AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i03010_mjan_reg_100.orf -o03010_mjan_100.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) 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 MJ0372 155 LSU ribosomal protein L24A #22 MJ0373 97 LSU ribosomal protein L11P (rplK) #23 MJ0397 300 DNA-directed RNA polymerase, subunit E' (rpoE1) #24 MJ0460 300 LSU ribosomal protein L22P (rplV) #25 MJ0461 25 SSU ribosomal protein S3P (rpsC) #26 MJ0465 198 SSU ribosomal protein S17P (rpsQ) #27 MJ0470 217 SSU ribosomal protein S8P (rpsH) #28 MJ0471 38 LSU ribosomal protein L6P (rplF) #29 MJ0473 48 LSU ribosomal protein L19E #30 MJ0474 32 LSU ribosomal protein L18P #31 MJ0476 65 LSU ribosomal protein L30P (rpmD) #32 MJ0508 126 LSU ribosomal protein L12A (P1) #33 MJ0510 300 LSU ribosomal protein L1P (rplA) #34 MJ0543 132 ubiquinol-cytochrome C reductase complex, subunitVI requiring protein #35 MJ0592 134 conserved hypothetical protein #36 MJ0593 42 LSU ribosomal protein L37AE #37 MJ0595 265 LSU ribosomal protein LXA #38 MJ0655 169 LSU ribosomal protein L34E #39 MJ0656 88 cytidylate kinase (cmk) #40 MJ0657 86 LSU ribosomal protein L14E #41 MJ0673 263 SSU ribosomal protein S8E #42 MJ0692 300 SSU ribosomal protein S19E #43 MJ0707 149 LSU ribosomal protein L40E (CEP52) #44 MJ0982 119 SSU ribosomal protein S2P #45 MJ0983 134 LSU ribosomal protein L15E (rpl15) #46 MJ1044 300 LSU ribosomal protein L30E #47 MJ1046 141 SSU ribosomal protein S12P (rpsL) #48 MJ1047 57 SSU ribosomal protein S7P (rpsG) #49 MJ1201 57 LSU ribosomal protein L24E #50 MJ1202 111 SSU ribosomal protein S28E #51 MJ1203 228 LSU ribosomal protein L7AE #52 MJ1260 300 SSU ribosomal protein S6E Motif number 1 AAATTATAAATAGGTCTTTTG 1 2 1 AATTATAAAT 0.792781 -268 CATATCGATAAAATAAAAATAACAAAAACA 1 88 1 AAATAAAAAT 0.805238 -182 AGCCCTATGGAAATAAAAAACATGCCAGGT 1 219 1 AAATAAAAAA 0.843222 -51 AATATAGTTAATATTAAAAATTAAGTAAGT 3 12 0 ATATTAAAAA 0.744365 -30 AATAATTTGTATATTTAAATAAATATACAT 4 79 0 ATATTTAAAT 0.704447 -149 AATAAATAATAAATATAAATATTACCAAAT 5 146 0 AAATATAAAT 0.832753 -155 TGTCAGCGTAATCTTTAAATATCTATTTTC 5 240 1 ATCTTTAAAT 0.510716 -61 TATTTGCAAAAACTATAAAAACACAAATTA 6 260 1 AACTATAAAA 0.729292 -41 ATTTATTGATATCTTTAAAATCTTTTATTT 7 246 0 ATCTTTAAAA 0.593188 -37 ATAAAATAAAAATGCAGAAACAA 9 4 1 AAATAAAAAT 0.805238 -30 TGTTTCAATTATTTAAAAATTTATTTAAT 10 10 0 ATTTAAAAAT 0.525497 -50 TATTGTGGGAATATATAAAAAGAATATATA 12 100 1 ATATATAAAA 0.913813 -201 TATAAAAAGAATATATAAAAAATGAAACAC 12 113 1 ATATATAAAA 0.913813 -188 TAGTAAATAGATATTAAAAAATAAAAAGAA 12 241 0 ATATTAAAAA 0.744365 -60 ACCTTATAATAATTATAAAAGGTTTGAAGG 14 41 1 AATTATAAAA 0.861228 -37 GTAGGTAAAAATTTAAAAAACAAGATAAGA 15 48 1 ATTTAAAAAA 0.881222 -69 CTGAGGGAATAAATATAAAACCTATTTGAG 17 58 1 AAATATAAAA 0.866393 -244 ATAAAAAGGTATTTATAAAACCTCAAATAG 17 79 0 ATTTATAAAA 0.872792 -223 ATTTTAAAAACCTTAATAAA 19 1 1 ATTTTAAAAA 0.727412 -67 ACCTTAATAAATTTATAAAACTCTTTTAAA 19 20 1 ATTTATAAAA 0.872792 -48 AATATTAAAAAAATATAAAATGGGATTTAA 20 39 0 AAATATAAAA 0.866393 -29 TAATCCCTAAAAATATAAAACTTTTTTTAT 21 81 1 AAATATAAAA 0.866393 -75 GTGAAACGTGATATAAAAAAAGTTTTATAT 21 93 0 ATATAAAAAA 0.8981 -63 CCTTAAATAAATTTTAAAAAATAAAATAGA 21 129 0 ATTTTAAAAA 0.727412 -27 TTGTATGGTTAATTATAAATATAGGTTTGT 23 171 1 AATTATAAAT 0.792781 -130 ACAAGTTAGGATTTAAAAAATTAGATTAAA 27 157 1 ATTTAAAAAA 0.881222 -61 ACTCACCTCAAAATTTAAATTTAATTTAGA 28 17 0 AAATTTAAAT 0.622032 -22 CCGAAAAATATAAATAACTAATTAT 32 6 1 AAATATAAAT 0.832753 -121 ATAAATAACTAATTATAAATAGTGAATTGC 32 20 1 AATTATAAAT 0.792781 -107 ATCAGAAACCATATATAAAATTTTCGGTTG 33 169 0 ATATATAAAA 0.913813 -132 GCTATTAAAGATTTATAAAATAGCCTCATC 33 239 1 ATTTATAAAA 0.872792 -62 TCAATTCCCAATATATAAAATTTATTGTGA 34 55 0 ATATATAAAA 0.913813 -78 CCTTCTCTTTATCTATAAAACGAAACAGCC 34 98 1 ATCTATAAAA 0.815229 -35 AAATAGTTGGATTTAAAAATTTTACTATAA 35 12 0 ATTTAAAAAT 0.525497 -123 CTCTAAAAATAATTTAAAATAGTTGGATTT 35 28 0 AATTTAAAAT 0.560178 -107 AGGGTTTTGAATTTATAAAAATTACTTTAG 35 94 0 ATTTATAAAA 0.872792 -41 GGCTGAAATTATCTATAAATCCATATTTTT 37 65 1 ATCTATAAAT 0.740726 -201 CAATGGAAATAAATAAAAATATAATAACGA 37 130 1 AAATAAAAAT 0.805238 -136 TTTAATGGTAAATTAAAAATTAAGAAAACA 38 57 1 AATTAAAAAT 0.787006 -113 CAGTTAAAAAATATTAAAAACAATTATTAC 41 234 1 ATATTAAAAA 0.744365 -30 AGAGAGTTAAATATAAAAAATGGAGCCGGG 42 53 0 ATATAAAAAA 0.8981 -248 AAAATAAATTAATTAAAAAATAATTAAGAG 42 271 1 AATTAAAAAA 0.837516 -30 TATATAACTAAAATTTAAATCTGTCAAAAA 43 64 1 AAATTTAAAT 0.622032 -86 ATTGTCGGGGATTTAAAAATTAGTGGTTGT 44 62 0 ATTTAAAAAT 0.525497 -58 GAACTTAGACATCTAAAAAATGTCAATATT 46 225 0 ATCTAAAAAA 0.785555 -76 AAGTATTTATAAAAGTATTTATCT 47 5 1 ATTTATAAAA 0.872792 -137 ATTCTCTATATTTAAATTTATTAAAAA 48 8 1 ATATTTAAAT 0.704447 -50 ATCTTAAATTATTTTAAAATCACTGAAACA 49 19 1 ATTTTAAAAT 0.44954 -39 AAGGTTTAAAATTTATAAAAAAGTTAGTAG 50 80 0 ATTTATAAAA 0.872792 -32 AATATTTCTTATATAAAAATATGCACCTTA 51 99 1 ATATAAAAAT 0.858817 -130 AAATAAAGATATTTATAAAAATGCCCTTAA 52 197 1 ATTTATAAAA 0.872792 -104 TTAAAAGTTAATTTAAAAATTAGAAACCAA 52 247 1 ATTTAAAAAT 0.525497 -54 CAAATAACAAAAATAAAAATAGGAGGGAAT 52 278 1 AAATAAAAAT 0.805238 -23 ********** Masking position 4 Map Score: 56.6832 Number of sites scoring better than the average of aligned sites = 1673 Number in coding regions = 1133 Number in noncoding regions = 540 Number of orfs with sites within 600 bp upstream = 410 Fraction of orfs with sites within 600 bp upstream = 0.0658529 Motif number 2 GCCTCATTTAAAAACCTATTCAAAAAGGTGAGAATT 2 54 1 AAAATAAAAA 0.953995 -26 ATTAAGCATTAAAAATTAACCATAATGGTGATACA 4 5 0 AAAAAATATA 0.384039 -223 TACCTAATTTTAATAAGATACAAAAAAGATACCGAAAAGTT 4 125 1 TAAATAAAAA 0.872563 -103 AGTGGCTCTTAAATTCGTATAAAAATGAAGAGGAGATAAAA 5 17 1 AAATAAAATA 0.612177 -284 AAATATTACCAAATAAATAACAAATAAATAATCTTACTCTC 5 119 0 AAATAAAAAA 0.855178 -182 ATGCTGTAATAAATAATAAATATAAATATTACCAAATAAAT 5 142 0 AAAAAATAAA 0.699916 -159 AATAGTTAAGATGATAAAAATACCCTACCCATAGAGA 5 274 0 TAAATAAAAA 0.872556 -27 CATATAAAGATAATAGTATATAAACTGCTAAAGTCCTATTC 6 52 1 TAAATAAATA 0.646684 -249 TAATGTATTCTAAATATTTGCAAAAACTATAAAAACACAAA 6 246 1 TAATTAAAAA 0.732341 -55 AAAACTATAAAAACACAAATTAAAGATTTTAAGGTGATAAC 6 268 1 AAAAAAAAAA 0.936611 -33 AGTGTCTTCCAAAATCAATAAAATTAATTTAAGGAACATTG 7 108 1 AAAATAATAA 0.695057 -175 ATTTAGATATTAAACCAAACAAAACACTCAAATAAAAGATT 7 217 1 TAAAAAAAAA 0.829901 -66 AACACTCAAATAAAAGATTTTAAAGATATCAATAAATATGC 7 239 1 TAATTAAAAA 0.732274 -44 ATAAAATACTTTAAAATAATTGAGAGAGAAGGT 8 3 1 AAATTAAAAA 0.892303 -39 TTATTTTATCTAATTTTATTCAAAAACTTAATAAATAAGAG 11 17 0 TAAATAAAAA 0.871045 -69 TAGATAAAATAAACACAAACAAAACACATAATAATTTAAGG 11 46 1 AAAAAAAAAA 0.936613 -40 GAATATATAAAAAGAATATATAAAAAATGAAACACGTTTCA 12 108 1 AAAATAAAAA 0.953995 -193 GTTTTATAGTAAATAGATATTAAAAAATAAAAAGAAGTGGC 12 236 0 AAATAAAAAA 0.855178 -65 GTTTTCCTTCAAACCTTTTATAATTATTATAAGGTTTGACA 14 35 0 AAATTAATAA 0.476682 -43 TATTGTAGGTAAAAATTTAAAAAACAAGATAAGAGGGTGAT 15 44 1 AAATAAAAAA 0.855178 -73 TTAAAAATTAATAGAAAAATAATAAAAAAGGATA 16 4 1 AAAATAAAAA 0.953995 -41 GTTATTATAAAAACTTAAATAAAATATATAAAGTTATCCGC 17 257 0 AAAAAAAAAA 0.936612 -45 ATAAATTTATAAAACTCTTTTAAACACTTTAAACAAAATTG 19 26 1 AAATTAAAAA 0.878589 -42 ATGCTTTAAAATATTAAAAAAATATAAAATGGGATTTAA 20 39 0 AAAAAAAAAA 0.936613 -29 ATCTCACCTTAAATAAATTTTAAAAAATAAAATAGAGGTTT 21 124 0 AAATTAAAAA 0.892325 -32 ATAAGTTATGAAACGAAAAGTATATATATGAGAAAATTCAT 23 122 0 AAAAAATAAA 0.699916 -179 AGATTATAAAAAACAATAAATAATTAATGTAATTATTAATT 23 206 0 AAAAAAATAA 0.61892 -95 TGAATCAGTTAAATTTAATAAAAAAAGAGTAACTAATCGTC 23 256 0 AAAATAAAAA 0.953995 -45 GTTATGAGTTAAACAACAATAAAAGTATATAAACTTCTTAC 24 128 1 AAAAAAAATA 0.797973 -173 AGTGCCTTTCAAAATTAATAAAATTTATGAAGGAATGTTTG 24 180 1 AAAATAATTA 0.378606 -121 CTTAGTTATTTAAGAAGTTTGAAAGACACTATATAGTTAAA 24 253 1 TAATTAAAAA 0.729275 -48 AAAATATAAATAACTAATTATAAATAGTGAATTGCAAACTC 32 15 1 TAATTAAAAA 0.732359 -112 TATTACGGTTAAAACAAATAAATAAAACACAAAGGAGAACA 32 80 1 AAAATATAAA 0.765989 -47 GGTTGAGTGAAAATGAGAATTAAATAGTAGAATAAAGTCTC 33 133 0 AAAAAAAAAA 0.936613 -168 GGATACTCCCAAATAATATTAATACTCTAAAAATAATTTAA 35 41 0 AAAATATATA 0.466665 -94 ATGGTAAATTAAAAATTAAGAAAACATTATAGAAATACACA 38 61 1 AAAAAAAAAA 0.936613 -109 TATTATCAAAAAATCGTAATCATAGTGTGTATTTCTATAAT 38 86 0 AAAAAATATA 0.384039 -84 TCACCCATCCAAAATGGATTTAATTAGTATAAATATTTTTT 39 54 0 AAAATAATAA 0.695057 -35 TTACAAAACAAAACTTAAAGTAAAAATTATAGAATTTATGA 41 134 1 AAAAAAAAAA 0.936613 -130 TAAACTAACCAAAAGGCATGGAAATAATAAAATAATAAGAA 41 186 1 AAAATAAAAA 0.953995 -78 TCATAATCTTAAACACAAAATAAATAGATTAGAAAGAAAAT 42 229 1 AAAAAAAAAA 0.936613 -72 AATAGATTAGAAAGAAAATCAAAATAAATTAATTAAAAAAT 42 251 1 AAAATAAAAA 0.953993 -50 ATTGCTGCCTAAAGGGCATCTAAAGTTCCAAAAGTAAAATA 43 25 1 AAAATAAATA 0.84717 -125 TAAATCTGTCAAAAAACATAAAAACATATAAAAAGTTTTAA 43 79 1 AAAATAAAAA 0.953995 -71 AGATTTTTAATAAACATATTAAAACTTTTTAAAACTTTTTA 43 107 0 TAAATAAATA 0.603527 -43 TTGGATAGGATAAAAACATCAAAAAATTAAATCAATTTTTG 46 92 0 TAAATAAAAA 0.872565 -209 TCCTATCCAAAAAGTATATAAATATAGAGAAACTATTATCG 46 123 1 AAAATATAAA 0.765989 -178 ATAATTCAAGTAATAATTTGGAAAGATTACACAATGATTTT 47 58 0 TAATTAAAAA 0.732359 -84 AAATTACTCAAAATCAAAACAAAACATAACATAATTATGAA 47 100 1 AAAAAAAAAA 0.936613 -42 TCTCTATATTTAAATTTATTAAAAATTTTGAAAGAGTTGGA 48 13 1 TAAATAAATA 0.645558 -45 TGAAGGTTTAAAATTTATAAAAAAGTTAGTAGTAGTGTTTC 50 71 0 AAATAAAATA 0.612177 -41 TCAAAACTTAAAAGTTAATTTAAAAATTAGAAACCAAACAA 52 240 1 AAAATAAAAA 0.953995 -61 ATTAGAAACCAAACAAATAACAAAAATAAAAATAGGAGGGA 52 265 1 AAATAAAAAA 0.855178 -36 *** ** *** * * Masking position 12 Map Score: 75.1708 Number of sites scoring better than the average of aligned sites = 1682 Number in coding regions = 1257 Number in noncoding regions = 425 Number of orfs with sites within 600 bp upstream = 328 Fraction of orfs with sites within 600 bp upstream = 0.0526823 Motif number 3 ATGTTCATTAAAAGCGGATATATTTTTAATAGC 1 35 1 AAAGATATAT 0.895978 -235 TTACTCTAAAAAACAAGTTTTAAAAGTAAGGAA 4 47 0 AAAGTTTTAA 0.821537 -181 AAGATACCGAAAAGTTTATATATTAGATAACCT 4 150 1 AAATATATAT 0.900439 -78 ATAACAACAAAAAGAGGATATATGGTTTTTTGC 6 148 1 AAAGATATAT 0.895978 -153 CAATTATTTAAAAATTTATTTAAT 10 2 0 AAATATTTAA 0.868625 -58 TAAAAACCGAAAATAATATATAATATGGTATCC 12 49 1 AAATATATAA 0.868625 -252 GAATATATAAAAAGAATATATAAAAAATGAAAC 12 108 1 AAATATATAA 0.868625 -193 GTTTTCCTTCAAACCTTTTATAATTATTATAAG 14 43 0 AAATTTATAA 0.82858 -35 TTCCCTCAGAAAAGTATATTTATTTTGGCAACT 17 34 0 AAATATTTAT 0.900439 -268 ATAAAACCTCAAATAGGTTTTATATTTATTCCC 17 62 0 AAAGTTTTAT 0.862955 -240 GTTTGACATAAAAAGGTATTTATAAAACCTCAA 17 83 0 AAATATTTAT 0.900439 -219 TAGGATTATAAAAACATTTTTATACTTCTTCTA 17 168 1 AAATTTTTAT 0.868625 -134 TAAAGTGTTTAAAAGAGTTTTATAAATTTATTA 19 24 0 AAAGTTTTAT 0.862955 -44 AAAAAATATAAAATGGGATTTAAAAGCTATTAA 20 29 0 AAAGATTTAA 0.862955 -39 ACGTGATATAAAAAAAGTTTTATATTTTTAGGG 21 85 0 AAAGTTTTAT 0.86295 -71 TTTATTTTTTAAAATTTATTTAAGGTGAGATT 21 134 1 AAATATTTAA 0.868625 -22 TATGAAACGAAAAGTATATATATGAGAAAATTC 23 124 0 AAATATATAT 0.900439 -177 TAACCATACAAAAATTGTTATAAGTTATGAAAC 23 149 0 AAAGTTATAA 0.821537 -152 AAATAAGATATAAAGGTGGAAAT 25 1 1 AAAGATATAA 0.862955 -25 AAGATACGATAAAGAGTATATAATAATAGCCAG 26 63 0 AAATATATAA 0.868625 -136 CTATAACAAAAGCAGATTTATCTTAAAGAGT 29 28 0 AAAGATTTAT 0.895978 -21 TTAAACAATTTTTATCAGGAAGGTG 30 3 1 AAATTTTTAT 0.868625 -30 TCAACTGGCTAAAATAGTTTTATTTTCTATGAA 33 38 0 AAAGTTTTAT 0.862955 -263 ACTCAACCGAAAATTTTATATATGGTTTCTGAT 33 166 1 AAATATATAT 0.900439 -135 GGAAATTTTGAAAAATTTTATATTGCTAAGATA 33 198 0 AAATTTATAT 0.868618 -103 TTTTTTAAGTAAAATATTTATATCAGATACCAT 33 269 1 AAATTTATAT 0.868625 -32 GCATCACAATAAATTTTATATATTGGGAATTGA 34 52 1 AAATATATAT 0.900439 -81 GGTGTTGCACAAAACATTTATAAGATTTGTAAA 37 225 1 AAATTTATAA 0.82858 -41 AATTACAATGAAAAAATATTTATACTAATTAAA 39 44 1 AAATATTTAT 0.900434 -45 TCACCCATCCAAAATGGATTTAATTAGTATAAA 39 62 0 AAAGATTTAA 0.862955 -27 TTTGTAGCATAAAATCTATTTAAGGATATGTAG 42 193 0 AAATATTTAA 0.868625 -108 AAACTTTTTAAAACTTTTTATATGTTTTTATGT 43 94 0 AAATTTATAT 0.868625 -56 AATTTAAACAAAAATTGATTTAATTTTTTGATG 46 84 1 AAAGATTTAA 0.862955 -217 TATCCTATCCAAAAAGTATATAAATATAGAGAA 46 121 1 AAATATATAA 0.868625 -180 TCGCAGGAGTAAATGTTTTATATTGAATATTGA 46 200 1 AAATTTATAT 0.868625 -101 ACTTACCCAAAAGTTTTATATACTAAAAGTC 51 9 1 AAATTTATAT 0.868625 -220 GTTTAAAACCAAAAATTATTTAAAATATTATGT 52 38 1 AAATATTTAA 0.868625 -263 TGCCCTTAAAAAATCTGTTTTATCAAAACTTAA 52 218 1 AAAGTTTTAT 0.862955 -83 *** ******* Masking position 9 Map Score: 60.615 Number of sites scoring better than the average of aligned sites = 295 Number in coding regions = 171 Number in noncoding regions = 124 Number of orfs with sites within 600 bp upstream = 134 Fraction of orfs with sites within 600 bp upstream = 0.0215226 Motif number 4 TTTGTATATTTAAATAAATATACATTACTC 4 74 0 TAAATAAATA 0.714888 -154 TTTAAATATACAAATTATTATGTCATGTTA 4 90 1 CAAATTATTA 0.8498 -138 AAATAAATAACAAATAAATAATCTTACTCT 5 120 0 CAAATAAATA 0.868554 -181 TAAATATTACCAAATAAATAACAAATAAAT 5 131 0 CAAATAAATA 0.868554 -170 CTTCCTTCGTCAATTTAATAACTTTTGCAA 6 177 0 CAATTTAATA 0.801013 -124 ATTTGAGGTATAAATTAATAACGGATTAGT 7 28 0 TAAATTAATA 0.81664 -255 TTAGTCACCTTAAATTATTATGTGTTTTGT 11 64 0 TAAATTATTA 0.682235 -22 ACTTCAACATCAAATTAATAACTATCCTTT 12 11 1 CAAATTAATA 0.921476 -290 TAAGGTTTGACAAATAATTAGAATGAAAAT 14 17 0 CAAATAATTA 0.761059 -61 TTAAAAATTAATAGAAAAATAAT 16 4 1 AAAATTAATA 0.896787 -41 GGTAGTTGCCAAAATAAATATACTTTTCTG 17 31 1 AAAATAAATA 0.830291 -271 AGAGTTTTATAAATTTATTAAGGTTTTTAA 19 14 0 AAATTTATTA 0.589631 -54 ATGTGTAGATAAAATTAATATATTTGGTAT 22 36 0 AAAATTAATA 0.896787 -62 GGTTTGTGGCAAAATTAATAATTACATTAA 23 194 1 AAAATTAATA 0.896787 -107 TAAAAAACAATAAATAATTAATGTAATTAT 23 211 0 TAAATAATTA 0.544875 -90 TGAATCAGTTAAATTTAATAAAAAAAGAGT 23 267 0 AAATTTAATA 0.748776 -34 AGTGCCTTTCAAAATTAATAAAATTTATGA 24 180 1 AAAATTAATA 0.896787 -121 AACTCTACTTCAAATTAATATTGTTTAGAT 32 51 1 CAAATTAATA 0.921476 -76 ACGGTTAAAACAAATAAATAAAACACAAAG 32 84 1 CAAATAAATA 0.868554 -43 TTACCATTAAAAATTTAATATCATAATACC 38 38 0 AAATTTAATA 0.748776 -132 ATAACCTAATCAAATTAATACTAAGCTTGT 42 149 1 CAAATTAATA 0.921476 -152 TCTTAAACACAAAATAAATAGATTAGAAAG 42 235 1 AAAATAAATA 0.830291 -66 AAATCAAAATAAATTAATTAAAAAATAATT 42 266 1 AAATTAATTA 0.445252 -35 AATTAATTAAAAAATAATTAAGAGAGGTGC 42 277 1 AAAATAATTA 0.702241 -24 AAATAACCGTTAAATTAATATAATAGTTGT 45 36 1 TAAATTAATA 0.81664 -99 GTAATCTTTCCAAATTATTACTTGAATTAT 47 69 1 CAAATTATTA 0.8498 -73 TGATTTTGAGTAATTTAATAATTCAAGTAA 47 86 0 TAATTTAATA 0.604367 -56 CTCTATATTTAAATTTATTAAAAATTTTGA 48 14 1 AAATTTATTA 0.589631 -44 ********** Masking position 5 Map Score: 31.8319 Number of sites scoring better than the average of aligned sites = 345 Number in coding regions = 205 Number in noncoding regions = 140 Number of orfs with sites within 600 bp upstream = 146 Fraction of orfs with sites within 600 bp upstream = 0.02345 Motif number 5 AATTCTCACCTTTTTGAATAGG 2 68 0 ATTTCACCTT 0.93271 -12 TATTATTCACCTTCTCTCTCAAT 8 29 0 TTATCACCTT 0.865854 -13 TTTTATCCCCTTGTTTCTGCAT 9 22 0 TTTTCCCCTT 0.770718 -12 ATTTAGTCACCTTAAATTATTAT 11 73 0 TTATCACCTT 0.865854 -13 GGGGGTTCAAATCCCCCCCTCCGCGCCACTT 12 212 1 ATCCCCCCTC 0.773561 -89 AATCTCACCTTAAATAAATTT 21 145 0 AATTCACCTT 0.792168 -11 AAATATTCACCTCATGTTTGGAG 22 85 0 ATATCACCTC 0.912347 -13 AAGATATTCACCTCTGAATCAGTT 23 287 0 ATATCACCTC 0.912347 -14 GGATTTCCACCTTTATATCTTAT 25 13 0 ATTCCACCTT 0.907258 -13 TTTTGCCATCTACATCACCTTT 27 2 0 TACTCACCTT 0.710332 -216 AAACTCACCTCAAAATTTAAA 28 28 0 AAATCACCTC 0.741082 -11 AATTTCTCACCTTCCTGATAAAA 30 20 0 TTTTCACCTT 0.908979 -13 ATTATCACCTTATTAAAATAA 31 55 0 ATTTCACCTT 0.93271 -11 AATTTACACCTCCAAATGTTCT 32 115 0 ATTACACCTC 0.595835 -12 ATTACCACCTCCTCATTCTTT 37 255 0 ATTCCACCTC 0.919131 -11 GTTTAACTCACCTTTTAGTATGAA 38 156 0 TAATCACCTT 0.63963 -14 GAGGTTTAATATCGCCCCCTCGTTT 40 5 0 ATCCCCCCTC 0.773561 -82 TTACCTCACCTCATTTTTGTTG 40 75 0 TACTCACCTC 0.740197 -12 TTTTGCACCTCTCTTAATTAT 42 290 0 TTTGCACCTC 0.80843 -11 ATTTTCCACCTTTAAAAATAGT 44 108 0 TTTCCACCTT 0.875747 -12 AATCTTCACCTTTCATAATTAT 47 130 0 ATCTCACCTT 0.925247 -12 ATTACCACCTCATTTCCAACT 48 47 0 ATTCCACCTC 0.919131 -11 TTATATAAAAATATGCACCTTATAGATGCAA 51 107 1 ATAGCACCTT 0.765171 -122 CCCAGTGGAGTTCTGCCCCTTTACCCCAAAG 52 129 1 TTCGCCCCTT 0.521929 -172 *** ******* Masking position 10 Map Score: 22.0014 Number of sites scoring better than the average of aligned sites = 151 Number in coding regions = 102 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 58 Fraction of orfs with sites within 600 bp upstream = 0.00931577 Motif number 6 CGAAGGAAGATTGACCGCCTTCTATAAGAA 6 198 1 TTGACCGCCT 0.944797 -103 AAGGCATATAATGAACGCCTTCTTATAGAA 6 217 0 ATGAACGCCT 0.982473 -84 TTAAGGAACATTGAACGCCTTTAAGGCGTT 7 136 1 TTGAACGCCT 0.987962 -147 TAAGGTATTAATGAACGCCTTAAAGGCGTT 7 149 0 ATGAACGCCT 0.982473 -134 AGGGGGGGATTTGAACCCCCGCGGGGCAAA 12 202 0 TTGAACCCCC 0.96439 -99 TTCCATCTTCTTGAACTCCTCTTTATGGTA 15 84 0 TTGAACTCCT 0.901617 -33 CCGAGGGGATTTGAACCCCCGACCCCCGGC 23 21 1 TTGAACCCCC 0.96439 -280 GAAGGAATGTTTGAACGCCCTCCTTTGGAA 24 208 1 TTGAACGCCC 0.988878 -93 TAAGGCACTAATGAACGCCTTCCAAAGGAG 24 227 0 ATGAACGCCT 0.982473 -74 AATATTGATGATGAACGCGCCCTTCTCTGA 46 45 1 ATGAACGCGC 0.887183 -256 ********** Masking position 4 Map Score: 14.4247 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 TAATGCCTCATTTAAAAACCTATTCAAAAAG 2 50 1 TTTAAAACCT 0.73343 -30 TTTTCCTTACTTTTAAAACTTGTTTTTTAGA 4 45 1 TTTAAAACTT 0.942558 -183 AGTTTTCAATTTTTATAACATATATACGTAG 5 187 0 TTTATAACAT 0.452771 -114 ATTGAAAACTTTTCAAAACTTAAGGTTGGAG 5 208 1 TTTAAAACTT 0.942558 -93 TTGTAGTATCTTTCAAAACATTATAGAATTT 6 17 0 TTTAAAACAT 0.829315 -284 TTTTTGTTGTTATAAAAACATTGATTGACTA 6 130 0 TATAAAACAT 0.690136 -171 CCTTCGTCAATTTAATAACTTTTGCAAAAAA 6 173 0 TTTATAACTT 0.736443 -128 TTATAGTGTCTTTCAAAACTTTTGAAATAAC 7 179 0 TTTAAAACTT 0.942558 -104 GTTTCAATTATTTAAAAATTTATTTAAT 10 8 0 TTTAAAATTT 0.862129 -52 CCTACAATAATATGAAACCATTACTTAAACT 15 22 0 TATAAACCAT 0.49109 -95 CCATTAGGATTATAAAAACATTTTTATACTT 17 164 1 TATAAAACAT 0.690136 -138 AGAATGTTATTATAAAAACTTAAATAAAATA 17 272 0 TATAAAACTT 0.882653 -30 ATTTTAAAAACCTTAATAAATTT 19 3 1 TTTAAAACCT 0.73343 -65 TCCCTAAAAATATAAAACTTTTTTTATATCA 21 84 1 TATAAACTTT 0.553955 -72 CTATTTTATTTTTTAAAATTTATTTAAGGTG 21 130 1 TTTAAAATTT 0.862129 -26 ATACTTTTCGTTTCATAACTTATAACAATTT 23 140 1 TTTATAACTT 0.736443 -161 CAAGTGGCTATTTTAAAACTTTTATTTTAAT 31 34 1 TTTAAAACTT 0.942558 -32 ATATAAAATTTTTCAAAATTTCCTGAAATTT 33 208 1 TTTAAAATTT 0.862129 -93 AATAGTTGGATTTAAAAATTTTACTATAAT 35 10 0 TTTAAAATTT 0.862129 -125 AGAATTAGTATTTAAAACTTTTGG 38 4 0 TTTAAACTTT 0.730407 -166 ATACAAGAGATATAAAAACTTAACTATTAAC 41 57 0 TATAAAACTT 0.882653 -207 TATTAAAACTTTTTAAAACTTTTTATATGTT 43 101 0 TTTAAAACTT 0.942558 -49 TTTCCAACTCTTTCAAAATTTTTAATAAATT 48 25 0 TTTAAAATTT 0.862129 -33 AGTAGTAGTGTTTCATAATTTATATAATAAT 50 54 0 TTTATAATTT 0.515702 -58 TTTTTATAAATTTTAAACCTTCATTAATATT 50 89 1 TTTAAACCTT 0.876687 -23 ACTTTTAGTATATAAAACTTTTGGGTAAGT 51 10 0 TATAAACTTT 0.553955 -219 ATATTTCTTATATAAAAATATGCACCTTATA 51 100 1 TATAAAATAT 0.459097 -129 TAATTTTTGGTTTTAAACTTTCAATGCTATT 52 25 0 TTTAAACTTT 0.730407 -276 AAATCTGTTTTATCAAAACTTAAAAGTTAAT 52 228 1 TATAAAACTT 0.882653 -73 *** ******* Masking position 5 Map Score: 37.3716 Number of sites scoring better than the average of aligned sites = 528 Number in coding regions = 398 Number in noncoding regions = 130 Number of orfs with sites within 600 bp upstream = 139 Fraction of orfs with sites within 600 bp upstream = 0.0223257 Motif number 8 ATCGATATGGTAATCTTTTTATTGTATGAG 1 67 0 TAATCTTTTT 0.734001 -203 TTTAGCTCATTTATCTTTTTATTGATATGT 5 57 0 TTATCTTTTT 0.888344 -244 TTGGTAATATTTATATTTATTATTTATTAC 5 148 1 TTATATTTAT 0.782461 -153 TTATATACTATTATCTTTATATGAGAATTG 6 45 0 TTATCTTTAT 0.86279 -256 AAACCATATATCCTCTTTTTGTTGTTATAA 6 146 0 TCCTCTTTTT 0.772571 -155 CTTCTTGAACTCCTCTTTATGGTATCACCC 15 78 0 TCCTCTTTAT 0.728616 -39 CAAATAGGTTTTATATTTATTCCCTCAGAA 17 56 0 TTATATTTAT 0.782461 -246 TGACAGCAGATTATATTTATAATAAAAAAG 17 119 1 TTATATTTAT 0.782461 -183 AAATCCCATTTTATATTTTTTTAATATTTT 20 41 1 TTATATTTTT 0.819851 -27 AAAAAAAGTTTTATATTTTTAGGGATTAAA 21 79 0 TTATATTTTT 0.819851 -77 AGGCTACGGGTCCTCTTTATCTCAGGTTGT 23 78 1 TCCTCTTTAT 0.728616 -223 GACGATTAGTTACTCTTTTTTTATTAAATT 23 256 1 TACTCTTTTT 0.680527 -45 GATAGCCTAATTATATTTATGAAACAATAT 24 85 1 TTATATTTAT 0.782461 -216 TATTATTATATACTCTTTATCGTATCTTCC 26 68 1 TACTCTTTAT 0.627364 -131 AATTAGTTATTTATATTTTTCGG 32 4 0 TTATATTTTT 0.819851 -123 TAAAATAGCCTCATCTTTTTTAAGTAAAAT 33 254 1 TCATCTTTTT 0.81483 -47 ATTGTGATGCTAATATTTTTAACTTAATAT 34 32 0 TAATATTTTT 0.612165 -101 CACATAGTCCTTCTCTTTATCTATAAAACG 34 90 1 TTCTCTTTAT 0.829182 -43 TTTATCGTTATTATATTTTTATTTATTTCC 37 134 0 TTATATTTTT 0.819851 -132 TAATTGTTTTTAATATTTTTTAACTGGATT 41 230 0 TAATATTTTT 0.612165 -34 TTTAACTCTCTTCTCTTTTTTATAGAGTTA 42 72 1 TTCTCTTTTT 0.859978 -229 TTTGATTAGGTTATATTTATATCTTATTAT 42 133 0 TTATATTTAT 0.782461 -168 AAAATAGTTGTTATCTTTTTGAATATTGTC 44 86 0 TTATCTTTTT 0.888344 -34 ATAAAAGTATTTATCTTTATATGCTATATG 47 19 1 TTATCTTTAT 0.86279 -123 AGTATTCCCTCCTATTTTTATTTTTGTTA 52 282 0 TCCTATTTTT 0.660223 -19 ********** Masking position 6 Map Score: 30.2353 Number of sites scoring better than the average of aligned sites = 663 Number in coding regions = 555 Number in noncoding regions = 108 Number of orfs with sites within 600 bp upstream = 117 Fraction of orfs with sites within 600 bp upstream = 0.0187922 Motif number 9 GTATATAAACTGCTAAAGTCCTATTCAAAGAA 6 67 1 TGCAAAGCCT 0.991534 -234 TAATAACTTTTGCAAAAAACCATATATCCTCT 6 160 0 TGCAAAACCA 0.851314 -141 TTATTAATTTTGCCACAAACCTATATTTATAA 23 183 0 TGCACAACCT 0.894582 -118 CATTTACTCCTGCGAAAGTCCTAACTCCCTAC 46 183 0 TGCAAAGCCT 0.991534 -118 TATATTTGCCTGCGAAAGTCCTAAGAAATCCC 46 266 1 TGCAAAGCCT 0.991534 -35 AATATTTTCCTGCAAAAGCCCTGTAGTTATCA 51 73 0 TGCAAAGCCT 0.991534 -156 ACCTTATAGATGCAAAATTCCTTATAAATATC 51 123 1 TGCAAATCCT 0.947695 -106 TATCAACAAGTGCAAAAGCCCTGTAGGAGTGG 51 151 1 TGCAAAGCCT 0.991534 -78 *** **** *** Masking position 7 Map Score: 11.5329 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 10 TCATGTTAGGTAATACCTAATTTTAATAAG 4 112 1 TAATACCTAA 0.687953 -116 CGTAATCTTTAAATATCTATTTTCAATATC 5 246 1 AAATATCTAT 0.841367 -55 AAAACTTTTGAAATAACTAAGGTATTAATG 7 166 0 AAATAACTAA 0.820735 -117 TTGTTTGGTTTAATATCTAAATAGCTTTTT 7 209 0 TAATATCTAA 0.877524 -74 AACATCAAATTAATAACTATCCTTTAACCT 12 16 1 TAATAACTAT 0.892478 -285 TTTTATTTTTTAATATCTATTTACTATAAA 12 245 1 TAATATCTAT 0.892478 -56 CAAACTTCTTAAATAACTAAGGCACTAATG 24 244 0 AAATAACTAA 0.820735 -57 CGAAAAATATAAATAACTAATTATAAATAG 32 12 1 AAATAACTAA 0.820735 -115 GTTTTAACCGTAATATCTAAACAATATTAA 32 65 0 TAATATCTAA 0.877524 -62 AATATCTATTTAATATCTATAAA 36 4 0 TAATATCTAT 0.892478 -39 ACCTCGTCTTTAATATCTATTTAATATCTA 36 15 0 TAATATCTAT 0.892478 -28 GCTTTAGAGTAAATAACTATAGACAACTAT 45 58 0 AAATAACTAT 0.841368 -77 ATTTATATAATAATAACTATATACTATTGA 50 38 0 TAATAACTAT 0.892478 -74 ********** Masking position 5 Map Score: 11.8926 Number of sites scoring better than the average of aligned sites = 102 Number in coding regions = 69 Number in noncoding regions = 33 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912 Motif number 11 AAATTATAAATAGGTCTTTTGTGAATGTTC 1 4 1 TTATTATTTT 0.619629 -266 GTATATTTATTTAAATATACAAATTATTATGTCATGT 4 81 1 TTAATATTAT 0.743696 -147 ATTTATCTTTTTATTGATATGTTTTATCTCCTCTTCA 5 42 0 TTATTATTAT 0.803162 -259 TTGGTAATATTTATATTTATTATTTATTACAGCATTT 5 148 1 TTATTATTAT 0.803162 -153 GTTCCTTAAATTAATTTTATTGATTTTGGAAGACACT 7 108 0 TTAATATTTT 0.536709 -175 TTTCAATTATTTAAAAATTTATTTAAT 10 1 0 TTAATTTAAT 0.558915 -59 TGATAAATTTTTAAGTGTTTCAATTATTTAAAAATTT 10 18 0 TTAATTTTAT 0.881529 -42 TTTCCTCTCTTATTTATTAAGTTTTTGAATAAAATT 11 10 1 TTATTTTTTT 0.806853 -76 CCTTAAATTATTATGTGTTTTGTTTGTGTTTATTTTA 11 50 0 TTATTTTTGT 0.671261 -36 GTTTCATTTTTTATATATTCTTTTTATATATTCCCAC 12 104 0 TTATTTTTAT 0.912767 -197 AAACCATTACTTAAACTTTTTGGTTTTG 15 2 0 TTAATTTTTT 0.748159 -115 CTCACCTTCTTATCCTTTTTTATTATTTTTCTATTA 16 19 0 TTATTTTTAT 0.912767 -26 AAATAGTAATTTATCCATTAGGATTATAAAAACATTT 17 150 1 TTATTTTTAT 0.912763 -152 ATCCGCCATATTATTTGTATTGTTTATGTATAAAAAC 17 226 0 TTATTATTAT 0.803162 -76 TGTGGCAAAATTAATAATTACATTAATTATTTATTGT 23 198 1 TTAATTTAAT 0.558913 -103 CATTAATTATTTATTGTTTTTTATAATCTCACTAATA 23 218 1 TTATTTTAAT 0.640522 -83 TATTTTCCAATTATCCATTACAGTTCTGTTTATGATT 24 15 0 TTATTTTTCT 0.671261 -286 CCCCTATAACTTATTATTTGGCATTATTTTGAAAGAC 26 164 0 TTATTTTTAT 0.912767 -35 AACTTAATATTTAAAGCTTACTGTTATTTTG 34 5 0 TTAATTTTAT 0.881246 -128 TATTATATTTTTATTTATTTCCATTGTGGCGGAGGAT 37 119 0 TTATTTTTGT 0.671261 -147 ATCTTTAGCTTTAACATTTATCGTTATTATATTTTTA 37 143 0 TTAATTTTAT 0.881246 -123 CCCACCAGATTTATTTCTTTACTTTATAACTTAGGTA 41 19 1 TTATTTTTAT 0.912767 -245 CTTAGGTATGTTAATAGTTAAGTTTTTATATCTCTTG 41 48 1 TTAATTTTTT 0.748156 -216 TAGGTTATATTTATATCTTATTATTATCGATAGATAC 42 120 0 TTATTTTTAT 0.912763 -181 TATTTTGTGTTTAAGATTATGAGTTTTTGTAGCATAA 42 214 0 TTAATATTTT 0.536709 -87 TAAATTTTAGTTATATATTTTACTTTTGGAACTTTAG 43 44 0 TTATTTTTTT 0.806853 -106 TTTTCCACCTTTAAAAATAGTTGTTATCTTTTTGAAT 44 92 0 TTAATATTAT 0.743696 -28 TTTGAGTAATTTAATAATTCAAGTAATAATTTGGAAA 47 75 0 TTAATTTAAT 0.558915 -67 TTTATTTTTGTTATTTGTTTGGTTTCTAATTTTTAAA 52 258 0 TTATTTTTCT 0.671261 -43 **** ** **** Masking position 8 Map Score: 30.072 Number of sites scoring better than the average of aligned sites = 470 Number in coding regions = 303 Number in noncoding regions = 167 Number of orfs with sites within 600 bp upstream = 168 Fraction of orfs with sites within 600 bp upstream = 0.0269836 Motif number 12 TTTTTTGTATCTTATTAAAATTAGGTATTA 4 122 0 CTTATTAAAA 0.566947 -106 ATCCTTTAACCTTACTAAAAACCGAAAATA 12 34 1 CTTACTAAAA 0.817019 -267 TTAATATCTATTTACTATAAAACACGAAAT 12 254 1 TTTACTATAA 0.825801 -47 TATTTACTTTTTTATTATAAATATAATCTG 17 125 0 TTTATTATAA 0.581585 -177 TTCTGCAGCATTTACTATATT 18 17 1 TTTACTATAT 0.490333 -11 TTACTCTTTTTTTATTAAATTTAACTGATT 23 265 1 TTTATTAAAT 0.373047 -36 GGCATCAATATTTACTAAAACCCATATTTA 26 118 0 TTTACTAAAA 0.909082 -81 CAAAACACTCTTTACTAAAAATTCTTAATG 27 188 1 TTTACTAAAA 0.909082 -30 ATTATCACCTTATTAAAATAAAAGTTTT 31 48 0 CTTATTAAAA 0.566947 -18 GCCAGTTGAATTTACTATATAAAGTCAGAA 33 62 1 TTTACTATAT 0.490333 -239 ATATAAATATTTTACTTAAAAAAGATGAGG 33 262 0 TTTACTTAAA 0.571452 -39 ATTTAAAAATTTTACTATAAT 35 2 0 TTTACTATAA 0.825801 -133 TATCAAAATTCATACTAAAAGGTGAGTTAA 38 148 1 CATACTAAAA 0.373377 -22 TTCTATAATTTTTACTTTAAGTTTTGTTTT 41 138 0 TTTACTTTAA 0.387487 -126 TGATGAAACTTTTACTAAAAGTTTCGTTTA 42 14 1 TTTACTAAAA 0.909082 -287 TTTTAATATGTTTATTAAAAATCTGTAGGT 43 124 1 TTTATTAAAA 0.745669 -26 TATATTTAAATTTATTAAAAATTTTGAAAG 48 17 1 TTTATTAAAA 0.745669 -41 AAAAGTTTTATATACTAAAAGTCAATATGT 51 19 1 TATACTAAAA 0.571629 -210 CCTTCATCTCTTTGCTAAAAAATGGGCAAT 51 197 0 TTTGCTAAAA 0.514643 -32 ********** Masking position 6 Map Score: 11.9798 Number of sites scoring better than the average of aligned sites = 96 Number in coding regions = 48 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 44 Fraction of orfs with sites within 600 bp upstream = 0.00706714 Motif number 13 CAATAGGGGTTTCCCTATGGGTCTGAAGAGACC 1 123 0 TCCCTGGGTC 0.826435 -147 CTATTGAGATACCCGAGTGGGGCTTCACTACGT 1 150 1 ACCGTGGGGC 0.908539 -120 GGGATACTAGACTACAGTGGGGCTGAACGTAGT 1 176 0 ATACTGGGGC 0.801437 -94 GTAGTCTAGTATCCCAATAGGGCGAAGCCCTAT 1 194 1 ACCCTAGGGC 0.969654 -76 AACCTGAAAAGCCCGGGTAGGGCAATGACAGGT 7 64 1 GCCGTAGGGC 0.807834 -219 TGGGACTGGAGATCCCATGGGGCTTTGCCCCGC 12 179 1 GTCCTGGGGC 0.949569 -122 GGGGATTTGAACCCCCGCGGGGCAAAGCCCCAT 12 195 0 ACCCCGGGGC 0.879855 -106 GGGGGTTCAAATCCCCTCGGGTCCGCCAAT 23 8 0 ACCCCGGGTC 0.947228 -293 CATTATTCTCAAACGGTTGGGGCTAAAATAGC 26 10 0 AACGTGGGGC 0.856295 -189 GGAATTGCCCACTCCTACAGGGCTTTTGCACTT 51 158 0 ATCCCAGGGC 0.874619 -71 AAGGGGCAGAACTCCACTGGGTCATTGACACGT 52 117 0 ATCCTGGGTC 0.872058 -184 TCATTTCACTACCCCTTTGGGGTAAAGGGGCAG 52 141 0 ACCCTGGGGT 0.726333 -160 * *** ****** Masking position 10 Map Score: 6.91593 Number of sites scoring better than the average of aligned sites = 51 Number in coding regions = 16 Number in noncoding regions = 35 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 14 AGTATCTTTCAAAACATTATAGAATTTATA 6 14 0 AAAACATTAT 0.655075 -287 TTGATTTTGGAAGACACTATATTTTGCAAA 7 96 0 AAGACACTAT 0.955041 -187 AAAGTTTTGAAAGACACTATAAAAAAGCTA 7 188 1 AAGACACTAT 0.955041 -95 TTAATTTTGAAAGGCACTATAATCTTACTG 24 168 0 AAGGCACTAT 0.923247 -133 TTAAATAACTAAGGCACTAATGAACGCCTT 24 236 0 AAGGCACTAA 0.683109 -65 AGAAGTTTGAAAGACACTATATAGTTAAAT 24 265 1 AAGACACTAT 0.955041 -36 ATTATTTTGAAAGACATTATAGATTAAATG 26 149 0 AAGACATTAT 0.892512 -50 AAAAATTAAGAAAACATTATAGAAATACAC 38 71 1 AAAACATTAT 0.655075 -99 ********** Masking position 6 Map Score: 4.0709 Number of sites scoring better than the average of aligned sites = 51 Number in coding regions = 30 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 15 TCAGGTTTGCATTATTTGAGGTATAAATTAAT 7 39 0 ATTATTAGGT 0.965206 -244 AAAACACATAATAATTTAAGGTGACTAAAT 11 66 1 ATAATTAGGT 0.807156 -20 CATATTATATATTATTTTCGGTTTTTAGTAAG 12 44 0 ATTATTCGGT 0.909825 -257 TCAACAAAAAATTATTGAAGGTGATTAG 13 40 1 ATTATTAGGT 0.965206 -18 CCTTATAATAATTATAAAAGGTTTGAAGGAAA 14 42 1 ATTATAAGGT 0.717473 -36 ATGGTTTCATATTATTGTAGGTAAAAATTTAA 15 32 1 ATTATTAGGT 0.965206 -85 ATATATCACCAATATTTTAGGTAGTTGCCAAA 17 12 1 AATATTAGGT 0.690218 -290 AGTTTTATAAATTTATTAAGGTTTTTAAAAT 19 10 0 ATTTATAGGT 0.591846 -58 TTTTTTAAAATTTATTTAAGGTGAGATT 21 138 1 TTTATTAGGT 0.690218 -18 ATGGTTAATTATAAATATAGGTTTGTGGCAAA 23 175 1 ATAAATAGGT 0.575434 -126 ATTAAAAACAATTATTACAGGTGTTAAT 41 246 1 ATTATTAGGT 0.965206 -18 TTTATATCTTATTATTATCGATAGATACATCT 42 116 0 ATTATTCGAT 0.333497 -185 TTAAAAAATAATTAAGAGAGGTGCAAAA 42 283 1 ATTAAGAGGT 0.691642 -18 GATAACAACTATTTTTAAAGGTGGAAAAT 44 101 1 ATTTTTAGGT 0.817452 -19 GAAAACCAATATTCTTACCGGTAGGGAGTTAG 46 163 1 ATTCTTCGGT 0.577872 -138 ACATAACATAATTATGAAAGGTGAAGATT 47 123 1 ATTATGAGGT 0.873844 -19 CTAATATTAATGAAGGTTTAAAATTTA 50 95 0 ATTAATAGGT 0.899828 -17 ****** **** Masking position 12 Map Score: 11.4937 Number of sites scoring better than the average of aligned sites = 85 Number in coding regions = 64 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727