AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00340_synecho_reg_100.orf -o00340_synecho_100.ace -a/home/amcguire/alignace/lib/ORF_synecho.txt -z/skink1/amcguire/genomes/synecho.fna -g0.48 -x5 -e Parameter values: expect = 5 ncols = 10 npass = 1000 maxnpass = 100 nruns = 1000 maxnruns = 100 repeat = 15 maxreps = 3 nread = 500 ncycles = 1 fragment = 1 psfact = 0.1 gcback = 0.48 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 slr0723 78 hypothetical protein. #2 slr0724 83 sohA; HtaR suppressor protein. #3 slr0725 300 hypothetical protein. #4 sll1191 233 hypothetical protein. #5 slr0682 33 hisD; histidinol dehydrogenase. [EC:1.1.1.23] #6 sll0650 159 transposase. #7 sll1508 300 lpxC; UDP-3-0-acyl N-acetylglcosamine deacetylase. [EC:3.5.1.-] #8 slr1848 300 hisD; histidinol dehydrogenase. [EC:1.1.1.23] #9 sll1713 61 hisC; histidinol-phosphate aminotransferase. [EC:2.6.1.9] #10 sll1712 170 DNA binding protein HU. [SP:DBH_SYNY3] #11 sll1958 138 hisC; histidinol phosphate aminotransferase. [EC:2.6.1.9] #12 sll1909 77 prmA; probable methyltransferase. [EC:2.1.1.-] [SP:PRMA_SYNY3] #13 sll1908 260 serA; phosphoglycerate dehydrogenase. [EC:1.1.1.95] #14 ssr1391 77 hypothetical protein. #15 slr0820 145 glucosyltransferase. #16 sll1893 213 hisF; hisF protein (CYCLase). [EC:2.4.2.-] [SP:HIS6_SYNY3] #17 slr0776 107 lpxD; UDP-3-o-[3-hydroxymyristoyl] glucosamine n-acyltransferase. #18 sll0310 77 rimI; ribosomal-protein-alanine acetyltransferase. [EC:2.3.1.128] #19 sll0309 299 hypothetical protein. #20 sll0084 193 hisB; imidazoleglycerol-phosphate dehydratase. [EC:4.2.1.19] #21 sll0078 171 thrS; threonyl-tRNA synthetase (threonine--tRNA ligase) (thrRS). #22 slr0092 117 hisB; hypothetical protein. #23 slr0095 161 hisB; O-methyltransferase. [EC:2.1.1.-] #24 sll0488 116 hypothetical protein. #25 sll0899 242 glmU; UDP-N-acetylglucosamine pyrophosphorylase. [EC:2.7.7.23] #26 slr0652 23 hisA; phosphoribosylformimino-5-aminoimidazole carboxamide ribotide #27 sll0631 107 nadB; L-aspartate oxidase (quinolinate synthetase B). [EC:1.4.3.16] #28 slr1560 77 hiss2; probable histidyl-tRNA synthetase 2 (histidine--tRNA ligase #29 slr1562 30 probable glutaredoxin slr1562. [SP:GLR1_SYNY3] #30 slr1563 300 hypothetical protein. #31 slr0608 104 hisI; phosphoribosyl-AMP cyclohydrolase / phosphoribosyl-ATP Motif number 1 GCGTATAGTTTTATGGGCTGAGGGACCACT 1 6 0 TTGGGCGGGA 0.881491 -73 AATCTCTCAAGATTGGGGTATTTAGAATCTGATTC 3 202 0 GTGGGGATTG 0.863022 -99 TCAGTCCCATCTTTGGGGGGATGAACATGGAAAAA 4 102 1 CTGGGGGTGA 0.978964 -132 TAATGTAAAATTATGGGGTGTACAAAATGAACAGG 6 127 1 TTGGGGGACA 0.69554 -33 TGGTAATTTGGGTTGGGCAGCGCAG 9 47 1 GTGGGCGGCG 0.93273 -15 CTGCAAAAATTCGTGGGGAAAAGTGATCCTACTTC 10 70 1 TTGGGGAAGG 0.662623 -101 GGGTCCAAGTCAATGGGGGGAGGAATTAATCTTCC 12 23 1 CTGGGGGGGA 0.98685 -55 GATTCCCTGGGACTGGGGGGGCCAAACCATAGGGA 13 159 0 GTGGGGGCCA 0.837905 -102 CAAGCCGCTAGAATGGGCTACGGAGATCGGCCCAG 13 219 1 GTGGGCAGGG 0.93569 -42 CCGTTGTCCCTGGGGGGCGCAATGAACGATCG 14 8 1 CTGGGGGGCA 0.977907 -70 TTTCCCTGGGTAATGGAAAGGGTAGGCT 14 60 0 CTGGGTAGGA 0.802446 -18 GCTTTTCCATCAATGGGTAGTTTTATTCATGGCTG 15 31 0 CTGGGTGTTA 0.520736 -115 CAAGGGACTTGGATGGGGAAATGGAACTTCACCGC 16 72 1 GTGGGGATGA 0.966447 -142 GATTAAGCTCGAATGGGGCGGTGAAGTTCCATTTC 16 89 0 GTGGGGGTGA 0.978964 -125 TTTATTTTCCCTTTGGGCAAGGCTGACCGATTTAG 17 16 1 CTGGGCAGCG 0.895636 -92 AAATTTAGTTCGATGGGGGGTAGGACTGCGTCCCC 20 25 1 CTGGGGGAGA 0.937268 -169 ACCTTCAACCCAGTGGGGGGCGGGAGCGGATCAAG 21 92 1 CTGGGGGGGA 0.98685 -80 TTAGGGGTAAGGCTGGGGCAGTTTGATCAACTCCA 22 83 0 GTGGGGATTG 0.863022 -35 GGAAAAGGAAGGGGAATTGCATCAAGATTGC 23 7 1 GAGGGGATGA 0.748893 -155 TCGAATTTAGTAATGGGGGACGTGGACGGGGGTAG 23 115 0 TTGGGGAGTG 0.724809 -47 CAAATACAAACAAAGGGGGGCTTTGCTGTATTATC 25 47 1 CAGGGGGTTG 0.513143 -196 ATTTTCTAGACTTTGGGCAACTCTAAACTTTTTGT 25 117 1 CTGGGCATCA 0.866588 -126 AGTATATCGTGATTGGGGCAAGGCAAATTCAGGGG 25 188 0 GTGGGGAGGA 0.978925 -55 GGTTTTAGGTTTGGGCGACTCTAATCAACTTTA 30 9 1 GTGGGCATCA 0.866588 -292 * ***** * ** * Masking position 7 Map Score: 26.7902 Number of sites scoring better than the average of aligned sites = 2218 Number in coding regions = 1997 Number in noncoding regions = 221 Number of orfs with sites within 600 bp upstream = 238 Fraction of orfs with sites within 600 bp upstream = 0.0382268 Motif number 2 TGACAAAGTAACTGTAACTGGATTTGAGATCCG 7 262 0 ACGACTGGAT 0.835095 -39 CCAAATTACCACCGTGGTGGGGTCGCTCAAACA 9 25 0 ACGGTGGGGT 0.958245 -37 TACAGCGGCAACGGTGTCGGGGTATGGTCTGTA 11 116 1 ACGGCGGGGT 0.984591 -23 TACGGGGGCTGAGTAAAGTTGGCT 13 2 1 ACGGCTGAGT 0.946346 -259 ACCCTAGGTAACTGGGATGGGGTTTTTCGTTGC 17 80 1 ACGGTGGGGT 0.975343 -28 AGTGCTCTTCACTGTAACGGGATGCCAAGGGAG 18 40 0 ACGACGGGAT 0.917936 -38 ATCCTACAGGACGGGGACGCAGTCCTACCCCCC 20 39 0 ACGGCGCAGT 0.763473 -155 CTGTTCCTCGACCGTGACGGCGTCATCATTGAC 20 141 1 ACGGCGGCGT 0.896934 -53 GGTTTTGCCAACGGTGACTGGCTGGTAGTTTTC 25 155 1 ACGGCTGGCT 0.950515 -88 TTAACCCCTAACTCTGTCTGGGTAAATGTCCCC 27 31 1 ACCGCTGGGT 0.837055 -77 TTACCTGGGAACTGCAACGGGGTTGTCTTTGTC 28 41 1 ACGACGGGGT 0.918711 -37 TTTTGAACTGACCGAGGCTGGGCACCG 31 88 1 ACGGCTGGGC 0.92479 -17 ** * * ****** Masking position 1 Map Score: 15.2305 Number of sites scoring better than the average of aligned sites = 263 Number in coding regions = 239 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 3 GTTCATCCCCCCAAAGATGGGACTGACATGCCC 4 95 0 CCAAGGGGAC 0.954343 -139 CCTGCCTAAGCCAACCATGGGAACCAAAACCGC 6 14 0 CCAACGGGAA 0.961482 -146 TCTACCGTGTCCATTGATAGGGATTTCGCTTGT 8 131 0 CCATGAGGGA 0.851007 -170 AAAAAATAGCCCAAACAAAGGGCATTCTTTCCC 11 59 1 CCAACAGGGC 0.951488 -80 CTTATGTGCGCCAACGGTAGGGAAGATTAATTC 12 45 0 CCAAGAGGGA 0.978238 -33 CTGGGGGGGCCAAACCATAGGGAGTTTTCCCTA 13 149 0 CAAACAGGGA 0.647391 -112 TTTGGCCCCCCCAGTCCCAGGGAATCAGAAATA 13 168 1 CCAGCAGGGA 0.955587 -93 ATCCCAGTTACCTAGGGTGGGGAGTTTCTTTTT 17 65 0 CCTAGGGGGA 0.882663 -43 CTCCGGTTTACCAAGGTAGGGAATATAGTCAAT 20 168 0 CCAAGGGGAA 0.971895 -26 CCGCCCTGGAGCAAAGCCAGGAAAAGTTTATCC 22 40 1 GCAAGAGGAA 0.758509 -78 GTTTATCTTCCCAATTTCAGGGCATCGAGAAGT 24 25 0 CCAATAGGGC 0.84253 -92 TTTCCTCTGTGCAACCAGGGGGACTTTTCAATT 24 89 0 GCAACGGGGA 0.907821 -28 CGGTTTCAGTCCAGCTTGGGGACATTTACCCAG 27 48 0 CCAGTGGGAC 0.731845 -60 AGTTGCCCAGCCAGAGCAGGGGAGAGGATGATG 30 164 0 CCAGGGGGGA 0.981978 -137 GTTGGAATTACCAGCAACGGGAAGATATGGCAT 30 204 1 CCAGAGGGAA 0.719144 -97 **** * ***** Masking position 10 Map Score: 12.74 Number of sites scoring better than the average of aligned sites = 1371 Number in coding regions = 1232 Number in noncoding regions = 139 Number of orfs with sites within 600 bp upstream = 146 Fraction of orfs with sites within 600 bp upstream = 0.02345 Motif number 4 ACCGTTGTCGCCGTGGCTGACGGCCAACTAT 4 187 1 CCGGGCTGAC 0.448913 -47 CAAATTACCACCGTGGTGGGGTCGCTCAAAC 9 26 0 CCGGGTGGGG 0.909411 -36 CTGAAATCCCCGCAGACTGGCTGTTTCACTG 10 128 0 CGCGACTGGC 0.862205 -43 ACAGCGGCAACGGTGTCGGGGTATGGTCTGT 11 117 1 CGGGTCGGGG 0.94549 -22 TACGGGGGCTGAGTAAAGTTGGC 13 3 1 CGGGGCTGAG 0.822251 -258 TTCTGATTCCCTGGGACTGGGGGGGCCAAAC 13 167 0 CTGGACTGGG 0.979434 -94 GGCCAAGGGACTTGGATGGGGAAATGGAACT 16 69 1 CTTGATGGGG 0.594285 -145 CCCTAGGTAACTGGGATGGGGTTTTTCGTTG 17 81 1 CTGGATGGGG 0.92048 -27 TGTTCCTCGACCGTGACGGCGTCATCATTGA 20 142 1 CCGGACGGCG 0.847816 -52 CCGCTCCCGCCCCCCACTGGGTTGAAGGTTA 21 90 0 CCCCACTGGG 0.619067 -82 TAATGGGGGACGTGGACGGGGGTAGAACTTA 23 109 0 CGTGACGGGG 0.915645 -53 TCTCGATGCCCTGAAATTGGGAAGATAAACT 24 28 1 CTGAATTGGG 0.454282 -89 ACTGAAACTTCGCAGACGGGGGCTAAGGACT 24 56 1 CGCGACGGGG 0.756269 -61 GTTTTGCCAACGGTGACTGGCTGGTAGTTTT 25 156 1 CGGGACTGGC 0.932985 -87 TAACCCCTAACTCTGTCTGGGTAAATGTCCC 27 32 1 CTCGTCTGGG 0.768638 -76 TACCTGGGAACTGCAACGGGGTTGTCTTTGT 28 42 1 CTGAACGGGG 0.851816 -36 CTCTCCCCTGCTCTGGCTGGGCAACTAGCTT 30 171 1 CTCGGCTGGG 0.941523 -130 TTTGAACTGACCGAGGCTGGGCACCG 31 89 1 CCGGGCTGGG 0.969433 -16 *** ******* Masking position 9 Map Score: 18.9796 Number of sites scoring better than the average of aligned sites = 1544 Number in coding regions = 1444 Number in noncoding regions = 100 Number of orfs with sites within 600 bp upstream = 110 Fraction of orfs with sites within 600 bp upstream = 0.0176678 Motif number 5 GTCCATTGTCAGTTTTACCTAAAGTAGTTT 7 79 0 AGTTTTACCT 0.804984 -222 AAGACTAGGTATTTATCCCCCTAAATCTCC 8 46 0 ATTTATCCCC 0.553887 -255 CGAAAACTTGGATTTTACCCGGACTTAAAA 10 12 0 GATTTTACCC 0.652104 -159 AAGTAGGATCACTTTTCCCCACGAATTTTT 10 74 0 ACTTTTCCCC 0.836318 -97 GGGAGGAATTAATCTTCCCTACCGTTGGCG 12 40 1 AATCTTCCCT 0.630171 -38 CGATTTCTCCCTTATGTGCGCC 12 66 0 ATTTCTCCCT 0.617672 -12 AACCATAGGGAGTTTTCCCTAGAAAGCCTA 13 140 0 AGTTTTCCCT 0.939251 -121 TATTGCTAACGGTTATCCCCCAAGCCGCTA 13 199 1 GGTTATCCCC 0.752268 -62 AAAGCTTTATTTTCCCTTTGGGCAAGG 17 8 1 TATTTTCCCT 0.578067 -100 ACGGGGACGCAGTCCTACCCCCCATCGAAC 20 32 0 AGTCCTACCC 0.569786 -162 ACAGGAATTAAGTTCTACCCCCGTCCACGT 23 101 1 AGTTCTACCC 0.850181 -61 ACTGGCTGGTAGTTTTCCCCCTGAATTTGC 25 171 1 AGTTTTCCCC 0.972349 -72 TGGAACTGGAAATTTTACCTGGGAACTGCA 28 27 1 AATTTTACCT 0.660928 -51 GTCCCTGTCCTGTTTTCCCCT 29 2 0 TGTTTTCCCC 0.868399 -29 TATTTTTTCCAATTTTCTCCATGTATTTGC 30 70 0 AATTTTCTCC 0.451603 -231 GGAGAATCCTAGTTTTCCCTTCCTCAAAAT 31 32 0 AGTTTTCCCT 0.939251 -73 GGAAAACTAGGATTCTCCCCGCGTTTTTTC 31 44 1 GATTCTCCCC 0.809295 -61 ********** Masking position 6 Map Score: 10.737 Number of sites scoring better than the average of aligned sites = 1637 Number in coding regions = 1388 Number in noncoding regions = 249 Number of orfs with sites within 600 bp upstream = 257 Fraction of orfs with sites within 600 bp upstream = 0.0412785 Motif number 6 TTCACACTGGCGATCGCCATTTGGAATCAA 3 270 0 CGATCGCCAT 0.994743 -31 GTTATTCAGGCGATCGCCAAGCTAATCAAT 8 201 0 CGATCGCCAA 0.98291 -100 TATCCTGGGCCGATCTCCGTAGCCCATTCT 13 228 0 CGATCTCCGT 0.975088 -33 GCGCAATGAACGATCGCCGTTGCGTTCAAT 14 27 1 CGATCGCCGT 0.995128 -51 ACCATTTGCCCGATCGCCATCGCCAAGGCG 19 50 0 CGATCGCCAT 0.994743 -250 ********** Masking position 4 Map Score: 6.81453 Number of sites scoring better than the average of aligned sites = 1395 Number in coding regions = 1261 Number in noncoding regions = 134 Number of orfs with sites within 600 bp upstream = 150 Fraction of orfs with sites within 600 bp upstream = 0.0240925 Motif number 7 CATGAAGTTAGAGCAAAATATTTGAGGCAATTC 3 69 0 GACAAATTTT 0.972873 -232 AACTGTTCCTGAGCAAACTACTTTAGGTAAAAC 7 65 1 GACAACTCTT 0.873612 -236 TCAAATTTGCGATCAAAATCCTTAGACTTCATG 7 154 0 GACAAATCTT 0.967304 -147 TGTTCCCCCAGAGCAAAATCTTTTTTTTTAAAC 13 42 0 GACAAATTTT 0.972872 -219 CAGGAAAGTAGAGCAAAATCTTTGAGAAATAGG 15 95 0 GACAAATTTT 0.972872 -51 CGCCCCATTCGAGCTTAATCTTTGGGATACTAC 16 104 1 GACTAATTTT 0.849715 -110 AATTCACATTGACCACAATTTTTGTTTGAAATA 16 177 1 GACAAATTTT 0.972876 -37 CTGTATTATCGATTACAATTCTTTGCACTTCCG 25 72 1 GATAAATCTT 0.767642 -171 GCTAATCTGGGAAGACAATCTTTTGGGAATTTG 27 80 1 GAGAAATTTT 0.855827 -28 ** ** *** *** Masking position 7 Map Score: 6.62075 Number of sites scoring better than the average of aligned sites = 46 Number in coding regions = 35 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 8 AATGCAGCCGCATTACCATCGGCGTATAGTTTT 1 29 0 CATACCATGC 0.911342 -50 GATGGTAATGCGGCTGCATTGTCTTGTCAACGA 1 42 1 CGCTGCATGC 0.935683 -37 ACCTACAACGCATTAGCATTTTTGTGGTCGTTA 6 65 1 CATAGCATTT 0.422212 -95 GACCATACCCCGACACCGTTGCCGCTGTAAAGG 11 112 0 CGCACCGTGC 0.851798 -27 TCCCCCAAGCCGCTAGAATGGGCTACGGAGATC 13 214 1 CGTAGAATGC 0.574207 -47 GGAGATATTGCAACACCATTTGCCCGATCGCCA 19 61 0 CACACCATTC 0.911342 -239 ACCGTGACGGCGTCATCATTGACTATATTCCCT 20 151 1 CGCATCATGC 0.874732 -43 AGATTTCGACCAGCAGCATGGGTCTAACCTTCA 21 66 1 CACAGCATGT 0.898417 -106 GCAGTTTGATCAACTCCATAGCCGGTTTGGATA 22 68 0 CACTCCATGC 0.879576 -50 GATTGCTAATCGTCAGCATAGACCAGGGTTATG 23 36 1 CGCAGCATGC 0.986155 -126 AACCCACAACCATCAGCATTTCCGGACAGGAAT 23 76 1 CACAGCATTC 0.95259 -86 ACTCTGCCTACATCAGCAAATACATGGAGAAAA 30 55 1 CACAGCAATC 0.681346 -246 AGCTTATTTTCATTAGCATTGCCTAGGGCATCG 30 116 0 CATAGCATGC 0.95259 -185 ** ****** * * Masking position 1 Map Score: 7.07817 Number of sites scoring better than the average of aligned sites = 703 Number in coding regions = 660 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 9 TTATCACATTATTTTAGACTTTTACGAAATGTT 3 35 1 ATTTAATTTT 0.634699 -266 ATGTTTTAACAATGTTAATTTTTCTCTCAATCT 3 232 0 ATGTTATTTT 0.884319 -69 CGGATAGATAATTTTTGATTATTCTCTCTACCG 8 157 0 ATTTTATATT 0.791715 -144 TAACAACAATAATTTTAAATCTTTTAAAAATGA 8 227 1 ATTTTATCTT 0.854576 -74 ATGAACTGGCATTGTTGAATATTTCAGAAGTAA 8 256 1 ATGTTATATT 0.679948 -45 TAACCAGGGCAATTTTAAGTTTTGTTACTTTAA 13 76 1 ATTTTATTTT 0.931841 -185 CCAAGGGAGTAATTTTTAATCTTTCGGGTTCTT 18 16 0 ATTTTATCTT 0.854576 -62 AACCAGGGGGACTTTTCAATTTTAGTCCTTAGC 24 77 0 ATTTTATTTT 0.931852 -40 GCATTGGCAATTTGCAATTTTTAACCCCTAA 27 9 1 ATTTGATTTT 0.720289 -99 GTTGGCAGAAAGTTTTTATTTTTTCCAATTTTC 30 83 0 ATTTTATTTT 0.931853 -218 TTGAAGAATTGTTGACTTTTTCTACATGTT 30 281 0 ATGTTATTTT 0.884321 -20 CTTCCTCAAAATTTCTCAGTTTTAGCAACAAAT 31 11 0 ATTCTATTTT 0.701265 -94 * **** * **** Masking position 8 Map Score: 6.02369 Number of sites scoring better than the average of aligned sites = 137 Number in coding regions = 83 Number in noncoding regions = 54 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 10 CATGGAAAAAAGTGGAATAGGGCAAGTCCAC 4 127 1 AGTGGAATGG 0.931423 -107 AATCCCTATCAATGGACACGGTAGAGAGAAT 8 139 1 AATGGACAGG 0.893104 -162 TTCCCTGGGTAATGGAAAGGGTAGGCTTAGA 14 56 0 AATGGAAAGG 0.960171 -22 TTTGTCGGCCAAGGGACTTGGATGGGGAAAT 16 63 1 AAGGGACTGG 0.926512 -151 GGGACTTGGATGGGGAAATGGAACTTCACCG 16 75 1 TGGGGAAAGG 0.835749 -139 GGCTAGCCAAAATGGAATAGG 19 1 0 AATGGAATGG 0.942747 -299 GATGGCTCCGAAGGGAAATGATAACAGGGTT 19 278 0 AAGGGAAAGA 0.891364 -22 AATCTGGCCCATGGGAACAGGTTATAATCCA 21 40 0 ATGGGAACGG 0.940548 -132 ATCAAGTATCATGGGAAAGGGCTGAATTCCT 21 121 1 ATGGGAAAGG 0.965443 -51 GGAAAAGGAAGGGGAATTGCATCAAGATTG 23 10 1 AGGGGAATGC 0.79531 -152 TCACCTGGAAATTGGAACTGGAAATTTTACC 28 15 1 ATTGGAACGG 0.877465 -63 TGCTGAAGGGAAAGGACAAAGACAAC 28 62 0 AAGGGAAAGA 0.891364 -16 ******** ** Masking position 6 Map Score: 6.71837 Number of sites scoring better than the average of aligned sites = 600 Number in coding regions = 536 Number in noncoding regions = 64 Number of orfs with sites within 600 bp upstream = 74 Fraction of orfs with sites within 600 bp upstream = 0.0118856 Motif number 11 GTTGGCCGTCAGCCACGGCGACAACGGTGG 4 185 0 AGCCACGGCG 0.901631 -49 CATGGCATATCTCCATGTCGTCCCAATCCA 11 24 1 CTCCATGTCG 0.843972 -115 TTAGATTGAACGCAACGGCGATCGTTCATT 14 31 0 CGCAACGGCG 0.901631 -47 CGATCGCCATCGCCAAGGCGGATTTTTTGT 19 40 0 CGCCAAGGCG 0.566211 -260 ACAGGTTATAATCCAAGGCGTTTTCCTTCA 21 25 0 ATCCAAGGCG 0.938947 -147 CCTGGCTTTGCTCCAGGGCGGCAGTTTCAG 22 31 0 CTCCAGGGCG 0.91327 -87 TCACGATATACTCAATGGCGACGATCAGGA 25 211 1 CTCAATGGCG 0.898863 -32 ********** Masking position 5 Map Score: 4.80489 Number of sites scoring better than the average of aligned sites = 382 Number in coding regions = 357 Number in noncoding regions = 25 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 12 CCCCCAAAGATGGGACTGACATGCCCTGAAG 4 90 0 TGGACTGACA 0.731239 -144 TTGTAGGTTTCTGGACAGAAGGTCTACCTGC 6 42 0 CGGACAGAAG 0.905982 -118 TGGATTTTACCCGGACTTAAAAG 10 3 0 CGGACTTAAA 0.801717 -168 CTCTACTTTCCTGGACTGACAATCGCTATAT 15 115 1 CGGACTGACA 0.965221 -31 TAGTATCCTACAGGACGGGGACGCAGTCCTA 20 45 0 CGGACGGGGA 0.911602 -149 ATCAGCATTTCCGGACAGGAATTAAGTTCTA 23 87 1 CGGACAGGAA 0.971444 -75 TGGCGACGATCAGGACAGAAAACCATT 25 226 1 CGGACAGAAA 0.976328 -17 TGTCCCCAAGCTGGACTGAAACCGCTAATCT 27 57 1 CGGACTGAAA 0.976328 -51 AGGGGAAAACAGGACAGGGACAAATAATAC 29 10 1 CGGACAGGGA 0.958145 -21 * ********* Masking position 5 Map Score: 5.69573 Number of sites scoring better than the average of aligned sites = 143 Number in coding regions = 125 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 13 ATTAATCAATAAAGGCTTATCTATTGGCAA 2 62 1 AAAGGCTTAT 0.549989 -22 ATAACTATATAATGGATGATAGCTTTAG 3 9 0 AATGGATGAT 0.526059 -292 ACGACCACAAAAATGCTAATGCGTTGTAGG 6 66 0 AAATGCTAAT 0.604218 -94 CTTAGAATTGCTGATTGCCGTATTA 8 286 0 AATTGCTGAT 0.871296 -15 TAGTTTTATTCATGGCTGATTAGTATAACC 15 19 0 CATGGCTGAT 0.930992 -127 GTCTCTTTTAAAAGGCTGAAACGCCTATTT 15 72 1 AAAGGCTGAA 0.682462 -74 TCCCTTTGGGCAAGGCTGACCGATTTAGAT 17 23 1 CAAGGCTGAC 0.923398 -85 TCGCCATCGCCAAGGCGGATTTTTTGTCCA 19 37 0 CAAGGCGGAT 0.780416 -263 GTTTCCGGAGCATTGCTGATTTTATCAATA 19 132 1 CATTGCTGAT 0.905274 -168 TTGAAAGGGTGATCAAATTTAGT 20 4 1 AAAGGGTGAT 0.644307 -190 GGAATATAGTCAATGATGACGCCGTCACGG 20 152 0 CAATGATGAC 0.497934 -42 TAACCCTGGTCTATGCTGACGATTAGCAAT 23 37 0 CTATGCTGAC 0.597097 -125 TCCTGTCCGGAAATGCTGATGGTTGTGGGT 23 77 0 AAATGCTGAT 0.9293 -85 TTCTCCATGTATTTGCTGATGTAGGCAGAG 30 56 0 ATTTGCTGAT 0.540209 -245 ATGCCCTAGGCAATGCTAATGAAAATAAGC 30 118 1 CAATGCTAAT 0.683056 -183 ********** Masking position 9 Map Score: 4.10425 Number of sites scoring better than the average of aligned sites = 662 Number in coding regions = 574 Number in noncoding regions = 88 Number of orfs with sites within 600 bp upstream = 89 Fraction of orfs with sites within 600 bp upstream = 0.0142949 Motif number 14 AAAATGAACTGGCATTGTTGAATATTTCAG 8 253 1 GGCATTGTTG 0.859106 -48 CTTAGAATTGCTGATTGCCGTAT 8 288 0 AGAATTGCTG 0.747039 -13 TTTCCCTTTGGGCAAGGCTGACCGATTTAG 17 21 1 GGCAAGGCTG 0.895752 -87 GCGTTTCCGGAGCATTGCTGATTTTATCAA 19 130 1 AGCATTGCTG 0.922613 -170 CGAGGAACAGGGCTTTGCGGAGGGCACTCA 20 121 0 GGCTTTGCGG 0.924607 -73 AACTTTTCCTGGCTTTGCTCCAGGGCGGCA 22 38 0 GGCTTTGCTC 0.893985 -80 CATAACCCTGGTCTATGCTGACGATTAGCA 23 39 0 GTCTATGCTG 0.855394 -123 ATTCCTGTCCGGAAATGCTGATGGTTGTGG 23 79 0 GGAAATGCTG 0.918713 -83 AACAAAGGGGGGCTTTGCTGTATTATCGAT 25 55 1 GGCTTTGCTG 0.984877 -188 TTTTCTCCATGTATTTGCTGATGTAGGCAG 30 58 0 GTATTTGCTG 0.713069 -243 CGATGCCCTAGGCAATGCTAATGAAAATAA 30 116 1 GGCAATGCTA 0.799451 -185 ********** Masking position 7 Map Score: 5.45168 Number of sites scoring better than the average of aligned sites = 888 Number in coding regions = 829 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 15 AAATACATGAAGTCTAAGGATTTTGATCGC 7 149 1 AGTCTAAGGA 0.887847 -152 ATCGCAAATTTGATGAAGGAGAATGAATCC 7 174 1 TGATGAAGGA 0.918985 -127 AACAGAGTAATGACGAAGGAACTGTTATTT 7 231 1 TGACGAAGGA 0.947347 -70 GGTGTTTAAGGATGATTGACAA 7 289 0 TGTTTAAGGA 0.793083 -12 GATTGTGGCAAGGTTAAGGAGTAGCTGGAC 19 204 0 AGGTTAAGGA 0.885323 -96 ACAAAACCAGAGATGAAGGAAAACGCCTTG 21 12 1 AGATGAAGGA 0.93659 -160 AAAAGTTTTCAGACGAAGGAATTCAGCCCT 21 138 0 AGACGAAGGA 0.959064 -34 TCGCAGACGGGGGCTAAGGACTAAAATTGA 24 65 1 GGGCTAAGGA 0.846539 -52 ********** Masking position 6 Map Score: 2.4648 Number of sites scoring better than the average of aligned sites = 81 Number in coding regions = 70 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802