AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/genomes/ORF_ecoli.txt -z/home/amcguire/genomes/ecoli.fna -icrp_ecoli_opreg_300.orf -g0.5 -x5 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 = 0.5 maxlen = 30 weight = 0.8 exclude = 0 Input sequences: #1 araD 284 L-ribulose-5-phosphate 4-epimerase #2 araB 300 L-ribulokinase #3 lacA 65 thiogalactoside acetyltransferase #4 lacY 51 galactoside permease (M protein) #5 lacZ 122 beta-D-galactosidase #6 lacI 76 transcriptional repressor of the lac operon #7 mhpR 76 transcriptional regulator for mhp operon #8 tsx 298 nucleoside channel; receptor of phage T6 and colicin K #9 yajI 90 orf, hypothetical protein #10 nagD 47 N-acetylglucosamine metabolism #11 nagA 59 N-acetylglucosamine-6-phosphate deacetylase #12 nagB 300 glucosamine-6-phosphate deaminase #13 fur 288 negative regulator #14 fldA 139 flavodoxin 1 #15 ybfE 70 orf, hypothetical protein #16 ybfF 184 orf, hypothetical protein #17 galE 260 UDP-galactose-4-epimerase #18 modF 67 ATP-binding component of molybdate transport system #19 modE 128 molybdate uptake regulatory protein #20 ompA 300 outer membrane protein 3a (II*;G;d) #21 dadA 300 D-amino acid dehydrogenase subunit #22 yohJ 238 orf, hypothetical protein #23 cdd 129 cytidine/deoxycytidine deaminase #24 glpT_glpA 272 glpT: sn-glycerol-3-phosphate permease, glpA: sn-glycerol-3-phosphate dehydrogenase (anaerobic), large subunit #25 ptsH 300 PTS system protein HPr #26 srlA 255 PTS system, glucitol/sorbitol-specific IIC component, one of two #27 gutM 104 glucitol operon activator #28 srlR 66 regulator for gut (srl), glucitol operon #29 gutQ 31 orf, hypothetical protein #30 ansB 175 periplasmic L-asparaginase II #31 yggN 182 orf, hypothetical protein #32 yggH_mutY 160 yggH: orf, hypothetical protein, mutY: adenine glycosylase; G.C --> T.A transversions #33 yggX 27 orf, hypothetical protein #34 mltC 61 membrane-bound lytic murein transglycosylase C #35 nupG 153 transport of nucleosides, permease protein #36 tdcC 21 anaerobically inducible L-threonine, L-serine permease #37 tdcB 98 threonine dehydratase, catabolic #38 tdcA 188 transcriptional activator of tdc operon #39 crp 300 cyclic AMP receptor protein #40 ppiA 270 peptidyl-prolyl cis-trans isomerase A (rotamase A) #41 ompR 191 response regulator (sensor, EnvZ) affecting transcription of ompC and ompF: outer membrane protein synthesis #42 malT 300 positive regulator of mal regulon #43 glpG 44 protein of glp regulon #44 glpE_glpD 189 glpE: protein of glp regulon, glpD: sn-glycerol-3-phosphate dehydrogenase (aerobic) #45 aldB 74 aldehyde dehydrogenase B (lactaldehyde dehydrogenase) #46 yiaY 189 putative oxidoreductase #47 selA 97 selenocysteine synthase: L-seryl-tRNA (Ser) selenium transferase #48 yibF 227 putative S-transferase #49 mtlA 300 PTS system, mannitol-specific enzyme IIABC components #50 mtlD 229 mannitol-1-phosphate dehydrogenase #51 ilvB 105 acetolactate synthase I,valine-sensitive, large subunit #52 ivbL 300 ilvB operon leader peptide #53 rpmH 300 50S ribosomal subunit protein L34 #54 yidC 223 60 KD inner-membrane protein #55 thdF 105 GTP-binding protein in thiophene and furan oxidation #56 tnaL 242 tryptophanase leader peptide #57 cyaA 300 adenylate cyclase #58 rhaD 300 rhamnulose-phosphate aldolase #59 rhaB_rhaS 287 rhaB: rhamnulokinase, rhaS: positive regulator for rhaBAD operon #60 glpK 22 glycerol kinase #61 glpF 300 facilitated diffusion of glycerol #62 cytR 155 regulator for deo operon, udp, cdd, tsx, nupC, and nupG #63 priA 202 primosomal protein N'(= factor Y)(putative helicase) #64 malF 153 part of maltose permease, periplasmic #65 malE_malK 364 malE: periplasmic maltose-binding protein; substrate recognition for transport and chemotaxis, malK: ATP-binding component of transport system for maltose #66 lamB 71 phage lambda receptor protein; maltose high-affinity receptor #67 malM 242 periplasmic protein of mal regulon #68 melR 282 regulator of melibiose operon #69 uxuA 300 mannonate hydrolase #70 uxuB 80 D-mannonate oxidoreductase #71 deoC 257 2-deoxyribose-5-phosphate aldolase #72 deoA 126 thymidine phosphorylase #73 deoB 51 phosphopentomutase #74 deoD 56 purine-nucleoside phosphorylase Motif number 1 GGCGTTACATACCGGATGCGGCTAC 1 6 0 ACCGGATGCG 0.848762 -279 GGTATGTAACGCCTGATGCGACGCTGACGC 1 23 1 GCCTGATGCG 0.995508 -262 CAGCGTGTAGGCCAGATAAGACGCGTCAGC 1 45 0 GCCAGATAAG 0.747648 -240 GATTTTGTAGGCCGGATAAGCAAAGCGCAT 1 76 1 GCCGGATAAG 0.991103 -209 GGCGTTGAATGCCGGATGCGCTTTGCTTAT 1 91 0 GCCGGATGCG 0.997505 -194 GGCATTCAACGCCTGATGCGACGCTGGCGC 1 108 1 GCCTGATGCG 0.995508 -177 CAGCGCGTAGGCCTGATAAGACGCGCCAGC 1 130 0 GCCTGATAAG 0.984068 -155 GATTTTGTAGGCCGGATAAGCAAAGCGCAT 1 161 1 GCCGGATAAG 0.991103 -124 GGCGTTGAATGCCGGATGCGCTTTGCTTAT 1 176 0 GCCGGATGCG 0.997505 -109 GGCATTCAACGCCTGATGCGACGCTGGCGC 1 193 1 GCCTGATGCG 0.995508 -92 CAGCGTGTAGGCCTGATAAGACGCGCCAGC 1 215 0 GCCTGATAAG 0.984068 -70 GATTTTGTAGGCCGGATAAGCAAAGCGCAT 1 246 1 GCCGGATAAG 0.991103 -39 ACTCCTTCGTGCCGGATGCGCTTTGCTTAT 1 261 0 GCCGGATGCG 0.997505 -24 GCAATCAATGTCGGATGCGGCGCGAGCGC 3 10 1 GTCGGATGCG 0.937364 -56 TGATATGTTGGTCGGATAAGGCGCTCGCGC 3 30 0 GTCGGATAAG 0.806596 -36 AGCCTGGGGTGCCTAATGAGTGAGCTAACT 5 30 0 GCCTAATGAG 0.753229 -93 TGCTGACCTTGCCGGAGGCGGCCTTAGCAC 17 19 1 GCCGGAGGCG 0.962072 -242 GGTAGTCACTGCCCGATACGGACTTTACAT 26 79 1 GCCCGATACG 0.887556 -177 ACTATAGAATGCCTGATGCGCTACGCTCAT 27 45 1 GCCTGATGCG 0.995508 -60 AGTCCTGTATGCCTGATGAGCGTAGCGCAT 27 60 0 GCCTGATGAG 0.991955 -45 ATGCAAAACTGCCTGATGCGCTACGCTTAT 31 33 1 GCCTGATGCG 0.995508 -150 ATCTTTCCAGGCCTGATAAGCGTAGCGCAT 31 48 0 GCCTGATAAG 0.984068 -135 CGTTTTCCATGCCGGATGCGGCGTAAACAC 31 102 0 GCCGGATGCG 0.997505 -81 AAAGTTAGTTGCCGGATGCAAGCATGATAA 32 95 0 GCCGGATGCA 0.846524 -66 TATGCAAGTTGCCGGAGGCGTGCTCCGGCA 34 17 0 GCCGGAGGCG 0.962072 -45 GGGGTTAATTGCCTGATGCGCTACGCTTAT 50 42 1 GCCTGATGCG 0.995508 -188 CATCCTGTAGGCCTGATAAGCGTAGCGCAT 50 57 0 GCCTGATAAG 0.984068 -173 GTTCTTGTAGGCCGGATAAGGCGCTTACGC 50 111 1 GCCGGATAAG 0.991103 -119 GAGGGGCAGCGCCGGATGCGGCGTAAGCGC 50 131 0 GCCGGATGCG 0.997505 -99 GTCTATCAACGCCTGATTAGTCCGCTACTC 54 25 1 GCCTGATTAG 0.754621 -199 CTTTTCGTAGGGCGGATAAGCACCGCGCAT 55 60 1 GGCGGATAAG 0.818251 -46 TGCTTTGTGTGGCGGATGCGCGGTGCTTAT 55 75 0 GGCGGATGCG 0.941708 -31 GCCTGATAAGACGCGACAGC 58 1 1 GCCTGATAAG 0.984068 -300 GGCAATCAATGCCTGATGCGACGCTGTCGC 58 23 0 GCCTGATGCG 0.995508 -278 GGCATTGATTGCCGGATGCGGCACAAGTGC 58 40 1 GCCGGATGCG 0.997505 -261 CGACCTGTAGGCCGGATAAGGCACTTGTGC 58 60 0 GCCGGATAAG 0.991103 -241 ACAGTTGTAGGCCTGATAAGACGCGACAGC 58 93 1 GCCTGATAAG 0.984068 -208 GGCAATCAATGCCTGATGCGACGCTGTCGC 58 115 0 GCCTGATGCG 0.995508 -186 GGCATTGATTGCCGGATGCGCACAAGTCGC 58 132 1 GCCGGATGCG 0.997505 -169 CGACCTGTAGGCCTGATAAGCGACTTGTGC 58 151 0 GCCTGATAAG 0.984068 -150 ATAGTTGTAGGCCTGATAAGACGCGACAGC 58 184 1 GCCTGATAAG 0.984068 -117 GGCAATCAATGCCTGATGCGACGCTGTCGC 58 206 0 GCCTGATGCG 0.995508 -95 CGACCCGTAGGCCGGATAAGGCGCTCGCGC 58 244 0 GCCGGATAAG 0.991103 -57 GCTGTGAAATGCCGGATGCGGCGTGAACGC 64 12 1 GCCGGATGCG 0.997505 -142 GGTTTTGTAGGCCGGACAAGGCGTTCACGC 64 32 0 GCCGGACAAG 0.793437 -122 ACGTATGTAGGCCTGATAAGACGCGTCAGC 64 65 1 GCCTGATAAG 0.984068 -89 GACAACAACTGCCTGATGCGACGCTGACGC 64 87 0 GCCTGATGCG 0.995508 -67 GGCAGTTGTTGTCGGATAAGGCGTGAAAGC 64 104 1 GTCGGATAAG 0.806596 -50 CAAAACCTGGGCCGGATAAGGCGTTTACGC 67 14 1 GCCGGATAAG 0.991103 -229 GGCGTTGGTTGCCGAATGCGGCGTAAACGC 67 34 0 GCCGAATGCG 0.908224 -209 GGCAACCAACGCCTGATGCGACGCTTGCGC 67 51 1 GCCTGATGCG 0.995508 -192 GCCGTTGTAGGCCTGATAAGACGCGCAAGC 67 73 0 GCCTGATAAG 0.984068 -170 TCAAATGTAGGCCGGATAAGGCGTTTACGC 67 105 1 GCCGGATAAG 0.991103 -138 CTGTTTTTATGCCGGATGCGGCGTAAACGC 67 125 0 GCCGGATGCG 0.997505 -118 TTCACTTTGATCCTGATGCGTTTGCCACCA 71 65 1 TCCTGATGCG 0.756782 -193 GATGCTTTACGCCTGATGCGCTGCGCTTAT 72 15 1 GCCTGATGCG 0.995508 -112 CGTCTCGTAGGCCTGATAAGCGCAGCGCAT 72 30 0 GCCTGATAAG 0.984068 -97 CTACCCGTAGGCCGGATAAGGCGTAGACGC 72 63 1 GCCGGATAAG 0.991103 -64 GGCGGCTTTTGCCGGATGCGTCTACGCCTT 72 80 0 GCCGGATGCG 0.997505 -47 ********** Masking position 6 Map Score: 228.739 Number of sites scoring better than the average of aligned sites = 915 Number in coding regions = 275 Number in noncoding regions = 640 Number of orfs with sites within 600 bp upstream = 121 Fraction of orfs with sites within 600 bp upstream = 0.0194346 Motif number 2 AATCGCAGCGTGTAGGCCAGATAAGACGCG 1 50 0 TGTAGGCCAG 0.925001 -235 GCTGCGATTTTGTAGGCCGGATAAGCAAAG 1 71 1 TGTAGGCCGG 0.995089 -214 CATCAGGCGTTGAATGCCGGATGCGCTTTG 1 96 0 TGAATGCCGG 0.69623 -189 AATCGCAGCGCGTAGGCCTGATAAGACGCG 1 135 0 CGTAGGCCTG 0.982944 -150 GCTGCGATTTTGTAGGCCGGATAAGCAAAG 1 156 1 TGTAGGCCGG 0.995089 -129 CATCAGGCGTTGAATGCCGGATGCGCTTTG 1 181 0 TGAATGCCGG 0.69623 -104 AATCGCAGCGTGTAGGCCTGATAAGACGCG 1 220 0 TGTAGGCCTG 0.991445 -65 GCTGCGATTTTGTAGGCCGGATAAGCAAAG 1 241 1 TGTAGGCCGG 0.995089 -44 TGCGTCGAACCGTTGGCCGGAGAGGGTGCT 17 44 0 CGTTGGCCGG 0.839093 -217 CTATGCTTGATGTATGCCTGAGTTCGCTGC 22 107 1 TGTATGCCTG 0.932419 -132 GCGGAAGTCCTGTATGCCTGATGAGCGTAG 27 65 0 TGTATGCCTG 0.932419 -40 TGATGCATCCTGTAGGCCTGATAAGCGTAG 50 62 0 TGTAGGCCTG 0.991445 -168 TGCACGTTCTTGTAGGCCGGATAAGGCGCT 50 106 1 TGTAGGCCGG 0.995089 -124 TTTTTCTTTTCGTAGGGCGGATAAGCACCG 55 55 1 CGTAGGGCGG 0.826379 -51 GTTGCCGACCTGTAGGCCGGATAAGGCACT 58 65 0 TGTAGGCCGG 0.995089 -236 CGGCAACAGTTGTAGGCCTGATAAGACGCG 58 88 1 TGTAGGCCTG 0.991445 -213 ATTGCCGACCTGTAGGCCTGATAAGCGACT 58 156 0 TGTAGGCCTG 0.991445 -145 CGGCAATAGTTGTAGGCCTGATAAGACGCG 58 179 1 TGTAGGCCTG 0.991445 -122 ATGCACGACCCGTAGGCCGGATAAGGCGCT 58 249 0 CGTAGGCCGG 0.990172 -52 CCACGATGCTTGTAGGCATGCTGTAAACTT 61 229 0 TGTAGGCATG 0.786967 -72 GTTTCGGTTTTGTAGGCCGGACAAGGCGTT 64 37 0 TGTAGGCCGG 0.995089 -117 CCGAAACGTATGTAGGCCTGATAAGACGCG 64 60 1 TGTAGGCCTG 0.991445 -94 TGACAGCCGTTGTAGGCCTGATAAGACGCG 67 78 0 TGTAGGCCTG 0.991445 -165 GGCTGTCAAATGTAGGCCGGATAAGGCGTT 67 100 1 TGTAGGCCGG 0.995089 -143 AGATACGTCTCGTAGGCCTGATAAGCGCAG 72 35 0 CGTAGGCCTG 0.982944 -92 CGTATCTACCCGTAGGCCGGATAAGGCGTA 72 58 1 CGTAGGCCGG 0.990172 -69 ********** Masking position 6 Map Score: 93.9375 Number of sites scoring better than the average of aligned sites = 248 Number in coding regions = 20 Number in noncoding regions = 228 Number of orfs with sites within 600 bp upstream = 65 Fraction of orfs with sites within 600 bp upstream = 0.0104401 Motif number 3 GCCAGATAAGACGCGTCAGCGTCGCATCAGGCGTTA 1 29 0 AGCGCGCGCA 0.998114 -256 GCCTGATAAGACGCGCCAGCGTCGCATCAGGCGTTG 1 114 0 AGCGCGCGCA 0.998114 -171 GCCTGATAAGACGCGCCAGCGTCGCATCAGGCGTTG 1 199 0 AGCGCGCGCA 0.998114 -86 TGGTCGGATAAGGCGCTCGCGCCGCATCCGACATTG 3 16 0 AGCGCGCGCA 0.998114 -50 CGGCGTAGACATGAGTCTACGCCGCATCACA 13 6 0 AGAGCGCGCA 0.948252 -283 ATTAAAAACCCAGCGTCCGCGTCGCTTTCCGCGCGT 15 19 1 CGCGCGCGCT 0.954977 -52 TTGTGACGGAAAACGAACGCCACGCAAAGCTGACCG 19 79 0 AACGCCCGCA 0.866874 -50 GATACTAAAGACGCCATATTGCCGCAGAGTCAGGGA 21 160 1 AGCCTGCGCA 0.783707 -141 AGGCGGGATAAGGTGTTTACGCCGCATCCGGCATGG 31 90 1 AGTGCGCGCA 0.948252 -93 GTTCCGGTTTACACCCTGCCGTCGCTGTGCTGCAAT 32 42 0 AACCCGCGCT 0.77329 -119 AGGCCGGATAAGGCGCTTACGCCGCATCCGGCGCTG 50 119 1 AGCGCGCGCA 0.998114 -111 CACGATTCCAAAACCCCGCCGGCGCAAACCGGGCGG 51 25 1 AACCCGCGCA 0.928807 -81 CACTGAAAGTATACGTGTTCCGCGCAGAACGCGCAA 52 72 0 AACGCCCGCA 0.866874 -229 CGGATAAGCACCGCGCATCCGCCACACAAAGCAACA 55 72 1 CGCGCGCACA 0.729203 -34 GCCTGATAAGACGCGACAGCGTCGCATCAGGCATTG 58 11 1 AGCGCGCGCA 0.998114 -290 GCCTGATAAGACGCGACAGCGTCGCATCAGGCATTG 58 103 1 AGCGCGCGCA 0.998114 -198 TGATTGCCGGATGCGCACAAGTCGCTTATCAGGCCT 58 137 1 AGCGAGCGCT 0.827314 -164 GCCTGATAAGACGCGACAGCGTCGCATCAGGCATTG 58 194 1 AGCGCGCGCA 0.998114 -107 AGGCCGGACAAGGCGTTCACGCCGCATCCGGCATTT 64 18 0 AGCGCGCGCA 0.998114 -136 GCCTGATAAGACGCGTCAGCGTCGCATCAGGCAGTT 64 75 1 AGCGCGCGCA 0.998114 -79 CCTTGCCCCTACGCCCCACCGTCGCTTTGTGTGATC 65 255 0 AGCCCGCGCT 0.96474 -110 GGGCCGGATAAGGCGTTTACGCCGCATTCGGCAACC 67 22 1 AGCGCGCGCA 0.998114 -221 GCCTGATAAGACGCGCAAGCGTCGCATCAGGCGTTG 67 57 0 AGCGCGCGCA 0.998114 -186 AGGCCGGATAAGGCGTTTACGCCGCATCCGGCATAA 67 113 1 AGCGCGCGCA 0.998114 -130 GACATAACAAAGGCGGAGTCAACGCTCCGCCCAAAT 74 14 0 AGCGCACGCT 0.833521 -43 * *** ** **** Masking position 13 Map Score: 84.1124 Number of sites scoring better than the average of aligned sites = 447 Number in coding regions = 179 Number in noncoding regions = 268 Number of orfs with sites within 600 bp upstream = 78 Fraction of orfs with sites within 600 bp upstream = 0.0125281 Motif number 4 GTAGGCCAGATAAGACGCGTCAGCGTCGCATCAG 1 35 0 TAAGACGCGC 0.991315 -250 GTAGGCCTGATAAGACGCGCCAGCGTCGCATCAG 1 120 0 TAAGACGCGC 0.991315 -165 GTAGGCCTGATAAGACGCGCCAGCGTCGCATCAG 1 205 0 TAAGACGCGC 0.991315 -80 GTTGGTCGGATAAGGCGCTCGCGCCGCATCCGAC 3 20 0 TAAGGCGCGC 0.99564 -46 GTAGGCGGGATAAGGTGTTTACGCCGCATCCGGC 31 88 1 TAAGGTGTGC 0.771891 -95 GTAGGCCGGATAAGGCGCTTACGCCGCATCCGGC 50 117 1 TAAGGCGCGC 0.99564 -113 GCCTGATAAGACGCGACAGCGTCGCATCAG 58 7 1 TAAGACGCGC 0.991315 -294 GTAGGCCGGATAAGGCACTTGTGCCGCATCCGGC 58 50 0 TAAGGCACGC 0.91428 -251 GTAGGCCTGATAAGACGCGACAGCGTCGCATCAG 58 99 1 TAAGACGCGC 0.991315 -202 GTAGGCCTGATAAGACGCGACAGCGTCGCATCAG 58 190 1 TAAGACGCGC 0.991315 -111 GTAGGCCGGATAAGGCGCTCGCGCGCATCCACGG 58 234 0 TAAGGCGCGC 0.99564 -67 GTAGGCCGGACAAGGCGTTCACGCCGCATCCGGC 64 22 0 CAAGGCGTGC 0.890425 -132 GTAGGCCTGATAAGACGCGTCAGCGTCGCATCAG 64 71 1 TAAGACGCGC 0.991315 -83 TGTTGTCGGATAAGGCGTGAAAGCCTTATCCGTC 64 110 1 TAAGGCGTGC 0.986385 -44 CTGGGCCGGATAAGGCGTTTACGCCGCATTCGGC 67 20 1 TAAGGCGTGC 0.986385 -223 GTAGGCCTGATAAGACGCGCAAGCGTCGCATCAG 67 63 0 TAAGACGCGC 0.991315 -180 GTAGGCCGGATAAGGCGTTTACGCCGCATCCGGC 67 111 1 TAAGGCGTGC 0.986385 -132 GTAGGCCGGATAAGGCGTAGACGCATCCGGCAAA 72 69 1 TAAGGCGTGC 0.986385 -58 ******** ** Masking position 3 Map Score: 56.6034 Number of sites scoring better than the average of aligned sites = 119 Number in coding regions = 15 Number in noncoding regions = 104 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 5 CCTGATGCGACGCTGACGCGTCTTATCTGGCC 1 34 1 CGCTGCGCGC 0.997222 -251 CCTGATGCGACGCTGGCGCGTCTTATCAGGCC 1 119 1 CGCTGCGCGC 0.997222 -166 CCTGATGCGACGCTGGCGCGTCTTATCAGGCC 1 204 1 CGCTGCGCGC 0.997222 -81 CAGTAAAAGACGCAGTGACGGCAATGTCTGAT 2 22 0 CGCAGGACGC 0.771051 -279 GCGAAATACGGGCAGACATGGCCTGCCCGGTT 4 15 0 GGCAGCATGC 0.759838 -37 CTCTTCCGGGCGCTATCATGCCATACCGCGAA 6 34 0 CGCTACATGC 0.803147 -43 CGCGCGTGGGCGTTGGCGTGACTCATCGCGCT 15 48 1 CGTTGCGTGC 0.926702 -23 GGGTGTTGACCGCTGACGTTTCGTACGTCATT 25 145 0 CGCTGCGTTC 0.825873 -156 CGGAACTTTCCGCAGCCACGGCCTTATCATGC 32 72 1 CGCAGCACGC 0.9828 -89 CCGGATAAGGCGCTTACGCCGCATCCGGCGCT 50 122 1 CGCTTCGCCC 0.794738 -108 CCTGATGCGACGCTGTCGCGTCTTATCAGGC 58 10 0 CGCTGCGCGC 0.997222 -291 CCTGATGCGACGCTGTCGCGTCTTATCAGGCC 58 102 0 CGCTGCGCGC 0.997222 -199 CCTGATGCGACGCTGTCGCGTCTTATCAGGCC 58 193 0 CGCTGCGCGC 0.997222 -108 GGCGCTCGCGCGCATCCACGGCAATCAATGCC 58 223 0 CGCATCACGC 0.908565 -78 ATAAAATGAGCGTTATCGCGCCATTTATTCCA 61 143 0 CGTTACGCGC 0.788682 -158 CCTGATGCGACGCTGACGCGTCTTATCAGGCC 64 74 0 CGCTGCGCGC 0.997222 -80 GGACGGATAAGGCTTTCACGCCTTATCCGACA 64 113 0 GGCTTCACGC 0.808719 -41 CCTGATGCGACGCTTGCGCGTCTTATCAGGCC 67 62 1 CGCTTCGCGC 0.984236 -181 TCAGAATTCGGGTTGACATGTCTTACCAAAAG 69 148 1 GGTTGCATGC 0.461252 -153 ACAACCAGACCGCAGCCGTGGCGTTGCATCGG 69 203 0 CGCAGCGTGC 0.979045 -98 CGGCACGGCGCGCAGCCATGCCGGTGGATA 70 9 0 CGCAGCATGC 0.947472 -72 ***** **** * Masking position 2 Map Score: 43.1241 Number of sites scoring better than the average of aligned sites = 786 Number in coding regions = 674 Number in noncoding regions = 112 Number of orfs with sites within 600 bp upstream = 66 Fraction of orfs with sites within 600 bp upstream = 0.0106007 Motif number 6 GCAACGCAATTAATGTGAGTTAGCTCACTCATTAGGCA 5 13 1 TTGTGATCAC 0.974846 -110 TGACGGGGAAAGATGTTGCGGGACGCACAAAATCGTCC 8 21 0 ATGTTGGCAC 0.510719 -278 AACGCGTGTCTTTTGTGAGTTTTGTCACCAAATATCGT 12 123 1 TTGTGATCAC 0.974846 -178 AGAGTCAGGGAGATGTGAGCCAGCTCACCATAAAAAAG 21 185 1 ATGTGATCAC 0.955717 -116 GCTGATTTCTTAATGTGATCGGTAGCACGTTTTACGAA 22 171 1 TTGTGAGCAC 0.939264 -68 CGTCGCGCATTTTTGATGTATGTTTCACGCGTTGCATA 23 22 1 TTGATGTCAC 0.400134 -108 GTTGCATAATTAATGAGATTCAGATCACATATAAAGCC 23 52 1 TTGAGATCAC 0.846232 -78 TTCATAAATTAAATGTGAATTGCCGCACACATTATTAA 24 148 0 ATGTGAGCAC 0.895962 -125 TTATCTTTCATTTTGCGATCAAAATAACACTTTTAAAT 26 163 1 TTGCGATAAC 0.405778 -93 TCAGGGGCAAAAATGTTATCCACATCACAATTTCGTTT 35 36 1 ATGTTATCAC 0.820247 -118 TTGAAAGTTAATTTGTGAGTGGTCGCACATATCCTGTT 38 107 1 ATGTGAGCAC 0.895962 -82 TCACTTTTTATTCCGTGATCAAAATCACCTCTTAAAAT 40 124 0 TCGTGATCAC 0.712858 -147 ACATTATTGATTCTGTTGATATGATCACGTTATACCCA 41 13 0 TTGTTGTCAC 0.824484 -179 ATAAACGCCATAATGTTATACATATCACTCTAAAATGT 44 99 0 TTGTTATCAC 0.891238 -91 ATCAAAACAAAAATGTGACACTACTCACATTTAAATGC 49 22 1 ATGTGATCAC 0.955717 -279 TACACAAGCGTTTTGTGATGAACGTCACGTCAATTACC 49 95 1 TTGTGATCAC 0.974846 -206 CGACGGCCTTTTGTGTGATATCAATCACATAAATATAG 49 143 0 TTGTGATCAC 0.974846 -158 ACCTTGTAGATACTGCGAAATCTGGCACTGAATCGGTT 49 192 0 TTGCGAGCAC 0.848895 -109 AGCAAGGGAAAATTGAGGGGTTGATCACGTTTTGTACT 52 196 0 ATGAGGTCAC 0.637262 -105 GAAATTGTTTAAATGTGAATCGAATCACAATCGTTCGG 56 153 0 ATGTGATCAC 0.955717 -90 TCAATCAGCAAGGTGTTAAATTGATCACGTTTTAGACC 57 129 1 ATGTTATCAC 0.820247 -172 GTGTTACCGTTGATGTTGGCGGAATCACAGTCATGACG 57 250 1 TTGTTGTCAC 0.824484 -51 AATTTTCAGGAAATGCGGTGAGCATCACATCACCACAA 59 126 1 ATGCGGTCAC 0.817997 -162 CAATTCAGCAAATTGTGAACATCATCACGTTCATCTTT 59 161 1 ATGTGATCAC 0.955717 -127 CATTTTCGATTGATGTGGATTATGTCACCAGGAGAAGG 61 51 0 TTGTGGTCAC 0.956928 -250 TTCATGAAAATTCTGTAACCGTTTTCACGCGCTATCTG 62 60 1 TTGTAATCAC 0.787706 -96 TCGCCACGATTTTTGCAAGCAACATCACGAAATTCCTT 65 174 0 TTGCAATCAC 0.574088 -191 GAATTGGCGGTAATGTGGAGATGCGCACATAAAATCGC 65 208 0 TTGTGGGCAC 0.898634 -157 TTACCGCCAATTCTGTAACAGAGATCACACAAAGCGAC 65 233 1 TTGTAATCAC 0.787706 -132 GGTCAACCATTGTTGCGATGAATGTCACATCCTCTGAT 69 30 1 TTGCGATCAC 0.933682 -271 AGAGTGAAATTCTTGTGATGTGGTTAACCAATTTCAGA 69 115 1 TTGTGATAAC 0.652751 -186 * ***** **** Masking position 17 Map Score: 43.5006 Number of sites scoring better than the average of aligned sites = 226 Number in coding regions = 107 Number in noncoding regions = 119 Number of orfs with sites within 600 bp upstream = 133 Fraction of orfs with sites within 600 bp upstream = 0.021362 Motif number 7 TGTAACGCCTGATGCGACGCTGACGCGTCTTAT 1 27 1 GAGCGGCTGA 0.719571 -258 GTAGGCCGGATAAGCAAAGCGCATCCGGCATTC 1 82 1 TAGCAGCGCA 0.977018 -203 GTAGGCCGGATAAGCAAAGCGCATCCGGCATTC 1 167 1 TAGCAGCGCA 0.977018 -118 GTAGGCCGGATAAGCAAAGCGCATCCGGCACGA 1 252 1 TAGCAGCGCA 0.977018 -33 GGGACGATTTTGTGCGTCCCGCAACATCTTTCC 8 20 1 TGGCGCCGCA 0.781002 -279 CCACGCGCGGAAAGCGACGCGGACGCTGGGTTT 15 24 0 AAGCGGCGGA 0.791892 -47 TCCCCGGCATTACGCAATGCGCAGCGAACTCAG 22 124 0 TAGCAGCGCA 0.80122 -115 AATTTGCGATGCGTCGCGCATTTTTGATGT 23 8 1 GAGCGGCGCA 0.989897 -122 GTATGCCTGATGAGCGTAGCGCATCAGGCATTC 27 51 0 TGGCGGCGCA 0.914705 -54 CCAGGCCTGATAAGCGTAGCGCATCAGGCAGTT 31 39 0 TAGCGGCGCA 0.990049 -144 GTAGGCCTGATAAGCGTAGCGCATCAGGCAATT 50 48 0 TAGCGGCGCA 0.990049 -182 TACGGGCTGATGGGTAAAGCGCAAGGATCGTCC 53 46 0 TGGTAGCGCA 0.498494 -255 CTACGGAATTGAGGCATTGCGCAGGTTTGGAGT 54 90 1 GAGCAGCGCA 0.975428 -134 GTAGGGCGGATAAGCACCGCGCATCCGCCACAC 55 66 1 TAGCAGCGCA 0.923973 -40 ACCGCTCACGATGCGAGGCGGATCGAAAAATT 62 10 1 GAGCGGCGGA 0.967043 -146 ACAACTGCCTGATGCGACGCTGACGCGTCTTAT 64 80 0 GAGCGGCTGA 0.719571 -74 AGAAGGAACCGGCACGGCGCGCAGCCATGCCGG 70 17 0 GGACGGCGCA 0.682855 -64 GTAGGCCTGATAAGCGCAGCGCATCAGGCGTAA 72 21 0 TAGCGGCGCA 0.990049 -106 ** *** ***** Masking position 13 Map Score: 32.7628 Number of sites scoring better than the average of aligned sites = 397 Number in coding regions = 298 Number in noncoding regions = 99 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 8 CGCATCCGGCATTCAACGCCTGATGCGACGCT 1 101 1 ATCAACGCCG 0.885405 -184 TAGGCCTGATAAGACGCGCCAGCGTCGCATCA 1 121 0 AAACGCGCCG 0.867656 -164 CGCATCCGGCATTCAACGCCTGATGCGACGCT 1 186 1 ATCAACGCCG 0.885405 -99 TAGGCCTGATAAGACGCGCCAGCGTCGCATCA 1 206 0 AAACGCGCCG 0.867656 -79 AAGTCAGTACAATCCCCGCCCGAATGTGTGTA 8 116 1 AACCCCGCCG 0.982015 -183 GTCAGCGGTCAACACCCGCCAGCAATGGACTG 25 160 1 AAACCCGCCG 0.920691 -141 AGGAAGCGGTAGTCACTGCCCGATACGGACTT 26 72 1 AGCACTGCCG 0.678018 -184 AAACAGTGCCGGAGCACGCCTC 34 1 1 AACAGTGCCG 0.922042 -61 CTATCTCTGTAACCCTTGCCCGTAAATTC 45 56 1 AACCTTGCCG 0.641832 -19 AACACACTCCTGAAAGTGTAAA 46 178 0 AAACACTCCG 0.408316 -12 CAGTTAACCGATTCAGTGCCAGATTTCGCAGT 49 187 1 ATCAGTGCCG 0.725266 -114 CACGATTCCAAAACCCCGCCGGCGCAAACCGG 51 25 1 AACCCCGCCG 0.982015 -81 CTTAAACGAAAAACCCCGCCCGGTTTGCGCCG 51 44 0 AACCCCGCCG 0.982015 -62 TTTTTCGTTTAAGCACCTCCCGGAAAGTCGGC 51 63 1 AACACCTCCG 0.842211 -43 AGATAACAAAAAACCCCGCCGGAGCGAGGTTT 52 157 0 AACCCCGCCG 0.982015 -144 CATTCGGGTCTATCAACGCCTGATTAGTCCGC 54 18 1 TACAACGCCG 0.660488 -206 GCCTGTCAGGATCCACTGCCAGACCTCATTTT 57 20 0 ATCACTGCCG 0.823772 -281 CGCATCCGGCAATCAATGCCTGATGCGACGCT 58 28 0 AACAATGCCG 0.92859 -273 CGCATCCGGCAATCAATGCCTGATGCGACGCT 58 120 0 AACAATGCCG 0.92859 -181 CATCCACGGCAATCAATGCCTGATGCGACGCT 58 211 0 AACAATGCCG 0.92859 -90 CGACCAGTCTAAAAAGCGCCTGAATTCGCGAC 59 241 0 AAAAGCGCCG 0.870031 -47 CTTATCCGACAACAACTGCCTGATGCGACGCT 64 92 0 AAAACTGCCG 0.816606 -62 CGCATTCGGCAACCAACGCCTGATGCGACGCT 67 44 1 AACAACGCCG 0.971923 -199 CCGGATACCTAAACAACTCCAGGGTTCCGCGT 69 239 1 AACAACTCCG 0.768203 -62 ** ******* * Masking position 9 Map Score: 34.3636 Number of sites scoring better than the average of aligned sites = 1359 Number in coding regions = 1273 Number in noncoding regions = 86 Number of orfs with sites within 600 bp upstream = 70 Fraction of orfs with sites within 600 bp upstream = 0.0112432 Motif number 9 CGGCCTACAAAATCGCAGCGTGTAGGCCAGA 1 59 0 AATCGAGCGT 0.659391 -226 TAGGCCGGATAAGCAAAGCGCATCCGGCATT 1 83 1 AAGCAAGCGC 0.956918 -202 CGGCCTACAAAATCGCAGCGCGTAGGCCTGA 1 144 0 AATCGAGCGC 0.886954 -141 TAGGCCGGATAAGCAAAGCGCATCCGGCATT 1 168 1 AAGCAAGCGC 0.956918 -117 CGGCCTACAAAATCGCAGCGTGTAGGCCTGA 1 229 0 AATCGAGCGT 0.659391 -56 TAGGCCGGATAAGCAAAGCGCATCCGGCACG 1 253 1 AAGCAAGCGC 0.956918 -32 TCAATGTCGGATGCGGCGCGAGCGCCTTATC 3 15 1 ATGCGCGCGA 0.771562 -51 TTTATCTCAAAAGCGTTGCGCCTTTGTTGTA 9 64 0 AAGCGTGCGC 0.881988 -27 CACGCGCGGAAAGCGACGCGGACGCTGGGTT 15 25 0 AAGCGCGCGG 0.873203 -46 GCATTACGCAATGCGCAGCGAACTCAGGCAT 22 120 0 ATGCGAGCGA 0.756823 -119 AATTTGCGATGCGTCGCGCATTTTTGATG 23 9 1 ATGCGCGCGC 0.968593 -121 CTCATTAATTATGCAACGCGTGAAACATACA 23 38 0 ATGCACGCGT 0.710073 -92 TGCGCTCTTCGTGCGTCGCGTCTGTTAAAAA 25 195 1 GTGCGCGCGT 0.58178 -106 AAGTATGGTAAAGCATCACGCCCCGCACAAG 26 43 1 AAGCACACGC 0.489494 -213 TATGCCTGATGAGCGTAGCGCATCAGGCATT 27 52 0 GAGCGAGCGC 0.928629 -53 CTAAGGGATAATGCGTAGCGTTCACGTAACT 30 144 1 ATGCGAGCGT 0.877322 -32 CAGGCCTGATAAGCGTAGCGCATCAGGCAGT 31 40 0 AAGCGAGCGC 0.985976 -143 CATATTAGCAAAGAATCGCGCTTTAGGTAAC 44 59 1 AAGAACGCGC 0.489494 -131 TAGGCCTGATAAGCGTAGCGCATCAGGCAAT 50 49 0 AAGCGAGCGC 0.985976 -181 TAGGGCGGATAAGCACCGCGCATCCGCCACA 55 67 1 AAGCACGCGC 0.960118 -39 TAGGCCTGATAAGCGCAGCGCATCAGGCGTA 72 22 0 AAGCGAGCGC 0.985976 -105 ***** ***** Masking position 9 Map Score: 30.9167 Number of sites scoring better than the average of aligned sites = 770 Number in coding regions = 640 Number in noncoding regions = 130 Number of orfs with sites within 600 bp upstream = 77 Fraction of orfs with sites within 600 bp upstream = 0.0123675 Motif number 10 AAAGCGCATCCGGCATTCAACGCCTGATGC 1 97 1 CGGCATTCAA 0.896506 -188 AAAGCGCATCCGGCATTCAACGCCTGATGC 1 182 1 CGGCATTCAA 0.896506 -103 AGGTGGTTAACGGAAATCTATTTTACCCTG 9 25 1 CGGAAATCTA 0.420649 -66 ATAATGTGTGCGGCAATTCACATTTAATTT 24 151 1 CGGCAATTCA 0.862192 -122 CTTAACATCGCGGCAACTCAAGAAACGGCA 24 192 1 CGGCAACTCA 0.871581 -81 TATTACCAAACGGCAACCTAATCTAATCAG 26 209 0 CGGCAACCTA 0.932977 -47 TGCTTGCATCCGGCAACTAACTTTGGATAA 32 101 1 CGGCAACTAA 0.891893 -60 AAGCATATTTCGGCAATCCAGAGACAGCGG 39 236 1 CGGCAATCCA 0.96364 -65 CGCGTTTCACCGTCAACCAACTGCCTTTTA 54 125 0 CGTCAACCAA 0.664139 -99 GTGCCGCATCCGGCAATCAATGCCTGATGC 58 34 0 CGGCAATCAA 0.969894 -267 TGTGCGCATCCGGCAATCAATGCCTGATGC 58 126 0 CGGCAATCAA 0.969894 -175 CGCGCATCCACGGCAATCAATGCCTGATGC 58 217 0 CGGCAATCAA 0.969894 -84 ACGCCGCATCCGGCATTTCACAGCA 64 6 0 CGGCATTTCA 0.627184 -148 TTTCTTTATACGGCAACCTCTTTCCATCCT 65 291 0 CGGCAACCTC 0.653823 -74 ACGCCGCATTCGGCAACCAACGCCTGATGC 67 40 1 CGGCAACCAA 0.972182 -203 ********** Masking position 5 Map Score: 16.795 Number of sites scoring better than the average of aligned sites = 241 Number in coding regions = 210 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 11 GGCCAGATAAGACGCGTCAGCGTCGCATCA 1 36 0 GACGCGTCAG 0.756473 -249 GGCCTGATAAGACGCGCCAGCGTCGCATCA 1 121 0 GACGCGCCAG 0.940388 -164 GGCCTGATAAGACGCGCCAGCGTCGCATCA 1 206 0 GACGCGCCAG 0.940388 -79 TGGATTTCCTTACGCGAAATACGGGCAGAC 4 30 0 TACGCGAAAT 0.593035 -22 CGCTGTACTGTGCGCGCAACGACATTTTGT 7 31 0 TGCGCGCAAC 0.587919 -46 TGAGCGAATATGCGCGAAATCAAACAATTC 24 61 0 TGCGCGAAAT 0.777922 -212 ATTATTTTGATGCGCGAAATTAATCGTTAC 25 49 1 TGCGCGAAAT 0.777922 -252 TGCGCGATATGTCCTCCTGA 47 1 1 TGCGCGATAT 0.39662 -97 GCTTCCAGCCTGCGCGACAGCAAACATAAG 49 268 1 TGCGCGACAG 0.948933 -33 TCCTCCACCCGGCGCGCCATGCTGGTTTCC 53 82 1 GGCGCGCCAT 0.906145 -219 TTATTACAACGGCGTGAAACGCCTGTCAGG 57 42 0 GGCGTGAAAC 0.412322 -259 AAAAAAACCAGGCGCGAAAAGTGGTAACGG 57 186 1 GGCGCGAAAA 0.784411 -115 GCCTGATAAGACGCGACAGCGTCGCATCA 58 10 1 GACGCGACAG 0.956394 -291 GGCCTGATAAGACGCGACAGCGTCGCATCA 58 102 1 GACGCGACAG 0.956394 -199 GGCCTGATAAGACGCGACAGCGTCGCATCA 58 193 1 GACGCGACAG 0.956394 -108 TTGCCGTGGATGCGCGCGAGCGCCTTATCC 58 231 1 TGCGCGCGAG 0.609496 -70 ATAAATTTGTTGCGCGAATGATCTAACAAA 61 92 1 TGCGCGAATG 0.42575 -209 TGGAATAAATGGCGCGATAACGCTCATTTT 61 143 1 GGCGCGATAA 0.40574 -158 GTTTGTTGTATGCGTGAAAGTCACGGACCT 61 259 0 TGCGTGAAAG 0.631698 -42 TAGTACGCCTGACGTGCCAGGCGAGGAGTG 62 133 1 GACGTGCCAG 0.662911 -23 TTCGTACGAAGGCGCGAAATCATACAGAAA 63 100 1 GGCGCGAAAT 0.908583 -103 GGCCTGATAAGACGCGTCAGCGTCGCATCA 64 74 1 GACGCGTCAG 0.756473 -80 TGTCGGATAAGGCGTGAAAGCCTTATCCGT 64 113 1 GGCGTGAAAG 0.829539 -41 GGCCTGATAAGACGCGCAAGCGTCGCATCA 67 64 0 GACGCGCAAG 0.921136 -179 TTATCTGAAAGGGGCGAAAGCCCCTCTGAT 67 162 1 GGGGCGAAAG 0.657577 -81 ********** Masking position 6 Map Score: 21.9689 Number of sites scoring better than the average of aligned sites = 1811 Number in coding regions = 1669 Number in noncoding regions = 142 Number of orfs with sites within 600 bp upstream = 108 Fraction of orfs with sites within 600 bp upstream = 0.0173466 Motif number 12 CGTCAGCGTCGCATCAGGCGTTACATACCG 1 22 0 GCATCAGGCG 0.875474 -263 CGCCAGCGTCGCATCAGGCGTTGAATGCCG 1 107 0 GCATCAGGCG 0.875474 -178 CGCCAGCGTCGCATCAGGCGTTGAATGCCG 1 192 0 GCATCAGGCG 0.875474 -93 ATAAAGTGTAAAGCCTGGGGTGCCTAATGA 5 41 0 AAGCCTGGGG 0.602039 -82 TGAATACAAGTCGCCAGGAGTATATGAATA 16 35 1 TCGCCAGGAG 0.863811 -150 GTTTTTCTGCAAGCCAGGCTTGACGCTATC 16 78 0 AAGCCAGGCT 0.25605 -107 AGACTTTACATCGCCAGGGGTGCTCGGCAT 20 166 1 TCGCCAGGGG 0.910708 -135 GTTAAATCCTTCACCGGGGGATCTGCTCAA 20 223 0 TCACCGGGGG 0.607649 -78 TGAATCCATCTCATCTGGGGTGTTGATT 22 221 1 TCATCTGGGG 0.500815 -18 AACTAAAGTCTAGCCTGGCGGTTCGACTTT 25 247 0 TAGCCTGGCG 0.611648 -54 TTAACAGATTCAACCAGGGGCAAGTATGGT 26 22 1 CAACCAGGGG 0.519931 -234 CCCCTGAGCATCGTCAGGGGCGGTTAATGG 35 13 0 TCGTCAGGGG 0.845618 -141 CTGAAGCGAGACACCAGGAGACACAAAGCG 39 92 1 ACACCAGGAG 0.895804 -209 CCGCCGGCGCAAACCGGGCGGGGTTTTTCG 51 40 1 AAACCGGGCG 0.63897 -66 ATGGACACCGAAGCCATGGGTGATTAAAGA 53 215 0 AAGCCATGGG 0.18781 -86 AGTAGCGGACTAATCAGGCGTTGATAGACC 54 24 0 TAATCAGGCG 0.805869 -200 GAAACTAAAAAAACCAGGCGCGAAAAGTGG 57 180 1 AAACCAGGCG 0.917017 -121 GACGGGTAGCAAATCAGGCGATACGTC 57 284 1 AAATCAGGCG 0.855797 -17 CGTGTTGACGACATCAGGAGGCCAGT 59 7 0 ACATCAGGAG 0.821974 -281 GTGGATTATGTCACCAGGAGAAGGATGAAA 61 45 0 TCACCAGGAG 0.85742 -256 CTCGCCTGGCACGTCAGGCGTACTACATCC 62 128 0 ACGTCAGGCG 0.920982 -28 TGACTATGCGTCATCAGGAGATGGCTTAAA 65 63 1 TCATCAGGAG 0.76357 -302 CCCCATAAAAAAGCCAGGGGGTGGAGGATT 65 91 0 AAGCCAGGGG 0.88676 -274 CGCAAGCGTCGCATCAGGCGTTGGTTGCCG 67 50 0 GCATCAGGCG 0.875474 -193 TTTCACCTCAAAATCTGGAGCTCAGCGGTA 67 220 0 AAATCTGGAG 0.323882 -23 TTATTCAAGCAAGCCAGGAGATCTGC 68 7 0 AAGCCAGGAG 0.829638 -276 TATTGGCGACAAGCCAGGAGAATGAA 71 242 1 AAGCCAGGAG 0.829638 -16 TAAGCGCAGCGCATCAGGCGTAAAGCATCT 72 14 0 GCATCAGGCG 0.875474 -113 ********** Masking position 5 Map Score: 23.0281 Number of sites scoring better than the average of aligned sites = 2089 Number in coding regions = 1942 Number in noncoding regions = 147 Number of orfs with sites within 600 bp upstream = 144 Fraction of orfs with sites within 600 bp upstream = 0.0231288 Motif number 13 GCCTACACGCTGCGATTTTGTAGGCCGGATA 1 63 1 TGCGATTTGT 0.78475 -222 GCCTACGCGCTGCGATTTTGTAGGCCGGATA 1 148 1 TGCGATTTGT 0.78475 -137 GCCTACACGCTGCGATTTTGTAGGCCGGATA 1 233 1 TGCGATTTGT 0.78475 -52 ATGGCTTTGGTCCCGCTTTGTTACAGAATGC 2 95 0 TCCCGTTTGT 0.81708 -206 TTGCACGGCGTCACACTTTGCTATGCCATAG 2 184 1 TCACATTTGC 0.740518 -117 TCAAAAGCGTTGCGCCTTTGTTGTATCGTCA 9 58 0 TGCGCTTTGT 0.687858 -33 GCGTGTTGACAATTTGTTATGAAACAC 18 7 1 TGACATTTGT 0.694919 -61 TTTATATCCCACTTTGTGCAGCGATTA 18 51 0 TCCCATTTGT 0.933945 -17 AGAAAAGCACTCCCCTTTTGTGCGGTCAGCT 19 57 1 TCCCCTTTGT 0.895246 -72 TTTGCAGCAATCCCTCTTTGCAGACCTTTAA 22 63 0 TCCCTTTTGC 0.510257 -176 TTGCAAACATTCCCAATTTGCAAAACGAAAT 35 65 0 TCCCATTTGC 0.899952 -89 CTTTATACTGTCCCCTTTTGTGTGGAATAAG 43 13 1 TCCCCTTTGT 0.895246 -32 ACAGGATGCATCACAATTTGTTGAATTTGCA 50 79 1 TCACATTTGT 0.817708 -151 TGAGTATCGATCACAGTTTGCGTTTT 52 6 0 TCACATTTGC 0.740518 -295 GAGGGGTTGATCACGTTTTGTACTGAATTGC 52 189 0 TCACGTTTGT 0.586293 -112 GTGATGATGTTCACAATTTGCTGAATTGTGG 59 158 0 TCACATTTGC 0.740518 -130 AAATTCACCTTGCGAGTTTGTTAGTATTCTA 71 211 0 TGCGATTTGT 0.78475 -47 GAGCGTTGACTCCGCCTTTGTTATGTCACAA 74 23 1 TCCGCTTTGT 0.812724 -34 ***** ***** Masking position 7 Map Score: 13.915 Number of sites scoring better than the average of aligned sites = 172 Number in coding regions = 140 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405 Motif number 14 CCAAAGCCATGACAAAAACGCGTAACAAAAGT 2 116 1 GAAAAAACCG 0.706371 -185 GCCTGGCTTGCAGAAAAACTCGGAATAAACCT 16 89 1 CAAAAAACCG 0.901891 -96 CGCATGCAGGCATGAAACCGCGTCTTTTTTCA 17 70 1 CAGAAACCCG 0.957323 -191 CAAAATGACGCATGAAATCACGTTTCACTTTC 24 97 0 CAGAAATCCG 0.847461 -176 TTAAACAGATCACAAAATCACCTAAAATCGCC 40 62 0 CAAAAATCCC 0.774884 -209 GCCACATTAACAAAAAACCTCGGGCTTCCAGC 49 245 1 CAAAAACCCG 0.973761 -56 GGTGCTTAAACGAAAAACCCCGCCCGGTTTGC 51 48 0 CGAAAACCCG 0.968234 -58 GCAGGCGACTGACGAAACCTCGCTCCGGCGGG 52 143 1 GAGAAACCCG 0.854445 -158 TTGCAGATAACAAAAAACCCCGCCGGAGCGAG 52 161 0 CAAAAACCCG 0.973761 -140 CGAAAAGGTGCGGAAAAGCGCGGTAAATAAGG 53 140 1 CGAAAAGCCG 0.815799 -161 AAATTTTCGACGGAAAACCACGTAAAAAACGT 59 72 1 CGAAAACCCG 0.968234 -216 GGGAAAACCTCGGTTTAAGGCC 63 1 1 GGAAAACCCG 0.888598 -202 GAGATGCGCACATAAAATCGCCACGATTTTTG 65 197 0 CAAAAATCCC 0.774884 -168 GTGAAGTGCTCGTGAAAACACCTAAACGGACT 65 325 0 CGGAAAACCC 0.630835 -40 GGCGAATCTGCAGAAAACCTCCGGCTTCCAGG 68 50 1 CAAAAACCCC 0.932869 -233 ** ****** ** Masking position 6 Map Score: 11.6205 Number of sites scoring better than the average of aligned sites = 240 Number in coding regions = 192 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 51 Fraction of orfs with sites within 600 bp upstream = 0.00819146 Motif number 15 ATGCGACGCTGGCGCGTCTTATCAGGCCTACGCGC 1 123 1 GGCGGTTTCG 0.924465 -162 ATGCGACGCTGGCGCGTCTTATCAGGCCTACACGC 1 208 1 GGCGGTTTCG 0.924465 -77 CGCTTTTTATCGCAACTCTCTACTGTTTCTCCATA 2 250 1 CGCACTTCCG 0.837596 -51 GGCATGAAACCGCGTCTTTTTTCAGATAAAAAGCG 17 78 1 CGCGCTTTCG 0.970734 -183 AGCTTTGCGTGGCGTTCGTTTTCCGTCACAATAAG 19 84 1 GGCGTCTTCG 0.916124 -45 AAGCGGTTTCCGCGATTCTCTTCTGTAAATTGTCG 20 42 1 CGCGTTTCCG 0.969941 -259 TCTCCGGCGACGCGGTTTTTAACAGGTGTTCTATG 21 34 0 CGCGTTTTCG 0.971314 -267 GTCCATTGCTGGCGGGTGTTGACCGCTGACGTTTC 25 155 0 GGCGGTTTCG 0.924465 -146 GCGCGGTTATCCTCTGTTATAAGCTT 39 285 0 CGCGTTTCCG 0.969941 -16 TAAAAAAGCTCACGTTCGTCACCAGCTAAATCTGG 41 121 0 CACGTCTCCG 0.444109 -71 TTACCTAAAGCGCGATTCTTTGCTAATATGTTCGA 44 54 0 CGCGTTTTCA 0.586217 -136 ATAACATTATGGCGTTTATCTGCCGCTTCGACGTA 44 118 1 GGCGTTTCCG 0.946207 -72 CGCGCTTTTCCGCACCTTTTCGCAGGGAAAATGTA 53 127 0 CGCACTTTCG 0.844043 -174 GTGGCGGATGCGCGGTGCTTATCCGCCCTACGAAA 55 62 0 CGCGTGTTCG 0.821244 -44 ATAAGGCGCTCGCGCGCATCCACGGCAATCAATGC 58 224 0 CGCGGCTCCG 0.9268 -77 GGAAGAGCGACGCGGCCTTAAACCGAGGTTTTCCC 63 11 0 CGCGCCTACG 0.676244 -192 CAAACTGATCCGCACTCTTCTACGGCAATGTGTAT 63 144 1 CGCATCTCCG 0.757019 -59 CGTCGCATCAGGCAGTTGTTGTCGGATAAGGCGTG 64 94 1 GGCATTTTCG 0.750726 -60 TCCAGGGTTCCGCGTCTCTTTGCTGTGGAACCCAC 69 256 1 CGCGCTTTCG 0.970734 -45 AAGAGTATGAGGCGGCTTTTGCCGGATGCGTCTAC 72 85 0 GGCGCTTTCG 0.947592 -42 **** ** ** * * Masking position 9 Map Score: 25.2408 Number of sites scoring better than the average of aligned sites = 821 Number in coding regions = 759 Number in noncoding regions = 62 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084