AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i02020_mtub_reg_300.orf -o02020_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 Rv0488 300 hypothetical protein Rv0488 #2 gpm 156 gpm #3 senX3 173 senX3 #4 regX3 227 regX3 #5 Rv0601c 43 hypothetical protein Rv0601c #6 tcrA 56 tcrA #7 phoP 141 phoP #8 phoR 44 phoR #9 narL_Rv0845 83 narL: narL, Rv0845: hypothetical protein Rv0845 #10 Rv0903c 130 hypothetical protein Rv0903c #11 accD3 26 accD3 #12 Rv0981 300 hypothetical protein Rv0981 #13 kdpD_kdpA 325 kdpD: kdpD, kdpA: kdpA #14 Rv1033c 181 hypothetical protein Rv1033c #15 Rv1034c 67 hypothetical protein Rv1034c #16 Rv1035c 33 hypothetical protein Rv1035c #17 Rv1036c 110 hypothetical protein Rv1036c #18 Rv1037c 26 hypothetical protein Rv1037c #19 Rv1038c 145 hypothetical protein Rv1038c #20 PPE 76 PPE #21 PE 300 PE #22 Rv3133c 27 hypothetical protein Rv3133c #23 Rv3134c 300 hypothetical protein Rv3134c #24 mtrB 49 mtrB #25 mtrA 69 mtrA #26 tmk 96 tmk #27 sahH 104 sahH #28 Rv3252c 108 hypothetical protein Rv3252c #29 Rv3253c 90 hypothetical protein Rv3253c #30 Rv3764c 70 hypothetical protein Rv3764c #31 Rv3765c 300 hypothetical protein Rv3765c Motif number 1 TCCTTCTCATCGCGCTGCGC 1 1 0 CGCGCTGCGC 0.930571 -300 TCTGCATCGTCGTCGGGCTCGACCTAACCG 1 37 0 CGTCGGGCTC 0.745718 -264 TCTCATCGCGCTGCGCGCTCTGCATCGTCG 1 55 0 CTGCGCGCTC 0.615812 -246 TCTGCATCGTCGTCGGGCTCGACCTAACCG 1 95 0 CGTCGGGCTC 0.745718 -206 TCTCATCGCGCTGCGCGCTCTGCATCGTCG 1 113 0 CTGCGCGCTC 0.615812 -188 GAGGTCAAGACGCCCGCCGGTGATGGGCTG 1 156 1 CGCCCGCCGG 0.638632 -145 GTGATGGGCTGGTGGCGCTCACCCCGTTCC 1 175 1 GGTGGCGCTC 0.92132 -126 GCGGTATGAACGCGCTGCGCAGCGGACCGA 2 75 1 CGCGCTGCGC 0.930571 -82 CCGAATTCTCCTCGGTCCGCTGCGCAGCGC 2 86 0 CTCGGTCCGC 0.627323 -71 GAGATCCCACCTGCCGGCGGTTTCGGCGGC 3 17 1 CTGCCGGCGG 0.563245 -157 CGATTTTGGCCTTGCCGCGCTAGGGCGACG 3 128 1 CTTGCCGCGC 0.933084 -46 CTGCATCGTCGTCGGCGCAGG 4 2 0 GTCGGCGCAG 0.956553 -226 TAGCGATGAGGTGGGGGCACCACCCGCTTG 4 36 1 GTGGGGGCAC 0.685911 -192 GGGGCACCACCCGCTTGCGGGGGAGAGTGG 4 49 1 CCGCTTGCGG 0.497604 -179 TGCGGGGGAGAGTGGCGCTGATGACCTGCG 4 64 1 AGTGGCGCTG 0.742076 -164 CTGCATCGTCGTCGGCGCAGGTCATCAGCG 4 79 0 GTCGGCGCAG 0.956553 -149 TAGCGATGAGGTGGGGGCACCACCCGCTTG 4 113 1 GTGGGGGCAC 0.685911 -115 GGGGCACCACCCGCTTGCGGGGGAGAGTGG 4 126 1 CCGCTTGCGG 0.497604 -102 TGCGGGGGAGAGTGGCGCTGATGACCTGCG 4 141 1 AGTGGCGCTG 0.742076 -87 CTGCATCGTCGTCGGCGCAGGTCATCAGCG 4 156 0 GTCGGCGCAG 0.956553 -72 TAGCGATGAGGTGGGGGCACCACCCGCTTG 4 190 1 GTGGGGGCAC 0.685911 -38 GGGGCACCACCCGCTTGCGGGGGAGAGTGG 4 203 1 CCGCTTGCGG 0.497604 -25 TGCGGGGGAGAGTGGCGCTG 4 218 1 AGTGGCGCTG 0.742076 -10 GGCGGCGCTGAAGACGAGGG 5 34 0 GGCGGCGCTG 0.977085 -10 CCCTACCGTCGGAGCCGCACACCGTCA 6 40 0 GTCGGAGCCG 0.661171 -17 GCTCAATCCACGGCGCGCCGTGAATACACT 7 17 0 CGGCGCGCCG 0.49341 -125 AGCTTGGACCGTTGCCGCTCAATCCACGGC 7 33 0 GTTGCCGCTC 0.84383 -109 GCGTTCTCCTCGGGCTGCCGATCCGATTAA 8 21 0 CGGGCTGCCG 0.701714 -24 TGTCCAGCGACTGCCAGCGGCTGGTTGCCG 9 28 1 CTGCCAGCGG 0.611227 -56 CATCGCCATGGTCGGCGCGCC 9 73 1 GTCGGCGCGC 0.986523 -11 TGCTCGCGGGGTGCGCGCGGG 10 2 0 GTGCGCGCGG 0.536027 -129 GACTCTGTGTCTGCTCGCGGGGTGCGCGCG 10 13 0 CTGCTCGCGG 0.589071 -118 GTCGCGTGCTGGGCGAGCAGACACAGAGTC 10 67 0 GGGCGAGCAG 0.529183 -64 AGCACGCGACCCGGCGGCTCACCCTCCCAC 10 87 1 CCGGCGGCTC 0.750101 -44 CGTTCCACGCCTGGGCGCAGGCACAAACCG 12 40 1 CTGGGCGCAG 0.639929 -261 TTCCACCAATGTTGGTGCGGTTTGTGCCTG 12 57 0 GTTGGTGCGG 0.896596 -244 ATTGGTGGAACGTGGTGCACACTGCACCTG 12 77 1 CGTGGTGCAC 0.638261 -224 AAGAGTTCTCGTCCGCGCGGGTTTCGCCTG 12 132 0 GTCCGCGCGG 0.968044 -169 ACCCGCATACCACGGCGCGCCTCTCAGGCC 12 256 1 CACGGCGCGC 0.860385 -45 CAGTGTCGTCGCAGCGCCTGAGACTGG 12 284 0 GTCGCAGCGC 0.880102 -17 CGTTCCTATTCGCGGCGCTGCTGTTTCCGG 13 21 0 CGCGGCGCTG 0.973715 -305 GTTGGTGATCGCGGTGGCGCTAATGGCGTT 13 47 0 GCGGTGGCGC 0.695821 -279 CATCGCCATTCGGCCGGCGCTCGCGTGAGT 13 100 1 CGGCCGGCGC 0.597544 -226 CCGACTTGGTGTTGGTGCTGACCGTGATGG 13 212 0 GTTGGTGCTG 0.742174 -114 GCGCTGCGATGCCGGTGCACAAGAATCGAG 13 255 0 GCCGGTGCAC 0.743661 -71 GTGCACCGGCATCGCAGCGCATCAGATAGC 13 265 1 ATCGCAGCGC 0.592089 -61 CGTGTTCCTGGGGGGCCCGGCAACTACCAT 13 303 0 GGGGGCCCGG 0.684999 -23 CCGGTCCACCGGGGGCTCCGTATACCCG 14 9 1 CCGGGGGCTC 0.750461 -173 CTGAAAAGGTGACCGGGCGGGATGTCGGGC 14 69 0 GACCGGGCGG 0.713769 -113 CGACCCGTCCAGCGCAATGCGGCAA 16 19 0 CGTCCAGCGC 0.57248 -15 CGTTGTAATTGACGGCGCGGGCCTTAAGCC 17 15 0 GACGGCGCGG 0.898096 -96 CAATTACAACGTGGCCGCACACCGGTTGGT 17 34 1 GTGGCCGCAC 0.683795 -77 CTCCTGAGTCGTCGGGCCGGG 18 2 0 GTCGGGCCGG 0.849286 -25 CGGTGGTGGCCGCGTGGCGGACAGGTTATG 19 65 0 CGCGTGGCGG 0.901403 -81 AGCGGCTGTGATCGGCGCGGTGGTGGCCGC 19 82 0 ATCGGCGCGG 0.952285 -64 TTGGTTGAGCGTGGCCGCCCGTACGTCTGC 20 14 0 GTGGCCGCCC 0.624357 -63 ATGAGACGCGCGGCGCGCGGATTCTAGGCG 21 36 0 CGGCGCGCGG 0.55297 -265 AAGTGTGCTAGCCCGGGCACCAGATCACAC 21 76 1 GCCCGGGCAC 0.728185 -225 AACACACAGGGTCGGCCCGGGGTGCTAGCG 21 250 1 GTCGGCCCGG 0.902885 -51 GGGGTGCTAGCGGCCGGCAGGTTTCACACA 21 268 1 CGGCCGGCAG 0.52004 -33 CAGCCGATGGACGGCCGCTGGTTCGGCAGC 23 37 1 ACGGCCGCTG 0.731245 -264 ACCTATCGCACGGGTGGCTCGTCCAGGTCC 23 125 0 CGGGTGGCTC 0.730164 -176 ACGTTACTGGCGGGGACCGCTATCTCCCAG 23 235 0 CGGGGACCGC 0.543428 -66 CGTCTCCTTCGCTGGGGCGGATACATCCCG 23 278 0 GCTGGGGCGG 0.924337 -23 CTGCATCGTCGCCGGCGCGGA 24 2 0 GCCGGCGCGG 0.979271 -48 GCTCCTTAGCATCGCTGCGCTCTGCATCGT 24 23 0 ATCGCTGCGC 0.704751 -27 CGGCGCCGCTCCTTAGCATCG 24 39 0 GGCGCCGCTC 0.952973 -11 TCGGGACAAAACTGGCGCACCACACGGGCG 25 38 0 ACTGGCGCAC 0.435895 -32 GATTTTGCGTCTGCTCGCGGGTGGGAGGCA 26 12 0 CTGCTCGCGG 0.589071 -85 GGCCCTGTCGGTGGCGGCGCGAGCAGACGC 26 72 0 GTGGCGGCGC 0.82804 -25 CGCCACCGACAGGGCCGCGCC 26 86 1 AGGGCCGCGC 0.930694 -11 GCCGTCGGTCAGCCCCGCAGG 27 2 0 AGCCCCGCAG 0.6231 -103 GCTCACAGGGATCCGAGCGGGCTACTTAGC 27 61 0 ATCCGAGCGG 0.597085 -44 ATCCCAACGTGGTGTGGCTCATGAGGAGGT 28 82 1 GGTGTGGCTC 0.489042 -27 GGTCGCTTCGGCTGCGGCTCCTGGTCGGAC 30 25 1 GCTGCGGCTC 0.666696 -46 ACAGGTTGTCGTCCTCGCCGTGGTGTGT 30 53 1 GTCCTCGCCG 0.455554 -18 ACCAATTGGCGTTGGTCCGGGACGCTGCCT 31 47 1 GTTGGTCCGG 0.450031 -254 TGCCTCAAGCGTGGCAGCGGGATTTGCTTC 31 72 1 GTGGCAGCGG 0.876263 -229 TGCTGGCGACCGGGCTGCTGAAGCAAATCC 31 91 0 CGGGCTGCTG 0.861679 -210 GGTACCAGTAGCGGCTGCTGGCGACCGGGC 31 106 0 GCGGCTGCTG 0.776553 -195 CCCCACTCACGTCGGCGCGCATGTTGGTAC 31 131 0 GTCGGCGCGC 0.986523 -170 AGCGGGCCGGATCCGGGCGGTACCCCACTC 31 153 0 ATCCGGGCGG 0.852105 -148 CGCCCGGATCCGGCCCGCTGGCAGGCTCCG 31 164 1 CGGCCCGCTG 0.745743 -137 ********** Masking position 8 Map Score: 101.12 Number of sites scoring better than the average of aligned sites = 92100 Number in coding regions = 85780 Number in noncoding regions = 6320 Number of orfs with sites within 600 bp upstream = 1622 Fraction of orfs with sites within 600 bp upstream = 0.26052 Motif number 2 CCGCCCAACTCCTTCTCATCGCGCTGCGC 1 8 0 CTCTCATCGC 0.96445 -293 GCGCGCTCTGCATCGTCGTCGGGCTCGACCTA 1 41 0 CCGTCGTCGG 0.995536 -260 CCGCCCAACTCCTTCTCATCGCGCTGCGCGCT 1 66 0 CTCTCATCGC 0.96445 -235 GCGCGCTCTGCATCGTCGTCGGGCTCGACCTA 1 99 0 CCGTCGTCGG 0.995536 -202 CACGAGTGCTATTTCTCATCGCGCTGCGCGCT 1 124 0 ATCTCATCGC 0.709278 -177 CCACCTCGTAGGCCGCCCATGT 2 1 1 CCCTCGTAGG 0.896649 -156 GTTACGGTGCCGACCACCTCGGCGGTATGAAC 2 54 1 CCCACCTCGG 0.89042 -103 AAAATGCCCGAATTCTCCTCGGTCCGCTGCGC 2 91 0 ATCTCCTCGG 0.617113 -66 ATCCGGTGAACGTCGCCCTAGCGCGGCAAGGC 3 136 0 CCGCCCTAGC 0.533673 -38 CTACGCTCTGCATCGTCGTCGGCGCAGG 4 7 0 CCGTCGTCGG 0.995536 -221 GGTGGTGCCCCCACCTCATCGCTACGCTCTGC 4 28 0 CCCTCATCGC 0.989875 -200 CTACGCTCTGCATCGTCGTCGGCGCAGGTCAT 4 84 0 CCGTCGTCGG 0.995536 -144 GGTGGTGCCCCCACCTCATCGCTACGCTCTGC 4 105 0 CCCTCATCGC 0.989875 -123 CTACGCTCTGCATCGTCGTCGGCGCAGGTCAT 4 161 0 CCGTCGTCGG 0.995536 -67 GGTGGTGCCCCCACCTCATCGCTACGCTCTGC 4 182 0 CCCTCATCGC 0.989875 -46 GACGAGGGTGAGTCGCCATCGGATGGGCCAC 5 10 0 ACGCCATCGG 0.774545 -34 TCACCCTCGTCTTCAGCGCCGCC 5 31 1 CCAGCGCCGC 0.879519 -13 CCCTACCGTCGGAGCCGCACAC 6 45 0 CTACCGTCGG 0.928958 -12 TGCCGCGTTCTCCTCGGGCTGCCGATC 8 28 0 CTCTCCTCGG 0.947152 -17 CTAAACTCATCGCCATGGTCGGCGCGCC 9 66 1 CCATGGTCGG 0.910553 -18 GGAGGGTGAGCCGCCGGGTCGCGTGCTGGGCG 10 82 0 CCCGGGTCGC 0.92381 -49 TCAGCCTATATAGCCTCATCGC 11 15 1 TCCTCATCGC 0.79274 -12 CAGTGTCGTCGCAGCGCCTGAG 12 289 0 CTGTCGTCGC 0.986128 -12 TCTCCGGAAACAGCAGCGCCGCGAATAGGAAC 13 18 1 CCAGCGCCGC 0.879519 -308 CTACGGTCGACAACATCGTCGGGTTGGTGATC 13 67 0 CCATCGTCGG 0.989337 -259 TGTTGTCGACCGTAGTCATCGCCATTCGGCCG 13 84 1 CAGTCATCGC 0.893543 -242 GTTGTTTCCCCGATTTCGTCGCGGCGAATGAT 13 136 1 CTTTCGTCGC 0.789804 -190 GATTCTTGTGCACCGGCATCGCAGCGCATCAG 13 258 1 CCGGCATCGC 0.970729 -68 CCGAGATCCGCTTTCTCACCGCCGAAGCCCGA 14 43 1 CTCTCACCGC 0.828801 -139 CCGTCAATTACAACGTGGCCGCACACCGGTTG 17 30 1 CCGTGGCCGC 0.833765 -81 GTGTCCTCCTGAGTCGTCGGGCCGGG 18 7 0 CAGTCGTCGG 0.955837 -20 GTTAAAAAACCGTAAACGTCGGGCGTCCCATG 21 151 1 CAAACGTCGG 0.531413 -150 CGTCCAGGTCCACAACCATCGCCCAGCTTTTC 23 104 0 CAACCATCGC 0.639431 -197 TGGGGCGGATACATCCCGTCGGTTCAGCGGTA 23 264 0 ATCCCGTCGG 0.761845 -37 TCGCTGCGCTCTGCATCGTCGCCGGCGCGGA 24 10 0 CCATCGTCGC 0.990704 -40 CGGCGCCGCTCCTTAGCATCGCTGCGCTCTGC 24 28 0 CTAGCATCGC 0.792883 -22 GGCGCGGCCCTGTCGGTGGCGGCGCG 26 81 0 CCCCTGTCGG 0.729367 -16 CAGTCACTGTAGCCGCCGTCGGTCAGCCCCGC 27 14 0 ACGCCGTCGG 0.910612 -91 CTACGCGACCCGTCATCCTCGCAGAGTACCCA 29 31 1 CCATCCTCGC 0.964628 -60 TCGGACAGGTTGTCGTCCTCGCCGTGGTGTGT 30 49 1 TCGTCCTCGC 0.719463 -22 GCGACTTCCACAACGGCGACGGAGAGCGACCA 31 19 1 CCGGCGACGG 0.745394 -282 TTTGCTTCAGCAGCCCGGTCGCCAGCAGCCGC 31 94 1 CCCCGGTCGC 0.941707 -207 GGCGGTACCCCACTCACGTCGGCGCGCATGTT 31 136 0 CTCACGTCGG 0.898078 -165 * ********* Masking position 11 Map Score: 76.2858 Number of sites scoring better than the average of aligned sites = 25230 Number in coding regions = 23927 Number in noncoding regions = 1303 Number of orfs with sites within 600 bp upstream = 709 Fraction of orfs with sites within 600 bp upstream = 0.113877 Motif number 3 GCTGCGCGCTCTGCATCGTCGTCGGGCTCGACC 1 43 0 CTGCCTCGTC 0.955382 -258 GCTGCGCGCTCTGCATCGTCGTCGGGCTCGACC 1 101 0 CTGCCTCGTC 0.955382 -200 AGGTGTTTGTCGGCTTCGTTGCC 1 288 1 CGGCCTTGCC 0.872171 -13 TCGTAGGCCGCCCATGTATCGGCCTTGGTGAAC 2 16 1 CCCATTCGGC 0.667138 -141 GGCACCGTAACGGCCGGTTCACCAAGGCCGATA 2 32 0 CGGCGTCACC 0.820729 -125 GTTACGGTGCCGACCACCTCGGCGGTATGAACG 2 54 1 CGACCTCGGC 0.805944 -103 ACCAAAATGCCCGAATTCTCCTCGGTCCGCTGC 2 93 0 CCGATTCCTC 0.563706 -64 CACGCACTCCCGCACTCCTCATCGTGGACCAAA 2 120 0 CGCACTCATC 0.540717 -37 TCCCACCTGCCGGCGGTTTCGGCGGCTGATGGT 3 21 1 CGGCTTCGGC 0.978044 -153 TCGCTACGCTCTGCATCGTCGTCGGCGCAGG 4 9 0 CTGCCTCGTC 0.955382 -219 GCGGGTGGTGCCCCCACCTCATCGCTACGCTCT 4 30 0 CCCCCTCATC 0.927746 -198 AGGTCATCAGCGCCACTCTCCCCCGCAAGCGGG 4 58 0 CGCCTTCCCC 0.965213 -170 TCGCTACGCTCTGCATCGTCGTCGGCGCAGGTC 4 86 0 CTGCCTCGTC 0.955382 -142 GCGGGTGGTGCCCCCACCTCATCGCTACGCTCT 4 107 0 CCCCCTCATC 0.927746 -121 AGGTCATCAGCGCCACTCTCCCCCGCAAGCGGG 4 135 0 CGCCTTCCCC 0.965213 -93 TCGCTACGCTCTGCATCGTCGTCGGCGCAGGTC 4 163 0 CTGCCTCGTC 0.955382 -65 GCGGGTGGTGCCCCCACCTCATCGCTACGCTCT 4 184 0 CCCCCTCATC 0.927746 -44 CAGCGCCACTCTCCCCCGCAAGCGGG 4 212 0 CGCCTTCCCC 0.965213 -16 TGGACCGTTGCCGCTCAATCCACGGCGCGCCGT 7 26 0 CCGCATCCAC 0.267061 -116 TGCCGCGTTCTCCTCGGGCTGCCGA 8 30 0 CCGCTTCCTC 0.951591 -15 CTAAACTCATCGCCATGGTCGGCGCGCC 9 66 1 CGCCGTCGGC 0.934718 -18 TTCTCGTCCGCGCGGGTTTCGCCTGCTGACACA 12 124 0 CGCGTTCGCC 0.619819 -177 CGAATAGGAACGCCATTAGCGCCACCGCGATCA 13 39 1 CGCCTGCGCC 0.826466 -287 TGACTACGGTCGACAACATCGTCGGGTTGGTGA 13 69 0 CGACCTCGTC 0.83535 -257 ACTGTTGTTTCCCCGATTTCGTCGCGGCGAATG 13 133 1 CCCCTTCGTC 0.973856 -193 TGGCTGTGAACGGATCATTCGCCGCGACGAAAT 13 148 0 CGGAATCGCC 0.381818 -178 AAACCGAGATCCGCTTTCTCACCGCCGAAGCCC 14 40 1 CCGCTTCACC 0.906977 -142 GCCCGACATCCCGCCCGGTCACCTTTTCAGGCC 14 69 1 CCGCGTCACC 0.766455 -113 GCTCCCGTATCCTCTCAAGTCCTG 14 168 0 CTCCTTCCTC 0.875799 -14 CGGCGGTTTTGCCGCATTGCGCT 16 1 1 CGGCTTTGCC 0.823607 -33 CGCGCCGACTTTAGCAGGTCGAAGT 17 96 0 CGCCCTTAGC 0.542826 -15 GTGTCCTCCTGAGTCGTCGGGCCGGG 18 9 0 CTCCATCGTC 0.695169 -18 GTGAGATGTCCCCCTTTGTCCGCA 19 2 0 CCCCTTCCGC 0.938899 -144 GTCCGCCACGCGGCCACCACCGCGCCGATCACA 19 73 1 CGGCCACCGC 0.647172 -73 AGGCGAATGACGGCTCTTTCGCACCTGGCG 21 8 0 CGGCTTCGCA 0.511632 -293 CCAGATCACACCGCCATGTCAGCCGCCAAGACC 21 95 1 CCGCTTCAGC 0.8828 -206 CGATGGACGGCCGCTGGTTCGGCAGCTGTCGGC 23 41 1 CCGCGTCGGC 0.914881 -260 TCGCTGCGCTCTGCATCGTCGCCGGCGCGGA 24 9 0 CTGCCTCGCC 0.957786 -41 CCGTGTGGTGCGCCAGTTTTGTCCCGATGTGGT 25 41 1 CGCCTTTGTC 0.807986 -29 GACGCAAAATCGCCCTTTTCGTCATGAAAATGG 26 44 0 CGCCTTCGTC 0.981119 -53 AAGACGCAAACTGCTCTATTGTCAAATCCCAAC 28 57 1 CTGCTTTGTC 0.542671 -52 TCCCTACGCGACCCGTCATCCTCGCAGAGTACC 29 28 1 ACCCCTCCTC 0.332616 -63 CCGGGTCGGCGACTTCCACAACGGCGACG 31 7 1 CGGCCTCCAC 0.820064 -294 GCAGCCCGGTCGCCAGCAGCCGCTACTGGTACC 31 103 1 CGCCCGCCGC 0.730413 -198 CCGGGCGGTACCCCACTCACGTCGGCGCGCATG 31 138 0 CCCCTACGTC 0.675639 -163 **** * ***** Masking position 1 Map Score: 73.6408 Number of sites scoring better than the average of aligned sites = 29173 Number in coding regions = 27971 Number in noncoding regions = 1202 Number of orfs with sites within 600 bp upstream = 729 Fraction of orfs with sites within 600 bp upstream = 0.11709 Motif number 4 GCGCAGCGCGATGAGAAGGAGTTGGGCGGTT 1 10 1 GATGAAAGGG 0.849733 -291 GGTCGAGCCCGACGACGATGCAGAGCGCGCAG 1 43 1 GACGAGATGA 0.857755 -258 CGCGCAGCGCGATGAGAAGGAGTTGGGCGGTT 1 68 1 GATGAAAGGG 0.849733 -233 GGTCGAGCCCGACGACGATGCAGAGCGCGCAG 1 101 1 GACGAGATGA 0.857755 -200 CAAGACGCCCGCCGGTGATGGGCTGGTGGCGC 1 161 1 GCCGGGATGG 0.695204 -140 CCGACAAACACCTGAAGAGGCACAGCGGAACG 1 269 0 CCTGAGAGGA 0.727925 -32 TACATGGGCGGCCTACGAGGTGG 2 2 0 GCCTAGAGGG 0.754682 -155 CGTTCATACCGCCGAGGTGGTCGGCACCGTAA 2 55 0 GCCGAGTGGC 0.959955 -102 CATTTTGGTCCACGATGAGGAGTGCGGGAGTG 2 117 1 CACGAGAGGG 0.961561 -40 GGTTTCGGCGGCTGATGGTGTGCTTTGGTGCG 3 35 1 GCTGAGGTGG 0.741543 -139 CCTGCGCCGACGACGATGCAGAGCGTAGCG 4 9 1 GACGAGATGA 0.857755 -219 AGAGCGTAGCGATGAGGTGGGGGCACCACCCG 4 30 1 GATGAGTGGG 0.96821 -198 GACCTGCGCCGACGACGATGCAGAGCGTAGCG 4 86 1 GACGAGATGA 0.857755 -142 AGAGCGTAGCGATGAGGTGGGGGCACCACCCG 4 107 1 GATGAGTGGG 0.96821 -121 GACCTGCGCCGACGACGATGCAGAGCGTAGCG 4 163 1 GACGAGATGA 0.857755 -65 AGAGCGTAGCGATGAGGTGGGGGCACCACCCG 4 184 1 GATGAGTGGG 0.96821 -44 CGGCGCTGAAGACGAGGGTGAGTCGCCATCGG 5 20 0 GACGAGGTGG 0.856182 -24 AACGGTCCAAGCTGATTTGGCGATTCCTGGCA 7 50 1 GCTGATTGGG 0.858079 -92 GCGGCTGGTTGCCGACGAGCAGCTAAACTCAT 9 44 1 GCCGAGAGCG 0.820135 -40 CATCAAAACCGCCGATTTTGTGCGACTCTGTG 10 34 0 GCCGATTTGG 0.834657 -97 CCTGCTGACACACGATGAGGGCAGAACCCCAG 12 104 0 CACGAGAGGC 0.838061 -197 GGCCAATGTGGCTGATGTGGCTAAACCTCGTC 12 218 1 GCTGAGTGGT 0.742984 -83 TCACCAACCCGACGATGTTGTCGACCGTAGTC 13 69 1 GACGAGTTGC 0.839528 -257 CATTCGCCGCGACGAAATCGGGGAAACAACAG 13 134 0 GACGAATCGG 0.558479 -192 GACTCACATGGCCGACTTGGTGTTGGTGCTGA 13 221 0 GCCGATTGGG 0.941595 -105 GTTACTTCGGCCTGAAAAGGTGACCGGGCGGG 14 78 0 CCTGAAAGGG 0.677554 -104 TCAACAACGTGACGACTTCGAGACAAGGAGAC 19 118 1 GACGATTCGG 0.559866 -28 GGTCTTGGCGGCTGACATGGCGGTGTGATCTG 21 96 0 GCTGAATGGG 0.877822 -205 CCAGTTTTGTCCCGATGTGGTGACACC 25 53 1 CCCGAGTGGG 0.96709 -17 CCATTTTCATGACGAAAAGGGCGATTTTGCGT 26 44 1 GACGAAAGGC 0.767152 -53 TGGTGTGGCTCATGAGGAGGTTTGGCAT 28 91 1 CATGAGAGGT 0.384471 -18 GCTCTCCGTCGCCGTTGTGGAAGTCGCCGACC 31 14 0 GCCGTGTGGA 0.518064 -287 CGCTATGAAACCCGATTTGGGGCACGTTCGGA 31 190 0 CCCGATTGGG 0.820617 -111 ***** **** * Masking position 4 Map Score: 40.5997 Number of sites scoring better than the average of aligned sites = 10710 Number in coding regions = 9980 Number in noncoding regions = 730 Number of orfs with sites within 600 bp upstream = 493 Fraction of orfs with sites within 600 bp upstream = 0.0791841 Motif number 5 CTGCATCGTCGTCGGGCTCGACCTAACCGCCCA 1 33 0 GTCGGGCCCC 0.872369 -268 CTGCATCGTCGTCGGGCTCGACCTAACCGCCCA 1 91 0 GTCGGGCCCC 0.872369 -210 ACCGGCAAGTCTCTCACGCACTCCCGC 2 140 0 GCAAGTCCAC 0.78273 -17 GCGCGGCAAGGCCAAAATCGGACAAGTCACACA 3 115 0 GCCAAAACAC 0.250796 -59 GGTCATCAGCGCCACTCTCCCCCGCAAGCGGGT 4 57 0 GCCACTCCCC 0.987714 -171 CGTCGTCGGCGCAGGTCATCAGCGCCACTCTCC 4 70 0 GCAGGTCTGC 0.600709 -158 GGTCATCAGCGCCACTCTCCCCCGCAAGCGGGT 4 134 0 GCCACTCCCC 0.987714 -94 CGTCGTCGGCGCAGGTCATCAGCGCCACTCTCC 4 147 0 GCAGGTCTGC 0.600709 -81 CAGCGCCACTCTCCCCCGCAAGCGGGT 4 211 0 GCCACTCCCC 0.987714 -17 TACCGTCGGAGCCGCACACCGTCACAGCGAGGT 6 31 0 GCCGCACCTC 0.641972 -26 CTAACAGTCTGCCAGGAATCGCCAAATCAGCTT 7 58 0 GCCAGGATCC 0.873578 -84 AAAGCTCGTTGCCAGTAGTCTGCTAACAGTCTG 7 80 0 GCCAGTATGC 0.685402 -62 CCCGCGCGCACCCCGCGAGCAGA 10 1 1 CCCGCGCCCC 0.805315 -130 GCGTGGAACGGCAGGGATCGTCCGAATAAACGG 12 17 0 GCAGGGACCC 0.836031 -284 CGCCTCTCAGGCCAGTCTCAGGCGCTGCGACGA 12 273 1 GCCAGTCCGC 0.970575 -28 GATGGCCTTTGCCGGGCTTTGCCTGCTCTACGT 13 184 0 GCCGGGCTCC 0.968003 -142 GGGGGGCCCGGCAACTACCATCCTGCTGGGCTA 13 291 0 GCAACTACCC 0.764295 -35 TAACAACGTGGCCACACACCAACCGGTGTGCGG 17 48 0 GCCACACCAC 0.888585 -63 TAACCTGTCCGCCACGCGGCCACCACCGCGCCG 19 67 1 GCCACGCGAC 0.541329 -79 CCACCACCGCGCCGATCACAGCCGCTAGAACTT 19 86 1 GCCGATCCCC 0.935617 -60 CGTACGGGCGGCCACGCTCAACCAACAACGAAA 20 19 1 GCCACGCCCC 0.989408 -58 ACGCTAACCGGCCAAGCCTCCACAGTCGCGACC 21 189 0 GCCAAGCTAC 0.456715 -112 AAACCTGCCGGCCGCTAGCACCCCGGGCCGACC 21 259 0 GCCGCTACCC 0.95658 -42 ATCGACCGATGACAGACGCAACCCGTCAGGGCG 23 167 0 GACAGACCCC 0.704857 -134 AGCGGTCCCCGCCAGTAACGTACCGCTGAACCG 23 244 1 GCCAGTACAC 0.850121 -57 CGGCGCCGCTCCTTAGCATCGCTGCGC 24 33 0 GCCGCTCTGC 0.883141 -17 CCCTAATCAAGCAAGAAACGCCCGTGTGGTGCG 25 20 1 GCAAGAACCC 0.64051 -50 CGTGTGGTGCGCCAGTTTTGTCCCGATGTGGTG 25 42 1 GCCAGTTTCC 0.628059 -28 CTGCCAGCGGGCCGGATCCGGGCGGTACCCCAC 31 155 0 GCCGGATCGC 0.48273 -146 TACGACACGCTCAACCGAGATGCGGT 31 285 0 GACACGCCCC 0.834703 -16 ******* * ** Masking position 13 Map Score: 37.2156 Number of sites scoring better than the average of aligned sites = 11855 Number in coding regions = 10967 Number in noncoding regions = 888 Number of orfs with sites within 600 bp upstream = 637 Fraction of orfs with sites within 600 bp upstream = 0.102313 Motif number 6 CGCCGGTGATGGGCTGGTGGCGCTCACCCC 1 170 1 GGGCTGGTGG 0.936125 -131 TCTCCCCCGCAAGCGGGTGGTGCCCCCACC 4 45 0 AAGCGGGTGG 0.945268 -183 CCGCTTGCGGGGGAGAGTGGCGCTGATGAC 4 59 1 GGGAGAGTGG 0.962627 -169 TCTCCCCCGCAAGCGGGTGGTGCCCCCACC 4 122 0 AAGCGGGTGG 0.945268 -106 CCGCTTGCGGGGGAGAGTGGCGCTGATGAC 4 136 1 GGGAGAGTGG 0.962627 -92 TCTCCCCCGCAAGCGGGTGGTGCCCCCACC 4 199 0 AAGCGGGTGG 0.945268 -29 CCGCTTGCGGGGGAGAGTGGCGCTG 4 213 1 GGGAGAGTGG 0.962627 -15 CTGAAGACGAGGGTGAGTCGCCATCGGATG 5 17 0 GGGTGAGTCG 0.897718 -27 CCGTCCAGCAGGGTGGGAGGGTGAGCCGCC 10 99 0 GGGTGGGAGG 0.965403 -32 AAAGGTGACCGGGCGGGATGTCGGGCTTCG 14 65 0 GGGCGGGATG 0.864756 -117 GCATTGCGCTGGACGGGTCG 16 24 1 GGACGGGTCG 0.878632 -10 CTCACCTATCGCACGGGTGGCTCGTCCAGG 23 128 0 GCACGGGTGG 0.86829 -173 GTCTGCTCGCGGGTGGGAGGCAC 26 4 0 GGGTGGGAGG 0.965403 -93 GTCACAACGAGTGCGAGAGGACGGGTGC 29 73 1 GTGCGAGAGG 0.781142 -18 ATGCGCGCCGACGTGAGTGGGGTACCGCCC 31 139 1 ACGTGAGTGG 0.633968 -162 CATCTCGGTTGAGCGTGTCGTA 31 289 1 GAGCGTGTCG 0.64566 -12 ********** Masking position 7 Map Score: 20.2527 Number of sites scoring better than the average of aligned sites = 3059 Number in coding regions = 2804 Number in noncoding regions = 255 Number of orfs with sites within 600 bp upstream = 224 Fraction of orfs with sites within 600 bp upstream = 0.0359782 Motif number 7 CGATGAGAAGGAGTTGGGCGGTTAGGTCGAGCC 1 19 1 GATTGGCGTT 0.972897 -282 CGATGAGAAGGAGTTGGGCGGTTAGGTCGAGCC 1 77 1 GATTGGCGTT 0.972897 -224 ACCTGCCGGCGGTTTCGGCGGCTGATGGTGTGC 3 25 1 GGTTGGCGCT 0.994632 -149 GGCGCGCCGTGGATTGAGCGGCAACGGTCCAAG 7 28 1 GGTTAGCGCA 0.767779 -114 CCATGGCGATGAGTTTAGCTGCTCGTCGGCAAC 9 51 0 GATTAGCGCT 0.948392 -33 CGTCCGCGCGGGTTTCGCCTGCTGACACACGAT 12 120 0 GGTTGCCGCT 0.98142 -181 AGAGTAGGGCGATTTGTGCTGCTTGGCGGAAGA 12 158 0 GATTTGCGCT 0.879124 -143 GCGCTCGCGTGAGTTCGACTGTTGTTTCCCCGA 13 116 1 GATTGACGTT 0.720328 -210 GCCTTTGCCGGGCTTTGCCTGCTCTACGTCCGT 13 180 0 GGTTGCCGCT 0.98142 -146 CGGGATGTCGGGCTTCGGCGGTGAGAAAGCGGA 14 49 0 GGTTGGCGTG 0.90541 -133 CGCGCCGACTTTAGCAGGTCGAAGTAGTT 17 92 0 GATTAGCGGT 0.704104 -19 TCCTTAACAAGGTCTTGGCGGCTGACATGGCGG 21 105 0 GGCTGGCGCT 0.961745 -196 CGACTGTGGAGGCTTGGCCGGTTAGCGTTACGC 21 194 1 GGTTGCCGTT 0.949254 -107 GGACGGCCGCTGGTTCGGCAGCTGTCGGCAACT 23 45 1 TGTTGGCGCT 0.912923 -256 CAGTCCGCGAATTTGGTCGCTTCGGCTGCGG 30 9 1 GATTGGTGCT 0.851529 -62 ** ** *** *** Masking position 5 Map Score: 20.5191 Number of sites scoring better than the average of aligned sites = 967 Number in coding regions = 875 Number in noncoding regions = 92 Number of orfs with sites within 600 bp upstream = 91 Fraction of orfs with sites within 600 bp upstream = 0.0146161 Motif number 8 GCGCCACCAGCCCATCACCGGCGGGCGTCTTG 1 161 0 CCCATCCGGC 0.693122 -140 TAACAGTCTGCCAGGAATCGCCAAATCAGCTT 7 58 0 CCAGGACGCC 0.78953 -84 CGCGAGCAGACACAGAGTCGCACAAAATCGGC 10 24 1 CACAGACGCA 0.927529 -107 GGCGAGCAGACACAGAGTCGCATCAAAACCGC 10 54 0 CACAGACGCA 0.927529 -77 CAGCACGCGACCCGGCGGCTCACCCTCCCACC 10 86 1 CCCGGCCTCA 0.844689 -45 TGTGCCTGCGCCCAGGCGTGGAACGGCAGGGA 12 33 0 CCCAGGTGGA 0.725999 -268 ATGATCCGTTCACAGCCACGGACGTAGAGCAG 13 163 1 CACAGCCGGA 0.965658 -163 GCAGGCAAAGCCCGGCAAAGGCCATCACGGTC 13 191 1 CCCGGCAGGC 0.951718 -135 ATTCTTGTGCACCGGCATCGCAGCGCATCAGA 13 259 1 ACCGGCCGCA 0.905575 -67 GCTCCGTATACCCGGAAACCGAGATCCGCTTT 14 25 1 CCCGGACCGA 0.844714 -157 CAAATAACTCCACGGAAACGGAATACCCC 20 58 1 CACGGACGGA 0.968315 -19 TGATCTGGTGCCCGGGCTAGCACACTTCGGCA 21 71 0 CCCGGGAGCA 0.88842 -230 TACGCAAACACACAGGGTCGGCCCGGGGTGCT 21 244 1 CACAGGCGGC 0.873236 -57 ACAGCAAAGTCCCAGAAATGGCTTACAGTTGC 23 72 0 CCCAGATGGC 0.749106 -229 ATGTATCCGCCCCAGCGAAGGAGACGGCG 23 282 1 CCCAGCAGGA 0.934391 -19 ACCTGTCCGACCAGGAGCCGCAGCCGAAGCGA 30 27 0 CCAGGACGCA 0.841529 -44 CGACTTCCACAACGGCGACGGAGAGCGACCAA 31 20 1 AACGGCCGGA 0.811017 -281 TGGGGTACCGCCCGGATCCGGCCCGCTGGCAG 31 156 1 CCCGGACGGC 0.965422 -145 AGTATCCGCACACGGCTGAGCAGACGCCATGC 31 236 0 CACGGCAGCA 0.893963 -65 GACGCTGTGACGCAGCACCGCATCTCGGTTGA 31 269 1 CGCAGCCGCA 0.859816 -32 ****** **** Masking position 5 Map Score: 21.1237 Number of sites scoring better than the average of aligned sites = 9280 Number in coding regions = 8607 Number in noncoding regions = 673 Number of orfs with sites within 600 bp upstream = 525 Fraction of orfs with sites within 600 bp upstream = 0.0843238 Motif number 9 GCGCGCTCTGCATCGTCGTCGGGCTCGACC 1 43 0 CATCGTCGTC 0.540635 -258 GCGCGCTCTGCATCGTCGTCGGGCTCGACC 1 101 0 CATCGTCGTC 0.540635 -200 TCTGAGTCCGGAACGGGGTGAGCGCCACCA 1 184 0 GAACGGGGTG 0.83943 -117 CGGCCTTGGTGAACCGGCCGTTACGGTGCC 2 35 1 GAACCGGCCG 0.434256 -122 GTTTGAGATCCCACCTGCCGGCGGTTTCGG 3 13 1 CCACCTGCCG 0.425666 -161 CAAATCCGGTGAACGTCGCCCTAGCGCGGC 3 141 0 GAACGTCGCC 0.915947 -33 CTACGCTCTGCATCGTCGTCGGCGCAGG 4 9 0 CATCGTCGTC 0.540635 -219 CGACGATGCAGAGCGTAGCGATGAGGTGGG 4 21 1 GAGCGTAGCG 0.736299 -207 GCTTGCGGGGGAGAGTGGCGCTGATGACCT 4 61 1 GAGAGTGGCG 0.632821 -167 CTACGCTCTGCATCGTCGTCGGCGCAGGTC 4 86 0 CATCGTCGTC 0.540635 -142 CGACGATGCAGAGCGTAGCGATGAGGTGGG 4 98 1 GAGCGTAGCG 0.736299 -130 GCTTGCGGGGGAGAGTGGCGCTGATGACCT 4 138 1 GAGAGTGGCG 0.632821 -90 CTACGCTCTGCATCGTCGTCGGCGCAGGTC 4 163 0 CATCGTCGTC 0.540635 -65 CGACGATGCAGAGCGTAGCGATGAGGTGGG 4 175 1 GAGCGTAGCG 0.736299 -53 GCTTGCGGGGGAGAGTGGCGCTG 4 215 1 GAGAGTGGCG 0.632821 -13 CCCTCGTCTTCAGCGCCGCC 5 34 1 CAGCGCCGCC 0.714414 -10 GCCGCTCAATCCACGGCGCGCCGTGAATAC 7 20 0 CCACGGCGCG 0.936333 -122 GGAGGGTGAGCCGCCGGGTCGCGTGCTGGG 10 84 0 CCGCCGGGTC 0.523747 -47 AACATTGGTGGAACGTGGTGCACACTGCAC 12 74 1 GAACGTGGTG 0.844076 -227 GGTGCACACTGCACCTGGGGTTCTGCCCTC 12 90 1 GCACCTGGGG 0.133262 -211 CAAAACCCGTCCATGGGGCCAATGTGGCTG 12 202 1 CCATGGGGCC 0.403806 -99 AACCCGCATACCACGGCGCGCCTCTCAGGC 12 255 1 CCACGGCGCG 0.936333 -46 CCGGAAACAGCAGCGCCGCGAATAGGAACG 13 21 1 CAGCGCCGCG 0.788998 -305 ACTCACGCGAGCGCCGGCCGAATGGCGATG 13 100 0 GCGCCGGCCG 0.490954 -226 CCGTCAATTACAACGTGGCCGCACACCGGT 17 30 1 CAACGTGGCC 0.942999 -81 GTTCAGATAACAACGTGGCCACACACCAAC 17 58 0 CAACGTGGCC 0.942999 -53 GCGGTGGTGGCCGCGTGGCGGACAGGTTAT 19 66 0 CCGCGTGGCG 0.968825 -80 CACGCGGCCACCACCGCGCCGATCACAGCC 19 79 1 CCACCGCGCC 0.684212 -67 AGAACTTCAACAACGTGACGACTTCGAGAC 19 112 1 CAACGTGACG 0.348057 -34 GTTGTTGGTTGAGCGTGGCCGCCCGTACGT 20 18 0 GAGCGTGGCC 0.957032 -59 CGGCTCTTTCGCACCTGGCG 21 1 0 GCACCTGGCG 0.795945 -300 CAAATGAGACGCGCGGCGCGCGGATTCTAG 21 39 0 GCGCGGCGCG 0.951923 -262 CACAGGGTCGGCCCGGGGTGCTAGCGGCCG 21 254 1 GCCCGGGGTG 0.300379 -47 CTGCGCTCTGCATCGTCGCCGGCGCGGA 24 9 0 CATCGTCGCC 0.824848 -41 CGATGCTAAGGAGCGGCGCCG 24 39 1 GAGCGGCGCC 0.94186 -11 CAAGAAACGCCCGTGTGGTGCGCCAGTTTT 25 31 1 CCGTGTGGTG 0.286756 -39 TGTCAAATCCCAACGTGGTGTGGCTCATGA 28 76 1 CAACGTGGTG 0.860717 -33 ACACACCACGGCGAGGACGACAACC 30 56 0 CCACGGCGAG 0.408176 -15 GCGACTTCCACAACGGCGACGGAGAGCGAC 31 19 1 CAACGGCGAC 0.36073 -282 ACGCTTGAGGCAGCGTCCCGGACCAACGCC 31 54 0 CAGCGTCCCG 0.826295 -247 CAGCGGGCCGGATCCGGGCGGTACCCCACT 31 154 0 GATCCGGGCG 0.635918 -147 CGGAGCCTGCCAGCGGGCCGGATCCGGGCG 31 164 0 CAGCGGGCCG 0.859125 -137 GGCAGGCTCCGAACGTGCCCCAAATCGGGT 31 183 1 GAACGTGCCC 0.706921 -118 CATAGGATCCGCATGGCGTCTGCTCAGCCG 31 226 1 GCATGGCGTC 0.100313 -75 CATCTCGGTTGAGCGTGTCGTA 31 289 1 GAGCGTGTCG 0.418189 -12 ********** Masking position 5 Map Score: 51.7904 Number of sites scoring better than the average of aligned sites = 34190 Number in coding regions = 31648 Number in noncoding regions = 2542 Number of orfs with sites within 600 bp upstream = 1158 Fraction of orfs with sites within 600 bp upstream = 0.185994 Motif number 10 TCAATGTCCAGCGACTGCCAGCGGCTGGTTG 9 24 1 GCGACTGCAG 0.946239 -60 GTGCGACTCTGTGTCTGCTCGCGGGGTGCGC 10 16 0 GTGTCTGCCG 0.986276 -115 ATGCGACTCTGTGTCTGCTCGCCCAGCACGC 10 63 1 GTGTCTGCCG 0.986276 -68 GGAAGAGTTCTCGTCCGCGCGGGTTTCGCCT 12 133 0 TCGTCCGCCG 0.900772 -168 GCCTGAAAAGGTGACCGGGCGGGATGTCGGG 14 70 0 GTGACCGGCG 0.843423 -112 CAATTACAACGTGGCCGCACACCGGTTGGTG 17 34 1 GTGGCCGCCA 0.913472 -77 TTGGTTGAGCGTGGCCGCCCGTACGTCTGCC 20 13 0 GTGGCCGCCG 0.982492 -64 CTCCACAGTCGCGACCGAAAGGCATGGGACG 21 174 0 GCGACCGAAG 0.698423 -127 CAAACACACAGGGTCGGCCCGGGGTGCTAGC 21 248 1 GGGTCGGCCG 0.912989 -53 GGGCGATTTTGCGTCTGCTCGCGGGTGGGAG 26 15 0 GCGTCTGCCG 0.992347 -82 GGGCGATTTTGCGTCTGCTCGCGCCGCCACC 26 62 1 GCGTCTGCCG 0.992347 -35 GGCGGCTACAGTGACTGCAAGAGCGTACCTA 27 29 1 GTGACTGCAG 0.907018 -76 CGCACTCGTTGTGACCGCACAGTACTGGGTA 29 57 0 GTGACCGCCA 0.927537 -34 TTCCACAACGGCGACGGAGAGCGACCAATTG 31 24 1 GCGACGGAAG 0.506782 -277 GGTACCAGTAGCGGCTGCTGGCGACCGGGCT 31 105 0 GCGGCTGCGG 0.867374 -196 TACCCCACTCACGTCGGCGCGCATGTTGGTA 31 132 0 ACGTCGGCCG 0.801098 -169 GATCCGCATGGCGTCTGCTCAGCCGTGTGCG 31 231 1 GCGTCTGCCA 0.960221 -70 ACAGCGTCAAGTATCCGCACACGGCTGAGCA 31 246 0 GTATCCGCCA 0.46868 -55 ******** ** Masking position 5 Map Score: 26.3186 Number of sites scoring better than the average of aligned sites = 4121 Number in coding regions = 3677 Number in noncoding regions = 444 Number of orfs with sites within 600 bp upstream = 293 Fraction of orfs with sites within 600 bp upstream = 0.0470607 Motif number 11 CTCAGAAATTCGCGATCACAATTTGCGCGT 1 208 1 CGCGATCACA 0.973687 -93 CGCTGCGCAGCGCGTTCATACCGCCGAGGT 2 69 0 CGCGTTCATA 0.602676 -88 CGCTTTCTCCTGATCTGTCT 6 1 1 CGCTTTCTCC 0.840002 -56 TGCCGCGTTCTCCTCGGGCTGCC 8 32 0 CGCGTTCTCC 0.925781 -13 CCCGCGCGCACCCCGCGAGCAG 10 3 1 CGCGCGCACC 0.952161 -128 GCGCGCACCCCGCGAGCAGACACAGAGTCG 10 14 1 CGCGAGCAGA 0.950775 -117 TTAGCGCCACCGCGATCACCAACCCGACGA 13 54 1 CGCGATCACC 0.980979 -272 GTCGAACTCACGCGAGCGCCGGCCGAATGG 13 105 0 CGCGAGCGCC 0.943128 -221 AACCGAGATCCGCTTTCTCACCGCCGAAGC 14 41 1 CGCTTTCTCA 0.788092 -141 ACTGCATGTGCGCTTGCACAGGACTTGAGA 14 150 1 CGCTTGCACA 0.942071 -32 CTGGTGCCCGGGCTAGCACACTTCGGCACA 21 69 0 GGCTAGCACA 0.705112 -232 ACCTGCCGGCCGCTAGCACCCCGGGCCGAC 21 260 0 CGCTAGCACC 0.975758 -41 TGGCGGGGACCGCTATCTCCCAGGGGCGTT 23 228 0 CGCTATCTCC 0.902005 -73 GCCTCCCACCCGCGAGCAGACGCAAAATCG 26 13 1 CGCGAGCAGA 0.950775 -84 TCGGTGGCGGCGCGAGCAGACGCAAAATCG 26 65 0 CGCGAGCAGA 0.950775 -32 ********** Masking position 7 Map Score: 23.2141 Number of sites scoring better than the average of aligned sites = 2583 Number in coding regions = 2390 Number in noncoding regions = 193 Number of orfs with sites within 600 bp upstream = 158 Fraction of orfs with sites within 600 bp upstream = 0.0253774 Motif number 12 CCCACCTGCCGGCGGTTTCGGCGGCTGATGG 3 22 1 GGCGGTTTGG 0.918325 -152 ACCGTTCACATGCTGTTTGGCAAACAGCGCA 3 63 0 TGCTGTTTGC 0.894531 -111 GACTGCCAGCGGCTGGTTGCCGACGAGCAGC 9 36 1 GGCTGGTTCC 0.683289 -48 GCACAAAATCGGCGGTTTTGATGCGACTCTG 10 43 1 GGCGGTTTGA 0.883534 -88 GGGCGATTTGTGCTGCTTGGCGGAAGAGTTC 12 154 0 TGCTGCTTGC 0.861648 -147 GTTTGTTCGACGAGGTTTAGCCACATCAGCC 12 227 0 CGAGGTTTGC 0.723609 -74 CGGCGGTTTTGCCGCATTGCGC 16 2 1 GGCGGTTTGC 0.99204 -32 GCGCGGTGGTGGCCGCGTGGCGGACAGGTTA 19 67 0 GGCCGCGTGC 0.790878 -79 GGCGAATGACGGCTCTTTCGCACCTGGCG 21 9 0 GGCTCTTTGC 0.935094 -292 GTGGAGGCTTGGCCGGTTAGCGTTACGCCAA 21 199 1 GGCCGGTTGC 0.935769 -102 CGGCGCCGCTCCTTAGCATCGCTGCGC 24 33 0 CGCTCCTTGC 0.67431 -17 CATGAAAATGGGCGATTTTGCGTCTGCTCGC 26 24 0 GGCGATTTGC 0.961257 -73 TGACGAAAAGGGCGATTTTGCGTCTGCTCGC 26 53 1 GGCGATTTGC 0.961257 -44 GATCCGAGCGGGCTACTTAGCCTAGGTACGC 27 51 0 GGCTACTTGC 0.907406 -54 TGGCTCATGAGGAGGTTTGGCAT 28 96 1 GGAGGTTTGC 0.930445 -13 ******** ** Masking position 8 Map Score: 14.8194 Number of sites scoring better than the average of aligned sites = 2098 Number in coding regions = 1890 Number in noncoding regions = 208 Number of orfs with sites within 600 bp upstream = 170 Fraction of orfs with sites within 600 bp upstream = 0.0273049 Motif number 13 GATGGTTTAGCGTTCCGCTGTGCCTCTTCAG 1 259 1 CGTCCGCTGT 0.91685 -42 GAATTCTCCTCGGTCCGCTGCGCAGCGCGTT 2 83 0 CGTCCGCTGC 0.98622 -74 CCAAAGCACACCATCAGCCGCCGAAACCGCC 3 32 0 CCTCAGCCGC 0.872636 -142 GAACGGTAACCGAACAGCTGTGGCGTAGTGT 3 87 1 CGACAGCTGT 0.875193 -87 GTAGTTAATCGGATCGGCAGCCCGAGGAGAA 8 17 1 GGTCGGCAGC 0.807582 -28 CGTGGCCGCCCGTACGTCTGCCGC 20 4 0 CGACGTCTGC 0.908801 -73 TGTGTGTTTGCGTACGGCTGCCTGTGGATTG 21 227 0 CGACGGCTGC 0.992851 -74 CAGCGGCCGTCCATCGGCTGCATATCGCTTG 23 26 0 CCTCGGCTGC 0.98995 -275 CTTACAGTTGCCGACAGCTGCCGAACCAGCG 23 52 0 CCACAGCTGC 0.970461 -249 CCGCCAGTAACGTACCGCTGAACCGACGGGA 23 252 1 CGACCGCTGA 0.862128 -49 GCGGGGCTGACCGACGGCGGCTACAGTGACT 27 14 1 CCACGGCGGC 0.954317 -91 GAATTTGGTCGCTTCGGCTGCGGCTCCTGGT 30 19 1 GCTCGGCTGC 0.954505 -52 ** ******** Masking position 5 Map Score: 14.2285 Number of sites scoring better than the average of aligned sites = 3327 Number in coding regions = 3139 Number in noncoding regions = 188 Number of orfs with sites within 600 bp upstream = 168 Fraction of orfs with sites within 600 bp upstream = 0.0269836 Motif number 14 AAATAGCACTCGTGGAGGTCAAGACGCCCG 1 142 1 CGTGGAGGTC 0.252327 -159 GACGCCCGCCGGTGATGGGCTGGTGGCGCT 1 164 1 GGTGATGGGC 0.659116 -137 TGCGGGAGTGCGTGAGAGACTTGCCGGT 2 139 1 CGTGAGAGAC 0.587925 -18 TTTGGCGATTCCTGGCAGACTGTTAGCAGA 7 65 1 CCTGGCAGAC 0.465242 -77 TGTGTCTGCTCGCGGGGTGCGCGCGGG 10 8 0 CGCGGGGTGC 0.664905 -123 CGCCGGGTCGCGTGCTGGGCGAGCAGACAC 10 73 0 CGTGCTGGGC 0.938891 -58 ACCCTCCCACCCTGCTGGACGGTAATCAGG 10 107 1 CCTGCTGGAC 0.924925 -24 GCCACATTGGCCCCATGGACGGGTTTTGTT 12 200 0 CCCCATGGAC 0.284468 -101 CTGAGACTGGCCTGAGAGGCGCGCCGTGGT 12 264 0 CCTGAGAGGC 0.788343 -37 GTCGAACTCACGCGAGCGCCGGCCGAATGG 13 105 0 CGCGAGCGCC 0.683702 -221 TGGTGCTGACCGTGATGGCCTTTGCCGGGC 13 200 0 CGTGATGGCC 0.914564 -126 CAACTACCATCCTGCTGGGCTATCTGATGC 13 283 0 CCTGCTGGGC 0.95695 -43 GGTCGTGTTCCTGGGGGGCCCGGCAACTA 13 307 0 CCTGGGGGGC 0.979641 -19 ATACGGAGCCCCCGGTGGACCGG 14 4 0 CCCGGTGGAC 0.933739 -178 TGTAATTGACGGCGCGGGCCTTAAGCCAGC 17 12 0 GGCGCGGGCC 0.824659 -99 GTGGTGGCCGCGTGGCGGACAGGTTATGAC 19 63 0 CGTGGCGGAC 0.828284 -83 TGATCGGCGCGGTGGTGGCCGCGTGGCGGA 19 74 0 GGTGGTGGCC 0.756961 -72 ACAAATGAGACGCGCGGCGCGCGGATTCTA 21 40 0 CGCGCGGCGC 0.597795 -261 ACAGGGTCGGCCCGGGGTGCTAGCGGCCGG 21 255 1 CCCGGGGTGC 0.741657 -46 GTGTGTGAAACCTGCCGGCCGCTAGCACCC 21 269 0 CCTGCCGGCC 0.91818 -32 GCGATATGCAGCCGATGGACGGCCGCTGGT 23 29 1 GCCGATGGAC 0.612446 -272 TTGGTCCCCACCTGAGGGCCGTTAGTCCTT 23 200 0 CCTGAGGGCC 0.967613 -101 CCTGCGGGGCTGACCGACGG 27 1 1 CCTGCGGGGC 0.97721 -104 CGCTCGGATCCCTGTGAGCCCCCAAAGAAG 27 72 1 CCTGTGAGCC 0.343871 -33 GCGTAGGGAACCCGAAGGACCACGCC 29 7 0 CCCGAAGGAC 0.662211 -84 GCTTCAGCAGCCCGGTCGCCAGCAGCCGCT 31 97 1 CCCGGTCGCC 0.723838 -204 TCGGAGCCTGCCAGCGGGCCGGATCCGGGC 31 165 0 CCAGCGGGCC 0.774986 -136 ********** Masking position 10 Map Score: 27.3155 Number of sites scoring better than the average of aligned sites = 14389 Number in coding regions = 13501 Number in noncoding regions = 888 Number of orfs with sites within 600 bp upstream = 610 Fraction of orfs with sites within 600 bp upstream = 0.0979762 Motif number 15 GCGATGAGAAGGAGTTGGGCGGTTAGGTCG 1 18 1 GGAGTTGGGC 0.822616 -283 GCGATGAGAAGGAGTTGGGCGGTTAGGTCG 1 76 1 GGAGTTGGGC 0.822616 -225 TGCCTCTTCAGGTGTTTGTCGGCTTCGTTG 1 279 1 GGTGTTTGTC 0.564336 -22 CCCATGTATCGGCCTTGGTGAACCGGCCGT 2 26 1 GGCCTTGGTG 0.948923 -131 GCTGATGGTGTGCTTTGGTGCGCTGTTTGC 3 45 1 TGCTTTGGTG 0.310299 -129 CATCGTCGTCGGCGCAGGTCATCAGCGCCA 4 76 0 GGCGCAGGTC 0.900843 -152 CATCGTCGTCGGCGCAGGTCATCAGCGCCA 4 153 0 GGCGCAGGTC 0.900843 -75 TCCTATTCGCGGCGCTGCTGTTTCCGGAGA 13 18 0 GGCGCTGCTG 0.814485 -308 ACAACATCGTCGGGTTGGTGATCGCGGTGG 13 60 0 CGGGTTGGTG 0.706962 -266 TGGCCGACTTGGTGTTGGTGCTGACCGTGA 13 215 0 GGTGTTGGTG 0.958147 -111 CTGTGATCGGCGCGGTGGTGGCCGCGTGGC 19 77 0 CGCGGTGGTG 0.778203 -69 TCCTTAACAAGGTCTTGGCGGCTGACATGG 21 108 0 GGTCTTGGCG 0.393399 -193 TGAAAAGCTGGGCGATGGTTGTGGACCTGG 23 103 1 GGCGATGGTT 0.59538 -198 ATCTCCCAGGGGCGTTGGTCCCCACCTGAG 23 214 0 GGCGTTGGTC 0.990439 -87 GCGACCAATTGGCGTTGGTCCGGGACGCTG 31 44 1 GGCGTTGGTC 0.990439 -257 ********** Masking position 2 Map Score: 6.57926 Number of sites scoring better than the average of aligned sites = 6743 Number in coding regions = 6441 Number in noncoding regions = 302 Number of orfs with sites within 600 bp upstream = 227 Fraction of orfs with sites within 600 bp upstream = 0.03646