AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00530_ecoli_reg_300.orf -o00530_ecoli_300.ace -a/home/amcguire/alignace/lib/ORF_ecoli.txt -z/skink1/amcguire/genomes/ecoli.fna -g0.51 -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 = 0.51 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 yabB 300 orf, hypothetical protein #2 murC 53 L-alanine adding enzyme, UDP-N-acetyl-muramate:alanine ligase #3 ftsZ 60 cell division; forms circumferential ring; tubulin-like GTP-binding protein and GTPase #4 lpxC 100 UDP-3-O-acyl N-acetylglucosamine deacetylase; lipid A biosynthesis #5 yadG 108 putative ATP-binding component of a transport system #6 yadI 104 putative PTS enzyme II B component #7 rpsB 300 30S ribosomal subunit protein S2 #8 tsf 257 protein chain elongation factor EF-Ts #9 pyrH 146 uridylate kinase #10 frr 291 ribosome releasing factor #11 yaeM 91 putative ATP-binding component of a transport system #12 yaeS 185 orf, hypothetical protein #13 cdsA 120 CDP-diglyceride synthetase #14 yaeT 29 orf, hypothetical protein #15 hlpA 121 histone-like protein, located in outer membrane or nucleoid #16 fabZ 104 (3R)-hydroxymyristol acyl carrier protein dehydratase #17 dniR 71 transcriptional regulator for nitrite reductase (cytochrome c552) #18 prpB 238 putative phosphonomutase 2 #19 ushA 217 UDP-sugar hydrolase (5'-nucleotidase) #20 lnt 24 apolipoprotein N-acyltransferase, copper homeostasis protein, inner membrane #21 ybeX 89 putative transport protein #22 ybeZ 113 putative ATP-binding protein in pho regulon #23 yleA 145 orf, hypothetical protein #24 nagA 59 N-acetylglucosamine-6-phosphate deacetylase #25 nagB_nagE 332 nagB: glucosamine-6-phosphate deaminase, nagE: PTS system, N-acetylglucosamine-specific enzyme IIABC #26 seqA 184 negative modulator of initiation of replication #27 pgm 25 phosphoglucomutase #28 hrsA 108 protein modification enzyme, induction of ompC #29 ycaP 120 orf, hypothetical protein #30 serC 198 3-phosphoserine aminotransferase #31 aroA 70 5-enolpyruvylshikimate-3-phosphate synthetase #32 ycaL 144 putative heat shock protein #33 cmk 172 cytidylate kinase #34 rpsA 110 30S ribosomal subunit protein S1 #35 himD 159 integration host factor (IHF), beta subunit; site-specific recombination #36 ycaI 129 orf, hypothetical protein #37 msbA 36 ATP-binding transport protein; multicopy suppressor of htrB #38 htrB 224 heat shock protein #39 rne 80 RNase E, membrane attachment, mRNA turnover, maturation 5S RNA #40 yceD 159 orf, hypothetical protein #41 rpmF 51 50S ribosomal subunit protein L32 #42 plsX 110 glycerolphosphate auxotrophy in plsB background #43 fabH 67 3-oxoacyl-[acyl-carrier-protein] synthase III; acetylCoA ACP transacylase #44 acpP 210 acyl carrier protein #45 fabF 87 3-oxoacyl-[acyl-carrier-protein] synthase II #46 pabC 119 4-amino-4-deoxychorismate lyase #47 ptsG 294 PTS system, glucose-specific IIBC component #48 cls 300 cardiolipin synthase, a major membrane phospholipid; novobiocin sensitivity #49 ydcH 72 orf, hypothetical protein #50 rimL 62 acetylation of N-terminal serine of 30S ribosomal subunit protein L7; acetyl transferase #51 malX 174 PTS system, maltose and glucose-specific II ABC #52 celC 50 PEP-dependent phosphotransferase enzyme III for cellobiose, arbutin, and salicin #53 celB 84 PEP-dependent phosphotransferase enzyme II for cellobiose, arbutin, and salicin #54 celA 298 PEP-dependent phosphotransferase enzyme IV for cellobiose, arbutin, and salicin #55 osmE 201 activator of ntrL gene #56 manX 300 PTS enzyme IIAB, mannose-specific #57 msbB 119 suppressor of htrB, heat shock protein #58 yebA 78 orf, hypothetical protein #59 yebL 24 putative adhesin #60 wcaA 34 putative regulator #61 BIME92 24 BIME #62 wza 300 putative polysaccharide export protein #63 gatB 30 galactitol-specific enzyme IIB of phosphotransferase system #64 gatZ 28 putative tagatose 6-phosphate kinase 1 #65 gatY 197 tagatose-bisphosphate aldolase 1 #66 BIME96 27 BIME #67 b2097 184 orf, hypothetical protein #68 fruB 300 PTS system, fructose-specific IIA/fpr component #69 ptsH 300 PTS system protein HPr #70 ptsI 44 PEP-protein phosphotransferase system enzyme I #71 crr 40 PTS system, glucose-specific IIA component #72 mltB_srlA 255 mltB: membrane-bound lytic murein transglycosylase B, srlA: PTS system, glucitol/sorbitol-specific IIC component, one of two #73 ascF 256 PTS system enzyme II ABC (asc), cryptic, transports specific beta-glucosides #74 mltA 208 membrane-bound lytic murein transglycosylase A #75 cmtA 27 PTS system, mannitol-specific enzyme II component, cryptic #76 cmtB 300 PTS system, mannitol-specific enzyme II component, cryptic #77 mutY 160 adenine glycosylase; G.C --> T.A transversions #78 yggX 27 orf, hypothetical protein #79 mltC 61 membrane-bound lytic murein transglycosylase C #80 agaZ 248 putative tagatose 6-phosphate kinase 2 #81 BIME157 76 BIME #82 agaS 191 putative tagatose-6-phosphate aldose/ketose isomerase #83 agaB 166 PTS system, cytoplasmic, N-acetylgalactosamine-specific IIB component 1 (EIIB-AGA) #84 murA 54 first step in murein biosynthesis;UDP-N-glucosamine 1-carboxyvinyltransferase #85 yrbA 144 orf, hypothetical protein #86 yrbF_yrbG 209 yrbF: putative ATP-binding component of a transport system, yrbG: orf, hypothetical protein #87 rpoN 47 RNA polymerase, sigma(54 or 60) factor; nitrogen and fermentation regulation #88 yhbH 22 probable sigma-54 modulation protein #89 ptsN 117 phosphotransferase system enzyme IIA, regulates N metabolism #90 nanA 121 N-acetylneuraminate lyase (aldolase); catabolism of sialic acid; not K-12? #91 yhcK 300 putative FADA-type transcriptional regulator #92 glgB 272 1,4-alpha-glucan branching enzyme #93 asd 192 aspartate-semialdehyde dehydrogenase #94 mtlA 300 PTS system, mannitol-specific enzyme IIABC components #95 kdtA 300 3-deoxy-D-manno-octulosonic-acid transferase (KDO transferase) #96 glvB 24 PTS system, arbutin-like IIB component #97 glvC 34 PTS system, arbutin-like IIC component #98 bglF 133 PTS system beta-glucosides, enzyme II, cryptic #99 bglG 285 positive regulation of bgl operon #100 BIME185 97 BIME #101 pstC 86 high-affinity phosphate-specific transport system, cytoplasmic membrane component #102 pstS 300 high-affinity phosphate-specific transport system; periplasmic phosphate-binding protein #103 glmS 161 L-glutamine:D-fructose-6-phosphate aminotransferase #104 glmU 300 N-acetyl glucosamine-1-phosphate uridyltransferase #105 trxA 76 thioredoxin 1 #106 rhoL 140 rho operon leader peptide #107 rho 84 transcription termination factor Rho; polarity suppressor #108 rfe 239 UDP-GlcNAc:undecaprenylphosphate GlcNAc-1-phosphate transferase; synthesis of enterobacterial common antigen (ECA) #109 frvA 300 PTS system, fructose-specific IIA component #110 frwC 300 PTS system, fructose-like enzyme II component #111 pflD 50 formate acetyltransferase 2 #112 murB 300 UDP-N-acetylenolpyruvoylglucosamine reductase #113 metA 156 homoserine transsuccinylase #114 aceB 268 malate synthase A #115 aceA 29 isocitrate lyase #116 BIME206 22 BIME #117 aceK 27 isocitrate dehydrogenase kinase/phosphatase #118 sgaT 291 orf, hypothetical protein #119 treB 118 PTS system enzyme II, trehalose specific #120 treR 300 repressor of treA,B,C #121 sgcA 130 putative PTS system enzyme II A component #122 sgcC 286 putative PTS system enzyme IIC component #123 sgcX 300 putative lyase/synthase #124 slt 183 soluble lytic murein transglycosylase Motif number 1 TCATACGATGCAAAAGGCATCGCTACAA 2 7 0 CAAAAGCACG 0.845117 -47 CAGTTTAGCACAAAGAGCCTCGAAACCCAAAT 4 23 0 CAAAGGCCCG 0.87213 -78 TTACCGACCCCAAAGGGCACCCCGGAATATGT 7 229 0 CAAAGGCACC 0.801391 -72 TTATCAAAAAGGAGCCGCCTGAGGGCGGC 9 8 1 AAAGGGCCCC 0.603366 -139 ATGGGCACAAAAAGAAGCCGCCCTCAGGCGGC 9 24 0 AAAGAGCCCC 0.81882 -123 TGGCCGTGACCAAACTGCCTGCAACAATAACG 10 80 0 CAAACGCCGC 0.636733 -212 CTTGAACGACAAAAACGCCGCTCAGTAGATCC 11 14 1 AAAAAGCCCT 0.58745 -78 GAATAAAAAGCAAAACGCCGCCAGCCGATCCG 11 49 0 CAAAAGCCCC 0.97803 -43 GCCTATACAAAAAAAAGCCGTGTAAAACCACG 12 117 0 AAAAAGCCTG 0.695803 -69 GTTAGTTAATCAAAACGCCGTCGTTAATCACC 21 48 0 CAAAAGCCTC 0.862022 -42 TAGAGAAATGAAAAAAGCACCCGACAGGTGCT 36 40 0 AAAAAGCACC 0.906035 -90 GAATTATTGGCAAAAGGCAACCACAGGCTGCC 40 93 1 CAAAAGCACC 0.923004 -67 AGAGTCAAAGAAAAAGGCAGCCTGTGGTTGCC 40 108 0 AAAAAGCACC 0.906035 -52 AAAGCTAAGAAAAAAGGCCCGCAAGCGGACCT 46 35 0 AAAAAGCCGC 0.771768 -85 TGAGAACGTAAAAAAAGCACCCATACTCAGGA 47 261 1 AAAAAGCACC 0.906035 -34 TGCAGTTGTTAAAAAAGCCGCCTGGCTGGCGG 50 22 0 AAAAAGCCCC 0.972831 -41 AAAACTGCCCTCATCGACGATT 54 287 0 AAAACGCCTC 0.676915 -12 GAAAGGCAAAAAAACGGCCTCCCGATAGGGAA 65 73 0 AAAACGCCCC 0.937222 -125 AAATCAAAAGCGCCACGAATAGTCAAA 68 6 1 AAAAGGCCCG 0.845822 -295 GTTTTATTACCAAACGGCAACCTAATCTAATC 72 34 1 CAAACGCACC 0.833279 -222 ACGAAGATAACAAACCGCCGCGTTTAATGAAA 74 154 0 CAAACGCCCG 0.89416 -55 CATAAATAAGCAAAAAGCCTCGCTGATAAATC 85 79 0 CAAAAGCCCG 0.95297 -66 TTTCACCATACAAAAAGCAGCCAAAGTCGCAA 93 109 0 CAAAAGCACC 0.923004 -84 ATTTTTAGCGAAAATCGCCGCCTTGTTGCTTT 94 61 1 AAAATGCCCC 0.697845 -240 TGATATCACACAAAAGGCCGTCGACTGGACAG 94 158 1 CAAAAGCCTC 0.862022 -143 TAACAGGAAGAAAAATGCCCCGCTTACGCA 102 9 0 AAAAAGCCCG 0.942191 -292 GTCTTATGCCAAAAACGCCACGTGTTTACGTG 108 15 1 AAAAAGCCCG 0.942191 -225 GATATAAAAGCAAAACGCCACGTAAACACGTG 108 33 0 CAAAAGCCCG 0.95297 -207 GTAGAAACGCAAAAAGGCCATCCGTCAGGATG 112 196 0 AAAAAGCCTC 0.83403 -105 TTCGGAAATAAAAAAGGCACCCGAAGGTGCCT 114 55 0 AAAAAGCACC 0.906035 -214 ***** *** ** Masking position 3 Map Score: 39.6699 Number of sites scoring better than the average of aligned sites = 506 Number in coding regions = 429 Number in noncoding regions = 77 Number of orfs with sites within 600 bp upstream = 77 Fraction of orfs with sites within 600 bp upstream = 0.0123675 Motif number 2 ATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACT 1 20 1 AGCCGCCGCA 0.667662 -281 GTTTCTGTTGCCGCCGGTGGGGTTCGCCATTGTAACG 13 82 1 CGCCGGGGGC 0.971333 -39 ATAACACGGCCTGCCGCAATCGTAAGAATGAGACAGG 16 42 0 CGCCGCCGGA 0.864178 -63 TTAATCACCAACGGCGGGGACGTCTGCCAGTCAAATG 21 20 0 AGGCGGCGGC 0.992926 -70 TTCTCAGGCCTGCCGTTCCGGTGGGCCTTGTTTTTT 22 10 1 CGCCGTGGGC 0.858403 -104 AGTAAAATGTAAGCCGTTGGCGGATTAGGCATCTTTA 25 292 0 AGCCGTCGTA 0.562164 -41 GTTCATCGGCATGGCGGCGGTGATAGCGCCTTTGAGA 29 49 0 AGGCGGTGGC 0.903646 -72 ACCTGGCTCCATGCCGGATGGGGTTGTTTAACATACC 34 54 0 AGCCGGGGGT 0.851693 -57 TCAAGCACTAAGGGCGGCTACGGCCGCCCTTAATCAA 35 85 1 AGGCGGCGGC 0.992865 -75 AAGACCAAACCGGGCGGCGACGATACCTTGACACGTC 42 64 1 CGGCGGCGCC 0.963519 -47 GAACGGAAGTGGGGCGCTGGCGCATGCAGCGTCAGGC 48 119 0 GGGCGCCGGC 0.934904 -182 CCAAAAAAAACCGGCGCAATGGCCGGTTTCCGTTGTT 54 34 0 CGGCGCGGGT 0.58494 -265 CAAATAAAAAAAGCCGGTACTGACTGCGTACCGGCTG 57 25 0 AGCCGGTGGC 0.909414 -95 GGTAGCTAAAAAGCCAGGGGCGGTAGCGTGTCTGGAT 62 103 1 AGCCAGCGGC 0.886672 -198 GCGTGTTTTTATGCCGGATGCGGTGTAAACATACGTG 65 21 0 AGCCGGCGTA 0.877694 -177 TTTATGCAAGTTGCCGGAGGCGTGCTCCGGCACTGTT 79 12 0 TGCCGGCGTC 0.771123 -50 AACTTGACGTCGGGCGTTGTCGCTTTCACTTGCCTTT 82 144 0 CGGCGTCGTC 0.851722 -48 CGCACTAACAGGGGCGGCATCGCGCCCCAGATTTAAT 92 20 0 GGGCGGCGCC 0.911401 -253 TAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCA 101 10 1 AGCCGGCGTT 0.853475 -77 TCATTTTGTAATGCCGGATGCGGCGTAAAACACCGTA 101 28 0 AGCCGGCGTA 0.877694 -59 ATGGTCGAAAATGGCGCTTTCGTCAGCGGGGATAATC 104 170 1 AGGCGCCGGC 0.979494 -131 GTCACATGGCAGGCCGTTGCCGTGCGCTCTTATCCTG 110 33 0 AGCCGTCGGC 0.964136 -268 CCCGCTCGCAAGGGCGGGTTCGCTTTCCCACAGGAGT 111 19 1 AGGCGGCGTC 0.976519 -32 TAGGACAAATCCGCCGGGAGCGGATTTGAACGTTGCG 112 88 1 CGCCGGCGTT 0.818066 -213 GGCCCGGAGGGTGGCGGGCAGGACGCCCGCCATAAAC 112 132 1 GGGCGGGGCC 0.750316 -169 CACCTTACCTCAGGCACCTTCGGGTGCCTTTTTTATT 114 44 1 CGGCACCGGC 0.657535 -225 CCGTCTTTTCACGGCGTTACCGGATGCGTAAGGCCGT 120 34 0 AGGCGTCGGC 0.961706 -267 ACTTTTGACGAAGGCGGCAGGGATCGCAGAAGGGTTA 121 51 0 AGGCGGGGGC 0.976192 -80 TGAAGTCGACATGCCGGTACCGCATGCCACAAGGATC 122 15 0 AGCCGGCGGC 0.993389 -272 * ***** ** ** Masking position 12 Map Score: 29.7216 Number of sites scoring better than the average of aligned sites = 1772 Number in coding regions = 1682 Number in noncoding regions = 90 Number of orfs with sites within 600 bp upstream = 76 Fraction of orfs with sites within 600 bp upstream = 0.0122069 Motif number 3 ACCAGACTTACGCCCCCGCGATACTTACGC 10 43 0 CGCCCCCGCG 0.706876 -249 GAAACAACGCCGCGATGACGACGGGTATTA 13 57 0 CGCGATGACG 0.53728 -64 AATAATAACACGGCCTGCCGCAATCGTAAG 16 53 0 CGGCCTGCCG 0.9066 -52 AACAGTTCATCGGCATGGCGGCGGTGATAG 29 60 0 CGGCATGGCG 0.579271 -61 GCAATTATAGCGGGCTGGCAGAAGACCAGC 33 29 0 CGGGCTGGCA 0.873359 -144 GCGCATTATACGCGCCGACGCCACAAATCG 33 113 0 CGCGCCGACG 0.628421 -60 CAACCCCATCCGGCATGGAGCCAGGTGGAC 34 65 1 CGGCATGGAG 0.772358 -46 GGTCGAACGACCGCCTGGAGATGTTCAC 45 9 0 CCGCCTGGAG 0.648023 -79 CATTTTTTCCCTCCCTGGAGGACAAAC 45 71 1 CTCCCTGGAG 0.546531 -17 AAAAAGCCGCCTGGCTGGCGGCTTAGGAAA 50 13 0 CTGGCTGGCG 0.840414 -50 CCCGCTCTGTCGCCCTGGCGTTTAATAATT 58 39 1 CGCCCTGGCG 0.868059 -40 GGCAAAAAAACGGCCTCCCGATAGGGAAGC 65 71 0 CGGCCTCCCG 0.781918 -127 TGAGCAGCCTCTCCCTGACGCAAATTTTGC 74 124 0 CTCCCTGACG 0.55373 -85 ACGCCATATCCGGCCTGAAAAAAT 85 5 0 CGGCCTGAAA 0.501668 -140 AAATCTTCAGCGGACCGGCGAGTATACCTG 86 26 0 CGGACCGGCG 0.635177 -184 CTAACAGGGGCGGCATCGCGCCCCAGATTT 92 23 0 CGGCATCGCG 0.576592 -250 TACCCGGGCTTGCAGGCAAAAAAG 97 21 0 CGGGCTTGCA 0.450894 -14 CTGAAAAAAACGGCCTGACGTGAATCAAGC 98 71 0 CGGCCTGACG 0.974959 -63 ACACCGTACCCGGCCTGGAGTTTTA 101 6 0 CGGCCTGGAG 0.972859 -81 ATCTTAATGCCGCGCTGGCGATGTTAGGAA 108 69 1 CGCGCTGGCG 0.941648 -171 CGCACGGCAACGGCCTGCCATGTGACAAAT 110 44 1 CGGCCTGCCA 0.748532 -257 AAGCTGCTCCCGGGCTTGCGAAAGCCCATG 110 281 0 CGGGCTTGCG 0.886616 -20 AAAGCGAACCCGCCCTTGCGAGCGGGAGAA 111 15 0 CGCCCTTGCG 0.876443 -36 TGCGAAGCAACGGCCCGGAGGGTGGCGGGC 112 121 1 CGGCCCGGAG 0.913164 -180 TAAAACGTCACGGCCTTACGCATCCGGTAA 120 25 1 CGGCCTTACG 0.826203 -276 TAACCCGAATCGGCATGGAGTCAACGACGG 121 111 1 CGGCATGGAG 0.772358 -20 CATGCGGTACCGGCATGTCGACTTCAACCA 122 26 1 CGGCATGTCG 0.564297 -261 GTGAAAGTTACGGGCTGGAGAGACCAGTGA 123 159 0 CGGGCTGGAG 0.940215 -142 ATCTATTACGCGGCATGACGCTGCATTG 124 166 1 CGGCATGACG 0.848386 -18 ********** Masking position 1 Map Score: 28.3661 Number of sites scoring better than the average of aligned sites = 2176 Number in coding regions = 2083 Number in noncoding regions = 93 Number of orfs with sites within 600 bp upstream = 88 Fraction of orfs with sites within 600 bp upstream = 0.0141343 Motif number 4 GAAACGCATATTTGCGGATTAGTTCATGACTTTATCT 18 107 1 TTGCGGTCAT 0.566068 -132 ACGCGTGTCTTTTGTGAGTTTTGTCACCAAATATCGT 25 156 1 TTGTGATCAC 0.962663 -177 TATGTGATCAATTTCACTTGATTGAAA 28 92 0 TTGTGATCAC 0.962663 -17 TGAGGGCAAAAATGTGGCTTGCATCACACAAAAGAAT 30 48 0 ATGTGGTCAC 0.829381 -151 GGTTTTACTCATTGCGATGTGTGTCACTGAATGATAA 30 87 1 ATGCGATCAC 0.943949 -112 AGTGCCAATTTGTTTGACGGCTATCACGTTTCAACTT 47 145 0 TTTTGATCAC 0.643878 -150 ATTTGCCCGAAATGTGAAGAGGGTCATAACCACAGGT 54 99 1 ATGTGATCAT 0.7838 -200 TATTGTCGTTTTTGTGATCGTTATCTCGATATTTAAA 65 124 1 TTGTGATCTC 0.613151 -74 ATTTTTTATATTTGTGAAACCGGTCACCTGAATATTT 73 84 0 TTGTGATCAC 0.962663 -173 CATATAAATATTTGTGATCTACAACACGCCTTATCTA 76 71 0 TTGTGAACAC 0.613151 -230 TTATGTTTCTTTTGTGAATCAGATCAGAAAACCATTA 80 131 1 TTGTGATCAG 0.654592 -118 GAAAGCTTATAATGCGATCTGCTTCACTAAAGTGGCA 90 11 0 ATGCGATCAC 0.943949 -111 CTGTAAGGTCAGTGTGATTAACATCATCAGTGACATC 91 273 0 ATGTGATCAT 0.7838 -28 TCAAAACAAAAATGTGACACTACTCACATTTAAATGC 94 23 1 ATGTGATCAC 0.947464 -278 ACACAAGCGTTTTGTGATGAACGTCACGTCAATTACC 94 96 1 TTGTGATCAC 0.962663 -205 GACGGCCTTTTGTGTGATATCAATCACATAAATATAG 94 143 0 TTGTGATCAC 0.962663 -158 AAAGTTAATAACTGCGAGCATGGTCATATTTTTATCA 99 85 1 ATGCGATCAT 0.771967 -201 GAAAGCGCCATTTTCGACCATCGTCACGCCTTTTGTC 104 154 0 TTTCGATCAC 0.628022 -147 TAACCGTCAATTTGCGACGCGTCTCACAAGACGCTGT 110 100 1 TTGCGATCAC 0.960122 -201 TCAGTACAAAAATGCGATCCGCCTCATAACTTGCGAT 110 158 0 ATGCGATCAT 0.771967 -143 TGTGGAATTATTTGCGGGTCGCGTCACATTTAATCAT 118 226 1 TTGCGGTCAC 0.866478 -66 TGGTCGAATAATTGTGAGAACGTTCACGTGAAAACGC 123 248 0 ATGTGATCAC 0.947464 -53 * ***** **** Masking position 3 Map Score: 22.2223 Number of sites scoring better than the average of aligned sites = 152 Number in coding regions = 60 Number in noncoding regions = 92 Number of orfs with sites within 600 bp upstream = 101 Fraction of orfs with sites within 600 bp upstream = 0.0162223 Motif number 5 AAAGCGAGGATTTTCGTTTTTCAGACGGGA 49 53 0 TTTTCGTTTT 0.721728 -20 AAATATTTATCTTTCATTTTGCGATCAAAA 72 90 0 CTTTCATTTT 0.700516 -166 TTTCGTAAAACTTTCGTTTCATTTCGTTTT 80 20 1 CTTTCGTTTC 0.903649 -229 CTTTCGTTTCATTTCGTTTTGCCTATTAAC 80 30 1 ATTTCGTTTT 0.867608 -219 AAACCATTATCTTTCGTTTTATTTTTATCT 80 159 1 CTTTCGTTTT 0.967412 -90 CGATATTAATCTTTCGTTTTGTTTCAGTTG 80 205 0 CTTTCGTTTT 0.967412 -44 CCCGTAAGGCCTTTCTTTTTCTTTCGTTTT 81 42 1 CTTTCTTTTT 0.804864 -35 CTTTCTTTTTCTTTCGTTTTGATCTGTGCA 81 52 1 CTTTCGTTTT 0.967412 -25 ACGATCACAAATTTCGTTTTATTTCTTTTT 82 42 1 ATTTCGTTTT 0.867608 -150 ATTTCGTTTTATTTCTTTTTTCTCCATTGA 82 52 1 ATTTCTTTTT 0.476582 -140 TTTCACTTGCCTTTCGTTTCATTTCACTTG 82 128 0 CTTTCGTTTC 0.903649 -64 TCGACTGAGCCTTTCGTTTTATTTG 112 6 0 CTTTCGTTTT 0.967412 -295 AAGACTGGGCCTTTCGTTTTATCTGTTGTT 112 36 1 CTTTCGTTTT 0.967412 -265 ********** Masking position 4 Map Score: 13.2416 Number of sites scoring better than the average of aligned sites = 36 Number in coding regions = 22 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 6 AGCCAGTCACAAGGCATACCGAGGTAAAAAA 1 200 0 AAGGCTACCG 0.643438 -101 TTGTGCTAAACTGGCCCGCCGAATGTATAGT 4 42 1 CTGGCCGCCG 0.846446 -59 CCGACCCCAAAGGGCACCCCGGAATATGTGC 7 227 0 AGGGCCCCCG 0.87176 -74 CGGGAATTCTCGAGCTTGCCGCCTTTCTGCA 8 45 0 CGAGCTGCCG 0.756622 -213 CAATAATAACACGGCCTGCCGCAATCGTAAG 16 53 0 ACGGCTGCCG 0.734171 -52 TTCTCAGGCCTGCCGTTCCGGTGGG 22 5 1 CAGGCTGCCG 0.969271 -109 GAGAAAAAACAAGGCCCACCGGAACGGCAGG 22 19 0 AAGGCCACCG 0.499523 -95 AGCGTCAAGCCTGGCTTGCAGAAAAACTCGG 26 94 0 CTGGCTGCAG 0.746396 -91 GCAATTATAGCGGGCTGGCAGAAGACCAGCC 33 28 0 CGGGCGGCAG 0.756454 -145 CTCCTTAAAACAGGCGTACCGTTAACATAAC 33 146 0 CAGGCTACCG 0.909764 -27 CATGCAGCGTCAGGCTAGCCGACGTAAATCG 48 103 0 CAGGCAGCCG 0.826218 -198 ACTGGTCTTTCAGGCATCCAGACACGCTACC 62 124 0 CAGGCTCCAG 0.881717 -177 AGGCAAAAAAACGGCCTCCCGATAGGGAAGC 65 71 0 ACGGCTCCCG 0.689411 -127 GACTTGCAGGCAGGTTTGCCGGACAGGCGGT 85 37 0 CAGGTTGCCG 0.76034 -108 CAAAAAACCTCGGGCTTCCAGCCTGCGCGAC 94 255 1 CGGGCTCCAG 0.944254 -46 TACCCGGGCTTGCAGGCAAAAAAGA 97 20 0 CGGGCTGCAG 0.961963 -15 CCCATGTGACCGGGTTAGCCGGCCAGAA 103 8 0 CGGGTAGCCG 0.560974 -154 CCCGTTTTTTCGGGCGCCCCGAGCCTTGTAG 103 98 0 CGGGCCCCCG 0.905666 -64 CCCGAAAAAACGGGCATACAGGTTGACCGAC 103 115 1 CGGGCTACAG 0.889968 -47 ATTTCATGTTCGGGTGCCCCGTCGCTAAAAA 106 15 1 CGGGTCCCCG 0.729626 -126 TGACTCACGCCGGGCGTCCAGTTTTTAGCGA 106 36 0 CGGGCTCCAG 0.944254 -105 CAGTTTATGGCGGGCGTCCTGCCCGCCACCC 112 140 0 CGGGCTCCTG 0.76271 -161 CGTGAAAAGACGGGCTTACCGGAAAAGTTTT 120 58 1 CGGGCTACCG 0.96419 -243 ***** ***** Masking position 4 Map Score: 22.6098 Number of sites scoring better than the average of aligned sites = 886 Number in coding regions = 837 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 7 ATTAGGCTATTTTATTTGCCATTTTGGCCCCGGGCAGTGCT 10 154 0 TTTTTTTTCC 0.938739 -138 TCAGTTAACGTTTCAGGCAATGTTTCACCGCGTTTCATTGC 18 68 0 TTTGGTTTCC 0.639116 -171 GGTGGGCCTTGTTTTTTCTCTCTTTATCCCCATCTTTATTG 22 30 1 GTTTTTTTCC 0.906968 -84 AACAAATAAGGTTTATTCCGAGTTTTTCTGCAAGCCAGGCT 26 77 1 GTTTTTTTCC 0.906968 -108 GTTTAATCTTCAGGTTTATATTTAACGTCCACCTGGCTC 34 82 0 TTCGTTTTCC 0.713359 -29 CCTGCCGGGATTTAGTTGCAAATTTTTCAACATTTTATACA 44 133 1 TTTTTTTTCC 0.938739 -78 ACGTTTTACCTTTTATTTATCTTATACCCGCTATTATCGTT 51 47 1 TTTTTTATCC 0.536968 -128 TTTATTTTAAATTTTCCCGTCAAAGAGTTAT 53 1 1 TTTTTTTTCC 0.938739 -84 AATCAGAGGCGTCTCTGATATGTTTAACTCCCGTTTAACAA 56 24 0 GTCTGTTTCC 0.612901 -277 AATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCAT 62 62 0 TTTTTTTTCC 0.938739 -239 TATGATTTGGTTCAATTCTTCCTTTAGCGGCATAATGTTTA 69 105 1 TTCTTTTTCC 0.879816 -196 AAAGCTGGCATTTGTTTTACTTTTTAGCCGCATAAAGTCAA 86 83 0 TTTTTTTTCC 0.938739 -127 ATTGATTAATTTCACTTGCGACTTTGGCTGCTTTTTGTATG 93 94 1 TTCTTTTTCC 0.879816 -99 AATCAAGCAATTTTTTTCAGGTTTTGCCCGCTTAGTGCGGT 98 38 0 TTTTTTTTCC 0.938739 -96 TTTTTCAGGTTTTTTTTTGGAGTTTTGCCGCAAAGCGGTAG 98 93 1 TTTTTTTTCC 0.938739 -41 GTATTCTCTGGTTATGTCAGGTTTTGCCTGCGAATGCAGTA 99 213 0 GTTGTTTTCC 0.76821 -73 GGGATAATCCGTTATTGAACAATTTATCCTCTGTCCATTTC 104 198 1 GTTTGTTTCC 0.76821 -103 AACGTAGTCTTTTCCTTGAAACTTTCTCACCTTCAACATGC 113 41 1 TTTTTTTTCC 0.938739 -116 *** ** *** * * Masking position 13 Map Score: 13.8697 Number of sites scoring better than the average of aligned sites = 72 Number in coding regions = 52 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 8 GATGATTACGGCCTCAGGCGACAGGCACAA 3 27 1 GCCTCAGGCG 0.907667 -34 AAAGAAGCCGCCCTCAGGCGGCTCCTTTTT 9 16 0 CCCTCAGGCG 0.688465 -131 ATCGTTGACAGTCTCAGGAAAGAAAC 9 131 1 GTCTCAGGAA 0.297051 -16 CCAGCGCGCAGCAACCGGAGCGTACAAAAG 10 109 1 GCAACCGGAG 0.656588 -183 AAAAACAAGGCCCACCGGAACGGCAGGCCT 22 16 0 CCCACCGGAA 0.618815 -98 AATTATTCACGCCACAGGAAAAAGGCGCAA 22 77 0 GCCACAGGAA 0.783052 -37 AAAACCGATAGCCACAGGAATAATGTATTA 30 122 1 GCCACAGGAA 0.783052 -77 TTAAACAACCCCATCCGGCATGGAGCCAGG 34 60 1 CCATCCGGCA 0.836847 -51 CGTATCCACAGCATCAGGAAGTGCATTCTA 48 40 0 GCATCAGGAA 0.833725 -261 TGTTTACACCGCATCCGGCATAAAAACACG 65 27 1 GCATCCGGCA 0.958012 -171 TATCATGCTTGCATCCGGCAACTAACTTTG 77 56 0 GCATCCGGCA 0.958012 -105 GCCGGAGCACGCCTCCGGCAACTTGCATAA 79 18 1 GCCTCCGGCA 0.976286 -44 ATTCATATCCGCTACCGGCGAATCGCCCAT 84 14 0 GCTACCGGCG 0.406707 -41 GTTTTACGCCGCATCCGGCATTACAAAATG 101 34 1 GCATCCGGCA 0.958012 -53 TGCCAGAGATGCCTCCGGCACAATATTTTA 109 21 1 GCCTCCGGCA 0.976286 -280 CCTCGTTTTTGCATCAGGAAAGCAGCT 112 284 1 GCATCAGGAA 0.833725 -17 TCAGCACCTTACCTCAGGCACCTTCGGGTG 114 40 1 ACCTCAGGCA 0.537957 -229 ACGGCCTTACGCATCCGGTAACGCCGTGAA 120 34 1 GCATCCGGTA 0.642572 -267 ********** Masking position 5 Map Score: 14.0213 Number of sites scoring better than the average of aligned sites = 1115 Number in coding regions = 659 Number in noncoding regions = 456 Number of orfs with sites within 600 bp upstream = 134 Fraction of orfs with sites within 600 bp upstream = 0.0215226 Motif number 9 GCCAGCCTCACCCCTTATTCCCAC 1 287 0 GCCTCACCCC 0.973728 -14 CCGTCAAAACTCCTCTCCCCCAAATCCAGA 6 26 0 TCCTCTCCCC 0.805092 -79 TATCTTCGCTCGCTCATCCCGGTCACTTAC 8 89 0 CGCTCATCCC 0.510947 -169 GGTCTATAAGGGCTCTCCCCCTTCATATTT 8 135 0 GGCTCTCCCC 0.962399 -123 AGGCAATTGTGGCACACCCCTTGCTTTGTC 18 178 1 GGCACACCCC 0.858236 -61 TTCCCCTCACCACGTTGCGTTGC 30 186 0 CCCTCACCAC 0.63234 -13 TTATTTTGAGGCCTTACCCCCCAATAACGC 44 85 0 GCCTTACCCC 0.66206 -126 TACACGGCGAGGCTCTCCCCCCTTGCCACG 47 229 1 GGCTCTCCCC 0.962399 -66 GGTCATTATACCCCCACCCCCGACGCTGAC 48 196 1 CCCCCACCCC 0.836924 -105 TGGAAACATACGCACTCCCTGTTA 49 5 0 CGCACTCCCT 0.566965 -68 GAAATGAGCAGCCTCTCCCTGACGCAAATT 74 128 0 GCCTCTCCCT 0.90129 -81 TTTCCATTAAGGCACTCCCCGATATTAATC 83 48 0 GGCACTCCCC 0.873131 -119 CACGGTTTTCCCCTCACCCTAACCCTCTCC 100 20 1 CCCTCACCCT 0.875795 -78 CTCACCCTAACCCTCTCCCCAGAGGGGCGA 100 32 1 CCCTCTCCCC 0.973677 -66 TCGGTCGGTCCCCTCGCCCCTCTGGGGAGA 100 45 0 CCCTCGCCCC 0.896292 -53 CTGATCCCACGCCTCTCCCTCGACGGAGAT 120 90 0 GCCTCTCCCT 0.90129 -211 ********** Masking position 3 Map Score: 14.6024 Number of sites scoring better than the average of aligned sites = 190 Number in coding regions = 116 Number in noncoding regions = 74 Number of orfs with sites within 600 bp upstream = 48 Fraction of orfs with sites within 600 bp upstream = 0.0077096 Motif number 10 AAAGCAAAACGCCGCCAGCCGATCCGCAAG 11 45 0 GCCGCCAGCC 0.944848 -47 CGCTATCACCGCCGCCATGCCGATGAACTG 29 58 1 GCCGCCATGC 0.973068 -63 ACGTCCACCTGGCTCCATGCCGGATGGGGT 34 67 0 GGCTCCATGC 0.756703 -44 GTGAACATCTCCAGGCGGTCGTTCGA 45 7 1 ATCTCCAGGC 0.564581 -81 ACTTTCCTAAGCCGCCAGCCAGGCGGCTTT 50 11 1 GCCGCCAGCC 0.944848 -52 GCCTTAACCTGCTTCCATGCTCTGGGTAAC 54 233 0 GCTTCCATGC 0.659034 -66 TAATAGCAATGTCGCCATGCACATTTACCT 62 238 0 GTCGCCATGC 0.833945 -63 CTAAAGTCGAACCGCCAGGCTAGACTTTAG 69 245 1 ACCGCCAGGC 0.958853 -56 GGTTAAATTGAGCGCCATGCTTAGAAAATC 86 168 1 AGCGCCATGC 0.75671 -42 CGCACAACAGACCGCCATGCACATGCTAAT 89 22 0 ACCGCCATGC 0.935368 -96 AAAACCTCGGGCTTCCAGCCTGCGCGACAG 94 258 1 GCTTCCAGCC 0.478941 -43 TAAAACTCCAGGCCGGGTACGGT 101 4 1 AACTCCAGGC 0.70754 -83 CTAAAAACTGGACGCCCGGCGTGAGTCATG 106 39 1 GACGCCCGGC 0.836854 -102 TGGCGGGCAGGACGCCCGCCATAAACTGCC 112 143 1 GACGCCCGCC 0.602365 -158 CCCGCCATAAACTGCCAGGCATCAAATTAA 112 157 1 ACTGCCAGGC 0.756865 -144 CCGTCGTTGACTCCATGCCGATTCGGGT 121 113 0 GACTCCATGC 0.78955 -18 CCTTATTGTAACCTCCATGCGAACCAACAG 122 159 1 ACCTCCATGC 0.852822 -128 GCTTAATGGCGCCGCCCTGCTCACAGGGAT 122 207 1 GCCGCCCTGC 0.924719 -80 ********** Masking position 5 Map Score: 14.5353 Number of sites scoring better than the average of aligned sites = 1502 Number in coding regions = 1443 Number in noncoding regions = 59 Number of orfs with sites within 600 bp upstream = 66 Fraction of orfs with sites within 600 bp upstream = 0.0106007 Motif number 11 TGAGGCCGTAATCATCGTCGGCCTCATAAAAA 3 10 0 ACACGCGGCC 0.840276 -51 TGATGCTGTACACAGCGCCAACAATTATTGGTG 7 86 1 CCACGCAACA 0.539424 -215 GCGAAGATAACGCATCTGCGGCGCGAAATATGA 8 110 1 CCACTCGGCG 0.593666 -148 AATGGCGAACCCCACCGGCGGCAACAGAAACAA 13 80 0 CCACGCGGCA 0.964751 -41 GTCGTTAATCACCAACGGCGGGGACGTCTGCCA 21 28 0 ACACGCGGGG 0.829258 -62 GCCGTTGGTGATTAACGACGGCGTTTTGATTAA 21 42 1 ATACGCGGCG 0.868982 -48 TCATACTGGTCACAACGGCAGCAAAGCATTACA 23 78 1 CCACGCAGCA 0.91136 -68 CTTTCTTTATCAAAACGTCGGCACATTGTCGGC 32 39 1 CAACGCGGCA 0.922122 -106 AGGTCCGAAAAAAAACGCCGACAATGTGCCGAC 32 55 0 AAACGCGACA 0.509385 -90 TGGGAAAGTAAAAATCCGCGGCATGATATAGCA 38 31 1 AAACCCGGCA 0.773499 -194 CCGAAATATGCGTATCCACAGCATCAGGAAGTG 48 47 0 CTACCCAGCA 0.487313 -254 TCATTATACCCCCACCCCCGACGCTGACCAGTG 48 198 1 CCACCCGACG 0.598455 -103 TACTGAAACGACAAGCGACAGCGGGCTGAATGG 55 62 1 AAACGCAGCG 0.813723 -140 GGCTACAACCAAAAACCCCTGCGTTTCGCGATT 56 192 0 AAACCCTGCG 0.36785 -109 GTACTGACTGCGTACCGGCTGCGAATGGATGTT 57 13 0 CTACGCTGCG 0.534303 -107 ACCCTTTCTCATCAACGACTGCATGCTGAGAGG 62 40 1 ACACGCTGCA 0.737798 -261 GAAATCGAAAACAAACGACAGGAT 65 184 1 AAACGCAGGA 0.382195 -14 ATTTCATTTCAGCAGCGTCAGCAGCCAATCAGC 68 54 0 ACACGCAGCA 0.887823 -247 TAATGACGTACGAAACGTCAGCGGTCAACACCC 69 144 1 CAACGCAGCG 0.850184 -157 TTGTCCTTGCACAATCGGCGGGAAAAATATTCA 73 60 1 AAACGCGGGA 0.62219 -197 CGGAACTTTCCGCAGCCACGGCCTTATCATGCT 77 77 0 CCACCCGGCC 0.719145 -84 AAGATTGCAGCACAGCGACGGCAGGGTGTAAAC 77 110 0 CCACGCGGCA 0.964752 -51 CTAAATACATAGAATCCCCAGCACATCCATAAG 95 265 1 AAACCCAGCA 0.56195 -36 GAATTTTCCTAACATCGCCAGCGCGGCATTAAG 108 71 0 ACACGCAGCG 0.909891 -169 AAGCAGAGCGCTTATCCCCGGCAAAGAGCAATA 121 20 1 CTACCCGGCA 0.716738 -111 CTTCGTCAAAAGTATCGACGGGGATCGCTACCA 121 75 1 ATACGCGGGG 0.545119 -56 GCTCACAGGGATCAACGACGACGCGTTAAAACA 122 225 1 ACACGCGACG 0.753816 -62 * ** ** ***** Masking position 4 Map Score: 15.0665 Number of sites scoring better than the average of aligned sites = 2992 Number in coding regions = 2898 Number in noncoding regions = 94 Number of orfs with sites within 600 bp upstream = 98 Fraction of orfs with sites within 600 bp upstream = 0.0157404 Motif number 12 GAAACATTGCCTGAAACGTTAACTGAAACGC 18 83 1 CTGAAACGTA 0.901088 -156 GAAACGTTAACTGAAACGCATATTTGCGGAT 18 95 1 CTGAAACGAT 0.798514 -144 CCCGTTGCTACTGAAACGACAAGCGACAGCG 55 54 1 CTGAAACGCA 0.631757 -148 TAGCCCTTATCTGAATCGATTCGATTGTGGA 56 220 1 CTGAATCGTT 0.901088 -81 CAAGATCGCGCTGAAACGTTTCAAGAAAGCA 68 203 0 CTGAAACGTT 0.94649 -98 CTCATAGAGGCTGAATCGTTTCAATTCAGCA 68 267 1 CTGAATCGTT 0.901088 -34 TTGGCTTTTCCTGTAACGATTAATTTCGCGC 69 60 0 CTGTAACGTT 0.826272 -241 AAAGCCAAAGCTGAATCGATTTTATGATTTG 69 83 1 CTGAATCGTT 0.901088 -218 AATGCCGATGCTGAAACGGAATTAAGAAACC 73 176 0 CTGAAACGAA 0.671176 -81 ATGAAAGTCACTGAAACGAGAGTAGCTTGCG 80 101 0 CTGAAACGGA 0.759458 -148 AAATCTGGCACTGAATCGGTTAACTGTCCAG 94 182 0 CTGAATCGTT 0.901088 -119 TATTGCTGACACGGTTTTCCCCTCAC 100 6 1 CTGACACGTT 0.705876 -92 AGGTAAGGTGCTGAATCGCTTAACGATCGAC 114 23 0 CTGAATCGTT 0.901088 -246 CCTGTTGTCCTGTAACGTGTTGTTTAATTA 120 281 0 CTGTAACGGT 0.622405 -20 TCCCTCTTAACTGTAACGGTATGGACCTTAT 122 134 1 CTGTAACGTA 0.710108 -153 ******** ** Masking position 2 Map Score: 10.4259 Number of sites scoring better than the average of aligned sites = 108 Number in coding regions = 88 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 13 CTCAGCTCCGTAAACTCCTTTCAGTGGGAAAT 1 244 1 TACTCCTTTC 0.756774 -57 ATTCTCGAGCTTGCCGCCTTTCTGCAACTCGA 8 39 0 TTCGCCTTTC 0.930246 -219 AGGCAATGTTTCACCGCGTTTCATTGCAACAA 18 63 0 TCCGCGTTTC 0.65481 -176 AGAACCCTATTTGGCTCGTTTCAAGCCGTATT 25 26 1 TTCTCGTTTC 0.845544 -307 TATCGCAAATTAAACGCGTGTCTTTTGTGAGT 25 143 1 TACGCGTGTC 0.64941 -190 TCAGGTCGGATTGACGCCTGTCTGCGCAAATC 25 249 1 TTCGCCTGTC 0.80973 -84 TGCGGGCAAAGTAACGCCTTTCCGGGTGTGAA 39 22 0 GTCGCCTTTC 0.733387 -59 GGCGGTGAACTTTACTCGTTTTAGCCATTAAT 47 33 0 TTCTCGTTTT 0.713605 -262 ACCAGTGCTTTTCCCGCGTTTTTATTTGCCAG 48 224 1 TTCGCGTTTT 0.845543 -77 GTCTATACCGTATACTCCTTTCAGCCACAAAA 54 180 1 TACTCCTTTC 0.756776 -119 GTTTTGCCTATTAACGCCTTTCTATTAAGCAA 80 45 1 TTCGCCTTTC 0.930242 -204 TGACGCAAGCTACTCTCGTTTCAGTGACTTTC 80 98 1 TACTCGTTTC 0.737262 -151 TAAGGTTTAGTTATCTCCTTTTCCATTAAGGC 83 65 0 TTCTCCTTTT 0.734241 -102 GATATGGCGTTAACCGCCTGTCCGGCAAACCT 85 25 1 TACGCCTGTC 0.685674 -120 TTCGACCATCGTCACGCCTTTTGTCTGCAGAA 104 147 0 GTCGCCTTTT 0.55614 -154 TACGGTAAACTAGCCTCGTTTTTGCATCAGGA 112 271 1 TACTCGTTTT 0.560867 -30 TTTCTCTCCTTTTAGTCATTCTT 113 2 1 TTCTCCTTTT 0.734241 -155 GCTATAACAGTTACCGCGTTTTATTCATCCTC 123 111 1 TTCGCGTTTT 0.845543 -190 TTTGTTCAGCTTTGCGCGTTTTCACGTGAACG 123 233 1 TTCGCGTTTT 0.845544 -68 ** ******** Masking position 9 Map Score: 8.81114 Number of sites scoring better than the average of aligned sites = 307 Number in coding regions = 263 Number in noncoding regions = 44 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 14 TATTTGTGGTATAAAGCGCGCCGGACTTCCGAT 7 128 1 ATAACGCGCG 0.620325 -173 CTCCCCCTTCATATTTCGCGCCGCAGATGCGTT 8 118 0 ATTTCGCGCG 0.963414 -140 ATCATTGTCATCTTTCGGGCTGGTCTTCTGCC 33 10 1 ATTTCGGGCG 0.825505 -163 GTCGGCGCGTATAATGCGCGCGGTTATGTTAAC 33 124 1 ATATCGCGCG 0.946942 -49 GGGGTTGTTTAACATACCCGCTGTCATTCCATT 34 39 0 AAATCCCGCG 0.885776 -72 GAAAGGCGTTACTTTGCCCGCAGCTTAGTCGTC 39 32 1 ACTTCCCGCG 0.870322 -49 CAAAATGCTCATGTTGCGCGCAGTCTGCGTGGT 44 23 1 ATTTCGCGCG 0.963414 -188 AAAACGAGTAAAGTTCACCGCCGAAAATTGGGC 47 43 1 AATTACCGCG 0.570609 -252 TCACCTGAATATTTTTCCCGCCGATTGTGCAAG 73 65 0 ATTTCCCGCG 0.975059 -192 CGAGTATTTTATTTTTACCGCCGGACGGTACCC 76 255 1 ATTTACCGCG 0.819517 -46 TATTTACAGAATATTACCCGCCGTGGTTAGCGA 86 123 0 ATTTCCCGCG 0.975059 -87 AAATTCCCTGATAATTGCCGCGGACTTTCTGCG 93 16 1 ATATGCCGCG 0.721191 -177 TCAATAACGGATTATCCCCGCTGACGAAAGCGC 104 183 0 ATATCCCGCG 0.963633 -118 CTATGGCGATATAATACCTGCTGACAACTAAAC 120 192 1 ATATCCTGCG 0.635736 -109 ACGTTTGTGAAAGTTACGGGCTGGAGAGACCAG 123 162 0 AATTCGGGCG 0.58063 -139 ** ** ***** * Masking position 1 Map Score: 8.29738 Number of sites scoring better than the average of aligned sites = 273 Number in coding regions = 243 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 15 TAAAAAATATTGCCCTGAGCAAGGAGCCAG 24 25 0 TGCCCTGAGC 0.859216 -35 GCCACATTTTTGCCCTCAACGGTTTTACTC 30 67 1 TGCCCTCAAC 0.917353 -132 CGCATTTTTTCGCCCGCAACCAAAATTTGT 38 161 0 CGCCCGCAAC 0.850964 -64 GGCGTTACTTTGCCCGCAGCTTAGTCGTCA 39 36 1 TGCCCGCAGC 0.813229 -45 GGCGCTTAGATGCCCTGTACACGGCGAGGC 47 212 1 TGCCCTGTAC 0.795137 -83 AAAACTGCCCTCATCGACGATTATC 54 284 0 TGCCCTCATC 0.852002 -15 CGGCGCAACTTGCCCCGCACCAAATAAAAA 57 52 0 TGCCCCGCAC 0.868329 -68 TAAAGCATCACGCCCCGCACAAGGAAGCGG 72 196 0 CGCCCCGCAC 0.844149 -60 GCTGCAATCTTGCCCCCAACAACAGTGAAT 77 132 1 TGCCCCCAAC 0.901295 -29 AACTTGCCCTCTACCGCTTTGCGG 98 120 0 TGCCCTCTAC 0.815537 -14 TTTTTTCGGGCGCCCCGAGCCTTGTAGAGA 103 95 0 CGCCCCGAGC 0.804829 -67 GCGGGCGTCCTGCCCGCCACCCTCCGGGCC 112 132 0 TGCCCGCCAC 0.85117 -169 TTAGCGCCCTCATCAGGAGCAGAG 117 14 0 CGCCCTCATC 0.825427 -14 GTGGCTGAAATGCCCTGTTCAGTCAGGAAC 122 78 0 TGCCCTGTTC 0.668111 -209 TTAATGGCGCCGCCCTGCTCACAGGGATCA 122 209 1 CGCCCTGCTC 0.77349 -78 ********** Masking position 5 Map Score: 9.34653 Number of sites scoring better than the average of aligned sites = 258 Number in coding regions = 231 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604