AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00530_bsub_reg_100.orf -o00530_bsub_100.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 Input sequences: #1 gcaD 192 UDP-N-acetylglucosamine pyrophosphorylase #2 glmS 300 L-glutamine-D-fructose-6-phosphate amidotransferase #3 ybfT 218 similar to glucosamine-6-phosphate isomerase #4 amhX 300 amidohydrolase #5 mtlA 172 phosphotransferase system (PTS) mannitol-specific enzyme IIABC component #6 treP 192 phosphotransferase system (PTS) trehalose-specific enzyme IIBC component #7 glvA 300 6-phospho-alpha-glucosidase #8 yfiA 64 similar to hypothetical proteins #9 yjbJ 203 similar to lytic transglycosylase #10 ptsG 238 phosphotransferase system (PTS) glucose-specific enzyme IIABC component #11 fruR 279 transcriptional regulator (DeoR family) #12 murG 122 UDP-N-acetylglucosamine-N-acetylmuramyl- (pentapeptide)pyrophosphoryl-undecaprenol N-acetylglucosamine transferase #13 murB 26 UDP-N-acetylenolpyruvoylglucosamine reductase #14 pksF 300 pksF #15 ypqE 137 similar to phosphotransferase system enzyme II #16 bfmBB 22 branched-chain alpha-keto acid dehydrogenase E2 subunit (lipoamide acyltransferase) #17 bfmBAA 73 branched-chain alpha-keto acid dehydrogenase E1 (2-oxoisovalerate dehydrogenase alpha subunit) #18 yqiS 124 similar to phosphate butyryltransferase #19 bltD 168 spermine/spermidine acetyltransferase #20 csn 300 chitosanase #21 levD 189 phosphotransferase system (PTS) fructose-specific enzyme IIA component #22 nagA 181 N-acetylglucosamine-6-phosphate deacetylase #23 yvyH 245 similar to UDP-N-acetylglucosamine 2-epimerase #24 lytD 128 N-acetylglucosaminidase (major autolysin) (CWBP90) #25 ywnE 242 similar to cardiolipin synthase #26 murA 33 UDP-N-acetylglucosamine 1-carboxyvinyltransferase #27 ywmB 128 ywmB #28 murZ 300 UDP-N-acetylglucosamine 1-carboxyvinyltransferase #29 sacP 300 phosphotransferase system (PTS) sucrose-specific enzyme IIBC component #30 licB 127 phosphotransferase system (PTS) lichenan-specific enzyme IIB component #31 bglP 300 phosphotransferase system (PTS) beta-glucoside-specific enzyme IIABC component Motif number 1 AATTCGATAACCTCCATCCTCGTCAACTAA 2 95 0 CCTCCATCCT 0.675433 -206 ACTTTCTTCGTCTCCTTTTACAATCTTAGG 2 269 1 TCTCCTTTTA 0.72869 -32 TTCATTCTCCCCATTCTGTATGCAATC 3 8 1 TCCCCATTCT 0.682371 -211 GTAAGAAATACCTCCTTCTATCAGAATGAA 4 280 0 CCTCCTTCTA 0.760134 -21 AGAGGCTCACCCTGCTTTTTAATGTCATAT 6 11 1 CCTGCTTTTT 0.84701 -182 ATGAAATTCCCCCATTTTCGAATCTGTA 8 9 1 CCCCCATTTT 0.89867 -56 ATCAGATCCCCCCATTTTCTTTCTATTA 8 47 0 CCCCCATTTT 0.89867 -18 ATACGGAAAGCCCGCTTTCAAGTTTCAGTT 9 110 1 CCCGCTTTCA 0.818803 -94 AAGAATTGACCTCCTCTTTTTACTAGTCT 10 220 0 CCTCCTCTTT 0.8245 -19 TATTTCCAAGCCTCCTGTCTAACATGAAGC 12 17 1 CCTCCTGTCT 0.867191 -106 TTCTTTTTTCCCCCAGTCTAAGTTTCTCT 12 104 0 CCCCCAGTCT 0.644352 -19 TATCGCCACCGCCTTTTTTAACCAGATT 15 9 1 CCGCCTTTTT 0.946668 -129 TCAAGCCCCTCCTTTATGCTTTTAAAA 17 57 0 CCTCCTTTAT 0.837653 -17 TGTTTCGACTCCGCCTTTTATTATGCAAGT 18 89 0 CCGCCTTTTA 0.895377 -36 CTGTTACCACCTTTCTTGTTTCGACT 18 109 0 CCACCTTTCT 0.922751 -16 ACTACATTCTCCTTTTTTCTTATCCCG 19 152 0 TCTCCTTTTT 0.847809 -17 TTCACTTCCCCTTTCTAAATATTGTA 20 285 0 TCCCCTTTCT 0.90413 -16 AGGTGTTTTCCCCCCTTTTATAAAATCTGT 22 90 0 CCCCCTTTTA 0.94942 -92 AGATGATCCGCCTTTCTGGAATTTGAA 22 165 0 CCGCCTTTCT 0.961045 -17 TCCTTCTCCTCTTTCTTATTCTAT 24 115 0 TCTCCTCTTT 0.450187 -14 ATAATCCTCCCCCTTTATTTGATGTTTC 25 9 1 CCCCCTTTAT 0.862726 -234 GATAGTCTCCTTCCATAAGAAGATA 28 286 0 TCTCCTTCCA 0.434273 -15 GTCTTTTCCTGCTTTCTTTCATGATTG 29 8 1 CCTGCTTTCT 0.884989 -293 CTATTTCTCCCCCTTTTATTTAAACAAA 29 283 0 CCCCCTTTTA 0.94942 -18 CCGCCTTTCACCAGCTTTTTTTGTATCAAA 31 237 0 CCAGCTTTTT 0.598177 -64 TGAAAGGTGGCCGCCTTTCACCAGCTTTTT 31 247 0 CCGCCTTTCA 0.922448 -54 TGAAAGGCGGCCACCTTTCATCCAGCAGTC 31 257 1 CCACCTTTCA 0.852052 -44 GTGTATACCTCCTTTTTATGGGGGGAC 31 284 0 CCTCCTTTTT 0.969663 -17 ********** Masking position 5 Map Score: 32.6785 Number of sites scoring better than the average of aligned sites = 944 Number in coding regions = 508 Number in noncoding regions = 436 Number of orfs with sites within 600 bp upstream = 486 Fraction of orfs with sites within 600 bp upstream = 0.0780597 Motif number 2 CCAAAAAGCAAGGACTGCTGAAAGGGCTGACATAAGCC 1 18 1 ATGAAAGGGT 0.943395 -175 TTTCAATTGTATAGGGACTGTAAGCGTTTTAACATAGA 5 71 1 ATGTAAGCGT 0.960691 -102 ATATATTCCAGACTAGGATGAAAGCGCTATAAAAAAGT 6 83 1 GTGAAAGCGT 0.895048 -110 ACGCCCTTCCAATTCTTATGAAAAGGTTCTTTTGTACG 7 60 0 ATGAAAAGGT 0.932033 -241 TCATGGTATAAATGGAATTGTAAACGTTATCAAGGAGG 7 266 1 ATGTAAACGT 0.952628 -35 GTTGTGTAAAAGGGCAAATGTAAACGGTTAAACTGGAA 10 136 1 ATGTAAACGT 0.952626 -103 TTTTGAATACAATTTCATTGTAAACGCTATTTTCGGTT 11 224 0 ATGTAAACGT 0.952628 -56 ATGAAATTGTATTCAAAATGAATACGTTTTCATTAGGA 11 244 1 ATGAATACGT 0.825617 -36 TATTGGCTGAAATAACAATGAAAACGCTTAACACAACT 21 103 1 ATGAAAACGT 0.979635 -87 AAATGTGTAAAAACATATTGAAAAGGGTAAATAGAGAA 23 57 0 ATGAAAAGGT 0.932034 -189 CGTTAAAATAAACACATATGATAACGTTCGTGAAGCTT 25 39 0 ATGATAACGT 0.900257 -204 CGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACT 29 131 0 ATGATAGCGT 0.916462 -170 AAAAACCCTGAGTGTTTATGAAAGCGATTTCATAATAT 30 44 1 ATGAAAGCGT 0.983106 -84 GATAGTCAACACCAAAAATGAAAGCGTTGACATCTCAC 31 41 1 ATGAAAGCGT 0.983183 -260 * ******** * Masking position 9 Map Score: 16.4312 Number of sites scoring better than the average of aligned sites = 80 Number in coding regions = 50 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 42 Fraction of orfs with sites within 600 bp upstream = 0.0067459 Motif number 3 AAAGGCTTATGTCAGCCCTTTCAGCAGTCCTT 1 27 0 GTAGCCTTTC 0.807803 -166 TATAGGGACTGTAAGCGTTTTAACATAGAGTC 5 80 1 GTAGCGTTTA 0.666319 -93 AACACTTTTTTATAGCGCTTTCATCCTAGTCT 6 92 0 TAAGCGTTTC 0.756674 -101 CGACCTCCTTGATAACGTTTACAATTCCATTT 7 275 0 GAAACGTTAC 0.60595 -26 TAAAAATCATGACAACGAATTCACAGGCGTAA 10 177 0 GAAACGATTC 0.927432 -62 ACCTCCTAATGAAAACGTATTCATTTTGAATA 11 253 0 GAAACGATTC 0.675028 -27 CCCTTGAGGAGAGAGCGCATTATGGATAAACA 14 64 1 GAAGCGATTA 0.842611 -237 CACAGTTGTGTTAAGCGTTTTCATTGTTATTT 21 112 0 TTAGCGTTTC 0.666319 -78 CATAAATCATGATAGCGTTTTCGTCAACTATT 29 128 0 GAAGCGTTTC 0.712967 -173 GATTTATGATGAAAGCGTATTCTTAATCTGAA 29 152 1 GAAGCGATTC 0.705546 -149 GAGTGTTTATGAAAGCGATTTCATAATATGAT 30 53 1 GAAGCGTTTC 0.602863 -75 TTCGTGAGATGTCAACGCTTTCATTTTTGGTG 31 50 0 GTAACGTTTC 0.785516 -251 ** **** **** Masking position 4 Map Score: 10.4587 Number of sites scoring better than the average of aligned sites = 296 Number in coding regions = 235 Number in noncoding regions = 61 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 4 TTCAAACCAAGGGGGTGACTCCTTGAACAA 2 173 1 GGGGGTGACT 0.784496 -128 AAAACATGTAGGAGGGGACGATTGAAAGTC 2 226 1 GGAGGGGACG 0.98293 -75 ATTTTCAAACAGAGGGGATGGATCGAAATA 4 161 0 AGAGGGGATG 0.870545 -140 AAACGGATACGGAGGGGTTGGC 6 181 1 GGAGGGGTTG 0.86026 -12 GTTTTCATTAGGAGGTGAAGC 11 269 1 GGAGGTGAAG 0.954077 -11 AGTTGAGCTAGGAGCTGACTCTGTAGACAG 14 180 1 GGAGCTGACT 0.692602 -121 AAAGCATAAAGGAGGGGCTTGA 17 62 1 GGAGGGGCTT 0.830732 -12 AAATCGTTAGGGAGGTGATGTAATGGCAAG 20 31 0 GGAGGTGATG 0.975373 -270 ATTAGAAAATGGAAGTGATTCACCTATAAA 24 42 1 GGAAGTGATT 0.583881 -87 AGAATAAGAAAGAGGAGAAGGA 24 117 1 AGAGGAGAAG 0.490393 -12 TTAGGGACGCGGAGGGGAATACC 26 21 1 GGAGGGGAAT 0.937487 -13 TGCAGGTGCAGGAGGAGACTCTCGCAATCT 31 162 1 GGAGGAGACT 0.894172 -139 TTCTCTTTTAGGAGGTGATGCAGCATTTGA 31 212 1 GGAGGTGATG 0.975373 -89 ********** Masking position 7 Map Score: 10.2916 Number of sites scoring better than the average of aligned sites = 259 Number in coding regions = 165 Number in noncoding regions = 94 Number of orfs with sites within 600 bp upstream = 88 Fraction of orfs with sites within 600 bp upstream = 0.0141343 Motif number 5 GTCCTTGCTTTTTGGTTATTTT 1 2 0 TTTGGTATTT 0.86053 -191 GTCTGAGAGATTTGGTTTTTTTACCTTTTTT 7 140 0 TTTGGTTTTT 0.912775 -161 TTTGATCAACTTTAGTGTTTTTTCCCATAGA 7 196 0 TTTAGTTTTT 0.771443 -105 TTTGGCGCACTTAGGTCATTTGATCAACTTT 7 214 0 TTAGGTATTT 0.922458 -87 GCAACATGCATGAGGTTTTTTTATGTTTAGT 11 17 1 TGAGGTTTTT 0.918565 -263 TTTTTTTATGTTTAGTGATTTCTACTATGAA 11 32 1 TTTAGTATTT 0.665561 -248 GTGAATTAGCTGAGGTGCTTT 14 290 1 TGAGGTCTTT 0.749747 -11 TTCTATAAAGTTAAGTCATTTGGATGCAGGG 19 17 1 TTAAGTATTT 0.793261 -152 CTAGACCAGCTGAGGTGTTTTCCCCCCTTTT 22 101 0 TGAGGTTTTT 0.918565 -81 CACTTCGAGGTTAAGTTTTTTTATTAGAAAA 24 20 1 TTAAGTTTTT 0.866805 -109 TTGGCGAATTTTAGGTCTTTTTTGTTTAAAT 29 263 1 TTAGGTTTTT 0.952778 -38 TCTGTGTCATTTAGGTTTTTTTATTCTCTTT 31 189 1 TTAGGTTTTT 0.952778 -112 ****** **** Masking position 6 Map Score: 8.33698 Number of sites scoring better than the average of aligned sites = 108 Number in coding regions = 73 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 35 Fraction of orfs with sites within 600 bp upstream = 0.00562159 Motif number 6 CCTCGTCAACTAAGCCTTTTTCCGGGCGCTTA 2 76 0 TACCTTTTTC 0.650981 -225 ATACAGCCTATCTTCCTGTTTCAATATAAATA 4 230 1 TTCCTGTTTC 0.883769 -71 AGAATGAATTTTTACCTTCTTTACTTTATTTA 4 256 0 TTCCTTCTTT 0.910715 -45 ATATAAACCCTCCCTGTTTTGTTTGTCGCT 5 153 0 CTCCTGTTTT 0.91442 -20 AGAGGCTCACCCTGCTTTTTAATGTCAT 6 7 1 TACCTGCTTT 0.928279 -186 ATTTGGTTTTTTTACCTTTTTTGTAATCTTAA 7 130 0 TTCCTTTTTT 0.907698 -171 AACATAACGATAACCCTGTTTTGTTGGACAGG 12 70 0 TACCTGTTTT 0.925807 -53 CTTCAACCGTTATCCCTTCATTCACCACTATT 15 93 0 TTCCTTCATT 0.688011 -45 ACTACATTCTCCTTTTTTCTTATCCCGG 19 151 0 TCCCTTTTTT 0.628002 -18 TTTTTTCATATGAACCTGTATTAAATGGAACA 21 17 1 TACCTGTATT 0.72957 -173 ACGAAAAAAATAAACCTGTATTAAAATGGTGT 21 46 0 TACCTGTATT 0.729569 -144 TCTATTGCTCCTTTCCTGTTTTGTACATCCAT 21 167 0 CTCCTGTTTT 0.91442 -23 GTCTTTTCCTGCTTTCTTTCATGAT 29 4 1 TTCCTGCTTT 0.958676 -297 AATTTTAGGTCTTGCCTGCTTTACCAGTCACA 29 194 0 CTCCTGCTTT 0.917238 -107 AAGGACACAGCGATCCTTTTTCATTTACGCAA 29 225 0 CACCTTTTTC 0.471193 -76 CAGCCTGTATATACCTTTTTTCCGTTGCTGC 30 10 1 TTCCTTTTTT 0.907698 -118 CCATTTAGGTTTTGCCTGCTTTCGCAGTAACA 31 130 0 TTCCTGCTTT 0.958676 -171 GTGTATACCTCCTTTTTATGGGGGG 31 286 0 TTCCTCCTTT 0.7304 -15 * * ******** Masking position 7 Map Score: 16.1438 Number of sites scoring better than the average of aligned sites = 668 Number in coding regions = 555 Number in noncoding regions = 113 Number of orfs with sites within 600 bp upstream = 116 Fraction of orfs with sites within 600 bp upstream = 0.0186315 Motif number 7 CTTTCAATCGTCCCCTCCTACATGTTTTTTG 2 223 0 TCCCCTCCTC 0.623142 -78 TCAGCAATCAGCACCTTCTTCATCGCCAAGC 9 174 1 GCACCTTCTC 0.849403 -30 TTTCATAAATTCAGTTTATCCTTATAACGTG 10 13 1 TCAGTTTATC 0.636047 -226 AAAGCACCTCAGCTAATTCACCGATGTTT 14 282 0 TCAGCTAATC 0.592979 -19 CCTTTTTTAACCAGATTATGCGTCTATGCCA 15 22 1 CCAGATTATC 0.768717 -116 TGCGGCAAGCGCAGCTTCTCCAATTGCT 17 8 0 GCAGCTTCTC 0.951868 -66 TTGCTAAAACTCAGCTTATACTATATTCACG 19 110 0 TCAGCTTATC 0.926352 -59 CAACAATAGGGCAGTTTCTTCATGTATACTG 20 244 1 GCAGTTTCTC 0.733191 -57 GAGCGGCGATCCAGATTCTTCGTGAAAAATA 25 110 0 CCAGATTCTC 0.842117 -133 TTTGTAACCCCGCTCATTCATATTTATCA 25 224 0 CCCGCTCATC 0.873006 -19 TTCGCTTCAACCCGCTTCTCCCAACCATTTA 27 28 0 CCCGCTTCTC 0.97216 -101 GTTCATCTCTCCCCCTTATCCCCAGTTTTAC 27 108 0 CCCCCTTATC 0.86117 -21 CATTCCGATATCAGCTTCTGCAGCCCAATGA 28 39 0 TCAGCTTCTC 0.952776 -262 CAGTCACAATCCCGCTTATTCAGATTAAGAA 29 171 0 CCCGCTTATC 0.956062 -130 ********* * Masking position 6 Map Score: 8.73196 Number of sites scoring better than the average of aligned sites = 848 Number in coding regions = 789 Number in noncoding regions = 59 Number of orfs with sites within 600 bp upstream = 67 Fraction of orfs with sites within 600 bp upstream = 0.0107613 Motif number 8 GAATTAAAAAAGGACCGCCGGCAAAAGGCTTAT 1 49 0 AGGCGCGGCA 0.940472 -144 GCGGTCAAATTCACCTGCCGGCACAATATATGA 4 21 1 TCACGCGGCA 0.98425 -280 TAAGAGGACATAGGCGTCAGGCATTTTAAATGT 4 84 1 TAGCTCGGCA 0.89018 -217 AGGCTGTGTTTCGGCTGCTGGCATACTCATATT 4 132 1 TCGCGCGGCA 0.985445 -169 CAGCATTACTTCAGCTTCAGGCATTACAGTCCA 9 44 1 TCACTCGGCA 0.982959 -160 CTCAACTAACTGATCTTCAGGCTCAAATCTGTG 14 154 0 TGACTCGGCT 0.930843 -147 TCAATTTATAACAACATCTGGCATAGACGCATA 15 38 0 ACACTCGGCA 0.963124 -100 TTTCATTTTATCACTTTCGGGCTTGAACCTAAA 22 57 1 TCATTCGGCT 0.695294 -125 AGAGACATCGTCGTCATCCGGCAAAAGCAGTAC 28 80 0 TCGCTCGGCA 0.98425 -221 AGATGCACAGAGACCCGCCGGCTCGAGAGACAT 28 105 0 AGACGCGGCT 0.868474 -196 *** * ** **** Masking position 8 Map Score: 7.01766 Number of sites scoring better than the average of aligned sites = 295 Number in coding regions = 268 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 9 CAAAGAGAAATCACATGATCTTCCAAAAAACATGTAGGAG 2 200 1 TACTTTTAAA 0.882972 -101 GAAAGATTTGTATCCTTCTTTTATAACAAATTTTCAGAAA 3 83 1 TTCTTTTAAA 0.954996 -136 ATATACAGCCTATCTTCCTGTTTCAATATAAATAAAGTAA 4 228 1 TTCTTTTATA 0.710811 -73 CACATGACTGTGACAATTTTTTAAAAATAAAAAGGCTCCT 5 15 0 TACATTTAAA 0.728445 -158 ATCCCCCCATTTTCTTTCTATTATATACAATTACAGATTC 8 30 0 TTCTTTTAAA 0.954966 -35 TGTACGACATTTTCTTCTTATTTTAATGAAAAAAGTCTTT 11 67 0 TTCTTTTAAA 0.954858 -213 AAAACAGGGTTATCGTTATGTTATAGAGAAACTTAGACTG 12 80 1 TTCTTTTAAA 0.954999 -43 TACATCAATTTGTCAATATTTTGAATCTAAAGTAATATAG 20 200 0 TTCATTTAAA 0.882973 -101 AAACCTGTATTAAAATGGTGTTCCATTTAATACAGGTTCA 21 27 0 TAATTTTAAA 0.351225 -163 TTAAAACTTATATCATTTTATTTGAATCAAGAATGAAATG 23 141 1 TTCTTTTAAA 0.954983 -105 CTACATGTTATATCAAACTATTTAACTAAAAAAATAGTTG 29 96 1 TTCATTTAAA 0.882961 -205 ACGAAAACGCTATCATGATTTATGATGAAAGCGTATTCTT 29 136 1 TTCTTTAAAA 0.70581 -165 * ** * * ** * ** Masking position 15 Map Score: 5.23962 Number of sites scoring better than the average of aligned sites = 125 Number in coding regions = 80 Number in noncoding regions = 45 Number of orfs with sites within 600 bp upstream = 52 Fraction of orfs with sites within 600 bp upstream = 0.00835207 Motif number 10 TAATCCCGTCTTCTTTTCCTATTGAGAAAA 2 16 0 TTCTTTTCCT 0.450558 -285 ATTTTTCTTCCTCCTAAGATTG 2 289 0 TTTTCTTCCT 0.853275 -12 AACTTTAGTGTTTTTTCCCATAGAGCGGGA 7 190 0 TTTTTTCCCA 0.680304 -111 AACTTCCCGTTTTTTTCCCTCAATCACTGA 10 63 0 TTTTTTCCCT 0.89611 -176 TTCTTTTTTCCCCCAGTCTAAGT 12 110 0 TTTTTTCCCC 0.932228 -13 TCACCGATGTTTTTCACCCCGGATAGCTCA 14 264 0 TTTTCACCCC 0.840461 -37 TGTATTTTCTCCCTTCTCATTCAC 15 124 0 TTTTCTCCCT 0.959146 -14 AGCTGAGGTGTTTTCCCCCCTTTTATAAAA 22 95 0 TTTTCCCCCC 0.886466 -87 GTTCATCTCTCCCCCTTATCCCCA 27 115 0 ATCTCTCCCC 0.780956 -14 AGCTTCGCTATTTTCTTCCTGATATTTTAC 28 159 1 TTTTCTTCCT 0.853275 -142 CTATTTCTCCCCCTTTTATTTA 29 289 0 ATTTCTCCCC 0.902814 -12 ********** Masking position 4 Map Score: 5.00751 Number of sites scoring better than the average of aligned sites = 399 Number in coding regions = 296 Number in noncoding regions = 103 Number of orfs with sites within 600 bp upstream = 111 Fraction of orfs with sites within 600 bp upstream = 0.0178285 Motif number 11 TTCGTAATGACAAGTATCATAAATTGGTCA 3 157 1 CAAGTATCAT 0.777986 -62 AAGAGATAGACAAGCACCATATTTGTTATG 3 185 0 CAAGCACCAT 0.958062 -34 GAGTCAAAGGGAAGCATCATTCTCTGAACA 5 107 1 GAAGCATCAT 0.730001 -66 CCTCATGCAACATGCATGAGGTT 11 4 1 CATGCAACAT 0.7944 -276 CAATTGTTTCCAAGCTTCATGTTAGACAGG 12 30 0 CAAGCTTCAT 0.959851 -93 GATAAATCCTCTAGCACCATCGTGATAATT 14 216 0 CTAGCACCAT 0.708547 -85 TTTTATTATGCAAGTTCCATGCCAGCTCTT 18 74 0 CAAGTTCCAT 0.713878 -51 ATATTCACGTCAAGCAACATGTAGCCTATC 19 89 0 CAAGCAACAT 0.949793 -80 GATGTAATGGCAAGCAAGATGAGAATGCCA 20 15 0 CAAGCAAGAT 0.688398 -286 GAGTAAGATTCAAGCTATATTACTTTAGAT 20 186 1 CAAGCTATAT 0.694083 -115 CATTTTTAAACAAGCTTTATCCTTAATATT 23 113 1 CAAGCTTTAT 0.768609 -133 TCGGCACGCGCATGCTTCATTTATAGGTGA 24 61 0 CATGCTTCAT 0.830016 -68 TTTGATGTTTCAAGCTTCACGAACGTTATC 25 28 1 CAAGCTTCAC 0.790389 -215 ********** Masking position 9 Map Score: 4.77231 Number of sites scoring better than the average of aligned sites = 346 Number in coding regions = 312 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 46 Fraction of orfs with sites within 600 bp upstream = 0.00738837 Motif number 12 GTTGACTACCTGTATATACAGGAATACAAT 6 121 1 TGTATATACA 0.497849 -72 GATTATAAGTTGTATATACAAGTTATAAAA 6 153 1 TGTATATACA 0.497849 -40 CGAATGTATTTCCAAGCCTCCTGT 12 5 1 TGTATTTCCA 0.903245 -118 AAAGATTCTCTGTTTATCCATAATGCGCTC 14 76 0 TGTTTATCCA 0.802814 -225 GACAAATTGATGTATTTTCAACAATAGGGC 20 226 1 TGTATTTTCA 0.727872 -75 ATACTGAGTCTGTATTTACAATATTTAGAA 20 269 1 TGTATTTACA 0.688452 -32 TTTCCTGTTTTGTACATCCATATATAATGC 21 158 0 TGTACATCCA 0.745482 -32 CTTTTCAATATGTTTTTACACATTTTTATG 23 70 1 TGTTTTTACA 0.771785 -176 ACGGAAAAAAGGTATATACAGGCTG 30 6 0 GGTATATACA 0.594548 -122 ********** Masking position 7 Map Score: 2.53364 Number of sites scoring better than the average of aligned sites = 59 Number in coding regions = 42 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 13 AAAGGACCGCCGGCAAAAGGCTTATGTCAG 1 44 0 CGGCAAAAGG 0.856353 -149 AAACGTGTTACGGGACGAGCTATCTCATGG 7 242 1 CGGGACGAGC 0.946059 -59 CACAACAAAAAGGCATGAGCAAAATTGGGT 10 112 0 AGGCATGAGC 0.88062 -127 TTGCCATCTGCGGCAAGCGCAGCTTCTCCA 17 17 0 CGGCAAGCGC 0.979758 -57 GTTTATTTATCGGCACGCGCATGCTTCATT 24 70 0 CGGCACGCGC 0.979358 -59 TAGAGAATTTAGGGACGCGGAGGGGAATAC 26 13 1 AGGGACGCGG 0.791434 -21 GTTTTACCGGAGGCAAGAGGCGCCATACGT 27 85 0 AGGCAAGAGG 0.939058 -44 CGTCGTCATCCGGCAAAAGCAGTACGCATA 28 75 0 CGGCAAAAGC 0.920433 -226 CTGGTAAAGCAGGCAAGACCTAAAATTTGC 29 199 1 AGGCAAGACC 0.812893 -102 ********** Masking position 5 Map Score: 3.3106 Number of sites scoring better than the average of aligned sites = 394 Number in coding regions = 364 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 14 TTTCAATATAAATAAAGTAAAGAAGGTAAAA 4 248 1 AAAAAGTAAA 0.808202 -53 TAAGATTACAAAAAAGGTAAAAAAACCAAAT 7 131 1 AAAAGGTAAA 0.644365 -170 ATTCATTTTTAAAAGCATAAAGGAGGGGCTT 17 51 1 AAAGCATAAA 0.676347 -23 TCCATTATAAAATAGAGTAAAGCCTTATGGC 20 73 1 AAAGAGTAAA 0.94448 -228 ATTGGCAATGAATAGAGTAAGATTCAAGCTA 20 172 1 AAAGAGTAAG 0.762108 -129 ACTTAAAACGAAAAAAATAAACCTGTATTAA 21 54 0 AAAAAATAAA 0.689006 -136 ACTAGTCTGAAAAAGAGTAAAATAAAGGTAT 22 135 1 AAAGAGTAAA 0.94448 -47 AAACATATTGAAAAGGGTAAATAGAGAATAG 23 54 0 AAAGGGTAAA 0.87973 -192 CTCACATTTTAAAAGAATAAAGAGCGGCGAT 25 131 0 AAAGAATAAA 0.899438 -112 TATTTGCAGAGACAGAATAAAATGACATTTT 28 240 1 GAAGAATAAA 0.62747 -61 CACCTCCTAAAAGAGAATAAAAAAACCTAAA 31 198 0 AAAGAATAAA 0.899438 -103 ** ******** Masking position 4 Map Score: 3.94444 Number of sites scoring better than the average of aligned sites = 113 Number in coding regions = 83 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 15 AGGAGGGGACGATTGAAAGTCCCCTTGAAA 2 235 1 GATTGAAAGT 0.706374 -66 GCGATTGCGCAAATGAAAGCAATCATAAAT 4 55 1 AAATGAAAGC 0.895843 -246 GTCCCTATACAATTGAAAGTAAAGAGGACT 5 59 0 AATTGAAAGT 0.900567 -114 AAATAAAAGTTTGAATATTA 14 1 1 AAATAAAAGT 0.636046 -300 ATTGAAGCAAAATTGAAAGTGTGGTTAAAT 15 66 1 AATTGAAAGT 0.900567 -72 CTCTATTTTATAATGGAAGTGATCATCGAA 20 60 0 TAATGGAAGT 0.731034 -241 GGCATCTTGTTAATGAAAGTTGAAGCAGTA 20 101 1 TAATGAAAGT 0.863407 -200 GAAAGTGATAAAATGAAAGTATTGTGAGCA 22 45 0 AAATGAAAGT 0.952387 -137 TTTTATTAGAAAATGGAAGTGATTCACCTA 24 38 1 AAATGGAAGT 0.895843 -91 TCAACACCAAAAATGAAAGCGTTGACATCT 31 46 1 AAATGAAAGC 0.895843 -255 ********** Masking position 4 Map Score: 5.82426 Number of sites scoring better than the average of aligned sites = 154 Number in coding regions = 119 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714