AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00040_bsub_reg_100.orf -o00040_bsub_100.ace -a/home/amcguire/genomes/ORF_bsub.txt -z/home/amcguire/genomes/bsub.fna -g0.44 -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 = 0.44 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 pel 190 pectate lyase #2 yjmA 197 similar to glucuronate isomerase #3 yjmC 104 similar to malate dehydrogenase #4 yjmE 24 similar to D-mannonate hydrolase #5 yjmG 47 similar to hexuronate transporter #6 yjmH 87 similar to transcriptional regulator (LacI family) #7 yjmI 76 similar to tagaturonate reductase #8 yloD 233 similar to guanylate kinase #9 yloI 80 similar to pantothenate metabolism flavoprotein #10 def 26 polypeptide deformylase #11 xylA 300 xylose isomerase #12 xylB 150 xylulose kinase #13 yngA 300 yngA #14 kdgK 37 2-keto-3-deoxygluconate kinase #15 kdgR_kduI 221 kdgR: transcriptional regulator (LacI family), kduI: 5-keto-4-deoxyuronate isomerase #16 adhA 300 NADP-dependent alcohol dehydrogenase #17 araA 207 L-arabinose isomerase #18 ytdA 171 alternate gene name: yzwA; similar to UTP-glucose-1-phosphate uridylyltransferase #19 yulB 56 similar to transcriptional regulator (DeoR family) #20 yuxG 137 alternate gene name: yulA; similar to sorbitol-6-phosphate 2-dehydrogenase #21 slr 245 transcriptional regulator #22 pnbA 75 para-nitrobenzyl esterase (intracellular esterase B) #23 gtaB 245 UTP-glucose-1-phosphate uridylyltransferase Motif number 1 GATAAATTGGAATAAAATCTCACAAAATAGAAAATGGGGGT 1 151 1 AAAAAAAAAA 0.750927 -40 GTTAACGCTGTCATAAACATAAAAAAAGACATTGCCAGAAA 2 58 0 TAAAAAAAAA 0.509561 -140 AAGAGATTGATCCCAAAGGAATATAAAGGTAAAATAAAAAC 2 114 1 TAAATAAAGA 0.771565 -84 TAAAGGTAAAATAAAAACAAATCAAAATGTTAACGTTAACA 2 137 1 AAAATAAAGT 0.771565 -61 CAAAATGTTAACGTTAACATTTTGAAATAGAATGAAAGACG 2 159 1 ATAATAAAAA 0.924792 -39 CACATTTTATTTACAAATTATTTTAAATATTCTTTATATTA 3 16 0 TAAATAAAAT 0.77569 -89 GCACTCTCCAAGCGAAACCCCTACAAACACATTTTATTTAC 3 43 0 AAAATAAAAA 0.966797 -62 ATACAGAAAAATGTTAACGTGTGCATAAAGTGAGAGGGAGG 7 38 1 ATAATATAAT 0.47348 -39 CCCTTTATTAAATCTAATGTGTTCATAAAAAACTAAAAAAA 11 131 1 ATAATATAAA 0.722944 -170 ATAAAAAACTAAAAAAAATATTGAAAATACTGACGAGGTTA 11 155 1 AAAATAAAAT 0.909376 -146 TCCCCCTTAAAAATAAATTCATTCAAATACAGATGCATTTT 11 264 0 AAAATAAAAA 0.966797 -37 CCTACATCATTAAAAAAATTGTGTATAGAAACTTTTGGAGG 13 38 1 TAAATATAAA 0.680454 -263 ACTGTCCGCTATAGTAATCCATATCAACAAAT 13 279 1 ATAATCAAAA 0.66323 -22 TGAAAATATTTTGGTAACGGTTTCAAAGAAAATTTTAGGAT 15 50 1 TTAATAAAAA 0.809073 -172 AGAAAATTTTAGGATAAATAGTGAAAAGAGTCAACGAAAAA 15 76 1 ATAATAAAAT 0.809073 -146 TTGAAACCGATTTCAAAACCGTTACAACAAAAGAATACCAT 15 166 0 TAAATCAAAA 0.616437 -56 AGGGTTTTTTAAAAAAACCATTTAAAATGAACCTGATTTAT 16 161 0 AAAATAAAGA 0.907416 -140 TCCTTTCTTCATCATAAGTGTTGTAAATAAAAACATGCACT 16 261 0 ATAATAAAAA 0.924792 -40 AATGATAGGAAAATAAACCTATAAATAAATATTTTGTACGA 17 121 0 AAAATATAAA 0.860707 -87 TTTCTCATAAAATAAAACGCTTTCAAATACAAAAGATACGT 17 165 0 AAAATAAAAA 0.966797 -43 AGCAAAAATAAACAAAAACGATTCAAAAACAAACAGAAATC 20 57 1 AAAATAAAAA 0.966797 -81 ATCATATATAATGAAAACGGATACAAATAAAAGGGTATGGA 20 95 1 AAAATAAAAA 0.966797 -43 TTGAATCAAGAATGAAATGATTTAAAATGATGCATTTTCAT 23 64 0 AAAATAAAGT 0.771565 -182 ATCCGATATCATAAAAATGTGTAAAAACATATTGAAAAGGG 23 158 1 AAAATAAAAA 0.966797 -88 * *** * *** * * Masking position 7 Map Score: 22.7521 Number of sites scoring better than the average of aligned sites = 763 Number in coding regions = 562 Number in noncoding regions = 201 Number of orfs with sites within 600 bp upstream = 218 Fraction of orfs with sites within 600 bp upstream = 0.0350145 Motif number 2 AATGCCAGATTCATTAAAAGGA 2 3 0 TCATTAAAAG 0.732897 -195 CGTTAACATTTCATTTTCAAAAAAGAGATT 2 92 1 TCATTTTCAA 0.742506 -106 TATTTACAAATTATTTTAAATATTCTTTAT 3 20 0 TTATTTTAAA 0.832963 -85 CAAACACATTTTATTTACAAATTATTTTAA 3 31 0 TTATTTACAA 0.841228 -74 ACTGTGCGTATTGTTTACAGACGGTCTTAC 8 13 1 TTGTTTACAG 0.486036 -221 TCAAAAGTTATTATTAAAAGA 11 2 0 TTATTAAAAG 0.745657 -299 GAGTGAATGGTTTTTTAAAAGGGCAAGGAG 12 124 1 TTTTTTAAAA 0.739146 -27 ACATCCTACATCATTAAAAAAATTGTGTAT 13 34 1 TCATTAAAAA 0.848196 -267 AATGCGGCTGTTTTTTTCAAGAGTATAAGA 13 187 1 TTTTTTTCAA 0.533763 -114 AATTGACATATTATTAAAAAAACTCTTCCC 15 123 1 TTATTAAAAA 0.824017 -99 TAAATCAGGTTCATTTTAAATGGTTTTTTT 16 162 1 TCATTTTAAA 0.823222 -139 TTAAATGGTTTTTTTAAAAAACCCTTGCCT 16 177 1 TTTTTAAAAA 0.452044 -124 GTGCATGTTTTTATTTACAACACTTATGAT 16 262 1 TTATTTACAA 0.841228 -39 GCCCCCGGCTTTTTTTAAAAGAAAAGATTG 17 57 1 TTTTTTAAAA 0.739146 -151 CTTTCTTTTTTTGTTAAAAAGCAAAAATAA 20 38 1 TTGTTAAAAA 0.470432 -100 TATAATCCAATCATTAACAGAAAGGGGCGC 21 49 0 TCATTAACAG 0.629502 -197 GAAAACGTTATTATTTAAAAATTGCAAAAT 21 82 1 TTATTTAAAA 0.895172 -164 ACTTCCCTTATTATTTTAAATTTTATAAAG 21 167 1 TTATTTTAAA 0.832963 -79 AATTTTTCGTTCTTTATAAAATTTAAAATA 21 178 0 TCTTTATAAA 0.547007 -68 GTTATTTCGTTCATTATAAGGAATTTTTCG 21 199 0 TCATTATAAG 0.614413 -47 TGAAAATGCATCATTTTAAATCATTTCATT 23 65 1 TCATTTTAAA 0.823222 -181 AGGATAAAGCTTGTTTAAAAATGGTTTATC 23 131 1 TTGTTTAAAA 0.743576 -115 ********** Masking position 5 Map Score: 15.0784 Number of sites scoring better than the average of aligned sites = 956 Number in coding regions = 698 Number in noncoding regions = 258 Number of orfs with sites within 600 bp upstream = 266 Fraction of orfs with sites within 600 bp upstream = 0.0427241 Motif number 3 CTATCCTATTGCGGCATTCTGCAAAATCCC 1 71 0 GCGGCATTCT 0.891596 -120 CCACTATGTACCCCCATTTTCTATTTTGTG 1 171 0 CCCCCATTTT 0.704385 -20 GCATTGAACGGCTGTTTTTTGTGTCTGAAA 13 162 0 GCTGTTTTTT 0.554785 -139 GCCGTTCAATGCGGCTGTTTTTTTCAAGAG 13 180 1 GCGGCTGTTT 0.821338 -121 GAGCGGTATACCCGCTTTTTCATGTTTTGT 13 222 1 CCCGCTTTTT 0.962389 -79 GGGGCAGAGCCCGGCTTTTTATTCAATAGG 17 32 0 CCGGCTTTTT 0.937152 -176 GGCTCTGCCCCCGGCTTTTTTTAAAAGAAA 17 51 1 CCGGCTTTTT 0.937152 -157 GTAAACTGCCCCTTTCTCATAAAATAA 17 191 0 GCCCCTTTCT 0.969236 -17 TCACGAACCAGCCCTTTTTTAATAGGATAT 18 49 0 GCCCTTTTTT 0.742614 -123 GGTTCGTGATTCCGCTTTCTGCCCAGTTGC 18 70 1 TCCGCTTTCT 0.871372 -102 CAGCAGATATGCCGCTTTCTCGTTTCA 20 8 0 GCCGCTTTCT 0.985735 -130 CGGCATATCTGCTGCTTTCTTTTTTTGTTA 20 24 1 GCTGCTTTCT 0.93154 -114 GGCTTCCCGCGCCCCTTTCTGTTAATGATT 21 41 1 GCCCCTTTCT 0.969236 -205 ********** Masking position 8 Map Score: 14.924 Number of sites scoring better than the average of aligned sites = 1217 Number in coding regions = 1073 Number in noncoding regions = 144 Number of orfs with sites within 600 bp upstream = 113 Fraction of orfs with sites within 600 bp upstream = 0.0181497 Motif number 4 AGCAAGGAAAAAACCAAAAGGCCAATGTC 1 8 1 AAAAACAAAA 0.939522 -183 AAAGACCGCAAAAAAACCAAAAGGCCGACATT 1 34 0 AAAAACAAAA 0.939522 -157 CGCTGTCATAAACATAAAAAAAGACATTGCCA 2 62 0 AAATAAAAAA 0.53585 -136 GAGAGTGCCCAAAAAACTGAAAAGGAAGGAGG 3 76 1 AAAAACGAAA 0.93276 -29 TTGATGATACAATATACAGTAAATAATCGCAG 6 41 1 AAATACGTAA 0.474597 -47 ATGTGTTCATAAAAAACTAAAAAAAATATTGA 11 147 1 AAAAACAAAA 0.939522 -154 TTGTTTAAACAACAAACTAATAGGTGATGTAC 11 218 1 AAAAACAATA 0.939522 -83 TGTGTCTGAAAACATACAAATATAAACGGAGT 13 141 0 AAATACAATA 0.82391 -160 GACAGTGTTGAATAAACAATTAATAAAATATG 13 253 0 AAAAACATTA 0.770569 -48 AAACCGTTACAACAAAAGAATACCATAATTTT 15 160 0 AAAAAAAATA 0.793093 -62 TGGTGTCTTCAACATAACGATAAACCTTAAAG 16 216 0 AAATAAGATA 0.507611 -85 ATGATAGGAAAATAAACCTATAAATAAATATT 17 129 0 AAAAACTATA 0.642774 -79 AAAAAGCAAAAATAAACAAAAACGATTCAAAA 20 53 1 AAAAACAAAA 0.939522 -85 ACGATTCAAAAACAAACAGAAATCATATATAA 20 74 1 AAAAACGAAA 0.93276 -64 TGGATTATAAAAGAAAACGTTATTATTTAAAA 21 70 1 AAAAAAGTTA 0.42529 -176 AAAATTGCAAAATAAGCCAATAAGTTCTCTTT 21 99 1 AAAAGCAATA 0.635365 -147 TAAATTTTATAAAGAACGAAAAATTCCTTATA 21 183 1 AAGAACAAAA 0.635365 -63 TCTTGATTCAAATAAAATGATATAAGTTTTAA 23 94 1 AAAAAAGATA 0.7739 -152 ** **** **** Masking position 2 Map Score: 13.6267 Number of sites scoring better than the average of aligned sites = 785 Number in coding regions = 623 Number in noncoding regions = 162 Number of orfs with sites within 600 bp upstream = 183 Fraction of orfs with sites within 600 bp upstream = 0.0293929 Motif number 5 CAAAAAACTGAAAAGGAAGGAGGCACTTGC 3 85 1 AAAAGGAAGG 0.838153 -20 TGGAAATATAGTGGGAGAGGCGGTATGTTT 6 13 1 GTGGGAGAGG 0.783405 -75 AGCCGGTATGATAAGGAAGGGAATTAG 6 71 1 ATAAGGAAGG 0.823832 -17 TGCATAAAGTGAGAGGGAGGCAATAAGG 7 59 1 GAGAGGGAGG 0.880792 -18 GTAAAGTGCAGAGGGGGAGAATTCA 9 66 1 GAGGGGGAGA 0.880792 -15 TAGATTTAATAAAGGGAAGATTCGCTATGT 11 117 0 AAAGGGAAGA 0.838153 -184 ATTTATTTTTAAGGGGGAAATCAC 11 287 1 AAGGGGGAAA 0.858792 -14 ACAACAAGCAATAGGAAAGGAATCATGACG 12 59 0 ATAGGAAAGG 0.71712 -92 GGTTTTTTAAAAGGGCAAGGAGTGAAAAA 12 132 1 AAGGGCAAGG 0.692805 -19 AATCCTAACCAAGGGGGAAATATA 15 5 0 AAGGGGGAAA 0.858792 -217 GGCTTTTTTTAAAAGAAAAGATTGACAGTA 17 63 1 AAAAGAAAAG 0.319562 -145 GTTTTATTTTATGAGAAAGGGGCAGTTTAC 17 188 1 ATGAGAAAGG 0.71712 -20 AACATGAGCTGAGGGGAAAATACC 18 158 1 GAGGGGAAAA 0.651237 -14 GGACTACGATATGAGGAAGGGCGTTACCG 19 38 1 ATGAGGAAGG 0.911302 -19 ATTTAAAATAATAAGGGAAGTGCAGTAAAT 21 158 0 ATAAGGGAAG 0.714258 -88 GTTCGCATCTATAGGGGAAATCTGTTTATA 22 31 1 ATAGGGGAAA 0.714258 -45 TCTGTTTATAATGGGGGAAAAAGGGAGAGA 22 51 1 ATGGGGGAAA 0.845961 -25 ATGGGGGAAAAAGGGAGAGAACACA 22 61 1 AAGGGAGAGA 0.80326 -15 TTTTTCGATCATAAGGAAGGTGCCTTTTAA 23 226 1 ATAAGGAAGG 0.823832 -20 ********** Masking position 8 Map Score: 13.1353 Number of sites scoring better than the average of aligned sites = 1663 Number in coding regions = 1229 Number in noncoding regions = 434 Number of orfs with sites within 600 bp upstream = 417 Fraction of orfs with sites within 600 bp upstream = 0.0669772 Motif number 6 AAATAATCGCAGCCGGTATGATAAGGAAGGGA 6 61 1 ACCGGATGAT 0.847681 -27 CCGGGCTGACAATCGAAATCATCCGATTGGCG 8 131 0 ATCGAATCAT 0.880395 -103 GGTCTCTTGCATCCTGAATCATCCGTTTGATT 8 173 0 ACCTGATCAT 0.921295 -61 CACAAGTAGCAACCTATATCATGTAGGTTGTT 9 14 1 ACCTAATCAT 0.959963 -67 TCACTGAATTACCCGTCATGATTCCTTTCCTA 12 46 1 ACCGTATGAT 0.837543 -105 TTTATCTAACATCCTACATCATTAAAAAAATT 13 26 1 ACCTAATCAT 0.959857 -275 TTAATGCAGAAACTGTAATCATGCTGCGATCC 16 108 0 ACTGTATCAT 0.855953 -193 TTCAAAAACAAACAGAAATCATATATAATGAA 20 78 1 ACAGAATCAT 0.838544 -60 TTTTATTTGTATCCGTTTTCATTATATATGAT 20 95 0 ACCGTTTCAT 0.735348 -43 AAAATGCATCATTTTAAATCATTTCATTCTTG 23 67 1 ATTTAATCAT 0.452147 -179 TTAATATTAAAACTTATATCATTTTATTTGAA 23 100 0 ACTTAATCAT 0.855905 -146 AAAATGGTTTATCCGATATCATAAAAATGTGT 23 148 1 ACCGAATCAT 0.981468 -98 * **** ***** Masking position 11 Map Score: 7.33786 Number of sites scoring better than the average of aligned sites = 371 Number in coding regions = 343 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 7 TGGTTTTTTTGCGGTCTTTGCGGTGGGATTTTGCA 1 47 1 GCGGCTTGTG 0.983863 -144 AGTGGGAGAGGCGGTATGTTTGATGATACAATATA 6 22 1 GCGGATTGTG 0.988457 -66 TTTGATTGGCGCAGACTCCGGGCTGACAATCGAAA 8 145 0 GCAGCTCGTG 0.976466 -89 GCAAGAGACCGCGGAATGCTAATTGACGCTACATA 8 195 1 GCGGATCATG 0.922662 -39 AGACTATTGAGCGGTATACCCGCTTTTTCATGTTT 13 214 1 GCGGATCGTT 0.959359 -87 TTGCCTTAAAGCAGACTTTAAGGTTTATCGTTATG 16 201 1 GCAGCTTGTT 0.818109 -100 AAACGAGAAAGCGGCATATCTGCTGCTTTCTTTTT 20 13 1 GCGGATTGTG 0.988457 -125 AGAAAGGGGCGCGGGAAGCCAGCCGCGGGAAGGCT 21 26 0 GCGGAACGCG 0.935261 -220 TAAGGGAAGTGCAGTAAATTAGAGGAAAATCATGA 21 142 0 GCAGAATGGG 0.794493 -104 ATTTACTATAGCAGAAAACCAGGTGACAAAT 23 7 0 GCAGAACGTG 0.963486 -239 **** ** * * ** Masking position 2 Map Score: 5.98488 Number of sites scoring better than the average of aligned sites = 391 Number in coding regions = 359 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 8 GCAAGGAAAAAACCAAAAGGCCAATGTCGG 1 12 1 AACCAAAAGG 0.976892 -179 ACCGCAAAAAAACCAAAAGGCCGACATTGG 1 32 0 AACCAAAAGG 0.976892 -159 TTTAAAGATTAAACAAATGGAGTGGATGAA 11 70 0 AAACAAATGG 0.705381 -231 TTAAACAACAAACTAATAGGTGATGTACTT 11 222 1 AACTAATAGG 0.898546 -79 TCATAACAACAAGCAATAGGAAAGGAATCA 12 64 0 AAGCAATAGG 0.838584 -87 AGGTGCCCTCAACTAAGAGGAGGTTGGGAA 14 15 1 AACTAAGAGG 0.931972 -23 CTGAAATCCTAACCAAGGGGGAAATATA 15 9 0 AACCAAGGGG 0.91514 -213 AAACGGATACAAATAAAAGGGTATGGAGGA 20 109 1 AAATAAAAGG 0.818443 -29 ********** Masking position 5 Map Score: 3.21113 Number of sites scoring better than the average of aligned sites = 105 Number in coding regions = 80 Number in noncoding regions = 25 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 9 CTGAACCAACATAGGGGTGAGGTTGAG 5 31 1 ATAGGTAGTA 0.825008 -17 AGCCGGTATGATAAGGAAGGGAATTAG 6 71 1 ATAGAAGGTA 0.850343 -17 GGCATTCTTTATACAGAAAAATGTTAACGTGTGCAT 7 28 1 ATAGAAAATA 0.943811 -49 GCCAAATCCGATATTAATCAGTTTAATCGTCATCTT 8 84 0 ATAAATAGTA 0.494911 -150 ACTAAAAAAAATATTGAAAATACTGACGAGGTTATA 11 162 1 ATAGAAATTA 0.702691 -139 ATTCATTCAAATACAGATGCATTTTATTTCATATAG 11 253 0 ATAGATCATA 0.593527 -48 ATGGATTACTATAGCGGACAGTGTTGAATAAACAAT 13 265 0 ATAGGAAGTG 0.634124 -36 TTTAGGATAAATAGTGAAAAGAGTCAACGAAAAAAT 15 83 1 ATAGAAAGTA 0.954884 -139 AATATATGAGATACAGGAGCACTTGA 15 206 1 ATAGGACATA 0.75621 -16 TGTCTTCAACATAACGATAAACCTTAAAGTCTGCTT 16 209 0 ATAGATAATA 0.844701 -92 TGATTGGATTATAAAAGAAAACGTTATTATTTAAAA 21 66 1 ATAAGAAATA 0.622915 -180 TAAGTTCTCTTTAGAGAACAAAATCATGATTTTCCT 21 119 1 TTAGAAAATA 0.57431 -127 AAAATTCCTTATAATGAACGAAATAACGACAGGAAT 21 202 1 ATAGAAGATA 0.818489 -44 AACGACAGGAATAGAGGAGAATTTCATATT 21 226 1 ATAGGAAATA 0.920347 -20 GTTTTCTGCTATAGTAAATAAATTCATACTACATAT 23 23 1 ATAAAAAATA 0.706007 -223 GTGTAAAAACATATTGAAAAGGGTAAATAGAGAATA 23 176 1 ATAGAAAGTA 0.954884 -70 AAAAGGGTAAATAGAGAATAGTTTAACCATAAATTT 23 192 1 ATAGAAAGTA 0.954884 -54 *** *** ** * * Masking position 3 Map Score: 9.10515 Number of sites scoring better than the average of aligned sites = 367 Number in coding regions = 296 Number in noncoding regions = 71 Number of orfs with sites within 600 bp upstream = 85 Fraction of orfs with sites within 600 bp upstream = 0.0136524 Motif number 10 GGATGATTTCGATTGTCAGCCCGGAGTCTGCG 8 139 1 GAGTCAGCCC 0.994021 -95 AATATAAACGGAGTGTTAGCCCCATCTTATCA 13 123 0 GAGTTAGCCC 0.986628 -178 TATTCAATAGGACGGCCAGCCCGAGCTCCAAT 17 11 0 GAGCCAGCCC 0.994459 -197 AAGGGGCGCGGGAAGCCAGCCGCGGGAAGGCT 21 26 0 GGGCCAGCCG 0.958269 -220 CTATAGATGCGAACGTTAGCCCTTTAACCGAT 22 13 0 GAGTTAGCCC 0.986628 -63 ** ******** Masking position 8 Map Score: 1.87032 Number of sites scoring better than the average of aligned sites = 32 Number in coding regions = 29 Number in noncoding regions = 3 Number of orfs with sites within 600 bp upstream = 3 Fraction of orfs with sites within 600 bp upstream = 0.00048185 Motif number 11 TCAAGTGCTCCTGTATCTCATA 15 210 0 AAGTGCTCCT 0.958732 -12 ACTTTGGCGCAAATTCTCCTAATTGTTCTC 16 11 0 AAATTCTCCT 0.959012 -290 CCCGGGATGAAAGTTCTTCTTCTCTTGCCC 16 80 0 AAGTTCTTCT 0.909925 -221 ATAAGCCAATAAGTTCTCTTTAGAGAACAA 21 110 1 AAGTTCTCTT 0.909422 -136 AATATGAAATTCTCCTCTATTCCTGT 21 230 0 AAATTCTCCT 0.959012 -16 ********** Masking position 4 Map Score: 0.447946 Number of sites scoring better than the average of aligned sites = 28 Number in coding regions = 19 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 12 GTCTTTCATTCTATTTCAAAATGTTAACGT 2 169 0 CTATTTCAAA 0.751201 -29 CGAACACTAACTCCTCCAAAAGTTTCTATA 13 61 0 CTCCTCCAAA 0.854115 -240 CTCTTCCCAACCTCCTCTTA 14 28 0 CTCTTCCCAA 0.927556 -10 ATTTTGGTAACGGTTTCAAAGAAAATTTTA 15 57 1 CGGTTTCAAA 0.908635 -165 ATTAAAAAAACTCTTCCCAAATTTTAAAAT 15 135 1 CTCTTCCCAA 0.927556 -87 GTTTTGAAATCGGTTTCAAATATATGAGAT 15 188 1 CGGTTTCAAA 0.908635 -34 TAAAATAAAACGCTTTCAAATACAAAAGAT 17 169 0 CGCTTTCAAA 0.950068 -39 ********** Masking position 9 Map Score: 0.693357 Number of sites scoring better than the average of aligned sites = 173 Number in coding regions = 150 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 13 ********** No masking Map Score: 5.61572e-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: 5.61572e-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: 5.61572e-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