AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00380_aful_reg_100.orf -o00380_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 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 AF0140 123 ubiquinone/menaquinone biosynthesis methyltransferase (ubiE) #6 AF0283 168 3-ketoacyl-CoA thiolase (acaB-7) #7 AF0438 79 3-ketoacyl-CoA thiolase (acaB-8) #8 AF0439 82 transcriptional regulatory protein, AsnC family #9 AF0442 300 succinoglycan biosynthesis regulator (exsB) #10 AF0685 140 enoyl-CoA hydratase (fad-2) #11 AF0727 97 cobalamin biosynthesis precorrin-2 methyltransferase (cbiL) #12 AF0968 205 3-ketoacyl-CoA thiolase (acaB-10) #13 AF0991 260 glutaryl-CoA dehydrogenase (gcdH) #14 AF1025 150 3-hydroxyacyl-CoA dehydrogenase (hbd-4) #15 AF1122 111 3-hydroxyacyl-CoA dehydrogenase (hbd-5) #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 AF1215 101 cell division protein, putative #24 AF1641 31 enoyl-CoA hydratase (fad-4) #25 AF1642 50 histidyl-tRNA synthetase (hisS) #26 AF1694 50 tryptophanyl-tRNA synthetase (trpS) #27 AF1778 105 stage V sporulation protein (spoVG) #28 AF1779 57 2-hydroxyacid dehydrogenase, putative #29 AF1855 180 2,3-dihydrosybenzoate-AMP ligase (entE) #30 AF1975 99 glutamyl-tRNA reductase (hemA) #31 AF1976 93 26S protease regulatory subunit 4 #32 AF2013 275 coenzyme F390 synthetase (ftsA-3) #33 AF2014 63 sugar transporter, putative #34 AF2233 87 peroxidase / catalase (perA) #35 AF2271 177 A. fulgidus predicted coding region AF2271 #36 AF2272 87 A. fulgidus predicted coding region AF2272 #37 AF2273 57 3-hydroxyacyl-CoA dehydrogenase (hbd-10) #38 AF2426 85 conserved hypothetical protein #39 AF2429 30 enoyl-CoA hydratase (fad-5) Motif number 1 AAAGTTAATTAAAAAAAATTTTATAAAATGATTTG 3 17 0 AAAAAATATA 0.843465 -79 AATTAATTAACAACAAAAAGTTAATTAAAAAAAAT 3 33 0 CAAAAATAAT 0.775427 -63 GATAATTGACAAAGAAAAGTTAAAAA 4 2 0 AAAAAAAAAA 0.938311 -53 CAGGATGGTAAACGAAAGGTATAAATGAATCCTTA 5 85 1 AAAAAGTAAA 0.924944 -39 ATTCATATTTCACGAAAACATTAAATATTACACGA 7 43 1 CAAAAATAAA 0.944667 -37 TATGAAAGTAAACTAAAAATATAAAAATTTTATGT 8 56 0 AAAAAATAAA 0.963829 -27 AGCGTGTTAAAAACAAAAATATAAAAATAAAAAT 12 10 0 AAAAAATAAA 0.963829 -196 TAATTATTGACATTAAAGCTAAATACAGTACGCTA 12 50 0 CAAAAGAATA 0.476857 -156 TACGAGAGCAAATGAAAAATCTAAACGCGTAAAAA 12 87 1 AAAAAATAAA 0.963829 -119 AAGTATGTCAAATCAAAATCTTAAATTGAGATAAA 14 50 0 AAAAAATAAA 0.963829 -101 TTAAAAATTACAGCAAAATAGTAATATATATGTTA 18 12 1 CAAAAATAAT 0.775427 -39 CTGTTGGAAAAAATAAAAATTAAAA 20 1 0 AAAAAAAAAA 0.938311 -65 TTCGTTTGCTCATCAAAACCGTAAACACCAATCTG 21 89 0 CAAAAATAAA 0.944667 -212 AAAATCTGTTAAAGAAAAGGTAAATACTACAAATA 22 17 0 AAAAAAAAAT 0.754681 -149 AAAAGGTTTAAATAAAAAGCGTATTAAATCTTAGC 23 71 1 AAAAAATATT 0.521533 -31 CGTTACTCTCAAACAAAGTGGTATATAAGAATTTT 27 59 0 AAAAAGTATA 0.713666 -47 GAATTGAACCCAGAAAAGATAAAAAGGTTTTGAAG 28 29 0 CAAAAGAAAA 0.818408 -29 GAAAAGCAAAAATTAAAATGATAAAATGGTGGAGA 30 23 0 AAAAAATAAA 0.963829 -77 AGCATTGCTGAATAAAAAACTTAAAAAGCACTTGT 30 58 1 AAAAAATAAA 0.963829 -42 ACGTAGAGGGAAGCAAAAAATAAAATTGAGGGATA 31 65 1 AAAAAAAAAA 0.938311 -29 AAATTTAAAGAATTAAAAAGCTAAAAATTTTATGC 33 37 0 AAAAAATAAA 0.963829 -27 ATTTTAATCAAAACAAATAAAAAAATTTTTTATAT 35 31 0 AAAAATAAAA 0.65741 -147 TTTGTTTAACCATTAAAGTCAAAAATTTACCTTTC 35 113 0 CAAAAGAAAA 0.818408 -65 TTAAACAAAAAAGAAAAAGGTTAAAACTTAGTCAA 35 139 1 AAAAAATAAA 0.963829 -39 AAGGATAACGAATAAAATGGAAAAACTTAATACAT 37 33 1 AAAAATAAAA 0.65741 -25 ** **** **** Masking position 7 Map Score: 34.5523 Number of sites scoring better than the average of aligned sites = 154 Number in coding regions = 64 Number in noncoding regions = 90 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813 Motif number 2 TCATTTTATAAAATTTTTTTTAATTAACTTTT 3 21 1 AAATTTTTTA 0.947905 -75 CAAACTATGCAACAGTTTTTAAAATCGGAGTA 6 25 0 AACAGTTTTA 0.700082 -144 GAGCAAACTTAAATTTTTTGGATATATAGGCT 6 94 1 AAATTTTTTA 0.947905 -75 TGGCAAACATAAAATTTTTATATTTTTAGTTT 8 50 1 AAAATTTTTA 0.896116 -33 GACTTTATTTAAATTTTTTGGATTTTCAGTAA 11 45 1 AAATTTTTTA 0.947905 -53 AATTTACCTTAAAGGTCTTTAAAACAAAAATT 13 135 0 AAAGGTCTTA 0.727303 -126 ACTTTTTCCGAAATCTTTTTAAACGCTCAAAA 13 206 1 AAATCTTTTA 0.726346 -55 ACTCCTACCGAAAAGTTTTAAATCTTTCGCAA 14 17 1 AAAAGTTTTA 0.896483 -134 TATTTTTACGAAATTTTTTCAAATAAATTTCA 14 85 0 AAATTTTTTA 0.947905 -66 GAAATTGCTTTGATTAACATATA 18 38 0 AAATTGCTTA 0.768699 -13 TACTTAAATTAACTTTTTTGAAGCTAAATC 22 146 1 AACTTTTTTA 0.830634 -20 AAAGTTGGGAAAAAGGTTTAAATAAAAAGCGT 23 61 1 AAAAGGTTTA 0.809033 -41 AGGGTGTTTAAAAGGTTTTAGAGTTGAGCGAA 25 14 0 AAAGGTTTTA 0.8772 -37 TCCTGCAATCAAAATTCTTATATACCACTTTG 27 49 1 AAAATTCTTA 0.763073 -57 GAAAAGATAAAAAGGTTTTGAAGCAAAAGCCA 28 20 0 AAAGGTTTTA 0.8772 -38 GTAGTTTAGGAAATTTTTTAAAATTAAAGATA 29 72 1 AAATTTTTTA 0.947905 -109 GGTAATGTTAAAATTGTTTAAATGTTGACAAT 29 114 0 AAATTGTTTA 0.899001 -67 CGTTTGCAGCAAAAGGCTTTAAAAGCCACTGC 32 186 0 AAAAGGCTTA 0.612669 -90 TCTAGAAGAAAAATGTTTTTTACTAAGATGTG 34 22 0 AAATGTTTTA 0.948099 -66 TTCTAAATCGAAATTGTTTTAAAACATCAGCT 34 60 1 AAATTGTTTA 0.899001 -28 ACAAATAAAAAAATTTTTTATATGCCACCATC 35 22 0 AAATTTTTTA 0.947905 -156 AACTTTTTTACACCATAAGTTC 37 1 1 AACTTTTTTA 0.830634 -57 ********* * Masking position 8 Map Score: 26.0029 Number of sites scoring better than the average of aligned sites = 209 Number in coding regions = 97 Number in noncoding regions = 112 Number of orfs with sites within 600 bp upstream = 140 Fraction of orfs with sites within 600 bp upstream = 0.0224863 Motif number 3 TAATTAAAAAAAATTTTATAAAATGATTTG 3 17 0 AAATTTTATA 0.61231 -79 CAAAGGAGCGAAAATTTAAAA 5 2 0 AAAATTTAAA 0.790304 -122 ATATATCCAAAAAATTTAAGTTTGCTCTGC 6 91 0 AAAATTTAAG 0.895526 -78 AAAAATATAAAAATTTTATGTTTGCCATTA 8 47 0 AAATTTTATG 0.782236 -36 GAAAATCCAAAAAATTTAAATAAAGTCAAT 11 42 0 AAAATTTAAA 0.790304 -56 CACATTACGTAAAATTTAAGTATTAACGAA 12 186 1 AAAATTTAAG 0.895526 -20 CTTTAAAAGCAAATTTAAAGCTTTATTAGG 13 71 1 AAATTTAAAG 0.853149 -190 CTTTAAAACAAAAATTGAAGTTTCTCAAAG 13 121 0 AAAATTGAAG 0.842981 -140 CCTTTAAGGTAAATTTTATGTTGCAGTTGA 13 152 1 AAATTTTATG 0.782236 -109 GGAAAAAATAAAAATTAAAA 20 1 0 AAAATTAAAA 0.74105 -65 GAGAGTAACGAAATTTGAAAGGAGGGTTAG 27 84 1 AAATTTGAAA 0.67814 -22 GAAATTTTTTAAAATTAAAGATATTGAAAG 29 81 1 AAAATTAAAG 0.866822 -100 CTGAAAAGCAAAAATTAAAATGATAAAATG 30 30 0 AAAATTAAAA 0.74105 -70 AGCAAAAAATAAAATTGAGGGATAAAAT 31 76 1 AAAATTGAGG 0.47961 -18 AAAAAGCTAAAAATTTTATGCAAATAAATA 33 28 0 AAATTTTATG 0.782236 -36 GGAAATTTAAAGAATTAAAAAG 33 52 0 AAATTTAAAG 0.853149 -12 GTTTTGATTAAAATTTAATATCTCAGGTAA 35 52 1 AAATTTAATA 0.545303 -126 ********** Masking position 5 Map Score: 14.3846 Number of sites scoring better than the average of aligned sites = 99 Number in coding regions = 55 Number in noncoding regions = 44 Number of orfs with sites within 600 bp upstream = 53 Fraction of orfs with sites within 600 bp upstream = 0.00851269 Motif number 4 GGGTTCGAATCCCTCCCCCCGCATTTAGTTCTGT 9 132 0 CTCCCCCGCT 0.741071 -169 AATCCTGCGCCTTTGTCCGCTCGGCAACCCCCGC 9 192 1 CTGCCGCTCG 0.957297 -109 GTCCGCTCGGCAACCCCCGCTCAGATGAAAAATT 9 206 1 CCCCCGCTCG 0.969178 -95 TCCAATTTTTCCACGTCGCCCCCGTGGGGTAGCG 10 41 1 CCGCGCCCCG 0.964375 -100 GTCGAGGAGTCCGCAGCCCCTCAGGATATCCGCT 10 71 0 CCACCCCTCG 0.980823 -70 ATTAAAAATTCCATGCCCCCGCCGGGAGTTGAAC 10 109 0 CTGCCCCGCG 0.97268 -32 AGAACCTAACCATTGCCGCCTCTGCCTCTTTTGA 16 23 0 CTGCGCCTCG 0.976865 -81 CTCTACATATCAGCCACACCTCGTTTAAACGAGC 22 70 0 CCCCACCTCT 0.805592 -96 AGTTTAAAAACAGCAACGCCTCAGCTTGACCG 23 9 0 CCACGCCTCG 0.96202 -93 CCAGGCTACCCTACGGCCCCTCTGTAATGATTAA 32 150 1 CCGCCCCTCG 0.995254 -126 TCTACATATACTACGACATCTCTGCATTAAAACG 36 39 0 CCGCATCTCG 0.836482 -49 * ** ****** * Masking position 7 Map Score: 9.76688 Number of sites scoring better than the average of aligned sites = 302 Number in coding regions = 279 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 21 Fraction of orfs with sites within 600 bp upstream = 0.00337295 Motif number 5 CCGGGTTCAACTCCCGGCGGGGGCATGGAAT 10 105 1 CTCCCGGGGG 0.987762 -36 CTCCGGGCAGGGAAAAATGTA 17 22 0 CTCCGGGAGG 0.980555 -11 AATGAGAAATCTCCCTGTTGGCT 20 53 1 CTCCCTGTGG 0.926821 -13 AAGTTCTGGACTTCCGGAAGGCACTGGCCCC 21 43 1 CTTCCGGAGG 0.990417 -258 TCTGCGTTATCACCCTGTAGGGGCCAGTGCC 21 62 0 CACCCTGAGG 0.90861 -239 GCTCTTAGCGCTTCATGAAGGACGTAACGTT 21 133 1 CTTCATGAGG 0.831904 -168 GTGTACTCGACTTCCTCCGGGATGATAATTT 21 192 0 CTTCCTCGGG 0.852763 -109 GCTCAAGCTTCGGCAAGGGTGTTTAAAA 25 33 0 CTTCGGCAGG 0.894269 -18 ATGGTGGAGACTCCCGGAACGG 30 2 0 CTCCCGGACG 0.977895 -98 TATTTGGAGGCTTCCGGAACGTAGAGGGAAG 31 47 1 CTTCCGGACG 0.965196 -47 ******* *** Masking position 4 Map Score: 8.99084 Number of sites scoring better than the average of aligned sites = 157 Number in coding regions = 143 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 6 CGGGGGGAGGGATTCGAACCCTCGAACCCCT 9 145 1 GATCGAACCC 0.986921 -156 CCCCCGCCGGGAGTTGAACCCGGGTCGAGGA 10 97 0 GATTGAACCC 0.975449 -44 TTTTATGTTGCAGTTGAACCATCCTACATCT 13 165 1 CATTGAACCA 0.855929 -96 CACACTTAAAGAATTGGACCCGGATGGTATT 21 250 1 GATTGGACCC 0.971831 -51 CTGATATGTAGAGTCGAACCACATTGTATAA 22 91 1 GATCGAACCA 0.953976 -75 GACAGAATTGAACCCAGAAAAGATA 28 43 0 GATTGAACCC 0.99082 -15 GGGCCGCCGAGATTTGAACTCGGGTCACCGG 32 98 1 GATTGAACTC 0.926881 -178 ** ******** Masking position 8 Map Score: 6.6211 Number of sites scoring better than the average of aligned sites = 41 Number in coding regions = 8 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 7 AATTAACAACAAAAAGTTAATTAAAAAAAATTTTATA 3 27 0 AAAAATTTAA 0.598327 -69 ATTTGTTCAGAAAAAATATCCTGATAAATAATTAATT 3 60 0 AAAAATACAA 0.946687 -36 AACGACCATTAAAGATTTTGCAGCAAACTATGCAACA 6 43 0 AAAGATTCAA 0.849557 -126 TGAAAAAAGTAGTCGTGTAATATTTAATGT 7 60 0 AAAAATACAA 0.946687 -20 TTTTTAAAGGAAAGATTTATCTTGCAAGAGTCCAATT 10 11 1 AAAGATTCAA 0.849557 -130 GAGCAAATGAAAAATCTAAACGCGTAAAAATTGAATA 12 92 1 AAAATTACAA 0.603079 -114 CAACTGCAACATAAAATTTACCTTAAAGGTCTTTAAA 13 144 0 ATAAATTCAA 0.659295 -117 AAGATTTCGGAAAAAGTTTGCCAATAAAGATGTAGGA 13 186 0 AAAAATTCAA 0.957655 -75 AATTTATTTGAAAAAATTTCGTAAAAATAGTAAGAAT 14 88 1 AAAAATTGAA 0.688255 -63 TATCTGTTGGAAAAAATAAAAATTAAAA 20 2 0 AAAAATAAAA 0.673459 -64 CCTCTACCTTAAAAATTATGCTGACAATTTAACCTTT 29 18 1 AAAAATACAA 0.946687 -163 AAATCCCTTAAAAAATTTCCCGATTAAAGTTGGTAAT 29 140 0 AAAAATTCAA 0.957655 -41 GCTGAAAAGCAAAAATTAAAATGATAAAATGGTGGAG 30 24 0 AAAAATAAAA 0.67346 -76 ATTTTATGCAAATAAATATGCATAAAATGCACACT 33 9 0 AATAATACAA 0.603079 -55 TGCAGAAGTTAAAAAATTACCTGAGATATTAAATTTT 35 61 0 AAAAATTCAT 0.659296 -117 CATTAAAGTCAAAAATTTACCTTTCAAGTTAACAATT 35 101 0 AAAAATTCAA 0.957655 -77 ***** ** * ** Masking position 7 Map Score: 11.4303 Number of sites scoring better than the average of aligned sites = 76 Number in coding regions = 51 Number in noncoding regions = 25 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912 Motif number 8 TTTTGCCTTTATTTACTCAACA 6 157 0 TTGCCTTTAT 0.922268 -12 GCAATTTTAATTGCAATTAAAGTGTAAGTA 8 13 0 TTGCAATTAA 0.656357 -70 AATTTTATGTTTGCCATTAAATGGCAATTT 8 36 0 TTGCCATTAA 0.960382 -47 AAGATAAATCTTTCCTTTAAAAA 10 4 0 TTTCCTTTAA 0.705404 -137 TTATTGACATTAAAAATTCCATG 10 128 0 TTGACATTAA 0.886592 -13 TTGTGTCAGATTGACTTTATTTAAATTTTT 11 33 1 TTGACTTTAT 0.792826 -65 TAATTAATTATTGACATTAAAGCTAAATAC 12 59 0 TTGACATTAA 0.886592 -147 AGCTTTAAATTTGCTTTTAAAGCCTCAAAT 13 63 0 TTGCTTTTAA 0.724472 -198 CGGAAAAAGTTTGCCAATAAAGATGTAGGA 13 186 0 TTGCCAATAA 0.73738 -75 GTTTTTAAACTTGCCTTTATCGAGATTGCA 23 32 1 TTGCCTTTAT 0.922268 -70 TTAAAAGCCACTGCCTTTAATCATTACAGA 32 170 0 CTGCCTTTAA 0.851387 -106 AGGTAAATTTTTGACTTTAATGGTTAAACA 35 116 1 TTGACTTTAA 0.914979 -62 ********** Masking position 9 Map Score: 9.90002 Number of sites scoring better than the average of aligned sites = 75 Number in coding regions = 64 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 12 Fraction of orfs with sites within 600 bp upstream = 0.0019274 Motif number 9 TATGAATCAGTTCATAACAAAATTATCTGA 1 37 0 TTCATAACAA 0.601993 -68 TATGAACTGATTCATAACAGCTTTTATCTT 1 51 1 TTCATAACAG 0.87468 -54 TATGAACCAGTTCATAACAGCCTTTATTTA 2 23 1 TTCATAACAG 0.87468 -51 ATTATCGTTATTAAAAAGAGAACTTACTGG 4 31 1 TTAAAAAGAG 0.895513 -24 TACTCCGATTTTAAAAACTGTTGCATAGTT 6 25 1 TTAAAAACTG 0.564949 -144 AAACAGCGTGTTAAAAACAAAAATATAAAA 12 19 0 TTAAAAACAA 0.766835 -187 ATACAGTACGCTAAAAACAGCGTGTTAAAA 12 33 0 CTAAAAACAG 0.893935 -173 GACATTAAAGCTAAATACAGTACGCTAAAA 12 47 0 CTAAATACAG 0.576367 -159 ATGTGCCGATTTAAAAATAGATAATCCGCC 12 161 0 TTAAAAATAG 0.570062 -45 AAAAAGAATGTTAAATACAGAAAAAAGGTG 13 236 1 TTAAATACAG 0.710135 -25 AATGCCTACACTAATAAGAAACACTTAAAT 15 70 1 CTAATAAGAA 0.326196 -42 GGGGAATATGCTCAAAAGAGGCAGAGGCGG 16 12 1 CTCAAAAGAG 0.823298 -92 GGATGATAATTTCAAAAGAGCTGTTATTCA 21 174 0 TTCAAAAGAG 0.893546 -127 GGATGGTATTTTAATAAGAAAAAAGTGAAG 21 271 1 TTAATAAGAA 0.465793 -30 GATTTAGCTTCAAAAAAGTTAATTTAAG 22 148 0 TTCAAAAAAG 0.565001 -18 AAAGGCAAGTTTAAAAACAGCAACGCCTCA 23 20 0 TTAAAAACAG 0.938182 -82 ********** Masking position 4 Map Score: 7.11686 Number of sites scoring better than the average of aligned sites = 161 Number in coding regions = 125 Number in noncoding regions = 36 Number of orfs with sites within 600 bp upstream = 43 Fraction of orfs with sites within 600 bp upstream = 0.00690652 Motif number 10 TGTTAATTAATTATTTATCAGGATATTTTTTCTG 3 56 1 TTTTTATCGT 0.595656 -40 AGCCTTTCTTTATTTTGAGTGGTTTGAAGCCTAT 6 119 0 TATTTGAGGT 0.837393 -50 TCAGTAAGATTTATTTAACTGAGTTTAGAGTTGC 11 70 1 TTTTTAACGT 0.932628 -28 TGGTTTATACTTCTTTGAGAAACTTCAATTTTTG 13 109 1 TTTTTGAGAT 0.821772 -152 TTAACATTCTTTTTTTGAGCGTTTAAAAAGATTT 13 216 0 TTTTTGAGGT 0.941317 -45 GATAATGATATTATTTAAGTGTTTCTTATTAGTG 15 78 0 TTTTTAAGGT 0.956226 -34 TCATTACTTATACTTTAACTATCTGTTGGAAAAA 20 24 0 TATTTAACAT 0.560918 -42 CCGGGTCCAATTCTTTAAGTGTGTCGATTTCCTC 21 239 0 TTTTTAAGGT 0.956226 -62 TATTTACCTTTTCTTTAACAGATTTTTCGAATTG 22 26 1 TTTTTAACGT 0.932628 -140 TCAAAAAAGTTAATTTAAGTATGTTTTCAATATC 22 133 0 TATTTAAGAT 0.668425 -33 ATATACCACTTTGTTTGAGAGTAACGAAATTTGA 27 68 1 TTTTTGAGGA 0.766147 -38 AATCGGGAAATTTTTTAAGGGATTTGGCAATTAT 29 152 1 TTTTTAAGGT 0.956226 -29 TTTTTCTTTTTTGTTTAACCATTAAAGTCAAAAA 35 123 0 TTTTTAACAA 0.448339 -55 ** ****** * * Masking position 6 Map Score: 6.18683 Number of sites scoring better than the average of aligned sites = 61 Number in coding regions = 47 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 11 CTAAACACCTCCAAATTAGAAAA 1 92 0 AACACCTCCA 0.961833 -13 AAAGAAGATTTACACGTCCACTTTCAATCC 9 44 0 TACACGTCCA 0.932631 -257 AACACCTCCAGATTTCTTGA 11 1 1 AACACCTCCA 0.961833 -97 GCTGTTATTCAACACGTCCTCAACGTTACG 21 155 0 AACACGTCCT 0.932631 -146 AATACACCTCCTTCACTTTTTT 21 289 0 TACACCTCCT 0.977131 -12 TTCTAACCCTCCTTTCAAATTTC 27 93 0 TAACCCTCCT 0.886923 -13 CCCATAGCTCTAACCCTCCTACCATTCTTC 38 33 0 TAACCCTCCT 0.886923 -53 ********** Masking position 2 Map Score: 3.70165 Number of sites scoring better than the average of aligned sites = 120 Number in coding regions = 107 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 12 ATTCAATGGGCGATTTAAGCAAAGGAGCGAAA 5 19 0 CGTTAAGCAA 0.920018 -105 ACTGTTGCATAGTTTGCTGCAAAATCTTTAAT 6 41 1 AGTTCTGCAA 0.92784 -128 ATTGCCTTGCAGATTTCAACAAAAGTGGAATT 15 41 0 AGTTCAACAA 0.712719 -71 ATTAAAAATTACAGCAAAATAGTAATA 18 6 1 AATTCAGCAA 0.935289 -45 TTTAATCTAACGTTTCCTGCAATCAAAATTCT 27 35 1 CGTTCTGCAA 0.967876 -71 GTCTGAGCTGCAGTTCCAGAAAAGCTGACAGG 32 19 0 CATTCAGAAA 0.747407 -257 AAAACGAATGCGTTTGCAGCAAAAGGCTTTAA 32 196 0 CGTTCAGCAA 0.985194 -80 AAAAGCTAAAAATTTTATGCAAATAAATATGC 33 25 0 AATTATGCAA 0.530814 -39 ACCCTTTCACTTCCAGCAACTGCTTTCTA 36 69 0 CATTCAGCAA 0.97132 -19 GGAGCTATTTCAGCAATCTGCTATTT 38 70 0 CTTTCAGCAA 0.911457 -16 ** ** ****** Masking position 5 Map Score: 4.64643 Number of sites scoring better than the average of aligned sites = 393 Number in coding regions = 366 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 13 CCTATTTTCTAATTTGGAGGTGTTTAG 1 88 1 AATGGAGGTG 0.98463 -17 TGAAAAAAGTAGTCGTGTAATATTTAA 7 63 0 AATAGTCGTG 0.763671 -17 AATGGGATTGAAAGTGGACGTGTAAATCTTCT 9 40 1 AATGGACGTG 0.957742 -261 AAGCTCAAGAAATCTGGAGGTGTT 11 3 0 AATGGAGGTG 0.984628 -95 TAATAAGAAAAAAGTGAAGGAGGTGTATT 21 282 1 AATGAAGGAG 0.842865 -19 CATAATTTTTAAGGTAGAGGTGGTGAT 29 6 0 AATAGAGGTG 0.936111 -175 TTAAAATGATAAAATGGTGGAGACTCCCGGAA 30 14 0 AATGGTGGAG 0.935974 -86 GTTGAGAAGTTGATGGTGGCATATAAAA 35 7 1 AATGATGGTG 0.901317 -171 ** ******** Masking position 2 Map Score: 4.62713 Number of sites scoring better than the average of aligned sites = 129 Number in coding regions = 112 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 14 TGCTCAAAAGAGGCAGAGGCGGCAATGGTT 16 20 1 AGGCAGAGGC 0.986268 -84 GACTTCCGGAAGGCACTGGCCCCTACAGGG 21 51 1 AGGCACTGGC 0.966918 -250 CGGTCAAGCTGAGGCGTTGCTGTTT 23 6 1 AAGCTGAGGC 0.906442 -96 TAATGATTAAAGGCAGTGGCTTTTAAAGCC 32 174 1 AGGCAGTGGC 0.990377 -102 TATATGTAGAAAGCAGTTGCTGGAAGTGAA 36 63 1 AAGCAGTTGC 0.897462 -25 ********** Masking position 1 Map Score: 1.08374 Number of sites scoring better than the average of aligned sites = 69 Number in coding regions = 65 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 TTTAATAACGATAATTGACAAAGAAAAGTT 4 16 0 ATAATTGACA 0.932428 -39 AATTGCAATTAAAATTGCCATTTAATGGCA 8 25 1 AAAATTGCCA 0.920819 -58 CTCGTAATTAATTATTGACATTAAAGCTAA 12 63 0 ATTATTGACA 0.772948 -143 AAATTGAGATAAAATTGCGAAAGATTTAAA 14 33 0 AAAATTGCGA 0.727257 -118 AATCTATAATTGCCAAATCCCTTAA 29 166 0 ATAATTGCCA 0.955943 -15 TGTCTCTATGATAATTGACAGCAC 36 5 0 ATAATTGACA 0.932428 -83 ********** Masking position 5 Map Score: 0.789394 Number of sites scoring better than the average of aligned sites = 26 Number in coding regions = 18 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