AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i012_synecho_ctra_100.orf -o012_synecho_ctra_100.ace -a/home/amcguire/genomes/ORF_synecho.txt -z/home/amcguire/genomes/synecho.fna -g0.46 -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 = 0.46 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 RCY07904 223 Synechocystis #2 RCY37124 170 Synechocystis #3 RCY13687 97 Synechocystis #4 RCY53785 100 Synechocystis #5 RCY18495 300 Synechocystis #6 RCY24628 300 Synechocystis #7 RCY41085 203 Synechocystis #8 RCY43113 224 Synechocystis #9 RCY40708 300 Synechocystis #10 RCT00084 37 Chlamydia_trachomatis #11 RCT00085 17 Chlamydia_trachomatis #12 RCT00086 191 Chlamydia_trachomatis #13 RCT00237 155 Chlamydia_trachomatis #14 RCT00465 300 Chlamydia_trachomatis #15 RCT00764 300 Chlamydia_trachomatis #16 RCT00827 300 Chlamydia_trachomatis Motif number 1 AATTTCCGGTGGCGATCGCCCCTTGGCCAG 1 98 1 GGCGATCGCC 0.499989 -126 ATACAATCAACTCGATCGCCGTCGAGCCGA 1 173 1 CTCGATCGCC 0.944034 -51 CGTTAAAAACCGGGTGCGCCAGAAAGTTTT 2 15 1 CGGGTGCGCC 0.831584 -156 CGATCGCCCTTGTCATCGCCGGATGTTTTT 2 93 0 TGTCATCGCC 0.68478 -78 CGATGACAAGGGCGATCGCCCTTGTTTCCC 2 105 1 GGCGATCGCC 0.499989 -66 AGAAGCGGCGATCGCCAGTGGTTATC 6 7 1 GGCGATCGCC 0.499989 -294 AAACTAATCTGCCCTTTGCCATCAATTTCT 6 64 0 GCCCTTTGCC 0.825266 -237 TGTTGTGAGCCTGGATTGCCGGAGTAACTA 6 186 1 CTGGATTGCC 0.774591 -115 AGTACAGAAGCCCGATCGCCTTCTATAACC 6 221 0 CCCGATCGCC 0.956759 -80 AATACTGCAAGGGGTTTGCCCGCCCAAAGC 8 177 0 GGGGTTTGCC 0.836833 -48 CCCCAGATTTGCCCAGCGCCCCAGCAATGG 9 26 1 GCCCAGCGCC 0.957587 -275 GAATCCCAACGGCGATCGCCATTCTTGCTT 9 165 1 GGCGATCGCC 0.499989 -136 AAGCAGACCTCTCGATTGCCAACAACACAC 9 281 0 CTCGATTGCC 0.922831 -20 ATGATCATTTTGCCATTGCCTCCAGCTATG 12 124 1 TGCCATTGCC 0.905613 -68 AAAACTCCCAGCGCCTTTGTACTAT 16 286 0 TCCCAGCGCC 0.867743 -15 ********** Masking position 8 Map Score: 24.9686 Number of sites scoring better than the average of aligned sites = 7942 Number in coding regions = 7243 Number in noncoding regions = 699 Number of orfs with sites within 600 bp upstream = 468 Fraction of orfs with sites within 600 bp upstream = 0.0751686 Motif number 2 CTTTTAATTTCCGGTGGCGATCGCCCCTTGGCC 1 93 1 CCGGGCGACG 0.960912 -131 ATGTTTTTTCCCGTGGTGGAAAGTTAGTTTAGC 2 68 0 CCGGTGGAAG 0.980935 -103 TAAGGGGTCACCGTTTGGGATAGAACCTGTATC 5 145 1 CCGTGGGAAG 0.92167 -156 TTTCTAATCACCGTAGTGAACAGATTGTCCATG 6 36 0 CCGGTGAAAG 0.941046 -265 TTAACAATGCCCGATGGGGTAGGTGTAGAGTCT 6 116 1 CCGGGGGTGG 0.984783 -185 CTGGCTATGACTGCGGAGAAAGGATTTTGATTC 8 104 0 CTGGAGAAGG 0.931392 -121 TGTCAGATCACTGTGGGGGTACGGATAACCGAA 9 122 0 CTGGGGGTCG 0.956101 -179 ATGGCGATCGCCGTTGGGATTCGGAGCTGAGTT 9 154 0 CCGGGGATCG 0.92709 -147 AAGTTTAGAACCGAGGGGGACATCTGGAAAGGG 9 239 0 CCGGGGGAAT 0.957122 -62 TCCACCATAGCTGGAGGCAATGGCAAAATGATC 12 126 0 CTGGGCAAGG 0.874813 -66 GCAGTATCGTCTGTTGAGAATAGAAATCTTTCT 13 76 1 CTGGAGAAAG 0.921149 -80 AAGAAATGATCCGCAGAGGAGGTTCAAGGTGAG 14 40 1 CCGGAGGAGT 0.892937 -261 ATTTTTTATGGTGGCGGGGACAG 14 288 1 GTGGGGGAAG 0.905125 -13 CTGGGGTGGAAGGATTCGAACCT 15 1 1 CTGGTGGAGG 0.970276 -300 AATATAAGGTCTGGAGAGGATAGTACAAAGGCG 16 267 1 CTGGAGGAAG 0.97347 -34 *** ***** ** Masking position 3 Map Score: 16.9854 Number of sites scoring better than the average of aligned sites = 1305 Number in coding regions = 1214 Number in noncoding regions = 91 Number of orfs with sites within 600 bp upstream = 116 Fraction of orfs with sites within 600 bp upstream = 0.0186315 Motif number 3 GGGCTAAAAAAAGCCAGGCCCATGACCCAAAA 1 23 1 AAGCCAGGCA 0.990157 -201 GATCGCCCCTTGGCCAGGGGAATTCTCCTCCA 1 111 1 TGGCCAGGGA 0.973417 -113 CTCCTTTTACTTGCCAGGGCTAAACTAACTTT 2 50 1 TTGCCAGGGA 0.88269 -121 TTACTCCGGCAATCCAGGCTCACAACAGCGAT 6 181 0 AATCCAGGCA 0.897959 -120 TAGCGTCGGCTAGCCTGGGTGATGTCACCCCG 6 257 1 TAGCCTGGGA 0.95705 -44 TAAATACAGTGAGCCAGGGAAAACTGCAAAAA 8 49 1 GAGCCAGGGA 0.98616 -176 TCCGCAGTCATAGCCAGGAGTAGGAAGATTAC 8 120 1 TAGCCAGGAA 0.953619 -105 TGCCCGCCCAAAGCTAGGGGAAGACAACTTGC 8 159 0 AAGCTAGGGA 0.944677 -66 TCATCATACGAAGCCAGGGACAGTTTACTCAG 9 67 1 AAGCCAGGGA 0.994849 -234 ATTATTAAAAAAGCCAGACAAACAAAACTGTA 14 241 0 AAGCCAGACA 0.897959 -60 ********* * Masking position 12 Map Score: 10.9063 Number of sites scoring better than the average of aligned sites = 516 Number in coding regions = 460 Number in noncoding regions = 56 Number of orfs with sites within 600 bp upstream = 66 Fraction of orfs with sites within 600 bp upstream = 0.0106007 Motif number 4 GGCTCCTGATAGCGGTTTTTACTCGACTTCGGC 1 198 0 AGCGGTTTTT 0.965671 -26 AGAGGCTCCTGATAGCGGTTTTT 1 211 0 AGAGGTCCTT 0.891051 -13 CGGGTGCGCCAGAAAGTTTTAGTCACTCCTTTT 2 25 1 AGAAATTTTT 0.731825 -146 TCTGCAACCTAGCGGTTTGTTATTTTTTCGGTG 5 178 1 AGCGGTTGTT 0.940214 -123 GAGAGTAATTAACAGTTTCTGCTTTCCATCCCT 7 96 0 AACAGTTCTT 0.61877 -108 GACTGCGGAGAAAGGATTTTGATTCAAGTTAAA 8 96 0 AAAGGTTTTT 0.83196 -129 TTACCAGCGAAGCAAGTTGTCTTCCCCTAGCTT 8 148 1 AGCAATTGTT 0.634489 -77 CCGGCTAACCAGCGGGTTTTAATGCCCCAAGCA 9 190 0 AGCGGTTTTT 0.965672 -111 ACGATACTGCAGAGGGTCTTGATATTCGGTAAA 13 53 0 AGAGGTCTTT 0.899916 -103 ATATTAAAAGAAAGATTTCTATTCTCAACAGAC 13 84 0 AAAGATTCTT 0.608835 -72 AGAGGCTTCTCATGTAAAGAGTT 13 143 0 AGAGGTTCTT 0.957423 -13 GCGAGTCAGAAAAGAGTTCTTATCTCTATAAAG 14 121 1 AAAGATTCTT 0.608827 -180 TGTCAAAATTAGATAATTTTTATTTTTCAAACA 14 171 1 AGATATTTTT 0.542785 -130 GCGGTAAGGCAGCGGTTTTTGGTACCGCGCATC 15 36 0 AGCGGTTTTT 0.965671 -265 TTCTGCTCATAGAAGGTCGTTGTGGTGGTAAGA 15 169 0 AGAAGTCGTT 0.616194 -132 AAAATAATCAAGATGTTTTTGTTATATTTAATT 15 222 0 AGATGTTTTT 0.774519 -79 TAAAAGCACGAGCAATTTTTTATAAGGATAAAC 16 89 1 AGCAATTTTT 0.756391 -212 ***** **** * Masking position 7 Map Score: 10.9056 Number of sites scoring better than the average of aligned sites = 385 Number in coding regions = 320 Number in noncoding regions = 65 Number of orfs with sites within 600 bp upstream = 69 Fraction of orfs with sites within 600 bp upstream = 0.0110826 Motif number 5 AATATTAATATTAAAAGAAAGATTTCTATT 13 94 0 TTAAAAGAAA 0.91374 -62 TCTTTTCCCATAAAAAGAAATGATCCGCAG 14 26 1 TAAAAAGAAA 0.808413 -275 AAAATAATTTTAAAAAATAAATTATTAAAA 14 263 0 TAAAAAATAA 0.725722 -38 CCCGCCACCATAAAAAATAATTTTAAAAAA 14 276 0 TAAAAAATAA 0.725722 -25 AAGATGCCCCTTAAATGTAAAAAACTTTGA 15 143 0 TTAAATGTAA 0.875842 -158 AAACTATCCATTAAATAAAAGTAATTAAAT 15 200 1 TTAAATAAAA 0.868981 -101 ATAAAAGTAATTAAATATAACAAAAACATC 15 214 1 TTAAATATAA 0.841977 -87 ATTATTTTTGTTAAAAGAAATAATTAATGA 15 247 1 TTAAAAGAAA 0.91374 -54 GTTTCGTTAATTAAATAAAACTCATTAATT 15 268 0 TTAAATAAAA 0.868981 -33 ACACTCGTAATTAAAAGAAATCTTATTTTG 16 157 0 TTAAAAGAAA 0.91374 -144 AGAAAGATGATTAAATATAAGGTCTGGAGA 16 254 1 TTAAATATAA 0.841977 -47 ********** Masking position 5 Map Score: 8.65468 Number of sites scoring better than the average of aligned sites = 134 Number in coding regions = 89 Number in noncoding regions = 45 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084 Motif number 6 CGATCGCCCCTTGGCCAGGGGAATTCTCCT 1 110 1 TTGGCCAGGG 0.919655 -114 TCCTCCAGTGCTTGCAAGGGAGGGGCAATA 1 136 1 CTTGCAAGGG 0.945473 -88 ACTCCTTTTACTTGCCAGGGCTAAACTAAC 2 49 1 CTTGCCAGGG 0.93439 -122 GGTGAGAGAAAGGGCTCAACGATC 4 87 0 AGAGAAAGGG 0.351335 -14 TTTGTTCCTTCTGGACTTGGACTAGCTCTC 5 43 1 CTGGACTTGG 0.474425 -258 CATACAAAAGTTAGCAATGGTAACCAAATT 5 225 1 TTAGCAATGG 0.770223 -76 TTAGAAATTGATGGCAAAGGGCAGATTAGT 6 62 1 ATGGCAAAGG 0.70463 -239 CTAGCGTCGGCTAGCCTGGGTGATGTCACC 6 256 1 CTAGCCTGGG 0.899628 -45 ATGCCACCGGCCGGCAATGGATAGTCCACG 7 42 1 CCGGCAATGG 0.946516 -162 ATAAATACAGTGAGCCAGGGAAAACTGCAA 8 48 1 TGAGCCAGGG 0.742371 -177 TTGTCTTCCCCTAGCTTTGGGCGGGCAAAC 8 164 1 CTAGCTTTGG 0.66731 -61 CGTTGGCAATACTGCAAGGGGTTTGCCCGC 8 184 0 ACTGCAAGGG 0.805687 -41 TCGGCTATGGTGATTTTTTG 8 215 0 TCGGCTATGG 0.657282 -10 GCCCAGCGCCCCAGCAATGGGGGTAACCCC 9 36 1 CCAGCAATGG 0.906376 -265 GATAACCGAAATGGCAAAGGTCGGAAACTG 9 102 0 ATGGCAAAGG 0.70463 -199 GATCGCCATTCTTGCTTGGGGCATTAAAAC 9 178 1 CTTGCTTGGG 0.728979 -123 AGGGGGACATCTGGAAAGGGAATCTGGACG 9 229 0 CTGGAAAGGG 0.870741 -72 GCCATTGCCTCCAGCTATGGTGGACTTTAT 12 135 1 CCAGCTATGG 0.801861 -57 ATCTCTATAAAGGGCATGGGTCCGTTTTTT 14 142 1 AGGGCATGGG 0.745673 -159 ********** Masking position 4 Map Score: 11.6945 Number of sites scoring better than the average of aligned sites = 4079 Number in coding regions = 3724 Number in noncoding regions = 355 Number of orfs with sites within 600 bp upstream = 360 Fraction of orfs with sites within 600 bp upstream = 0.057822 Motif number 7 AATGGTTGATGGGCGGTTCTGCCAAATTTTTGTC 4 36 0 GGGGGTGCCA 0.92747 -65 GCAACTCCTGGGAGAGCTAGTCCAAGTCCAGAAG 5 50 0 GGAAGTTCCA 0.977829 -251 GGGAAGGTGCTCCATTAATGCTGT 5 287 0 GGGAGTTCCA 0.98338 -14 TCACCGTAGTGAACAGATTGTCCATGATAACCAC 6 28 0 GAAAGTTCCA 0.941873 -273 GCATTGTTAAGGACAGTTGACACAGTGACAGAAA 6 92 0 GGAAGTCACA 0.892711 -209 ACGAAGCCAGGGACAGTTTACTCAGCGGCAGTTT 9 74 1 GGAAGTCTCA 0.922616 -227 TGACAAAGTTGAGTAGCTTGTTCA 12 1 0 GAGAGTTTCA 0.876949 -191 ACCTATCCAAGAGCAGATTCCTCACCTTGAACCT 14 59 0 GAGAGTCTCA 0.854616 -242 ATCTGCTCTTGGATAGGTATGCCAACAAAGATGT 14 75 1 GGAAGTGCCA 0.9615 -226 TCAGTAGGATGGAGAGCTATTCCATGGTACCTTT 16 219 0 GGAAGTTCCA 0.977825 -82 ATAAGGTCTGGAGAGGATAGTACAAAGGCGCTGG 16 270 1 GAGGGTTACA 0.656223 -31 *** ** * **** Masking position 14 Map Score: 9.56335 Number of sites scoring better than the average of aligned sites = 279 Number in coding regions = 256 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 8 TTTTTTCCCGTGGTGGAAAGTTAGTTTAGC 2 68 0 TGGTGGAAAG 0.932128 -103 GAGTAACTAATGGTGGTTATAGAAGGCGAT 6 207 1 TGGTGGTTAT 0.882486 -94 TATATGACGGTGGTGGTTACCCATCGGAGA 7 127 0 TGGTGGTTAC 0.953452 -77 GCCCCAGCAATGGGGGTAACCCCATCATCA 9 43 1 TGGGGGTAAC 0.969404 -258 CAGATCACTGTGGGGGTACGGATAACCGAA 9 122 0 TGGGGGTACG 0.944056 -179 AAGGTCGTTGTGGTGGTAAGATGCCCCTTA 15 160 0 TGGTGGTAAG 0.982354 -141 ********** Masking position 1 Map Score: 2.09734 Number of sites scoring better than the average of aligned sites = 92 Number in coding regions = 85 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 9 AAATTGTTCAGATTCTTTCCCTTAAAA 2 154 0 GCAGATTCTT 0.931061 -17 TGACGCATTCGTGCCGATTCTTCTCTTTGTTC 5 18 1 GCCGATTCTT 0.905802 -283 TCACCGTAGTGAACAGATTGTCCATGATAACC 6 30 0 GCAGATTGTC 0.803802 -271 CTAGCTCAAAGTACAGAAGCCCGATCGCCTTC 6 228 0 GCAGAAGCCC 0.936213 -73 TGACAACTCAGCTCCGAATCCCAACGGCGATC 9 150 1 GCCGAATCCC 0.936214 -151 CGGAATTTCCGTCCAGATTCCCTTTCCAGATG 9 220 1 GCAGATTCCC 0.986672 -81 CTTTTTATGGGAAAAGATTCTTAGGAATTTAC 14 11 0 GAAGATTCTT 0.700122 -290 ACCTATCCAAGAGCAGATTCCTCACCTTGAAC 14 61 0 GCAGATTCCT 0.969326 -240 GACAAAAAACGGACCCATGCCCTTTATAGAGA 14 143 0 GCCCATGCCC 0.829563 -158 TCGTTGTGGTGGTAAGATGCCCCTTAAATGTA 15 154 0 GAAGATGCCC 0.900403 -147 * ********* Masking position 7 Map Score: 4.76761 Number of sites scoring better than the average of aligned sites = 305 Number in coding regions = 276 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 10 GTCATGGGCCTGGCTTTTTTTAGCCCAAGAAT 1 17 0 TGGCTTTTTA 0.895245 -207 ACAAGGGCGATCGCCCTTGTCATCGCCGGATG 2 98 0 TCGCCTTGTA 0.961857 -73 ACAAGGGCGATCGCCCTTGTTTCCCTTTTCCA 2 110 1 TCGCCTTGTT 0.697756 -61 CTTGGCCCGTTGGATATGTTAAATCTGGAAAG 3 54 1 TGGATTGTTA 0.429688 -44 ATCAACACTGTCCCTGTTTTAATGGTTGATGG 4 58 0 TCCCTTTTTA 0.791209 -43 GCCTACTTATTCCCCATTTTAAGGGGTCACCG 5 126 1 TCCCCTTTTA 0.873848 -175 AAAGTTAGCATCGCTGTTGTGAGCCTGGATTG 6 172 1 TCGCTTTGTA 0.932412 -129 AGAATGGCGATCGCCGTTGGGATTCGGAGCTG 9 158 0 TCGCCTTGGA 0.871265 -143 AAAGGAAGTGCGCTCTTTTTATTACAGTTTT 10 17 0 GCGCTTTTTA 0.7559 -21 ATCAGGTCACTGGACTTGTTTATCATATTCAG 12 61 0 TGGACTGTTA 0.579346 -131 GACCTGATCCTCGCCATGTGGATGTTAGGCGT 12 85 1 TCGCCTGTGA 0.894336 -107 AACACAGAGATCGCCAAGTTAATGGTGATCAT 12 163 0 TCGCCAGTTA 0.758265 -29 AGTAAAATGTTCGCCTTTTTTAGTTAAGGAGG 13 15 0 TCGCCTTTTA 0.976592 -141 TTTGTTTGTCTGGCTTTTTTAATAATTTATTT 14 247 1 TGGCTTTTTA 0.895245 -54 GTGTAGGAGGTCGCTATGTTGATAATAACGTT 16 183 1 TCGCTTGTTA 0.94933 -118 ***** **** * Masking position 7 Map Score: 10.9706 Number of sites scoring better than the average of aligned sites = 976 Number in coding regions = 881 Number in noncoding regions = 95 Number of orfs with sites within 600 bp upstream = 112 Fraction of orfs with sites within 600 bp upstream = 0.0179891 Motif number 11 GGGCTAAAAAAAGCCAGGCCCATGACCCAAA 1 23 1 AAGCCAGGCC 0.962621 -201 GATCGCCCCTTGGCCAGGGGAATTCTCCTCC 1 111 1 TGGCCAGGGA 0.833154 -113 TTACTCCGGCAATCCAGGCTCACAACAGCGA 6 182 0 AATCCAGGCC 0.965199 -119 GGCAATGGATAGTCCACGGACAAAGCACTAA 7 54 1 AGTCCACGGC 0.953806 -150 CCACTAATTGAGTTCAGGGCCTGGTTGCCAT 7 171 0 AGTTCAGGGC 0.966141 -33 TCATCATACGAAGCCAGGGACAGTTTACTCA 9 67 1 AAGCCAGGGC 0.987189 -234 TTGTTTATCATATTCAGGGCCGCATCTCCCC 12 47 0 TATTCAGGGC 0.868172 -145 ATGATAAACAAGTCCAGTGACCTGATCCTCG 12 67 1 AGTCCAGTGC 0.933026 -125 ********* * Masking position 6 Map Score: 2.56714 Number of sites scoring better than the average of aligned sites = 586 Number in coding regions = 532 Number in noncoding regions = 54 Number of orfs with sites within 600 bp upstream = 65 Fraction of orfs with sites within 600 bp upstream = 0.0104401 Motif number 12 TGCAAGCACTGGAGGAGAATTCCCCTGGCCAAG 1 119 0 GGAGAAATCC 0.588582 -105 TTCCACCACGGGAAAAAACATCCGGCGATGACA 2 80 1 GGAAAACTCC 0.837209 -91 ACAAAAATTTGGCAGAACCGCCCATCAACCATT 4 37 1 GGCAACCCCC 0.932045 -64 TTCTGGACTTGGACTAGCTCTCCCAGGAGTTGC 5 51 1 GGACACTTCC 0.963893 -250 CAGCATTAATGGAGCACCTTCCC 5 288 1 GGAGACTCCC 0.975328 -13 TGGTTATCATGGACAATCTGTTCACTACGGTGA 6 29 1 GGACACTTTC 0.722259 -272 CTGGTTAGCCGGAATTTCCGTCCAGATTCCCTT 9 211 1 GGAATCCTCC 0.795198 -90 CATATTCAGGGCCGCATCTCCCCCGAATGTTCT 12 37 0 GCCGACTCCC 0.85532 -155 CATCTTTGTTGGCATACCTATCCAAGAGCAGAT 14 75 0 GGCAACTTCC 0.968508 -226 CCTTCTATGAGCAGAAACTATCCATTAAATAAA 15 186 1 GCAGACTTCC 0.937743 -115 AAGGTACCATGGAATAGCTCTCCATCCTACTGA 16 220 1 GGAAACTTCC 0.973241 -81 **** * ** *** Masking position 13 Map Score: 4.28129 Number of sites scoring better than the average of aligned sites = 610 Number in coding regions = 538 Number in noncoding regions = 72 Number of orfs with sites within 600 bp upstream = 80 Fraction of orfs with sites within 600 bp upstream = 0.0128493 Motif number 13 TAAGTTAGTCAAGTAAAAGATTTGGTTCAC 1 61 0 AAGTAAAAGA 0.921718 -163 CGCCACCGGAAATTAAAAGATTAAGTTAGT 1 82 0 AATTAAAAGA 0.670556 -142 TAGCCCTGGCAAGTAAAAGGAGTGACTAAA 2 42 0 AAGTAAAAGG 0.949435 -129 ACCTTTGGAAAAGGGAAACAAGGGCGATCG 2 117 0 AAGGGAAACA 0.64498 -54 TGCTAGTTTTAAGGGAAAGAATCTGAACAA 2 148 1 AAGGGAAAGA 0.925945 -23 GGTGAGAGAAAGGGCTCAACGAT 4 88 0 GAGAGAAAGG 0.648576 -13 CCGACACTATAAGGGAAAGGCACAGCATTA 5 266 1 AAGGGAAAGG 0.952243 -35 ACAAAGCACTAAGAAAAAGGTATAGGGATG 7 73 1 AAGAAAAAGG 0.890929 -131 GTAAAAAATCAAGTAAAATGTTCGCCTTTT 13 28 0 AAGTAAAATG 0.64798 -128 CTACACTCGTAATTAAAAGAAATCTTATTT 16 159 0 AATTAAAAGA 0.670556 -142 ********** Masking position 6 Map Score: 1.77727 Number of sites scoring better than the average of aligned sites = 299 Number in coding regions = 259 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 41 Fraction of orfs with sites within 600 bp upstream = 0.00658529 Motif number 14 ********** No masking Map Score: -1.29863e-11 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: -1.29863e-11 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