AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00230_hinf_reg_100.orf -o00230_hinf_100.ace -a/home/amcguire/genomes/ORF_hinf.txt -z/home/amcguire/genomes/hinf.fna -g0.38 -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 = 0.38 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: HI0206 22 5'-nucleotidase, putative Input sequences: #1 HI0011 105 DNA polymerase III, psi subunit (holD) #2 HI0075 280 anaerobic ribonucleoside-triphosphate reductase (nrdD) #3 HI0137 60 DNA polymerase III, epsilon subunit (dnaQ) #4 HI0205 292 H. influenzae predicted coding region HI0205 #5 HI0221 129 inosine-5'-monophosphate dehydrogenase (guaB) #6 HI0222 109 GMP synthase (guaA) #7 HI0229 298 polynucleotide phosphorylase (pnp) #8 HI0329 37 conserved hypothetical protein #9 HI0330 98 opacity associated protein (oapA) #10 HI0331 59 opacity associated protein (oapB) #11 HI0334 77 GTP pyrophosphokinase (relA) #12 HI0349 84 adenylate kinase (adk) #13 HI0350 141 permease, putative #14 HI0457 69 conserved hypothetical protein #15 HI0458 70 stationary phase survival protein SurA, putative #16 HI0459 131 pyrimidine operon regulatory protein (pyrR) #17 HI0514 241 DNA-directed RNA polymerase, beta' chain (rpoC) #18 HI0515 300 DNA-directed RNA polymerase, beta chain (rpoB) #19 HI0518 83 purine-nucleoside phosphorylase (deoD) #20 HI0519 98 transport protein, putative #21 HI0521 212 conserved hypothetical protein #22 HI0540 75 urease, beta subunit (ureB) #23 HI0541 162 urease, gamma subunit (ureA) #24 HI0551 118 diadenosine-tetraphosphatase (apaH) #25 HI0583 93 2',3'-cyclic-nucleotide 2'-phosphodiesterase (cpdB) #26 HI0584 71 hydrolase #27 HI0586 66 H. influenzae predicted coding region HI0586 #28 HI0587 99 peptidase E (pepE) #29 HI0604 300 adenylate cyclase (cyaA) #30 HI0638 128 conserved hypothetical protein #31 HI0639 22 adenylosuccinate lyase (purB) #32 HI0674 110 xanthine-guanine phosphoribosyltransferase (gptA) #33 HI0692 283 xanthine-guanine phosphoribosyltransferase (gptB) #34 HI0698 150 conserved hypothetical protein #35 HI0739 300 DNA polymerase III, alpha subunit (dnaE) #36 HI0752 300 phosphoribosylformylglycinamidine synthase (purL) #37 HI0799 139 ribosomal protein S13 (rpS13) #38 HI0801 27 ribosomal protein S4 (rpS4) #39 HI0802 31 DNA-directed RNA polymerase, alpha chain (rpoA) #40 HI0856 148 DNA polymerase I (polA) #41 HI0876 300 nucleoside diphosphate kinase (ndk) #42 HI0887 187 phosphoribosylaminoimidazolecarboxamide formyltransferase (purH) #43 HI0888 95 phosphoribosylamine--glycine ligase (purD) #44 HI0921 248 leucyl-tRNA synthetase (leuS) #45 HI0922 49 rare lipoprotein B, putative #46 HI0993 191 chromosomal replication initiator protein (dnaA) #47 HI1153 210 hypoxanthine phosphoribosyltransferase (hpt) #48 HI1205 214 conserved hypothetical protein #49 HI1206 86 colicin V production protein (cvpA) #50 HI1230 147 adenine phosphoribosyltransferase (apt) #51 HI1397 234 DNA polymerase III, chi subunit (holC) #52 HI1428 54 phosphoribosylglycinamide formyltransferase (purN) #53 HI1429 179 phosphoribosylaminoimidazole synthetase (purM) #54 HI1573 300 pyruvate kinase, type II (pykA) #55 HI1603 207 conserved hypothetical protein #56 HI1604 24 phosphate permease, putative #57 HI1605 65 conserved hypothetical protein #58 HI1607 62 hemM protein (hemM) #59 HI1615 160 phosphoribosylaminoimidazole carboxylase, catalytic subunit (purE) #60 HI1616 69 phosphoribosylaminoimidazole carboxylase, ATPase subunit (purK) #61 HI1633 128 adenylosuccinate synthetase (purA) #62 HI1659 179 ribonucleoside-diphosphate reductase, alpha chain (nrdA) #63 HI1660 141 ribonucleoside diphosphate reductase, beta chain (nrdB) #64 HI1726 124 phosphoribosylaminoimidazole-succinocarboxamide synthase (purC) #65 HI1741 260 guanosine-3',5'-bis(diphosphate) 3'- pyrophosphohydrolase (spoT) #66 HI1742 62 DNA-directed RNA polymerase, omega chain (rpoZ) #67 HI1743 249 guanylate kinase (gmk) Motif number 1 TTGCAAAAACCAACCGCACTTTAAACAGCAA 6 38 0 CACCGCACTT 0.990299 -72 TTCGAAAAAATGACCGCACTTTGGGCGTTTA 7 208 0 TACCGCACTT 0.997795 -91 CATAATTTTTTCGCCGCACTTTTGAGCTTCT 9 27 1 TGCCGCACTT 0.96032 -72 TTTATAATTTTTACCGCACTT 12 1 0 TACCGCACTT 0.997795 -84 ATAAAAAATTTGACCGCACTATGCTTTATCA 12 27 1 TACCGCACTA 0.968226 -58 CAACTAAAATTAACCGCACTTT 13 130 1 TACCGCACTT 0.997795 -12 CGGAGAATTTTGACCGCACTTCGGCGATTTC 17 173 0 TACCGCACTT 0.997795 -69 CCGAAATTTTTAACCGCACTTTAAACCTTTA 17 201 1 TACCGCACTT 0.997795 -41 ACCGTTAAAATGACCGCACTCTGAACCTTAC 18 222 0 TACCGCACTC 0.962424 -79 CGGTCATTTTTTACCGCACTTTTTAATTGAT 19 20 0 TACCGCACTT 0.997795 -64 CGGTAAAAAATGACCGCACTTTATTCATTTT 19 35 1 TACCGCACTT 0.997795 -49 CGGCGAATTTTCACCGCACTTTTTGTAAACG 20 12 0 TACCGCACTT 0.997795 -87 CCTTATATAGAAACCGCACTTACAAATTATT 23 27 0 AACCGCACTT 0.980169 -136 TTTTGACCGCTCTTTTATAAATAA 24 105 0 TACCGCTCTT 0.943794 -14 AGTAAAAAATTGACCGCACTTTATTTAAGTG 26 15 1 TACCGCACTT 0.997795 -57 CTATAAAAACAGACCGCACTTAAATAAAGTG 26 31 0 AACCGCACTT 0.980169 -41 GCTCAAAAATTTACCGCACTTTGGCAATGAA 34 19 1 TACCGCACTT 0.997795 -132 TTCATAAAAAATACCGCACTTCATTGCCAAA 34 38 0 AACCGCACTT 0.980169 -113 CGGCAAAATTTAACCGCACTTTAAGGATTTT 35 278 1 TACCGCACTT 0.997795 -23 TATCGTATTTTTACCGCACTTTAAGAAATTA 42 82 1 TACCGCACTT 0.997795 -106 AACTAAAAAACCACCGCACTTTTTATTTCTC 44 135 1 CACCGCACTT 0.990299 -114 CCTTAAATTTTAACCGCACTTTTGCAGCATT 44 221 0 TACCGCACTT 0.997795 -28 CCGACAATTTTTACCGCACTTTTCTCTATTA 46 149 1 TACCGCACTT 0.997795 -43 CCTCAAAAATTGACCGCACTTATCATACGCT 48 187 0 TACCGCACTT 0.997795 -28 GTTTCTTTTTTTACCGCACTTTTGAGCATTA 50 124 1 TACCGCACTT 0.997795 -24 GTCTGAAAATCCACCGCGCTTTTATGATCTA 51 115 0 CACCGCGCTT 0.848787 -120 GTTACTTATCTTACCACACTAGGAAATATTA 55 59 1 TACCACACTA 0.550765 -149 CGGTTAAAATTAACCGCACTTTTTATTGAGA 57 15 0 TACCGCACTT 0.997795 -51 CGGTTAATTTTAACCGCACTTTTGTTGTGAT 57 30 1 TACCGCACTT 0.997795 -36 TCTTTAGATCTGACCGCACTTTTAAAGTGCG 60 16 1 TACCGCACTT 0.997795 -54 ACGAAAAAAACAACCGCACTTTAAAAGTGCG 60 30 0 CACCGCACTT 0.990299 -40 TGGTGATTTTTCACCGCACTTTAGGTTTAAA 61 13 0 TACCGCACTT 0.997795 -116 CGGTGAAAAATCACCACACTTTTTCTTTTAT 61 28 1 TACCACACTT 0.947943 -101 GTTGAATTTTTCACCGCACTTTGAAGGA 62 8 0 TACCGCACTT 0.997795 -172 CAACAAATTTTTACCGCACTTTTTCTTATTT 62 35 1 TACCGCACTT 0.997795 -145 CCTTTATTTTTTACCGCACTTTTAAAAGA 65 9 0 TACCGCACTT 0.997795 -252 CCGTAAAAAATCACCGCACTTTTGATGATTT 67 174 1 TACCGCACTT 0.997795 -76 * ********* Masking position 10 Map Score: 175.765 Number of sites scoring better than the average of aligned sites = 961 Number in coding regions = 606 Number in noncoding regions = 355 Number of orfs with sites within 600 bp upstream = 247 Fraction of orfs with sites within 600 bp upstream = 0.0396723 Motif number 2 GCTGTTTAAAGTGCGGTTGGTTTTTGCAAAGTTT 6 40 1 GTGCGGTTTT 0.995499 -70 AACGCCCAAAGTGCGGTCATTTTTTCGAAAGATT 7 210 1 GTGCGGTTTT 0.995499 -89 AAGTGCGGTAAAAATTATAAAAAATT 12 3 1 GTGCGGTATT 0.996017 -82 ATAAAGCATAGTGCGGTCAAATTTTTTATAATTT 12 22 0 GTGCGGTATT 0.996017 -63 AAAGTGCGGTTAATTTTAGTTGTATTT 13 125 0 GTGCGGTTTT 0.995499 -17 AATCGCCGAAGTGCGGTCAAAATTCTCCGAAATT 17 175 1 GTGCGGTATT 0.996017 -67 AAGGTTTAAAGTGCGGTTAAAAATTTCGGAGAAT 17 196 0 GTGCGGTAAT 0.980571 -46 AAGGTTCAGAGTGCGGTCATTTTAACGGTCATTC 18 224 1 GTGCGGTTTA 0.971158 -77 AATGAATAAAGTGCGGTCATTTTTTACCGCACTT 19 30 0 GTGCGGTTTT 0.995499 -54 TTTACAAAAAGTGCGGTGAAAATTCGCCGACTTT 20 14 1 GTGCGGTATT 0.996017 -85 TAATTTGTAAGTGCGGTTTCTATATAAGGAGGAT 23 29 1 GTGCGGTTTA 0.971158 -134 CTTAAATAAAGTGCGGTCAATTTTTTACTATTT 26 10 0 GTGCGGTTTT 0.995499 -62 CTTTATTTAAGTGCGGTCTGTTTTTATAGCCTTT 26 33 1 GTGCGGTTTT 0.995499 -39 CATTGCCAAAGTGCGGTAAATTTTTGAGCTGTTT 34 14 0 GTGCGGTTTT 0.995499 -137 TGGCAATGAAGTGCGGTATTTTTTATGAAAAAAC 34 40 1 GTGCGGTTTT 0.995499 -111 AATCCTTAAAGTGCGGTTAAATTTTGCCGTAAAT 35 273 0 GTGCGGTATT 0.996017 -28 GCTAATATTGGTTCGGTTCCAGTTGGAGCTGGGG 41 95 1 GTTCGGTATT 0.865542 -206 ATTTCTTAAAGTGCGGTAAAAATACGATAAATTT 42 77 0 GTGCGGTATA 0.974405 -111 GAAATAAAAAGTGCGGTGGTTTTTTAGTTGTTTT 44 130 0 GTGCGGTTTT 0.995499 -119 TGCTGCAAAAGTGCGGTTAAAATTTAAGGTGATT 44 223 1 GTGCGGTATT 0.996017 -26 ATAGAGAAAAGTGCGGTAAAAATTGTCGGAGATT 46 144 0 GTGCGGTATT 0.996017 -48 CGTATGATAAGTGCGGTCAATTTTTGAGGTGTTT 48 189 1 GTGCGGTTTT 0.995499 -26 ATGCTCAAAAGTGCGGTAAAAAAAGAAACGTTTT 50 119 0 GTGCGGTAAA 0.88484 -29 GATCATAAAAGCGCGGTGGATTTTCAGACATTTG 51 117 1 GCGCGGTTTT 0.932043 -118 CACAACAAAAGTGCGGTTAAAATTAACCGCACTT 57 25 0 GTGCGGTATT 0.996017 -41 CACTTTAAAAGTGCGGTCAGATCTAAAGATGTTT 60 11 0 GTGCGGTACT 0.948596 -59 CACTTTTAAAGTGCGGTTGTTTTTTTCGTAAATT 60 32 1 GTGCGGTTTT 0.995499 -38 TAAACCTAAAGTGCGGTGAAAAATCACCACACTT 61 15 1 GTGCGGTAAT 0.980571 -114 TCCTTCAAAGTGCGGTGAAAAATTCAACAAATT 62 10 1 GTGCGGTAAT 0.980571 -170 ATAAGAAAAAGTGCGGTAAAAATTTGTTGAATTT 62 30 0 GTGCGGTATT 0.996017 -150 TCTTTTAAAAGTGCGGTAAAAAATAAAGGTATTT 65 11 1 GTGCGGTAAT 0.980571 -250 ATCATCAAAAGTGCGGTGATTTTTTACGGTACTT 67 169 0 GTGCGGTTTT 0.995499 -81 ******* * ** Masking position 7 Map Score: 129.568 Number of sites scoring better than the average of aligned sites = 763 Number in coding regions = 481 Number in noncoding regions = 282 Number of orfs with sites within 600 bp upstream = 209 Fraction of orfs with sites within 600 bp upstream = 0.0335689 Motif number 3 GGGTTATAGGTTTTGAGAAAAAATAGTCTATGG 2 42 0 TTTTGAAAAA 0.86009 -239 TAAAGATTGATTTTATTAGAAAAATATCAAATT 2 140 0 TTTTTAAAAA 0.511756 -141 AAACTTGCAATTTTGCTTGAAAAGTATAAAATT 4 117 0 TTTTTTAAAA 0.690014 -176 CATCCAGCTGTTTTAGGTCAAATTTACGCGTAT 4 224 1 TTTTGTAAAT 0.806094 -69 CAGATTTCACTTTATTTTGAAAACGAAATTTTA 5 54 0 TTTATTAAAA 0.596443 -76 AATTAGGTTCTTTTATATGAAATATAATGTAAT 7 19 0 TTTTATAAAT 0.607881 -280 AAGGCATTGTTTTTAATATAAATTTTAAGGAAA 7 271 1 TTTTTAAAAT 0.886654 -28 AATTAAAGGATTTTTGTAAAAATTAGGGGATTT 13 75 0 TTTTTAAAAT 0.894547 -67 GCATCTTTCCTTTTATGATAAAACGGAATATAA 21 23 0 TTTTGAAAAA 0.816609 -190 ATAAATATGTTTTTGATATAAATGAACTGACAA 21 72 0 TTTTTAAAAT 0.886654 -141 ATTTTAGATTTTTTACGTAAAATTCGCTGACTT 23 113 1 TTTTGTAAAT 0.806094 -50 ATTTAAATAAAAATGGAAATAACT 24 2 1 TTTATAAAAT 0.843418 -117 ATTTTCAAAATTTATTTATAAAAGAGCGGTCAA 24 94 1 TTTATAAAAA 0.785868 -25 CAATTATAATTTTTCGTTGAAAATTAACCTTTT 28 52 1 TTTTTTAAAA 0.690014 -48 ATTTATAGTATTTTTCGAAAAATTGTGATTTAT 29 202 1 TTTTGAAAAT 0.916042 -99 TTCGTCAATATTTTCAGTAAAAAGGAGCAATT 32 10 0 TTTTGTAAAA 0.732667 -101 TTAGTTTAAATTTATCGAGAAATAAAAAATTGC 32 79 0 TTTAGAAAAT 0.873676 -32 TTTGTCGGTTTTTTCATAAAAAATACCGCACTT 34 48 0 TTTTTAAAAA 0.568894 -103 TATAGTGCAATTTACTTAGAAAATTTTAACCCC 34 123 1 TTTATAAAAA 0.785868 -28 TATAGCGAATTTTTCAAACAAATGCTTATGCTA 35 227 0 TTTTAAAAAT 0.805825 -74 ATACTCCCTATTTTCAAAAAAAAGATTTTGTAA 36 246 0 TTTTAAAAAA 0.487853 -55 GAATGGCGGGTTTAATGTAAAATTTATGACGAA 40 67 0 TTTAGTAAAT 0.724895 -82 TTTTATCGTATTTTGTAAAAAATTATAAACAAA 41 147 1 TTTTAAAAAT 0.785686 -154 TTTAGTTGTTTTTTACAATAAATTTTCAATTTT 44 109 0 TTTTAAAAAT 0.819113 -140 TTGTCGGAGATTTTACAATAAATGCGTGAAAAG 46 123 0 TTTTAAAAAT 0.819113 -69 TCGTTTGCTATTTTACAAAAAAAAGGCTGAAGT 47 156 0 TTTTAAAAAA 0.733674 -55 CTTTATCGTATTTTTTGAAAAATTAAACTATTT 48 132 1 TTTTGAAAAT 0.915382 -83 TTAAGTCTATTTTTAGTAAAAATAGTTTAATTT 48 151 0 TTTTTAAAAT 0.894547 -64 AGGGTAAAATTTTAACGAAAAAACCCTAAAAAA 51 175 0 TTTAGAAAAA 0.840672 -60 GCAATTTCATTTTAATTTTAAAAATGTCATTAA 53 75 1 TTTATTAAAA 0.596443 -105 TTATATCGGGTTTTAAGAAAAATACTTGTGTTC 54 122 0 TTTTGAAAAT 0.915794 -179 GATAAACCTTTTTTCTTACAAATTTTTTTGAAA 55 112 1 TTTTTAAAAT 0.874135 -96 TCTTACAAATTTTTTTGAAAAATTTTAACTATC 55 125 1 TTTTGAAAAT 0.915382 -83 CCATTGCAACTTTAAGGATAAAATTTTATCCTA 59 41 0 TTTAGAAAAA 0.840672 -120 TGCAATGGTATTTTCCTATAAAAGCCATTTAGC 59 66 1 TTTTTAAAAA 0.839556 -95 ACGCCACGTTTTTAATTAGAAAATTGAGAAAAT 59 135 1 TTTATAAAAA 0.785868 -26 TCTCGTTAAATTTACGAAAAAAACAACCGCACT 60 41 0 TTTAAAAAAA 0.686718 -29 TTTTCGTAAATTTAACGAGAAATATT 60 54 1 TTTAGAAAAT 0.873676 -16 TTCACCGCACTTTAGGTTTAAATT 61 2 0 TTTATTAAAT 0.672458 -127 ATTAAAATTTTTTATTTAGAAAAATAAGAAAAA 62 54 0 TTTATAAAAA 0.785868 -126 ACAAAAACCGTTTATTTTTAAATAAGTTATCTA 62 97 1 TTTATTAAAT 0.672345 -83 TTTGCTATTTTTTAAAAAGAAATAAAAATCCTC 64 79 0 TTTAAAAAAT 0.741986 -46 TTTTAAATCAAATAAAGCAAACG 64 112 0 TTTTATAAAT 0.623135 -13 TTGATGATTTTTTATAGAGAAATCTGCATAATA 67 195 1 TTTAGAAAAT 0.873674 -55 **** ** **** Masking position 10 Map Score: 53.8239 Number of sites scoring better than the average of aligned sites = 534 Number in coding regions = 312 Number in noncoding regions = 222 Number of orfs with sites within 600 bp upstream = 177 Fraction of orfs with sites within 600 bp upstream = 0.0284292 Motif number 4 CGTTGCTTGAAAAATAGTGTTAATTTCTTTTATTA 1 64 0 AAAAAGAATT 0.809254 -42 TATATAGACAAAAAGCCTGCGAATTTTATACTTTT 4 96 1 AAAACCAATT 0.667964 -197 ATTATATCGTAAAACAAAATAAATTGTGAATGATA 4 183 0 AAAAAAAATT 0.758126 -110 TTTCGTTTTCAAAATAAAGTGAAATCTGTATAATC 5 59 1 AAAAAAAAAT 0.814774 -71 GATCCGATAAAATACACATAATTTTTTCGCCGC 9 9 1 AAAAACAATT 0.849377 -90 CTACCTTGAGAAAAGAACTTAAAAAGAAAAAGGGG 10 30 0 AAAAAAAAAA 0.771842 -30 AAGTGCGGTAAAAATTATAAAAAATTTGACCGCAC 12 11 1 AAAATAAAAT 0.750025 -74 TTCTTCCTAAAAAAGAAAAACAAATATTAGAGAAT 13 12 0 AAAAAAAAAT 0.814774 -130 GGGAATGATTAAAAATCCCCTAATTTTTACAAAAA 13 63 1 AAAATCAATT 0.79366 -79 TAATTTTTACAAAAATCCTTTAATTGAAAGGCGAA 13 83 1 AAAATCAATT 0.79366 -59 CGAAATTTCTAAAATACAACTAAAATTAACCGCAC 13 114 1 AAAAACAAAA 0.858881 -28 CTCATCCAAAAAAGAGTCAATAACGTTGGTTA 15 49 0 AAAAAGAATA 0.765411 -22 AACGAACAAGAAAAATGGTGCAAATGCCGTCGCTT 16 48 1 AAAATGAAAT 0.802419 -84 AAGTATAAAGAAAATACGCCTAAAAAGCGACGGCA 16 72 0 AAAAACAAAA 0.858881 -60 AAGTGCGGTCAAAATTCTCCGAAATTTTTAACCGC 17 183 1 AAAATCAAAT 0.843702 -59 AGATTGATTAAAAATCAATCTAAATCTTTGCTAAT 18 53 0 AAAACAAAAT 0.610783 -248 CTTTCTATCAAAAACACGGTTAAATTAAGCAATAA 18 95 0 AAAAACAAAT 0.887816 -206 CAACTTGAGCAAAACAACGACAAATAACGGTGAAT 18 149 0 AAAAAAAAAT 0.814774 -152 TAATCAATTAAAAAGTGCGGTAAAAAATGACCGCA 19 18 1 AAAATGAAAA 0.757475 -66 TTCATTATTAAAAATAAGGAAAAATT 19 68 1 AAAAAAAAAT 0.814774 -16 TTTTCTTATGAAAAGTCGGCGAATTTTCACCGCAC 20 24 0 AAAATCAATT 0.79366 -75 TTTTCATAAGAAAACAAGTAGAATAAGCCGAATTT 20 45 1 AAAAAAAATA 0.706789 -54 GAAAGATGCAAAAACAGAAATAATTTTGTCAGTTC 21 47 1 AAAAAGAATT 0.809254 -166 GGGCTTACAAAAAATTCTGACAAAATATTTTTCCT 23 78 1 AAAATCAAAA 0.805877 -85 TAAAAAATCTAAAATAGGAAAAATATTTTGTCAGA 23 93 0 AAAAAGAATA 0.765411 -70 AATTTTTCGAAAAATACTATAAATTTTACCTATCA 29 191 0 AAAAACAATT 0.849377 -110 TTAAAACAGCTCAAAAATTTACCGCAC 34 3 1 AAAAAGAAAA 0.820756 -148 ATTTTTTATGAAAAAACCGACAAAATGCACTGAAA 34 57 1 AAAAACAAAA 0.858881 -94 TAAATTAATTAAAAGTATAAAAATTTCCGAGTTTA 36 49 1 AAAATAAATT 0.681319 -252 ATTATCAAACAAAAATACTTCAATTGGGTTATCTT 36 117 1 AAAATAAATT 0.681319 -184 ACAACCGCTAAAAAATCAATCAATTACTTTATCTA 36 190 0 AAAATCAATT 0.79366 -111 AATTTTTTACAAAATACGATAAAAATGCCGTTGCA 41 136 0 AAAAACAAAA 0.858881 -165 AATGTGGGCAAAAATAAGGATAAAATTATGAAACT 42 20 0 AAAAAAAAAA 0.771842 -168 AAGTGCGGTAAAAATACGATAAATTTCAGGCATAA 42 68 0 AAAAACAATT 0.849377 -120 CCCTCTTTACAAAAGAGGGGGAATTGCAGGTAAAA 43 26 1 AAAAAGAATT 0.809254 -70 AATTTATTGTAAAAAACAACTAAAAAACCACCGCA 44 118 1 AAAAACAAAA 0.858881 -131 AAAATCACCTTAAATTTTAACCGCA 44 234 0 AAAACAAAAT 0.610783 -15 TGTAATAGAGAAAAGTGCGGTAAAAATTGTCGGAG 46 147 0 AAAATGAAAA 0.757475 -45 TATTTTTAGTAAAAATAGTTTAATTTTTCAAAAAA 48 142 0 AAAATAAATT 0.681319 -73 ATTTTTACTAAAAATAGACTTAAAATAGCGTATGA 48 161 1 AAAAAGAAAA 0.820756 -54 AAAAACACCTCAAAAATTGACCGCAC 48 199 0 AAAAACAAAA 0.858881 -16 CTATTCTACAAAAATAAAGCCAAAAAGAAAACGTT 49 19 0 AAAAAAAAAA 0.771842 -68 AATAATGCTCAAAAGTGCGGTAAAAAAAGAAACGT 50 122 0 AAAATGAAAA 0.757475 -26 GGAACGTAACAAAAACGTTAAAAATCAGTTTTGTG 51 77 1 AAAACGAAAT 0.679907 -158 AATTTTAACGAAAAAACCCTAAAAAATAAATAATT 51 166 0 AAAAACAAAA 0.858881 -69 AAAAGTAAACAAAACCAGCTTAAATAACTGAGCCG 54 162 1 AAAACAAAAT 0.610783 -139 TTTTCGCTTTAAAAGCGAGAAAATTTGAAAGGTAA 55 15 0 AAAACGAATT 0.602152 -193 AACTATCAACAAAAATCGGGTAATATGCGCACGAA 55 151 1 AAAATCAATA 0.747351 -57 TTTTAATTAGAAAATTGAGAAAATAGC 59 144 1 AAAATGAATA 0.689971 -17 AGTGCGGTGAAAAATTCAACAAATTTTTACCGCAC 62 19 1 AAAATCAATT 0.79366 -161 CTATTTTTTAAAAAGAAATAAAAATCCTCTGAAAT 64 73 0 AAAAAAAAAT 0.814774 -52 TCTTTTAAAAGTGCGGTAAAAAATAAAGGTA 65 7 1 AAAATGAAAA 0.757475 -254 ATTAGAATGAAAAAGTACCGTAAAAAATCACCGCA 67 157 1 AAAATAAAAA 0.697654 -93 **** ** **** Masking position 4 Map Score: 62.6111 Number of sites scoring better than the average of aligned sites = 881 Number in coding regions = 585 Number in noncoding regions = 296 Number of orfs with sites within 600 bp upstream = 260 Fraction of orfs with sites within 600 bp upstream = 0.0417604 Motif number 5 TAAACATTATGCAAACGGTTACTCAAAATAAA 21 100 0 GCAAACGTTC 0.929025 -113 TAAATATCAGGAAAACGTTTCCGTTAAATATA 30 104 0 GAAAACGTTC 0.550512 -25 TTTTATTCACGCAATCGGTTATCCGAGCCAAT 35 179 1 GCAATCGTTT 0.830901 -122 CTATATTTAAGCAAACGTTTGCGTTATAATTC 42 126 1 GCAAACGTTC 0.499971 -62 GGAGCAACCTGCAATCGCTTAACAGATGTGCG 47 70 0 GCAATCGTTA 0.732039 -141 TTGTAAAATAGCAAACGATTTTATCCCCTGTC 47 171 1 GCAAACGTTT 0.920388 -40 TTTACGCAAACGTTTTCTTTTTGGCTT 49 6 1 GCAAACGTTC 0.523237 -81 AATTTTGATTGCAAGCAATTTCATTTTAATTT 53 61 1 GCAAGCATTC 0.763254 -119 TAACAATATCGCAAACGTTTGCTTGATGATAT 53 119 1 GCAAACGTTC 0.499971 -61 AAGCCATTTAGCAAACGTTTGCCTGATATATG 59 87 1 GCAAACGTTC 0.499971 -74 TTAAAAAATAGCAAACGTTTGCTTTATTTGAT 64 97 1 GCAAACGTTC 0.499971 -28 ATCTAAATCCGCAAACAGTTCCAAAGGAGACC 65 182 0 GCAAACATTC 0.946239 -79 ******* ** * Masking position 4 Map Score: 21.0539 Number of sites scoring better than the average of aligned sites = 28 Number in coding regions = 11 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 6 CGGTAAAAATTATAAAAAATTTGACCGCAC 12 16 1 TATAAAAAAT 0.604479 -69 AGAAAGAGAAAATAAAAAACAACAAAAGGG 14 42 0 AATAAAAAAC 0.76216 -28 TTTAATAATGAATAAAAATGAATAAAGTGC 19 50 0 AATAAAAATG 0.606931 -34 TAGCCCACAAAATAAAAATATCAATGGTGG 22 26 1 AATAAAAATA 0.588539 -50 ATTTAAATAAAAATGGAAATAACTA 24 6 1 AATAAAAATG 0.606931 -113 TTAAATAAAAATATTTTTACTCC 25 4 1 AATAAAAATA 0.588539 -90 ATCCACTAATAATAGAAAATATAGATTTTT 29 80 1 AATAGAAAAT 0.618101 -221 ATTCTGCCGATATAAAAATCTATATTTTCT 29 93 0 TATAAAAATC 0.634898 -208 TTTATCGAGAAATAAAAAATTGCGTAAGGA 32 72 0 AATAAAAAAT 0.816692 -39 CTACGGTTATAATAGAAATTATTTTATTCC 33 117 1 AATAGAAATT 0.719132 -167 CGTTGAAATAAATAAAAAATCGTCGTTAGA 35 88 1 AATAAAAAAT 0.816692 -213 CGATTGCGTGAATAAAAAATGTTAAGTAGA 35 166 0 AATAAAAAAT 0.816692 -135 TAATTAAAAGTATAAAAATTTCCGAGTTTA 36 54 1 TATAAAAATT 0.707408 -247 GTCTCTCAATAATAAAAATA 44 1 0 AATAAAAATA 0.588539 -248 TAGGGAGAGAAATAAAAAGTGCGGTGGTTT 44 142 0 AATAAAAAGT 0.606931 -107 GCATTTTGACAATAGAAAATGTGGCATAGA 44 196 0 AATAGAAAAT 0.618101 -53 ATACCTATAAAAAATGGTGCGTGAA 45 35 0 TATAAAAAAT 0.604479 -15 GATTGAGGTTAATAGAAATCCATCATCTAA 48 26 1 AATAGAAATC 0.648082 -189 TTCAAACTTAAATAAAAATCCCCAATTGGG 50 39 1 AATAAAAATC 0.835239 -109 AAGAGAGGAAAATAAAAATCCCCAATTGGG 50 59 0 AATAAAAATC 0.835239 -89 TTTCTTCCTTATAGAAATCAGCCCAAAAG 52 36 0 TATAGAAATC 0.387149 -19 GATCAATTGAAATAAAAATTGGGCAGATTA 53 150 0 AATAAAAATT 0.875747 -30 TTGATCTCAATAAAAAGTGCGGTTAATT 57 9 1 AATAAAAAGT 0.606931 -57 GACCTATTCTTATAAAAATTGTGCTTAGGA 59 16 1 TATAAAAATT 0.707408 -145 TATTTTTCTAAATAAAAAATTTTAATTTTT 62 61 1 AATAAAAAAT 0.816692 -119 TTTTTGTGAGAATAAAAATTAAAATTTTTT 62 74 0 AATAAAAATT 0.875747 -106 TTTAAAAAGAAATAAAAATCCTCTGAAATG 64 72 0 AATAAAAATC 0.835239 -53 CAGATTTCTCTATAAAAAATCATCAAAAGT 67 191 0 TATAAAAAAT 0.604479 -59 ********** Masking position 6 Map Score: 23.2216 Number of sites scoring better than the average of aligned sites = 262 Number in coding regions = 133 Number in noncoding regions = 129 Number of orfs with sites within 600 bp upstream = 119 Fraction of orfs with sites within 600 bp upstream = 0.0191134 Motif number 7 GTGGGTTATTGGTTAAAATTACGCACCATT 1 23 1 GGTTAAAATT 0.90514 -83 TAGCATAAATCCTAAAATTTCGTTTTCAAA 5 42 1 CCTAAAATTT 0.388501 -88 GTATTTTCCTCCTAAAAATTGATTGTTCTC 7 57 0 CCTAAAAATT 0.605384 -242 AATGTTTTCCTTAAAATTTATATTAAAA 7 281 0 CCTTAAAATT 0.653812 -18 AAAAGTGCGGCGAAAAAATTATGTGTATTT 9 20 0 CGAAAAAATT 0.642379 -79 AAGTGCGGTAAAAATTATAAAAAATT 12 7 1 GGTAAAAATT 0.885724 -78 TTTAAAGTGCGGTTAAAAATTTCGGAGAAT 17 196 0 GGTTAAAAAT 0.885724 -46 AAATTTACCGCCTTAAAATTAGCAAAGATT 18 36 1 CCTTAAAATT 0.653812 -265 TAAAAAGTGCGGTAAAAAATGACCGCACTT 19 26 1 GGTAAAAAAT 0.862937 -58 ATCTAAAATAGGAAAAATATTTTGTCAGAA 23 92 0 GGAAAAATAT 0.453013 -71 GCGAATTTTACGTAAAAAATCTAAAATAGG 23 110 0 CGTAAAAAAT 0.821223 -53 TAGTAGAATGCGAAAAATTTAGTTATTTCC 24 25 0 CGAAAAATTT 0.42657 -94 ATTGTTGATAGGTAAAATTTATAGTATTTT 29 186 1 GGTAAAATTT 0.762462 -115 GAGTATAAATGCAAAAAAATGTGACATAAA 29 230 0 GCAAAAAAAT 0.351709 -71 TCAAAAGCTAGGTTAAAAATGCTATATTTA 30 82 1 GGTTAAAAAT 0.885724 -47 AAAACGTTTCCGTTAAATATAGCATTTTTA 30 95 0 CGTTAAATAT 0.700772 -34 TTTTATTTCTCGATAAATTTAAACTAAGGT 32 85 1 CGATAAATTT 0.478022 -26 TTTAAGGGGTTAAAATTTTCTAAGTAA 34 134 0 GGTTAAAATT 0.90514 -17 CTTAAAGTGCGGTTAAATTTTGCCGTAAAT 35 273 0 GGTTAAATTT 0.798045 -28 CTCTACAACCGCTAAAAAATCAATCAATTA 36 199 0 GCTAAAAAAT 0.630719 -102 TTACAAAATACGATAAAAATGCCGTTGCAG 41 135 0 CGATAAAAAT 0.642379 -166 GCAAAAATAAGGATAAAATTATGAAACTAC 42 18 0 GGATAAAATT 0.751914 -170 GGTAAAAATACGATAAATTTCAGGCATAAA 42 67 0 CGATAAATTT 0.478022 -121 GCAAACGTTTGCTTAAATATAGAAAAGATT 42 118 0 GCTTAAATAT 0.465463 -70 GGGAATTGCAGGTAAAAAATAGCCGTACTT 43 44 1 GGTAAAAAAT 0.862937 -52 GCAAAAGTGCGGTTAAAATTTAAGGTGATT 44 227 1 GGTTAAAATT 0.90514 -22 AGAAAAGTGCGGTAAAAATTGTCGGAGATT 46 144 0 GGTAAAAATT 0.885724 -48 GTAACAAAAACGTTAAAAATCAGTTTTGTG 51 82 1 CGTTAAAAAT 0.849738 -153 ACGAAAAAACCCTAAAAAATAAATAATTAA 51 164 0 CCTAAAAAAT 0.554793 -71 AGGGTTTTTTCGTTAAAATTTTACCCTTTT 51 181 1 CGTTAAAATT 0.8744 -54 CAAATTAAGGGGTTAAAAATTCGTGCGCAT 55 175 0 GGTTAAAAAT 0.885724 -33 ACAAAAGTGCGGTTAAAATTAACCGCACTT 57 25 0 GGTTAAAATT 0.90514 -41 GCAACTTTAAGGATAAAATTTTATCCTAAG 59 39 0 GGATAAAATT 0.751914 -122 AATATTTCTCGTTAAATTTACGAAAAAAA 60 51 0 CGTTAAATTT 0.742475 -19 GAAAAAGTGCGGTAAAAATTTGTTGAATTT 62 30 0 GGTAAAAATT 0.885724 -150 TTAAAAGTGCGGTAAAAAATAAAGGTATTT 65 15 1 GGTAAAAAAT 0.862937 -246 GAAAAAGTACCGTAAAAAATCACCGCACTT 67 165 1 CGTAAAAAAT 0.821223 -85 TGTCAGAGAAGGTTAAATATTCT 67 237 1 GGTTAAATAT 0.762462 -13 ********** Masking position 5 Map Score: 44.4322 Number of sites scoring better than the average of aligned sites = 604 Number in coding regions = 422 Number in noncoding regions = 182 Number of orfs with sites within 600 bp upstream = 148 Fraction of orfs with sites within 600 bp upstream = 0.0237713 Motif number 8 TTCGACAGTATTTTCCTCCTAAAAATTGATTG 7 62 0 TTTTCCCTAA 0.78652 -237 GTATTTTAGAAATTTCGCCTTTCAATTAAAGG 13 99 0 AATTCCCTTT 0.893109 -43 AAAGGGGCTTAATTGCCCCTTTTGTTGTTTTT 14 26 1 AATTCCCTTT 0.893109 -44 AATTTTTCCTTATTTTTAATAA 19 72 0 AATTTCCTTA 0.702083 -12 TCTGACAAAATATTTTTCCTATTTTAGATTTT 23 93 1 TATTTCCTAT 0.6062 -70 ATAAAAATATTTTTACTCCTTTCTTTTAAGAA 25 15 1 TTTTCCCTTT 0.925245 -79 TTTTTTCTTCCTTTAAAAGGCTAT 26 58 0 TTTTTCCTTT 0.837962 -14 TCAAAATGACTTTTTTACCTAAGAGTGGTAGG 29 155 0 TTTTTCCTAA 0.6062 -146 AAATACTATAAATTTTACCTATCAACAATCAA 29 183 0 AATTTCCTAT 0.6062 -118 AATTGCTCCTTTTTACTGAAAA 32 1 1 AATTCCCTTT 0.893109 -110 AATTGCACCTTAGTTTAAATTT 32 99 0 AATTCCCTTA 0.849405 -12 ATAGAAATTATTTTATTCCTTTTAAGAATTCC 33 128 1 TTTTTCCTTT 0.837962 -156 AATTGCACCTTAGTTTAAATTT 33 272 0 AATTCCCTTA 0.849405 -12 TAAAGTTTGTATTTTTTCCTTACCGATGAATT 48 105 0 ATTTTCCTTA 0.777333 -110 TTTTTCTCCTAAATCTTGAGCT 53 1 1 TTTTCCCTAA 0.78652 -179 TTTTTTACCTTTCAAATTTTCT 55 1 1 TTTTTCCTTT 0.837962 -207 TTTTTCCCCTTAAACATCACAA 57 54 0 TTTTCCCTTA 0.893109 -12 AATTTCCGCCTTTTATTCGGTTA 61 116 0 ATTTCCCTTT 0.925245 -13 ATAATAAACATTTTCCCCCTATACTTCCCCTA 64 39 1 TTTTCCCTAT 0.845146 -86 AGATTTTCACCTTTTATTTAAGTT 67 3 1 ATTTCCCTTT 0.925245 -247 **** * ***** Masking position 4 Map Score: 16.775 Number of sites scoring better than the average of aligned sites = 169 Number in coding regions = 115 Number in noncoding regions = 54 Number of orfs with sites within 600 bp upstream = 54 Fraction of orfs with sites within 600 bp upstream = 0.00867331 Motif number 9 AAAAACACGGTTAAATTAAGCAATAAAAGGTCAA 18 87 0 TTAATTAAAT 0.536273 -214 CCTAGATTAGTTAAGTTAATAAAATTCGGCTTAT 20 67 0 TTAATTAAAA 0.931009 -32 TATGTTCCCTTTAAGTTAATAAGAAAAAGTTGTA 27 41 0 TTAATTAAAA 0.931081 -26 TGTTATGTCCTTAAATTAATTAAAAGTATAAAAA 36 38 1 TTAATTAAAA 0.925985 -263 GATCAGAATATCAAATTAATTAAAATATAGGAGT 37 111 1 TCAATTAAAA 0.77963 -29 ATTCAAATATTTAATTTAAGGAAATCAA 40 5 0 TTAATTAAAA 0.931009 -144 CTTGATAACATTAAATTAGCTAAAGTTTGCACAC 41 258 0 TTAATTAGAA 0.840804 -43 CGTACTTTTTTTAAATTAGGCATACGCAAGGACT 43 67 1 TTAATTAGAA 0.840893 -29 AGTTTGACCTTTCACTTAAGCAGATTATAGAACA 46 72 0 TTCATTAAAA 0.771394 -120 GTTAAATTAATTCATTTAATGACATTTTTAAAAT 53 89 0 TTCATTAAAA 0.771414 -91 ATTAAATGAATTAATTTAACAATATCGCAAACGT 53 103 1 TTAATTAAAA 0.931098 -77 ATACTTGTGTTCAAGTTAAAAATATCTATAATCA 54 100 0 TCAATTAAAA 0.78393 -201 GTTTTTTTCGTAAATTTAACGAGAAATATT 60 50 1 TAAATTAAAA 0.57084 -20 TTTTATTCGGTTAAATTAGTTAAATGAACAGCCG 61 95 0 TTAATTAGAA 0.840804 -34 TTTTAAATCAAATAAAGCAAACGTTT 64 109 0 TTAATCAAAA 0.631473 -16 ACAGATTTGTTTAACTTAAATAAAAGGTGAAAAT 67 13 0 TTAATTAAAA 0.925985 -237 **** **** * * Masking position 8 Map Score: 11.1825 Number of sites scoring better than the average of aligned sites = 36 Number in coding regions = 12 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 10 CAATGCCTTATTTCCCAGATTGCGACTAGC 7 250 0 TTTCCCAGAT 0.830777 -49 TGGATTGCCTCTGATGCTTGTTCTT 9 84 0 TGCCTCTGAT 0.565048 -15 TTTTTAATCATTCCCCTAATGTTTAGCATT 13 48 0 TTCCCCTAAT 0.738424 -94 TTTTCCCAGCTTTATCAATAG 16 121 0 TTTCCCAGCT 0.833406 -11 TCCTCTTGCCTTCCCCTGCTTTGCGAGGGA 17 126 0 TTCCCCTGCT 0.961191 -116 TGGTTTTCCTCTGCTAACTGTTCAG 18 286 0 TTCCTCTGCT 0.742043 -15 AGTTTTCTCCTGATACGGTTTATT 28 5 1 TTCTCCTGAT 0.738424 -95 AACGGAAACGTTTTCCTGATATTTACTA 30 111 1 TTTTCCTGAT 0.49993 -18 TATTTACTGATTTCCCAGATACTTGCGTGG 33 158 0 TTTCCCAGAT 0.830777 -126 ATACACCTGTTGCCCCTGATTTATTCAATA 33 185 1 TGCCCCTGAT 0.917933 -99 TTGCAGTGCTTGCCCCAGCTCCAACTGGAA 41 111 0 TGCCCCAGCT 0.86668 -190 CCCTATTGTCTTCCCCAACTTATGGGGAAG 63 15 1 TTCCCCAACT 0.621311 -127 CTTTGATAGTTTCCCCTGATAAACAGGGAA 63 82 1 TTCCCCTGAT 0.960483 -60 TTTATTTAGCTTTCCCTGTTTATCAGGGGA 63 93 0 TTTCCCTGTT 0.575715 -49 ********** Masking position 1 Map Score: 8.4936 Number of sites scoring better than the average of aligned sites = 116 Number in coding regions = 90 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 11 AGGCAGGCTAAAGCCCACCTTAAAGA 6 6 0 AAGCCCACCT 0.982728 -104 TTGTGGGCTAAAGCCCACCCTACGG 22 5 0 AAGCCCACCT 0.982729 -71 GGGTGGGCTTTAGCCCACAAAATAAAAATAT 22 16 1 TAGCCCACAA 0.891142 -60 GGGTGGGCTTTAGCCCACCATTGATATTTTT 22 39 0 TAGCCCACCT 0.972579 -37 TGGTGGGCTAAAGCCCACCCTACAAGGAACA 22 50 1 AAGCCCACCT 0.982729 -26 TTACGCTATAATGCCCACATTTTTCAGTTTA 40 115 1 ATGCCCACAT 0.929242 -34 ATCCTTATTTTTGCCCACATTTATGTGGGCT 42 34 1 TTGCCCACAT 0.891142 -154 AGGCATAAAAAAGCCCACATAAATGTGGGCA 42 45 0 AAGCCCACAA 0.929242 -143 ********* * Masking position 7 Map Score: 6.92461 Number of sites scoring better than the average of aligned sites = 53 Number in coding regions = 17 Number in noncoding regions = 36 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295 Motif number 12 GCGAGTAATCGCCCCTTTTTCTTTTTAAGTTC 10 19 1 GCCCTTTTCT 0.78043 -41 GGGCAATTAAGCCCCTTTATTTTTGATACTTT 14 12 0 GCCCTTTTTT 0.96555 -58 GGGCTTAATTGCCCCTTTTGTTGTTTTTTATT 14 30 1 GCCCTTTGTT 0.874974 -40 AATGACAAATTCACCGTTATTTGTCGTTGTTT 18 141 1 TCCCGTTTTT 0.744411 -160 AAATATTTTTACTCCTTTCTTTTAAGAATCCG 25 19 1 ACCCTTTTTT 0.83556 -75 GTGATTTATGTCACATTTTTTTGCATTTATAC 29 226 1 TCCATTTTTT 0.434536 -75 AATTGCACCTTAGTTTAAATTTATCG 32 95 0 GCCCTTATTT 0.874529 -16 AATTGCACCTTAGTTTAAATTTTGCG 33 268 0 GCCCTTATTT 0.874529 -16 TATGCACTCCTATATTTTAATTAATTT 37 123 0 ACCCTATTTT 0.450623 -17 TAAAATTCACGCACCATTTTTTATAGGTAT 45 30 1 GCCCATTTTT 0.780758 -20 TACAATACTGGCGCATTTTTTTCTGTTCTATA 46 49 1 GCCATTTTTT 0.858629 -143 TTTAGCCCCGTTATTTTCTCAATCTT 51 219 0 GCCCGTTTTT 0.958367 -16 TGCGACTATAGCTCAGTTGGTTAGAGCACCAC 54 52 0 GCCAGTTGTT 0.554683 -249 ATCAAAAACGGCTCAGTTATTTAAGCTGGTTT 54 173 0 GCCAGTTTTT 0.833011 -128 CGTATAATGTGCACCGATTTTTTATCTGGCTA 54 221 1 GCCCGATTTT 0.787954 -80 CGAATTTTTAACCCCTTAATTTGGAGTAAATC 55 182 1 ACCCTTATTT 0.558232 -26 ** ***** *** Masking position 12 Map Score: 8.07826 Number of sites scoring better than the average of aligned sites = 175 Number in coding regions = 134 Number in noncoding regions = 41 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 13 CCTAAAATTTCGTTTTCAAAATAAAGTGAAAT 5 52 1 CGTTTCAAAT 0.801276 -78 TTTGAGTAACCGTTTGCATAATGTTTATTTTC 21 105 1 CGTTTCTAAT 0.91365 -108 ATCTTCCTCACGTTTTCAAAATTGTCTATTTT 21 147 1 CGTTTCAAAT 0.801276 -66 AGAGTTTTCCTTATTAGGGTGAGT 25 80 0 AGTTTCTTAT 0.611358 -14 TTAACGGAAACGTTTTCCTGATATTTACTA 30 109 1 CGTTTCTGAT 0.956242 -20 GTTGTCATAGCGTTATCCTTATTCGTTGAAAT 35 65 1 CGTTACTTAT 0.718028 -236 GATAATTAGCCGTTTTCATTTGTTAGATTTC 35 124 0 CGTTTCTTT 0.174224 -177 TTGAAAAGCCCGTTTTCAGGATACTCAAACAG 37 79 0 CGTTTCGGAT 0.78954 -61 ACCTTTCTGGCGTTTACCATTTGAAGATTTTC 41 28 1 CGTTTCATTT 0.798823 -273 TTTAAGCAAACGTTTGCGTTATAATTCTCATC 42 131 1 CGTTTCTTAT 0.967491 -57 GGGATAAAATCGTTTGCTATTTTACAAAAAAA 47 166 0 CGTTTCATTT 0.798823 -45 TTTACGCAAACGTTTTCTTTTTGGCTTTATTT 49 11 1 CGTTTCTTTT 0.912433 -76 ATATCGCAAACGTTTGCTTGATGATATAATCT 53 124 1 CGTTTCTGAT 0.956242 -56 ATTTAGCAAACGTTTGCCTGATATATGTAAGA 59 92 1 CGTTTCTGAT 0.956242 -69 AATGAACAGCCGTTTACTTTACTCTTTTTCGG 61 75 0 CGTTTCTTAC 0.790539 -54 AAATAGCAAACGTTTGCTTTATTTGATTTAAA 64 102 1 CGTTTCTTAT 0.967491 -23 ***** * **** Masking position 4 Map Score: 15.2477 Number of sites scoring better than the average of aligned sites = 90 Number in coding regions = 73 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 14 TTTTGATTTTGTGATCAATATCACAATGTTTACTT 2 78 0 GTAAAATCAA 0.924415 -203 ATTTTGTCAGTTCATTTATATCAAAAACATATTTA 21 69 1 TTATAATCAA 0.700536 -144 TTTTGAAAACGTGAGGAAGATCACAGTTTTAGAAA 21 133 0 GTAAAATCAA 0.924415 -80 TTATAATTGTTTGACGAATATCAAAAAATAAACCG 28 26 0 TTAAAATCAA 0.62953 -74 GCAAAAAAATGTGACATAAATCACAATTTTTCGAA 29 215 0 GTATAATCAA 0.943936 -86 AATAAAAAATGTTAAGTAGATCAAAAAATTGATAA 35 151 0 GTATAATCAA 0.943936 -150 GTAATTTTACGTCTGTTATATCACATTATCAAACA 36 93 1 GTTTAATCAA 0.790459 -208 CTAATTTAATGTTATCAAGATCATTGAAGTAAGGA 41 273 1 GTAAAATCAT 0.586193 -28 AAATTTGGTGGTAAACTATATCATAAGTTATATTG 44 37 1 GTATAATCAA 0.943936 -212 ATCTAAGATGGTTTGAAAAATCAGACATAGAATAC 48 50 1 GTTAAATCAA 0.732637 -165 AATCAGTTTTGTGACATAGATCATAAAAGCGCGGT 51 99 1 GTATAATCAA 0.943936 -136 CTACTTTTTTGTGATCTATATCAAATCATCATTAG 67 127 1 GTATAATCAA 0.943936 -123 ** * ** **** * Masking position 8 Map Score: 8.65761 Number of sites scoring better than the average of aligned sites = 39 Number in coding regions = 18 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 15 AAGCATAGTGCGGTCAAATTTTTTATAATT 12 23 0 CGGTCAAATT 0.723236 -62 AAAGTGCGGTTAATTTTAGTTGTATT 13 126 0 CGGTTAATTT 0.945586 -16 TTAAAAATTTCGGAGAATTTTGACCGCACT 17 184 0 CGGAGAATTT 0.488207 -58 AATTTTAAGGCGGTAAATTTTAAATGAATG 18 26 0 CGGTAAATTT 0.890814 -275 ATCAAAAACACGGTTAAATTAAGCAATAAA 18 94 0 CGGTTAAATT 0.850266 -207 CGACAAATAACGGTGAATTTGTCATTGTGT 18 137 0 CGGTGAATTT 0.939458 -164 TATGAAAAGTCGGCGAATTTTCACCGCACT 20 23 0 CGGCGAATTT 0.791231 -76 AAATAAAGTGCGGTCAATTTTTTACTATTT 26 11 0 CGGTCAATTT 0.888851 -61 TCTCCTGATACGGTTTATTTTTTGATATTC 28 16 1 CGGTTTATTT 0.49408 -84 CGCTTAGAAAAGGTTAATTTTCAACGAAAA 28 62 0 AGGTTAATTT 0.365798 -38 TTTTATTTCTCGATAAATTTAAACTAAGGT 32 85 1 CGATAAATTT 0.42723 -26 TGCCAAAGTGCGGTAAATTTTTGAGCTGTT 34 15 0 CGGTAAATTT 0.890814 -136 NAAATGAAAACGGCTAATTATCAATTTTTT 35 134 1 CGGCTAATTA 0.386388 -167 CCTTAAAGTGCGGTTAAATTTTGCCGTAAA 35 274 0 CGGTTAAATT 0.850266 -27 GGTAAAAATACGATAAATTTCAGGCATAAA 42 67 0 CGATAAATTT 0.42723 -121 AAAAAAAGTACGGCTATTTTTTACCTGCAA 43 49 0 CGGCTATTTT 0.296073 -47 TGCAAAAGTGCGGTTAAAATTTAAGGTGAT 44 226 1 CGGTTAAAAT 0.234303 -23 TTTTCCTTACCGATGAATTTATTTTATTCA 48 94 0 CGATGAATTT 0.586552 -121 ATGATAAGTGCGGTCAATTTTTGAGGTGTT 48 192 1 CGGTCAATTT 0.888851 -23 CATAAAAGCGCGGTGGATTTTCAGACATTT 51 120 1 CGGTGGATTT 0.563798 -115 ATAAAAAGTGCGGTTAATTTTAACCGCACT 57 20 1 CGGTTAATTT 0.945586 -46 GCCTTTTATTCGGTTAAATTAGTTAAATGA 61 102 0 CGGTTAAATT 0.850266 -27 TACCTACCCGCGGTAAAATACCTTTATTTT 65 30 0 CGGTAAAATA 0.283433 -231 GGTATACCCACGGTTAATTATGGTTATAGT 65 56 1 CGGTTAATTA 0.720529 -205 ATCAAAAGTGCGGTGATTTTTTACGGTACT 67 170 0 CGGTGATTTT 0.605954 -80 ********** Masking position 2 Map Score: 21.2202 Number of sites scoring better than the average of aligned sites = 433 Number in coding regions = 282 Number in noncoding regions = 151 Number of orfs with sites within 600 bp upstream = 106 Fraction of orfs with sites within 600 bp upstream = 0.0170254