AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i150_ATP_synthase_1_mtub_reg_300.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 argS 300 argS #2 thrB 217 thrB #3 rho 256 rho #4 rpmE 150 rpmE #5 prfA 89 prfA #6 rfe 83 rfe #7 Rv1303 256 hypothetical protein Rv1303 #8 atpE 48 atpE #9 atpF 30 atpF #10 atpA 44 atpA #11 atpD 39 atpD Motif number 1 GCCAACTATGCGGCCGCCCTCGCGGGTGGC 1 49 1 CGGCCGCCCT 0.960409 -252 AATGTGATCGGCGCCACCCGCGAGGGCGGC 1 61 0 GCGCCACCCG 0.968209 -240 CGAATCCTGCCGGGGGCACAAGGGTTGATC 1 113 0 CGGGGGCACA 0.631009 -188 CTGAGCTACGGGGGCGCACGACGACACGTT 1 183 1 GGGGCGCACG 0.64148 -118 CGCTACTCTGGCGGGGCCCCATGGCGCAAC 1 210 0 GCGGGGCCCC 0.941903 -91 GCACCCGGCTCCGCCGCGCTTGCGATCGCC 2 12 0 CCGCCGCGCT 0.996459 -206 CCGTGCCGACCCGCCGCACCCGGCTCCGCC 2 27 0 CCGCCGCACC 0.998915 -191 GCGCTTGCGATCGCCACCCAATCCAAACCG 2 54 0 TCGCCACCCA 0.922824 -164 GCACCCGGCTCCGCCGCGCTTGCGATCGCC 2 69 0 CCGCCGCGCT 0.996459 -149 CCGTGCCGACCCGCCGCACCCGGCTCCGCC 2 84 0 CCGCCGCACC 0.998915 -134 GCGCTTGCGATCGCCACCCAATCCAAACCG 2 111 0 TCGCCACCCA 0.922824 -107 GCACCCGGCTCCGCCGCGCTTGCGATCGCC 2 126 0 CCGCCGCGCT 0.996459 -92 CCGTGCCGACCCGCCGCACCCGGCTCCGCC 2 141 0 CCGCCGCACC 0.998915 -77 GCGCTTGCGATCGCCACCCAATCCAAACCG 2 168 0 TCGCCACCCA 0.922824 -50 GCACCCGGCTCCGCCGCGCTTGCGATCGCC 2 183 0 CCGCCGCGCT 0.996459 -35 GCGTGCCGACCCGCCGCACCCGGCTCCGCC 2 198 0 CCGCCGCACC 0.998915 -20 AGCGGCGAATACGGCGAACCTCGTCCACAA 3 132 0 ACGGCGAACC 0.792913 -125 TCCGGCGAGACGGCTCGCCGG 4 2 1 CCGGCGAGAC 0.753639 -149 GCGGACATTCCCGGCGAGCCGTCTCGCCGG 4 12 0 CCGGCGAGCC 0.991267 -139 GACCAGGTTCTCGGCACGCCACGACGGGCG 4 109 1 TCGGCACGCC 0.957471 -42 CTGTGATCGGTGGCCGCCCGTCGTGGCGTG 4 123 0 TGGCCGCCCG 0.840456 -28 CTGGCTTACCGACGCCCGAACTGTGCAC 5 9 1 CCGACGCCCG 0.980707 -81 CTAACGCGAACCGACGCCCGTCCTGTACCG 5 42 0 CCGACGCCCG 0.980707 -48 CTTCCCGCGAGCGCGGACCCTAACGCGAAC 5 61 0 GCGCGGACCC 0.895333 -29 CCGCCGAACGTGCACGCACT 6 1 1 CCGCCGAACG 0.991545 -83 AGCTGAACACTCGCCGAACGTGCAACAGCT 6 55 0 TCGCCGAACG 0.97046 -29 TTCGGGGTTCTAGCCGCACCGTACCACAAG 7 54 0 TAGCCGCACC 0.892018 -203 GGGCCGGGGGCCGGCAACCCGCGAGGTCTC 7 85 0 CCGGCAACCC 0.95544 -172 GATGCGTATCCGGTCGCGCCGATTCACGAC 7 119 1 CGGTCGCGCC 0.927953 -138 CGTATCGCAGTCGTCGCACCGGAATCACCC 7 170 0 TCGTCGCACC 0.950257 -87 GATCGGTGGCCCGCCGAGCGTATCGCAGTC 7 188 0 CCGCCGAGCG 0.993608 -69 ********** Masking position 3 Map Score: 84.6708 Number of sites scoring better than the average of aligned sites = 17525 Number in coding regions = 16251 Number in noncoding regions = 1274 Number of orfs with sites within 600 bp upstream = 796 Fraction of orfs with sites within 600 bp upstream = 0.127851 Motif number 2 TCGGCGCCACCCGCGAGGGCGGCCGCATAGTTGG 1 50 0 CCGCGAGGCC 0.981822 -251 CCGGCAGGATTCGAACCTGCGGCCTTCTGCTCCG 1 130 1 TCGAACCGCC 0.641056 -171 AGCTACGGGGGCGCACGACGACACGTTGCGCCAT 1 186 1 GCGCACGCGC 0.963427 -115 ACGACACGTTGCGCCATGGGGCCCCGCCAGAGTA 1 203 1 GCGCCATGGC 0.813682 -98 CAGTGGGTAGCCGCGATGCGCTACTCTGGCGGGG 1 224 0 CCGCGATCGC 0.914067 -77 CCCGGCTCCGCCGCGCTTGCGATCGCCA 2 5 0 CCGCGCTGCC 0.99588 -213 TGCCGACCCGCCGCACCCGGCTCCGCCGCGCTTG 2 20 0 CCGCACCGGC 0.995037 -198 CCCGGCTCCGCCGCGCTTGCGATCGCCACCCAAT 2 62 0 CCGCGCTGCC 0.99588 -156 TGCCGACCCGCCGCACCCGGCTCCGCCGCGCTTG 2 77 0 CCGCACCGGC 0.995037 -141 CCCGGCTCCGCCGCGCTTGCGATCGCCACCCAAT 2 119 0 CCGCGCTGCC 0.99588 -99 TGCCGACCCGCCGCACCCGGCTCCGCCGCGCTTG 2 134 0 CCGCACCGGC 0.995037 -84 CCCGGCTCCGCCGCGCTTGCGATCGCCACCCAAT 2 176 0 CCGCGCTGCC 0.99588 -42 TGCCGACCCGCCGCACCCGGCTCCGCCGCGCTTG 2 191 0 CCGCACCGGC 0.995037 -27 GCAAGCAAACCCCCGCAACCTTGCGGA 3 4 0 CCCCGCACCC 0.678547 -253 TCCGAGGATAGCCCGCTTCCTGGCCGGAAGCAAG 3 33 0 GCCCGCTCCC 0.871859 -224 TCGATGATTGGCGCACTCGGCGATTTGGCTGACT 3 184 1 GCGCACTGGT 0.616526 -73 GACATTCCCGGCGAGCCGTCTCGCCGGA 4 5 0 GCGAGCCTCC 0.484308 -146 TGATCGGTGGCCGCCCGTCGTGGCGTGCCGAGAA 4 116 0 CCGCCCGCGC 0.977447 -35 TTACCGACGCCCGAACTGTGCACCAGCGGTACAG 5 16 1 CCGAACTTGC 0.842619 -74 AACCTTCTTCCCGCGAGCGCGGACCCTAACGCGA 5 63 0 CCGCGAGGCC 0.981801 -27 CCGCCGAACGTGCACGCACTGCGAAGA 6 4 1 CCGAACGGCC 0.981197 -80 TGAACACTCGCCGAACGTGCAACAGCTGCGAACA 6 48 0 CCGAACGGCA 0.589769 -36 GGGGTTCTAGCCGCACCGTACCACAAGGTAGACA 7 47 0 CCGCACCTAC 0.646474 -210 GGGGCCGGCAACCCGCGAGGTCTCCTTCGGGGTT 7 75 0 ACCCGCGGGC 0.75458 -182 CGGGTTGCCGGCCCCCGGCCCATCGGATGCGTAT 7 94 1 GCCCCCGCCC 0.815109 -163 TCGTGAATCGGCGCGACCGGATACGCATCCGATG 7 114 0 GCGCGACGGC 0.946742 -143 CGATTCACGACCGACATAGGGAGCTACCCCTTGG 7 138 1 CCGACATGGC 0.764165 -119 CGCTCGGCGGGCCACCGATCAGTCGATCGGGTGG 7 198 1 GCCACCGTCC 0.33729 -59 CGGGTGGTTTCCGCTCCATCAGCCCGGAATTGAG 7 225 1 CCGCTCCTCC 0.772985 -32 ACCCGAACTAGTCAGCACAAACCGAA 10 3 1 CCGAACTGTC 0.6527 -42 GCTAGGTTAGCCCCACGAGGAAGCGAAGAAGAT 11 17 1 CCCCACGGGC 0.982023 -23 ******* ** * Masking position 2 Map Score: 67.9155 Number of sites scoring better than the average of aligned sites = 19763 Number in coding regions = 18337 Number in noncoding regions = 1426 Number of orfs with sites within 600 bp upstream = 856 Fraction of orfs with sites within 600 bp upstream = 0.137488 Motif number 3 CGCCACCCGCGAGGGCGGCCGCATAGTTGGCT 1 48 0 GAGGCGCCGC 0.855362 -253 CAATGTGATCGGCGCCACCCGCGAGGGCGGCC 1 60 0 GGGCCCCCGC 0.887155 -241 CGGAGCAGAAGGCCGCAGGTTCGAATCCTGCC 1 132 0 GGCGCGGTTC 0.970295 -169 CTTCTGCTCCGGAGGCAGACGCTCTATCCCCT 1 153 1 GGGGCGACGC 0.983582 -148 CTCTGGCGGGGCCCCATGGCGCAACGTGTCGT 1 203 0 GCCCAGGCGC 0.795261 -98 TGGCGATCGCAAGCGCGGCGGAGCCG 2 5 1 GACGCAGCGC 0.991911 -213 CAAGCGCGGCGGAGCCGGGTGCGGCGGGTCGG 2 20 1 GGGCCGGTGC 0.691506 -198 ATTGGGTGGCGATCGCAAGCGCGGCGGAGCCG 2 62 1 GACGCAGCGC 0.991911 -156 CAAGCGCGGCGGAGCCGGGTGCGGCGGGTCGG 2 77 1 GGGCCGGTGC 0.691506 -141 ATTGGGTGGCGATCGCAAGCGCGGCGGAGCCG 2 119 1 GACGCAGCGC 0.991911 -99 CAAGCGCGGCGGAGCCGGGTGCGGCGGGTCGG 2 134 1 GGGCCGGTGC 0.691506 -84 ATTGGGTGGCGATCGCAAGCGCGGCGGAGCCG 2 176 1 GACGCAGCGC 0.991911 -42 CAAGCGCGGCGGAGCCGGGTGCGGCGGGTCGG 2 191 1 GGGCCGGTGC 0.691506 -27 GCCCGTCCTGTACCGCTGGTGCACAGTTCGGG 5 25 0 TACGCGGTGC 0.925754 -65 GGTACAGGACGGGCGTCGGTTCGCGTTAGGGT 5 43 1 GGCGTGGTTC 0.618049 -47 CCGCGAGCGCGGACCCTAACGCGAACCGACGC 5 55 0 GGCCCAACGC 0.962881 -35 TCAACCTTCTTCCCGCGAGCGCGGACCCTAAC 5 67 0 TCCGCAGCGC 0.859013 -23 GCGGGTTGCCGGCCCCCGGCCCATCGGATGCG 7 93 1 GGCCCGGCCC 0.972048 -164 ** *** ***** Masking position 12 Map Score: 41.559 Number of sites scoring better than the average of aligned sites = 10479 Number in coding regions = 9788 Number in noncoding regions = 691 Number of orfs with sites within 600 bp upstream = 493 Fraction of orfs with sites within 600 bp upstream = 0.0791841 Motif number 4 GACCCGCCGCACCCGGCTCCGCCGCGCTTG 2 20 0 ACCCGGCTCC 0.993878 -198 GGGTGCGGCGGGTCGGCACGGTTTGGATTG 2 36 1 GGTCGGCACG 0.990753 -182 GACCCGCCGCACCCGGCTCCGCCGCGCTTG 2 77 0 ACCCGGCTCC 0.993878 -141 GGGTGCGGCGGGTCGGCACGGTTTGGATTG 2 93 1 GGTCGGCACG 0.990753 -125 GACCCGCCGCACCCGGCTCCGCCGCGCTTG 2 134 0 ACCCGGCTCC 0.993878 -84 GGGTGCGGCGGGTCGGCACGGTTTGGATTG 2 150 1 GGTCGGCACG 0.990753 -68 GACCCGCCGCACCCGGCTCCGCCGCGCTTG 2 191 0 ACCCGGCTCC 0.993878 -27 GGGTGCGGCGGGTCGGCACGC 2 207 1 GGTCGGCACG 0.990753 -11 TCCGAGGATAGCCCGCTTCCTGGCCGGAAG 3 37 0 GCCCGCTTCC 0.85238 -220 TGCGATTGCTGGACGGCTCCGAGGATAGCC 3 54 0 GGACGGCTCC 0.974608 -203 ATTCCCGGCGAGCCGTCTCGCCGGA 4 6 0 AGCCGTCTCG 0.935932 -145 CGAGAACCTGGTCCGGTTCCAACTCGTTGA 4 92 0 GTCCGGTTCC 0.88491 -59 CGGACCAGGTTCTCGGCACGCCACGACGGG 4 107 1 TCTCGGCACG 0.935464 -44 ACAGGACGGGCGTCGGTTCGCGTTAGGGTC 5 46 1 CGTCGGTTCG 0.81477 -44 TTGTCGTAGTTCTCGGCTCCGGG 7 4 0 TCTCGGCTCC 0.966638 -253 ATGGGCCGGGGGCCGGCAACCCGCGAGGTC 7 87 0 GGCCGGCAAC 0.939214 -170 TGGCTCTGGTAGCCGTTACCAGCATCCGGT 8 12 0 AGCCGTTACC 0.746185 -37 ********** Masking position 5 Map Score: 38.8185 Number of sites scoring better than the average of aligned sites = 8415 Number in coding regions = 7867 Number in noncoding regions = 548 Number of orfs with sites within 600 bp upstream = 421 Fraction of orfs with sites within 600 bp upstream = 0.0676197 Motif number 5 ACCACCGCAACGGATTCGAAGCCCAACCAC 1 258 1 CGGATTCGAA 0.821474 -43 GGCTCCGCCGCGCTTGCGATCGCCA 2 6 0 CGCTTGCGAT 0.996045 -212 CGGGTCGGCACGGTTTGGATTGGGTGGCGA 2 44 1 CGGTTTGGAT 0.978684 -174 GGCTCCGCCGCGCTTGCGATCGCCACCCAA 2 63 0 CGCTTGCGAT 0.996045 -155 CGGGTCGGCACGGTTTGGATTGGGTGGCGA 2 101 1 CGGTTTGGAT 0.978684 -117 GGCTCCGCCGCGCTTGCGATCGCCACCCAA 2 120 0 CGCTTGCGAT 0.996045 -98 CGGGTCGGCACGGTTTGGATTGGGTGGCGA 2 158 1 CGGTTTGGAT 0.978684 -60 GGCTCCGCCGCGCTTGCGATCGCCACCCAA 2 177 0 CGCTTGCGAT 0.996045 -41 CGACCGGATACGCATCCGATGGGCCGGGGG 7 105 0 CGCATCCGAT 0.948045 -152 TCCGGTGCGACGACTGCGATACGCTCGGCG 7 177 1 CGACTGCGAT 0.91188 -80 ********** Masking position 5 Map Score: 22.4847 Number of sites scoring better than the average of aligned sites = 241 Number in coding regions = 193 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 6 AACTATGCGGCCGCCCTCGCGGGTGGCGCCGA 1 52 1 CCGCCCCGCG 0.972895 -249 GATAGAGCGTCTGCCTCCGGAGCAGAAGGCCG 1 149 0 CTGCCTCGGG 0.763247 -152 GGCAGACGCTCTATCCCCTGAGCTACGGGGGC 1 166 1 CTATCCCTGG 0.932326 -135 CGCATCGCGGCTACCCACTGACCACCGCAACG 1 238 1 CTACCCCTGC 0.834365 -63 ATTCGAAGCCCAACCACCTCAGCCCATAGGAT 1 271 1 CAACCACTCG 0.737013 -30 GAACGTCCATCCTATGGGCTGAGGTGGT 1 283 0 CCATCCATGG 0.926175 -18 CTTGCGATCGCCACCCAATCCAAACCGTGCCG 2 49 0 CCACCCATCA 0.949168 -169 CTTGCGATCGCCACCCAATCCAAACCGTGCCG 2 106 0 CCACCCATCA 0.949168 -112 CTTGCGATCGCCACCCAATCCAAACCGTGCCG 2 163 0 CCACCCATCA 0.949168 -55 AGGAAGCGGGCTATCCTCGGAGCCGTCCAGCA 3 46 1 CTATCCCGGG 0.943759 -211 GAATTGGTGGCTGTCCTAGCGGCAAGGCAGTA 3 97 0 CTGTCCAGCG 0.917911 -160 ACGGTGATCGCCATCAGCGGCGAATACGGCGA 3 145 0 CCATCACGGG 0.779571 -112 ATTTCCTTTCCTTCCCCCGCTGATCACGTCAT 3 233 0 CTTCCCCGCG 0.919812 -24 GCTGCCCTCTGTGATCGGTGGCC 4 138 0 CTGCCCCTGG 0.98266 -13 GCGTTAGGGTCCGCGCTCGCGGGAAGAAGGTT 5 65 1 CCGCGCCGCG 0.5947 -25 CGGGGGCCGGCAACCCGCGAGGTCTCCTTCGG 7 79 0 CAACCCCGAG 0.65556 -178 TTGCCGGCCCCCGGCCCATCGGATGCGTATCC 7 98 1 CCGGCCATCG 0.857502 -159 ACATAGGGAGCTACCCCTTGGGTGATTCCGGT 7 151 1 CTACCCTTGG 0.821864 -106 GGAGCGGAAACCACCCGATCGACTGATCGGTG 7 210 0 CCACCCATCA 0.949168 -47 CGGGTGGTTTCCGCTCCATCAGCCCGGAATTG 7 225 1 CCGCTCATCG 0.762457 -32 CTGGTAACGGCTACCAGAGCCATCAAGGAGGA 8 20 1 CTACCAAGCA 0.600494 -29 ****** *** * Masking position 1 Map Score: 26.1088 Number of sites scoring better than the average of aligned sites = 13927 Number in coding regions = 13028 Number in noncoding regions = 899 Number of orfs with sites within 600 bp upstream = 654 Fraction of orfs with sites within 600 bp upstream = 0.105043 Motif number 7 GGCTTCGAATCCGTTGCGGTGGTCAGTGGGT 1 250 0 CCGTTCGGTG 0.958989 -51 TGGGCTGAGGTGGTTGGGCTTCGAATCCGTT 1 266 0 TGGTTGGCTT 0.67794 -35 GAACGTCCATCCTATGGGCTGAGGTGGTTGG 1 280 0 CCTATGGCTG 0.884101 -21 CGGCACGGTTTGGATTGGGTGGCGATCGCAA 2 49 1 TGGATGGGTG 0.990325 -169 CGGCACGGTTTGGATTGGGTGGCGATCGCAA 2 106 1 TGGATGGGTG 0.990325 -112 CGGCACGGTTTGGATTGGGTGGCGATCGCAA 2 163 1 TGGATGGGTG 0.990325 -55 CCATCAGCGGCGAATACGGCGAACCTCGTCC 3 136 0 CGAATCGGCG 0.88505 -121 GCGCACTCGGCGATTTGGCTGACTGCAACAA 3 194 1 CGATTGGCTG 0.92703 -63 CGCATCTCGGTGTTTGGGGTGATAGCGGTTG 4 43 1 TGTTTGGGTG 0.950624 -108 CGCTGGTGCACAGTTCGGGCGTCGGTAAGCC 5 13 0 CAGTTGGGCG 0.833745 -77 GGATACGCATCCGATGGGCCGGGGGCCGGCA 7 99 0 CCGATGGCCG 0.934087 -158 CCATCGGATGCGTATCCGGTCGCGCCGATTC 7 113 1 CGTATCGGTC 0.620248 -144 ACCCCTTGGGTGATTCCGGTGCGACGACTGC 7 163 1 TGATTCGGTG 0.887848 -94 CACCGATCAGTCGATCGGGTGGTTTCCGCTC 7 210 1 TCGATGGGTG 0.979022 -47 ***** ***** Masking position 5 Map Score: 17.153 Number of sites scoring better than the average of aligned sites = 3663 Number in coding regions = 3379 Number in noncoding regions = 284 Number of orfs with sites within 600 bp upstream = 255 Fraction of orfs with sites within 600 bp upstream = 0.0409573 Motif number 8 ACTATGCGGCCGCCCTCGCGGGTGGCGCCGA 1 53 1 CCCCTCGCGG 0.985317 -248 CGCAGGTTCGAATCCTGCCGGGGGCACAAGG 1 120 0 ATCCTGCCGG 0.600114 -181 CACCCAATCCAAACCGTGCCGACCCGCCGCA 2 39 0 AACCGTGCCG 0.954358 -179 CACCCAATCCAAACCGTGCCGACCCGCCGCA 2 96 0 AACCGTGCCG 0.954358 -122 CACCCAATCCAAACCGTGCCGACCCGCCGCA 2 153 0 AACCGTGCCG 0.954358 -65 CAAACCCCCGCAACCTTGCGGA 3 2 0 CACCTTGCGG 0.991382 -255 GGATAGCCCGCTTCCTGGCCGGAAGCAAGCA 3 31 0 CTCCTGGCCG 0.975693 -226 TGCATACGTACTGCCTTGCCGCTAGGACAGC 3 89 1 CGCCTTGCCG 0.984961 -168 TCCCGGCGAGCCGTCTCGCCGGA 4 3 0 CGTCTCGCCG 0.804893 -148 CGTTAGGGTCCGCGCTCGCGGGAAGAAGGTT 5 66 1 CCGCTCGCGG 0.859502 -24 CACCACTACTACTCCTTGTCGTAGTTCTCGG 7 18 0 ATCCTTGTCG 0.882965 -239 GTAGTGGTGTCTACCTTGTGGTACGGTGCGG 7 40 1 CACCTTGTGG 0.955097 -217 ACCCCGAAGGAGACCTCGCGGGTTGCCGGCC 7 76 1 AACCTCGCGG 0.980523 -181 TTCCTTATCCTCCTTGATGGCTCTGGTAG 8 30 0 CTCCTTGATG 0.441669 -19 ATCTTCTTCGCTTCCTCGTGGGGCTAACCTA 11 19 0 CTCCTCGTGG 0.948078 -21 * ********* Masking position 5 Map Score: 20.8136 Number of sites scoring better than the average of aligned sites = 7967 Number in coding regions = 7477 Number in noncoding regions = 490 Number of orfs with sites within 600 bp upstream = 397 Fraction of orfs with sites within 600 bp upstream = 0.0637649 Motif number 9 AACCTGCGGCCTTCTGCTCCGGAGGCAGACGCT 1 143 1 CTCTGCCCGA 0.731897 -158 TGGCGATCGCAAGCGCGGCGGAGCCGGGTGCG 2 10 1 CAGCGCGCGA 0.995876 -208 GTGGCGATCGCAAGCGCGGCGGAGCCGGGTGCG 2 67 1 CAGCGCGCGA 0.995876 -151 GTGGCGATCGCAAGCGCGGCGGAGCCGGGTGCG 2 124 1 CAGCGCGCGA 0.995876 -94 GTGGCGATCGCAAGCGCGGCGGAGCCGGGTGCG 2 181 1 CAGCGCGCGA 0.995876 -37 CCAGCAATCGCAGCATCTGCATACGTACTGCCT 3 72 1 CACATCGCAA 0.766864 -185 CGGTGATCGCCATCAGCGGCGAATACGGCGAAC 3 143 0 CACAGCGCGA 0.997473 -114 CGTATGACGTGATCAGCGGGGGAAGGAAAGGAA 3 230 1 GACAGCGGGA 0.900211 -27 CCGAACTGTGCACCAGCGGTACAGGACGGGCGT 5 26 1 CACAGCGTAA 0.797363 -64 GCCGAACGTGCAACAGCTGCGAACAATTGGCCG 6 40 0 CACAGCGCGA 0.997473 -44 TTCGGGGTTCTAGCCGCACCGTACCACAAGGTA 7 51 0 TACCGCCCGA 0.922454 -206 GCCCCCGGCCCATCGGATGCGTATCCGGTCGCG 7 104 1 CACGGAGCGA 0.888882 -153 GTTTCCGCTCCATCAGCCCGGAATTGAGGTGCC 7 231 1 CACAGCCGGA 0.96371 -26 ** **** *** * Masking position 13 Map Score: 24.6388 Number of sites scoring better than the average of aligned sites = 2858 Number in coding regions = 2669 Number in noncoding regions = 189 Number of orfs with sites within 600 bp upstream = 154 Fraction of orfs with sites within 600 bp upstream = 0.024735 Motif number 10 TGATCGGCGCCACCCGCGAGGGCGGCCGCAT 1 56 0 CACCGCGAGG 0.913307 -245 TGGCGATCGCAAGCGCGGCGGAGCCGGGTG 2 10 1 CAGCGCGGCG 0.994183 -208 AAACCGTGCCGACCCGCCGCACCCGGCTCCG 2 29 0 GACCGCCGCA 0.986551 -189 GTGGCGATCGCAAGCGCGGCGGAGCCGGGTG 2 67 1 CAGCGCGGCG 0.994183 -151 AAACCGTGCCGACCCGCCGCACCCGGCTCCG 2 86 0 GACCGCCGCA 0.986551 -132 GTGGCGATCGCAAGCGCGGCGGAGCCGGGTG 2 124 1 CAGCGCGGCG 0.994183 -94 AAACCGTGCCGACCCGCCGCACCCGGCTCCG 2 143 0 GACCGCCGCA 0.986551 -75 GTGGCGATCGCAAGCGCGGCGGAGCCGGGTG 2 181 1 CAGCGCGGCG 0.994183 -37 GCGTGCCGACCCGCCGCACCCGGCTCCG 2 200 0 GACCGCCGCA 0.986551 -18 CCAGCAATCGCAGCATCTGCATACGTACTGC 3 72 1 CACATCTGCA 0.637631 -185 CGGTGATCGCCATCAGCGGCGAATACGGCGA 3 145 0 CACAGCGGCG 0.995892 -112 CGTATGACGTGATCAGCGGGGGAAGGAAAGG 3 230 1 GACAGCGGGG 0.976799 -27 CCGAACTGTGCACCAGCGGTACAGGACGGGC 5 26 1 CACAGCGGTA 0.879806 -64 GCCGAACGTGCAACAGCTGCGAACAATTGGC 6 42 0 CACAGCTGCG 0.976694 -42 GTTTCCGCTCCATCAGCCCGGAATTGAGGTG 7 231 1 CACAGCCCGG 0.851927 -26 TAGCCGTTACCAGCATCCGGTA 8 2 0 CACATCCGGT 0.374234 -47 ** ******** Masking position 2 Map Score: 37.0506 Number of sites scoring better than the average of aligned sites = 8378 Number in coding regions = 7843 Number in noncoding regions = 535 Number of orfs with sites within 600 bp upstream = 378 Fraction of orfs with sites within 600 bp upstream = 0.0607131 Motif number 11 GGTTCTTACCCCGACGAATTTGAGAGC 1 8 1 ACCCCGACGA 0.973874 -293 TGAGAGCGAGACCACGAAGCCAACTATGCG 1 31 1 ACCACGAAGC 0.909152 -270 ATCGGCGCCACCCGCGAGGGCGGCCGCATA 1 55 0 CCCGCGAGGG 0.942357 -246 TCGTCGTGCGCCCCCGTAGCTCAGGGGATA 1 177 0 CCCCCGTAGC 0.752364 -124 TCAGTGGGTAGCCGCGATGCGCTACTCTGG 1 229 0 GCCGCGATGC 0.802252 -72 CCCACTGACCACCGCAACGGATTCGAAGCC 1 251 1 ACCGCAACGG 0.782109 -50 TTGCTGGACGGCTCCGAGGATAGCCCGCTT 3 49 0 GCTCCGAGGA 0.802496 -208 GTACTGCCTTGCCGCTAGGACAGCCACCAA 3 96 1 GCCGCTAGGA 0.852369 -161 CTGCAACAAAACCCCGTATGACGTGATCAG 3 216 1 ACCCCGTATG 0.572195 -41 TTCTCGGCACGCCACGACGGGCGGCCACCG 4 116 1 GCCACGACGG 0.951744 -35 ACGTGCACGCACTGCGAAGATTCGGCCAAT 6 18 1 ACTGCGAAGA 0.722673 -66 CAAGGTAGACACCACTACTACTCCTTGTCG 7 28 0 ACCACTACTA 0.236398 -229 TGCGGCTAGAACCCCGAAGGAGACCTCGCG 7 66 1 ACCCCGAAGG 0.978763 -191 ATAGGGAGCTACCCCTTGGGTGATTCCGGT 7 153 1 ACCCCTTGGG 0.782588 -104 CTAGGTTAGCCCCACGAGGAAGCGAAGAAG 11 18 1 CCCACGAGGA 0.90495 -22 ********** Masking position 5 Map Score: 11.3317 Number of sites scoring better than the average of aligned sites = 11265 Number in coding regions = 10467 Number in noncoding regions = 798 Number of orfs with sites within 600 bp upstream = 575 Fraction of orfs with sites within 600 bp upstream = 0.0923546 Motif number 12 ********** No masking Map Score: 2.17669e-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: 2.17669e-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 14 ********** No masking Map Score: 2.17669e-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