AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00530_synecho_reg_300.orf -o00530_synecho_300.ace -a/home/amcguire/genomes/ORF_synecho.txt -z/home/amcguire/genomes/synecho.fna -g0.48 -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 = 0.48 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: sll0225 21 bcp; hypothetical protein. Input sequences: #1 slr1129 83 rne; ribonuclease E. [EC:3.1.4.-] #2 sll1045 96 mutT; mutator MutT protein. [EC:3.6.1.-] #3 sll1043 127 pnp; polyribonucleotide nucleotidyltransferase. [EC:2.7.7.8] #4 sll0716 202 lepB; leader peptidase I. [EC:3.4.21.89] #5 sll0712 112 cysM; cysteine synthase. [EC:4.2.99.8] #6 sll0711 98 hypothetical protein. #7 sll0710 40 hypothetical protein. #8 sll0709 300 llaI.2; 2nd component required for LlaI restriction activity. #9 slr0237 49 glgX; glycogen operon protein GlgX. [EC:3.2.1.-] #10 slr0238 115 hypothetical protein. #11 ssl0426 231 transposase. #12 slr0239 116 cbiF; precorrin methylase. #13 slr0241 234 hypothetical protein. #14 slr0243 82 bcp; hypothetical protein. #15 sll0230 231 hypothetical 13.3 kD protein sll0230. [SP:Y230_SYNY3] #16 slr0244 108 bcp; hypothetical protein. #17 sml0003 148 psbM; photosystem II reaction centre M protein. [SP:PSBM_SYNY3] #18 slr0245 127 hypothetical 33.6 kD protein slr0245. [SP:Y245_SYNY3] #19 sll0227 205 ppiB; peptidyl-prolyl cis-trans isomerase B. [EC:5.2.1.8] #20 sll0226 138 ycf4; hypothetical protein. #21 sll0224 300 bcp; hypothetical protein. #22 sll0220 300 glmS; glucosamine--fructose-6-phosphate aminotransferase #23 sll1508 300 lpxC; UDP-3-0-acyl N-acetylglcosamine deacetylase. [EC:3.5.1.-] #24 slr1857 59 glgX; glycogen operon protein GlgX. [EC:3.2.1.-] #25 slr1859 99 hypothetical protein. #26 slr1861 104 hypothetical protein. #27 sll1780 101 putative transposase for insertion sequence element IS4SA. #28 slr1864 177 hypothetical protein. #29 slr1866 300 hypothetical protein. #30 sll1757 144 hypothetical protein. [EC:2.7.1.69] #31 ssr3188 159 hypothetical protein. #32 ssl3364 164 hypothetical protein. #33 slr1884 150 trpS; tryptophanyl-tRNA synthetase (tryptophan--tRNA ligase) #34 ssr3189 125 hypothetical protein. #35 slr1885 85 hypothetical protein. #36 slr1886 32 iojap protein. #37 sll1755 76 hypothetical protein. #38 slr1887 129 hemC; porphobilinogen deaminase (PBG) (hydroxymethylbilane synthase) #39 slr1888 265 hypothetical protein. #40 slr2132 57 pta; phosphotransacetylase. [EC:2.3.1.8] #41 sll2015 61 hypothetical protein. #42 sll2014 53 sfsA; sugar fermentation stimulation protein. #43 sll2013 159 hypothetical protein. #44 sll2012 300 rpoD; RNA polymerase sigma factor. #45 ssr1391 77 hypothetical protein. #46 slr0820 145 glucosyltransferase. #47 ssl1507 78 transposase. #48 sll0808 300 transposase. #49 slr0776 107 lpxD; UDP-3-o-[3-hydroxymyristoyl] glucosamine n-acyltransferase. #50 sll0767 140 rplT, rpl20; 50S ribosomal protein L20. [SP:RL20_SYNY3] #51 ssl1426 96 rpmI, rpl35; 50S ribosomal protein L35. [SP:RL35_SYNY3] #52 sll0765 91 hypothetical protein. #53 tRNA-Ala-2 300 tRNA-Ala. #54 sll0016 300 mltA; membrane-bound lytic transglycosylase A. [EC:3.2.1.-] #55 slr0015 62 lpxB; lipid A disaccharide synthase. [EC:2.4.1.182] #56 ssl0020 300 petF, fed, sll0011; ferredoxin. [SP:FER_SYNY3] #57 slr0017 104 murA; UDP-N-acetylglucosamine 1-carboxyvinyltransferase #58 slr0018 55 fumC; fumarase. [EC:4.2.1.2] #59 sll0010 192 hypothetical protein. #60 tRNA-Gly-2 198 tRNA-Gly. #61 slr0019 28 hypothetical protein. #62 sll0008 35 hypothetical protein. #63 sll0007 51 hypothetical protein. #64 sll0006 103 aspC; aspartate aminotransferase. [EC:2.6.1.1] #65 sll0005 187 hypothetical 77.3 kD protein sll0005. [SP:Y005_SYNY3] #66 slr0020 100 recG; DNA recombinase. [EC:3.6.1.-] #67 slr0021 65 putative protease slr0021. [EC:3.4.-.-] [SP:Y021_SYNY3] #68 sll0002 226 ponA; penicillin-binding protein 1A. #69 tRNA-Ser-4 225 tRNA-Ser. #70 slr0213 87 guaA; probable GMP synthase (glutamine-hydrolysing) (glutamine #71 sll0210 114 bacA; bacitracin resistance; possibly phosphorylates undecaprenol. #72 slr0216 127 cobU; cobinamide kinase. #73 slr0217 238 hypothetical protein. #74 ssr0349 258 hypothetical protein. #75 sll0209 218 hypothetical protein. #76 sll0208 257 hypothetical protein. #77 sll0207 157 rfbA; glucose-1-phosphate thymidylyltransferase. [EC:2.7.7.24] #78 slr0220 175 glyS; glycyl-tRNA synthetase beta chain (glycine--tRNA ligase beta #79 sll0205 286 hypothetical protein. #80 sll0204 136 gidA; glucose inhibited division protein A. #81 sll0202 129 gidA; glucose inhibited division protein A. [SP:GIDA_SYNY3] #82 sll0200 300 transposase. #83 sll0379 26 lpxA; acyl-[acyl-carrier-protein]-UDP-N-acetylglucosam ine o- #84 slr0420 213 hypothetical protein. #85 slr0421 125 hypothetical protein. #86 sll0378 195 cysG; uroporphyrin-III C-methyltransferase. [EC:2.1.1.107] #87 sll0377 147 mfd; transcription-repair coupling factor. #88 sll0376 300 hypothetical protein. #89 slr0534 240 slt; soluble lytic transglycosylase. [EC:3.2.1.-] #90 slr0535 106 serine protease. [EC:3.4.21.-] #91 slr0536 146 hemE; uroporphyrinogen decarboxylase. [EC:4.1.1.37] [SP:DCUP_SYNY3] #92 sll0509 101 Ap-4-A phosphorylase II. #93 sll0508 235 hypothetical protein. #94 sll0507 131 magnesium and cobalt transport protein. #95 sll0505 42 hypothetical protein. #96 sll0504 168 lysA; diaminopimelate decarboxylase (dap decarboxylase). #97 sll0502 197 argS; arginyl-tRNA synthetase (arginine--tRNA ligase) (argRS). #98 sll0501 201 hypothetical 36.7 kD protein sll0501. [SP:Y501_SYNY3] #99 slr0541 79 hypothetical protein. #100 slr0542 77 clpP1; ATP-dependent clp protease proteolytic subunit 1 #101 slr0543 70 trpB; tryptophan synthase beta chain. [EC:4.2.1.20] [SP:TRPB_SYNY3] #102 sll0499 300 clpP; hypothetical protein. #103 sll0899 242 glmU; UDP-N-acetylglucosamine pyrophosphorylase. [EC:2.7.7.23] #104 ssr1562 65 clpP; hypothetical protein. #105 sll0897 106 dnaJ; DnaJ. #106 sll0895 300 cysQ; ammonium transport protein. #107 sll0726 300 pgm; phosphoglucomutase. [EC:5.4.2.2] Motif number 1 CAGGCGATCGCCACCTAATCCT 1 3 1 GGCGATCGCC 0.499995 -81 TGCCACCATTGGCGATCGTTGTAGTCACTG 1 42 1 GGCGATCGTT 0.897872 -42 AACATTTTACGGCGATTGGCGAATCCTAAT 6 18 0 GGCGATTGGC 0.921882 -81 AGGATGATAGGGCGATCACCTTAGGGGAAC 20 53 0 GGCGATCACC 0.552493 -86 CTAATGATGGCGATCGCCGTCTTGGCTA 22 9 1 GGCGATCGCC 0.499995 -292 GGCCGCAACTGGCGATCGCCAGGATTTCCA 31 33 1 GGCGATCGCC 0.499995 -127 CATAAAAAACGGCGATCGGTGGGTTTCGGC 34 69 0 GGCGATCGGT 0.95033 -57 TAGCATCAGAGGCTATCGGCCTTGGTTTTC 37 52 1 GGCTATCGGC 0.938733 -25 CTCCTCCAGAGGCTATCGTCTGGGTTAAGA 44 48 0 GGCTATCGTC 0.867911 -253 TGAACGCAACGGCGATCGTTCATTGCGCCC 45 25 0 GGCGATCGTT 0.897872 -53 AAGACTAACAGGCGATCGCCCATTAGTCCC 57 64 1 GGCGATCGCC 0.499995 -41 TCGCATAGAAGGCGATCGCCGCAAAAGGAG 60 53 1 GGCGATCGCC 0.499995 -146 GGCGATCGGCAGTCAGGAAT 69 1 1 GGCGATCGGC 0.568479 -225 GCAACGGTGGGGCGATCACAATTCTAGGGG 71 17 1 GGCGATCACA 0.846652 -98 TCTACTCAAAGGCGATCGAACAGCAAACAC 73 199 1 GGCGATCGAA 0.859854 -40 AAAGCTTTATGGCGATCGGAGTCGTTAACT 75 155 1 GGCGATCGGA 0.958622 -64 TCTGCGTTTTGGCGATCGCATCTTTTAAGC 82 86 1 GGCGATCGCA 0.565604 -215 CAACCACTGGGGCTATTGGCCAAGGATCGT 88 247 0 GGCTATTGGC 0.700915 -54 ACGTTAGCTTGGGGATCGCAGCAAAAATCT 89 159 0 GGGGATCGCA 0.81857 -82 ATAGACCACTGGCGATCGGCATGGTAACAG 98 84 1 GGCGATCGGC 0.568479 -118 ********** Masking position 6 Map Score: 46.3103 Number of sites scoring better than the average of aligned sites = 6747 Number in coding regions = 6151 Number in noncoding regions = 596 Number of orfs with sites within 600 bp upstream = 384 Fraction of orfs with sites within 600 bp upstream = 0.0616768 Motif number 2 CCCCAAGATATCGAATCTTAGGGGAATAATACAGA 2 35 0 TAATCGGGGA 0.78822 -62 CCGACCAAAGGTTGATCACCGGGGAAATGGGCCTT 3 30 0 GGATCGGGGA 0.959089 -98 TAGAATCTGGGGAGATTGATGGGGCTAGATACATG 4 145 0 GGATTGGGGC 0.979727 -58 GGGAGGATGGGCTGATGTAGGGGGAATTTCTGCCG 5 28 0 GGATGGGGGA 0.924546 -85 TCCTGCCGTCAATTGGAGGGGCAGGTTAGCTG 15 210 0 GAATTGGGGC 0.975918 -22 CGGCAAGGTTTGGAATCCGTGGGGCGAGTTTTGCT 18 90 0 TAATCGGGGC 0.73091 -38 CTAAATAATGGTGAATTGAAGGGAAAGGGAAATTT 24 27 1 GAATTGGGAA 0.677834 -33 GCTTTAGTGAGGAGATTTGGGGGGATAAATACCTA 29 137 0 GGATTGGGGA 0.985123 -164 ACTGGAAACGGACGATTGATGGGGAATGACTGGGA 44 140 0 GGATTGGGGA 0.985123 -161 TTACAAAACAATTAATCAATGGGGAACTATTCTAA 66 33 1 AAATCGGGGA 0.618193 -68 GTGGGGCGATCACAATTCTAGGGGACAGTTTAAAA 71 23 1 CAATTGGGGA 0.876149 -92 AGATTTTGCCTGTGATTCTCGGGCATCCATTCACT 73 120 1 TGATTGGGCA 0.712557 -119 CACGAAATCAGTCAATTTACGGGCAGATGCTTACG 77 109 1 GAATTGGGCA 0.916526 -49 GCTTTAGTGAAGAGATTTAGGGGGCTGAACAAAAC 78 78 0 AGATTGGGGC 0.799205 -98 CTAAAGCTCCGGCAATACTGGGGGACTTTCACTCA 78 106 1 GAATAGGGGA 0.790226 -70 CCTCCTGGCCTCCAATTTGGGGGGAAACTGAGTGA 78 134 0 TAATTGGGGA 0.913141 -42 CCCATTATTGGGGAATTTAGGGGGCGGAATAAAAC 86 66 0 GAATTGGGGC 0.975918 -130 CAGTATTCCTCCTAATTTGAGGGGCCAGAGGGGCT 86 112 1 CAATTGGGGC 0.837736 -84 GCGTTACTGAGGAGATTTAGGGGGCAGAATAAAAC 91 107 1 GGATTGGGGC 0.979727 -40 ACCAGTCAAATTTAATTTCTGGGCAGTGAAT 94 7 0 TAATTGGGCA 0.675194 -125 GGACGATGATGTTAGGGGAAGTGAACGTT 97 179 0 GGATGGGGGA 0.924546 -19 CTGATCCGCCGTTAATTTGAGGGGATAAAGGTCAA 102 225 0 GAATTGGGGA 0.98231 -76 TTGGGGCAAGGCAAATTCAGGGGGAAAACTACCAG 103 176 0 GAATTGGGGA 0.98231 -67 ATGCGGAGGTGGGGATTTCTGGGCAACCATCTGGG 105 12 1 GGATTGGGCA 0.929046 -95 TCACTCCACAGTGGATTCACGGGGAAATTTTTTCA 106 28 0 GGATTGGGGA 0.985123 -273 CAGTGGCATCGAAAATTAAAGGGGCGATTCTAATT 106 265 0 GAATTGGGGC 0.975918 -36 * **** ***** Masking position 6 Map Score: 38.334 Number of sites scoring better than the average of aligned sites = 414 Number in coding regions = 316 Number in noncoding regions = 98 Number of orfs with sites within 600 bp upstream = 88 Fraction of orfs with sites within 600 bp upstream = 0.0141343 Motif number 3 ACCTTTGGTCGGCCCAGGGTTCGTCAATGG 3 53 1 GGCCCAGGGT 0.620602 -75 CCTCGGGTTAGAATCTGGGGAGATTGATGG 4 158 0 GAATCTGGGG 0.518382 -45 TCAGCCCATCCTCCCTGGGGTAGGATAACC 5 48 1 CTCCCTGGGG 0.743304 -65 TTAGTGAGGAGGGCTAGGGGGGATATCTCT 13 110 0 GGGCTAGGGG 0.95949 -125 AAACAGAACAGAGTCAGGGGCGGAGTTGAT 16 30 1 GAGTCAGGGG 0.81988 -79 GGTGGGTCATGGCCCTGGGGCAATGGCTGA 17 74 0 GGCCCTGGGG 0.988252 -75 ATCCTCCTTTGGGTCTGTGGAAGACTTTTA 18 58 0 GGGTCTGTGG 0.467149 -70 CAAATTTTGGGAGCTAGGGGACTTT 20 6 0 GAGCTAGGGG 0.85663 -133 TCACCTTAGGGGAACTGGGGTCTAACCTCT 20 38 0 GGAACTGGGG 0.831731 -101 TACCCCATCAGGGCTAGGGGCTAGGATGAT 20 75 0 GGGCTAGGGG 0.95949 -64 ACGTCAGCATGGCATTGGGGGATTTAGGAA 22 119 0 GGCATTGGGG 0.765785 -182 GGAGGAACTTGGCACAGGGGCGGACTATAT 22 160 0 GGCACAGGGG 0.929964 -141 GCAGTGACAATTACCTGGGGGTTGTTACTG 31 83 1 TTACCTGGGG 0.594615 -77 AAAGGATATCTTCCCTGGGGTTAAC 31 145 1 TTCCCTGGGG 0.822168 -15 TGCCCCATACGGCCCTGGGGGCCACCACCG 32 19 0 GGCCCTGGGG 0.988252 -146 GGGGTTTTTGGAGACTGGGGCTAGTAGTAA 34 23 0 GAGACTGGGG 0.860862 -103 CCGCCGTTTGTTGTCTGGGGTTTTTGGAGA 34 39 0 TTGTCTGGGG 0.537809 -87 GCACAATATTCCCAGGGGTTCTAGCTAC 35 68 0 TTCCCAGGGG 0.797586 -18 CCGTTGTCCCTGGGGGGCGCAATGA 45 6 1 GTCCCTGGGG 0.959634 -72 AGCTAAATATGGCCCTGGGCTAGTCTGTGC 54 197 1 GGCCCTGGGC 0.739892 -104 TGCTCCGTCGGGAATAGGGGATGGGAAACC 54 233 0 GGAATAGGGG 0.469241 -68 ATAATTGCCAGGCCGAGGGGCAAAAACACT 56 84 1 GGCCGAGGGG 0.75832 -217 TCTCTGAGGTGTGCCTGGGGATTCGCCCTC 69 44 0 GTGCCTGGGG 0.973975 -182 CGCCTTTGAGTAGACTGGGGGACACTGGCT 73 183 0 TAGACTGGGG 0.546119 -56 CTAATTTGAGGGGCCAGAGGGGCTTTTAAA 86 123 1 GGGCCAGAGG 0.726057 -73 GGCAAAAGTTTTCCTAGGGGTCGACCTTAC 87 113 1 TTCCTAGGGG 0.452634 -35 TAACTGCTTGGGGTCTGGGGGGTAAGACTA 88 188 0 GGGTCTGGGG 0.954896 -113 CCGCCGACGTTAGCTTGGGGATCGCAGCAA 89 165 0 TAGCTTGGGG 0.57687 -76 CAATCCTTGAGGATCAGGGGATTTAGTCTT 90 80 1 GGATCAGGGG 0.784318 -27 CCAAACTTGGGGACCAGGGGGCTTTTTAAA 91 43 0 GGACCAGGGG 0.957886 -104 ACCGAAAATACGGCCAGGGGCTGGGTTTTA 92 59 0 CGGCCAGGGG 0.932189 -43 CCGGCCTGATGGGCCAGTGGAACCAGTCAA 94 33 0 GGGCCAGTGG 0.823745 -99 TAGGGATTGGGAGCCAGGGGA 99 69 1 GAGCCAGGGG 0.966068 -11 CTTTTTCCCTGGGCCTGGGGAAATTAATCC 101 16 1 GGGCCTGGGG 0.992505 -55 TAGTCGAGATCAGCTAGGGGAAGTGAGCAA 102 29 0 CAGCTAGGGG 0.421217 -272 TGAGTATATCGTGATTGGGGCAAGGCAAAT 103 195 0 GTGATTGGGG 0.592616 -48 GGGCCGTGTATGGCCTGGGGTAACTTTGGC 107 183 1 TGGCCTGGGG 0.96262 -118 ********** Masking position 7 Map Score: 40.8559 Number of sites scoring better than the average of aligned sites = 2441 Number in coding regions = 2188 Number in noncoding regions = 253 Number of orfs with sites within 600 bp upstream = 254 Fraction of orfs with sites within 600 bp upstream = 0.0407967 Motif number 4 GGTGGACAAGGCCCATTTCCCCGGTGATCAAC 3 23 1 GCCCATTCCC 0.639383 -105 CCCTACATCAGCCCATCCTCCCTGGGGTAGGA 5 41 1 GCCCATCCCC 0.963684 -72 ATCGGCTTCCCCCCTTCTCAACCGGAGCTTTA 13 137 0 CCCCTTCAAC 0.609575 -98 TAGAACCATGGCCCACCAAGGCTGAGAAAGTC 15 149 0 GCCCACCGGC 0.861644 -83 TTCAATTGGTCCCCATTTCCCCTAGAAAGTTA 19 84 1 CCCCATTCCC 0.809123 -122 TTGAATTTTACCCCATCAGGGCTAGGGGCTAG 20 81 0 CCCCATCGGC 0.977885 -58 ATTGGGTTTGCCCCATCAGCCC 31 1 0 CCCCATCCCC 0.984483 -159 CCTCAACTTGCCCCATACGGCCCTGGGGGCCA 32 25 0 CCCCATAGCC 0.65287 -140 AAGCTGTTTCCCCCATCAAGGCCAGATTATCT 38 38 1 CCCCATCGGC 0.977893 -92 GCGGGATTTTCCCCATCCCAACTTTCCATGGC 50 52 0 CCCCATCAAC 0.937808 -89 AAAGCTGGAAGCCCTTCCACGCATAGAAGAGA 53 103 0 GCCCTTCCGC 0.71003 -198 CTCATGAAGCCTCCATCGGGACAACTATATCC 56 240 0 CTCCATCGAC 0.629208 -61 AGACGGTTTTCCCCATCCTAACCCAGGTAGCC 65 18 1 CCCCATCAAC 0.937808 -170 CATGGGGAATGTCCATCGTCCCAGCCTTTGTT 66 70 0 GTCCATCCCC 0.650453 -31 AATTTTCCGCCCCCATCTTAGCGCAGATTTGC 69 178 0 CCCCATCAGC 0.964992 -48 ATTGTGATCGCCCCACCGTTGCAACTCC 71 7 0 CCCCACCTGC 0.624443 -108 AATCTCTATGCCCCATCTCAACTTGCCTGATA 77 66 0 CCCCATCAAC 0.937808 -92 ACAGCAAGAACCCCATCCCAACTCCTAGCAAA 87 57 0 CCCCATCAAC 0.937808 -91 GGTTCCACTGGCCCATCAGGCCGGCCAAAATC 94 39 1 GCCCATCGCC 0.954037 -93 CTTTCCCTACCCCCACCCTAACGACCATCTCC 95 13 1 CCCCACCAAC 0.835408 -30 CCACCCTAACGACCATCTCCCCTTACCC 95 25 1 GACCATCCCC 0.650453 -18 ACGGTAACAACACCATCTCCCC 99 1 0 CACCATCCCC 0.816478 -79 GCCCAGAAATCCCCACCTCCGCATC 105 4 0 CCCCACCCGC 0.950078 -103 AATTTGTGCTCCCCATCTTGGCGCTGGGCCGT 107 158 1 CCCCATCGGC 0.977893 -143 ******* *** Masking position 4 Map Score: 28.0669 Number of sites scoring better than the average of aligned sites = 738 Number in coding regions = 656 Number in noncoding regions = 82 Number of orfs with sites within 600 bp upstream = 98 Fraction of orfs with sites within 600 bp upstream = 0.0157404 Motif number 5 AAAATGAGCAAAAAATCCCCCAAGATATCGA 2 56 0 AAAATCCCCC 0.981912 -41 AATTGCGGCAGAAATTCCCCCTACATCAGCC 5 23 1 GAAATCCCCC 0.973538 -90 TCACTCCTGTAAAAGTTCCCAAGATCATTTC 13 39 0 AAAATTCCCA 0.803916 -196 CTCTGTTGTCAAAAATCTCCCTGAAGTTTAG 18 16 1 AAAATCTCCC 0.864987 -112 AGGATAGAGCAAAACTCGCCCCACGGATTCC 18 83 1 AAAATCGCCC 0.929736 -45 TTGGTTACACGAAACTCGCCATTAATCACTG 28 155 0 GAAATCGCCA 0.603304 -23 AATCAACGTCGAAAGTCCCCCTTTTTAAGCC 29 175 0 GAAATCCCCC 0.973538 -126 TAAAAAACGCAAAAATCCCCCATAAAGCTTG 44 11 0 AAAATCCCCC 0.981912 -290 ATCTCTCAGGGTAAATTCCCCGCCCCTTGAG 48 104 0 GTAATTCCCC 0.717891 -197 CCAAGAAAAAGAAACTCCCCACCCTAGGTAA 49 60 1 GAAATCCCCA 0.861866 -48 AACTATTTTAAAAATTTCCCCAAGTCTTGCT 54 28 0 AAAATTCCCC 0.960277 -273 GCGATCGCCCATTAGTCCCCCAATCAAATCA 57 75 1 ATTATCCCCC 0.567047 -30 TGTTTGTTAGAATAGTTCCCCATTGATTAAT 66 43 0 AATATTCCCC 0.789692 -58 GAAGACATAAATAAATTCCCCAATTTTTAAG 70 54 0 ATAATTCCCC 0.789692 -34 GCCAGTAGTCAATATTTCCCCGTGCTTTCCA 74 62 1 AATATTCCCC 0.789692 -197 GAAACTGAGTGAAAGTCCCCCAGTATTGCCG 78 115 0 GAAATCCCCC 0.973538 -61 AATACTGAGTGAAAGTCCCCCATTATTGGGG 86 88 0 GAAATCCCCC 0.973538 -108 TCGGCGGCATAAAACTTGCCCGAGATTCCCG 89 188 1 AAAATTGCCC 0.854914 -53 GAGTGTGTTTAAAAAGCCCCCTGGTCCCCAA 91 36 1 AAAAGCCCCC 0.818896 -111 TATCTGTATTAAAAATCCCCCTGCC 96 154 1 AAAATCCCCC 0.981912 -15 ACCCGACCATAAAACTTTCCCAATTCCCTTC 100 21 0 AAAATTTCCC 0.740462 -57 CAAAAGTGAAAAAATTTCCCCGTGAATCCAC 106 22 1 AAAATTCCCC 0.960277 -279 GTCATAGAGAAAAAATTGCCAAAGTTACCCC 107 199 0 AAAATTGCCA 0.499831 -102 AGATAAAAGAAAAAGTCTCCAAATCCCTGGT 107 228 0 AAAATCTCCA 0.520737 -73 **** ****** Masking position 4 Map Score: 30.4308 Number of sites scoring better than the average of aligned sites = 1037 Number in coding regions = 812 Number in noncoding regions = 225 Number of orfs with sites within 600 bp upstream = 165 Fraction of orfs with sites within 600 bp upstream = 0.0265018 Motif number 6 GTGATCAACCTTTGGTCGGCCCAGGGTTCGTC 3 46 1 TTTGTCGCCC 0.969237 -82 AGCAATTAACTTTGGCTTTCCCACCATTGCCC 14 13 0 TTTGCTTCCC 0.797068 -70 AGGGGCGGAGTTGATCCAGCCCCTTTTTTTGC 16 45 1 TTGACCGCCC 0.945025 -64 GGCCAAACTTTTTGCTCCGCCTTCTCCGCCTA 17 36 0 TTTGTCGCCT 0.86394 -113 GAGCAAAAAGTTTGGCCAGCCCTTCAGCCATT 17 51 1 TTTGCCGCCC 0.984732 -98 CATTTAAATATTTGATTTGCCCACTGCAACCT 26 36 0 TTTGTTGCCC 0.938992 -69 GTTGCGGCCATTGGGTTTGCCCCATCAGCCC 31 10 0 TTGGTTGCCC 0.907929 -150 TTGAATTACCTTGATTTTGCCCTCCAAA 40 7 0 TTGATTGCCC 0.804007 -51 TTATCCGTCATTTACCTAGCCCAGTCCGTCTC 44 203 1 TTTACTGCCC 0.929113 -98 ATCTGACGGTTTTGACTGTCCTCTAGGCGATT 53 45 1 TTTGCTTCCT 0.441831 -256 CGGCACTGGCTTGATCTCGCCTCAGCAAAATT 64 38 0 TTGACTGCCT 0.628579 -66 TCTAACGAGAATGGGTTGGCCCTGGCTACCTG 65 41 0 ATGGTTGCCC 0.616433 -147 ATTCTAATCTATTGGCCAGCCTTGGCAATCAA 73 40 1 ATTGCCGCCT 0.679318 -199 CAGTCCCTCTTTGAGCTAGCCCAGCAGTTTTA 74 172 0 TTGACTGCCC 0.893588 -87 GTTTAGCAGTTTTGTTCAGCCCCCTAAATCTC 78 70 1 TTTGTCGCCC 0.969237 -106 TTTAAAAAGTTTTATTCCGCCCCCTAAATTCC 86 58 1 TTTATCGCCC 0.929113 -138 CGGGCCAGGTTTTATCCATCCCTCAAGGTGTG 89 60 0 TTTACCTCCC 0.769838 -181 TTGGAAAAGTTTTATTCTGCCCCCTAAATCTC 91 118 0 TTTATCGCCC 0.929113 -29 TGGGTTTTACTTGAGCCGTCCCTTGATCCTAC 92 36 0 TTGACCTCCC 0.681829 -66 ACTTTACGATTTTGGCCGGCCTGATGGGCCAG 94 46 0 TTTGCCGCCT 0.928562 -86 CTTTTAGGGTTTTGCTTTGCCCCCGGTTGTTG 96 89 1 TTTGTTGCCC 0.938992 -80 ATGGGGCATTATTGTCCAGCCCAGCCCTTAGT 97 135 1 ATTGCCGCCC 0.913128 -63 TCCCCCTGAATTTGCCTTGCCCCAATCACGAT 103 186 1 TTTGCTGCCC 0.969237 -57 CCCTGATTGTCTTGTTCTGCCTTTGTCTGGGC 106 107 1 CTTGTCGCCT 0.527658 -194 TAAACACAATCTTACCCAGCCCAACGCCTGGA 106 226 1 CTTACCGCCC 0.825184 -75 **** ** **** Masking position 2 Map Score: 25.3853 Number of sites scoring better than the average of aligned sites = 854 Number in coding regions = 732 Number in noncoding regions = 122 Number of orfs with sites within 600 bp upstream = 133 Fraction of orfs with sites within 600 bp upstream = 0.021362 Motif number 7 TTACCGAGGTTTGCCCTAGCTGTCAGGGTTTG 4 111 1 TTGCCCGCTG 0.95446 -92 GCCCCTTTTTTTGCCGATAGTTAAACCCTGGG 16 63 1 TTGCCGAGTT 0.749165 -46 GGCGAAATATTTACCCAGGGTTTAACTATCGG 16 76 0 TTACCCGGTT 0.704089 -33 CCTTCAGCCATTGCCCCAGGGCCATGACCCAC 17 71 1 TTGCCCGGGC 0.733587 -78 TAGACCCCAGTTCCCCTAAGGTGATCGCCCTA 20 44 1 TTCCCCAGGT 0.4233 -95 ACCCAGCTAATTGCCATGGGGGGCGATAGATT 22 207 1 TTGCCAGGGG 0.807085 -94 CAACAAAGTTTTGCCAGTGCATAGTTGAAAAT 25 77 0 TTGCCAGCAT 0.382875 -23 GCACAATATTCCCAGGGGTTCTAGCTACAC 35 66 0 TTCCCAGGTT 0.639817 -20 TTTCATTACGTTACCCCTGGTTTTGACGGGAT 43 23 1 TTACCCGGTT 0.704089 -137 TCGGTCAGCCTTGCCCAAAGGGAAAATAAAGC 49 14 0 TTGCCCAGGG 0.812462 -94 TTTGCTCACTTTTCCGCTGGGTGCCATGGAAA 50 30 1 TTTCCGGGGT 0.442941 -111 ACTTATGTTTTTGCCCAGAGTGTTTTTGCCCC 56 100 0 TTGCCCAGTG 0.915661 -201 GATAATGCCTTTGCCACCGGAGTATTTGCAAA 57 18 0 TTGCCAGGAG 0.578263 -87 TTTCCCTTGCTGTATTTCGGAT 59 181 0 TTTCCCGCTG 0.785076 -12 GCCATGGTTGCCATAGGTTCCAGTCAAAA 64 8 1 TTGCCAGGTT 0.903916 -96 CACTTTAGATTTGCCCTTACTGAAATTTTCCT 68 96 1 TTGCCCACTG 0.845558 -131 GACCATGGCCTTGCCGTCAGTTAGACCCAGAA 69 94 0 TTGCCGAGTT 0.749165 -132 TAGCGCAGATTTGCCGTGGGTTATTCTGGGCT 69 160 0 TTGCCGGGTT 0.919571 -66 GGATTTTTGATTGCCAAGGCTGGCCAATAGAT 73 46 0 TTGCCAGCTG 0.840945 -193 TAGTCAATATTTCCCCGTGCTTTCCATAGAAG 74 67 1 TTCCCCGCTT 0.780268 -192 TCCCCCAGTATTGCCGGAGCTTTAGTGAAGAG 78 99 0 TTGCCGGCTT 0.852194 -77 TGAATATAGTTTTCCCAAGCTTTCTAGTAACA 84 97 0 TTTCCCGCTT 0.766225 -117 TCCCGACCCTTTGCCAAGACTGGCTAAGCATA 88 109 0 TTGCCAACTG 0.580032 -192 GGCATAAAACTTGCCCGAGATTCCCGGTGCCA 89 193 1 TTGCCCGATT 0.574351 -48 TAGCTTATCATTTCCCCCGGTGCCCCCAATCC 90 54 1 TTTCCCGGTG 0.878694 -53 TTTCCCAAAGTTTTTCCCTAGG 91 1 1 TTTCCCAGTT 0.629334 -146 TCCCAAAGTTTTTCCCTAGGTTAGAGTGTGTT 91 13 1 TTTCCCGGTT 0.866659 -134 TTTCTCAGTATTGCCGGAGCGTTACTGAGGAG 91 89 1 TTGCCGGCGT 0.697031 -58 GGGTTTTGCTTTGCCCCCGGTTGTTGTAGCTC 96 95 1 TTGCCCGGTT 0.973885 -74 ATTAGATTAGTTGCCCTAAGTGATTTATACAA 97 79 0 TTGCCCAGTG 0.915661 -119 TTTTGCTCACTTCCCCTAGCTGATCTCGACTA 102 27 1 TTCCCCGCTG 0.798285 -274 AAGTTTAGAGTTGCCCAAAGTCTAGAAAATTA 103 115 0 TTGCCCAGTC 0.643192 -128 TGTTAAGGTTTTGCCAACGGTGACTGGCTGGT 103 149 1 TTGCCAGGTG 0.912926 -94 TTTTATCTCTTTGCCCATGGATAGCCCTTGGC 107 251 1 TTGCCCGGAT 0.829846 -50 ****** **** Masking position 2 Map Score: 28.07 Number of sites scoring better than the average of aligned sites = 1869 Number in coding regions = 1718 Number in noncoding regions = 151 Number of orfs with sites within 600 bp upstream = 163 Fraction of orfs with sites within 600 bp upstream = 0.0261805 Motif number 8 GGCTTTCTTGCCACCATTGGCGATCGTTGTAG 1 34 1 CCAATTGGCG 0.927622 -50 GACTATATCCCCAAAACTGACGTCAGCATGGC 22 136 0 CCAACTGACG 0.549276 -165 ATCATCTTCACTATCATTGGGGAATCTCC 22 282 1 CTAATTGGGG 0.769265 -19 AACCCAATGGCCGCAACTGGCGATCGCCAGGA 31 25 1 CCGACTGGCG 0.812824 -135 GCCCTGGGGGCCACCACCGGGGATAGT 32 6 0 CCAACCGGGG 0.940271 -159 GGCCCGTCATCGGGGCACCAGGAGC 33 136 0 CCGATCGGGG 0.902568 -15 TTGATTGTGGCCATTATCGGGG 53 1 0 CCAATCGGGG 0.954009 -300 GACATTTTAGCCAAAATTGACGAGAGACTAGA 53 147 0 CCAATTGACG 0.616277 -154 AGGTAGGGAGCAAGACTTGGGGAAATTTTTAA 54 20 1 CAACTTGGGG 0.793401 -281 TAGCTAAATACCATCATTAGGGACTTTTATTT 54 170 0 CCAATTAGGG 0.67223 -131 CCAACATTGGCAAGGATTGAGGAGGAACCCGT 65 117 0 CAAATTGAGG 0.699809 -71 TTCTGGGCTTCAGGTATTGGGGTAGAATACGG 69 137 0 CAGATTGGGG 0.892557 -89 TAAAGCTCCGGCAATACTGGGGGACTTTCACT 78 107 1 GCAACTGGGG 0.697571 -69 TGAAAGTCCCCCATTATTGGGGAATTTAGGGG 86 78 0 CCAATTGGGG 0.978922 -118 ATCACCAAGTCAACCACTGGGGCTATTGGCCA 88 255 0 CAAACTGGGG 0.933848 -46 CCCTGATCCTCAAGGATTGGGGGCACCGGGGG 90 67 0 CAAATTGGGG 0.94899 -40 ATGCGTCCCCCCAAACTTGGGGACCAGGGGGC 91 51 0 CCACTTGGGG 0.905582 -96 ATCGGAGCTACAACAACCGGGGGCAAAGCAAA 96 99 0 CAAACCGGGG 0.863076 -70 CAATTTGTAACAGCTATTGGGGAGCTAATACA 100 52 1 CAGATTGGGG 0.892554 -26 *** ******* Masking position 12 Map Score: 13.827 Number of sites scoring better than the average of aligned sites = 867 Number in coding regions = 680 Number in noncoding regions = 187 Number of orfs with sites within 600 bp upstream = 119 Fraction of orfs with sites within 600 bp upstream = 0.0191134 Motif number 9 AAATTTACAAAATGAGCAAAAAATCCCCCAA 2 64 0 ATGAGCAAAA 0.810269 -33 GGGGAGATTGATGGGGCTAGATACATGGGCA 4 141 0 AGGGGCTAGA 0.662451 -62 GGTTCCAATGGGCTAAAAAGTTAATTG 9 7 1 ATGGGCTAAA 0.783201 -43 TAAAAAGTTAATTGGGCAAAAACTCAGTAAA 9 24 1 ATGGGCAAAA 0.893332 -26 TCGGCAAAAAAAGGGGCTGGATCAACTCCGC 16 49 0 AGGGGCTGGA 0.722363 -60 CCAAAGGAGGATAGAGCAAAACTCGCCCCAC 18 76 1 AAGAGCAAAA 0.488975 -52 ACAGCTTTAAACTGAGCAAAACGGTGTTTCT 22 66 1 ATGAGCAAAA 0.810269 -235 TAGATTTGTCATTGGGCAGAAGGAAAAAGCT 22 233 1 ATGGGCAGAA 0.917376 -68 GAATATTAGTAAGGAGCTAAATTACTTTTGG 25 23 0 AGGAGCTAAA 0.704806 -77 TTCTTGTAACTGGGCAGAAGTGTTGAACG 27 9 1 ATGGGCAGAA 0.917376 -93 ATGATAGAATAAAGGGCAGAAATATTAGAAT 27 71 1 AAGGGCAGAA 0.713276 -31 CCAGCGGAAAAGTGAGCAAAAATAGCGCTAA 50 19 0 ATGAGCAAAA 0.810269 -122 ACTAGACCGGATTGAGCGAAAGCTGGAAGCC 53 122 0 ATGAGCGAAA 0.643576 -179 TAATCTAGGTAGGGAGCAAGACTTGGGGAAA 54 14 1 AGGAGCAAGA 0.698798 -287 TATTAATAGAATGGGGCAGGAC 58 2 0 AGGGGCAGGA 0.857788 -54 GGAGTCGTTAACTGAGCGGAAAGCGATACCT 75 172 1 ATGAGCGGAA 0.705348 -47 GAAGAGATTTAGGGGGCTGAACAAAACTGCT 78 74 0 AGGGGCTGAA 0.861254 -102 TGGGGAATTTAGGGGGCGGAATAAAACTTTT 86 62 0 AGGGGCGGAA 0.858844 -134 GAGGAGATTTAGGGGGCAGAATAAAACTTTT 91 115 1 AGGGGCAGAA 0.935025 -32 AGCTAGGGGAAGTGAGCAAAAACTATAATTA 102 17 0 ATGAGCAAAA 0.810269 -284 * ********* Masking position 1 Map Score: 15.6765 Number of sites scoring better than the average of aligned sites = 456 Number in coding regions = 357 Number in noncoding regions = 99 Number of orfs with sites within 600 bp upstream = 95 Fraction of orfs with sites within 600 bp upstream = 0.0152586 Motif number 10 AATTAGTATTTTCTCCTCCCC 12 1 0 TTCTCCCCCC 0.841385 -116 GCTGTTCTCACTTCCCACCCTGATGTCTGCC 22 40 0 CTTCCCCCCT 0.84612 -261 TGTCTTAAATTTCCCTTTCCCTTCAATTCAC 24 37 0 TTCCCTTCCC 0.853936 -23 TTTTGGGTCTATCCCCGTCCCTTTGACCGGG 29 66 0 ATCCCCTCCC 0.767245 -235 TCAGGGTAAATTCCCCGCCCCTTGAGGCGTA 48 99 0 TTCCCCCCCC 0.98046 -202 GAAAAAGAAACTCCCCACCCTAGGTAACTGG 49 64 1 CTCCCCCCCT 0.966714 -44 TAGCGGGATTTTCCCCATCCCAACTTTCCAT 50 55 0 TTCCCCTCCC 0.936356 -86 CGCTGGTGGTTTCCCATCCCCTATTCCCGAC 54 226 1 TTCCCACCCC 0.896631 -75 CATCTTTGCCCTCCCGGTCCTTAAAACTCCC 56 19 1 CTCCCGTCCT 0.882018 -282 AAAGACGGTTTTCCCCATCCTAACCCAGGTA 65 16 1 TTCCCCTCCT 0.840782 -172 AAATTCGGCCTTCCCGTGCCTATCCACCGCC 68 206 1 TTCCCGGCCT 0.792699 -21 TTTCTGCAATTTTCCGCCCCCATCTTAGCGC 69 186 0 TTTCCGCCCC 0.892932 -40 CGACCCATTGCTCCCTTGCCCT 77 2 0 CTCCCTGCCC 0.886058 -156 TATGTGGGATCTTCCGTGCCCAAAATTTTAT 82 192 1 CTTCCGGCCC 0.764849 -109 AAAAAGTTTTATTCCGCCCCCTAAATTCCCC 86 61 1 ATTCCGCCCC 0.651396 -135 ACCACCAACTCTCCCGACCCTTTGCCAAGAC 88 121 0 CTCCCGCCCT 0.962259 -180 CGTAGCATAACTCCCTGCCCTCTTTGGTAAG 88 219 0 CTCCCTCCCT 0.920261 -82 CGGGTAGTGCTCTCCACCCCTCGGTGTAGG 92 10 1 CTCTCCCCCC 0.895333 -92 ACCTTTCCCTACCCCCACCCTAACG 95 5 1 TTCCCTCCCC 0.952243 -38 TCCCCTGGCTCCCAATCCCTAGAAGCGGA 99 61 0 CTCCCATCCC 0.803973 -19 TTTTTTTTTCTTTCCTGCCCTGCCTATAGCC 102 116 1 TTTCCTCCCT 0.575365 -185 CTGTAGCAAACTCTCGCCCCCAGATGGTTGC 105 34 0 CTCTCGCCCC 0.882486 -73 ****** **** Masking position 2 Map Score: 21.4262 Number of sites scoring better than the average of aligned sites = 876 Number in coding regions = 775 Number in noncoding regions = 101 Number of orfs with sites within 600 bp upstream = 121 Fraction of orfs with sites within 600 bp upstream = 0.0194346 Motif number 11 TTGTAGTCACTGGAGGGGTGAATCAAGCTA 1 60 1 TGGAGGGGTG 0.648309 -24 TAAGTTGGGGGTGAAAGAGGGGCAA 6 84 0 TGGGGGTGAA 0.638084 -15 CCGGTTGAGAAGGGGGGAAGCCGATAGGCG 13 144 1 AGGGGGGAAG 0.4277 -91 TGCCGTCAATTGGAGGGGCAGGTTAGCTGT 15 209 0 TGGAGGGGCA 0.665532 -23 CTAATTGCCATGGGGGGCGATAGATTTGTC 22 213 1 TGGGGGGCGA 0.906389 -88 AAAGCTAAACTGGAGGGCAATTTGATCATC 22 258 1 TGGAGGGCAA 0.879264 -43 TGAGGAGATTTGGGGGGATAAATACCTAGC 29 135 0 TGGGGGGATA 0.500617 -166 CATACGGCCCTGGGGGCCACCACCGGGGAT 32 14 0 TGGGGGCCAC 0.698765 -151 TATTCGGCCGTGGAGGCGCATCCCAAACTT 33 94 1 TGGAGGCGCA 0.432069 -57 TTTGGAGGGCAAAATCAAGGTA 40 3 1 TGGAGGGCAA 0.879264 -55 CCGTTGTCCCTGGGGGGCGCAATGAACGAT 45 11 1 TGGGGGGCGC 0.770415 -67 GAAGACATAGTGGGGGGCGGCGACCTGGAT 59 90 0 TGGGGGGCGG 0.952854 -103 GAATTTATACTGGAGGTGAGGGCGAATCCC 69 27 1 TGGAGGTGAG 0.60489 -199 TGCGCTAAGATGGGGGCGGAAAATTGCAGA 69 185 1 TGGGGGCGGA 0.748451 -41 ATCGTTAACATGGAGGCCAGCCGCACAGCA 72 49 0 TGGAGGCCAG 0.853198 -79 TCTAAGTTGCTGGGGGGGAGG 76 2 0 TGGGGGGGAG 0.967072 -256 GCCTCCAATTTGGGGGGAAACTGAGTGAAA 78 132 0 TGGGGGGAAA 0.86918 -44 CCCCCCAAATTGGAGGCCAGGAGGACATTT 78 145 1 TGGAGGCCAG 0.853198 -31 GGGGAAAATTTGGATGGCAGATGACTTTGA 79 233 1 TGGATGGCAG 0.335348 -54 AATTTCAGGGTGGAGGGAAGCTAAACAAAT 87 29 0 TGGAGGGAAG 0.852274 -119 GCTTGGGGTCTGGGGGGTAAGACTAATAAT 88 183 0 TGGGGGGTAA 0.579719 -118 TCCCCAAGTTTGGGGGGACGCATTCAAAGT 91 60 1 TGGGGGGACG 0.825012 -87 TGAGGAGATTTAGGGGGCAGAATAAAACTT 91 114 1 TAGGGGGCAG 0.548096 -33 GTCGTTAGGGTGGGGGTAGGGAAAGGT 95 8 0 TGGGGGTAGG 0.490102 -35 GGCAACCATCTGGGGGCGAGAGTTTGCTAC 105 33 1 TGGGGGCGAG 0.918226 -74 ********** Masking position 6 Map Score: 16.5977 Number of sites scoring better than the average of aligned sites = 1496 Number in coding regions = 1305 Number in noncoding regions = 191 Number of orfs with sites within 600 bp upstream = 171 Fraction of orfs with sites within 600 bp upstream = 0.0274655 Motif number 12 GACTGCGTACCCAAACGCCGCCTGACATTGTT 4 46 0 CCAAAGCGCC 0.926402 -157 GGAGGATAGAGCAAAACTCGCCCCACGGATTC 18 81 1 GCAAACTGCC 0.938489 -47 CCCACGGATTCCAAACCTTGCCGGGGTCAAAC 18 102 1 CCAAACTGCC 0.944189 -26 GCGTTACCCAGCAAGTTTGGCCTTTGGGAAGC 21 108 1 GCAAGTTGCC 0.727036 -193 GAAGAAAGAACCAAAGGTTACCAGACAAATAG 28 68 1 CCAAAGTACC 0.734345 -110 TTCCTTCTACCCAAAGCCAACCAAATTCGCTA 32 94 1 CCAAACCACC 0.887109 -71 CGTCCGGATGCCAAATCCAGCCTCCGCTTAGA 38 98 1 CCAAACCGCC 0.960943 -32 CTCCTTTTCAGCAAACCTCACCCCTGGAATAA 43 120 1 GCAAACTACC 0.829728 -40 TCCAGTTGTCCCAAACGCCCCCATCGGACAGG 44 169 1 CCAAAGCCCC 0.838076 -132 TTCCCTTTGGGCAAGGCTGACCGATTTAGATA 49 22 1 GCAAGCTACC 0.608614 -86 CGGAGTATTTGCAAATTTTGCC 57 1 0 GCAAATTGCC 0.893008 -104 GGACCTGTCAGCAAAGTCTGCCAAACAAATTC 60 23 1 GCAAATCGCC 0.923889 -176 TCCTTTTTAACCAAATTCGGCCTTCCCGTGCC 68 194 1 CCAAATCGCC 0.930841 -33 TTTTTGATTGCCAAGGCTGGCCAATAGATTAG 73 43 0 CCAAGCTGCC 0.843717 -196 AGAATCACAGGCAAAATCTGCCTGGGCACTGC 73 107 0 GCAAATCGCC 0.923889 -132 GTTAGGGAAGGCAAAAGCCACCACCAATAAAC 77 33 1 GCAAAGCACC 0.783815 -125 CATCTGCCATCCAAATTTTCCCCTTTAGAACA 79 224 0 CCAAATTCCC 0.791902 -63 CGATAATACAGCAAAGCCCCCCTTTGTTTGTA 103 51 0 GCAAACCCCC 0.901225 -192 GAAAAAATTGCCAAAGTTACCCCAGGCCATAC 107 190 0 CCAAATTCCC 0.791902 -111 ***** ** *** Masking position 4 Map Score: 18.1878 Number of sites scoring better than the average of aligned sites = 434 Number in coding regions = 385 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 62 Fraction of orfs with sites within 600 bp upstream = 0.00995824 Motif number 13 GCCCTCCTCACTAAAGCTCCGGTTGAGAAGGG 13 126 1 CAAGCTCCGG 0.991273 -109 CACCAATTTCCCAAGACTACGGAGGGGGCAAT 21 265 0 CAAACTACGG 0.814996 -36 AATCTCCTCACTAAAGCTCCGGCTTAAAAAGG 29 155 1 CAAGCTCCGG 0.991273 -146 GCAAAATTTGCAAATACTCCGGTGGCAAAGGC 57 12 1 CAAACTCCGG 0.957213 -93 ACCTTGGGCTGAAAAGCTCCGGTCTAAGCAGA 60 99 1 GAAGCTCCGG 0.983207 -100 AATCTCTTCACTAAAGCTCCGGCAATACTGGG 78 96 1 CAAGCTCCGG 0.991273 -80 AATCTCCTCAGTAACGCTCCGGCAATACTGAG 91 92 0 GAAGCTCCGG 0.983207 -55 AAATATTCTGGAAATGCTACGGAATTACCCAA 98 26 1 GAAGCTACGG 0.920186 -176 TGTTCTAAGTCTAACGTTCCGGT 104 2 0 CAAGTTCCGG 0.917613 -64 * ** ******* Masking position 8 Map Score: 11.5411 Number of sites scoring better than the average of aligned sites = 62 Number in coding regions = 22 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 14 CTAATTCTCTCTAGCCAAGGTGAATTTTAGTT 14 43 1 CTAGCCAAGG 0.932214 -40 ATCCTAGCCCCTAGCCCTGATGGGGTAAAATT 20 78 1 CTAGCCCTGG 0.459114 -61 GATGTCTGCCATAGCCAAGACGGCGATCGCCA 22 18 0 ATAGCCAAGG 0.724841 -283 TTAAACAAAACCAGCAAAGAGCAGTAACAACC 31 102 0 CCAGCAAAGC 0.663847 -58 CGTCATTTACCTAGCCCAGTCCGTCTCGAATA 44 208 1 CTAGCCCAGC 0.964421 -93 ATCTTCAGACCTAGCCAAAAAACAACAGCCAG 53 250 1 CTAGCCAAAA 0.298686 -51 AGCGCACAGACTAGCCCAGGGCCATATTTAGC 54 198 0 CTAGCCCAGC 0.964421 -103 ATCAAACTCACTAGCCCATGGCCAGCATTATT 55 15 0 CTAGCCCATC 0.844938 -48 TGGAAAATTTCTAGCCCAGCCAGTGTCCCCCA 73 166 1 CTAGCCCAGA 0.716435 -73 CCTCTTTGAGCTAGCCCAGCAGTTTTAGGCAC 74 167 0 CTAGCCCAGG 0.942528 -92 TTTTAGGAAGCTGGCCCATGCCAACGGGAAGT 75 99 1 CTGGCCCATC 0.68407 -120 CTAGTAACATCCAGCCAAATTGACAATACCTA 84 74 0 CCAGCCAAAG 0.668601 -140 ATCCCAACTCCTAGCAAATTTCAGGGTGGAGG 87 43 0 CTAGCAAATC 0.352315 -105 CAACACCAAAATAGCCAATCTCCCTTATTCGT 89 120 0 ATAGCCAATC 0.466742 -121 AAATGATAAGCTAGCAAAGGCGTAATTTTACA 90 35 0 CTAGCAAAGG 0.620801 -72 ACTGGTTCCACTGGCCCATCAGGCCGGCCAAA 94 36 1 CTGGCCCATG 0.567098 -96 GCCCATCAGGCCGGCCAAAATCGTAAAGTGTA 94 49 1 CCGGCCAAAC 0.569912 -83 GCATTATTGTCCAGCCCAGCCCTTAGTTTTTG 97 140 1 CCAGCCCAGC 0.951883 -58 CTAAGAATTAATAGCCAAGGGCAGCGCATGGT 102 84 0 ATAGCCAAGC 0.813228 -217 TGCCCTGCCTATAGCCAAGAACAGGTAGAAAT 102 131 1 ATAGCCAAGC 0.813228 -170 AATCGATAATACAGCAAAGCCCCCCTTTGTTT 103 54 0 ACAGCAAAGC 0.274459 -189 ACAATCTTACCCAGCCCAACGCCTGGAGTGGT 106 231 1 CCAGCCCAAC 0.799063 -70 CGGAAGCTATCCGGCCAAGGAGCACTCAGATT 107 108 0 CCGGCCAAGG 0.799524 -193 CAGGCCATACACGGCCCAGCGCCAAGATGGGG 107 168 0 ACGGCCCAGC 0.600921 -133 AAAGGGTTAACTAGCCAAGGGCTATCCATGGG 107 264 0 CTAGCCAAGC 0.957861 -37 CCAAATCCTAGCCAAAAAGGGTTAACTAG 107 282 0 CTAGCCAAAG 0.734359 -19 ********* * Masking position 5 Map Score: 19.5441 Number of sites scoring better than the average of aligned sites = 1019 Number in coding regions = 926 Number in noncoding regions = 93 Number of orfs with sites within 600 bp upstream = 105 Fraction of orfs with sites within 600 bp upstream = 0.0168648 Motif number 15 TACGCAGTCTCTCCTCGATTATGCTTGATCTGTG 4 69 1 CTCCTCTAGC 0.962558 -134 CCCCCTAGCCCTCCTCACTAAAGCTCCGGTTGAG 13 119 1 CTCCTCAAGC 0.984742 -116 ACGGCAAGCCCTCCTCGGTTAAGCCTTATCCCTT 15 70 1 CTCCTCTAGC 0.962558 -162 CTGTGCCAAGTTCCTCCCGAAAGCCCATTACCAT 22 173 1 TTCCTCAAGC 0.908619 -128 CCCCCCAAATCTCCTCACTAAAGCTCCGGCTTAA 29 148 1 CTCCTCAAGC 0.984742 -153 GCGATTGAGTCTCTTTTAAAAGGCTGAAACGCCT 46 64 1 CTCTTTAAGC 0.60503 -82 TACGGAATTTTTCCTTCGGAACGCACTACCGCTC 48 58 1 TTCCTTAAGC 0.60503 -243 AGCCTTCCAACTTCTCTTCTATGCGTGGAAGGGC 53 91 1 CTTCTCTAGC 0.669486 -210 CCATTTATTCCTCCTCAACAGGGCTACTCCTAGT 53 202 1 CTCCTCAGGC 0.923979 -99 CCCCCTAAATCTCTTCACTAAAGCTCCGGCAATA 78 89 1 CTCTTCAAGC 0.908619 -87 CCCCCTAAATCTCCTCAGTAACGCTCCGGCAATA 91 97 0 CTCCTCAAGC 0.984742 -50 ****** ** ** Masking position 5 Map Score: 7.52628 Number of sites scoring better than the average of aligned sites = 45 Number in coding regions = 20 Number in noncoding regions = 25 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234