AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00230_bsub_reg_300.orf -o00230_bsub_300.ace -a/home/amcguire/alignace/lib/ORF_bsub.txt -z/skink1/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 Purged sequences: rplB 31 ribosomal protein L2 (BL2) rpsN 22 ribosomal protein S14 rpsE 24 ribosomal protein S5 sigD 22 RNA polymerase sigma-28 factor (sigma-D) Input sequences: #1 dnaA 300 alternate gene name: dnaH, dnaJ, dnaK #2 dnaN 188 DNA polymerase III (beta subunit) #3 guaB 120 inositol-monophosphate dehydrogenase #4 dnaX 300 DNA polymerase III (gamma and tau subunits) #5 csfB 300 alternate gene name: yaaM; sigma-F transcribed gene #6 xpaC 119 xpaC #7 yaaO 81 similar to lysine decarboxylase #8 yaaQ 73 similar to hypothetical proteins #9 metS 300 methionyl-tRNA synthetase #10 yabD 78 similar to hypothetical proteins #11 yabE 155 similar to hypothetical proteins #12 yabF 144 similar to hypothetical proteins #13 yabG 161 yabG #14 veg 210 veg #15 sspF 159 small acid-soluble spore protein (alpha/beta-type SASP) #16 yabH 147 similar to hypothetical proteins #17 purR 55 transcriptional regulator #18 spoVG 193 spoVG #19 gcaD 192 UDP-N-acetylglucosamine pyrophosphorylase #20 prs 22 phosphoribosyl pyrophosphate synthetase #21 spoIIE 300 serine phosphatase #22 yabS 84 similar to hypothetical proteins #23 yabT 88 yabT #24 yacA 103 similar to cell-cycle protein #25 cysE 300 serine acetyltransferase #26 sigH 62 RNA polymerase sigma-30 factor (sigma-H) #27 rpmG 92 ribosomal protein L33 #28 secE 33 preprotein translocase subunit #29 nusG 178 transcription antitermination factor #30 rplK 167 ribosomal protein L11 (BL11) #31 rplA 93 ribosomal protein L1 (BL1) #32 rplJ 251 ribosomal protein L10 (BL5) #33 rplL 46 ribosomal protein L12 (BL9) #34 ybxB 89 alternate gene name: ybaA; similar to hypothetical proteins #35 rpoB 245 RNA polymerase (beta subunit) #36 rpoC 61 RNA polymerase (beta' subunit) #37 ybxF 180 alternate gene name: ybaB; similar to ribosomal protein L7AE family #38 rpsL 113 ribosomal protein S12 (BS12) #39 rpsG 41 ribosomal protein S7 (BS7) #40 fus 53 elongation factor G #41 tufA 119 elongation factor Tu #42 ybaC 98 ybaC #43 rpsJ 235 ribosomal protein S10 (BS13) #44 rplC 39 ribosomal protein L3 (BL3) #45 rplD 27 ribosomal protein L4 #46 rpsS 57 ribosomal protein S19 (BS19) #47 rpsQ 22 ribosomal protein S17 (BS16) #48 rplN 40 ribosomal protein L14 #49 rplX 37 ribosomal protein L24 (BL23) (histone-like protein HPB12) #50 rplE 26 ribosomal protein L5 (BL6) #51 rpsH 31 ribosomal protein S8 (BS8) #52 rplF 29 ribosomal protein L6 (BL8) #53 rplR 32 ribosomal protein L18 #54 rplO 30 ribosomal protein L15 #55 adk 54 adenylate kinase #56 infA 300 initiation factor IF-I #57 rpmJ 33 ribosomal protein L36 (ribosomal protein B) #58 rpsM 22 ribosomal protein S13 #59 rpoA 176 RNA polymerase (alpha subunit) #60 yclB 89 similar to phenylacrylic acid decarboxylase #61 yeaD 300 similar to hypothetical proteins from B. subtilis #62 yebA 196 similar to hypothetical proteins #63 guaA 232 GMP synthetase #64 purE 300 phosphoribosylaminoimidazole carboxylase I #65 purC 72 phosphoribosylaminoimidazole succinocarboxamide synthetase #66 purM 101 phosphoribosylaminoimidazole synthetase #67 yfkN 242 similar to 2',3'-cyclic-nucleotide 2'-phosphodiesterase #68 yhcU 110 yhcU #69 yhcV 136 similar to hypothetical proteins #70 yitA 300 similar to sulfate adenylyltransferase #71 yjbP 234 similar to diadenosine tetraphosphatase #72 abh 283 transcriptional regulator #73 kinC 189 two-component sensor histidine kinase #74 ykqB 62 alternate gene name: ylxV, yzaC; similar to hypothetical proteins #75 adeC 154 adenine deaminase #76 yloB 115 similar to calcium-transporting ATPase #77 yloC 82 similar to hypothetical proteins #78 yloD 233 similar to guanylate kinase #79 flgB 300 flagellar basal-body rod protein #80 fliF 45 flagellar basal-body M-ring protein #81 fliH 117 flagellar assembly protein #82 fliK 160 fliK #83 flgE 21 flagellar hook protein #84 fliL 251 flagellar protein #85 fliM 33 flagellar motor switch protein #86 cheY 25 two-component response regulator #87 flhA 32 flagella-associated protein #88 cheW 21 cheW #89 ylxL 28 ylxL #90 rpsB 143 ribosomal protein S2 #91 tsf 101 elongation factor Ts #92 smbA 145 uridylate kinase #93 yluA 130 similar to hypothetical proteins #94 yluB 61 similar to hypothetical proteins #95 proS 32 prolyl-tRNA synthetase #96 polC 108 DNA polymerase III (alpha subunit) #97 ylxS 300 alternate gene name: ymxA; similar to hypothetical proteins #98 nusA 34 nusA #99 truB 81 tRNA pseudouridine 55 synthase #100 rpsO 156 ribosomal protein S15 (BS18) #101 pnpA 172 polynucleotide phosphorylase (PNPase) #102 miaA 98 tRNA isopentenylpyrophosphate transferase #103 ymaH 39 similar to host factor-1 protein #104 ymzC 195 ymzC #105 ymzA 81 ymzA #106 ymaA 242 similar to ribonucleoprotein #107 deoD 300 purine nucleoside phosphorylase #108 yosP 300 similar to ribonucleoside-diphosphate reductase (beta subunit) #109 xpt 300 xanthine phosphoribosyltransferase #110 ndk 115 nucleoside diphosphate kinase #111 gerCA 162 heptaprenyl diphosphate synthase component I #112 mtrB 21 tryptophan operon RNA-binding attenuation protein (TRAP) #113 mtrA 187 GTP cyclohydrolase I #114 hbs 300 non-specific DNA-binding protein HBsu #115 drm 160 phosphodeoxyribomutase #116 ripX 300 integrase/recombinase #117 relA 167 GTP pyrophosphokinase #118 yrvE 66 similar to single-strand DNA-specific exonuclease #119 yrvD 75 yrvD #120 yrvC 157 yrvC #121 secF 125 protein-export membrane protein #122 yrvB 38 yrvB #123 yrzD 115 yrzD #124 polA 243 DNA polymerase I #125 phoP 211 two-component response regulator #126 citH 43 malate dehydrogenase #127 citC 163 isocitrate dehydrogenase #128 citZ 300 citrate synthase II #129 pykA 42 pyruvate kinase #130 pfk 183 6-phosphofructokinase #131 yttI 300 similar to acetyl-CoA carboxylase #132 dnaE 300 DNA polymerase III (alpha subunit) #133 yunH 174 similar to allantoinase #134 ureA 300 urease (gamma subunit) #135 rpoE 182 RNA polymerase (delta subunit) #136 ywjF 154 similar to hypothetical proteins #137 purA 205 adenylosuccinate synthetase #138 yycE 120 yycE #139 dnaC 169 replicative DNA helicase Motif number 1 TATAGAACACAAAAAAAGAGCAAATGGCGC 1 234 0 AAAAAAAGAG 0.783508 -67 CCATTTTCTAAGAAAAGGAGGGACGTGCCG 1 277 1 AGAAAAGGAG 0.940401 -24 GTGTTTCGACAAGAAAGGAGTTTTTCACTT 10 59 1 AAGAAAGGAG 0.933608 -20 GGACTCAGCGAAAAAAGGCGCTTTCTCAAG 13 95 1 AAAAAAGGCG 0.853826 -67 CCTCATCATGAAAGAAAGAGCCTTGAGAAA 13 116 0 AAAGAAAGAG 0.599119 -46 TATCACTTCTAAAAAAGGAGTTGTTTCGT 15 141 1 AAAAAAGGAG 0.963538 -19 TCTACCCAATAAAAAAAGCGTCTCTGCATG 25 250 0 AAAAAAAGCG 0.44443 -51 TTAAGCCATGAAAAAAGGAGGTTCTAATA 34 71 1 AAAAAAGGAG 0.963538 -19 ATCCGAAGATAAAAAGGGAGGTAGGCCCC 36 43 1 AAAAAGGGAG 0.951316 -19 ATTTCCTAATAAGGAAGGAGAAATTACCCA 40 34 1 AAGGAAGGAG 0.853092 -20 GTGATGTAGGCGAAAAGGAGGGAAAATA 43 218 1 CGAAAAGGAG 0.839799 -18 TTCTCTTAGGAAAGGAGGAAATTGATT 45 8 1 AGGAAAGGAG 0.893575 -20 TATTAAAAGGAAGGGAGGTCTATCTC 50 8 1 AGGAAGGGAG 0.861278 -19 TCCCCAAGAAAGGGAAGGAGGTAATTATAT 51 11 1 AGGGAAGGAG 0.776149 -21 GCTTAAAGTGAAGAAAGGAGTGACCTAG 53 15 1 AAGAAAGGAG 0.933608 -18 TACTGATTTGAAGAAGGGAGAACACTTGA 56 282 1 AAGAAGGGAG 0.912267 -19 GCATACAAGACAAAAGGGAGAAACGCGTAA 61 46 0 CAAAAGGGAG 0.866525 -255 CGGCCTTGCCAAAGAGGGCGGAGCGAGCTT 63 155 1 AAAGAGGGCG 0.640756 -78 ATGATTATTGTAAAAGGGAGAAAAATGAGT 67 143 0 TAAAAGGGAG 0.646865 -100 CCTTCCGCTTCGAAAAGGAGCCATTTAAC 68 10 0 CGAAAAGGAG 0.839799 -101 CGAGCCGTTTAAAAAGGGAGTTAGAGGAAA 69 80 0 AAAAAGGGAG 0.951316 -57 AACCCTGACTTAAAAAGGAGGTTCTGATT 71 10 0 TAAAAAGGAG 0.712414 -225 AATTATGCTAAAAAAGGCGGAGTGATATC 73 10 1 AAAAAAGGCG 0.853826 -180 ATTGGCACGCAAAAAAGGCGGAGATGATAT 73 35 0 AAAAAAGGCG 0.853826 -155 CCATATAATAAAAAAAGGAGGGGCCTAT 75 137 1 AAAAAAGGAG 0.963538 -18 AAATGCCGAAAAGAAAGGAGAAAAAACAGA 79 67 1 AAGAAAGGAG 0.933608 -234 CTGACGATTTAGAGAAAGAGTGGAATGACC 80 16 1 AGAGAAAGAG 0.471557 -30 CGAAACACAAGGAGAGAGATAGATT 86 9 1 AAGGAGAGAG 0.370302 -17 ATTTTTCTTGAAAAAAGGTGATAAAAGGCA 91 37 0 AAAAAAGGTG 0.614411 -65 AAAAAGAGAGGATAGGCGTA 99 1 1 AAAAAGAGAG 0.727975 -81 AAAAAACTCAAAAGAAGGAGTGAAAGGCAA 99 62 1 AAAGAAGGAG 0.916056 -20 TTAGGGCCCAAAAAAGAGAGCAGAACGAGA 106 78 0 AAAAAGAGAG 0.727975 -165 AACCTAACCGCAGGAAGGAGGGGTGGGACA 107 109 0 CAGGAAGGAG 0.658616 -192 GACGTATAGAAAAAAAGGAGGCTTTCAAG 115 142 1 AAAAAAGGAG 0.963538 -19 TTTACATTTTAAAAAAGGTGATTCC 117 153 1 AAAAAAGGTG 0.614411 -15 GAAAAACAATAAAAAAGGAGCGTGGAATTC 123 96 1 AAAAAAGGAG 0.963538 -20 TAAAAAGAGAGAAAGGCTTGC 125 2 1 AAAAAGAGAG 0.727975 -210 GGAAATTTATTGAAAAGGAGATGTTATAT 128 282 1 TGAAAAGGAG 0.59663 -19 GAACCCTTCACAAAAGGGAGGTAATCATTT 131 199 1 CAAAAGGGAG 0.866525 -102 ATGTTTTTATAGAAAAGGAGAATGCGCT 133 9 0 AGAAAAGGAG 0.940401 -166 CCATTCTCGAAGAAAGGGAGGTGATGTCCC 134 214 1 AGAAAGGGAG 0.921058 -87 TTATATGACAAAAGAAGGAGGACTACAG 134 283 1 AAAGAAGGAG 0.916056 -18 TATAAGTAATAGAAAGGGAGTGTCCGACC 135 164 1 AGAAAGGGAG 0.921058 -19 ACCTTTACTACGGAAAGGAGTGCCGGT 136 8 0 CGGAAAGGAG 0.736114 -147 TAAAATGGTGCAAAAAGGAGATGGTAACAA 138 100 1 CAAAAAGGAG 0.897746 -21 ********** Masking position 5 Map Score: 62.6324 Number of sites scoring better than the average of aligned sites = 684 Number in coding regions = 433 Number in noncoding regions = 251 Number of orfs with sites within 600 bp upstream = 305 Fraction of orfs with sites within 600 bp upstream = 0.0489881 Motif number 2 AATGGCGTCTTTCTCTGTTATAGAACACAAAAAAAGAGCA 1 242 0 TTCTTTTTAA 0.74501 -59 ATTAGGTGAGTTTTTTGTTATGTAAAAAGAGCTTTTGGAA 4 216 1 TTTTTTTTAA 0.927437 -85 AAAGGTCTTTTTTTGTACTCTTAATAATAAAAAGAAGATG 6 17 1 TTTTTCTTAA 0.829138 -103 CGAACAGACTTTTTTTATTTTCATTAAAGATTTTTAATTT 9 105 1 TTTTTTTTAA 0.927458 -196 GCCCTCTGTTTTTTTCGTTATAATAGACAAAGTGCATTTT 12 40 1 TTTTCTTTAA 0.692567 -105 ATACAAAAGTTTTTATTTTGTCTTGGAGGAAATA 12 121 1 TTTTTTTTAA 0.927458 -24 GCTATGCGGGTTTTTTATTTTACATAATGATACATAATTT 14 34 1 TTTTTTTTAA 0.927458 -177 TATGTGACTGTTTTATCTTTTGTTAAATCAGATGGAACTT 15 78 0 TTTTTTTTAA 0.927458 -82 GAAGCCGATTTTTTTCATTTTTAGACAACATTCCGGAAAT 21 137 1 TTTTCTTTAA 0.789442 -164 GTTCAGCGGGTTTTTTATTGTGGCTTAAAATGAAAGTTAT 29 61 1 TTTTTTTTAA 0.927451 -118 AGAAACCCTTTTTTCTTTTGTCTTGTAAAAGTATTTTCTT 35 159 1 TTTTTTTTAA 0.927452 -87 AGACATTGTTTTTTGCCTTTTGATGAACCACCTGGGTATG 38 49 1 TTTTCTTTAA 0.789457 -65 TCTGTCCTCGTTTTTTTCTGTGTCAAAAAACTTAGAGGAG 63 189 1 TTTTTCTTAA 0.829119 -44 AGAGCGGGTATTTTTTATTTTCTGAAAACAAAAGCATTAG 64 256 1 TTTTTTTTAA 0.927458 -45 TCGCGTTTTTTTCTGTGCTATTCTTGAGTAAGACTTAGGA 68 75 1 TTCTTCTTAA 0.587321 -36 AAAAATGAGGTTTTGTTCTCTGAGTGAGAACTAGCATAAC 71 37 0 TTTTTCTTAA 0.829133 -198 GGCCCCTCCTTTTTTTATTATATGGTACAATATGCTATCG 75 122 0 TTTTTTTTAA 0.926817 -33 TTTTAATAAATTTTGCATTTTTCTTCAAAAAGTTTCAAAA 79 29 1 TTTTCTTTAA 0.789456 -272 GAAAGTTTTCTTTTTTCCTTTTGTGGAGAAATAGATGATT 81 25 0 TTTTTCTTAA 0.829094 -93 AACATTGCCGTTTTCTATTATGCAAGAGAAAAAAAGGTTT 92 99 0 TTTTTTTTAA 0.92691 -47 TCTTTTGAGTTTTTTTCTTATAAACGAAGAAAGAGGACAG 99 37 0 TTTTTTTTAA 0.925675 -45 CGAACTTTAATTTTGTTTTTTTAGATATCATTCGTATTTC 109 31 0 TTTTTTTTAA 0.927458 -270 ATACAGCCAATTCTTTTTTTTATGCTATAATGATACCTGC 111 59 1 TTCTTTTTAA 0.789456 -104 TCCACGCTCCTTTTTTATTGTTTTTCAAGAAGACTTGTCA 123 82 0 TTTTTTTTAA 0.927458 -34 GGAAAAATCATTTTATTTTCTATATAAGAAAAATAAAATG 127 96 1 TTTTTTTTAA 0.927451 -68 GCATATTCTGTTTTATTTTGTTTATAATGAGAGGTATGGT 135 74 1 TTTTTTTTAA 0.927458 -109 TTCTTTCTTATGCTAAAGGATGAAAGTTTC 137 1 1 TTCTTTTTAA 0.789451 -205 **** * ** * * * Masking position 11 Map Score: 39.8194 Number of sites scoring better than the average of aligned sites = 176 Number in coding regions = 83 Number in noncoding regions = 93 Number of orfs with sites within 600 bp upstream = 103 Fraction of orfs with sites within 600 bp upstream = 0.0165435 Motif number 3 TTTTATCCTCCTAACGGATAATGTA 2 174 0 ATCCTCCAAC 0.419286 -15 GGGTTTGCCCTCCTCCGTTATTCATCATTC 4 281 0 CTCCTCCTTA 0.773648 -20 CTTCTCCACCTCCGTACAGTTAGCCTC 5 284 0 CACCTCCTAC 0.884081 -17 CTTGAAACCTCCTAATCAGAATGTCA 9 285 0 AACCTCCAAT 0.549956 -16 GGATAAACCTCCGAATTTAGGA 20 7 0 AACCTCCAAT 0.549956 -16 GAGACACACCTCCTTAAGTCCGTGATG 30 151 0 CACCTCCTAA 0.792187 -17 TTTAAAATTTCCTCCTTATGTGGTTATAG 31 75 0 TTCCTCCTAT 0.776641 -19 TTGTAATTCCTCCATTTTGTTTTAATT 33 30 0 TTCCTCCTTT 0.819594 -17 TATTAGAACCTCCTTTTTTCATGGCTT 34 73 0 AACCTCCTTT 0.86877 -17 GGGGCCTACCTCCCTTTTTATCTTCGG 36 45 0 TACCTCCTTT 0.86877 -17 GAATTTTTCCTCCCTTCATTACGTTTT 38 97 0 TTCCTCCTTC 0.796397 -17 CTGAATATCCTCCCTTCATTAATTATG 39 25 0 ATCCTCCTTC 0.796397 -17 TCTAAAATCCTCCTTAAGAGCTTTTAA 41 103 0 ATCCTCCTAA 0.599417 -17 TCGTCACACCTCCTATTAAGATCATTC 44 23 0 CACCTCCATT 0.736234 -17 AATCAATTTCCTCCTTTCCTAAGAGAA 45 10 0 TTCCTCCTTC 0.796397 -18 TTTGGAACCTCCCTTCGTGATTGCAC 46 42 0 AACCTCCTTC 0.850745 -16 TATTTGTTACCTCCCTTCGGAAAAAGAA 48 23 0 TACCTCCTTC 0.850745 -18 ACCAAACACCTCCATTCATGTTAAACT 52 13 0 CACCTCCTTC 0.908799 -17 TAGGACACCTCCTTATCCGATCAAAT 54 15 0 CACCTCCTAT 0.89856 -16 TCTCTGGGCACCTCCTTATAAA 58 4 0 CACCTCCTAT 0.89856 -19 CAACGTGTTCAACCTCCATTTATACGTTTCC 70 91 0 AACCTCCTTT 0.86877 -210 AATCAGAACCTCCTTTTTAAGTCAGGG 71 7 1 AACCTCCTTT 0.86877 -228 GCGGTCTCCTCCTTACCGATTGTTTT 71 219 0 CTCCTCCTAC 0.839583 -16 ATCCACTTACCTCCATTTCAGTTTTTTT 79 283 0 TACCTCCTTT 0.86877 -18 TTTCCTCACCTCCGTATTCTGTCAAAT 85 17 0 CACCTCCTAT 0.89856 -17 GTTATTTCCTCCTAATATAATGGTTT 90 128 0 TTCCTCCAAT 0.456104 -16 TTGTATTCCTCCTTATATGTTTAAAC 91 86 0 TTCCTCCTAT 0.776641 -16 CCTGTTTCACCTCCAAATCATATTTAGC 100 139 0 CACCTCCAAT 0.681156 -18 CCTGTCTACCTCCGTTATGAGAATAAA 109 284 0 TACCTCCTTA 0.740191 -17 GCCTTTCACCTCCTCCCAAAAGGATACATT 114 281 0 CTCCTCCAAA 0.386842 -20 TATGTATATCCTCCCTTAAACCTGTGCG 122 21 0 ATCCTCCTTA 0.6616 -18 AGGGATCTCCATCCTCCCTATGAAACCTTAC 130 97 0 ATCCTCCTAT 0.776641 -87 AACAAATGATTACCTCCCTTTTGTGAAGGGT 131 201 0 TACCTCCTTT 0.86877 -100 GGCGGGACATCACCTCCCTTTCTTCGAGAAT 134 216 0 CACCTCCTTT 0.920468 -85 GTCCGTGCACCTCCGTTAACCTTTCAAA 137 188 0 CACCTCCTTA 0.832794 -18 CTTTCATTCCTCCCTTATGTTTTATTG 139 7 1 TTCCTCCTTA 0.6616 -163 AAAAATCTCCAACCTCCATTCTACCATTTCT 139 127 0 AACCTCCTTC 0.850745 -43 ******* *** Masking position 5 Map Score: 50.0153 Number of sites scoring better than the average of aligned sites = 327 Number in coding regions = 139 Number in noncoding regions = 188 Number of orfs with sites within 600 bp upstream = 208 Fraction of orfs with sites within 600 bp upstream = 0.0334083 Motif number 4 CTTTTTACATAACAAAAAACTCACCTAATATTAG 4 211 0 AAAAAAAACC 0.921137 -90 ATCTTGAGTAAACAAAAAACCCAGCTCATTAAGC 5 146 0 AAAAAAAACG 0.927135 -155 TTTAATGAAAATAAAAAAAGTCTGTTCGTGTCGA 9 99 0 ATAAAAAACG 0.843096 -202 TGTGGTGCGCAAAACAAAAAGCCCTT 13 3 0 AAACAAAACC 0.789342 -159 CATTATGTAAAATAAAAAACCCGCATAGCTCTCC 14 29 0 AAAAAAAACC 0.921137 -182 AAAAAAGGGCAAAACAAAAAGCAGTAAACAAAAG 15 23 0 AAACAAAACG 0.803223 -137 TTATATCCAAAATAAAAAAACCAGGGAACAGCAC 16 29 0 AAAAAAAACG 0.927135 -119 TTGTCTAAAAATGAAAAAAATCGGCTTCTGCAAG 21 131 0 ATAAAAAACG 0.843096 -170 TCCTCTACCCAATAAAAAAAGCGTCTCTGCATGT 25 249 0 AAAAAAAACT 0.59642 -52 TTTAAGCCACAATAAAAAACCCGCTGAACGGGTT 29 56 0 AAAAAAAACC 0.921137 -123 CTTGATAAATAAGAAAAACCCCTGTATAATAAAA 43 17 1 AAAAAAACCG 0.803223 -219 AGAAACGCGTAAAACAAAAACCAGCTGACAAAGC 61 24 0 AAACAAAACG 0.803223 -277 CTCCCACAGCAATAAAAAAGCCAGAAAATAAAAT 62 76 0 AAAAAAAACG 0.927135 -121 CGATAAAGACACTAAAAAAGCCTGTATGTTTCGT 62 139 0 ACAAAAAACG 0.588 -58 GTTTTCAGAAAATAAAAAATACCCGCTCTGCATT 64 251 0 AAAAAAAACC 0.921137 -50 TTCTGATAATATGAAAAACCGCCCTTTGAGGACG 75 24 0 ATAAAAACCC 0.612759 -131 CAACAGTATTAACAAAAAAACCCCCTGTAAACAT 93 53 0 AAAAAAAACC 0.921137 -78 TGTTGTTCTCATAAAAAAAGACCGTGCCTTGGCA 104 118 0 ATAAAAAACG 0.843096 -78 ATATCATAACATGAAAAAAAACTGC 106 2 0 ATAAAAAACG 0.843096 -241 CAATGCTGATATCACAAAAAACCGTACACGTGCG 109 219 0 ATACAAAACG 0.632863 -82 CCGTTATGAGAATAAAAAAAGCATTGCCCGCTCA 109 266 0 AAAAAAAACT 0.59642 -35 ACGGCTTTTTAAGAAAAACTGCACTCTGAGGAAT 114 157 0 AAAAAAACCC 0.789342 -144 TGTCGCTCTAAACAAAAAAGCCGCAGCCACCTGC 115 13 0 AAAAAAAACC 0.921137 -148 AATAAAAACCTCCCAGTATGTAAT 127 150 0 AAAAAAACCC 0.789342 -14 CATCTTTCGAATGAAAAAAACCCCAAGAGCAGCT 138 19 0 ATAAAAAACC 0.831438 -102 ** ****** * * Masking position 7 Map Score: 24.9045 Number of sites scoring better than the average of aligned sites = 318 Number in coding regions = 195 Number in noncoding regions = 123 Number of orfs with sites within 600 bp upstream = 123 Fraction of orfs with sites within 600 bp upstream = 0.0197559 Motif number 5 GCATGTCAAGGAAGCGGGAAAGAGTTGAAA 3 44 0 GAAGCGGGAA 0.646426 -77 TCCTACTCTCACAGGGGGAAACCCCCGACT 5 92 0 ACAGGGGGAA 0.948222 -209 CCGCCCTTTCACGGCGGTAACACGGGTTCG 21 66 1 ACGGCGGTAA 0.660322 -235 AGATAGAGAAACGGGGGGAAGCAT 25 287 1 ACGGGGGGAA 0.947189 -14 AAACGTAATGAAGGGAGGAAAAATTC 38 98 1 AAGGGAGGAA 0.668848 -16 TTCTCTTAGGAAAGGAGGAAATTGATT 45 11 1 AAAGGAGGAA 0.673447 -17 TAAAGAGAGGACGGGGGAAATCCGA 55 40 1 ACGGGGGAAA 0.722579 -15 GTAGACATATAAAGCGGGAGGTTATGAATC 67 11 0 AAAGCGGGAG 0.880785 -232 ATTCTTATAGAAAGCGGGAAACTTTTTCAA 72 181 1 AAAGCGGGAA 0.956426 -103 GCACGCAAAAAAGGCGGAGATGATATCACT 73 31 0 AAGGCGGAGA 0.432616 -159 CGTCTATTTTACAGGGGGAACGTAGAAGAT 78 59 1 ACAGGGGGAA 0.948222 -175 TAATCATAAAACAGCGGAGAAGCGATTACT 84 27 0 ACAGCGGAGA 0.474935 -225 CAAATGTTTTAAGGGGGGAGACCGTTAA 98 17 1 AAGGGGGGAG 0.838608 -18 TCGTAAAAAGCGGGAGGATTCCCGCT 101 7 1 AAAGCGGGAG 0.880785 -166 ATACGATAAAAAAGCGGGAATCCTCCCGCT 101 19 0 AAAGCGGGAA 0.956426 -154 TTTGCTTTTAACAGCGGGGACAGCCAGC 111 9 0 ACAGCGGGGA 0.861659 -154 ATGCTCGCAAACAGCGGGAGGATACAGCCA 111 38 1 ACAGCGGGAG 0.895658 -125 ATAATAGAACAAAGCGGTAAAACCGGTAAA 116 128 0 AAAGCGGTAA 0.630782 -173 GCCAATTTTGACGGCGGGAACCTATTTGTG 124 92 1 ACGGCGGGAA 0.961502 -152 CAACACTCTTAAAGGGGAAATTTATTGAAA 128 267 1 AAAGGGGAAA 0.69596 -34 GTGTGCCCGAACAGCAGGAATTTAATTATT 136 39 1 ACAGCAGGAA 0.769404 -116 TTATCAGTAAAAAGGGGGAATTGGA 136 140 1 AAAGGGGGAA 0.940342 -15 AATAAAACATAAGGGAGGAATGAAAG 139 7 0 AAGGGAGGAA 0.668848 -163 GGACAGTAACAAGGCGGGAAAAATGCAATA 139 33 0 AAGGCGGGAA 0.955549 -137 ********** Masking position 4 Map Score: 22.9218 Number of sites scoring better than the average of aligned sites = 405 Number in coding regions = 335 Number in noncoding regions = 70 Number of orfs with sites within 600 bp upstream = 85 Fraction of orfs with sites within 600 bp upstream = 0.0136524 Motif number 6 TCCTTCCGGACCTGACATGGTTCATGAATT 4 52 0 CCTGACATGG 0.981198 -249 ACCTGAACACCTTGCCATGGCAAAGCGGCC 43 165 0 CTTGCCATGG 0.888379 -71 ATAACCCATTATTGACAGGGACACAAAATC 59 23 0 ATTGACAGGG 0.653162 -154 TATCTTAACAACGGACATGGATAATGTCAA 64 36 0 ACGGACATGG 0.825755 -265 GATCGATAAAACTGACATGGATATATCGCA 64 161 1 ACTGACATGG 0.937502 -140 GCAATACAAACCGGGCATGGTACATGTATC 64 207 0 CCGGGCATGG 0.863526 -94 TTCCTCATGTCTTGACATGGCATTTTTTGA 104 12 0 CTTGACATGG 0.953996 -184 AAGACCGTGCCTTGGCATGGTCAGCTTACA 104 105 0 CTTGGCATGG 0.888379 -91 GCATGGGCTTCCTGACAGGGCATTCACTTT 113 103 1 CCTGACAGGG 0.942814 -85 AAAAAAGCACCCTGACATGGAGTGCTTTTT 117 27 0 CCTGACATGG 0.981198 -141 TGTTACATAAACTGACATGGAAAATCGTCA 133 134 1 ACTGACATGG 0.937502 -41 AAATCGTCATCCTGACATGGGGGGATCAAT 133 155 1 CCTGACATGG 0.981198 -20 CTTCATCAGCCTTGCCATGGTCAACAACCG 134 143 0 CTTGCCATGG 0.888379 -158 ********** Masking position 7 Map Score: 15.0321 Number of sites scoring better than the average of aligned sites = 58 Number in coding regions = 49 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 7 TATAGTAGATAAATAGCTTTTCGACAAATTTCACAACT 1 159 0 AATTTCAAAA 0.906717 -142 ATGTATTAATATATATATTTATAAAAAATAGTAGAAGT 2 141 0 AATTTTAAAA 0.857704 -48 TAATCTACATATAATATTTTGCCGAAAAGAGGGGGATT 3 88 1 AATTTCGAAA 0.745068 -33 CTTGTCCCTTACAGCGTTTTTCTATAAAAGTTCTACAT 11 39 1 AATTTCAAAA 0.906717 -117 GCTCGTTTTTAAAATATTTTTTGAAAAAATAGGATATA 18 97 0 AATTTTAAAA 0.857704 -97 GTCTTGCAGCAGATATATTTATGAAAAAGTCACTCTAT 37 46 1 AATTTTAAAA 0.857704 -135 TCAAATCAGTAACTTGCTTTCTGACAAATTTCAAAAGA 56 255 0 ACTTTTAAAA 0.644428 -46 TCTGATACAAAAAGAGCTTTTCTAAAAATAGAAAAGCC 69 23 0 AATTTCAAAA 0.906717 -114 CAGAGAACAAAACCTCATTTTTAAAAAACATAACGCGA 71 55 1 ACTTTTAAAA 0.644428 -180 GTCGGTAAAGAAATGTTTTTGTAAAAAATCAAGGAACT 72 93 1 AATTTTAAAA 0.857704 -191 AAGAATTACAAGATATTTTTTCCATAAAACCGAAAAAT 72 149 0 AATTTCAAAA 0.906717 -135 CAGCTTCTTCATCTTCTTTTACTACAAACTTCTTACCA 84 151 0 ACTTTCAAAA 0.745068 -101 TATGTATATTACACATTTTTCTTGAAAAAAGGTGATAA 91 43 0 AATTTTGAAA 0.644428 -59 TCACCATAACGATTTATCAAAAAACATGTTAAA 96 6 1 AATTTTAAAA 0.857704 -103 AGGTAAGCGTATATCCATTTGCAATAAAAATATGGTTA 97 82 1 AATTTCAAAA 0.906717 -219 TTTGATCAAAATATGAATTTTTCATAAAAACGAATCTA 106 129 1 AATTTTAAAA 0.857704 -114 TTCAATTGAAATATTTTTTTCCGAAAAAAATGCAGTGA 108 260 0 AATTTCAAAA 0.906717 -41 AAAGACAATTAAACGGCTTTTTAAGAAAAACTGCACTC 114 165 0 AATTTTAAAA 0.857704 -136 ACAAGTTATTATAGAAATTTCCAGAAAAAAAGACATTT 134 40 1 AATTTCGAAA 0.745068 -261 AAGCGAACGAATATAGATTTACAATAAATTAATGTTCG 137 90 1 AATTTCAAAA 0.906717 -116 * * *** * * *** Masking position 9 Map Score: 17.6701 Number of sites scoring better than the average of aligned sites = 194 Number in coding regions = 125 Number in noncoding regions = 69 Number of orfs with sites within 600 bp upstream = 81 Fraction of orfs with sites within 600 bp upstream = 0.01301 Motif number 8 TAGGCTGTGTTTCCTGTCTTTTTCACAACTTATC 2 83 1 TGTCTTTTTC 0.80849 -106 GGTTTTGCGCCCTCTGTTTTTTTCGTTATAATAG 12 32 1 CGTTTTTTTC 0.678128 -113 TATGCTATATTGACAGTATTTTTCTGACTATGAT 27 19 1 TGTATTTTTC 0.777577 -74 TGGCAAGGTGTTCAGGTTTTTCTCACGGAGACTG 43 178 1 TGTTTTTCTC 0.819009 -58 GTTAAATGATTGATATTCTTTTTCTTAGGAGAAT 56 156 0 TTTCTTTTTC 0.47493 -145 TTCATATCTGTCCTCGTTTTTTTCTGTGTCAAAA 63 183 1 TGTTTTTTTC 0.915226 -50 TACCTTAGCTTTCGCGTTTTTTTCTGTGCTATTC 68 64 1 TGTTTTTTTC 0.915226 -47 TAAGACCTTATCACTTTATTTTTCATCATCACCC 71 102 0 TTTATTTTTC 0.42825 -133 ATAGCAGAATTTCTGTTTTTTCTCCTTTCTTTTC 79 74 0 TTTTTTTCTC 0.492264 -227 CTTACCTCCATTTCAGTTTTTTTCACCCTCAATA 79 272 0 TGTTTTTTTC 0.915226 -29 CCATTGCAAATATTTGTATTTTTCGGTAGAAAGC 84 206 0 TGTATTTTTC 0.777577 -46 CCTCCTAATATAATGGTTTTTTTCCTCCGCTTAG 90 113 0 TGTTTTTTTC 0.915226 -31 CACTCCTTCTTTTGAGTTTTTTTCTTATAAACGA 99 50 0 TGTTTTTTTC 0.915226 -32 AAAAGCCGTTTAATTGTCTTTCTCTTACTTGCTC 114 182 1 TGTCTTTCTC 0.638925 -119 CTCTTTACATCTTTCGTTTTTTTCTTGATAGTAA 117 107 1 CGTTTTTTTC 0.678128 -61 TGTTTACCTATAATTTTTTTTTTCCATTCTGTGA 128 47 0 TTTTTTTTTC 0.698167 -254 AAAAGCACGATGCAAGTATTTCTCTCCCCCAAAA 128 212 0 TGTATTTCTC 0.594372 -89 AGAGCTGCTCTTGGGGTTTTTTTCATTCGAAAGA 138 17 1 TGTTTTTTTC 0.915226 -104 AATTGTCTGTTTCCTGTTTTTTTCAGTTAGCAGA 139 75 0 TGTTTTTTTC 0.915226 -95 CAGACAATTTTTCTATTTTTTTTCTGTAGAAATG 139 100 1 TTTTTTTTTC 0.698167 -70 * ********* Masking position 7 Map Score: 17.1302 Number of sites scoring better than the average of aligned sites = 277 Number in coding regions = 227 Number in noncoding regions = 50 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084 Motif number 9 GAATTTTTCCTCCCTTCATTACG 38 101 0 TTTTTCCTCC 0.741443 -13 ATAATACTCATTTTTCTCCCTTTTACAATA 67 138 1 TTTTTCTCCC 0.810303 -105 AATGATAATCTTTTTCTCCCAAAAAACCTG 70 267 0 TTTTTCTCCC 0.810303 -34 GTTTTCACCCAATCTCTATC 72 1 1 GTTTTCACCC 0.890178 -283 CATTTCAGTTTTTTTCACCCTCAATATCCT 79 268 0 TTTTTCACCC 0.935879 -33 GCTGTTTTTTCTCTCCTTTTAAATC 87 18 0 TTTTTCTCTC 0.480699 -15 GTTTTTCACTCGCTAACCATG 89 18 0 TTTTTCACTC 0.759784 -11 TATAATGGTTTTTTTCCTCCGCTTAGGTCA 90 109 0 TTTTTCCTCC 0.741443 -35 GTTTTCACCCTCTGTTTGAT 105 72 0 GTTTTCACCC 0.890178 -10 GGTTACGATGTTTTTTACCCATGTCCCACC 107 88 1 TTTTTTACCC 0.435502 -213 TTTTTTTCCTTTTTTCATCC 114 1 0 TTTTTCATCC 0.900762 -300 AGTATAAACCGTTTTCATTCCCGTTGACAA 115 82 0 GTTTTCATTC 0.522068 -79 TGCATTGAAAGTTTTCATCCTGTTTACCGG 116 106 1 GTTTTCATCC 0.834458 -195 ACCATCCGCCTTTTTCATCCTGATCCATTT 116 236 0 TTTTTCATCC 0.900762 -65 TCTTGGGGTTTTTTTCATTCGAAAGATGGA 138 25 1 TTTTTCATTC 0.662956 -96 ACGCTTTCAATTTTTCATCCGCTGAGCGAA 138 65 0 TTTTTCATCC 0.900762 -56 ********** Masking position 5 Map Score: 11.6339 Number of sites scoring better than the average of aligned sites = 225 Number in coding regions = 180 Number in noncoding regions = 45 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 10 GTTTATTTTGGTATTATATTTGTGTTTTAACTCTTG 1 35 1 GAAATTTTTT 0.291295 -266 TTCGACACGAACAGACTTTTTTTATTTTCATTAAAG 9 98 1 AACTTTTTTT 0.690282 -203 ACAATTCGTCGAACACCTTTTGTGTTTCGACAAGAA 10 38 1 GACTTTTTTT 0.93972 -41 GGGAGAGCCGGGATCACTTTTTTATTTACCTTATGC 18 27 1 GAATTTTTTT 0.743726 -167 TTCATGAAGTGCAAGAATTTTCTATTGAGTGCAACT 19 97 0 GAATTTTTTT 0.743726 -96 TTACATGCAGAGACGCTTTTTTTATTGGGTAGAGGA 25 247 1 AACTTTTTTT 0.690282 -54 CATGTCTCATGGAGGCTTTTTATATGGAATCCGTCG 32 166 1 GACTTTTTTG 0.636173 -86 TTCTTAATTAGAAACCCTTTTTTCTTTTGTCTTGTA 35 150 1 GACTTTTTTT 0.93972 -96 GACCCCTGTGGGTCTCGTTTTTTGTTTGCTTATCTT 42 29 1 GTCTTTTTTT 0.541236 -70 TGCATCATTTGCACACTTTTTTTATTATACAGGGGT 43 34 0 GACTTTTTTT 0.93972 -202 GCAGTATAGGGGACACATTTTGTGTTCCCTATTTTT 92 49 1 GACTTTTTTT 0.93972 -97 TTTGAGCGGGCAATGCTTTTTTTATTCTCATAACGG 109 264 1 CACTTTTTTT 0.5666 -37 CTTAATCTATGTATGAGTTTTATCTTTTCATTCGCT 111 102 0 GAATTTTTTT 0.743726 -61 TTTGACGGCGGGAACCTATTTGTGTTCCCGTCCTTT 124 98 1 GACATTTTTT 0.68827 -146 AATGTTAGGAAAAATCATTTTATTTTCTATATAAGA 127 89 1 AACTTTTTTT 0.69027 -75 TTCATATTTAGAAAACATTTTATTTTTCTTATATAG 127 115 0 GACTTTTTTT 0.939719 -49 CCAGTAAAATGTAAGCATTTTCTTTTTGGGGGAGAG 128 189 1 GACTTTTTTT 0.93972 -112 CGGTACGGAAGCATACTTTTTCTTTTTCGTGAATAT 131 239 0 GACTTTTTTT 0.93972 -62 * * * **** * ** Masking position 9 Map Score: 12.1604 Number of sites scoring better than the average of aligned sites = 69 Number in coding regions = 43 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 11 AAAAGTTATTCACACTTTCCCCGATTGATCCC 2 19 0 CACCTTTCCC 0.857603 -170 AAGTCATACACAGTCTGTCCACATGTGGATAG 2 54 1 CAGCTGTCCC 0.986869 -135 ACAGGAAACACAGCCTATCCACATGTGGACAG 2 68 0 CAGCTATCCC 0.935072 -121 ACTGTTTTTGCAGTCTTTCAGCAGAGAGTTAA 37 16 0 CAGCTTTCAC 0.802509 -165 CCGTTACGCCCAGCCTGTCCCCCGCATGCAAT 61 138 0 CAGCTGTCCC 0.986869 -163 GAACCCCCGACAGCCTTTCCTCATGTCTTGAC 104 26 0 CAGCTTTCCC 0.973254 -170 GCTGGCTGTCCCCGCTGTTAAAA 111 2 1 CTGCTGTCCC 0.930884 -161 AAAATATCAGGCTGTCCTCTGCAGGGCAG 120 8 1 CAGCTGTCCC 0.986869 -150 *** ****** * Masking position 6 Map Score: 5.14817 Number of sites scoring better than the average of aligned sites = 24 Number in coding regions = 19 Number in noncoding regions = 5 Number of orfs with sites within 600 bp upstream = 5 Fraction of orfs with sites within 600 bp upstream = 0.000803084 Motif number 12 ACTTATCGCCGCTCTCGTCCTTTGGGCGGGAGC 9 248 1 GCTCCTCCTT 0.889983 -53 AGTAGTTCACCACCTTTTCCCTATATA 18 177 0 GTTCCACCTT 0.962017 -17 GTTTTAACAAGTTCGCAACCCTTATTCGTGGGA 31 33 1 GTTCCACCTT 0.962017 -61 TCTGTTCCCCACCTTCTAATGCTTTT 64 285 0 GTTCCACCTC 0.906721 -16 CAGTTCTCCACCTTTCAACGAAATT 67 228 0 GTTCCACCTT 0.962017 -15 CCTCCGTGGGGTTCGTTTCCATTCAACGTGTTC 70 112 0 GTTCTTCCTT 0.771933 -189 AGAATTAGGAGTTCCCTTTCCTTGTTCTGAAAG 82 119 0 GTTCCTTCTT 0.771933 -42 ACCTATTTGTGTTCCCGTCCTTTTTTGTGTCTT 124 111 1 GTTCCTCCTT 0.97725 -133 TTGGTTCACTTCCTTCTGAAATCTTC 129 27 0 GTTCCTCCTC 0.942813 -16 ATCTATATTCGTTCGCTTCCATTCGTTTTATAA 137 75 0 GTTCCTCCTT 0.97725 -131 GTCCGTGCACCTCCGTTAACCTTTCAA 137 189 0 GTGCCTCCTT 0.889983 -17 **** * *** ** Masking position 12 Map Score: 8.06305 Number of sites scoring better than the average of aligned sites = 39 Number in coding regions = 28 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 13 TAAAAATGAAAAAAATCGGCTTCTGCAAGAGAA 21 127 0 AAAATGCTTC 0.65104 -174 ACTGATTTCAAAAAACGTTCTTCAAAGGTCTTA 25 114 0 AAAACTCTTC 0.940777 -187 ACTCTGTTTGAAAAGCAGACTTCTGCTCTCCCA 25 182 0 AAAACGCTTC 0.952417 -119 CTCGCCTCATAAAAGCGAGCTTCCCCTACAGGT 34 20 0 AAAACACTTC 0.690902 -70 GAAAGACTGCAAAAACAGTCTTGCAGCAGATAT 37 29 1 AAAACGCTTG 0.755453 -152 TCTAAAATCCTCCTTAAGAGCTTTTA 41 104 0 AAAACTCTTA 0.473361 -16 AAGCTTGAAAAACATCTGTCTTCGGAATT 56 7 0 AACACGCTTC 0.87923 -294 TACTTAAAACCCTCCTTCAAAACGTCGA 59 159 0 AAAACTCTTC 0.940777 -18 TCCTATGAGAAACAGCAGCCTTCCGCTTCGAAA 68 25 0 AACACGCTTC 0.87923 -86 ATCATATCATAAAACCTTTCCTCTAACTCCCTT 69 64 1 AAAACTCCTC 0.654103 -73 AAAAACCCTTCTTCCTTTAAATGT 72 270 0 AAAACTCTTC 0.940777 -14 ACTCTGCATAAAAACCCTGCTTCAAAAGAGCAG 97 237 0 AAAACTCTTC 0.940777 -64 AGCCATGTTTAAAACCAGTCTTGATTGGGAAAG 119 21 1 AAAACGCTTG 0.755453 -55 TGAAACTTCAAAAAACAGGCTGCCCTGCAGAGG 120 26 0 AAAACGCTGC 0.704387 -132 ACGAAAAAGAAAAAGTATGCTTCCGTACCGTCT 131 245 1 AAAATTCTTC 0.596875 -56 TGCCTTCCGGAACATCGTGCTTCGCTTGATCAG 131 276 0 AACACTCTTC 0.852458 -25 AAATTCACCATAAATCCTGCTTCCTGATCCATC 132 140 1 TAAACTCTTC 0.560613 -161 **** * * **** Masking position 4 Map Score: 7.15997 Number of sites scoring better than the average of aligned sites = 194 Number in coding regions = 157 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 14 ACCTGAAAAGGTCTTTTTTTGTA 6 2 1 CCTGAAAAGC 0.952521 -118 ATACATACGCCCTGAAAAAGAATAATTAAAAT 9 141 0 CCTGAAAAGA 0.662932 -160 AAAAGGACCGCCGGCAAAAGGCTTATGTCAGC 19 43 0 CCGGCAAAGC 0.881471 -150 TTGCCTGAAGCCTGAAAAGAACGGAGCGGATA 61 92 0 CCTGAAAAAC 0.91519 -209 CTCATCCTGAAAAAAGTCAGCAGAAAC 62 180 0 CCTGAAAAAT 0.776814 -17 TGGCCTGACTCCGGCAAACGGCCTTGCCAAAG 63 137 1 CCGGCAAAGC 0.881471 -96 CTGATATAAGCCTGAAAATAGCAGAATTTCTG 79 93 0 CCTGAAAAAC 0.91519 -208 TTCTCTTCAGCCTGCAAAAGGTGAGAATGATC 81 84 0 CCTGCAAAGT 0.826132 -34 ATTGTAGTATCCGGAAAACATTCAATCTGTTC 84 107 0 CCGGAAAAAT 0.637296 -145 CCCTATACTGCCTGAAAAGAGCCGACTTAGCC 92 28 0 CCTGAAAAAC 0.91519 -118 CAATCATATACCTGAAAAAGATATCATTGCAG 107 34 0 CCTGAAAAGT 0.866145 -267 TGGGAAGATTCCTGAAAACAGCTGTCGATGCA 116 78 1 CCTGAAAAAC 0.91519 -223 AACAGGCTGCCCTGCAGAGGACAGCCTGATAT 120 14 0 CCTGCAGAGC 0.699112 -144 ******** * * Masking position 6 Map Score: 5.45662 Number of sites scoring better than the average of aligned sites = 128 Number in coding regions = 113 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 15 AGTTCTACATGCTTTCTTCTCCTCATAGGAT 11 67 1 GCTTCTTCTC 0.757493 -89 TGCACGAATGGCTATCACTTCTAAAAAAGGA 15 129 1 GCTTCACTTC 0.861711 -31 AGCTTTCACCTACTTCTCCATC 16 136 0 GCTTCACCTA 0.5247 -12 AGGTCATAAAGCTTTCATTTCGGGCATAAGG 18 55 0 GCTTCATTTC 0.77318 -139 TCCTCTCATCTCCCACCTGTTA 21 289 0 CCTTCATCTC 0.923997 -12 GTGAAAGAAAGCTTTCACTTCCTCATCTTAC 41 47 0 GCTTCACTTC 0.861711 -73 GTGTCAGCAACCTCTCACTTCATCGCAGTCA 43 130 0 CCTTCACTTC 0.876511 -106 GGAAATGGCAGCTCTCTTCTCAGCGTAACCG 61 167 0 GCTTCTTCTC 0.757493 -134 GGCATGTGAACCAGTCACCTCTCTTT 62 6 0 CCATCACCTC 0.856645 -191 TGTTTTTTCTCCTTTCTTTTCGGCATTTTTG 79 64 0 CCTTCTTTTC 0.531917 -237 ACGATATACGCCTATCCTCTCTTTTT 99 6 0 CCTTCCTCTC 0.676067 -76 GCCTTTCACCTCCTCCCAAAAG 114 289 0 CCTTCACCTC 0.956941 -12 CCTCAGGCTTCCATTCATCTCTTACATAGTC 124 204 0 CCATCATCTC 0.765752 -40 TCTCCATTCACCTCAGCAACATAT 130 170 0 CCATCACCTC 0.856645 -14 GCTATCACCTCTTTCTCATTA 132 290 0 GCTTCACCTC 0.951244 -11 *** ******* Masking position 5 Map Score: 7.91843 Number of sites scoring better than the average of aligned sites = 130 Number in coding regions = 88 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912