AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00220_synecho_reg_300.orf -o00220_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. sll0990 28 formaldehyde dehydrogenase. [EC:1.2.1.1] Input sequences: #1 sll0227 205 ppiB; peptidyl-prolyl cis-trans isomerase B. [EC:5.2.1.8] #2 sll0226 138 ycf4; hypothetical protein. #3 sll0224 300 bcp; hypothetical protein. #4 sll1749 300 hypothetical protein. #5 slr2035 168 proB; glutamate 5-kinase (gamma-glutamyl kinase) (GK). [EC:2.7.2.11] #6 ssr3452 300 transposase. #7 slr1022 126 argD; acetylornithine aminotransferase (ACOAT). [EC:2.6.1.11] #8 slr1024 28 hypothetical protein. #9 slr1025 66 hypothetical protein. #10 tRNA-Arg-2 300 tRNA-Arg. #11 slr1134 300 hypothetical protein. #12 slr1898 127 argB; N-acetylglutamate kinase. [EC:2.7.2.8] #13 slr1899 53 ureF; urease accessory protein ureF. [SP:UREF_SYNY3] #14 slr1900 59 hypothetical protein. #15 slr1901 131 ABC transporter. #16 slr1903 22 hypothetical protein. #17 sll1791 215 transposase. #18 sll1789 107 rpoC2; DNA-directed RNA polymerase delta chain. [EC:2.7.7.6] #19 sll1787 85 rpoB; DNA-directed RNA polymerase beta chain (transcriptase beta #20 sll1786 135 hypothetical 29.3 kD protein sll1786. [SP:YH86_SYNY3] #21 ssl2233 95 rpsT, rps20; 30S ribosomal protein S20. [SP:RS20_SYNY3] #22 sll1123 112 hypothetical protein. #23 sll1121 98 putative DNA helicase. [EC:3.6.1.-] #24 sll1120 194 chromosome segregation protein SMC1. #25 sll1119 142 hypothetical protein. #26 slr1194 153 hypothetical protein. #27 slr1195 28 hypothetical protein. #28 slr1196 27 hypothetical protein. #29 slr1197 42 hypothetical protein. #30 sll1118 46 hypothetical protein. #31 ssr2009 198 hypothetical protein. #32 slr1198 103 rehydrin. #33 slr1199 184 mutL; DNA mismatch repair protein MutL. #34 slr1200 97 livM; high-affinity branched-chain amino acid transport permease #35 slr1201 115 hypothetical protein. #36 slr1202 109 malF; putative maltose transport permease protein. #37 slr1203 105 hypothetical protein. #38 slr1204 47 htrA; serine protease HtrA. [EC:3.4.21.-] #39 slr1205 273 hypothetical protein. #40 slr1206 67 hypothetical protein. #41 slr1207 221 hypothetical protein. #42 ssr2016 251 hypothetical protein. #43 slr1211 91 cobN; CobN protein. #44 slr1212 48 ETR1; ethylene response sensor protein. #45 slr1213 300 LumQ. #46 slr1256 155 ureA; urease gamma subunit (ureA amidohydrolase). [EC:3.5.1.5] #47 tRNA-Glu 219 tRNA-Glu. #48 slr1257 196 hypothetical protein. #49 slr1258 130 hypothetical protein. #50 slr1259 55 hypothetical protein. #51 slr1260 63 hypothetical protein. #52 slr1262 195 hypothetical protein. #53 slr1263 27 hypothetical protein. #54 sll1961 80 hypothetical protein. #55 sll1960 34 hypothetical protein. #56 sll1958 138 hisC; histidinol phosphate aminotransferase. [EC:2.6.1.9] #57 sll1957 300 arsA; arsenical resistance operon repressor. #58 sll1883 107 argJ; ornithine acetyltransferase. [EC:2.3.1.35] #59 sll1882 243 hypothetical protein. #60 slr1975 93 renin-binding protein. #61 sll1880 213 hypothetical 16.4 kD protein sll1880. [SP:YI80_SYNY3] #62 sll1879 85 hypothetical protein. #63 sll1878 145 ABC transporter. #64 slr1977 69 hypothetical protein. #65 slr1980 61 hypothetical protein. #66 sll1876 260 hemN; oxygen independent coprophorphyrinogen III oxidase. #67 sll1875 64 ho; heme oxygenase. [EC:1.14.99.3] #68 sll1874 300 AT103; AT103. #69 sll0420 35 ureB; urease beta subunit (ureA amidohydrolase). [EC:3.5.1.5] #70 sll0419 77 hypothetical protein. #71 sll0418 68 sterol-C-methyltransferase. [EC:2.1.1.41] #72 slr0446 300 dnaX_and_dnaZ; DNA polymerase III subunit. [EC:2.7.7.7] #73 sll0461 300 proA; gamma-glutamyl phosphate reductase. [EC:1.2.1.41] #74 sll0373 125 proA; probable gamma-glutamyl phosphate reductase (GPR) (glutamate- #75 sll0372 300 hypothetical protein. #76 sll0080 245 argC; probable N-acetyl-gamma-glutamyl-phosphate reductase (AGPR) #77 sll0078 171 thrS; threonyl-tRNA synthetase (threonine--tRNA ligase) (thrRS). #78 slr0086 166 hisB; hypothetical protein. #79 slr0088 82 phytoene dehydrogenase. #80 slr0089 23 erg6; delta(24)-sterol C-methyltransferase. #81 slr0090 56 ppd; 4-hydroxyphenylpyruvic acid dioxgenase (HPD). [SP:Y090_SYNY3] #82 slr0092 117 hisB; hypothetical protein. #83 slr0093 28 dnaJ-like protein slr0093. [SP:DNJH_SYNY3] #84 slr0095 161 hisB; O-methyltransferase. [EC:2.1.1.-] #85 slr0096 29 hisB; low affinity sulfate transporter. #86 slr0498 246 hisB; hypothetical protein. #87 sll0489 286 hisB; ABC transporter. #88 sll0488 116 hypothetical protein. #89 sll0487 109 hypothetical protein. #90 sll0486 173 hypothetical protein. #91 sll0485 247 hypothetical protein. #92 sll0484 130 ABC transporter. #93 slr0502 62 cobW; CobW. #94 slr0505 121 hypothetical protein. #95 slr0506 56 pcr; protochlorophyllide oxido-reductase. [EC:1.3.1.33] #96 sll0481 71 hypothetical protein. [SP:Y481_SYNY3] #97 sll0480 182 hypothetical protein. #98 slr0509 131 alkaline phosphatase-like. #99 slr0510 222 hypothetical protein. #100 ssr0871 55 transposase. #101 slr0511 300 transposase. #102 sll0100 98 hypothetical 42.7 kD protein sll0100. [EC:3.5.1.14] [SP:Y100_SYNY3] #103 sll0099 128 cbiE; precorrin-6y methylase. #104 sll0098 126 hypothetical protein. [SP:Y098_SYNY3] #105 tRNA-Gly-3 39 tRNA-Gly. #106 slr0109 68 hypothetical protein. #107 sll0096 197 hypothetical protein. #108 sll0094 156 hypothetical protein. #109 slr0110 111 hypothetical protein. #110 slr0111 181 hypothetical protein. #111 slr0112 122 hypothetical protein. #112 slr0114 190 sigma factor sigG regulation protein rsbU. #113 slr0115 61 ycf27; regulatory components of sensory transduction system. #114 slr0116 300 hypothetical protein. #115 sll0902 112 argF; ornithine carbamoyltransferase chain f. [EC:2.1.3.3] #116 sll0901 100 purE; phosphoribosylaminoimidazole carboxylase catalytic subunit #117 slr0925 300 ssb; single-stranded DNA-binding protein. #118 sll0626 196 lim17; LIM17. #119 sll0625 281 hypothetical protein. #120 sll0624 300 hypothetical protein. #121 slr0585 118 argG; argininosuccinate synthase (citrulline--aspartate ligase). #122 slr0586 151 hypothetical protein. #123 slr0587 41 hypothetical protein. #124 sll0578 75 purK; phosphoribosylaminoimidazole carboxylase ATPase subunit (air #125 sll0577 195 hypothetical protein. #126 slr0588 29 hypothetical protein. #127 slr0589 108 hypothetical protein. #128 slr0590 113 hypothetical protein. #129 sll0576 79 HrEpiB. #130 sll0574 206 rfbA; integral membrane O-antigen translocator protein. #131 sll0572 300 hypothetical protein. Motif number 1 GTTCCCCTAAGGTGATCGCCCTATCATCCT 2 53 1 GGTGATCGCC 0.518297 -86 AAGAAAGTTGGGAGTTCGCCTATCGCTCTT 5 67 0 GGAGTTCGCC 0.75986 -102 TCGGATGAGAGACGATCGCCAATTTGGACC 11 182 1 GACGATCGCC 0.518663 -119 TCAGGAGGATGGCGATCGCCTAGGGTCTAA 18 37 1 GGCGATCGCC 0.499999 -71 TGGTTACTTTGGAGATCGCCCACGGCATTA 20 108 1 GGAGATCGCC 0.520876 -28 GAGGCTTTGGGCCGATCGCCACGGCCACTG 22 41 0 GCCGATCGCC 0.522866 -72 TCCGGCCAATGGCGATCGCCAAGCGTCGTA 24 97 1 GGCGATCGCC 0.499999 -98 TCTGGGGTAAGGCGATCGCCTTAGGTCAAA 31 174 1 GGCGATCGCC 0.499999 -25 ACTGTCCCTTGGCGATCGCCATTTTGACTA 73 110 1 GGCGATCGCC 0.499999 -191 GTTAGAGGTAGCCAATCGCCGGATTGACAG 73 172 0 GCCAATCGCC 0.829068 -129 TCCTGACCGTGGCGATCGCCTGGAATGAAT 78 47 1 GGCGATCGCC 0.499999 -120 GATGATCCTTGGCGATCGCCAGTTTGGGAA 86 110 1 GGCGATCGCC 0.499999 -137 CCATTCCTCTGGCGATCGCCAAAGCTCCAG 89 77 1 GGCGATCGCC 0.499999 -33 CTTTTATAATGGCGATCGCCCTTTAATCAC 97 157 1 GGCGATCGCC 0.499999 -26 GGGCCATTTTGGCGATCGCCCGTAGTAGGG 110 127 1 GGCGATCGCC 0.499999 -55 CCCCAACACTGGCGATCGCCGATTGATCCA 117 86 1 GGCGATCGCC 0.499999 -215 GGCTAGCAATGGCGATCGCCGTAGTTTACC 117 258 1 GGCGATCGCC 0.499999 -43 TTATATCTAGTGCGATCGCCGAAAAAGTCT 119 95 1 TGCGATCGCC 0.517932 -187 CTAGTTAGACCCCGATCGCCAGGGATATGA 121 36 0 CCCGATCGCC 0.859476 -83 ********** Masking position 6 Map Score: 73.0892 Number of sites scoring better than the average of aligned sites = 5646 Number in coding regions = 5126 Number in noncoding regions = 520 Number of orfs with sites within 600 bp upstream = 311 Fraction of orfs with sites within 600 bp upstream = 0.0499518 Motif number 2 GTTATGTTCAATTGGTCCCCATTTCCCCTA 1 78 1 ATTGGTCCCC 0.563827 -128 ATTGAAACTTCATTGCCCCCTCCGTAGTCT 3 254 1 CATTGCCCCC 0.810022 -47 ACTATCCTTTCCCTGTCCCCCGGAAATATT 10 220 1 CCCTGTCCCC 0.934087 -81 GGCCAAGATTTTTTCACCCCCTTGAACAAT 12 105 0 TTTTCACCCC 0.639876 -23 TGGGATCAACTTCTGCCCCCACCATT 14 7 0 TTCTGCCCCC 0.922895 -53 GGTCTAATCCTCCTGCCCCCTTAATTGCCT 18 60 1 TCCTGCCCCC 0.917188 -48 CCCTTAATTGCCTTGCCCCCTAATCTCAAT 18 77 1 CCTTGCCCCC 0.965213 -31 TCTGGGGGTATCGCCCCCCTGGTAACCTC 19 10 1 ATCGCCCCCC 0.760944 -76 CCCCCTGGTAACCTCTCCCCGGCCTTCCCT 19 25 1 ACCTCTCCCC 0.802432 -61 CCCCGGCCTTCCCTAACCCCAACCACCGCA 19 41 1 CCCTAACCCC 0.485477 -45 AAGGGGAAACTTGTCCCCCATGTATCCT 24 9 1 ACTTGTCCCC 0.787339 -186 TCACCACTCCCCTTGACCCC 25 133 1 CCTTGACCCC 0.831506 -10 TAAAAATTAACTATCTCCCCAACTT 26 6 0 CTATCTCCCC 0.713083 -148 GTTTTCTCTGTCCCCATCATTTTCC 27 14 0 CTCTGTCCCC 0.938707 -15 GCCCCATTGTCTCGCCCCCCCTAGCCTGAC 34 49 0 CTCGCCCCCC 0.913997 -49 GTCAGGGTCAATATGTCCCCCAAGGGCT 36 92 1 ATATGTCCCC 0.437553 -18 TTATCCGGAAATTTCCCCCCTAACTCTACG 42 146 0 ATTTCCCCCC 0.895765 -106 CAAATTAGCTAACTGTCCCCGGCAATTTTG 52 114 0 AACTGTCCCC 0.394773 -82 CCGTCATCACCCCCCAGAACGAACC 55 20 0 ATCACCCCCC 0.692766 -15 GTAGCCAAATTCTTGCCCCCAAAAAGTAAA 57 82 0 TCTTGCCCCC 0.906197 -219 ATTGATCCCATTCACCCCCCATCTAGCTAC 57 189 0 TTCACCCCCC 0.723848 -112 AAAAAGCCAATTTTGTCCCCCGGGAGTCGG 59 95 1 TTTTGTCCCC 0.823044 -149 TTTGCGCCTGTTTTGTCCCCATTGTCAGGG 72 225 1 TTTTGTCCCC 0.823044 -76 TGCGGGTGGGCTTTGCCCCCTATAATTTTC 73 280 1 CTTTGCCCCC 0.967726 -21 CGCTTTGCTGTTTGCCCCCCAAAGTTGCCC 74 61 1 TTTGCCCCCC 0.763456 -65 GATGATCGGACCTAACCCCCGTCTAGCCAT 76 49 1 CCTAACCCCC 0.514327 -197 CGCAAAGTTGACCGCTCCCCAGGACGGACT 76 83 1 ACCGCTCCCC 0.567513 -163 CAATGGCGAACTTGATCCCCGGTTTAGCAA 76 151 0 CTTGATCCCC 0.418522 -95 TTGATCCGCTCCCGCCCCCCACTGGGTTGA 77 96 0 CCCGCCCCCC 0.907698 -76 AGGAATTAAGTTCTACCCCCGTCCACGTCC 84 103 1 TTCTACCCCC 0.666235 -59 GGAACCCATTCTTTGTCCCCATTGTCGCCG 86 62 0 CTTTGTCCCC 0.930354 -185 AATTTTAGTCCTTAGCCCCCGTCTGCGAAG 88 63 0 CTTAGCCCCC 0.872813 -54 AGGGCGAAAATTTTGCCCCCATTCCTCTGG 89 59 1 TTTTGCCCCC 0.912588 -51 TGAACTGCCCCCCTGACCCCCCCAAGGCTG 95 18 1 CCCTGACCCC 0.849799 -39 TTCACCGATAAATTCCCCCCAGCCTTGGGG 95 37 0 AATTCCCCCC 0.549955 -20 GGTGAGTTACCCCTCGCCCCAGGGGAAATG 97 128 0 CCCTCGCCCC 0.589815 -55 TTACCCATCCCCCTATCCCCATGAACCTTA 98 66 0 CCCTATCCCC 0.70268 -66 TTAGTTTTATCCCCCCTCATCCCCCT 103 7 1 TTATCCCCCC 0.660139 -122 AATAACAATTATTTCCCCCCTTTCAAAGGG 103 33 0 ATTTCCCCCC 0.895765 -96 AAAAATTGGCTTCTGACCCCAGTATAATTC 108 78 0 TTCTGACCCC 0.680395 -79 CACGCACCAGCTAACTCCCCAGGATATGGG 108 109 0 CTAACTCCCC 0.362569 -48 GACATCACTGCCATCCCCCCAAGACCATTA 115 16 1 CCATCCCCCC 0.837719 -97 CCATGGAAGTCTTTGACCCCACTCCTCCCC 117 196 0 CTTTGACCCC 0.842101 -105 TCATCGGCCCCATTCACCCCATTGGTAAAC 117 281 0 CATTCACCCC 0.42051 -20 TAAATGCCCCCCTAGCCCCCCAAGTTTGGG 120 138 1 CCTAGCCCCC 0.863946 -163 ACTTTTAATACTTTCCCCCCAAACTTGGGG 120 155 0 CTTTCCCCCC 0.966321 -146 CAAAGTTGTATTTTGCCCCCTAAATCCCCC 120 196 0 TTTTGCCCCC 0.912588 -105 GTTATTGATTTTCACTCCCCACCAGGGCCT 122 46 1 TTCACTCCCC 0.538692 -106 TAAAGTTGTCATTTACCCCCTAAATTCCCC 128 76 0 ATTTACCCCC 0.599643 -38 CTTTTCCTCACTTACTCCCCGAATCA 131 7 0 CTTACTCCCC 0.745249 -294 TGCCTGGGAACCTTCTCCCCAATCTTGGTT 131 112 0 CCTTCTCCCC 0.922045 -189 ********** Masking position 7 Map Score: 50.3955 Number of sites scoring better than the average of aligned sites = 2537 Number in coding regions = 2160 Number in noncoding regions = 377 Number of orfs with sites within 600 bp upstream = 315 Fraction of orfs with sites within 600 bp upstream = 0.0505943 Motif number 3 TTGGTCCCCATTTCCCCTAGAAAGTTATCT 1 89 1 TTTCCCCTAG 0.834982 -117 ATTGCCGATTATTCCCCTGCCACTGGTAAG 4 225 1 ATTCCCCTGC 0.575961 -76 TTTTTGGGTGTTTCCCCAGGAAAAATTAGG 9 17 0 TTTCCCCAGG 0.959277 -50 CTGTTGCTCTTTTGCCCAGTCCCGATGTGC 10 167 1 TTTGCCCAGT 0.549194 -134 GCACCGTCCTTTCCCTTGGGAAGGCCAAA 20 10 1 TTTCCCTTGG 0.88455 -126 AACCAGAGGTTTTCCCCAGCTAGAATACCA 20 76 0 TTTCCCCAGC 0.935447 -60 GATTTTTCCCTGGGCAACTATGC 25 4 1 TTTTCCCTGG 0.927707 -139 GACAATGGCTTTCCCCCTGTACATTTCCAA 39 29 0 TTCCCCCTGT 0.582641 -245 GGTTGGGAATTTTTCCTAGGATGGGACTGT 45 201 0 TTTTCCTAGG 0.409184 -100 TCTGTCCGTATTTTCCCTGATAATTAAAAG 49 82 0 TTTTCCCTGA 0.499703 -49 TTGCCCGTTCTTTGCCCTGCTTCATCATCC 52 11 0 TTTGCCCTGC 0.92684 -185 AGTTAGCTAATTTGCCCTACCCATCAATCT 52 130 1 TTTGCCCTAC 0.525729 -66 AAGGGCATTCTTTCCCCTGTTTTTTCCTAG 56 76 1 TTTCCCCTGT 0.893594 -63 TTTGGCTACATTTCCCCAGCATCTAACCCA 57 103 1 TTTCCCCAGC 0.935447 -198 TTTTCGCCTTTGTCCCTTGGCGATGGGA 58 9 0 TGTCCCTTGG 0.552414 -99 AAATTGGCTTTTTGCCCAGTCGTGCTATGT 59 78 0 TTTGCCCAGT 0.549194 -166 TGCTGCTTTTTTGCCCCTGGTTCCT 63 131 1 TTGCCCCTGG 0.781946 -15 TTGCAAAATATTTTCCCAGCGATGAAAACA 66 176 1 TTTTCCCAGC 0.762792 -85 ACATCAAAAATTTTCCCTGGGTTTTCACCC 68 217 1 TTTTCCCTGG 0.927707 -84 TAATACTTAATTTTCCCTGCTGTTTTAACT 71 44 1 TTTTCCCTGC 0.887568 -25 TTCCGGCGGATTTACCCTGGAAATCCACTG 72 116 0 TTTACCCTGG 0.69694 -185 CCTGGCTGACTGTCCCTTGGCGATCGCCAT 73 102 1 TGTCCCTTGG 0.552414 -199 AGCCATTCCCCCAGGTTCAAGCCGT 74 6 1 TTCCCCCAGG 0.796575 -120 TTTTAAATACTTTCCCCTGCGCTTTGCTGT 74 42 1 TTTCCCCTGC 0.972658 -84 TGGAATGAATTTTTCCCTGGGCAAGGTATT 78 67 1 TTTTCCCTGG 0.927707 -100 AGGGGCATAATGTGCCCAGGTTGTTTACTC 87 251 1 TGTGCCCAGG 0.574708 -36 TACTCACTAATTTCCCCTGCC 87 276 1 TTTCCCCTGC 0.972658 -11 GGGCAAAATTTTCGCCCTGGTTTTTAATAA 89 47 0 TTCGCCCTGG 0.773926 -63 TAGCCGTGGTTTTCCCCTCGACAAAAGGTC 92 71 1 TTTCCCCTCG 0.695068 -60 CCCATTGCCATTTCCCCTGGGGCGAGGGGT 97 120 1 TTTCCCCTGG 0.983001 -63 AGTAAGTTTCCCCAGAATCGGGATGT 98 7 1 TTTCCCCAGA 0.647078 -125 AGTATTTTTCCCTTGGTTGACAGCAC 107 182 0 TTTCCCTTGG 0.88455 -16 CCGTTTCCCCTACCTTGACCTAT 108 4 1 TTTCCCCTAC 0.756853 -153 ACAATGAAAATTTCCCTTGCCATGGGCTAG 110 94 0 TTTCCCTTGC 0.82497 -88 TTCCCATTGCTTTGCCCTAGATTTGAGTAT 113 16 0 TTTGCCCTAG 0.643103 -46 ********** Masking position 5 Map Score: 37.8748 Number of sites scoring better than the average of aligned sites = 1685 Number in coding regions = 1487 Number in noncoding regions = 198 Number of orfs with sites within 600 bp upstream = 218 Fraction of orfs with sites within 600 bp upstream = 0.0350145 Motif number 4 CCAAATTCAGGGCAGAAACGGGGGTTTGTTAT 1 51 1 GGAGAACGGG 0.701717 -155 TGTTTCCCCAGGAAAAATTAGGGGGAAA 9 7 0 GGAAAATAGG 0.808352 -60 CGGCAGGGTCGGGCTGACCAATT 12 2 1 GGAGGGCGGG 0.904776 -126 GTTGGGGTTAGGGAAGGCCGGGGAGAGGTTAC 19 32 0 GGAAGGCGGG 0.953488 -54 TGTCAGGATTGGGAGGGCCTGGATTACCCCGT 24 162 1 GGAGGGCTGG 0.875546 -33 AGCTTAGAAAGGGAGGAGAAGGGGCTCCGTAT 25 80 0 GGAGGAAAGG 0.37033 -63 AAAATTGTCAGGAAAAGACTGGCATTGACGCA 31 104 1 GGAAAGCTGG 0.89157 -95 ACTAAGTCCCGGAAATAGCGGGTTTGAGCCTG 33 47 0 GGAATACGGG 0.540024 -138 TTTGGTCAGAGGTCAGGCTAGGGGGGGCGAGA 34 38 1 GGCAGGTAGG 0.863012 -60 GGGGTCAACGGGTAGGGGTTGGGAATTATGGG 39 62 1 GGAGGGTTGG 0.895768 -212 AAAATAAGCGGGTAGGAGTAGGTCTAATCCTT 45 118 1 GGAGGATAGG 0.783021 -183 TCTAATCCTTGGCAAGGTTGGGATTTGAGCCA 45 140 1 GGAAGGTGGG 0.961601 -161 AAATCGACCAGGACAGGGTTGGGAATTTTTCC 45 215 0 GGCAGGTTGG 0.872723 -86 CTATTTTTTAGGGATGGATTGGGACGACATGG 56 36 0 GGATGGTTGG 0.489715 -103 GCGACGTCTAGGAAAAAACAGGGGAAAGAATG 56 81 0 GGAAAACAGG 0.775421 -58 GACTCCCGGGGGACAAAATTGGCTTTTTGCCC 59 91 0 GGCAAATTGG 0.629318 -153 GGCAATGGTGGGGCCACAACAC 62 74 0 GGAATGTGGG 0.758335 -12 CTGACAATGGGGACAAAACAGGCGCAAAAGGG 72 221 0 GGCAAACAGG 0.5608 -80 GTAACAAAAAGGAAAGGCTAGGGGTTTTGGAG 73 202 0 GGAAGGTAGG 0.944554 -99 GTTAGTTAGGGGTAAGGCTGGGGCAGTTTGAT 82 91 0 GGAAGGTGGG 0.961601 -27 GGAAAAGGAAGGGGAATTGCAT 84 1 1 GGAAAGAAGG 0.600645 -161 GGGGAAAAGATTGGTGAAATTGAG 87 3 1 GGAAAGTTGG 0.909459 -284 AATTGGGAAAAAACTGGAGCTTTGGCG 89 93 0 GGAAAACTGG 0.789831 -17 AACGGTAATAGGTCAAGGTAGGGGAAACGG 108 9 0 GGCAAGTAGG 0.773389 -148 CCAGGATATGGGTAAAAATTGGCTTCTGACCC 108 89 0 GGAAAATTGG 0.821136 -68 GTAGGGTAATGGAAAAGATAGGATTTCACCTC 110 151 1 GGAAAGTAGG 0.902236 -31 GCAAAGCAATGGGAATAATGGGCTGGAAATTA 113 31 1 GGAATATGGG 0.589185 -31 GTGTGAATGTGGTCAGGGTTGGTGGGCCTGGA 117 19 0 GGCAGGTTGG 0.872723 -282 CAACCCAAGGGGGAGGAGTGGGGTCAAAGACT 117 187 1 GGAGGATGGG 0.841393 -114 TTCTGGCATGGGTAAGGGATGGAAAAATTCGG 117 228 1 GGAAGGATGG 0.751357 -73 ACCAGTTTCAGGGAAAGCCGGGTAAAAATCTG 118 37 1 GGAAAGCGGG 0.917392 -160 GAGTAATGGAGGAAAAACTAGGGCAGTGAGGA 121 96 1 GGAAAATAGG 0.808352 -23 TTTCCTCGGCGGCAAGAATTGGTAATCGACTC 125 67 0 GGAAGATTGG 0.894452 -129 ** **** **** Masking position 2 Map Score: 34.5411 Number of sites scoring better than the average of aligned sites = 866 Number in coding regions = 768 Number in noncoding regions = 98 Number of orfs with sites within 600 bp upstream = 116 Fraction of orfs with sites within 600 bp upstream = 0.0186315 Motif number 5 AAATTCAGGGCAGAAACGGGGGTTTGTTATGTTCAAT 1 53 1 CAGGGGTTGT 0.928407 -153 AACCTCTACCAAATTTTGGGAGCTAGGGGACTTT 2 8 0 AAGGGATAGG 0.608381 -131 ATAGGGCGATCACCTTAGGGGAACTGGGGTCTAACCT 2 40 0 CAGGGGCTGG 0.927427 -99 TTTACCCCATCAGGGCTAGGGGCTAGGATGATAGGGC 2 70 0 CAAGGGTAGG 0.407554 -69 GCCCCCTCCGTAGTCTTGGGAAATTGGTGCTAGGAGT 3 268 1 TAGGGATTGG 0.460897 -33 TTTTAAATCGCAGTCTGGGGCGGTTTGTTACTGGGAA 7 63 0 CAGGGCTTTG 0.691798 -64 GCAAAAGAGCAACAGATGGGGGCTTGCTGACATCATT 10 145 0 AAGGGGTTGC 0.86598 -156 CCCTATGTTCAATGGTCGGGGAACTGGTCCAAATTGG 11 200 0 AAGGGGCTGG 0.862047 -101 TGAACGTCCGCAAGCTCGGGGCATAGGAGATTACCC 17 10 0 CAGGGGTAGG 0.946191 -206 GGGACTAATGCAGGTAGAGGGCGTTGGCAAGGGTACT 24 51 0 CAAGGGTTGG 0.715028 -144 AATTGTGAGAAACTTTCGGGATTTTTCGGTTGTCGCC 26 91 0 AAGGGATTTC 0.34466 -63 CCATTACTAGGACAAACGGGGGTTTTTCTCCTAAACT 38 17 0 GAGGGGTTTT 0.400011 -31 TAATCCCTCAAACTTTGGGGGATTTTGATTAATCTGT 39 185 0 AAGGGGTTTG 0.933898 -89 GAAAAACAATTATTTCTGGGGCATTGGCTTCCTTATG 41 44 1 TAGGGGTTGG 0.825538 -178 TCGACCAGGACAGGGTTGGGAATTTTTCCTAGGATGG 45 207 0 CAGGGATTTT 0.5135 -94 CCATCTATGGCAGTATAGGGGCGTAGTTCTTTGTCCT 47 29 0 CAGGGGTAGT 0.780479 -191 GGAACAGAAGAAGAAGCGGGGAGCTTGTCGAGGGAAA 47 93 0 AAGGGGCTTG 0.737881 -127 ATCTAACCTTCATAAACGGGGATTTGCTTTCCTTGCC 60 27 1 CAGGGGTTGC 0.929648 -67 GCCACAATCCCATCAGCGGGGGATTTTCC 64 51 1 CAGGGGTTTT 0.853843 -19 CTGTCTTGTCAGGATCCGGGGAATTGGACAGGATGAA 68 175 1 AGGGGGTTGG 0.620065 -126 ACAAAAAGGAAAGGCTAGGGGTTTTGGAGGTTAGAGG 73 194 0 AAGGGGTTGG 0.969099 -107 AATTAACTTCCATCGCCGGGGATTAGTGGAGCACGAT 78 104 0 CAGGGGTAGT 0.780479 -63 GCCTATGGTTCATCATCGGGGTGTATGGCAAGTGAAG 79 24 0 CAGGGGTATG 0.887912 -59 AGTTTCAGGTCACAGGAGGGACACTTGT 82 2 0 CAGGGACTTG 0.509839 -116 AGTTAGGGGTAAGGCTGGGGCAGTTTGATCAACTCCA 82 83 0 AAGGGCTTTG 0.52326 -35 GGAAAAGGAAGGGGAATTGCATCAAGATTG 84 4 1 AAGGGGTTGC 0.86598 -158 AATGGTATTAAATGCAAGGGAATTTGCGTTGCTGACA 86 15 0 AAGGGATTGC 0.538627 -232 CAAGCGACCGCAATACTGGAGTTTTGGGAAAACAGAC 87 104 0 CAGGAGTTGG 0.720703 -183 TTCCTCTGTGCAACCAGGGGGACTTTTCAATTTTAGT 88 84 0 CAGGGGTTTT 0.853843 -33 AATTGGGAAAAAACTGGAGCTTTGGCGATCGCCAG 89 85 0 AAGGAGTTGG 0.55787 -25 GCTAAGTTCCAAGGTGAGGGGTTTATGGGTTAGTTAA 91 212 0 AAGGGGTATG 0.794808 -36 TAAGTTTCCCCAGAATCGGGATGTTTGAATGTGGCCA 98 13 1 CAGGGATTTG 0.839235 -119 CAGGGCAGCATCGGTGTGTTGGGAAGCAGAGG 102 77 0 CAGGTGTTGG 0.59405 -22 GGATACTGTTCATGCCAGGGGTTTTTGTTGTCCCCAA 117 149 0 CAGGGGTTTG 0.966547 -152 AAAAATCTGCCAGTGTTGGGATATTGGATATTGAGGG 118 60 1 CAGGGATTGG 0.920558 -137 CTTTCCCCCCAAACTTGGGGGGCTAGGGGGGCATTTA 120 138 0 AAGGGGTAGG 0.895815 -163 TAAATCCCCCAATACTGGGGGACTTTTAATACTTTCC 120 169 0 AAGGGGTTTT 0.740705 -132 ATGAACTTTGGACTGTCGGGGTTTTTGCT 121 3 0 GAGGGGTTTG 0.767298 -116 ** **** **** Masking position 9 Map Score: 33.527 Number of sites scoring better than the average of aligned sites = 1146 Number in coding regions = 976 Number in noncoding regions = 170 Number of orfs with sites within 600 bp upstream = 148 Fraction of orfs with sites within 600 bp upstream = 0.0237713 Motif number 6 AATTGAAACTTCATTGCCCCCTCCGTAGTCT 3 253 1 TCTTGCCCCC 0.748099 -48 GCCGATTATTCCCCTGCCACTGGTAAGAGTT 4 228 1 CCCTGCCACT 0.955896 -73 ATATCACCTCTGCCTTTCACCCTCTCT 5 7 1 CCCTGCCTTT 0.699893 -162 GGTGAAAAAATCTTGGCCACC 12 117 1 TCTGGCCACC 0.847573 -11 CCCCTTAATTGCCTTGCCCCCTAATCTCAAT 18 76 1 GCTTGCCCCC 0.762894 -32 GGTAACCTCTCCCCGGCCTTCCCTAACCCCA 19 31 1 CCCGGCCTTC 0.629893 -55 GGGCCGATCGCCACGGCCACTGATGCCCTTG 22 32 0 CCCGGCCACT 0.955004 -81 GAGCCGCTGGGCCTTGCCACTGTCAGGATTG 24 142 1 GCTTGCCACT 0.891951 -53 GATTGACAACACCTGGCCAGTTAGTCTGGGG 31 150 1 ACTGGCCAGT 0.394177 -49 AGAAAAATTGCCATTGCCTCCGGGAAG 34 81 1 CCTTGCCTCC 0.902027 -17 TTTGGCTTATCCACGGCCATTGTCATGGCAG 35 80 0 CCCGGCCATT 0.874827 -36 CGAGAGTTACCCTTGGCCACCAAACCTTGGC 45 27 0 CCTGGCCACC 0.965024 -274 GTCTCGGGTTCCATTGCCCGTTCTTTGCCCT 52 23 0 CCTTGCCCGT 0.766743 -173 TACCCCGACACCGTTGCCGCTGTAAAGGCGA 56 109 0 CCTTGCCGCT 0.791732 -30 TTAAGAACCCCCCTGGCCTCCAAATTTGGTG 68 33 0 CCTGGCCTCC 0.90016 -268 TTGCGGGTGGGCTTTGCCCCCTATAATTTTC 73 279 1 GCTTGCCCCC 0.762894 -22 ATTTTGGTGTGCATTGCCCCTTGGTTTTGTC 75 262 1 GCTTGCCCCT 0.811944 -39 ATCCCTGGCTCCGTGGCCATCAAGCAT 85 13 1 CCTGGCCATC 0.900847 -17 CTGAAAAAAGCCATTGCCACTCAATTTCACC 87 23 0 CCTTGCCACT 0.974232 -264 TAATGCTATGCCTTTGCCTCTCTGGGGTTTA 91 178 0 CCTTGCCTCT 0.92512 -70 TAGTGGTTAAACTTTGCCATTCTTTAGGATC 94 37 1 ACTTGCCATT 0.568248 -85 GAGCATAAACCCATTGCCATTTCCCCTGGGG 97 111 1 CCTTGCCATT 0.925649 -72 TAACATTTTCCCTTTGCCACTTTGCTATCCT 102 49 1 CCTTGCCACT 0.974232 -50 AAGTCAGATTTCCCGGCCACTACAAAAAAAT 104 71 0 TCCGGCCACT 0.810513 -56 AAAGAAGCATCCATGGCCAGTGTAAGTCAGA 104 94 0 CCTGGCCAGT 0.86023 -33 TGACCTATTACCGTTGCCCCTCAACATACCA 108 26 1 CCTTGCCCCT 0.951863 -131 CGGTGTGTTGTCTTTGCCATTGATGTCAGGT 110 26 1 TCTTGCCATT 0.71502 -156 TTTTCATTGTCCAGGGCCATTTTGGCGATCG 110 114 1 CCGGGCCATT 0.503841 -68 CAAACCGTCACCGTGGCCTCTACCATGGGAG 111 17 0 CCTGGCCTCT 0.923655 -106 TTTCTGACATCACTGCCATCCCCCCAAGAC 115 10 1 TCCTGCCATC 0.517341 -103 AGCTTGTCTGACCTTGCCACTCGTGATGGAA 119 49 1 ACTTGCCACT 0.799878 -233 ACATAACCTCTCCCTGCCATTGGGGGTATGC 125 107 1 TCCTGCCATT 0.589881 -89 ** ******** Masking position 6 Map Score: 29.0076 Number of sites scoring better than the average of aligned sites = 1798 Number in coding regions = 1666 Number in noncoding regions = 132 Number of orfs with sites within 600 bp upstream = 143 Fraction of orfs with sites within 600 bp upstream = 0.0229682 Motif number 7 CCTTAATCTTTGCCAATATTTTTCGGCATAT 9 46 0 TTTGCAATTT 0.901877 -21 TTGGTAAATTTTTGTCTAGATTTTTGGTTCGCT 22 85 1 TTTGCAATTT 0.901877 -28 TCCTTCTGGATTTGTCCATTTTTTTCAGTCAGG 36 65 1 TTTGCATTTT 0.910543 -45 CTTCGGTTACTTTGGCAAAATTGCCGGGGACAG 52 99 1 TTTGCAATTG 0.723198 -97 TGCCCTTTGTTTGGGCTATTTTTTAGGGATGGA 56 50 0 TTGGCATTTT 0.840879 -89 GTAGCACTGTTTTGTCAAATTTTGTACAAAATC 57 40 1 TTTGCATTTT 0.910543 -261 GGGGCAAGAATTTGGCTACATTTCCCCAGCATC 57 93 1 TTTGCAATTT 0.901877 -208 CGTAAGGATTTTTAACAAATTTTCACAGTTATC 59 144 0 TTTACATTTT 0.762682 -100 TTGATTGTTTTTTATCTAGATTGTGTCTACATA 66 69 0 TTTACAATTG 0.452032 -192 CGATCGCCATTTTGACTAAATTTGGGCTTTGAT 73 122 1 TTTGCAATTT 0.901877 -179 GCCCCTTGGTTTTGTCAAATTTTTCGATGGTGT 75 277 1 TTTGCATTTT 0.910543 -24 AAGTTCGCCATTGGGCAATTTTGATATTAGAAT 76 168 1 TTGGCATTTG 0.600346 -78 CCCAGATTAATTGAGCTAGATTTAAGCATTGGC 90 134 1 TTGACAATTT 0.601068 -40 ATATGGAGCTTTTAACTAAGTTTTTAATGTCGG 91 22 0 TTTACAGTTT 0.526918 -226 TCAAAGCTTATTTGCCAAGTTTTAATTGTGCTT 91 105 1 TTTGCATTTT 0.910543 -143 ACCATGCAATTTTATCTACTTTTTGTAAGAAAG 101 265 1 TTTACATTTT 0.762682 -36 AAATTTAAGCTTGGCCGATTTTTAGTGAGGAAA 103 97 1 TTGGCATTTT 0.840879 -32 CTGGGCTGTGTTGGTCGAAATTTACCGAGTCTA 109 86 0 TTGGCAATTT 0.826749 -26 AGTATTTCCATTTGCCCATGTTTTGGATGAGTT 114 16 1 TTTGCAGTTT 0.779132 -285 ATCAGCGATATTTAGCGATATTTTGGGAGATTT 127 85 0 TTTACAATTT 0.743724 -24 CCATGTTCTCTTTAACTATTTTTGAGCAAAAAA 129 53 0 TTTACATTTT 0.762682 -27 **** * * **** Masking position 11 Map Score: 15.777 Number of sites scoring better than the average of aligned sites = 343 Number in coding regions = 267 Number in noncoding regions = 76 Number of orfs with sites within 600 bp upstream = 77 Fraction of orfs with sites within 600 bp upstream = 0.0123675 Motif number 8 AGCGATTAACTCTGGCCTATGGTTTGTTCATA 4 104 1 TCGCCTATGG 0.619114 -197 CCGATTATTCCCCTGCCACTGGTAAGAGTTAA 4 229 1 CCGCCACTGG 0.862485 -72 AGCAAGTCAACTAGGCCAATGGTTTGATTTCC 7 35 1 CTGCCAATGG 0.813188 -92 TTTGGGGACGCCACGACAATGGTCAC 21 5 0 CCGACAATGG 0.978639 -91 CTGGGCAGTTTCCGGCCAATGGCGATCGCCAA 24 87 1 TCGCCAATGG 0.949992 -108 GCCCTCCCAATCCTGACAGTGGCAAGGCCCAG 24 148 0 TCGACAGTGG 0.762995 -47 GCTAGGGGGGGCGAGACAATGGGGCAAAGAAA 34 54 1 GCGACAATGG 0.805538 -44 CCGATTGCTGCCATGACAATGGCCGTGGATAA 35 73 1 CCGACAATGG 0.978462 -43 CCGTTGACCCCCAGGACAATGGCTTTCCCCCT 39 41 0 CCGACAATGG 0.97866 -233 AGGTTGGGATTTGAGCCAATGGCATTCGCAGC 45 154 1 TTGCCAATGG 0.596546 -147 CACTGTCAACCCTAGACAATGAATTTTTTCTA 46 73 1 CCGACAATGA 0.772079 -83 TGCTAAGCCTCCCTGACAATGGGGACAAAACA 72 233 0 CCGACAATGG 0.978662 -68 CTGGTCGAAATCTGGCCCATGGGAACAGGTTA 77 47 0 TCGCCCATGG 0.913094 -125 GAACATTTTATCCTGACCGTGGCGATCGCCTG 78 37 1 TCGACCGTGG 0.640339 -130 CTCATCAATACCTTGCCCAGGGAAAAATTCAT 78 71 0 CCGCCCAGGG 0.756408 -96 ACTGGCGGTGCGGCGACAATGGGGACAAAGAA 86 52 1 CGGACAATGG 0.750234 -195 GGCAATCGATCCTAGCCCATGGCAAGGGAAAT 110 83 1 CCGCCCATGG 0.968655 -99 CCAAAATGGCCCTGGACAATGAAAATTTCCCT 110 107 0 CCGACAATGA 0.772079 -75 GTCACCGTGGCCTCTACCATGGGAGGGTTTT 111 10 0 CCTACCATGG 0.502389 -113 CATAACCTCTCCCTGCCATTGGGGGTATGCCC 125 108 1 CCGCCATTGG 0.808865 -88 GTTCTTGTCATCTCGACAAAGGTCACACAACT 130 132 1 TCGACAAAGG 0.514101 -75 ** ******** Masking position 7 Map Score: 15.5827 Number of sites scoring better than the average of aligned sites = 789 Number in coding regions = 711 Number in noncoding regions = 78 Number of orfs with sites within 600 bp upstream = 97 Fraction of orfs with sites within 600 bp upstream = 0.0155798 Motif number 9 AAAAATGCGCTACGCAAAGGCGAAAGATACAA 10 72 1 TACGCAGGCG 0.82236 -229 GGTTGTCGCCTGAGCAATTGCGCTGATTTGTC 26 69 0 TGAGCATGCG 0.793306 -85 TTGCCTTTGACCTAAGGCGATCGCCTTAC 31 180 0 TGACCAGGCG 0.966982 -19 CCCCAGCAATTGACCGGAGGCGTT 42 3 0 TGACCGGGCG 0.925276 -249 ATTAACTATGTGATGGATGGCGGTGCGCAATG 59 22 1 TGATGAGGCG 0.863912 -222 GTCTGAAAACTGAGCCATTGCGCACCGCCATC 59 37 0 TGAGCATGCG 0.793306 -207 ATATCAAAATTGCCCAATGGCGAACTTGATCC 76 163 0 TGCCCAGGCG 0.942072 -83 GAACAGGTTATAATCCAAGGCGTTTTCCTTCA 77 25 0 TAATCAGGCG 0.899128 -147 TTCCTGGCTTTGCTCCAGGGCGGCAGTTTCAG 82 31 0 TGCTCAGGCG 0.958039 -87 AGGAAGGTGATGATCCTTGGCGATCGCCAGTT 86 102 1 TGATCTGGCG 0.814031 -145 TCTGTCGGAATGATCGGTGGCGGAGACAACCA 86 145 1 TGATCGGGCG 0.945626 -102 GGTGGTTAACTGAACCACGGCGACCCCATGGC 110 54 1 TGAACAGGCG 0.928562 -128 TGTTGGGGGATGATCGACGGCGCAAATGGCAG 117 62 0 TGATCAGGCG 0.976265 -239 ACCCCATTGGTAAACTACGGCGATCGCCATTG 117 264 0 TAAACAGGCG 0.737997 -37 GACTACCGCCTAATCAATGGCGAAGTTTACAA 124 45 0 TAATCAGGCG 0.899128 -31 TCTAAAAGATTGCGGGGCGGCGCCGAGCTAAA 130 178 0 TGCGGGGGCG 0.582287 -29 ***** * **** Masking position 1 Map Score: 11.7681 Number of sites scoring better than the average of aligned sites = 288 Number in coding regions = 265 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 10 GGGGAAAACCTCTGGTTTTTGGTTACTTTG 20 89 1 TCTGGTTTTT 0.593808 -47 TAAAGGCTAACCTGGTTTTGTCCCACGGCA 33 86 0 CCTGGTTTTG 0.790422 -99 CCGGTCAATTGCTGGGGTTGCTGTTGCTAC 42 18 1 GCTGGGGTTG 0.83505 -234 GGTCAACAGGCCTGGGGTTTAACGGTAAAA 46 106 1 CCTGGGGTTT 0.959953 -50 TAGCTGTGTTCCTGGGGTTTATTTTCTCGG 48 54 0 CCTGGGGTTT 0.959953 -143 TATTACCTGGCCTGGGTTTTGATTATTTGT 68 107 0 CCTGGGTTTT 0.943505 -194 AAAAATTTTCCCTGGGTTTTCACCCTGATT 68 222 1 CCTGGGTTTT 0.943505 -79 GTGCATTGCCCCTTGGTTTTGTCAAATTTT 75 270 1 CCTTGGTTTT 0.70481 -31 TTCCTTCATCTCTGGTTTTGTC 77 3 0 TCTGGTTTTG 0.428852 -169 AAATTTTCGCCCTGGTTTTTAATAATCACC 89 42 0 CCTGGTTTTT 0.880138 -68 CCTTTGCCTCTCTGGGGTTTACCTGGTAAT 91 169 0 TCTGGGGTTT 0.826757 -79 TACCTTGAAAGCTTGTGTTTCTCTGCTCCA 93 11 1 GCTTGTGTTT 0.382551 -52 TTTAAATAATGCTGGTTTTTCAAGTATAAA 101 15 0 GCTGGTTTTT 0.751201 -286 AATTATCGTTCCTGGGTTATCCGGCTAGGC 111 53 1 CCTGGGTTAT 0.572901 -70 ACTGTTCATGCCAGGGGTTTTTGTTGTCCC 117 152 0 CCAGGGGTTT 0.658152 -149 CACTCCTCCCCCTTGGGTTGAGGATACTGT 117 177 0 CCTTGGGTTG 0.637705 -124 CATATTTCGAGCTGGTGTTTAAGGTTGAAA 131 250 1 GCTGGTGTTT 0.81251 -51 ********** Masking position 8 Map Score: 9.02438 Number of sites scoring better than the average of aligned sites = 730 Number in coding regions = 649 Number in noncoding regions = 81 Number of orfs with sites within 600 bp upstream = 97 Fraction of orfs with sites within 600 bp upstream = 0.0155798 Motif number 11 TGCCACAGAAAAATACCGCCCTTTTTAGAAA 3 52 0 AAATACCCCC 0.810876 -249 AGGAATCCGCAACTCCCTCCCTAACTCTCTT 3 167 1 AACTCCCCCC 0.974029 -134 CCATTGGCTCAAATCCCAACCTTGCCAAGGA 45 145 0 AAATCCCACC 0.619933 -156 AAAATTTTCCAACACCTTCCCAATTAATTTT 54 40 0 AACACCTCCC 0.634009 -41 AGCAAGGCCCGCCCTACAACAATT 64 4 1 AAGGCCCCCC 0.881205 -66 GGAAAATCCCCCGCTGATGGGATT 64 56 0 AAATCCCCGC 0.707389 -14 AGCCTATTTTAAGAACCCCCCTGGCCTCCAA 68 41 0 AAGAACCCCC 0.460471 -260 CCGCCCAATAAACTCCTCCCCACCAGCCAAC 72 34 0 AACTCCTCCC 0.789116 -267 TTGTTTGACGGACACCCACCCAAGTAACAAA 73 226 0 GACACCCCCC 0.687678 -75 TATAGGGGGCAAAGCCCACCCGCAAAGATGG 73 273 0 AAAGCCCCCC 0.94521 -28 TGTGACCTGAAACTGCCGCCCTGGAGCAAAG 82 25 1 AACTGCCCCC 0.921511 -93 TCGTTTTTGAACTGCCCCCCTGACCCCCCC 95 10 1 AACTGCCCCC 0.921511 -47 TTCACCGATAAATTCCCCCCAGCCTTGGGG 95 37 0 AAATTCCCCC 0.708579 -20 CCGATCTGAAAAAGCCCACCCAC 106 56 1 AAAGCCCCCC 0.94521 -13 AAAACCCTCCCATGGTAGAGG 111 1 1 AAAACCCCCC 0.93458 -122 AGTCTGTTTTAAATGCCCCCCTAGCCCCCCA 120 129 1 AAATGCCCCC 0.906195 -172 ******* *** Masking position 2 Map Score: 8.36249 Number of sites scoring better than the average of aligned sites = 250 Number in coding regions = 213 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 12 CCGGGCTTCCCAAAGGCCAAACTTGCTGGGTA 3 112 0 CAAGCCAAAC 0.866773 -189 GAGGTGTCAACCAAGACCAATCGGCCTTGTTT 4 140 0 CCAGCCAATC 0.899221 -161 TGGGCCTAATCCAGGCTCAAACCCGCTATTTC 33 36 1 CCAGTCAAAC 0.939899 -149 GCAGAAATGGCAAGACCCAAACTCCATCTATG 47 57 0 CAAACCAAAC 0.541181 -163 CGAAAACCAACAAAGATCAATCATTCATCGGT 49 45 1 CAAGTCAATC 0.590391 -86 AGACTTGCTCCAAGACTAATCAAGATCCATT 50 35 0 CCAGCTAATC 0.617978 -21 TGGAGATATGCCATGGCCAAACTGCCAA 56 7 0 CCAGCCAAAC 0.961681 -132 TATTGAGTTGCCAAAATCAAGCAATAGTAAAA 66 124 0 CCAATCAAGC 0.521108 -137 AGCCATTCCCCCAGGTTCAAGCCGTAAATATT 74 11 1 CCAGTCAAGC 0.857185 -115 AAAAGCGAAACCAAGCCCAAACAGTATTACTT 86 188 0 CCAGCCAAAC 0.961681 -59 GAGGGGAAAACCACGGCTAAACTTAAAGATCC 92 58 0 CCAGCTAAAC 0.819818 -73 ATGGCCGTCACCATGATTAAACCAACGGGAGC 97 64 1 CCAGTTAAAC 0.739259 -119 CGGGTCTTGGCCACATTCAAACATCCCGATTC 98 25 0 CCAATCAAAC 0.739259 -107 TGTTAAGAGTCAATGATCAAACTCTGGGTTTA 109 43 1 CAAGTCAAAC 0.80214 -69 *** * ****** Masking position 9 Map Score: 7.10089 Number of sites scoring better than the average of aligned sites = 414 Number in coding regions = 374 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 13 CACTGGGCGTTACCCAGCAAGTTTGGCCTTTGGGAA 3 102 1 TCCCATTTGG 0.825777 -199 AAGTTACCAGCACCGAAAGGATTTGGGCGTCCTAGA 6 183 1 CCCGATTTGG 0.971735 -118 GACATCATTACCCCGTTCCTTTTTGGCAACGGTCAT 10 118 0 CCCGTTTTGG 0.885094 -183 CAATTCCATTCTCCCATATTTTTTGGGGCTAGGATT 10 263 0 CCCCATTTGG 0.981901 -38 CTTTGGAGATCGCCCACGGCATTAGGGGAACC 20 114 1 CCCCATTAGG 0.852361 -22 ACTACACCGAAAACTTTTGGCTTATCCACG 35 96 0 CCCGATTTGG 0.971735 -20 GTTTTTCTTAATCCCTCAAACTTTGGGGGATTTTGA 39 194 0 ACCCTTTTGG 0.728504 -80 TTTAGGTAATCCCCCAAACCATTTGGTCAGGACAGA 40 42 1 CCCCATTTGG 0.981901 -26 ACAAGGCTTACACCGACTCAGTTTGGCAAGAATTAT 42 213 1 CCCGATTTGG 0.971735 -39 TGCGGATAACCACCGAAAAGCTCTGGATGTATTATG 57 225 0 CCCGATCTGG 0.844295 -76 AAGAAGGTGGCTCCCACTCTCTTTGGATTAATCCTA 75 51 1 CCCCATTTGG 0.981901 -250 ATGCCCCCCTAGCCCCCCAAGTTTGGGGGGAAAGTA 120 141 1 ACCCCTTTGG 0.692812 -160 GACCTATTCTAACCCAGTTTCTTTGGGCAGTCTTGA 130 42 1 ACCCATTTGG 0.922935 -165 * **** ***** Masking position 12 Map Score: 12.3777 Number of sites scoring better than the average of aligned sites = 83 Number in coding regions = 67 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 14 GGTTCTTTTTGAAAATTTGGCTGCACTATC 48 12 0 GAAAATTTGG 0.815429 -185 TTATCTGAAAATTTTACCAAGGCTGT 49 115 0 GAAAATTTTA 0.829715 -16 TGGAAATTTTGAGAATTTTAT 54 2 1 GGAAATTTTG 0.659202 -79 GAAGGTGTTGGAAAATTTTGTCGGCAATAT 54 52 1 GAAAATTTTG 0.866729 -29 CAAAATCAACGAAAATTTTACTTTTTGGGG 57 66 1 GAAAATTTTA 0.829715 -235 CGATAACTGTGAAAATTTGTTAAAAATCCT 59 143 1 GAAAATTTGT 0.633339 -101 GGGGAAATTTTATCTAGCTTTC 68 3 1 GGAAATTTTA 0.590406 -298 AAAACCCAGGGAAAATTTTTGATGTTGCCT 68 212 0 GAAAATTTTT 0.72031 -89 AAACTGGTCTGAAAATTTGGTAGCCTAGCA 75 217 1 GAAAATTTGG 0.815429 -84 AAACCAGGGCGAAAATTTTGCCCCCATTCC 89 54 1 GAAAATTTTG 0.866729 -56 TAATTATGGTGAAAATTTTATTCTTTTCAC 100 11 1 GAAAATTTTA 0.829715 -45 GCAGATTGGGGAAAATTTTTAATA 105 26 1 GAAAATTTTT 0.72031 -14 CAAGGAAAGTGAAAATTTTAACCTAGCATT 111 84 1 GAAAATTTTA 0.829715 -39 GTTTAAGGTTGAAAATTTGATTGAACGGAC 131 266 1 GAAAATTTGA 0.767032 -35 ********** Masking position 5 Map Score: 8.56269 Number of sites scoring better than the average of aligned sites = 186 Number in coding regions = 144 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 15 TATGATGGAATTCCCCCATATCGTAGTGGA 36 32 0 TTCCCCCATA 0.888264 -78 GGTCAATATGTCCCCCAAGGGCT 36 97 1 TCCCCCAAGG 0.915626 -13 TTAATCAAAATCCCCCAAAGTTTGAGGGAT 39 190 1 TCCCCCAAAG 0.785725 -84 CAAAGAAAGTTTCCCCCATAAGGAAGCCAA 41 67 0 TTCCCCCATA 0.888264 -155 GATAAAGTAATCCCCCCATGGACGTAGAGT 42 124 1 TCCCCCCATG 0.939746 -128 ACCCAAACAATTCCCCAAGAAGTTTAAAAC 47 145 0 TTCCCCAAGA 0.846893 -75 AAGTGTCGATTTCCCCATTGATTGTAGTTC 52 70 1 TTCCCCATTG 0.601872 -126 TTCCCCAATAACTAGCCCCA 72 291 0 TTCCCCAATA 0.892957 -10 AGCCATTCCCCCAGGTTCAAGCCGT 74 6 1 TTCCCCCAGG 0.824778 -120 CCCGTCCACGTCCCCCATTACTAAATTCGA 84 120 1 TCCCCCATTA 0.788112 -42 ACCGATAAATTCCCCCCAGCCTTGGGGGGG 95 34 0 TCCCCCCAGC 0.785353 -23 CTTCCCCCAATGCCGTGTTCTA 102 3 1 TCCCCCAATG 0.942416 -96 TTAGTTTTATCCCCCCTCATCCCCCTTTG 103 10 1 TCCCCCCTCA 0.641497 -119 ATTAAAAATTTTCCCCAATCTGCGGAGCAA 105 19 0 TTCCCCAATC 0.724934 -21 CCGTCGATCATCCCCCAACACTGGCGATCG 117 74 1 TCCCCCAACA 0.902461 -227 TCTAGCTCGTTCCCTCAATATCCAATATCC 118 78 0 TCCCTCAATA 0.447203 -119 TTTAATACTTTCCCCCCAAACTTGGGGGGC 120 152 0 TCCCCCCAAA 0.79647 -149 GCCCCCTAAATCCCCCAATACTGGGGGACT 120 182 0 TCCCCCAATA 0.948261 -119 ACCCCCTAAATTCCCCAACATTTGGTGATT 128 62 0 TTCCCCAACA 0.808108 -52 ********** Masking position 1 Map Score: 13.5183 Number of sites scoring better than the average of aligned sites = 765 Number in coding regions = 607 Number in noncoding regions = 158 Number of orfs with sites within 600 bp upstream = 141 Fraction of orfs with sites within 600 bp upstream = 0.022647