AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i199_bsub_mtub_300.orf -o199_bsub_mtub_300.ace -a/home/amcguire/genomes/ORF_bsub.txt -z/home/amcguire/genomes/bsub.fna -g0.55 -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 = 0.55 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: rplB 31 ribosomal protein L2 (BL2) rpsN 22 ribosomal protein S14 rplR 32 ribosomal protein L18 Input sequences: #1 cysE 300 serine acetyltransferase #2 sigH 62 RNA polymerase sigma-30 factor (sigma-H) #3 rpmG 92 ribosomal protein L33 #4 secE 33 preprotein translocase subunit #5 nusG 178 transcription antitermination factor #6 rplK 167 ribosomal protein L11 (BL11) #7 rplA 93 ribosomal protein L1 (BL1) #8 rplJ 251 ribosomal protein L10 (BL5) #9 rplL 46 ribosomal protein L12 (BL9) #10 ybxB 89 alternate gene name: ybaA; similar to hypothetical proteins #11 rpoB 245 RNA polymerase (beta subunit) #12 rpoC 61 RNA polymerase (beta' subunit) #13 ybxF 180 alternate gene name: ybaB; similar to ribosomal protein L7AE family #14 rpsL 113 ribosomal protein S12 (BS12) #15 rpsG 41 ribosomal protein S7 (BS7) #16 fus 53 elongation factor G #17 tufA 119 elongation factor Tu #18 ybaC 98 ybaC #19 rpsJ 235 ribosomal protein S10 (BS13) #20 rplC 39 ribosomal protein L3 (BL3) #21 rplD 27 ribosomal protein L4 #22 rpsS 57 ribosomal protein S19 (BS19) #23 rpsQ 22 ribosomal protein S17 (BS16) #24 rplN 40 ribosomal protein L14 #25 rplX 37 ribosomal protein L24 (BL23) (histone-like protein HPB12) #26 rplE 26 ribosomal protein L5 (BL6) #27 rpsH 31 ribosomal protein S8 (BS8) #28 rplF 29 ribosomal protein L6 (BL8) #29 rpsE 24 ribosomal protein S5 #30 rplO 30 ribosomal protein L15 #31 adk 54 adenylate kinase #32 infA 300 initiation factor IF-I #33 rpmJ 33 ribosomal protein L36 (ribosomal protein B) #34 rpsM 22 ribosomal protein S13 #35 rpoA 176 RNA polymerase (alpha subunit) #36 rplQ 77 ribosomal protein L17 (BL15) #37 ybxA 127 alternate gene name: ybaD; similar to ABC transporter (ATP-binding protein) #38 ygaL 300 similar to nitrate ABC transporter (binding protein) #39 ygaN 103 ygaN #40 yhzA 111 similar to ribosomal protein S14 #41 rpsD 294 ribosomal protein S4 (BS4) #42 yvaK 125 similar to carboxylesterase #43 yvaL 148 yvaL #44 dnaC 169 replicative DNA helicase #45 yybT 36 yybT #46 yybS 300 yybS #47 rpsR 37 ribosomal protein S18 #48 ssb 40 single-strand DNA-binding protein #49 rpsF 110 ribosomal protein S6 (BS9) #50 yyaF 126 similar to hypothetical proteins #51 yyaE 300 similar to formate dehydrogenase #52 ponA 300 ponA #53 Rv0052 31 hypothetical protein Rv0052 #54 rpsF 218 rpsF #55 ssb 103 ssb #56 rpsR 41 rpsR #57 rplI 32 rplI #58 Rv0057 28 hypothetical protein Rv0057 #59 secE 300 secE #60 nusG 31 nusG #61 rplK 51 rplK #62 rplA 66 rplA #63 rplJ 300 rplJ #64 rplL 36 rplL #65 rpoB 300 rpoB #66 rpoC 44 rpoC #67 Rv0681 300 hypothetical protein Rv0681 #68 rpsL 248 rpsL #69 fusA 80 fusA #70 tuf 230 tuf #71 rpsJ 300 rpsJ #72 rplB 92 rplB #73 rpsS 40 rpsS #74 rplN 300 rplN #75 rpsH 163 rpsH #76 rplF 23 rplF #77 secY 160 secY #78 Rv1284 206 hypothetical protein Rv1284 #79 cysD 93 cysD #80 modA 161 modA #81 rpmB2 112 rpmB2 #82 truA 67 truA #83 rplQ 31 rplQ #84 rpoA 151 rpoA #85 rpsM 215 rpsM #86 rpmJ 32 rpmJ #87 infA 253 infA Motif number 1 CTAAAACCAAATGCGGGGAGGGAAGGACTGG 5 143 1 AGCGGGGAGG 0.865 -36 CACATCACGGACTTAAGGAGGTGTGTCTC 6 149 1 ATTAAGGAGG 0.908947 -19 CGCTATAACCACATAAGGAGGAAATTTTAAA 7 73 1 AATAAGGAGG 0.962691 -21 AGCCTCCATGAGACATGGAGGCTGTATATAC 8 152 0 AACATGGAGG 0.782345 -100 TAAATTAAAACAAAATGGAGGAATTACAA 9 28 1 CAAATGGAGG 0.942283 -19 TTAAGCCATGAAAAAAGGAGGTTCTAATA 10 71 1 AAAAAGGAGG 0.984085 -19 ATCCGAAGATAAAAAGGGAGGTAGGCCCC 12 43 1 AAAAGGGAGG 0.979692 -19 ATAAAACGTAATGAAGGGAGGAAAAATTC 14 95 1 AGAAGGGAGG 0.986542 -19 CGCATAATTAATGAAGGGAGGATATTCAG 15 23 1 AGAAGGGAGG 0.986542 -19 AATTAAAAGCTCTTAAGGAGGATTTTAGA 17 101 1 TTTAAGGAGG 0.722987 -19 GTGATGTAGGCGAAAAGGAGGGAAAATA 19 218 1 CAAAAGGAGG 0.984967 -18 TTCTCTTAGGAAAGGAGGAAATTGATT 21 8 1 AGAAAGGAGG 0.989469 -20 TAGTGCAATCACGAAGGGAGGTTCCAAA 22 40 1 AGAAGGGAGG 0.986542 -18 TCACTGAGGGGAGGTCGTGAGC 23 4 1 CGAGGGGAGG 0.96678 -19 AATTCTTTTTCCGAAGGGAGGTAACAAATA 24 21 1 CGAAGGGAGG 0.987289 -20 TATTAAAAGGAAGGGAGGTCTATCTC 26 8 1 AGAAGGGAGG 0.986542 -19 TCCCCAAGAAAGGGAAGGAGGTAATTATATA 27 11 1 AGGAAGGAGG 0.966433 -21 GAAGTTTAACATGAATGGAGGTGTTTGGT 28 11 1 AGAATGGAGG 0.959037 -19 TAAAAGAAGGAGGGACACATGAT 29 3 1 AAGAAGGAGG 0.949867 -22 CACTCCGGAAACTGAAGGAGGTTGGAAACAC 33 13 1 ATGAAGGAGG 0.879955 -21 TTTATAAGGAGGTGCCCAGAGA 34 2 1 TATAAGGAGG 0.870903 -21 ACAGCATTCCAATAAAGGAGGGGACATCAC 36 58 1 ATAAAGGAGG 0.959875 -20 AGAGCATTAGCTGAGAGGAGGCCGGTTTTCC 37 107 1 CGAGAGGAGG 0.973891 -21 CAATTTCGATTTAAAGGGAGGCTATGTGAC 40 92 1 TAAAGGGAGG 0.926538 -20 ACGGTGAAGCAATAATGGAGGAATGGTTGAC 41 61 1 ATAATGGAGG 0.856339 -234 CAAAAATAAAACCAAAGGAGGAGTCACATT 41 275 1 ACAAAGGAGG 0.880393 -20 TGCAATAAAACATAAGGGAGGAATGAAAG 44 9 0 CTAAGGGAGG 0.951867 -161 GTAGAAATGGTAGAATGGAGGTTGGAGATTT 44 125 1 TGAATGGAGG 0.859572 -45 TAAAATGAAAAAGAAAGGAGGGAA 47 24 1 AGAAAGGAGG 0.989469 -14 GCCGCTTAGTCCAAAAGGAGGTGCAAACAG 49 91 1 CAAAAGGAGG 0.984967 -20 CCTAGAGCAATTATAAGGAGGTTCACTGGAA 50 57 0 TATAAGGAGG 0.870903 -70 ATCACCGAACGGAGGGCGCGCGTGT 59 5 1 CGAACGGAGG 0.943482 -296 CAGAGCGAAGCGATGAGGAGGAGCAGGGCAA 72 24 1 CATGAGGAGG 0.911063 -69 GGGCCGCAAGCGATGAGGAGGAGTAGCGCTC 75 88 1 CATGAGGAGG 0.911063 -76 AGAGCGCAAGCGATGAGGAGGAGTAGCGCTC 75 142 1 CATGAGGAGG 0.911063 -22 TCAGCGTTGAACACGAGGAGGTC 80 3 0 AACGAGGAGG 0.843865 -159 AAACTGTTATCGATAAGGAGGACG 81 4 0 CATAAGGAGG 0.964715 -109 TCATTCACGCCCGGACGGAGGCCGGGCCCCA 85 123 1 CGGACGGAGG 0.836474 -93 * ********* Masking position 9 Map Score: 55.5444 Number of sites scoring better than the average of aligned sites = 385 Number in coding regions = 153 Number in noncoding regions = 232 Number of orfs with sites within 600 bp upstream = 263 Fraction of orfs with sites within 600 bp upstream = 0.0422422 Motif number 2 AGTATTCAAAGGCGGCCGCCGCCGTTACAG 1 144 1 GGCGGCCGCC 0.49264 -157 ACGCTTTAACCGCGCGGTTCCACTCTGTTT 1 206 0 CGCGCGGTTC 0.505279 -95 TATCTACGTGCGCCGGGGGGATCGGA 2 47 1 CGCCGGGGGG 0.893236 -16 CATGGCAAAGCGGCCGGGTGTGTCAGCAAC 19 150 0 CGGCCGGGTG 0.865191 -86 TTAGCTGAGAGGAGGCCGGTTTTCC 37 113 1 GGAGGCCGGT 0.535595 -15 CGGACTCCATCGAGGCGGTCAAGGCCGCGC 52 30 1 CGAGGCGGTC 0.888715 -271 GCATCGGCGGCGCGCCGTCGAGCGCGGCCT 52 51 0 CGCGCCGTCG 0.501135 -250 GAGCGGGTCGCGCGGCGGGGGCATCGGCGG 52 71 0 CGCGGCGGGG 0.925402 -230 GTGACCTCCTCGAGCGGGTCGCGCGGCGGG 52 82 0 CGAGCGGGTC 0.770215 -219 GGGCGGCCAACGCGGCCGTGACCTCCTCGA 52 99 0 CGCGGCCGTG 0.853015 -202 GGCGGTTTACCGGGCGGGGCGGCCAACGCG 52 115 0 CGGGCGGGGC 0.960835 -186 CCCGGTAAACCGCCGCGGGGGGATCAGCTT 52 131 1 CGCCGCGGGG 0.881415 -170 CCACCGGGGCCGCCCGGGCCCCCCGGTTCG 52 176 1 CGCCCGGGCC 0.522548 -125 TTGATCTGGCCGACCCGGGGCAAGTCCACC 52 241 0 CGACCCGGGG 0.945628 -60 CGCCGCGGTGAGGTACAGCG 52 291 0 CGCCGCGGTG 0.855645 -10 TGCGACGATCCGCGGCGTGTCGTGTGCGCA 54 50 0 CGCGGCGTGT 0.739118 -169 CGGCCACGGTCGATCCGTGGCAGGAGGGTC 54 169 0 CGATCCGTGG 0.5617 -50 TGTTCGCTGTCGGTGCGGTTACGTAGGCTC 55 31 1 CGGTGCGGTT 0.659321 -73 CGCCTGGGTTCGGCGGCTGGTCGTGTTCTT 55 68 0 CGGCGGCTGG 0.626984 -36 ACATGACACGCGCGCCCTCCGTTCGGTGAT 59 11 0 CGCGCCCTCC 0.46598 -290 CAACCCACTACGCCGGGGCTCACATGACAC 59 32 0 CGCCGGGGCT 0.764377 -269 AGAGCGGAACGGCTCGCGGGGTAGCTAGTA 59 265 1 GGCTCGCGGG 0.731304 -36 CCGGTGCGGCGTCGCGGGATT 63 2 1 CGGTGCGGCG 0.958268 -299 TAGCCTGGCCCGGTCCGGTCAGCCAAAACG 63 54 0 CGGTCCGGTC 0.819446 -247 CTCCTGCGTGGGTCGCCGGGATGCTCCCGG 63 138 0 GGTCGCCGGG 0.7772 -163 TAGGCCGGCGCGCGCCGGCGGTGCTGCCTC 63 171 0 CGCGCCGGCG 0.510751 -130 ACGCAGGAAGCGGTCGGGGCGTGGAACTAG 63 198 0 CGGTCGGGGC 0.896725 -103 CCGCTTCCTGCGTCGGGGCGTTCGTCGTTC 63 215 1 CGTCGGGGCG 0.821749 -86 GGGCGTTCGTCGTTCCCGGGTGGTCGCAGA 63 230 1 CGTTCCCGGG 0.889197 -71 TCGCGGCGAACGGGCCCGTGGGCACCGCTC 65 235 1 CGGGCCCGTG 0.925671 -66 TACGTGCATTCGCCCGGGCGACGACAGACC 67 72 1 CGCCCGGGCG 0.499078 -229 TGACATCAGACGCGGGGTGCCTGCCCGGCA 67 112 0 CGCGGGGTGC 0.822161 -189 GCTTTCCCCGCGCGCGGGCGGCCGCCCGCT 67 271 0 CGCGCGGGCG 0.511819 -30 TCAAAGCGGGCGTTGCGGCCGAAGCAGGGC 68 12 0 CGTTGCGGCC 0.876704 -237 CTGCCAGACTGGCGGCGGGTATTGTGGTTG 68 43 1 GGCGGCGGGT 0.861093 -206 GTAGGGGCGTGGATGCCGGGCCAATTCGCA 68 99 1 GGATGCCGGG 0.679365 -150 CACGGTTACCCGCGGCCGGGTGTGTCGCAT 68 174 0 CGCGGCCGGG 0.877316 -75 CGCGGGTAACCGTGGCGGGGCATGGCCGAC 68 190 1 CGTGGCGGGG 0.980761 -59 GGCCCGGTTACGACCGCGGCATAACTGAAA 70 162 1 CGACCGCGGC 0.786338 -69 TGGGACCGGACGCGCCCGTGTGGGCGCTGG 71 66 0 CGCGCCCGTG 0.884636 -235 ACCGGCCCCGCGCTCGGGCGTGTCGCCCGC 71 148 0 CGCTCGGGCG 0.86452 -153 CGCCCGAGCGCGGGGCCGGTGGACCTACGA 71 158 1 CGGGGCCGGT 0.917333 -143 GCGCGCCGATCGACCCGGTCCTTCTGGACC 71 228 0 CGACCCGGTC 0.770132 -73 GGTCGATCGGCGCGCCGGGGAGCACCGGAC 71 243 1 CGCGCCGGGG 0.951994 -58 GCCCGTATCCGGGTCCGGTGCTCCCCGGCG 71 255 0 GGGTCCGGTG 0.623111 -46 CGCTCTGCATCGTCGCCGGG 72 1 0 CGTCGCCGGG 0.941208 -92 CTCACGCTCTCGTCGCCGGGCTAGGCCGCA 72 55 0 CGTCGCCGGG 0.941208 -38 TCTCGACGATCGTGGGCGCTACCGCCAATC 74 31 1 CGTGGGCGCT 0.671885 -270 AAAGCTTATGCGCGCCGGCCGAGGTCTGCT 74 175 0 CGCGCCGGCC 0.552453 -126 TTTGCTTGGTCGGCCCCGCGTGCCCGTCGG 74 202 1 CGGCCCCGCG 0.828148 -99 CCATCCCTGACGTGCGCGGTCTTTGTCGCC 74 230 0 CGTGCGCGGT 0.703589 -71 CGCGCAGCGGCGAGGGGGCCGCAAGCGATG 75 73 1 CGAGGGGGCC 0.688323 -91 TAGCTCGCACCGTGGCGGCCCGGAACGGGC 77 26 1 CGTGGCGGCC 0.934572 -135 TGTCCCAATGCGACGCGGTGGTTGGGC 78 8 0 CGACGCGGTG 0.870354 -199 GACAGGGTAGCGAGCCCGGCGATGGCGTGC 78 34 1 CGAGCCCGGC 0.924639 -173 TCAACCGGCGCGCTGGCGGCACGCCATCGC 78 52 0 CGCTGGCGGC 0.907268 -155 CGGATGGTTCCGCTCGGGCCGATTCTGATG 78 99 1 CGCTCGGGCC 0.878688 -108 CTACTCAGATCGACGCCGCGGTGAATTTTA 78 153 0 CGACGCCGCG 0.496414 -54 CATCTCGGCGGGCTGCCGGTGCGCCAGTGC 79 35 0 GGCTGCCGGT 0.55846 -59 GACCCTGGACCGTTGCCTGGAATCGCATCG 80 39 1 CGTTGCCTGG 0.508706 -123 GTCTGCGCGTCGTGGCGGTGCGGAGTTTCC 80 115 0 CGTGGCGGTG 0.935923 -47 GAACCGATTTCGCGGGCTGGGCTGCACAA 82 49 1 CGCGGGCTGG 0.794489 -19 GGGGTACTCGGGGGGCGGCGCCCCCCGAGG 84 18 0 GGGGGCGGCG 0.888705 -134 CCGAGGGTTGGGTTGGGGGGTACTCGGGGG 84 34 0 GGTTGGGGGG 0.681385 -118 GGGGTACTCGGGGGGCGGCGCCCCCCGAGG 84 58 0 GGGGGCGGCG 0.888705 -94 GCGCCCCCGAGGGTGGGGGTACTCGGGGGG 84 73 0 GGGTGGGGGT 0.443863 -79 TGGGGGCACTCGGGGGCGGCGCCCCCGAGG 84 91 0 CGGGGGCGGC 0.948747 -61 TTCGGCGACGATGCGGGCCGCGTAGTGG 85 9 1 CGATGCGGGC 0.909871 -207 ATTTAGTTGTCGGGCCGTCCGGCTCCTCCT 85 43 0 CGGGCCGTCC 0.742986 -173 GCCCGGCCTCCGTCCGGGCGTGAATGAGCT 85 120 0 CGTCCGGGCG 0.833749 -96 CTTTGGGTGTGGGGCCCGGCCTCCGTCCGG 85 133 0 GGGGCCCGGC 0.848678 -83 CAGAGCACGGCGATGCGGGTAATGTGGGTT 87 76 1 CGATGCGGGT 0.766622 -178 TGTGGGTTGGCGGTGCGGTGTCCCGTGCCG 87 98 1 CGGTGCGGTG 0.909522 -156 TGCGGTGTCCCGTGCCGGTTTGGCGTGCCC 87 111 1 CGTGCCGGTT 0.682876 -143 ********** Masking position 2 Map Score: 96.2859 Number of sites scoring better than the average of aligned sites = 2691 Number in coding regions = 2499 Number in noncoding regions = 192 Number of orfs with sites within 600 bp upstream = 117 Fraction of orfs with sites within 600 bp upstream = 0.0187922 Motif number 3 AGTATTCAAAGGCGGCCGCCGCCGTTACAG 1 144 1 GGCGGCCGCC 0.495449 -157 TTGCCAAAACCCGTTCAGCGGGTTTTTTAT 5 49 1 CCGTTCAGCG 0.371428 -130 GCGCTCGACGGCGCGCCGCCGATGCCCCCG 52 56 1 GCGCGCCGCC 0.971805 -245 ACCTCCTCGAGCGGGTCGCGCGGCGGGGGC 52 79 0 GCGGGTCGCG 0.894058 -222 GTTTACCGGGCGGGGCGGCCAACGCGGCCG 52 111 0 CGGGGCGGCC 0.950602 -190 AAGCTGATCCCCCCGCGGCGGTTTACCGGG 52 131 0 CCCCGCGGCG 0.651044 -170 CGTCGCCCACCGGGGCCGCCCGGGCCCCCC 52 170 1 CGGGGCCGCC 0.973715 -131 TCCGGACGAACCGGGGGGCCCGGGCGGCCC 52 182 0 CCGGGGGGCC 0.986732 -119 CCCGGTTCGTCCGGACAGCCTGCCGGCCGG 52 197 1 CCGGACAGCC 0.884628 -104 GGACTTGCCCCGGGTCGGCCAGATCAACTG 52 244 1 CGGGTCGGCC 0.913712 -57 CGCGGTTGGCCCCTACGAGGT 53 2 1 GCGGTTGGCC 0.843685 -30 GATAGGCCTCGCCGTTCGCGACACTGACAT 54 20 1 GCCGTTCGCG 0.57397 -199 CAGGCTTAACCCGGTGCGACGATCCGCGGC 54 64 0 CCGGTGCGAC 0.7541 -155 CCGGTGCGGCGTCGCGGGAT 63 1 1 CCGGTGCGGC 0.720482 -300 CTGGCCCGGTCCGGTCAGCCAAAACGGCGA 63 50 0 CCGGTCAGCC 0.964427 -251 CCGGGAGCATCCCGGCGACCCACGCAGGAG 63 138 1 CCCGGCGACC 0.541635 -163 GGCAGCACCGCCGGCGCGCGCCGGCCTAGT 63 173 1 CCGGCGCGCG 0.835775 -128 CGCAACTAAACCGCTGAGCCGCAAACTGGG 65 157 0 CCGCTGAGCC 0.844395 -144 TGCCCACGGGCCCGTTCGCCGCGATAATTT 65 229 0 CCCGTTCGCC 0.904476 -72 GTGCATTCGCCCGGGCGACGACAGACCTGA 67 75 1 CCGGGCGACG 0.516405 -226 GACATCAGACGCGGGGTGCCTGCCCGGCAA 67 111 0 GCGGGGTGCC 0.82927 -190 AGCTGCCATGGCGGTTCGCCCTTCGGTTGG 67 224 0 GCGGTTCGCC 0.941206 -77 AGCACCGTCAGCGGGCGGCCGCCCGCGCGC 67 262 1 GCGGGCGGCC 0.979157 -39 TGCGAATTGGCCCGGCATCCACGCCCCTAC 68 99 0 CCCGGCATCC 0.517101 -150 ATGCGACACACCCGGCCGCGGGTAACCGTG 68 174 1 CCCGGCCGCG 0.870065 -75 GAAGCGCCGGTTAGCCAGCCAGGGCG 69 7 1 CCGGTTAGCC 0.855215 -74 TCGCCTAGTCGCCCGTCGCCTTCGCTGTAC 70 44 0 GCCCGTCGCC 0.691291 -187 TGTTCAGGTTGCCCTGCGCCAGGTTTGCGT 71 20 1 GCCCTGCGCC 0.817864 -281 CCGCGCTCGGGCGTGTCGCCCGCACACAGC 71 141 0 GCGTGTCGCC 0.707814 -160 ACACGCCCGAGCGCGGGGCCGGTGGACCTA 71 155 1 GCGCGGGGCC 0.904731 -146 GACCGATCTAGCGTTGCGCCGAATACTGCG 71 202 0 GCGTTGCGCC 0.824476 -99 CCGGTGCTCCCCGGCGCGCCGATCGACCCG 71 241 0 CCGGCGCGCC 0.948577 -60 GTATCCGGGTCCGGTGCTCCCCGGCGCGCC 71 251 0 CCGGTGCTCC 0.886116 -50 ACCGGATTGGCGGTAGCGCCCACGATCGTC 74 35 0 CGGTAGCGCC 0.362231 -266 GACGGGCACGCGGGGCCGACCAAGCAAAGC 74 200 0 CGGGGCCGAC 0.615498 -101 GCCCCGCGTGCCCGTCGGCGACAAAGACCG 74 214 1 CCCGTCGGCG 0.801601 -87 GGCCCCCTCGCCGCTGCGCGTCTGGGGGTA 75 63 0 CCGCTGCGCG 0.887165 -101 CTGGCCCGTTCCGGGCCGCCACGGTGCGAG 77 29 0 CCGGGCCGCC 0.996117 -132 CAAGATGACCCCGGGCTGCGCAGGAGGATA 77 139 1 CCGGGCTGCG 0.762434 -22 CCCGGCGATGGCGTGCCGCCAGCGCGCCGG 78 48 1 GCGTGCCGCC 0.917343 -159 GATGGGGTCACCCGTGATCCGGATGGTTCC 78 80 1 CCCGTGATCC 0.311489 -127 GCGGGCCTCCTCGGGTATCG 78 197 0 GCGGGCCTCC 0.904791 -10 CAGCCCGAGCCGTCAGCCTAGGGCGCAC 79 9 1 GCCGTCAGCC 0.810229 -85 CGGCGGGCTGCCGGTGCGCCAGTGCGCCCT 79 30 0 CCGGTGCGCC 0.991395 -64 CGGGGAAACTCCGCACCGCCACGACGCGCA 80 112 1 CCGCACCGCC 0.908773 -50 CCCAACCCTCGGGGGGCGCCGCCCCCCGAG 84 12 1 GGGGGGCGCC 0.958728 -140 CCCAACCCTCGGGGGGCGCCGCCCCCCGAG 84 52 1 GGGGGGCGCC 0.958728 -100 CCCCCACCCTCGGGGGCGCCGCCCCCGAGT 84 84 1 CGGGGGCGCC 0.979028 -68 CGGCGACGATGCGGGCCGCGTAGTGGTCCG 85 13 1 GCGGGCCGCG 0.973313 -203 CGAGGAGGAGCCGGACGGCCCGACAACTAA 85 41 1 CCGGACGGCC 0.931395 -175 GGGTGTGGGGCCCGGCCTCCGTCCGGGCGT 85 129 0 CCCGGCCTCC 0.848346 -87 CGGAATAGCACCGGTGAGCCGAGCGGTTAG 87 18 0 CCGGTGAGCC 0.956399 -236 CGGTGCTATTCCGGTGAGCGCGTGGCCTAC 87 35 1 CCGGTGAGCG 0.858174 -219 CCCACATTACCCGCATCGCCGTGCTCTGCG 87 74 0 CCGCATCGCC 0.68462 -180 GCACGGGACACCGCACCGCCAACCCACATT 87 96 0 CCGCACCGCC 0.908773 -158 GCGCCGGAATCGGGTGCACCGACAAGGAAG 87 214 1 CGGGTGCACC 0.516909 -40 ********** Masking position 9 Map Score: 80.5781 Number of sites scoring better than the average of aligned sites = 1780 Number in coding regions = 1644 Number in noncoding regions = 136 Number of orfs with sites within 600 bp upstream = 83 Fraction of orfs with sites within 600 bp upstream = 0.0133312 Motif number 4 CAGCCTGTAACGGCGGCGGCCGCCTTTGAATACT 1 144 0 CGGCGCCGCC 0.915623 -157 TAAAACAGACGGCCTGAAGCCGCCCATT 40 5 0 GGCCGCCGCC 0.971894 -107 CAAGATAAAACGTCTTATCCGGCCTTTTGGCGTC 43 50 1 CGTCTCGGCC 0.858374 -99 ATTGCTCCTTGCCCATTATGGGCCGCTTAGTCCA 49 70 1 GCCCTGGGCC 0.850543 -41 GGCGGCGCGCCGTCGAGCGCGGCCTTGACCGCCT 52 42 0 CGTCACGGCC 0.866558 -259 CGAGCGGGTCGCGCGGCGGGGGCATCGGCGGCGC 52 68 0 GCGCGGGGCA 0.412817 -233 CCGGGCGGGGCGGCCAACGCGGCCGTGACCTCCT 52 102 0 CGGCACGGCC 0.671723 -199 TGGCAGACGTCGCCCACCGGGGCCGCCCGGGCCC 52 163 1 CGCCAGGGCC 0.920744 -138 CCGCCCGGGCCCCCCGGTTCGTCCGGACAGCCTG 52 185 1 CCCCGCGTCC 0.79937 -116 GCAAGTCCACCCTCGGTTGGGGCAGCCGGCCGGC 52 218 0 CCTCGGGGCA 0.850711 -83 GGGTGGACTTGCCCCGGGTCGGCCAGATCAACTG 52 240 1 GCCCGCGGCC 0.6227 -61 CGATAGGCCTCGCCGTTCGCGACACTGACATTGC 54 19 1 CGCCTCGACA 0.247315 -200 GCAGGAGGGTCGCCTGCGTCGGCAACTCGCCCAG 54 146 0 CGCCGCGGCA 0.941222 -73 CACCTCCTGTGGTCGTGTGCGGCCACGGTCGATC 54 184 0 GGTCTCGGCC 0.729391 -35 AATTTCCTCCTGCGTCCGCCTGGGTTCGGC 55 84 0 CTCCGCCGCC 0.643771 -20 GAGCCGTTCCGCTCTGGTGGGGCACCTTCCAGTG 59 246 0 GCTCGGGGCA 0.696448 -55 GCTGGCCCTCCCACGGGTAGGGCC 62 1 0 CCACGGGGCC 0.9074 -66 CCCGTGGGAGGGCCAGCTTCGGCCCGCTGAGTAA 62 18 1 GGCCGCGGCC 0.937697 -49 CGTTTTGGCTGACCGGACCGGGCCAGGCTATTGT 63 54 1 GACCGGGGCC 0.681966 -247 CTGCGTGGGTCGCCGGGATGCTCCCGGACCTTCA 63 131 0 CGCCGGCTCC 0.883744 -170 GAGGCAGCACCGCCGGCGCGCGCCGGCCTAGTTC 63 171 1 CGCCGGCGCC 0.972253 -130 TACGACGTGCCGTCTGCGACCACCCGGGAACGAC 63 238 0 CGTCGCCACC 0.816802 -63 GCACGTCGTACCCCGACTGCCACCAGACTTGCAC 63 262 1 CCCCACCACC 0.48446 -39 CAGTACCCCACACCAGGAAGGACCGCCCATC 64 16 1 CACCGGGACC 0.50917 -21 GTCGAGATCGCCAGCTAGCGCCGATATCCGGG 65 9 1 CGCCGGCGCC 0.991544 -292 TACTTCCTGCCCACCTCACCCGCCACTTGACACC 65 107 1 CCACTCCGCC 0.488125 -194 CTTAGTCTGAGCCCAGTTTGCGGCTCAGCGGTTT 65 146 1 GCCCGGCGGC 0.804502 -155 GCGATAATTTTGTCGGTTTCGGCCGGCGAACGAT 65 205 0 TGTCGCGGCC 0.539941 -96 GCGGCGAACGGGCCCGTGGGCACCGCTCCTCTAA 65 237 1 GGCCGGCACC 0.856013 -64 CCGCAAGCACCGTCAGCGGGCGGCCGCCCGCGCG 67 257 1 CGTCGGCGGC 0.874003 -44 AGCGGGCGGCCGCCCGCGCGCGGGGAAAGCGGTG 67 271 1 CGCCGGCGGG 0.692164 -30 CGCCCTGCTTCGGCCGCAACGCCCG 68 2 1 GCCCGCGGCC 0.939955 -247 CAGTCTGGCAGGTCAAAGCGGGCGTTGCGGCCGA 68 20 0 GGTCAGGGCG 0.333138 -229 GCACGAGCAACCACAATACCCGCCGCCAGTCTGG 68 46 0 CCACACCGCC 0.465161 -203 AAGCGTAAGCCGCCAGGCACGAGCAACCACAATA 68 62 0 CGCCGCGAGC 0.67028 -187 TCTGTTTGTCGGCCATGCCCCGCCACGGTTACCC 68 193 0 GGCCTCCGCC 0.843638 -56 TGTCTATCACTGTCGGTTTGCGCCCTGGCTGGCT 69 23 0 TGTCGGCGCC 0.602582 -58 GAGTAGGCTGGCCCGGTTACGACCGCGGCATAAC 70 153 1 GCCCGCGACC 0.610246 -78 GCCAGGTTTGCGTCTGGCCGGGCATACGACCAGC 71 37 1 CGTCGGGGCA 0.901915 -264 GGACCGGACGCGCCCGTGTGGGCGCTGGTCGTAT 71 60 0 CGCCGGGGCG 0.54909 -241 CACACGGGCGCGTCCGGTCCCACCCTTGAAGCGC 71 74 1 CGTCGCCACC 0.815635 -227 CCTTGAAGCGCGACGATTTCGGCCTTGAAATTGA 71 97 1 CGACACGGCC 0.61767 -204 GCGGGCGACACGCCCGAGCGCGGGGCCGGTGGAC 71 148 1 CGCCGGCGGG 0.692164 -153 CGATCGACCCGGTCCTTCTGGACCGATCTAGCGT 71 218 0 GGTCTGGACC 0.281901 -83 TCGATCGGCGCGCCGGGGAGCACCGGACCCGGAT 71 245 1 CGCCGGCACC 0.935496 -56 ACGCTCTCGTCGCCGGGCTAGGCCGCATTGCCCT 72 48 0 CGCCGAGGCC 0.53699 -45 GGGTTGATCTGCCCTGGTGGGGCGGACTCACATT 74 89 1 GCCCGGGGCG 0.850679 -212 CGTGAGCAGACCTCGGCCGGCGCGCATAAGCTTT 74 171 1 CCTCGGCGCG 0.817564 -130 ACTGCATCGTCGTCAGCGCGGTCATATGTTCTAG 75 24 0 CGTCGGGTCA 0.378355 -140 AGTGGGGGTACCCCCAGACGCGCAGCGGCGAGGG 75 55 1 CCCCAGCGCA 0.599758 -109 TCTGCATCGTCGTCAGCGCGGTCATCGAGCGCTA 75 111 0 CGTCGGGTCA 0.378355 -53 CACCGTGGCGGCCCGGAACGGGCCAGTCCATACC 77 33 1 GCCCGGGGCC 0.527241 -128 CCAGGACGTACGGCGTCGCGCGCCAAATCGTGTA 77 81 0 CGGCTGCGCC 0.699495 -80 TGCAAGATGACCCCGGGCTGCGCAGGAGGATAGA 77 137 1 CCCCGGCGCA 0.912918 -24 GCTGGCGGCACGCCATCGCCGGGCTCGCTACCCT 78 37 0 CGCCTCGGGC 0.698317 -170 TCACGGGTGACCCCATCAACCGGCGCGCTGGCGG 78 63 0 CCCCTCCGGC 0.539712 -144 AGTTTTCACGCATCAGAATCGGCCCGAGCGGAAC 78 105 0 CATCGCGGCC 0.712794 -102 ACCGGCAGCCCGCCGAGATGGGGCTGCGTTGACA 79 45 1 CGCCAGGGGC 0.569015 -49 ACCCAACCCTCGGGGGGCGCCGCCCCCCGAG 84 8 1 CCTCGGCGCC 0.967118 -144 CCAACCCAACCCTCGGGGGGCGCCGCCCCCCGAG 84 48 1 CCTCGGCGCC 0.967118 -104 CGCCATATGACGTCTGTGGGGGCACTCGGGGGCG 84 103 0 CGTCGGGGCA 0.903718 -49 TTCGGCGACGATGCGGGCCGCGTAGTGGT 85 6 1 CGACAGGGCC 0.564424 -210 GTTGTCGGGCCGTCCGGCTCCTCCTCGGACCACT 85 34 0 CGTCGCCTCC 0.696596 -182 TGGGGCCCGGCCTCCGTCCGGGCGTGAATGAGCT 85 120 0 CCTCGGGGCG 0.665929 -96 TGTAGTCCGAGCACGTGCTGCGCCGGAATCGGGT 87 195 1 GCACTGCGCC 0.344323 -59 **** * ***** Masking position 4 Map Score: 99.2743 Number of sites scoring better than the average of aligned sites = 1461 Number in coding regions = 1347 Number in noncoding regions = 114 Number of orfs with sites within 600 bp upstream = 64 Fraction of orfs with sites within 600 bp upstream = 0.0102795 Motif number 5 AGCCTGTAACGGCGGCGGCCGCCTTTGAATACT 1 144 0 GGGGCGCGCC 0.526774 -157 GGGGAGGGAAGGACTGGACAGTCCTGAATAGA 5 157 1 GGCTGGCGTC 0.920725 -22 TAGACAGTAGGGGCCTAACCGCTTAATTATCCT 8 77 1 GGCCTACGCT 0.701626 -175 ATCTAAAGAAGGGCGGGACAGTTTCTAACTGGA 37 27 1 GGCGGGCGTT 0.868764 -101 AGCCTTCGGCGGTCCGATCAGCTGCCCAATTGT 38 257 0 GGCCGACGCT 0.874575 -44 ACCTCCTTTTGGACTAAGCGGCCCATAATGGGC 49 80 0 GGCTAACGCC 0.754791 -31 AGAGGTGAAGGGTCTTGGCGGATAAAGACTTTG 51 40 1 GGCTTGCGAT 0.222424 -261 GCATCCATGCGGAGCGAACAGCTGGAAAATTAT 51 104 1 GGGCGACGCT 0.784438 -197 CGTCGAGCGCGGCCTTGACCGCCTCGATGGAGT 52 33 0 GGCTTGCGCC 0.823453 -268 ACCCGCTCGAGGAGGTCACGGCCGCGTTGGCCG 52 93 1 GGGGTCCGCC 0.761013 -208 GCGGTTTACCGGGCGGGGCGGCCAACGCGGCCG 52 111 0 GGCGGGCGCC 0.865561 -190 AAACCGCCGCGGGGGGATCAGCTTGGTGGCAGA 52 137 1 GGGGGACGCT 0.871898 -164 CGAACCGGGGGGCCCGGGCGGCCCCGGTGGGCG 52 173 0 GGCCGGCGCC 0.975248 -128 CCCCCCGGTTCGTCCGGACAGCCTGCCGGCCGG 52 194 1 CGCCGGCGCC 0.911729 -107 ACCCTCGGTTGGGGCAGCCGGCCGGCAGGCTGT 52 211 0 GGGCAGCGCC 0.855146 -90 AAATGGATACGGCGTTCGCTGTACCTCACCGCG 52 275 1 GGGTTCCGTA 0.11466 -26 AGTGCGGTGGTGCCTGGTCGGCATTTTCGCAGT 54 95 1 TGCTGGCGCA 0.275754 -124 GGCCTGGTCTGGTCTTGCCTGCCAACCGCGAAG 59 67 1 GGCTTGCGCC 0.973272 -234 CTCCTCTTCAGGCCGTGCCTGCATCGTCGTCGA 59 185 0 GGCGTGCGCA 0.873592 -116 CAGCCTGTGTGGCCTGCCCTGCTGGG 61 4 0 GGCTGCCGCT 0.935127 -48 CCCTACCCGTGGGAGGGCCAGCTTCGGCCCGCT 62 13 1 GGAGGGCGCT 0.646211 -54 AGCCTGGCCCGGTCCGGTCAGCCAAAACGGCGA 63 50 0 GGCCGGCGCC 0.989484 -251 CCACGCAGGAGGACGAGGCAGCACCGCCGGCGC 63 157 1 GGCGAGCGCA 0.798017 -144 ACATCAGACGCGGGGTGCCTGCCCGGCAAATGC 67 107 0 CGGGTGCGCC 0.76863 -194 CCCTTCGGTTGGGGTGATCGGCTTTGGGTCCGC 67 203 0 GGGTGACGCT 0.807726 -98 ACGGTGCTTGCGGCTGAGCTGCCATGGCGGTTC 67 237 0 CGCTGACGCC 0.71515 -64 GCTTTCCCCGCGCGCGGGCGGCCGCCCGCTGAC 67 268 0 CGGCGGCGCC 0.842876 -33 GGACTTCACCGCTTTCCCCGCGC 67 288 0 GGCTTCCGCT 0.830448 -13 AGGTCAAAGCGGGCGTTGCGGCCGAAGCAGGGC 68 12 0 GGCGTTCGCC 0.714939 -237 CTTGATGTAGGGGCGTGGATGCCGGGCCAATTC 68 93 1 GGCGTGAGCC 0.528873 -156 CCCCGCGCTCGGGCGTGTCGCCCGCACACAGCC 71 140 0 GGCGTGCCCC 0.587109 -161 TCTCGTCGCCGGGCTAGGCCGCATTGCCCTGCT 72 45 0 GGCTAGCGCA 0.709154 -48 TGATCGACATGGGTTGATCTGCCCTGGTGGGGC 74 79 1 GGTTGACGCC 0.403228 -222 AGCTTTGCTTGGTCGGCCCCGCGTGCCCGTCGG 74 199 1 GGCGGCCGCG 0.74187 -102 GTGCACGGTAGGAGGAGCCAGCCAGGACCATCC 74 254 0 GGGGAGCGCC 0.9169 -47 CAGCTGGTATGGACTGGCCCGTTCCGGGCCGCC 77 39 0 GGCTGGCGTT 0.803369 -122 CGGCGTTGTCCGTCTTCGGCTCGA 82 2 1 GGGTTGCGTC 0.671231 -66 CCGATTTCGCGGGCTGGGCTGCACAA 82 52 1 GGCTGGCGCA 0.947711 -16 CCCAACCCTCGGGGGGCGCCGCCCCCCGAGTAC 84 12 1 GGGGGCCGCC 0.815074 -140 CCCAACCCTCGGGGGGCGCCGCCCCCCGAGTAC 84 52 1 GGGGGCCGCC 0.815074 -100 GGGCACTCGGGGGCGGCGCCCCCGAGGGTGGGG 84 85 0 GGCGGCCCCC 0.659377 -67 TTTAGTTGTCGGGCCGTCCGGCTCCTCCTCGGA 85 39 0 GGCCGTCGCT 0.65964 -177 GTGCCGGTTTGGCGTGCCCAGTTTTGAAAATTT 87 122 1 GGGTGCCGTT 0.44753 -132 ** **** * *** Masking position 2 Map Score: 54.2673 Number of sites scoring better than the average of aligned sites = 898 Number in coding regions = 812 Number in noncoding regions = 86 Number of orfs with sites within 600 bp upstream = 63 Fraction of orfs with sites within 600 bp upstream = 0.0101189 Motif number 6 TATATGGAATCCGTCGTCTCAGTCGTGATC 8 186 1 CCGTCGTCTC 0.887875 -66 TTTTTAGATTCGTTCTTCTCATAGAGTGAC 13 74 0 CGTTCTTCTC 0.0556323 -107 CGGATTTCCCCCGTCCTCTCTTTATTAAGA 31 34 0 CCGTCCTCTC 0.912871 -21 TGAAAAACATCTGTCTTCGGAATT 32 5 0 CTGTCTTCGG 0.536521 -296 ACGCTTTTCTCCGTCTGCTGTTAGTACATT 32 119 0 CCGTCTGCTG 0.89007 -182 AAAATAAAAACCGTCTGCTCTATTCGACCA 41 242 0 CCGTCTGCTC 0.938461 -53 GCTAAGCACCGTCCTCTCATTAAAAAAT 44 152 0 CCGTCCTCTC 0.912871 -18 CGCCGTCTTCTCCTTACCTTCT 51 289 0 CCGTCTTCTC 0.927474 -12 TACCTATGGTCCGTCTCCTCTTCAGGCCGT 59 202 0 CCGTCTCCTC 0.876131 -99 GGTTTTCAGTCCTCTCTGTCACTCTC 60 16 0 CAGTCCTCTC 0.258025 -16 CGGTGACCGACGGTCTTCGGTGGATCGGCA 63 91 0 CGGTCTTCGG 0.774054 -210 CGAGGCAGCACCGCCGGCGCGCGCCGGCCT 63 170 1 CCGCCGGCGC 0.862804 -131 GTACGACGTGCCGTCTGCGACCACCCGGGA 63 243 0 CCGTCTGCGA 0.766139 -58 GCACTCAGGTCTGTCGTCGCCCGGGCGAAT 67 79 0 CTGTCGTCGC 0.57445 -222 GGGTCCGCACCGGTCTTCGGGGGACGTTAG 67 181 0 CGGTCTTCGG 0.774054 -120 GCCGCAAGCACCGTCAGCGGGCGGCCGCCC 67 256 1 CCGTCAGCGG 0.654204 -45 CAGCGGGCGGCCGCCCGCGCGCGGGGAAAG 67 270 1 CCGCCCGCGC 0.913168 -31 TGCGACACACCCGGCCGCGGGTAACCGTGG 68 175 1 CCGGCCGCGG 0.793143 -74 TAGTCGCCCGTCGCCTTCGCTGTACCCATT 70 39 0 TCGCCTTCGC 0.626462 -192 TCACTAGCGGTCGTCTTCGCATCGCCTAGT 70 65 0 TCGTCTTCGC 0.851157 -166 TACTCGCCAGTCGCCTTCGCGCTGCTCATT 70 110 0 TCGCCTTCGC 0.626462 -121 CGTAGGTCCACCGGCCCCGCGCTCGGGCGT 71 157 0 CCGGCCCCGC 0.831443 -144 TCGCTCTGCATCGTCGCCGGG 72 2 0 TCGTCGCCGG 0.504798 -91 TCTCACGCTCTCGTCGCCGGGCTAGGCCGC 72 56 0 TCGTCGCCGG 0.504798 -37 CCCCGCGTGCCCGTCGGCGACAAAGACCGC 74 215 1 CCGTCGGCGA 0.662603 -86 AAGATGACCCCGGGCTGCGCAGGAGGATAG 77 140 1 CGGGCTGCGC 0.692909 -21 GTTACCAAGATCGTCTGCGCGTCGTGGCGG 80 127 0 TCGTCTGCGC 0.872112 -35 CGGCGTTGTCCGTCTTCGGCTCGATATCG 82 10 1 CCGTCTTCGG 0.951853 -58 GTCGGGCCGTCCGGCTCCTCCTCGGACCAC 85 35 0 CCGGCTCCTC 0.674729 -181 GGCCCGGCCTCCGTCCGGGCGTGAATGAGC 85 121 0 CCGTCCGGGC 0.589223 -95 ACCCGCATCGCCGTGCTCTGCGCAAAACGC 87 66 0 CCGTGCTCTG 0.179853 -188 ********** Masking position 3 Map Score: 23.9542 Number of sites scoring better than the average of aligned sites = 1085 Number in coding regions = 1023 Number in noncoding regions = 62 Number of orfs with sites within 600 bp upstream = 43 Fraction of orfs with sites within 600 bp upstream = 0.00690652 Motif number 7 AAGGTCTTAAGGGCGCACTTCTAAAACCCG 1 93 0 GGGCGCACTT 0.618826 -208 TACGTGCGCCGGGGGGATCGGA 2 51 1 GGGGGGATCG 0.899231 -12 GTCGCGCGGCGGGGGCATCGGCGGCGCGCC 52 65 0 GGGGGCATCG 0.956305 -236 AAACCGCCGCGGGGGGATCAGCTTGGTGGC 52 137 1 GGGGGGATCA 0.320507 -164 CGGACGAACCGGGGGGCCCGGGCGGCCCCG 52 180 0 GGGGGGCCCG 0.871816 -121 TCCGCTCTGGTGGGGCACCTTCCAGTGTCC 59 243 0 TGGGGCACCT 0.500719 -58 TTGAAGGTCCGGGAGCATCCCGGCGACCCA 63 130 1 GGGAGCATCC 0.478654 -171 CTTCCTGGTGTGGGGTACTGGGTGA 64 6 0 TGGGGTACTG 0.383291 -31 GAACGGGCCCGTGGGCACCGCTCCTCTAAG 65 242 1 GTGGGCACCG 0.941462 -59 CCGAAGACCGGTGCGGACCCAAAGCCGATC 67 191 1 GTGCGGACCC 0.502137 -110 CCCAACCGAAGGGCGAACCGCCATGGCAGC 67 223 1 GGGCGAACCG 0.734787 -78 ACGCGCCCGTGTGGGCGCTGGTCGTATGCC 71 57 0 GTGGGCGCTG 0.631493 -244 GCGCTTCAAGGGTGGGACCGGACGCGCCCG 71 78 0 GGTGGGACCG 0.81438 -223 CGGCGCGCCGGGGAGCACCGGACCCGGATA 71 250 1 GGGAGCACCG 0.934249 -51 TGCCCTGGTGGGGCGGACTCACATTAGCGA 74 98 1 GGGCGGACTC 0.792802 -203 CTGCGCGTCTGGGGGTACCCCCACTGCATC 75 50 0 GGGGGTACCC 0.942373 -114 GCCGGTTGATGGGGTCACCCGTGATCCGGA 78 73 1 GGGGTCACCC 0.744419 -134 CGTCAGCCTAGGGCGCACTGGCGCACCGGC 79 21 1 GGGCGCACTG 0.945632 -73 ACAACAGCTAGGTGGCACTGTACCGTCGAC 81 48 0 GGTGGCACTG 0.781366 -65 CCAACCCTCGGGGGGCGCCGCCCCCCGAGT 84 13 1 GGGGGCGCCG 0.964204 -139 GGTTGGGTTGGGGGGTACTCGGGGGGCGGC 84 29 0 GGGGGTACTC 0.851289 -123 CCAACCCTCGGGGGGCGCCGCCCCCCGAGT 84 53 1 GGGGGCGCCG 0.964204 -99 CCCCGAGGGTGGGGGTACTCGGGGGGCGGC 84 69 0 GGGGGTACTC 0.851289 -83 CCCCACCCTCGGGGGCGCCGCCCCCGAGTG 84 85 1 GGGGGCGCCG 0.964204 -67 TGACGTCTGTGGGGGCACTCGGGGGCGGCG 84 100 0 GGGGGCACTC 0.96737 -52 CGCCGGAATCGGGTGCACCGACAAGGAAGA 87 215 1 GGGTGCACCG 0.861814 -39 ********** Masking position 5 Map Score: 29.4162 Number of sites scoring better than the average of aligned sites = 187 Number in coding regions = 166 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 18 Fraction of orfs with sites within 600 bp upstream = 0.0028911 Motif number 8 CCAGTCCTTCCCTCCCCGCATTTGGTTTTA 5 144 0 CCTCCCCGCA 0.796575 -35 ACAGTAGGGGCCTAACCGCTTAATTATCCT 8 80 1 CCTAACCGCT 0.927901 -172 CAACCTCTCACTTCATCGCAGTCAAAGACC 19 124 0 CTTCATCGCA 0.756906 -112 CAGTCATTTGCCTCATAGCT 39 94 1 CCTCATAGCT 0.704901 -10 TCCATTATTGCTTCACCGTTTATGATATAA 41 50 0 CTTCACCGTT 0.704901 -245 CGCCAAGACCCTTCACCTCTTTTCCTAAAC 51 30 0 CTTCACCTCT 0.704901 -271 GTTCGCTGTACCTCACCGCGGCG 52 288 1 CCTCACCGCG 0.974621 -13 ACGCACGCAACTAAACCGCTGAGCCGCAAA 65 162 0 CTAAACCGCT 0.460991 -139 GGACTTCACCGCTTTCCCCGCGC 67 288 0 CTTCACCGCT 0.97515 -13 CCCTGCTCCTCCTCATCGCTTCGCTCTGCA 72 22 0 CCTCATCGCT 0.97515 -71 CTTGCGGCCCCCTCGCCGCTGCGCGTCTGG 75 68 0 CCTCGCCGCT 0.945879 -96 CGCTACTCCTCCTCATCGCTTGCGGCCCCC 75 86 0 CCTCATCGCT 0.97515 -78 CGCTACTCCTCCTCATCGCTTGCGCTCTGC 75 140 0 CCTCATCGCT 0.97515 -24 GTAGCAAAGTCCACACCGCGATACCCGAGG 78 179 1 CCACACCGCG 0.878144 -28 ********** Masking position 1 Map Score: 11.0673 Number of sites scoring better than the average of aligned sites = 150 Number in coding regions = 139 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 9 AGCATTTTCAGCTTGCCAATCCCTTTGA 50 6 0 GCTTGCCACC 0.810764 -121 GGCCGCGTTGGCCGCCCCGCCCGGTAAACCGCC 52 112 1 GCCGCCCGCG 0.84312 -189 GCCCACCGGGGCCGCCCGGGCCCCCCGGTTCGT 52 174 1 GCCGCCCGCC 0.990541 -127 CGGACAGCCTGCCGGCCGGCTGCCCCAACCGAG 52 208 1 GCCGGCCGTC 0.979573 -93 CTGCGAAAATGCCGACCAGGCACCACCGCACTC 54 94 0 GCCGACCGCC 0.911247 -125 TCGGCCTGCCAGGCACTGGCTGTTCG 55 4 1 GCCTGCCGCC 0.974923 -100 GTCTGGTCTTGCCTGCCAACCGCGAAGGGGCGT 59 73 1 GCCTGCCACC 0.968871 -228 GCCGGCGCGCGCCGGCCTAGTTCCACGCCCCGA 63 182 1 GCCGGCCATC 0.975365 -119 GCTGGCTACTTCCTGCCCACCTCACCCGCCACT 65 101 1 TCCTGCCACC 0.52967 -200 CAGATCGTTCGCCGGCCGAAACCGACAAAATTA 65 202 1 GCCGGCCAAC 0.935459 -99 GAGTGCATTTGCCGGGCAGGCACCCCGCGTCTG 67 103 1 GCCGGGCGCC 0.964686 -198 TCAGCGGGCGGCCGCCCGCGCGCGGGGAAAGCG 67 269 1 GCCGCCCCCC 0.924128 -32 GGGCGTGGATGCCGGGCCAATTCGCATGTCCGC 68 103 1 GCCGGGCATC 0.856328 -146 TGGTCGTATGCCCGGCCAGACGCAAACCTGGCG 71 36 0 CCCGGCCGCC 0.906813 -265 CGCTCTCGTCGCCGGGCTAGGCCGCATTGCCCT 72 48 0 GCCGGGCAGC 0.771435 -45 GCTTATGCGCGCCGGCCGAGGTCTGCTCACGGC 74 169 0 GCCGGCCAGC 0.957299 -132 GGTAGGAGGAGCCAGCCAGGACCATCCCTGACG 74 248 0 GCCAGCCGAC 0.627905 -53 CGCCGGGCTCGCTACCCTGTCCCAATGCGACGC 78 22 0 GCTACCCGCC 0.573331 -185 CGCTGTCAACGCAGCCCCATCTCGGCGGGCTGC 79 49 0 GCAGCCCACC 0.778172 -45 ATGCAACCAGGCTTCCCTATCGCTGTCAACGCA 79 69 0 GCTTCCCACC 0.71205 -25 GGGGGGCGCCGCCCCCCGAGTACCCCCCAACCC 84 22 1 GCCCCCCATC 0.767146 -130 GGGGGGCGCCGCCCCCCGAGTACCCCCACCCTC 84 62 1 GCCCCCCATC 0.767146 -90 TAGTTGTCGGGCCGTCCGGCTCCTCCTCGGACC 85 37 0 GCCGTCCGTC 0.736699 -179 GCGTGAATGAGCTGGCCCATCTCCATCGATGCC 85 100 0 GCTGGCCACC 0.952374 -116 ******* * * * Masking position 7 Map Score: 31.4063 Number of sites scoring better than the average of aligned sites = 326 Number in coding regions = 289 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 10 TCTTCACTTACCTGTAGGGGAAGC 10 1 1 TCTTCTTCCG 0.6568 -89 TGAAAGAAAGCTTTCACTTCCTCATCTTACAATA 17 43 0 CTTTCTTCTA 0.680644 -77 TGAAAGCTTTCTTTCACTTCCTATCACTCTATAC 17 61 1 CTTTCTTCTT 0.680644 -59 ATAATTACCTCCTTCCCTTTCTTGGGGA 27 5 0 CCTTCTTCTG 0.980748 -27 TTTCCAACCTCCTTCAGTTTCCGGAGTGCT 33 7 0 CCTTCTTCCG 0.956341 -27 GAGTGTCTATCTTTCCGTTTCTTGATTTGCAGTT 56 18 0 CTTTCTTCTG 0.956025 -24 CGCATGCTCCTTCGTTTACTAGCTACCCCGCG 59 279 0 CCTTCTTCTG 0.980748 -22 TCTTCCCACTCTTTCGGTTGCTAGTTAGCTGTCT 69 52 0 CTTTCTTCTG 0.956025 -29 CTGTAACCCCTTCGATAGCTCGCACCGTGGCG 77 9 1 CCTTCTACTG 0.877574 -152 TTCTGGCGATCCTTCTCTTCCTTGTCGGTGCACC 87 226 0 CCTTCTTCTG 0.980748 -28 ***** ** ** * Masking position 8 Map Score: 6.04329 Number of sites scoring better than the average of aligned sites = 61 Number in coding regions = 49 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 14 Fraction of orfs with sites within 600 bp upstream = 0.00224863 Motif number 11 CAGTAGGGGCCTAACCGCTTAATTATCCTA 8 81 1 CTAACCGCTT 0.621385 -171 AACCTCTCACTTCATCGCAGTCAAAGACCA 19 123 0 TTCATCGCAG 0.628555 -113 TGCTCTTTTGTTCATCGCTGCAACATGCTT 46 226 0 TTCATCGCTG 0.923231 -75 TTCGCTGTACCTCACCGCGGCG 52 289 1 CTCACCGCGG 0.950967 -12 GGACTTCACCGCTTTCCCCGCGCG 67 287 0 TTCACCGCTT 0.911922 -14 CCTGCTCCTCCTCATCGCTTCGCTCTGCAT 72 21 0 CTCATCGCTT 0.923231 -72 TTGCGGCCCCCTCGCCGCTGCGCGTCTGGG 75 67 0 CTCGCCGCTG 0.89664 -97 GCTACTCCTCCTCATCGCTTGCGGCCCCCT 75 85 0 CTCATCGCTT 0.923231 -79 GCTACTCCTCCTCATCGCTTGCGCTCTGCA 75 139 0 CTCATCGCTT 0.923231 -25 GTTGTTAAAATTCACCGCGGCGTCGATCTG 78 148 1 TTCACCGCGG 0.897738 -59 CCTCCTCGTGTTCAACGCTGAACCCAGACC 80 13 1 TTCAACGCTG 0.747914 -149 AACCGCTCGGCTCACCGGTGCTATTCCGGT 87 20 1 CTCACCGGTG 0.84311 -234 ********** Masking position 2 Map Score: 7.33369 Number of sites scoring better than the average of aligned sites = 254 Number in coding regions = 224 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 12 ATGAGGCGAGCTTTTTCTTTGCCATTCTTTA 10 43 1 CTTTTTCTTG 0.804152 -47 TAGAACCTCCTTTTTTCATGGCTTAAAGAAT 10 66 0 TTTTTTCATG 0.616562 -24 TTAGAAACCCTTTTTTCTTTTGTCTTGTAAA 11 157 1 TTTTTTCTTT 0.595891 -89 CATAGAGTGACTTTTTCATAAATATATCTGC 13 54 0 CTTTTTCATA 0.690628 -127 GTTTGCTTATCTTTTTCTTGTATAATAGGAT 18 52 1 CTTTTTCTTT 0.890513 -47 GATTGATATTCTTTTTCTTAGGAGAATGAAA 32 152 0 CTTTTTCTTG 0.804152 -149 GAAGTCAGGCCTTTTTCACGTTTCTGGATGA 42 37 1 CTTTTTCACT 0.719328 -89 TCTCCTTTGACCTTTTCATATGAATAGGGTA 43 17 1 CCTTTTCATT 0.836058 -132 ACATGCCAACCCTTTTCATGTAAAATAGAAG 43 96 1 CCTTTTCATT 0.836058 -53 CCTTGTTTTTCTTTTTCGTTTTTCTGACATA 46 22 0 CTTTTTCGTT 0.785592 -279 ATGTCTTTTCCTTTTTCATGTTTCACATGAA 46 110 1 CTTTTTCATT 0.946147 -191 TCCCTCCTTTCTTTTTCATTTTAGGCGATAA 47 16 0 CTTTTTCATT 0.946147 -22 ATGGATGCGGTTTTTTCATTTCTACGATATC 51 81 0 TTTTTTCATT 0.761064 -220 GACACTCATGCTTTTTCATATAGAAGGTAAG 51 268 1 CTTTTTCATT 0.946147 -33 ********* * Masking position 6 Map Score: 6.26122 Number of sites scoring better than the average of aligned sites = 504 Number in coding regions = 398 Number in noncoding regions = 106 Number of orfs with sites within 600 bp upstream = 107 Fraction of orfs with sites within 600 bp upstream = 0.017186 Motif number 13 TCTGCTCTATTCGACCATGCACATTTTGTTT 41 228 0 TGACCATGCA 0.575417 -67 GAAAACTAAAATGATCGTGCAGATAGAAAGG 42 100 1 AGATCGTGCA 0.611376 -26 TTTTAATGAGAGGACGGTGCTTAGC 44 155 1 AGACGGTGCT 0.930014 -15 CGAACGTTCGACGACGATGCAGGCACGGCCT 59 178 1 AGACGATGCA 0.945567 -123 CCCACGCAGGAGGACGAGGCAGCACCGCCGG 63 156 1 AGACGAGGCA 0.78368 -145 GCATACCTCCTGACGGTGCAAGTCTGGTGG 63 281 0 CGACGGTGCA 0.928781 -20 CACACCAGGAAGGACCGCCCATC 64 24 1 AGACCGCCCA 0.677483 -13 ACAATAGCGCAGGACGGCGCATTCCTCAAAT 65 60 0 AGACGGCGCA 0.974031 -241 CGGCCGCCCGCTGACGGTGCTTGCGGCTGAG 67 252 0 CGACGGTGCT 0.832482 -49 CCCGGCGACGATGCAGAGCGAAGCG 72 5 1 GGACGATGCA 0.748881 -88 GTCGGCGACAAAGACCGCGCACGTCAGGGAT 74 227 1 AGACCGCGCA 0.961961 -74 ACTAGAACATATGACCGCGCTGACGACGATG 75 23 1 AGACCGCGCT 0.905986 -141 GACCGCGCTGACGACGATGCAGTGGGGGTAC 75 35 1 AGACGATGCA 0.945567 -129 GTAGCGCTCGATGACCGCGCTGACGACGATG 75 110 1 AGACCGCGCT 0.905986 -54 GACCGCGCTGACGACGATGCAGAGCGCAAGC 75 122 1 AGACGATGCA 0.945567 -42 * ********* Masking position 4 Map Score: 11.6151 Number of sites scoring better than the average of aligned sites = 141 Number in coding regions = 136 Number in noncoding regions = 5 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701 Motif number 14 CATGCAGAGACGCTTTTTTTATTGGGTAGA 1 250 1 CGCTTTTTTT 0.541598 -51 GTTGACGCTTTTTTGCCCAATACTG 2 6 1 CGCTTTTTTG 0.913646 -57 AGGGGAAGCTCGCTTTTATGAGGCGAGCTT 10 26 1 CGCTTTTATG 0.59819 -64 TTTTTAGATTCGTTCTTCTCATAGAGTGAC 13 74 0 CGTTCTTCTC 0.565122 -107 ATGAAATGTACGCTTTTCTCCGTCTGCTGT 32 128 0 CGCTTTTCTC 0.905867 -173 GCTAATGCTCTGCTTTTCTCTCTATTAAAA 37 88 0 TGCTTTTCTC 0.840367 -40 GCTGCCCAATTGTTTTTTTGTTTGAATAAC 38 240 0 TGTTTTTTTG 0.648946 -61 GCGGTATGCTTGCTTTTTTGAATGGTGAAT 40 43 1 TGCTTTTTTG 0.852679 -69 ATATTCAAAACGTTTTTTTCTGATTAAACT 42 67 1 CGTTTTTTTC 0.771646 -59 CGCTTTTCTCCTTTGACCTT 43 1 1 CGCTTTTCTC 0.905867 -148 GTCTGTTTCCTGTTTTTTTCAGTTAGCAGA 44 75 0 TGTTTTTTTC 0.648946 -95 TTTTCTTTTTCGTTTTTCTGACATACATAA 46 17 0 CGTTTTTCTG 0.754511 -284 CATAAACGACTGCTCTTTTGTTCATCGCTG 46 236 0 TGCTCTTTTG 0.709906 -65 TCGTTTATGCTGCTCTTTTCTATTCGTATG 46 257 1 TGCTCTTTTC 0.709906 -44 AAGCTGAAAATGCTTTTTTGTCAGCTTGTC 50 25 1 TGCTTTTTTG 0.852679 -102 ********** Masking position 6 Map Score: 7.41064 Number of sites scoring better than the average of aligned sites = 675 Number in coding regions = 594 Number in noncoding regions = 81 Number of orfs with sites within 600 bp upstream = 84 Fraction of orfs with sites within 600 bp upstream = 0.0134918 Motif number 15 AAACCTTGAGTGGGAGGGTTTACCCTATTA 6 118 1 TGGGAGGGTT 0.563618 -50 AAAAAACAATTGGGCAGCTGATCGGACCGC 38 252 1 TGGGCAGCTG 0.858446 -49 AATGGGCGGCTTCAGGCCGTCT 40 3 1 TGGGCGGCTT 0.941302 -109 TTGCCCATTATGGGCCGCTTAGTCCAAAAG 49 78 1 TGGGCCGCTT 0.910412 -33 TCGTGTAGCCTGGGCGAGTTGCCGACGCAG 54 137 1 TGGGCGAGTT 0.746708 -82 CCGCCTGGGTTCGGCGGCTGGTCGTGTTCT 55 69 0 TCGGCGGCTG 0.848048 -35 CCCCTTCGACTGGGCGGGTGATGCTTGACT 67 15 1 TGGGCGGGTG 0.98793 -286 GCCCGAGCGCGGGGCCGGTGGACCTACGAC 71 159 1 GGGGCCGGTG 0.883259 -142 CGCCGAATACTGCGCCGCTGTTTACCTGTC 71 186 0 TGCGCCGCTG 0.903304 -115 CTGCGGGTGTTGGGCGCGTGATGCAAGATG 77 116 1 TGGGCGCGTG 0.946208 -45 GGGCTGCCGGTGCGCCAGTGCGCCCTAGGC 79 26 0 TGCGCCAGTG 0.631988 -68 CCAGCACCAATGAGCGGCTGGCATCGATGG 85 81 1 TGAGCGGCTG 0.931767 -135 GCTATTCCGGTGAGCGCGTGGCCTACGGCG 87 39 1 TGAGCGCGTG 0.795212 -215 ACTACAAACGTGAGCCGGTGGTGGAAATTC 87 171 0 TGAGCCGGTG 0.919676 -83 ********** Masking position 9 Map Score: 9.62653 Number of sites scoring better than the average of aligned sites = 278 Number in coding regions = 258 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419