AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i294_mixed1_mtub_reg_100.orf -a/home/amcguire/alignace/lib/ORF_mtub.txt -z/skink1/amcguire/genomes/mtub.fna -g0.66 -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 = 0.66 maxlen = 30 weight = 0.8 exclude = 0 Input sequences: #1 fadD30 300 fadD30 #2 fabH 81 fabH #3 accD3 26 accD3 #4 fabG2 128 fabG2 #5 fabD 238 fabD #6 acpM 75 acpM #7 kasB 30 kasB #8 Rv2362c 61 hypothetical protein Rv2362c #9 bex 73 bex #10 Rv2370c 194 hypothetical protein Rv2370c #11 Rv2870c 57 hypothetical protein Rv2870c #12 cdsA 22 cdsA #13 frr 171 frr #14 pyrH 234 pyrH #15 rpsB 283 rpsB #16 Rv2926c 50 hypothetical protein Rv2926c #17 Rv2927c 238 hypothetical protein Rv2927c #18 echA20 54 echA20 #19 Rv3553 97 hypothetical protein Rv3553 Motif number 1 GTTCGTCCTCACGCGGCGGCTTGTTGAAG 1 10 0 ACGCGGCGGC 0.983785 -291 ACGAACCCTACCGGGGAGACGCCACTCGTT 1 34 1 CCGGGGAGAC 0.71452 -267 ACTATAGATGACCGAGCGGCAGCCTGTACG 1 125 0 ACCGAGCGGC 0.672886 -176 GGAAACATGAGCGGCCCGACGGGAAATTCG 1 217 1 GCGGCCCGAC 0.959416 -84 TGCCCAGACAGCTCGGCGGCCTGGTGGCCA 1 248 1 GCTCGGCGGC 0.98709 -53 GGCGACGACACGCCGACGGAGCCCGCCCTG 2 26 0 CGCCGACGGA 0.670182 -56 TGTGCACCTACGGCGACGACACGCCGACGG 2 37 0 CGGCGACGAC 0.967984 -45 TATCTGCGTGGCGCGGTGGTTTCTCGCG 4 9 0 GCGCGGTGGT 0.883109 -120 TAGCTGGCAAGGTGGCCGACCTCGCGATGC 4 59 0 GGTGGCCGAC 0.84413 -70 TATTTTGCACCGTCGGCGGCGAAGCTCTTC 4 99 0 CGTCGGCGGC 0.978976 -30 TCATAGATTCCCTCGCCGGTCAGAGGGGGT 5 32 1 CCTCGCCGGT 0.845432 -207 GGTCCAGCAGGGGCCCCGGAAAGATACCAG 5 59 1 GGGCCCCGGA 0.865538 -180 GGAAAGATACCAGGGGCGCCGTCGGACGGA 5 76 1 CAGGGGCGCC 0.871446 -163 ACAACAGGTCGCGGGACGATCTCAAAAACA 5 117 1 GCGGGACGAT 0.774957 -122 CTCGGGCCTCGCGACCCGCGATGTC 7 16 0 GCCTCGCGAC 0.633396 -15 TCGCGGGTATCCGCGCCGATAGTCTCGTAC 8 14 0 CCGCGCCGAT 0.944344 -48 GTTTTGCACCCCGCCACGACATCGCGGGTA 8 35 0 CCGCCACGAC 0.957407 -27 CCGCTTTTTTCCGCCGTGAATGCACGTTCG 9 14 0 CCGCCGTGAA 0.515152 -60 GCCGGTTTCCTCGCCGAACGTGAACACA 9 56 0 CCTCGCCGAA 0.634929 -18 CGACTCGGCAGGCGCACGGCCCGCTGCCGC 10 38 1 GGCGCACGGC 0.769633 -157 CGGTTACCCACCGCGGCGGCAGCGGGCCGT 10 53 0 CCGCGGCGGC 0.998403 -142 CCCGAACGCGCCACACCGGCTAAACGTCCA 10 97 1 CCACACCGGC 0.893867 -98 GGCTAAACGTCCACCACGGCTGAAGGAGTA 10 114 1 CCACCACGGC 0.862161 -81 GGATTTTGTTGCTGAGCGGCCG 12 3 0 GCTGAGCGGC 0.903617 -20 CGCTGCTTCGCGCCGGCGACGATGCAGAGC 13 21 1 CGCCGGCGAC 0.977947 -151 ACGATGCAGAGCGCAGCGATGAGGAGGAGC 13 39 1 GCGCAGCGAT 0.863244 -133 CAGCGATGAGGAGGAGCGGCGCAGATGGTT 13 52 1 GAGGAGCGGC 0.909639 -120 AGATGGTTGGCGCCGGCGACGATGCAGAGC 13 74 1 CGCCGGCGAC 0.977947 -98 ACGATGCAGAGCGCAGCGATGAGGAGGAGC 13 92 1 GCGCAGCGAT 0.863244 -80 CAGCGATGAGGAGGAGCGGCGCAGATGGTT 13 105 1 GAGGAGCGGC 0.909639 -67 AGATGGTTGGCGCCGGCGACGATGCAGAGC 13 127 1 CGCCGGCGAC 0.977947 -45 ACGATGCAGAGCGCAGCGATGAGGAGGAGC 13 145 1 GCGCAGCGAT 0.863244 -27 CAGCGATGAGGAGGAGCGGCGCAG 13 158 1 GAGGAGCGGC 0.909639 -14 GGGTACCCAGGGGTACCGGCAGACATCTCC 14 18 0 GGGTACCGGC 0.686499 -217 AGATAGTCGACGGGCCTGGCCTCGGCCGGC 14 101 1 CGGGCCTGGC 0.821163 -134 CGCAACAACGAGGGGCCGGCCGAGGCCAGG 14 115 0 AGGGGCCGGC 0.907149 -120 CGTGACTAACGCACCCCGCCCACGCCGGAG 14 143 1 GCACCCCGCC 0.665554 -92 CGCCCACGCCGGAGCGCGGCTATTGAGGCA 14 159 1 GGAGCGCGGC 0.87942 -76 CCCGGCACCACCAGGACGGCATCTCACATC 14 190 0 CCAGGACGGC 0.895478 -45 CCTGGTGGTGCCGGGATGGCACTGTCGTGC 14 205 1 CCGGGATGGC 0.888092 -30 TCCACAAAACGGGCGGCGGCGA 15 3 0 GGGCGGCGGC 0.996841 -281 GCGGAATCCACAGCGACGACATTGTCCACA 15 27 0 CAGCGACGAC 0.887389 -257 GTGATTTTCCCGGCAGCGGAATCCACAGCG 15 42 0 CGGCAGCGGA 0.871946 -242 GCTCGCATCGGCGGGCTGACTTCGCGTGTC 15 102 1 GCGGGCTGAC 0.887449 -182 TCGCGTGTCTGCACCGCGGCCCGCCTTTCC 15 123 1 GCACCGCGGC 0.964601 -161 CGCCGCGGGACCGCCCCGGCATGCTGTTGC 15 160 0 CCGCCCCGGC 0.992775 -124 CGGGGCGGTCCCGCGGCGGTTCCCTTCGGG 15 172 1 CCGCGGCGGT 0.986938 -112 CTGGCGTCTGCCGCGATGCCGGACCCGGGA 15 209 0 CCGCGATGCC 0.655103 -75 GGCTGAAGCCGGGCCCTGGCGTCTGCCGCG 15 224 0 GGGCCCTGGC 0.883437 -60 TTCAGCCGATGCCGGGCGAACAACCGACAC 15 247 1 GCCGGGCGAA 0.789848 -37 CGCAAGGATCAAGCGCCGGCCAACGCCCAA 16 25 1 AAGCGCCGGC 0.824071 -26 TCTTGCCCGAGCGTGCCGACAACGTAGGTG 17 14 0 GCGTGCCGAC 0.885334 -225 GTCGTAGACCGTTCGGCGGCTGACGGGTGA 17 63 0 GTTCGGCGGC 0.668234 -176 ATTCGACGAGCCCGGGCGACCACTCAGATC 17 113 0 CCCGGGCGAC 0.975861 -126 TGTCCCGACACACCGGCGCCACCAGTGCAG 17 152 1 CACCGGCGCC 0.787599 -87 ACTGCATTGTCGGCGGTGGCT 19 87 1 CGGCGGTGGC 0.973843 -11 ********** Masking position 8 Map Score: 87.9018 Number of sites scoring better than the average of aligned sites = 98151 Number in coding regions = 92244 Number in noncoding regions = 5907 Number of orfs with sites within 600 bp upstream = 1615 Fraction of orfs with sites within 600 bp upstream = 0.259396 Motif number 2 CCCCGGTAGGGTTCGTCCTCACGCGGCGGCT 1 19 0 GTTCTCCTCA 0.853289 -282 GGTCGAAGCGGCTCTGGATCGATGACTATAG 1 148 0 GCTCGGATCG 0.976318 -153 CGGTTCAACTGATCCGCTTCGACCACAGGCT 1 179 0 GATCGCTTCG 0.957146 -122 TTCCTCCGTGAATCTGCATCGCGAGGTCGGC 4 44 1 AATCGCATCG 0.780679 -85 CGGCGGCGAAGCTCTTCTACACCGAACTAGC 4 85 0 GCTCTCTACA 0.777647 -44 ATAGTTTTGCACCCCGCCACGACATCGCGGG 8 37 0 ACCCGCCACG 0.870503 -25 CGGCCGCTCAGCAACAAAATCC 12 6 1 GCTCGCAACA 0.974081 -17 GGGGACTACGCGCTGCTTCGCGCCGGCGAC 13 10 1 GCGCGCTTCG 0.957789 -162 TCATCGCTGCGCTCTGCATCGTCGCCGGCGC 13 30 0 GCTCGCATCG 0.997239 -142 CATCTGCGCCGCTCCTCCTCATCGCTGCGCT 13 48 0 GCTCTCCTCA 0.977553 -124 TCATCGCTGCGCTCTGCATCGTCGCCGGCGC 13 83 0 GCTCGCATCG 0.997239 -89 CATCTGCGCCGCTCCTCCTCATCGCTGCGCT 13 101 0 GCTCTCCTCA 0.977553 -71 TCATCGCTGCGCTCTGCATCGTCGCCGGCGC 13 136 0 GCTCGCATCG 0.997239 -36 CTGCGCCGCTCCTCCTCATCGCTGCGCT 13 154 0 GCTCTCCTCA 0.977553 -18 TAGTCGACGGGCCTGGCCTCGGCCGGCCCCT 14 104 1 GCCTGCCTCG 0.935701 -131 GCCTTTCCGGGATCCGCAACAGCATGCCGGG 15 145 1 GATCGCAACA 0.833865 -139 TTCCTCCCGGGTCCGGCATCGCGGCAGACGC 15 205 1 GTCCGCATCG 0.97147 -79 AGACGCCAGGGCCCGGCTTCAGCCGATGCCG 15 230 1 GCCCGCTTCA 0.980125 -54 TCGGTTGTTCGCCCGGCATCGGCTGAAGCCG 15 243 0 GCCCGCATCG 0.996093 -41 CTGAGTGGTCGCCCGGGCTCGTCGAATATGA 17 116 1 GCCCGGCTCG 0.976614 -123 TTGTTCCGCCTCCTCTCCCCCGC 19 3 1 GTTCGCCTCC 0.871135 -95 **** ****** Masking position 10 Map Score: 42.5223 Number of sites scoring better than the average of aligned sites = 5036 Number in coding regions = 4613 Number in noncoding regions = 423 Number of orfs with sites within 600 bp upstream = 311 Fraction of orfs with sites within 600 bp upstream = 0.0499518 Motif number 3 TCAACAAGCCGCCGCGTGAGGACGAACCCTA 1 13 1 GCCGCTGAGG 0.537698 -288 CCGGGGAGACGCCACTCGTTGGGGCAGTTTT 1 44 1 GCCACCGTTG 0.324321 -257 CGTACAGGCTGCCGCTCGGTCATCTATAGTC 1 125 1 GCCGCCGGTC 0.944088 -176 GCCGCTTCGACCAGCCTGTGGTCGAAGCGGA 1 167 1 CCAGCTGTGG 0.665902 -134 AATTCGATGCCCAGACAGCTCGGCGGCCTGG 1 241 1 CCAGAAGCTC 0.342542 -60 ACGATCCTGGCCACCAGGCCGCCGAGCTGTC 1 254 0 CCACCGGCCG 0.732253 -47 GCGACGACACGCCGACGGAGCCCGCCCTGAG 2 24 0 GCCGAGGAGC 0.738928 -58 GCGTGTCGTCGCCGTAGGTGCACACTCGACG 2 43 1 GCCGTGGTGC 0.518792 -39 AGAAACCACCGCGCCACGCAGATAGCCACTT 4 15 1 GCGCCCGCAG 0.585417 -114 TGGCAAGGTGGCCGACCTCGCGATGCAGATT 4 54 0 GCCGACTCGC 0.57756 -75 GGCCACCTTGCCAGCTAGTTCGGTGTAGAAG 4 72 1 CCAGCAGTTC 0.270699 -57 GAGCTTCGCCGCCGACGGTGCAAAATATGAT 4 102 1 GCCGAGGTGC 0.92064 -27 CAGAGGGGGTCCAGCAGGGGCCCCGGAAAGA 5 52 1 CCAGCGGGGC 0.695776 -187 TCACTTTCCGTCCGACGGCGCCCCTGGTATC 5 81 0 TCCGAGGCGC 0.705181 -158 CGCCGAACGTGCATTCACGGCG 9 2 1 GCCGACGTGC 0.966212 -72 CGGTTTCCTCGCCGAACGTGAACACAGGGAG 9 51 0 GCCGACGTGA 0.510217 -23 CACCGCGGCGGCAGCGGGCCGTGCGCCTGCC 10 44 0 GCAGCGGCCG 0.956273 -151 GAACGGTTACCCACCGCGGCGGCAGCGGGCC 10 55 0 CCACCCGGCG 0.53608 -140 TCCCAATAATCCCGAACGCGCCACACCGGCT 10 87 1 CCCGACGCGC 0.977862 -108 CCAACATTCCCCAGAACGTGGTGCACAACGC 10 151 1 CCAGACGTGG 0.907056 -44 AGAACGTGGTGCACAACGCACCTAGGCAACT 10 163 1 GCACACGCAC 0.736569 -32 CCGGCGCGAAGCAGCGCGTAGTCCCC 13 6 0 GCAGCCGTAG 0.904716 -166 GCTCTGCATCGTCGCCGGCGCGAAGCAGCGC 13 20 0 GTCGCGGCGC 0.848015 -152 CGGCGACGATGCAGAGCGCAGCGATGAGGAG 13 34 1 GCAGACGCAG 0.930235 -138 GAGGAGCGGCGCAGATGGTTGGCGCCGGCGA 13 62 1 GCAGAGGTTG 0.817539 -110 GCTCTGCATCGTCGCCGGCGCCAACCATCTG 13 73 0 GTCGCGGCGC 0.848015 -99 CGGCGACGATGCAGAGCGCAGCGATGAGGAG 13 87 1 GCAGACGCAG 0.930235 -85 GAGGAGCGGCGCAGATGGTTGGCGCCGGCGA 13 115 1 GCAGAGGTTG 0.817539 -57 GCTCTGCATCGTCGCCGGCGCCAACCATCTG 13 126 0 GTCGCGGCGC 0.848015 -46 CGGCGACGATGCAGAGCGCAGCGATGAGGAG 13 140 1 GCAGACGCAG 0.930235 -32 CGAGGGGCCGGCCGAGGCCAGGCCCGTCGAC 14 106 0 GCCGAGCCAG 0.417671 -129 GCCTCGGCCGGCCCCTCGTTGTTGCGTGACT 14 119 1 GCCCCCGTTG 0.845962 -116 CGTGACTAACGCACCCCGCCCACGCCGGAGC 14 143 1 GCACCCGCCC 0.875096 -92 CCCGCCCACGCCGGAGCGCGGCTATTGAGGC 14 157 1 CCGGACGCGG 0.864154 -78 TCGCCGCCGCCCGTTTTGTGGACAAT 15 6 1 GCCGCCGTTT 0.668325 -278 GGGAAAATCACCAGCTGGGTCGGTGTAAACT 15 61 1 CCAGCGGGTC 0.774065 -223 ACTACTCGGCGCAGCTCGCATCGGCGGGCTG 15 89 1 GCAGCCGCAT 0.689794 -195 ACACGCGAAGTCAGCCCGCCGATGCGAGCTG 15 100 0 TCAGCCGCCG 0.602634 -184 TCGCGTGTCTGCACCGCGGCCCGCCTTTCCG 15 123 1 GCACCCGGCC 0.65783 -161 CGGGACCGCCCCGGCATGCTGTTGCGGATCC 15 154 0 CCGGCTGCTG 0.377132 -130 CCCGGCTTCAGCCGATGCCGGGCGAACAACC 15 241 1 GCCGAGCCGG 0.714581 -43 GCCGGCCAACGCCCAACGCGGC 16 39 1 GCCCACGCGG 0.951849 -12 GGCGATCTTGCCCGAGCGTGCCGACAACGTA 17 18 0 CCCGACGTGC 0.940481 -221 CCCGTCAGCCGCCGAACGGTCTACGACACGC 17 66 1 GCCGACGGTC 0.894657 -173 CGACACGCGCCCAGCAGGCCGCGTGATCTGA 17 89 1 CCAGCGGCCG 0.923461 -150 GATCTGAGTGGTCGCCCGGGCTCGTCGAATA 17 113 1 GTCGCCGGGC 0.714587 -126 TGCACTCCTGCGGGTTCGCTACCTAAG 18 38 0 CCTGCGGTTC 0.209223 -17 GGGCGCACCTCCCGCTTGCGGGGGAGAGGAG 19 20 0 CCCGCTGCGG 0.911704 -78 GGAGGTGCGCCCACATCGCTTCGTCCCCTGC 19 39 1 CCACACGCTT 0.167695 -59 GGGGGTACCACCCGCTTGCAGGGGACGAAGC 19 56 0 CCCGCTGCAG 0.762081 -42 ***** ***** Masking position 8 Map Score: 52.9917 Number of sites scoring better than the average of aligned sites = 66037 Number in coding regions = 61716 Number in noncoding regions = 4321 Number of orfs with sites within 600 bp upstream = 1424 Fraction of orfs with sites within 600 bp upstream = 0.228718 Motif number 4 GCCCCAACGAGTGGCGTCTCCCCGGTAGGGTTCGT 1 34 0 GTGCTCCCGG 0.868373 -267 GCGACGACACGCCGACGGAGCCCGCCCTGAGTGCA 2 20 0 GCGAACCCGC 0.606191 -62 TCGCGAGGTCGGCCACCTTGCCAGCTAGTTCGGTG 4 62 1 GGCATCCAGC 0.706085 -67 GTATCTTTCCGGGGCCCCTGCTGGACCCCCTCTGA 5 51 0 GGGCTCTGGA 0.627193 -188 CGACATCGCGGGTCGCGAGGCCCGAG 7 15 1 GGCGGCCCGA 0.703492 -16 CGAGACTATCGGCGCGGATACCCGCGATGTCGTGG 8 17 1 GGGCTCCCGC 0.994461 -45 GTGAACACAGGGAGACTTTTCCCGCTTTTTTCCGC 9 30 0 GGGATCCCGC 0.990458 -44 GTTCACGTTCGGCGAGGAAACCGGC 9 59 1 GGGAACCGGC 0.934785 -15 CGGCGGCAGCGGGCCGTGCGCCTGCCGAGTCGTCG 10 35 0 GGCCCCCTGC 0.885864 -160 GGGGACTACGCGCTGCTTCGCGCCGGCGACGAT 13 9 1 CGGCTCGCGC 0.780635 -163 CCCTCGCGGAGATGTCTGCCGGTACCCCTGGG 14 8 1 GGGACGCCGG 0.732327 -227 GATAGTCGACGGGCCTGGCCTCGGCCGGCCCCTCG 14 102 1 GGCCCTCGGC 0.703815 -133 CGACCCAGCTGGTGATTTTCCCGGCAGCGGAATCC 15 48 0 GGGATCCGGC 0.978438 -236 GGCGGGCCGCGGTGCAGACACGCGAAGTCAGCCCG 15 113 0 GGGCCCGCGA 0.963079 -171 CCGGCATGCTGTTGCGGATCCCGGAAAGGCGGGCC 15 140 0 GTGCTCCGGA 0.726581 -144 ACAGCATGCCGGGGCGGTCCCGCGGCGGTTCCCTT 15 163 1 GGGCCCGCGG 0.965737 -121 GCCGGACCCGGGAGGAAATCCCCGAAGGGAACCGC 15 187 0 GGGGTCCCGA 0.968644 -97 TTTCCTCCCGGGTCCGGCATCGCGGCAGACGCCAG 15 204 1 GGCCACGCGG 0.74044 -80 CCCGGCGCAAGGATCAAGCGCCGGCCAACGCCCAA 16 20 1 GGTCCCCGGC 0.886073 -31 ACGTCGTCTGGGCGATCTTGCCCGAGCGTGCCGAC 17 24 0 GGGATCCCGA 0.970638 -215 GAAGCGATGTGGGCGCACCTCCCGCTTGCGGGGGA 19 26 0 GGCGCCCCGC 0.968877 -72 ACAATGCAGTGGGGGTACCACCCGCTTGCAGGGGA 19 62 0 GGGGCCCCGC 0.94564 -36 ** ** * ***** Masking position 14 Map Score: 29.4958 Number of sites scoring better than the average of aligned sites = 9630 Number in coding regions = 8900 Number in noncoding regions = 730 Number of orfs with sites within 600 bp upstream = 510 Fraction of orfs with sites within 600 bp upstream = 0.0819146 Motif number 5 GGTTCGTCCTCACGCGGCGGCTTGTTGAAG 1 10 0 CACGGGCGGC 0.552697 -291 ACAAAACTGCCCCAACGAGTGGCGTCTCCCC 1 46 0 CCCACGAGTG 0.698028 -255 CGACCACAGGCTGGTCGAAGCGGCTCTGGAT 1 160 0 CTGGCGAAGC 0.754066 -141 ATCAGTTGAACCGGAGGAGTGGAAACATGAG 1 197 1 CCGGGGAGTG 0.898447 -104 CATCGAATTTCCCGTCGGGCCGCTCATGTTT 1 219 0 CCCGCGGGCC 0.609402 -82 CGAACGTGCACTCAGGGCGGGCTCCGTCGGC 2 14 1 CTCAGGCGGG 0.763585 -68 AGGGCGGGCTCCGTCGGCGTGTCGTCGCCGT 2 27 1 CCGTGGCGTG 0.577187 -55 CCTATCTGTTCTCGTCGAGTGTGCACCTACG 2 55 0 CTCGCGAGTG 0.873107 -27 ATATTTTGCACCGTCGGCGGCGAAGCTCTTC 4 99 0 CCGTGGCGGC 0.758966 -30 ACCCCCTCTGACCGGCGAGGGAATCTATGAC 5 31 0 ACCGCGAGGG 0.648444 -208 ATCCAGACAACAGGTCGCGGGACGATCTCAA 5 111 1 CAGGCGCGGG 0.953103 -128 TGTGGTTGTTCTGGCCGAGTCCGCGG 6 6 0 CTGGCGAGTC 0.856469 -70 CACGACATCGCGGGTCGCGAGGCCCGAG 7 13 1 CGGGCGCGAG 0.624893 -18 TACCCGCGATGTCGTGGCGGGGTGCAAAACT 8 35 1 GTCGGGCGGG 0.430384 -27 GCCGGTTTCCTCGCCGAACGTGAACACAGG 9 54 0 CTCGCGAACG 0.507577 -20 GGGCCGTGCGCCTGCCGAGTCGTCGACATTT 10 29 0 CCTGCGAGTC 0.369024 -166 TGAACGGTTACCCACCGCGGCGGCAGCGGGC 10 56 0 CCCACGCGGC 0.924472 -139 CCCAATAATCCCGAACGCGCCACACCGGCTA 10 88 1 CCGACGCGCC 0.830687 -107 ACTTCCCCGTGGAATGCAATCGTCTT 11 42 0 CCCGGGAATG 0.594649 -16 GCATCGTCGCCGGCGCGAAGCAGCGCGTAGT 13 15 0 CGGCCGAAGC 0.304309 -157 CGGCAGACATCTCCGCGAGGG 14 1 0 CTCCCGAGGG 0.874759 -234 CAACGAGGGGCCGGCCGAGGCCAGGCCCGTC 14 109 0 CCGGCGAGGC 0.976844 -126 GACTAACGCACCCCGCCCACGCCGGAGCGCG 14 146 1 CCCCCCCACG 0.252503 -89 CTGACTCCTCGCACGACAGTGCCAT 14 220 0 CTCCCGCACG 0.529753 -15 GTCCACAAAACGGGCGGCGGCGA 15 3 0 CGGGGGCGGC 0.890343 -281 GCTGTGGATTCCGCTGCCGGGAAAATCACCA 15 43 1 CCGCGCCGGG 0.758194 -241 GTGTAAACTACTCGGCGCAGCTCGCATCGGC 15 83 1 CTCGCGCAGC 0.891771 -201 GCGAAGTCAGCCCGCCGATGCGAGCTGCGCC 15 96 0 CCCGCGATGC 0.503108 -188 CCCGAAGGGAACCGCCGCGGGACCGCCCCGG 15 171 0 ACCGCGCGGG 0.635403 -113 TGCCGCGATGCCGGACCCGGGAGGAAATCCC 15 200 0 CCGGCCCGGG 0.94198 -84 CGGCAGACGCCAGGGCCCGGCTTCAGCCGAT 15 226 1 CAGGCCCGGC 0.651983 -58 CACCATTCACCCGGCGCAAGGATCAAGCGC 16 10 1 CCCGCGCAAG 0.58566 -41 CCGGCCAACGCCCAACGCGGC 16 40 1 CCCACGCGGC 0.937994 -11 ACGCGGCCTGCTGGGCGCGTGTCGTAGACCG 17 82 0 CTGGCGCGTG 0.957458 -157 ACGCGCCCAGCAGGCCGCGTGATCTGAGTGG 17 93 1 CAGGCGCGTG 0.864911 -146 GAGTGGTCGCCCGGGCTCGTCGAATATGAAA 17 118 1 CCGGCTCGTC 0.506539 -121 TGTGACTGCACTGGTGGCGCCGGTGTGTCGG 17 156 0 CTGGGGCGCC 0.867623 -83 GGCCACACCCTCCTGGCATCTTGCAAGATC 17 219 0 CTCCGGCATC 0.325637 -20 GGTAGCGAACCCGCAGGAGTGCA 18 42 1 CCGCGGAGTG 0.76371 -13 CTCCTCTCCCCCGCAAGCGGGAGGTGCGCCC 19 20 1 CCGCAGCGGG 0.758934 -78 GCTTCGTCCCCTGCAAGCGGGTGGTACCCCC 19 56 1 CTGCAGCGGG 0.547929 -42 **** ****** Masking position 1 Map Score: 56.1269 Number of sites scoring better than the average of aligned sites = 39406 Number in coding regions = 36332 Number in noncoding regions = 3074 Number of orfs with sites within 600 bp upstream = 1292 Fraction of orfs with sites within 600 bp upstream = 0.207517 Motif number 6 TGGGAGTGGCGATCCCTTACCCGGTAACGAT 1 280 0 GCGTCCTTCC 0.932317 -21 TGCACTCAGGGCGGGCTCCGTCGGCGTGTCGTC 2 20 1 GCGGCCCGCG 0.883367 -62 TTCTCGTCGAGTGTGCACCTACGGCGACGACAC 2 45 0 GTGGCCCTCG 0.870711 -37 ATCGCGAGGTCGGCCACCTTGCCAGCTAGTTCG 4 61 1 CGGCACTTCC 0.437879 -68 GGTATCTTTCCGGGGCCCCTGCTGGACCCCCTC 5 54 0 CGGGCCCTCT 0.863726 -185 ACCTGTTGTCTGGATCACTTTCCGTCCGACGGC 5 93 0 TGGTCCTTCC 0.732321 -146 CGTGAACACAGGGAGACTTTTCCCGCTTTTTTC 9 33 0 GGGGATTTCC 0.837887 -41 CGGCAGCGGGCCGTGCGCCTGCCGAGTCGTCGA 10 34 0 CCGGCCCTCC 0.965159 -161 CTGCATCGTCGCCGGCGCCAACCATCTGCGCCG 13 68 0 GCCGCCCACC 0.882787 -104 CTGCATCGTCGCCGGCGCCAACCATCTGCGCCG 13 121 0 GCCGCCCACC 0.882787 -51 GGCGTGGGCGGGGTGCGTTAGTCACGCAACAAC 14 136 0 GGGGCTTATC 0.230521 -99 CCGACCCAGCTGGTGATTTTCCCGGCAGCGGAA 15 51 0 TGGGATTTCC 0.326955 -233 CGGTCCCGCGGCGGTTCCCTTCGGGGATTTCCT 15 177 1 GCGTTCCTCG 0.683436 -107 GTTCCCTTCGGGGATTTCCTCCCGGGTCCGGCA 15 190 1 GGGTTCCTCC 0.917746 -94 AGCCGATGCCGGGCGAACAACCGACACATGAGT 15 250 1 GGGGACAACG 0.563133 -34 TACGTCGTCTGGGCGATCTTGCCCGAGCGTGCC 17 27 0 GGGGACTTCC 0.977762 -212 GGCGGCTGACGGGTGAGCCTACGTCGTCTGGGC 17 46 0 GGGGACCTCG 0.973944 -193 GCACTCCTGCGGGTTCGCTACCTAAGCAAGCAC 18 31 0 GGGTCCTACT 0.598982 -24 GAAGCGATGTGGGCGCACCTCCCGCTTGCGGGG 19 28 0 GGGGCCCTCC 0.988902 -70 ACAATGCAGTGGGGGTACCACCCGCTTGCAGGG 19 64 0 GGGGTCCACC 0.959087 -34 *** ** *** ** Masking position 12 Map Score: 12.9386 Number of sites scoring better than the average of aligned sites = 8091 Number in coding regions = 7391 Number in noncoding regions = 700 Number of orfs with sites within 600 bp upstream = 522 Fraction of orfs with sites within 600 bp upstream = 0.083842 Motif number 7 ACAGGCTGGTCGAAGCGGCTCTGGATCGATG 1 155 0 CGAAGCGGCC 0.925138 -146 TACCGGGTAAGGGATCGCCACTCCCA 1 285 1 GGGATCGCCC 0.961558 -16 GACACGCCGACGGAGCCCGCCCTGAGTGCAC 2 19 0 CGGAGCCCGC 0.85937 -63 GGGCCCCTGCTGGACCCCCTCTGACCGGCGA 5 44 0 TGGACCCCCC 0.579545 -195 GGTCCAGCAGGGGCCCCGGAAAGATACCAGG 5 59 1 GGGCCCCGGA 0.679407 -180 TTCCGTCCGACGGCGCCCCTGGTATCTTTCC 5 76 0 CGGCGCCCCG 0.75447 -163 CCAGACAACAGGTCGCGGGACGATCTCAAAA 5 113 1 GGTCGCGGGC 0.884312 -126 CCGCGGACTCGGCCAGAACAACCAC 6 5 1 GGACTCGGCA 0.532026 -71 CTCGGGCCTCGCGACCCGCGATGTC 7 16 0 GGCCTCGCGC 0.643316 -15 CGACATCGCGGGTATCCGCGCCGATAGTCTC 8 18 0 GGTATCCGCC 0.67134 -44 CCACCGCGGCGGCAGCGGGCCGTGCGCCTGC 10 45 0 GGCAGCGGGC 0.850491 -150 CAATAATCCCGAACGCGCCACACCGGCTAAA 10 90 1 GAACGCGCCC 0.444512 -105 GTCGCCGGCGCGAAGCAGCGCGTAGTCCCC 13 10 0 CGAAGCAGCC 0.55393 -162 AGCGATGAGGAGGAGCGGCGCAGATGGTTGG 13 53 1 AGGAGCGGCC 0.930553 -119 AGCGATGAGGAGGAGCGGCGCAGATGGTTGG 13 106 1 AGGAGCGGCC 0.930553 -66 AGCGATGAGGAGGAGCGGCGCAG 13 159 1 AGGAGCGGCC 0.930553 -13 GGTACCCAGGGGTACCGGCAGACATCTCCGC 14 16 0 GGTACCGGCG 0.550816 -219 GGCCTGGCCTCGGCCGGCCCCTCGTTGTTGC 14 113 1 CGGCCGGCCC 0.588272 -122 CGTGACTAACGCACCCCGCCCACGCCGGAGC 14 143 1 GCACCCCGCC 0.325698 -92 CCGCCCACGCCGGAGCGCGGCTATTGAGGCA 14 158 1 CGGAGCGCGC 0.930701 -77 TCGCCGCCGCCCGTTTTGTGGA 15 2 1 CGCCGCCGCC 0.809037 -282 GTAAACTACTCGGCGCAGCTCGCATCGGCGG 15 85 1 CGGCGCAGCC 0.90156 -199 GTCTGCACCGCGGCCCGCCTTTCCGGGATCC 15 129 1 CGGCCCGCCT 0.821663 -155 CCGCCTTTCCGGGATCCGCAACAGCATGCCG 15 143 1 GGGATCCGCA 0.6283 -141 GAACCGCCGCGGGACCGCCCCGGCATGCTGT 15 163 0 GGGACCGCCC 0.980878 -121 ATCCCCGAAGGGAACCGCCGCGGGACCGCCC 15 174 0 GGAACCGCCC 0.935843 -110 ATTTCCTCCCGGGTCCGGCATCGCGGCAGAC 15 203 1 GGGTCCGGCT 0.398594 -81 GCAGACGCCAGGGCCCGGCTTCAGCCGATGC 15 228 1 GGGCCCGGCT 0.912344 -56 GCGGCCTGCTGGGCGCGTGTCGTAGACCGTT 17 80 0 GGGCGCGTGC 0.814756 -159 GTGGTCGCCCGGGCTCGTCGAATATGAAATT 17 120 1 GGGCTCGTCA 0.317118 -119 GAAGCGATGTGGGCGCACCTCCCGCTTGCGG 19 30 0 GGGCGCACCC 0.937239 -68 GCAAGCGGGTGGTACCCCCACTGCATTGTCG 19 68 1 GGTACCCCCC 0.819338 -30 ********* * Masking position 6 Map Score: 37.0709 Number of sites scoring better than the average of aligned sites = 26110 Number in coding regions = 23923 Number in noncoding regions = 2187 Number of orfs with sites within 600 bp upstream = 1045 Fraction of orfs with sites within 600 bp upstream = 0.167845 Motif number 8 CGGGAAATTCGATGCCCAGACAGCTCGGCG 1 236 1 GATGCCCAGA 0.913051 -65 TCGGCGGCCTGGTGGCCAGGATCGTTACCG 1 260 1 GGTGGCCAGG 0.768735 -41 CACCGAACTAGCTGGCAAGGTGGCCGACCT 4 67 0 GCTGGCAAGG 0.385262 -62 GCCCCGGAAAGATACCAGGGGCGCCGTCGG 5 71 1 GATACCAGGG 0.878282 -168 TATCGGCGCGGATACCCGCGATGTCGTGGC 8 23 1 GATACCCGCG 0.856872 -39 GATGAGACTAGTTGCCTAGGTGCGTTGTGC 10 173 0 GTTGCCTAGG 0.594184 -22 GCCTGCGCTTGATGCTAAGATGCCATGC 11 9 0 GATGCTAAGA 0.300568 -49 CAATCGTCTTGATGCCTGCGCTTGATGCTA 11 22 0 GATGCCTGCG 0.89353 -36 GCAGATGGTTGGCGCCGGCGACGATGCAGA 13 72 1 GGCGCCGGCG 0.945942 -100 GCAGATGGTTGGCGCCGGCGACGATGCAGA 13 125 1 GGCGCCGGCG 0.945942 -47 GGTACCCAGGGGTACCGGCAGACATCTCCG 14 17 0 GGTACCGGCA 0.714584 -218 TTCTGAACCGGGTACCCAGGGGTACCGGCA 14 27 0 GGTACCCAGG 0.820349 -208 TTGCTCGAGCGATGCTCACACCTTGAGATA 14 76 1 GATGCTCACA 0.262831 -159 CCGTCCTGGTGGTGCCGGGATGGCACTGTC 14 201 1 GGTGCCGGGA 0.972357 -34 TGTGGATTCCGCTGCCGGGAAAATCACCAG 15 45 1 GCTGCCGGGA 0.925623 -239 TCCGCAACAGCATGCCGGGGCGGTCCCGCG 15 157 1 CATGCCGGGG 0.858328 -127 CATCGCGGCAGACGCCAGGGCCCGGCTTCA 15 221 1 GACGCCAGGG 0.948813 -63 GGCTTCAGCCGATGCCGGGCGAACAACCGA 15 244 1 GATGCCGGGC 0.905102 -40 GATCTGAGTGGTCGCCCGGGCTCGTCGAAT 17 113 1 GTCGCCCGGG 0.887629 -126 GATCTTGCAAGATGCCAGGAGGGTGTGGCC 17 219 1 GATGCCAGGA 0.942043 -20 ********** Masking position 1 Map Score: 20.7839 Number of sites scoring better than the average of aligned sites = 17072 Number in coding regions = 16101 Number in noncoding regions = 971 Number of orfs with sites within 600 bp upstream = 704 Fraction of orfs with sites within 600 bp upstream = 0.113074 Motif number 9 CGTTGGGGCAGTTTTGTACACTCCGTTTAC 1 60 1 GTTTTGTACA 0.765102 -241 GTTCTCGTCGAGTGTGCACCTACGGCGACG 2 49 0 AGTGTGCACC 0.819159 -33 CGAATATCATATTTTGCACCGTCGGCGGCG 4 108 0 ATTTTGCACC 0.924583 -21 TGTGAAGACGGTTTTGCGCGGTGTAACAGA 5 203 0 GTTTTGCGCG 0.854028 -36 TTCGTAATATGTTGTGTACAAATCGAACTG 6 44 0 GTTGTGTACA 0.837829 -32 CACAATAGTTTTGCACCCCGCCACGAC 8 45 0 GTTTTGCACC 0.984145 -17 GCCTAGGTGCGTTGTGCACCACGTTCTGGG 10 160 0 GTTGTGCACC 0.989611 -35 GAATAGTTCTGTTCTGAACCGGGTACCCAG 14 38 0 GTTCTGAACC 0.784384 -197 TCATGTGTCGGTTGTTCGCCCGGCATCGGC 15 251 0 GTTGTTCGCC 0.82554 -33 ********** Masking position 5 Map Score: 3.48005 Number of sites scoring better than the average of aligned sites = 1024 Number in coding regions = 971 Number in noncoding regions = 53 Number of orfs with sites within 600 bp upstream = 62 Fraction of orfs with sites within 600 bp upstream = 0.00995824 Motif number 10 ACGGGAAATTCGATGCCCAGACAGCTCGGC 1 235 1 CGATGCCCAG 0.939615 -66 GCATCGACAGCAATGCCGTGTCATAGATTC 5 12 1 CAATGCCGTG 0.983142 -227 TCGCGACCCGCGATGTCGTGCT 7 3 0 CGATGTCGTG 0.98531 -28 CGGATACCCGCGATGTCGTGGCGGGGTGCA 8 31 1 CGATGTCGTG 0.98531 -31 GCGCCGGCGACGATGCAGAGCGCAGCGATG 13 30 1 CGATGCAGAG 0.978312 -142 GCGCCGGCGACGATGCAGAGCGCAGCGATG 13 83 1 CGATGCAGAG 0.978312 -89 GCGCCGGCGACGATGCAGAGCGCAGCGATG 13 136 1 CGATGCAGAG 0.978312 -36 GCCGGGATGGCACTGTCGTGCGAGGAGTCA 14 214 1 CACTGTCGTG 0.857239 -21 GTTTTGTGGACAATGTCGTCGCTGTGGATT 15 23 1 CAATGTCGTC 0.672182 -261 CTGTGGATTCCGCTGCCGGGAAAATCACCA 15 44 1 CGCTGCCGGG 0.983329 -240 GCGTCTGCCGCGATGCCGGACCCGGGAGGA 15 206 0 CGATGCCGGA 0.932484 -78 CGGCTTCAGCCGATGCCGGGCGAACAACCG 15 243 1 CGATGCCGGG 0.994824 -41 CCACCGCCGACAATGCAGTGGGGGTACCAC 19 76 0 CAATGCAGTG 0.875147 -22 ********** Masking position 4 Map Score: 28.9878 Number of sites scoring better than the average of aligned sites = 2533 Number in coding regions = 2330 Number in noncoding regions = 203 Number of orfs with sites within 600 bp upstream = 165 Fraction of orfs with sites within 600 bp upstream = 0.0265018 Motif number 11 ********** No masking Map Score: -5.82402e-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 Motif number 12 ********** No masking Map Score: -5.82402e-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 Motif number 13 ********** No masking Map Score: -5.82402e-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