AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i03010_ctra_reg_300.orf -o03010_ctra_300.ace -a/home/amcguire/genomes/ORF_ctra.txt -z/home/amcguire/genomes/ctra.fna -g0.41 -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 = 0.41 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: secY 22 Translocase Input sequences: #1 rl31 75 L31 Ribosomal Protein #2 pfrA 187 Peptide Chain Releasing Factor (RF-1) #3 rl19 25 L19 Ribosomal Protein #4 rl28 148 L28 Ribosomal Protein #5 sycE 37 Secretion Chaperone #6 yscU 256 YopS Translocation Protein U #7 rs1 244 S1 Ribosomal Protein #8 araD 83 Ribulose-P Epimerase #9 rl13 222 L13 Ribosomal Protein #10 rs9 25 S9 Ribosomal Protein #11 rl33 300 L33 Ribosomal Protein #12 rl7 31 L7/L12 Ribosomal Protein #13 rl10 21 L10 Ribosomal Protein #14 rl1 22 L1 Ribosomal Protein #15 rl11 105 L11 Ribosomal Protein #16 secE 142 Preprotein translocase subunit #17 tufA 300 Elongation Factor Tu #18 rs21 196 S21 Ribosomal Protein #19 CT343 300 O-Sialoglycoprotein Endopeptidase family #20 rl27 30 L27 Ribosomal Protein #21 rl21 300 L21 Ribosomal Protein #22 fusA 41 Elongation Factor G #23 rs7 49 S7 Ribosomal Protein #24 rs12 259 S12 Ribosomal Protein #25 rs11 21 S11 Ribosomal Protein #26 rs13 55 S13 Ribosomal Protein #27 rl18 21 L18 Ribosomal Protein #28 rl6 27 L6 Ribosomal Protein #29 rl16 32 L16 Ribosomal Protein #30 rl2 23 L2 Ribosomal Protein #31 rl3 300 L3 Ribosomal Protein #32 rs20 300 S20 Ribosomal Protein #33 rs4 300 S4 Ribosomal Protein #34 rs2 300 S2 Ribosomal Protein #35 rl34_rl36 476 rl34: L34 Ribosomal Protein, rl36: L36 Ribosomal Protein #36 rs14 23 S14 Ribosomal Protein #37 ctc 300 General Stress Protein #38 rs6 137 S6 Ribosomal Protein #39 CT809 300 hypothetical protein #40 rl32 259 L32 Ribosomal Protein #41 infC 300 Initiation Factor 3 #42 rs15 156 S15 Ribosomal Protein Motif number 1 TTTCTGCCACTTTTTCACGAAAACTTCTTCCCG 4 43 1 TTTTTAAAAA 0.934657 -106 AGCCTTTTTATTATTAAGGAAAAAGAAATTCTA 6 50 1 TTATTAAAAA 0.757568 -207 GAAAAAGAAATTCTAAAGAAAAAGCAAGATTAG 6 68 1 TTCTAAAAAA 0.873 -189 GCAAGATTAGTGCTTCATGAAAAACGCTCTTTA 6 91 1 TGCTTAAAAA 0.781152 -166 GCCACCTTCTTTCTTGAGAAAAACATTTATATA 6 186 1 TTCTTAAAAA 0.950227 -71 TAGTGAAACTTTTTTTAATAAAGAGATGCATCT 7 128 1 TTTTTAAAAG 0.903621 -117 AGAAAATGATTTTTTGATAAAAAAATCCTTCTT 11 80 0 TTTTTAAAAA 0.799973 -221 ATTTAGCATTTTCTTGAGAAAAGGTTCATTC 11 280 1 TTCTTAAAAG 0.926232 -21 TAGGCGCGCGTTATTAAATAAAACCAATTACGT 18 161 1 TTATTAAAAA 0.756839 -36 ATAAATGAGCTTTTTTAGTAAAGTCGGTTTTGA 19 194 1 TTTTTAAAAG 0.903621 -107 GCGAATTAATTTTTGAATTAAAACGGTTTTAAC 19 237 1 TTTTGAAAAA 0.731935 -64 AAACTCTCCATTCTAGAAGAAAGCGCCTGACTT 21 248 0 TTCTAAAAAG 0.813337 -53 AGGGAAGGCTTGTTTTAAGAAAATCTTTTGGAG 24 105 1 TGTTTAAAAA 0.729127 -155 GGAGGAAATGTTTTTTAATAAAATTGTTATAGA 24 134 1 TTTTTAAAAA 0.878587 -126 TTCTTTTTATTTCTTCATCAAAACTCTTTGATC 33 42 0 TTCTTAAAAA 0.95237 -259 GTGCTGCGGATTTTATAGCAAAAGGGTACTTCT 35 122 0 TTTTAAAAAA 0.803795 -355 TTTTTATGATTTCTTGAGTAAAGAAAGTAGTTC 35 353 0 TTCTTAAAAG 0.926257 -124 TACTGTTCACTTTTTGAAAAAAAGTTACTGAAA 38 24 1 TTTTTAAAAA 0.799973 -114 TGAAAATAAGTTTTTAAAAAAAGTGTTTGCAGC 39 21 0 TTTTTAAAAG 0.90189 -280 AATAGGTTGCTTCTAGACAAAAATAGGGGTTAT 39 53 0 TTCTAAAAAA 0.873 -248 TCGAGAGTTTTTTTGAAATAAAAAAATGTTTTG 41 86 1 TTTTGAAAAA 0.731935 -215 GTTTGATTTTTTCTAAATCAAAAACCCCTCATA 42 59 1 TTCTAAAAAA 0.874968 -98 ***** * **** Masking position 4 Map Score: 25.6393 Number of sites scoring better than the average of aligned sites = 145 Number in coding regions = 145 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 TGGCAATCAATTTTTGGGGAACACTAGACTT 2 110 0 TTTTTGGGAA 0.905085 -78 AAAAAGAATTTTTAGGTGAAATACA 3 10 1 TTTTAGGGAA 0.966985 -16 CGGCCAGTGAATATAGGAAAGTC 4 136 1 ATATAGGAAG 0.417612 -13 TCTTGCCTTTTTTAAGGTGAATATTTACACT 7 184 1 TTTAAGGGAA 0.653882 -61 ACTTTGTAGTTTTTAGGAGAACATCATTAA 7 225 1 TTTTAGGGAA 0.966985 -20 CGAAAAAATATTTTAGGGAAGTTCTTGAATC 9 36 0 TTTTAGGAAG 0.940936 -187 TTATTTGTCGTTTTAGGTGTAAGAGAAGAAG 11 55 1 TTTTAGGGTA 0.787017 -246 TATTGCTAGAATTTAGGTAAGATCTTGGTTC 11 162 1 ATTTAGGAAG 0.798656 -139 CAAGTAAAGTTTATAGGGAAAGAATTG 21 284 1 TTATAGGAAA 0.574121 -17 TATTAATTATTTTTAGGGAAGGCTTGTTTTA 24 91 1 TTTTAGGAAG 0.940936 -169 TAATTTTTAGGAGAGAGTGTT 25 5 1 TTTTAGGGAG 0.98427 -17 GTTTTTGCGATTTTTGGTGTGGGATTTCTTA 31 75 1 TTTTTGGGTG 0.719891 -226 CACGTGGAGATTTTAGGTGAAAAGACAATAA 32 50 0 TTTTAGGGAA 0.966985 -251 TGTATTGATCTTTTAGGTGAGATCCTTTAAA 35 395 1 TTTTAGGGAG 0.98427 -82 ACTTCAAGAGTATTAGGAGAGTATT 35 462 1 TATTAGGGAG 0.809338 -15 TATATAGATTTAGGTGAGAACGC 36 8 1 ATTTAGGGAG 0.939685 -16 GCAACCTATTTGTTAGGGGAAGCATGGGGAA 39 76 1 TGTTAGGGAA 0.746515 -225 GAGAAAAAGGTTTTTGGGAAGCCGAAGGTTT 40 30 0 TTTTTGGAAG 0.83836 -230 GTCGCGGTATATTTTGGGGAGTCGTTCCACA 40 153 1 ATTTTGGGAG 0.835315 -107 CCAGACTTCCTTATTGGGGAGGGTAGCTATC 40 215 1 TTATTGGGAG 0.786444 -45 AGGAGTGAAGTTTTAGGCGCAATACTTGATA 41 161 1 TTTTAGGGCA 0.756445 -140 ******* *** Masking position 6 Map Score: 24.2328 Number of sites scoring better than the average of aligned sites = 149 Number in coding regions = 149 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 TATTATTAAGGAAAAAGAAATTCTAAAGAAAAA 6 58 1 GAAAAAGTTC 0.540476 -199 AACGCTCTTTAAAAAAAATATTCCGTTCTCTAA 6 113 1 AAAAAAATTC 0.915218 -144 CTTCTTTCTTGAGAAAAACATTTATATACGGTA 6 191 1 GAGAAAATTT 0.888983 -66 CACTTCTTTCGAAAAAATATTTTAGGGAAGTTC 9 43 0 GAAAAAATTT 0.804027 -180 TGAAGGCAAAAAGAAAAGAGATCTTTTTGAAAT 9 96 1 AAGAAAAATC 0.781186 -127 GAATTTAGAAAAGAAAAAATTTCAAAAAGATCT 9 114 0 AAGAAAATTC 0.954186 -109 ATTTTTTGATAAAAAAATCCTTCTTCTCTTACA 11 72 0 AAAAAAATTC 0.915218 -229 TAGACACGGTGAGAAAATGATTTTTTGATAAAA 11 91 0 GAGAAAATTT 0.888983 -210 CCTAAACCTAAAGAAAAGAAATACGAAGAGGTT 23 19 1 AAGAAAAATA 0.506466 -31 ACAGTATTCGAAGAAAACATTTTATCAGCAAGG 24 43 1 AAGAAAATTT 0.928222 -217 AATAATTAATAAAAAAAGAGTTAAATCCTTGCT 24 69 0 AAAAAAATTA 0.756298 -191 GGCTTGTTTTAAGAAAATCTTTTGGAGGAAATG 24 111 1 AAGAAAATTT 0.928201 -149 GCTTCCTTGGAAGAAAACTTATAACGCT 31 6 0 AAGAAAAATA 0.506466 -295 TCTCAGTGCTAAAAAAACTCTTCTTATTTAAAA 33 132 0 AAAAAAATTC 0.915218 -169 AGATCACTGTAAGAAAACTTTTATGGTTTTTAG 35 157 0 AAGAAAATTA 0.856871 -320 TTCTTGAGTAAAGAAAGTAGTTCCATTAGTAGA 35 343 0 AAGAAAGTTC 0.7856 -134 ATAAGTTTTTAAAAAAAGTGTTTGCAGCATAAG 39 16 0 AAAAAAATTT 0.870173 -285 TTAGAGAGAGAAAAAAAACCTTCGGCTTCCCAA 40 15 1 AAAAAAATTC 0.915229 -245 AAGTATATTAGAGAAAAAGGTTTTTGGGAAGCC 40 38 0 GAGAAAATTT 0.888983 -222 TTTTTGAAATAAAAAAATGTTTTGTATGAAGGT 41 95 1 AAAAAAATTT 0.868957 -206 TTCTTAATTCAAGAAAACCTTTTTTATCGGGTT 42 23 0 AAGAAAATTT 0.928222 -134 TCTGCACAGAGAAAAAAAACTTCTTACTCTAGC 42 129 1 GAAAAAATTC 0.869883 -28 ******* *** Masking position 12 Map Score: 21.6737 Number of sites scoring better than the average of aligned sites = 177 Number in coding regions = 177 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 GCGAACACCCCGCTTTTTTTGTTTTAATAAGT 2 48 1 CGCTTTTTTT 0.885324 -140 TAATAAGTCTCTCTTTTTGAATCTGACTTTTC 2 72 1 CTCTTTTTAT 0.870262 -116 CTAACATAGTTTCTTTTTGTTACAGTTGCCCT 4 92 1 TTCTTTTTTA 0.647068 -57 AGGAAGTGCGCTCTTTTTATTACAGTTTTTAC 5 14 0 CTCTTTTTTA 0.853898 -24 TCTTTAGAATTTCTTTTTCCTTAATAATAAAA 6 55 0 TTCTTTTTCT 0.717598 -202 GCACTAATCTTGCTTTTTCTTTAGAATTTCTT 6 72 0 TGCTTTTTTT 0.707757 -185 GAACCCCTTACTCTTTGTTTATAAATGGGATG 6 147 1 CTCTTTGTTT 0.699938 -110 ATTTACACTACTCTTTTTGACTTTGTAGTTTT 7 206 1 CTCTTTTTAT 0.870262 -39 CTATTTTTTTTATTATGTAAAT 9 1 1 CTATTTTTTA 0.410295 -222 AAGATCTCTTTTCTTTTTGCCTTCAAAAATAG 9 89 0 TTCTTTTTCT 0.717598 -134 CAAATACAGCTGCTTTTTGTTTGGAAAAAATA 9 156 1 TGCTTTTTTT 0.707757 -67 GATAAAACAACTCTTTTTGCCTGGCATCAAAT 11 21 1 CTCTTTTTCT 0.890114 -280 TTTGTCACCCTTATTTTTTAGAATGTTAA 12 13 0 CCCTTATTTT 0.705757 -19 ATTCTGTGTATTCTTATTCTCTATGTTCTTAT 15 20 1 TTCTTATTTT 0.754941 -86 AAAGACTTGTCCCTTTTTTTCTTATTTGGGAC 21 136 0 CCCTTTTTTT 0.885324 -165 AAGGATTTAACTCTTTTTTTATTAATTATTTT 24 72 1 CTCTTTTTTT 0.969334 -188 AACAAAGATATTCTTATTCTATATTTCCCTGT 24 208 1 TTCTTATTTT 0.754941 -52 TTTATCTATCCTATTTTTCTTTCTATTTTATT 32 23 1 CTATTTTTTT 0.790045 -278 GCCGACACTTCTGTTTTTGTGTCGGTCTCTGG 32 128 1 CTGTTTTTTT 0.628961 -173 CCCAATTAGGCTATTTTTAACTGTTATCTTTA 32 272 0 CTATTTTTAT 0.443992 -29 TGAAAAAGGTTTCTTTTTATTTCTTCATCAAA 33 53 0 TTCTTTTTTT 0.908389 -248 GCTAAAAAAACTCTTCTTATTTAAAAAATCTC 33 126 0 CTCTTCTTTT 0.751353 -175 GTTCAGTCCTTATTTTATTCCTTAAAAA 33 283 0 TCCTTATTTT 0.42936 -18 GCTTTGTTCCTCTTTTTATGTGTTAACAAGG 34 280 0 CTCTTTTTTT 0.969334 -21 CTGAGCAAGTCTCTTATTGTCAAAAAGTGAGG 35 304 0 CTCTTATTTA 0.644862 -173 TAATGTGAATCTCTTATTGAATAGGAGAGATT 37 66 1 CTCTTATTAT 0.675748 -235 TTCATAACCCCTATTTTTGTCTAGAAGCAACC 39 50 1 CTATTTTTTT 0.790045 -251 ******** * * Masking position 5 Map Score: 17.9656 Number of sites scoring better than the average of aligned sites = 346 Number in coding regions = 346 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 TTAGTATGTGAAAATCTCACATAACAGAAG 1 33 0 AAAATCTCAC 0.828668 -43 TGACAACCCCAAAATCACTATCTTAGTATG 1 55 0 AAAATCACTA 0.47908 -21 GATATCCTTGAAAATCTCAAGGATTGACAG 7 19 1 AAAATCTCAA 0.947414 -226 TTCGACACACAAAATCTAAAACTAAAATTA 7 89 1 AAAATCTAAA 0.487783 -156 TAGAAAAGAAAAAATTTCAAAAAGATCTCT 9 112 0 AAAATTTCAA 0.642549 -111 TCCCGCAATCAAACTCTCAACCAGCCTGAA 17 123 0 AAACTCTCAA 0.909135 -178 GATATACTACAAAATCGCAACAATTAGTGC 19 82 1 AAAATCGCAA 0.828668 -219 TTCTCCGTCAAAACTCTCTAAACGCCATTA 21 21 0 AAACTCTCTA 0.838431 -280 TTACTTGTTGAAACTCTCCATTCTAGAAGA 21 261 0 AAACTCTCCA 0.862383 -40 TCCCACACCAAAAATCGCAAAAACAAAGCC 31 69 0 AAAATCGCAA 0.828668 -232 AGCGTCAAGAAAAATCTCTTGTGTGGATGT 31 105 1 AAAATCTCTT 0.47908 -196 CTTTTCACCTAAAATCTCCACGTGTTCCGT 32 57 1 AAAATCTCCA 0.918594 -244 TCTTATTTAAAAAATCTCAAAAAAGGTCGA 33 114 0 AAAATCTCAA 0.947414 -187 GCCCCAATCGAAAATCTCTCCTATTCAATA 37 80 0 AAAATCTCTC 0.71498 -221 TTCATCGATTAAAATTTCCAGGGGATAGAG 39 225 1 AAAATTTCCA 0.529604 -76 TATTTCAAAAAAACTCTCGATCGCCCCTGG 41 76 0 AAACTCTCGA 0.700391 -225 ********** Masking position 5 Map Score: 9.52769 Number of sites scoring better than the average of aligned sites = 81 Number in coding regions = 81 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 CCTGTCGAGAGATAGCGGCCAGTGAATATAG 4 121 1 GAAGCGGCCA 0.843007 -28 CAGTGGCCTCCAAAGCCGCCGGTCGGGGGTT 16 75 1 CAAGCCGCCG 0.848263 -68 GACTTGGCCGGAGAGCCCCTGTTAGCGCTTA 21 222 0 GAAGCCCCTG 0.982585 -79 CATTCTAGAAGAAAGCGCCTGACTTGGCCGG 21 242 0 GAAGCGCCTG 0.978526 -59 ACGCTTCACAGACCGCCCCCGGTGCCTAATT 31 251 0 GACGCCCCCG 0.989186 -50 CGGTCTACTTGAGCGCGCCCGTAGCTCAATG 34 145 1 GACGCGCCCG 0.986639 -156 TATTAGGAGTAAAAGCGCCCGATCAGAATCG 34 212 0 AAAGCGCCCG 0.909071 -89 ACTTAGAAATGAGAGCCCCTAGCAAAACAGC 35 75 1 GAAGCCCCTA 0.917454 -402 AAAAACTCTCGATCGCCCCTGGTAAACAGGT 41 67 0 GACGCCCCTG 0.978971 -234 ** ******** Masking position 2 Map Score: 7.61118 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 7 GAACGACTTCTTCTGCCTTTACTCTAG 2 171 0 CTTCTTCTCC 0.935528 -17 TTCACGAAAACTTCTTCCCGATATATTAAAA 4 56 1 CTTCTTCCGA 0.411804 -93 AAAAATCCTTCTTCTCTTACACCTAAAACGA 11 62 0 CTTCTCTTCA 0.756396 -239 TTTAATATTACTTCTTCTTACCGATATACTA 19 60 1 CTTCTTCTAC 0.533438 -241 TTCTATTCAACTTCTCTTTGCTGCAATTGAT 19 143 0 CTTCTCTTGC 0.928927 -158 GGCCGGAGAGCCCCTGTTAGCGCTTAAGGAC 21 217 0 CCCCTGTTGC 0.487918 -84 CTCGATTCAACCTCTCTTACAAACAGGGAAA 24 231 0 CCTCTCTTCA 0.631998 -29 TTTATGCAATCTTCTTTTAGAGAAATTTTAT 34 91 0 CTTCTTTTGA 0.634867 -210 GCAAAACAGCCTCCTCCTACCGGACAAGAAG 35 96 1 CTCCTCCTCC 0.928191 -381 GTTGTTAATCCTCCTTTATCCGGGAAGGCTC 35 249 0 CTCCTTTACC 0.599839 -228 ATTATCAAGCCTTCTGTTCCCTTAGATGGCC 37 107 0 CTTCTGTTCC 0.77546 -194 ACGAAGAAATCCTCTCCAAGCAAGCGTCTAC 37 161 0 CCTCTCCAGC 0.778323 -140 GCCTTAAGGGCTTCTTTTCCCTCAACCGGAT 37 236 0 CTTCTTTTCC 0.899983 -65 GCATGAATATCTTCTCTATCCCCTGGAAATT 39 237 0 CTTCTCTACC 0.813603 -64 ACCCTCTTCTTCCGAATCGCAAA 39 288 0 CCTCTTCTCC 0.889206 -13 GCTCTCTATTCTTCTCCCGGCGAACACGAAA 40 69 0 CTTCTCCCGC 0.840326 -191 GGGGACACCCCCTCTCTTCGCAGTGAAAACG 40 116 0 CCTCTCTTGC 0.878478 -144 TAAAACTTCACTCCTTCTTCCATAAGAAGAA 41 145 0 CTCCTTCTCC 0.889206 -156 AGAGGGATTTCTCCTTCTGGCCTAAACAATC 41 263 0 CTCCTTCTGC 0.878614 -38 GCCACCCTTCTCCAAGAAGAGGGATTT 41 284 0 CTTCTCCAGA 0.576287 -17 ******** ** Masking position 5 Map Score: 12.2168 Number of sites scoring better than the average of aligned sites = 337 Number in coding regions = 336 Number in noncoding regions = 1 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 8 TCTAGTATCTCTCTAACAAAGACCAGAGTGTA 2 144 0 CTCTAACAGA 0.872718 -44 AATCCTTCTTCTCTTACACCTAAAACGACAAA 11 58 0 CTCTTACATA 0.810339 -243 GAGGCCACTGCTCTACCATCTAAGCTACACAC 16 53 0 CTCTACCATA 0.91943 -90 CATGCAAGTGCTCTACCACTGAGCTACCTGGG 17 195 0 CTCTACCAGA 0.968809 -106 ACAACCCTTGCTCTTCCAAGGATTTTGAACTA 19 19 0 CTCTTCCAGA 0.981371 -282 GTTATAAGTTTTCTTCCAAGGAAGCTCCACTA 31 14 1 TTCTTCCAGA 0.944402 -287 TCTGGAGTGACACTTCCAGAGATGACGTAAAG 32 155 1 CACTTCCAGA 0.859189 -146 AATCTCTCCCAATTAGGCTATTTTT 32 286 0 CTCTCCCATA 0.837152 -15 AAGGCTACAGCTCTACCATTGAGCTACGGGCG 34 160 0 CTCTACCAGA 0.968809 -141 CATAAAAGTTTTCTTACAGTGATCTCTGCTCT 35 165 1 TTCTTACAGA 0.789513 -312 TTGACCTTGCTTCTTCCAATAACTAGAGATAG 38 100 0 TTCTTCCAAA 0.654859 -38 TAAATTATAATTCTTCCAAATATCTTACCGCG 39 131 0 TTCTTCCATA 0.861928 -170 ******** ** Masking position 8 Map Score: 9.14618 Number of sites scoring better than the average of aligned sites = 87 Number in coding regions = 87 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 CCGTTCTCTAAAGAACCCCTTACTCTTTGT 6 135 1 AAGAACCCCT 0.90706 -122 TTTTTTGATAAAAAAATCCTTCTTCTCTTA 11 74 0 AAAAAATCCT 0.820997 -227 CATTTATTCAAAGAGACCCTCATAACGTTG 11 201 0 AAGAGACCCT 0.619291 -100 CTCAAAAATCCTCAAATTAAAA 17 289 0 CAAAAATCCT 0.702002 -12 CTGCAATTGATAAAAACCCTGCTATACTTT 19 124 0 TAAAAACCCT 0.748838 -177 GACTCAAAAACCCTTTATGTTCCC 20 17 0 CAAAAACCCT 0.898204 -14 TAGACCTAGAAATAACCCCTTGCAAACAAA 24 184 1 AATAACCCCT 0.69062 -76 AAGAAATAAAAAGAAACCTTTTTCAGTATC 33 60 1 AAGAAACCTT 0.558198 -241 CTCAGTGCTAAAAAAACTCTTCTTATTTAA 33 134 0 AAAAAACTCT 0.585905 -167 GAAGATTGCATAAAAATCCTTGCTTCCAGT 34 108 1 TAAAAATCCT 0.443209 -193 GGCACATACGAAGAAATCCTCTCCAAGCAA 37 169 0 AAGAAATCCT 0.803751 -132 GTTGAGGGAAAAGAAGCCCTTAAGGCCATT 37 241 1 AAGAAGCCCT 0.691144 -60 TAAAAACTCCTAAGCATTGAC 38 127 0 AAAAACTCCT 0.744764 -11 AACTTATTTTCATAACCCCTATTTTTGTCT 39 42 1 CATAACCCCT 0.534134 -259 TAGAGAGAGAAAAAAAACCTTCGGCTTCCC 40 16 1 AAAAAAACCT 0.666139 -244 TTCGGCTTCCCAAAAACCTTTTTCTCTAAT 40 35 1 CAAAAACCTT 0.42087 -225 TTTTATTTCAAAAAAACTCTCGATCGCCCC 41 79 0 AAAAAACTCT 0.585905 -222 TTCTTAATTCAAGAAAACCTTTTTTATCGG 42 26 0 AAGAAAACCT 0.640508 -131 TTTCTAAATCAAAAACCCCTCATAACATAC 42 68 1 AAAAACCCCT 0.916174 -89 ********** Masking position 10 Map Score: 9.4286 Number of sites scoring better than the average of aligned sites = 227 Number in coding regions = 227 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 TTTAGAGAACGGAATATTTTTTTTAAAGAG 6 117 0 GGAATATTTT 0.582569 -140 ATAATTTTGATGATTATTTTTTCCAAACAA 9 172 0 TGATTATTTT 0.861488 -51 TCAGAGGGAATGATTATAATTTTGATGATT 9 187 0 TGATTATAAT 0.46671 -36 AAGAGAAGAAGGATTTTTTTATCAAAAAAT 11 75 1 GGATTTTTTT 0.733838 -226 GAGCAGATCTTGATTATTTTTGAAAATAGG 11 234 1 TGATTATTTT 0.861488 -67 CTTCAGACGCGGATTATTATCAAGCTT 17 8 0 GGATTATTAT 0.908412 -293 CTGGAAGCAAGGATTTTTATGCAATCTTCT 34 107 0 GGATTTTTAT 0.733838 -194 TTGCAGCCTCTGATTATTATCAAGCCTTCT 37 123 0 TGATTATTAT 0.861488 -178 TTATCGAAACTGATTATTTTTCAGTAACTT 38 45 0 TGATTATTTT 0.861488 -93 CTATAGATGAGGATTATTATCAAGTATTGC 41 179 0 GGATTATTAT 0.908412 -122 ********** Masking position 5 Map Score: 4.08449 Number of sites scoring better than the average of aligned sites = 33 Number in coding regions = 33 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 CATAACAGAAGGGAGAGCATACCCGAACATTTT 1 10 0 GGAGAGCACC 0.976262 -66 TTTATAAATGGGATGAGCATCTGCCACCTTCTTT 6 164 1 GGTGAGCAGC 0.98212 -93 TAGCTTAGATGGTAGAGCAGTGGCCTCCAAAGCC 16 58 1 GGAGAGCAGC 0.994956 -85 GTAGCTCAGTGGTAGAGCACTTGCATGGTAAGCA 17 200 1 GGAGAGCAGC 0.97729 -101 CAAAATCCTTGGAAGAGCAAGGGTTGTGTGCACA 19 24 1 GGAGAGCAGT 0.971837 -277 GTAGCTCAATGGTAGAGCTGTAGCCTTCCAAGCT 34 165 1 GGAGAGCTGC 0.970751 -136 ** ****** ** Masking position 6 Map Score: 4.55283 Number of sites scoring better than the average of aligned sites = 3 Number in coding regions = 3 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 AGGTTGCTTCCTCTTTTGTGCTAAGCCCAG 17 170 1 CTCTTTTGTG 0.898736 -131 AATCCCCGGTCTCTTGTGCGTTCGAGCTAG 18 134 1 CTCTTGTGCG 0.963114 -63 AATCTTCTAACTCTTTTGCGCAAATGTGAA 21 76 0 CTCTTTTGCG 0.856574 -225 CAAGAAAAATCTCTTGTGTGGATGTCGCAG 31 110 1 CTCTTGTGTG 0.974875 -191 TTGTGTCGGTCTCTGGAGTGACACTTCCAG 32 144 1 CTCTGGAGTG 0.844231 -157 TCCGGGAAGGCTCTTGTTTGCAATTCTGTG 35 232 0 CTCTTGTTTG 0.812493 -245 CGTCCCTAGTCTCTTGGGGGCAGAGTCCCT 35 428 1 CTCTTGGGGG 0.905189 -49 TAAAAGACAACTCTGGGGTGGAAGGATTCG 37 17 0 CTCTGGGGTG 0.936651 -284 ********** Masking position 4 Map Score: 3.61527 Number of sites scoring better than the average of aligned sites = 13 Number in coding regions = 13 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 AAAAGTCAGATTCAAAAAGAGAGACTTATT 2 73 0 TTCAAAAAGA 0.874805 -115 TCCCGATATATTAAAAAAGGTCTAACATAG 4 71 1 TTAAAAAAGG 0.829045 -78 GAAACTTTTTTTAATAAAGAGATGCATCTT 7 132 1 TTAATAAAGA 0.664146 -113 AATATTCACCTTAAAAAAGGCAAGATTTCC 7 179 0 TTAAAAAAGG 0.829045 -66 AAGAAAAAATTTCAAAAAGATCTCTTTTCT 9 107 0 TTCAAAAAGA 0.874805 -116 TCTAAAGAATTTAGAAAAGAAAAAATTTCA 9 123 0 TTAGAAAAGA 0.905525 -100 TATAGTCTTATTAAAAAAGATATTGCTAGA 11 142 1 TTAAAAAAGA 0.91333 -159 AGCATTTTCTTGAGAAAAGGTTCATTC 11 284 1 TGAGAAAAGG 0.764088 -17 TTCCACTATATTCGAAAAGACTTGTCCCTT 21 153 0 TTCGAAAAGA 0.864047 -148 AAATAATTAATAAAAAAAGAGTTAAATCCT 24 73 0 TAAAAAAAGA 0.597228 -187 TATTTTGGCTTGCAAAAAGATAGGAAGGAA 34 64 0 TGCAAAAAGA 0.836892 -237 ACTTGGGCTCTTAAAAAAGAGACTGATTCT 35 21 1 TTAAAAAAGA 0.91333 -456 TATGATTTCTTGAGTAAAGAAAGTAGTTCC 35 352 0 TGAGTAAAGA 0.569099 -125 GAAGGCTAATTGAGAAAAGACGATAACGTA 39 185 1 TGAGAAAAGA 0.875593 -116 ********** Masking position 6 Map Score: 10.8919 Number of sites scoring better than the average of aligned sites = 102 Number in coding regions = 102 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 GGGGTGTTCGCCCCGCTTTTCTCTAGATAACAGA 2 25 0 CCCCTTTTTT 0.98136 -163 GGGGCGAACACCCCGCTTTTTTTGTTTTAATAAG 2 45 1 CCCCTTTTTG 0.94186 -143 TTAAGGCTAACACAGCCTTTTTATTATTAAGGAA 6 37 1 CCACCTTTTT 0.891854 -220 TTGTATTCTGCACCACTTTTGTCTGCGGCTGAGG 17 74 1 CCCCTTTTTT 0.98136 -227 GGGATTGTAACACCACTTTTATTTAGGCTTCAAG 18 106 0 CCCCTTTTTT 0.98136 -91 ATTGCCCATTCGCCGCCTTTGTTTGCTTTAAGGA 31 150 1 CCCCCTTTTT 0.984515 -151 CCCCTCCTTTATTTTATCTATCCT 32 1 1 CCCCCTTTTT 0.984515 -300 * ** ***** * * Masking position 8 Map Score: 5.56133 Number of sites scoring better than the average of aligned sites = 25 Number in coding regions = 25 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 AAAAAGTGGCAGAAAATGTGTTTCAAAATAAA 4 26 0 AGAAAATGTT 0.922798 -123 TGTAACAAAAAGAAACTATGTTAGACCTTTTT 4 84 0 AGAAACTGTT 0.572783 -65 CATCTCTTTATTAAAAAAAGTTTCACTAGTTT 7 124 0 TTAAAAAGTT 0.457634 -121 TGAGGGATTGAGAAAACTAGTTCAGGCTGGTT 17 103 1 AGAAAAAGTT 0.869602 -198 ATCCTCAAATTAAAAATTAGTTTGCTACCAAT 17 272 0 TAAAAAAGTT 0.611543 -29 ACAAAACTCTTGAAAAGTTGTTGTCCCAAAAG 18 20 0 TGAAAATGTT 0.922799 -177 GAAGTTGAATAGAAAAACTGTTATTTATCGAA 19 160 1 AGAAAATGTT 0.922799 -141 AAATCCTTGCTGATAAAATGTTTTCTTCGAAT 24 48 0 TGATAATGTT 0.474957 -212 AATAATTAATAAAAAAAGAGTTAAATCCTTGC 24 70 0 AAAAAAAGTT 0.611547 -190 GCTTGTTTTAAGAAAATCTTTTGGAGGAAATG 24 112 1 AGAAAATTTT 0.511039 -148 GCATCTTAGGTCAAAAATTGTTATTTT 26 6 0 TCAAAATGTT 0.559697 -50 AAACAAAGCCTGAAAAATCGTTCTAGGTTTTA 31 47 0 TGAAAACGTT 0.672346 -254 TCAAGAAATCATAAAAATTGTTGCCCTGTATT 35 369 1 ATAAAATGTT 0.601969 -108 GTTCACTTTTTGAAAAAAAGTTACTGAAAAAT 38 28 1 TGAAAAAGTT 0.869603 -110 ATAAGTTTTTAAAAAAAGTGTTTGCAGCATAA 39 17 0 AAAAAATGTT 0.738341 -284 ATAGGGGTTATGAAAATAAGTTTTTAAAAAAA 39 32 0 TGAAAAAGTT 0.869603 -269 TTTTTTGAAATAAAAAAATGTTTTGTATGAAG 41 94 1 TAAAAATGTT 0.738342 -207 TCTTAATTCAAGAAAACCTTTTTTATCGGGTT 42 23 0 AGAAAATTTT 0.511074 -134 ****** **** Masking position 11 Map Score: 8.94871 Number of sites scoring better than the average of aligned sites = 92 Number in coding regions = 92 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