AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00260_synecho_reg_300.orf -o00260_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: slr0506 56 pcr; protochlorophyllide oxido-reductase. [EC:1.3.1.33] Input sequences: #1 slr1097 57 hypothetical protein. #2 slr1098 67 hypothetical protein. #3 slr1099 300 ubiX; 3-octaprenyl-4-hydroxybenzoate carboxy-lyase. [EC:4.1.1.-] #4 sll1931 300 glyA; serine hydroxymethyltransferase (serine methylase) (SHMT). #5 slr1703 231 serS; seryl-tRNA synthetase (serine--tRNA ligase) (serRS). #6 ssl3093 146 cpcD; phycobilisome 8.9 kD linker polypeptide, phycocyanin- #7 sll1580 45 cpcc1; phycobilisome 32.1 kD linker polypeptide, phycocyanin- #8 sll1579 114 cpcc2; phycobilisome 32.1 kD linker polypeptide, phycocyanin- #9 sll1578 110 cpcA; C-phycocyanin alpha chain. [SP:PHCA_SYNY3] #10 sll1577 300 cpcB; C-phycocyanin beta chain. [SP:PHCB_SYNY3] #11 slr2072 300 ilvA; L-threonine deaminase. [EC:4.2.1.16] #12 sll1760 259 thrB; homoserine kinase (HK). [EC:2.7.1.39] [SP:KHSE_SYNY3] #13 slr1880 93 hypothetical protein. #14 sll1758 167 hypothetical protein. #15 ssr3184 106 ferredoxin. #16 slr1881 235 livF; high-affinity branched-chain amino acid transport ATP-binding #17 sll1757 144 hypothetical protein. [EC:2.7.1.69] #18 ssr3188 159 hypothetical protein. #19 ssl3364 164 hypothetical protein. #20 slr1884 150 trpS; tryptophanyl-tRNA synthetase (tryptophan--tRNA ligase) #21 ssr3189 125 hypothetical protein. #22 slr1885 85 hypothetical protein. #23 slr1886 32 iojap protein. #24 sll1755 76 hypothetical protein. #25 slr1887 129 hemC; porphobilinogen deaminase (PBG) (hydroxymethylbilane synthase) #26 slr1888 265 hypothetical protein. #27 slr2132 57 pta; phosphotransacetylase. [EC:2.3.1.8] #28 sll2015 61 hypothetical protein. #29 sll2014 53 sfsA; sugar fermentation stimulation protein. #30 sll2013 159 hypothetical protein. #31 sll2012 300 rpoD; RNA polymerase sigma factor. #32 sll1688 300 thrC; threonine synthase. [EC:4.2.99.2] #33 slr0861 164 purT; phosphoribosylglycinamide formyltransferase 2 (gart 2) (GAR #34 sll0846 189 hypothetical protein. #35 slr0862 87 lmbP; LmbP protein. [EC:2.7.1.6] #36 sll0844 113 probable tRNA (5-methylaminomethyl-2-thiouridylate)- #37 sll0842 61 nplT; neopullulanase. [EC:3.2.1.135] #38 slr0864 100 ABC transporter. #39 sll0838 46 pyrF; orotidine 5'-phosphate decarboxylase (OMP decarboxylase). #40 sll0837 107 hypothetical protein. #41 slr0867 248 hypothetical protein. #42 slr0868 300 hypothetical protein. #43 sll1908 260 serA; phosphoglycerate dehydrogenase. [EC:1.1.1.95] #44 slr1990 21 hypothetical protein. #45 slr1991 40 cyaA; adenylate cyclase. [EC:4.6.1.1] #46 slr1992 209 glutathione peroxidase. [EC:1.11.1.9] #47 slr1993 101 thl; acetyl coenzyme A acetyltransferase (thiolase). #48 slr1994 60 fabG; 3-oxoacyl-[acyl-carrier protein] reductase (3-ketoacyl-acyl #49 sll1906 60 428 aa (44.5 kD) bacteriochlorophyll synthase subunit. #50 sll1905 68 sensory transduction histidine kinase. #51 slr1998 32 hypothetical protein. #52 slr1999 38 hypothetical protein. #53 slr2000 257 hypothetical protein. #54 slr2001 147 pepE; peptidase E (alpha-aspartyl dipeptidase). [EC:3.4.-.-] #55 slr2002 32 hypothetical protein. #56 sll1902 300 hypothetical protein. #57 sll1172 282 thrC; threonine synthase. [EC:4.2.99.2] #58 slr1279 71 ndhC; NADH-plastoquinone oxidoreductase chain 3. [EC:1.6.5.3] #59 slr1281 300 ndhJ; NADH-plastoquinone oxidoreductase subunit J (orf 155). #60 slr0293 105 gcvP; P protein of glycine cleavage complex. [EC:1.4.4.2] #61 slr0393 283 hypothetical protein. #62 sll0364 128 hypothetical protein. #63 slr0394 268 pgk; phosphoglycerate kinase. [EC:2.7.2.3] [SP:PGK_SYNY3] #64 sll0362 180 alaS; alanyl-tRNA synthetase (alanine--tRNA ligase) (alaRS). #65 sll0361 81 hypothetical protein. #66 sll0360 187 hypothetical protein. #67 sll0359 300 hypothetical protein. #68 sll0171 168 gcvT; probable aminomethyltransferase (glycine cleavage system T #69 sll0170 205 dnak2, dnaK; dnaK protein 2 (heat shock protein 70) (HSP70). #70 sll0169 187 hypothetical protein. #71 sll0168 88 hypothetical protein. #72 sll0163 300 beta transducin-like protein. [SP:Y163_SYNY3] #73 slr0220 175 glyS; glycyl-tRNA synthetase beta chain (glycine--tRNA ligase beta #74 sll0205 286 hypothetical protein. #75 sll0204 136 gidA; glucose inhibited division protein A. #76 sll0202 129 gidA; glucose inhibited division protein A. [SP:GIDA_SYNY3] #77 sll0200 300 transposase. #78 sll0455 127 hom; homoserine dehydrogenase (HDH). [EC:1.1.1.3] [SP:DHOM_SYNY3] #79 slr0495 40 lipopeptide antibiotics iturin a biosynthesis protein. #80 slr0496 158 hypothetical protein. #81 sll0454 202 pheS; phenylalanyl-tRNA synthetase alpha chain (phenylalanine--tRNA #82 sll0691 135 hypothetical protein. #83 ssl1300 255 hypothetical protein. #84 sll0689 300 NaH-antiporter protein. #85 slr0638 49 glyQ; glycyl-tRNA synthetase alpha subunit (glycine--tRNA ligase). #86 slr0639 214 hypothetical 33.2 kD protein slr0639. [SP:Y639_SYNY3] #87 slr0640 81 sensory transduction histidine kinase. #88 sll0608 300 hypothetical protein. #89 sll0078 171 thrS; threonyl-tRNA synthetase (threonine--tRNA ligase) (thrRS). #90 slr0086 166 hisB; hypothetical protein. #91 slr0088 82 phytoene dehydrogenase. #92 slr0089 23 erg6; delta(24)-sterol C-methyltransferase. #93 slr0090 56 ppd; 4-hydroxyphenylpyruvic acid dioxgenase (HPD). [SP:Y090_SYNY3] #94 slr0092 117 hisB; hypothetical protein. #95 slr0093 28 dnaJ-like protein slr0093. [SP:DNJH_SYNY3] #96 slr0095 161 hisB; O-methyltransferase. [EC:2.1.1.-] #97 slr0096 29 hisB; low affinity sulfate transporter. #98 slr0498 246 hisB; hypothetical protein. #99 sll0489 286 hisB; ABC transporter. #100 sll0488 116 hypothetical protein. #101 sll0487 109 hypothetical protein. #102 sll0486 173 hypothetical protein. #103 sll0485 247 hypothetical protein. #104 sll0484 130 ABC transporter. #105 slr0502 62 cobW; CobW. #106 slr0505 121 hypothetical protein. #107 sll0481 71 hypothetical protein. [SP:Y481_SYNY3] #108 sll0480 182 hypothetical protein. #109 slr0509 131 alkaline phosphatase-like. #110 slr0510 222 hypothetical protein. #111 ssr0871 55 transposase. #112 slr0511 300 transposase. #113 slr0549 59 asd; aspartate beta-semialdehyde dehydrogenese. [EC:1.2.1.11] #114 slr0550 300 dapA; dihydrodipicolinate synthase (DHDPS). [EC:4.2.1.52] #115 slr0657 200 lysC; aspartate kinase. [EC:2.7.2.4] #116 slr0658 164 hypothetical protein. #117 slr0659 133 prlC; oligopeptidase A. [EC:3.4.24.70] #118 sll0626 196 lim17; LIM17. #119 sll0625 281 hypothetical protein. #120 sll0624 300 hypothetical protein. #121 slr1556 152 ddh; 2-hydroxyaciddehydrogenase. [EC:1.1.1.-] #122 sll1498 50 carA; carbamoyl-phosphate synthetase subunit A. [EC:6.3.5.5] #123 slr1557 99 hypothetical protein. #124 sll1496 146 mannose-1-phosphate guanyltransferase. [EC:2.7.7.-] #125 sll1495 154 hypothetical protein. #126 tRNA-Val 51 tRNA-Val. #127 slr1559 126 aroE; shikimate 5-dehydrogenase. [EC:1.1.1.25] #128 slr1560 77 hiss2; probable histidyl-tRNA synthetase 2 (histidine--tRNA ligase #129 slr1562 30 probable glutaredoxin slr1562. [SP:GLR1_SYNY3] #130 slr1563 300 hypothetical protein. Motif number 1 GTAAAATGTCGGCGAAAGCCTACAAAAGTT 11 172 0 GGCGAAAGCC 0.79788 -129 GTATCCGCCAAGCGATCGCCTCTGGGTCAA 12 166 1 AGCGATCGCC 0.532677 -94 AGTTTCCCAAGGCGATCGCCGTGGGGGTCT 16 37 1 GGCGATCGCC 0.499999 -199 GGCCGCAACTGGCGATCGCCAGGATTTCCA 18 33 1 GGCGATCGCC 0.499999 -127 GCCGAAACCCACCGATCGCCGTTTTTTATG 21 69 1 ACCGATCGCC 0.924089 -57 GAAAACCAAGGCCGATAGCCTCTGATGCTA 24 52 0 GCCGATAGCC 0.920001 -25 TCTTAACCCAGACGATAGCCTCTGGAGGAG 31 48 1 GACGATAGCC 0.858593 -253 CATTGACTGTGGCGATCGCCTTTTTTTGCT 41 88 1 GGCGATCGCC 0.499999 -161 AGTATCCTGGGCCGATCTCCGTAGCCCATT 43 230 0 GCCGATCTCC 0.787803 -31 AATCCCCCCCGGCGATCGCCTATGAGGATC 46 93 1 GGCGATCGCC 0.499999 -117 CGGACTTGTGGGCGATCGCCTGGGGGCATT 57 99 1 GGCGATCGCC 0.499999 -184 CTAGCATTTTAGAGATCGCCTCATTAATCC 60 47 1 AGAGATCGCC 0.641984 -59 TGTCTAAGCAATCGATCGCCAATTTGACGG 62 58 0 ATCGATCGCC 0.82551 -71 AACGAAAATTGGCGATCGCCAGTGGGATGG 66 164 1 GGCGATCGCC 0.499999 -24 TCTGCGTTTTGGCGATCGCATCTTTTAAGC 77 86 1 GGCGATCGCA 0.52422 -215 AGAATGGGGAGCCGATCGCCAGTAACCTAA 78 80 1 GCCGATCGCC 0.536442 -48 TCCTGACCGTGGCGATCGCCTGGAATGAAT 90 47 1 GGCGATCGCC 0.499999 -120 GATGATCCTTGGCGATCGCCAGTTTGGGAA 98 110 1 GGCGATCGCC 0.499999 -137 CCATTCCTCTGGCGATCGCCAAAGCTCCAG 101 77 1 GGCGATCGCC 0.499999 -33 CTTTTATAATGGCGATCGCCCTTTAATCAC 108 157 1 GGCGATCGCC 0.499999 -26 ATGATAGAAGAGCGATAGCCTCTGATCTTT 110 141 1 AGCGATAGCC 0.901622 -82 AGACTTTTTCGGCGATCGCACTAGATATAA 119 95 0 GGCGATCGCA 0.52422 -187 CTGGTGGGGGGACGATCTCCCTGTGGCCAA 124 70 0 GACGATCTCC 0.692491 -77 ********** Masking position 5 Map Score: 69.9152 Number of sites scoring better than the average of aligned sites = 6118 Number in coding regions = 5554 Number in noncoding regions = 564 Number of orfs with sites within 600 bp upstream = 355 Fraction of orfs with sites within 600 bp upstream = 0.057019 Motif number 2 GAAATTTCCCCCCCTAGGCTAGGGGCC 1 7 1 TCCCCCCCAG 0.921711 -51 AATGCCAAACTTTGCCCACAGCCGCCGACAC 3 101 1 TTTGCCCAAG 0.637647 -200 CTAGAGAAAAACCGCCCAGTGTCGGCGGCTG 3 119 0 ACCGCCCATG 0.692819 -182 CTAAAGCCTTTGTCCCCCAACTATTTTCACT 3 189 1 TGTCCCCCAC 0.621753 -112 CGCGGTGCTTTCCGCCCCCAGCACTGTTTAC 4 267 1 TCCGCCCCAG 0.823141 -34 AAATCGTTACTTTGCCCAAACAAAAACGGTG 5 196 0 TTTGCCCAAC 0.474821 -36 ACCCCAAGTTATTCCCCAAAGGGAAAATAAA 6 46 0 ATTCCCCAAG 0.750437 -101 CTTAAACACAATTCCCCCGGATAAACTGAGG 10 241 0 ATTCCCCCGA 0.622903 -60 TTTTTTGCCCCATTCGTGCTAGTAA 11 286 0 TTGCCCCATC 0.655977 -15 TAATTCCATTACTGCCCAATCATTCATTCAG 12 88 1 ACTGCCCATC 0.36048 -172 CAGGTAAATCACGCCCCACTGGATTGCCTCA 14 92 0 ACGCCCCATG 0.719732 -76 AAATTTCTCAACCCCCCCTTCTAGGAATAAC 16 148 0 ACCCCCCCTC 0.7864 -88 GGCCATTGGGTTTGCCCCATCAGCCC 18 6 0 TTTGCCCCTC 0.505731 -154 TCCCCGGTGGTGGCCCCCAGGGCCGTATGGG 19 15 1 TGGCCCCCGG 0.817932 -150 TGACCTCAACTTGCCCCATACGGCCCTGGGG 19 29 0 TTGCCCCAAC 0.679101 -136 AGTGAAGCTGTTTCCCCCATCAAGGCCAGAT 25 34 1 TTTCCCCCTC 0.72131 -96 AAACGCAAAAATCCCCCATAAAGCTTG 31 7 0 ATCCCCCAAA 0.640502 -294 GTTGTCCCAAACGCCCCCATCGGACAGGCAT 31 173 1 ACGCCCCCTC 0.62366 -128 ATAGGTCGGTTTTCCCCAAGGGAATTAAGCC 32 119 0 TTTCCCCAGG 0.871047 -182 TGACGCCCATTTTGCCCCGTGTTAGCATGCC 32 249 1 TTTGCCCCTG 0.66572 -52 GCTTTTTAACTTCCCCCAGGGAATCTCTCCT 33 122 1 TTCCCCCAGG 0.932824 -43 AGCGCTGACATTGCCCCCCAGTCGGCAATAA 34 45 0 TTGCCCCCAG 0.838019 -145 CCTGGGAGTTTTCCCCCCCGGAGCCCCCATT 34 129 1 TTCCCCCCGG 0.945774 -61 TCCCCCCCGGAGCCCCCATTGGATCTGCCAA 34 140 1 AGCCCCCATG 0.761181 -50 TAAATTGTTCTTTCCCCCCGCACCCC 34 174 1 TTTCCCCCGC 0.813396 -16 GAAGCTCAGTTTCCCCCCAGCCCTATTCCT 37 10 0 TTCCCCCCGC 0.899608 -52 GACTGTAACGTTCCCCCACGACGGCTCAAAA 40 78 1 TTCCCCCAGA 0.800089 -30 TGTCATTACTACCGCCCCTTGCCAAAGGAAT 42 191 0 ACCGCCCCTG 0.739097 -110 CTGGTTACTGTTCCCCCAGAGCAAAATCTTT 43 52 0 TTCCCCCAAG 0.901487 -209 CCTATGGTTTGGCCCCCCCAGTCCCAGGGAA 43 161 1 GGCCCCCCAG 0.409762 -100 GCTAACGGTTATCCCCCAAGCCGCTAGAATG 43 203 1 ATCCCCCAGC 0.828162 -58 GCTACGGAGATCGGCCCAGGATACTAACTCC 43 235 1 TCGGCCCAGA 0.421791 -26 AAATAAACAAATCCCCCCCGGCGATCGCCTA 46 84 1 ATCCCCCCGG 0.921765 -126 AAAAAATCTCCCCAGAATTAGGGAGGA 48 7 1 TCTCCCCAAA 0.567874 -54 GCCGATTAAGTCGCCCCAATAGTTGTCAAAC 53 106 0 TCGCCCCATA 0.522823 -152 GATCCGAGTCAGCCCCCAGGGTCAGGGAACC 54 107 1 AGCCCCCAGG 0.842961 -41 ACACCGCTGGACCCCCCCTGACCACCATTAG 57 33 0 ACCCCCCCGA 0.776701 -250 CCCCCAGGCGATCGCCCACAAGTCCGGTAAG 57 94 0 ATCGCCCAAA 0.413261 -189 AATTGGCAGAATGCCCCCAGGCGATCGCCCA 57 107 0 ATGCCCCCGG 0.841353 -176 GAATTGGATTATTGCCCAAACGATTAATAAG 57 199 0 ATTGCCCAAC 0.379171 -84 TTGCCTTGCCTGCCCCCCCTATTGTCTTCTC 58 20 0 TGCCCCCCTA 0.630728 -52 CACAAAAATATTCCCCCAAAGTTTTCAGTCC 59 210 1 TTCCCCCAAG 0.901487 -91 TAGCTCCCCCTTCCCCCACTGTTGCCAATGG 59 239 0 TTCCCCCATG 0.891836 -62 TCCCGGTCGCCCACGGCAAAATTAAA 59 285 0 GTCGCCCAGG 0.366861 -16 TTTTCATTATATCGCCCCGAGAAAAGTGCAT 63 88 0 ATCGCCCCAG 0.754265 -181 GAGTCCAAAATCTGCCCACTGCGGTGACATG 64 40 0 TCTGCCCATG 0.618918 -141 CAGATTTTGGACTCCCCATGGCTTAGTTTTA 64 57 1 ACTCCCCAGG 0.823754 -124 AAAAGCACTTAGTCCCCCTTGCATAGGGAAC 66 25 0 AGTCCCCCTG 0.660712 -163 GTTTCAGGTCTCCCCCCCGGCGAAAAAGCAC 66 48 0 TCCCCCCCGC 0.901756 -140 TAAAGCAATGATTCCCCCTGAGATAAATATA 67 41 1 ATTCCCCCGA 0.622903 -260 GCTAGCTTGTATTGCCCAAACCTAACTCATC 67 149 1 ATTGCCCAAC 0.379171 -152 TCGAATCTGATTCCCCCAGTATTGGGGGCTA 68 44 0 TTCCCCCATA 0.703827 -125 TACGGCTAGATGCCCCCATAGGTACGGAAAC 69 45 1 TGCCCCCAAG 0.839654 -161 TGTGAACGTGTCGGCCCCAGGCAATGGATTG 69 117 1 TCGGCCCCGG 0.760708 -89 ATGTCTTCCGACTCCCCAGAAACCGTCAGTG 70 105 1 ACTCCCCAAA 0.470263 -83 TTCCGTGCTATTTCCCCATAAGCTTTTAAAC 70 139 1 TTTCCCCAAA 0.561972 -49 GTGGTGATTTAGTCCCCCCTATCCCCGTCCC 72 106 1 AGTCCCCCTA 0.359491 -195 TTCACTCAGTTTCCCCCCAAATTGGAGGCCA 73 133 1 TTCCCCCCAA 0.768126 -43 GGGACAGTCTACCGCCCAAGGAGAAGGCCCC 75 66 0 ACCGCCCAGG 0.7916 -71 ATTAAGGCCGTCGGCCCAAGGTAACGAAA 79 22 1 TCGGCCCAGG 0.716795 -19 GTGTTTGAAAAGCCCCCCTGGCCCCCAAGTT 80 47 1 AGCCCCCCGG 0.870837 -112 ATTTTTAACTTCCCCCCAAACTTGGGGGCCA 80 65 0 TCCCCCCAAC 0.828055 -94 TAAAAATAAAAGTGCCCCAGCATTGTCGAAG 80 89 1 AGTGCCCCGC 0.399805 -70 CCAAATTGCCTTGGCCCAGAGCTTTTGAGTT 82 60 0 TTGGCCCAAG 0.619533 -76 TCCCGCTCAATCGCCCCACTAAAATCCCTAC 84 62 1 TCGCCCCATA 0.522823 -239 GGCAGTTAAATCTCCCCCTTGTTTGAGTAGG 84 88 0 TCTCCCCCTG 0.837664 -213 TCTATTGACCATTGCCCCTGGTCTACAGTGA 84 174 1 ATTGCCCCGG 0.693787 -127 CTCGATTATCATCCCCCACTGAGACCATGGG 86 139 1 ATCCCCCATG 0.847789 -76 ATGACTGAATTTCCCCCATGGTCTCAGTGGG 86 153 0 TTCCCCCAGG 0.932824 -62 AAATTCAGTCATTCCCCCTAATTACTTAGTA 86 172 1 ATTCCCCCAA 0.521199 -43 CTCAGGTTGCTTTCCCCAGTCGGCAGTGGCT 88 207 1 TTTCCCCATC 0.673272 -94 ATCCGCTCCCGCCCCCCACTGGGTTGAAGGT 89 92 0 GCCCCCCATG 0.471303 -80 AGTTGATCAAACTGCCCCAGCCTTACCCCTA 94 86 1 ACTGCCCCGC 0.54387 -32 ACCCATTCTTTGTCCCCATTGTCGCCGCACC 98 58 0 TGTCCCCATG 0.696522 -189 AAAATTGAAAAGTCCCCCTGGTTGCACAGAG 100 87 1 AGTCCCCCGG 0.766335 -30 GCGAAAATTTTGCCCCCATTCCTCTGGCGAT 101 62 1 TGCCCCCATC 0.707954 -48 AACTTAAAGATCCGCCCCTAGATAGCCACCA 104 40 0 TCCGCCCCAG 0.823141 -91 GAGTTACCCCTCGCCCCAGGGGAAATGGCAA 108 124 0 TCGCCCCAGG 0.864907 -59 AGTAAGTTTCCCCAGAATCGGGATGTT 109 7 1 TTTCCCCAAA 0.561972 -125 CTGTTTTAAATGCCCCCCTAGCCCCCCAAGT 120 132 1 TGCCCCCCAG 0.868025 -169 TTTAATACTTTCCCCCCAAACTTGGGGGGCT 120 151 0 TCCCCCCAAC 0.828055 -150 TGCCCCCTAAATCCCCCAATACTGGGGGACT 120 182 0 ATCCCCCATA 0.616169 -119 AAGTTGTATTTTGCCCCCTAAATCCCCCAAT 120 193 0 TTGCCCCCAA 0.598571 -108 CTACAGGCGTTTGGCCCAAAGGACTAGGCAA 123 21 0 TTGGCCCAAG 0.619533 -79 TTTTGCCCCACTCCTTGGAAAAA 125 142 0 TTGCCCCATC 0.655977 -13 ******** ** Masking position 6 Map Score: 73.02 Number of sites scoring better than the average of aligned sites = 6883 Number in coding regions = 6040 Number in noncoding regions = 843 Number of orfs with sites within 600 bp upstream = 568 Fraction of orfs with sites within 600 bp upstream = 0.0912303 Motif number 3 TGGGCAAAGTTTGGCATTGCCGCCAGAAAAG 3 88 0 TTGCATTGCC 0.76094 -213 CCGGTGGCCCTTGTCGCTGCCTCCGTGTTTC 10 108 1 TTGCGCTGCC 0.670106 -193 ACCCTAATTTCTGGCCCTGGTTACGGCTCCG 11 234 0 CTGCCCTGGT 0.720659 -67 TTAATCCCCATTTTCCCTGCTATTTGCC 12 242 1 TTTCCCTGCT 0.897658 -18 TAACGATTTTTTTGCCCTGACCGATTAGTTT 16 121 0 TTTCCCTGAC 0.816304 -115 TATTTCCATTTTGCCATTGCCC 17 2 0 TTGCATTGCC 0.76094 -143 CCCCAGGTAATTGTCACTGCTTCAACCAAAA 18 72 0 TTGCACTGCT 0.711561 -88 TAGTAGTAAATTTTCCTTGCC 21 1 0 TTTCCTTGCC 0.918813 -125 AAGAGATAATCTGGCCTTGATGGGGGAAACA 25 42 0 CTGCCTTGAT 0.360228 -88 TGTTCTTAAATTTCCCCTGATTCCCTAACTG 33 33 1 TTTCCCTGAT 0.624146 -132 CTTTTGAGCGCTGACATTGCCCCCCAGTCGG 34 51 0 CTGCATTGCC 0.549926 -139 GATACTTTTCCTGCCCTTGCTTGACCGTCAG 35 40 1 CTGCCTTGCT 0.748365 -48 ATTCAGAATTTTTACCCTGGCCGTAT 38 85 1 TTTCCCTGGC 0.907556 -16 TGGGTACCCGTTGGCCCTGGCGGAAATGAG 41 229 1 TTGCCCTGGC 0.947326 -20 AAAATTGATATTTTCCTTGTTTCTTGTGCCA 42 29 1 TTTCCTTGTT 0.332939 -272 CACCAATCCATTGTCCTTGCCTTGCCTGCCC 58 36 0 TTGCCTTGCC 0.953986 -36 TTCCCTCTACTTTTCCCTGATCTTCCGTAGT 71 47 1 TTTCCCTGAT 0.624146 -42 TATGTCAGCGTTGACACTGCCAGGGACGGGG 72 128 0 TTGCACTGCC 0.868447 -173 TCGAATAGGCTTTTCCCTGCCCATAATTGTA 72 266 1 TTTCCCTGCC 0.959136 -35 AAGAATGGAATTTTCCTTGTCTTGATCAATG 75 27 0 TTTCCTTGTC 0.571849 -110 TTCAGTATTCTTTTCCCTGCCCAAGTCCAGA 78 48 1 TTTCCCTGCC 0.959136 -80 TTAGCCGATGTTGGCCTTGACCATGGCCGAG 81 71 1 TTGCCTTGAC 0.796962 -132 CTATTGACCATTGCCCCTGGTCTACAGTGAA 84 175 1 TTGCCCTGGT 0.870479 -126 TTCCCTACGATTTCCCCTGCTCACTGAACAA 87 16 0 TTTCCCTGCT 0.897658 -66 TACTCACTAATTTCCCCTGCC 99 276 1 TTTCCCTGCC 0.959136 -11 ATTGGGAAACTTGACCTTGGCGATACCAGTC 114 225 0 TTGCCTTGGC 0.896605 -76 TTGTCTGATTTTTTCATTGCCTTCATGCCAA 116 21 0 TTTCATTGCC 0.634708 -144 AAAAGCTTGTCTGACCTTGCCACTCGTGATG 119 46 1 CTGCCTTGCC 0.888373 -236 GTTTAGGTTACTTACCCTGGTTGGTACAGAG 120 271 1 CTTCCCTGGT 0.584765 -30 ATGTTTAAACTTGCCCCTGCCGAAACAAAGC 127 15 0 TTGCCCTGCC 0.977272 -112 ATTTCTCCGGTTTTCCTTGGTGGGCAGAATT 127 81 1 TTTCCTTGGT 0.638848 -46 GTATTATTTGTCCCTGTCCTGTTTTCCC 129 13 0 TTGCCCTGTC 0.835378 -18 *** ******* Masking position 8 Map Score: 34.9268 Number of sites scoring better than the average of aligned sites = 1065 Number in coding regions = 939 Number in noncoding regions = 126 Number of orfs with sites within 600 bp upstream = 143 Fraction of orfs with sites within 600 bp upstream = 0.0229682 Motif number 4 GATATGTAAAGGGAAATAATTAAAAATTAACTAAAA 2 22 0 GGGAAATAAA 0.819969 -46 TCGATTATGAGGGAAGTGTAAGTCCAAATCCCCCAA 3 235 0 GGGAAGTTGA 0.804995 -66 GTTTCCGTCTGGGAAGAAATTGTCAAGAGTTTCAAG 4 70 0 GGGAAGAAGA 0.927518 -231 ATTCCCCAAAGGGAAAATAAAGTCAAGCCACTTCTC 6 31 0 GGGAAAAAGA 0.930183 -116 GCAAATAGCAGGGAAAATGGGGATTAATGCTCTGGC 12 233 0 GGGAAAAGGA 0.880511 -27 TAACTGCTCCGGGAAATTTCAGGTAAATCACGCCCC 14 106 0 GGGAAATTGA 0.811248 -62 GTTAACCCCAGGGAAGATATCCTTTACCACCATCCC 18 134 0 GGGAAGAACA 0.895806 -26 TTCTTGACCGGGGAAGATATGAGTGAAGCTGTTTCC 25 13 1 GGGAAGAAAA 0.824661 -117 TGATTTTTCTGGGAAAATGATCTCGATTTTTCCCAC 26 40 1 GGGAAAAGCA 0.831959 -226 GGGTTCAGTGGGGAAGAAACACCCCATTTAACAAAC 32 54 1 GGGAAGAACA 0.895806 -247 AGGGAATCAGGGGAAATTTAAGAACATTTCAGGTTT 33 23 0 GGGAAATTGA 0.811248 -142 CAAGGCTAGAGGGAAATCCGTCCCCAAGCCTGGGAG 34 101 1 GGGAAATCCA 0.660225 -89 ATTACGACGTGGGAAGTTATGAAAGAAGATCTATTG 41 132 1 GGGAAGTAAA 0.813938 -117 GGGAAATAGGAGAAGACAATAGGGGG 58 1 1 GGGAAATGGA 0.872676 -71 AGTGAGATCAGGGAAATCATCCAAAACCTCTTCAAT 61 196 1 GGGAAATACA 0.89277 -88 AAAGCTTATGGGGAAATAGCACGGAATAGCACTGAC 70 129 0 GGGAAATGCA 0.821586 -59 CGGAAGATCAGGGAAAAGTAGAGGGAATAAGCTCAA 71 38 0 GGGAAAATAA 0.629405 -51 GACTTGGGCAGGGAAAAGAATACTGAAACTCTTTGA 78 39 0 GGGAAAAAAA 0.830416 -89 CAAGTTTGGGGGGAAGTTAAAAATAAAAGTGCCCCA 80 72 1 GGGAAGTAAA 0.813938 -87 CAGTGAGCAGGGGAAATCGTAGGGAAACGATAAAGC 87 21 1 GGGAAATGGA 0.872676 -61 AATATTTACCGGGAAGTATTAATTAACTTCCATCGC 90 125 0 GGGAAGTTAA 0.602739 -42 GGGGAAAAGATTGGTGAAATTGAGTGG 99 2 1 GGGAAAAAGA 0.930183 -285 CTGGAGTTTTGGGAAAACAGACTCTAACTTTTGGCA 99 90 0 GGGAAAAACA 0.89951 -197 GGCAGGGGAAATTAGTGAGTAAACAACCTGG 99 266 0 GGGAAATAGA 0.925329 -21 CCCTGAAATTGGGAAGATAAACTGAAACTTCGCAGA 100 36 1 GGGAAGAACA 0.895806 -81 TTTTGTCGAGGGGAAAACCACGGCTAAACTTAAAGA 104 61 0 GGGAAAACGA 0.756658 -70 TACCAGCAACGGGAAGATATGGCATAGGAACCCACG 130 212 1 GGGAAGAAGA 0.927518 -89 ******* * * * Masking position 5 Map Score: 25.3786 Number of sites scoring better than the average of aligned sites = 433 Number in coding regions = 371 Number in noncoding regions = 62 Number of orfs with sites within 600 bp upstream = 71 Fraction of orfs with sites within 600 bp upstream = 0.0114038 Motif number 5 TAGAATGTGAAAATTTTCCTAGATATGTCA 9 73 0 AAATTTTCCT 0.82004 -38 GGATACGATTGATTTTTGCCAAGGCGAAAA 12 142 0 GATTTTTGCC 0.810414 -118 CTGAAAATTTTCCTCACACAATTC 14 154 0 AAATTTTCCT 0.82004 -14 CGACTAGCTTAAATTTTGCTGGTTGACTGA 15 63 0 AAATTTTGCT 0.697171 -44 GGCTAGTAGTAAATTTTCCTTGCC 21 5 0 AAATTTTCCT 0.82004 -121 AAATGATCTCGATTTTTCCCACAGCGATAT 26 54 1 GATTTTTCCC 0.894302 -212 CCAAGCCTGGGAGTTTTCCCCCCCGGAGCC 34 124 1 GAGTTTTCCC 0.727747 -66 AAGCTCGAATTTTCCCATTCCTCTGC 39 7 1 GAATTTTCCC 0.914568 -40 TCCCACGTCGTAATTTTGCTTAGGCTACAG 41 116 0 TAATTTTGCT 0.498261 -133 AAACCATAGGGAGTTTTCCCTAGAAAGCCT 43 141 0 GAGTTTTCCC 0.727747 -120 TTTTGATGTTTAATTTTGCCGTGGGCGACC 59 277 1 TAATTTTGCC 0.633349 -24 TGGGCCTTGCAAATTTTGCTTTTGTTTAAA 66 136 1 AAATTTTGCT 0.697171 -52 AAAACCAACGAATTTTTGCCCAGATTAGCG 67 101 0 AATTTTTGCC 0.759905 -200 TTAGCCGAGGAATTTTTCCCTCTGAAAAAA 67 238 0 AATTTTTCCC 0.862346 -63 CTGCATAATAGATTTTTCCTAAAAAAAGCA 68 105 0 GATTTTTCCT 0.829472 -64 TCTGCCATCCAAATTTTCCCCTTTAGAACA 74 224 0 AAATTTTCCC 0.887972 -63 CTGAAGAATGGAATTTTCCTTGTCTTGATC 75 31 0 GAATTTTCCT 0.860225 -106 GGTAACGGGCGATTTTTCCTAGGTTTAGCC 81 47 1 GATTTTTCCT 0.829472 -156 TATAGAGTCATAATTTTCCCCTTGAATTAT 83 164 1 TAATTTTCCC 0.773708 -92 GGTACCCAAGGATTTTTGCCACCTCGTCCC 86 26 0 GATTTTTGCC 0.810414 -189 GCCTGGAATGAATTTTTCCCTGGGCAAGGT 90 64 1 AATTTTTCCC 0.862346 -103 ACCAGGGCGAAAATTTTGCCCCCATTCCTC 101 56 1 AAATTTTGCC 0.800182 -54 TGGTAAAACTGAATTTTGCTTAAAGCTCCT 106 94 0 GAATTTTGCT 0.756651 -28 AATTTTTCCCAACCCATCCA 113 50 0 AATTTTTCCC 0.862346 -10 GGGTCAAACTTAATTTTCCTGAACTAGTCT 118 153 0 TAATTTTCCT 0.6628 -44 TATTACCAGATATTTTTCCTAAAAATGAAG 121 81 0 TATTTTTCCT 0.608385 -72 CTCTGGACGAAATTTTTCCTTTAACCACAA 125 35 0 AATTTTTCCT 0.782679 -120 ********** Masking position 5 Map Score: 23.6716 Number of sites scoring better than the average of aligned sites = 671 Number in coding regions = 534 Number in noncoding regions = 137 Number of orfs with sites within 600 bp upstream = 177 Fraction of orfs with sites within 600 bp upstream = 0.0284292 Motif number 6 ACTAACCCCGGCCCCTAGCCTAGGGGGGGA 1 17 0 GCCCCTAGCC 0.758649 -41 CAGATTCTTACCCTCCACCCAACTGTAA 3 9 0 CCCTCCACCC 0.475127 -292 GTTTGAGCATCCCGGTGGCCCTTGTCGCTG 10 97 1 CCCGGTGGCC 0.918181 -204 AGCCACTATTGCCTCTGGCCCAGACCAAGC 12 195 1 GCCTCTGGCC 0.631307 -65 CGGTCTTAAACCCGCCGCCCTCGAAAAAT 16 217 1 CCCGCCGCCC 0.887766 -19 GGACGGATTTCCCTCTAGCCTTGGGTTTAG 34 94 0 CCCTCTAGCC 0.704311 -96 AGTTTTCCCCCCCGGAGCCCCCATTGGATC 34 135 1 CCCGGAGCCC 0.813214 -55 TGTTCTTTCCCCCCGCACCCC 34 179 1 CCCCGCACCC 0.696564 -11 TAACAAATAGGCCCTAACCCAGCTTAACCT 36 54 0 GCCCTAACCC 0.413189 -60 GCTCAGTTTCCCCCCAGCCCTATTCCT 37 8 0 CCCCCAGCCC 0.917599 -54 GAAATGGGTACCCGTTGGCCCTGGCGGAAA 41 225 1 CCCGTTGGCC 0.923182 -24 CATTACTACCGCCCCTTGCCAAAGGAATAA 42 189 0 GCCCCTTGCC 0.758649 -112 TTTTTAAACCCCCTTTAGCCAACTTTACTC 43 21 0 CCCTTTAGCC 0.579004 -240 TAACGGTTATCCCCCAAGCCGCTAGAATGG 43 205 1 CCCCCAAGCC 0.844242 -56 TTTCCAATGCCCCGCTTGCCAAATTAATCC 46 37 0 CCCGCTTGCC 0.890395 -173 CAATAAAATACCCCGTGCCCAGGGCCGGGG 46 133 1 CCCCGTGCCC 0.925429 -77 CCGCTGGACCCCCCCTGACCACCATTAGCC 57 31 0 CCCCCTGACC 0.533031 -252 AGTTTTAGCTCCCCCTTCCCCCACTGTTGC 59 245 0 CCCCCTTCCC 0.899836 -56 TCCCGGTCGCCCACGGCAAAA 59 290 0 CCCGGTCGCC 0.45201 -11 CGGACAAAAACCCGTTTCCCTGCGAGGTCT 62 24 1 CCCGTTTCCC 0.789973 -105 TATGATGGTTCCCCGTTGCCATCTTTTCTC 65 50 1 CCCCGTTGCC 0.857963 -32 TATTGAAAGTCCCCTAGCCCCCAATACTGG 68 30 1 CCCCTAGCCC 0.865407 -139 GGGGCATCTAGCCGTATGCCATTGGTCAAA 69 31 0 GCCGTATGCC 0.389024 -175 GATTTAGTCCCCCCTATCCCCGTCCCTGGC 72 111 1 CCCCTATCCC 0.715065 -190 TCAATGCTCTCCCCGATGCCATGAAAATTG 74 103 1 CCCCGATGCC 0.745055 -184 CAGGATTAAGGCCGTCGGCCCAAGGTAACG 79 18 1 GCCGTCGGCC 0.615092 -23 TTTGAAAAGCCCCCCTGGCCCCCAAGTTTG 80 50 1 CCCCCTGGCC 0.966334 -109 AAGGAATTCAGCCCTTTCCCATGATACTTG 89 123 0 GCCCTTTCCC 0.59273 -49 ACCCCTTCGGCCATCAACAGAA 105 51 0 CCCTTCGGCC 0.625467 -12 AGGTGAGTTACCCCTCGCCCCAGGGGAAAT 108 129 0 CCCCTCGCCC 0.862986 -54 GTTACCCATCCCCCTATCCCCATGAACCTT 109 67 0 CCCCTATCCC 0.715065 -65 TGGTTACTTGCCCGCTGCCCTTTTTCGTTG 113 20 0 CCCGCTGCCC 0.943471 -40 TACTTCTCGCCCCGTTAGCCAAAATACAAA 115 59 0 CCCGTTAGCC 0.824271 -142 TTTTAAATGCCCCCCTAGCCCCCCAAGTTT 120 135 1 CCCCCTAGCC 0.918054 -166 GGGACGATCTCCCTGTGGCCAAGGAATCCT 124 62 0 CCCTGTGGCC 0.766923 -85 ACAAATTCCCGCCGTTGGCCGCAAATCCTC 125 62 0 GCCGTTGGCC 0.771266 -93 ATAATGTTTTCCCGCAACCCCAAGGAACAT 127 53 1 CCCGCAACCC 0.759132 -74 ********** Masking position 3 Map Score: 46.5157 Number of sites scoring better than the average of aligned sites = 1881 Number in coding regions = 1627 Number in noncoding regions = 254 Number of orfs with sites within 600 bp upstream = 190 Fraction of orfs with sites within 600 bp upstream = 0.0305172 Motif number 7 AAAGACAAAAAGAGAAGCGACCCCAAGTTATTCC 6 62 0 AGAAACACCC 0.899835 -85 CGATAATGCCAGAGCATTAATCCCCATTTTCCCT 12 226 1 AGACATACCC 0.961742 -34 TACGGTTTTTAGGCCATTGATCCCGTCAAAACCA 30 40 0 AGGCATACCC 0.9182 -120 TCACAGTGGTAGACCAATAAACCCAGGGAACGCC 31 250 0 AGACATACCC 0.961742 -51 GTTTTCCCCAAGGGAATTAAGCCCCGTAACTTTG 32 108 0 AGGAATACCC 0.92631 -193 TTTTGGTGCAAGAAAACTAAACCCGATAAAATTA 32 203 1 AGAAATACCC 0.965697 -98 AGAGCCAATAAAACCAATTATCCCTAAACG 51 7 0 AAACATACCC 0.813839 -26 TCTGCTGATCAGAGAACTGAACCCCTAAGAGTTG 53 14 0 AGAAATACCC 0.965697 -244 TCATCTAGTGAAAAAAGTTATCCCGTGGTCCAGT 63 198 1 AAAAATACCC 0.830385 -71 CCTGCACTTCCGAGAACTAAGCCCCTACCGTCAC 69 75 1 CGAAATACCC 0.867903 -131 GGCCGAGGAAAGACCAATTATCCCCTGTTGATCA 81 95 1 AGACATACCC 0.961742 -108 TTTTCAGACGAAGGAATTCAGCCCTTTCCCATGA 89 129 0 AAGAATACCC 0.686132 -43 CACAAGTTATTGATAACCTAACCCAAGTTA 93 37 1 TGAAACACCC 0.575453 -20 AGCCCATGCGAGAAAATTCATCCCTTGGCACAAT 98 223 0 AGAAATACCC 0.965697 -24 CCTTTAATTCAGGTTACTGACCCCAGATTAATTG 102 113 1 AGGTATACCC 0.719686 -61 AAACCTGAATAGATAATCCATCCCATA 114 4 0 AGAAACACCC 0.899835 -297 TTGGGTTAATCGAATATTTATCCCCAAGTTCTTT 114 274 1 CGATATACCC 0.573001 -27 ATTGATGAATTGAGCAATGAACCCTAGCAACTCC 117 99 0 TGACATACCC 0.79136 -35 CCATCGATTTAAATAATTGACCCCAGTCTT 124 7 0 AAAAATACCC 0.830385 -140 *** ** * * *** Masking position 6 Map Score: 18.2686 Number of sites scoring better than the average of aligned sites = 157 Number in coding regions = 131 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 8 ATCAAATCGTTACTTTGCCCAAACAAAAAC 5 200 0 TACTTTGCCC 0.89729 -32 TTTTTTGCCCCATTCGTGCT 11 291 0 TTTTTTGCCC 0.937416 -10 GAATAACGATTTTTTTGCCCTGACCGATTA 16 125 0 TTTTTTGCCC 0.937416 -111 GAATTACCTTGATTTTGCCCTCCAAA 27 7 0 GATTTTGCCC 0.785774 -51 TGAAATTTAGGACTTTGCCCC 32 290 1 GACTTTGCCC 0.806708 -11 GACGCCCTAATTCTTTGCCC 35 1 0 TTCTTTGCCC 0.944577 -87 TGGACTTTTTTTCTTTGTCCGGTCAAGATA 53 55 0 TTCTTTGTCC 0.942632 -203 AGGGAAACGGGTTTTTGTCCGGGTAGATTT 62 15 0 GTTTTTGTCC 0.8734 -114 AACTCCGAAGTTTTTTGTCCATCATGTCAC 64 18 1 TTTTTTGTCC 0.935237 -163 ATCTTTTCTCTACTTTGTCCCT 65 70 1 TACTTTGTCC 0.893872 -12 TGACGATATTTTTTTTGTCCATCATTGGTT 74 188 0 TTTTTTGTCC 0.935237 -99 GAGATGCGATTTTTTTGTCCATTAGTTTGT 77 116 1 TTTTTTGTCC 0.935237 -185 TGAAAAGTTTTATTTTGTCCCCTAAATCTC 80 130 0 TATTTTGTCC 0.880985 -29 CCTAAATTCATTTTTTGTCCTCGAGGCTTC 83 38 1 TTTTTTGTCC 0.935237 -218 TCGGAACCCATTCTTTGTCCCCATTGTCGC 98 64 0 TTCTTTGTCC 0.942632 -183 TGCAAAGTTGTATTTTGCCCCCTAAATCCC 120 198 0 TATTTTGCCC 0.884765 -103 CAACGGGGTTGTCTTTGTCCTTTCCCTTCA 128 55 1 GTCTTTGTCC 0.887003 -23 GTATTATTTGTCCCTGTCCTGTT 129 18 0 TTATTTGTCC 0.647253 -13 ********** Masking position 5 Map Score: 23.9018 Number of sites scoring better than the average of aligned sites = 185 Number in coding regions = 145 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 9 ATCACTAAAGCCTTTGTCCCCCAACTATTT 3 185 1 CCTTTGTCCC 0.399634 -116 TAATTTCTGGCCCTGGTTACGGCTCCGGCC 11 231 0 CCCTGGTTAC 0.719988 -70 TTTACTTAGACCATGGCTACCTGAATGAAT 12 109 0 CCATGGCTAC 0.884451 -151 CCCATGGCCCCGATGGACTCC 16 2 1 CCATGGCCCC 0.932653 -234 TTACTACCGCCCCTTGCCAAAGGAATAATG 42 187 0 CCCTTGCCAA 0.706013 -114 TTCGTCGTCGCCATTGCTAAGCA 42 288 1 CCATTGCTAA 0.614707 -13 CTTAAAATTGCCCTGGTTACTGTTCCCCCA 43 65 0 CCCTGGTTAC 0.719988 -196 TTCACCCCGGCCCTGGGCACGGGGTATTTT 46 137 0 CCCTGGGCAC 0.90719 -73 TAGGTTTAACCCATGGTTACTGCCATGGTC 53 174 1 CCATGGTTAC 0.768055 -84 ATGGTTACTGCCATGGTCAAAGCTAGTTAA 53 186 1 CCATGGTCAA 0.768055 -72 ACCTTACCTGCCTTGGGTCATGG 54 135 1 CCTTGGGTCA 0.462292 -13 CGTGAGGAGACCATTGGCCCT 57 2 0 CCATTGGCCC 0.825997 -281 GAACCTCGGGCCATTGCCCCCC 57 271 1 CCATTGCCCC 0.848381 -12 GTATTGGCCTCCATTGCCAATAATCCCAAG 59 74 1 CCATTGCCAA 0.755665 -227 AGTTTTCAGTCCATTGGCAACAGTGGGGGA 59 229 1 CCATTGGCAA 0.724046 -72 CAAAAAATCCCCCTGGTTAAAGGAGGATTA 68 75 0 CCCTGGTTAA 0.570156 -94 TAGCCGTATGCCATTGGTCAAAAGGGGAGT 69 23 0 CCATTGGTCA 0.558159 -183 GGCCGAAAAGCCATGGTTCCAATCCATTGC 69 137 0 CCATGGTTCC 0.755534 -69 TGAAAAGCCCCCCTGGCCCCCAAGTTTGGG 80 52 1 CCCTGGCCCC 0.914918 -107 CTTTCCTCGGCCATGGTCAAGGCCAACATC 81 77 0 CCATGGTCAA 0.768055 -126 TACCAAATTGCCTTGGCCCAGAGCTTTTGA 82 63 0 CCTTGGCCCA 0.662674 -73 CTTCTATTGACCATTGCCCCTGGTCTACAG 84 172 1 CCATTGCCCC 0.848381 -129 TGGCAAAAATCCTTGGGTACCAGATGGTAA 86 35 1 CCTTGGGTAC 0.641023 -180 TAACCTGTTCCCATGGGCCAGATTTCGACC 89 47 1 CCATGGGCCA 0.858371 -125 ATGAATTTTTCCCTGGGCAAGGTATTGATG 90 71 1 CCCTGGGCAA 0.834503 -96 AAATCCCTGGCTCCGTGGCCATCA 97 5 1 CCCTGGCTCC 0.847265 -25 GAAAATTCATCCCTTGGCACAATGGTAAAA 98 216 0 CCCTTGGCAC 0.797957 -31 CTGAAAAAAGCCATTGCCACTCAATTTCAC 99 24 0 CCATTGCCAC 0.857046 -263 TCAACCATTGGTAAAACTGAATTT 106 108 0 CCATTGGTAA 0.575104 -14 CCCAACCCATCCATGGTTACTTGCCCGCTG 113 33 0 CCATGGTTAC 0.768055 -27 ACCATCAACTCCATGGCTAAATCCCTGCCC 114 144 0 CCATGGCTAA 0.797923 -157 ACGGAGGATTCCTTGGCCACAGGGAGATCG 124 58 1 CCTTGGCCAC 0.80316 -89 TGACCCATTGGTAAGGGTTTTGGA 127 113 0 CCATTGGTAA 0.575104 -14 ********** Masking position 4 Map Score: 34.2071 Number of sites scoring better than the average of aligned sites = 2071 Number in coding regions = 1873 Number in noncoding regions = 198 Number of orfs with sites within 600 bp upstream = 208 Fraction of orfs with sites within 600 bp upstream = 0.0334083 Motif number 10 TGGCCTGGAAGGGTGGGAAAGTGTTAACAAC 8 29 1 GGGTGGAAAG 0.83795 -86 CATCGGTTCAGGGAGGAAAGGAGCGGCAACT 11 39 1 GGGAGGAAGG 0.96733 -262 ATATTTATTTGGGAGTTAAAGCCTAGCCA 12 9 0 GGGAGTAAAG 0.661325 -251 TGAATGATTGGGCAGTAATGGAATTAATGGG 12 83 0 GGCAGTATGG 0.386932 -177 AGATAAAGGGTGGAAAAGTTTGATCGAC 15 8 1 GGGTGGAAAG 0.83795 -99 GGGCCTGGCAAAGACAAGGTTAA 34 3 1 GCCTGGAAAG 0.619984 -187 GTCAAGCAAGGGCAGGAAAAGTATCATGGAT 35 34 0 GGCAGGAAAG 0.948351 -54 CACGAACGACGGCAGGGATGGGAATACGGGG 42 77 0 GGCAGGATGG 0.820946 -224 GAGTTGTAATGGCAGTAAAGGAGCTAAGTTT 42 247 1 GGCAGTAAGG 0.84066 -54 CATGACCCAAGGCAGGTAAGGTTCCCTGACC 54 126 0 GGCAGGAAGG 0.974572 -22 CAATAGGGGGGGCAGGCAAGGCAAGGACAAT 58 27 1 GGCAGGAAGG 0.974572 -45 AGAACGCTAAGGGAGGTAAGCCTTATGTCGT 59 125 0 GGGAGGAAGC 0.771642 -176 GCGCGATTTAGGCTGGCAAAGCAGGTTTTTG 70 13 1 GGCTGGAAAG 0.870017 -175 AAAAAGCCTTGGCAGGACAGGTTCAGTTTAA 70 164 0 GGCAGGCAGG 0.769345 -24 CGTTGACACTGCCAGGGACGGGGATAGGGGG 72 120 0 GCCAGGACGG 0.63352 -181 GTCAAAAATAGCGAGGAAAGCCCTAGGCGTT 72 179 0 GCGAGGAAGC 0.451647 -122 TACAATTATGGGCAGGGAAAAGCCTATTCGA 72 266 0 GGCAGGAAAA 0.575314 -35 TCTGGACTTGGGCAGGGAAAAGAATACTGAA 78 48 0 GGCAGGAAAA 0.575314 -80 CTGGAGCAAAGCCAGGAAAAGTTTATCCAAA 94 45 1 GCCAGGAAAG 0.81737 -73 GTAAACCCCAGAGAGGCAAAGGCATAGCATT 103 177 1 GAGAGGAAAG 0.538815 -71 TGTTCGATGGGGGTGTTAAGGATAGGTTTTA 108 14 1 GGGTGTAAGG 0.597713 -169 ATTCCATCACGAGTGGCAAGGTCAGACAAGC 119 50 0 GAGTGGAAGG 0.470613 -232 TCCCAAAATAGGGAGGAACGGAGGATTCCTT 124 41 1 GGGAGGACGG 0.845655 -106 ****** **** Masking position 5 Map Score: 17.0029 Number of sites scoring better than the average of aligned sites = 567 Number in coding regions = 488 Number in noncoding regions = 79 Number of orfs with sites within 600 bp upstream = 90 Fraction of orfs with sites within 600 bp upstream = 0.0144555 Motif number 11 TTACCTAAATAAATCCAGGGAGAAACACGG 10 130 0 AAATCCAGGG 0.607536 -171 GCGGACGTTCAACCCCTGAGGCAATCCAGT 14 76 1 AACCCCTGAG 0.786709 -92 GAGCAGTAACAACCCCCAGGTAATTGTCAC 18 86 0 AACCCCCAGG 0.567803 -74 GTTAACCCCAGGGAAGATATCCT 18 147 0 AACCCCAGGG 0.971209 -13 AGTCTCCAAAAACCCCAGACAACAAACGGC 21 37 1 AACCCCAGAC 0.68136 -89 GTGTAGCTAGAACCCCTGGGAATATTGTGC 22 66 1 AACCCCTGGG 0.893491 -20 AGAAGGAAAACCAAGGCCGATAGCCT 24 61 0 AAAACCAAGG 0.576228 -16 TGATCCCGTCAAAACCAGGGGTAACGTAAT 30 27 0 AAAACCAGGG 0.835879 -133 GTAGACCAATAAACCCAGGGAACGCCATGT 31 246 0 AAACCCAGGG 0.959188 -55 ACAGTGACCAAAACCCAGAGCTTTTTAACT 33 103 1 AAACCCAGAG 0.911766 -62 ACTGCTGGCTAAACCCAAGGCTAGAGGGAA 34 86 1 AAACCCAAGG 0.862538 -104 CAGAGAACTGAACCCCTAAGAGTTGACA 53 9 0 AACCCCTAAG 0.496157 -249 ACAGGTTTTAAAACCCAGAC 68 1 0 AAACCCAGAC 0.598365 -168 GACAAAACCAGAGATGAAGGAAA 89 4 1 AAAACCAGAG 0.691292 -168 GTGATTATTAAAAACCAGGGCGAAAATTTT 101 43 1 AAAACCAGGG 0.835879 -67 TTACCAGGTAAACCCCAGAGAGGCAAAGGC 103 170 1 AACCCCAGAG 0.936836 -78 GTTTTCCCGCAACCCCAAGGAACATTTCTC 127 58 1 AACCCCAAGG 0.900061 -69 ********** Masking position 2 Map Score: 12.3594 Number of sites scoring better than the average of aligned sites = 800 Number in coding regions = 734 Number in noncoding regions = 66 Number of orfs with sites within 600 bp upstream = 78 Fraction of orfs with sites within 600 bp upstream = 0.0125281 Motif number 12 AAAGCTCCGGCAAGGTTGGGGGATTTGGACTT 3 220 1 CAATTGGGGG 0.97465 -81 TTCCTGTAAACAGTGCTGGGGGCGGAAAGCAC 4 271 0 CAGCTGGGGG 0.980671 -30 GGCGCAATTTCAGCTTTGGGGGTGCCTCCTAT 17 121 0 CAGTTGGGGG 0.95526 -24 TTGCCCCATACGGCCCTGGGGGCCACCACCGG 19 18 0 CGGCTGGGGG 0.873161 -147 AATCCGTCCCCAAGCCTGGGAGTTTTCCCCCC 34 115 1 CAACTGGGAG 0.828447 -75 AGGAATAGGGCTGGGGGGAAACTGAGC 37 6 1 TAGCTGGGGG 0.741657 -56 AATGGACTGAAAACTTTGGGGGAATATTTTTG 59 212 0 AAATTGGGGG 0.685083 -89 AGTCCATTGGCAACAGTGGGGGAAGGGGGAGC 59 236 1 CAAGTGGGGG 0.922059 -65 CCCTAGCCCCCAATACTGGGGGAATCAGATTC 68 41 1 CAACTGGGGG 0.989173 -128 AAAGCTCCGGCAATACTGGGGGACTTTCACTC 73 108 1 CAACTGGGGG 0.989173 -68 CTCCTGGCCTCCAATTTGGGGGGAAACTGAGT 73 136 0 CCATTGGGGG 0.839139 -40 AACTTCCCCCCAAACTTGGGGGCCAGGGGGGC 80 58 0 CAATTGGGGG 0.97465 -101 AAATCTTCGACAATGCTGGGGCACTTTTATTT 80 92 0 CAACTGGGGC 0.877411 -67 TAATTTGTCTCAAAACTGCGGGCATAGGGACA 103 138 1 CAACTGCGGG 0.877411 -110 ACTTTCCCCCCAAACTTGGGGGGCTAGGGGGG 120 144 0 CAATTGGGGG 0.97465 -157 CTAAATCCCCCAATACTGGGGGACTTTTAATA 120 175 0 CAACTGGGGG 0.989173 -126 *** ******* Masking position 7 Map Score: 25.7493 Number of sites scoring better than the average of aligned sites = 290 Number in coding regions = 167 Number in noncoding regions = 123 Number of orfs with sites within 600 bp upstream = 66 Fraction of orfs with sites within 600 bp upstream = 0.0106007 Motif number 13 AACTATTTTCACTAAAGCTCCGGCAAGGTTGGGGGA 3 207 1 ATAATCGCAA 0.951858 -94 GGGATAGGAAAATGAAACTCGGTCATTATTGACCGA 11 108 0 ATAATCGCAT 0.677844 -193 CACGGAACTTAGTGAATATCAGTCAACCAGCAAAAT 15 45 1 ATAATCGCAA 0.951858 -62 AGGCGAATTAAGCCAACGTCTGTCAAATTATCTAAA 17 34 0 ACAATCGCAA 0.862003 -111 AGTATCAACTACTACAAATCTGCCAATTCCACCTAC 26 98 1 ATCATCGCAA 0.862003 -168 CTTTACTGCCATTACAACTCTGACAAAGAGTTTGCA 42 231 0 ATCATCGCAA 0.862003 -70 GGTCAAAGCTAGTTAAATTTAGTCAAATTTAAGTTC 53 200 1 ATAATTGCAA 0.714419 -58 GTTTTAACCGATTGAAAATCAGTCAACACAAAAATA 59 184 1 ATAATCGCAA 0.951858 -117 AAATCTCTTCACTAAAGCTCCGGCAATACTGGGGGA 73 95 1 ATAATCGCAA 0.951858 -81 AGAGAATTAAACTGAATTTCAGACAAATATTAACTA 76 43 0 ATAATCGCAA 0.951858 -87 AAATCTCCTCATTAAATCTTCGACAATGCTGGGGCA 80 101 0 ATAATTGCAA 0.714419 -58 CATCTTTATCAGTGAAACTCCGGTAATTGACAAGTT 86 80 0 ATAATCGTAA 0.565651 -135 TGTGCATTTAACCAAAACTCGGGCAAATTTCCAAAA 116 123 1 ACAATCGCAA 0.862003 -42 * * ** ** * *** Masking position 6 Map Score: 8.1724 Number of sites scoring better than the average of aligned sites = 47 Number in coding regions = 17 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 14 AAGCCACTTCTCCTCCTGAACTAAACAGAAA 6 12 0 TCCTCCTAAC 0.871428 -135 TGTTTGTTCCTCATAAATATAGTTTACA 20 8 1 TCCTCATAAT 0.81667 -143 TCCCAGTCATTCCCCATCAATCGTCCGTTTC 31 140 1 TCCCCATAAT 0.902898 -161 GCCAAATTAATCCCCATAATTGAGCTGGAGG 46 19 0 TCCCCATATT 0.51399 -191 CCTAATTTTCTCCTCCCTAATTCTGGGGAGA 48 17 0 TCCTCCCAAT 0.7038 -44 CTCAGTTGGCTCCTCATCAACACAGTCAAAA 50 17 1 TCCTCATAAC 0.833841 -52 TTTAGAGATCGCCTCATTAATCCTTCACAAG 60 54 1 GCCTCATAAT 0.533053 -52 CAAAACCTTTTCCTCCTAAATGTCAAATAAA 62 86 1 TCCTCCTAAT 0.857477 -43 GCTGAAAAACTCCTCAGAAATTAACCGGGAA 63 144 0 TCCTCAGAAT 0.479041 -125 GTCTTCCGACTCCCCAGAAACCGTCAGTGCT 70 107 1 TCCCCAGAAC 0.683771 -81 CCGTGCTATTTCCCCATAAGCTTTTAAACTG 70 141 1 TCCCCATAGC 0.500345 -47 GTTTTGTTCAGCCCCCTAAATCTCTTCACTA 73 78 1 GCCCCCTAAT 0.762936 -98 TCACTCAGTTTCCCCCCAAATTGGAGGCCAG 73 134 1 TCCCCCCAAT 0.832207 -42 TTTCGATCCGTCCTCCTGAACATCTACTCA 77 10 0 TCCTCCTAAC 0.871428 -291 ATTTTTAACTTCCCCCCAAACTTGGGGGCCA 80 65 0 TCCCCCCAAC 0.848193 -94 CCCCTAAATCTCCTCATTAAATCTTCGACAA 80 111 0 TCCTCATAAA 0.304801 -48 ATTTGATCCATCCCCATAAACAAGGCCTTTG 81 150 1 TCCCCATAAC 0.912854 -53 GTCATAATTTTCCCCTTGAATTATCGCTCCC 83 170 1 TCCCCTTAAT 0.497364 -86 ATTCAGTCATTCCCCCTAATTACTTAGTAAC 86 174 1 TCCCCCTATT 0.588198 -41 TGGAGCACGATCCTCATCAATACCTTGCCCA 90 84 0 TCCTCATAAT 0.81667 -83 CATCCCCCTATCCCCATGAACCTTAGACTAA 109 60 0 TCCCCATAAC 0.912854 -72 TTTAATACTTTCCCCCCAAACTTGGGGGGCT 120 151 0 TCCCCCCAAC 0.848193 -150 GTTGTATTTTGCCCCCTAAATCCCCCAATAC 120 191 0 GCCCCCTAAT 0.762936 -110 ******* *** Masking position 9 Map Score: 14.5563 Number of sites scoring better than the average of aligned sites = 325 Number in coding regions = 237 Number in noncoding regions = 88 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813 Motif number 15 TCCCCCCCTAGGCTAGGGGCCGGGGTTAGTCCGTC 1 17 1 GGGGGCGGGG 0.892169 -41 CAACCCCTGAGGCAATCCAGTGGGGCGTGATTTAC 14 85 1 GGCCATGGGG 0.756147 -83 ACGGCCCTGGGGGCCACCACCGGGGATAGT 19 6 0 GGCCACGGGG 0.919207 -159 TTGGGTAGAAGGAACCACAACGGGAATATGCGGTT 19 73 0 GGACACGGGA 0.802611 -92 GGCCCGTCATCGGGGCACCAGGAGC 20 136 0 GGTCACGGGG 0.970439 -15 AGTTCTTGACCGGGGAAGATATGAG 25 1 1 AGTGACGGGG 0.684409 -129 GACGATTGATGGGGAATGACTGGGATCAATCCACT 31 130 0 GGTGATGGGA 0.741497 -171 TAGGGTTTTCGGGGGTTCAGTGGGGAAGAAACACC 32 42 1 GGTCATGGGG 0.899469 -259 CAGATCCAATGGGGGCTCCGGGGGGGAAAACTCCC 34 132 0 GGTCCGGGGG 0.457581 -58 AGGAATAGGGCTGGGGGGAAACTGAG 37 2 1 GGGGGTGGGG 0.692779 -60 GAGGAGTTATGGCAGAGGAATGGGAAAATTCGAGC 39 13 0 GGGGATGGGA 0.806638 -34 CCCTGACCCTGGGGGCTGACTCGGATCAATTGTTC 54 99 0 GGTGATCGGA 0.237303 -49 TGCACCCCAAGGGATTACACCTGGGTCAAGCTTAC 57 64 1 GGACACTGGG 0.353064 -219 CATTGGCAACAGTGGGGGAAGGGGGAGCTAAAACT 59 240 1 AGGGAGGGGG 0.482213 -61 GATATCTTCTGGAGTGAGATCAGGGAAATCATCCA 61 184 1 GGAGACAGGG 0.510115 -100 GGCAAATTCGGGATAATGAGCCGGGTTATTAGTGG 72 75 1 GGTGACCGGG 0.79394 -226 ACACTGCCAGGGACGGGGATAGGGGGGACTAAATC 72 111 0 GGGGAAGGGG 0.745095 -190 CCTAAAGAAAGGAAAGGCAACGGGAGGAAAATT 78 105 1 GGGCACGGGA 0.933975 -23 GCGCTGGTCAGGTTGATCAACAGGGGATAATTGGT 81 107 0 GGTCACAGGG 0.697157 -96 ATTTTAGTGGGGCGATTGAGCGGGATGATCCTATC 84 52 0 GGTGACGGGA 0.913229 -249 AAATGCCTATGGTTCATCATCGGGGTGTATGGCAA 91 30 0 GGTCACGGGG 0.970439 -53 GGAAAAGGAAGGGGAATTGCATCAA 96 1 1 GGGGAGGGGA 0.818828 -161 TAGTAATGGGGGACGTGGACGGGGGTAGAACTTAA 96 108 0 GGGGAGGGGG 0.938477 -54 ATATGGTTCCGGCTCAACATCGGGAACCTTAGACA 119 197 0 GGACACGGGA 0.802611 -85 ATTTTACCTGGGAACTGCAACGGGGTTGTCTTTGT 128 38 1 GGGCACGGGG 0.979484 -40 ** *** ***** Masking position 13 Map Score: 17.8097 Number of sites scoring better than the average of aligned sites = 998 Number in coding regions = 884 Number in noncoding regions = 114 Number of orfs with sites within 600 bp upstream = 115 Fraction of orfs with sites within 600 bp upstream = 0.0184709