AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00650_aful_reg_100.orf -o00650_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: AF1449 33 pyruvate formate-lyase 2 (pflD) AF1641 31 enoyl-CoA hydratase (fad-4) Input sequences: #1 AF0006 104 corrinoid methyltransferase protein (mtaC-1) #2 AF0008 73 oxalate/formate antiporter (oxlT-1) #3 AF0014 95 A. fulgidus predicted coding region AF0014 #4 AF0016 54 A. fulgidus predicted coding region AF0016 #5 AF0283 168 3-ketoacyl-CoA thiolase (acaB-7) #6 AF0438 79 3-ketoacyl-CoA thiolase (acaB-8) #7 AF0439 82 transcriptional regulatory protein, AsnC family #8 AF0442 300 succinoglycan biosynthesis regulator (exsB) #9 AF0681 145 succinate dehydrogenase, flavoprotein subunit A (sdhA) #10 AF0685 140 enoyl-CoA hydratase (fad-2) #11 AF0968 205 3-ketoacyl-CoA thiolase (acaB-10) #12 AF1025 150 3-hydroxyacyl-CoA dehydrogenase (hbd-4) #13 AF1122 111 3-hydroxyacyl-CoA dehydrogenase (hbd-5) #14 AF1173 180 A. fulgidus predicted coding region AF1173 #15 AF1174 61 A. fulgidus predicted coding region AF1174 #16 AF1177 103 3-hydroxyacyl-CoA dehydrogenase (hbd-6) #17 AF1191 32 dihydroxynaphthoic acid synthase (menB) #18 AF1192 50 conserved hypothetical protein #19 AF1195 27 activator 1, replication factor C, 53 KD subunit #20 AF1196 65 N5,N10-methylenetetrahydromethanopterin reductase (mer-2) #21 AF1197 300 3-ketoacyl-CoA thiolase (fadA-2) #22 AF1208 165 conserved hypothetical protein #23 AF1448 114 transcriptional regulatory protein, AsnC family #24 AF1462 136 A. fulgidus predicted coding region AF1462 #25 AF1642 50 histidyl-tRNA synthetase (hisS) #26 AF1667 158 sulfate adenylyltransferase (sat) #27 AF1669 48 adenylylsulfate reductase, subunit B (aprB) #28 AF1671 64 coenzyme F390 synthetase (ftsA-2) #29 AF1699 102 pyruvate ferredoxin oxidoreductase, subunit gamma (porG) #30 AF1720 182 acetolactate synthase, large subunit (ilvB-1) #31 AF1778 105 stage V sporulation protein (spoVG) #32 AF1779 57 2-hydroxyacid dehydrogenase, putative #33 AF2013 275 coenzyme F390 synthetase (ftsA-3) #34 AF2014 63 sugar transporter, putative #35 AF2100 106 acetolactate synthase, large subunit (ilvB-4) #36 AF2271 177 A. fulgidus predicted coding region AF2271 #37 AF2272 87 A. fulgidus predicted coding region AF2272 #38 AF2273 57 3-hydroxyacyl-CoA dehydrogenase (hbd-10) #39 AF2426 85 conserved hypothetical protein #40 AF2429 30 enoyl-CoA hydratase (fad-5) Motif number 1 TTCTAAAGATAAAAGCTGTTATGAATCAGTTCA 1 53 0 AAAATGTTAG 0.538724 -52 AGTTAATTAAAAAAAATTTTATAAAATGATTTG 3 17 0 AAAATTTTAA 0.971527 -79 CTCCGATTTTAAAAACTGTTGCATAGTTTGCTG 5 27 1 AAAATGTTGA 0.881822 -142 GAACGACCATTAAAGATTTTGCAGCAAACTATG 5 48 0 TAAATTTTGA 0.887215 -121 AGAGCAAACTTAAATTTTTTGGATATATAGGCT 5 93 1 TAAATTTTGA 0.887215 -76 ATGGCAAACATAAAATTTTTATATTTTTAGTTT 7 49 1 TAAATTTTAA 0.889283 -34 CGCACGAGAAAAAAGATTTTATATAACAAACCT 9 23 0 AAAATTTTAA 0.971528 -123 AACTCCTACCGAAAAGTTTTAAATCTTTCGCAA 12 16 1 GAAATTTTAA 0.906538 -135 CTATTTTTACGAAATTTTTTCAAATAAATTTCA 12 85 0 GAAATTTTCA 0.693603 -66 GTCAGGTGGGAAAAAATTTTGAGGTGGGCATAG 14 83 1 AAAATTTTGG 0.836673 -98 AACAATTCGAAAAATCTGTTAAAGAAAAGGTAA 22 29 0 AAAATGTTAA 0.883977 -137 TTTATGAAAGAGCTTTTGAAAAAATACGGT 24 8 1 AAGATTTTGA 0.719385 -129 GCTCAACTCTAAAACCTTTTAAACACCCTTGCC 25 17 1 AAAATTTTAA 0.971528 -34 GTAGAAAATTTTTTGAACTCCTTTGCC 26 5 1 AAAATTTTGA 0.970946 -154 TTTTAATGATTAAAGGTTTTCGAATTTTCAAAG 26 80 0 TAAATTTTCA 0.652124 -79 AAGGTTTCGAAAAATATTTTAATGATTAAAGGT 26 96 0 AAAATTTTAT 0.657258 -63 TTAGAAAAAAGAAAAATTTTAGAGCT 28 4 0 GAAATTTTAA 0.906538 -61 GCAATGCAATAAAAACTTTTAGATTTAGAAAAA 28 28 0 AAAATTTTAA 0.971528 -37 GAAAGCTAAAAAAATATTTTAAATGCCGATTCT 29 30 0 AAAATTTTAA 0.971528 -73 AAATTAACGGAAAAGGTTTTGAAAGCTAAAAAA 29 50 0 AAAATTTTGA 0.970946 -53 TGGGCGAACCAAAACTTTTTAAAGCGCATGCTG 30 70 1 AAAATTTTAA 0.971528 -113 AGAAAAGATAAAAAGGTTTTGAAGCAAAAGCCA 32 20 0 AAAATTTTGA 0.970946 -38 CGTTTGCAGCAAAAGGCTTTAAAAGCCACTGCC 33 185 0 AAAACTTTAA 0.723573 -91 TAAAAAGCTAAAAATTTTATGCAAATAAATATG 34 26 0 AAAATTATGA 0.633657 -38 TCAACCTTAGCAAACTTTTTAAAATTATAATCA 35 74 1 CAAATTTTAA 0.783471 -33 AACAAATAAAAAAATTTTTTATATGCCACCATC 36 22 0 AAAATTTTAA 0.971528 -156 **** ***** * Masking position 10 Map Score: 34.0786 Number of sites scoring better than the average of aligned sites = 121 Number in coding regions = 53 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 81 Fraction of orfs with sites within 600 bp upstream = 0.01301 Motif number 2 ACTGGTTCATAAATAAGAAAAAA 2 2 0 AAAAAAAAAA 0.972661 -72 ACAAAAAGTTAATTAAAAAAAATTTTATAAAA 3 24 0 AATAAAAAAA 0.707054 -72 AATAATTAATTAACAACAAAAAGTTAATTAAA 3 39 0 TAAAAAAAAA 0.925034 -57 AAGTAAACTAAAAATATAAAAATTTTATGTTT 7 54 0 AAATAAAAAA 0.740768 -29 AACAAAAATATAAAAATAAAAAT 11 2 0 TAAAAAAAAA 0.925034 -204 AACAGCGTGTTAAAAACAAAAATATAAAAATA 11 16 0 TAAAAAAAAA 0.925034 -190 GTTAACGGTAAAATAATAACAATTATATGGCT 14 142 1 AAAAAAACAA 0.781528 -39 TTGTAATCTCAAAAGATTAAAATACTCTTCAA 15 26 1 AAAGATAAAA 0.797476 -36 TATCTGTTGGAAAAAATAAAAATTAAAA 20 7 0 AAAAAAAAAA 0.972661 -59 GATGGTATTTTAATAAGAAAAAAGTGAAGGAG 21 272 1 TAAAAAAAAA 0.925034 -29 GTTACCGCAAAAAAAAAAAAAAACGAACAGGA 24 57 0 AAAAAAAAAA 0.972661 -80 TTAGATTTAGAAAAAAGAAAAATTTTAGAGCT 28 11 0 AAAAAAAAAA 0.972661 -54 AGGATGCTTAAAAGAATAAAAAATTAACGGAA 29 71 0 AAAAAAAAAA 0.972661 -32 CTCCTTTAGAAAAGAAGTAAAAGCTGTACTAC 30 145 0 AAAAATAAAA 0.925034 -38 TTGAACCCAGAAAAGATAAAAAGGTTTTGAAG 32 29 0 AAAGAAAAAA 0.91905 -29 GGAAATTTAAAGAATTAAAAAGCTAAAAAT 34 44 0 AAAAATAAAA 0.925034 -20 GATTAATCAAAAAGAATAAATAATC 35 4 0 AAAAAAAATA 0.707054 -103 ATTTTAATCAAAACAAATAAAAAAATTTTTTA 36 34 0 AAAAATAAAA 0.925034 -144 ATGGTTAAACAAAAAAGAAAAAGGTTAAAACT 36 135 1 AAAAAAAAAA 0.972661 -43 AGTTCAAGGATAACGAATAAAATGGAAAAACT 38 28 1 TAAGATAAAA 0.577294 -30 *** ** ***** Masking position 6 Map Score: 30.6577 Number of sites scoring better than the average of aligned sites = 118 Number in coding regions = 43 Number in noncoding regions = 75 Number of orfs with sites within 600 bp upstream = 76 Fraction of orfs with sites within 600 bp upstream = 0.0122069 Motif number 3 AATTAACAACAAAAAGTTAATTAAAAAAAA 3 34 0 AAAAAGTTAA 0.912253 -62 ATTGACAAAGAAAAGTTAAAAA 4 3 0 AAAAGTTAAA 0.824082 -52 TATATATCCAAAAAATTTAAGTTTGCTCTG 5 92 0 AAAAATTTAA 0.848302 -77 AGAGCAAATGAAAAATCTAAACGCGTAAAA 11 91 1 AAAAATCTAA 0.714041 -115 CTAAACGCGTAAAAATTGAATATATCAAGT 11 107 1 AAAAATTGAA 0.659639 -99 ATAATTATGGAAAAGCTTAAATGGTTTGAA 14 35 0 AAAAGCTTAA 0.844954 -146 TTGTAATCTCAAAAGATTAAAATACTCTTC 15 26 1 AAAAGATTAA 0.776075 -36 TGGAAAAAATAAAAATTAAAA 20 2 0 AAAAATTAAA 0.798586 -64 TTTAATAAGAAAAAAGTGAAGGAGGTGTAT 21 280 1 AAAAAGTGAA 0.782754 -21 TCTGTTAAAGAAAAGGTAAATACTACAAAT 22 18 0 AAAAGGTAAA 0.897003 -148 TTTAGCTTCAAAAAAGTTAATTTAAGTATG 22 144 0 AAAAAGTTAA 0.912253 -22 CTTCGAAAATAAAAGGCAAAGGAGTTCAAA 26 22 0 AAAAGGCAAA 0.795451 -137 TTTTCTAAAAAAAAATTAAA 27 1 0 AAAAATTAAA 0.798586 -48 TTAAAAGAATAAAAAATTAACGGAAAAGGT 29 66 0 AAAAAATTAA 0.745767 -37 GTTTTGAAGCAAAAGCCAAACTCTTAA 32 8 0 AAAAGCCAAA 0.633075 -50 TTGAACCCAGAAAAGATAAAAAGGTTTTGA 32 31 0 AAAAGATAAA 0.710758 -27 TTAAAGAATTAAAAAGCTAAAAATTTTATG 34 38 0 AAAAAGCTAA 0.822765 -26 ACAAAAAAGAAAAAGGTTAAAACTTAGTCA 36 143 1 AAAAGGTTAA 0.924717 -35 AATAAAATGGAAAAACTTAATACAT 38 43 1 AAAAACTTAA 0.821828 -15 ********** Masking position 4 Map Score: 16.4327 Number of sites scoring better than the average of aligned sites = 261 Number in coding regions = 135 Number in noncoding regions = 126 Number of orfs with sites within 600 bp upstream = 149 Fraction of orfs with sites within 600 bp upstream = 0.0239319 Motif number 4 CGGGGGGAGGGATTCGAACCCTCGAACCCCT 8 145 1 GATCGAACCC 0.980795 -156 CCCCCGCCGGGAGTTGAACCCGGGTCGAGGA 10 97 0 GATTGAACCC 0.858049 -44 GTTAGTACTTGAATTCAAACCATTTAAGCTT 14 22 1 GATTCAAACC 0.821342 -159 CACACTTAAAGAATTGGACCCGGATGGTATT 21 250 1 GATTGGACCC 0.968269 -51 CTGATATGTAGAGTCGAACCACATTGTATAA 22 91 1 GATCGAACCA 0.941114 -75 GTTGAATCAGAATTCAACCAGAATCGGCAT 29 10 1 GATTCAACCA 0.910281 -93 GACAGAATTGAACCCAGAAAAGATA 32 43 0 GATTGAACCC 0.987301 -15 GGGCCGCCGAGATTTGAACTCGGGTCACCGG 33 98 1 GATTGAACTC 0.692487 -178 ** ******** Masking position 8 Map Score: 7.04286 Number of sites scoring better than the average of aligned sites = 55 Number in coding regions = 17 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 35 Fraction of orfs with sites within 600 bp upstream = 0.00562159 Motif number 5 CTAAACACCTCCAAATTAGAAAATA 1 90 0 CACCTCCAAA 0.930912 -15 CTTTGAAATCCACCTTCTAC 8 291 1 CACCTTCTAC 0.895316 -10 GAGTACACCGAACCACCAACAAGAGAGGAA 21 215 1 AACCACCAAC 0.876055 -86 AATACACCTCCTTCACTTTTTTCT 21 287 0 CACCTCCTTC 0.90017 -14 TCAACTCACCTCCAACCTTTTCATAC 27 33 0 CACCTCCAAC 0.992777 -16 TCATCACTCCCACCACCAGCATGCGCTTTA 30 89 0 CACCACCAGC 0.976092 -94 TTAAAACCACCTCTAACTCCTTTAGAA 30 166 0 CACCTCTAAC 0.930912 -17 TTTTATATGCCACCATCAACTTCTCAAC 36 9 0 CACCATCAAC 0.934198 -169 ACCCTTTCACTTCCAGCAACTGCTTTC 37 71 0 CACTTCCAGC 0.884126 -17 ********** Masking position 2 Map Score: 6.06284 Number of sites scoring better than the average of aligned sites = 294 Number in coding regions = 265 Number in noncoding regions = 29 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 6 GGTTCGAATCCCTCCCCCCGCATTTAGTTC 8 135 0 CCTCCCCCCG 0.827338 -166 GGATTCGAACCCTCGAACCCCTACGGGACA 8 154 1 CCTCGAACCC 0.856636 -147 TTTGTCCGCTCGGCAACCCCCGCTCAGATG 8 203 1 CGGCAACCCC 0.952058 -98 AATTTTTCCACGTCGCCCCCGTGGGGTAGC 10 44 1 CGTCGCCCCC 0.980508 -97 CTCAGGATATCCGCTACCCCACGGGGGCGA 10 56 0 CCGCTACCCC 0.943304 -85 GTCGAGGAGTCCGCAGCCCCTCAGGATATC 10 75 0 CCGCAGCCCC 0.966395 -66 GCTGCGGACTCCTCGACCCGGGTTCAACTC 10 88 1 CCTCGACCCG 0.967253 -53 ATTAAAAATTCCATGCCCCCGCCGGGAGTT 10 113 0 CCATGCCCCC 0.859896 -28 GTTCAAATCTCGGCGGCCCCATCATTGAAC 33 87 0 CGGCGGCCCC 0.989944 -189 CTTTGGGAGCCGGTGACCCGAGTTCAAATC 33 108 0 CGGTGACCCG 0.852271 -168 CCAGGCTACCCTACGGCCCCTCTGTAATGA 33 150 1 CTACGGCCCC 0.837859 -126 ********** Masking position 8 Map Score: 6.50334 Number of sites scoring better than the average of aligned sites = 365 Number in coding regions = 332 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 7 ATTATCTGACTTTTGATTAAAATAACTTGA 1 16 0 TTTTGATTAA 0.949792 -89 ATAAAATTTTTTTTAATTAACTTTTTGTTG 3 28 1 TTTTAATTAA 0.649682 -68 CTCTTCAATGTTTTGATTGAAC 15 50 1 TTTTGATTGA 0.939773 -12 GAAATTGCTTTGATTAACATATATATT 18 34 0 CTTTGATTAA 0.902409 -17 TATATAAGAATTTTGATTGCAGGAAACGTT 31 43 0 TTTTGATTGC 0.784748 -63 TTATATACCACTTTGTTTGAGAGTAACGAA 31 66 1 CTTTGTTTGA 0.706764 -40 TATTTATTCTTTTTGATTAATCGTATTCGA 35 14 1 TTTTGATTAA 0.949792 -93 TTTTTATTTGTTTTGATTAAAATTTAATAT 36 43 1 TTTTGATTAA 0.949792 -135 CCTTTTTCTTTTTTGTTTAACCATTAAAGT 36 129 0 TTTTGTTTAA 0.856692 -49 ********** Masking position 4 Map Score: 5.72076 Number of sites scoring better than the average of aligned sites = 29 Number in coding regions = 18 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 8 ACAGCTTTTATCTTTAGAAGGCCTATTTTCTAATTTGG 1 67 1 TTTTAAGTTT 0.905567 -38 TTTATAAAATTTTTTTTAATTAACTTTTTGTTGTTAAT 3 25 1 TTTTTATTTT 0.621687 -71 GTTAATTAATTATTTATCAGGATATTTTTTCTGAACAA 3 57 1 TTTTACGTTT 0.912302 -39 AAACATAAAATTTTTATATTTTTAGTTTACTTTCATAC 7 54 1 TTTTAATTTT 0.526914 -29 ACGAAAAGAAGATTTACACGTCCACTTTCAATCCCATT 8 40 0 GTTTAAGTTT 0.720232 -261 TTTTTAAAGGAAAGATTTATCTTGCAAG 10 1 1 TTTTAAGTTT 0.905567 -140 ATATTTTTGTTTTTAACACGCTGTTTTTAGCGTACTGT 11 23 1 TTTAAAGTTT 0.624668 -183 TAATTCTTACTATTTTTACGAAATTTTTTCAAATAAAT 12 89 0 TTTTTAGTTT 0.933988 -62 TAATTGTTATTATTTTACCGTTAACTTTTGTGTTGATG 14 129 0 TTTTTCGTTT 0.938832 -52 GTATTTTCCAGTACATTTTTCCCTGCCCG 17 2 1 TTTTTCGTTT 0.938833 -31 TATATATTACTATTTTGCTGTAATTTTTAAT 18 4 0 TTTTTCGTTT 0.938833 -47 TCCAACGTCAGTTTATAAGGTAAACTTTATTTACAATG 23 68 1 GTTATAGTTT 0.397306 -47 GGAAACCGTATTTTTTCAAAAGCTCTTTCATAAA 24 7 0 TTTTTAATTT 0.48238 -130 GTTTTTTTTTTTTTTTGCGGTAACAATTTACTCGCTTG 24 65 1 TTTTTCGATT 0.584213 -72 TACAATGAACTCTTTTCCAGAGAACTTTTTCATCACTC 30 110 0 TTTTTCGTTT 0.938833 -73 * **** * * *** Masking position 4 Map Score: 7.10511 Number of sites scoring better than the average of aligned sites = 78 Number in coding regions = 53 Number in noncoding regions = 25 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 9 ATCCAAAAAATTTAAGTTTGCTCTGCCAATAGTC 5 83 0 TTTAGTTCCT 0.799315 -86 ATATAAAAATTTTATGTTTGCCATTAAATGGCAA 7 39 0 TTTAGTTCAT 0.954853 -44 CGCTTGAAGTTTAGGTTTGTTATATAAAATCTT 9 10 1 TTTAGTTTAT 0.957654 -136 TTTTTACGCGTTTAGATTTTTCATTTGCTCTCGT 11 88 0 TTTAATTTAT 0.663949 -118 TTTATCTCAATTTAAGATTTTGATTTGACATACT 12 50 1 TTTAGTTTAT 0.957653 -101 AACTTTTGTGTTGATGTTTGTTATGAGCACTATG 14 111 0 TTGAGTTTAT 0.896691 -70 ATTTTAATCTTTTGAGATTACAATGTTTAAATGT 15 15 0 TTTGGTTCAT 0.799309 -47 CAGATTGGTGTTTACGGTTTTGATGAGCAAACGA 21 89 1 TTTAGTTTAT 0.957654 -212 GCATAAAATTTTTAGCTTTTTAATTCTTTAAATT 34 37 1 TTTACTTTAT 0.745444 -27 ACTCGATTTATGATTATAATTTTAAAAAGT 35 87 0 TTTAGTTTAT 0.957616 -20 AATCTGCTATTTGACGTTTCCCATAGCTCTAACC 39 48 0 TTGAGTTCAT 0.890318 -38 **** * ** * ** Masking position 8 Map Score: 6.50989 Number of sites scoring better than the average of aligned sites = 24 Number in coding regions = 14 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 10 TTCATAACAGCCTTTATTTAGCACTCATCT 2 33 1 CCTTTATTTA 0.958281 -41 AACATAAAAGCCTTTCTTTATTTTGAGTGG 5 131 0 CCTTTCTTTA 0.949866 -38 TTTTGCCTTTATTTACTCAACATAA 5 154 0 CCTTTATTTA 0.958281 -15 CTAACTGTTGCCTCTCTTTAAAATTCACTT 9 79 0 CCTCTCTTTA 0.890672 -67 TCTATTAATCCCTCTATATAAACATTATAC 9 108 0 CCTCTATATA 0.81726 -38 ATCATTATAACCGTTATATAGTCAGGTGGG 14 63 1 CCGTTATATA 0.81726 -118 TAGTATTTACCTTTTCTTTAACAGATTTTT 22 23 1 CTTTTCTTTA 0.623397 -143 TATAAGGTAAACTTTATTTACAATGAAAGT 23 81 1 ACTTTATTTA 0.667425 -34 TTTTTCGAAACCTTTATATAAGGCTGTGAA 26 115 1 CCTTTATATA 0.912288 -44 GGCGGGAAAACCGTTTTTTAATACTGCCAG 33 56 0 CCGTTTTTTA 0.672184 -220 ********** Masking position 5 Map Score: 4.63581 Number of sites scoring better than the average of aligned sites = 46 Number in coding regions = 32 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 11 CACGAAAACATTAAATATTACACGACTACTT 6 53 1 TTAAATATTC 0.895686 -27 TTATTGACATTAAAAATTCCATGCCCCCGC 10 121 0 TTAAAAATTC 0.918775 -20 TCGTTAATACTTAAATTTTACGTAATGTGCC 11 184 0 TTAAATTTTC 0.797837 -22 CCGAAAAGTTTTAAATCTTTCGCAATTTTAT 12 24 1 TTAAATCTTC 0.64173 -127 CCATTTTTAGTAAAAAATTCCACTTTTGTTG 13 26 1 TAAAAAATTC 0.768005 -86 TCCACTTTTGTTGAAATCTGCAAGGCAATGC 13 44 1 TTGAAATCTC 0.546153 -68 ATTAAAAATTACAGCAAAATAG 18 2 1 TTAAAAATTC 0.918752 -49 TTCGAAGAGTTTGAAAATTGCGCGGTTTTGA 26 45 1 TTGAAAATTC 0.796758 -114 AGCTCTAAAATTTTTCTTTTTTCTAA 28 6 1 TAAAATTTTC 0.53759 -59 AAGCTAAGTTTTAAAAACTACTTACCTTTGT 30 17 0 TTAAAAACTC 0.882358 -166 AAAACCGTTTTTTAATACTGCCAGATACTGT 33 49 0 TTTAATACTC 0.560641 -227 GAGGCAGGATTTAAATACTTCACCATCCTGA 33 228 0 TTAAATACTC 0.85064 -48 TTTTTAATTCTTTAAATTTCC 34 53 1 TTTAAATTTC 0.539865 -11 CTGCAGAAGTTAAAAAATTACCTGAGATATT 36 68 0 TAAAAAATTC 0.767986 -110 ********* * Masking position 5 Map Score: 4.97287 Number of sites scoring better than the average of aligned sites = 112 Number in coding regions = 56 Number in noncoding regions = 56 Number of orfs with sites within 600 bp upstream = 62 Fraction of orfs with sites within 600 bp upstream = 0.00995824 Motif number 12 AATATGAATTTTGCCTTGCAGCTCTATGCG 6 22 0 TTGCCTTGCA 0.973358 -58 AAGGAAAGATTTATCTTGCAAGAGTCCAAT 10 17 1 TTATCTTGCA 0.852208 -124 AGTGTAGGCATTGCCTTGCAGATTTCAACA 13 52 0 TTGCCTTGCA 0.973358 -60 AAAGTTTTTATTGCATTGCCTTAACTCTGC 28 42 1 TTGCATTGCC 0.697908 -23 AAATATTTTTTTAGCTTTCAAAACCTTTTC 29 44 1 TTAGCTTTCA 0.782485 -59 TTTTTAAAACTTAGCTTGCAGCAGTGCAAT 30 31 1 TTAGCTTGCA 0.94022 -152 AGCAGTGCAATTACCTTGCCTGGGCGAACC 30 50 1 TTACCTTGCC 0.954765 -133 AGTCAAAAATTTACCTTTCAAGTTAACAAT 36 102 0 TTACCTTTCA 0.895017 -76 ********** Masking position 6 Map Score: 4.76136 Number of sites scoring better than the average of aligned sites = 56 Number in coding regions = 50 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 13 ATTGTGGTTTAAAGGGCGATGACTTCATATAAC 8 259 1 AAAGGGATAC 0.926711 -42 GTAGAAGGTGGATTTCAAAGTTATAT 8 285 0 GAAGGGATTC 0.805374 -16 CAAATTCGGTACAGGCGGATTATCTATTTTTAA 11 148 1 ACAGGGATAT 0.903158 -58 TAAGAATTATAAAGGAGGATTCCAAATATGAGT 12 118 1 AAAGGGATCC 0.963121 -33 AGCCAACAGGGAGATTTCTCATTACTTA 20 48 0 ACAGGGATTC 0.960881 -18 ACTGGCCCCTACAGGGTGATAACGCAGATTGGT 21 65 1 ACAGGGATAC 0.927979 -236 CTGTTAAAGAAAAGGTAAATACTACAAATAGAA 22 14 0 AAAGGAATCT 0.705156 -152 AAAAAAACGAACAGGAGGCTCTTCCAGAGGAAA 24 40 0 ACAGGGCTTT 0.84887 -97 GGACTGCGTTAAAGGAGGCTATCTCCTTT 24 118 1 AAAGGGCTTC 0.88393 -19 AAAATATTTTAAATGCCGATTCTGGTTGAATTC 29 20 0 AAATGGATCT 0.55457 -83 AGAAAAGCTGACAGGTTGATTCT 33 1 0 ACAGGGATCT 0.950646 -275 AAAAGTTTGCTAAGGTTGATTTTGTCAGGCTGC 35 60 0 TAAGGGATTT 0.668968 -47 TGTTAACTTGAAAGGTAAATTTTTGACTTTAAT 36 104 1 AAAGGAATTT 0.688228 -74 ***** *** ** Masking position 3 Map Score: 4.86458 Number of sites scoring better than the average of aligned sites = 171 Number in coding regions = 156 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 18 Fraction of orfs with sites within 600 bp upstream = 0.0028911 Motif number 14 AATGCGGGGGGAGGGATTCGAACCCTCGAA 8 141 1 GAGGGATTCG 0.946772 -160 AACCCGGGTCGAGGAGTCCGCAGCCCCTCA 10 82 0 GAGGAGTCCG 0.957809 -59 TGCTACCGTCGAGGTATCCGGGAGTTGT 21 9 0 GAGGTATCCG 0.949675 -292 TATCATCCCGGAGGAAGTCGAGTACACCGA 21 196 1 GAGGAAGTCG 0.95861 -105 ACCAACAAGAGAGGAAATCGACACACTTAA 21 229 1 GAGGAAATCG 0.964981 -72 GGCTCTTCCAGAGGAAACCGTATTTTTTCA 24 27 0 GAGGAAACCG 0.977441 -110 ********** Masking position 2 Map Score: 2.64573 Number of sites scoring better than the average of aligned sites = 53 Number in coding regions = 49 Number in noncoding regions = 4 Number of orfs with sites within 600 bp upstream = 4 Fraction of orfs with sites within 600 bp upstream = 0.000642467 Motif number 15 GCTGCAAAATCTTTAATGGTCGTTCTGGAC 5 56 1 CTTTAATGGT 0.965475 -113 TATGGAAAAGCTTAAATGGTTTGAATTCAA 14 30 0 CTTAAATGGT 0.873401 -151 AATTATATGGCTTTAAACGTACTATTAGC 14 162 1 CTTTAAACGT 0.902552 -19 ATTCGAAAACCTTTAATCATTAAAATATTT 26 88 1 CTTTAATCAT 0.853112 -71 AAGCCACTGCCTTTAATCATTACAGAGGGG 33 166 0 CTTTAATCAT 0.853112 -110 TAATTGTTAACTTGAAAGGTAAATTTTTGA 36 100 1 CTTGAAAGGT 0.816454 -78 AAATTTTTGACTTTAATGGTTAAACAAAAA 36 120 1 CTTTAATGGT 0.965475 -58 ********** Masking position 5 Map Score: 1.23597 Number of sites scoring better than the average of aligned sites = 26 Number in coding regions = 19 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617