AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i03010_mjan_reg_300.orf -o03010_mjan_300.ace -a/home/amcguire/genomes/ORF_mjan.txt -z/home/amcguire/genomes/mjan.fna -g0.31 -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 = 0.31 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: MJ0467 27 LSU ribosomal protein L24P (rplX) MJ1204 21 ATP phosphoribosyltransferase (hisG) MJ0509 25 LSU ribosomal protein L10E MJ0191 25 SSU ribosomal protein S11P (rpsK) MJ0981 27 conserved hypothetical protein MJ0472 22 LSU ribosomal protein L32E MJ0194 31 LSU ribosomal protein L13P (rplM) MJ0466 32 LSU ribosomal protein L14P (rplN) MJ0469 22 LSU ribosomal protein L5P (rplE) MJ0980 37 SSU ribosomal protein S3AE Input sequences: #1 MJ0036 269 SSU ribosomal protein S15P (rpsO) #2 MJ0040 79 LSU ribosomal protein L21E #3 MJ0041 41 conserved hypothetical protein #4 MJ0042 227 M. jannaschii predicted coding region MJ0042 #5 MJ0049 300 LSU ribosomal protein L31E #6 MJ0098 300 LSU ribosomal protein L37E #7 MJ0176 282 LSU ribosomal protein L3P (rplC) #8 MJ0177 41 LSU ribosomal protein L4P (rplD) #9 MJ0178 33 LSU ribosomal protein L23P (rplW) #10 MJ0179 59 LSU ribosomal protein L2P (rplB) #11 MJ0180 85 SSU ribosomal protein S19P (rpsS) #12 MJ0189 300 SSU ribosomal protein S13P (rpsM) #13 MJ0190 57 SSU ribosomal protein S4P (rpsD) #14 MJ0193 77 LSU ribosomal protein L18E #15 MJ0242 116 LSU ribosomal protein L41E #16 MJ0245 44 SSU ribosomal protein S17E #17 MJ0246_MJ0247 301 MJ0246: chorismate mutase/prephenate dehydratase (pheA), MJ0247: proliferating-cell nuclear antigen (pol30) #18 MJ0248 27 M. jannaschii predicted coding region MJ0248 #19 MJ0250 67 SSU ribosomal protein S27E #20 MJ0322 67 SSU ribosomal protein S10P (rpsJ) #21 MJ0370 273 cell division protein ftsZ #22 MJ0372 155 LSU ribosomal protein L24A #23 MJ0373 97 LSU ribosomal protein L11P (rplK) #24 MJ0397 300 DNA-directed RNA polymerase, subunit E' (rpoE1) #25 MJ0460 300 LSU ribosomal protein L22P (rplV) #26 MJ0461 25 SSU ribosomal protein S3P (rpsC) #27 MJ0463 81 conserved hypothetical protein #28 MJ0464 96 conserved hypothetical protein #29 MJ0465 198 SSU ribosomal protein S17P (rpsQ) #30 MJ0470 217 SSU ribosomal protein S8P (rpsH) #31 MJ0471 38 LSU ribosomal protein L6P (rplF) #32 MJ0473 48 LSU ribosomal protein L19E #33 MJ0474 32 LSU ribosomal protein L18P #34 MJ0476 65 LSU ribosomal protein L30P (rpmD) #35 MJ0508 126 LSU ribosomal protein L12A (P1) #36 MJ0510 300 LSU ribosomal protein L1P (rplA) #37 MJ0543 132 ubiquinol-cytochrome C reductase complex, subunitVI requiring protein #38 MJ0544 103 dolichyl-phosphate mannose synthase #39 MJ0547 165 cell division inhibitor minD #40 MJ0548 111 conserved hypothetical protein #41 MJ0591 300 proteasome, subunit alpha (psmA) #42 MJ0592 134 conserved hypothetical protein #43 MJ0593 42 LSU ribosomal protein L37AE #44 MJ0594 204 M. jannaschii predicted coding region MJ0594 #45 MJ0595 265 LSU ribosomal protein LXA #46 MJ0655 169 LSU ribosomal protein L34E #47 MJ0656 88 cytidylate kinase (cmk) #48 MJ0657 86 LSU ribosomal protein L14E #49 MJ0673 263 SSU ribosomal protein S8E #50 MJ0692 300 SSU ribosomal protein S19E #51 MJ0707 149 LSU ribosomal protein L40E (CEP52) #52 MJ0708 75 conserved hypothetical protein #53 MJ0982 119 SSU ribosomal protein S2P #54 MJ0983 134 LSU ribosomal protein L15E (rpl15) #55 MJ1044 300 LSU ribosomal protein L30E #56 MJ1046 141 SSU ribosomal protein S12P (rpsL) #57 MJ1047 57 SSU ribosomal protein S7P (rpsG) #58 MJ1201 57 LSU ribosomal protein L24E #59 MJ1202 111 SSU ribosomal protein S28E #60 MJ1203 228 LSU ribosomal protein L7AE #61 MJ1206 300 conserved hypothetical protein #62 MJ1260 300 SSU ribosomal protein S6E Motif number 1 CCTGGCATGTTTTTGTTATTTTTATTTTATCGATATGGTA 1 85 0 TTTTATTTTT 0.918073 -185 ACTTACTTAATTTTTAATATTAACTATATTATGAACTATC 3 12 1 TTTTTTAATT 0.574309 -30 TAATGCTTAATTTTCCTTACTTTTAAAACTTGTTTTTTAG 4 35 1 TTTTTTTTAT 0.753245 -193 GTAATGTATATTTATTTAAATATACAAATTATTATGTCAT 4 76 1 TTTAATATAT 0.537242 -152 TTCGGTATCTTTTTTGTATCTTATTAAAATTAGGTATTAC 4 121 0 TTTTATTAAT 0.769866 -107 CTCTTTTAATTTTTAGCTCATTTATCTTTTTATTGATATG 5 58 0 TTTTTTTTTT 0.868311 -243 AGAGTAAGATTATTTATTTGTTATTTATTTGGTAATATTT 5 120 1 TATTTTTAAT 0.602676 -181 TATTTGGTAATATTTATATTTATTATTTATTACAGCATTT 5 145 1 TATTATATTT 0.732625 -156 TATTACAGCATTTAGCTACGTATATATGTTATAAAAATTG 5 172 1 TTTAATATTT 0.714955 -129 CAACCTTAAGTTTTGAAAAGTTTTCAATTTTTATAACATA 5 196 0 TTTTATTTAT 0.838395 -105 CAGATTATGCTATTTAAACTTTACCTTCTTTGAATAGGAC 6 84 0 TATTATTATT 0.847752 -217 CAAAAAACCATATATCCTCTTTTTGTTGTTATAAAAACAT 6 140 0 TATATTTTTT 0.781858 -161 TTAATTTGTGTTTTTATAGTTTTTGCAAATATTTAGAATA 6 251 0 TTTTATTTAT 0.838395 -50 TCCTTTTCTTTTATTACACTAATCCGTTATTAA 7 4 1 TTTTTTTATT 0.809583 -279 TATTTGAGTGTTTTGTTTGGTTTAATATCTAAATAGCTTT 7 211 0 TTTTTTTTAT 0.753245 -72 CCAGCATATTTATTGATATCTTTAAAATCTTTTATTTGAG 7 243 0 TATTATTTAT 0.799912 -40 GTGTTTCAATTATTTAAAAATTTATTTAAT 10 1 0 TATTATTTTT 0.896178 -59 ATTTAGTCACCTTAAATTATTATGTGTTTTG 11 65 0 TTTAATTATT 0.835988 -21 GATACCATATTATATATTATTTTCGGTTTTTAGTAAGGTT 12 41 0 TATATTTTTT 0.781858 -260 TTTCATTTTTTATATATTCTTTTTATATATTCCCACAATA 12 100 0 TATATTTTAT 0.623965 -201 CTTTTATAATTATTATAAGGTTTGACAAATAATTAGAATG 14 22 0 TATTATTTAT 0.799912 -56 CTTCTTATCCTTTTTTATTATTTTTCTATTAATTTTTAA 16 10 0 TTTTTTTTTT 0.868306 -35 TACTATTTACTTTTTTATTATAAATATAATCTGCTGTCAA 17 118 0 TTTTTTAATT 0.574306 -184 ATAGAAGAAGTATAAAAATGTTTTTATAATCCTAATGGAT 17 162 0 TATAATTTTT 0.858982 -140 CTTTATATATTTTATTTAAGTTTTTATAATAACATTCTGG 17 265 1 TTTAATTTTT 0.887699 -37 GTTTTATAAATTTATTAAGGTTTTTAAAAT 19 1 0 TTTAATTTAT 0.785386 -67 TTAAATCCCATTTTATATTTTTTTAATATTTTAAAGCAT 20 39 1 TTTTTTTTTT 0.868311 -29 CCAAGTAATTTTTTATAATTTTTTAATGTTCAATAATTTC 21 20 1 TTTTATTTTT 0.918073 -254 TAAAATGAGGTATAAAAATCTATTGGTTATGGGTTTGCAT 21 78 0 TATAATATTT 0.659032 -196 AAAATATTCATATATAATTATTTGGTTAATAGTATTAGCG 21 184 1 TATATTTTTT 0.781843 -90 AAATATGTTGTATAAATATCTTATCTATGTTGAACTTTTA 22 30 0 TATAATTAAT 0.645191 -126 TTATACAACATATTTGAATCTATATTTAATCCCTAAAAAT 22 55 1 TATTATATTT 0.732625 -101 ACTAAACCTCTATTTTATTTTTTAAAATTTATTTAAGGTG 22 121 1 TATTTTTTAT 0.7017 -35 TTTCATAACTTATAACAATTTTTGTATGGTTAATTATAAA 24 150 1 TATAATTTTT 0.858982 -151 TTACATTAATTATTTATTGTTTTTTATAATCTCACTAATA 24 215 1 TATTTTTTTT 0.835555 -86 GTTACTCTTTTTTTATTAAATTTAACTGATTCAGAGGTGA 24 264 1 TTTTATTTTT 0.918073 -37 CAGAATGCTATATTGTTTCATAAATATAATTAGGCTATCA 25 84 0 TATTTTAATT 0.509715 -217 TTTATATACTTTTATTGTTGTTTAACTCATAACAACCCAG 25 121 0 TTTATTTTTT 0.823045 -180 AGTGTTTTGGTTTAATCTAATTTTTTAAATCCTAACTTGT 30 157 0 TTTATTTTAT 0.682816 -61 ATTCACTATTTATAATTAGTTATTTATATTTTTCGG 35 7 0 TATAATATTT 0.659032 -120 TTTATAAGATTATAGGAAAATAATTCTATTCTGACTTTAT 36 80 0 TATAATAATT 0.554807 -221 AATCTACGGATTTTGAGACTTTATTCTACTATTTAATTCT 36 119 1 TTTTATTATT 0.878432 -182 CCATATTATATGGTATCTGATATAAATATTTTA 36 278 0 TATTTTATAT 0.427399 -23 TTTAACTTAATATTTAAAGCTTACTGTTATTTTG 37 5 0 TATTATTATT 0.847752 -128 CAATTCCCAATATATAAAATTTATTGTGATGCTAATATTT 37 44 0 TATAATTATT 0.79707 -89 CCAATTCCTATTTTTCTACTTTTTCTTATTACCATAAAAT 38 22 1 TTTTATTTTT 0.918073 -82 CTAGTAAATTTTTAACAAAATTTTAAAATTTTATGGTAAT 38 49 0 TTTAATTTAT 0.78531 -55 ACACTAAAGTTATAGTTAAGTTAAATATATACTCTTCGGT 39 108 0 TATAATTAAT 0.645191 -58 ATATATTAGTTATTAAATAGTAATATTTGTTAGTTTGAAA 40 27 0 TATTTTAATT 0.509715 -85 AGACTAATAATATTAGTTAGTATTATTATTATCGTTAATC 40 69 0 TATTTTATTT 0.617191 -43 AAGTATATAACTACTTTATCCTGATTAGCTTTCTT 41 6 1 TATAATTATT 0.79707 -295 CTATATCTCATATATATAATTTATGGTTATGTCAATACTT 41 126 1 TATAATTATT 0.79707 -175 TATTTTTATTTTTATAGTCTTATTTTATATGGTTGTGTTA 41 165 0 TTTATTATAT 0.405915 -136 TATCTTATTATTTTTATTCTTTTCTTTTTTATTTTTATTT 41 194 0 TTTTTTTTTT 0.868311 -107 AAGCTAATTATTTAACTACTTTAAAATACTTATAATGGTG 41 264 1 TTTAATTATT 0.835988 -37 AATAGTTGGATTTAAAAATTTTACTATAAT 42 1 0 TTTAATTATT 0.835987 -134 TTAAATTATTTTTAGAGTATTAATATTATTTGGGAGTATC 42 41 1 TTTATTAATT 0.487616 -94 GGGTTTTGAATTTATAAAAATTACTTTAGTGAGAGTGAGT 42 83 0 TTTAATTATT 0.835987 -52 TTTATAGATATTAAATAGATATTAAAGACG 43 1 1 TTTAATTAAT 0.702359 -42 CTTTTCATTATTTAGCATTATTATTTTATAA 44 2 1 TTTTTTTATT 0.809587 -203 ATTTTATAAATTTTTATAACTTTTATTTTTGGGGATGTAT 44 33 1 TTTTATTTTT 0.918073 -172 TTTTATTATCTTTTTACAGTTTAAACACTTGTATTCTACC 44 75 0 TTTTATTAAT 0.769866 -130 AAATCCATATTTTTGGAACATTTAACTTCTCAAATAAAAT 45 81 1 TTTTATTTTT 0.918073 -185 CGTTATTATATTTTTATTTATTTCCATTGTGGCGGAGGAT 45 119 0 TTTTTTTTTT 0.868311 -147 CTCCTCATTCTTTACAAATCTTATAAATGTTTTGTGCAAC 45 228 0 TTTAATTAAT 0.702359 -38 CCAAAAGTTTTAAATACTAATTCTTATGGTATTATGA 46 8 1 TTTTTTAATT 0.574309 -162 ATTCTTATGGTATTATGATATTAAATTTTTAATGGTAAAT 46 30 1 TATTATTATT 0.847752 -140 ATTTAATTAGTATAAATATTTTTTCATTGTAATTTTGATG 47 38 0 TATAATTTTT 0.858982 -51 CCGGCTCCATTTTTTATATTTAACTCTCTTCTCTTTTTTA 50 54 1 TTTTATAATT 0.69631 -247 GATTAGGTTATATTTATATCTTATTATTATCGATAGATAC 50 120 0 TATTATTATT 0.847752 -181 CTAATCTATTTATTTTGTGTTTAAGATTATGAGTTTTTGT 50 221 0 TATTTTTATT 0.766158 -80 TTAATTATTTTTTAATTAATTTATTTTGATTTTCTTTCTA 50 258 0 TTTAATTATT 0.835988 -43 ATTTTAGTTATATATTTTACTTTTGGAACTTTAGATGCCC 51 38 0 TATATTTTAT 0.623965 -112 TTTTTATGTTTTTTGACAGATTTAAATTTTAGTTATATAT 51 63 0 TTTTATTTTT 0.918073 -87 TTTTTAAAACTTTTTATATGTTTTTATGTTTTTTGACAGA 51 83 0 TTTTATTTTT 0.918073 -67 TATAAAAAGTTTTAAAAAGTTTTAATATGTTTATTAAAAA 51 105 1 TTTAATTTAT 0.785386 -45 GTATAAGTAGTATTTATTTTTTACTGTTATTGTGGTGATA 52 15 0 TATTTTTATT 0.766158 -61 AGACAACTATTATATTAATTTAACGGTTATTTGAAAAGTT 54 28 0 TATAATAATT 0.55483 -107 ATTGATTTAATTTTTTGATGTTTTTATCCTATCCAAAAAG 55 97 1 TTTTATTTTT 0.918073 -204 TTATATTGAATATTGACATTTTTTAGATGTCTAAGTTCCA 55 217 1 TATTATTTAT 0.799912 -84 AAGTATTTATAAAAGTATTTATCTTTATATGCTAT 56 6 1 TTTAATATTT 0.714955 -136 TTTGTTTTGATTTTGAGTAATTTAATAATTCAAGTAATAA 56 83 0 TTTTTTTTAT 0.753223 -59 ATTCTCTATATTTAAATTTATTAAAAATTTTGAAAGAGTT 57 11 1 TTTATTTAAT 0.581326 -47 ACTACTAACTTTTTTATAAATTTTAAACCTTCATTAATAT 59 79 1 TTTTATTTAT 0.838395 -33 ACATATTGACTTTTAGTATATAAAACTTTTGGGTAAGT 60 9 0 TTTTATAATT 0.69631 -220 ATAAGGTGCATATTTTTATATAAGAAATATTTTCCTGCAA 60 90 0 TATTATAAAT 0.44994 -139 TCAGAACTACTATAAATACTTTTCGGTTTTATTGTATTAA 61 135 1 TATAATTTTT 0.858982 -166 GGTTTTATTGTATTAAATATTTTAATTAATGTCTTGAATT 61 159 1 TATTTTTTTT 0.835555 -142 ATAAAAATAATTTTTTATACTTTGATTTGTTTTATTAGAT 61 217 1 TTTTTTTTTT 0.868311 -84 GACATAATATTTTAAATAATTTTTGGTTTTAAACTTTCAA 62 32 0 TTTAATTTTT 0.887699 -269 TTTAAGGGCATTTTTATAAATATCTTTATTTCACCCTATG 62 188 0 TTTTATATTT 0.780473 -113 TATTCCCTCCTATTTTTATTTTTGTTATTTGTTTGGTTTC 62 269 0 TATTATTTAT 0.799912 -32 **** * *** * * Masking position 11 Map Score: 91.7183 Number of sites scoring better than the average of aligned sites = 2879 Number in coding regions = 1997 Number in noncoding regions = 882 Number of orfs with sites within 600 bp upstream = 512 Fraction of orfs with sites within 600 bp upstream = 0.0822358 Motif number 2 ATGTTTTTGTTATTTTTATTTTATCGATATGG 1 87 0 TTTTTATTTT 0.913426 -183 GGTTATCTAATATATAAACTTTTCGGTATCTT 4 150 0 TTATAACTTT 0.847018 -78 TATACTCTTCTCTTTTAATTTTTAGCTCATTT 5 75 0 TTTTTATTTT 0.913426 -226 CAGATTATGCTATTTAAACTTTACCTTCTTTG 6 92 0 TTTTAACTTT 0.868382 -209 CCTTCGTCAATTTAATAACTTTTGCAAAAAAC 6 172 0 TTAATACTTT 0.764592 -129 AATTTGTGTTTTTATAGTTTTTGCAAATATTT 6 257 0 TTATATTTTT 0.808709 -44 TTAAATTAATTTTATTGATTTTGGAAGACACT 7 108 0 TTATTATTTT 0.898519 -175 TATTGATATCTTTAAAATCTTTTATTTGAGTG 7 241 0 TTAAATCTTT 0.607969 -42 CTCTCTTATTTATTAAGTTTTTGAATAAAATT 11 15 1 TTTAATTTTT 0.758027 -71 TCATTTTTTATATATTCTTTTTATATATTCCC 12 106 0 TTATTTTTTT 0.799526 -195 CCGCGCCACTTCTTTTTATTTTTTAATATCTA 12 232 1 TTTTTATTTT 0.913426 -69 CTTATCTTGTTTTTTAAATTTTTACCTACAAT 15 45 0 TTTTAATTTT 0.917927 -72 TTATTATTTTTCTATTAATTTTTAA 16 4 0 TTATTATTTT 0.898519 -41 TCTTATCCTTTTTTATTATTTTTCTATTAATT 16 16 0 TTTATATTTT 0.867741 -29 CTCAGAAAAGTATATTTATTTTGGCAACTACC 17 31 0 TTATTATTTT 0.898519 -271 GATAAATTACTATTTACTTTTTTATTATAAAT 17 133 0 TTTTATTTTT 0.834376 -169 GTATTGTCCATCTTTTGTTTTTATACATAAAC 17 210 1 TTTTTTTTTT 0.826161 -92 GGCGGATAACTTTATATATTTTATTTAAGTTT 17 256 1 TTATAATTTT 0.903714 -46 ATAAAACTCTTTTAAACACTTTAAACAAAATT 19 34 1 TTAAAACTTT 0.774925 -34 TTTTATATTTTTTTAATATTTTAAAGCAT 20 49 1 TTTAAATTTT 0.87429 -19 CCAAGTAATTTTTTATAATTTTTTAATGTTCA 21 20 1 TTTATATTTT 0.867741 -254 ATAAAAAAAGTTTTATATTTTTAGGGATTAAA 22 79 0 TTTATTTTTT 0.747172 -77 ACTAAACCTCTATTTTATTTTTTAAAATTTAT 22 121 1 TTTTTTTTTT 0.826161 -35 ATATACCAAATATATTAATTTTATCTACACAT 23 34 1 TTATTATTTT 0.898519 -64 AATTTTCTCATATATATACTTTTCGTTTCATA 24 125 1 TTATAACTTT 0.847018 -176 ACATTAATTATTTATTGTTTTTTATAATCTCA 24 217 1 TTATTTTTTT 0.799526 -84 CTGTAAGAAGTTTATATACTTTTATTGTTGTT 25 139 0 TTATAACTTT 0.847018 -162 CTTCATAAATTTTATTAATTTTGAAAGGCACT 25 180 0 TTATTATTTT 0.898519 -121 TAAGATAGGGTATTTAAATTTTTTGTTA 27 7 0 TTTTAATTTT 0.917927 -75 ACTTTAAATTTATTTTAACTTTCTGAAATAAA 28 18 1 TTTTTACTTT 0.861573 -79 TGGCTATTATTATATACTCTTTATCGTATCTT 29 64 1 TTATATCTTT 0.713789 -135 CTAAAACCCATATTTATACTTTAAATCTCACA 29 102 0 TTTTAACTTT 0.868382 -97 ACATTTAATCTATAATGTCTTTCAAAATAATG 29 148 1 TTAATTCTTT 0.593988 -51 CAAGTGGCTATTTTAAAACTTTTATTTTAATA 34 34 1 TTTAAACTTT 0.804027 -32 TATAATTAGTTATTTATATTTTTCGG 35 5 0 TTTTAATTTT 0.917927 -122 ATCTTAGCAATATAAAATTTTTCAAAATTTCC 36 199 1 TTAAATTTTT 0.724435 -102 TGGTATCTGATATAAATATTTTACTTAAAAAA 36 269 0 TTAAAATTTT 0.853724 -32 TTTAACAAAATTTTAAAATTTTATGGTAATAA 38 47 0 TTTAAATTTT 0.87429 -57 TAATTAATGATGTAATGTTTTTGAAGATAAGC 39 61 1 TTAATTTTTT 0.712644 -105 AAATAGGTAATATAAAGATTTTAGA 39 151 1 TTAAAATTTT 0.853724 -15 TTTTCTTTTTTATTTTTATTTTTATAGTCTTA 41 183 0 TTTTTATTTT 0.913426 -118 TTATTTTTATTCTTTTCTTTTTTATTTTTATT 41 195 0 TTTTTTTTTT 0.826161 -106 CATTATAATATCTTATTATTTTTATTCTTTTC 41 210 0 TTTATATTTT 0.867741 -91 AATAGTTGGATTTAAAAATTTTACTATAAT 42 9 0 TTAAAATTTT 0.853724 -126 GCATTATTATTTTATAAATTTTTATAACTTTT 44 25 1 TTATAATTTT 0.903714 -180 CTCTTCAAGTTTTATTATCTTTTTACAGTTTA 44 92 0 TTATTTCTTT 0.70173 -113 CATTTATCGTTATTATATTTTTATTTATTTCC 45 134 0 TTTATTTTTT 0.747172 -132 GGTATTATGATATTAAATTTTTAATGGTAAAT 46 38 1 TTTAATTTTT 0.758027 -132 ATTTAATTAGTATAAATATTTTTTCATTGTAA 47 46 0 TTAAAATTTT 0.853724 -43 CTTCATAAATTCTATAATTTTTACTTTAAGTT 49 145 0 TTATATTTTT 0.808709 -119 TGGATTTCTTTCTTATTATTTTATTATTTCCA 49 204 0 TTTATATTTT 0.867741 -60 TAATAATTGTTTTTAATATTTTTTAACTGGAT 49 231 0 TTTAAATTTT 0.87429 -33 TTCTTTCTAATCTATTTATTTTGTGTTTAAGA 50 235 0 TTATTATTTT 0.898519 -66 TTAATTAATTTATTTTGATTTTCTTTCTAATC 50 255 0 TTTTTATTTT 0.913426 -46 TTTTATATGTTTTTATGTTTTTTGACAGATTT 51 80 0 TTTATTTTTT 0.747172 -70 TTAATAAACATATTAAAACTTTTTAAAACTTT 51 110 0 TTTAAACTTT 0.804027 -40 GTATAAGTAGTATTTATTTTTTACTGTTATTG 52 23 0 TTTTATTTTT 0.834376 -53 TATAAGGGAGTATATAAATTTTATCAAT 53 7 0 TTATAATTTT 0.903714 -113 TAAAAATAGTTGTTATCTTTTTGAATATTGTC 53 86 0 TTTATTTTTT 0.747172 -34 AATCAATTTTTGTTTAAATTTTTTAAAGGTCA 55 72 0 TTTTAATTTT 0.917927 -229 TTTCTCTATATTTATATACTTTTTGGATAGGA 55 123 0 TTATAACTTT 0.847018 -178 CAGGCAAATATATTTTAACTTTGGAACTTAGA 55 246 0 TTTTTACTTT 0.861573 -55 TGTTATGTTTTGTTTTGATTTTGAGTAATTTA 56 99 0 TTTTTATTTT 0.913426 -43 TACTAACTTTTTTATAAATTTTAAACCTTCAT 59 81 1 TTATAATTTT 0.903714 -31 TCAGAACTACTATAAATACTTTTCGGTTTTAT 61 135 1 TTAAAACTTT 0.774925 -166 TATAAAAAATTATTTTTATTTTGACGCCTATT 61 204 0 TTTTTATTTT 0.913426 -97 TAAAAATAATTTTTTATACTTTGATTTGTTTT 61 218 1 TTTTAACTTT 0.868382 -83 TATTCCCTCCTATTTTTATTTTTGTTATTTGT 62 277 0 TTTTTATTTT 0.913426 -24 * **** ***** Masking position 3 Map Score: 99.8246 Number of sites scoring better than the average of aligned sites = 1395 Number in coding regions = 889 Number in noncoding regions = 506 Number of orfs with sites within 600 bp upstream = 419 Fraction of orfs with sites within 600 bp upstream = 0.0672984 Motif number 3 TATGAGCTATTAAAAATATATCCGCTTTTA 1 43 0 TAAAAATATA 0.867303 -227 TAGTTAATATTAAAAATTAAGTAAGTT 3 8 0 TAAAAATTAA 0.871451 -34 AATTAAGCATTAAAAATTAACCATAATGGT 4 17 0 TAAAAATTAA 0.871451 -211 ATAAATGAGCTAAAAATTAAAAGAGAAGAG 5 73 1 TAAAAATTAA 0.871451 -228 ATATATGTTATAAAAATTGAAAACTTTTCA 5 193 1 TAAAAATTGA 0.658358 -108 TTCAATTATTTAAAAATTTATTTAAT 10 7 0 TAAAAATTTA 0.887139 -53 TTGAAACACTTAAAAATTTATCACAAGTGG 10 32 1 TAAAAATTTA 0.887139 -28 AATAGATATTAAAAAATAAAAAGAAGTGGC 12 236 0 AAAAAATAAA 0.724337 -65 AACATTCAACAAAAAATTATTGAAGGTGAT 13 35 1 AAAAAATTAT 0.662882 -23 TTATTGTAGGTAAAAATTTAAAAAACAAGA 15 43 1 TAAAAATTTA 0.887139 -74 TTAAAAATTAATAGAAAAATA 16 2 1 TAAAAATTAA 0.871451 -43 AAAATTAATAGAAAAATAATAAAAAAGGAT 16 14 1 GAAAAATAAT 0.474957 -31 GGACAATACCTAAAAATATAGAAGAAGTAT 17 189 0 TAAAAATATA 0.867303 -113 TAAAATATTAAAAAAATATAAAATGGGATT 20 42 0 AAAAAATATA 0.75358 -26 ATTGAACATTAAAAAATTATAAAAAATTAC 21 24 0 AAAAAATTAT 0.662882 -250 ATTTAATCCCTAAAAATATAAAACTTTTTT 22 78 1 TAAAAATATA 0.867303 -78 AATAAATTTTAAAAAATAAAATAGAGGTTT 22 124 0 AAAAAATAAA 0.724337 -32 TAACAAAAAATTTAAATACCCTAT 27 5 1 AAAAAATTTA 0.786648 -77 ACCTTCCTGATAAAAATTGTTTAA 33 5 0 TAAAAATTGT 0.544339 -28 TTTTAAATGAGAAAAATTTAAT 34 3 0 GAAAAATTTA 0.672142 -63 CCGAAAAATATAAATAACTAAT 35 3 1 GAAAAATATA 0.6294 -124 AGGAAATTTTGAAAAATTTTATATTGCTAA 36 202 0 GAAAAATTTT 0.559646 -99 AATATTAAGTTAAAAATATTAGCATCACAA 37 31 1 TAAAAATATT 0.802051 -102 AAAATTTTGTTAAAAATTTACTAGCATCCA 38 65 1 TAAAAATTTA 0.887139 -39 AATAAGACTATAAAAATAAAAATAAAAAAG 41 181 1 TAAAAATAAA 0.848851 -120 AAGAAAAGAATAAAAATAATAAGATATTAT 41 208 1 TAAAAATAAT 0.776857 -93 TAGTTGGATTTAAAAATTTTACTATAAT 42 9 0 TAAAAATTTT 0.83009 -126 ATTAATACTCTAAAAATAATTTAAAATAGT 42 35 0 TAAAAATAAT 0.776857 -100 ATAAAAGTTATAAAAATTTATAAAATAATA 44 29 0 TAAAAATTTA 0.887139 -176 TGGAAATAAATAAAAATATAATAACGATAA 45 133 1 TAAAAATATA 0.867303 -133 AATTTACCATTAAAAATTTAATATCATAAT 46 41 0 TAAAAATTTA 0.887139 -129 AATGGTAAATTAAAAATTAAGAAAACATTA 46 60 1 TAAAAATTAA 0.871451 -110 AATTACAATGAAAAAATATTTATACTAATT 47 44 1 AAAAAATATT 0.65467 -45 AAACTTAAAGTAAAAATTATAGAATTTATG 49 144 1 TAAAAATTAT 0.807787 -120 AAATCCAGTTAAAAAATATTAAAAACAATT 49 229 1 AAAAAATATT 0.65467 -35 TAAATTAATTAAAAAATAATTAAGAGAGGT 50 275 1 AAAAAATAAT 0.619613 -26 CAATAACAGTAAAAAATAAATACTACTTAT 52 23 1 AAAAAATAAA 0.724337 -53 TTTCCACCTTTAAAAATAGTTGTTATCTTT 53 98 0 TAAAAATAGT 0.497391 -22 TCTGACCTTTAAAAAATTTAAACAAAAATT 55 70 1 AAAAAATTTA 0.786648 -231 TAAAAACATCAAAAAATTAAATCAATTTTT 55 93 0 AAAAAATTAA 0.760301 -208 TTAAATTTATTAAAAATTTTGAAAGAGTTG 57 22 1 TAAAAATTTT 0.83009 -36 GGCGTCAAAATAAAAATAATTTTTTATACT 61 208 1 TAAAAATAAT 0.776857 -93 ********** Masking position 5 Map Score: 45.0543 Number of sites scoring better than the average of aligned sites = 863 Number in coding regions = 519 Number in noncoding regions = 344 Number of orfs with sites within 600 bp upstream = 306 Fraction of orfs with sites within 600 bp upstream = 0.0491487 Motif number 4 CGGATATATTTTTAATAGCTCATACAATAAAAA 1 49 1 TTTATACTAT 0.846733 -221 TTTCCTTACTTTTAAAACTTGTTTTTTAGAGTA 4 46 1 TTTAAATTTT 0.80639 -182 CCTTCGTCAATTTAATAACTTTTGCAAAAAACC 6 171 0 TTTATACTTT 0.931329 -130 TAATTTGTGTTTTTATAGTTTTTGCAAATATTT 6 257 0 TTTATATTTT 0.887474 -44 TTATAGTGTCTTTCAAAACTTTTGAAATAACTA 7 177 0 TTTAAACTTT 0.877484 -106 TATTGATATCTTTAAAATCTTTTATTTGAGTGT 7 240 0 TTTAAACTTT 0.877484 -43 GTTTCAATTATTTAAAAATTTATTTAAT 10 6 0 TTTAAATTAT 0.629165 -54 CTTTTTATTTTTTAATATCTATTTACTATAAAA 12 243 1 TTTATACTTT 0.931329 -58 TCTAATTATTTGTCAAACCTTATAATAATTATA 14 25 1 TGTAAACTAT 0.389134 -53 CCTTCAAACCTTTTATAATTATTATAAGGTTTG 14 38 0 TTTATATTTT 0.887474 -40 CTCAAATAGGTTTTATATTTATTCCCTCAGAAA 17 55 0 TTTATATTTT 0.887474 -247 ATAAAAACATTTTTATACTTCTTCTATATTTTT 17 175 1 TTTATATTTT 0.887474 -127 AAATTTCCCTTTTAATAGCTTTTAAATCCCATT 20 18 1 TTTATACTTT 0.931329 -50 TTAAATCCCATTTTATATTTTTTTAATATTTTA 20 39 1 TTTATATTTT 0.887474 -29 CCAAGTAATTTTTTATAATTTTTTAATGTTCAA 21 20 1 TTTATATTTT 0.887474 -254 ACCAATAGATTTTTATACCTCATTTTAAAATTG 21 91 1 TTTATACTAT 0.846733 -183 TATTTTATTTTTTAAAATTTATTTAAGGTGAGA 22 131 1 TTTAAATTTT 0.80639 -25 ATACTTTTCGTTTCATAACTTATAACAATTTTT 24 140 1 TTTATACTAT 0.846733 -161 TTATAGTGCCTTTCAAAATTAATAAAATTTATG 25 176 1 TTTAAATTAT 0.629165 -125 ATATAGTGTCTTTCAAACTTCTTAAATAACTAA 25 254 0 TTTAAATTTT 0.80639 -47 CAAGTGGCTATTTTAAAACTTTTATTTTAATAA 34 34 1 TTTAAACTTT 0.877484 -32 GATGAGGCTATTTTATAAATCTTTAATAGCAAA 36 236 0 TTTATAATTT 0.527637 -65 TTAACAAAATTTTAAAATTTTATGGTAATAAGA 38 45 0 TTTAAATTAT 0.629165 -59 AATATTACTATTTAATAACTAATATATAAGATT 40 40 1 TTTATACTAT 0.846733 -72 TGAAGAAGGTTGTTATATCTGATGAAGCTAAGA 41 66 0 TGTATACTAT 0.546742 -235 TCACCTCGTCTTTAATATCTATTTAATATCTAT 43 14 0 TTTATACTTT 0.931329 -29 TTTTATAAATTTTTATAACTTTTATTTTTGGGG 44 34 1 TTTATACTTT 0.931329 -171 ATAGTTAAGTTTTTATATCTCTTGTATGTTTAT 49 61 1 TTTATACTTT 0.931329 -203 AATAATTGTTTTTAATATTTTTTAACTGGATTT 49 229 0 TTTATATTTT 0.887474 -35 ATTAACACCTGTAATAATTGTTTTTAATATTT 49 242 0 TGTATATTTT 0.632627 -22 TATTAAAACTTTTTAAAACTTTTTATATGTTTT 51 99 0 TTTAAACTTT 0.877484 -51 TTTCCAACTCTTTCAAAATTTTTAATAAATTTA 57 23 0 TTTAAATTTT 0.80639 -35 AGTAGTAGTGTTTCATAATTTATATAATAATAA 59 52 0 TTTATATTAT 0.762622 -60 CTACTAACTTTTTTATAAATTTTAAACCTTCAT 59 80 1 TTTATAATTT 0.527637 -32 GTCAATATGTTGTTATACCTATTCTAAGCCACG 60 39 1 TGTATACTTT 0.747553 -190 *** *** ** ** Masking position 7 Map Score: 56.8314 Number of sites scoring better than the average of aligned sites = 481 Number in coding regions = 348 Number in noncoding regions = 133 Number of orfs with sites within 600 bp upstream = 136 Fraction of orfs with sites within 600 bp upstream = 0.0218439 Motif number 5 CCTATTCAAAAAGGTGAGAATT 2 68 1 AAGGTGGAAT 0.846388 -12 TGCATTATTTGAGGTATAAATTAATAACGGA 7 33 0 GAGGTAAAAT 0.803268 -250 TGAAATAACTAAGGTATTAATGAACGCCTTA 7 157 0 AAGGTATAAT 0.470234 -126 ATTGAGAGAGAAGGTGAATAATA 8 29 1 AAGGTGATAA 0.710334 -13 ATTTTAAAATGAGGTATAAAAATCTATTGGT 21 91 0 GAGGTAAAAA 0.619617 -183 CTCCAAACATGAGGTGAATATTT 23 85 1 GAGGTGATAT 0.908254 -13 AACTGATTCAGAGGTGAATATCTT 24 287 1 GAGGTGATAT 0.908254 -14 ATAAGATATAAAGGTGGAAATCC 26 13 1 AAGGTGAAAT 0.949956 -13 TTTTATCAGGAAGGTGAGAAATT 33 20 1 AAGGTGGAAA 0.68732 -13 TTATTTTAATAAGGTGATAAT 34 55 1 AAGGTGTAAT 0.869215 -11 AGAACATTTGGAGGTGTAAATT 35 115 1 GAGGTGAAAT 0.968326 -12 AAAGAATGAGGAGGTGGTAAT 45 255 1 GAGGTGTAAT 0.914558 -11 ATAATTAAGAGAGGTGCAAAA 50 290 1 GAGGTGAAAA 0.924223 -11 ACTATTTTTAAAGGTGGAAAAT 53 108 1 AAGGTGAAAA 0.883354 -12 ATAATTATGAAAGGTGAAGATT 56 130 1 AAGGTGAGAT 0.734679 -12 AATTTTGAAAGAGTTGGAAATGAGGTGGTAA 57 36 1 GAGTTGAAAT 0.588128 -22 AGTTGGAAATGAGGTGGTAAT 57 47 1 GAGGTGTAAT 0.914558 -11 TTGCATCTATAAGGTGCATATTTTTATATAA 60 107 0 AAGGTGATAT 0.860077 -122 ****** **** Masking position 5 Map Score: 15.2442 Number of sites scoring better than the average of aligned sites = 105 Number in coding regions = 50 Number in noncoding regions = 55 Number of orfs with sites within 600 bp upstream = 63 Fraction of orfs with sites within 600 bp upstream = 0.0101189 Motif number 6 CGAAGGAAGATTGACCGCCTTCTATAAGAA 6 198 1 TTGACCGCCT 0.928681 -103 AAGGCATATAATGAACGCCTTCTTATAGAA 6 217 0 ATGAACGCCT 0.97709 -84 TTAAGGAACATTGAACGCCTTTAAGGCGTT 7 136 1 TTGAACGCCT 0.984237 -147 TAAGGTATTAATGAACGCCTTAAAGGCGTT 7 149 0 ATGAACGCCT 0.97709 -134 AGGGGGGGATTTGAACCCCCGCGGGGCAAA 12 202 0 TTGAACCCCC 0.953714 -99 TTCCATCTTCTTGAACTCCTCTTTATGGTA 15 84 0 TTGAACTCCT 0.874569 -33 CCGAGGGGATTTGAACCCCCGACCCCCGGC 24 21 1 TTGAACCCCC 0.953714 -280 GAAGGAATGTTTGAACGCCCTCCTTTGGAA 25 208 1 TTGAACGCCC 0.985433 -93 TAAGGCACTAATGAACGCCTTCCAAAGGAG 25 227 0 ATGAACGCCT 0.97709 -74 AATATTGATGATGAACGCGCCCTTCTCTGA 55 45 1 ATGAACGCGC 0.856798 -256 ********** Masking position 4 Map Score: 12.4154 Number of sites scoring better than the average of aligned sites = 45 Number in coding regions = 5 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 34 Fraction of orfs with sites within 600 bp upstream = 0.00546097 Motif number 7 TTTGTATATTTAAATAAATATACATTACTC 4 74 0 TAAATAAATA 0.695052 -154 TTTAAATATACAAATTATTATGTCATGTTA 4 90 1 CAAATTATTA 0.75617 -138 AAATAAATAACAAATAAATAATCTTACTCT 5 120 0 CAAATAAATA 0.877815 -181 TAAATATTACCAAATAAATAACAAATAAAT 5 131 0 CAAATAAATA 0.877815 -170 CTTCCTTCGTCAATTTAATAACTTTTGCAA 6 177 0 CAATTTAATA 0.295075 -124 ATTTGAGGTATAAATTAATAACGGATTAGT 7 28 0 TAAATTAATA 0.711355 -255 TTAGTCACCTTAAATTATTATGTGTTTTGT 11 64 0 TAAATTATTA 0.495938 -22 ACTTCAACATCAAATTAATAACTATCCTTT 12 11 1 CAAATTAATA 0.885948 -290 TAAGGTTTGACAAATAATTAGAATGAAAAT 14 17 0 CAAATAATTA 0.741478 -61 TTAAAAATTAATAGAAAAATAAT 16 4 1 AAAATTAATA 0.740598 -41 GGTAGTTGCCAAAATAAATATACTTTTCTG 17 31 1 AAAATAAATA 0.725314 -271 TACTATTAACCAAATAATTATATATGAATA 21 188 0 CAAATAATTA 0.741478 -86 ATGTGTAGATAAAATTAATATATTTGGTAT 23 36 0 AAAATTAATA 0.740598 -62 GGTTTGTGGCAAAATTAATAATTACATTAA 24 194 1 AAAATTAATA 0.740598 -107 TAAAAAACAATAAATAATTAATGTAATTAT 24 211 0 TAAATAATTA 0.476148 -90 AGTGCCTTTCAAAATTAATAAAATTTATGA 25 180 1 AAAATTAATA 0.740598 -121 AACTCTACTTCAAATTAATATTGTTTAGAT 35 51 1 CAAATTAATA 0.885948 -76 ACGGTTAAAACAAATAAATAAAACACAAAG 35 84 1 CAAATAAATA 0.877815 -43 TTAAAGTAGTTAAATAATTAGCTTAATGTT 41 258 0 TAAATAATTA 0.476148 -43 ATAACCTAATCAAATTAATACTAAGCTTGT 50 149 1 CAAATTAATA 0.885948 -152 TCTTAAACACAAAATAAATAGATTAGAAAG 50 235 1 AAAATAAATA 0.725314 -66 ATAACAGTAAAAAATAAATACTACTTATAC 52 25 1 AAAATAAATA 0.725314 -51 AAATAACCGTTAAATTAATATAATAGTTGT 54 36 1 TAAATTAATA 0.711355 -99 GTAATCTTTCCAAATTATTACTTGAATTAT 56 69 1 CAAATTATTA 0.75617 -73 AATTAGAAACCAAACAAATAACAAAAATAA 62 264 1 CAAACAAATA 0.364592 -37 ********** Masking position 9 Map Score: 27.0327 Number of sites scoring better than the average of aligned sites = 98 Number in coding regions = 70 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 33 Fraction of orfs with sites within 600 bp upstream = 0.00530035 Motif number 8 CTATAATGTTTTGAAAGATACTACAATTCTCATAT 6 22 1 TTGAAACACA 0.853775 -279 TTAATAACTTTTGCAAAAAACCATATATCCTCTTT 6 158 0 TTGAAACATA 0.973697 -143 TTTATTGATTTTGGAAGACACTATATTTTGCAAAC 7 95 0 TTGAAACATA 0.973697 -188 TTCAAAAGTTTTGAAAGACACTATAAAAAAGCTAT 7 184 1 TTGAAACATA 0.973697 -99 AAACCTATATTTATAATTAACCATACAAAAATTGT 24 164 0 TTAAAACATA 0.824061 -137 ATTAGTGAGATTATAAAAAACAATAAATAATTAAT 24 219 0 TTAAAACATA 0.824061 -82 TTTATTAATTTTGAAAGGCACTATAATCTTACTGT 25 167 0 TTGAAACATA 0.973697 -134 TTTAAGAAGTTTGAAAGACACTATATAGTTAAATC 25 261 1 TTGAAACATA 0.973697 -40 ATCTCACAGACTGGAAGATACGATAAAGAGTATAT 29 75 0 CTGAAACATA 0.853775 -124 TGGCATTATTTTGAAAGACATTATAGATTAAATGT 29 148 0 TTGAAATATA 0.709157 -51 GAAGTAGAGTTTGCAATTCACTATTTATAATTAGT 35 27 0 TTGAAACATT 0.797549 -100 GTTTAAACACTTGTATTCTACCATATACATCCCCA 44 62 0 TTGATACATA 0.797549 -143 GGCCGCTCCATTGCAAGCAACAATAACATACTCAG 61 104 1 TTGAAACATA 0.973697 -197 *** ** ** *** Masking position 10 Map Score: 13.164 Number of sites scoring better than the average of aligned sites = 61 Number in coding regions = 22 Number in noncoding regions = 39 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 9 ATGGTTAATTTTTAATGCTTAATTTTCCTTACTTT 4 23 1 TTTAAGATTT 0.470799 -205 TTTCCTTACTTTTAAAACTTGTTTTTTAGAGTAAT 4 46 1 TTTAAATTTT 0.759998 -182 CAGCGTAATCTTTAAATATCTATTTTCAATATCTC 5 243 1 TTTAATATTT 0.841414 -58 CCTTAAAATCTTTAATTTGTGTTTTTATAGTTTTT 6 267 0 TTTAATTTTT 0.890356 -34 TGGTTTAATATCTAAATAGCTTTTTTATAGTGTCT 7 199 0 TCTAATTTTT 0.46268 -84 GTTTCAATTATTTAAAAATTTATTTAAT 10 4 0 TTTAAAATTT 0.674162 -56 AACCAAAAAGTTTAAGTAATGGTTTCATATTATTG 15 14 1 TTTAATGTTT 0.709441 -103 TAGTTGCCAAAATAAATATACTTTTCTGAGGGAAT 17 33 1 AATAATTTTT 0.389618 -269 TTTGAGGTTTTATAAATACCTTTTTATGTCAAACT 17 82 1 TATAATTTTT 0.845188 -220 CCATTAGGATTATAAAAACATTTTTATACTTCTTC 17 164 1 TATAAATTTT 0.680405 -138 TTTAATAGCTTTTAAATCCCATTTTATATTTTTTT 20 28 1 TTTAATTTTT 0.890356 -40 TCCCTAAAAATATAAAACTTTTTTTATATCACGTT 22 84 1 TATAAATTTT 0.680405 -72 GTAAGCACTCTTTAAAATGAATTTTCTCATATATA 24 106 1 TTTAAATTTT 0.759998 -195 TATGGTTAATTATAAATATAGGTTTGTGGCAAAAT 24 174 1 TATAATGTTT 0.621433 -127 AACTTTAACTTTAAATTTATTTTAACTT 28 4 1 TTTAATATTT 0.841414 -93 AGATTTAAAGTATAAATATGGGTTTTAGTAAATAT 29 106 1 TATAATGTTT 0.621433 -93 TTTTACCCCCTATAACTTATTATTTGGCATTATTT 29 172 0 TATAATATTT 0.781043 -27 CACGTTCTAAATTAAATTTAAATTTTGAGGTGAGT 31 12 1 ATTAATATTT 0.382848 -27 ATTCACTATTTATAATTAGTTATTTATATTTTTCG 35 12 0 TATAATATTT 0.781043 -115 TATTCTACTATTTAATTCTCATTTTCACTCAACCG 36 140 1 TTTAATTTTT 0.890356 -161 TTTATAAATCTTTAATAGCAAATTTCAGGAAATTT 36 223 0 TTTAAAATTT 0.674162 -78 TGCTAATATTTTTAACTTAATATTTAAAGCTTACT 37 20 0 TTTAATATTT 0.841414 -113 TATAAATTTTTATAACTTTTATTTTTGGGGATGTA 44 37 1 TATAATTTTT 0.845188 -168 TGAAATTATCTATAAATCCATATTTTTGGAACATT 45 68 1 TATAATATTT 0.781043 -198 GTTTAACTCACCTTTTAGTATGAATT 46 154 0 TTTAATTTTT 0.890356 -16 TAATTTTTACTTTAAGTTTTGTTTTGTAAAAGAGA 49 128 0 TTTAATTTTT 0.890356 -136 ACATCAAAAAATTAAATCAATTTTTGTTTAAATTT 55 83 0 ATTAATTTTT 0.487032 -218 CATATTTTTATATAAGAAATATTTTCCTGCAAAAG 60 87 0 TATAAATTTT 0.680405 -142 CAAATCAAAGTATAAAAAATTATTTTTATTTTGAC 61 211 0 TATAAAATTT 0.581768 -90 AAACAGATTTTTTAAGGGCATTTTTATAAATATCT 62 203 0 TTTAAGTTTT 0.576558 -98 GTTTCTAATTTTTAAATTAACTTTTAAGTTTTGAT 62 239 0 TTTAATTTTT 0.890356 -62 ***** * **** Masking position 5 Map Score: 25.7368 Number of sites scoring better than the average of aligned sites = 897 Number in coding regions = 671 Number in noncoding regions = 226 Number of orfs with sites within 600 bp upstream = 212 Fraction of orfs with sites within 600 bp upstream = 0.0340508 Motif number 10 GTATATAAACTGCTAAAGTCCTATTCAAAGAA 6 67 1 TGCAAAGCCT 0.989523 -234 TAATAACTTTTGCAAAAAACCATATATCCTCT 6 160 0 TGCAAAACCA 0.821975 -141 TTATTAATTTTGCCACAAACCTATATTTATAA 24 183 0 TGCACAACCT 0.872501 -118 CATTTACTCCTGCGAAAGTCCTAACTCCCTAC 55 183 0 TGCAAAGCCT 0.989523 -118 TATATTTGCCTGCGAAAGTCCTAAGAAATCCC 55 266 1 TGCAAAGCCT 0.989523 -35 AATATTTTCCTGCAAAAGCCCTGTAGTTATCA 60 73 0 TGCAAAGCCT 0.989523 -156 ACCTTATAGATGCAAAATTCCTTATAAATATC 60 123 1 TGCAAATCCT 0.935943 -106 TATCAACAAGTGCAAAAGCCCTGTAGGAGTGG 60 151 1 TGCAAAGCCT 0.989523 -78 *** **** *** Masking position 7 Map Score: 9.92264 Number of sites scoring better than the average of aligned sites = 41 Number in coding regions = 13 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 18 Fraction of orfs with sites within 600 bp upstream = 0.0028911 Motif number 11 ATTTGTATATTTAAATAAATATACATTACTCTA 4 72 0 TTATAATATA 0.585456 -156 AGTTTATATATTAGATAACCTAAGGTATTATCT 4 162 1 TTATAACTAA 0.56091 -66 CAATCAATGTTTTTATAACAACAAAAAGAGGAT 6 134 1 TTATAAAACA 0.819782 -167 TATTAAGTTTTTGAATAAAATTAGATAAAATAA 11 25 1 TTATAAATTA 0.768446 -61 TTATTTAAGTTTTTATAATAACATTCTGGGGTT 17 276 1 TTATAAAACA 0.819119 -26 GGTTATGGGTTTGCATAATAAAATAATTTAGGT 21 61 0 TTATAAAAAA 0.779396 -213 CATTTTAAAATTGAATAATAATAATATGCAACA 21 111 1 TTATAAAATA 0.88271 -163 TTTGGAGTGTTTCAATAAGAAAATTAATGTGTA 23 59 0 TTATAAAAAA 0.779417 -39 ATTTATTGTTTTTTATAATCTCACTAATATGAC 24 226 1 TTATAACTCA 0.621523 -75 ATCAGTTAAATTTAATAAAAAAAGAGTAACTAA 24 261 0 TTATAAAAAA 0.779299 -40 TGCTATATTGTTTCATAAATATAATTAGGCTAT 25 86 0 TTATAATATA 0.585457 -215 CATGGTCTAATTCCATAACCATATTTCTTTTTC 30 41 0 TTATAACATA 0.86062 -177 AATCCGTAGATTTTATAAGATTATAGGAAAATA 36 98 0 TTATAAATTA 0.768436 -203 AGTCCTAAAGTTCAATAAGCAAATGTTGTTAGA 39 14 1 TTATAACAAA 0.74352 -152 GCAAATGTTGTTAGATAACCTTATTCAATTAAT 39 32 1 TTATAACTTA 0.731375 -134 ATTACGATTTTTTGATAATAATAAGAAGCTAAT 46 107 1 TTATAAAATA 0.882118 -63 CCTACAGATTTTTAATAAACATATTAAAACTTT 51 120 0 TTATAACATA 0.860618 -30 CCACATCCCCTTTTATAATATCAAAGCTTTAGA 54 80 0 TTATAAATCA 0.666779 -55 GTTTCATAATTTATATAATAATAACTATATACT 59 43 0 TTATAAAATA 0.882393 -69 AAAATATTTCTTATATAAAAATATGCACCTTAT 60 97 1 TTATAAAATA 0.882709 -132 ** **** **** Masking position 6 Map Score: 13.6004 Number of sites scoring better than the average of aligned sites = 271 Number in coding regions = 190 Number in noncoding regions = 81 Number of orfs with sites within 600 bp upstream = 80 Fraction of orfs with sites within 600 bp upstream = 0.0128493 Motif number 12 CTCATACAATAAAAAGATTACCATATCGAT 1 67 1 AAAAAGATTA 0.634035 -203 ACATATCAATAAAAAGATAAATGAGCTAAA 5 57 1 AAAAAGATAA 0.829729 -244 CAATTCTCATATAAAGATAATAGTATATAA 6 45 1 ATAAAGATAA 0.813069 -256 TTATAACAACAAAAAGAGGATATATGGTTT 6 146 1 AAAAAGAGGA 0.89057 -155 GGGTGATACCATAAAGAGGAGTTCAAGAAG 15 78 1 ATAAAGAGGA 0.878995 -39 ACAACCTGAGATAAAGAGGACCCGTAGCCT 24 78 0 ATAAAGAGGA 0.878995 -223 AATTTAATAAAAAAAGAGTAACTAATCGTC 24 256 0 AAAAAGAGTA 0.797586 -45 GGAAGATACGATAAAGAGTATATAATAATA 29 68 0 ATAAAGAGTA 0.778621 -131 ATTTTACTTAAAAAAGATGAGGCTATTTTA 36 254 0 AAAAAGATGA 0.781574 -47 CGTTTTATAGATAAAGAGAAGGACTATGTG 37 90 0 ATAAAGAGAA 0.908195 -43 TTTAAACTGTAAAAAGATAATAAAACTTGA 44 90 1 AAAAAGATAA 0.829729 -115 AAGAGCTGGGAAAAAGAGCAAGATGTCCTC 44 119 1 AAAAAGAGCA 0.698008 -86 TAACTCTATAAAAAAGAGAAGAGAGTTAAA 50 72 0 AAAAAGAGAA 0.917239 -229 GACAATATTCAAAAAGATAACAACTATTTT 53 86 1 AAAAAGATAA 0.829729 -34 AAGTATATAAATATAGAGAAACTATTATCG 55 134 1 ATATAGAGAA 0.598815 -167 CATATAGCATATAAAGATAAATACTTTTAT 56 19 0 ATAAAGATAA 0.813069 -123 ATAAATTTAAATATAGAGAAT 57 2 0 ATATAGAGAA 0.598815 -56 ********** Masking position 5 Map Score: 14.6162 Number of sites scoring better than the average of aligned sites = 278 Number in coding regions = 238 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 32 Fraction of orfs with sites within 600 bp upstream = 0.00513974 Motif number 13 GATACCGAAAAGTTTATATATTAGATAACC 4 152 1 AGTTTATATA 0.825551 -76 GGACTTTAGCAGTTTATATACTATTATCTT 6 58 0 AGTTTATATA 0.825551 -243 GTTTGTGTTTATTTTATCTAATTTTATTCA 11 36 0 ATTTTATCTA 0.543655 -50 AACGTGTTTCATTTTTTATATATTCTTTTT 12 116 0 ATTTTTTATA 0.758525 -185 ATGGCGGATAACTTTATATATTTTATTTAA 17 254 1 ACTTTATATA 0.792553 -48 ATTTTATTTAAGTTTTTATAATAACATTCT 17 273 1 AGTTTTTATA 0.666495 -29 TTTAAATCCCATTTTATATTTTTTTAATAT 20 38 1 ATTTTATATT 0.458293 -30 TCACCAAGTAATTTTTTATAATTTTTTAAT 21 17 1 ATTTTTTATA 0.758525 -257 ATATATGAATATTTTATATAGTATTCCCTT 21 169 0 ATTTTATATA 0.881494 -105 TAGAGGCATAACTTTATATACCAAATATAT 23 19 1 ACTTTATATA 0.792553 -79 AAATATATTAATTTTATCTACACATTAATT 23 41 1 ATTTTATCTA 0.543655 -57 TACTGTAAGAAGTTTATATACTTTTATTGT 25 143 0 AGTTTATATA 0.825551 -158 GCACCTCTGTATTTTATATGCCATCTGAGT 27 61 0 ATTTTATATG 0.566844 -21 TTCTATTCTGACTTTATATAGTAAATTCAA 36 67 0 ACTTTATATA 0.792553 -234 TCAACCGAAAATTTTATATATGGTTTCTGA 36 168 1 ATTTTATATA 0.881494 -133 ATTTTGAAAAATTTTATATTGCTAAGATAT 36 197 0 ATTTTATATT 0.458293 -104 ATCACAATAAATTTTATATATTGGGAATTG 37 54 1 ATTTTATATA 0.881494 -79 TTATAGTCTTATTTTATATGGTTGTGTTAA 41 164 0 ATTTTATATG 0.566844 -137 TTAATAGTTAAGTTTTTATATCTCTTGTAT 49 58 1 AGTTTTTATA 0.666495 -206 CCCCGGCTCCATTTTTTATATTTAACTCTC 50 52 1 ATTTTTTATA 0.758525 -249 ACTTTTTAAAACTTTTTATATGTTTTTATG 51 95 0 ACTTTTTATA 0.617356 -55 ATTGATAAAATTTATATACTCCCTTATA 53 9 1 AATTTATATA 0.563501 -111 AGTGTTTCATAATTTATATAATAATAACTA 59 49 0 AATTTATATA 0.563501 -63 AATAAAAATAATTTTTTATACTTTGATTTG 61 216 1 ATTTTTTATA 0.758525 -85 ********** Masking position 5 Map Score: 24.6363 Number of sites scoring better than the average of aligned sites = 327 Number in coding regions = 197 Number in noncoding regions = 130 Number of orfs with sites within 600 bp upstream = 142 Fraction of orfs with sites within 600 bp upstream = 0.0228076 Motif number 14 CTTTTTATTGATATGTTTTATCTCCTCTTC 5 43 0 ATATGTTTTA 0.711014 -258 AACACAAATTAAAGATTTTAAGGTGATAAC 6 279 1 AAAGATTTTA 0.74094 -22 CACTCAAATAAAAGATTTTAAAGATATCAA 7 241 1 AAAGATTTTA 0.74094 -42 AATTATTTTAAAGTATTTTAT 8 2 0 AAGTATTTTA 0.648009 -40 CTTCTCTCTCAATTATTTTAAAGTATTTTA 8 12 0 AATTATTTTA 0.721109 -30 AAAACCTCAAATAGGTTTTATATTTATTCC 17 63 0 ATAGGTTTTA 0.599151 -239 GGATAACTTTATATATTTTATTTAAGTTTT 17 259 1 ATATATTTTA 0.801977 -43 TTTCAACCTAAATTATTTTATTATGCAAAC 21 56 1 AATTATTTTA 0.721109 -218 AAATACAATAATAGATTTTAACGCTAATAC 21 215 0 ATAGATTTTA 0.711014 -59 TTAACTTTAAATTTATTTTAACTTTCTGAA 28 15 1 ATTTATTTTA 0.689851 -82 AAGTATAAATATGGGTTTTAGTAAATATTG 29 113 1 ATGGGTTTTA 0.368882 -86 TGTTTTATTTATTTGTTTTAACCGTAATAT 35 79 0 ATTTGTTTTA 0.574697 -48 TAGAAAATAAAACTATTTTAGCCAGTTGAA 36 42 1 AACTATTTTA 0.648009 -259 TATCTGATATAAATATTTTACTTAAAAAAG 36 268 0 AAATATTTTA 0.824804 -33 TAGGTAATATAAAGATTTTAGA 39 154 1 AAAGATTTTA 0.74094 -12 TCACCATTATAAGTATTTTAAAGTAGTTAA 41 275 0 AAGTATTTTA 0.648009 -26 TTTTAAATCCAACTATTTTAAATTATTTTT 42 24 1 AACTATTTTA 0.648009 -111 ATTAATTAAAATTATTTTAATTAATGCCA 47 10 1 AATTATTTTA 0.721109 -79 ATATCCTTAAATAGATTTTATGCTACAAAA 50 197 1 ATAGATTTTA 0.711014 -104 AATTTTAGTTATATATTTTACTTTTGGAAC 51 49 0 ATATATTTTA 0.801977 -101 TCGCAGGAGTAAATGTTTTATATTGAATAT 55 200 1 AAATGTTTTA 0.74094 -101 TCGCAGGCAAATATATTTTAACTTTGGAAC 55 251 0 ATATATTTTA 0.801977 -50 TTTAATCTTAAATTATTTTAAAATCACTGA 58 15 1 AATTATTTTA 0.721109 -43 TTATTGTATTAAATATTTTAATTAATGTCT 61 163 1 AAATATTTTA 0.824804 -138 TTATACTTTGATTTGTTTTATTAGATTATG 61 231 1 ATTTGTTTTA 0.574697 -70 CCCTTAAAAAATCTGTTTTATCAAAACTTA 62 220 1 ATCTGTTTTA 0.490343 -81 ********** Masking position 6 Map Score: 20.9515 Number of sites scoring better than the average of aligned sites = 609 Number in coding regions = 431 Number in noncoding regions = 178 Number of orfs with sites within 600 bp upstream = 179 Fraction of orfs with sites within 600 bp upstream = 0.0287504 Motif number 15 ACGTAGTGAAGCCCCACTCGGGTATCTCAATAG 1 150 0 GCCCCACGGT 0.912096 -120 ACTACGTTCAGCCCCACTGTAGTCTAGTATCCC 1 176 1 GCCCCAGTGT 0.912189 -94 ATAGGGCTTCGCCCTATTGGGATACTAGACTAC 1 194 0 GCCCTAGGAT 0.79154 -76 ACCTGTCATTGCCCTACCCGGGCTTTTCAGGTT 7 64 0 GCCCTACGGC 0.872288 -219 ATTAATGAACGCCTTAAAGGCGTTCAATGTTCC 7 140 0 GCCTTAGGGT 0.731472 -143 GCGGGGCAAAGCCCCATGGGATCTCCAGTCCCA 12 179 0 GCCCCAGGTC 0.956369 -122 ATGGGGCTTTGCCCCGCGGGGGTTCAAATCCCC 12 195 1 GCCCCGGGGT 0.884611 -106 GGACGCGGATGCCCCAGGAGGGCACACCCCGTC 28 52 1 GCCCCAAGGC 0.659428 -45 GATGCCCCAACCGTTTTACGGGGACG 28 81 0 GCCCCACGTT 0.957576 -16 GCTATTTTAGCCCCAACCGTTTGAGAATAATG 29 10 1 GCCCCACGTT 0.957576 -189 AAGTGCAAAAGCCCTGTAGGAGTGGGCAATTCC 60 158 1 GCCCTGGGGT 0.928375 -71 CCCGGAGGCCGCACCACTGGCTTCAATTAGCCA 61 17 0 GCACCAGGTT 0.748117 -284 ACGTGTCAATGACCCAGTGGAGTTCTGCCCCTT 62 117 1 GACCCAGGGT 0.895557 -184 CTGCCCCTTTACCCCAAAGGGGTAGTGAAATGA 62 141 1 ACCCCAGGGT 0.75766 -160 ****** ** ** Masking position 4 Map Score: 10.3386 Number of sites scoring better than the average of aligned sites = 35 Number in coding regions = 13 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802