AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00500_bsub_reg_300.orf -o00500_bsub_300.ace -a/home/amcguire/alignace/lib/ORF_bsub.txt -z/skink1/amcguire/genomes/bsub.fna -g0.44 -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 = 0.44 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: ycdG 24 similar to oligo-1,6-glucosidase Input sequences: #1 spoIIE 300 serine phosphatase #2 yabS 84 similar to hypothetical proteins #3 yabT 88 yabT #4 ybbD 27 alternate gene name: yzbA; similar to beta-hexosaminidase #5 ybbE 84 similar to beta-lactamase #6 ybbF 25 similar to sucrose phosphotransferase enzyme II #7 ybbI 170 similar to hypothetical proteins #8 ybbK 300 ybbK #9 ybfT 218 similar to glucosamine-6-phosphate isomerase #10 rapJ 122 response regulator aspartate phosphatase #11 ycdF 106 similar to glucose 1-dehydrogenase #12 ycgA 300 similar to hypothetical proteins #13 ycgB 115 ycgB #14 amyE 148 alpha-amylase #15 yckC 300 similar to hypothetical proteins from B. subtilis #16 yckD 81 yckD #17 yckE 153 similar to beta-glucosidase #18 ycnL 164 ycnL #19 mtlA 172 phosphotransferase system (PTS) mannitol-specific enzyme IIABC component #20 yerE 264 similar to hypothetical proteins #21 yerF 61 similar to ATP-dependent DNA helicase #22 yfnI 300 alternate gene name: yetP; similar to hypothetical proteins #23 yfnH 235 similar to glucose-1-phosphate cytidylyltransferase #24 yfnG 69 similar to CDP-glucose 4,6-dehydratase #25 treP 192 phosphotransferase system (PTS) trehalose-specific enzyme IIBC component #26 treA 70 trehalose-6-phosphate hydrolase #27 glvA 300 6-phospho-alpha-glucosidase #28 yfiA 64 similar to hypothetical proteins #29 ykvY 300 similar to Xaa-Pro dipeptidase #30 ykvZ 281 similar to transcriptional regulator (LacI family) #31 glcT 62 transcriptional antiterminator (BglG family) #32 ptsG 238 phosphotransferase system (PTS) glucose-specific enzyme IIABC component #33 mobA 136 molybdopterin-guanine dinucleotide biosynthesis protein A #34 moeB 50 molybdopterin biosynthesis protein #35 yknU 223 similar to ABC transporter (ATP-binding protein) #36 yknW 109 yknW #37 fruR 279 transcriptional regulator (DeoR family) #38 yloB 115 similar to calcium-transporting ATPase #39 alsT 300 amino acid carrier protein #40 bglC 275 endo-1,4-beta-glucanase #41 yngA 300 yngA #42 ypqE 137 similar to phosphotransferase system enzyme II #43 ypbB 265 ypbB #44 yqgQ 109 yqgQ #45 yqgP 89 similar to hypothetical proteins #46 yqgO 66 yqgO #47 yqgN 300 similar to 5-formyltetrahydrofolate cyclo-ligase #48 sacC 156 levanase #49 levD 189 phosphotransferase system (PTS) fructose-specific enzyme IIA component #50 levR 300 transcriptional regulator (NifA/NtrC family) #51 ytdA 171 alternate gene name: yzwA; similar to UTP-glucose-1-phosphate uridylyltransferase #52 glgD 23 ADP-glucose pyrophosphorylase #53 glgB 300 1,4-alpha-glucan branching enzyme #54 pgi 111 glucose-6-phosphate isomerase #55 yugK 103 similar to NADH-dependent butanol dehydrogenase #56 yugJ 229 similar to NADH-dependent butanol dehydrogenase #57 comQ 184 transcriptional regulator #58 degQ 300 alternate gene name: sacQ #59 yvgX 80 similar to heavy metal-transporting ATPase #60 yvgY 73 similar to mercuric transport protein #61 yvgZ 127 similar to hypothetical proteins #62 sacB 300 levansucrase #63 yvdH 39 similar to maltodextrin transport system permease #64 yvdG 95 similar to maltose/maltodextrin-binding protein #65 yvdF 112 similar to glucan 1,4-alpha-maltohydrolase #66 yvdE 205 similar to transcriptional regulator (LacI family) #67 yvdD 116 similar to hypothetical proteins #68 gtaB 245 UTP-glucose-1-phosphate uridylyltransferase #69 sacP 300 phosphotransferase system (PTS) sucrose-specific enzyme IIBC component #70 licB 127 phosphotransferase system (PTS) lichenan-specific enzyme IIB component #71 licR 162 transcriptional regulator (antiterminator) #72 yxzF 28 yxzF #73 yxlJ 128 similar to DNA-3-methyladenine glycosidase #74 bglP 300 phosphotransferase system (PTS) beta-glucoside-specific enzyme IIABC component #75 dnaC 169 replicative DNA helicase Motif number 1 TTTGGTATTGTTACCTTCTTTTGACAAAATC 1 221 1 TTCCTTCTTT 0.806697 -80 AATTCCATTGGCCCCTTTACCAAGCTGT 3 71 0 TTGCCCCTTT 0.713068 -18 AGGCTAGCCCCTTTCTGTGCTTCT 5 71 0 CTGCCCCTTT 0.767762 -14 GAGGATGCCCCCTGTTTTAAAATGATAT 7 153 0 CCCCTGTTTT 0.900332 -18 CTACAGGTTCTCTGCTTTTTTTGTGCTGTTT 11 25 1 TCGCTTTTTT 0.759158 -82 GTCAGATTGATCAGCTTTTTTACTTCTCTAC 12 272 1 TCGCTTTTTT 0.759158 -29 CATTCTTCCGCTTCCTCCTTTCAAACCGATG 14 66 0 CTCCTCCTTT 0.886409 -83 TGGTTCGCTCTTTTTATTTTTATG 16 4 1 TTGCTCTTTT 0.834302 -78 ATATAAACCCTCCCTGTTTTGTTTGTCGCT 19 153 0 CTCCTGTTTT 0.911233 -20 CTCTCAGCCTCCCTTTTTATGTAACCAT 20 8 1 CCCCCTTTTT 0.830082 -257 AACGTTCCCTTTTCCCGTTTTCAATTTAAAT 26 34 1 TTCCCGTTTT 0.84427 -37 TTTGGTTTTTTTACCTTTTTTGTAATCTTAA 27 130 0 TTCCTTTTTT 0.855912 -171 TTTGGGAATTTCCGCTCCTTTTATCGGGATG 29 68 0 TCGCTCCTTT 0.756856 -233 AGATTCCCTTCTTTCTAAATCCCC 30 268 0 TTCCTTCTTT 0.806697 -14 CGAGAATGAACTTCCCGTTTTTTTCCCTCAA 32 70 0 CTCCCGTTTT 0.878226 -169 ACCGTTTACATTTGCCCTTTTACACAACAAA 32 133 0 TTGCCCTTTT 0.779608 -106 AAGAATTGACCTCCTCTTTTTACTAGTCTG 32 219 0 CCCCTCTTTT 0.907187 -20 ATTTACCTCCCGTTTTCATCAATTCA 39 285 0 CCCCCGTTTT 0.863877 -16 TATCGCCACCGCCTTTTTTAACCAGATTA 42 9 1 CCCCTTTTTT 0.874271 -129 AAATCGTTGATTTGCTCTTTTTATTTTAACA 43 218 0 TTGCTCTTTT 0.834302 -48 GGAAAGGAAGCTGGCTTTTTTGTCAGCGTTT 44 22 1 CTGCTTTTTT 0.826542 -88 TTTCAAAGCTCTGGCTTTTTTCTTACACCTC 47 241 0 CTGCTTTTTT 0.826542 -60 GAAAAAGGTTCTGGCTTTTTTTCTATTCCGA 47 268 1 CTGCTTTTTT 0.826542 -33 CTATTGCTCCTTTCCTGTTTTGTACATCCAT 49 167 0 TTCCTGTTTT 0.885279 -23 GAATCACGAACCAGCCCTTTTTTAATAGGAT 51 51 0 CCGCCCTTTT 0.80548 -121 CAAACGGCTATTTCCCCTTTTT 55 2 0 TTCCCCTTTT 0.854357 -102 CGTTTGGCTGCTTCCCTTTTTCTTTTTTGTC 55 27 1 CTCCCTTTTT 0.847364 -77 CTCGCTTATATCAGCTTCTTTCCCAGCACCT 56 110 1 TCGCTTCTTT 0.688907 -120 ACTGGTCTATTTTCCTCTTTTGTTTGATAGA 62 47 0 TTCCTCTTTT 0.893046 -254 ATTTTAGGTCTTGCCTGCTTTATCAGTAACA 62 133 0 TTCCTGCTTT 0.84427 -168 CGTTCATGTCTCCTTTTTTATGTACTGTG 62 282 0 TCCCTTTTTT 0.839414 -19 GTTTCCCCCTTTGATTTCCGTT 65 101 0 TTCCCCCTTT 0.804733 -12 GTCTTTTCCTGCTTTCTTTCATGAT 69 5 1 TTCCTGCTTT 0.84427 -296 ATTTTAGGTCTTGCCTGCTTTACCAGTCACA 69 194 0 TTCCTGCTTT 0.84427 -107 CTATTTCTCCCCCTTTTATTTAAACAA 69 284 0 CTCCCCTTTT 0.886409 -17 TCCCGGCTGTTTTTTTATAGGTC 71 3 1 CCGCTGTTTT 0.844895 -160 TGGTTGGCCCTCCTTTTTTGAACGGTAAC 73 9 1 CCCCTTTTTT 0.874271 -120 CATTTAGGTTTTGCCTGCTTTCGCAGTAACA 74 130 0 TTCCTGCTTT 0.84427 -171 CCGCCTTTCACCAGCTTTTTTTGTATCAAAT 74 236 0 CCGCTTTTTT 0.807439 -65 AAATTGTCTGTTTCCTGTTTTTTTCAGTTAG 75 79 0 TTCCTGTTTT 0.885279 -91 ** ******** Masking position 9 Map Score: 47.3334 Number of sites scoring better than the average of aligned sites = 1239 Number in coding regions = 866 Number in noncoding regions = 373 Number of orfs with sites within 600 bp upstream = 375 Fraction of orfs with sites within 600 bp upstream = 0.0602313 Motif number 2 CAAATATGGTAGCGGCGGAGGGGATC 1 3 0 AGGGGAGGGA 0.932393 -298 TGCATACAGAATGGGGAGAATGAA 9 1 0 AGGAGAAGAA 0.942008 -218 CATAAATAGTAGCAGGAGGAAGGAGGCAGACCG 10 100 1 AAGAGGAGGA 0.864831 -23 GAAAGGAGGAAGCGGAAGAATGAAGTAAGAGGGA 14 75 1 AGGAGAAGAA 0.942008 -74 CTTTCCAAACAATAGCAGAAGGAATCTGGTGAAA 20 54 1 AAGAGAAGAA 0.775462 -211 GTAACAAACGAATGGAGGAACGTATGAC 20 247 1 AGGGGAAGTA 0.667858 -18 GAAACCAATCACTGGACGAAAGAAACCTTCATTT 22 141 0 AGGCGAAGAA 0.846676 -160 GAAAGAAGGAATTGGAAGGCAGGATATAAAGAGC 22 269 1 AGGAGGCGGA 0.953919 -32 TTTCATAAGAATTGGAAGGGCGTATATTCACTTA 27 75 1 AGGAGGGGTA 0.799379 -226 AACCTGTTACAATGGAAGACAGAACAATGCATTG 29 254 1 AGGAGACGAA 0.917856 -47 ATGCATTGCAAATGGCAGGGAGGAACAAGAA 29 280 1 AGGAGGGGGA 0.966305 -21 ATACAGAAAAACCGGACGGCTGAAATGCCGTCCG 35 15 0 AGGCGGCGAA 0.83898 -209 AGAGCAGGGGAGTGGACGAGCGGA 38 102 1 AGGCGAGGGA 0.876656 -14 GTTGAAGTGAATGAGAAGGGAGAAAATACA 42 118 1 AAGAGGGGAA 0.81866 -20 AACAAACCCTATTGGCAGGAGGGATATC 46 49 1 AGGAGGAGGA 0.967839 -18 TTCAAACATGAAGAGAGGAGCGAAGGAACAA 48 136 1 AAGGGAGGAA 0.684649 -21 CATTTATTGTATCGGTAGAACGAAAAAAAAGACT 57 27 0 AGGAGAAGAA 0.942008 -158 AGTAAAATGGAATGGGAGGGGGGAAGTCGTTATT 57 122 1 AGGAGGGGGA 0.966305 -63 CCATCTTCAAACAGGAGGGCTGGAAGAAGCAGAC 62 242 1 AGGGGGCGGA 0.931766 -59 CGTCCGGAAGAATAGAGGGCGGAAAA 63 24 1 AAGGGGCGAA 0.682507 -16 TAGTTTCGTAAATAGAAGGAGGAAAAGAG 64 77 1 AAGAGGAGAA 0.825702 -19 GATTCAGTGAATAGGCAGAAAGGATGATGAAGGG 71 109 0 AGGAGAAGGA 0.956405 -54 AATAAAACATAAGGGAGGAATGAAAG 75 3 0 AGGGGAAGAA 0.914642 -167 TTTCTGTAGAAATGGTAGAATGGAGGTTGGAGAT 75 120 1 AGGAGAAGGA 0.956405 -50 * ** **** *** Masking position 1 Map Score: 27.8804 Number of sites scoring better than the average of aligned sites = 334 Number in coding regions = 259 Number in noncoding regions = 75 Number of orfs with sites within 600 bp upstream = 83 Fraction of orfs with sites within 600 bp upstream = 0.0133312 Motif number 3 AGAAGCCGATTTTTTTCATTTTTAGACAAC 1 136 1 TTTTTTCATT 0.906387 -165 GCAATCCGTTCTTTTTCATTGAGACCATAA 9 32 1 CTTTTTCATT 0.921835 -187 AAAGAAATCCTTTTTTTATTTCCGAGAAAA 22 99 1 TTTTTTTATT 0.868187 -202 GTGACAAATACGTTTTTATTTTTCCAGAAA 24 22 0 CGTTTTTATT 0.760103 -48 GAACAAAGTCCTTTTTTATTTCTA 30 5 0 CTTTTTTATT 0.889169 -277 CATTTGATGATTTTTTTATTTAATGCAGAT 30 53 0 TTTTTTTATT 0.868187 -229 TATAAAAGACTTTTTTCATTAAAATAAGAA 37 63 1 TTTTTTCATT 0.906387 -217 AAAATGAATACGTTTTCATTAGGAGGTGAA 37 258 1 CGTTTTCATT 0.823248 -22 TTGCAAGGAATGTTTTTATTCGTAGGAAAA 39 121 1 TGTTTTTATT 0.722318 -180 TTGAATGCAGCTTTTTCATTATTGGAAATA 40 42 1 CTTTTTCATT 0.921835 -234 TCCAATAGTTTTTTTTCATTATAACAGCTG 45 61 0 TTTTTTCATT 0.906387 -29 ACAGGTTTATTTTTTTCGTTTTAAGTGTTT 49 59 1 TTTTTTCGTT 0.792697 -131 TTGTGTTAAGCGTTTTCATTGTTATTTCAG 49 109 0 CGTTTTCATT 0.823248 -81 TCCTGCAAGGTTTTTTTGTTTTTATAAATC 53 96 1 TTTTTTTGTT 0.722318 -205 GGAAAGGGCTTTTTTTTATTTCTTCGAATA 53 239 1 TTTTTTTATT 0.868187 -62 AACAAGTCTTTTTTTTCGTTCTACCGATAC 57 23 1 TTTTTTCGTT 0.792697 -162 ATTTTAGGTCTTTTTTTATTGTGCGTAACT 62 206 1 TTTTTTTATT 0.868187 -95 AGGGAAATCTCTTTTTTATTTCTCTTTGGC 66 109 1 CTTTTTTATT 0.889169 -97 CACAGCGATCCTTTTTCATTTACGCAAATT 69 222 0 CTTTTTCATT 0.921835 -79 AATTTTAGGTCTTTTTTGTTTAAATAAAAG 69 269 1 CTTTTTTGTT 0.760103 -32 GTCATTTAGGTTTTTTTATTCTCTTTTAGG 74 194 1 TTTTTTTATT 0.868187 -107 ********** Masking position 5 Map Score: 24.3102 Number of sites scoring better than the average of aligned sites = 684 Number in coding regions = 456 Number in noncoding regions = 228 Number of orfs with sites within 600 bp upstream = 234 Fraction of orfs with sites within 600 bp upstream = 0.0375843 Motif number 4 ACCGCCGTGAAAGGGCGGTGTCTTAACCGC 1 54 0 AAGGGCGGTG 0.972581 -247 TAAAGGACGGCGAAGAATCGGG 7 3 1 AAGGACGGCG 0.601554 -168 TACCGCGTGAAAGGGCGGTGCTTAACCGTT 8 94 1 AAGGGCGGTG 0.972581 -207 ACAGTTTGATAAGGGCGGTGCTAAATTCGT 9 132 1 AAGGGCGGTG 0.972581 -87 ATAGTAGCAGGAGGAAGGAGGCAGACCG 10 105 1 GAGGAAGGAG 0.695105 -18 GTGAGAAACAGAGGAGGATATCAAGT 11 91 1 GAGGAGGATA 0.527338 -16 CCGCGTGACAAAGGGGGATGTCACGACCGC 12 205 1 AAGGGGGATG 0.932636 -96 ATCGGTTTGAAAGGAGGAAGCGGAAGAATG 14 67 1 AAGGAGGAAG 0.788854 -82 AGATCTTAATGAAGAGGGTGTATGA 18 6 0 GAAGAGGGTG 0.433172 -159 GCAGATAAAAAAGGACGATGTCGAGAACAA 30 29 0 AAGGACGATG 0.812841 -253 TTAACATCATGAGGGAGATGGTTCGA 33 7 0 GAGGGAGATG 0.767303 -130 TCTGGTTAAAAAAGGCGGTGGCGATA 42 7 0 AAAGGCGGTG 0.748418 -131 AGTGAATGAGAAGGGAGAAAATACA 42 123 1 AAGGGAGAAA 0.520751 -15 AGTCATCATTAAGGGGGATGTTATGTAGAT 43 162 0 AAGGGGGATG 0.932636 -104 TTTCTATTCCGAGGGGGATGAGAG 47 287 1 GAGGGGGATG 0.918947 -14 TTACTGAAGAGGGGGCAGAGTCA 52 9 1 GAGGGGGCAG 0.647476 -15 ACCGCCGTGAAAGGGCGGTGTCTTAACCGC 53 21 0 AAGGGCGGTG 0.972581 -280 ACCCAAAGGGCGGAATCCAGTCATT 54 6 1 AAGGGCGGAA 0.905412 -106 GTCAAGAAGAAAGGGCGGAATGACTGGATT 54 24 0 AAGGGCGGAA 0.905412 -88 AATGGAATGGGAGGGGGGAAGTCGTTATTG 57 127 1 GAGGGGGGAA 0.886861 -58 CGGAAGAATAGAGGGCGGAAAA 63 28 1 GAGGGCGGAA 0.886861 -12 TCGTAAATAGAAGGAGGAAAAGAG 64 82 1 AAGGAGGAAA 0.539591 -14 ACGGAAATCAAAGGGGGAAAC 65 102 1 AAGGGGGAAA 0.788854 -11 TTTCGATCATAAGGAAGGTGCCTTTTAA 68 228 1 AAGGAAGGTG 0.763944 -18 TGTTTAAATAAAAGGGGGAGAAATAG 69 285 1 AAAGGGGGAG 0.719029 -16 AATAAAACATAAGGGAGGAATGAAAG 75 7 0 AAGGGAGGAA 0.735728 -163 TTTTTAATGAGAGGACGGTGCTTAGC 75 154 1 GAGGACGGTG 0.90111 -16 ********** Masking position 2 Map Score: 26.5336 Number of sites scoring better than the average of aligned sites = 384 Number in coding regions = 261 Number in noncoding regions = 123 Number of orfs with sites within 600 bp upstream = 127 Fraction of orfs with sites within 600 bp upstream = 0.0203983 Motif number 5 ATGTGCTGAATGTTAACGCTTTTAAGTGATTG 10 31 1 TGTTAACGTT 0.683531 -92 TAATTTTAAATGTAAGCGTTAACAAAATTCTC 14 25 1 TGTAAGCGTA 0.921521 -124 TCAAGAGGCATGAAACCGATCTTCAGAATAAA 15 194 1 TGAAACCGTT 0.799608 -107 GTATAGGGACTGTAAGCGTTTTAACATAGAGT 19 79 1 TGTAAGCGTT 0.93449 -94 CAGACTAGGATGAAAGCGCTATAAAAAAGTGT 25 91 1 TGAAAGCGTT 0.886806 -102 TAAATGGAATTGTAAACGTTATCAAGGAGGTC 27 274 1 TGTAAACGTT 0.820012 -27 AAAGGGCAAATGTAAACGGTTAAACTGGAAGA 32 144 1 TGTAAACGTA 0.789486 -95 AATGATTTTCTGTAAGCGTTTATTCTACATAT 35 83 1 TGTAAGCGTA 0.921521 -141 ACAATTTCATTGTAAACGCTATTTTCGGTTTA 37 222 0 TGTAAACGTT 0.820012 -58 CTGGCTTTTTTGTCAGCGTTTTCTTCTTGACT 44 32 1 TGTCAGCGTT 0.675414 -78 GAAATAACAATGAAAACGCTTAACACAACTGT 49 111 1 TGAAAACGTA 0.67317 -79 AGCCCTTTCCTGAAAGCGCTTATACTTATAGA 53 217 0 TGAAAGCGTA 0.865753 -84 TTATGTACTGTGTTAGCGGTCTGCTTCTTCCA 62 262 0 TGTTAGCGTT 0.871178 -39 ACTTTCGATTTGTTACCGATAACAGAATG 64 8 0 TGTTACCGTA 0.739263 -88 CGAAAGTTGTTGTAACCGCTTTCTATAGGACA 64 33 1 TGTAACCGTT 0.879013 -63 CTTTTCACCCTGTTACCGATAACAGAATAAGG 65 14 0 TGTTACCGTA 0.739263 -99 TCATAAATCATGATAGCGTTTTCGTCAACTAT 69 129 0 TGATAGCGTT 0.787871 -172 TGAGTGTTTATGAAAGCGATTTCATAATATGA 70 52 1 TGAAAGCGTT 0.886806 -76 CAGGGAATATTGTTACCGTTCAAAAAAGGAGG 73 19 0 TGTTACCGTA 0.739263 -110 ACACCAAAAATGAAAGCGTTGACATCTCACGA 74 49 1 TGAAAGCGTA 0.865746 -252 ******** * * Masking position 10 Map Score: 24.0142 Number of sites scoring better than the average of aligned sites = 137 Number in coding regions = 76 Number in noncoding regions = 61 Number of orfs with sites within 600 bp upstream = 80 Fraction of orfs with sites within 600 bp upstream = 0.0128493 Motif number 6 CTCTTGCAGAAGCCGATTTTTTTCATTTTTAGACAACAT 1 129 1 ACTTTTTTTT 0.861914 -172 AGTGGAAAATACCCTGTTTTTCCGAGTTGAAAACAGCAC 11 47 0 ACTTTTTCGG 0.88455 -60 TTTAAATGTCATACGTTTTTTCTTAGGCTGTGTTTCGGC 12 83 0 ACTTTTTCGT 0.939984 -218 TCCTTGGACAATTCCTTTTTTCATCACCTCTTCCCTTCA 15 67 0 ACTTTTTCAT 0.730278 -234 TATTCCTCCAATCCTATTTTTCATATGTTTTGCTGCCTT 16 47 0 ACTTTTTCTT 0.935184 -35 AAAGAATCAAAACACCTTTTTCAGTGAATAACGAGATTA 20 156 1 AATTTTTCGT 0.694611 -109 CTGTCTGCAAAACCTATTTTTCGTTTTTGCTAGTTTATG 22 11 1 ACTTTTTCTG 0.875903 -290 TGACAAAAGAAATCCTTTTTTTATTTCCGAGAAAAAAAT 22 94 1 ACTTTTTTTG 0.753298 -207 CCTTCGCTCAAGGCTCTTTTTTTGGTTATACAACCAACT 23 41 1 ACTTTTTTTT 0.861914 -195 GACCAAATGGAATCTATTTTTTCAAGTTGGTTGTATAAC 23 65 0 ACTTTTTTGG 0.768227 -171 AATGCACGTCAAACCTTTTTTCAATGCATTCA 31 4 0 ACTTTTTCGT 0.939984 -59 TGCAACATGCATGAGGTTTTTTTATGTTTAGTGATTTCT 37 16 1 AATTTTTTGT 0.495962 -264 AAGTTTCTATACACAATTTTTTTAATGATGTAGGATGTT 41 33 0 ACTTTTTTTT 0.861914 -268 TGAGCGGTATACCCGCTTTTTCATGTTTTGTTCATATTT 41 221 1 ACTTTTTCTT 0.935184 -80 AAAGCAAAAAATCCCGTTTTTCACGGGATT 45 2 0 ACTTTTTCGT 0.939984 -88 TTACCGCTCCAATAGTTTTTTTTCATTATAACAGCTGGC 45 59 0 AATTTTTTTT 0.475469 -31 TTTAAAGGACAGCAGGTTTTTCGTTTTTTAACAATCATA 57 73 0 AATTTTTCTT 0.676934 -112 CGTTTCCACACTCCTTTTTTTGAAAGATCAATGAATTG 58 273 0 ACTTTTTTAT 0.539447 -28 TGTTAAAAACACTCGATTTTTCATGGATTCATACGCTAG 66 54 0 ACTTTTTCGT 0.939984 -152 CAGCCTGTATATACCTTTTTTCCGTTGCTGCGGAAAAAC 70 11 1 ACTTTTTCTT 0.935184 -117 ATTTTAAAACAGCCGTTTTTTTTGATCTGCTTCGGGAAT 73 60 1 ACTTTTTTTG 0.753298 -69 AACAGGAAACAGACAATTTTTCTATTTTTTTTCTGTAGA 75 91 1 ACTTTTTCTT 0.935184 -79 * * ****** * * Masking position 10 Map Score: 19.8141 Number of sites scoring better than the average of aligned sites = 470 Number in coding regions = 397 Number in noncoding regions = 73 Number of orfs with sites within 600 bp upstream = 81 Fraction of orfs with sites within 600 bp upstream = 0.01301 Motif number 7 ATGGTAGCGGCGGAGGGGATC 1 2 0 CGGAGGGGAT 0.66425 -299 TCGTATTCTCCAGGAGGAATGAAT 2 71 1 CAGGAGGAAT 0.953688 -14 CATTTTAAAACAGGGGGCATCCTC 7 157 1 CAGGGGGCAT 0.751678 -14 TAAATAGTAGCAGGAGGAAGGAGGCAGACC 10 102 1 CAGGAGGAAG 0.710261 -21 TATTTTCAAACAGAGGGGATGGATCGAAAT 12 38 1 CAGAGGGGAT 0.900305 -263 TCAAATAATTCAGGAGTGATAAACACT 17 137 1 CAGGAGTGAT 0.838981 -17 CAAAACGAAACAGAAGGGACTCTGGTATAA 18 112 1 CAGAAGGGAC 0.692334 -53 CAAACAATAGCAGAAGGAATCTGGTGAAAA 20 59 1 CAGAAGGAAT 0.867254 -206 CGTTCAATCGCAGGGGGGTTGTTCCGTTTG 29 143 0 CAGGGGGGTT 0.695699 -158 ACAAATAGTACGGGAAGGATATCAAAAAGT 36 65 0 CGGGAAGGAT 0.763076 -45 TTATCGAATGCAGGAAGAATGAGAGGGTGT 38 12 0 CAGGAAGAAT 0.835554 -104 CGATTTTTGTCAGGAAGAATGTAGGTGGAT 43 243 1 CAGGAAGAAT 0.835554 -23 ACCCTATTGGCAGGAGGGATATC 46 54 1 CAGGAGGGAT 0.983494 -13 ACTATGATGTCAGAAAGGATGATTAC 53 285 1 CAGAAAGGAT 0.823453 -16 AAAGAATAAACAGGAGGAATTGAT 60 60 1 CAGGAGGAAT 0.953688 -14 CATCTTCAAACAGGAGGGCTGGAAGAAGCA 62 243 1 CAGGAGGGCT 0.876434 -58 ATAAAGAATGCAGGAGTGATGAGG 67 5 0 CAGGAGTGAT 0.838981 -112 AGTGAATAGGCAGAAAGGATGATGAAGGGA 71 108 0 CAGAAAGGAT 0.823453 -55 ********** Masking position 3 Map Score: 14.1522 Number of sites scoring better than the average of aligned sites = 192 Number in coding regions = 139 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 68 Fraction of orfs with sites within 600 bp upstream = 0.0109219 Motif number 8 CCCAGCTGAGCTAATCCTCCAAATGGTGACCCG 8 41 1 CTATCCTCCA 0.863098 -260 CATAATACCATTTGCCCTCCCAATATGAAAGAT 9 57 1 TTTCCCTCCA 0.874618 -162 ATATAAACCCTCCCTGTTTTGTTTGT 19 157 0 TAACCCTCCG 0.814578 -16 GCCAACCCCTCCGTATCCGTTTTTA 25 178 0 CAACCCTCCA 0.946148 -15 TTCTTGTTCCTCCCTGCCATTTGCAA 29 285 0 TTGTCCTCCG 0.468446 -16 TTCAAAACCTCCTTGAGAATATCTA 36 95 0 CAAACCTCCG 0.787442 -15 GCTTCACCTCCTAATGAAAACGTA 37 266 0 CTTACCTCCA 0.854701 -14 TGACAGGCTTTTAAACCTCCCCAAAACAAGAAA 40 183 1 TTAACCTCCA 0.807514 -93 AATCGAACACTAACTCCTCCAAAAGTTTCTATA 41 61 0 TAATCCTCCA 0.796315 -240 GAATAAAACCTCCCAGATTGTTCTTG 43 4 1 TAAACCTCCG 0.674741 -262 ACGCGCATTATTTTCCCTCCAAACTAAAATCAT 47 52 0 TTTCCCTCCA 0.874618 -249 TTGAAGGGGACTGGCCCTCCAGAACTGAGCATC 50 114 1 CTGCCCTCCA 0.898677 -187 GCTGCTGTCCCTCCATAACGGTATAAT 54 95 0 CTGCCCTCCA 0.898677 -17 AGTAAAACCTCCAAATGATGCTGGT 55 89 0 TAAACCTCCA 0.822877 -15 GACATCTCCTCCTTAGATTTTTTAT 56 215 0 CATTCCTCCA 0.845723 -15 CAGAAGTATATACCCTCCTGATCAAATGGTA 61 9 1 TATCCCTCCA 0.885385 -119 TTTCATCCCCTCCTTATCTGTGCTTA 66 190 0 CATCCCTCCA 0.93241 -16 AGTTTTCCCTCTAGTCCTCCGGATGTTCATTGA 71 34 1 CTATCCTCCA 0.863098 -129 TCAAATGCTGCATCACCTCCTAAAAGAGAATAA 74 209 0 CATACCTCCA 0.866919 -92 *** ****** * Masking position 8 Map Score: 15.8723 Number of sites scoring better than the average of aligned sites = 154 Number in coding regions = 91 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 81 Fraction of orfs with sites within 600 bp upstream = 0.01301 Motif number 9 CCTTTCACGGCGGTAACACGGGTTCGAATC 1 70 1 CGGTAACACG 0.981767 -231 CCCTTTCACGCGGTAACACGGGTTCGAATC 8 79 0 CGGTAACACG 0.981767 -222 ATAGCTCGTCCCGTAACACGTTTGGCGCAC 27 235 0 CCGTAACACG 0.911905 -66 CTGATCGAATCAGTAACACGTTATAAGGAT 32 30 0 CAGTAACACG 0.958296 -209 CCTTTCACGGCGGTAACACGGGTTCGAATC 53 37 1 CGGTAACACG 0.981767 -264 CCTGCTTTATCAGTAACAAACCCGCGCGAT 62 121 0 CAGTAACAAA 0.739405 -180 ATTCTGTTATCGGTAACAAATCGAAAGTTG 64 12 1 CGGTAACAAA 0.869259 -84 ATTCTGTTATCGGTAACAGGGTGAAAAGGA 65 18 1 CGGTAACAGG 0.925071 -95 CTTTTTTGAACGGTAACAATATTCCCTGAA 73 23 1 CGGTAACAAT 0.869259 -106 CCTGCTTTCGCAGTAACAATCCTGACGGGT 74 118 0 CAGTAACAAT 0.739405 -183 TCGTTTCGGACAGTAACAAGGCGGGAAAAA 75 40 0 CAGTAACAAG 0.935104 -130 ********** Masking position 5 Map Score: 10.8736 Number of sites scoring better than the average of aligned sites = 27 Number in coding regions = 16 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 10 ATAATTTTAAATGTAAGCGTTAACAAAATT 14 24 1 ATGTAAGCGT 0.915236 -125 TGTATAGGGACTGTAAGCGTTTTAACATAG 19 78 1 CTGTAAGCGT 0.85788 -95 CCAGACTAGGATGAAAGCGCTATAAAAAAG 25 90 1 ATGAAAGCGC 0.950053 -103 GCATTAGAAAATGAAGGCGTCGTGAAAGGC 29 212 1 ATGAAGGCGT 0.839062 -89 CAATGATTTTCTGTAAGCGTTTATTCTACA 35 82 1 CTGTAAGCGT 0.85788 -142 TCACCTCCTAATGAAAACGTATTCATTTTG 37 257 0 ATGAAAACGT 0.808415 -23 TGAAATAACAATGAAAACGCTTAACACAAC 49 110 1 ATGAAAACGC 0.725488 -80 AAGCCCTTTCCTGAAAGCGCTTATACTTAT 53 220 0 CTGAAAGCGC 0.914044 -81 ATCATAAATCATGATAGCGTTTTCGTCAAC 69 132 0 ATGATAGCGT 0.778645 -169 ATGATTTATGATGAAAGCGTATTCTTAATC 69 150 1 ATGAAAGCGT 0.968122 -151 CTGAGTGTTTATGAAAGCGATTTCATAATA 70 51 1 ATGAAAGCGA 0.827215 -77 AACACCAAAAATGAAAGCGTTGACATCTCA 74 48 1 ATGAAAGCGT 0.968122 -253 ********** Masking position 2 Map Score: 9.95914 Number of sites scoring better than the average of aligned sites = 112 Number in coding regions = 81 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 46 Fraction of orfs with sites within 600 bp upstream = 0.00738837 Motif number 11 AAGCGGTTAAGACACCGCCCTTTCACGGCG 1 52 1 GACACCGCCC 0.980928 -249 TAAACGGTTAAGCACCGCCCTTTCACGCGG 8 96 0 AGCACCGCCC 0.94727 -205 TTACGAATTTAGCACCGCCCTTATCAAACT 9 134 0 AGCACCGCCC 0.94727 -85 GTGACACCCCCTCAAAGAGATA 9 207 0 GACACCCCCT 0.786796 -12 CAGCGGTCGTGACATCCCCCTTTGTCACGC 12 207 0 GACATCCCCC 0.949739 -94 GACGCTTTTAAACACCCACCCATGCTTTTT 15 35 0 AACACCCACC 0.737357 -266 CAGCAAACGGAACAACCCCCCTGCGATTGA 29 140 1 AACAACCCCC 0.782058 -161 CTTTGTTCTCGACATCGTCCTTTTTTATCT 30 27 1 GACATCGTCC 0.74432 -255 TTATCTACATAACATCCCCCTTAATGATGA 43 160 1 AACATCCCCC 0.921912 -106 AAGCGGTTAAGACACCGCCCTTTCACGGCG 53 19 1 GACACCGCCC 0.980928 -282 GCTCAATAACGACTTCCCCCCTCCCATTCC 57 130 0 GACTTCCCCC 0.686391 -55 GCTAAGCACCGTCCTCTCATTAAA 75 156 0 AGCACCGTCC 0.734578 -14 ********** Masking position 6 Map Score: 8.0564 Number of sites scoring better than the average of aligned sites = 133 Number in coding regions = 97 Number in noncoding regions = 36 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 12 TCAGAATAAATTTAAGTCTTGCTGATGCCC 15 216 1 TTTAAGTCTT 0.685526 -85 TATGTTGTTTAGGATTTATTACTTTAT 39 8 1 TTTAGGATTT 0.640824 -293 AAATGAATCAGTTAGGTTTTACCATTTGAT 61 31 0 GTTAGGTTTT 0.725601 -97 CTTTACACATTTTAGGTCTTGCCTGCTTTA 62 142 0 TTTAGGTCTT 0.956964 -159 CCTTACATATTTTAGGTCTTTTTTTATTGT 62 198 1 TTTAGGTCTT 0.956964 -103 TTACGCAAATTTTAGGTCTTGCCTGCTTTA 69 203 0 TTTAGGTCTT 0.956964 -98 GTTGGCGAATTTTAGGTCTTTTTTGTTTAA 69 262 1 TTTAGGTCTT 0.956964 -39 ACCTGCACCATTTAGGTTTTGCCTGCTTTC 74 139 0 TTTAGGTTTT 0.918816 -162 ATCTGTGTCATTTAGGTTTTTTTATTCTCT 74 188 1 TTTAGGTTTT 0.918816 -113 ********** Masking position 4 Map Score: 6.61017 Number of sites scoring better than the average of aligned sites = 46 Number in coding regions = 33 Number in noncoding regions = 13 Number of orfs with sites within 600 bp upstream = 12 Fraction of orfs with sites within 600 bp upstream = 0.0019274 Motif number 13 GTAACACGGGTTCGAATCCCGTACGGGTCATCCTAACA 1 82 1 TTATCTCGGT 0.9697 -219 GTAACACGGGTTCGAATCCCGTACGGGTCACCATTTGG 8 59 0 TTATCTCGGT 0.9697 -242 GTCTCCGTCTCTAAAATCCTCTACGCTTAAATAGATCT 18 30 0 CTATCTCGCT 0.877035 -135 TGAAAAGGTTCTTTTGTACGATTCGGATACATGCCGAA 27 42 0 CTGTCTCGGT 0.849316 -259 AACCGGACGGCTGAAATGCCGTCCGGTTT 35 2 0 CTATCTCGGT 0.967669 -222 GTAACACGGGTTCGAATCCCGTACGGGTCATCCAGAAG 53 49 1 TTATCTCGGT 0.9697 -252 ATAAAACCATCTGGTATGCTGATCGGTGAGAGCTGATT 56 147 1 CTATCACGGG 0.704305 -83 AGCAGATATGTTTAGATTCTGTCCGGATCAAGGAGAAA 57 157 1 TTATCTCGGT 0.9697 -28 GCAGGACTTTTTTGCATACTTTTCGGTGAAAAATGAGC 58 178 1 TTATCTCGGG 0.952482 -123 GCGTTTTTTATTGTAATACCCTACGGGGGTATGGTAGG 60 12 1 TTATCTCGGG 0.952482 -62 CATTATAGAATTTATATACATTTCGCATCCCTTCATCA 71 81 1 TTATCTCGCT 0.884079 -82 ** ** * * *** * Masking position 7 Map Score: 6.49518 Number of sites scoring better than the average of aligned sites = 61 Number in coding regions = 45 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 CGGTCTGCCTCCTTCCTCCTGCTA 10 109 0 GCGCCTCCTT 0.987522 -14 CTCTCAGCCTCCCTTTTTATGTAA 20 3 1 CCGCCTCCCT 0.879468 -262 ATGACGACCTCCTTGATAACGTTT 27 287 0 GCACCTCCTT 0.885827 -14 TGACAAAAAAGCCAGCTTCCTTTCCATATTCC 44 15 0 GCGCTTCCTT 0.980248 -95 CTTCTTGACTGACCGCTTCCTTATGAATACGC 44 54 1 GCGCTTCCTT 0.980248 -56 ATAGCCGTTTGGCTGCTTCCCTTTTTCTTTTT 55 22 1 GCGCTTCCCT 0.972478 -82 GCGAGGGCAGGCCAGCTTCCCTCATATGGAGA 56 83 0 GCGCTTCCCT 0.972478 -147 GAGAGAATGAGTCTGCCACCTAGCGTATGAAT 66 35 1 GCGCCACCTA 0.755833 -171 TTAAAAGGCACCTTCCTTATGATCGAAA 68 228 0 GCCCTTCCTT 0.87821 -18 GCTGGTGAAAGGCGGCCACCTTTCATCCAGCA 74 252 1 GCGCCACCTT 0.956521 -49 * * ******** Masking position 6 Map Score: 8.00294 Number of sites scoring better than the average of aligned sites = 91 Number in coding regions = 79 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 15 AAAACATAGTTGAAATATCATAACAGAAATGAATA 7 102 1 TAATCATACA 0.932522 -69 AACGCTTACATTTAAAATTATCACAATCACTCTA 14 10 0 TAATTATACA 0.633697 -139 TTGTTACCATTTAAACATTATAACAAATTCACATA 20 219 0 TAATTATACA 0.634119 -46 GCTGGCTTTCTCTCATATCATTACAGTAGATTTTG 23 110 1 TAATCATACA 0.932571 -126 GTTCGAAACCTGGTACATCTTCACAATCTATCAAG 23 183 0 TAATCTTACA 0.49739 -53 TGCATTAAATAAAAAAATCATCAAATGTTCGAAAG 30 56 1 AAATCATAAA 0.590136 -226 GACCTTACAGCTAAAAATCATGACAACGAATTCAC 32 185 0 CAATCATACA 0.652382 -54 TTATCTAACATCCTACATCATTAAAAAAATTGTGT 41 27 1 TAATCATAAA 0.827005 -274 GAAATGTGGCAGCAACATCATTACAATAAGTAAGA 43 87 0 AAATCATACA 0.806427 -179 AAAATGAATCTTATAGATCATGACAAATTACCCAA 50 12 0 TAATCATACA 0.932578 -289 CATTGATTATTTTGACATCATTACATTCCCCGAGA 50 51 1 TAATCATACA 0.932576 -250 GATGCGCTCTTGGAATATCATGTAATAAACATGAG 51 131 1 TAATCATTAA 0.389479 -41 TTTTTTGTTTTTATAAATCATGATATGTCTTAGAT 53 107 1 TAATCATATA 0.636373 -194 TATAATGGGAATTAATATCATTAAACAGAGGTGTA 61 100 1 AAATCATAAA 0.590135 -28 TTTTGTTTGATAGAAAATCATAAAAGGATTTGCAG 62 26 0 TAATCATAAA 0.827005 -275 TGTATTTCATATTGATATTATCACATGAAGATGGG 67 34 1 AAATTATACA 0.342929 -83 AAATGCATCATTTTAAATCATTTCATTCTTGATTC 68 68 1 TAATCATTCA 0.648605 -178 AAATGGTTTATCCGATATCATAAAAATGTGTAAAA 68 149 1 TAATCATAAA 0.827005 -97 TACGCTTTCATCATAAATCATGATAGCGTTTTCGT 69 136 0 TAATCATATA 0.636374 -165 * * ***** *** Masking position 8 Map Score: 9.68441 Number of sites scoring better than the average of aligned sites = 127 Number in coding regions = 102 Number in noncoding regions = 25 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035