AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00950_mtub_reg_300.orf -o00950_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 Purged sequences: Rv1178 32 hypothetical protein Rv1178 Input sequences: #1 Rv0187 300 hypothetical protein Rv0187 #2 aspC 30 aspC #3 Rv0338c 108 hypothetical protein Rv0338c #4 Rv0339c 185 hypothetical protein Rv0339c #5 Rv0552 77 hypothetical protein Rv0552 #6 menD 42 menD #7 Rv0557 61 hypothetical protein Rv0557 #8 Rv0858c 156 hypothetical protein Rv0858c #9 Rv1008 85 hypothetical protein Rv1008 #10 Rv1009 207 hypothetical protein Rv1009 #11 fdxC 212 fdxC #12 cobG 224 cobG #13 cobL 67 cobL #14 Rv2073c 29 hypothetical protein Rv2073c #15 Rv2689c 173 hypothetical protein Rv2689c #16 Rv2690c 134 hypothetical protein Rv2690c #17 fadD3 47 fadD3 Motif number 1 CAATTCGTCGCCGCAGGTGCAGCGGTA 1 8 1 TCGCCGCAGG 0.489667 -293 CGGTAGGCGTCACCGGCGCCAGCACAGTGG 1 33 1 CACCGGCGCC 0.994465 -268 GCGAACCCGACAGCCACAGCCCTCGTGGCT 1 77 1 CAGCCACAGC 0.766629 -224 CCTCGGGGATCCCCGACACGGATGAGGGTG 1 149 0 CCCCGACACG 0.898383 -152 ATCTGGTAAACCCCCAGGCCGGTGGGCGGT 1 242 1 CCCCCAGGCC 0.935068 -59 CGCGACCACCGACCGTCGCGCGCCAGCAGG 1 274 0 GACCGTCGCG 0.973732 -27 CCGCCTCCTTGCCCCACCCCCGTTAGTCCC 4 14 1 GCCCCACCCC 0.930001 -172 GAACCCGCCGGCCCCGGGGCGCCGTTAGGG 4 91 1 GCCCCGGGGC 0.4986 -95 GCCCGTCCCGCAGCCCCGCATTTCCCCTAA 4 131 0 CAGCCCCGCA 0.652781 -55 CATAGCCCCAGCCCGTCCCGCAGCCCCGCA 4 141 0 GCCCGTCCCG 0.926373 -45 GGCTGGTCGGCGGCGGCTCCCTCACCA 4 169 0 CGGCGGCGGC 0.949304 -17 GCGCGGCCCGGCCATACGGT 6 1 1 GCGCGGCCCG 0.965839 -42 CAGAGTGTCACAGCCGGACCGTATGGCCGG 6 18 0 CAGCCGGACC 0.891294 -25 ACTGTCAGCGCCGGCTGTCGAAATG 7 47 0 CAGCGCCGGC 0.891086 -15 CTAGGTCCCGTACCGGCACCCTAACAGGGC 8 66 1 TACCGGCACC 0.763754 -91 CCCTAACAGGGCCCCCGGCCAACCTGTTGG 8 84 1 GCCCCCGGCC 0.5086 -73 GCGACGATGCGCGCCGCAGCGATACCTTGC 8 118 0 GCGCCGCAGC 0.925755 -39 CTGCGGCGCGCATCGTCGCCCGGATAGGCT 8 129 1 CATCGTCGCC 0.971083 -28 GCCCGGATAGGCTCGACCGCC 8 146 1 GCTCGACCGC 0.668858 -11 GGTCGGAGCTCACCCGCACACAATAGGGTG 9 19 0 CACCCGCACA 0.731952 -67 TCCGACCGCCCAGCCAGACGAGATCCACCG 9 42 1 CAGCCAGACG 0.590063 -44 CAGACGAGATCCACCGCCCGCTCCGGAACC 9 56 1 CCACCGCCCG 0.828719 -30 CGGCGCCAGGGGTTCCGGAGCG 9 74 0 GCGCCAGGGG 0.728523 -12 GTTATGGGCCGCTCGGCGCGC 10 2 0 GCTCGGCGCG 0.981369 -206 CGGCCCATAACACCCGCGCGCCGGAGTTGC 10 21 1 CACCCGCGCG 0.990304 -187 AAACCTAGAGGCCCCACCCGTTCGATCACA 10 78 0 GCCCCACCCG 0.887924 -130 GCTATATCCCCGACCTCGGCAACACTCAAC 10 146 0 CGACCTCGGC 0.537664 -62 TGACCGTGTACGCCGACGCATGTGCCAAGT 11 60 1 CGCCGACGCA 0.57685 -153 GCCAAGGCTTCCTCCGGGCCCTGCTGAGGC 11 136 0 CCTCCGGGCC 0.741887 -77 GGGCTGCTGTCCACCTCGCCAAGGCTTCCT 11 153 0 CCACCTCGCC 0.940241 -60 CCTTCTGAGGGCGCGACAGGTGGCCGGAGT 12 14 0 GCGCGACAGG 0.705664 -211 TAGCTGCCGATAGCGTCGCGGTGTGCCGCG 12 46 1 TAGCGTCGCG 0.815259 -179 CGCGCGGACGCCGCGGCACACCGCGACGCT 12 57 0 CCGCGGCACA 0.809407 -168 TGTGCCGCGGCGTCCGCGCGGTCGCTCGTG 12 67 1 CGTCCGCGCG 0.92894 -158 CCGCGCGGTCGCTCGTGCCCGACTCGTGGA 12 80 1 GCTCGTGCCC 0.693944 -145 TCGTGGAGCGACTCGGCGCCCTCAAACCCG 12 103 1 ACTCGGCGCC 0.765884 -122 CGATTGCGCGCATCGTGGCGGGTTTGAGGG 12 121 0 CATCGTGGCG 0.835234 -104 CAATCGAAAACGCCCTGACCCTGATCCTCG 12 145 1 CGCCCTGACC 0.53311 -80 CCCTGACCCTGATCCTCGGCCTCCCGACGG 12 157 1 GATCCTCGGC 0.897785 -68 CGCGCTCAGGTCCCGTCGGGAGGCCGAGGA 12 169 0 TCCCGTCGGG 0.695171 -56 GAATGGGTCGCCGCCTCGCCGCGCTCAGGT 12 188 0 CCGCCTCGCC 0.991314 -37 CTGCGCTCTGCATCGTCGCGGA 13 3 0 CATCGTCGCG 0.952425 -65 GCGGGCGGTACCCCCACCGCATCGCTGCGC 13 27 0 CCCCCACCGC 0.853202 -41 TTGCGGGGGAGAGCGGCGCCG 13 57 1 GAGCGGCGCC 0.992991 -11 ATCTTCGATTGACCCGCGCCGGCGACGATG 15 17 1 GACCCGCGCC 0.992565 -157 CTTTGCTCTGCATCGTCGCCGGCGCGGGTC 15 27 0 CATCGTCGCC 0.971083 -147 CGATGGGGAGGAGCGGCGCCAGTGACCCGC 15 57 1 GAGCGGCGCC 0.992991 -117 CGGCGCCAGTGACCCGCGCCGGCGACGATG 15 70 1 GACCCGCGCC 0.992565 -104 CTTTGCTCTGCATCGTCGCCGGCGCGGGTC 15 80 0 CATCGTCGCC 0.971083 -94 CGATGGGGAGGAGCGGCGCCAGTGACCCGC 15 110 1 GAGCGGCGCC 0.992991 -64 CGGCGCCAGTGACCCGCGCCGGCGACGATG 15 123 1 GACCCGCGCC 0.992565 -51 CTTTGCTCTGCATCGTCGCCGGCGCGGGTC 15 133 0 CATCGTCGCC 0.971083 -41 CGATGGGGAGGAGCGGCGCCA 15 163 1 GAGCGGCGCC 0.992991 -11 AATCGGCTGGCCACCGCGGGTTGCCGATCG 16 47 0 CCACCGCGGG 0.880276 -88 AGGCCTATCCGAGCGTGGCGGTAGCGTTCC 16 102 0 GAGCGTGGCG 0.903713 -33 ********** Masking position 4 Map Score: 94.6611 Number of sites scoring better than the average of aligned sites = 79599 Number in coding regions = 74502 Number in noncoding regions = 5097 Number of orfs with sites within 600 bp upstream = 1504 Fraction of orfs with sites within 600 bp upstream = 0.241568 Motif number 2 CCTACCGCTGCACCTGCGGCGACGAATTG 1 10 0 CACCTGCGGC 0.658511 -291 CATGCCACTGTGCTGGCGCCGGTGACGCCT 1 37 0 TGCTGGCGCC 0.988829 -264 GGCGGTTGCCTGCTGGCGCGCGACGGTCGG 1 266 1 TGCTGGCGCG 0.990031 -35 ACGCTAGCGCGACCACCGACC 1 290 0 CGCTAGCGCG 0.980919 -11 TGCTATCGGTTGAGGCCGCGTCCGTGTTCG 4 56 1 TGAGGCCGCG 0.798975 -130 GGCGCCCCGGGGCCGGCGGGTTCCGCACCG 4 84 0 GGCCGGCGGG 0.944573 -102 GGCCATCCCCTAACGGCGCCCCGGGGCCGG 4 98 0 TAACGGCGCC 0.870434 -88 GGCTGGTCGGCGGCGGCTCCCTCACCA 4 169 0 CGGCGGCGGC 0.884773 -17 TTCGAGATTACGAGGGCACGGCAGATCCAA 5 37 0 CGAGGGCACG 0.805016 -41 CTAGGTCCCGTACCGGCACCCTAACAGGGC 8 66 1 TACCGGCACC 0.601746 -91 CGACGATGCGCGCCGCAGCGATACCTTGCC 8 117 0 CGCCGCAGCG 0.504326 -40 CGAGATCCACCGCCCGCTCCGGAACCCCTG 9 60 1 CGCCCGCTCC 0.792983 -26 GCTCCGGAACCCCTGGCGCCG 9 75 1 CCCTGGCGCC 0.944152 -11 TGTTGAGCAACTCCGGCGCGCGGGTGTTAT 10 27 0 CTCCGGCGCG 0.973168 -181 CTACACCTTCTGAGGGCGCGACAGGTGGCC 12 19 0 TGAGGGCGCG 0.946902 -206 GTGTAGCTGCCGATAGCGTCGCGGTGTGCC 12 43 1 CGATAGCGTC 0.449638 -182 CGTCGCGGTGTGCCGCGGCGTCCGCGCGGT 12 59 1 TGCCGCGGCG 0.684953 -166 CGGGCACGAGCGACCGCGCGGACGCCGCGG 12 71 0 CGACCGCGCG 0.901514 -154 GTGGCGGGTTTGAGGGCGCCGAGTCGCTCC 12 107 0 TGAGGGCGCC 0.929086 -118 AGGGCGTTTTCGATTGCGCGCATCGTGGCG 12 131 0 CGATTGCGCG 0.928095 -94 GAGAATGGGTCGCCGCCTCGCCGCGCTCAG 12 190 0 CGCCGCCTCG 0.651978 -35 GGGTACCGCCCGCTTGCGGGGGAGAGCGGC 13 44 1 CGCTTGCGGG 0.903081 -24 TTATTGCCTGCGCTAGCGTGA 14 2 0 CGCTAGCGTG 0.83439 -28 TCTGCATCGTCGCCGGCGCGGGTCAATCGA 15 21 0 CGCCGGCGCG 0.783223 -153 CGGCGCGGGTCACTGGCGCCGCTCCTCCCC 15 61 0 CACTGGCGCC 0.979012 -113 TCTGCATCGTCGCCGGCGCGGGTCACTGGC 15 74 0 CGCCGGCGCG 0.783223 -100 CGGCGCGGGTCACTGGCGCCGCTCCTCCCC 15 114 0 CACTGGCGCC 0.979012 -60 TCTGCATCGTCGCCGGCGCGGGTCACTGGC 15 127 0 CGCCGGCGCG 0.783223 -47 TAAATCGGCTGGCCACCGCGGGTTGCCGAT 16 49 0 GGCCACCGCG 0.788128 -86 GTCTAGGGAACGCTACCGCCACGCTCGGAT 16 96 1 CGCTACCGCC 0.929682 -39 ********** Masking position 7 Map Score: 59.7 Number of sites scoring better than the average of aligned sites = 31538 Number in coding regions = 29636 Number in noncoding regions = 1902 Number of orfs with sites within 600 bp upstream = 970 Fraction of orfs with sites within 600 bp upstream = 0.155798 Motif number 3 CAGCACAGTGGCATGGGACTTCGATGCGAACCCGACAG 1 52 1 GCTGTCGTGG 0.948513 -249 TTGCTGACCTGCAGCCACGAGGGCTGTGGCTGTCGGGT 1 81 0 GCGCAGGTGG 0.990664 -220 GATACGAATGACGAACTACGAGGCTGGGACCTTGCTGA 1 112 0 ACACGGGTGG 0.45499 -189 TGCGACTTTCGCCGCGAGAAAGGCTGTCCTAACCTACC 3 16 0 GCGGAGGTGC 0.985278 -93 TCCATTGAGTGCTACGAATTGGGGTGACCTTCC 3 86 1 GCAGTGGTGC 0.911137 -23 TCGTGCTAACACGGGACTAACGGGGGTGGGGCAAGGAG 4 18 0 ACGAAGGGGG 0.328642 -168 CCGTGTTAGCACGATGCTATCGGTTGAGGCCGCGTCCG 4 42 1 ACAGTGGTGG 0.756324 -144 GGTTGAGGCCGCGTCCGTGTTCGGTGCGGAACCCGCCG 4 63 1 GCTCTCGTGG 0.881973 -123 CGGCCCCGGGGCGCCGTTAGGGGATGGCCGCATTAGGG 4 99 1 GCCGGGGTGC 0.848633 -87 GAAATGCGGGGCTGCGGGACGGGCTGGGGCTATGGTGA 4 137 1 GCGGCGGTGG 0.984918 -49 ACGGGCTGGGGCTATGGTGAGGGAGCCGCCGCCGACCA 4 155 1 GCAGAGGGCG 0.874391 -31 GCGCGGCCCGGCCATACGGTCCGGCTGTGACAC 6 6 1 GCCGTCGTCG 0.85649 -37 GTCAGCGCCGGCTGTCGAAATGGTTGCGTAGCGGCATA 7 31 0 GCGCAGGTGG 0.990661 -31 AGGGCCCCCGGCCAACCTGTTGGTTGGGCAAGGTATCG 8 91 1 GCACTGGTGG 0.887682 -66 AGGTATCGCTGCGGCGCGCATCGTCGCCCGGATAGGCT 8 121 1 GCGGACGCGC 0.940494 -36 GAGCTCACCCGCACACAATAGGGTGGTGTCGAA 9 6 0 GCCCAGGGGG 0.918731 -80 ATCTCGTCTGGCTGGGCGGTCGGAGCTCACCCGCACAC 9 28 0 GCGGTGGGCC 0.857879 -58 CGGCGCCAGGGGTTCCGGAGCGGGCGGTGGAT 9 64 0 GCAGTCGAGG 0.704358 -22 CTTTTTGTTCGCTGTGTAGGTGGTTGAGTGTTGCCGAG 10 124 1 GCGGGGGTGG 0.992061 -84 AGAAGGTGTAGCTGCCGATAGCGTCGCGGTGTGCCGCG 12 38 1 GCGCACGCGG 0.961624 -187 GTCGCGGTGTGCCGCGGCGTCCGCGCGGTCGCTCGTGC 12 60 1 GCGGTCGGCG 0.953788 -165 CCGTCGGGAGGCCGAGGATCAGGGTCAGGGCGTTTTCG 12 149 0 GCGGCGGTCG 0.930828 -76 CCCGACGGGACCTGAGCGCGGCGAGGCGGCGACCCATT 12 179 1 CCGGGCGGGG 0.75145 -46 CCGCGACGATGCAGAGCGCAGCGATGCGGTGGGGGTAC 13 12 1 GCGGACGTGG 0.995657 -56 CCGCCCGCTTGCGGGGGAGAGCGGCGCCG 13 49 1 GCGGACGCGC 0.940509 -19 CGGCGACGATGCAGAGCAAAGCGATGGGGAGGAGCGGC 15 36 1 GCGGACGTGG 0.995655 -138 CGGCGACGATGCAGAGCAAAGCGATGGGGAGGAGCGGC 15 89 1 GCGGACGTGG 0.995655 -85 CGGCGACGATGCAGAGCAAAGCGATGGGGAGGAGCGGC 15 142 1 GCGGACGTGG 0.995655 -32 TAGAGGTCCTCTCGGCTGTGTCCGGTGCGC 16 3 1 GAGCTGGTGG 0.677581 -132 CCAAGGGTAGGCCTATCCGAGCGTGGCGGTAGCGTTCC 16 102 0 GCTTACGGGG 0.381854 -33 ** * * * ** ** * Masking position 13 Map Score: 61.418 Number of sites scoring better than the average of aligned sites = 14542 Number in coding regions = 13693 Number in noncoding regions = 849 Number of orfs with sites within 600 bp upstream = 603 Fraction of orfs with sites within 600 bp upstream = 0.0968519 Motif number 4 CTGTGGCTGTCGGGTTCGCATCGAAGTCCC 1 66 0 CGGGTTCGCA 0.43843 -235 CGAGGAATCCCAGGTGGTCAGCTGTCGGTA 1 174 1 CAGGTGGTCA 0.584739 -127 AACCCCCAGGCCGGTGGGCGGTTGCCTGCT 1 250 1 CCGGTGGGCG 0.988744 -51 CGGTTGCCTGCTGGCGCGCGACGGTCGGTG 1 268 1 CTGGCGCGCG 0.795947 -33 CGCGCGACGGTCGGTGGTCGCGCTAGCGT 1 282 1 TCGGTGGTCG 0.734351 -19 GGTGCGGAACCCGCCGGCCCCGGGGCGCCG 4 85 1 CCGCCGGCCC 0.907877 -101 CCGCCGGCCCCGGGGCGCCGTTAGGGGATG 4 95 1 CGGGGCGCCG 0.650039 -91 CCAGCCCGTCCCGCAGCCCCGCATTTCCCC 4 134 0 CCGCAGCCCC 0.494417 -52 GGCTGCGGGACGGGCTGGGGCTATGGTGAG 4 146 1 CGGGCTGGGG 0.664276 -40 GGCTGGTCGGCGGCGGCTCCCT 4 174 0 CTGGTCGGCG 0.850918 -12 CCGGACCGTATGGCCGGGCCGCGC 6 5 0 TGGCCGGGCC 0.865597 -38 CAGAGTGTCACAGCCGGACCGTATGGCCGG 6 18 0 CAGCCGGACC 0.406153 -25 GCAGCAGAGTTCGCACGCCGTATGCCGCTA 7 11 1 TCGCACGCCG 0.333242 -51 ACTGTCAGCGCCGGCTGTCGAAATGGTTGC 7 42 0 CCGGCTGTCG 0.810887 -20 GCCCAACCAACAGGTTGGCCGGGGGCCCTG 8 90 0 CAGGTTGGCC 0.809913 -67 GGATCTCGTCTGGCTGGGCGGTCGGAGCTC 9 38 0 TGGCTGGGCG 0.906549 -48 GGTTCCGGAGCGGGCGGTGGATCTCGTCTG 9 56 0 CGGGCGGTGG 0.608341 -30 GCGCGCCGAGCGGCCCATAACACCCG 10 7 1 CGAGCGGCCC 0.860204 -201 TTGAGCAACTCCGGCGCGCGGGTGTTATGG 10 25 0 CCGGCGCGCG 0.721676 -183 TGTGATCGAACGGGTGGGGCCTCTAGGTTT 10 78 1 CGGGTGGGGC 0.89483 -130 CCTCTAGGTTTCGGAGGGCCCATTTTGCTT 10 97 1 TCGGAGGGCC 0.688593 -111 CATAGCAATCCGGCTTGCCGTCTATGCTGC 11 15 0 CGGCTTGCCG 0.785748 -198 ACGCATGTGCCAAGTGGTCGACGTGTATGT 11 75 1 CAAGTGGTCG 0.528003 -138 CGCATTGCCTCAGCAGGGCCCGGAGGAAGC 11 130 1 CAGCAGGGCC 0.80849 -83 GCGAGGTGGACAGCAGCCCACACATAGCGG 11 164 1 CAGCAGCCCA 0.124698 -49 GAGGGCGCGACAGGTGGCCGGAGTGGG 12 8 0 CAGGTGGCCG 0.974235 -217 CCGCGGCGTCCGCGCGGTCGCTCGTGCCCG 12 71 1 CGCGCGGTCG 0.547485 -154 ACTCGTGGAGCGACTCGGCGCCCTCAAACC 12 101 1 CGACTCGGCG 0.737345 -124 CAGGTCCCGTCGGGAGGCCGAGGATCAGGG 12 163 0 CGGGAGGCCG 0.568662 -62 TACGGGAGAATGGGTCGCCGCCTCGCCGCG 12 195 0 TGGGTCGCCG 0.85791 -30 CTCTCCCCCGCAAGCGGGCGGTACCCCCAC 13 40 0 CAAGCGGGCG 0.878218 -28 TCGATTGACCCGCGCCGGCGACGATGCAGA 15 21 1 CGCGCCGGCG 0.763403 -153 GCCAGTGACCCGCGCCGGCGACGATGCAGA 15 74 1 CGCGCCGGCG 0.763403 -100 GCCAGTGACCCGCGCCGGCGACGATGCAGA 15 127 1 CGCGCCGGCG 0.763403 -47 TCGGCTGTGTCCGGTGCGCCGTACGCGATC 16 22 1 CCGGTGCGCC 0.901443 -113 CTGGCCACCGCGGGTTGCCGATCGCGTACG 16 41 0 CGGGTTGCCG 0.925378 -94 CGACGTAAATCGGCTGGCCACCGCGGGTTG 16 54 0 CGGCTGGCCA 0.808253 -81 ********** Masking position 9 Map Score: 52.0315 Number of sites scoring better than the average of aligned sites = 48698 Number in coding regions = 45428 Number in noncoding regions = 3270 Number of orfs with sites within 600 bp upstream = 1341 Fraction of orfs with sites within 600 bp upstream = 0.215387 Motif number 5 CACAGATGTCAGGATGAGCAGGTTATGCAGG 3 52 1 AGGTGAGCAG 0.894046 -57 ATTAGGGGAAATGCGGGGCTGCGGGACGGGC 4 130 1 ATGGGGGCTG 0.844748 -56 GGCTGGGGCTATGGTGAGGGAGCCGCCGCCG 4 158 1 ATGTGAGGGA 0.920661 -28 GAACCGGCCAATGTTGAGCAACTCCGGCGCG 10 37 0 ATGTGAGCAA 0.958287 -171 TCTGGAAGACATGTTGAGGAGACGTCC 11 196 1 ATGTGAGGAG 0.983006 -17 TCCGCGACGATGCAGAGCGCAGCGATGCGG 13 10 1 ATGAGAGCGC 0.809268 -58 GAGCGCAGCGATGCGGTGGGGGTACCGCCCG 13 25 1 ATGGGTGGGG 0.887964 -43 TACCGCCCGCTTGCGGGGGAGAGCGGCGCCG 13 47 1 TTGGGGGGAG 0.808236 -21 GCCGGCGACGATGCAGAGCAAAGCGATGGGG 15 34 1 ATGAGAGCAA 0.958113 -140 GAGCAAAGCGATGGGGAGGAGCGGCGCCAGT 15 49 1 ATGGGAGGAG 0.992677 -125 GCCGGCGACGATGCAGAGCAAAGCGATGGGG 15 87 1 ATGAGAGCAA 0.958113 -87 GAGCAAAGCGATGGGGAGGAGCGGCGCCAGT 15 102 1 ATGGGAGGAG 0.992677 -72 GCCGGCGACGATGCAGAGCAAAGCGATGGGG 15 140 1 ATGAGAGCAA 0.958113 -34 GAGCAAAGCGATGGGGAGGAGCGGCGCCA 15 155 1 ATGGGAGGAG 0.992677 -19 *** ******* Masking position 6 Map Score: 21.0847 Number of sites scoring better than the average of aligned sites = 318 Number in coding regions = 255 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084 Motif number 6 GACTTCGATGCGAACCCGACAGCCACAGCCC 1 68 1 CAACCCGACA 0.916247 -233 CAGGCAACCGCCCACCGGCCTGGGGGTTTAC 1 247 0 CCACCGGCCT 0.929398 -54 CGCTAGCGCGACCACCGACCGTCGCGCGCCA 1 279 0 ACACCGACCG 0.655654 -22 TCACGATTTGGCACCTGACAGCAAATTCCA 2 10 1 GCACCTGACA 0.873133 -21 AAAGGCTGTCCTAACCTACCGGTCG 3 5 0 CAACCTACCG 0.770426 -104 CGGCGGGTTCCGCACCGAACACGGACGCGGC 4 70 0 CCACCGAACA 0.975564 -116 CGGTGCGGAACCCGCCGGCCCCGGGGCGCCG 4 84 1 CCGCCGGCCC 0.829691 -102 TGAGGGAGCCGCCGCCGACCAGCC 4 172 1 GCGCCGACCA 0.882253 -14 GCGCGGCCCGGCCATACGGTCCGG 6 4 1 CGCCCGGCCA 0.906722 -39 TCCCGTACCGGCACCCTAACAGGGCCCCCGG 8 71 1 GACCCTAACA 0.300913 -86 CCCTAACAGGGCCCCCGGCCAACCTGTTGGT 8 84 1 GCCCCGGCCA 0.95795 -73 CGATACCTTGCCCAACCAACAGGTTGGCCGG 8 98 0 CCAACCAACA 0.493828 -59 GCGGTCGAGCCTATCCGGGCGACGATGCGCG 8 135 0 CATCCGGGCG 0.505551 -22 CGGGTGAGCTCCGACCGCCCAGCCAGACGAG 9 33 1 CGACCGCCCA 0.707773 -53 AAGACGGTAACGAACCGGCCAATGTTGAGCA 10 48 0 CAACCGGCCA 0.984235 -160 CAACCACCTACACAGCGAACAAAAAGCAAAA 10 119 0 CCAGCGAACA 0.691549 -89 TCTAGTATCAGTAACCGAACGCATTGCCTCA 11 111 1 GAACCGAACG 0.716248 -102 CCCACTCCGGCCACCTGTCGCGC 12 3 1 CCTCCGGCCA 0.984743 -222 TCGGCGCCCTCAAACCCGCCACGATGCGCGC 12 115 1 CAACCCGCCA 0.958045 -110 CTGATCCTCGGCCTCCCGACGGGACCTGAGC 12 165 1 GCTCCCGACG 0.665805 -60 TCGCGTACGGCGCACCGGACACAGCCGAGAG 16 19 0 CCACCGGACA 0.988142 -116 GTCTAGGGAACGCTACCGCCACGCTCGGATA 16 96 1 CCTACCGCCA 0.612001 -39 GCCCTGTAGGCTAACCTACCAAGCACTTGCT 17 11 1 CAACCTACCA 0.872775 -37 CGGACGCTCCTAACAAAGCAAGTGC 17 33 0 CCTCCTAACA 0.772606 -15 * ********* Masking position 6 Map Score: 24.2955 Number of sites scoring better than the average of aligned sites = 14461 Number in coding regions = 13545 Number in noncoding regions = 916 Number of orfs with sites within 600 bp upstream = 669 Fraction of orfs with sites within 600 bp upstream = 0.107453 Motif number 7 TGGGATTCCTCGGGGATCCCCGACACGGAT 1 156 0 CGGGGATCCC 0.975069 -145 AGCTGACCACCTGGGATTCCTCGGGGATCC 1 167 0 CTGGGATTCC 0.93603 -134 GCAGGTTATGCAGGGGTTCCATTGAGTGCT 3 69 1 CAGGGGTTCC 0.991903 -40 GGCTGGTCGGCGGCGGCTCCCTCACCATAG 4 166 0 CGGCGGCTCC 0.947023 -20 GGCACCCTAACAGGGCCCCCGGCCAACCTG 8 80 1 CAGGGCCCCC 0.954473 -77 ATGCGCGCCGCAGCGATACCTTGCCCAACC 8 112 0 CAGCGATACC 0.887121 -45 CGGCGCCAGGGGTTCCGGAGCGGGCG 9 70 0 CAGGGGTTCC 0.991903 -16 TCCACCTCGCCAAGGCTTCCTCCGGGCCCT 11 144 0 CAAGGCTTCC 0.862577 -69 AGCGATGCGGTGGGGGTACCGCCCGCTTGC 13 31 1 TGGGGGTACC 0.83662 -37 ********** Masking position 9 Map Score: 9.42262 Number of sites scoring better than the average of aligned sites = 826 Number in coding regions = 739 Number in noncoding regions = 87 Number of orfs with sites within 600 bp upstream = 74 Fraction of orfs with sites within 600 bp upstream = 0.0118856 Motif number 8 TTACCAGATACCCGTATAGGGTATATATTTA 1 220 0 CCCGTATGGG 0.980106 -81 GCAACCGCCCACCGGCCTGGGGGTTTACCAG 1 244 0 ACCGGCCGGG 0.911367 -57 GGATCCAAACCCCCTTTTGTGGAATTTGTGG 8 25 0 CCCCTTTGTG 0.761418 -132 AAGACTAGGTCCCGTACCGGCACCCTAACAG 8 62 1 CCCGTACGGC 0.89397 -95 TTCGACACCACCCTATTGTGTGCGGGTGAG 9 10 1 ACCCTATGTG 0.722603 -76 CCGGTTCGTTACCGTCTTGTGATCGAACGGG 10 61 1 ACCGTCTGTG 0.962427 -147 GCGCTATATCCCCGACCTCGGCAACACTCAA 10 147 0 CCCGACCCGG 0.852584 -61 GTCGCTCGTGCCCGACTCGTGGAGCGACTCG 12 87 1 CCCGACTGTG 0.942313 -138 GCGCTCAGGTCCCGTCGGGAGGCCGAGGATC 12 167 0 CCCGTCGGAG 0.886849 -58 GACCCATTCTCCCGTACGGTGGACGG 12 209 1 CCCGTACGTG 0.978447 -16 GGCGAACATTCTCGTCTAGGGAACGCTACCG 16 83 1 CTCGTCTGGG 0.928333 -52 ******* *** Masking position 3 Map Score: 6.11344 Number of sites scoring better than the average of aligned sites = 2667 Number in coding regions = 2383 Number in noncoding regions = 284 Number of orfs with sites within 600 bp upstream = 207 Fraction of orfs with sites within 600 bp upstream = 0.0332477 Motif number 9 ********** No masking Map Score: -6.82588e-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 10 ********** No masking Map Score: -6.82588e-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 11 ********** No masking Map Score: -6.82588e-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