AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/genomes/ORF_ctra.txt -z/home/amcguire/genomes/ctra.fna -irpoH_ctra_opreg_300.orf -g0.413 -x5 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 = 0.413 maxlen = 30 weight = 0.8 exclude = 0 Input sequences: #1 groEL_1 37 HSP-60 #2 groES 171 10KDa Chaperonin #3 pepF_clpB 302 pepF: Oligoendopeptidase, clpB: Clp Protease ATPase #4 clpC 264 ClpC Protease ATPase #5 dnaJ 28 Heat Shock Protein J #6 rs21 196 S21 Ribosomal Protein #7 CT343_lon 309 CT343: O-Sialoglycoprotein Endopeptidase family, lon: Lon ATP-dependent protease #8 proS 200 Prolyl tRNA Synthetase #9 hrcA 68 HTH Transcriptional Repressor #10 dnaK 25 HSP-70 #11 gapA 43 Glyceraldehyde-3-P Dehydrogenase #12 rs11 21 S11 Ribosomal Protein #13 rs13 55 S13 Ribosomal Protein #14 secY 22 Translocase #15 rl18 21 L18 Ribosomal Protein #16 rl6 27 L6 Ribosomal Protein #17 rl16 32 L16 Ribosomal Protein #18 rl2 23 L2 Ribosomal Protein #19 rl3 300 L3 Ribosomal Protein #20 rpoD 148 RNA Polymerase Sigma-66 #21 CT616 300 hypothetical protein #22 clpP_2 166 CLP Protease #23 tig 300 Trigger Factor-peptidyl prolyl isomerase #24 CT793 62 hypothetical protein #25 mesJ 97 PP-loop superfamily ATPase #26 ftsH 160 ATP-dependent zinc protease Motif number 1 CCTTAAATCTTCTTCACTCTCTTAGTTT 1 1 0 TTCATCTATT 0.896073 -37 CGGGAGAAGTTGTTCTCTGTCTGTTTATTTAGAATGGT 4 30 0 TTCTTCTTTT 0.93778 -235 GGACAACAACTTTTCAAGAGTTTTGTTTACTTGTTTGG 6 26 1 TTCAGTTTTT 0.891457 -171 GCAAGGGTTGTGTGCACATGTTTAATATTACTTCTTCT 7 49 1 TTCAGTTATT 0.74197 -261 ACAGTTTTTCTATTCAACTTCTCTTTGCTGCAATTGAT 7 152 0 TTCATCTTTC 0.757461 -158 TTTAAGCGTTTTTGCAAATTTTGTTTTTAAATCTCC 8 9 0 TTCATTTTTT 0.970494 -192 GATTTTAACTAGTTCAGATTCTTTATTTCTTAATAACT 8 79 0 ATCATCTTTT 0.896073 -122 CTAGAACGATTTTTCAGGCTTTGTTTTTGCGATTTTTG 19 53 1 TTCATTTTTT 0.970494 -248 TAGGCCGATTTTTCCTTAGTTTTAATTTGTCAGC 20 125 1 TTCTTTTATT 0.875748 -24 TTATTTTATCTATCCTATTTTTCTTTCTATTTTATTGT 21 117 0 TTCTTTTTTT 0.952675 -184 CAAAATGATGAATTCTATGTTTAAGTGTCTCTTGGGTC 22 33 0 ATCTTTTATT 0.711625 -134 TTTGACCCTCTCTTCTTCCTCTATTTTTCCCCTTTTTA 23 28 1 TTCTTCTTTT 0.93778 -273 AGCTGTTTGCAGTCCAATTTTTCTTTTTTTACCACCTC 23 67 1 ATCATTTTTT 0.920103 -234 AAAAAACCTTTTTCCAAAGTTTTTTTGTAAAACCTACA 23 116 1 TTCATTTTTT 0.970494 -185 TATCCACAGATTTACACAATTTTTCTATGCGCATAGTT 25 55 0 TTCATTTTTT 0.970494 -43 AAAGAAAAACACTTCTTGTTTTTTATCTCTATAATTAG 26 53 1 ATCTTTTTTT 0.875748 -108 * * ** *** * * * Masking position 12 Map Score: 15.2785 Number of sites scoring better than the average of aligned sites = 94 Number in coding regions = 94 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 2 ATCGATTTCTAATCAAGTTTTTTGCCTGTAGTT 3 155 0 AACAATTTTT 0.622954 -148 TTTAAATTTTTAGAAGCTTTTTTAGAGTCAGGC 4 122 0 TAAAGTTTTT 0.923152 -143 GCACTTTTTATAGCAGACTTTTTTTAAATTTTT 4 144 0 TACAGTTTTT 0.901117 -121 ATTGGGAGATTAAAGCACTTTTTATAGCAGACT 4 158 0 TAAGCTTTTT 0.714821 -107 AAACACCACTAACAAAGATTTTTT 5 2 0 AAAAATTTTT 0.759241 -27 CGAGAAAGTATAGCAGGGTTTTTATCAATTGCA 7 129 1 TACAGTTTTT 0.901732 -181 TAATTCGATAAATAACAGTTTTTCTATTCAACT 7 171 0 AAAACTTTTT 0.791016 -139 TCGAATTATAAATGAGCTTTTTTAGTAAAGTCG 7 196 1 AAGAGTTTTT 0.679965 -114 ATTTTTGAATTAAAACGGTTTTAACGGTTATAA 7 254 1 TAAACTTTTA 0.364922 -56 TTAAAATTAATTTAAGCGTTTTTGCAAATTTTG 8 24 0 TTAAGTTTTT 0.719503 -177 AAAATAACAATTTTTGACCTAAGAT 13 3 1 AAAACTTTTT 0.902897 -53 AGCGTTATAAGTTTTCTTCCAAGGAAGC 19 6 1 TAAAGTTCTT 0.667403 -295 TAGTAAAACCTAGAACGATTTTTCAGGCTTTGT 19 44 1 TAAACTTTTT 0.921935 -257 AAATCTGATCAACAGGCTTTTTTTTATCTAAAA 20 49 1 AAAGGTTTTT 0.761197 -100 AAAACTTTGGAAAAAGGTTTTTTGAGAAGGTGA 23 106 0 AAAAGTTTTT 0.542441 -195 CTACTACGAATAAAAAATTTTTTCGATCACGCA 24 26 0 TAAAATTTTT 0.674001 -37 ATCCACAGATTTACACAATTTTTCTATGCGCAT 25 59 0 TTCACTTTTT 0.47037 -39 GATAAAAAACAAGAAGTGTTTTTCTTTCAGCAA 26 47 0 AAAAGTTTTT 0.621278 -114 ** *** ***** Masking position 9 Map Score: 12.4472 Number of sites scoring better than the average of aligned sites = 223 Number in coding regions = 223 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 3 AGAACGTTCAGAGGAAGAACGATAGCAAAG 2 70 0 GAGGAAGAAC 0.915287 -102 TAGCCAGTAAGGGGAAGAGAGTTAGCTGTT 3 218 0 GGGGAAGAGA 0.984402 -85 TTCAAAATCCTTGGAAGAGCAAGGGTTGTG 7 31 1 TTGGAAGAGC 0.923803 -279 ATTGTTTCGTGTGGAAGAGCATCTTAGCAT 8 162 0 GTGGAAGAGC 0.985942 -39 TAAAGAAGGAAGAGAAGAATAAC 18 6 1 AAGGAAGAGA 0.83669 -18 TGGAGCTTCCTTGGAAGAAAACTTATAACG 19 13 0 TTGGAAGAAA 0.581908 -288 TAAAGGAGGGGGGAAAGAGACCTATTTTAA 21 152 1 GGGAAAGAGA 0.906739 -149 AAAAATAGAGGAAGAAGAGAGGGTCAAAAT 23 26 0 GAAGAAGAGA 0.889518 -275 ACACCCGCGAGAAGAAGAGCATTCTAGATA 23 183 0 GAAGAAGAGC 0.915287 -118 GTGTAGCTCAGTGGTAGAGCGCCACGTTGC 23 209 1 GTGGTAGAGC 0.899103 -92 TAAGTTATCCGGGAAAGAGAAGCGGGTGAT 23 267 0 GGGAAAGAGA 0.906739 -34 ********** Masking position 6 Map Score: 9.21338 Number of sites scoring better than the average of aligned sites = 240 Number in coding regions = 240 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 4 TTGCCAATCACATCGATCAATAAAGCAGACCT 3 60 1 CAGATCAATA 0.858564 -243 CTGTAGTTTTCTGTGATCAAATGATCTTAGCT 3 131 0 CTGATCAAAT 0.775343 -172 AAGAGAGTAGTTTCGATCAAGATCGATTTCTA 3 177 0 TTGATCAAGA 0.810088 -126 AAACTACTCTCTTTGATCAAGAAACAGCTAAC 3 196 1 CTGATCAAGA 0.977196 -107 AAACCGTCTCCACTGGTCAAGAATTTTAGCGC 9 27 0 CAGGTCAAGA 0.960354 -42 ATATAAGCATCTTAGGTCAAAAATTGTTATTT 13 12 0 CTGGTCAAAA 0.954301 -44 TTCAAAAAAACAATGATCAATCCCAAAATTCG 21 241 1 CAGATCAATC 0.748718 -60 AAGCGTTTTCCTGCGATCAAAA 22 1 0 CTGATCAAAA 0.950683 -166 TTAAGTGTCTCTTGGGTCAAGCGTTTTCCTGC 22 19 0 CTGGTCAAGC 0.963168 -148 TCTTTCTTTTCTAGGGTCAAGAGTAGCCATAA 22 101 1 CTGGTCAAGA 0.981651 -66 ** ******** Masking position 7 Map Score: 7.39196 Number of sites scoring better than the average of aligned sites = 40 Number in coding regions = 40 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 5 TTCCGCTACCAACGTAGGGATTTGAACGATAGA 2 97 0 AAGTGGATTT 0.979258 -75 AGATGCACTAATTGTTGCGATTTTGTAGTATAT 7 92 0 ATGTGGATTT 0.945319 -218 AAAAACAAGAAATCTAGGGATTTTTAGATAAAA 20 70 0 AACTGGATTT 0.952214 -79 CGGGACGGAACACGTGGAGATTTTAGGTGAAAA 21 83 1 CAGTGGATTT 0.926161 -218 ATCAATCCCAAAATTCGCGATTTGTAGGGATAT 21 256 1 AATTGGATTT 0.879471 -45 CATTCTAGATAATCTGGGGAGTTTTTCGCAATC 23 161 0 AACTGGAGTT 0.951295 -140 TGCCAACGTGAAGGTCGTGAGTTCAAGCCTCAT 23 236 1 AAGTGGAGTT 0.978853 -65 TTTGATTAGCATTGTAGTGAGTTTT 26 146 1 ATGTGGAGTT 0.944275 -15 ** ** * ***** Masking position 10 Map Score: 4.83134 Number of sites scoring better than the average of aligned sites = 6 Number in coding regions = 6 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 6 ACTTGATTAGAAATCGATCTTGATCGAAACTA 3 170 1 AAATGTCTTG 0.909818 -133 GAAGAGAGTTAGCTGTTTCTTGATCAAAGAGA 3 203 0 AGCTTTCTTG 0.895756 -100 GAATGGTTATAGATATTTATTGAATA 4 5 0 AGATTTATTG 0.580736 -260 TATACAACTTAAGTATCTCTTGAAGCCTAAAT 6 88 1 AAGTTTCTTG 0.905803 -109 TTTTTTAGTAAAGTCGGTTTTGATTTGGCGAC 7 213 1 AAGTGTTTTG 0.699402 -97 CTAAACTCCTAGATTGATTTAGACAAAGGATT 7 285 0 AGATGTTTAG 0.708114 -25 AAAATCACAGAGATTGATCTAGAAACACTCCT 8 130 1 AGATGTCTAG 0.924159 -71 AAAGCCTGAAAAATCGTTCTAGGTTTTACTAG 19 43 0 AAATGTCTAG 0.851943 -258 TCCACACAAGAGATTTTTCTTGACGCTAAGAA 19 100 0 AGATTTCTTG 0.946177 -201 TTTGTCGTGGAAATCGCTCTTGCAGGATGGAG 19 195 1 AAATGTCTTG 0.909818 -106 AAGACGGGAGGGGTTTTTCTAGGCCTAAATCT 20 23 1 GGGTTTCTAG 0.628841 -126 TTCTATGTTTAAGTGTCTCTTGGGTCAAGCGT 22 27 0 AAGTTTCTTG 0.905803 -140 TTTGATGCGTAGGTGTATTTTGAATTAGATGG 22 67 1 AGGTTTTTTG 0.802145 -100 AGCTTTATCTAGTATTGCGTGA 24 1 1 AGCTTTCTAG 0.830536 -62 **** * ***** Masking position 8 Map Score: 8.8548 Number of sites scoring better than the average of aligned sites = 122 Number in coding regions = 122 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 7 ATTCCTTTCCCTTTACGAAAAGTTGCATCAT 4 189 1 CTTTCGAAAA 0.906365 -76 TCAAAACCGACTTTACTAAAAAAGCTCATTT 7 205 0 CTTTCTAAAA 0.921172 -105 TCTTTTGTTTGTTTCTTAAAATTAATTTAAG 8 41 0 GTTTTTAAAA 0.627645 -160 GGTAGTCAGTGTTTTCGAAAAATTAGCATCA 11 11 0 GTTTCGAAAA 0.951025 -33 AACACTCTCTCCTAAAAATTA 12 5 0 CTCTCTAAAA 0.823904 -17 AAACTTTACCTAAAAGTTCTAG 14 8 0 TTTACTAAAA 0.846954 -15 GGGCATGGCCGTTTGCTAAAAGTGTAATTAG 19 226 1 GTTTCTAAAA 0.959337 -75 CAGGCTTTTTTTTATCTAAAAATCCCTAGAT 20 61 1 TTTACTAAAA 0.849152 -88 TTATTGTCTTTTCACCTAAAATCTCCACGTG 21 93 0 TTCACTAAAA 0.683722 -208 ACAAGCAAAGGATTGCGAAAAACTCCCCAGA 23 151 1 GATTCGAAAA 0.692768 -150 CTAGTATTGCGTGATCGAAAAAATTTTTTAT 24 19 1 GTGACGAAAA 0.746782 -44 GCATAGTTTTGTTAGCTAAAACGTTCAACTG 25 32 0 GTTACTAAAA 0.945021 -66 **** ****** Masking position 8 Map Score: 3.95986 Number of sites scoring better than the average of aligned sites = 152 Number in coding regions = 152 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 8 ATTTTTAAAAATAGCAGTTGATCATGCCAA 2 7 1 AAAAAGCGTG 0.790917 -165 AACCAGTTGCAAAAAAGCGAGGACTTTGCTATCG 2 47 1 AAAAGCGGGC 0.798261 -125 CATAGAATATAAAAATACGAGGAGCTTAAAC 2 151 1 AAAAACGGGG 0.979915 -21 CTTGAAGCCTAAATAAAAGTGGTGTTACAATCCC 6 106 1 AAAAAAGGGG 0.975847 -91 TCCTTAAAGCAAACAAAGGCGGCGAATGGGCAAT 19 150 0 AAAAAGGGGG 0.984635 -151 GATAAGTAGAAAAGACGGGAGGGGTTTTTCTAGG 20 12 1 AAAAGGGGGG 0.975691 -137 TTTTAGATAAAAAAAAGCCTGTTGATCAGATTTA 20 48 0 AAAAGCCGTG 0.643336 -101 ACCGACACAAAAACAGAAGTGTCGGCAGTAACGA 21 20 1 AAAAAAGGTG 0.909155 -281 AGGATAGATAAAATAAAGGAGGGGGGAAAGAGAC 21 139 1 AAAAAGGGGG 0.984635 -162 GTTATCCGGGAAAGAGAAGCGGGTGATGAGGCTT 23 260 0 AAAAAAGGGT 0.77924 -41 TATAGAGATAAAAAACAAGAAGTGTTTTTCTTTC 26 52 0 AAAAAAGAGG 0.76096 -109 *** * *** ** * Masking position 5 Map Score: 7.2415 Number of sites scoring better than the average of aligned sites = 64 Number in coding regions = 64 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 9 AAAAAGCGAGGACTTTGCTATCGTTCTTCCTCTGA 2 58 1 GATTGCTGTT 0.969491 -114 TTCTTCCTCTGAACGTTCTATCGTTCAAATCCCTA 2 81 1 GAGTTCTGTT 0.937127 -91 CTCTTCCAAGGATTTTGAACTAGTTGCCCAAGGAC 7 15 0 GATTGATGTT 0.925492 -295 TTAATAACTTGATGTTTCTTTTGTTTGTTTCTTAA 8 53 0 GATTTCTGTT 0.982492 -148 TGTTCTTATTGGATTTTAACTAGTTCAGATTCTTT 8 93 0 GGTTTATGTT 0.87096 -108 AGGGAAGGAAGTGCTTTATATTGTTTCGTGTGGAA 8 176 0 GTTTTATGTT 0.819949 -25 TTTCTAGGCCGATTTTTCCTTAGTTTTAATTTGTC 20 121 1 GATTTCTGTT 0.982492 -28 TATTTTAAAGGAAGTTTCAGTAGTTGCCAATATCA 21 174 1 GATTTCTGTT 0.982492 -127 ** **** * *** Masking position 6 Map Score: 3.4844 Number of sites scoring better than the average of aligned sites = 14 Number in coding regions = 14 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 10 CACTCCTATGCTAAGATGCTCTTCCACACG 8 155 1 CTAAGATGCT 0.973094 -46 GTTGCGAGCGCTAAAATTCTTGACCAGTGG 9 20 1 CTAAAATTCT 0.865226 -49 AATTTTTGACCTAAGATGCTTATATTACTT 13 19 1 CTAAGATGCT 0.973094 -37 CCCAGATTATCTAGAATGCTCTTCTTCTCG 23 176 1 CTAGAATGCT 0.951578 -125 AAAACTCACTACAATGCTAATCAAACAG 26 143 0 CTACAATGCT 0.951578 -18 ********** Masking position 6 Map Score: 0.98294 Number of sites scoring better than the average of aligned sites = 17 Number in coding regions = 17 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 11 TGATGCGCTCCTTAAATCTTCTT 1 25 0 GATCCTCCTT 0.909384 -13 GAATCTCTCCTTAGAGGAAGCT 3 291 0 GAACCTCCTT 0.958452 -12 GACGAAACACCACTAACAAAGATTT 5 14 0 GAACCCACTA 0.967782 -15 ACCGGGGATTGTAACACCACTTTTATTTAGGC 6 112 0 GTACCCACTT 0.909384 -85 GATTGATCTAGAAACACTCCTATGCTAAGATG 8 141 1 GAACCTCCTA 0.967782 -60 TTCTTCCAAGGAAGCTCCACTAGTAAAACCTA 19 24 1 GAACCCACTA 0.967782 -277 AAGAGCCTGTTCCCCTACTACGAATAAAAA 24 43 0 GTTCCTACTA 0.824791 -20 *** * ****** Masking position 11 Map Score: 1.24899 Number of sites scoring better than the average of aligned sites = 22 Number in coding regions = 22 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 12 AGCAGTTGATCATGCCAACTGCTAAACCAGTTGCA 2 23 1 CAGCCCTCAA 0.849008 -149 TACCTTTTATCACACCTGTTACAAAGGCTATCAAT 3 14 1 CAACCTTCAA 0.927965 -289 ATGTGATTGGCAAGCCTTCTCAGAATTGATAGCCT 3 38 0 CAGCCCTAAA 0.84658 -265 CCATTCTAAATAAACAGACAGAGAACAACTTCTCC 4 31 1 TAACACAAAA 0.414695 -234 GACGAAACACCACTAACAAAGATTTTTT 5 9 0 AAACCTACAA 0.631421 -20 TAAAAATTACCAAACAAGTAAACAAAACTCTTGAA 6 38 0 CAACATAAAA 0.854434 -159 AATAATTCACACACCCTTATAACCTATCTGCA 17 11 0 CAACACTAAA 0.903798 -22 ATTACCTTATCACACAACTTGACAACGCTTCACAG 19 271 0 CAACATTAAA 0.871794 -30 ACTCCAGAGACCGACACAAAAACAGAAGTGT 21 7 1 GAACCCAAAA 0.661277 -294 ATAACGTAAGCACACCTGTAACCAAATGATTTGAG 22 129 1 CAACCTACAA 0.917491 -38 AATTGGACTGCAAACAGCTTTAAAAAGGGGAAAAA 23 51 0 CAACATTAAA 0.871794 -250 ACCTTCTCAAAAAACCTTTTTCCAAAGTTTTTTTG 23 108 1 AAACCTTCAA 0.664949 -193 CAATGCTAATCAAACAGGCAGATAATTATTCAATA 26 125 0 CAACACAAAA 0.890226 -36 ** *** ** * ** Masking position 2 Map Score: 1.9704 Number of sites scoring better than the average of aligned sites = 85 Number in coding regions = 85 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 13 CGCTTTTTTGCAACTGGTTTAGCAGTTGGC 2 36 0 CAACTGGTTT 0.951091 -136 TTTCTGTGATCAAATGATCTTAGCTCTTTT 3 126 0 CAAATGATCT 0.869116 -177 TTTGGAATATCAACTGTTTTAGAATCTACT 21 210 0 CAACTGTTTT 0.929264 -91 CACCTGTAACCAAATGATTTGAGAGGAAGC 22 141 1 CAAATGATTT 0.936466 -26 CTAAAACGTTCAACTGATTTTCTATTACGG 25 18 0 CAACTGATTT 0.970766 -80 ********** Masking position 5 Map Score: 0.136845 Number of sites scoring better than the average of aligned sites = 7 Number in coding regions = 7 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 AAACTAAGAGAGTGAAGAAGATTTAAGGA 1 4 1 CTAAAGAAAA 0.692978 -34 GAACAGTGATCTAATAAAATAAATAATGCCTGACTC 4 95 1 CTAAAAAAAA 0.934683 -170 AAAAAAGCTTCTAAAAATTTAAAAAAAGTCTGCTAT 4 132 1 CTAAAAAAAA 0.934685 -133 AAGTTGTTGTCCCAAAAGGAAAACACT 6 2 0 CCCAAAAAAC 0.728689 -195 ATAAAAATTACCAAACAAGTAAACAAAACTCTTGAA 6 38 0 CCAACAAAAA 0.757187 -159 TTTGGTAATTTTTATAATTCAAAGAAGGTTATACAA 6 59 1 TTTAAAAAAA 0.693725 -138 TAGTTAAAATCCAATAAGAACAAAAAAATCACAGAG 8 106 1 CCAAAAAAAA 0.951857 -95 AAATCCCACACCAAAAATCGCAAAAACAAAGCCTGA 19 66 0 CCAAAAAAAA 0.951857 -235 ACAGTTTATCTTAAGAAAAACAAGAAATCTAGGGAT 20 82 0 TTAAAAAAAA 0.850448 -67 CAGTTGATATTCCAAAATTCAAAAAAACAATGATCA 21 224 1 TCCAAAAAAA 0.771597 -77 TACTCTTGACCCTAGAAAAGAAAGACCCCATCTAAT 22 90 0 CCTAAAAAAC 0.713303 -77 GCAAACAGCTTTAAAAAGGGGAAAAATAGAGGAAGA 23 41 0 TTAAAAAAAA 0.850448 -260 TAATTAGAGGTTTATAAACAAAATAATAAAATATTT 26 84 1 TTTAAAAAAA 0.693727 -77 **** ** ** ** Masking position 12 Map Score: 2.67332 Number of sites scoring better than the average of aligned sites = 128 Number in coding regions = 128 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 CTCGAACGCACAAGAGACCGGGGATTGTAACAC 6 127 0 CAAGACCGGG 0.983955 -70 TTCGAAAACACTGACTACCTGGGATTTAGCA 11 23 1 CTGAACCGGG 0.890646 -21 TGCAGATAGGTTATAAGGGTGTGTGAATT 17 7 1 TAGGATAGGG 0.811938 -26 AAAAGTGTAATTAGGCACCGGGGGCGGTCTGTG 19 243 1 TTAGACCGGG 0.934009 -58 TTAAGAAAAACAAGAAATCTAGGGATTTTTAGA 20 75 0 CAAGATCAGG 0.811938 -74 TCAGACCTTACAGGTAACCCGGGACGGAACACG 21 64 1 CAGGACCGGG 0.989824 -237 AAGAGCATTCTAGATAATCTGGGGAGTTTTTCG 23 166 0 TAGAATCGGG 0.898405 -135 TACCCATTGGTAAGTTATCCGGGAAAGAGAAGC 23 274 0 TAAGATCGGG 0.960591 -27 **** *** *** Masking position 7 Map Score: 1.04169 Number of sites scoring better than the average of aligned sites = 31 Number in coding regions = 31 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