AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00770_ecoli_reg_300.orf -o00770_ecoli_300.ace -a/home/amcguire/genomes/ORF_ecoli.txt -z/home/amcguire/genomes/ecoli.fna -g0.51 -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 = 0.51 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 leuO 300 probable transcriptional activator for leuABCD operon #2 ilvI 227 acetolactate synthase III, valine sensitive, large subunit #3 yabB 300 orf, hypothetical protein #4 murC 53 L-alanine adding enzyme, UDP-N-acetyl-muramate:alanine ligase #5 ftsZ 60 cell division; forms circumferential ring; tubulin-like GTP-binding protein and GTPase #6 lpxC 100 UDP-3-O-acyl N-acetylglucosamine deacetylase; lipid A biosynthesis #7 panB 113 3-methyl-2-oxobutanoate hydroxymethyltransferase #8 yadC 49 putative fimbrial-like protein #9 yadK 26 putative fimbrial protein #10 htrE 34 probable outer membrane porin protein involved in fimbrial assembly #11 ecpD 97 probable pilin chaperone similar to PapD #12 yadN 300 putative fimbrial-like protein #13 rnc 271 RNase III, ds RNA #14 lepA 197 GTP-binding elongation factor, may be inner membrane protein #15 rseA 32 sigma-E factor, negative regulatory protein #16 rpoE 300 RNA polymerase, sigma-E factor; heat shock and oxidative stress #17 agaZ 248 putative tagatose 6-phosphate kinase 2 #18 ilvB 105 acetolactate synthase I,valine-sensitive, large subunit #19 ivbL 300 ilvB operon leader peptide #20 ilvL 300 ilvGEDA operon leader peptide #21 ilvG_1 139 acetolactate synthase II, large subunit, cryptic, interrupted #22 ilvM 300 acetolactate synthase II, valine insensitive, small subunit #23 ilvD 95 dihydroxyacid dehydratase #24 ilvC 149 ketol-acid reductoisomerase #25 coaA 186 pantothenate kinase Motif number 1 GAATAGCTGTAAGAAAAAATCCCTCATCGTCATC 3 98 0 AAAAAACCCT 0.918841 -203 AGGCATACCGAGGTAAAAAACCCGATGTTTACGG 3 186 0 AGAAAACCCG 0.976612 -115 ATTATTTATGAGATAAATCTCCCGTGGCTAACGA 13 55 1 AGAAACCCCG 0.987279 -217 TCCCGTGGCTAACGACATCCCCCGTCGTTGTGTA 13 74 1 AAACACCCCG 0.981608 -198 TTAGGTGGTGAAATAAAAAGGCCGTTGGGTTACT 16 51 1 AAAAAAGCCG 0.84736 -250 GAGGTGCTTAAACGAAAAACCCCGCCCGGTTTGC 18 48 0 AAAAAACCCG 0.982719 -58 AATTGCAGATAACAAAAAACCCCGCCGGAGCGAG 19 161 0 AAAAAACCCG 0.982719 -140 AGCCTTAACGAACTAAGACCCCCGCACCGAAAGG 21 17 1 AAAAGCCCCG 0.943422 -123 TTTTAAGGTCAAAAAAAACCCCCGGACCTTTCGG 21 43 0 AAAAACCCCG 0.99063 -97 GGAACGATACAGCGAAACCACCCTTACTGATAAC 22 77 1 AGAAACCCCT 0.939229 -224 CATCCATGGCCAACACATCACCCGGAAAGACCAG 22 143 1 CAACACCCCG 0.893819 -158 AGGGACAGCCCTCGATGTTGACGT 24 1 1 AGACACCTCG 0.832172 -149 GAGGAATAATAAGAAAAAATCTCTGCCAGGAAGC 25 57 0 AAAAAACTCT 0.58889 -130 ** *** * **** Masking position 5 Map Score: 13.6387 Number of sites scoring better than the average of aligned sites = 366 Number in coding regions = 275 Number in noncoding regions = 91 Number of orfs with sites within 600 bp upstream = 90 Fraction of orfs with sites within 600 bp upstream = 0.0144555 Motif number 2 CATTCAATAAAAAATGCAGAATAAACCAGA 2 40 0 AAAATGCAGA 0.69798 -188 GATATGTCCTAAAATGCCGCTCGCGTCGCA 3 17 1 AAAATGCCGC 0.977479 -284 GCTGTAAGAAAAAATCCCTCATCGTCATCA 3 97 0 AAAATCCCTC 0.635282 -204 TGTGACTGATAAAATGCCAGACAGCACAAC 7 73 1 AAAATGCCAG 0.687705 -41 CGGTAAACTGAAACTGCAGCGAAGCAGTTA 13 185 1 AAACTGCAGC 0.841317 -87 TTTGTTATGCAAAATGCAACAAAGCCAGTG 14 14 0 AAAATGCAAC 0.825635 -184 TGTATTAATAGAAACGCCGCATTCTACACT 14 107 0 GAAACGCCGC 0.94269 -91 TTGCTTGCTCAAATTGCAGCTAATGGAGTG 16 233 1 AAATTGCAGC 0.660301 -68 ACGCGCTATCGAAACGCCACTCCATTAGCT 16 250 0 GAAACGCCAC 0.810036 -51 ACACGATTCCAAAACCCCGCCGGCGCAAAC 18 24 1 AAAACCCCGC 0.968951 -82 GCTTAAACGAAAAACCCCGCCCGGTTTGCG 18 47 0 AAAACCCCGC 0.968951 -59 AAAACGCAAACTGTGATCGA 19 1 1 AAAACGCAAA 0.458213 -300 CAGATAACAAAAAACCCCGCCGGAGCGAGG 19 160 0 AAAACCCCGC 0.968951 -141 GATGCTCGCAAAAATGCAGCGGACAAAGGA 20 84 1 AAAATGCAGC 0.948094 -217 AGGTCAAAAAAAACCCCCGGACCTTTCGGT 21 42 0 AAACCCCCGG 0.639357 -98 ********** Masking position 3 Map Score: 12.0997 Number of sites scoring better than the average of aligned sites = 1805 Number in coding regions = 1558 Number in noncoding regions = 247 Number of orfs with sites within 600 bp upstream = 218 Fraction of orfs with sites within 600 bp upstream = 0.0350145 Motif number 3 GTCCTAAAATGCCGCTCGCGTCGCAAACTGA 3 22 1 GCCGCCGCGT 0.943711 -279 GATGATTACGGCCTCAGGCGACAGGCACAAA 5 27 1 GCCTCGGCGA 0.931665 -34 GATGTCGTTAGCCACGGGAGATTTATCTCAT 13 62 0 GCCACGGAGA 0.817133 -210 ATTCCAAAACCCCGCCGGCGCAAACCGGGCG 18 29 1 CCCGCGGCGC 0.991261 -77 CGTGTTCCGCGCAGAACGCGCAATTTCGGCA 19 64 0 GCAGACGCGC 0.761123 -237 GCGGTTACCAGCCGCAGGCGACTGACGAAAC 19 130 1 GCCGCGGCGA 0.992858 -171 AACAAAAAACCCCGCCGGAGCGAGGTTTCGT 19 154 0 CCCGCGGAGC 0.973811 -147 GGCCATGGATGCCGAAGGCGCTGGCTAACAT 22 123 0 GCCGAGGCGC 0.991714 -178 AGAACGTCTGGCCGCTGGTGCCGCCTGGCGC 22 250 1 GCCGCGGTGC 0.981673 -51 ATATCGCTTTGCCGATAGAGCTATGACCGCC 25 154 1 GCCGAAGAGC 0.814199 -33 ***** ***** Masking position 2 Map Score: 10.9921 Number of sites scoring better than the average of aligned sites = 1447 Number in coding regions = 1357 Number in noncoding regions = 90 Number of orfs with sites within 600 bp upstream = 46 Fraction of orfs with sites within 600 bp upstream = 0.00738837 Motif number 4 CGGTTGACATATTTCAGCATAAATTTTTGCATCTAAT 1 11 1 ATTTCCAAAT 0.973931 -290 CAAAACATATAATTCAATACAAATCATCAGGATAGGT 1 86 0 AATTCTAAAT 0.872979 -215 TCTTAACATTAATTGATCAATAATATTCACCAAATCA 1 139 0 AATTGCAAAT 0.771943 -162 TGACTCACTATTTTCCACAGCAAATATAAAGTGTCAG 3 49 0 TTTTCCAAAT 0.799023 -252 GCAAGGATATAATTCCGCAGGAAGCATAGC 10 15 1 AATTCCAAAT 0.945341 -20 ATGGTTGTAAATTTGGGTAACAAATATCATTGCTCAT 12 182 1 ATTTGTAAAT 0.743949 -119 TTAAATGGGCATTTCTACACAGATAATGCGATGTTCA 16 95 1 ATTTCCAGAT 0.854914 -206 AGAACGCGCAATTTCGGCACGAATTTTGACGTATTTA 19 46 0 ATTTCCAAAT 0.973931 -255 TGTTATCTGCAATTCAGTACAAAACGTGATCAACCCC 19 181 1 AATTCTAAAT 0.872979 -120 AAAAAATTCAATTTCAGTATGAATGTTGTTCCCTTCC 20 124 0 ATTTCTAAAT 0.936892 -177 GCGTTTAATAATTTCAATATAAATTGTTGTTTTTTAA 20 179 0 ATTTCTAAAT 0.936892 -122 GATAATTTCTCCAACATTTCTGAATTACTGG 22 280 0 ATTTCCAATT 0.799023 -21 GAATATATCAATTTCCGCAATAAATTTCCTGTCATAT 24 60 1 ATTTCCAAAT 0.97393 -90 ***** ** ** * Masking position 9 Map Score: 10.3547 Number of sites scoring better than the average of aligned sites = 95 Number in coding regions = 75 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912 Motif number 5 CATCTAATCAACGAGGAAAAAGGGGACAAAATGCACGCG 1 40 1 AGAAGGGGAA 0.975561 -261 ATACTCAATCATCTACAAAATGGATTAAATGTGCTTATT 1 208 0 ACAAGGATAA 0.783315 -93 GATAAAATCCTCCATTACAGAGGATTAAATTGATAATAA 2 159 0 TCAAGGATAA 0.514084 -69 GGGGTAATAAGAATAAACAGGAGGAAAGGTGAAAAGA 2 201 0 AGAAGGAGAA 0.949623 -27 TGGGAAATTGTGGGGCAAAGTGGGAATAAGGGGTGAGGC 3 268 1 TGAAGGGAAA 0.879506 -33 CTCAGGCGACAGGCACAAATCGGAGAGAAACT 5 39 1 AGAAGGAGAA 0.949623 -22 CCATAACAATAAAGAAACATTGGAGTAAAA 8 30 1 AAAAGGAGAA 0.860685 -20 AATTGATTGAATGAATATACAGGGAATAATAATTTCTAT 11 25 1 AGAAGGGAAA 0.961451 -73 CTGATAGAGTTAATTAAAACAGGGAATAATATAAAATAG 11 60 0 TAAAGGGAAA 0.70521 -38 GTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCG 13 160 0 ACAAGGGAAA 0.954362 -112 ATACAAGCACAGCTTTACAGGGGAGACAATGGAAAATTT 19 237 0 ACAAGGAGAA 0.940494 -64 GCTGGCTAACATGAGGAAATCGGGGTTATCAGTAAGGGT 22 96 0 AGAAGGGGAT 0.797116 -205 CCCATTTACGAGACAGACACTGGGAGTAAATAAAGTATG 23 39 1 AAAAGGGAAA 0.890997 -57 GCAGGAGGGTAACACCAGATGGGGAGGAATAATAAGAAA 25 75 0 ACAAGGGAAA 0.954362 -112 * * * * **** ** Masking position 9 Map Score: 10.5451 Number of sites scoring better than the average of aligned sites = 126 Number in coding regions = 91 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 47 Fraction of orfs with sites within 600 bp upstream = 0.00754899 Motif number 6 CGAGGAAAAAGGGGACAAAATGCACGCGTTGC 1 51 1 GGGGACAATG 0.969508 -250 TAGGTAATTTGGCGAGATAATACG 6 87 1 GGCGAGAATA 0.909386 -14 GTGCACAATAGGCGACCTAATGAACAATGGTT 12 156 1 GGCGACAATG 0.988995 -145 TCGCCATAACGGCGACAACGTGAACGAAGATG 13 15 0 GGCGACCGTG 0.966463 -257 TCGCCGTTATGGCGACAACGTGAATTATTTAT 13 32 1 GGCGACCGTG 0.966463 -240 ACAACATTGAGGCGAGGAAATGTTCATACCGT 14 75 0 GGCGAGAATG 0.988995 -123 AGGGCGGCGAGAAAAAGAGAAGTTACT 16 6 1 GGCGAGAAAG 0.941539 -295 CAGCTTTACAGGGGAGACAATGGAAAATTTTT 19 235 0 GGGGAGAATG 0.969508 -66 ****** **** Masking position 5 Map Score: 7.48986 Number of sites scoring better than the average of aligned sites = 71 Number in coding regions = 65 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701 Motif number 7 CAGACATGAATGTCTGGTTTATTCTGCATT 2 28 1 TGTCTGGTTT 0.647327 -200 ATGTGTGGGCTCTCTATTTTAGGATTAATT 2 86 1 TCTCTATTTT 0.626313 -142 TACAGCAATTTCTCTATTTTTTTAATTAAT 2 109 0 TCTCTATTTT 0.626313 -119 ATATCAGCGTTGTTTATTTTACGTCCAACG 3 153 0 TGTTTATTTT 0.613366 -148 CTCCAATGTTTCTTTATTGTTATGGTTTGC 8 25 0 TCTTTATTGT 0.458874 -25 GGACCAACGCTGTTTCGTGTGCCGTGGCAA 13 147 0 TGTTTCGTGT 0.877629 -125 ATATCAGGTCTGTTTCGTGTGCTGAATTGT 13 227 1 TGTTTCGTGT 0.877629 -45 AGGGTTAGAGTGTCTCGTTTTTGTAAAGTT 16 203 0 TGTCTCGTTT 0.934102 -98 CTTTCGTAAAACTTTCGTTTCATTTCGTTT 17 19 1 ACTTTCGTTT 0.772569 -230 GACGCAAGCTACTCTCGTTTCAGTGACTTT 17 99 1 ACTCTCGTTT 0.755482 -150 ACTTTCATTATGTTTCTTTTGTGAATCAGA 17 124 1 TGTTTCTTTT 0.846604 -125 AAAACCATTATCTTTCGTTTTATTTTTATC 17 158 1 TCTTTCGTTT 0.94765 -91 GCGATATTAATCTTTCGTTTTGTTTCAGTT 17 206 0 TCTTTCGTTT 0.94765 -43 CCGGGCGGGGTTTTTCGTTTAAGCACCTCC 18 53 1 TTTTTCGTTT 0.669036 -53 ********** Masking position 5 Map Score: 6.86754 Number of sites scoring better than the average of aligned sites = 212 Number in coding regions = 149 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 65 Fraction of orfs with sites within 600 bp upstream = 0.0104401 Motif number 8 CACAATTTCCCACTGAAAGGAGTTTACGGA 3 250 0 CACTGAAAGG 0.617216 -51 TCCGTAGCAGCACTGCCAGAAGGTGACAGT 7 23 0 CACTGCCAGA 0.958386 -91 TTAAGGTTGGCACCTCCAGGTTGCCACGGC 13 127 1 CACCTCCAGG 0.970643 -145 AAACGAAAAACCCCGCCCGGTTTGCGCCGG 18 43 0 CCCCGCCCGG 0.978309 -63 TTCGTTTAAGCACCTCCCGGAAAGTCGGCC 18 66 1 CACCTCCCGG 0.94173 -40 TAACAAAAAACCCCGCCGGAGCGAGGTTTC 19 156 0 CCCCGCCGGA 0.913484 -145 AGCATCATTCCACCGCCAGAACAACTCAAC 20 60 0 CACCGCCAGA 0.987897 -241 AAGACCCCCGCACCGAAAGGTCCGGGGGTT 21 31 1 CACCGAAAGG 0.851089 -109 AAGAAAAAATCTCTGCCAGGAAGCTATCGT 25 51 0 CTCTGCCAGG 0.906254 -136 ATAGAGCTATGACCGCCAGAAACATGCTT 25 168 1 GACCGCCAGA 0.913564 -19 ********** Masking position 3 Map Score: 6.84936 Number of sites scoring better than the average of aligned sites = 1502 Number in coding regions = 1411 Number in noncoding regions = 91 Number of orfs with sites within 600 bp upstream = 88 Fraction of orfs with sites within 600 bp upstream = 0.0141343 Motif number 9 CGTAGCAGCACTGTCACCTTCTGGCAGTGC 7 14 1 CTGTCACCTT 0.842665 -100 GGCATTTTATCAGTCACATTGGTGGGGGCA 7 61 0 CAGTCACATT 0.888649 -53 GCAAGCCCACCTTGCCCATTGACGCAAGCT 17 79 1 CTTGCCCATT 0.805546 -170 ACGGTGCGTGCCGTCCCATTTTTTGTAT 23 9 0 CCGTCCCATT 0.985088 -87 ACGGCACGCACCGTCCCATTTACGAGACAG 23 25 1 CCGTCCCATT 0.985088 -71 TATATTCACAACGTCACATTGCAATTTTTG 24 37 0 ACGTCACATT 0.823032 -113 GATGGAATATCTGTCACATTGCTTTTCAAC 25 23 1 CTGTCACATT 0.952752 -164 GTGTTACCCTCCTGCCCATTAACCCATTCA 25 99 1 CCTGCCCATT 0.895353 -88 ********** Masking position 9 Map Score: 3.79202 Number of sites scoring better than the average of aligned sites = 94 Number in coding regions = 80 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 10 TTTTTGATATTGATTTGGTGAATATTATTG 1 129 1 TGATTTGGTG 0.774171 -172 TAATCCATAATGTTTTTGTTGCGAAAACAA 1 267 0 TGTTTTTGTT 0.857942 -34 CCTGATAAATTGATGTTGTGCTGTCTGGCA 7 87 0 TGATGTTGTG 0.938924 -27 TGGTTTGCGCTGTTTTTGTTTG 8 3 0 TGTTTTTGTT 0.857942 -47 TTTCACTGGCTTTGTTGCATTTTGCA 14 7 1 TGGCTTTGTT 0.736779 -191 CTCGCCTCAATGTTGTAGTGTAGAATGCGG 14 91 1 TGTTGTAGTG 0.683855 -107 GTAACGCATCTGTTTTTGTTTGTCATGCTG 16 171 0 TGTTTTTGTT 0.857942 -130 CGAAAGATAATGGTTTTCTGATCTGATTCA 17 145 0 TGGTTTTCTG 0.698629 -104 GGGACCTTGTTGGTTTTGTGTTTAACAATA 19 279 0 TGGTTTTGTG 0.95204 -22 AATTGCAATGTGACGTTGTGAATATATCAA 24 41 1 TGACGTTGTG 0.855074 -109 TGATTCCTCGTGATGTTGTGCTTCTTATTG 24 128 0 TGATGTTGTG 0.938924 -22 ********** Masking position 6 Map Score: 4.70083 Number of sites scoring better than the average of aligned sites = 215 Number in coding regions = 184 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 36 Fraction of orfs with sites within 600 bp upstream = 0.0057822 Motif number 11 ATTGAATTATATGTTTTGCGATTTTTTTTG 1 105 1 ATGTTTTGCG 0.614657 -196 ATATAAAGTGTCAGTTTGCGACGCGAGCGG 3 33 0 TCAGTTTGCG 0.901104 -268 CTTTATTGTTATGGTTTGCGCTGTTTTTGT 8 14 0 ATGGTTTGCG 0.948072 -36 ACAAGTGCAATTGGTTAGGGTATGGAGATG 12 67 0 TTGGTTAGGG 0.847884 -234 GCGTGGAAATTTGGTTTGGGGAGACTTTAC 16 276 1 TTGGTTTGGG 0.938369 -25 AAAACCCCGCCCGGTTTGCGCCGGCGGGGT 18 37 0 CCGGTTTGCG 0.950672 -69 AGTATCGATCACAGTTTGCGTTTT 19 5 0 ACAGTTTGCG 0.880891 -296 CCCGGACCTTTCGGTGCGGGGGTCTTAGTT 21 27 0 TCGGTGCGGG 0.808185 -113 TCGATAACCAACGGTTAGGGATGGTTCGAC 22 25 1 ACGGTTAGGG 0.913804 -276 TTCTTATTGTTCGGTTCGCGTTTGCGAGAT 24 107 0 TCGGTTCGCG 0.967582 -43 ********** Masking position 5 Map Score: 4.36286 Number of sites scoring better than the average of aligned sites = 567 Number in coding regions = 541 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 12 CAGCATAAATTTTTGCATCTAATCAACGAG 1 25 1 TTTTGCATCT 0.951901 -276 TCAGGATAGGTTTTGCAACGCGTGCATTTT 1 67 0 TTTTGCAACG 0.9686 -234 TAGCGATGCCTTTTGCATCGTATGAATTTA 4 14 1 TTTTGCATCG 0.978057 -40 TTTGTCTTTTCTTGCATCTTGTTCGAAGG 20 282 0 TCTTGCATCT 0.899161 -19 ACATTGCAATTTTTGCAACGTCAACATCGA 24 22 0 TTTTGCAACG 0.9686 -128 ********** Masking position 4 Map Score: 2.04348 Number of sites scoring better than the average of aligned sites = 59 Number in coding regions = 50 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 12 Fraction of orfs with sites within 600 bp upstream = 0.0019274 Motif number 13 TGATTTGTATTGAATTATATGTTTTGCGAT 1 97 1 TGAATTATAT 0.549602 -204 ATTGATTTGGTGAATATTATTGATCAATTA 1 137 1 TGAATATTAT 0.620817 -164 AAAACATTATGGATTATTATGCTGTGGTAA 1 281 1 GGATTATTAT 0.725542 -20 TGTGCTGTCTGGCATTTTATCAGTCACATT 7 71 0 GGCATTTTAT 0.637975 -43 TACAGATTCAGGAACTATAT 9 17 1 GGAACTATAT 0.769719 -10 TGCTTCCTGCGGAATTATATCCTTGCCTGA 10 11 0 GGAATTATAT 0.906055 -24 GAATATACAGGGAATAATAATTTCTATTTT 11 37 1 GGAATAATAA 0.695295 -61 ATTAAAACAGGGAATAATATAAAATAGAAA 11 57 0 GGAATAATAT 0.917848 -41 TCTGACTAATGGAATTTTATTAAAGGATTT 12 279 1 GGAATTTTAT 0.917849 -22 AAACTTCGGGGGAATATTCTATACACAACG 13 99 0 GGAATATTCT 0.670581 -173 TGCTGTAGACGGATCATTATCTATCATTAT 16 146 0 GGATCATTAT 0.478139 -155 CTATATGACAGGAAATTTATTGCGGAAATT 24 69 0 GGAAATTTAT 0.586716 -81 CAGATGGGGAGGAATAATAAGAAAAAATCT 25 69 0 GGAATAATAA 0.695295 -118 ********** Masking position 8 Map Score: 2.30727 Number of sites scoring better than the average of aligned sites = 157 Number in coding regions = 138 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 14 TGTCCCCTTTTTCCTCGTTGATTAGATGCAA 1 37 0 TTCCTCGTGA 0.886486 -264 TAAGAAAAAATCCCTCATCGTCATCACCGTT 3 92 0 TCCCTCATGT 0.885305 -209 GCTAACGACATCCCCCGTCGTTGTGTATAGA 13 81 1 TCCCCCGTGT 0.985455 -191 TATAGAATATTCCCCCGAAGTTTAAGGTTGG 13 106 1 TCCCCCGAGT 0.961244 -166 TGTTGTTCCCTTCCTCGTAGTTCATCCTTTG 20 107 0 TTCCTCGTGT 0.977567 -194 AGTTAGTTCCCCGTCCTGAATCTTGAG 21 123 0 TTCCCCGTCT 0.891442 -17 AGGGACAGCCCTCGATGTTGACGTTGCA 24 8 1 GCCCTCGAGT 0.870483 -142 GGTGATTCCTCGTGATGTTGTGCTTC 24 134 0 TTCCTCGTAT 0.849681 -16 ******** ** Masking position 6 Map Score: 1.98239 Number of sites scoring better than the average of aligned sites = 97 Number in coding regions = 83 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 15 AAACCATCCCTGATAGAGTT 11 88 0 AAACCATCCC 0.726972 -10 ATTTTTGCGAGCATCATTCCACCGCCAGAA 20 69 0 GCATCATTCC 0.807465 -232 TGCCATTGTCGAACCATCCCTAACCGTTGG 22 32 0 GAACCATCCC 0.953547 -269 TGGTTTCGCTGTATCGTTCCTGAAAAAACA 22 67 0 GTATCGTTCC 0.889084 -234 GGGACGGTGCGTGCCGTCCCATTTTTTGTA 23 12 0 GTGCCGTCCC 0.949152 -84 GGGACGGCACGCACCGTCCCATTTACGAGA 23 22 1 GCACCGTCCC 0.984946 -74 GTATGCCTAAGTACCGTTCCGCCACCACCA 23 73 1 GTACCGTTCC 0.967011 -23 ********** Masking position 7 Map Score: 1.17186 Number of sites scoring better than the average of aligned sites = 190 Number in coding regions = 171 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925