AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00910_bsub_reg_100.orf -o00910_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 yccC 216 similar to asparaginase #2 nasE 31 assimilatory nitrite reductase (subunit) #3 nasD 121 assimilatory nitrite reductase (subunit) #4 nasB 179 assimilatory nitrate reductase (electron transfer subunit) #5 glnR 110 transcriptional regulator #6 glnA 60 glutamine synthetase #7 gltA 146 glutamate synthase (large subunit) #8 ypcA 155 similar to glutamate dehydrogenase #9 ansB 44 L-aspartase #10 ansA 181 L-asparaginase #11 yqhI 300 similar to aminomethyltransferase #12 asnB 149 asparagine synthetase #13 yurR 300 similar to opine catabolism #14 narJ 25 nitrate reductase (protein J) #15 narG 195 nitrate reductase (alpha subunit) #16 yweB 176 alternate gene name: ipa-75d; similar to glutamate dehydrogenase #17 hutH 112 histidase #18 yxbB 300 alternate gene name: yxaP; similar to hypothetical proteins Motif number 1 TTTTTGATTGCAATTCAGTAAGGTGGGAATGTT 1 11 0 CATAGTAAGG 0.832276 -206 TATGAAAAGACAAAAAAAGAAGGATATGACAAC 1 101 1 CAAAAGAAGG 0.943773 -116 TCCAGCGTAGCACAGCAAAAAGGAATATTTAAG 3 69 0 CAAAAAAAGG 0.983001 -53 ATAACCAGCAAAGAGAAAGAAGGTTAAAGATT 9 23 1 AAAAAGAAGG 0.736387 -22 TAATCAGCTCAAGGTGAAAAAGGAGCGGAAGTT 10 12 0 AAGAAAAAGG 0.778707 -170 AGCTAAAAAACATACAAAAAAGGACAGAGAAAC 11 251 0 CAAAAAAAGG 0.982994 -50 TTTAGCTGCGCCGTTGATAAAGGGGAGGAATTA 11 277 1 CCTATAAAGG 0.831959 -24 CATGAATACAACGATAAAAAAGGGAAAGCCGCT 12 33 0 ACAAAAAAGG 0.802721 -117 CTGTCACTATCAATAGAGAAAGGATGATACCAT 13 151 0 CATAGAAAGG 0.979016 -150 AGGGTGAATCCAATGAAGAAAGGAATTGGCGGG 16 97 1 CATAGAAAGG 0.979016 -80 GGTAAAGCGCCCATACAAAAAGGAGCTATGCTG 17 64 0 CCTAAAAAGG 0.976364 -49 GAGGGATGCTCAATGAAAAAAGCTTATAAGAAA 18 50 1 CATAAAAAGC 0.943927 -251 CAGCACGGCGCAGTTCAAAAAGGCGAGGTTTCT 18 78 0 CATAAAAAGG 0.990133 -223 GAGGGATGCTCAATGAAAAAAGCTTATAAGAAA 18 168 1 CATAAAAAGC 0.943927 -133 CAGCGCGGCGCAATTCAAAAAGGCGAGGTTTCT 18 196 0 CATAAAAAGG 0.990133 -105 ** * ******* Masking position 7 Map Score: 20.122 Number of sites scoring better than the average of aligned sites = 505 Number in coding regions = 407 Number in noncoding regions = 98 Number of orfs with sites within 600 bp upstream = 105 Fraction of orfs with sites within 600 bp upstream = 0.0168648 Motif number 2 GTATCAGACCTCCTTTGGCGAAGC 4 166 0 ATCAACCCCT 0.93704 -14 ATTCAATTCGCGTACACTTCCTAATACCTATA 10 50 0 CGTAACTCCT 0.682616 -132 AATACCTTCTCGCAACCCATCTTTAGATACAG 10 144 1 CGCACCCTCT 0.980797 -38 TGTGCGGATGCGCAAACCACCTTTGGGGACGT 11 157 1 CGCAACCCCT 0.990076 -144 TTGCCACTGCCGCATCGCGTCTGTTTTCTTCA 13 98 1 CGCACGCTCT 0.935735 -203 CGCTCATGGTATCATCCTTTCTCTATTGATAG 13 146 1 ATCACCTTCT 0.729602 -155 TAATGACCCAAGCGTCCTGCCTGAACGCAGCC 15 50 1 AGCGCCTCCT 0.922929 -146 CCTGCCTGAACGCAGCCTTCCTTCTCCTTTGT 15 65 1 CGCACCTCCT 0.990068 -131 GCTTTAAAAAATCAGCCCGCCAATTCCTTTCT 16 113 0 ATCACCCCCA 0.817263 -64 TCTGTTTTCACGCATAGCCCCCTATCGTCTAA 17 26 0 CGCAAGCCCC 0.817718 -87 AGAAGTTCACAGCATAGCTCCTTTTTGTATGG 17 55 1 AGCAAGCCCT 0.959002 -58 TTTTTCATTGAGCATCCCTCCTAAAATAGAGT 18 38 0 AGCACCCCCT 0.995698 -263 TTTTTCATTGAGCATCCCTCCTAAAATAGAGT 18 156 0 AGCACCCCCT 0.995698 -145 CTTCAGCATCCTCCTTATCAAGTTGG 18 285 0 AGCACCTCTT 0.833254 -16 **** *** *** Masking position 4 Map Score: 17.0924 Number of sites scoring better than the average of aligned sites = 350 Number in coding regions = 273 Number in noncoding regions = 77 Number of orfs with sites within 600 bp upstream = 64 Fraction of orfs with sites within 600 bp upstream = 0.0102795 Motif number 3 AAAAGACAAAAAAAGAAGGATATGACAACA 1 105 1 AAAAGAAGGA 0.539769 -112 AAAACATTTGATAAGGAGCGGATCATCTG 3 103 1 ATAAGGAGCG 0.762376 -19 CATAATTTTTAATAGGAGAAAACTTACGAG 4 137 1 AATAGGAGAA 0.537843 -43 CGAGCTTCGCCAAAGGAGGTCTGATAC 4 163 1 CAAAGGAGGT 0.823545 -17 CTAAGTTAAGAAAAGGAGGAAATTGAG 5 94 1 AAAAGGAGGA 0.968704 -17 TTTACCTTTTAAGAGGAGGAATTTTACCAA 6 41 1 AAGAGGAGGA 0.931383 -20 CTATTCTCTGAAAGGGAGCATGTGAGAAAC 8 111 1 AAAGGGAGCA 0.869932 -45 CTCAAGGTGAAAAAGGAGCGGAAGTTC 10 8 0 AAAAGGAGCG 0.9558 -174 AGATACAGTGAAGAGGTGCATGGT 10 168 1 AAGAGGTGCA 0.769199 -14 GAATGACAGCAAGGGGAGAGACCTGACCGA 11 36 1 AAGGGGAGAG 0.714541 -265 AAGACGTCCCCAAAGGTGGTTTGCGCATCC 11 162 0 CAAAGGTGGT 0.629811 -139 AAACATACAAAAAAGGACAGAGAAACACCT 11 247 0 AAAAGGACAG 0.626912 -54 GCCGTTGATAAAGGGGAGGAATTAG 11 286 1 AAGGGGAGGA 0.813239 -15 ACATTAGGGCAAAAGGTCGAAGGAAAGCAT 13 233 1 AAAAGGTCGA 0.515869 -68 ATTATAATAGAAAAGGTGTTTGCAT 13 286 1 AAAAGGTGTT 0.529081 -15 TCTTTGAATGAAAGGCAGCTAATGACCCAA 15 31 1 AAAGGCAGCT 0.394223 -165 AATGTTCACACAAAGGAGAAGGAAGGCTGC 15 76 0 CAAAGGAGAA 0.80008 -120 ATTTTGTGAAAAAAGCAGAGTGTGTGACAT 15 103 1 AAAAGCAGAG 0.728159 -93 TTGTGGATTCAAAAGCTGGTACGGATCTTG 16 57 1 AAAAGCTGGT 0.523324 -120 CAAAAAAACAATGAGGTGAAAAAG 16 163 1 ATGAGGTGAA 0.289191 -14 CGCCCATACAAAAAGGAGCTATGCTGTGAA 17 60 0 AAAAGGAGCT 0.930916 -53 AAAGTAAAGAAAAAGGAGTTGGGCTT 17 97 1 AAAAGGAGTT 0.755027 -16 GCGCAGTTCAAAAAGGCGAGGTTTCTTATA 18 74 0 AAAAGGCGAG 0.785999 -227 GCGCAATTCAAAAAGGCGAGGTTTCTTATA 18 192 0 AAAAGGCGAG 0.785999 -109 CGCCAACTTGATAAGGAGGATGCTGAAG 18 283 1 ATAAGGAGGA 0.821182 -18 ********** Masking position 5 Map Score: 16.4121 Number of sites scoring better than the average of aligned sites = 2648 Number in coding regions = 1795 Number in noncoding regions = 853 Number of orfs with sites within 600 bp upstream = 869 Fraction of orfs with sites within 600 bp upstream = 0.139576 Motif number 4 AGACAAAAAAAGAAGGATATGACAACAAAAAATAC 1 108 1 AGAAGTGAAA 0.771976 -109 ATGACAACAAAAAATACTGAGAGAAAAGCTGACTG 1 126 1 AAAATTGAAA 0.923569 -91 AAAAGTTCTAAAAATTTTATGAAAAAT 3 3 0 AAAATTGAAA 0.923569 -119 CTACGCTGGAAAAAACATTTGATAAGGAGCGGATC 3 92 1 AAAAATGAAA 0.907477 -30 CCTTGATTCAGAAAATGTAAAATAATGAGGGTCTA 4 25 0 GAAAATAAAA 0.604763 -155 TTAACGCATTAAACGTGTCACAAAAACTTACACAT 4 89 0 AAACGTCAAA 0.696201 -91 TCTCCTATTAAAAATTATGTCACAATGCATTGTTA 4 121 0 AAAATTCAAA 0.891061 -59 AAATCCAGGAGAAATTTTTAAAAAAT 5 2 0 GAAATTAAAA 0.653397 -109 AATTTAGATCAAAAGAATCTCAAAATGAGATAGAT 7 26 0 AAAAGTCAAA 0.947563 -121 TTTTTCGTTAAAAAACATGGAAAAACATAACGTTT 8 45 1 AAAAATAAAA 0.859707 -111 TAATTGCATTAAAAGTATGCGAAAAGCGAATACCT 10 116 1 AAAAGTGAAA 0.963894 -66 GGCGCAGCTAAAAAACATACAAAAAAGGACAGAGA 11 254 0 AAAAATAAAA 0.859707 -47 CTTTTTTCACAAAATGTTCACACAAAGGAGAAGGA 15 83 0 AAAATTCAAA 0.891061 -113 AATCCACAAAAAAAGAGACTGAAAACATCTCAGTC 16 31 0 AAAAGAGAAA 0.695515 -146 GCTCAATGAAAAAAGCTTATAAGAAACCTCGCCTT 18 57 1 AAAAGTAAAA 0.943436 -244 GCTCAATGAAAAAAGCTTATAAGAAACCTCGCCTT 18 175 1 AAAAGTAAAA 0.943436 -126 ***** * ** ** Masking position 12 Map Score: 13.6227 Number of sites scoring better than the average of aligned sites = 443 Number in coding regions = 311 Number in noncoding regions = 132 Number of orfs with sites within 600 bp upstream = 156 Fraction of orfs with sites within 600 bp upstream = 0.0250562 Motif number 5 ATAGTGACTGGTCTATTATCTTGATTCAATCA 1 45 1 GTTTTATCTT 0.883033 -172 TTTTCTCTCAGTATTTTTTGTTGTCATATCCT 1 121 0 GTTTTTTGTT 0.964487 -96 AGAACTTTTCGTATATTTTGTTACATTTTATA 3 29 1 GTTTTTTGTT 0.964487 -93 GATTTCAGCAGTTTTTTTTCGTTAAAAAACAT 8 31 1 GTTTTTTCGT 0.86386 -125 AATGTCTTGCGTATTTTATTTTCCGTGTCTAT 10 85 1 GTTTTATTTT 0.8621 -97 GTCCTTTTTTGTATGTTTTTTAGCTGCGCCGT 11 259 1 GTTTTTTTTA 0.759875 -42 TTGTATTCATGTTTATTTTTTTACATAACTGT 12 55 1 GTTTTTTTTT 0.957428 -95 GCCGCATCGCGTCTGTTTTCTTCATTTTCATG 13 106 1 GTTTTTTCTT 0.964487 -195 ATAGAGCCGGTTTTTTTTGATCTTTGAATGA 15 10 1 GTTTTTTGAT 0.810652 -186 GATGTTTTCAGTCTCTTTTTTTGTGGATTCAA 16 37 1 GTTTTTTTTT 0.957428 -140 ** * ******* Masking position 6 Map Score: 8.92017 Number of sites scoring better than the average of aligned sites = 206 Number in coding regions = 128 Number in noncoding regions = 78 Number of orfs with sites within 600 bp upstream = 83 Fraction of orfs with sites within 600 bp upstream = 0.0133312 Motif number 6 TGATTCAATCATCAATTGTCAAGAAAAATTCATTGTATGAAA 1 66 1 ATCATGAATA 0.907175 -151 ATGATTAATCATCATATGGATGTAAGGAGAGAAATAG 1 190 1 ATCATGAAAA 0.815677 -27 TCCGTTAGCAACTGTTTTGCTATATACATTTTTACCTT 6 7 1 AGCATGTAAA 0.876568 -54 CTATGCACAGATCATATGAAGGTGTATACTATTCTCTGAAAG 8 83 1 ATCATGTATT 0.866287 -73 TCTGAAAGGGAGCATGTGAGAAACAGAAGATTCTAGGAGGTT 8 117 1 AGCATGAAAT 0.958266 -39 GTCGAAGGAAAGCATTTGATTTGGTAAAATGAATAGACATTA 13 248 1 AGCATGTATA 0.940061 -53 AATCTCATATAGCATTTGACATCTAGTACTCTATTTTAGGAG 18 11 1 AGCATGAATT 0.980661 -290 GCCGTGCTGTAGCAGCTGGCGGCCATTAATCTCATATAGCAT 18 102 1 AGCATGAATT 0.980661 -199 AATCTCATATAGCATTTGACATCTAGTACTCTATTTTAGGAG 18 129 1 AGCATGAATT 0.980661 -172 GCCGCGCTGTAGCAGCTGGCGGTCATTAATCTTATCCAAAAC 18 220 1 AGCATGAATT 0.980661 -81 **** ** * * * * Masking position 7 Map Score: 7.3582 Number of sites scoring better than the average of aligned sites = 88 Number in coding regions = 78 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 7 GACCTCCTTTGGCGAAGCTCGTAAGTTTTC 4 154 0 GGCGAAGCTC 0.984946 -26 ACTCTTGCTCGACGCAACTCTGGAGAGTGT 11 126 1 GACGCAACTC 0.894591 -175 CTTTATCAACGGCGCAGCTAAAAAACATAC 11 269 0 GGCGCAGCTA 0.984946 -32 ATCAGGCACAGGCGCAGTCACAAGACGGAG 13 14 0 GGCGCAGTCA 0.943412 -287 GTGGAAAAACCGCGAAGTTCGTCCAATCTC 13 205 0 CGCGAAGTTC 0.912405 -96 GCTACAGCACGGCGCAGTTCAAAAAGGCGA 18 85 0 GGCGCAGTTC 0.99499 -216 GCTACAGCGCGGCGCAATTCAAAAAGGCGA 18 203 0 GGCGCAATTC 0.981878 -98 ********** Masking position 6 Map Score: 6.24917 Number of sites scoring better than the average of aligned sites = 207 Number in coding regions = 189 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 8 CCGATAATACCGGTCATAAAATCTAACAAC 7 104 0 CGGTCATAAA 0.970018 -43 AACCAGTAAGCGGCTATAAAA 12 2 0 CGGCTATAAA 0.970018 -148 CTATTCACAGCGTCTATAAATAGGGGTTCA 12 98 1 CGTCTATAAA 0.833477 -52 ACATTACAGCCGGCCAAAAAAACAATGAGG 16 149 1 CGGCCAAAAA 0.959385 -28 TAGCAGCTGGCGGCCATTAATCTCATATAG 18 111 1 CGGCCATTAA 0.980886 -190 TAGCAGCTGGCGGTCATTAATCTTATCCAA 18 229 1 CGGTCATTAA 0.945475 -72 ********** Masking position 6 Map Score: 3.65507 Number of sites scoring better than the average of aligned sites = 143 Number in coding regions = 130 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 9 GCTCCTTATCAAATGTTTTTTCCAGCGTAGCACAGC 3 86 0 AAATGTCAGC 0.984452 -36 AACGAAAAAAAACTGCTGAAATCAGCAGTTTTCCGT 8 18 0 AACTGACAGC 0.941978 -138 AATGTAAAAACGATAACCAGCAAAGAGAAAG 9 6 1 AAAAATCAGC 0.91007 -39 CCTAATACCTATATGATATAATCAGCTCAAGGTGAA 10 27 0 ATATGTCAGC 0.908935 -155 CTGTGAAACCAAATACTATTCACAGCGTCTATAAAT 12 83 1 AAATATCAGC 0.925748 -67 GCGGTAATGCAAAAGTCGTGGTCAGCGTGAACACAG 13 50 0 AAAAGTCAGC 0.980913 -251 CGGCAGTGGCAAAAGTCCAAAACAGCGGTAATGCAA 13 74 0 AAAAGACAGC 0.964232 -227 ATCGTCATGAAAATGAAGAAAACAGACGCGATGCGG 13 107 0 AAATGACAGA 0.76504 -194 TATGCGTGAAAACAGAAGTTCACAGCATAGCTCCTT 17 42 1 AACAGTCAGC 0.961716 -71 ***** * **** Masking position 14 Map Score: 4.96435 Number of sites scoring better than the average of aligned sites = 322 Number in coding regions = 296 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912 Motif number 10 AACATTCCCACCTTACTGAATTGCA 1 6 1 TCCCACCTTA 0.941767 -211 CTATTTCTCTCCTTACATCCATATG 1 202 0 TCTCTCCTTA 0.899569 -15 GTCCATTCCTCCTCAATGATAGTTT 2 17 0 TTCCTCCTCA 0.978412 -15 CTCAATTTCCTCCTTTTCTTAACTTA 5 95 0 TTCCTCCTTT 0.8758 -16 TTGGTAAAATTCCTCCTCTTAAAAGGTAA 6 42 0 TTCCTCCTCT 0.918335 -19 CCTGAGAGATTCACTCCGCAGTTTGCTCCT 11 89 0 TCACTCCGCA 0.778449 -212 CTTGTTACACCTCATTTATCAAAA 14 12 0 TTACACCTCA 0.819705 -14 GAGAGTTCACTCCTTCCGAGTCAGGT 15 180 0 TCACTCCTTC 0.728012 -16 CTTTTTCACCTCATTGTTTTTTT 16 164 0 TTTCACCTCA 0.760359 -13 TCATTGAGCATCCCTCCTAAAATAGAGTAC 18 36 0 TCCCTCCTAA 0.951896 -265 TCATTGAGCATCCCTCCTAAAATAGAGTAC 18 154 0 TCCCTCCTAA 0.951896 -147 CTTCAGCATCCTCCTTATCAAGTTGGC 18 284 0 ATCCTCCTTA 0.766997 -17 ********** Masking position 6 Map Score: 9.52474 Number of sites scoring better than the average of aligned sites = 390 Number in coding regions = 198 Number in noncoding regions = 192 Number of orfs with sites within 600 bp upstream = 220 Fraction of orfs with sites within 600 bp upstream = 0.0353357 Motif number 11 TGTCTTTTCATACAATGAATTTTTCTTGAC 1 83 0 TACAATGAAT 0.94222 -134 AGATAAAATGTACAATGATTAATCATCATA 1 176 1 TACAATGATT 0.895332 -41 TTTGAAAACCTACAATGATTATAGAGTTGT 7 79 1 TACAATGATT 0.895332 -68 CATCTTTAGATACAGTGAAGAGGTGCATGG 10 161 1 TACAGTGAAG 0.882152 -21 ACACCTCATGTAAAATGAAGGTTCTCTGTC 11 223 0 TAAAATGAAG 0.913045 -78 TAAATAGGGGTTCAATGATGACAATTTTAA 12 114 1 TTCAATGATG 0.750733 -36 AAATCGTCATGAAAATGAAGAAAACAGACG 13 115 0 GAAAATGAAG 0.710423 -186 TTTGATTTGGTAAAATGAATAGACATTATA 13 262 1 TAAAATGAAT 0.842381 -39 TAAGGGTGAATCCAATGAAGAAAGGAATTG 16 95 1 TCCAATGAAG 0.894843 -82 ********** Masking position 6 Map Score: 4.24558 Number of sites scoring better than the average of aligned sites = 218 Number in coding regions = 175 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 59 Fraction of orfs with sites within 600 bp upstream = 0.00947639 Motif number 12 TTCATTGTATGAAAAGACAAAAAAAGAAGG 1 94 1 GAAAAGACAA 0.834888 -123 TGCTACGCTGGAAAAAACATTTGATAAGGA 3 90 1 GAAAAAACAT 0.961411 -32 TTATTTTCTGGAAAAGACATGTGTAAGTTT 4 71 1 GAAAAGACAT 0.969766 -109 TTTTTTTCGTTAAAAAACATGGAAAAACAT 8 43 1 TAAAAAACAT 0.83068 -113 TAAAAAACATGGAAAAACATAACGTTTATT 8 53 1 GGAAAAACAT 0.868722 -103 TCTGTGCATAGAATAAACGTTATGTTTTTC 8 64 0 GAATAAACGT 0.793746 -92 CTTTGCATACGCAAAGACGTCCCCAAAGGT 11 175 0 GCAAAGACGT 0.806366 -126 ACGGCGCAGCTAAAAAACATACAAAAAAGG 11 261 0 TAAAAAACAT 0.83068 -40 TTGGTAAAATGAATAGACATTATAATAGAA 13 268 1 GAATAGACAT 0.910202 -33 ********** Masking position 5 Map Score: 4.93865 Number of sites scoring better than the average of aligned sites = 285 Number in coding regions = 245 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 13 TACAATGAATTTTTCTTGACAATTGATGAT 1 73 0 TTTTCTTGAC 0.930278 -144 ATTTTTCATAAAATTTTTAGAA 3 3 1 TTTTCATAAA 0.585555 -119 AAGATTCCCCTTTCTAGACCCTCATTATT 4 10 1 CTTTCTAGAC 0.614612 -170 AATTTCCTCCTTTTCTTAACTTAGTTTCAT 5 88 0 TTTTCTTAAC 0.917001 -23 TCATTGTAGGTTTTCAAAACGATATAAACA 7 67 0 TTTTCAAAAC 0.818058 -80 TGTTTATTTTTTTACATAACTGTGAAACCA 12 64 1 TTTACATAAC 0.836367 -86 GACCACGACTTTTGCATTACCGCTGTTTTG 13 63 1 TTTGCATTAC 0.76742 -238 GTTTTCTTCATTTTCATGACGATTTTCGCT 13 120 1 TTTTCATGAC 0.9513 -181 TTTTAAAGCGCTTACATTACAGCCGGCCAA 16 136 1 CTTACATTAC 0.627974 -41 CCCAACTCCTTTTTCTTTACTTTGGTAAAG 17 90 0 TTTTCTTTAC 0.894574 -23 ********** Masking position 3 Map Score: 1.76558 Number of sites scoring better than the average of aligned sites = 406 Number in coding regions = 347 Number in noncoding regions = 59 Number of orfs with sites within 600 bp upstream = 70 Fraction of orfs with sites within 600 bp upstream = 0.0112432 Motif number 14 ACCAGTCACTATATTTTTGATTGCAATTCA 1 27 0 ATATTTTTGA 0.367475 -190 CTCCTCAATGATAGTTTTTGTCA 2 4 0 ATAGTTTTTG 0.900434 -28 GAATCCTTACATCGTATTGACACATAATAT 5 45 1 ATCGTATTGA 0.86097 -66 TATTGTTTATATCGTTTTGAAAACCTACAA 7 64 1 ATCGTTTTGA 0.884119 -83 TTTGCTGGTTATCGTTTTTACATT 9 5 0 ATCGTTTTTA 0.855619 -40 GACGCTGTGAATAGTATTTGGTTTCACAGT 12 82 0 ATAGTATTTG 0.880103 -68 AATCTCATATAGCATTTGACATCTAGTA 18 9 1 ATAGCATTTG 0.782042 -292 TTAATCTCATATAGCATTTGACATCTAGTA 18 127 1 ATAGCATTTG 0.782042 -174 TCAAACGTTAATCGTTTTGGATAAGATTAA 18 245 0 ATCGTTTTGG 0.93746 -56 ********** Masking position 7 Map Score: 1.81753 Number of sites scoring better than the average of aligned sites = 314 Number in coding regions = 271 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 52 Fraction of orfs with sites within 600 bp upstream = 0.00835207 Motif number 15 GCTGAAATCAGCAGTTTTCCGTTGCATTC 8 10 0 GCAGTTTTCC 0.826046 -146 CATTTTACATGAGGTGTTTCTCTGTCCTTT 11 236 1 GAGGTGTTTC 0.826036 -65 TACTGGTTAAGCGGCTTTCCCTTTTTTATC 12 24 1 GCGGCTTTCC 0.955505 -126 GACGAACTTCGCGGTTTTTCCACATTAGGG 13 212 1 GCGGTTTTTC 0.968068 -89 AACAGAGACAGCGTGTTTCCTTGTGAACTA 15 132 0 GCGTGTTTCC 0.916882 -64 GTTCAAAAAGGCGAGGTTTCTTATAAGCTT 18 69 0 GCGAGGTTTC 0.951083 -232 ATTCAAAAAGGCGAGGTTTCTTATAAGCTT 18 187 0 GCGAGGTTTC 0.951083 -114 ********** Masking position 7 Map Score: 0.725677 Number of sites scoring better than the average of aligned sites = 425 Number in coding regions = 375 Number in noncoding regions = 50 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096