15 AATTTGCAGGTTATGCTCGTCGAGCCAA 9 283 0 GGTTATGCTC 0.922039 -18 TCATTAGGTTGGTTAATCTATTTTGTTGTT 11 123 1 GGTTAATCTA 0.806191 -178 TAAAGCGTTGGGATAATCTATCTTCCAAGT 12 92 1 GGATAATCTA 0.84415 -209 CAACACTTAAGGGTTTTCTACAC 22 50 1 GGGTTTTCTA 0.730102 -13 CGGCTATTTGGGATTTGCTCAATCTATACG 24 159 1 GGATTTGCTC 0.82954 -118 ********** Masking position 4 Map Score: 1.60308 Number of sites scoring better than the average of aligned sites = 190 Number in coding regions = 164 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 14 TCCCGTTACCCTGATAGCGGACTTCCCTTC 2 142 1 CTGATAGCGG 0.967938 -43 TAGTGTAAGAGGGAACGCGGCGACTGGCTT 3 109 0 GGGAACGCGG 0.943472 -75 TCCTTGTTTTGTGATAGCCGATTTGACTGC 5 73 0 GTGATAGCCG 0.940889 -32 TAAATGCCTTCCCAAAGCGGA 6 2 0 CCCAAAGCGG 0.836252 -31 TTAAAAAGCCCGGATCGCGGGAAGCGCCTC 8 37 0 CGGATCGCGG 0.984514 -38 GATGATCGCGCTGATTGCCGTACCGGTAAA 9 94 1 CTGATTGCCG 0.889599 -207 TTCCGTTTGCCGTATCGCCGGTGGTTGCCG 9 207 1 CGTATCGCCG 0.821497 -94 GATTAAAGACGGGATAGCGATAACTAATAA 11 187 0 GGGATAGCGA 0.756637 -114 AAATGATTAAGCCATCGCCGATAGACAGAT 12 203 1 GCCATCGCCG 0.890264 -98 GAAGCGCCGCCCGAAAGCGGCGCGAAAGGA 13 12 0 CCGAAAGCGG 0.924296 -46 ACCCTCGGATTGCCGTTCAGTGAAG 16 51 0 CGGATTGCCG 0.935081 -15 CGCGGGCCGGGTCATAGCGGTAACAAAGGT 21 20 0 GTCATAGCGG 0.89573 -60 ********** Masking position 4 Map Score: 10.6597 Number of sites scoring better than the average of aligned sites = 1318 Number in coding regions = 1254 Number in noncoding regions = 64 Number of orfs with sites within 600 bp upstream = 66 Fraction of orfs with sites within 600 bp upstream = 0.0106007 Motif number 15 ********** No masking Map Score: 6.12731e-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