AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00940_mtub_reg_300.orf -o00940_mtub_300.ace -a/home/amcguire/alignace/lib/ORF_mtub.txt -z/skink1/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 Rv0138 62 hypothetical protein Rv0138 #2 lpqI 300 lpqI #3 argC 193 argC #4 argH 79 argH #5 pks10 108 pks10 #6 pks7 82 pks7 #7 pks11 146 pks11 #8 Rv1880c 49 hypothetical protein Rv1880c #9 lppE 40 lppE #10 Rv1882c 27 hypothetical protein Rv1882c #11 Rv1883c 38 hypothetical protein Rv1883c #12 fbpB 300 fbpB Motif number 1 TAGCCTGATCGGGAGGTCCGGAA 1 4 0 GGGAGGTCCG 0.774785 -59 TACACTCCATCGCCGGAGTGTAGCCTGATC 1 24 0 CGCCGGAGTG 0.795217 -39 GTAGCTAGCCCCGCGACCCG 2 1 0 CCGCGACCCG 0.957722 -300 ACCGCCACTCCCCGGGGGCGATCCGTCGTC 2 63 0 CCCGGGGGCG 0.937535 -238 TCTGTTGCTGGGCGCGGCCGCGATCTTCGG 2 123 0 GGCGCGGCCG 0.845204 -178 CGCGCCCGCCGCCGCAAGCGTGGTGGTTGG 2 153 0 GCCGCAAGCG 0.853248 -148 CGCTTGCGGCGGCGGGCGCGACGATCCGGT 2 163 1 GGCGGGCGCG 0.933107 -138 TCAAGCCGCACCCACAGCCGTCGAGGAGCC 2 201 0 CCCACAGCCG 0.947805 -100 GAGGCAACTTAGCAGAAGCGTGGGCCTGGC 2 238 1 AGCAGAAGCG 0.946459 -63 TGGCCCCCCAACCCGGAGCGTATGCGCCAC 2 264 1 ACCCGGAGCG 0.964636 -37 GCCGAGTCGAAGGGGGACCGCC 3 3 0 AGGGGGACCG 0.88077 -191 CCACTAGCTGCGCCGAGTCGAAGGGGGACC 3 14 0 CGCCGAGTCG 0.969988 -180 CGCCGGGCGGCGCCGATGGGACTCGAAGTT 3 117 0 CGCCGATGGG 0.630081 -77 ACTTGACACACCGCCGGGCGGCGCCGATGG 3 128 0 CCGCCGGGCG 0.52197 -66 GTCTGCTCGCGGGAGAACCG 4 1 0 GGGAGAACCG 0.944642 -79 CGCGAGCAGACGCAGAATCGCACCGCCACG 4 20 1 CGCAGAATCG 0.952122 -60 GAATCGCACGCCGACGGGCGTGGCGGTGCG 4 38 0 CCGACGGGCG 0.64163 -42 GGCGAGCAGACGCAGAATCGCACGCCGACG 4 52 0 CGCAGAATCG 0.952122 -28 TTCGGGCTCTAGGCGACCCGGTTGAACCAT 5 54 1 AGGCGACCCG 0.885889 -55 CGCACATCGAGGCCGAATGGTTCAACCGGG 5 70 0 GGCCGAATGG 0.617212 -39 ATCCGAATAGCGCAGTGGCGTTACGCTCGC 6 22 0 CGCAGTGGCG 0.845979 -61 GGCACGAGGTCCGCCGAGCGTAACGTCACT 6 63 0 CCGCCGAGCG 0.879805 -20 ATTTGAGCCTGCCAGGACGGATTTCG 7 7 0 GCCAGGACGG 0.789595 -140 AGGTGCAAATACGACAGGCGTTGAATAGCG 7 51 1 ACGACAGGCG 0.754968 -96 ACTCGATCGACGGAGGCGCG 8 40 1 CGGAGGCGCG 0.925552 -10 GAGCACAATGCTCAGGCCCGAATGGAGGTG 9 17 1 CTCAGGCCCG 0.805037 -24 AATCCGGAATAGCCGAACCGCCC 10 4 0 AGCCGAACCG 0.963747 -24 ACCGCACACGCCGCCAACCG 11 1 0 CCGCCAACCG 0.941476 -38 TCCCTGGGGGAGCACAGCCGGTAGCCCCGG 12 86 1 AGCACAGCCG 0.883357 -215 CAGCCGGTAGCCCCGGGCCGCGATTCTGAG 12 100 1 CCCCGGGCCG 0.948729 -201 TCGCGGATTTCTCAGAATCGCGGCCCGGGG 12 110 0 CTCAGAATCG 0.62091 -191 ACGACTTTGCGCCCGAATCGACATTTGGCC 12 220 1 GCCCGAATCG 0.9162 -81 ********** Masking position 10 Map Score: 46.3673 Number of sites scoring better than the average of aligned sites = 50274 Number in coding regions = 46398 Number in noncoding regions = 3876 Number of orfs with sites within 600 bp upstream = 1449 Fraction of orfs with sites within 600 bp upstream = 0.232734 Motif number 2 GTTACACTCCATCGCCGGAGTGTAGCCTGA 1 26 0 ATCGCCGGAG 0.557556 -37 CGGGTCGCGGGGCTAGCTACGG 2 3 1 GGTCGCGGGG 0.853681 -298 ACGACGGATCGCCCCCGGGGAGTGGCGGTT 2 64 1 GCCCCCGGGG 0.971359 -237 GTCTGTTGCTGGGCGCGGCCGCGATCTTCG 2 124 0 GGGCGCGGCC 0.646425 -177 CCACGCTTGCGGCGGCGGGCGCGACGATCC 2 160 1 GGCGGCGGGC 0.795239 -141 CCGGGTTGGGGGGCCAGGCCCACGCTTCTG 2 250 0 GGGCCAGGCC 0.874667 -51 GCTGCGCCGAGTCGAAGGGGGACCGCC 3 8 0 GTCGAAGGGG 0.511752 -186 AAACGCACGTTTTCGCGGACGCAACTTCGA 3 95 1 TTTCGCGGAC 0.725511 -99 ACCGCCGGGCGGCGCCGATGGGACTCGAAG 3 119 0 GGCGCCGATG 0.6956 -75 GACTTGACACACCGCCGGGCGGCGCCGATG 3 129 0 ACCGCCGGGC 0.937483 -65 CGGTGTGTCAAGTCCCGGCGCAGTCACCGC 3 145 1 AGTCCCGGCG 0.903991 -49 TGCAAACTCATTCCGCGGTGACTGCGCCGG 3 159 0 TTCCGCGGTG 0.805593 -35 CGGTTCTCCCGCGAGCAGACGCAGAA 4 7 1 TCCCGCGAGC 0.713643 -73 AGAATCGCACGCCGACGGGCGTGGCGGTGC 4 39 0 GCCGACGGGC 0.868232 -41 TTTTCTGTGGCGAGCAGACGCAGAA 4 65 0 TGTGGCGAGC 0.907817 -15 GCCGGCAAAGTTTCGAGGCCCCC 5 4 0 TTTCGAGGCC 0.772379 -105 GCCTCGAAACTTTGCCGGCCAGTTCCAGGC 5 15 1 TTTGCCGGCC 0.941836 -94 TTGCCGGCCAGTTCCAGGCGGGCTAAACTT 5 26 1 GTTCCAGGCG 0.790582 -83 TGCTGGATTCCGCGAGCGTAACGCCAC 6 8 1 TTCCGCGAGC 0.895048 -75 GGCACGAGGTCCGCCGAGCGTAACGTCAC 6 64 0 TCCGCCGAGC 0.904852 -19 GTAACTTAAGTGGGCAGGGGC 7 136 1 TGGGCAGGGG 0.801375 -11 TGTCCCGAGCACAATGCTCA 9 1 1 TGTCCCGAGC 0.929763 -40 CGGTTGGCGGCGTGTGCGGTCT 11 3 1 GTTGGCGGCG 0.938382 -36 CACAGCCGGTAGCCCCGGGCCGCGATTCTG 12 98 1 AGCCCCGGGC 0.972912 -203 CACTTGCTCTGTCCGCGGCGGTAACCGATA 12 180 1 GTCCGCGGCG 0.796798 -121 ACATACCGTGTGTGGAGGCCAAATGTCGAT 12 236 0 TGTGGAGGCC 0.840464 -65 CGGTATGTTCTGGCCCGAGCACACGACGAC 12 258 1 TGGCCCGAGC 0.898396 -43 ********** Masking position 7 Map Score: 35.6113 Number of sites scoring better than the average of aligned sites = 60032 Number in coding regions = 56253 Number in noncoding regions = 3779 Number of orfs with sites within 600 bp upstream = 1388 Fraction of orfs with sites within 600 bp upstream = 0.222936 Motif number 3 AGTGCGGTCTTCGCGCCGTTACACTC 1 47 0 GGCGCTTGCC 0.940564 -16 CACCATCAGGGTCACTCCGAAGATCGCGGCCGCGC 2 107 1 GCACCGAGAC 0.936375 -194 GCTTGCGGCGGCGGGCGCGACGATCCGGTTCATCG 2 164 1 GGGGCGAGAC 0.866845 -137 AGCCGTCGAGGAGCCACCGATGAACCGGATCGTCG 2 181 0 GGCCCGAGAC 0.989436 -120 TGAGAGGCTAGAGGCAACTTAGCAGAAGCGTGGGC 2 228 1 GGGCCTTGCG 0.82691 -73 CTTAGCAGAAGCGTGGGCCTGGCCCCCCAACCCGG 2 245 1 GGTGCCTGCC 0.616995 -56 CGGAGCGTATGCGCCACCGTGACAGCATGTCCGG 2 277 1 GGCCCGTACG 0.679329 -24 GGCGGTCCCCCTTCGACTCGGCGCAGCTAGT 3 7 1 CCCCCGATCG 0.791272 -187 CATGACATAAGACCCAACTAGGCTGAATTTCCCGT 3 53 0 GCCCCTAGCG 0.952326 -141 ACTCGAAGTTGCGTCCGCGAAAACGTGCGTTTTCC 3 92 0 GGTCCGAAAG 0.45769 -102 GCAACTTCGAGTCCCATCGGCGCCGCCCGGCGGTG 3 115 1 GCCCCGGGCG 0.938658 -79 GACGCAGAATCGCACCGCCACGCCCGTCGGCGTGC 4 28 1 CCACCCAGCC 0.827904 -52 CCACGCCCGTCGGCGTGCGATTCTGCGTCTGCTCG 4 45 1 CGCGCGATCG 0.7423 -35 AACTTTGCCGGCCAGTTCCAGGCGGGCTAAACTTC 5 22 1 GCAGCCAGCG 0.782055 -87 CGGGCTCTAGGCGACCCGGTTGAACCATTCGGCCT 5 56 1 GGACGGTGAC 0.583124 -53 CCCTTTGACACGCACATCGAGGCCGAATGGTTCAA 5 75 0 CCACCGAGCG 0.932263 -34 TGCTGGATTCCGCGAGCGTAACGCCACTGCGCTA 6 10 1 CGCGCGTACC 0.730525 -73 AGCATAATTTGAGCCTGCCAGGACGGATTTCG 7 8 0 GGCCCCAGAG 0.924579 -139 AAGTTACTTGCCACCCTCGAAGCCCAAAGTTTAAG 7 108 0 CACCCGAGCC 0.870554 -39 CGCGCCTCCGTCGATCGAGTGGCTTT 8 34 0 GGCCCGTGAC 0.874575 -16 TTGGCGGCGTGTGCGGTCTATGACCAGGTCGACGT 11 14 1 GGCGCTAGAC 0.920001 -25 CGCTCGAAGCAAGCCGACGAAGACCACGCTATCCC 12 23 0 AGCCCGAGAC 0.842207 -278 CGGCTGTGCTCCCCCAGGGAGGCCGAACTTGCGTT 12 71 0 CCCCGGAGCG 0.729975 -230 TACCGTTTGTGAGCCCCCTAAGCACACTTGCTCTG 12 156 1 GGCCCTAGCC 0.95309 -145 ATACGGAAATGAGACGACTTTGCGCCCGAATCGAC 12 207 1 GGACCTTGCC 0.914492 -94 * *** *** ** * Masking position 8 Map Score: 31.1478 Number of sites scoring better than the average of aligned sites = 40172 Number in coding regions = 37833 Number in noncoding regions = 2339 Number of orfs with sites within 600 bp upstream = 1153 Fraction of orfs with sites within 600 bp upstream = 0.185191 Motif number 4 GCCACTCCCCGGGGGCGATCCGTCGTCATC 2 60 0 GGGGGCGATC 0.854828 -241 TCCGAAGATCGCGGCCGCGCCCAGCAACAG 2 122 1 GCGGCCGCGC 0.824469 -179 CGTCGCGCCCGCCGCCGCAAGCGTGGTGGT 2 156 0 GCCGCCGCAA 0.692643 -145 CGTGGGCCTGGCCCCCCAACCCGGAGCGTA 2 256 1 GCCCCCCAAC 0.79018 -45 TATGTCATGTGAGGGAAAACGCACGTTTTC 3 79 1 GAGGGAAAAC 0.59185 -115 ACCGCCGGGCGGCGCCGATGGGACTCGAAG 3 119 0 GGCGCCGATG 0.847701 -75 GCGTCTGCTCGCGGGAGAACCG 4 3 0 GCGGGAGAAC 0.945722 -77 CCCGCGAGCAGACGCAGAATCGCACCGCCA 4 18 1 GACGCAGAAT 0.884277 -62 GTGGCGAGCAGACGCAGAATCGCACGCCGA 4 54 0 GACGCAGAAT 0.884277 -26 CCTGGAACTGGCCGGCAAAGTTTCGAGGCC 5 14 0 GCCGGCAAAG 0.70296 -95 GGGTCGCCTAGAGCCCGAAGTTTAGCCCGC 5 43 0 GAGCCCGAAG 0.949805 -66 CACGCACATCGAGGCCGAATGGTTCAACCG 5 72 0 GAGGCCGAAT 0.976342 -37 CACAATGCTCAGGCCCGAATGGAGGTGGCT 9 20 1 AGGCCCGAAT 0.449059 -21 CTCGAAGCAAGCCGACGAAGACCACGCTAT 12 26 0 GCCGACGAAG 0.73271 -275 CTCCCCCAGGGAGGCCGAACTTGCGTTCAC 12 68 0 GAGGCCGAAC 0.988686 -233 CGGCCTCCCTGGGGGAGCACAGCCGGTAGC 12 81 1 GGGGGAGCAC 0.818514 -220 AGACGACTTTGCGCCCGAATCGACATTTGG 12 218 1 GCGCCCGAAT 0.957677 -83 ACCGTGTGTGGAGGCCAAATGTCGATTCGG 12 232 0 GAGGCCAAAT 0.846429 -69 TCGTGTGCTCGGGCCAGAACATACCGTGTG 12 254 0 GGGCCAGAAC 0.933392 -47 ACAGGACAAAGGGGCACAAGT 12 290 1 GGGGCACAAG 0.789346 -11 ********** Masking position 1 Map Score: 19.8941 Number of sites scoring better than the average of aligned sites = 18630 Number in coding regions = 17394 Number in noncoding regions = 1236 Number of orfs with sites within 600 bp upstream = 818 Fraction of orfs with sites within 600 bp upstream = 0.131385 Motif number 5 TTCCGGACCTCCCGATCAGGCTACACTCCG 1 11 1 CCCGATCAGG 0.804697 -52 GGTTACCGTACTCGACCCGGTTGAGCACTG 2 31 1 CTCGACCCGG 0.956073 -270 CTCCGAAGATCGCGGCCGCGCCCAGCAACA 2 121 1 CGCGGCCGCG 0.494791 -180 GGCCTGGCCCCCCAACCCGGAGCGTATGCG 2 260 1 CCCAACCCGG 0.925078 -41 TGACATAAGACCCAACTAGGCTGAATTTCC 3 56 0 CCCAACTAGG 0.627881 -138 TTTTCGCGGACGCAACTTCGAGTCCCATCG 3 104 1 CGCAACTTCG 0.908368 -90 GTCCCATCGGCGCCGCCCGGCGGTGTGTCA 3 125 1 CGCCGCCCGG 0.976474 -69 TCGGGCTCTAGGCGACCCGGTTGAACCATT 5 55 1 GGCGACCCGG 0.954231 -54 GTTACGCTCGCGGAATCCAGCA 6 3 0 CGGAATCCAG 0.430596 -80 AACGCCACTGCGCTATTCGGATCGCAATCT 6 30 1 CGCTATTCGG 0.910646 -53 CTATTCGGATCGCAATCTCGCAGTGACGTT 6 42 1 CGCAATCTCG 0.908597 -41 AGCCACATTACGCGATCTCGCAAAAACATC 7 80 0 CGCGATCTCG 0.845721 -67 CGCGCCTCCGTCGATCGAGT 8 40 0 CGCGCCTCCG 0.844759 -10 CAGCCACCTCCATTCGGGCCTGAGCAT 9 24 0 CTCCATTCGG 0.741681 -17 GCGGAATCCGGAATAGCCGAA 10 17 0 CGGAATCCGG 0.596999 -11 ACGAAGACCACGCTATCCCGGTCTGTTCCG 12 12 0 CGCTATCCCG 0.867392 -289 ACGCGGTGAACGCAAGTTCGGCCTCCCTGG 12 63 1 CGCAAGTTCG 0.59261 -238 TTCTCAGAATCGCGGCCCGGGGCTACCGGC 12 102 0 CGCGGCCCGG 0.825356 -199 AGATCCATACCGCCATACCGTTTGTGAGCC 12 141 1 CGCCATACCG 0.822747 -160 ********** Masking position 10 Map Score: 21.971 Number of sites scoring better than the average of aligned sites = 14380 Number in coding regions = 13351 Number in noncoding regions = 1029 Number of orfs with sites within 600 bp upstream = 720 Fraction of orfs with sites within 600 bp upstream = 0.115644 Motif number 6 TGTAACGGCGCGAAGACCGCACT 1 50 1 CGAAGACCGC 0.993549 -13 GGGCTAGCTACGGTTACCGTACTCGACCCG 2 20 1 CGGTTACCGT 0.914418 -281 AGGGTCACTCCGAAGATCGCGGCCGCGCCC 2 114 1 CGAAGATCGC 0.917013 -187 CCGAGTCGAAGGGGGACCGCC 3 2 0 GGGGGACCGC 0.891915 -192 AGTTTGCAAACTCATTCCGCGGTGACTGCG 3 163 0 CTCATTCCGC 0.770456 -31 CATTCGGCCTCGATGTGCGTGTCAAAGGGG 5 81 1 CGATGTGCGT 0.738186 -28 TGCTGGATTCCGCGAGCGTAACG 6 4 1 TGGATTCCGC 0.843262 -79 GATTGCGATCCGAATAGCGCAGTGGCGTTA 6 29 0 CGAATAGCGC 0.934351 -54 GGCACGAGGTCCGCCGAGCGTAAC 6 69 0 CGAGGTCCGC 0.983123 -14 CGAAATCCGTCCTGGCAGGC 7 1 1 CGAAATCCGT 0.6885 -146 TCGGCTATTCCGGATTCCGC 10 18 1 CGGATTCCGC 0.988812 -10 AGCAAGCCGACGAAGACCACGCTATCCCGG 12 21 0 CGAAGACCAC 0.897055 -280 CGAGCCTACGCGGTGAACGCAAGTTCGGCC 12 56 1 CGGTGAACGC 0.907023 -245 AGCACACTTGCTCTGTCCGCGGCGGTAACC 12 176 1 CTCTGTCCGC 0.819557 -125 ATTTCCGTATCGGTTACCGCCGCGGACAGA 12 187 0 CGGTTACCGC 0.984662 -114 ********** Masking position 8 Map Score: 17.9938 Number of sites scoring better than the average of aligned sites = 9977 Number in coding regions = 9317 Number in noncoding regions = 660 Number of orfs with sites within 600 bp upstream = 487 Fraction of orfs with sites within 600 bp upstream = 0.0782204 Motif number 7 GCGGCCGCGATCTTCGGAGTGACCCTGATG 2 110 0 TCTTCGGAGT 0.285749 -191 CACCACGCTTGCGGCGGCGGGCGCGACGAT 2 158 1 GCGGCGGCGG 0.922447 -143 GACGGCTGTGGGTGCGGCTTGAGAGGCTAG 2 209 1 GGTGCGGCTT 0.879507 -92 CCAGGCCCACGCTTCTGCTAAGTTGCCTCT 2 237 0 GCTTCTGCTA 0.910966 -64 ATGTCCACTAGCTGCGCCGAGTCGAAGGGG 3 18 0 GCTGCGCCGA 0.968097 -176 ACTCGAAGTTGCGTCCGCGAAAACGTGCGT 3 97 0 GCGTCCGCGA 0.955933 -97 ACACCGCCGGGCGGCGCCGATGGGACTCGA 3 121 0 GCGGCGCCGA 0.917463 -73 GTGGCGGTGCGATTCTGCGTCTGCTCGCGG 4 19 0 GATTCTGCGT 0.886333 -61 GTCGGCGTGCGATTCTGCGTCTGCTCGCCA 4 53 1 GATTCTGCGT 0.886333 -27 TGGTTCAACCGGGTCGCCTAGAGCCCGAAG 5 53 0 GGGTCGCCTA 0.854096 -56 TGCTGGATTCCGCGAGCGTAACGCC 6 6 1 GATTCCGCGA 0.933173 -77 GGCACGAGGTCCGCCGAGCGTAACGTC 6 66 0 GGTCCGCCGA 0.876359 -17 GGGCGGTTCGGCTATTCCGGATTC 10 5 1 GGTTCGGCTA 0.955501 -23 CCCGGGCCGCGATTCTGAGAAATCCGCGAT 12 111 1 GATTCTGAGA 0.661739 -190 ********** Masking position 5 Map Score: 11.5705 Number of sites scoring better than the average of aligned sites = 18399 Number in coding regions = 17248 Number in noncoding regions = 1151 Number of orfs with sites within 600 bp upstream = 706 Fraction of orfs with sites within 600 bp upstream = 0.113395 Motif number 8 GTAGCCTGATCGGGAGGTCCGGAA 1 5 0 CGGGAGGTCC 0.983794 -58 AGTGTAACGGCGCGAAGACCGCACT 1 48 1 CGCGAAGACC 0.809936 -15 CCACTCCCCGGGGGCGATCCGTCGTCATCA 2 59 0 GGGGCGATCC 0.942762 -242 ACATGTGTCACGGGAAATTCAGCCTAGTTG 3 44 1 CGGGAAATTC 0.899524 -150 CGTCTGCTCGCGGGAGAACCG 4 2 0 CGGGAGAACC 0.986229 -78 CGCCCGTCGGCGTGCGATTCTGCGTCTGCT 4 48 1 CGTGCGATTC 0.756651 -32 CTAGGCGACCCGGTTGAACCATTCGGCCTC 5 62 1 CGGTTGAACC 0.696036 -47 GCGTTACGCTCGCGGAATCCAGCA 6 5 0 CGCGGAATCC 0.882972 -78 CGGCTTGCTTCGAGCGAGCCTACGCGGTGA 12 42 1 CGAGCGAGCC 0.93067 -259 GCCGCGATTCTGAGAAATCCGCGATAGATC 12 116 1 TGAGAAATCC 0.664938 -185 GAGAAATCCGCGATAGATCCATACCGCCAT 12 127 1 CGATAGATCC 0.904575 -174 ********** Masking position 10 Map Score: 4.89488 Number of sites scoring better than the average of aligned sites = 3406 Number in coding regions = 3063 Number in noncoding regions = 343 Number of orfs with sites within 600 bp upstream = 315 Fraction of orfs with sites within 600 bp upstream = 0.0505943 Motif number 9 CGGATCGTCGCGCCCGCCGCCGCAAGCGTG 2 161 0 CGCCCGCCGC 0.972288 -140 CTGGCCCCCCAACCCGGAGCGTATGCGCCA 2 263 1 AACCCGGAGC 0.915243 -38 GGTCGCCTAGAGCCCGAAGTTTAGCCCGCC 5 42 0 AGCCCGAAGT 0.981155 -67 CCACCCTCGAAGCCCAAAGTTTAAGCCACA 7 103 0 AGCCCAAAGT 0.871086 -44 CGCGTAGGCTCGCTCGAAGCAAGCCGACGA 12 38 0 CGCTCGAAGC 0.975811 -263 GGGGGAGCACAGCCGGTAGCCCCGGGCCGC 12 91 1 AGCCGGTAGC 0.902911 -210 CGTTTGTGAGCCCCCTAAGCACACTTGCTC 12 159 1 CCCCCTAAGC 0.900085 -142 GACGACTTTGCGCCCGAATCGACATTTGGC 12 219 1 CGCCCGAATC 0.975811 -82 ********** Masking position 3 Map Score: 3.03268 Number of sites scoring better than the average of aligned sites = 3411 Number in coding regions = 3170 Number in noncoding regions = 241 Number of orfs with sites within 600 bp upstream = 210 Fraction of orfs with sites within 600 bp upstream = 0.0337295 Motif number 10 CGGGTCGCGGGGCTAGCTAC 2 1 1 CGGGTCGCGG 0.956502 -300 TCGCCCCCGGGGAGTGGCGGTTTCTTGTCC 2 72 1 GGAGTGGCGG 0.990905 -229 GGTCACTCCGAAGATCGCGGCCGCGCCCAG 2 116 1 AAGATCGCGG 0.788505 -185 CACCACGCTTGCGGCGGCGGGCGCGACGAT 2 158 1 GCGGCGGCGG 0.880127 -143 CATACGCTCCGGGTTGGGGGGCCAGGCCCA 2 258 0 GGGTTGGGGG 0.78935 -43 GATGGGACTCGAAGTTGCGTCCGCGAAAAC 3 103 0 GAAGTTGCGT 0.767615 -91 CACGCCGACGGGCGTGGCGGTGCGATTCTG 4 32 0 GGCGTGGCGG 0.971035 -48 TCCGAATAGCGCAGTGGCGTTACGCTCGCG 6 21 0 GCAGTGGCGT 0.883059 -62 ACGTCACTGCGAGATTGCGATCCGAATAGC 6 41 0 GAGATTGCGA 0.546828 -42 ATGTTTTTGCGAGATCGCGTAATGTGGCTT 7 81 1 GAGATCGCGT 0.909926 -66 GGCCCGAATGGAGGTGGCTG 9 31 1 GAGGTGGCTG 0.852047 -10 GCGGAATCCGGAATAGCCGAACCGCCC 10 9 0 GGAATAGCCG 0.479017 -19 CGGTTGGCGGCGTGTGCGGT 11 1 1 CGGTTGGCGG 0.894316 -38 GGAACAGACCGGGATAGCGTGGTCTTCGTC 12 13 1 GGGATAGCGT 0.890243 -288 CAGGGAGGCCGAACTTGCGTTCACCGCGTA 12 62 0 GAACTTGCGT 0.353465 -239 CGGATTTCTCAGAATCGCGGCCCGGGGCTA 12 107 0 AGAATCGCGG 0.788506 -194 GCTCACAAACGGTATGGCGGTATGGATCTA 12 140 0 GGTATGGCGG 0.933752 -161 ********** Masking position 7 Map Score: 11.0406 Number of sites scoring better than the average of aligned sites = 14632 Number in coding regions = 13720 Number in noncoding regions = 912 Number of orfs with sites within 600 bp upstream = 637 Fraction of orfs with sites within 600 bp upstream = 0.102313 Motif number 11 ********** No masking Map Score: -2.79e-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: -2.79e-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: -2.79e-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