AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00550_bsub_reg_100.orf -o00550_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 ybaK 185 alternate gene name: ybxH #2 cwlD 59 N-acetylmuramoyl-L-alanine amidase #3 ddlA 174 D-alanyl-D-alanine ligase A #4 murF 71 UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6- diaminopimelate-D-alanyl-D-alanyl ligase #5 xkdV 270 PBSX prophage #6 xkdY 43 lytic exoenzyme associated with defective prophage PBSX #7 xhlA 52 xhlA #8 murE 175 UDP-N-acetylmuramoylananine-D-glutamate-2,6- diaminopimelate ligase #9 mraY 112 phospho-N-acetylmuramoyl-pentapeptide transferase #10 murG 122 UDP-N-acetylglucosamine-N-acetylmuramyl- (pentapeptide)pyrophosphoryl-undecaprenol N-acetylglucosamine transferase #11 cwlC 300 N-acetylmuramoyl-L-alanine amidase #12 glnR 110 transcriptional regulator #13 glnA 60 glutamine synthetase #14 yqeE 186 similar to N-acetylmuramoyl-L-alanine amidase #15 cwlA 44 N-acetylmuramoyl-L-alanine amidase #16 yqxH 44 alternate gene name: yqdD; similar to holin #17 yqxG 87 alternate gene name: yqdC; similar to phage-related lytic exoenzyme #18 yqbO 181 similar to phage-related protein #19 yrvJ 132 similar to N-acetylmuramoyl-L-alanine amidase #20 murC 249 UDP-N-acetyl muramate-alanine ligase #21 yubB 92 similar to bacitracin resistance protein (undecaprenol kinase) #22 yubA 181 similar to hypothetical proteins #23 lytC 38 N-acetylmuramoyl-L-alanine amidase (major autolysin) (CWBP49) #24 lytB 23 modifier protein of major autolysin LytC (CWBP76) #25 lytA 183 membrane bound lipoprotein Motif number 1 TTACCGGCAGTGTCCTTCTTCA 4 3 0 TGTCCTTCTT 0.699923 -69 CTTCATCCTCCTTTGATCTAAAA 6 31 0 CATCCTCCTT 0.830938 -13 CACATGCAGATCACCTCCCTTCCGAGGGCC 7 18 0 TCACCTCCCT 0.941254 -35 CTCTCACTCCTCCTTCACATGCAGA 7 38 0 ACTCCTCCTT 0.963421 -15 TGTCCTTTTCTCCTCCTGTTTCTTTCAA 9 95 0 TCTCCTCCTG 0.963563 -18 TGAAAGGAGCTTTCCTCATCAATTTACGTT 11 17 1 TTTCCTCATC 0.785619 -284 GAAAGGGTTATTTCCTCATTTTTCAGTTGA 11 222 1 TTTCCTCATT 0.90971 -79 TTTTCATCACCTCATTACAGGATATG 11 285 0 TCACCTCATT 0.897241 -16 CTCAATTTCCTCCTTTTCTTAACTT 12 96 0 TTTCCTCCTT 0.983033 -15 TTGGTAAAATTCCTCCTCTTAAAAGGTA 13 43 0 ATTCCTCCTC 0.839753 -18 ATACCCTCTCTCCTTCTGTCAGTAAGAT 15 27 0 TCTCCTTCTG 0.685342 -18 TCTAATCACCTCCTCCGAGGCAAAT 16 30 0 TCACCTCCTC 0.948083 -15 TACAACGGAACCACCTCCTTTAAGGAAAAA 17 21 0 CCACCTCCTT 0.930934 -67 AATAAATCCTCCTTGCTATTGTAG 17 74 0 AATCCTCCTT 0.819918 -14 AGTTAATTACCTCCCTTCTTCGCTTC 18 166 0 TTACCTCCCT 0.897593 -16 TGTGTCCTCCTTTCTGATGATC 19 121 0 TGTCCTCCTT 0.965893 -12 TTGATTTCCTCCTTAAATGGCGTT 23 25 0 TTTCCTCCTT 0.983033 -14 AATTTCAGGTTCCTCCCTATATC 24 6 0 GTTCCTCCCT 0.729508 -18 TTTTTTCACCTCATTATATTTTATC 25 169 0 TCACCTCATT 0.897241 -15 ********** Masking position 6 Map Score: 24.7904 Number of sites scoring better than the average of aligned sites = 768 Number in coding regions = 380 Number in noncoding regions = 388 Number of orfs with sites within 600 bp upstream = 460 Fraction of orfs with sites within 600 bp upstream = 0.0738837 Motif number 2 CTGTAATTGGTTATGAAAAAAGCAGCCCCTCT 1 27 0 TATGAAAAAG 0.898294 -159 GGTGTAACATTGATAAAAAATCAGCTTTCTGC 1 78 0 TATAAAAAAC 0.82275 -108 AAAACAGGCAAAATAAAAAAGCC 6 2 0 AATAAAAAAC 0.920855 -42 TCCTCCTTTGATCTAAAAACAGGCAAAATAAA 6 17 0 ACTAAAAACG 0.827655 -27 ATTTTTTTCCATATGAAAAATCTTTTTCAAGC 9 36 0 AATGAAAAAC 0.897026 -77 ATACGGTCCGACATGAAATCTGTGCATACGCC 11 135 0 AATGAAATCG 0.695735 -166 ATTATCATTCAACTGAAAAATGAGGAAATAAC 11 228 0 ACTGAAAAAG 0.882715 -73 TCATTACAGGATATGAAAAAACACGGCTTCTG 11 268 0 AATGAAAAAC 0.897026 -33 CTTTTTTACCTCATAAAAAAGGCTGTCCATCT 14 126 1 TATAAAAAAG 0.921855 -61 TCTGTCAGTAAGATAAAAAAAGCCACTGGC 15 9 0 AATAAAAAAG 0.967288 -36 CCTCCGAGGCAAATAAAAAAGGACAGCCGGAT 16 12 0 AATAAAAAAG 0.967288 -33 CTTTAAGGAAAAATAAAAAAGCC 17 2 0 AATAAAAAAC 0.920855 -86 TAACAGCTCAAGCTTAAAACCGATTAATCCAT 18 128 0 ACTTAAAACG 0.495164 -54 TTTCTGATGATCATTAAAAAAGCATTCTTGTT 19 101 0 TATTAAAAAG 0.706693 -32 ATAACAAAACATATAAAATACGCCGCTAAGGG 20 146 1 AATAAAATAG 0.864735 -104 CTATAATGAAAAATAAAAACCGTTAATTGCTG 22 111 0 AATAAAAACG 0.93389 -71 AAACTTTTTTTTATAAAAAACGACTATTTTAG 25 95 0 TATAAAAAAG 0.921855 -89 TTTCTTTAAAATATAAAATAGGTTGACGATAA 25 142 1 AATAAAATAG 0.864735 -42 * ******** * Masking position 4 Map Score: 19.2052 Number of sites scoring better than the average of aligned sites = 991 Number in coding regions = 751 Number in noncoding regions = 240 Number of orfs with sites within 600 bp upstream = 267 Fraction of orfs with sites within 600 bp upstream = 0.0428847 Motif number 3 TGCAGGGTGAGGAACAAATGTTCTGTAATT 1 51 0 GGAACAAATG 0.580931 -135 CAAAATAATCGGTAAAAGGAGAGTGAATTT 1 164 1 GGTAAAAGGA 0.790417 -22 ATCATTTTCCGGTGAAAATGATAAGATAGT 3 104 1 GGTGAAAATG 0.946297 -71 GGACACTGCCGGTAAAAGGGCAGTGTTTTT 4 18 1 GGTAAAAGGG 0.949858 -54 AGAAACAGGAGGAGAAAAGGACA 9 100 1 GGAGAAAAGG 0.956903 -13 TTAGACTGGGGGAAAAAAGAA 10 112 1 GGAAAAAAGA 0.703939 -11 AATTTCTGGATGTGAAAGGGTTATTTCCTC 11 209 1 TGTGAAAGGG 0.816712 -92 CCTCTTAAAAGGTAAAAATGTATATAGCAA 13 27 0 GGTAAAAATG 0.904563 -34 TTTTTTATGAGGTAAAAAAGAATTGTGTTC 14 116 0 GGTAAAAAAG 0.835524 -71 ACTGACAGAAGGAGAGAGGGTAT 15 32 1 GGAGAGAGGG 0.720005 -13 CCATGTTTGGTGTGAAAATGAACCCATA 20 9 0 TGTGAAAATG 0.690352 -241 TAACAGACGAGGTGCAAAGG 25 1 0 GGTGCAAAGG 0.938089 -183 AATATAATGAGGTGAAAAAA 25 174 1 GGTGAAAAAA 0.652805 -10 ********** Masking position 7 Map Score: 7.97642 Number of sites scoring better than the average of aligned sites = 975 Number in coding regions = 837 Number in noncoding regions = 138 Number of orfs with sites within 600 bp upstream = 150 Fraction of orfs with sites within 600 bp upstream = 0.0240925 Motif number 4 CTTTTACCGATTATTTTGAGGTTTGGATGATGAAA 1 147 0 TTTTTAGTTG 0.721076 -39 GTAATTCCTTTTTATTTTATATTAAAATGGCATTG 3 28 0 TATTTATTAA 0.682385 -147 AATAATTAGATCATTTTCCGGTGAAAATGATAAGA 3 95 1 TTTTTCGTAA 0.926203 -80 TGATCGATTCTGCTTTTTAGATCAGCGCTGTGCGT 5 30 0 TTTTTAGTAG 0.881709 -241 AACAGAACACTCGATTTCAGATTTACTTTTGAGGT 5 237 1 TATTTAGTTA 0.78549 -34 TTTATTTTGCCTGTTTTTAGATCAAAGGAGGATGA 6 17 1 CTTTTAGTAA 0.776292 -27 GATGTATCCTTTTATTTACGCTAAAATATGAACTG 8 69 1 TATTTCGTAA 0.881697 -107 GCTTTCCTCATCAATTTACGTTTTAAATGCTTGAT 11 25 1 TATTTCGTTA 0.721053 -276 TTTTAAATGCTTGATTTAATATGAACGCAAAGCTT 11 45 1 TATTTATTAA 0.682385 -256 TGATTCCTGCTGGTTTTAAGCTTTGCGTTCATATT 11 62 0 TTTTTAGTTG 0.721076 -239 GTTATTTCCTCATTTTTCAGTTGAATGATAATCGT 11 228 1 CTTTTAGTAA 0.776303 -73 AAATTTCTCCTGGATTTGATGTTAAGAATCCTTAC 12 20 1 TATTTATTAA 0.693486 -91 GTTCTTAACCTGGTTTTCAGTTGAACAGCTGAAAT 14 85 0 TTTTTAGTAA 0.946761 -102 TGGACAGCCTTTTTTATGAGGTAAAAAAGAATTGT 14 120 0 TTTATAGTAA 0.691687 -67 CCTTTTTGATTGTATTTACGCTTAGTATAAACAAA 19 21 1 TATTTCGTAG 0.75751 -112 ACAAATCATTTTATTTTTATTTAAAAATCAGAAAG 19 51 1 TTTTTATTAA 0.792101 -82 TATCAGGTTATTTCTTTCCGATTAAACCCAGATAT 20 105 0 TCTTTCGTAA 0.664377 -145 GTGATTTTGTTCTTTTTAAGCTATAATTTAGCTAT 22 34 0 TTTTTAGTTA 0.860486 -148 TAAATTACTTTCATTATGAGTTAAATTTCCAATAA 25 29 1 TTTATAGTAA 0.691693 -155 CATTGTTTCTTAATTTTTCTTTAAAATATAAAATA 25 127 1 TTTTTCTTAA 0.728926 -57 * **** ** * ** Masking position 7 Map Score: 16.092 Number of sites scoring better than the average of aligned sites = 569 Number in coding regions = 458 Number in noncoding regions = 111 Number of orfs with sites within 600 bp upstream = 130 Fraction of orfs with sites within 600 bp upstream = 0.0208802 Motif number 5 GTTAGAGGGGCTGCTTTTTTCATAACCAAT 1 24 1 CTGCTTTTTT 0.9468 -162 CTGCAGAAAGCTGATTTTTTATCAATGTTA 1 76 1 CTGATTTTTT 0.936457 -110 GTGATCGATTCTGCTTTTTAGATCAGCGCT 5 36 0 CTGCTTTTTA 0.815354 -235 TCTACTATTTCTGTTTTTTGGCCGTTGAGC 5 71 0 CTGTTTTTTG 0.791081 -200 TATCATATTCATGATTTTTTTCCATATGAA 9 51 0 ATGATTTTTT 0.826191 -62 TTTTCTCCTCCTGTTTCTTTCAAACGACAT 9 88 0 CTGTTTCTTT 0.757102 -25 AACGATAACCCTGTTTTGTTGGACAGGGTT 10 67 0 CTGTTTTGTT 0.937252 -56 CCGTTAGCAACTGTTTTGCTATATACATTT 13 12 1 CTGTTTTGCT 0.719432 -49 TAAAAATAAAATGATTTGTTTATACTAAGC 19 40 0 ATGATTTGTT 0.796353 -93 AAAGTCCTTTCTGATTTTTAAATAAAAATA 19 62 0 CTGATTTTTA 0.785254 -71 TTAAACAAGAATGCTTTTTTAATGATCATC 19 98 1 ATGCTTTTTT 0.851637 -35 CGTATTTTATATGTTTTGTTATGTTTAGTA 20 138 0 ATGTTTTGTT 0.828113 -112 ********** Masking position 5 Map Score: 7.91249 Number of sites scoring better than the average of aligned sites = 566 Number in coding regions = 431 Number in noncoding regions = 135 Number of orfs with sites within 600 bp upstream = 129 Fraction of orfs with sites within 600 bp upstream = 0.0207196 Motif number 6 AAAAAAGCAGCCCCTCTAACAGGTCGCTGCT 1 13 0 CCCCTCTACA 0.916211 -173 ATTTCCCGACCCTGTCCCATAGTTATGTAAT 2 15 1 CCTGTCCATA 0.948112 -45 TCCCCTCCCGCTTGTCCGTTATTACATAACT 2 35 0 CTTGTCCTTA 0.829374 -25 CTCTCACTCCTCCTTCACATGCAGATC 7 36 0 CTCCTCCTCA 0.78925 -17 TTCCAAGCCTCCTGTCTAACATGAAGCTTGG 10 20 1 CCTGTCTACA 0.948112 -103 ATGCGATAACCCTGTCCAACAAAACAGGGTT 10 60 1 CCTGTCCACA 0.959224 -63 CCTCTTTGTCCCCGTCTTTTA 18 1 0 CCCGTCTTTA 0.957687 -181 AAATGGAAAGCCCGTCTTATATAACTATAAA 21 17 0 CCCGTCTATA 0.965379 -76 CCTTTGCACCTCGTCTGTTAAATTACTTTC 25 10 1 CTCGTCTTTA 0.881204 -174 ******* *** Masking position 5 Map Score: 4.96448 Number of sites scoring better than the average of aligned sites = 218 Number in coding regions = 180 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 7 GGCATTGAAAAGGAGATGTGACAT 3 4 0 AGGAGATGTA 0.980153 -171 TTTACTTTTGAGGTGGTGTAAAC 5 258 1 AGGTGGTGTA 0.977413 -13 CTGCATGTGAAGGAGGAGTGAGAG 7 39 1 AGGAGGAGTA 0.873408 -14 GAAAGAGATGTTACTGAATAATG 9 3 1 AAGAGATGTA 0.864973 -110 TCCTGTAATGAGGTGATGAAAA 11 289 1 AGGTGATGAA 0.930317 -12 GTTTCATTATAGGTGATGTTATATTATGTGT 12 64 0 AGGTGATGTA 0.984688 -47 CTCCCAACTTAGGTGATGTCAGGAGTCAAAA 14 22 1 AGGTGATGTA 0.984688 -165 ********* * Masking position 1 Map Score: 6.96062 Number of sites scoring better than the average of aligned sites = 53 Number in coding regions = 32 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 8 TATACAGAGAACGCACAGCGCTGATCTAAA 5 20 1 ACGCACAGCG 0.884579 -251 CAATAAAAGAATAGGCAGCCCGAA 8 5 0 ATAGGCAGCC 0.738805 -171 TTTAATATGAACGCAAAGCTTAAAACCAGC 11 59 1 ACGCAAAGCT 0.847927 -242 CATATGGCGTATGCACAGATTTCATGTCGG 11 130 1 ATGCACAGAT 0.746535 -171 AAACAGAGAGATGGACAGCCTTTTTTATGA 14 136 0 ATGGACAGCC 0.983341 -51 GCAAATAAAAAAGGACAGCCGGATC 16 6 0 AAGGACAGCC 0.924554 -39 AGATTTGTCTATGCACAGCTGCTGTAAAGC 20 73 0 ATGCACAGCT 0.967787 -177 CTTCCCATAAATGGAAAGCCCGTCTTATAT 21 26 0 ATGGAAAGCC 0.950849 -67 CTTTCCATTTATGGGAAGCTCCCGTTATGT 21 38 1 ATGGGAAGCT 0.856357 -55 ********** Masking position 7 Map Score: 3.21649 Number of sites scoring better than the average of aligned sites = 567 Number in coding regions = 514 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 9 TGTTTCATCATCCAAACCTCAAAATAATCG 1 145 1 TCCAAACCTC 0.984204 -41 CGAATGTATTTCCAAGCCTCCTGTCTAACA 10 11 1 TCCAAGCCTC 0.992927 -112 ATCAATTGTTTCCAAGCTTCATGTTAGACA 10 32 0 TCCAAGCTTC 0.964159 -91 ATGTCAGGAGTCAAAACCTCCGTCATCTAA 14 37 1 TCAAAACCTC 0.940056 -150 TTGAATGCTTTCGGAGCCTCATATAGTTCT 18 87 0 TCGGAGCCTC 0.959335 -95 ********** Masking position 5 Map Score: 1.68147 Number of sites scoring better than the average of aligned sites = 37 Number in coding regions = 27 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 10 GGGGCTGCTTTTTTCATAACCAATTACAGA 1 30 1 TTTTCATAAC 0.64695 -156 TTCATAACCAATTACAGAACATTTGTTCCT 1 42 1 ATTACAGAAC 0.902809 -144 CTTGTCCGTTATTACATAACTATGGGACAG 2 26 0 ATTACATAAC 0.942524 -34 GACGTCAGCGAAAACAGAACACTCGATTTC 5 225 1 AAAACAGAAC 0.772758 -46 AAGTTTCTCTATAACATAACGATAACCCTG 10 84 0 ATAACATAAC 0.942541 -39 GACACATAATATAACATCACCTATAATGAA 12 63 1 ATAACATCAC 0.813328 -48 AACCTGATACTAAACATAACAAAACATATA 20 131 1 TAAACATAAC 0.78918 -119 CATTTATTTTTTTACATAACGGGAGCTTCC 21 51 0 TTTACATAAC 0.910899 -42 ********** Masking position 6 Map Score: 1.52777 Number of sites scoring better than the average of aligned sites = 53 Number in coding regions = 36 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 11 AAAGCAGCGACCTGTTAGAG 1 1 1 AAAGCAGCGA 0.940476 -185 CATTGATAAAAAATCAGCTTTCTGCAGGGT 1 73 0 AAATCAGCTT 0.69383 -113 ATAATCGGTAAAAGGAGAGTGAATTTAT 1 168 1 AAAGGAGAGT 0.870262 -18 GTTACTGAATAATGGAGCTTGAAAAAGATT 9 20 1 AATGGAGCTT 0.80798 -93 CTTTAATGAAAGGAGCTTTCCTCATCAA 11 9 1 AAAGGAGCTT 0.959151 -292 GCTGTTAGAAAAAGAAGCGAAGAAGGGAGG 18 153 1 AAAGAAGCGA 0.852782 -29 TCGCAAATTGAAATGAGCGTCATATACTGG 20 198 1 AAATGAGCGT 0.932154 -52 ATATCATGCAAAAGGAGCGATACGA 22 6 0 AAAGGAGCGA 0.973988 -176 ********** Masking position 6 Map Score: 4.17551 Number of sites scoring better than the average of aligned sites = 301 Number in coding regions = 235 Number in noncoding regions = 66 Number of orfs with sites within 600 bp upstream = 75 Fraction of orfs with sites within 600 bp upstream = 0.0120463 Motif number 12 AGCTTTCTGCAGGGTGAGGAACAAATGTTCTGT 1 55 0 AGTGAGGAAA 0.963554 -131 ATAACGGACAAGCGGGAGGGGAAGGG 2 44 1 AGGGAGGGGA 0.972482 -16 GATGAATTGTAGTGGGGGGAGTATCCATTGAAA 3 137 1 AGGGGGGAGA 0.972482 -38 GTTCTGACAAAACGTGAGGAAGACATCAAGCAT 5 129 1 AGTGAGGAAA 0.963554 -142 GTTTGAAAGAAACAGGAGGAGAAAAGGACA 9 93 1 AAGGAGGAGA 0.847498 -20 AGAGAAACTTAGACTGGGGGAAAAAAGAA 10 104 1 ACTGGGGGAA 0.8642 -19 ATTCTTATTAATAGGGAGGGATAGAA 14 171 1 AGGGAGGGAA 0.977192 -16 TGAGCGTCATATACTGGGGAACAGATAGACGTT 20 211 1 ACTGGGGAAA 0.885258 -39 GATATAGGGAGGAACCTGAAATT 24 4 1 AGGGAGGAAC 0.923873 -20 * ******** * Masking position 1 Map Score: 4.21268 Number of sites scoring better than the average of aligned sites = 167 Number in coding regions = 114 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 59 Fraction of orfs with sites within 600 bp upstream = 0.00947639 Motif number 13 CTTCAATGATAAAAAGAACGAATTAGAATG 8 139 1 AAAAAGAACG 0.850589 -37 AAAAAGAACGAATTAGAATGTTGAGAGGTT 8 149 1 AATTAGAATG 0.895769 -27 TTATGAGGTAAAAAAGAATTGTGTTCTTAA 14 112 0 AAAAAGAATT 0.7049 -75 CCTCCCTATTAATAAGAATGCAGAAAACAG 14 160 0 AATAAGAATG 0.913789 -27 TTTTAAATAAAAATAAAATGATTTGTTTAT 19 47 0 AAATAAAATG 0.688327 -86 TACGATATTAAACAAGAATGCTTTTTTAAT 19 91 1 AACAAGAATG 0.942516 -42 TGATAGATATAAATAGAATGTTAAAACCGA 22 70 1 AAATAGAATG 0.951867 -112 CTCTATTTAATACAAGAATGAAATCCTAAA 25 70 1 TACAAGAATG 0.721038 -114 GTTGACGATAAAATATAATGAGGTGAAAAA 25 163 1 AAATATAATG 0.688249 -21 ********** Masking position 5 Map Score: 1.20371 Number of sites scoring better than the average of aligned sites = 298 Number in coding regions = 243 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 14 ATGAGGAAAGCTCCTTTCATTAAAG 11 6 0 CTCCTTTCAT 0.731518 -295 ACCCTTTCACATCCAGAAATTATTTCTCGG 11 200 0 ATCCAGAAAT 0.80492 -101 GTTTTTTCATATCCTGTAATGAGGTGATGA 11 278 1 ATCCTGTAAT 0.892138 -23 GATGTTAAGAATCCTTACATCGTATTGACA 12 37 1 ATCCTTACAT 0.912686 -74 GAGGTTTTGACTCCTGACATCACCTAAGTT 14 27 0 CTCCTGACAT 0.94683 -160 ATGGCGTTATATCCTAAAATAA 23 3 0 ATCCTAAAAT 0.898411 -36 TTGATTTCCTCCTTAAATGGCGTTATAT 23 21 0 CTCCTTAAAT 0.912687 -18 TATAGGGAGGAACCTGAAATT 24 13 1 AACCTGAAAT 0.80492 -11 CAAGAATGAAATCCTAAAATAGTCGTTTTT 25 82 1 ATCCTAAAAT 0.898411 -102 ********** Masking position 9 Map Score: 3.74095 Number of sites scoring better than the average of aligned sites = 154 Number in coding regions = 120 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 15 CACCTTCATTTGGGCGAATTTCCAACCGAA 1 106 1 TGGGCGAATT 0.89721 -80 ATTGTAGTGGGGGGAGTATCCATTGAAAAC 3 142 1 GGGGAGTATC 0.969013 -33 TAATTCTGACGGGGCGTATTTGAGCTCATG 18 55 0 GGGGCGTATT 0.98491 -127 GCCTCCCTTAGCGGCGTATTTTATATGTTT 20 152 0 GCGGCGTATT 0.948816 -98 AATGTCTAATGGGGAGAATCAAAATC 21 77 1 GGGGAGAATC 0.956186 -16 ********** Masking position 8 Map Score: 0.409732 Number of sites scoring better than the average of aligned sites = 45 Number in coding regions = 42 Number in noncoding regions = 3 Number of orfs with sites within 600 bp upstream = 4 Fraction of orfs with sites within 600 bp upstream = 0.000642467