AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i02010_bsub_reg_100.orf -o02010_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 Purged sequences: yclQ 21 similar to ferrichrome ABC transporter (binding protein) ytmL 21 similar to amino acid ABC transporter (permease) glnH 21 glutamine ABC transporter (glutamine-binding protein) yxeM 24 similar to amino acid ABC transporter (binding protein) Input sequences: #1 ybxA 127 alternate gene name: ybaD; similar to ABC transporter (ATP-binding protein) #2 natA 143 Na+ ABC transporter (ATP-binding protein) #3 ycdH 187 similar to adhesion protein #4 ycdI 55 similar to ABC transporter (ATP-binding protein) #5 opuAA 289 glycine betaine ABC transporter (ATP-binding protein) #6 yckB 300 similar to amino acid ABC transporter (binding protein) #7 yckK 114 similar to glutamine ABC transporter (glutamine-binding protein) #8 yclN 300 similar to ferrichrome ABC transporter (permease) #9 ydbJ 276 similar to ABC transporter (ATP-binding protein) #10 yfmD 71 similar to ferrichrome ABC transporter (permease) #11 yfmC 108 similar to ferrichrome ABC transporter (binding protein) #12 yfiL 143 similar to ABC transporter (ATP-binding protein) #13 ygaL 300 similar to nitrate ABC transporter (binding protein) #14 yhbI 159 similar to transcriptional regulator (MarR family) #15 yhbJ 35 yhbJ #16 yhcA 40 similar to multidrug resistance protein #17 yhcB 22 similar to flavodoxin #18 yhaQ 270 similar to ABC transporter (ATP-binding protein) #19 appD 191 oligopeptide ABC transporter (ATP-binding protein) #20 appA 87 oligopeptide ABC transporter (oligopeptide-binding protein) #21 appB 75 oligopeptide ABC transporter (permease) #22 oppA 300 oligopeptide ABC transporter (binding protein) #23 oppB 107 oligopeptide ABC transporter (permease) #24 dppA 128 dipeptide ABC transporter #25 ykfA 300 similar to immunity to bacteriotoxins #26 yqiY 80 similar to amino acid ABC transporter (permease) #27 yqiX 268 similar to amino acid ABC transporter (binding protein) #28 yqgH 68 alternate gene name: yzmC; similar to phosphate ABC transporter (permease) #29 yqgG 153 alternate gene name: yzmB; similar to phosphate ABC transporter (binding protein) #30 glnQ 155 glutamine ABC transporter (ATP-binding protein) #31 glnM 60 glutamine ABC transporter (integral membrane protein) #32 ytmM 29 similar to amino acid ABC transporter (permease) #33 ytmI 152 similar to hypothetical proteins from B. subtilis #34 ytlA 150 ytlA #35 ytgA 279 similar to ABC transporter (membrane protein) #36 yufN 300 similar to ABC transporter (lipoprotein) #37 yufO 75 similar to ABC transporter (ATP-binding protein) #38 yurJ 181 similar to multiple sugar ABC transporter (ATP-binding protein) #39 yurN 57 similar to sugar permease #40 yurO 80 similar to multiple sugar-binding protein #41 yurP 215 similar to opine catabolism #42 yusC 300 similar to ABC transporter (ATP-binding protein) #43 yvrC 300 similar to iron-binding protein #44 fhuB_fhuD 97 fhuB: ferrichrome ABC transporter (permease), fhuD: ferrichrome ABC transporter (ferrichrome-binding protein) #45 opuBA 274 choline ABC transporter (ATP-binding protein) #46 opuCB 22 glycine betaine/carnitine/choline ABC transporter (membrane protein) #47 opuCA 263 glycine betaine/carnitine/choline ABC transporter (ATP-binding protein) #48 rbsR 300 transcriptional regulator (LacI family) #49 yxeN 22 similar to amino acid ABC transporter (permease) #50 yxeK 185 similar to monooxygenase #51 yybM 113 yybM Motif number 1 TCGCGAAGAGTTCTTTTTATGTCGTGAAAT 2 53 0 TTCTTTTTAT 0.378425 -91 CGTATATCCCCTCTTTTTCAGTAACTTTAA 3 166 0 CTCTTTTTCA 0.81276 -22 TGACTTCCTGCTCCTTTACTGGAAAAATAA 5 32 0 CTCCTTTACT 0.857304 -258 ACAGCATATTCTCTTTTATTCTGTACCATT 5 210 0 CTCTTTTATT 0.714726 -80 CCTTGGACAATTCCTTTTTTCATCACCTCT 6 140 1 TTCCTTTTTT 0.871284 -161 AAAGCCTTCCTCCTTTTTCGACAAAAAAT 9 258 0 CTCCTTTTTC 0.786537 -19 GTCATTCTTCCTTTTTTCAGATTTAGT 11 92 0 TTCCTTTTTT 0.871284 -17 GTCGTCTCACTCCTTTTTTTGATCCATTG 12 125 0 CTCCTTTTTT 0.976926 -19 GATATGTCAACTCTTTTTTAAATACGATTT 13 190 0 CTCTTTTTTA 0.833643 -111 AAGGAAAAATTTCTTTTTCTCCCGTATTTT 14 70 0 TTCTTTTTCT 0.679285 -90 CTCCTTTTCACCTCATTCCT 14 150 0 CTCCTTTTCA 0.923176 -10 GACTATGAAGCTCTTTTTCTTTTAAGAGGG 18 22 1 CTCTTTTTCT 0.929814 -249 GGATTTTGATTTCCTTTTTAGAATATAAAT 18 195 0 TTCCTTTTTA 0.689239 -76 TGAAAGAGGATTCTTTTTTTATCACTGAAT 24 16 1 TTCTTTTTTT 0.709737 -113 TGCATTTTTCCTCTTTTTTTAATATAATTT 24 70 1 CTCTTTTTTT 0.938628 -59 AACGCTCCTCCTTTTTTACTAAATTAT 24 112 0 CTCCTTTTTT 0.976926 -17 AGCCTTTGTCTCCTTTTCTTACAGGAAAA 26 62 0 CTCCTTTTCT 0.973457 -19 CCCCGCACTCCTCTTTTTATTAAGA 28 6 0 CTCTTTTTAT 0.792015 -63 TGTGCTCCCTCCTGTTTTTCATCATTAA 33 9 1 CTCCTGTTTT 0.737164 -144 AACAGCCGCCTCCTTTTTTCTATATGCTT 34 10 1 CTCCTTTTTT 0.976926 -141 ATAGACAACCTCCTTATTTCGCATCAAGT 34 132 0 CTCCTTATTT 0.662067 -19 TGATTGACCGCTCCTTTATTTCAAAATAAA 37 56 0 CTCCTTTATT 0.873989 -20 AGGGTAGCCTCCTTTTAACCTATTATTT 38 9 1 CTCCTTTTAA 0.775489 -173 TGCGAAGCTTCACCTTTTCTTTGAT 39 6 0 CACCTTTTCT 0.749533 -52 TGAAGCTTCGCACCTTTTCTTTTTATAAAG 39 24 1 CACCTTTTCT 0.749533 -34 GGTATCTCATCTCCTTTATAAAAAGAAAAG 39 37 0 CTCCTTTATA 0.694429 -21 GATAATGATTCTCTTTTTCATCTATCTTTT 44 29 0 CTCTTTTTCA 0.81276 -69 AAGGTTTTCACTCTTTTTTTGACAAAGTCT 48 160 0 CTCTTTTTTT 0.938628 -141 AACAGCTCCTCCTTGTTTATGTAACCGT 48 283 0 CTCCTTGTTT 0.743835 -18 GGCGATACTCCTTTTATCATGTTTTTA 50 169 0 CTCCTTTTAT 0.91336 -17 ********** Masking position 5 Map Score: 36.6542 Number of sites scoring better than the average of aligned sites = 850 Number in coding regions = 511 Number in noncoding regions = 339 Number of orfs with sites within 600 bp upstream = 384 Fraction of orfs with sites within 600 bp upstream = 0.0616768 Motif number 2 TAGCCGGGTTTTTTTAGTACATATATTCGCTCTGC 3 34 1 TTTTTTAATA 0.816221 -154 AAAATGAAATTTATTCTTGCAAAACGTAATGACTT 3 87 1 TTATTTAAAC 0.61399 -101 AAAAAGCAACTTATTTTTCCAGTAAAGGAGCAGGA 5 22 1 TTATTTATAA 0.710904 -268 CAATGCTATCTTTTTAGTTGATTAACAGATTGGGG 6 267 1 TTTTTTATAA 0.887068 -34 GTAAGCTAATTTTTTATTTCAATAAAATCAACCAG 7 74 1 TTTTTTATAA 0.82455 -41 GCACTGTTTATTTTTTGTCGAAAAAGGAGGAAGGC 9 249 1 TTTTTTAAAA 0.791206 -28 TGTCAATATTTTTTTAGTAAAGAAAGCTGCGTTT 11 10 0 TTTTTTAAAA 0.955284 -99 GAAGGAAAAATTATTTCTCCAAAAATTATTAAGTG 13 110 0 TTATTTAAAA 0.808946 -191 CCCAATTGTTTTTTTGTTTGAATAACATGTTAATT 13 231 0 TTTTTTATAA 0.82455 -70 TCAGGGCTTTTTTTTATTTAATAAAAGCAAGAAAA 14 24 1 TTTTTTAAAA 0.955284 -136 ATATTATTTATTATTTCTGAATAAAGGGATTGCTT 19 121 1 TTATTTAAAA 0.876247 -71 CCCTCTTCTGTTTTTAATAAGGAAAGTAAAGGGGG 21 43 1 TTTTTTGAAA 0.771649 -33 CATGAAAAAGTTTTTAATCAATTTATGCTTTAAAT 22 24 1 TTTTTTATTA 0.604873 -277 ACTTCGTTAGTTTTTCTTCCATGAACATAATATCC 22 66 0 TTTTTTAGAA 0.817721 -235 TCTTTTCTGATTATTTTTGTAAAAAAGCTGTAACA 22 175 0 TTATTTAAAA 0.808946 -126 ATAGGAAACTTTTTTCCTGTAAGAAAAGGAGACAA 26 51 1 TTTTTTAGAA 0.81441 -30 CAGCCCGGGTTTTTTTGTGCATAAATTTCCAAGGA 27 36 1 TTTTTTAAAA 0.955284 -233 ATCAGTGCGTTTTTTTGTATAAAAAAAACGCCCAC 29 29 0 TTTTTTAAAA 0.791206 -125 TTAATATCCTTTTTTGCTTTACATATCGTATGATG 34 98 0 TTTTTTAATA 0.816221 -53 CCCAGCCGGTTTTTTTATGTAAATCAGCTTGACAA 35 107 1 TTTTTTAATC 0.497941 -173 AAATTTACATTTTTTATTTTAGAAATATAGCAAAA 38 69 1 TTTTTTAAAA 0.955284 -113 GGTCTTTCTGTTATTTTTAGAGTAATCGATTCCCA 38 105 0 TTATTTATAA 0.710904 -77 TCACTCCTCGTTTTTATTATATAACGTTATATAAC 41 186 0 TTTTTTAAAC 0.83695 -30 ATATATAGTCTTTTTCGTCCGGAAATTCTTAATGT 42 62 0 TTTTTTGAAA 0.771649 -239 AATTGTAAACTTTTTATTTTATAAACTTTATTCTA 45 170 1 TTTTTTAAAA 0.955284 -105 CATTGTAAACTTTTTATTTTACAAAGTTCAAACTA 47 184 1 TTTTTTAAAA 0.955284 -80 ***** * * *** Masking position 8 Map Score: 30.192 Number of sites scoring better than the average of aligned sites = 285 Number in coding regions = 155 Number in noncoding regions = 130 Number of orfs with sites within 600 bp upstream = 143 Fraction of orfs with sites within 600 bp upstream = 0.0229682 Motif number 3 GTTACTGAAAAAGAGGGGATATACGAT 3 171 1 AGAGGGGTAA 0.614406 -17 AGGAAGTCATAAGAGGAAGGAGGAATTCAATTC 5 53 1 AGAGGAAGAG 0.934782 -237 TGTATTTTTCACGAGGAATAATGTTAGGTTTGC 8 30 1 AGAGGAAAAG 0.890719 -271 TTTTTGTCGAAAAAGGAGGAAGGCTTT 9 260 1 AAAGGAGAAG 0.754082 -17 GACAAATGAGAAGCGAGGGGAATCCTTG 10 6 1 AGAGAAGGAG 0.843563 -66 ATGGATCAAAAAAAGGAGTGAGACGAC 12 127 1 AAAGGAGGAA 0.769454 -17 TTATTGAGGAATGAGGTGAAAAGGAG 14 144 1 AGAGGTGAAG 0.774697 -16 GTTTGACAACAAGAGGGGGGAAAGGGGAGCTAG 19 168 1 AGAGGGGGAA 0.960304 -24 CGAACATTTCAAGAGGGGGAATATCTA 20 71 1 AGAGGGGAAA 0.932234 -17 ATTTCCCTTAAAGGGGAGGGAGAGCGTTTTCTC 21 11 1 AGGGGAGGAA 0.93058 -65 TTAAAAACAGAAGAGGGAGAAAACGCTCTCCCT 21 27 0 AGAGGGAAAA 0.699976 -49 CTCAAGGTATATGGGGAGAAAAGCCCCATATAC 23 34 1 AGGGGAGAAG 0.924903 -74 ATATTAAAAAAAGAGGAAAAATGCAATATAACT 24 62 0 AGAGGAAAAG 0.890719 -67 ACGTGCAAGAAAGAGGAAAAATACCGC 25 5 0 AGAGGAAAAA 0.834567 -296 TCTTAATAAAAAGAGGAGTGCGGGGACAACCGT 28 11 1 AGAGGAGGCG 0.880312 -58 TGAATGTGTTAAGAGGAGAAACGGTTGTCCCCG 28 31 0 AGAGGAGAAG 0.979617 -38 ATTTCTTCGGATGAGGGGGGAGAAGA 32 14 1 AGAGGGGGAA 0.960304 -16 ATATTTTGTGAAGAGGAGTGACAAAA 33 137 1 AGAGGAGGAA 0.981242 -16 GCCGGTCCAAACGAGAAGGGATGTATTCAACGA 35 68 0 AGAGAAGGAG 0.843563 -212 ATTGATGGCAAAGAGGAGGAGAAAT 35 265 1 AGAGGAGAGA 0.721349 -15 TATAATAAAAACGAGGAGTGAAGGAT 41 200 1 AGAGGAGGAG 0.988306 -16 TTATCAAGAGAGGTGGAGGGAAGTGCCCTATGA 42 102 1 AGTGGAGGAG 0.84499 -199 TCAGCTTTGAAAGATGAGAGAAAGGCATTTTAT 42 186 1 AGATGAGGAA 0.644266 -115 AGACCTGTAAATGGGGAGAAACAGAAAAGACTA 48 56 0 AGGGGAGAAA 0.884029 -245 * ****** ** * Masking position 1 Map Score: 27.6001 Number of sites scoring better than the average of aligned sites = 399 Number in coding regions = 246 Number in noncoding regions = 153 Number of orfs with sites within 600 bp upstream = 151 Fraction of orfs with sites within 600 bp upstream = 0.0242531 Motif number 4 GCATTAGCTGAGAGGAGGCCGGTTTTCC 1 110 1 AGAGGAGGCG 0.948732 -18 CTATGTAACTAGGGGAATGATA 2 1 0 AGGGGAATAA 0.160208 -143 TTACTGAAAAAGAGGGGATATACGAT 3 172 1 AGAGGGGAAA 0.851642 -16 GGAAGTCATAAGAGGAAGGAGGAATTCAATTC 5 54 1 AGAGGAAGAG 0.932786 -236 TTTTGTCGAAAAAGGAGGAAGGCTTT 9 261 1 AAAGGAGGAG 0.883887 -16 AAATCTGAAAAAAGGAAGAATGAC 11 95 1 AAAGGAAGAG 0.68066 -14 TTTCGCAAATAGAGAAGGAAAAATTATTTCTC 13 126 0 AGAGAAGGAA 0.569846 -175 TTTGACAACAAGAGGGGGGAAAGGGGAGCTAG 19 169 1 AGAGGGGGAA 0.969774 -23 CACAGCTTTGAGAGGGGGTATGCACACTACAT 20 20 1 AGAGGGGGAG 0.974529 -68 GAACATTTCAAGAGGGGGAATATCTA 20 72 1 AGAGGGGGAA 0.969774 -16 TTTCCCTTAAAGGGGAGGGAGAGCGTTTTCTC 21 12 1 AGGGGAGGAA 0.859332 -64 TAAAAACAGAAGAGGGAGAAAACGCTCTCCCT 21 27 0 AGAGGGAGAA 0.899836 -49 TAAGGAAAGTAAAGGGGGACAAGTAT 21 60 1 AAAGGGGGCA 0.647868 -16 TATTAAAAAAAGAGGAAAAATGCAATATAACT 24 62 0 AGAGGAAAAG 0.71289 -67 ATTTAGTAAAAAAGGAGGAGCGTT 24 115 1 AAAGGAGGGG 0.73973 -14 CGTGCAAGAAAGAGGAAAAATACCGC 25 5 0 AGAGGAAAAA 0.675551 -296 TCCTGTAAGAAAAGGAGACAAAGGCT 26 65 1 AAAGGAGAAA 0.53317 -16 CTTAATAAAAAGAGGAGTGCGGGGACAACCGT 28 12 1 AGAGGAGTCG 0.673615 -57 GAATGTGTTAAGAGGAGAAACGGTTGTCCCCG 28 31 0 AGAGGAGAAG 0.89866 -38 TTTCTTCGGATGAGGGGGGAGAAGA 32 15 1 TGAGGGGGAA 0.633557 -15 ATGAAAAACAGGAGGGAGCACA 33 1 0 GGAGGGAGAA 0.417759 -152 TATTTTGTGAAGAGGAGTGACAAAA 33 138 1 AGAGGAGTAA 0.82255 -15 TTGATGGCAAAGAGGAGGAGAAAT 35 266 1 AGAGGAGGGA 0.939459 -14 TCTAATGTCCAGAGGAGGCCAACCCT 40 65 1 AGAGGAGGCA 0.939459 -16 TCTTATCAAGAGAGGTGGAGGGAAGTGCCCTA 42 100 1 AGAGGTGGGG 0.583412 -201 AGCTGAATGCAGAGGAAGTGGGAGGTATCCGG 47 79 1 AGAGGAAGGG 0.838227 -185 ******** * * Masking position 4 Map Score: 21.4626 Number of sites scoring better than the average of aligned sites = 562 Number in coding regions = 381 Number in noncoding regions = 181 Number of orfs with sites within 600 bp upstream = 208 Fraction of orfs with sites within 600 bp upstream = 0.0334083 Motif number 5 ATTCCAATAAAAGCGTTTTCAACTAAAGGT 5 82 1 AAGCGTTTTC 0.829753 -208 TCACTTTCACATGCGTTTCCTTGGTACGTC 6 100 1 ATGCGTTTCC 0.671798 -201 GGCCTGTAAAAGGCCTTTTCAGAGAAGCGT 12 30 0 AGGCCTTTTC 0.817414 -114 GGCCTTTTACAGGCCTTTTTTTCATGCCCT 12 45 1 AGGCCTTTTT 0.89004 -99 GCCCATTTCAGGGCTTTTTTTTATTTAATA 14 17 1 GGGCTTTTTT 0.816756 -143 TTTTTTTCGCAAGCGTTTTCTTGCTTTTAT 14 44 0 AAGCGTTTTC 0.829753 -116 GGGCTTCACCATGCGTTTTTGCCGCTTCTT 18 49 1 ATGCGTTTTT 0.86998 -222 AGGGGAGGGAGAGCGTTTTCTCCCTCTTCT 21 22 1 GAGCGTTTTC 0.811166 -54 AAGGTATATGGGGCTTTTCTCCCCATATAC 23 40 0 GGGCTTTTCT 0.711422 -68 GCGCGGTGTCAAGCTTTTTTGGATCCGGCG 25 140 0 AAGCTTTTTT 0.806242 -161 CTTTTTCGTTGAGCCTTTTTATTGAATAGG 26 26 1 GAGCCTTTTT 0.854439 -55 CACATCATGTGAGCGTTTTTT 29 2 0 GAGCGTTTTT 0.88593 -152 CACATGATGTGGGCGTTTTTTTTATACAAA 29 21 1 GGGCGTTTTT 0.904205 -133 TTGTAAATCAGTGCGTTTTTTTGTATAAAA 29 40 0 GTGCGTTTTT 0.855017 -114 AAATAGCAAAATGCTTTTTTC 35 2 0 ATGCTTTTTT 0.759593 -278 CTTATATAAAATGCCTTTCTCTCATCTTTC 42 194 0 ATGCCTTTCT 0.73664 -107 CATTTTATATAAGCCTTTCTGCTCAAGTGT 42 211 1 AAGCCTTTCT 0.78649 -90 TGCAAAAGAAAAGCCTTTCTGCACACTTGA 42 233 0 AAGCCTTTCT 0.78649 -68 TGTAAACAATAGGCTTTTTTGTGTTGTTTA 43 226 1 AGGCTTTTTT 0.834905 -75 CGTCGTAGAGATGCTTTTTTAGTTCGTTTA 43 268 1 ATGCTTTTTT 0.759593 -33 ********** Masking position 6 Map Score: 19.0225 Number of sites scoring better than the average of aligned sites = 798 Number in coding regions = 610 Number in noncoding regions = 188 Number of orfs with sites within 600 bp upstream = 180 Fraction of orfs with sites within 600 bp upstream = 0.028911 Motif number 6 TTTATTACCGTAACATTTATGTAACTTCCCACACAAA 5 239 0 TATTTATATT 0.643722 -51 ATCTAAAGGATAACTTTTTTTTAGTATGAGTAAGTAT 7 35 0 TATTTTTAAT 0.748402 -80 TAGTCATTTATCAATTTTACTAATCATTCTAACCATT 8 124 0 TATTTACAAT 0.706858 -177 ATGACTAGGTTAATATTTTTAAAGAATATTGACTAAC 8 154 1 TATTTTTAAT 0.748402 -147 ACAAATCTTCTTTCATTTATTAATATTTTATCTTGTG 14 102 1 TTTTTATATT 0.695683 -58 AGGATTTTGATTTCCTTTTTAGAATATAAATGAAGAA 18 189 0 TTTTTTTAAT 0.790075 -82 AATCCTTTATTATGCTTTATCCAAAATTAGTATATAA 18 220 1 TTTTTATAAT 0.826447 -51 TATACAACTATAAAATTTTTCGATAATTCAATATTAT 19 91 1 TATTTTTAAT 0.748402 -101 AACAGCACAGTGTCATTTATTCAAAATAGCAAAATGC 35 18 0 TTTTTATAAT 0.826447 -262 TTAGAATCGATAAAATTTTCTGATAATAACAAATGGA 36 173 0 TATTTTCAAT 0.65586 -128 CAATCCGATTTTTCGTTTATTCAAGATATAACCCCCC 36 271 0 TTTTTATAAT 0.826447 -30 GGATTGTCAATATTATTTTCTGAAATTTCTCAATAAT 41 117 0 TTTTTTCATT 0.536522 -99 GTTGACATCATTTATTTTATTGACATTTAATCATTCG 42 13 1 TTTTTATATT 0.695683 -288 CAAAAAAGCCTATTGTTTACACATCATCTGTCCTCGC 43 210 0 TTTTTACAAT 0.753142 -91 AATTTGTTCATATTATTTATAAAGTATGTGTAAACGC 45 137 0 TTTTTATAAT 0.826447 -138 TTGTAAACTTTTTATTTTATAAACTTTATTCTATAAT 45 172 1 TTTTTATATT 0.695683 -103 CAGTTTAAATTTAATTTTTCAGACAATTGAATGCTTC 45 211 0 TATTTTCAAT 0.65586 -64 ACCTCCAAAATTAAGTTTATTCAATTTGTTCAGTTTA 45 241 0 TATTTATATT 0.643722 -34 TGAAATTATATGTTATTTATAGATTATTTATTGTTAT 47 144 0 TTTTTATAAT 0.826447 -120 TAATAAGGATTATACTTTTCAGAAAATTTAAAGGAAA 47 219 1 TTTTTTCAAT 0.706858 -45 GAACAAATATTAAGTTTTATTAAAATTGTTTCAAAGT 48 98 0 TATTTATATT 0.643722 -203 AGTGAAAACCTTAAATTTTTCAATTATATATACAATT 48 178 1 TATTTTTAAT 0.748402 -123 AAAGGTACATTTTGATTTATTCATATTAAACGACTAG 50 98 1 TTTTTATATT 0.695683 -88 AATATAGGAGTTTATTTTTCGCATTATTCAGCCTAAA 50 136 1 TTTTTTCAAT 0.706858 -50 TTTAGAATGATAATCTTTTTATAAGATTATCATTTTT 51 58 1 TATTTTTAAT 0.748402 -56 * * ***** * ** Masking position 8 Map Score: 22.451 Number of sites scoring better than the average of aligned sites = 324 Number in coding regions = 227 Number in noncoding regions = 97 Number of orfs with sites within 600 bp upstream = 118 Fraction of orfs with sites within 600 bp upstream = 0.0189528 Motif number 7 TAACTGGATCTATGCCCTTTTTTTAGATACTGCAAC 1 52 1 TTCCTTTTTG 0.845932 -76 TTTATCCAACTAATCCAGCTTTTCGTATATAGTCAT 2 87 1 TACCTTTTCT 0.590661 -57 GTCACAATCTCCCTTATCTTTATTTCTAGTAAT 2 121 0 TTCCTCTTTT 0.904587 -23 CCCGGCATTTTTAGCCGGGTTTTTTTAGTACATATA 3 23 1 TACCTTTTTT 0.802988 -165 ATCGTATATCCCCTCTTTTTCAGTAACTTTAA 3 166 0 TTCCTTTTTA 0.777373 -22 TCTTTTATTCTGTACCATTTCTTTATAAACATCCAT 5 193 0 TTCCTCTTTT 0.904587 -97 CTTATTCCCCACTTTTCTGGTTGATTTT 7 97 0 TTCCCTTTTT 0.753809 -18 CGTTAGGCTGTTTACCATATTTATCTTTATAACGCA 8 75 0 TTCCTTTATT 0.66437 -226 GTCGTCTCACTCCTTTTTTTGATCCATTGC 12 124 0 TTACTTTTTT 0.549569 -20 AAAACCTTGTTGTAACAGCTTTTTATGACACTTAAT 13 82 1 TTACTTTTTT 0.549569 -219 GAGAAATAATTTTTCCTTCTCTATTTGCGAAACAAG 13 126 1 TTCCTCTATT 0.506833 -175 AATTTCTTTTTCTCCCGTATTTTTTTCGCAAGCGTT 14 57 0 TTCCTTTTTT 0.948081 -103 ACCATGCGTTTTTGCCGCTTCTTCATGTTCTGCCTC 18 56 1 TTCCTCTTCT 0.770456 -215 ACTTTTATTCTGTTCCGTCTTTTCTGATTATTTTTG 22 191 0 TTCCTTTTCG 0.660308 -110 TATATTGCATTTTTCCTCTTTTTTTAATATAATTTG 24 65 1 TTCCTTTTTA 0.777373 -64 GATCCATTTCCCCCGTATTCATTACTTTTGGT 27 247 0 TTCCTATTCT 0.477977 -22 CGCATCCTTCTCTTCCCCGCCTTTCGAAGGAAATAC 36 92 1 TTCCCCTTTG 0.323402 -209 GGATCAGCTTTGAACCAAATTTTTCTGGGGGGTTAT 36 245 1 TACCTTTTTT 0.802988 -56 GTCGAGCCCTTATCCCTTGTTTTTCTTTTATTTTGA 37 30 1 TTCCTTTTTT 0.948081 -46 TAGCCTCCTTTTAACCTATTATTTATATTATAATGT 38 15 1 TACCTATTTT 0.36599 -167 TTCTAAGAAATCTTCCGGTTTTTTCTGCAAAAGAAA 42 252 0 TTCCTTTTTT 0.948081 -49 CCGATGTCAATATACCACATTTTTGATACGGCGAAA 45 28 1 TTCCTTTTTA 0.777373 -247 AAATTTAAGGTTTTCACTCTTTTTTTGACAAAGTCT 48 160 0 TTCATTTTTT 0.397856 -141 * * ** ***** * Masking position 12 Map Score: 16.0131 Number of sites scoring better than the average of aligned sites = 566 Number in coding regions = 441 Number in noncoding regions = 125 Number of orfs with sites within 600 bp upstream = 125 Fraction of orfs with sites within 600 bp upstream = 0.0200771 Motif number 8 GGCGGGAAAAATAAATGAAAATGAAATTTATT 3 70 1 ATAAATGAAT 0.627953 -118 ATTCCTCGTGAAAAATACAAATGTTCTCCTGA 8 17 0 AAAAATAAAT 0.669383 -284 CTAACCCTATAAAAATGGTAATATGTAAATGA 8 186 1 AAAAATGAAT 0.935782 -115 GATGGAGTATAAAAATGTAAAAACCATGGAGG 23 77 1 AAAAATGAAA 0.913683 -31 AGTATTGCATAAAAATGAGAAACTGTTTAAAA 27 186 1 AAAAATGAAA 0.913683 -83 TTAAAAGTGAAAAAATGTCCATGACTTCTGAC 30 76 0 AAAAATGCAT 0.890668 -80 TCAGCTTGACAAAAATGGCCAAACGCGATAAT 35 130 1 AAAAATGCAA 0.855441 -150 TTCTAAAATAAAAAATGTAAATTTGTATTATA 38 61 0 AAAAATGAAT 0.935782 -121 GAAATATAGCAAAAATGGGAATCGATTACTCT 38 90 1 AAAAATGAAT 0.935782 -92 CTATATGCGAAAAAATGCCCAAATCAAAAGCC 41 61 0 AAAAATGCAA 0.855441 -155 AGTTAGCAATAAAAATATCAAAAGAAATCTAA 48 220 0 AAAAATAAAA 0.595258 -81 TAGAATAAATAAAAATGATAATCTTATAAAAA 51 73 0 AAAAATGAAT 0.935782 -41 ******* *** Masking position 5 Map Score: 8.03071 Number of sites scoring better than the average of aligned sites = 228 Number in coding regions = 170 Number in noncoding regions = 58 Number of orfs with sites within 600 bp upstream = 63 Fraction of orfs with sites within 600 bp upstream = 0.0101189 Motif number 9 CCAGTAAAGGAGCAGGAAGTCATAAGAGGAA 5 40 1 AGCAGGAAGC 0.727964 -250 CATAAGAGGAAGGAGGAATTCAATTCCAATA 5 60 1 AGGAGGAATC 0.963852 -230 ACAATCATATAGGAGGATTACAGAGCATTTA 5 135 1 AGGAGGATTC 0.947567 -155 GAATTGTCCAAGGATGAATGCCAGACGTACC 6 122 0 AGGATGAATC 0.741073 -179 TTGTCGAAAAAGGAGGAAGGCTTT 9 263 1 AGGAGGAAGC 0.941579 -14 AAACCATGAAAGGAGGTTGTCTTAG 16 26 1 AGGAGGTTGC 0.925473 -15 TCTGTACAGGGAGGTTTCCTGA 17 9 1 GGGAGGTTTC 0.925473 -14 CAGCTTTGAGAGGGGGTATGCACACTACATA 20 22 1 AGGGGGTATC 0.92762 -66 AATTATTATTAGGGGGTTTGCGAAT 22 286 1 AGGGGGTTTC 0.89676 -15 CATTATACGCAGGGGGAATTCAGGAA 29 138 1 AGGGGGAATC 0.918525 -16 ATTTTCTGATAGGAGGATTGCG 30 144 1 AGGAGGATTC 0.947567 -12 ATGCGAAATAAGGAGGTTGTCTAT 34 137 1 AGGAGGTTGC 0.925473 -14 CAAACGAGAAGGGATGTATTCAACGAACACT 35 63 0 GGGATGTATC 0.662919 -217 TGATCAAACAGGCAGGTATCCTGGCTCTTGG 43 168 0 GGCAGGTATC 0.752601 -133 CAGAGGAAGTGGGAGGTATCCGGAGTAATTG 47 88 1 GGGAGGTATC 0.948245 -176 ********* * Masking position 6 Map Score: 18.1593 Number of sites scoring better than the average of aligned sites = 195 Number in coding regions = 109 Number in noncoding regions = 86 Number of orfs with sites within 600 bp upstream = 101 Fraction of orfs with sites within 600 bp upstream = 0.0162223 Motif number 10 AGCTAATGCTCTGCTTTTCTCTCTATTAAAAGT 1 86 0 CTGTTTTCTC 0.472344 -42 ATCACTTACTCTGCTTGTTTCGCAAATAGAGAA 13 142 0 CTGTTGTCGC 0.788026 -159 AATTGGGCAGCTGATCGGACCGCCGAAGGCTCT 13 259 1 CTGTCGCCGC 0.844033 -42 AATCAGCAATCAGGTTTCTCCTCCATTTTAAGG 18 145 1 CAGTTTCCTC 0.60223 -126 AATAGCCGTGCTGGTTTTTCAGCGCCTTGCCCA 25 206 0 CTGTTTCAGC 0.921225 -95 AACACTGCTTTTACCTCATCGTCTCTG 25 284 0 CTGTTTCCTC 0.905698 -17 TTTGAGCATCCGGGTTGTTCGTCT 27 2 0 CGGTTGCGTC 0.741622 -267 ATTATTCAATCGGATTGTACAGCGATTTAATTT 27 92 1 CGGTTGCAGC 0.964273 -177 AGAGGAGAAACGGTTGTCCCCGCACTCCTCTTT 28 20 0 CGGTGTCCGC 0.917747 -49 CTGCTTTCACCTCACCTATATCT 30 1 1 CTGTTTCCTC 0.905698 -155 ATAAAAAAACCGGCTGGGTCAGCAGCCGGTCCA 35 92 0 CGGTGGCAGC 0.870791 -188 CGTCAGTCTGCGGATTGAACAGCGAAGCCAGAG 41 13 1 CGGTTGCAGC 0.964273 -203 AGAAATCTTCCGGTTTTTTCTGCAAAAGAAAAG 42 250 0 CGGTTTCTGC 0.796084 -51 GGGACCGCACCGGCTTTTACCGGTTTCCCTTTT 43 114 0 CGGTTTCCGG 0.865635 -187 GGATACCTGCCTGTTTGATCAGCACGAATTCTG 43 178 1 CTGTTGCAGC 0.943772 -123 TGTGTAAACGCTGATTTACCCGCATTGACGTGT 45 115 0 CTGTTTCCGC 0.965264 -160 TTGCTAACTTCGGATTGTTCATGATAATCTATC 48 243 1 CGGTTGCATG 0.573541 -58 *** *** **** Masking position 5 Map Score: 12.7547 Number of sites scoring better than the average of aligned sites = 798 Number in coding regions = 743 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 11 AATGGGTGTTGAAAAAGCAACTTAT 5 5 1 GGTGTGAAAA 0.977171 -285 GAAGGGAAGAGGTGATGAAAAAAGGAATTGT 6 146 0 GGTGTGAAAA 0.977171 -155 AGCATGGGTGGGTGTTTAAAAGCGTCTATGA 6 175 0 GGTGTTAAAA 0.826985 -126 TATTGAGGAATGAGGTGAAAAGGAG 14 145 1 TGAGTGAAAA 0.675259 -15 TTTGCGGAAAGCTGGTGAAAATATGTGAGAA 15 15 0 GCTGTGAAAA 0.876304 -21 TTAGCCGTAAGGAGCTGAAAATTATTATTAG 22 267 1 GGAGTGAAAA 0.949034 -34 AGTTGGGCAAGGCGCTGAAAAACCAGCACGG 25 203 1 GGCGTGAAAA 0.939943 -98 ATTTCTTCCTGGTGTTGAAAATAGCTGAATG 47 57 1 GGTGTGAAAA 0.977171 -207 **** ****** Masking position 8 Map Score: 6.15656 Number of sites scoring better than the average of aligned sites = 118 Number in coding regions = 97 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 12 TAGAAACTGTCCCGCCCTTCTTTAGATACACA 1 22 0 CCCGCCTCTT 0.979302 -106 GGCTAAAAATGCCGGGCTACTTCAATCA 3 7 0 GCCGGCTCTT 0.969722 -181 GCCTCGATCTGCCGGCCTGCCTGTTCAGGGCA 9 33 1 GCCGGCTCCT 0.869776 -244 GCCGCTACATGCCGCACGCCTTTCTTTCTTCT 12 86 1 GCCGCCGCTT 0.964019 -58 TGTTGCCCGCACAGCTTTGAGAGGGGG 20 6 1 CCCGCCACTT 0.969986 -82 GAGATCGCCAGCCGCTCATCATCCTGTCCCGC 25 241 0 GCCGCCACAT 0.889118 -60 AAAAAAGCGGCTCAACTTTTTCGTTGAG 26 7 1 GCGGCCACTT 0.918153 -74 CACAAAAAAACCCGGGCTGCTTTGAGCATCCG 27 23 0 CCCGGCTCTT 0.969722 -246 AACGGTTGTCCCCGCACTCCTCTTTTTATTAA 28 13 0 CCCGCCTCTC 0.890379 -56 GGTTTTCCGCCCGGAACGCCTTCCGCATCCTT 36 69 1 CCGGACGCTT 0.680221 -232 ACATGACTGGCCGGATCAGCTTTGAACCAAAT 36 233 1 CCGGACACTT 0.719559 -68 GTTGATGGTTGCCGGGCTTCATAGGGCACTTC 42 121 0 GCCGGCTCAT 0.888224 -180 ***** ** *** Masking position 7 Map Score: 7.12006 Number of sites scoring better than the average of aligned sites = 197 Number in coding regions = 174 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 13 ACATAGAATCATCTTTATTCTATCCCATTT 2 27 1 ATCTTTATTC 0.785596 -117 AATGAAAATGAAATTTATTCTTGCAAAACG 3 83 1 AAATTTATTC 0.842081 -105 GACTTAAATTTATTCTGAAGATCGG 6 6 1 AAATTTATTC 0.842081 -295 CCGCACGCCTTTCTTTCTTCTACAATGGCA 12 97 1 TTCTTTCTTC 0.466535 -47 TTGAATAGGAAACTTTTTTCCTGTAAGAAA 26 47 1 AACTTTTTTC 0.56214 -34 TAATCCCTTAATATTTATTCATATATCCTT 27 66 0 ATATTTATTC 0.858394 -203 GTGTATTTGAATATTTATTCGTTAATTTGT 27 219 0 ATATTTATTC 0.858394 -50 TATATTTCTTCGGATGAGGGG 32 2 1 ATATTTCTTC 0.791522 -28 AATTTCTCAATAATTTATTCGGATGACAGA 41 101 0 TAATTTATTC 0.670191 -115 TTATTTTATAAACTTTATTCTATAATGGGA 45 183 1 AACTTTATTC 0.76321 -92 TCAATATATCATATTTCTTCCTGGTGTTGA 47 45 1 ATATTTCTTC 0.791522 -219 ATAAAACTTAATATTTGTTCAAGAAATCTT 48 115 1 ATATTTGTTC 0.586147 -186 GAGTTAAGATTAATTTTTTCTATTCAAGCG 50 49 0 TAATTTTTTC 0.447331 -137 TTATCATTCTAAATTTTTTCGCGTGGCTAA 51 41 0 AAATTTTTTC 0.679895 -73 ATTATCATTTTTATTTATTCTATTAAGAAT 51 83 1 TTATTTATTC 0.697889 -31 ********** Masking position 5 Map Score: 6.9378 Number of sites scoring better than the average of aligned sites = 237 Number in coding regions = 202 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 47 Fraction of orfs with sites within 600 bp upstream = 0.00754899 Motif number 14 TAGGGTTAGTCAATATTCTTTAAAAATATTA 8 164 0 CAATATTTTT 0.950414 -137 TACTATATGGCCATATTGTTTTGAGTCCTTG 8 232 1 CCATATTTTT 0.835893 -69 CTTATCATGTCAATATTTTTTTAGTAAAGAA 11 21 0 CAATATTTTT 0.950414 -88 GTCAATATTATTTTATAATTATT 13 3 1 CAATATTTTT 0.949771 -298 TTCGATAATTCAATATTATTTATTATTTCTG 19 109 1 CAATATTTTT 0.949771 -83 TAATTTATTGCAATATTATTTTATCAATTTA 22 111 0 CAATATTTTT 0.949771 -190 CATTTTTATGCAATACTATTTTTAAAAATTA 27 172 0 CAATACTTTT 0.835306 -97 GTAGGATTGTCAATATTATTTTCTGAAATTT 41 126 0 CAATATTTTT 0.949771 -90 ******* *** Masking position 5 Map Score: 8.84836 Number of sites scoring better than the average of aligned sites = 60 Number in coding regions = 42 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 15 GACTTCGGTTTATTATGATATAGGATTACAA 3 117 1 TATATGATAT 0.64851 -71 CATATGACGTTTTGCATATACGC 12 3 1 TATACGTTTT 0.692929 -141 GTCAATATTATTTTATAATTATTATA 13 6 1 TATATTTTAT 0.691078 -295 TAATTTGAATTAACATGTTATTCAAACAAAA 13 224 1 TAAATGTTAT 0.64851 -77 TTTATTGCAATATTATTTTATCAATTTAAAA 22 108 0 TATATTTTAT 0.691078 -193 TATAATGTATTATGACGTTATAATACAAATT 38 43 1 TATACGTTAT 0.900938 -139 TGCATTAGACTATAATGTTATATAACATTAT 40 32 1 TATATGTTAT 0.93557 -49 GACATTAGACTATAATGTTATATAACATTAT 40 43 0 TATATGTTAT 0.93557 -38 TATAACAATATATAATGTTATATAACGTTAT 41 170 1 TATATGTTAT 0.93557 -46 GTTTTTATTATATAACGTTATATAACATTAT 41 181 0 TATACGTTAT 0.900938 -35 ATACTCCTTTTATCATGTTTTTAGGCTGAAT 50 161 0 TATATGTTTT 0.782746 -25 *** ******* Masking position 5 Map Score: 4.73094 Number of sites scoring better than the average of aligned sites = 26 Number in coding regions = 11 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925