AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00600_bsub_reg_300.orf -o00600_bsub_300.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 spoIIE 300 serine phosphatase #2 yabS 84 similar to hypothetical proteins #3 yabT 88 yabT #4 yckG 231 similar to D-arabino 3-hexulose 6-phosphate formaldehyde lyase #5 ylbQ 159 similar to pyrimidine-thiamine biosynthesis #6 yllA 70 yllA #7 yllB 125 similar to hypothetical proteins #8 ylxA 69 alternate gene name: yllC; similar to hypothetical proteins #9 ftsL 39 cell-division protein #10 spoVD 116 penicillin-binding protein #11 murE 175 UDP-N-acetylmuramoylananine-D-glutamate-2,6- diaminopimelate ligase #12 mraY 112 phospho-N-acetylmuramoyl-pentapeptide transferase #13 spoVE 60 spoVE #14 murG 122 UDP-N-acetylglucosamine-N-acetylmuramyl- (pentapeptide)pyrophosphoryl-undecaprenol N-acetylglucosamine transferase #15 mmgC 27 acyl-CoA dehydrogenase #16 mmgB 149 3-hydroxybutyryl-CoA dehydrogenase #17 mmgA 137 acetyl-CoA acetyltransferase #18 yqiK 78 similar to glycerophosphodiester phosphodiesterase #19 yqiH 300 alternate gene name: yzpA; similar to lipoprotein #20 msmR 217 transcriptional regulator (LacI family) #21 msmE 33 multiple sugar-binding protein #22 comQ 184 transcriptional regulator #23 degQ 300 alternate gene name: sacQ #24 yvfL 39 similar to maltodextrin transport system permease #25 yvfK 140 similar to maltose/maltodextrin-binding protein #26 lacR 179 transcriptional regulator (LacI family) #27 yvfI 300 similar to transcriptional regulator (GntR family) #28 yvoB 181 similar to hypothetical proteins #29 ywjF 154 similar to hypothetical proteins Motif number 1 CAACGAATATAACAGGTGGGAGATGAGAGGA 1 280 1 AACAGGGGGA 0.987209 -21 AAAAAGGTTACTAAGGGGGGATTCTAT 4 7 0 CTAAGGGGGA 0.838019 -225 ACTTCTCAACAAAAGAAGGAACCTATAGAAT 4 179 1 AAAAGAGGAA 0.864523 -53 GTAGAAACAACAAAGGGGGAGATTTGT 5 7 0 CAAAGGGGAG 0.906783 -153 TCATCCTGATAAAAGGTGGGACCAACACAAT 8 49 1 AAAAGGGGGA 0.985213 -21 GTTTGAAAGAAACAGGAGGAGAAAAGGACA 12 93 1 AACAGGGGAG 0.970162 -20 CATCACGATGATAAGGAGGAAAAG 21 20 1 ATAAGGGGAA 0.947769 -14 TATCATTCGGAACCGGCGGAATTGCCCGGGA 26 21 0 AACCGGGGAA 0.941526 -159 CAGATTTTATAAAAGGGGGGAAAACACCTCA 28 81 0 AAAAGGGGGA 0.985213 -101 GGCAGCCCGGAACAGGAGGAACATATC 28 165 1 AACAGGGGAA 0.989453 -17 AGTGTGCCCGAACAGCAGGAATTTAATTATT 29 38 1 AACAGCGGAA 0.91636 -117 TTTATCAGTAAAAAGGGGGAATTGGA 29 139 1 AAAAGGGGAA 0.987803 -16 ****** **** Masking position 5 Map Score: 16.7811 Number of sites scoring better than the average of aligned sites = 274 Number in coding regions = 175 Number in noncoding regions = 99 Number of orfs with sites within 600 bp upstream = 116 Fraction of orfs with sites within 600 bp upstream = 0.0186315 Motif number 2 ATTCCGGAAATTCTTTTCATAAACGAATAT 1 166 1 TTCTTTTCAT 0.544607 -135 AGACTCTTTTTTCATTATACTCACTCATAA 4 77 1 TTCATTATAC 0.65162 -155 AGTTCAGGGTTTCTTTTTATGGGTAAACAG 7 36 1 TTCTTTTTAT 0.836711 -90 GCTCCACAACTTCATTTTACACTGTTTACC 7 57 0 TTCATTTTAC 0.82861 -69 GCTGATGACCTCCTTTTAATTTTGCGTTCG 9 18 0 TCCTTTTAAT 0.705907 -22 TATGCAGGCTTTCTTTTTTTATGCCTTCAG 10 26 1 TTCTTTTTTT 0.836711 -91 TTAGGCTTGTTTCATTTTATGCCTGAATTT 10 78 0 TTCATTTTAT 0.811021 -39 GGGCTGCCTATTCTTTTATTGCAGAAAAAA 11 14 1 TTCTTTTATT 0.639926 -162 GCTGGATGTATCCTTTTATTTACGCTAAAA 11 65 1 TCCTTTTATT 0.705907 -111 TTCTAATTCGTTCTTTTTATCATTGAAGTC 11 137 0 TTCTTTTTAT 0.836711 -39 TTTTTCAAGCTCCATTATTCAGTAACATCT 12 16 0 TCCATTATTC 0.716407 -97 TGTCCTTTTCTCCTCCTGTTTC 12 101 0 TCCTTTTCTC 0.645335 -12 TTCTTTTTTCCCCCAGTCTA 14 113 0 TTCTTTTTTC 0.852344 -10 TGACGCAGCCTTCTTTTTTCATTCATTCAT 17 41 1 TTCTTTTTTC 0.852344 -97 TAAAGTTTTCTCCATTATACTTATTTTGTC 18 42 0 TCCATTATAC 0.716407 -37 TAATACTTTATCCATTTATTGTATCGGTAG 22 43 0 TCCATTTATT 0.667808 -142 AAACCTGCTGTCCTTTAAATGTCCCATTTA 22 93 1 TCCTTTAAAT 0.481495 -92 CCCCTCCCATTCCATTTTACTAAATGGGAC 22 113 0 TCCATTTTAC 0.867192 -72 GTTTCCACACTCCTTTTTTTGAAAGATCAA 23 280 0 TCCTTTTTTT 0.873747 -21 TGTATCTGCCTCCATTATTCAGCTCGCATT 26 160 0 TCCATTATTC 0.716407 -20 TCACAATACTTTCATTTTATCACTTTCGGG 28 125 0 TTCATTTTAT 0.811021 -57 TGAACACTCATTCATTATTTATCATAAAGA 29 72 1 TTCATTATTT 0.624107 -83 ********** Masking position 5 Map Score: 18.2332 Number of sites scoring better than the average of aligned sites = 1367 Number in coding regions = 1016 Number in noncoding regions = 351 Number of orfs with sites within 600 bp upstream = 360 Fraction of orfs with sites within 600 bp upstream = 0.057822 Motif number 3 TTACCTTCTTTTGACAAAATCCTATCTGTG 1 231 1 TTGACAAAAT 0.876204 -70 AAATAAAGCGTTTACAATATATGTAGAAAC 5 30 0 TTTACAATAT 0.702862 -130 AAACGCTTTATTTAAAAAATCCAAATATTT 5 47 1 TTTAAAAAAT 0.758816 -113 TTTTATTCATTTTAAAAAATTTGAGAATAG 19 67 0 TTTAAAAAAT 0.758816 -234 TCGCGTTGTCTTTACAAATTCTCCATTCTG 19 242 1 TTTACAAATT 0.702862 -59 AATCACATCATTTACTAAATATTTAGTAAA 20 85 1 TTTACTAAAT 0.936848 -133 TTCCATAATATTTACTAAATATTTAGTAAA 20 95 0 TTTACTAAAT 0.936848 -123 GAGTTAATATTTTACTAAATAGATGAGAGG 20 191 1 TTTACTAAAT 0.936848 -27 CCCATTCCATTTTACTAAATGGGACATTTA 22 108 0 TTTACTAAAT 0.936848 -77 AGTAAAATATTTTACTAAAACAATGCGAGC 26 139 1 TTTACTAAAA 0.632112 -41 ACAAGACTTTTTGACAAAATAGTCAAAATC 27 15 1 TTGACAAAAT 0.876204 -286 TTTCCCCCCTTTTATAAAATCTGTTTTAGG 28 89 1 TTTATAAAAT 0.640833 -93 ********** Masking position 4 Map Score: 9.94638 Number of sites scoring better than the average of aligned sites = 119 Number in coding regions = 87 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 4 ACCAACGGGCCAAACAAATATGGTAGCGGC 1 21 0 CAAACAAATA 0.801049 -280 ACGGGTCATCCTAACAAATCGGTTTCTCTT 1 104 1 CTAACAAATC 0.682761 -197 GTCTAAAAATGAAAAAAATCGGCTTCTGCA 1 133 0 GAAAAAAATC 0.894857 -168 GTAACAATACCAAAGAAATCTTCGACGGTT 1 205 0 CAAAGAAATC 0.939014 -96 AAAGAGTCTGCAAAAAAGTAAGTAAGTGAT 4 56 0 CAAAAAAGTA 0.731827 -176 AAAATCAAGCGAAAGAAATCTGATTGTCTC 4 105 1 GAAAGAAATC 0.875313 -127 TTTTCATATGGAAAAAAATCATGAATATGA 12 49 1 GAAAAAAATC 0.894857 -64 GAATGGAAATCAAACAAATCATGGTAGCTG 16 33 1 CAAACAAATC 0.952884 -117 AAAAGACTTGGAAACAAGTCTTTTTTTTCG 22 11 1 GAAACAAGTC 0.871313 -174 TCCTTATACTCAAAGGAATCACAACAAGAA 23 125 0 CAAAGGAATC 0.725519 -176 GAAAAGTATGCAAAAAAGTCCTGCGTGACA 23 172 0 CAAAAAAGTC 0.932006 -129 GACTTTTTGACAAAATAGTCAAAATCTTTT 27 19 1 CAAAATAGTC 0.61355 -282 CAGATTAAAACAAAAAAATATATGAAGAAG 27 129 1 CAAAAAAATA 0.787973 -172 ********** Masking position 4 Map Score: 8.18285 Number of sites scoring better than the average of aligned sites = 418 Number in coding regions = 374 Number in noncoding regions = 44 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 5 CGATTTGTTAGGATGACCCGTACGGGATTC 1 95 0 GGATGACCCG 0.92126 -206 TAAAAGAATAGGCAGCCCGAA 11 2 0 GGCAGCCCGA 0.876247 -174 GAAGTAAATCGGCAGCCCTAATGACTTTAA 13 22 1 GGCAGCCCTA 0.950895 -39 GAAAAAAGAAGGCTGCGTCAAACAGCCTCC 17 31 0 GGCTGCGTCA 0.791933 -107 GGTTACGCTTGGCTGACCCACCCGTCAAAC 19 25 1 GGCTGACCCA 0.974538 -276 GGATGACTTAGGACACTAAG 25 1 1 GGATGACTTA 0.733272 -140 AAAGCCCTCTGGCTGCCATGTAAAAAGACT 26 83 0 GGCTGCCATG 0.907318 -97 AAGAAGTAGCGGATGCCCTATTAGATATGA 27 153 1 GGATGCCCTA 0.951587 -148 ACCGCTGAACGGCTGACTTGAAAGCTCTCA 27 238 0 GGCTGACTTG 0.913465 -63 TCCTGTTCCGGGCTGCCCCGAGCTTGCTCA 28 152 0 GGCTGCCCCG 0.989813 -30 ********** Masking position 5 Map Score: 6.82683 Number of sites scoring better than the average of aligned sites = 382 Number in coding regions = 338 Number in noncoding regions = 44 Number of orfs with sites within 600 bp upstream = 35 Fraction of orfs with sites within 600 bp upstream = 0.00562159 Motif number 6 GCTATACTCATTTCGGATCACTAACTATTT 6 27 1 TTTCGGATCA 0.826004 -44 GGTTTCACCTCATTCAGAAGAT 17 126 0 TTTCACCTCA 0.940106 -12 ATACTTATTTTGTCGGCTCCACTCTAGGAT 18 26 0 TGTCGGCTCC 0.90039 -53 CGTTTCACCTCAAACCCTAAAG 18 67 0 TTTCACCTCA 0.940106 -12 TTTTTCTAATTGGCGCCTCAATTAGAGCCA 19 117 1 TGGCGCCTCA 0.949004 -184 TCTTTCTCAATTTCAGCACATATAAACGCT 23 71 1 TTTCAGCACA 0.785199 -230 GTGTGTCTGCTTTCGGCTCATTTTTCACCG 23 201 0 TTTCGGCTCA 0.981929 -100 CGTTTTCACCTCTCTTACAATAC 24 27 0 TTTCACCTCT 0.712179 -13 ACTGAACCATTTGCGGCTCAGTCTCAGTTG 26 56 0 TTGCGGCTCA 0.974803 -124 CAAAATCTTTTGGCGGCCCACAAAACAGAG 27 38 1 TGGCGGCCCA 0.865473 -263 ********** Masking position 1 Map Score: 5.18687 Number of sites scoring better than the average of aligned sites = 294 Number in coding regions = 263 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 7 ATATGGTAGCGGCGGAGGGGATC 1 3 0 GGCGGAGGGA 0.93344 -298 GTATTCTCCAGGAGGAATGAAT 2 73 1 GGAGGATGAA 0.910629 -12 TCAAAGGCAAGTGGAATGGAAACACTTATAC 3 31 1 GTGGAAGGAA 0.829297 -58 TTGGTAAAGGGGCCAATGGAATT 3 76 1 GGCCAAGGAA 0.698749 -13 ACTATTTATTGGAGAAAGGAAGTTCTAGAAG 6 50 1 GGAGAAGGAA 0.968914 -21 AGAAACAGGAGGAGAAAAGGACA 12 100 1 GGAGAAAGGA 0.669543 -13 TGATGAAAAAGGGGATTTGAATGGAAATCAA 16 15 1 GGGGATTGAA 0.678658 -135 CAGGTCAGATGGGGAGCGGAATTGCTCAAAC 16 66 1 GGGGAGGGAA 0.954783 -84 AAATGGAATGGGAGGGGGGAAGTCGTTATTG 22 126 1 GGAGGGGGAA 0.928287 -59 TTCAAAAAAAGGAGTGTGGAAACG 23 287 1 GGAGTGGGAA 0.813917 -14 CACCCTTTCGGTAGGAATGAAAGCGCTTTAA 25 113 0 GTAGGATGAA 0.542007 -28 GATCAAAAATGGCGAATTGAAGCCGGGGGAT 27 181 1 GGCGAATGAA 0.910844 -120 TACAGATTCGGGGGTAGGGGATCGCGGTCTT 29 110 1 GGGGTAGGGA 0.885187 -45 CAGTAAAAAGGGGGAATTGGA 29 144 1 GGGGAATGGA 0.916814 -11 ****** **** Masking position 11 Map Score: 8.31343 Number of sites scoring better than the average of aligned sites = 611 Number in coding regions = 488 Number in noncoding regions = 123 Number of orfs with sites within 600 bp upstream = 107 Fraction of orfs with sites within 600 bp upstream = 0.017186 Motif number 8 TTCATAAACGAATATCAAGGCAGAAACCGT 1 181 1 AATATCAAGG 0.868661 -120 ACTCACTCATAAAATCAAGCGAAAGAAATC 4 95 1 AAAATCAAGC 0.876469 -137 CATATGGAAAAAAATCATGAATATGATAAC 12 53 1 AAAATCATGA 0.749001 -60 GGAAATCAAACAAATCATGGTAGCTGGCGC 16 37 1 CAAATCATGG 0.859362 -113 AGCCCTTTTGAAAATCATGGAACTTGCTCG 19 205 1 AAAATCATGG 0.958343 -96 TTATGTTGGAAAAATAAAGGGGAACCCAGA 20 56 0 AAAATAAAGG 0.894084 -162 GAAACCCGTTAAAATCAAGGAGATTAAGAA 23 41 1 AAAATCAAGG 0.973619 -260 GAAAAAGAGTAAAATAAAGGTATTCAAATT 28 30 0 AAAATAAAGG 0.894084 -152 ********** Masking position 4 Map Score: 4.52983 Number of sites scoring better than the average of aligned sites = 128 Number in coding regions = 115 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 9 AATAAAGTTTTAAAGAACCCTGACTAGT 7 9 1 TTTAAAGAAC 0.580949 -117 CCAGCTAATCTTGAAAGATATCAGCATTTT 11 40 0 TTGAAAGATA 0.964299 -136 CGTATGTCGTTTGAAAGAAACAGGAGGAGA 12 85 1 TTGAAAGAAA 0.895127 -28 TTCCTGTTGTTAGAAAGATAACGAGCAGAT 19 160 0 TAGAAAGATA 0.895127 -141 CTCTTTCGCATAGAAAGATAGTCCCGTTCT 23 99 1 TAGAAAGATA 0.895127 -202 ACTCCTTTTTTTGAAAGATCAATGAATTGT 23 272 0 TTGAAAGATC 0.957043 -29 ATGAAAGCGCTTTAAAGATAATATAGCATG 25 98 0 TTTAAAGATA 0.841739 -43 GTGAATTGCATTGAAATATAAACAGATTAA 27 107 1 TTGAAATATA 0.725865 -194 AACGGCTGACTTGAAAGCTCTCAGCAAGCG 27 231 0 TTGAAAGCTC 0.838851 -70 ********** Masking position 5 Map Score: 3.70588 Number of sites scoring better than the average of aligned sites = 191 Number in coding regions = 154 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 10 TCTAACATACAAAAAGGTTACTAAGGGGGG 4 18 0 AAAAAGGTTA 0.793811 -214 AGTATAATGAAAAAAGAGTCTGCAAAAAAG 4 68 0 AAAAAGAGTC 0.732027 -164 TTTTATGGGTAAACAGTGTAAAATGAAGTT 7 50 1 AAACAGTGTA 0.778051 -76 ATGGAGCTTGAAAAAGATTTTTCATATGGA 12 31 1 AAAAAGATTT 0.710012 -82 CTGTCCAACAAAACAGGGTTATCGTTATGT 14 71 1 AAACAGGGTT 0.863101 -52 AACATGATGAAAAAGGGGATTTGAATGGA 16 10 1 AAAAAGGGGA 0.737566 -140 AATTTATCAAAAACAGATGAGTTAATATTT 20 173 1 AAACAGATGA 0.79787 -45 GCGGCCCACAAAACAGAGTATAATAGATCG 27 50 1 AAACAGAGTA 0.951365 -251 ATTGAAATATAAACAGATTAAAACAAAAAA 27 116 1 AAACAGATTA 0.911384 -185 CACTAGTCTGAAAAAGAGTAAAATAAAGGT 28 39 0 AAAAAGAGTA 0.911386 -143 CTTGAACCTAAAACAGATTTTATAAAAGGG 28 95 0 AAACAGATTT 0.82319 -87 ********** Masking position 5 Map Score: 3.87684 Number of sites scoring better than the average of aligned sites = 234 Number in coding regions = 191 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 11 AAGTCACATCAAATGATGTGGTAATGATTT 11 112 0 AAATGATGTG 0.920534 -64 GCTTGGAAACAATTGATGCGATAACCCTGT 14 45 1 AATTGATGCG 0.849253 -78 ATGTGCGGATGTATGATGTGAATCCAGAGG 16 116 1 GTATGATGTG 0.788792 -34 TCTATCTTCTGAATGAGGTGAAACC 17 123 1 GAATGAGGTG 0.929343 -15 AAACTTTAGGGTTTGAGGTGAAACG 18 64 1 GTTTGAGGTG 0.802683 -15 GGATGGCTCTAATTGAGGCGCCAATTAGAA 19 120 0 AATTGAGGCG 0.89984 -181 AATATTTAGTAAATGATGTGATTTATGTTG 20 78 0 AAATGATGTG 0.920534 -140 TTTCGGTGAAAAATGAGCCGAAAGCAGACA 23 198 1 AAATGAGCCG 0.800249 -103 AGTCCTAGGTATTTGATCTGTTACTAATAG 23 230 0 ATTTGATCTG 0.521822 -71 ATTGCCCGGGAAATGAGTTGG 26 2 0 AAATGAGTTG 0.67351 -178 ********** Masking position 6 Map Score: 2.43668 Number of sites scoring better than the average of aligned sites = 323 Number in coding regions = 255 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 79 Fraction of orfs with sites within 600 bp upstream = 0.0126887 Motif number 12 TGATTGTCTCTCCTCACAGTATCCTCCAAGTAAC 4 125 1 TCCCATATCC 0.832327 -107 TGTTGATCCACTCCCTTTTCGAATTATTGT 4 212 0 TCCCCTTTTC 0.862157 -20 TATTCACCACTTCGCTCCACAACTTCATTTTACA 7 66 0 TCCCCCAACT 0.940264 -60 TTGCCCCACTTTCTCTCCTTAACTCACCACTATT 7 96 0 TCCCCTAACT 0.969881 -30 GAGACCGTTCACTCCTTATTTAGGCTTGTTT 10 96 0 TCCCCTATTT 0.959993 -21 TTTGAGCAATTCCGCTCCCCATCTGACCTGCGCC 16 62 0 TCCCCCATCT 0.967749 -88 TCAAACGATTTGCTCACCCTATTCTCAAATTTTT 19 49 1 TCCCCTATTC 0.951906 -252 TTCAATGCAATTCACCCCGTAACTTGTAGGTCTG 27 88 0 TCCCCTAACT 0.969881 -213 CTGAGGTGTTTTCCCCCCTTTTATAAAATCTGTT 28 80 1 TCCCCTTTAT 0.750066 -102 * * * ** ***** Masking position 1 Map Score: 1.54583 Number of sites scoring better than the average of aligned sites = 142 Number in coding regions = 98 Number in noncoding regions = 44 Number of orfs with sites within 600 bp upstream = 54 Fraction of orfs with sites within 600 bp upstream = 0.00867331 Motif number 13 ********** No masking Map Score: 8.17367e-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 TTAGGATGACCCGTACGGGATTCGAACCCGTGT 1 85 0 CCTACGATTC 0.656011 -216 ATAAGTGTTTCCATTCCACTTGCCTTTGATTGT 3 27 0 CCTTCCTTGC 0.754094 -62 GATTGTCTCTCCTCACAGTATCCTCCAAGTAAC 4 126 1 CCCACAATCC 0.847151 -106 TGTTGATCCACTCCCTTTTCGAATTATTGT 4 212 0 CCCTCCTTTC 0.97277 -20 CATCGTTCTACCTGTCCAAATTCAGGCATAAAA 10 61 1 CCGTCCATTC 0.919355 -56 CGTATCAAACCTCTCAACATTCTAATTCGTTC 11 154 0 CCCTCAATTC 0.944634 -22 TGTCCTTTTCTCCTCCTGTTTCTTTCAAACGA 12 91 0 CTCTCCTTTC 0.71936 -22 TTGAGCAATTCCGCTCCCCATCTGACCTGCGCC 16 62 0 CCCTCCATCT 0.755824 -88 CAAACGATTTGCTCACCCTATTCTCAAATTTTT 19 50 1 GCCACCATTC 0.791627 -251 CCCATCACCCTTCCTTATTCGCTTACTTCA 20 8 1 CCTTCCATTC 0.961986 -210 AACGACTTCCCCCCTCCCATTCCATTTTACTAA 22 120 0 CCCTCCTTCC 0.957219 -65 GACTCGTTCACCATACACAATTCATTGATCTTT 23 256 1 CCTACAATTC 0.764771 -45 ** **** **** Masking position 11 Map Score: 2.02085 Number of sites scoring better than the average of aligned sites = 526 Number in coding regions = 430 Number in noncoding regions = 96 Number of orfs with sites within 600 bp upstream = 71 Fraction of orfs with sites within 600 bp upstream = 0.0114038 Motif number 15 GGCCAAACAAATATGGTAGCGGCGGAGGGGATC 1 8 0 ATGAGGCGGA 0.990832 -293 AAATCGGTTTCTCTTGCAGAAGCCGATTTTTTTCAT 1 119 1 CTGAGGCCGA 0.95374 -182 AGTCTATTCCATCCGGGGGTGGCCGAG 15 11 1 ATGGGGCCGA 0.971542 -17 AACATGATGAAAAAGGGGATTTGAATGGA 16 4 1 ATGAAGGGGA 0.850532 -146 AGCGGAATTGCTCAAACAGCCGCCGACGCGGCTTTT 16 80 1 CTAAGGCCGA 0.780895 -70 TATGATGTGAATCCAGAGGCCGCGGAGGCAGGA 16 127 1 ATGGGGCGGA 0.987171 -23 TGTTCGTATCATTCGGAACCGGCGGAATTGCCCGGG 26 22 0 ATGACGCGGA 0.947052 -158 AAAAAAATATATGAAGAAGTAGCGGATGCCCTATTA 27 140 1 ATGAGGCGGA 0.990832 -161 AGGTATTCAAATTCCAGAAAGGCGGATCATCT 28 7 0 ATAAAGCGGA 0.786269 -175 TCTTATACAGATTCGGGGGTAGGGGATCGCGGTCTT 29 105 1 ATGGGGGGGA 0.953651 -50 ** * ** ***** Masking position 2 Map Score: 7.47879 Number of sites scoring better than the average of aligned sites = 290 Number in coding regions = 263 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295