AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00340_mtub_reg_300.orf -o00340_mtub_300.ace -a/home/amcguire/genomes/ORF_mtub.txt -z/home/amcguire/genomes/mtub.fna -g0.66 -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 = 0.66 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 Rv0072 300 hypothetical protein Rv0072 #2 Rv0074 79 hypothetical protein Rv0074 #3 Rv0144 101 hypothetical protein Rv0144 #4 Rv0145 88 hypothetical protein Rv0145 #5 Rv0146 42 hypothetical protein Rv0146 #6 Rv0147 94 hypothetical protein Rv0147 #7 Rv0187 300 hypothetical protein Rv0187 #8 Rv0223c 98 hypothetical protein Rv0223c #9 Rv0224c 35 hypothetical protein Rv0224c #10 Rv0552 77 hypothetical protein Rv0552 #11 menD 42 menD #12 Rv0557 61 hypothetical protein Rv0557 #13 Rv1008 85 hypothetical protein Rv1008 #14 Rv1009 207 hypothetical protein Rv1009 #15 hisD 99 hisD #16 cobG 224 cobG #17 cobL 67 cobL #18 Rv2073c 29 hypothetical protein Rv2073c #19 hisI 126 hisI #20 cobC 300 cobC #21 Rv2294 294 hypothetical protein Rv2294 #22 Rv2581c 50 hypothetical protein Rv2581c #23 Rv2689c 173 hypothetical protein Rv2689c #24 Rv2690c 134 hypothetical protein Rv2690c #25 Rv3292 30 hypothetical protein Rv3292 #26 aldB 26 aldB #27 Rv3329 59 hypothetical protein Rv3329 #28 hisC2 300 hisC2 Motif number 1 GTGGACTTCGCACCGGTCACCGGGTG 1 6 0 CCCGGTCACC 0.923234 -295 TCGGTTGAGCCGCCGGTTGCCCACTGGTCGA 1 41 0 CCCGGTTGCC 0.904911 -260 CAAGGAAACGGTCCGACGGCCAAACGGAATG 1 134 1 GCCGACGGCC 0.926813 -167 CCCACCTCGACCGCGGTGCCCACACCAACGA 1 176 1 CGCGGTGCCC 0.925973 -125 TGTGGTCAGGGCGCGGCCCGCTAGTGGTCGA 1 230 0 GGCGGCCCGC 0.935266 -71 GCCACCGCTGCCCCGGCAGTGGCTAGTTCCG 2 22 0 CCCGGCAGTG 0.835893 -58 ACTGCCGGGGCAGCGGTGGCGGTTCACACCG 2 33 1 CGCGGTGGCG 0.923019 -47 CCTCGCCGCACAGCGGCGGTGATCGCGTACG 3 69 0 CGCGGCGGTG 0.506924 -33 GAGACCTAACCGGCGGCCCCGAAGCGTAGTG 4 13 1 CGCGGCCCCG 0.858338 -76 ACCGCTGCACCTGCGGCGACGAATTG 7 6 0 CGCGGCGACG 0.986995 -295 ACTGTGCTGGCGCCGGTGACGCCTACCGCTG 7 30 0 CCCGGTGACG 0.968065 -271 TGCTGACCTGCAGCCACGAGGGCTGTGGCTG 7 87 0 CGCCACGAGG 0.803653 -214 CCTCGGGGATCCCCGACACGGATGAGGGTGA 7 148 0 CCCGACACGG 0.918933 -153 TAAACCCCCAGGCCGGTGGGCGGTTGCCTGC 7 248 1 GCCGGTGGGC 0.917935 -53 CTAGCGCGACCACCGACCGTCGCGCGCCAGC 7 277 0 CCCGACCGTC 0.883905 -24 TCGGCATCGTCGCCGGCGGTCATGGCGTCAC 8 51 0 CCCGGCGGTC 0.508711 -48 CTCCTCATCGCTGCGCTCGGCATCGTCGCCG 8 67 0 CGCGCTCGGC 0.897954 -32 ATGCGCCGCTCCTCCTCATCGCTG 8 85 0 CCCGCTCCTC 0.776943 -14 CTGGCACACCCTACGGCCCGCTAGGCTATCG 9 15 0 CACGGCCCGC 0.721365 -21 CAATTTGGATCTGCCGTGCCCTCGTAATCTC 10 33 1 CGCCGTGCCC 0.947244 -45 GCGCGGCCCGGCCATACGGTC 11 1 1 GGCGGCCCGG 0.874188 -42 CGGCCATACGGTCCGGCTGTGACACTCTGTA 11 19 1 GCCGGCTGTG 0.805899 -24 ACTGTCAGCGCCGGCTGTCGAAATGGTTG 12 43 0 CCCGGCTGTC 0.866725 -19 TGCGGGTGAGCTCCGACCGCCCAGCCAGACG 13 31 1 CCCGACCGCC 0.954545 -55 CGAGATCCACCGCCCGCTCCGGAACCCCTGG 13 60 1 CCCCGCTCCG 0.897525 -26 CGGCGCCAGGGGTTCCGGAGC 13 75 0 CGCGCCAGGG 0.650657 -11 GCGCGCCGAGCGGCCCATAAC 14 1 1 GGCGCCGAGC 0.663881 -207 TGTTGAGCAACTCCGGCGCGCGGGTGTTATG 14 26 0 CCCGGCGCGC 0.890709 -182 CGCGCTATATCCCCGACCTCGGCAACACTCA 14 148 0 CCCGACCTCG 0.777819 -60 GGGCGGCGGCGCGGTCACGTAGAC 15 86 0 CGCGGCGCGG 0.502539 -14 CCCACTCCGGCCACCTGTCGCGCCC 16 5 1 CCCGGCCACC 0.97135 -220 TCGCGGTGTGCCGCGGCGTCCGCGCGGTCGC 16 61 1 CGCGGCGTCC 0.724906 -164 AGTCGGGCACGAGCGACCGCGCGGACGCCGC 16 73 0 GGCGACCGCG 0.903642 -152 CCGACTCGTGGAGCGACTCGGCGCCCTCAAA 16 98 1 GGCGACTCGG 0.742533 -127 GCCCTCAAACCCGCCACGATGCGCGCAATCG 16 120 1 CGCCACGATG 0.59801 -105 CCGCGCTCAGGTCCCGTCGGGAGGCCGAGGA 16 169 0 GCCCGTCGGG 0.764731 -56 CGGGACCTGAGCGCGGCGAGGCGGCGACCCA 16 184 1 GGCGGCGAGG 0.79642 -41 GCGACCCATTCTCCCGTACGGTGGACGG 16 207 1 CCCCGTACGG 0.809719 -18 TCCGCGACGATGCAGAGCGCAG 17 2 1 CGCGACGATG 0.869801 -66 ATGCAGAGCGCAGCGATGCGGTGGGGGTACC 17 20 1 CGCGATGCGG 0.957948 -48 CCCCGCAAGCGGGCGGTACCCCCACCGCATC 17 34 0 GGCGGTACCC 0.833749 -34 GCGCCGCTCTCCCCCGCAAGCGGGCGGTACC 17 45 0 CCCCGCAAGC 0.722041 -23 TTGCGGGGGAGAGCGGCGCCG 17 57 1 GGCGGCGCCG 0.509434 -11 CGATTATTGCCTGCGCTAGCGTGA 18 4 0 CGCGCTAGCG 0.810055 -26 ATGCCCTAATGCGCGGCGCGGCGGTGGCGAA 19 67 1 GGCGGCGCGG 0.501942 -60 TTCTCTTGTCGGCCGCCAGTGCCTGGGAGAT 20 12 1 GCCGCCAGTG 0.44943 -289 CCTCGGCAAGCTCCCGCCGCCCGAGCCATCG 20 58 1 CCCCGCCGCC 0.955502 -243 CGATCGAATGCGCCGCTGCGGCACGTCGCCG 20 103 1 CCCGCTGCGG 0.662751 -198 GGTCAACTGACAGCGGCGACGTGCCGCAGCG 20 116 0 CGCGGCGACG 0.884643 -185 TCCGGAAGCTCTGCGGTGCGCAGTGTGTGCG 20 148 0 CGCGGTGCGC 0.987862 -153 AGCTGTGCCTGGGCGATGAGCACACGGTCGA 20 196 0 GGCGATGAGC 0.61872 -105 CGATCATCACCGCCGACGCCCTGTTAGCTGC 20 238 1 CCCGACGCCC 0.778968 -63 GTTGTCTACGCGGCGACAACCGCGACATCAC 20 271 0 CGCGACAACC 0.728336 -30 ATTCGTCCGTCGCCGATGGTGCGCGAAAATC 21 96 0 CCCGATGGTG 0.872871 -199 GCGGCTCGTTCCGCCGCGATGAAATAACGCC 21 161 0 CGCCGCGATG 0.876326 -134 TGGTCGATAGCCCCGGTCGGGCTATGTTCCC 21 218 1 CCCGGTCGGG 0.979207 -77 GGGCTATGTTCCCCGGTGTGGCTAGACCAGT 21 236 1 CCCGGTGTGG 0.916878 -59 TAGACCAGTTGACCGGTGCGGGACGCGGATA 21 258 1 GCCGGTGCGG 0.924817 -37 GTTCGCGGCCCGCCTCGTCCCCGGACG 22 7 1 GCCCGCCTCG 0.532434 -44 AGTTTCCCATCCCCGGCGTCCGGGGACGAGG 22 23 0 CCCGGCGTCC 0.74024 -28 TCTGCATCGTCGCCGGCGCGGGTCAATCGAA 23 20 0 CCCGGCGCGG 0.502998 -154 TGGGGAGGAGCGGCGCCAGTGACCCGCGCCG 23 60 1 CGCGCCAGTG 0.58344 -114 TCTGCATCGTCGCCGGCGCGGGTCACTGGCG 23 73 0 CCCGGCGCGG 0.502998 -101 TGGGGAGGAGCGGCGCCAGTGACCCGCGCCG 23 113 1 CGCGCCAGTG 0.58344 -61 TCTGCATCGTCGCCGGCGCGGGTCACTGGCG 23 126 0 CCCGGCGCGG 0.502998 -48 TGGCGCCGCTCCTCCCCATCGCTT 23 160 0 CCCGCTCCTC 0.776943 -14 TCTCGGCTGTGTCCGGTGCGCCGTACGCGAT 24 20 1 GCCGGTGCGC 0.961997 -115 GATCGGCAACCCGCGGTGGCCAGCCGATTTA 24 48 1 CGCGGTGGCC 0.927197 -87 GGGAACGCTACCGCCACGCTCGGATAGGCCT 24 101 1 CGCCACGCTC 0.791113 -34 GCGGCACTGCCGTTGCGATAGTCTCCG 25 14 0 CGCCGTTGCG 0.741085 -17 GAGCCTAGCGCTGCGCTCGCCAACACGACGA 27 25 1 CGCGCTCGCC 0.897954 -35 CCCTAAAGGACTGCGGAGGCGAGAGGATTTG 28 132 1 CGCGGAGGCG 0.82423 -169 GGATTTGAACCTCCGGTCCCCTTGAAGGGGG 28 156 1 CCCGGTCCCC 0.976413 -145 GAGCCCCATTCGGCCGCTCTGGCACGCCTCC 28 203 1 CGCCGCTCTG 0.771153 -98 GCTAGGCCTCCGGCGGCTCGGGGAGTCCGGG 28 252 0 CGCGGCTCGG 0.844586 -49 * ********* Masking position 4 Map Score: 155.206 Number of sites scoring better than the average of aligned sites = 97850 Number in coding regions = 92554 Number in noncoding regions = 5296 Number of orfs with sites within 600 bp upstream = 1421 Fraction of orfs with sites within 600 bp upstream = 0.228236 Motif number 2 CCCGCCACCCCACCTCGACCGCGGTGCCCACA 1 168 1 CACCCGACGC 0.878516 -133 CGACTACCACCACCCCGAACGCCTCTTCGACC 1 204 1 CACCCGACGC 0.878517 -97 ACGCGGTGTGAACCGCCACCGCTGCCCCGGCA 2 35 0 AACCCCACGC 0.679654 -45 GCTATCCGACGATCAGCAGCGCAACCATGGCC 3 27 1 GATCGCACGC 0.988032 -75 GGACGTACGCGATCACCGCCGCTGTGCGGCGA 3 66 1 GATCCCGCGC 0.803073 -36 CACCGGCATCACGAGAACCAGA 5 1 1 CACCGCACAC 0.853479 -42 GTCAGCAAGGTCCCAGCCTCGTAGTTCGTCAT 7 111 1 TCCCGCCCGT 0.673078 -190 TCTGGTAAACCCCCAGGCCGGTGGGCGGTTGC 7 243 1 CCCCGGCGGT 0.434978 -58 TCATCGCTGCGCTCGGCATCGTCGCCGGCGGT 8 62 0 GCTCGCACGT 0.974637 -37 ATGCGCCGCTCCTCCTCATCGCTGCGCTCGGC 8 77 0 CCTCTCACGC 0.89565 -22 TTGCAATTTGGATCTGCCGTGCCCTCGTAATC 10 30 1 GATCGCCTGC 0.797668 -48 GGACCGTATGGCCGGGCCGCGC 11 1 0 GCCGGCCCGC 0.559687 -42 GGCGGTCGGAGCTCACCCGCACACAATAGGGT 13 20 0 GCTCCCCCAC 0.965517 -66 AGCTCCGACCGCCCAGCCAGACGAGATCCACC 13 39 1 GCCCGCCGAC 0.778893 -47 TCCACCGCCCGCTCCGGAACCCCTGGCGCCG 13 65 1 GCTCGGACCC 0.943941 -21 ATGTTGAGCAACTCCGGCGCGCGGGTGTTATG 14 26 0 ACTCGGCCGC 0.841507 -182 ATATCCCCGACCTCGGCAACACTCAACCACCT 14 141 0 CCTCGCACAC 0.959286 -67 CTACGTGACCGCGCCGCCGCCC 15 88 1 GCGCGCCCCC 0.815972 -12 CCCACTCCGGCCACCTGTCGCGCCCT 16 5 1 CTCCGCCCCT 0.420093 -220 TGACCCTGATCCTCGGCCTCCCGACGGGACCT 16 160 1 CCTCGCCCCC 0.97988 -65 ATGGGTCGCCGCCTCGCCGCGCTCAGGTCCCG 16 184 0 GCCTGCCCGC 0.725767 -41 GCATCGCTGCGCTCTGCATCGTCGCGGA 17 7 0 GCTCGCACGT 0.974642 -61 AAGCGGGCGGTACCCCCACCGCATCGCTGCGC 17 27 0 TACCCCACGC 0.679677 -41 CGGCGCCGCTCTCCCCCGCAAGCGGGCGG 17 49 0 GCTCCCCCGC 0.993545 -19 GACGCCACACGTTCGCCACCGCCGCGCCGCGC 19 77 0 GTTCCCACGC 0.949649 -50 AGTTGATCGCGATCTCCCAGGCACTGGCGGCC 20 22 0 GATCCCCGGC 0.878246 -279 CCTCGGCAAGCTCCCGCCGCCCGAGCCATCGG 20 58 1 CTCCGCCCCC 0.817101 -243 CGGCGCATTCGATCGGGCACGTAAGAAGCCGA 20 86 0 GATCGGCCGT 0.837165 -215 GCTGTCAGTTGACCACGCACACACTGCGCACC 20 133 1 GACCCGCCAC 0.673759 -168 CACCGCAGAGCTTCCGGATCACCATCGACATC 20 161 1 CTTCGGACAC 0.475701 -140 ACCGTGTGCTCATCGCCCAGGCACAGCTGCTT 20 199 1 CATCCCCGGC 0.828443 -102 TTGGCCTGACGATCATCACCGCCGACGCCCTG 20 229 1 GATCTCACGC 0.817023 -72 CCATCGCTTTGCTCTGCATCGTCGCCGGCGCG 23 31 0 GCTCGCACGT 0.974642 -143 TGGCGCCGCTCCTCCCCATCGCTTTGCTCTGC 23 46 0 CCTCCCACGC 0.989914 -128 CCATCGCTTTGCTCTGCATCGTCGCCGGCGCG 23 84 0 GCTCGCACGT 0.974642 -90 TGGCGCCGCTCCTCCCCATCGCTTTGCTCTGC 23 99 0 CCTCCCACGC 0.989914 -75 CCATCGCTTTGCTCTGCATCGTCGCCGGCGCG 23 137 0 GCTCGCACGT 0.974642 -37 TGGCGCCGCTCCTCCCCATCGCTTTGCTCTGC 23 152 0 CCTCCCACGC 0.989914 -22 CGCCGTACGCGATCGGCAACCCGCGGTGGCCA 24 38 1 GATCGCACCC 0.951624 -97 ACGTAAATCGGCTGGCCACCGCGGGTTGCCGA 24 50 0 GCTGCCACGC 0.884962 -85 CTAGCGCTGCGCTCGCCAACACGACGACACGA 27 29 1 GCTCCCACAC 0.956 -31 GTTCGAATCTCTTCGGGCGCGCTCTTTACTAG 28 31 0 CTTCGGCCGC 0.887271 -270 AATCCTCTCGCCTCCGCAGTCCTTTAGGGGAC 28 129 0 CCTCGCATCC 0.583651 -172 CCATTCGGCCGCTCTGGCACGCCTCCATGGAC 28 208 1 GCTCGGCCGC 0.988238 -93 **** *** *** Masking position 4 Map Score: 71.4348 Number of sites scoring better than the average of aligned sites = 23579 Number in coding regions = 21932 Number in noncoding regions = 1647 Number of orfs with sites within 600 bp upstream = 889 Fraction of orfs with sites within 600 bp upstream = 0.142788 Motif number 3 CAAGGAAACGGTCCGACGGCCAAACGGAAT 1 134 1 GTCCGACGGC 0.726857 -167 GGAATGGATCCCGCCACCCCACCTCGACCG 1 159 1 CCGCCACCCC 0.559079 -142 TCGACCGCGGTGCCCACACCAACGACTACC 1 182 1 TGCCCACACC 0.661225 -119 GACCACTAGCGGGCCGCGCCCTGACCACAA 1 232 1 GGGCCGCGCC 0.919916 -69 TGGCTAGTTCCGGCCAAGCCGGG 2 4 0 CGGCCAAGCC 0.909778 -76 ACCGCCACCGCTGCCCCGGCAGTGGCTAGT 2 26 0 CTGCCCCGGC 0.745655 -54 GACCTCCAAACGCGCACGCGGTGTGAACCG 2 52 0 CGCGCACGCG 0.267342 -28 GGATCTCCTCGCCGCACAGCGGCGGTGATC 3 76 0 GCCGCACAGC 0.497904 -26 CTAACCGGCGGCCCCGAAGCGTAGTGATGT 4 18 1 GCCCCGAAGC 0.585561 -71 CCTACCGCTGCACCTGCGGCGACGAATTG 7 10 0 CACCTGCGGC 0.444739 -291 CGGTAGGCGTCACCGGCGCCAGCACAGTGG 7 33 1 CACCGGCGCC 0.956578 -268 TCGCATCGAAGTCCCATGCCACTGTGCTGG 7 51 0 GTCCCATGCC 0.651522 -250 GCGAACCCGACAGCCACAGCCCTCGTGGCT 7 77 1 CAGCCACAGC 0.648417 -224 ATCTGGTAAACCCCCAGGCCGGTGGGCGGT 7 242 1 CCCCCAGGCC 0.775894 -59 ACCACCGACCGTCGCGCGCCAGCAGGCAAC 7 270 0 GTCGCGCGCC 0.83644 -31 GGCGTCACCCTACCCAAGCCGAACGCGAAA 8 29 0 TACCCAAGCC 0.502994 -70 ATGCGCCGCTCCTCCTCATCGC 8 87 0 GCGCCGCTCC 0.779324 -12 CTGGCACACCCTACGGCCCG 9 26 0 CTGGCACACC 0.704349 -10 CAATTTGGATCTGCCGTGCCCTCGTAATCT 10 33 1 CTGCCGTGCC 0.878939 -45 CCGGACCGTATGGCCGGGCCGCGC 11 5 0 TGGCCGGGCC 0.706558 -38 CAGAGTGTCACAGCCGGACCGTATGGCCGG 11 18 0 CAGCCGGACC 0.52231 -25 GCAGCAGAGTTCGCACGCCGTATGCCGCT 12 10 1 TTCGCACGCC 0.716001 -52 TGAGCTCCGACCGCCCAGCCAGACGAGATC 13 37 1 CCGCCCAGCC 0.698755 -49 CGAGATCCACCGCCCGCTCCGGAACCCCTG 13 60 1 CGCCCGCTCC 0.81454 -26 GCTCCGGAACCCCTGGCGCCG 13 75 1 CCCTGGCGCC 0.648018 -11 GGTGTTATGGGCCGCTCGGCGCGC 14 5 0 GCCGCTCGGC 0.349236 -203 GCCCATAACACCCGCGCGCCGGAGTTGCTC 14 23 1 CCCGCGCGCC 0.789449 -185 AAAATGGGCCCTCCGAAACCTAGAGGCCCC 14 93 0 CTCCGAAACC 0.242478 -115 GGGCGGCGGCGCGGTCACGT 15 90 0 GGGCGGCGGC 0.924488 -10 CTCCGGCCACCTGTCGCGCCCTCAGAAGGT 16 15 1 CTGTCGCGCC 0.815596 -210 GCGTCGCGGTGTGCCGCGGCGTCCGCGCGG 16 58 1 GTGCCGCGGC 0.96535 -167 TCCGCGCGGTCGCTCGTGCCCGACTCGTGG 16 79 1 CGCTCGTGCC 0.336034 -146 CTCAGGTCCCGTCGGGAGGCCGAGGATCAG 16 165 0 GTCGGGAGGC 0.363157 -60 GGACCTGAGCGCGGCGAGGCGGCGACCCAT 16 186 1 GCGGCGAGGC 0.727233 -39 CCCCGCAAGCGGGCGGTACCCCCACCGCAT 17 35 0 GGGCGGTACC 0.340302 -33 TTGCGGGGGAGAGCGGCGCCG 17 57 1 GAGCGGCGCC 0.949449 -11 ACGTTCGCCACCGCCGCGCCGCGCATTAGG 19 71 0 CCGCCGCGCC 0.992646 -56 CGGCGGGAGCTTGCCGAGGCGGTAGTTGAT 20 47 0 TTGCCGAGGC 0.581162 -254 AAGCTCCCGCCGCCCGAGCCATCGGCTTCT 20 65 1 CGCCCGAGCC 0.957803 -236 CAGCGGCGACGTGCCGCAGCGGCGCATTCG 20 107 0 GTGCCGCAGC 0.839401 -194 GCTCATCGCCCAGGCACAGCTGCTTGGCCT 20 206 1 CAGGCACAGC 0.417734 -95 CGATCATCACCGCCGACGCCCTGTTAGCTG 20 238 1 CGCCGACGCC 0.936453 -63 AGCCCCAAATCGGCCACGGCTAAATGACAG 21 59 0 CGGCCACGGC 0.951053 -236 GCGAAAATCAGGGCCAAGCCCCAAATCGGC 21 75 0 GGGCCAAGCC 0.889608 -220 GGCCCTGATTTTCGCGCACCATCGGCGACG 21 90 1 TTCGCGCACC 0.57809 -205 TCAACTGGTCTAGCCACACCGGGGAACATA 21 240 0 TAGCCACACC 0.514495 -55 CCGTATCCGCGTCCCGCACCGGTCAACTGG 21 262 0 GTCCCGCACC 0.93088 -33 GTTCGCGGCCCGCCTCGTCCCCGG 22 5 1 GCGGCCCGCC 0.716242 -46 CCGCCTCGTCCCCGGACGCCGGGGATGGGA 22 20 1 CCCGGACGCC 0.843391 -31 ATCTTCGATTGACCCGCGCCGGCGACGATG 23 17 1 GACCCGCGCC 0.970582 -157 CGATGGGGAGGAGCGGCGCCAGTGACCCGC 23 57 1 GAGCGGCGCC 0.949449 -117 CGGCGCCAGTGACCCGCGCCGGCGACGATG 23 70 1 GACCCGCGCC 0.970582 -104 CGATGGGGAGGAGCGGCGCCAGTGACCCGC 23 110 1 GAGCGGCGCC 0.949449 -64 CGGCGCCAGTGACCCGCGCCGGCGACGATG 23 123 1 GACCCGCGCC 0.970582 -51 CGATGGGGAGGAGCGGCGCCA 23 163 1 GAGCGGCGCC 0.949449 -11 TCGGCTGTGTCCGGTGCGCCGTACGCGATC 24 22 1 CCGGTGCGCC 0.62518 -113 GGGAACGCTACCGCCACGCTCGGATAGGCC 24 101 1 CCGCCACGCT 0.537781 -34 CGAGGTCATTGCCCGAGCCTAGCGCTGCG 27 10 1 TGCCCGAGCC 0.851886 -50 AGCCTAGCGCTGCGCTCGCCAACACGACGA 27 26 1 TGCGCTCGCC 0.306747 -34 CGAATCTCTTCGGGCGCGCTCTTTACTAGC 28 30 0 CGGGCGCGCT 0.584117 -271 TGAAGACAAGCGCCCGTAGCTCAACGGATA 28 94 0 CGCCCGTAGC 0.428059 -207 CCCTAAAGGACTGCGGAGGCGAGAGGATTT 28 132 1 CTGCGGAGGC 0.661251 -169 TTCGGCCGCTCTGGCACGCCTCCATGGACT 28 211 1 CTGGCACGCC 0.927629 -90 GTACCCGGACTCCCCGAGCCGCCGGAGGCC 28 249 1 TCCCCGAGCC 0.84488 -52 ********** Masking position 10 Map Score: 90.3486 Number of sites scoring better than the average of aligned sites = 58939 Number in coding regions = 54990 Number in noncoding regions = 3949 Number of orfs with sites within 600 bp upstream = 1422 Fraction of orfs with sites within 600 bp upstream = 0.228397 Motif number 4 TCGTTGGTGTGGGCACCGCGGTCGAGGTGG 1 177 0 GGGCACCGCG 0.951883 -124 GACGTTTTGTGGTCAGGGCGCGGCCCGCTA 1 238 0 GGTCAGGGCG 0.839504 -63 GGCCCCACAAGTGCGCCACGTTGGTAGCCT 1 275 1 GTGCGCCACG 0.809428 -26 CCATGGCCCAGGTCTGGACGTACGCGATCA 3 51 1 GGTCTGGACG 0.540863 -51 CACCGCCGCTGTGCGGCGAGGAGATCCGAA 3 79 1 GTGCGGCGAG 0.849755 -23 CGTGGCTGCAGGTCAGCAAGGTCCCAGCCT 7 100 1 GGTCAGCAAG 0.407135 -201 TTGCCTGCTGGCGCGCGACGGTCGGTGGTC 7 271 1 GCGCGCGACG 0.971907 -30 CCTCATCGCTGCGCTCGGCATCGTCGCCGG 8 66 0 GCGCTCGGCA 0.807263 -33 GAGATTACGAGGGCACGGCAGATCCAAATT 10 34 0 GGGCACGGCA 0.874366 -44 GGGCTCCAAGCGTAGTGATC 10 68 0 GGGCTCCAAG 0.688075 -10 GCGCGGCCCGGCCATACGGT 11 1 1 GCGCGGCCCG 0.83729 -42 GCGCGCCGAGCGGCCCATAA 14 1 1 GCGCGCCGAG 0.973382 -207 GACTTGAGCTGCTCTGGGAGAATGGTCTAC 15 62 1 GCTCTGGGAG 0.609159 -38 GCGGCGGCGCGGTCACGTAGACCATTCTCC 15 78 0 GGTCACGTAG 0.539131 -22 CACCTTCTGAGGGCGCGACAGGTGGCCGGA 16 16 0 GGGCGCGACA 0.906693 -209 GCGACCGCGCGGACGCCGCGGCACACCGCG 16 62 0 GGACGCCGCG 0.698406 -163 GCGGGTTTGAGGGCGCCGAGTCGCTCCACG 16 104 0 GGGCGCCGAG 0.974892 -121 GTTTTCGATTGCGCGCATCGTGGCGGGTTT 16 126 0 GCGCGCATCG 0.746676 -99 CGAGGATCAGGGTCAGGGCGTTTTCGATTG 16 145 0 GGTCAGGGCG 0.839504 -80 GCCGCGCTCAGGTCCCGTCGGGAGGCCGAG 16 171 0 GGTCCCGTCG 0.660266 -54 CGGGACCTGAGCGCGGCGAGGCGGCGACCC 16 184 1 GCGCGGCGAG 0.97196 -41 ATGCCCTAATGCGCGGCGCGGCGGTGGCGA 19 67 1 GCGCGGCGCG 0.985917 -60 CCGATGGCTCGGGCGGCGGGAGCTTGCCGA 20 60 0 GGGCGGCGGG 0.81417 -241 GCATTCGATCGGGCACGTAAGAAGCCGATG 20 84 0 GGGCACGTAA 0.596021 -217 CGCACACACTGCGCACCGCAGAGCTTCCGG 20 148 1 GCGCACCGCA 0.831408 -153 GTCGCCGATGGTGCGCGAAAATCAGGGCCA 21 89 0 GTGCGCGAAA 0.425226 -206 GTTGGTCATAGGGCGGCTCGTTCCGCCGCG 21 174 0 GGGCGGCTCG 0.969537 -121 CAGTTGACCGGTGCGGGACGCGGATACGGC 21 263 1 GTGCGGGACG 0.842546 -32 GGGACGAGGCGGGCCGCGAAC 22 2 0 GGGCCGCGAA 0.66905 -49 ATCGTCGCCGGCGCGGGTCAATCGAAGATG 23 16 0 GCGCGGGTCA 0.913386 -158 ATCGTCGCCGGCGCGGGTCACTGGCGCCGC 23 69 0 GCGCGGGTCA 0.913386 -105 ATCGTCGCCGGCGCGGGTCACTGGCGCCGC 23 122 0 GCGCGGGTCA 0.913386 -52 CTACCGCCACGCTCGGATAGGCCTACCCTT 24 108 1 GCTCGGATAG 0.22499 -27 CTGGGCTCGTAACGCGTCAGTG 26 15 0 GGGCTCGTAA 0.485266 -12 AGTAAAGAGCGCGCCCGAAGAGATTCGAAC 28 33 1 GCGCCCGAAG 0.78047 -268 CTGAAGACAAGCGCCCGTAGCTCAACGGAT 28 95 0 GCGCCCGTAG 0.811992 -206 GCCTCCGGCGGCTCGGGGAGTCCGGGTACT 28 248 0 GCTCGGGGAG 0.90627 -53 ********** Masking position 4 Map Score: 56.5444 Number of sites scoring better than the average of aligned sites = 25312 Number in coding regions = 23476 Number in noncoding regions = 1836 Number of orfs with sites within 600 bp upstream = 936 Fraction of orfs with sites within 600 bp upstream = 0.150337 Motif number 5 CGCTAGTGGTCGAAGAGGCGTTCGGGGTGG 1 213 0 CGAAGAGGCG 0.883964 -88 ACGCGATCACCGCCGCTGTGCGGCGAGGAG 3 72 1 CGCCGCTGTG 0.743063 -30 AATTCGTCGCCGCAGGTGCAGCGGTAGGCG 7 12 1 CGCAGGTGCA 0.529004 -289 CCTCGGGGATCCCCGACACGGATGAGGGTG 7 149 0 CCCCGACACG 0.579358 -152 TGACCGCCGGCGACGATGCCGAGCGCAGCG 8 60 1 CGACGATGCC 0.972857 -39 TACGTGACCGCGCCGCCGCCC 15 89 1 CGCCGCCGCC 0.853453 -11 CGAGCGACCGCGCGGACGCCGCGGCACACC 16 65 0 CGCGGACGCC 0.924005 -160 GGTTTGAGGGCGCCGAGTCGCTCCACGAGT 16 101 0 CGCCGAGTCG 0.737996 -124 CTCAAACCCGCCACGATGCGCGCAATCGAA 16 123 1 CCACGATGCG 0.828598 -102 TGCGCGCAATCGAAAACGCCCTGACCCTGA 16 139 1 CGAAAACGCC 0.439458 -86 GACCTGAGCGCGGCGAGGCGGCGACCCATT 16 187 1 CGGCGAGGCG 0.947192 -38 TCCGCGACGATGCAGAGCGCAGCG 17 5 1 CGACGATGCA 0.957112 -63 GCCACACGTTCGCCACCGCCGCGCCGCGCA 19 76 0 CGCCACCGCC 0.789888 -51 TCTTGTCGGCCGCCAGTGCCTGGGAGATCG 20 15 1 CGCCAGTGCC 0.578268 -286 GGCGGGAGCTTGCCGAGGCGGTAGTTGATC 20 46 0 TGCCGAGGCG 0.735001 -255 CGATCGAATGCGCCGCTGCGGCACGTCGCC 20 103 1 CGCCGCTGCG 0.532225 -198 CAACTGACAGCGGCGACGTGCCGCAGCGGC 20 114 0 CGGCGACGTG 0.693127 -187 GTGTGCTCATCGCCCAGGCACAGCTGCTTG 20 202 1 CGCCCAGGCA 0.710487 -99 CGATCATCACCGCCGACGCCCTGTTAGCTG 20 238 1 CGCCGACGCC 0.991256 -63 CGCCGACGCGTTGTCTACGC 20 291 0 CGCCGACGCG 0.967955 -10 GATGAAATAACGCCGAGGAATCGCTAGACG 21 145 0 CGCCGAGGAA 0.618026 -150 CGGTGCGGGACGCGGATACGGCTAGTCTGC 21 271 1 CGCGGATACG 0.529873 -24 CGGCGTCCGGGGACGAGGCGGGCCGCGAAC 22 11 0 GGACGAGGCG 0.710672 -40 GCGGGTCAATCGAAGATGCCCCG 23 4 0 CGAAGATGCC 0.834406 -170 CCCGCGCCGGCGACGATGCAGAGCAAAGCG 23 29 1 CGACGATGCA 0.957112 -145 CCCGCGCCGGCGACGATGCAGAGCAAAGCG 23 82 1 CGACGATGCA 0.957112 -92 CCCGCGCCGGCGACGATGCAGAGCAAAGCG 23 135 1 CGACGATGCA 0.957112 -39 CGAGAATGTTCGCCGACGTAAATCGGCTGG 24 67 0 CGCCGACGTA 0.864191 -68 CTCGCCAACACGACGACACGAAACCTTTGG 27 40 1 CGACGACACG 0.877282 -20 TCTTTACTAGCGCAAACGCGTTCCGTTGGT 28 11 0 CGCAAACGCG 0.770009 -290 ********** Masking position 2 Map Score: 47.7593 Number of sites scoring better than the average of aligned sites = 24232 Number in coding regions = 22822 Number in noncoding regions = 1410 Number of orfs with sites within 600 bp upstream = 779 Fraction of orfs with sites within 600 bp upstream = 0.12512 Motif number 6 TTTCCTTGTCTGCCAGCCTTTCCCGACTAGCTT 1 109 0 TGCAGCCTCC 0.710635 -192 GGATCCATTCCGTTTGGCCGTCGGACCGTTTCC 1 137 0 CGTTGGCCCG 0.786476 -164 GACGTTTTGTGGTCAGGGCGCGGCCCGCTAGTG 1 235 0 GGCAGGGCGG 0.927711 -66 TGCGCCACGTTGGTAGCCTCTGGGA 1 286 1 TGTAGCCTGG 0.620367 -15 CGGTGTGAACCGCCACCGCTGCCCCGGCAGTGG 2 31 0 CGCACCGCCC 0.894011 -49 GCTGATCGTCGGATAGCGCTGGCCAACTCTGGG 3 11 0 GGTAGCGCGC 0.948806 -91 ATCCGACGATCAGCAGCGCAACCATGGCCCAGG 3 30 1 CACAGCGCCC 0.778785 -72 CGGGGCCGCCGGTTAGGTCTCGG 4 1 0 GGTAGGTCGG 0.373041 -88 GATGCGAACCCGACAGCCACAGCCCTCGTGGCT 7 74 1 CGCAGCCAGC 0.676681 -227 ACGCTAGCGCGACCACCGACCGTC 7 287 0 CGTAGCGCCC 0.980946 -14 CGTTCGGCTTGGGTAGGGTGACGCCATGACCGC 8 34 1 GGTAGGGTCG 0.520041 -65 TCGCTGCGCTCGGCATCGTCGCCGGCGGTCATG 8 58 0 CGCATCGTCC 0.430436 -41 TGGTCGATAGCCTAGCGGGCCGTAGGG 9 5 1 CGTAGCCTCG 0.502953 -31 ACTGTCAGCGCCGGCTGTCGAAATG 12 47 0 TGCAGCGCGC 0.822577 -15 GGGTGAGCTCCGACCGCCCAGCCAGACGAGATC 13 34 1 CGCCGCCCCC 0.924125 -52 CGGCGCCAGGGGTTCCGGAGCGGGCG 13 70 0 CGCAGGGGCC 0.759233 -16 GTGTAGCTGCCGATAGCGTCGCGGTGTGCCGCG 16 43 1 CGTAGCGTCG 0.836111 -182 CAGGTCCCGTCGGGAGGCCGAGGATCAGGGTCA 16 160 0 CGGAGGCCGG 0.772843 -65 CGCAAGCGGGCGGTACCCCCACCGCATCGCTGC 17 29 0 CGTACCCCCC 0.887606 -39 TCACGCTAGCGCAGGCAATAATCGCA 18 4 1 CGTAGCGCGC 0.98202 -26 GGAATAACTAGGGTAGCCTAACCTATATTAGGA 19 35 1 GGTAGCCTCC 0.504214 -92 CCGCGCCGCGCATTAGGGCATCCTAATATAGGT 19 55 0 CATAGGGCCC 0.705538 -72 GCCACACGTTCGCCACCGCCGCGCCGCGCATTA 19 73 0 CGCACCGCCG 0.892406 -54 TCTTGTCGGCCGCCAGTGCCTGGGAGATCGCGA 20 15 1 CGCAGTGCGG 0.853891 -286 AGAAGCCGATGGCTCGGGCGGCGGGAGCTTGCC 20 62 0 GGTCGGGCCG 0.761948 -239 CGGTGATGATCGTCAGGCCAAGCAGCTGTGCCT 20 217 0 CGCAGGCCGC 0.973796 -84 CGTGATTGGTCGATAGCCCCGGTCGGGCTATGT 21 212 1 CGTAGCCCGT 0.718849 -83 ACGCGGATACGGCTAGTCTGCCGGA 21 280 1 GGTAGTCTCG 0.430457 -15 CGCGGGTTGCCGATCGCGTACGGCGCACCGGAC 24 30 0 CGTCGCGTGG 0.768535 -105 CGACGTAAATCGGCTGGCCACCGCGGGTTGCCG 24 51 0 CGCTGGCCCG 0.788155 -84 CCGAGCGTGGCGGTAGCGTTCCCTAGACGAGAA 24 91 0 CGTAGCGTCC 0.957237 -44 CGCCACGCTCGGATAGGCCTACCCTTGGCTCTC 24 112 1 GGTAGGCCCC 0.948669 -23 ACTGCCGTTGCGATAGTCTCCGGCC 25 3 0 CGTAGTCTGG 0.673157 -28 GCGAGCGCAGCGCTAGGCTCGGGCAATGACCTC 27 12 0 CGTAGGCTGG 0.916845 -48 CGGCTGTGTACGCTAGGCCTCCGGCGGCTCGGG 28 261 0 CGTAGGCCCG 0.978295 -40 ** ****** ** Masking position 2 Map Score: 46.9738 Number of sites scoring better than the average of aligned sites = 18043 Number in coding regions = 16746 Number in noncoding regions = 1297 Number of orfs with sites within 600 bp upstream = 820 Fraction of orfs with sites within 600 bp upstream = 0.131706 Motif number 7 TCCACCATATCGACCAGTGGGCAACCGGCGGCTCAACC 1 32 1 CCCGGGACGG 0.970141 -269 GCGGTGTGAACCGCCACCGCTGCCCCGGCAGTGGCTAG 2 27 0 CCCCGCCCGG 0.973985 -53 GCTCAGGGACCTCCAAACGCGCACGCGGTGTGAACCGC 2 51 0 CCAAGCCCGG 0.622788 -29 CGTTTCGGATCTCCTCGCCGCACAGCGGCGGTGATCGC 3 74 0 CCTGCGACGG 0.386365 -28 CGCTTCGGGGCCGCCGGTTAGGTCTCGG 4 1 0 CCCGTACCGG 0.964345 -88 GGCGCTCATCCTGTGCTCCCTCTGGTTCTCGTGA 5 19 0 CCCGGCCCTG 0.962551 -24 CCGGTGACGCCTACCGCTGCACCTGCGGCGACGAATTG 7 11 0 CCCCGCTCGG 0.928434 -290 GCGAACCCGACAGCCACAGCCCTCGTGGCTGCAGGTCA 7 77 1 CCCCGCCTGG 0.661149 -224 CGACAGCTGACCACCTGGGATTCCTCGGGGATCCCCGA 7 163 0 CCCGGACCGG 0.998345 -138 GACGCCATGACCGCCGGCGACGATGCCGAGCGCAGCGA 8 53 1 CCCGGATCCG 0.789555 -46 GGTTCGTTACCGTCTTGTGATCGAACGGGTGGGGCCTC 14 63 1 CCTGGAACGG 0.936436 -145 CACGAGTCGGGCACGAGCGACCGCGCGGACGCCGCGGC 16 70 0 GCGGGACCGG 0.867774 -155 GTGTCAGCCAGCCAAGTCACGGTGGTTTGACG 19 105 0 CCCGCACCGG 0.988187 -22 TCGGCCGCCAGTGCCTGGGAGATCGCGATCAACTACCG 20 20 1 GCCGGACCGA 0.776892 -281 TCACAGGCAGCTAACAGGGCGTCGGCGGTGATGATCGT 20 237 0 CACGGCGCGG 0.812219 -64 GCCCTGTTAGCTGCCTGTGATGTCGCGGTTGTCGCCGC 20 255 1 CCCGGACCGG 0.997432 -46 TCGTTTTTTTCGTCTAGCGATTCCTCGGCGTTATTTCA 21 135 1 CCTGGACCGG 0.98883 -160 CCATCCCCGGCGTCCGGGGACGAGGCGGGCCGCGAAC 22 10 0 CCCGGAGCGG 0.990351 -41 CCTCCATGGACTTCCCGAGAGTACCCGGACTCCCCGAG 28 229 1 CCCGGACCGG 0.998388 -72 * ** * ** * *** Masking position 4 Map Score: 35.4679 Number of sites scoring better than the average of aligned sites = 5212 Number in coding regions = 4881 Number in noncoding regions = 331 Number of orfs with sites within 600 bp upstream = 268 Fraction of orfs with sites within 600 bp upstream = 0.0430453 Motif number 8 TTTCCCGACTAGCTTGTGGTTGGGTGTGCAGGTG 1 90 0 AGCGGGTGGG 0.988513 -211 GACGATCAGCAGCGCAACCATGGCCCAGGTCTGG 3 34 1 AGCACCTGGC 0.888909 -68 GACGATGCCGAGCGCAGCGATGAGGAGGAGCGGC 8 71 1 AGCACGTGAG 0.939435 -28 TCGATAGCCTAGCGGGCCGTAGGGTGTGCCAG 9 14 1 AGCGCGAGGG 0.967023 -22 CCGTCTTGTGATCGAACGGGTGGGGCCTCTAGGT 14 72 1 ATCAGGTGGG 0.933025 -136 TGCAGAGCGCAGCGATGCGGTGGGGGTACCGCCC 17 21 1 AGCTCGTGGG 0.97004 -47 CCTAATGCGCGGCGCGGCGGTGGCGAACGTGTGG 19 71 1 GGCGCGTGGC 0.895659 -56 GCACGTAAGAAGCCGATGGCTCGGGCGGCGGGAG 20 68 0 AGCAGGTCGG 0.921316 -233 GACGATGCAGAGCAAAGCGATGGGGAGGAGCGGC 23 40 1 AGCACGTGGG 0.996091 -134 GACGATGCAGAGCAAAGCGATGGGGAGGAGCGGC 23 93 1 AGCACGTGGG 0.996091 -81 GACGATGCAGAGCAAAGCGATGGGGAGGAGCGGC 23 146 1 AGCACGTGGG 0.996091 -28 GGCCTATCCGAGCGTGGCGGTAGCGTTCCCTAGA 24 97 0 AGCGCGTAGC 0.793865 -38 GAGAGCCAAGGGTAGGCCTATCCGAGC 24 118 0 AGCAGGAGGC 0.894002 -17 TCATTGCCCGAGCCTAGCGCTGCGCTCGCCAACA 27 16 1 AGCACGTGCG 0.958315 -44 CTGACTACGGATCAGAAGGTTGGGAGTTCGAATC 28 54 0 ATCAGGTGGG 0.933025 -247 *** * ** **** Masking position 3 Map Score: 28.3024 Number of sites scoring better than the average of aligned sites = 869 Number in coding regions = 801 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 73 Fraction of orfs with sites within 600 bp upstream = 0.011725 Motif number 9 GGTGGACTTCGCACCGGTCACCGGGTG 1 8 0 GCACCGGTCA 0.915144 -293 AAACGGAATGGATCCCGCCACCCCACCTCG 1 155 1 GATCCCGCCA 0.953956 -146 GCAGTGGCTAGTTCCGGCCAAGCCGGG 2 8 0 GTTCCGGCCA 0.976052 -72 CAATAGAAAAGATCCAGCCATATATCCGGA 6 37 0 GATCCAGCCA 0.944924 -58 TCACCCGGTTGAACCAGCAATAGAAAAGAT 6 54 0 GAACCAGCAA 0.776546 -41 ACTTCGATGCGAACCCGACAGCCACAGCCC 7 69 1 GAACCCGACA 0.642494 -232 GGTCAGCAAGGTCCCAGCCTCGTAGTTCGT 7 110 1 GTCCCAGCCT 0.517191 -191 GCGCGGCCCGGCCATACGGTCCGG 11 5 1 GGCCCGGCCA 0.965362 -38 AGACGGTAACGAACCGGCCAATGTTGAGCA 14 48 0 GAACCGGCCA 0.987436 -160 GCAGTAGAAAGGACCGGCAAAGAGGAGCCG 15 13 0 GGACCGGCAA 0.908774 -87 CTACTGCACTGTACCGGTCAGATATCGACT 15 36 1 GTACCGGTCA 0.898918 -64 CCCACTCCGGCCACCTGTCGCGC 16 4 1 ACTCCGGCCA 0.830852 -221 CGGCGCCCTCAAACCCGCCACGATGCGCGC 16 116 1 AAACCCGCCA 0.731354 -109 ATGACAGAGAGTTCCGGCATCCATGTCAAA 21 36 0 GTTCCGGCAT 0.503015 -259 CCGGTCAACTGGTCTAGCCACACCGGGGAA 21 244 0 GGTCTAGCCA 0.427921 -51 TCCGCGTCCCGCACCGGTCAACTGGTCTAG 21 257 0 GCACCGGTCA 0.915144 -38 ********** Masking position 4 Map Score: 16.3985 Number of sites scoring better than the average of aligned sites = 4082 Number in coding regions = 3797 Number in noncoding regions = 285 Number of orfs with sites within 600 bp upstream = 272 Fraction of orfs with sites within 600 bp upstream = 0.0436878 Motif number 10 GGTGTGAACCGCCACCGCTGCCCCGGCAGT 2 33 0 GCCACCGCTG 0.947681 -47 GGTGGCGGTTCACACCGCGTGCGCGTTTGG 2 47 1 CACACCGCGT 0.847062 -33 GCCGGTGACGCCTACCGCTGCACCTGCGGC 7 20 0 CCTACCGCTG 0.964046 -281 GCCGCTCCTCCTCATCGCTGCGCTCGGCAT 8 75 0 CTCATCGCTG 0.90508 -24 GGGCGGTACCCCCACCGCATCGCTGCGCTC 17 25 0 CCCACCGCAT 0.97335 -43 GCACACACTGCGCACCGCAGAGCTTCCGGA 20 149 1 CGCACCGCAG 0.876874 -152 GCCGCTCCTCCCCATCGCTTTGCTCTGCAT 23 44 0 CCCATCGCTT 0.98639 -130 GCCGCTCCTCCCCATCGCTTTGCTCTGCAT 23 97 0 CCCATCGCTT 0.98639 -77 GCCGCTCCTCCCCATCGCTTTGCTCTGCAT 23 150 0 CCCATCGCTT 0.98639 -24 CCGCGGGTTGCCGATCGCGTACGGCGCACC 24 34 0 CCGATCGCGT 0.837334 -101 ATTGCCCGAGCCTAGCGCTGCGCTCGCCAA 27 18 1 CCTAGCGCTG 0.860098 -42 ********** Masking position 4 Map Score: 13.1718 Number of sites scoring better than the average of aligned sites = 1258 Number in coding regions = 1146 Number in noncoding regions = 112 Number of orfs with sites within 600 bp upstream = 98 Fraction of orfs with sites within 600 bp upstream = 0.0157404 Motif number 11 ACGGAATGGATCCCGCCACCCCACCTCGAC 1 157 1 TCCCGCCACC 0.76651 -144 TCGACCGCGGTGCCCACACCAACGACTACC 1 182 1 TGCCCACACC 0.700926 -119 CACCAACGACTACCACCACCCCGAACGCCT 1 198 1 TACCACCACC 0.434855 -103 TTTGTGGTCAGGGCGCGGCCCGCTAGTGGT 1 233 0 GGGCGCGGCC 0.525341 -68 CGTCAAGACCAGGCCCCACAAGTGCGCCAC 1 264 1 AGGCCCCACA 0.902153 -37 CCGCCACCGCTGCCCCGGCAGTGGCTAGTT 2 25 0 TGCCCCGGCA 0.778864 -55 ACGCGGTGTGAACCGCCACCGCTGCCCCGG 2 37 0 AACCGCCACC 0.934321 -43 CGGTGATAACCGCGATCCTAGTCACCC 6 78 0 AACCGCGATC 0.250541 -17 GTGCAGCGGTAGGCGTCACCGGCGCCAGCA 7 27 1 AGGCGTCACC 0.886763 -274 TTCCTCGGGGATCCCCGACACGGATGAGGG 7 151 0 ATCCCCGACA 0.390491 -150 ACGCTAGCGCGACCACCGACCGTC 7 287 0 TAGCGCGACC 0.935148 -14 CCGGCGGTCATGGCGTCACCCTACCCAAGC 8 40 0 TGGCGTCACC 0.905625 -59 AATTTGGATCTGCCGTGCCCTCGTAATCTC 10 34 1 TGCCGTGCCC 0.543137 -44 TGTGCGGGTGAGCTCCGACCGCCCAGCCAG 13 29 1 AGCTCCGACC 0.416091 -57 CGAAACCTAGAGGCCCCACCCGTTCGATCA 14 80 0 AGGCCCCACC 0.967096 -128 AACGCGCTATATCCCCGACCTCGGCAACAC 14 151 0 ATCCCCGACC 0.671303 -57 CACCTTCTGAGGGCGCGACAGGTGGCCGGA 16 16 0 GGGCGCGACA 0.700011 -209 CAATCGAAAACGCCCTGACCCTGATCCTCG 16 145 1 CGCCCTGACC 0.438251 -80 AAGCGGGCGGTACCCCCACCGCATCGCTGC 17 29 0 TACCCCCACC 0.926689 -39 CACGGTGGTTTGACGCCACACGTTCGCCAC 19 90 0 TGACGCCACA 0.451621 -37 CACAGCTGCTTGGCCTGACGATCATCACCG 20 220 1 TGGCCTGACG 0.425383 -81 ACGCGGCGACAACCGCGACATCACAGGCAG 20 265 0 AACCGCGACA 0.79717 -36 TCTGTCATTTAGCCGTGGCCGATTTGGGGC 21 58 1 AGCCGTGGCC 0.738877 -237 AATCAGGGCCAAGCCCCAAATCGGCCACGG 21 70 0 AAGCCCCAAA 0.0747114 -225 CCGGGGAACATAGCCCGACCGGGGCTATCG 21 222 0 TAGCCCGACC 0.91289 -73 TCAACTGGTCTAGCCACACCGGGGAACATA 21 240 0 TAGCCACACC 0.419977 -55 CGCGGGTCACTGGCGCCGCTCCTCCCCATC 23 58 0 TGGCGCCGCT 0.689813 -116 CGCGGGTCACTGGCGCCGCTCCTCCCCATC 23 111 0 TGGCGCCGCT 0.689813 -63 TGGCGCCGCTCCTCCCCATC 23 164 0 TGGCGCCGCT 0.689813 -10 TAGGGAACGCTACCGCCACGCTCGGATAGG 24 99 1 TACCGCCACG 0.677291 -36 AAGTCCATGGAGGCGTGCCAGAGCGGCCGA 28 212 0 AGGCGTGCCA 0.235283 -89 TAGCGTACACAGCCGCCACATATGCTGTCG 28 279 1 AGCCGCCACA 0.931138 -22 ********** Masking position 4 Map Score: 20.2245 Number of sites scoring better than the average of aligned sites = 22194 Number in coding regions = 20706 Number in noncoding regions = 1488 Number of orfs with sites within 600 bp upstream = 913 Fraction of orfs with sites within 600 bp upstream = 0.146643 Motif number 12 TTGTGGTTGGGTGTGCAGGTGAAGGTGAGT 1 81 0 GTGTGCAGGT 0.856233 -220 GGTCGAAGAGGCGTTCGGGGTGGTGGTAGT 1 206 0 GCGTTCGGGG 0.934641 -95 GGTTCACACCGCGTGCGCGTTTGGAGGTCC 2 53 1 GCGTGCGCGT 0.9784 -27 CCCCAGGCCGGTGGGCGGTTGCCTGCTGGC 7 253 1 GTGGGCGGTT 0.895586 -48 CCACCCTATTGTGTGCGGGTGAGCTCCGAC 13 18 1 GTGTGCGGGT 0.983523 -68 GGGTTCCGGAGCGGGCGGTGGATCTCGTCT 13 57 0 GCGGGCGGTG 0.930253 -29 AGCAACTCCGGCGCGCGGGTGTTATGGGCC 14 22 0 GCGCGCGGGT 0.977076 -186 TACACCTTCTGAGGGCGCGACAGGTGGCCG 16 18 0 GAGGGCGCGA 0.625026 -207 GTGTGCCGCGGCGTCCGCGCGGTCGCTCGT 16 66 1 GCGTCCGCGC 0.868933 -159 CCGCCTCGCCGCGCTCAGGTCCCGTCGGGA 16 178 0 GCGCTCAGGT 0.402412 -47 TCCCCCGCAAGCGGGCGGTACCCCCACCGC 17 37 0 GCGGGCGGTA 0.818407 -31 GCGGTGCGCAGTGTGTGCGTGGTCAACTGA 20 137 0 GTGTGTGCGT 0.594055 -164 CAGACTAGCCGTATCCGCGTCCCGCACCGG 21 270 0 GTATCCGCGT 0.452488 -25 CCCATCCCCGGCGTCCGGGGACGAGGCGGG 22 19 0 GCGTCCGGGG 0.98128 -32 CCTCTCGGCTGTGTCCGGTGCGCCGTACGC 24 18 1 GTGTCCGGTG 0.842872 -117 GCGGCTCGGGGAGTCCGGGTACTCTCGGGA 28 241 0 GAGTCCGGGT 0.925043 -60 ********** Masking position 1 Map Score: 13.7681 Number of sites scoring better than the average of aligned sites = 6254 Number in coding regions = 5777 Number in noncoding regions = 477 Number of orfs with sites within 600 bp upstream = 385 Fraction of orfs with sites within 600 bp upstream = 0.0618375 Motif number 13 AGAGGCTACCAACGTGGCGCACTTGTGGGG 1 277 0 AACGTGGCGC 0.831192 -24 GGCGGTTCACACCGCGTGCGCGTTTGGAGG 2 50 1 ACCGCGTGCG 0.639421 -30 TGCTGGTTCAACCGGGTGACTAGGATCGCG 6 65 1 ACCGGGTGAC 0.482554 -30 CAATTCGTCGCCGCAGGTGCA 7 2 1 AATTCGTCGC 0.510473 -299 GCGAAACGAGAACGTGTTCCATTA 8 5 0 AACGTGTTCC 0.716996 -94 GCAAGACTAGAACGTGTTGCAATTTGGATC 10 14 1 AACGTGTTGC 0.890025 -64 CTTGTGATCGAACGGGTGGGGCCTCTAGGT 14 76 1 AACGGGTGGG 0.903492 -132 CGTACGGGAGAATGGGTCGCCGCCTCGCCG 16 197 0 AATGGGTCGC 0.891028 -28 AGGATGCCCTAATGCGCGGCGCGGCGGTGG 19 64 1 AATGCGCGGC 0.859588 -63 GGCGGTGGCGAACGTGTGGCGTCAAACCAC 19 86 1 AACGTGTGGC 0.953926 -41 TGCCCGATCGAATGCGCCGCTGCGGCACGT 20 99 1 AATGCGCCGC 0.894527 -202 CCGCGTAGACAACGCGTCGGCG 20 289 1 AACGCGTCGG 0.966923 -12 ATCGCGGCGGAACGAGCCGCCCTATGACCA 21 172 1 AACGAGCCGC 0.800474 -123 CTGGGCTCGTAACGCGTCAGTGGTTA 26 7 0 AACGCGTCAG 0.802431 -20 TACTAGCGCAAACGCGTTCCGTTGGT 28 7 0 AACGCGTTCC 0.87335 -294 ********** Masking position 1 Map Score: 7.30784 Number of sites scoring better than the average of aligned sites = 3355 Number in coding regions = 3097 Number in noncoding regions = 258 Number of orfs with sites within 600 bp upstream = 238 Fraction of orfs with sites within 600 bp upstream = 0.0382268 Motif number 14 CCCACCTCGACCGCGGTGCCCACACCAACGA 1 176 1 CCGCGTGCCC 0.521618 -125 CTCTTCGACCACTAGCGGGCCGCGCCCTGAC 1 226 1 ACTAGGGGCC 0.652333 -75 TCCCAGAGGCTACCAACGTGGCGC 1 287 0 CAGAGCTACC 0.568587 -14 CCCAGAGTTGGCCAGCGCTATCC 3 3 1 CAGAGTGGCC 0.759096 -99 ATCACGAGAACCAGAGGGAGCACAGGATGAG 5 18 1 CCAGAGGAGC 0.0908591 -25 GTCACCCTACCCAAGCCGAACGCGAAACGAG 8 25 0 CCAAGCGAAC 0.278335 -74 GGCGACGATGCCGAGCGCAGCGATGAGGAGG 8 68 1 CCGAGGCAGC 0.819457 -31 TGGTCGATAGCCTAGCGGGCCGTAGGGTGTG 9 11 1 CCTAGGGGCC 0.933093 -25 GCGCGCCGAGCGGCCCATAACACCCG 14 6 1 CCGAGGGCCC 0.987255 -202 CAAGACGGTAACGAACCGGCCAATGTTGAGC 14 49 0 ACGAACGGCC 0.657225 -159 CCCTCCGAAACCTAGAGGCCCCACCCGTTCG 14 84 0 CCTAGGGCCC 0.876265 -124 GAACAAAAAGCAAAATGGGCCCTCCGAAACC 14 103 0 CAAAAGGGCC 0.450912 -105 AAAGGACCGGCAAAGAGGAGCCGCC 15 5 0 CAAAGGGAGC 0.618081 -95 TACAGTGCAGTAGAAAGGACCGGCAAAGAGG 15 18 0 TAGAAGGACC 0.145801 -82 GAGTCGCTCCACGAGTCGGGCACGAGCGACC 16 86 0 ACGAGCGGGC 0.859253 -139 TTTGAGGGCGCCGAGTCGCTCCACGAGTCGG 16 98 0 CCGAGCGCTC 0.644815 -127 CCTCGGCCTCCCGACGGGACCTGAGCGCGGC 16 170 1 CCGACGGACC 0.899155 -55 CGCGACGATGCAGAGCGCAGCGATGCGGTGG 17 13 1 CAGAGGCAGC 0.456716 -55 GGCTAAATGACAGAGAGTTCCGGCATCCATG 21 41 0 CAGAGGTTCC 0.200234 -254 GGGCCAAGCCCCAAATCGGCCACGGCTAAAT 21 64 0 CCAAACGGCC 0.712958 -231 TCGCGGCGGAACGAGCCGCCCTATGACCAAC 21 173 1 ACGAGCGCCC 0.85376 -122 GGAACATAGCCCGACCGGGGCTATCGACCAA 21 217 0 CCGACGGGGC 0.884387 -78 GCGTCCGGGGACGAGGCGGGCCGCGAAC 22 8 0 ACGAGCGGGC 0.859253 -43 CCGGACACAGCCGAGAGGACCTCTA 24 5 0 CCGAGGGACC 0.989519 -130 GATCGGCAACCCGCGGTGGCCAGCCGATTTA 24 48 1 CCGCGTGGCC 0.682267 -87 GTAGGCCTATCCGAGCGTGGCGGTAGCGTTC 24 103 0 CCGAGGTGGC 0.915951 -32 AGGTCATTGCCCGAGCCTAGCGCTGCGCTCG 27 13 1 CCGAGCTAGC 0.790664 -47 TTGTCCCCCTTCAAGGGGACCGGAGGTTCAA 28 160 0 TCAAGGGACC 0.490601 -141 GCCAGAGCGGCCGAATGGGGCTCACTGCTAA 28 195 0 CCGAAGGGGC 0.931076 -106 CATGGACTTCCCGAGAGTACCCGGACTCCCC 28 233 1 CCGAGGTACC 0.92702 -68 CCCGGACTCCCCGAGCCGCCGGAGGCCTAGC 28 252 1 CCGAGCGCCG 0.630978 -49 ***** ***** Masking position 11 Map Score: 30.3634 Number of sites scoring better than the average of aligned sites = 13158 Number in coding regions = 12252 Number in noncoding regions = 906 Number of orfs with sites within 600 bp upstream = 657 Fraction of orfs with sites within 600 bp upstream = 0.105525 Motif number 15 ********** No masking Map Score: 4.76307e-12 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0