AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i02010_aful_reg_100.orf -o02010_aful_100.ace -a/home/amcguire/genomes/ORF_aful.txt -z/home/amcguire/genomes/aful.fna -g0.49 -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 = 0.49 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: AF1404 29 transcriptional regulatory protein, AsnC family Input sequences: #1 AF0088 300 thiamine biosynthesis protein, putative #2 AF0094 300 conserved hypothetical protein #3 AF0231 232 glutamine ABC transporter, periplasmic glutamine-binding protein (glnH) #4 AF0232 39 glutamine ABC transporter, permease protein (glnP) #5 AF0433 122 conserved hypothetical protein #6 AF0641 51 ISA1214-3, ISORF2 #7 AF0680 145 glutamine ABC transporter, ATP-binding protein (glnQ) #8 AF0825 148 branched-chain amino acid ABC transporter, permease protein (braD-2) #9 AF0887 128 ribose ABC transporter, ATP-binding protein (rbsA-1) #10 AF0968 205 3-ketoacyl-CoA thiolase (acaB-10) #11 AF0982 300 osmoprotection protein (proX) #12 AF0986 30 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (hisA-2) #13 AF0987 109 conserved hypothetical protein #14 AF1006 300 ABC transporter, ATP-binding protein #15 AF1136 103 ABC transporter, ATP-binding protein #16 AF1299 300 transcription initiation factor IIB #17 AF1300 85 ABC transporter, ATP-binding protein #18 AF1302 44 conserved hypothetical protein #19 AF1356 96 phosphate ABC transporter, periplasmic phosphate-binding protein (phoX) #20 AF1391_AF1392 50 AF1391: branched-chain amino acid ABC transporter, periplasmic binding protein (braC-4), AF1392: branched-chain amino acid ABC transporter, permease protein (braD-4) #21 AF1405 32 conserved hypothetical protein #22 AF1406 92 A. fulgidus predicted coding region AF1406 #23 AF1409 88 modification methylase, type III R/M system #24 AF1410 284 ISA0963-5, putative transposase #25 AF1608 59 spermidine/putrescine ABC transporter, ATP-binding protein (potA) #26 AF1767_AF1768 311 AF1767: dipeptide ABC transporter, dipeptide-binding protein (dppA), AF1768: dipeptide ABC transporter, permease protein (dppB) #27 AF1984 45 iron-dependent repressor (troR) Motif number 1 ACATGCGTATTATAAAATTTTTGTTTTCGAAAATA 2 147 0 TATAATTTTT 0.910507 -154 TCATATCGGATATTTAACTTTTGTGAAGTGTCGCA 2 270 0 TATAATTTTG 0.942833 -31 TAGCAGCATGTATTTAAGCTTTTCCAATTTTTGAT 3 164 1 TATAATTTCC 0.853169 -69 TTGATTTATCTATCGAAAATTTTTTAAGTTTTAAA 3 194 1 TATAATTTTT 0.911035 -39 AAAGGAGGGATATAAAAAATTTTTTTG 4 3 0 TATAATTTTT 0.911034 -37 AACCAAAAAGTATTTAAGTATTTCTATGGATATAC 6 22 1 TATAAATTCT 0.678307 -30 AGGTTTGTTATATAAAATCTTTTTTCTCGTGCGTA 7 109 0 TATAATTTTT 0.911026 -37 ATTGCAAAAGTATAAAACCTTTTTGGTTTTTTTCC 8 113 0 TATAATTTTG 0.942824 -36 ATACTTGATATATTCAATTTTTACGCGTTTAGATT 10 104 0 TATAATTTCG 0.978201 -102 TTCGTTAATACTTAAATTTTACGTAATGTGCCG 10 183 0 TACAATTTCG 0.826337 -23 TTTCTTCATCTTTTAAAATTTTGCTCTCTAATTGA 11 92 1 TTTAATTTCT 0.849723 -209 ATAAATCCCTTATAAAAGCTTTTTGAGGTTCGGAC 11 251 0 TATAATTTTG 0.942824 -50 TTTTTTAACCTTTTCTTCCCACTCCT 12 2 1 TTTAATTTCT 0.849723 -29 TTCGGCAGAGTATTTAAACTTTTCGGTAGCCACGT 16 26 0 TATAATTTCG 0.978201 -275 GCTCATGCAGTATATAAGGTTTTCGGCAGAGTATT 16 47 0 TATAATTTCG 0.978201 -254 AATATTATCTTATCCAGATTTTTCGGCTTAACTAA 16 250 0 TATAGTTTCG 0.826337 -51 AGGGATGGTATATACAACATTTACTAACTATATGA 19 51 1 TATAATTTCT 0.965352 -46 AACGTTAAAATTTTAAAACTTTACTAAAGCTCGGA 20 15 0 TTTAATTTCT 0.849723 -36 ATCCATTTTGTATAAAAAACTTTCGTGTCAGCCCA 25 23 0 TATAACTTCG 0.83425 -37 *** ** *** ** Masking position 11 Map Score: 25.8823 Number of sites scoring better than the average of aligned sites = 86 Number in coding regions = 30 Number in noncoding regions = 56 Number of orfs with sites within 600 bp upstream = 75 Fraction of orfs with sites within 600 bp upstream = 0.0120463 Motif number 2 CATTACAGTGGGAGCGGCGGTGGGCGGCTGACC 1 30 1 GGGGGGGTGG 0.988864 -271 CCGCCACAGCGGGTGGGGGGACTTTCCTCCTTT 1 64 0 GGTGGGGACT 0.86453 -237 CCCCCCACCCGCTGTGGCGGAAGGCCCCTGAGA 1 77 1 GCGGGGGAAG 0.994625 -224 CCCCTGAGAAGGGGCGGAGGAGGAACAGAAACG 1 101 1 GGGGGGGAGG 0.994193 -200 AAACGAGACCGGTGCGGGGAAATGCGATGATTC 1 129 1 GGGGGGAAAT 0.893436 -172 CGTTGCACCCGGCGGGGAGGAGGCCGTTTCATC 1 187 0 GGGGGGGAGG 0.994193 -114 AAAAACTTTGGGAGTGGCGGTAGTAAGCCCCCT 1 254 0 GGGGGGGTAG 0.992996 -47 CTAACATTTGGTTTAGGGGGAATAATTCAAACG 2 233 0 GTTGGGGAAT 0.779875 -68 GCTACACCATGCATTGGAGGAAGGTTTAGCAGC 3 138 1 GCTGGGGAAG 0.988201 -95 CGACCTTCAGGCTGAGGTGATAGCCTTTGGAAA 9 95 1 GCGGGGATAG 0.930234 -34 CTTAACTAAAGCGTAGGGGGAAGATACTGGCCC 16 226 0 GCTGGGGAAG 0.988201 -75 GCTCAAAAATGAATGGGTGGTAGGATAATAAGA 23 52 1 GATGGGGTAG 0.892749 -37 ** * ** ***** Masking position 7 Map Score: 16.8768 Number of sites scoring better than the average of aligned sites = 659 Number in coding regions = 621 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 3 AGTTTAATAAATTTTGTTTTTGTAATTAAAA 2 45 0 ATTTTGTTTT 0.876516 -256 AATTAATCGAATTTTTAATATATTTTCGAAA 2 127 1 ATTTTTATAT 0.715202 -174 GTATTATAAAATTTTTGTTTTCGAAAATATA 2 145 0 ATTTTTTTTT 0.92744 -156 AGCTTTTCCAATTTTTGATTTATCTATCGAA 3 180 1 ATTTTTATTT 0.886656 -53 CAAAAAAATTTTTTATATCCCTCCTTTT 4 8 1 ATTTTTATAT 0.715214 -32 TTTTCTTTCAATTTTTCTTCTCATAAATTTA 5 11 1 ATTTTTTTCT 0.865816 -112 GAAGATTAAAATTTTGGTTTTTGGTGTTACC 5 60 0 ATTTTGTTTT 0.876516 -63 GATTTTGGTTATCCTAAAGTGC 8 2 1 ATTTTGTTAT 0.695017 -147 ATTTTTATTTTTATATTTTTG 10 1 1 ATTTTTTTTT 0.92744 -205 TTATTTTTATATTTTTGTTTTTAACACGCTG 10 15 1 ATTTTTTTTT 0.92744 -191 ACGCGTTTAGATTTTTCATTTGCTCTCGTAA 10 86 0 ATTTTTATTT 0.886656 -120 TTTATAAGGGATTTATCATTTAAATTGAAAG 11 270 1 ATTTATATTT 0.660486 -31 ATTTGGTAACATTTATATTCTCCCCTACCAA 15 75 1 ATTTATTTCT 0.616069 -29 ACGCATAAATATTTAGATTTTCACGATGGTA 19 12 0 ATTTAGTTTT 0.638366 -85 TTAATGTTTGATTTTTATTTTTAATATAGTT 24 240 1 ATTTTTTTTT 0.92744 -45 TGTCAGCCCAATTTTTTATCTA 25 2 0 ATTTTTATCT 0.797943 -58 ****** **** Masking position 4 Map Score: 18.1448 Number of sites scoring better than the average of aligned sites = 136 Number in coding regions = 68 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 71 Fraction of orfs with sites within 600 bp upstream = 0.0114038 Motif number 4 CCTAATAACTCCCGATTTTGAGAT 11 3 0 CCCGATTTGG 0.968067 -298 ATAGCTTTGTCCGGAGGTAGGGATTGATGGTT 13 63 0 CCGGAGTAGG 0.973072 -47 CACATAATCTCCCGAGTTTGTGTTAAAATGAA 14 24 1 CCCGAGTTGG 0.981678 -277 GGGATGTACGCAGGATTTAGAGTCACCACAAG 16 130 0 CAGGATTAGG 0.935423 -171 CAACCTTATCCCCTATTTTGGGGATGTACGCA 16 150 0 CCCTATTTGG 0.841885 -151 TACTATATCTCAGGAGCTTGAGCTTTCTCTTA 22 57 0 CAGGAGTTGG 0.988959 -36 AAAGGACCTACAGGAGCTTGAGCAGCTTCTCC 24 178 1 CAGGAGTTGG 0.988959 -107 GCAGCTTCTCCAGGAGCTTGAGAGCTTGGACA 24 199 1 CAGGAGTTGG 0.988959 -86 TGATATATAACAGTATCTTGAGTGTATCTGGC 26 271 0 CAGTATTTGG 0.899866 -41 ****** *** * Masking position 5 Map Score: 11.9707 Number of sites scoring better than the average of aligned sites = 94 Number in coding regions = 83 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 5 TTAGGTTTGTTATATAAAATCTTTTTTCTC 7 116 0 TATATAAAAT 0.653527 -30 AGACTCCCACTGTACATCATAGAAAGTGAA 8 70 0 TGTACATCAT 0.781761 -79 ATGGAGCAATTATACAACATTCTGGACAAC 11 52 0 TATACAACAT 0.966917 -249 TATCAAAACTTATACAAAATAACATGAAAC 14 71 0 TATACAAAAT 0.905473 -230 AGGGATGGTATATACAACATTTACTAACTA 19 51 1 TATACAACAT 0.966917 -46 CGCATTAAAATATACATCATATAGTTAGTA 19 72 0 TATACATCAT 0.938769 -25 AGCGTTTATACAACGTTAAAATTTTA 20 35 0 TATACAACGT 0.872266 -16 GAAAGTTTTTTATACAAAATGGATTGATTG 25 34 1 TATACAAAAT 0.905473 -26 AAGATACTGTTATATATCATAACACGGACA 26 284 1 TATATATCAT 0.751182 -28 ********** Masking position 6 Map Score: 6.29381 Number of sites scoring better than the average of aligned sites = 15 Number in coding regions = 8 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 6 CGCTAATTAGAAGCTAAACCAGTAGCCAAA 3 71 1 AAGCTAAACC 0.91273 -162 CCAGTAGCCAAAGCTAAACCTAAAATAAAA 3 89 1 AAGCTAAACC 0.91273 -144 TAAATACATGCTGCTAAACCTTCCTCCAAT 3 150 0 CTGCTAAACC 0.875033 -83 CTCCCCTACCAAGCTCCAGC 15 94 1 AAGCTCCAGC 0.903063 -10 TGTCCGCAACCTGCTCATGCAGTATATAAG 16 64 0 CTGCTCATGC 0.807996 -237 TTTTTTAGCGAACCTCAAGCTTTCTTTTGG 17 20 1 AACCTCAAGC 0.8528 -66 ATTTAAGAGAAAGCTCAAGCTCCTGAGATA 22 54 1 AAGCTCAAGC 0.975534 -39 CCTGGAGAAGCTGCTCAAGCTCCTGTAGGT 24 183 0 CTGCTCAAGC 0.963892 -102 CTACACGTTGATGCTAAAGCCTCTCTTCCT 26 151 1 ATGCTAAAGC 0.942767 -161 ********** Masking position 5 Map Score: 6.17549 Number of sites scoring better than the average of aligned sites = 332 Number in coding regions = 316 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 12 Fraction of orfs with sites within 600 bp upstream = 0.0019274 Motif number 7 TTCGAAAATATATTAAAAATTCGATTAATT 2 127 0 TATTAAAAAT 0.694286 -174 AACATGCGTATTATAAAATTTTTGTTTTCG 2 153 0 TTATAAAATT 0.662263 -148 ATTTTTTAAGTTTTAAAAATTGTGAGCCCT 3 212 1 TTTTAAAAAT 0.917419 -21 TGTTGCCTCTCTTTAAAATTCACTTCGTAT 7 63 1 CTTTAAAATT 0.768907 -83 TAATGTGCCGATTTAAAAATAGATAATCCG 10 163 0 ATTTAAAAAT 0.585089 -43 TTTCTTCATCTTTTAAAATTTTGCTCTCTA 11 92 1 TTTTAAAATT 0.905649 -209 ATATCTCAAATTTTACAATTACATTTTCCT 11 212 0 TTTTACAATT 0.602257 -89 AATAAAAAGTTTTTCAAAATAGTTATTGAA 13 34 1 TTTTCAAAAT 0.636862 -76 AAACCCAGATTTATAAAATTTCATTTTAAC 14 45 0 TTATAAAATT 0.662263 -256 TTTAGTAAAGTTTTAAAATTTTAACGTTGT 20 22 1 TTTTAAAATT 0.905649 -29 TTAGGCGAGACTTTAAAAATATTTA 21 6 0 CTTTAAAAAT 0.793994 -27 TTAAAAACTATATTAAAAATAAAAATCAAA 24 246 0 TATTAAAAAT 0.694286 -39 ATTCAGCATCTTTTAAAAAA 24 275 1 TTTTAAAAAA 0.541634 -10 ********** Masking position 7 Map Score: 4.68645 Number of sites scoring better than the average of aligned sites = 93 Number in coding regions = 40 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 69 Fraction of orfs with sites within 600 bp upstream = 0.0110826 Motif number 8 TTAAATGTCGAATAAATCAATAATCG 2 7 0 AATAAATCAA 0.95188 -294 TGTTTTCGAAAATATATTAAAAATTCGATT 2 131 0 AATATATTAA 0.661216 -170 GTTTAGGGGGAATAATTCAAACGTTTACAA 2 226 0 AATAATTCAA 0.830743 -75 ATTTTCGATAGATAAATCAAAAATTGGAAA 3 184 0 GATAAATCAA 0.883613 -49 TCTGCAGCAAAATATTTCAACTTATTGAAA 9 50 1 AATATTTCAA 0.66159 -79 GTAAAAATTGAATATATCAAGTATTAATTG 10 115 1 AATATATCAA 0.887378 -91 ACTTTTTATTGATAAATCAATCTTCATTAA 13 14 0 GATAAATCAA 0.883613 -96 AAAACTGATAATAAATCACTTATAAATAG 13 91 0 AATAAATCAC 0.883613 -19 TAACTCTCAAAATAAATTACCAAATCCAAT 14 224 1 AATAAATTAC 0.652849 -77 ACAACAATTTATTAAATTAAATTTTCCATT 14 273 1 ATTAAATTAA 0.548691 -28 TAAATTTTCCATTAAATCAAT 14 290 1 ATTAAATCAA 0.830742 -11 ********** Masking position 4 Map Score: 3.79107 Number of sites scoring better than the average of aligned sites = 39 Number in coding regions = 17 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 9 TTCTGCAGTGGCTCCGTGCTTGTGTATGGGTTTAT 3 29 0 GCTCGTGTGT 0.865017 -204 CAACAAGATTGCCACGTGAGAAAGCTAACAAACAT 11 156 1 GCCCGTGAGC 0.989874 -145 ATCAATCCCTACCTCCGGACAAAGCTATTTATAAG 13 67 1 ACCCCGGAGC 0.817974 -43 CTTTTCGGTAGCCACGTGAGGAAGCTGACGAA 16 8 0 GCCCGTGAGC 0.955208 -293 CCAAGTGTCCGCAACCTGCTCATGCAGTATATAAG 16 64 0 GCACCTGTGC 0.791351 -237 AGACTCCGAGCTTTAGTAAAGTTTTAA 20 3 1 ACTCGAGAGT 0.763863 -48 AAAGAGTAAAGCCGCGAGGAGCAGTGCAACAAATG 24 33 0 GCCCGAGAGT 0.960131 -252 CTCTTTGCAGGCTGCCAGGGAAAGCAAGTGGAACA 24 62 1 GCTCCAGAGC 0.977115 -223 TGAATCTTATGCTCCCAGCCGGAGCGATAAAAAGA 26 218 1 GCTCCAGAGC 0.721954 -94 GCTCCGTGTTGCAGCGTCCGTTAAA 27 1 1 GCTCGTGAGC 0.953071 -45 *** **** *** Masking position 5 Map Score: 6.5783 Number of sites scoring better than the average of aligned sites = 134 Number in coding regions = 121 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 10 GTTACCAAAGGTTACAAAGAACAGTAAATTT 5 35 0 GTTAAAAGAA 0.956806 -88 TTTGTGTGGTGTTACTAACAACTGTGCTAAT 5 99 0 GTTATAACAA 0.680729 -24 AAAACAGCGTGTTAAAAACAAAAATATAAAA 10 19 0 GTTAAAACAA 0.87092 -187 AAAATCGGGAGTTATTAGGAAGGTAATGAGG 11 16 1 GTTATAGGAA 0.917376 -285 AATCTTTCAGGTGACAAGGAAAATGTAATTG 11 196 1 GTGAAAGGAA 0.944978 -105 CCGAGTTTGTGTTAAAATGAAATTTTATAAA 14 35 1 GTTAAATGAA 0.870681 -266 TATTTTGAGAGTTAGAAGGAACCTTGCCAAC 14 207 0 GTTAAAGGAA 0.972327 -94 GGATAAGGTTGTTACAAGGAGGATGGAGCAC 16 171 1 GTTAAAGGAG 0.891413 -130 GAAAACGATAGTGAAAAAGAACCATGTCGAT 26 89 1 GTGAAAAGAA 0.915453 -223 **** ****** Masking position 7 Map Score: 3.83019 Number of sites scoring better than the average of aligned sites = 34 Number in coding regions = 26 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701 Motif number 11 GACTATTTCCAGCCTTTCCAAAACGAGTTT 2 198 1 AGCCTTTCCA 0.881753 -103 CATGTATTTAAGCTTTTCCAATTTTTGATT 3 170 1 AGCTTTTCCA 0.936593 -63 TTACGCGTTTAGATTTTTCATTTGCTCTCG 10 89 0 AGATTTTTCA 0.658382 -117 CATGTTTGTTAGCTTTCTCACGTGGCAATC 11 162 0 AGCTTTCTCA 0.971343 -139 CCCTTATAAAAGCTTTTTGAGGTTCGGACT 11 250 0 AGCTTTTTGA 0.773604 -51 ACTTATAAATAGCTTTGTCCGGAGGTAGGG 13 73 0 AGCTTTGTCC 0.72925 -37 ATGCAGCGTAAGCTTTTTAATATCAAAACT 14 91 0 AGCTTTTTAA 0.802584 -210 GGTGATAAGTAGCCTTTTCCATGTTCTGTA 14 170 0 AGCCTTTTCC 0.836583 -131 ATTTTTTCTCAGCTTCCTAATTGTCATCAT 15 21 1 AGCTTCCTAA 0.703916 -83 TTCGTCAGCTTCCTCACGTGGCTACC 16 7 1 AGCTTCCTCA 0.944785 -294 CAGGAGCTTGAGCTTTCTCTTAAATTTTTC 22 49 0 AGCTTTCTCT 0.81156 -44 GAGCTTGAGCAGCTTCTCCAGGAGCTTGAG 24 191 1 AGCTTCTCCA 0.881753 -94 ATCGTTTTCGAGCCTTCTCAGAAGTGCCAT 26 68 0 AGCCTTCTCA 0.944785 -244 ********** Masking position 1 Map Score: 8.48395 Number of sites scoring better than the average of aligned sites = 613 Number in coding regions = 563 Number in noncoding regions = 50 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 12 GCCCACCGCCGCTCCCACTGTAATGTTTCT 1 25 0 GCTCCCACTG 0.980347 -276 GAAAGTCCCCCCACCCGCTGTGGCGGAAGG 1 71 1 CCACCCGCTG 0.961538 -230 GAGGTCACCCGCTCCGGATGAAACGGCCTC 1 171 1 GCTCCGGATG 0.922284 -130 CTGCAGAACACCTCCCGCTAATTAGAAGCT 3 56 1 CCTCCCGCTA 0.940042 -177 ATAGCATTAGACTCCCACTGTACATCATAG 8 78 0 ACTCCCACTG 0.926228 -71 TCTTTTTATCGCTCCGGCTGGGAGCATAAG 26 223 0 GCTCCGGCTG 0.98718 -89 ********** Masking position 9 Map Score: 1.89239 Number of sites scoring better than the average of aligned sites = 109 Number in coding regions = 101 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 13 GCTAATGGCAGACTGAAGATTAAAATTTTGGTTTTT 5 69 0 GCTGAAGTTT 0.970121 -54 CGCTTGAAGTTTAGGTTTGTTATATAA 7 129 0 GTTGAAGTTT 0.96776 -17 TATCACCTCAGCCTGAAGGTCGGTTTATCTCTGAGT 9 81 0 GCTGAAGTCT 0.972403 -48 CGGAGGTAGGGATTGATGGTTTCAATAACTATTTTG 13 48 0 GTTGATGTTT 0.953497 -62 GTCATAAAAAGCCTGAAGTCCAATCTGCCTTG 17 64 1 GCTGAAGCCT 0.880215 -22 TTGAGGTGCGGGTTGATGTTCCACTTGCTTTCCCTG 24 77 0 GTTGATGTCT 0.956923 -208 ACAATGTTGAGTTTAATGTTTGATTTTTATTTTTAA 24 228 1 GTTAATGTTT 0.667788 -57 TACCTTTATCGCCTGAAGATTGTATTTCATCAGATG 26 18 1 GCTGAAGTTT 0.97016 -294 TCAGATGCACGTTTGAAGCTCATGGCACTTCTGAGA 26 47 1 GTTGAAGTCC 0.871384 -265 CCTTTTTCTTGTTTCATGATTAGTTTCGTAACCTCT 26 178 1 GTTCATGTTT 0.748697 -134 * ****** ** * Masking position 6 Map Score: 1.79187 Number of sites scoring better than the average of aligned sites = 85 Number in coding regions = 70 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 14 AGTGAAAAATTTGTGGAGGGTT 1 289 0 TGAAAAATTT 0.957336 -12 GATTTATCTATCGAAAATTTTTTAAGTTTT 3 196 1 TCGAAAATTT 0.672375 -37 AGGAGGGATATAAAAAATTTTTTTG 4 6 0 TAAAAAATTT 0.662211 -34 AACTCCATGAGGAAAAATTTCACTTTCTAT 8 52 1 GGAAAAATTT 0.926169 -97 TTCAATAAGTTGAAATATTTTGCTGCAGAA 9 49 0 TGAAATATTT 0.740336 -80 CGAGAGCAAATGAAAAATCTAAACGCGTAA 10 89 1 TGAAAAATCT 0.793903 -117 CCTTGTCACCTGAAAGATTTCCGCATGTTT 11 185 0 TGAAAGATTT 0.808639 -116 AAAATGTAATTGTAAAATTTGAGATATCAC 11 215 1 TGTAAAATTT 0.759463 -86 ATAACTATTTTGAAAAACTTTTTATTGATA 13 30 0 TGAAAAACTT 0.793903 -80 ATTGATTTAATGGAAAATTTAATTTAATAA 14 281 0 TGGAAAATTT 0.895964 -20 CAATTTTTGGGGAAAAATTTAAGAGAAAGC 22 38 1 GGAAAAATTT 0.926169 -55 AGTGTATCTGGCAAAAATTTAATGGGCTAA 26 253 0 GCAAAAATTT 0.749335 -59 ********** Masking position 5 Map Score: 6.18912 Number of sites scoring better than the average of aligned sites = 89 Number in coding regions = 55 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 35 Fraction of orfs with sites within 600 bp upstream = 0.00562159 Motif number 15 TTTATAAATCTGGGTTTCATGTTATTTTGTA 14 58 1 TGGGTTTCTG 0.929873 -243 CCTTGCCAACTCGGTCTGGTGATAAGTAGCC 14 186 0 TCGGTCTGTG 0.928798 -115 GTTAATTGATTGGATTTGGTAATTTATTTTG 14 231 0 TGGATTTGTA 0.725169 -70 TGGAGCACATTGGATTTGTTGCTGACGTTAT 16 194 1 TGGATTTGTG 0.959397 -107 TTTGAGCGTATCGGTTTCGTGTTCGAGATGT 23 28 0 TCGGTTTCTG 0.890711 -61 GGTCAAGAATTGCATTTGTTGCACTGCTCCT 24 21 1 TGCATTTGTG 0.93558 -264 TATTATTTGTTCCGTTTGCTGCTCTGTTGGA 24 130 0 TCCGTTTGTG 0.934032 -155 GCTTCAAACGTGCATCTGATGAAATACAATC 26 35 0 TGCATCTGTG 0.891588 -277 ******** ** Masking position 5 Map Score: 0.449073 Number of sites scoring better than the average of aligned sites = 98 Number in coding regions = 86 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925