AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/alignace/lib/ORF_mtub.txt -z/skink1/amcguire/genomes/mtub.fna -irpoN_mtub_opreg_300.orf -g0.656 -x5 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 = 0.656 maxlen = 30 weight = 0.8 exclude = 0 Input sequences: #1 Rv0072 300 hypothetical protein Rv0072 #2 Rv0079 300 hypothetical protein Rv0079 #3 Rv0081 94 hypothetical protein Rv0081 #4 Rv0195 300 hypothetical protein Rv0195 #5 Rv0196 112 hypothetical protein Rv0196 #6 PE_PGRS 300 PE_PGRS #7 Rv0748 90 hypothetical protein Rv0748 #8 Rv0749 23 hypothetical protein Rv0749 #9 Rv0986 300 hypothetical protein Rv0986 #10 glnA1 300 glnA1 #11 Rv2561 300 hypothetical protein Rv2561 #12 Rv2562 55 hypothetical protein Rv2562 #13 Rv2563 142 hypothetical protein Rv2563 #14 ftsE 43 ftsE #15 prfB 102 prfB Motif number 1 GTTGAGCCGCCGGTTGCCCACTGGTCGATA 1 39 0 CGGTTGCCCA 0.812061 -262 CTTGTGGTTGGGTGTGCAGGTGAAGGTGAG 1 82 0 GGTGTGCAGG 0.703989 -219 GGATCCATTCCGTTTGGCCGTCGGACCGTT 1 140 0 CGTTTGGCCG 0.809931 -161 CGGTCGAGGTGGGGTGGCGGGATCCATTCC 1 159 0 GGGGTGGCGG 0.971216 -142 CACCTCGACCGCGGTGCCCACACCAACGAC 1 178 1 GCGGTGCCCA 0.885896 -123 AGAGGCGTTCGGGGTGGTGGTAGTCGTTGG 1 200 0 GGGGTGGTGG 0.972765 -101 TTGTGGTCAGGGCGCGGCCCGCTAGTGGTC 1 232 0 GGCGCGGCCC 0.522489 -69 GCACTTGTGGGGCCTGGTCTTGACGTTTTG 1 259 0 GGCCTGGTCT 0.574546 -42 CAGAAGCTGAGGCTCGCTCTGGACATGTAC 2 61 0 GGCTCGCTCT 0.680329 -240 GTGGCAGTTTCCGTCGCTGCGCAGAAGCTG 2 82 0 CCGTCGCTGC 0.613514 -219 CGTTGCCACACGTGCGCCCAGTAGGCTTTG 2 115 0 CGTGCGCCCA 0.83847 -186 TGCCGCCGTTGGGCCGCGGACTAGCCGAAT 2 162 1 GGGCCGCGGA 0.850318 -139 CCGAATTTTCCGGGTGGTGACACAGCCCAC 2 186 1 CGGGTGGTGA 0.799632 -115 GTCCGCGTCCGTGTCGGCCAGACAAGCTTT 2 240 1 GTGTCGGCCA 0.700095 -61 GGATGCGTGCGGGCCGCCCGCGGCCAATCG 3 12 0 GGGCCGCCCG 0.507261 -83 CTCCCTTGTTCGCGTGGAGGGGTTCTCGGG 4 43 1 CGCGTGGAGG 0.660599 -258 GGGGTTCTCGGGTCCGGTCAGCGAGGTCCG 4 61 1 GGTCCGGTCA 0.739024 -240 TGAAATTTCCGCCCCGCTCCGGACCTCGCT 4 80 0 GCCCCGCTCC 0.699419 -221 CCTAGGGCTGGGGGCGCCCGGAAGGAACAC 4 193 1 GGGGCGCCCG 0.505855 -108 GCGGAATTTCGCTCCGCTGCGCTTGACCAC 4 248 0 GCTCCGCTGC 0.617157 -53 TTGCACCCGGTCCGGACGGAGGATGAAC 4 283 0 GGTCCGGACG 0.586516 -18 GCACGTACGTCGGACGCCGGCCATCAA 5 8 0 CGGACGCCGG 0.796809 -105 GCTTGGGATCGGCCCGGCCGCACGTACGTC 5 27 0 GGCCCGGCCG 0.568803 -86 GCGAAGATCCCCGGCGCTCGAGCGCTTTGT 6 16 1 CCGGCGCTCG 0.643059 -285 TGTCAGAGGCCCGTCGCGGGTCGTCGTGAC 6 43 1 CCGTCGCGGG 0.665236 -258 GACGGCTATCCGGGCGGTGCGGGTTTCGCG 6 73 1 CGGGCGGTGC 0.745122 -228 CCGGGCACAGGGCGCGCCGCGAAACCCGCA 6 90 0 GGCGCGCCGC 0.556687 -211 TGCCGACAAACGGGCGGCGGTGCCGGGCAC 6 112 0 CGGGCGGCGG 0.505767 -189 CGGCTCACGGGTCGCGGCGGCGTTGCCGAC 6 135 0 GTCGCGGCGG 0.948498 -166 AGCGCTGCATGCGGTGCCGGATCGCGATAT 6 196 1 GCGGTGCCGG 0.944571 -105 CCGTACGGGTGTGTCGCTGGTAGTCGGGCA 6 252 1 GTGTCGCTGG 0.849379 -49 CCCTCACGGCCTGGTGCCCGACTACCAGCG 6 266 0 CTGGTGCCCG 0.895632 -35 CGCGGTCGCAGGCCCGCCGG 7 1 0 GGCCCGCCGG 0.629556 -90 TGCTGTCAACGCCGCGCGCGGTCGCAGGCC 7 17 0 GCCGCGCGCG 0.515858 -74 AGCATCGCTTCGGCCGCTCGACCGCAGATG 7 43 1 CGGCCGCTCG 0.710916 -48 CACTCGCGGACTGCCGGCCG 9 1 0 CTGCCGGCCG 0.707223 -300 CGATCCCAGCGTCGTGGCCATTGACACCAC 9 55 0 GTCGTGGCCA 0.602324 -246 CTGCCGGGATCCGGTGCTGTTGTTTGTTGA 9 107 1 CCGGTGCTGT 0.488376 -194 GTTTGTTGACGGGATGCCCTTGACTTCGCT 9 128 1 GGGATGCCCT 0.544477 -173 CGCTGACCGTGGTGTGCGCGTAACCGGCCG 9 154 1 GGTGTGCGCG 0.819081 -147 TGCGCGTAACCGGCCGGTCGGGAACGCGGC 9 168 1 CGGCCGGTCG 0.751212 -133 ACCGCGCCATCCGTCGCCGCGTTCCCGACC 9 183 0 CCGTCGCCGC 0.630322 -118 GGCGACGGATGGCGCGGTGGCCAGGACAGT 9 195 1 GGCGCGGTGG 0.973645 -106 TGGCTCCGATGGGGCGCCGGCTGGCGGCTC 10 13 0 GGGGCGCCGG 0.519661 -288 CACCGGACCGGGTTCGCTGGCTCCGATGGG 10 30 0 GGTTCGCTGG 0.911637 -271 CAGCGAACCCGGTCCGGTGTCCGGCAAGCC 10 41 1 GGTCCGGTGT 0.665724 -260 CAAGACGCTGGGCTTGCCGGACACCGGACC 10 51 0 GGCTTGCCGG 0.962275 -250 CAAGCCCAGCGTCTTGCCGGGATAGTCGGG 10 65 1 GTCTTGCCGG 0.789429 -236 CCGGGATAGTCGGGCGGCGATTTCGCCGTC 10 81 1 CGGGCGGCGA 0.810384 -220 CTGGTTATCGGGTCTGCCCGATGACGGCGA 10 103 0 GGTCTGCCCG 0.949754 -198 CGTAACCGGTGGCATGCCGAACGGGAACCT 10 131 0 GGCATGCCGA 0.575029 -170 CCCCACAATAGGGCCGGGGAGACCCGGCGT 10 177 1 GGGCCGGGGA 0.831895 -124 CCGCCCACCACTGACGCCGGGTCTCCCCGG 10 190 0 CTGACGCCGG 0.687707 -111 GTTACTGACCGTGCCGCCCACCACTGACGC 10 203 0 GTGCCGCCCA 0.855402 -98 CGGCTCCATAGCGTCGGCCGCGGATACAGT 10 268 1 GCGTCGGCCG 0.856806 -33 TCGAACCAAGGTTGCGGCCGATGTGTACGT 11 94 1 GTTGCGGCCG 0.88855 -207 TCTGATCACTCGCGTGGTCGATGCAGTCGA 11 142 1 CGCGTGGTCG 0.893472 -159 CCTTGGGTGGCGGCTGCCGGTTCCGTCGAC 11 167 0 CGGCTGCCGG 0.901343 -134 GCCACCCAAGGGTGCGCAGGTGGTTAGCAA 11 186 1 GGTGCGCAGG 0.734504 -115 GGCGCATGACGCGGTGGCGTCGTGTTCGTC 11 222 0 GCGGTGGCGT 0.811132 -79 CACCAAGGCGGGGTCGGCGATGGCGCATGA 11 243 0 GGGTCGGCGA 0.950339 -58 CGCCGACCCCGCCTTGGTGGCTGAGAGCCG 11 254 1 GCCTTGGTGG 0.680646 -47 GGCTGAGAGCCGCTCGCCGGCGTTAAGCTG 11 272 1 CGCTCGCCGG 0.940632 -29 ACAGGTTGTCCCGCTGCTCGCAACTC 12 7 0 CCGCTGCTCG 0.810936 -49 CGAGGTGAGGGGGTCGGTCGTGGCGGTCGA 13 42 0 GGGTCGGTCG 0.960647 -101 TTGCCGCGTTGGTTCGCCGAGGTTCGACCG 13 70 0 GGTTCGCCGA 0.868722 -73 AAATGATCATGGGCTGGCGTTGCCGCGTTG 13 89 0 GGGCTGGCGT 0.90062 -54 TTTCGCCTGCCCGCTAATCTCAC 14 4 1 CGCCTGCCCG 0.91732 -40 CCGCTACACTGGCGTGCCGTG 14 33 1 GGCGTGCCGT 0.902671 -11 GAGCCTCTGTGTTGTGCCCGGCTGCGGCGC 15 15 1 GTTGTGCCCG 0.818369 -88 GTTGTGCCCGGCTGCGGCGCAAGGGGCTGC 15 25 1 GCTGCGGCGC 0.569183 -78 GGCTGCGAATGGGCTGGGCCGCAGTCGTGC 15 49 1 GGGCTGGGCC 0.660644 -54 GGGCCGCAGTCGTGCGGTGCACATGACGGT 15 64 1 CGTGCGGTGC 0.739556 -39 ********** Masking position 6 Map Score: 118.711 Number of sites scoring better than the average of aligned sites = 92805 Number in coding regions = 86750 Number in noncoding regions = 6055 Number of orfs with sites within 600 bp upstream = 1639 Fraction of orfs with sites within 600 bp upstream = 0.263251 Motif number 2 GGTTGAGCCGCCGGTTGCCCACTGGTCGATAT 1 38 0 CCGTTGCCAC 0.711036 -263 TTGTCTGCCAGCCTTTCCCGACTAGCTTGTGG 1 105 0 GCCTTCCGAC 0.918222 -196 GACAAGGAAACGGTCCGACGGCCAAACGGAAT 1 132 1 CGGCCGCGGC 0.932931 -169 GATCCCGCCACCCCACCTCGACCGCGGTGCCC 1 165 1 CCCACCCGAC 0.846349 -136 CCACCTCGACCGCGGTGCCCACACCAACGACT 1 177 1 CGCGTGCCAC 0.509759 -124 TTGTGGTCAGGGCGCGGCCCGCTAGTGGTCGA 1 230 0 GGCCGGCCGC 0.916898 -71 TTGGGCCGTTCACGACCCAGCCTCAT 2 5 1 GCCTTCCGAC 0.89129 -296 CATGTCCAGAGCGAGCCTCAGCTTCTGCGCAG 2 64 1 GCGGCCCAGC 0.646893 -237 GTGGCAGTTTCCGTCGCTGCGCAGAAGCTGAG 2 80 0 CCGCGCGCGC 0.753755 -221 TAGTCCGCGGCCCAACGGCGGCATTTCGTGTG 2 153 0 CCCACGCGGC 0.951214 -148 TGGGACTTTCGGCCCTGTCCGCGTCCGTGTCG 2 224 1 GGCCTGCCGC 0.951558 -77 AGCTTGTCTGGCCGACACGGACGCGGACAGGG 2 236 0 GCCACAGGAC 0.300215 -65 ACAAGCTTTGGGCATTGGCCACAATCGGGCCA 2 261 1 GGCTTGCCAC 0.825677 -40 ATGCGTGCGGGCCGCCCGCGGCCAATCGG 3 8 0 GCCCCCCGGC 0.502747 -87 AGAAACTGTTCCCGCCGACAACTAACTCCCTT 4 18 1 CCCCCGCAAC 0.784406 -283 AAATTTCCGCCCCGCTCCGGACCTCGCTGACC 4 76 0 CCCCTCGGAC 0.787563 -225 CGGCAAGCATGCCTTCAGGAGCCATGTTGTCG 4 153 1 GCCTCAGAGC 0.607516 -148 GTTCCTTCCGGGCGCCCCCAGCCCTAGGCACT 4 189 0 GGCCCCCAGC 0.922875 -112 TCGCTCCGCTGCGCTTGACCACATGCGGAATG 4 238 0 GCGTTGCCAC 0.73044 -63 TTGCACCCGGTCCGGACGGAGGATGAA 4 284 0 CCCGTCGGAC 0.500675 -17 CGCTTGGGATCGGCCCGGCCGCACGTACGTCG 5 26 0 CGGCCGCCGC 0.900226 -87 AAGATCCCCGGCGCTCGAGCGCTTTGTCAGAG 6 19 1 GCGTCGGCGC 0.492536 -282 GTCACGACGACCCGCGACGGGCCTCTGACAAA 6 41 0 CCCCGAGGGC 0.678466 -260 TCGTGACGACGGCTATCCGGGCGGTGCGGGTT 6 66 1 GGCATCGGGC 0.852735 -235 CGGGCGGTGCGGGTTTCGCGGCGCGCCCTGTG 6 83 1 GGGTTCCGGC 0.926174 -218 CAAACGGGCGGCGGTGCCGGGCACAGGGCGCG 6 104 0 GCGTGCGGGC 0.487437 -197 GCACCGCCGCCCGTTTGTCGGCAACGCCGCCG 6 119 1 CCGTTGCGGC 0.948173 -182 TTGTCGGCAACGCCGCCGCGACCCGTGAGCCG 6 133 1 CGCGCCCGAC 0.672457 -168 GACCCGTGAGCCGTCCAGCAGCTGGCGCCTGC 6 152 1 CCGCCACAGC 0.533839 -149 GATCCGGCACCGCATGCAGCGCTTCCACACGT 6 187 0 CGCTGCGCGC 0.85171 -114 CAACGATATCGCGATCCGGCACCGCATGCAGC 6 199 0 GCGTCCGCAC 0.588595 -102 GGCCTGGTGCCCGACTACCAGCGACACACCCG 6 257 0 CCGCTACAGC 0.464066 -44 ATGCCTCCCAACCCCTCACGGCCTGGTGCCCG 6 276 0 ACCCTCCGGC 0.777359 -25 CCGGCGGGCCTGCGACCGCGCGCGGCGTT 7 8 1 GCCGCGCCGC 0.839951 -83 GACCGCGCGCGGCGTTGACAGCATCGCTTCGG 7 24 1 GGCTTGCAGC 0.91089 -67 TTGACAGCATCGCTTCGGCCGCTCGACCGCAG 7 38 1 CGCTCGCCGC 0.964164 -53 CACACGGTAACGCATCAACAGCATCATCTGCG 7 65 0 CGCTCACAGC 0.682398 -26 TGCCGTTCTGCGCCTATTGGGGG 8 11 0 GCCTTCGCGC 0.621772 -13 GTTCCACTCGCGGACTGCCGGCCG 9 3 0 CGGCTGCGGC 0.913178 -298 CCATGGCAACGGCGATCCCAGCGTCGTGGCCA 9 65 0 GGCATCCAGC 0.806275 -236 GATCGCCGTTGCCATGGGGAGCTGACGCTGCC 9 80 1 GCCTGGGAGC 0.768962 -221 AACAACAGCACCGGATCCCGGCAGCGTCAGCT 9 99 0 CCGATCCGGC 0.87831 -202 TTACGCGCACACCACGGTCAGCGAAGTCAAGG 9 145 0 ACCCGGCAGC 0.438539 -156 TCCCGACCGGCCGGTTACGCGCACACCACGGT 9 159 0 CCGTTAGCGC 0.460657 -142 CATCCGTCGCCGCGTTCCCGACCGGCCGGTTA 9 174 0 CGCTTCCGAC 0.862822 -127 TGGCCACCGCGCCATCCGTCGCCGCGTTCCCG 9 186 0 GCCTCCTCGC 0.542283 -115 CACAGCTGAAGGCGTTGTTGGCGTGATGTCAT 9 232 0 GGCTTGTGGC 0.729167 -69 TTCAGCTGTGAGCGATCCGGGCTAGACTACCG 9 254 1 AGCATCGGGC 0.297123 -47 CGATGGGGCGCCGGCTGGCGGCTCTG 10 5 0 CCGCTGCGGC 0.925005 -296 CCAGCCGGCGCCCCATCGGAGCCAGCGAACCC 10 19 1 CCCATCGAGC 0.705151 -282 TCCGGTGTCCGGCAAGCCCAGCGTCTTGCCGG 10 53 1 GGCAGCCAGC 0.748948 -248 ATCGCCGCCCGACTATCCCGGCAAGACGCTGG 10 70 0 GACATCCGGC 0.425797 -231 ATCGGGTCTGCCCGATGACGGCGAAATCGCCG 10 95 0 CCCATGCGGC 0.923283 -206 CGTAACCGGTGGCATGCCGAACGGGAACCTGG 10 129 0 GGCTGCGAAC 0.37596 -172 CTATTGTGGGGCCATGGTCGGCAAGATCGTAA 10 156 0 GCCTGGCGGC 0.57462 -145 ACTGACGCCGGGTCTCCCCGGCCCTATTGTGG 10 179 0 GGTTCCCGGC 0.408273 -122 TACTGACCGTGCCGCCCACCACTGACGCCGGG 10 199 0 GCCCCCCCAC 0.846708 -102 TTGACTGACGGGCAATATCGGCTCCATAGCGT 10 250 1 GGCATACGGC 0.721788 -51 TCGGCTCCATAGCGTCGGCCGCGGATACAGTA 10 267 1 AGCTCGCCGC 0.688119 -34 ACCCGAATTGGCATCCGGGGCCTGGAACGCG 11 10 1 GGCTCCGGGC 0.938595 -291 GAACTACGTACACATCGGCCGCAACCTTGGTT 11 97 0 CACTCGCCGC 0.583497 -204 CACCTGCGCACCCTTGGGTGGCGGCTGCCGGT 11 176 0 CCCTGGTGGC 0.744643 -125 CGCGTCATGCGCCATCGCCGACCCCGCCTTGG 11 239 1 GCCTCGCGAC 0.932668 -62 TCGCCGACCCCGCCTTGGTGGCTGAGAGCCGC 11 253 1 CGCTTGTGGC 0.719772 -48 TGGCTGAGAGCCGCTCGCCGGCGTTAAGCTGC 11 271 1 CCGTCGCGGC 0.948457 -30 GACAGGTTGTCCCGCTGCTCGCAACTC 12 6 0 CCCCTGTCGC 0.705131 -50 CAAATTCGTCGCCCATGAGGGCGAA 12 41 1 GCCATGGGGC 0.510107 -15 GATCTCGACCGCCACGACCGACCCCCTCACCT 13 38 1 GCCCGACGAC 0.570603 -105 TGGCGTTGCCGCGTTGGTTCGCCGAGGTTCGA 13 73 0 GCGTGGTCGC 0.428069 -70 GAACCAACGCGGCAACGCCAGCCCATGATCAT 13 85 1 GGCACGCAGC 0.850311 -58 CATTCGCAGCCCCTTGCGCCGCAGCCGGGCAC 15 28 0 CCCTGCCCGC 0.9572 -75 TGCGGCCCAGCCCATTCGCAGCCCCTTGCGCC 15 40 0 CCCTTCCAGC 0.93378 -63 *** *** **** Masking position 12 Map Score: 111.204 Number of sites scoring better than the average of aligned sites = 96010 Number in coding regions = 90407 Number in noncoding regions = 5603 Number of orfs with sites within 600 bp upstream = 1594 Fraction of orfs with sites within 600 bp upstream = 0.256023 Motif number 3 AGGTGGGGTGGCGGGATCCATTCCGTTTGG 1 153 0 GCGGGATCCA 0.535872 -148 TCACGACCCAGCCTCATGCGCTGCATCTGC 2 20 1 GCCTCATGCG 0.876688 -281 TGCGTGCGGGCCGCCCGCGGCCAATCGG 3 9 0 CCGCCCGCGG 0.501017 -86 GGGCGGCCCGCACGCATCCGCACTATCTGA 3 23 1 CACGCATCCG 0.681926 -72 CCCGAGAACCCCTCCACGCGAACAAGGGAG 4 43 0 CCTCCACGCG 0.684868 -258 GAAATTTCCGCCCCGCTCCGGACCTCGCTG 4 79 0 CCCCGCTCCG 0.786925 -222 CATGCTTGCCGCTGGATCCGTTCCGGTCCT 4 134 0 GCTGGATCCG 0.908482 -167 AGGAGTTCATCCTCCGTCCGGACCGGGTGC 4 279 1 CCTCCGTCCG 0.870228 -22 TTGATGGCCGGCGTCCGACGTACGTGC 5 8 1 CCGGCGTCCG 0.96765 -105 CGCCGCTCCATCCGAGGCATATGT 5 99 0 GCTCCATCCG 0.953345 -14 TCACGACGACCCGCGACGGGCCTCTGACAA 6 42 0 CCGCGACGGG 0.610128 -259 CCGCCGCGACCCGTGAGCCGTCCAGCAGCT 6 145 1 CCGTGAGCCG 0.963405 -156 CGTTTCGCAGGCGCCAGCTGCTGGACGGCT 6 160 0 GCGCCAGCTG 0.869602 -141 GTGTGGAAGCGCTGCATGCGGTGCCGGATC 6 189 1 GCTGCATGCG 0.908482 -112 ATCAACGATATCGCGATCCGGCACCGCATG 6 203 0 TCGCGATCCG 0.737666 -98 GGGCACCAGGCCGTGAGGGGTTGGGAGGCA 6 277 1 CCGTGAGGGG 0.797934 -24 GAGGGGTTGGGAGGCATGCG 6 291 1 GAGGCATGCG 0.761785 -10 GCCTGCGACCGCGCGCGGCGTTGACAGCAT 7 18 1 GCGCGCGGCG 0.818923 -73 GCTGACGCTGCCGGGATCCGGTGCTGTTGT 9 100 1 CCGGGATCCG 0.98415 -201 CCTGGCCACCGCGCCATCCGTCGCCGCGTT 9 190 0 GCGCCATCCG 0.990215 -111 GCCAACAACGCCTTCAGCTGTGAGCGATCC 9 242 1 CCTTCAGCTG 0.449061 -59 CTTCAGCTGTGAGCGATCCGGGCTAGACTA 9 253 1 GAGCGATCCG 0.775796 -48 CAGAGCCGCCAGCCGGCGCCCCATC 10 6 1 CCGCCAGCCG 0.988142 -295 GCCAGCCGGCGCCCCATCGGAGCCAGCGAA 10 18 1 GCCCCATCGG 0.889599 -283 GGCGATTTCGCCGTCATCGGGCAGACCCGA 10 96 1 CCGTCATCGG 0.945882 -205 TCAGTCAACCCCGTGTTGCGCAGACGTTAC 10 228 0 CCGTGTTGCG 0.597746 -73 CGGCTCCATAGCGTCGGCCGCGGATACAGT 10 268 1 GCGTCGGCCG 0.911554 -33 GTCGACGGAACCGGCAGCCGCCACCCAAGG 11 167 1 CCGGCAGCCG 0.989295 -134 CGACGCCACCGCGTCATGCGCCATCGCCGA 11 230 1 GCGTCATGCG 0.962245 -71 AGCCACCAAGGCGGGGTCGGCGATGGCGCA 11 246 0 GCGGGGTCGG 0.784706 -55 TTCGCCCTCATGGGCGACGAATTT 12 42 0 CCCTCATGGG 0.719386 -14 ACGGAAGCTACCTGCTTCCGTGGACCCAAT 13 120 0 CCTGCTTCCG 0.676864 -23 GTGAGATTAGCGGGCAGGCGAAA 14 4 0 CGGGCAGGCG 0.659478 -40 AGCCCCTTGCGCCGCAGCCGGGCACAACAC 15 23 0 GCCGCAGCCG 0.955259 -80 CATCAGATGACCGTCATGTGCACCGCACGA 15 73 0 CCGTCATGTG 0.721686 -30 ********** Masking position 10 Map Score: 48.8557 Number of sites scoring better than the average of aligned sites = 24112 Number in coding regions = 22319 Number in noncoding regions = 1793 Number of orfs with sites within 600 bp upstream = 956 Fraction of orfs with sites within 600 bp upstream = 0.15355 Motif number 4 CACCCGGTGACCGGTGCGAAGT 1 3 1 CCCGGTGACC 0.883922 -298 GCCAGCCTTTCCCGACTAGCTTGTGGTTGG 1 101 0 CCCGACTAGC 0.61494 -200 AAGGAAACGGTCCGACGGCCAAACGGAATG 1 135 1 TCCGACGGCC 0.578127 -166 CGGAATGGATCCCGCCACCCCACCTCGACC 1 158 1 CCCGCCACCC 0.87069 -143 GCCACCCCACCTCGACCGCGGTGCCCACAC 1 171 1 CTCGACCGCG 0.777701 -130 CTACCACCACCCCGAACGCCTCTTCGACCA 1 207 1 CCCGAACGCC 0.95014 -94 GCTGCATCTGCTCGCCAACCTCGTACATGT 2 39 1 CTCGCCAACC 0.912043 -262 CTCGTTGCCACACGTGCGCCCAGTAGGCTT 2 117 0 CACGTGCGCC 0.586233 -184 CCGCGGGCGGCCCGCACGCATCCGCACTAT 3 19 1 CCCGCACGCA 0.740347 -76 AATTCTTCAACTCGTCAACCGATGTAACGC 3 55 1 CTCGTCAACC 0.778866 -40 AGAAACTGTTCCCGCCGACAACTAACTCCC 4 18 1 CCCGCCGACA 0.816436 -283 GCTGACCGGACCCGAGAACCCCTCCACGCG 4 53 0 CCCGAGAACC 0.892885 -248 CGCTCCGGACCTCGCTGACCGGACCCGAGA 4 66 0 CTCGCTGACC 0.66696 -235 TTGGGATCGGCCCGGCCGCACGTACGTCGG 5 25 0 CCCGGCCGCA 0.941729 -88 GTGTAACGTGCACGGTAGCCATTATGTATA 5 62 1 CACGGTAGCC 0.742286 -51 TGACAAAGCGCTCGAGCGCCGGGGATCTTC 6 18 0 CTCGAGCGCC 0.831871 -283 TAGCCGTCGTCACGACGACCCGCGACGGGC 6 51 0 CACGACGACC 0.756658 -250 CCCGCACCGCCCGGATAGCCGTCGTCACGA 6 66 0 CCGGATAGCC 0.727836 -235 GGCACCGCCGCCCGTTTGTCGGCAACGCCG 6 118 1 CCCGTTTGTC 0.293266 -183 GCCGCCGCGACCCGTGAGCCGTCCAGCAGC 6 144 1 CCCGTGAGCC 0.893458 -157 CGGCCTGGTGCCCGACTACCAGCGACACAC 6 260 0 CCCGACTACC 0.949027 -41 CGCGCGGTCGCAGGCCCGCCGG 7 3 0 CAGGCCCGCC 0.656575 -88 GCTTCGGCCGCTCGACCGCAGATGATGCTG 7 49 1 CTCGACCGCA 0.763679 -42 AGCACCGGATCCCGGCAGCGTCAGCTCCCC 9 95 0 CCCGGCAGCG 0.915546 -206 TCAAGGGCATCCCGTCAACAAACAACAGCA 9 121 0 CCCGTCAACA 0.709285 -180 TCGCCGCGTTCCCGACCGGCCGGTTACGCG 9 170 0 CCCGACCGGC 0.90429 -131 CGATCACTGTCCTGGCCACCGCGCCATCCG 9 200 0 CCTGGCCACC 0.560573 -101 GAGATGACATCACGCCAACAACGCCTTCAG 9 229 1 CACGCCAACA 0.428401 -72 CAGAGCCGCCAGCCGGCGCCCCAT 10 5 1 GCCGCCAGCC 0.920643 -296 GGTCCGGTGTCCGGCAAGCCCAGCGTCTTG 10 51 1 CCGGCAAGCC 0.55266 -250 GAAATCGCCGCCCGACTATCCCGGCAAGAC 10 75 0 CCCGACTATC 0.569424 -226 ATCGGGTCTGCCCGATGACGGCGAAATCGC 10 97 0 CCCGATGACG 0.532501 -204 ATCGGGCAGACCCGATAACCAGGTTCCCGT 10 111 1 CCCGATAACC 0.937539 -190 TAACCAGGTTCCCGTTCGGCATGCCACCGG 10 126 1 CCCGTTCGGC 0.666548 -175 TACTGACCGTGCCGCCCACCACTGACGCCG 10 201 0 GCCGCCCACC 0.89327 -100 GCCGATATTGCCCGTCAGTCAACCCCGTGT 10 242 0 CCCGTCAGTC 0.774715 -59 CGTTCCAGGCCCCGGATGCCAATTCGGGT 11 10 0 CCCGGATGCC 0.788986 -291 AGTCGACGGAACCGGCAGCCGCCACCCAAG 11 166 1 ACCGGCAGCC 0.64453 -135 GTGGCTGAGAGCCGCTCGCCGGCGTTAAGC 11 270 1 GCCGCTCGCC 0.853143 -31 GTTCGCTTGGCTCGATCGCCGATGATCTCG 13 15 1 CTCGATCGCC 0.899083 -128 CGCCGATGATCTCGACCGCCACGACCGACC 13 31 1 CTCGACCGCC 0.966167 -112 CCACGACCGACCCCCTCACCTCGGTCGAAC 13 49 1 CCCCCTCACC 0.469152 -94 TTTCGCCTGCCCGCTAATCTCACCGCTAC 14 10 1 CCCGCTAATC 0.584505 -34 CTGTGTTGTGCCCGGCTGCGGCGCAAGGGG 15 21 1 CCCGGCTGCG 0.807515 -82 ********** Masking position 4 Map Score: 53.3447 Number of sites scoring better than the average of aligned sites = 23952 Number in coding regions = 22311 Number in noncoding regions = 1641 Number of orfs with sites within 600 bp upstream = 989 Fraction of orfs with sites within 600 bp upstream = 0.15885 Motif number 5 CACCCGGTGACCGGTGCGAAGTCCACCA 1 9 1 GACCGGTGCG 0.931395 -292 CCACCATATCGACCAGTGGGCAACCGGCGG 1 33 1 GACCAGTGGG 0.794691 -268 ACCAGTGGGCAACCGGCGGCTCAACCGATA 1 44 1 AACCGGCGGC 0.910456 -257 TTGGCCGTCGGACCGTTTCCTTGTCTGCCA 1 127 0 GACCGTTTCC 0.710693 -174 ACCCCACCTCGACCGCGGTGCCCACACCAA 1 174 1 GACCGCGGTG 0.805478 -127 AAAACGTCAAGACCAGGCCCCACAAGTGCG 1 260 1 GACCAGGCCC 0.893838 -41 CCCTGTCCGCGTCCGTGTCGGCCAGACAAG 2 236 1 GTCCGTGTCG 0.521701 -65 CCGATTGGCCGCGGGCGGCCCGCACG 3 7 1 GGCCGCGGGC 0.529362 -88 GCGAGGTCCGGAGCGGGGCGGAAATTTCAT 4 81 1 GAGCGGGGCG 0.812897 -220 CCTCCGTCCGGACCGGGTGCAA 4 289 1 GACCGGGTGC 0.987664 -12 TTGATGGCCGGCGTCCGACGTACGT 5 6 1 GGCCGGCGTC 0.768866 -107 GCGGGCCTGCGACCGCGCGCGGCGTTGACA 7 14 1 GACCGCGCGC 0.881504 -77 GTTGATGCGTTACCGTGTGCATC 7 78 1 TACCGTGTGC 0.486186 -13 AGAAAAACTAGACCAGGTGGTGTCAATGGC 9 39 1 GACCAGGTGG 0.90677 -262 TGACTTCGCTGACCGTGGTGTGCGCGTAAC 9 148 1 GACCGTGGTG 0.902786 -153 CCGCGTTCCCGACCGGCCGGTTACGCGCAC 9 167 0 GACCGGCCGG 0.926534 -134 CCGGACACCGGACCGGGTTCGCTGGCTCCG 10 35 0 GACCGGGTTC 0.961411 -266 CAGACCCGATAACCAGGTTCCCGTTCGGCA 10 117 1 AACCAGGTTC 0.441425 -184 GCAAGATCGTAACCGGTGGCATGCCGAACG 10 138 0 AACCGGTGGC 0.838063 -163 CGATCTTGCCGACCATGGCCCCACAATAGG 10 159 1 GACCATGGCC 0.649221 -142 AGACGTTACTGACCGTGCCGCCCACCACTG 10 207 0 GACCGTGCCG 0.892032 -94 CCGAATTGGCATCCGGGGCCTGGAACGCGT 11 13 1 ATCCGGGGCC 0.710364 -288 CAGTCGACGGAACCGGCAGCCGCCACCCAA 11 165 1 AACCGGCAGC 0.382312 -136 GCCGAGGTTCGACCGAGGTGAGGGGGTCGG 13 55 0 GACCGAGGTG 0.687157 -88 CCAATCAAATGATCATGGGCTGGCGTTGCC 13 95 0 GATCATGGGC 0.276159 -48 TCTGTGTTGTGCCCGGCTGCGGCGCAAGGG 15 20 1 GCCCGGCTGC 0.689364 -83 ********** Masking position 4 Map Score: 23.6993 Number of sites scoring better than the average of aligned sites = 17614 Number in coding regions = 16513 Number in noncoding regions = 1101 Number of orfs with sites within 600 bp upstream = 708 Fraction of orfs with sites within 600 bp upstream = 0.113717 Motif number 6 CATGTCCAGAGCGAGCCTCAGCTTCTGCGCAGC 2 64 1 GGACTCAGCT 0.7919 -237 GTCACCACCCGGAAAATTCGGCTAGTCCGCGGC 2 174 0 GAATTCGGCT 0.835497 -127 CATTTGGCATGGGACTTTCGGCCCTGTCCGCGT 2 215 1 GGATTCGGCC 0.989049 -86 CGCGTCTCCTGAGAGCTTCAGCGTTACATCGGT 3 72 0 GGATTCAGCG 0.975271 -23 GGCTGTTCAATGAAATTTCCGCCCCGCTCCGGA 4 87 0 TAATTCCGCC 0.432652 -214 TGAACAGCCGTAGAAGTTCAGCCAGGACCGGAA 4 111 1 TGATTCAGCC 0.809332 -190 GCGCAGCGGAGCGAAATTCCGCGAGGAGTTCAT 4 256 1 GGATTCCGCG 0.97705 -45 TTGATGGCCGGCGTCCGACGTAC 5 1 1 TGAGCCGGCG 0.887169 -112 TCGAGCGCCGGGGATCTTCGCCGAGA 6 4 0 GGATTCGCCG 0.943222 -297 GTCCTTTGTTGGATATTTCGGCGGTAGTCTAGC 9 274 0 GATTTCGGCG 0.851226 -27 GCGTCTTGCCGGGATAGTCGGGCGGCGATTTCG 10 73 1 GGAGTCGGGC 0.825899 -228 AATAGGGCCGGGGAGACCCGGCGTCAGTGGTGG 10 183 1 GGACCCGGCG 0.970851 -118 CGGTGGCGTCGTGTTCGTCGGCGATTTGCTAAC 11 208 0 GGTGTCGGCG 0.95562 -93 CGTGGCGGTCGAGATCATCGGCGATCGAGCCAA 13 21 0 GGAATCGGCG 0.968971 -122 CTCACCTCGGTCGAACCTCGGCGAACCAACGCG 13 63 1 TGACTCGGCG 0.966985 -80 * ** ******* Masking position 9 Map Score: 13.6097 Number of sites scoring better than the average of aligned sites = 4082 Number in coding regions = 3796 Number in noncoding regions = 286 Number of orfs with sites within 600 bp upstream = 252 Fraction of orfs with sites within 600 bp upstream = 0.0404754 Motif number 7 CGCCGGTTGCCCACTGGTCGATATGGTGGA 1 32 0 CCACTGGTCG 0.772148 -269 GCCTCTTCGACCACTAGCGGGCCGCGCCCT 1 224 1 CCACTAGCGG 0.602941 -77 CCCACAAGTGCGCCACGTTGGTAGCCTCTG 1 278 1 CGCCACGTTG 0.715909 -23 CGACTCGTTGCCACACGTGCGCCCAGTAGG 2 120 0 CCACACGTGC 0.871442 -181 TCGTGTGGATCGACTCGTTGCCACACGTGC 2 130 0 CGACTCGTTG 0.920704 -171 GGAAGGAACACCACAGGGGGGACCGACATT 4 212 1 CCACAGGGGG 0.920612 -89 CTGCGCTTGACCACATGCGGAATGTCGGTC 4 232 0 CCACATGCGG 0.594725 -69 GCACGTTACACCACTCGCTTGGGATCGGCC 5 43 0 CCACTCGCTT 0.796979 -70 TGCAGCGCTTCCACACGTTTCGCAGGCGCC 6 175 0 CCACACGTTT 0.816724 -126 TCTAGGTGTTCCACTCGCGGACTGCCGGCC 9 12 0 CCACTCGCGG 0.943988 -289 GATGGGGCGCCGGCTGGCGGCTCTG 10 6 0 CGGCTGGCGG 0.743604 -295 AACGTCTGCGCAACACGGGGTTGACTGACG 10 230 1 CAACACGGGG 0.720727 -71 AGTGGCTTTCCCACAGGTTGACGTAAATGA 11 49 1 CCACAGGTTG 0.940314 -252 CGAATTTGATCGACAGGTTGTCCCGCTGCT 12 19 0 CGACAGGTTG 0.9171 -37 ********** Masking position 4 Map Score: 10.2035 Number of sites scoring better than the average of aligned sites = 2283 Number in coding regions = 2077 Number in noncoding regions = 206 Number of orfs with sites within 600 bp upstream = 189 Fraction of orfs with sites within 600 bp upstream = 0.0303566 Motif number 8 ATCGGTTGAGCCGCCGGTTGCCCACTGGTCG 1 42 0 CCGCCGTTGC 0.580291 -259 CCTGCACACCCAACCACAAGCTAGTCGGGAA 1 92 1 CAACCCAAGC 0.889392 -209 TCCCGCCACCCCACCTCGACCGCGGTGCCCA 1 167 1 CCACCCGACC 0.866566 -134 GTGCCCACACCAACGACTACCACCACCCCGA 1 191 1 CAACGCTACC 0.876804 -110 AACGCCTCTTCGACCACTAGCGGGCCGCGCC 1 221 1 CGACCCTAGC 0.652927 -80 TCCCAGAGGCTACCAACGTGGCGC 1 287 0 CAGAGCTACC 0.545176 -14 GTTCACGACCCAGCCTCATGCGCTGCATCTG 2 18 1 CAGCCCATGC 0.963317 -283 GGAACGGATCCAGCGGCAAGCATGCCTTCAG 4 140 1 CAGCGCAAGC 0.975154 -161 CGCCGCTCCATCCGAGGCATATG 5 100 0 CCGCTCATCC 0.816319 -13 TCACGACGACCCGCGACGGGCCTCTGACAAA 6 41 0 CCGCGCGGGC 0.909205 -260 GTCGGCAACGCCGCCGCGACCCGTGAGCCGT 6 135 1 CCGCCCGACC 0.966517 -166 GCCCGACTACCAGCGACACACCCGTACGGGT 6 250 0 CAGCGCACAC 0.470814 -51 TCAGCGAAGTCAAGGGCATCCCGTCAACAAA 9 129 0 CAAGGCATCC 0.26705 -172 GTCCTGGCCACCGCGCCATCCGTCGCCGCGT 9 191 0 CCGCGCATCC 0.972318 -110 CCGGCAAGCCCAGCGTCTTGCCGGGATAGTC 10 61 1 CAGCGCTTGC 0.958752 -240 ACGTACACATCGGCCGCAACCTTGGTTCGAT 11 93 0 CGGCCCAACC 0.912082 -208 ACGGAACCGGCAGCCGCCACCCAAGGGTGCG 11 171 1 CAGCCCCACC 0.870645 -130 CACGACGCCACCGCGTCATGCGCCATCGCCG 11 228 1 CCGCGCATGC 0.972317 -73 ACAGGTTGTCCCGCTGCTCGCAACTC 12 6 0 CCGCTCTCGC 0.606337 -50 ATGATCTCGACCGCCACGACCGACCCCCTCA 13 36 1 CCGCCCGACC 0.966517 -107 ACCAACGCGGCAACGCCAGCCCATGATCATT 13 87 1 CAACGCAGCC 0.736125 -56 AGCCCATTCGCAGCCCCTTGCGCCGCAGCCG 15 33 0 CAGCCCTTGC 0.954886 -70 CAGCGTCTAGCATCAGATGAC 15 92 0 CAGCGCTAGC 0.969358 -11 ***** ***** Masking position 1 Map Score: 33.1525 Number of sites scoring better than the average of aligned sites = 12570 Number in coding regions = 11759 Number in noncoding regions = 811 Number of orfs with sites within 600 bp upstream = 556 Fraction of orfs with sites within 600 bp upstream = 0.0893029 Motif number 9 GGGGTGGCGGGATCCATTCCGTTTGGCCGTC 1 148 0 GATCCTTCCG 0.667896 -153 ACCACTAGCGGGCCGCGCCCTGACCACAAAA 1 233 1 GGCCGGCCCT 0.872638 -68 TTGGGCCGTTCACGACCCAGCCTC 2 4 1 GGCCGTCACG 0.980106 -297 CTTTGAGTGTGGCAGTTTCCGTCGCTGCGCA 2 89 0 GGCAGTTCCG 0.941553 -212 TGGGACTTTCGGCCCTGTCCGCGTCCGTGTC 2 224 1 GGCCCGTCCG 0.97618 -77 GATGCGTGCGGGCCGCCCGCGGCCAATCGG 3 10 0 GGCCGCCGCG 0.912841 -85 GGACCTCGCTGACCGGACCCGAGAACCCCTC 4 59 0 GACCGACCCG 0.728129 -242 CTTGCCGCTGGATCCGTTCCGGTCCTGGCTG 4 129 0 GATCCTTCCG 0.667896 -172 CGTGCGGCCGGGCCGATCCCAAGCGAGTGGT 5 33 1 GGCCGTCCCA 0.941646 -80 CTTTGTCAGAGGCCCGTCGCGGGTCGTCGTG 6 40 1 GGCCCTCGCG 0.933838 -261 ACCGGATCCCGGCAGCGTCAGCTCCCCATGG 9 91 0 GGCAGGTCAG 0.347429 -210 GTTCCCGACCGGCCGGTTACGCGCACACCAC 9 162 0 GGCCGTTACG 0.97169 -139 GTAACCGGCCGGTCGGGAACGCGGCGACGGA 9 173 1 GGTCGGAACG 0.651523 -128 TGGGCGGCACGGTCAGTAACGTCTGCGCAAC 10 213 1 GGTCATAACG 0.224824 -88 CTATCTTGGAGGTCATTTACGTCAACCTGTG 11 60 0 GGTCATTACG 0.538937 -241 GGGTGGCGGCTGCCGGTTCCGTCGACTGCAT 11 162 0 TGCCGTTCCG 0.857243 -139 CATGCGCCATCGCCGACCCCGCCTTGGTGGC 11 244 1 CGCCGCCCCG 0.801418 -57 CACGGAAGCAGGTAGCTTCCGTCGC 13 128 1 GGTAGTTCCG 0.825283 -15 GCACGACTGCGGCCCAGCCCATTCGCAGCCC 15 48 0 GGCCCGCCCA 0.837238 -55 ***** ***** Masking position 10 Map Score: 15.8754 Number of sites scoring better than the average of aligned sites = 14826 Number in coding regions = 13926 Number in noncoding regions = 900 Number of orfs with sites within 600 bp upstream = 616 Fraction of orfs with sites within 600 bp upstream = 0.0989399 Motif number 10 GCTTTGAGTGTGGCAGTTTCCGTCGCTGCG 2 91 0 TGGCAGTTTC 0.76098 -210 TGCCAAATGTGGGCTGTGTCACCACCCGGA 2 194 0 GGGCTGTGTC 0.910377 -107 GACAAGCTTTGGGCATTGGCCACAATCGGG 2 260 1 GGGCATTGGC 0.925721 -41 TCGAGCGCTTTGTCAGAGGCCCGTCGCGGG 6 33 1 TGTCAGAGGC 0.613902 -268 GACCAGGTGGTGTCAATGGCCACGACGCTG 9 49 1 TGTCAATGGC 0.764885 -252 CAGCTCCCCATGGCAACGGCGATCCCAGCG 9 74 0 TGGCAACGGC 0.954858 -227 CACCGGATCCCGGCAGCGTCAGCTCCCCAT 9 93 0 CGGCAGCGTC 0.948658 -208 GCGACGGATGGCGCGGTGGCCAGGACAGTG 9 196 1 GCGCGGTGGC 0.886012 -105 GTTGACTGACGGGCAATATCGGCTCCATAG 10 249 1 GGGCAATATC 0.48151 -52 GAACGCGTTAGGGCAGTGGCTTTCCCACAG 11 35 1 GGGCAGTGGC 0.992195 -266 CACCCTTGGGTGGCGGCTGCCGGTTCCGTC 11 170 0 TGGCGGCTGC 0.850901 -131 AAGGCGGGGTCGGCGATGGCGCATGACGCG 11 239 0 CGGCGATGGC 0.940423 -62 GTGTTGTGCCCGGCTGCGGCGCAAGGGGCT 15 23 1 CGGCTGCGGC 0.947002 -80 ********** Masking position 4 Map Score: 8.95063 Number of sites scoring better than the average of aligned sites = 11894 Number in coding regions = 11347 Number in noncoding regions = 547 Number of orfs with sites within 600 bp upstream = 414 Fraction of orfs with sites within 600 bp upstream = 0.0664953 Motif number 11 AAGACCAGGCCCCACAAGTGCGCCACGTTG 1 268 1 CCCACAAGTG 0.974901 -33 TCACGACCCAGCCTCATGCGCTGCATCTGC 2 20 1 GCCTCATGCG 0.784721 -281 TCGACTCGTTGCCACACGTGCGCCCAGTAG 2 121 0 GCCACACGTG 0.889999 -180 GGTGACACAGCCCACATTTGGCATGGGACT 2 201 1 CCCACATTTG 0.943305 -100 TTGGGCATTGGCCACAATCGGGCCACAATC 2 268 1 GCCACAATCG 0.955012 -33 CCACAATCGGGCCACAATCGAAAGCCGAGC 2 279 1 GCCACAATCG 0.955012 -22 GAATGTCGGTCCCCCCTGTGGTGTTCCTTC 4 213 0 CCCCCCTGTG 0.814081 -88 GCTGCGCTTGACCACATGCGGAATGTCGGT 4 233 0 ACCACATGCG 0.815868 -68 CCCCCAATAGGCGCAGAACG 8 1 1 CCCCCAATAG 0.820031 -23 CGACCATGGCCCCACAATAGGGCCGGGGAG 10 168 1 CCCACAATAG 0.91377 -133 GACCGTGCCGCCCACCACTGACGCCGGGTC 10 197 0 CCCACCACTG 0.773675 -104 ********** Masking position 5 Map Score: 6.75395 Number of sites scoring better than the average of aligned sites = 707 Number in coding regions = 609 Number in noncoding regions = 98 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813 Motif number 12 ********** No masking Map Score: -9.99433e-13 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 Motif number 13 ********** No masking Map Score: -9.99433e-13 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 Motif number 14 ********** No masking Map Score: -9.99433e-13 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