AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i210_trans4_synecho_reg_300.orf -o210_synecho_300.ace -a/home/amcguire/alignace/lib/ORF_synecho.txt -z/skink1/amcguire/genomes/synecho.fna -g0.48 -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 = 0.48 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 RCY46971 127 Synechocystis #2 RCY52434 262 Synechocystis #3 RCY14336 151 Synechocystis #4 RCY52311 104 Synechocystis #5 RCY11783 300 Synechocystis #6 RCY30106 164 Synechocystis #7 RCY08201 100 Synechocystis #8 RCY53401 171 Synechocystis #9 RCY46834 124 Synechocystis #10 RCY13164 111 Synechocystis #11 RCY00205 96 Synechocystis #12 RCY15170 266 Synechocystis #13 RCY30644 193 Synechocystis #14 RCY15530 257 Synechocystis #15 RCY50074 106 Synechocystis #16 RCY01064 148 Synechocystis #17 RCY25844 58 Synechocystis #18 RCY07234 110 Synechocystis #19 RCY40897 73 Synechocystis #20 RCY05266 273 Synechocystis #21 RCY32230 204 Synechocystis #22 RCY20293 90 Synechocystis #23 RCY09345 70 Synechocystis #24 RCY43126 111 Synechocystis Motif number 1 AAAGGTTGATCACCGGGGAAATGGGCCTTGTC 1 27 0 CCGGGGAAAT 0.66527 -101 CAAGGGGAAGGGATGGGGGAATTTTGCATAAA 2 210 0 GAGGGGGAAT 0.961078 -53 TTGATGAATTGCCAAGGGGAAGGGATGGGGGA 2 222 0 GCAGGGGAAG 0.977556 -41 ACCACCTACGGGTATGGGAAAAGACCGGAATG 3 83 0 GTTGGGAAAA 0.719821 -69 GATACTAGGGGGATGGGGAAAGAAATCGACTG 3 130 0 GAGGGGAAAG 0.921445 -22 GATTAATGGGGGAGTGGGGAGATTAGGTCGGA 4 19 1 GATGGGGAGA 0.851431 -86 GATTGGGGCAGACCGCACCGTT 4 93 0 GTGGGGCAGA 0.933563 -12 CCATGGTGATGGATAGGGAAAGGGTTTATGGC 5 58 0 GAAGGGAAAG 0.878857 -243 TGGATCATTAGTCAGGGGGACAGTGG 5 285 1 GCGGGGGACA 0.941246 -16 AACCAAAGACGTTGGGGGGCAAATCATTCCAG 6 24 0 GTGGGGGCAA 0.933716 -141 TTTCCATCACGAAAAGGGAAAGTTATCGACAA 6 54 0 GAAGGGAAAG 0.878857 -111 GGCAGAGTCAGCCCAGGGGACAAAAACTTCCT 7 62 0 GCAGGGGACA 0.908325 -39 AGAAAAGGGGAAAATTCCCAATA 8 159 0 GAAGGGGAAA 0.956204 -13 AATCCTCAGCCCTGGGGGGAAACTGTCC 9 107 1 CTGGGGGAAA 0.844721 -18 AGGGTATTTAGCCTGGGGCAGTATGGGGCAAC 10 48 1 GCGGGGCAGT 0.945668 -64 AGCCAGAGTACCCTAGGGGAGAGCGAGTAAAT 12 107 0 CCAGGGGAGA 0.796749 -160 GGGTACTCTGGCTTTGGGAAAGGGTAAATGGG 12 126 1 GTTGGGAAAG 0.743211 -141 TTAACGCAATGGTGTGGGGCCATAGAATGAAG 12 215 1 GTTGGGGCCA 0.471096 -52 AAGGGCGATCGCCGTGGGCCGGCCTTGGCTTG 13 87 0 GCTGGGCCGG 0.734043 -107 AGTGGCTTGGGGCAGAATTGTGCATA 13 178 0 GTGGGGCAGA 0.933563 -16 TGGCGATCGGGGCAAGCTCAAGCCGA 14 5 1 GTGGGGCAAG 0.960096 -253 CCACGACTGTGGATGGGGGAAGCAACCATCTG 14 72 1 GAGGGGGAAG 0.975471 -186 ATTTAAGCTAGTCGAGGGCAGTTAGACCCCTC 15 17 0 GCAGGGCAGT 0.915002 -90 AAAACTAATCGGTCAGGGCAAAAAAATCGTTA 16 105 0 GTAGGGCAAA 0.929623 -44 CACAGGACGAGGATGGGGCCATTAGAGCACAG 20 43 1 GAGGGGCCAT 0.856346 -231 GTGGAACTTTGACCGGGGGAATAGAGTTTAAT 20 173 1 GCGGGGGAAT 0.977642 -101 GAGAAGGATGGCCCAGGGCCATGTTCTGCTAG 21 116 1 GCAGGGCCAT 0.867178 -89 CCAATGGCTAGGCGAGGGAAATATTACCAGGG 22 19 0 GCAGGGAAAT 0.888601 -72 CTAGCCATTGGTAGAGGGGAATGCCAAAATGA 22 40 1 GAAGGGGAAT 0.938544 -51 CCTAACCATAGGGGAAACCGTCTACCG 23 6 1 CAAGGGGAAA 0.770881 -65 AATTGCTGGAGTTAAGGGGCGGCCACCAAAAA 24 82 0 GTAGGGGCGG 0.865904 -30 * * ******** Masking position 6 Map Score: 42.2824 Number of sites scoring better than the average of aligned sites = 4386 Number in coding regions = 3874 Number in noncoding regions = 512 Number of orfs with sites within 600 bp upstream = 511 Fraction of orfs with sites within 600 bp upstream = 0.0820752 Motif number 2 GACACCCGGTGGACAAGGCCCATTTCCCCGGT 1 16 1 GGCAAGCCCA 0.864433 -112 GGAATCGAACGGGAAAAGCTCCTCGGGTTAGA 2 176 0 GGAAAGCTCC 0.738628 -87 TACGGGTATGGGAAAAGACCGGAATGCCAAAA 3 77 0 GGAAAACCGG 0.884515 -75 GCTTTCTTGGGGACAATGCCCCTGGAAAAAGC 5 188 1 GGCAAGCCCC 0.962592 -113 AGCAAAGCCAGGCAGAGTCAGCCCAGGGGACA 7 72 0 GGAGATCAGC 0.912686 -29 AGAAAAGGGGAAAATTCCCAATAACAACAA 8 152 0 GGAAATCCCA 0.850001 -20 GGGCAGTATGGGGCAACTCAGGCTAAACTACA 10 63 1 GGCAATCAGG 0.967977 -49 TCGGTAAAATGGCAAAGTCAGCATTTTCGCTT 12 52 0 GGAAATCAGC 0.97816 -215 CCGTTGTTCCGGAAAATTCAGCAGGTTGATAG 13 14 1 GGAAATCAGC 0.978152 -180 GAGCAGATCAAGCCAAGGCCGGCCCACGGCGA 13 79 1 AGCAAGCCGG 0.752314 -115 AGGAAAACGGGGTAAAATCAGCAAGTATTCCT 13 147 1 GGAAATCAGC 0.978156 -47 CATCGTTGACGGCAAAGGCAGATCTAAACCAC 14 44 1 GGAAAGCAGA 0.933241 -214 AACTGCTCCGGGAAATTTCAGGTAAATCACGC 14 138 1 GGAATTCAGG 0.731099 -120 GTGACGATTTGTAAAAATCCGCCCAATTTTTA 14 216 1 GTAAATCCGC 0.78126 -42 GGTTAGGGTTGGCCAAGTCCGCTCCCCAGTGT 18 43 0 GGCAATCCGC 0.984689 -68 TGGGGCCGATGGGAGAAGCCGGAGGAGAAGGA 21 92 1 GGAGAGCCGG 0.941202 -113 TCTTTTCAACGGCCAAAGCAGGCGATCGCCAA 24 35 1 GGCAAGCAGG 0.974417 -77 ** *** ***** Masking position 9 Map Score: 18.9036 Number of sites scoring better than the average of aligned sites = 1408 Number in coding regions = 1298 Number in noncoding regions = 110 Number of orfs with sites within 600 bp upstream = 124 Fraction of orfs with sites within 600 bp upstream = 0.0199165 Motif number 3 CATTGACGAACCCTGGGCCGACCAAAGGTT 1 52 0 CCCTGGGCCG 0.983602 -76 AAACCCTTTTTCCATCGCCCT 2 2 0 TCCATCGCCC 0.514154 -261 TCTCACCACTCCCTGAGGCGCTGCCATAAA 5 36 1 CCCTGAGGCG 0.968889 -265 ACCATGGATGCCCTCTGCCGAAACTTACCC 5 83 1 CCCTCTGCCG 0.922518 -218 CCGAAACTTACCCAGCGGCAGTTATCGTTA 5 100 1 CCCAGCGGCA 0.950629 -201 ACTAGCTTTTTCCAGGGGCATTGTCCCCAA 5 194 0 TCCAGGGGCA 0.697896 -107 TGGAAAGGAGCCCTCCGGCAAACGTGATAT 6 80 1 CCCTCCGGCA 0.959552 -85 AGTTTTTGTCCCCTGGGCTGACTCTGCCTG 7 66 1 CCCTGGGCTG 0.807926 -35 GCCACAGAAACCCACCGCCATCTTCGTTAA 9 29 0 CCCACCGCCA 0.933481 -96 ATCACGATAATCCTCAGCCCTGGGGGGAAA 9 99 1 TCCTCAGCCC 0.787214 -26 TACCCTCTCATCCTGAGGCAGTGTACTTTT 10 24 0 TCCTGAGGCA 0.806827 -88 TTTACCCTTTCCCAAAGCCAGAGTACCCTA 12 124 0 CCCAAAGCCA 0.462233 -143 AGGGCGATCGCCGTGGGCCGGCCTTGGCTT 13 88 0 CCGTGGGCCG 0.771095 -106 GACGTTCAACCCCTGAGGCAATCCAGTGGG 14 170 0 CCCTGAGGCA 0.956637 -88 CGGTCTTAAACCCGCCGCCCTCGAAAAAT 16 10 0 CCCGCCGCCC 0.839945 -139 TCCCGACAACCCTGAGCCGACAATTATGC 20 10 1 CCCTGAGCCG 0.978117 -264 TTTAAATCCTCCCTGTGCTCTAATGGCCCC 20 57 0 CCCTGTGCTC 0.586011 -217 AAACCTCCAGCTCTGCGCCCAAATATGCTC 20 139 1 CTCTGCGCCC 0.755368 -135 TCCGGCTTCTCCCATCGGCCCCAACAGTTA 21 85 0 CCCATCGGCC 0.79569 -120 GCCATCCTTCTCCTCCGGCTTCTCCCATCG 21 98 0 TCCTCCGGCT 0.414532 -107 CAGAACATGGCCCTGGGCCATCCTTCTCCT 21 114 0 CCCTGGGCCA 0.977007 -91 CTTAGCAGTTCCCTTTGGCGATCGCCTGCT 24 51 0 CCCTTTGGCG 0.731095 -61 ********** Masking position 7 Map Score: 24.9015 Number of sites scoring better than the average of aligned sites = 2693 Number in coding regions = 2503 Number in noncoding regions = 190 Number of orfs with sites within 600 bp upstream = 221 Fraction of orfs with sites within 600 bp upstream = 0.0354963 Motif number 4 GTACCCAAACGCCGCCTGACATTGTTGAATTTCGC 2 37 0 GCGCGCTTGT 0.888835 -226 GTTTGCCCTAGCTGTCAGGGTTTGCCCATGTATCT 2 119 1 GCGTGGTTGC 0.802876 -144 TATGCAAAATTCCCCCATCCCTTCCCCTTGGCAAT 2 212 1 TCCCTCTTCC 0.719422 -51 TCAATTTCAATCAGCAGGCCATTGCTCAACTGACC 3 29 0 TCGCGCTTGC 0.98717 -123 CTCTGTCTGTGCACCTAGTCTTTGCACTCACATAA 5 225 1 GCCCGCTTGC 0.984422 -76 CTGGGCTGACTCTGCCTGGCTTTGCTTAAATCT 7 78 1 TCGCGCTTGC 0.98717 -23 CGCGTTATCATCGGCATTGGATTGCAGAAAGTCCG 8 100 1 TCGCTGTTGC 0.972088 -72 ATCTTTACGATCGCCATTGGCTAGCCATGGGAAGC 12 178 0 TCCCTGTAGC 0.858043 -89 TCATTCTATGGCCCCACACCATTGCGTTAAATATC 12 210 0 GCCCACTTGC 0.916138 -57 ATGGGAGAATTCGGCTTGAGCTTGCCCCGATCGCC 14 12 0 TCGCGGTTGC 0.988719 -246 GGTAAATCACGCCCCACTGGATTGCCTCAGGGGTT 14 158 1 GCCCTGTTGC 0.966221 -100 TGCATAATTGTCGGCTCAGGGTTGTCGGGA 20 6 0 TCGCAGTTGT 0.657176 -268 GGCCCCATCCTCGTCCTGTGATTGCATAATTGTCG 20 28 0 TCTCGGTTGC 0.907296 -246 AATATTTCCCTCGCCTAGCCATTGGTAGAGGGGAA 22 26 1 TCCCGCTTGG 0.937727 -65 GTAGACGGTTTCCCCTATGGTTAGG 23 1 0 TCCCTGTAGG 0.541905 -70 ** ** * * **** Masking position 12 Map Score: 15.0938 Number of sites scoring better than the average of aligned sites = 741 Number in coding regions = 670 Number in noncoding regions = 71 Number of orfs with sites within 600 bp upstream = 81 Fraction of orfs with sites within 600 bp upstream = 0.01301 Motif number 5 ATAGCACATAAGGAAAACACGTTAA 1 113 1 AGGAAAACAC 0.947694 -15 AGGGCGATGGAAAAAGGGTTTGAAAAG 2 8 1 TGGAAAAAGG 0.864225 -255 CAATTCATCAAGGAAAACATCCCCCTGCTC 2 243 1 AGGAAAACAT 0.876271 -20 ACAATGCCCCTGGAAAAAGCTAGTGCTCTG 5 200 1 TGGAAAAAGC 0.911939 -101 AGTCTCTGTGGAAAAAACCTAGGCTGTA 6 147 0 TGGAAAAAAC 0.885279 -18 CGGTGAGAGGAGCAAAAAACGATAATACCA 7 24 0 AGCAAAAAAC 0.882986 -77 GGAAGCAGCAGGAAAAAGTACACTGCCTC 10 10 1 AGGAAAAAGT 0.910416 -102 TAGATGGGCTAGGAAAACGGGGTAAAATCA 13 137 1 AGGAAAACGG 0.937283 -57 AAAAGTTTAGGAAAAAGCTAGTTCAAGG 21 9 1 AGGAAAAAGC 0.962962 -196 CACTGCAAATAGCAAAAAATAGCAAAACAG 23 49 1 AGCAAAAAAT 0.746812 -22 AGCAAAAAATAGCAAAACAGTT 23 59 1 AGCAAAACAG 0.812648 -12 ********** Masking position 5 Map Score: 9.03476 Number of sites scoring better than the average of aligned sites = 392 Number in coding regions = 328 Number in noncoding regions = 64 Number of orfs with sites within 600 bp upstream = 77 Fraction of orfs with sites within 600 bp upstream = 0.0123675 Motif number 6 AGGGCGATGGAAAAAGGGTTTG 2 3 1 GGCGATGGAA 0.799687 -260 GGTAAGCAAAGGCCACAGATCAAGCATAAT 2 86 0 GGCCACAGAT 0.907573 -177 TTGCATAAAAGGGAATCGAACGGGAAAAGC 2 189 0 GGGAATCGAA 0.718377 -74 TAGGTCGGATGGCCACGAAGATTTGCTAAA 4 42 1 GGCCACGAAG 0.879914 -63 AGTCAGCCCAGGGGACAAAAACTTCCTGAA 7 59 0 GGGGACAAAA 0.706813 -42 AGGCATAGTCGGCCACAGAAACCCACCGCC 9 40 0 GGCCACAGAA 0.975354 -85 TCCCTGGTACGGGAACGGAAAGGGCTAAAA 11 19 0 GGGAACGGAA 0.904407 -78 AATGGTGTGGGGCCATAGAATGAAGGCAAT 12 222 1 GGCCATAGAA 0.9334 -45 ATAGAATGAAGGCAATCAATTAGACAAATT 12 236 1 GGCAATCAAT 0.284122 -31 GATCGACCCAGGCCACGGAACTTAGTGAAT 15 66 0 GGCCACGGAA 0.973691 -41 CCTGCTCCTCGGCAACAAAAAAGTCCGAGC 17 36 0 GGCAACAAAA 0.863831 -23 GAGCATATTTGGGCGCAGAGCTGGAGGTTT 20 139 0 GGGCGCAGAG 0.645721 -135 CTTTGACCGGGGGAATAGAGTTTAATAGTC 20 179 1 GGGAATAGAG 0.666985 -95 GTTAAGGGGCGGCCACCAAAAACCTTAGCA 24 74 0 GGCCACCAAA 0.908915 -38 ********** Masking position 9 Map Score: 7.97599 Number of sites scoring better than the average of aligned sites = 1152 Number in coding regions = 1064 Number in noncoding regions = 88 Number of orfs with sites within 600 bp upstream = 108 Fraction of orfs with sites within 600 bp upstream = 0.0173466 Motif number 7 TTAGAATCTGGGGAGATTGATGGGGCTAGAT 2 150 0 GGGAGATTAT 0.586895 -113 GACCGCTCCATGGAGAATTGGT 3 2 0 TGGAGAATGG 0.899319 -150 TGGGGGAGTGGGGAGATTAGGTCGGATGGCC 4 25 1 GGGAGATTGG 0.977905 -80 TTTAGCCTGGGGCAGTATGGGGCAACTCAGG 10 54 1 GGCAGTATGG 0.869226 -58 CCGAAAATCCGAGAGAATCGGTAAAATGGCA 12 70 0 GAGAGAATGG 0.899319 -197 ATAATTCCAAGGGATAATCGTCTATCAACCT 13 36 0 GGGATAATGT 0.766434 -158 AGTGGCTTGGGGCAGAATTGTGCATAGGAAT 13 173 0 GGCAGAATGT 0.915962 -21 CGTCAACGATGGGAGAATTCGGCTTGAGCTT 14 24 0 GGGAGAATCG 0.967387 -234 TATCCTGAGAGGAAGAATTGTGTGAGGAAAA 14 108 0 GGAAGAATGT 0.799838 -150 AGGGAGTTTGGGCTAATCTGTC 17 2 1 GGGAGTTTGG 0.908397 -57 TGGGGCCGATGGGAGAAGCCGGAGGAGAAGG 21 92 1 GGGAGAAGCG 0.83587 -113 AGGGGGAGAATTGCTGGAGTTAAG 24 98 0 GGGAGAATGC 0.953709 -14 ******** ** Masking position 4 Map Score: 7.42609 Number of sites scoring better than the average of aligned sites = 668 Number in coding regions = 594 Number in noncoding regions = 74 Number of orfs with sites within 600 bp upstream = 89 Fraction of orfs with sites within 600 bp upstream = 0.0142949 Motif number 8 GAACGGGAAAAGCTCCTCGGGTTAGAATCT 2 172 0 AGCTCCTCGG 0.785622 -91 AGCAGGCCATTGCTCAACTGACCGCTCCAT 3 22 0 TGCTCAACTG 0.934459 -130 CACGAAGATTTGCTAAACTGGACGCAGAGT 4 55 1 TGCTAAACTG 0.913973 -50 TATCGTTTTTTGCTCCTCTCACCGTGAGCT 7 30 1 TGCTCCTCTC 0.869838 -71 GGGCAACTCAGGCTAAACTACAGTATGATA 10 73 1 GGCTAAACTA 0.665531 -39 CTCTCCCCTAGGGTACTCTGGCTTTGGGAA 12 116 1 GGGTACTCTG 0.812601 -151 AGGGAGTTTGGGCTAATCTGTCCAGGCTCG 17 11 1 GGCTAATCTG 0.951273 -48 AGACCTGCTCCTCGGCAACAAAAAA 17 44 0 TGCTCCTCGG 0.946386 -15 CTAGGTCTCTTGCTACACTGGGGAGCGGAC 18 29 1 TGCTACACTG 0.952846 -82 CGCCCAAATATGCTCCTCTGTGGAACTTTG 20 154 1 TGCTCCTCTG 0.97872 -120 TTCGCACCTCGGCTAATCTAGCAGAACATG 21 135 0 GGCTAATCTA 0.77142 -70 ********** Masking position 4 Map Score: 6.53154 Number of sites scoring better than the average of aligned sites = 310 Number in coding regions = 278 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405 Motif number 9 GACATTGTTGAATTTCGCTTTTCAAACCCT 2 25 0 AATTTCGCTT 0.886503 -238 GGGATGGGGGAATTTTGCATAAAAGGGAAT 2 203 0 AATTTTGCAT 0.699188 -60 TTAACGGTTGATTTTGGCATTCCGGTCTTT 3 66 1 ATTTTGGCAT 0.948745 -86 ACCATTTACTATTTCGGCTTCACCTTATCG 5 148 1 ATTTCGGCTT 0.917674 -153 CAAAGTCAGCATTTTCGCTTGTAAACCCAA 12 42 0 ATTTTCGCTT 0.905865 -225 TCCGGCCTGTATTTTAGCTTCCCATGGCTA 12 162 1 ATTTTAGCTT 0.779153 -105 CAATTAGACAAATTTGGCAAGGCAG 12 252 1 AATTTGGCAA 0.703131 -15 ACGATGGGAGAATTCGGCTTGAGCTTGCCC 14 20 0 AATTCGGCTT 0.900474 -238 CGTTGTCTTCATTTTGGCATTCCCCTCTAC 22 50 0 ATTTTGGCAT 0.948745 -41 ********** Masking position 4 Map Score: 3.42861 Number of sites scoring better than the average of aligned sites = 261 Number in coding regions = 228 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 10 GCCGACCAAAGGTTGATCACCGGGGAAATG 1 36 0 GGTTGATCAC 0.54057 -92 AGGGCGATGGAAAAAGGGTTT 2 2 1 GGGCGATGGA 0.940685 -261 TTAGAATCTGGGGAGATTGATGGGGCTAGA 2 151 0 GGGAGATTGA 0.726065 -112 GATAGGGTGATTAATGGGGGAGTG 4 5 1 GGGTGATTAA 0.791871 -100 GTAAAGTATTGGGCGATAAATTTCGTTGCA 6 120 0 GGGCGATAAA 0.925746 -45 CAATGGTGTGGGGCCATAGAATGAAGGCAA 12 221 1 GGGCCATAGA 0.760545 -46 AAATTCAGCAGGTTGATAGACGATTATCCC 13 27 1 GGTTGATAGA 0.717214 -167 ACTCCCTAAAGGGCGATCGCCGTGGGCCGG 13 97 0 GGGCGATCGC 0.978777 -97 TGGCGATCGGGGCAAGCTCA 14 1 1 TGGCGATCGG 0.694351 -257 CCGTGGCCTGGGTCGATCAAACTTTTCCAC 15 78 1 GGTCGATCAA 0.841179 -29 CTAACCTTGTGGGTGATCAAGTTGAACGAA 18 69 1 GGGTGATCAA 0.920691 -42 TTAATAATTCAGGTGATTGATATGGCACAC 19 36 0 AGGTGATTGA 0.576151 -38 TACGGGCGATAGGCGCTGGTTTC 20 261 0 GGGCGATAGG 0.931089 -13 CGGCCAAAGCAGGCGATCGCCAAAGGGAAC 24 44 1 AGGCGATCGC 0.853695 -68 ********** Masking position 6 Map Score: 8.74215 Number of sites scoring better than the average of aligned sites = 3389 Number in coding regions = 3085 Number in noncoding regions = 304 Number of orfs with sites within 600 bp upstream = 303 Fraction of orfs with sites within 600 bp upstream = 0.0486669 Motif number 11 GGTGATCAACCTTTGGTCGGCCCAGGGTTC 1 45 1 CTTTGGTCGG 0.934038 -83 TATGCTTGATCTGTGGCCTTTGCTTACCGA 2 88 1 CTGTGGCCTT 0.902995 -175 CCCCCAACGTCTTTGGTTGTCGATAACTTT 6 38 1 CTTTGGTTGT 0.778548 -127 GTGGAAAAAACCTAGGCTGTAAAGTATTGG 6 138 0 CCTAGGCTGT 0.66412 -27 TAGTGCCAAGTTTTGGCCGGGAAACTAAAA 8 53 1 TTTTGGCCGG 0.928031 -119 CGGTGGGTTTCTGTGGCCGACTATGCCTTC 9 42 1 CTGTGGCCGA 0.906604 -83 GTTTTCTCGTTTTTGGCTGTTTTGATCACG 9 75 1 TTTTGGCTGT 0.761988 -50 CGTGGGCCGGCCTTGGCTTGATCTGCTCTG 13 77 0 CCTTGGCTTG 0.855503 -117 TTTAGATCTGCCTTTGCCGTCAACGATGGG 14 42 0 CCTTTGCCGT 0.754883 -216 TAAACCACGACTGTGGATGGGGGAAGCAAC 14 68 1 CTGTGGATGG 0.700884 -190 TCACTAAGTTCCGTGGCCTGGGTCGATCAA 15 68 1 CCGTGGCCTG 0.91625 -39 CTCTGTGGAACTTTGACCGGGGGAATAGAG 20 169 1 CTTTGACCGG 0.870345 -105 CGATCGCCTGCTTTGGCCGTTGAAAAGAGT 24 33 0 CTTTGGCCGT 0.984538 -79 ********** Masking position 4 Map Score: 5.96424 Number of sites scoring better than the average of aligned sites = 1933 Number in coding regions = 1787 Number in noncoding regions = 146 Number of orfs with sites within 600 bp upstream = 167 Fraction of orfs with sites within 600 bp upstream = 0.026823 Motif number 12 CTCAGCAGATCCTAACACCATTGACGAACC 1 70 0 CCTAACACCA 0.926611 -58 GACGTTTCTTCTTCTCAGCAGATCCTAACA 1 83 0 CTTCTCAGCA 0.89491 -45 AGAAGCCCGTCTTCTCACCACTCCCTGAGG 5 24 1 CTTCTCACCA 0.965467 -277 GTTTTTTGCTCCTCTCACCGTGAGCTTCAG 7 34 1 CCTCTCACCG 0.966169 -67 CATTCTATGGCCCCACACCATTGCGTTAAA 12 214 0 CCCCACACCA 0.937426 -53 TGAAAATTTTCCTCACACAATTCTTCCTCT 14 102 1 CCTCACACAA 0.936166 -156 CACAATTCTTCCTCTCAGGATAACTGCTCC 14 117 1 CCTCTCAGGA 0.877413 -141 TTTGCCTGATCGTATCACCACCCATCGCTC 20 92 1 CGTATCACCA 0.822293 -182 TGTGCTCGGGCCTCTCACAAGACTATTAAA 20 199 0 CCTCTCACAA 0.965467 -75 ********** Masking position 7 Map Score: 4.55455 Number of sites scoring better than the average of aligned sites = 189 Number in coding regions = 153 Number in noncoding regions = 36 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 13 CTTGTCCACCGGGTGTCGGGTA 1 3 0 GGGTGTCGGG 0.956662 -125 GTGATTAATGGGGGAGTGGGGAGATTAGGT 4 17 1 GGGGAGTGGG 0.920344 -88 AATTAAGCTGGGGGAGCCGGACTTTCTGCA 8 122 0 GGGGAGCCGG 0.983401 -50 GTACCCTAGGGGAGAGCGAGTAAATTGCAG 12 102 0 GGAGAGCGAG 0.608777 -165 GGGTAAATGGGGTTATCCGGCCTGTATTTT 12 147 1 GGTTATCCGG 0.713233 -120 GGGCGATCGCCGTGGGCCGGCCTTGGCTTG 13 87 0 CGTGGGCCGG 0.725499 -107 TGGCGATCGGGGCAAGCTCAA 14 2 1 GGCGATCGGG 0.764674 -256 ACAGTTCTAAGGGTAGCGGACGTTCAACCC 14 188 0 GGGTAGCGGA 0.932101 -70 ATTTTTCGAGGGCGGCGGGTTTAAGACCG 16 10 1 GGGCGGCGGG 0.964357 -139 TTCCTAGAAGGGGGGGTTGAGAAATTTTGG 16 75 0 GGGGGGTTGA 0.564952 -74 TTGCTACACTGGGGAGCGGACTTGGCCAAC 18 38 1 GGGGAGCGGA 0.961678 -73 ACAAGGTTAGGGTTGGCCAAGTCCGCTCCC 18 49 0 GGTTGGCCAA 0.380856 -62 GGTTATTGGTTGGCTGGAATGGTTCGT 18 94 0 GGTTGGCTGG 0.920858 -17 GTCGGCTCAGGGTTGTCGGGA 20 2 0 GGTTGTCGGG 0.886588 -272 GCTAGTTCAAGGGGGGCTGGTTTATCTTTT 21 27 1 GGGGGGCTGG 0.983623 -178 AATATTACCAGGGTAGCTAGA 22 2 0 GGGTAGCTAG 0.758609 -89 ********** Masking position 2 Map Score: 15.102 Number of sites scoring better than the average of aligned sites = 2130 Number in coding regions = 1940 Number in noncoding regions = 190 Number of orfs with sites within 600 bp upstream = 178 Fraction of orfs with sites within 600 bp upstream = 0.0285898 Motif number 14 GATTTGCTAAACTGGACGCAGAGTAGATAC 4 61 1 ACTGGACGCA 0.868528 -44 GATTGGGGCAGACCGCACCGTTGCGTA 4 88 0 GCAGACCGCA 0.911052 -17 CGAGTAAATTGCAGGCCGAAAATCCGAGAG 12 86 0 GCAGGCCGAA 0.98395 -181 AAGCTAAAATACAGGCCGGATAACCCCATT 12 152 0 ACAGGCCGGA 0.957908 -115 TTATGCAATCACAGGACGAGGATGGGGCCA 20 34 1 ACAGGACGAG 0.900695 -240 CCCAATGACAGCAGGACGAAACCAGCGCCT 20 244 1 GCAGGACGAA 0.975003 -30 ********** Masking position 4 Map Score: 0.0155705 Number of sites scoring better than the average of aligned sites = 72 Number in coding regions = 63 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 15 ********** No masking Map Score: 1.08453e-11 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