AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/genomes/ORF_ecoli.txt -z/home/amcguire/genomes/ecoli.fna -ifur_ecoli_bsub_300.orf -g0.5 -x5 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 = 0.5 maxlen = 30 weight = 0.8 exclude = 0 Input sequences: #1 entD 165 enterochelin synthetase, component D #2 fepA_fes 320 fepA: outer membrane receptor for ferric enterobactin (enterochelin) and colicins B and D, fes: enterochelin esterase #3 entF 217 ATP-dependent serine activating enzyme (may be part of enterobactin synthase as component F) #4 fepE 215 ferric enterobactin (enterochelin) transport #5 fepB_entC 374 fepB: ferric enterobactin (enterochelin) binding protein; periplasmic component, entC: isochorismate hydroxymutase 2, enterochelin biosynthesis #6 fur 288 negative regulator #7 fldA 139 flavodoxin 1 #8 ybfE 70 orf, hypothetical protein #9 ybfF 184 orf, hypothetical protein #10 tonB 127 energy transducer; uptake of iron, cyanocobalimin; sensitivity to phages, colicins #11 cirA 293 outer membrane receptor for iron-regulated colicin I receptor; porin; requires tonB gene product #12 lysP 204 lysine-specific permease #13 yeiE 98 putative transcriptional regulator LYSR-type #14 sodA 284 superoxide dismutase, manganese #15 feuA 90 iron-binding protein #16 ybbB 190 alternate gene name: yzbC; similar to transcriptional regulator (AraC/XylS family) #17 ybbD 27 alternate gene name: yzbA; similar to beta-hexosaminidase #18 ybbE 84 similar to beta-lactamase #19 ybbF 25 similar to sucrose phosphotransferase enzyme II #20 ybbI 170 similar to hypothetical proteins #21 ybbK 300 ybbK #22 yqkL 112 similar to transcriptional regulator (Fur family) #23 spoIIM 100 spoIIM #24 yqkK 99 yqkK #25 yqkI 140 similar to Na+/H+ antiporter #26 ansB 44 L-aspartase #27 ansA 181 L-asparaginase #28 sodA 178 superoxide dismutase #29 yqgC 109 yqgC #30 menF 288 menaquinone-specific isochorismate synthase #31 yukL 87 similar to antibiotic synthetase #32 yukM 300 similar to antibiotic synthetase #33 dhbB 27 isochorismatase #34 dhbE 28 2,3-dihydroxybenzoate-AMP ligase (enterobactin synthetase component E) #35 dhbC 25 isochorismate synthase #36 dhbA 193 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase #37 yuiI 138 yuiI #38 yuiH 100 similar to sulfite oxidase Motif number 1 TCCTGCAATATATTGAATTGGCAAGATTTTTGTAGGCCGGA 1 74 0 TTATGAATTT 0.849851 -92 CCATTACGCTATTGCAAATGCAAATAGTTATCAATAATATT 2 144 0 ATATGAATTT 0.979947 -177 AGCGACCGAAAATATAAATGATAATCATTATTAAAGCCTTT 5 31 0 ATATGAATTT 0.979935 -344 TTGTGGTTACAATGAAAATGAGAAGCATTATTGATGGATTC 5 142 1 ATATGAATTT 0.979947 -233 AAAATTTAACATTTGGATTGATAATTGTTATCGTTTGCATT 11 90 1 ATATGAATTT 0.979892 -204 TAGTTAATTAAATGATATTGAAAATGATTATCAATGCCGTA 14 193 0 ATATGAATTT 0.979934 -92 ATTCTCTATAATTCCAATTGATAATAGTTATCAATTGAACA 15 47 1 ATATGAATTT 0.979934 -44 ATTTGGTACAATTTTTATTGAAAATGATTATCAATTGAAAG 16 138 1 ATATGAATTT 0.979892 -53 GAAACAATTTAATCGAACTGAGAAGCCATTTCATCT 18 6 0 ATATGAAATT 0.849853 -79 AGTCAAATATAATTTCAGTGACAAATATTTTTTTAAAGGCA 36 25 0 ATATGAATTT 0.979944 -169 TATTTTTATAATTGATAATGATAATCATTATCAATAGATTG 36 89 1 ATATGAATTT 0.979947 -105 CCTAATTTAAAATCATGTTGACAATCTTTTTGTTCTTTATT 38 50 0 ATGTGAATTT 0.892735 -51 * * * ** ** ** * Masking position 13 Map Score: 19.4183 Number of sites scoring better than the average of aligned sites = 25 Number in coding regions = 8 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 2 TCACCCTGGAAGGGAGAGGGGGCAGAACGGC 5 208 0 AGGGGAGGGG 0.996823 -167 TCTCCCTTCCAGGGTGAGGGCTGGGGTGAGG 5 222 1 AGGGGAGGGC 0.988901 -153 GGTGAGGGCTGGGGTGAGGGTTAATGTTCGC 5 234 1 GGGGGAGGGT 0.993908 -141 GGAGAGGGTTAGGGTGAGGGGAACAGCCAGC 5 271 0 AGGGGAGGGG 0.996823 -104 TCGCCCCTTTGGGGAGAGGGTTAGGGTGAGG 5 283 0 GGGGGAGGGT 0.993908 -92 TCTCCCCAAAGGGGCGAGGGGACGGATTGTG 5 297 1 GGGGGAGGGG 0.99615 -78 TGCCCGGTTAAAGGAGAGGGTT 13 2 0 AAGGGAGGGT 0.984807 -97 GGCATCTTGAAGGGGAGGGGTTTTA 19 10 1 AAGGGAGGGG 0.990368 -16 TCTGCCTTACAAGCAGAGGGTCGG 21 4 0 AAGCGAGGGT 0.904017 -297 **** ****** Masking position 7 Map Score: 20.3466 Number of sites scoring better than the average of aligned sites = 87 Number in coding regions = 19 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295 Motif number 3 TAAGGCGTTCACGCCGCATCCGGCATGAAC 1 44 0 ACGCCGCATC 0.99268 -122 TGCGGCGTGAACGCCTTATCCGGCCTACAA 1 56 1 ACGCCTTATC 0.918067 -110 CGTCATCAACACGACGCATCCCGCTACCGC 2 253 0 ACGACGCATC 0.944929 -68 ACATGAGTCTACGCCGCATCACA 6 4 0 ACGCCGCATC 0.99268 -285 ACTCATGTCTACGCCGTATTAATAGATAAT 6 26 1 ACGCCGTATT 0.939359 -263 CTATAATGATACGCATTATCTCAAGAGCAA 6 215 1 ACGCATTATC 0.633195 -74 CATTATCGTTACGCCGCAATCAAAAAAGGC 11 127 1 ACGCCGCAAT 0.916713 -167 TGCTACAATCGCGCCTCATTTTTAAGATGG 12 172 1 GCGCCTCATT 0.88662 -33 CCAACTGCTTACGCGGCATTAACAATCGGC 14 241 1 ACGCGGCATT 0.927757 -44 CCGCCCTTTCACGCGGTAACACGGGTTCGA 21 82 0 ACGCGGTAAC 0.654852 -219 TTTCCCTCCTACGCCGCATTCCATGACTCA 22 90 0 ACGCCGCATT 0.981782 -23 AGATCGCCCAGCGCATCATCATTCCGTCCC 32 91 0 GCGCATCATC 0.751966 -210 TCGTTCGCGTGCGACGCATCCTTTATTCCA 32 277 1 GCGACGCATC 0.896502 -24 ********** Masking position 8 Map Score: 15.1873 Number of sites scoring better than the average of aligned sites = 1147 Number in coding regions = 870 Number in noncoding regions = 277 Number of orfs with sites within 600 bp upstream = 127 Fraction of orfs with sites within 600 bp upstream = 0.0203983 Motif number 4 GAACGCCTTATCCGGCCTACAAAAATCTTGC 1 64 1 TCCGGCCACA 0.94722 -102 GCTACGCTTATCAGGCCTACATGGTCCTGCA 1 108 0 TCAGGCCACA 0.713839 -58 GTCACAGGCGTCCTGCCAGCAGTGGCTGGAA 3 144 1 TCCTGCCGCA 0.952788 -74 TGTGCCTCCTGCAACTGGGTAAA 3 205 0 TGCCTCCGCA 0.923183 -13 GCGCGATGAGTCACGCCAACGCCCACGCGCG 8 48 0 TCACGCCACG 0.840209 -23 TATGAATAAATCCCGGCAGCGGATAGCGTCA 9 57 1 TCCCGGCGCG 0.923883 -128 CGATTGGCAATCCTTCCGGCAGAAATACACG 12 139 0 TCCTTCCGCA 0.917278 -66 GTCTTTCCCTCCTACGCCGCATTCCA 22 97 0 TCCCTCCACG 0.944843 -16 ACCGTTTCCTCCCGCCCGCTCTAGTGATTT 23 81 0 TCCCGCCGCT 0.95694 -20 CCATTAAACCTGCCGCCAGCATTTC 28 5 0 TGCCGCCGCA 0.711033 -174 GCATCATCATTCCGTCCCGCGATCGGACTGC 32 78 0 TCCGTCCGCG 0.959282 -223 GTTGTATCCCTCCAGCAATTCATTCTG 34 12 0 TCCCTCCGCA 0.982561 -17 ******* *** Masking position 1 Map Score: 12.6909 Number of sites scoring better than the average of aligned sites = 840 Number in coding regions = 783 Number in noncoding regions = 57 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 5 GGATAAGGCGTTCACGCCGCATCCGGCATG 1 47 0 TTCACGCCGC 0.981693 -119 CTTCCTACTTTTAACGCCGTCACACCATAA 2 66 1 TTAACGCCGT 0.656661 -255 GTCCGCGCTTCCCACGGCGCGCCATTACGC 2 176 0 CCCACGGCGC 0.909096 -145 GGATCAAAGGTTTTCGCGGTAGCGGGATGC 2 238 1 TTTTCGCGGT 0.517962 -83 GGGGGAAATCTCCACGGCGCTCACTTTACC 4 168 0 TCCACGGCGC 0.951945 -48 TAGACATGAGTCTACGCCGCATCACA 6 7 0 TCTACGCCGC 0.979241 -282 TAGACTCATGTCTACGCCGTATTAATAGAT 6 23 1 TCTACGCCGT 0.937757 -266 TTGCATTATCGTTACGCCGCAATCAAAAAA 11 124 1 GTTACGCCGC 0.920515 -170 GAACCAACTGCTTACGCGGCATTAACAATC 14 238 1 CTTACGCGGC 0.863322 -47 GCGGCCCGATTCTTCGCCGTCCTTTA 20 7 0 TCTTCGCCGT 0.802022 -164 TCAACTGTTCTCCAAGCGGCCCGATTCTTC 20 22 0 TCCAAGCGGC 0.752636 -149 GCACCGCCCTTTCACGCGGTAACACGGGTT 21 85 0 TTCACGCGGT 0.865103 -216 GTCTTTCCCTCCTACGCCGCATTCCATGAC 22 93 0 CCTACGCCGC 0.9597 -20 CTTCAATCCGGTCTCGCCGCTTATTGACAA 32 18 1 GTCTCGCCGC 0.833257 -283 GATTGCGTTTTTCAAGGCGCAGCAGTCTTT 36 125 1 TTCAAGGCGC 0.601008 -69 ********** Masking position 6 Map Score: 12.2842 Number of sites scoring better than the average of aligned sites = 2519 Number in coding regions = 2222 Number in noncoding regions = 297 Number of orfs with sites within 600 bp upstream = 165 Fraction of orfs with sites within 600 bp upstream = 0.0265018 Motif number 6 AGTTATCAATAATATTATCAATATATTTCTG 2 129 0 AAATTATCAA 0.763894 -192 GCAAATGCAAATAGTTATCAATAATATTATC 2 141 0 ATGTTATCAA 0.898216 -180 TCAGCTTCGGATAATTATCACCAACTGGTAA 4 142 1 ATATTATCAC 0.813768 -74 ATAAATGATAATCATTATTAAAGCCTTTATC 5 28 0 ATATTATTAA 0.796859 -347 GCAAACGATAACAATTATCAATCCAAATGTT 11 97 0 ACATTATCAA 0.827443 -197 GATATTGAAAATGATTATCAATGCCGTACTT 14 190 0 ATATTATCAA 0.961786 -95 CCAATTGATAATAGTTATCAATTGAACAGGA 15 60 1 ATGTTATCAA 0.898216 -31 TTTATTGAAAATGATTATCAATTGAAAGCTT 16 151 1 ATATTATCAA 0.961786 -40 AATCATTATTAAAAGAAAACCA 22 2 1 ATATTATTAA 0.796859 -111 TCCAACTATAATTATTATAAACTGATAAATA 22 36 0 ATATTATAAA 0.689862 -77 GATAATGATTATCATTATCAATTATAAAAAT 36 90 0 ATATTATCAA 0.962203 -104 GATAATGATAATCATTATCAATAGATTGCGT 36 102 1 ATATTATCAA 0.962203 -92 ** ******** Masking position 7 Map Score: 11.9451 Number of sites scoring better than the average of aligned sites = 19 Number in coding regions = 13 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 7 GCATGAACGACGCGCACTTTGTCAACAATCTGA 1 19 0 CGGACTTGTC 0.974269 -147 TAAAAGCAAACGCGCACTATGTCAACTCTTGAG 5 76 1 CGGACTTGTC 0.974269 -299 GGGGACGGATTGTGCGCTTTGTCGAATTTGTCA 5 314 1 TGGGCTTGTC 0.90004 -61 TGCTGTTGTACCTGTACAATGTCCCGGTGTTCA 6 91 1 CCGACATGTC 0.932622 -198 CTTAATCCAGTGCAGTGTCTTAGCTGAAT 9 7 1 CCGGCATGTC 0.974143 -178 CTCTCAACCGAGAGGGCTTTTTCAATTCCATTT 11 35 1 AGGGCTTTTC 0.690436 -259 CAAGAACATGCTGGTGCTGTGTCGATTTCGTGA 12 20 1 CTGGCTTGTC 0.965653 -185 TGCTTCACATCTCGGGCATTTTCCTGCAAAACC 14 144 1 CTGGCATTTC 0.759231 -141 TGAGCCAAATCGTGAGCTTTTTCATTGATTACA 28 74 1 CGGGCTTTTC 0.962305 -105 CGGTGCCCGCCCCGAGCCTTGTCAATAAGCGGC 32 33 0 CCGGCCTGTC 0.956708 -268 AGATTCACTTCCCGTACTCTGTCTAGAAGCTCA 32 184 0 CCGACTTGTC 0.968323 -117 ** * *** **** Masking position 10 Map Score: 8.96795 Number of sites scoring better than the average of aligned sites = 167 Number in coding regions = 149 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 8 GTAGGAAGTGAGAGCTGGTGGCAGTCGAAAC 2 43 0 AAGCTGGTGG 0.966759 -278 GCTTCCAGCCACTGCTGGCAGGACGCCTGTG 3 146 0 ATGCTGGCAG 0.932715 -72 CCTGGAAGGGAGAGGGGGCAGAACGGCGCAG 5 204 0 AAGGGGGCAG 0.827525 -171 TGTTCGCACCAGTGCTGGCTGTTCCCCTCAC 5 258 1 ATGCTGGCTG 0.887149 -117 AACTTATTGAAATGGGGGTGGAAAATTGCCC 7 100 0 ATGGGGGTGG 0.938572 -40 TTTCCTATATAAAGCGGGTGGGTTTTTAGCA 16 97 0 AAGCGGGTGG 0.978894 -94 TCAAATCACTAGAGCGGGCGGGAGGAAACGG 23 79 1 AAGCGGGCGG 0.989145 -22 GAAATGCTGGCGGCAGGTTTAAT 28 3 1 ATGCTGGCGG 0.985994 -176 ACTTTCATAAATGGCGGGTGGAGGAATATAG 30 68 1 AGGCGGGTGG 0.954323 -221 ACAGAATGAATTGCTGGAGGGATACAAC 34 10 1 ATGCTGGAGG 0.9159 -19 * ********* Masking position 1 Map Score: 9.24888 Number of sites scoring better than the average of aligned sites = 532 Number in coding regions = 513 Number in noncoding regions = 19 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 9 AGGCGTTCACGCCGCATCCGGCATGAACGACG 1 40 0 GCCGATCCGC 0.497935 -126 TTTCGCGGTAGCGGGATGCGTCGTGTTGATGA 2 249 1 GCGGATGCGC 0.939895 -72 ACGCATTGTTGCGGCCACAGACTGAATTGCCC 3 76 0 GCGGCACAGC 0.98536 -142 TGTGTCAGCCGCAGTCACAGGCGTCCTGCCAG 3 131 1 GCAGCACAGC 0.854687 -87 ACGCCCACGCGCGGAAAGCGACGCGGACGCTG 8 29 0 GCGGAAGCGC 0.986195 -42 AATCCCGGCAGCGGATAGCGTCAAGCCTGGCT 9 65 1 GCGGTAGCGC 0.963277 -120 ATCCCAGAAAGCCGGAACAGCCTCTGATTTGT 11 159 0 GCCGAACAGC 0.936262 -135 ATCTTTATAAGTGGTAAGCGACT 13 86 1 GTGGAAGCGC 0.837379 -13 ATCGACAACGGCGGCAACAGGCGAAAGGTTAA 14 80 0 GCGGAACAGC 0.983762 -205 TTTATGGTAAGCGGATACAACCTTTGCTATCA 30 110 1 GCGGTACAAC 0.641898 -179 AAGGCTCGGGGCGGGCACCGACATTCCGATCG 32 46 1 GCGGCACCGC 0.99046 -255 ATTGTCATAGGCGGCCAGATTCACTTCCCGTA 32 201 0 GCGGCAGATC 0.792926 -100 **** ***** * Masking position 12 Map Score: 12.3234 Number of sites scoring better than the average of aligned sites = 718 Number in coding regions = 679 Number in noncoding regions = 39 Number of orfs with sites within 600 bp upstream = 36 Fraction of orfs with sites within 600 bp upstream = 0.0057822 Motif number 10 TGATTATCATTTATATTTTCGGTCGCTAAC 5 45 1 TTATATTTTC 0.838153 -330 CGATAACCCATTTTATTTTCGTAGTTACCT 11 260 1 TTTTATTTTC 0.961456 -34 ATATAATCAATTTTATTTTTAAACCAGTTA 13 45 0 TTTTATTTTT 0.763904 -54 AAATAAAAAATTTAATTTTCCTCTTTACAA 21 188 0 TTTAATTTTC 0.838153 -113 AAATTAAATTTTTTATTTTCAAACTTTTTA 21 200 1 TTTTATTTTC 0.961456 -101 TCACTCCCTTTTTTATTTTCATAGTAATGA 24 76 0 TTTTATTTTC 0.961456 -24 GTCTTGCGTATTTTATTTTCCGTGTCTATA 27 88 1 TTTTATTTTC 0.961456 -94 ********** Masking position 5 Map Score: 5.52237 Number of sites scoring better than the average of aligned sites = 30 Number in coding regions = 19 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 11 TCACACCATAACCCCATGTTTACTGTGCAAT 2 85 1 ACCCATGTTT 0.787323 -236 AAATCAGCTTCCTGTTATTAATAAGGT 5 358 0 GCTCCTGTTA 0.567729 -17 TGTAAGCTGTGCCACGTTTTTATTAACAATA 6 144 1 GCCCGTTTTT 0.756783 -145 ATTCCGCAAGACTGCCTGTTCTGCTATGATT 7 57 1 ACTCCTGTTC 0.860038 -83 GCAATTTTCCACCCCCATTTCAATAAGTTTC 7 102 1 ACCCCATTTC 0.721258 -38 CTACAATCGCGCCTCATTTTTAAGATGGATA 12 174 1 GCCCATTTTT 0.787323 -31 CTATAGAGCCTCCTGTTCAATTGATAAC 15 73 0 GCCCCTGTTC 0.977087 -18 GAGTAGACCACCTTTTCAGAAGCTTTC 16 174 0 ACCCCTTTTC 0.957155 -17 GAGGATGCCCCCTGTTTTAAAATGATA 20 154 0 GCCCCTGTTT 0.973553 -17 ACGGTTAAGCACCGCCCTTTCACGCGGTAAC 21 92 0 ACCCCCTTTC 0.793178 -209 TATACAGGTCACCCCCTGTTTGTAAAGAGGA 21 169 1 ACCCCTGTTT 0.963826 -132 GTGATCACTCCCTTTTTTATTTTCATA 24 83 0 ACTCCTTTTT 0.793365 -17 ATGGGCCTCCTTTTTGTTAACCTAA 38 86 0 GCCCCTTTTT 0.963826 -15 *** ******* Masking position 9 Map Score: 8.85077 Number of sites scoring better than the average of aligned sites = 424 Number in coding regions = 375 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 12 CGTTCACGCCGCATCCGGCATGAACGACGC 1 39 0 GCATCCGGCA 0.832842 -127 TGTTTCGACTGCCACCAGCTCTCACTTCCT 2 42 1 GCCACCAGCT 0.894748 -279 TCAACACGACGCATCCCGCTACCGCGAAAA 2 248 0 GCATCCCGCT 0.790096 -73 TCACAGGCGTCCTGCCAGCAGTGGCTGGAA 3 145 1 CCTGCCAGCA 0.852875 -73 ACGCCAGTGGGCTTCCAGCCACTGCTGGCA 3 157 0 GCTTCCAGCC 0.773371 -61 TGTGCCTCCTGCAACTGGGTAAA 3 205 0 GCCTCCTGCA 0.913544 -13 GTGACGCAGCGCCTTCAGCATGCATTCGCC 12 49 1 GCCTTCAGCA 0.795236 -156 GATTGGCAATCCTTCCGGCAGAAATACACG 12 139 0 CCTTCCGGCA 0.818976 -66 ATGCTAAAAACCCACCCGCTTTATATAGGA 16 96 1 CCCACCCGCT 0.793201 -95 ACCGTTTCCTCCCGCCCGCTCTAGTGATTT 23 81 0 CCCGCCCGCT 0.896288 -20 CATTAAACCTGCCGCCAGCATTTC 28 5 0 GCCGCCAGCA 0.973636 -174 AGACTCGGCAGCCTCCAACAGGCGCATCAA 31 11 0 GCCTCCAACA 0.795236 -77 GTTGTATCCCTCCAGCAATTCATTCTG 34 12 0 CCCTCCAGCA 0.973935 -17 ********** Masking position 6 Map Score: 8.22754 Number of sites scoring better than the average of aligned sites = 1596 Number in coding regions = 1548 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 13 TTATTAAAGCCTTTATCATTTTGTGGAGGATG 5 13 0 CTTTTCATTT 0.761946 -362 TGAAGTCATAATCATTTCAGTAGAAAAA 10 110 0 CATATCATTC 0.658773 -18 ACCGAGAGGGCTTTTTCAATTCCATTTCCCTG 11 41 1 CTTTTCAATC 0.671351 -253 TCGCTCACATCTTCTTCACGTCCCCTTGCGTA 11 231 0 CTTCTCACTC 0.93814 -63 CTTCTTATCCTCATCATTTTTCGTCGCGTC 14 9 1 CCTCTCATTT 0.6213 -276 AGAAACTTCCTCCTATCGTCTAATCAT 17 11 0 CTTCTCCTTC 0.873446 -17 ACAGTTGATCCTTCATCATTTCTTATAGTCTT 20 44 1 CTTCTCATTC 0.977658 -127 TAAAATACAGCTTATTCATCTCCGAATAGTCG 25 19 1 CTTATCATTC 0.896014 -122 GTATACTATACTTCCTCATCCCTATGTTGTAA 25 65 0 CTTCTCATCC 0.932545 -76 ACTTCCGCTCCTTTTTCACCTTGAGCTGATTA 27 13 1 CTTTTCACTT 0.525906 -169 TTTACTCTGTCTTCTTCATGTCTTCCTTGTAT 29 71 0 CTTCTCATTC 0.977658 -39 AAGCTTGTTTCTTTTTCATTTCTGAAATTAGG 30 158 1 CTTTTCATTC 0.941442 -131 TCGCCCAGCGCATCATCATTCCGTCCCGCGAT 32 86 0 CATCTCATCC 0.755947 -215 **** **** ** Masking position 6 Map Score: 6.44167 Number of sites scoring better than the average of aligned sites = 172 Number in coding regions = 150 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 14 GATGACAAACGCAAAACTGCCTGATGCGCTACG 1 133 0 GCAAAGCCTG 0.977464 -33 GCAATTCGTGGCAAAAATGCAGGAATAAAACA 2 299 1 GCAAAGCAGG 0.943757 -22 CACACAATGTCCCAGCCTGCCGGTAAGACGCAT 3 102 0 CCAGCGCCGG 0.953514 -116 TGCGGAATCAGCAAACGAGCAGGACTGCACACT 7 32 0 GCAACGCAGG 0.932618 -108 TGCTGATTCCGCAAGACTGCCTGTTCTGCTATG 7 52 1 GCAGAGCCTG 0.972808 -88 AGGTGATCATCCCAGAAAGCCGGAACAGCCTCT 11 166 0 CCAGAGCCGG 0.961342 -128 GATCATGCAGTCCAAATGGCCTGCCTTACCTAT 30 196 0 TCAAAGCCTG 0.849076 -93 TGCGTCGCACGCGAACGAGCCGGATTGAGCACC 32 262 0 GCAACGCCGG 0.985972 -39 CAGACATCCAGCGAAAAAGACTGCTGCGCCTTG 36 137 0 GCAAAGACTG 0.809597 -57 ** *** ***** Masking position 4 Map Score: 4.27121 Number of sites scoring better than the average of aligned sites = 422 Number in coding regions = 359 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 15 ATCAACACGACGCATCCCGCTACCGCGAAA 2 249 0 CGCATCCCGC 0.963614 -72 ATTGCCCCTGCGCATTGCGCAATATGTAAA 3 53 0 CGCATTGCGC 0.983742 -165 CTTGAGGTAACGCAATCTGCAACTCGGGGT 5 103 1 CGCAATCTGC 0.725097 -272 CGCAGGACATCACATTGCGCTTATGCGAAT 5 179 0 CACATTGCGC 0.903119 -196 GGCGAGGGGACGGATTGTGCGCTTTGTCGA 5 309 1 CGGATTGTGC 0.809529 -66 AGTAACAGGACAGATTCCGC 6 279 1 CAGATTCCGC 0.85482 -10 TGCTCGTTTGCTGATTCCGCAAGACTGCCT 7 44 1 CTGATTCCGC 0.85482 -96 GCGTCCGCGTCGCTTTCCGCGCGTGGGCGT 8 31 1 CGCTTTCCGC 0.967535 -40 GTTGGCGTGACTCATCGCGCTG 8 59 1 CTCATCGCGC 0.746519 -12 CCAGGCTTGACGCTATCCGCTGCCGGGATT 9 65 0 CGCTATCCGC 0.858898 -120 CGTGACGCAGCGCCTTCAGCATGCATTCGC 12 48 1 CGCCTTCAGC 0.729234 -157 AGAAGGTATTCGCTTTTCGCATACTTTTAA 27 124 0 CGCTTTTCGC 0.76895 -58 GCGAACGAGCCGGATTGAGCACCTCTACAA 32 255 0 CGGATTGAGC 0.809529 -46 ********** Masking position 1 Map Score: 8.37108 Number of sites scoring better than the average of aligned sites = 865 Number in coding regions = 812 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 53 Fraction of orfs with sites within 600 bp upstream = 0.00851269