AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/genomes/ORF_tpal.txt -z/home/amcguire/genomes/tpal.fna -icpxR9_tpal_opreg_100.orf -g0.528 -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 = 0.528 maxlen = 30 weight = 0.8 exclude = 0 Input sequences: #1 TP0363 300 chemotaxis histidine kinase (cheA) #2 TP0438 29 conserved hypothetical protein #3 TP0439 86 purine-binding chemotaxis protein (cheW-2) #4 TP0726 57 flagellar protein (flbD) #5 TP0727 70 flagellar hook protein (flgE) #6 TP0728 75 flagellar hook assembly scaffolding protein (flgD) #7 TP0773 300 periplasmic serine protease DO (htrA-1) #8 TP0841 300 periplasmic serine protease DO (htrA-2) #9 TP0949 275 membrane protein #10 TP1016 72 basic membrane protein (tpn39b) #11 TP1017 171 alanyl-tRNA synthetase (alaS) Motif number 1 CAGCTTTCTACCCACGCGCGGTCGTCTTGGGTATCG 1 30 0 CCCCGCGTGC 0.964804 -271 CAAAACCAGACCCTCTCGCAGCTTTCTACCCACGCG 1 48 0 CCCCGCGCTC 0.995912 -253 GGAGTAGGACCAGTCCCGCGGCATACAAGGAGTAAC 1 125 1 CGCCGCGCTC 0.986374 -176 GTCGGTTTCTCGCCCTCGGTGGTTACTCCTTGTATG 1 146 0 CCCCGGGGTC 0.96575 -155 TCCGCCATGGCCCGCGCGCAGGTACGTTTGTCAGGT 1 180 0 CCCCGCGGAG 0.719279 -121 AAAAGACCCCGCCACCCGCTGCATCCCTTGACACTT 1 235 0 GCCCGCGCTC 0.888446 -66 GCTCCTTGCAGGTAACTGCGCCGTGA 2 1 1 GTCTGCGGAC 0.803546 -29 GCACTCCGTTCGCTCACGCACCTTGCAGAGCA 3 7 0 CCCCGCCCTC 0.992099 -80 CTCTCAGCTGCAGTCAAGCGCGTGTCCTGCACTCCG 3 35 0 CGCAGCCGGC 0.823706 -52 TCCCCATCACGCCACCTGCCGCTTAAGATACATTTT 4 26 0 GCCTGCGCTA 0.863989 -32 GACTTGAACTCCCACGCCGGTGAAGGCACTAGCA 7 9 1 CCCCGCGGGA 0.982878 -292 CGCCGGTGAAGGCACTAGCACCTGAAGCTAGCGTGT 7 25 1 GCCAGCCCGA 0.560796 -276 GCGCCACGCGCAGCGCCGCGGGCAGCGTGTATTGGA 7 187 0 CGGCGCGGAC 0.886181 -114 GCGGCGCTGCGCGTGGCGCCGTGGGCTATTAGCTCA 7 204 1 GGGCGCGTGC 0.852621 -97 GCCACGTACACTTACACGCTGCCTACCGTGCACAAA 8 50 0 CTCCGCGCTC 0.984689 -251 AGTCCCTCCACGTCCCTGCGCGTACCCAAACCCCTA 8 157 0 CTCTGCCGAC 0.544495 -144 TTGTGTGTGGGGTACATGCGGTATGCCGCAGTTTTT 8 216 1 GTCTGCGTTC 0.86958 -85 AAACGAGCAACGCCGCTGCTGTAAAAAAACTGCGGC 8 240 0 CCGTGCGTAA 0.57805 -61 CCGCTGATACGCCGCAAGCTGTCTTCCACAACGGAA 9 26 0 GCCAGCGTTC 0.932311 -250 ATTCAGAGAACAGACGCGCGCGATCACACAACACGC 9 69 0 CGCCGCCGTA 0.928819 -207 AAGCGACGCACACTCACGGCCTATTCCTGCCTTTCA 9 112 0 CCCCGGCTTC 0.914869 -164 TTAGTGGATTGTTGCTCGCGCTGATCCGTTTTTACC 9 162 1 GTCCGCCTAC 0.906469 -114 TCCGTTTTTACCAGCGCGCTCTTTCCCCTCATCTTT 9 186 1 CACCGCCTTC 0.867049 -90 TATTATCCGAGTTGCTCGCAGTATGCCTATGAGAGC 9 236 1 GTCCGCGTTC 0.969109 -40 CCATGTACTCGCACGCTCTCATAGGCATACTGC 9 253 0 CCCCGCCTAA 0.947419 -23 CAGTCACCAGCACACACGCCGGAGAAACTATACGCA 10 21 0 CCCCGCGGGA 0.982878 -52 ATCGCCTTTTCCCTGCTGCGGTCAACATCTGACCCT 11 136 0 CCGTGCGTAC 0.843933 -36 * * * *** ** * * Masking position 8 Map Score: 43.7327 Number of sites scoring better than the average of aligned sites = 2405 Number in coding regions = 2198 Number in noncoding regions = 207 Number of orfs with sites within 600 bp upstream = 152 Fraction of orfs with sites within 600 bp upstream = 0.0244137 Motif number 2 GGCTGGCGTGTCCGCCAATCGATAC 1 6 1 GCGTGTCCGC 0.930372 -295 CCCAAGACGACCGCGCGTGGGTAGAAAGCT 1 35 1 CCGCGCGTGG 0.734186 -266 ACAAACGTACCTGCGCGCGGGCCATGGCGG 1 185 1 CTGCGCGCGG 0.676743 -116 TTGCAGGTAACTGCGCCGTGAAAA 2 16 1 CTGCGCCGTG 0.715368 -14 GCTCTGCAAGGTGCGTGAGCGAACGGAGTG 3 12 1 GTGCGTGAGC 0.758035 -75 GCAGTCAAGCGCGTGTCCTGCACTCCGTTC 3 32 0 GCGTGTCCTG 0.95516 -55 ATGCTCTGTGTCCTCCTCATGTGAC 5 56 0 CTGTGTCCTC 0.833528 -15 TTCACCGGTTGTGTACGCTGACCCCCCTAC 6 37 0 GTGTACGCTG 0.745545 -39 CCTGAAGCTAGCGTGTCTGCCAATTCCACC 7 45 1 GCGTGTCTGC 0.799318 -256 CCTTTGCATCCCGTGCCCTGAAAGCTGCTC 7 133 0 CCGTGCCCTG 0.930493 -168 GCCGCGGGCAGCGTGTATTGGAATTGGCAT 7 179 0 GCGTGTATTG 0.685027 -122 GCCCGCGGCGCTGCGCGTGGCGCCGTGGGC 7 200 1 CTGCGCGTGG 0.939642 -101 AAGTGTGCGCGGTGTGCTGATA 8 3 1 GTGTGCGCGG 0.938362 -298 AGGGAGCAGTTTGTGCACGGTAGGCAGCGT 8 41 1 TTGTGCACGG 0.506922 -260 CCCTCTTCACCTGTGCCCGCCACGTACACT 8 74 0 CTGTGCCCGC 0.923416 -227 AACCATATCGCTGTGTGCTGCTTTTAACCC 8 115 1 CTGTGTGCTG 0.961247 -186 CCACGTCCCTGCGCGTACCCAAACCCCTAC 8 156 0 GCGCGTACCC 0.461805 -145 TACCTCGTTTGTGTGTGGGGTACATGCGGT 8 208 1 GTGTGTGGGG 0.918305 -93 AGCGGCTGCTGTGCGTGTTGTGTGATCGCG 9 57 1 GTGCGTGTTG 0.936636 -219 GAGAACAGACGCGCGCGATCACACAACACG 9 70 0 GCGCGCGATC 0.677614 -206 TAGGCCGTGAGTGTGCGTCGCTTGTGTGCA 9 125 1 GTGTGCGTCG 0.877856 -151 TGCGTCGCTTGTGTGCATGGGTATTTAGTG 9 138 1 GTGTGCATGG 0.866753 -138 GTGGATTGTTGCTCGCGCTGATCCGTTTTT 9 165 1 GCTCGCGCTG 0.620072 -111 TGAGGGGAAAGAGCGCGCTGGTAAAAACGG 9 187 0 GAGCGCGCTG 0.567623 -89 TTTCTCCGGCGTGTGTGCTGGTGACTGAGT 10 30 1 GTGTGTGCTG 0.982175 -43 GTGTGTGCTCCTTATATTTT 11 1 1 GTGTGTGCTC 0.961247 -171 GAGGCTAGAGGTGTGTGCGAATTCTGTCAA 11 56 1 GTGTGTGCGA 0.785656 -116 ********** Masking position 5 Map Score: 38.0435 Number of sites scoring better than the average of aligned sites = 5167 Number in coding regions = 4782 Number in noncoding regions = 385 Number of orfs with sites within 600 bp upstream = 194 Fraction of orfs with sites within 600 bp upstream = 0.0311597 Motif number 3 AACGTAGACCCCCACCGCTCGGTAGAGGAG 1 99 1 CCCACCGCTC 0.986166 -202 TCCAAAAGACCCCGCCACCCGCTGCATCCC 1 244 0 CCCGCCACCC 0.984791 -57 AATCTTCCCGCATTCTCAGCCTTTGG 1 285 0 CCCGCATTCT 0.500386 -16 GCGTGTCCTGCACTCCGTTCGCTCACGCAC 3 22 0 CACTCCGTTC 0.667309 -65 TTCGTACAATCCCTCCTCTCAGCTGCAGTC 3 56 0 CCCTCCTCTC 0.983952 -31 TCATCCCCATCACGCCACCTGCCGCTTAAG 4 35 0 CACGCCACCT 0.835101 -23 CCCTCATCCCCATCACGCCA 4 48 0 CCCTCATCCC 0.917045 -10 GCCCCGGCCCTCCTCTTTTTTCACCGG 6 59 0 CCCTCCTCTT 0.971048 -17 AACTATATTTCCCACCATGGAAGGGTTTTC 7 85 0 CCCACCATGG 0.72701 -216 ATACACGCTGCCCGCGGCGCTGCGCGTGGC 7 191 1 CCCGCGGCGC 0.974338 -110 GAGCTAATAGCCCACGGCGCCACGCGCAGC 7 209 0 CCCACGGCGC 0.959691 -92 CAATCCCACCTCTGAGCCATGATG 7 287 0 CCCACCTCTG 0.922529 -14 GTACTATCAGCACACCGCGCACACTT 8 7 0 CACACCGCGC 0.949866 -294 TTCACCTGTGCCCGCCACGTACACTTACAC 8 69 0 CCCGCCACGT 0.983815 -232 CCCTCCACGTCCCTGCGCGTACCCAAACCC 8 160 0 CCCTGCGCGT 0.880034 -141 GTTCATGAGTCCCTCCACGTCCCTGCGCGT 8 170 0 CCCTCCACGT 0.981299 -131 GCGCTCTTTCCCCTCATCTTTTGCCTTCGT 9 201 1 CCCTCATCTT 0.848068 -75 ********** Masking position 3 Map Score: 23.0089 Number of sites scoring better than the average of aligned sites = 818 Number in coding regions = 687 Number in noncoding regions = 131 Number of orfs with sites within 600 bp upstream = 104 Fraction of orfs with sites within 600 bp upstream = 0.0167041 Motif number 4 AAGGAGTAACCACCGAGGGCGAGAAACCGAC 1 151 1 CACCGGGGCG 0.912724 -150 TACATTTTCACACAGTCGACACA 4 3 0 CACAGCGACA 0.92936 -55 TTTCTCTGTTCACAAACCATACAACTG 5 7 0 CACAACCATA 0.358287 -64 ACAGGGTAGGCAAAACCGGCGCGCCTAT 6 8 0 CAAAACGGCG 0.959892 -68 GGTCAGCGTACACAACCGGTGAAAAAAGAGG 6 44 1 CACAACGGTG 0.962436 -32 CTAGTGCCTTCACCGGCGTGGGAGTTCAAGT 7 12 0 CACCGCGTGG 0.832712 -289 CTGCCAATTCCACCATCGAGGCAAGAAAACC 7 61 1 CACCACGAGG 0.978212 -240 GCACGGGATGCAAAGGCGGCGTACTTGACAA 7 147 1 CAAAGCGGCG 0.963231 -154 CCCCTACCGACACAGCCCGGGTTAAAAGCAG 8 132 0 CACAGCCGGG 0.962544 -169 GTACCCCACACACAAACGAGGTAAACAATAT 8 200 0 CACAACGAGG 0.982244 -101 AGTTTTTTTACAGCAGCGGCGTTGCTCGTTT 8 245 1 CAGCACGGCG 0.942643 -56 TACCCATGCACACAAGCGACGCACACTCACG 9 130 0 CACAACGACG 0.98791 -146 ***** ***** Masking position 2 Map Score: 14.2375 Number of sites scoring better than the average of aligned sites = 374 Number in coding regions = 343 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 5 CACCGAGGGCGAGAAACCGACCTGACAAACGTA 1 161 1 GAGAAACCCT 0.981532 -140 AAACCGACCTGACAAACGTACCTGCGCGCGGGC 1 174 1 GACAAACCCT 0.86124 -127 CAAGGGATTAGAGCAGCTTTCAGGGCACGGGAT 7 123 1 GAGCAGCCAG 0.922141 -178 ACGGCGCCACGCGCAGCGCCGCGGGCAGCGTGT 7 193 0 GCGCAGCGCG 0.939856 -108 TCAGCTGGTAGAGCAACGCCCTTTTAAGGCGTG 7 237 1 GAGCAACCTT 0.966085 -64 AGATAAAAACGAGCAACGCCGCTGCTGTAAAAA 8 249 0 GAGCAACGCT 0.989891 -52 GGATCAGCGCGAGCAACAATCCACTAAATACCC 9 156 0 GAGCAACCCA 0.967776 -120 GGCATACTGCGAGCAACTCGGATAATAACGGCA 9 230 0 GAGCAACGAT 0.950695 -46 ACACACGCCGGAGAAACTATACGCAGCAGGGCA 10 13 0 GAGAAACACG 0.88192 -60 TTTTAAGGGTGCGAAACTGTCTTGCGAGAGGCT 11 29 1 GCGAAACCTT 0.800664 -143 GGGACTCTCTGAGCAACCTTGCGACAAGATCCT 11 85 0 GAGCAACGCG 0.990662 -87 ******* *** Masking position 5 Map Score: 10.1428 Number of sites scoring better than the average of aligned sites = 253 Number in coding regions = 234 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 6 AAACCAGACCCTCTCGCAGCTTTCTACCCA 1 52 0 CTCTCGCAGC 0.907916 -249 TGGCGGAGTCTATTCTCGGCTGATGGAAGT 1 209 1 TATTCTCGGC 0.859941 -92 AATCTTCCCGCATTCTCAGCCTTTGGTCAA 1 281 0 CATTCTCAGC 0.92409 -20 TTTTCACGGCGCAGTTACCT 2 20 0 TTTTCACGGC 0.807362 -10 GTACAATCCCTCCTCTCAGCTGCAGTCAAG 3 53 0 TCCTCTCAGC 0.845772 -34 CCTAATCTCTCTTTCTCTGTTCACAAACCA 5 19 0 CTTTCTCTGT 0.519415 -52 AAGGGCGTTGCTCTACCAGCTGAGCTAATA 7 230 0 CTCTACCAGC 0.910324 -71 TCCCTGCATGTACTATCAGCACACCGCGCA 8 16 0 TACTATCAGC 0.741854 -285 GTGCACAAACTGCTCCCTGCATGTACTATC 8 29 0 TGCTCCCTGC 0.82189 -272 CGTTGCTCGTTTTTATCTGCTGCTCTGGTC 8 264 1 TTTTATCTGC 0.761577 -37 AAGCGACGCACACTCACGGCCTATTCCTGC 9 118 0 CACTCACGGC 0.794516 -158 GCTGATCCGTTTTTACCAGCGCGCTCTTTC 9 181 1 TTTTACCAGC 0.8359 -95 CTTGCCCTGCTGCGTATAGT 10 1 1 CTTGCCCTGC 0.750136 -72 GAAACGGGGACTCTCTGAGCAACCTTGCGA 11 94 0 CTCTCTGAGC 0.756872 -78 TATTATCGCCTTTTCCCTGCTGCGGTCAAC 11 146 0 TTTTCCCTGC 0.940027 -26 ********** Masking position 9 Map Score: 7.31445 Number of sites scoring better than the average of aligned sites = 742 Number in coding regions = 669 Number in noncoding regions = 73 Number of orfs with sites within 600 bp upstream = 75 Fraction of orfs with sites within 600 bp upstream = 0.0120463 Motif number 7 GTCTGGTTTTGATAAAAGTGGATCCAAACGTA 1 73 1 GAAAAAGGGA 0.981052 -228 CTACAGGGTAGGCAAAACCGGCGCGCCTAT 6 9 0 GGAAAACGGC 0.915329 -67 CACAACCGGTGAAAAAAGAGGAGGGCCGGGGC 6 54 1 GAAAAAGGGA 0.981052 -22 GCGGGCACAGGTGAAGAGGGGATAAACTCGTA 8 84 1 GTAAGAGGGA 0.900345 -217 AGAGCGCGCTGGTAAAAACGGATCAGCGCGAG 9 176 0 GGAAAAAGGA 0.959522 -100 ACGGCACGAAGGCAAAAGATGAGGGGAAAGAG 9 204 0 GGAAAAGTGA 0.959522 -72 GACCGCAGCAGGGAAAAGGCGATAATACCCTC 11 149 1 GGAAAAGCGA 0.972324 -23 ** ***** *** Masking position 7 Map Score: 2.72029 Number of sites scoring better than the average of aligned sites = 138 Number in coding regions = 117 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 8 CCCTCATCCCCATCACGCCA 4 48 0 CCCTCATCCC 0.895867 -10 CGGTTGTGTACGCTGACCCCCCTACAGGGT 6 32 0 CGCTGACCCC 0.983703 -44 CTGAAAGCTGCTCTAATCCCTTGACTAGAA 7 116 0 CTCTAATCCC 0.720376 -185 GCATCCCGTGCCCTGAAAGCTGCTCTAATC 7 128 0 CCCTGAAAGC 0.900923 -173 TTCCAATACACGCTGCCCGCGGCGCTGCGC 7 186 1 CGCTGCCCGC 0.919258 -115 GCACAGCAGCCGCTGATACGCCGCAAGCTG 9 41 0 CGCTGATACG 0.950645 -235 CTGAATTTACCGCTGAAAGGCAGGAATAGG 9 99 1 CGCTGAAAGG 0.922628 -177 TTGTTGCTCGCGCTGATCCGTTTTTACCAG 9 170 1 CGCTGATCCG 0.983265 -106 CAACATCTGACCCTAAACGGGAAAAAGAAA 11 120 0 CCCTAAACGG 0.836678 -52 ********** Masking position 4 Map Score: 4.02422 Number of sites scoring better than the average of aligned sites = 262 Number in coding regions = 243 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 9 AGCTGCGAGAGGGTCTGGTTTTGATAAAAGTGG 1 61 1 GGGTCTTTTG 0.972587 -240 CGAGCGGTGGGGGTCTACGTTTGGATCCACTTT 1 87 0 GGGTCGTTTG 0.99237 -214 GCTGATGGAAGTGTCAAGGGATGCAGCGGGTGG 1 227 1 GTGTCGGATG 0.896128 -74 TTTAAGGCGTGGGTCGATGGTTCGAATCCATCA 7 259 1 GGGTCGGTTC 0.991252 -42 AATCCATCATGGCTCAGAGGTGGGATTG 7 283 1 GGCTCGGTGG 0.940793 -18 GTTGCTCAGAGAGTCCCCGTTTCTTTTTCCCGT 11 101 1 GAGTCGTTTC 0.894582 -71 TTCCCGTTTAGGGTCAGATGTTGACCGCAGCAG 11 127 1 GGGTCTGTTG 0.986537 -45 ***** ***** Masking position 4 Map Score: 1.83996 Number of sites scoring better than the average of aligned sites = 43 Number in coding regions = 31 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 10 TTGGACGTTGCCTTGACCAAAGGCTGAGAAT 1 269 1 CCTTGACAAA 0.987873 -32 CAGGACACGCGCTTGACTGCAGCTGAGAGGA 3 42 1 GCTTGACGCA 0.950678 -45 TGCTCTAATCCCTTGACTAGAAAAACTATAT 7 107 0 CCTTGACAGA 0.978981 -194 AAGGCGGCGTACTTGACAAAATGCCAATTCC 7 159 1 ACTTGACAAA 0.953232 -142 GCGACAAGATCCTTGACAGAATTCGCACACA 11 67 0 CCTTGACGAA 0.988755 -105 ******* *** Masking position 6 Map Score: 1.01975 Number of sites scoring better than the average of aligned sites = 14 Number in coding regions = 8 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 11 TCTCGCAGCTTTCTACCCACGCGCGGTCGT 1 41 0 TTCTACCCAC 0.800549 -260 GGTCCTACTCCTCTACCGAGCGGTGGGGGT 1 106 0 CTCTACCGAG 0.962863 -195 CGCCGGTTTTGCCTACCCTGTAGGGGGGTC 6 18 1 GCCTACCCTG 0.957648 -58 GGCAAGAAAACCCTTCCATGGTGGGAAATA 7 80 1 CCCTTCCATG 0.80996 -221 AAGGGCGTTGCTCTACCAGCTGAGCTAATA 7 230 0 CTCTACCAGC 0.871043 -71 CTTACACGCTGCCTACCGTGCACAAACTGC 8 46 0 GCCTACCGTG 0.957647 -255 GTACCCAAACCCCTACCGACACAGCCCGGG 8 142 0 CCCTACCGAC 0.976271 -159 TCGCACACACCTCTAGCCTCTCGCAAGACA 11 46 0 CTCTAGCCTC 0.848288 -126 ********** Masking position 4 Map Score: 0.495558 Number of sites scoring better than the average of aligned sites = 177 Number in coding regions = 152 Number in noncoding regions = 25 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 12 GACCAGTCCCGCGGCATACAAGGAGTAACC 1 132 1 GCGGCATACA 0.954778 -169 CCCGCCACCCGCTGCATCCCTTGACACTTC 1 234 0 GCTGCATCCC 0.888504 -67 GGATGCAAAGGCGGCGTACTTGACAAAATG 7 152 1 GCGGCGTACT 0.984703 -149 CACGCTGCCCGCGGCGCTGCGCGTGGCGCC 7 194 1 GCGGCGCTGC 0.774026 -107 AAGTGTGCGCGGTGTGCTGATAGTACAT 8 9 1 GCGGTGTGCT 0.633944 -292 ACACTTACACGCTGCCTACCGTGCACAAAC 8 49 0 GCTGCCTACC 0.938528 -252 TAAAAAAACTGCGGCATACCGCATGTACCC 8 225 0 GCGGCATACC 0.989229 -76 TTTTACAGCAGCGGCGTTGCTCGTTTTTAT 8 250 1 GCGGCGTTGC 0.970272 -51 AAGACAGCTTGCGGCGTATCAGCGGCTGCT 9 37 1 GCGGCGTATC 0.984098 -239 CTTGCCCTGCTGCGTATAGTTTCTCCGG 10 9 1 GCTGCGTATA 0.806078 -64 ********** Masking position 2 Map Score: 10.0446 Number of sites scoring better than the average of aligned sites = 336 Number in coding regions = 308 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 13 ********** No masking Map Score: 1.38088e-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 ********** No masking Map Score: 1.38088e-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 15 ********** No masking Map Score: 1.38088e-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