AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00360_bsub_reg_100.orf -o00360_bsub_100.ace -a/home/amcguire/alignace/lib/ORF_bsub.txt -z/skink1/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 yckG 231 similar to D-arabino 3-hexulose 6-phosphate formaldehyde lyase #2 yclB 89 similar to phenylacrylic acid decarboxylase #3 yflL 66 similar to hypothetical proteins #4 yjmC 104 similar to malate dehydrogenase #5 ykrV 94 similar to aspartate aminotransferase #6 pksF 300 pksF #7 yocE 161 similar to fatty-acid desaturase #8 aspB 22 aspartate aminotransferase #9 ypmA 142 ypmA #10 trpE 215 anthranilate synthase #11 bfmBB 22 branched-chain alpha-keto acid dehydrogenase E2 subunit (lipoamide acyltransferase) #12 bfmBAA 73 branched-chain alpha-keto acid dehydrogenase E1 (2-oxoisovalerate dehydrogenase alpha subunit) #13 yqiS 124 similar to phosphate butyryltransferase #14 mmgC 27 acyl-CoA dehydrogenase #15 mmgB 149 3-hydroxybutyryl-CoA dehydrogenase #16 bltD 168 spermine/spermidine acetyltransferase #17 hemA 163 glutamyl-tRNA reductase #18 ribR 46 transcriptional regulator #19 ytmM 29 similar to amino acid ABC transporter (permease) #20 ytmL 21 similar to amino acid ABC transporter (permease) #21 ytmI 152 similar to hypothetical proteins from B. subtilis #22 yugK 103 similar to NADH-dependent butanol dehydrogenase #23 yugJ 229 similar to NADH-dependent butanol dehydrogenase #24 yugG 147 similar to transcriptional regulator (Lrp/AsnC family) #25 yurR 300 similar to opine catabolism #26 yusL 267 similar to 3-hydroxyacyl-CoA dehydrogenase #27 ywpB 191 similar to hydroxymyristoyl-(acyl carrier protein) dehydratase #28 ywjF 154 similar to hypothetical proteins #29 ywfB 151 alternate gene name: ipa-80d #30 yxjD 78 similar to 3-oxoadipate CoA-transferase #31 yxjC 153 similar to hypothetical proteins from B. subtilis Motif number 1 AAGAGTCTGCAAAAAAGTAAGTAAGTGATG 1 55 0 AAAAAAGTAA 0.666608 -177 TGAGTATAATGAAAAAAGAGTCTGCAAAAA 1 70 0 GAAAAAAGAG 0.648951 -162 CTTCTCAACAAAAGAAGGAACCTATAGAAT 1 180 1 AAAGAAGGAA 0.587354 -52 ACAATAATTCGAAAAGGGAGTGGATCAACA 1 212 1 GAAAAGGGAG 0.981359 -20 TTTACAACCTGTAAAGGGGATGTGTTTGT 3 10 0 GTAAAGGGGA 0.586595 -57 ATCATAAAAAGAAAAGGTGGTTTTTAC 3 50 1 GAAAAGGTGG 0.867252 -17 CCAAAAAACTGAAAAGGAAGGAGGCACTTG 4 84 1 GAAAAGGAAG 0.710895 -21 TGGTTAAATGAAAAAAGTAAAGAAAAATTT 5 25 0 AAAAAAGTAA 0.666608 -70 AACATGATGAAAAAGGGGATTTGAATGG 15 9 1 GAAAAAGGGG 0.938503 -141 CCGGGATAAGAAAAAAGGAGAATGTAGT 16 151 1 AAAAAAGGAG 0.965812 -18 GTAAAAAGAGAGGGAGCAGTG 20 3 1 AAAAAGAGAG 0.78221 -19 TTAATGATGAAAAACAGGAGGGAGCACA 21 9 0 AAAACAGGAG 0.81899 -144 TGACTAATCAAAAAAAGTAAACCTTCACTT 21 47 0 AAAAAAGTAA 0.666608 -106 AAAAAGGGGAAATAGCCGTT 22 1 1 AAAAAGGGGA 0.903172 -103 GACAAAAAAGAAAAAGGGAAGCAGCCAAAC 22 28 0 AAAAAGGGAA 0.944167 -76 CAACCATCAAAAAAAGGGAGTGACACAGA 24 10 0 AAAAAGGGAG 0.981737 -138 GAATGCTAAGAAAAAACGAGGAGAAACTTC 24 70 0 AAAAAACGAG 0.613377 -78 CGCGGCGAGCGTAAAGGGAGATGCCGGTCC 26 111 0 GTAAAGGGAG 0.891035 -157 TACCAATAGCAAAGAGGTAGGAAA 27 5 0 AAAGAGGTAG 0.659507 -187 CCTTTCCGTAGTAAAGGTAGTGTGCCCGAA 28 20 1 GTAAAGGTAG 0.647853 -135 CTTTATCAGTAAAAAGGGGGAATTGGA 28 138 1 AAAAAGGGGG 0.967374 -17 GAAAGCTCCGAAAAAAGGAGCTTTCCTTTT 31 20 1 AAAAAAGGAG 0.965812 -134 TATTCCGATTAAAAAAGGAAAGCTCCTTTT 31 32 0 AAAAAAGGAA 0.89886 -122 CTAGTTCGCGGAAACGGGGGATGTGTGT 31 136 1 GAAACGGGGG 0.823033 -18 ********** Masking position 3 Map Score: 25.8509 Number of sites scoring better than the average of aligned sites = 2215 Number in coding regions = 1649 Number in noncoding regions = 566 Number of orfs with sites within 600 bp upstream = 563 Fraction of orfs with sites within 600 bp upstream = 0.0904272 Motif number 2 ATAGAATCCCCCCTTAGTAACCT 1 4 1 GAATCCCCCC 0.864103 -228 AAGAAAGCGCCTCCTTATCATA 2 3 1 GAAAGCGCCT 0.880487 -87 ACAAACACATCCCCTTTACAGGTTG 3 6 1 CACATCCCCT 0.957177 -61 CTTGAACTCCCCCTAATTCGTC 8 9 0 AACTCCCCCT 0.829383 -14 CCCACACCGCAAAAGCCGCTTTATGCGGCT 9 12 0 AAAAGCCGCT 0.745576 -131 CACAGAGCGGGAAATCCGCTTTTAAATAAA 9 55 0 GAAATCCGCT 0.885158 -88 TACCTGGTATGACAGCACCCTTAAGAGCTG 13 52 1 GACAGCACCC 0.723229 -73 TTCTTGTTTCGACTCCGCCTTTTATTATGC 13 93 0 GACTCCGCCT 0.83278 -32 GATTTCCATTCAAATCCCCTTTTTCATCAT 15 14 0 CAAATCCCCT 0.912761 -136 GCTGTTTGAGCAATTCCGCTCCCCATCTGA 15 70 0 CAATTCCGCT 0.795361 -80 GAATTGCTCAAACAGCCGCCGACGCGGCTT 15 84 1 AACAGCCGCC 0.805042 -66 TGGATGCAGGGAATGCCCCTGGTTAGGCAC 16 37 1 GAATGCCCCT 0.96524 -132 CACTGCTCCCTCTCTTTTTA 20 12 0 CACTGCTCCC 0.812572 -10 GACATCTCCTCCTTAGATTT 23 220 0 GACATCTCCT 0.890017 -10 AACGAGGAGAAACTTCCGCTAGAATTGACA 24 56 0 AACTTCCGCT 0.7799 -92 TCCGTCTTGTGACTGCGCCTGTGCCTGATC 25 15 1 GACTGCGCCT 0.934841 -286 TCGCCGCGCTGACTGCCGCTGAAGACGGAT 26 133 1 GACTGCCGCT 0.960276 -135 TGTCTTGACATCTCCTTCATCTGCAT 27 176 0 GACATCTCCT 0.890017 -16 TCCAATTCCCCCTTTTTACTGA 28 143 0 CAATTCCCCC 0.862858 -12 ATTAAAAAAGGAAAGCTCCTTTTTTCGGAG 31 25 0 GAAAGCTCCT 0.859171 -129 ACACACATCCCCCGTTTCCGCGA 31 141 0 CACATCCCCC 0.936486 -13 ********** Masking position 2 Map Score: 19.0783 Number of sites scoring better than the average of aligned sites = 952 Number in coding regions = 762 Number in noncoding regions = 190 Number of orfs with sites within 600 bp upstream = 148 Fraction of orfs with sites within 600 bp upstream = 0.0237713 Motif number 3 ACAAACACATCCCCTTTACAGGTTGTA 3 8 1 CATCCCCTTT 0.522342 -59 AACTCATTCTCTGCTACCCTATTCTCTAAC 10 71 0 CTGCTACCCT 0.631863 -145 CCTCTCATGCCATCTTCTCATTCTCCTTGC 10 179 1 CATCTTCTCA 0.537298 -37 GCGGCAAGCGCAGCTTCTCCAATTGCT 12 8 0 CAGCTTCTCC 0.926416 -66 CCTGGTATGACAGCACCCTTAAGAGCTGGC 13 54 1 CAGCACCCTT 0.722499 -71 TTGAGCAATTCCGCTCCCCATCTGACCTGC 15 65 0 CCGCTCCCCA 0.697389 -85 TCCTGCCTCCGCGGCCTCTGGA 15 138 0 CTGCCTCCGC 0.76699 -12 CCTCCTCTCTCAGCTTCCGCATTCGATCAG 18 18 0 CAGCTTCCGC 0.920654 -29 AAAAGTCAGCCTCCTCTCTCAGCTTC 18 31 0 CAGCCTCCTC 0.886173 -16 TCTTCTCCCCCCTCATCCGAA 19 19 0 CTTCTCCCCC 0.942603 -11 CACTGCTCCCTCTCTTTTTAC 20 10 0 CTGCTCCCTC 0.9453 -12 AGCCGTTTGGCTGCTTCCCTTTTTCTTTTT 22 24 1 CTGCTTCCCT 0.924232 -80 GAGGGCAGGCCAGCTTCCCTCATATGGAGA 23 83 0 CAGCTTCCCT 0.953578 -147 TCGCTTATATCAGCTTCTTTCCCAGCACCT 23 111 1 CAGCTTCTTT 0.754169 -119 GACATCTCCTCCTTAGATTTTT 23 218 0 CATCTCCTCC 0.903789 -12 CATAATGCAGCTGCTTCCCACGGCTGCTT 26 10 0 CTGCTTCCCA 0.829314 -258 GTCGGACCGGCATCTCCCTTTACGCTCGCC 26 108 1 CATCTCCCTT 0.870783 -160 GTACCATTCCCTTCACCTCCGGGCTTAAGT 26 175 1 CTTCACCTCC 0.473817 -93 TGTCTTGACATCTCCTTCATCTGCATTA 27 174 0 CATCTCCTTC 0.805078 -18 ACACACATCCCCCGTTTCCGCGAAC 31 139 0 CATCCCCCGT 0.696253 -15 ********** Masking position 4 Map Score: 14.2195 Number of sites scoring better than the average of aligned sites = 1669 Number in coding regions = 1459 Number in noncoding regions = 210 Number of orfs with sites within 600 bp upstream = 185 Fraction of orfs with sites within 600 bp upstream = 0.0297141 Motif number 4 TTCAATCATACTCCTGATATATCCA 2 75 0 CTCATCTCCT 0.868243 -15 TTCAGTTTTTTGGGCACTCTCCAAGCGAAACCC 4 64 0 TGCACCTCCA 0.956016 -41 TTATCCATAATGCGCTCTCTCCTCAAGGGATTA 6 60 0 TGCTCCTCCT 0.967747 -241 CAAATATTGTTAGTCATACTCCATTTCAGGACA 9 99 0 TTCATCTCCA 0.906157 -44 TTTTTCATCCTCCAGTTTGAACAA 9 129 0 TTCATCTCCA 0.906158 -14 TCATGCCATCTTCTCATTCTCCTTGCCATAAGG 10 183 1 TTCATCTCCT 0.954251 -33 TGCTCTCACTCCTTATGGCAAGG 10 203 0 TTCTCCTCCT 0.967154 -13 TCTTCTCCCCCCTCATCCGAAGA 19 17 0 TTCTCCCCCT 0.822827 -13 TGTGCTCCCTCCTGTTTTTCATC 21 1 1 TGCTCCTCCT 0.967747 -152 TTTTGTCACTCCTCTTCACAAAA 21 140 0 TTGTCCTCCT 0.757947 -13 GTTTTGCAACCTCCTCCATGAATTA 23 3 1 TGCAACTCCT 0.839835 -227 AGAATCTATACATGCATTCTCCATATGAGGGAA 23 66 1 CGCATCTCCA 0.75661 -164 TCGTCCAATCTCTTTACTCTCCTATCGAATATC 25 184 0 TTTACCTCCT 0.767786 -117 * **** ***** Masking position 9 Map Score: 11.069 Number of sites scoring better than the average of aligned sites = 284 Number in coding regions = 228 Number in noncoding regions = 56 Number of orfs with sites within 600 bp upstream = 72 Fraction of orfs with sites within 600 bp upstream = 0.0115644 Motif number 5 CTTTTCTTTTTATGATAATCAATCATTTTACAACCTGTAAAGG 3 23 0 TATATATTTA 0.959231 -44 TTTATTTACAAATTATTTTAAATATTCTTTATATTATATTG 4 9 0 AATATATCTA 0.746696 -96 GATGATGGACTATCATTTCAAGATTTTTTTAGAAGGTGAGAAT 5 60 1 TATATATTTA 0.959241 -35 AAAGTTTGAATATTATGAAAATATACCTATAAAAATCATTAAA 6 16 1 TATATACCTA 0.880314 -285 TCACAAAATATATAATTCCTATTTGTTTACTAAGCTTTTATTG 21 105 0 TATATATTTA 0.959241 -48 TTAGATTTTTTATTATGCAGAATGTCCTCACCACATGTAAAGC 23 185 0 TATATACCTA 0.880315 -45 AAAAACGTGATATAATGTCATGAGATTTCTTGACATTGCAAAG 24 104 1 TATATTTTTA 0.731608 -44 CCTTTTCTATTATAATGTCTATTCATTTTACCAAATCAAATGC 25 259 0 TATATATTTA 0.95924 -42 AAAGTTATGATATGATAATTATAGATTTTACCAATAGCAAAGA 27 20 0 TATATATTTA 0.95924 -172 ATTCATTATTTATCATAAAGATAATCTTATACAGATTCGGGGG 28 81 1 TATATACTTA 0.929361 -74 TCTAAATTCCTATAATTAAAAACCCTTTTTAAAGGGTTTTTTT 29 19 1 TATATATTTA 0.95924 -133 TTTGTATGGGAATAATTATCAATATTTTCAAAAAACATTGACA 29 63 1 AATATATTTA 0.840585 -89 *** ** * *** * Masking position 5 Map Score: 7.37252 Number of sites scoring better than the average of aligned sites = 113 Number in coding regions = 84 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 6 ATAGAATCCCCCCTTAGTAACCTTT 1 6 1 ATCCCCCCTT 0.961071 -226 ACAAACACATCCCCTTTACAGGTTGTA 3 8 1 CATCCCCTTT 0.73626 -59 CACACCGCAAAAGCCGCTTTATGCGGCTT 9 10 0 AAGCCGCTTT 0.74072 -133 CAGAGCGGGAAATCCGCTTTTAAATAAAAC 9 53 0 AATCCGCTTT 0.775982 -90 GATTGTATCCTCCCTTACGTCT 11 7 0 ATCCTCCCTT 0.830939 -16 TTTCCATTCAAATCCCCTTTTTCATCATGT 15 12 0 AATCCCCTTT 0.946522 -138 ACTACATTCTCCTTTTTTCTTATCC 16 154 0 ATTCTCCTTT 0.846498 -15 CCAAACGGCTATTTCCCCTTTTT 22 4 0 ATTTCCCCTT 0.742474 -100 TCGGACCGGCATCTCCCTTTACGCTCGCCG 26 109 1 ATCTCCCTTT 0.791533 -159 TCCAATTCCCCCTTTTTACTGATA 28 141 0 ATTCCCCCTT 0.95796 -14 ATTGATGCCCCTTTCGTTTTCTTC 30 65 0 ATGCCCCTTT 0.958066 -14 TAAAAAAGGAAAGCTCCTTTTTTCGGAGCT 31 23 0 AAGCTCCTTT 0.744018 -131 ACACACATCCCCCGTTTCCGCGAACT 31 138 0 ATCCCCCGTT 0.87518 -16 ********** Masking position 9 Map Score: 10.0821 Number of sites scoring better than the average of aligned sites = 375 Number in coding regions = 210 Number in noncoding regions = 165 Number of orfs with sites within 600 bp upstream = 192 Fraction of orfs with sites within 600 bp upstream = 0.0308384 Motif number 7 AGGAACCTATAGAATGAACAATAATTCGAAAAGGGA 1 195 1 AGTGAAAATT 0.978442 -37 TATTAATTATAGATTTAATAGATATTTTTCATATGG 2 42 1 AGTTAAAATT 0.781472 -48 TCCCCTTTACAGGTTGTAAAATGATTGATTATCATA 3 20 1 AGTGTAAATT 0.947583 -47 CACAGATTTGAGCCTGAAGATCAGTTAGTTGAGCTA 6 154 1 AGTGAAAGTT 0.895255 -147 GCGCTAAAAAAGCTTGTAAAAAAATTTACAAGCTGA 7 11 0 AGTGTAAATT 0.947513 -151 TTCATCCTCCAGTTTGAACAAATATTGTTAGTCATA 9 114 0 AGTGAAAATT 0.978439 -29 GTTCTATGTTAGAATGATTATAAATTAAGATTGGGT 17 117 1 AGTGATAATT 0.852218 -47 AGTCGTGGTCAGCGTGAACACAGATCAGGATCAGGC 25 37 0 AGTGAAAATC 0.945708 -264 TTGATTTGGTAAAATGAATAGACATTATAATAGAAA 25 263 1 AATGAAAATT 0.781456 -38 CATCTGCATTAGTATGTATAGCAATCATCAAAGATC 27 149 0 AGTGTAAATC 0.874027 -43 ATTTAATTATTGACTGAACACTCATTCATTATTTAT 28 58 1 TGTGAAAATT 0.852219 -97 ** **** * *** Masking position 10 Map Score: 6.21203 Number of sites scoring better than the average of aligned sites = 59 Number in coding regions = 47 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 8 TTGTTGAGAAGTAGGCACTTTGAAGTCAAC 1 161 0 GTAGGCACTT 0.879987 -71 GGTATGATAAGGAGGCGCTTTCTT 2 5 0 GGAGGCGCTT 0.987954 -85 AAATGTGTTTGTAGGGGTTTCGCTTGGAGA 4 50 1 GTAGGGGTTT 0.810982 -55 TGAAAAGGAAGGAGGCACTTGC 4 93 1 GGAGGCACTT 0.96975 -12 CCAATATTTGCGAGGTGCTTCCTGAATTAG 6 119 1 CGAGGTGCTT 0.938873 -182 TAGCTCAATGCGAGGGATTTTTAACGATAA 6 241 0 CGAGGGATTT 0.755742 -60 GTGAATTAGCTGAGGTGCTTT 6 290 1 TGAGGTGCTT 0.849195 -11 AAAGCATAAAGGAGGGGCTTGA 12 62 1 GGAGGGGCTT 0.987954 -12 ********** Masking position 3 Map Score: 4.31919 Number of sites scoring better than the average of aligned sites = 303 Number in coding regions = 262 Number in noncoding regions = 41 Number of orfs with sites within 600 bp upstream = 46 Fraction of orfs with sites within 600 bp upstream = 0.00738837 Motif number 9 CTCGGCCACCCCCGGATGGAATAGACT 14 11 0 CACCCCCGAT 0.96163 -17 ATTGCTCAAACAGCCGCCGACGCGGCTTTTAT 15 86 1 CGCCGCCGCG 0.959871 -64 CCTGCCTCCGCGGCCTCTGGATTCACATCATA 15 127 0 CGCCTCTGAT 0.906843 -23 CCTCCTCTCTCAGCTTCCGCATTCGATCAGAC 18 16 0 CGCTTCCGAT 0.941867 -31 TGGACTTTTGCCACTGCCGCATCGCGTCTGTT 25 91 1 CACTGCCGAT 0.951076 -210 TGTCCGTTTTCCGCCGCCGTAATGCTGAGTCG 26 80 1 CGCCGCCGAA 0.974088 -188 GCCGCGCTGACTGCCGCTGAAGACGGATTTTT 26 135 1 CGCCGCTGAG 0.950424 -133 CCGCGATCCCCTACCCCCGAATCTGTATAAGA 28 105 0 CACCCCCGAT 0.961629 -50 AACGGCTGCCGTATTTGCTGTGAT 30 3 1 CGCTGCCGAT 0.983312 -76 * ******* ** Masking position 7 Map Score: 7.41089 Number of sites scoring better than the average of aligned sites = 371 Number in coding regions = 314 Number in noncoding regions = 57 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 10 ACATAATGTCTCAGCTCAACTAAACTCATTCTCTGCTAC 10 84 0 TCGCTTAACT 0.746096 -132 AGGAGAAACTTCCGCTAGAATTGACAATTTCAGGGCATA 24 43 0 TCGCTTGACT 0.967715 -105 CTTTTGCATTACCGCTGTTTTGGACTTTTGCCACTGCCG 25 71 1 ACGCTTGACT 0.989567 -230 ATGTGGAAAAACCGCGAAGTTCGTCCAATCTCTTTACTC 25 198 0 ACGCGTGTCT 0.916387 -103 TGTTTTTTATACTGCTGATTTTGACTTGTCCGTTTTCCG 26 54 1 ACGCTTGACT 0.989564 -214 CGCCGCGCTGACTGCCGCTGAAGACGGATTTTTTTTCTC 26 134 1 ACGCCAGACT 0.943379 -134 ATAACTTTTGACGGCTCTCATTGACAGTTGGTTACATTT 27 55 1 ACGCTTGACT 0.989567 -137 ATCGCGATTTACAGCCTGACTGGTCTAGTGTAGAAGAAA 30 33 1 ACGCCTGTCT 0.967083 -46 GGGGACGGAAACAGCCGATGCGGACAGGTTTTTGTAAAC 31 92 1 ACGCCCGACT 0.961081 -62 ** *** * *** * Masking position 19 Map Score: 5.15361 Number of sites scoring better than the average of aligned sites = 34 Number in coding regions = 26 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 11 CGTATCTAACATACAAAAAGGTTACTAAGGG 1 21 0 ATAAAAAAGG 0.909949 -211 ATGAACAATAATTCGAAAAGGGAGTGGATCA 1 208 1 ATTGAAAAGG 0.860379 -24 GATTATCATAAAAAGAAAAGGTGGTTTTTAC 3 46 1 AAAGAAAAGG 0.848883 -21 TACGATAAGAACAGCTTAGAAATAC 10 5 1 ATAGAACAGC 0.575445 -211 TGGAACTTGCATAATAAAAGGCGGAGTCGAA 13 85 1 ATATAAAAGG 0.844134 -40 GTTAGGCACAATAAGAAAAGGTACTTAATTT 16 58 1 ATAGAAAAGG 0.964916 -111 AGTTGACAAAAAAGAAAAAGGGAAGCAGCCA 22 31 0 AAAAAAAAGG 0.673612 -73 GTCACTATCAATAGAGAAAGGATGATACCAT 25 151 0 ATAAGAAAGG 0.911479 -150 TTCTCTATTGATAGTGACAGGATATTCGATA 25 164 1 ATATGACAGG 0.735867 -137 ACTACCTTTACTACGGAAAGGAGTGCCGGT 28 10 0 CTAGGAAAGG 0.81551 -145 AACTATTCCGATTAAAAAAGGAAAGCTCCTT 31 34 0 ATTAAAAAGG 0.693629 -120 CTTCTCGTACATATGGAAAGGGGACGGAAAC 31 73 1 ATAGGAAAGG 0.965548 -81 GAAACAGCCGATGCGGACAGGTTTTTGTAAA 31 99 1 ATGGGACAGG 0.727103 -55 *** ******* Masking position 7 Map Score: 6.72079 Number of sites scoring better than the average of aligned sites = 451 Number in coding regions = 320 Number in noncoding regions = 131 Number of orfs with sites within 600 bp upstream = 149 Fraction of orfs with sites within 600 bp upstream = 0.0239319 Motif number 12 TGTTAGATACGTATCATCACTTACTTACTT 1 41 1 GTATCATCAC 0.879411 -191 TCTCCTCACAGTATCCTCCAAGTAACTTGT 1 133 1 GTATCCTCCA 0.942632 -99 AGTAAGTATCCTCTCATTGTGTGTC 7 147 0 GTATCCTCTC 0.974396 -15 ATATAGTATTTTATCCTCTCATGCCATCTT 10 165 1 TTATCCTCTC 0.85481 -51 GATTGTATCCTCCCTTACGTCT 11 9 0 GTATCCTCCC 0.988472 -14 TTCGCTCATGGTATCATCCTTTCTCTATTG 25 144 1 GTATCATCCT 0.847379 -157 ********** Masking position 4 Map Score: 1.17637 Number of sites scoring better than the average of aligned sites = 87 Number in coding regions = 63 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 13 TCCTGAATTAGACGGACACAGATTTGAGCCTG 6 138 1 GAGACACAGA 0.872779 -163 GCTATCCGGGGTGAAAAACATCGGTGAATTAG 6 267 1 GTAAAACATC 0.675335 -34 TACGATAAGAACAGCTTAGAAATAC 10 4 1 GAAGAACAGC 0.807086 -212 AATGATGCTGGTAAAAAACAGATTTTCCATTG 22 69 0 GTAAAACAGA 0.906535 -35 CAAAAAAAGGGAGTGACACAGA 24 1 0 GAGACACAGA 0.872779 -147 AGTGGCAAAAGTCCAAAACAGCGGTAATGCAA 25 74 0 GTAAAACAGC 0.963503 -227 TCATGAAAATGAAGAAAACAGACGCGATGCGG 25 107 0 GAAAAACAGA 0.890854 -194 AAGCAGCCGTGGGAAGCAGCTGCATTATGA 26 9 1 GTGAAGCAGC 0.892211 -259 AAACGGACAAGTCAAAATCAGCAGTATAAAAA 26 57 0 GTAAATCAGC 0.880074 -211 GGAGATGCCGGTCCGACTCAGCATTACGGCGG 26 93 0 GTGACTCAGC 0.860492 -175 ATGGAAAGGGGACGGAAACAGCCGATGCGGAC 31 85 1 GAGAAACAGC 0.967546 -69 ** ******** Masking position 10 Map Score: 3.81944 Number of sites scoring better than the average of aligned sites = 639 Number in coding regions = 582 Number in noncoding regions = 57 Number of orfs with sites within 600 bp upstream = 46 Fraction of orfs with sites within 600 bp upstream = 0.00738837 Motif number 14 GTGAAAAACATCGGTGAATTAGCTGAGGTGCTTT 6 277 1 TGTATTCTGG 0.713096 -24 AGTAGGATGGTGTTTTATTTAAAAGCGGATTTCCCGCT 9 42 1 TTTTTTAAGG 0.860425 -101 TCTATAAAGTTAAGTCATTTGGATGCAGGGAATGCCCC 16 18 1 TGTTTTATGG 0.96993 -151 TAGGAATGCTTCTTTTCCCTGAAGCTTTTTCTAA 17 7 1 TTTTTTCTGG 0.950286 -157 AACCTTCACTTCAGTAATTTTAATGATGAAAAACAGGA 21 20 0 TGTTTTATGG 0.96993 -133 CGGTGAGAGCTGATTGCTTTACATGTGGTGAGGACATT 23 170 1 TTTTTTATGG 0.975066 -60 CGCGTCTGTTTTCTTCATTTTCATGACGATTTTCGCTC 25 113 1 TTTTTTATGG 0.975066 -188 AGCTAATTTGTTATTTTTTTGTATGAAGCCTATAAAAG 26 212 0 TTTTTTATGG 0.975066 -56 TTTAAAGGGTTTTTTTGTTTGTATGGGAATAATTATCA 29 46 1 TTTTTTATGA 0.793118 -106 * ** *** *** * Masking position 9 Map Score: 2.94047 Number of sites scoring better than the average of aligned sites = 129 Number in coding regions = 110 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 15 GACTATCATTTCAAGATTTTTTTAGAAGGTGAGA 5 67 1 TAAGTTTTTA 0.866175 -28 GGGATTATTTTAATGATTTTTATAGGTATATTTT 6 33 0 TATGTTTTTA 0.958815 -268 AGCTGAGACATTATGTTTATTCTACCCAAAAGAA 10 107 1 TATGTTTTTA 0.958821 -109 AGCCCCTCCTTTATGCTTTTAAAAATGAATGGCT 12 47 0 TATGTTTAAA 0.597348 -27 TTCTTTTCCCTGAAGCTTTTTCTAATATAGCATA 17 20 1 TAAGTTTTTA 0.866178 -144 AGAAACTATGTTATAATTATTATAAATAATGAGT 17 85 1 TATATTTTTA 0.670432 -79 ACTAAGCTTTTATTGTTTATACTATAAAGCATAC 21 86 0 TTTGTTTATA 0.597346 -67 TCCCTTTTTTTGATGGTTGTATTATGCCCTGAAA 24 21 1 TATGTTTATA 0.913365 -127 TTGTCCCATGTTATGTTTTTTATACTGCTGATTT 26 41 1 TATGTTTTTA 0.958821 -227 ATTGGATCTTTGATGATTGCTATACATACTAATG 27 145 1 TATGTTCTTA 0.829231 -47 * *** ** ** ** Masking position 7 Map Score: 2.19353 Number of sites scoring better than the average of aligned sites = 95 Number in coding regions = 64 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405