AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00620_mjan_reg_300.orf -o00620_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: MJ0266 27 pyruvate ferredoxin oxidoreductase, subunit beta (porB) MJ0267 21 pyruvate ferredoxin oxidoreductase, subunit alpha (porA) MJ1425 25 malate dehydrogenase MJ0538 24 M. jannaschii predicted coding region MJ0538 Input sequences: #1 MJ0102 300 Phenylacrylic acid decarboxylase #2 MJ0107 167 dihydropteroate synthase #3 MJ0269 283 pyruvate ferredoxin oxidoreductase, subunit gamma (porG) #4 MJ0270 300 M. jannaschii predicted coding region MJ0270 #5 MJ0276 119 2-ketoglutarate ferredoxin oxidoreductase, subunit alpha (korA) #6 MJ0277 183 acetolactate synthase large subunit (ilvB) #7 MJ0278 82 peptidyl-prolyl cis-trans isomerase, FKBP-type rotamase (slyD) #8 MJ0487 282 phenylalanyl-tRNA synthetase, subunit alpha (pheS) #9 MJ0490 47 L-lactate dehydrogenase EGAD|7256|705 #10 MJ0502 160 3-phosphoshikimate-1-carboxyvinyltransferase (aroA) #11 MJ0503 84 2-isopropylmalate synthase (leuA) #12 MJ0537 276 2-ketoglutarate ferredoxin oxidoreductase, subunit beta (korB) #13 MJ0539 267 tRNA synthetase, putative #14 MJ0541 89 conserved hypothetical protein #15 MJ0542 127 phosphoenolpyruvate synthase #16 MJ0543 132 ubiquinol-cytochrome C reductase complex, subunitVI requiring protein #17 MJ0544 103 dolichyl-phosphate mannose synthase #18 MJ0547 165 cell division inhibitor minD #19 MJ0548 111 conserved hypothetical protein #20 MJ0634 300 conserved hypothetical protein #21 MJ0635 219 M. jannaschii predicted coding region MJ0635 #22 MJ0636 239 dihydrolipoamide dehydrogenase #23 MJ1195 135 2-isopropylmalate synthase (leuA) #24 MJ1196 85 asoB protein #25 MJ1230 22 M. jannaschii predicted coding region MJ1230 #26 MJ1231 255 oxaloacetate decarboxylase alpha chain (oadA) #27 MJ1232 113 conserved hypothetical protein #28 MJ1392 300 2-isopropylmalate synthase (leuA) #29 MJ1424 202 tRNA intron endonuclease (endA) #30 MJ1656 300 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (hpcE) Motif number 1 ACGCTTCGGTTAAATGAAAACTAAAAGAGTTTT 1 86 0 TAAATAAAAA 0.867095 -215 AACCTAAAATAAAATAATAAAATGGTGCCGAGG 1 186 0 AAAATATAAT 0.87417 -115 AGTTAATCCATAAATCTAAAAAAATAAATATAA 1 220 0 TAAATTAAAA 0.89253 -81 TAAGATTTAAAAAATAAATACTATTTAAAAATA 1 252 0 AAAATAATAA 0.767804 -49 ATTTATTTTTTAAATCTTAACTTAACAGTTTTT 1 266 1 TAAATTTAAT 0.903761 -35 TAAATGTAATTAAATTAAAACATAATTTATACT 2 20 0 TAAATAAAAT 0.836742 -148 CGAAAGTCTTAAAATGAAAACTATAAATGTAAT 2 43 0 AAAATAAAAA 0.860019 -125 TTCGTAGAAATAAATTTTTTAAAGAAAATTTAT 2 115 0 TAAATTTTTA 0.693116 -53 ACGAAAGTCCTAAATCTTATATTGACTATGAAA 2 143 1 TAAATTTATT 0.767171 -25 ATTACTGTCATAAATCTTAATCTCCCAGCTTTC 3 13 0 TAAATTTAAT 0.903761 -271 GTCATTCTCAAAAATAAATACAACATCATTTTT 3 117 1 AAAATAATAA 0.767804 -167 GGCATAAGAAAAAATAAAATTAATTTACATGGA 3 167 0 AAAATAAATA 0.673076 -117 TTTATATACAAAAATGTTAAACATACTTAACAT 4 122 0 AAAATTTAAA 0.918416 -179 ATTTTTATGAAAAATTTTATATACAAAAATGTT 4 137 0 AAAATTTATA 0.791466 -164 ATTTTTCATAAAAATATTTAAATACTTAGAATT 4 155 1 AAAATTTTAT 0.826379 -146 TTAAAGACTAAAAATAAAAAATAGAATTAAAGA 6 17 0 AAAATAAAAA 0.859958 -167 GATTAGTAATTAAATATTAAATACCAACACTTT 6 50 1 TAAATTTAAA 0.922738 -134 CCTTAGTATAAAAATTTTTATATATGATTTCAA 6 121 1 AAAATTTTAT 0.826379 -63 TTGTCCATAAAAAATAATAACAAAAAACTATTT 7 22 1 AAAATATAAA 0.89841 -61 ATTAAATATTAACTACTAAAATAAA 8 3 1 TAAATTTAAA 0.922738 -280 ACTACTAAAATAAATTTTTATTAATTGAGATTA 8 22 1 TAAATTTTAA 0.865437 -261 AAGAAGGACGAAAATTTTTAAAATAAGAATATG 8 145 1 AAAATTTTAA 0.858333 -138 ACAGAACTGCTAAATTTTATTCTTTTTATAGTA 8 249 0 TAAATTTATT 0.759699 -34 ATTTTAAAATTAAATTAAAAAGAGGAA 9 5 0 TAAATAAAAA 0.867095 -43 ACTTAATTTATAAATGTTAATTTTTCTCATTAG 10 15 1 TAAATTTAAT 0.903659 -146 TTTTGATTAAAAAATAATAAAAAAATTTATACA 11 47 1 AAAATATAAA 0.89841 -38 GTATCCATTATAAATTAAAAATTATTTGAGGTG 12 249 1 TAAATAAAAT 0.836692 -28 ATAACCTTAGAAAATGTTATCTATTTTTGATGA 13 15 0 AAAATTTATA 0.797977 -253 ATTAACTACCAAAATGATATAAATAACTTAGTT 13 138 0 AAAATATATA 0.756362 -130 ATAATTTGTTAAAATATTAACTACCAAAATGAT 13 153 0 AAAATTTAAA 0.918364 -115 TATATTATTTAAAATATAAAAATCAAAAAATCC 13 206 0 AAAATTAAAT 0.86002 -62 AATGTTATAAAAAATTAAAAAAAGTTTCATAA 15 10 0 AAAATAAAAA 0.86002 -118 GATAATATTATAAATAAAATAGTAGAGTTATTA 15 51 0 TAAATAAATT 0.642699 -77 TATTTTAAAATAAATTTAAATATTTGAATGATA 15 80 0 TAAATTAAAT 0.867054 -48 CAGTAAGCTTTAAATATTAAGTTAAAAATATTA 16 19 1 TAAATTTAAT 0.903701 -114 AGCATCACAATAAATTTTATATATTGGGAATTG 16 51 1 TAAATTTATA 0.799116 -82 TTATTACCATAAAATTTTAAAATTTTGTTAAAA 17 47 1 AAAATTTAAT 0.89841 -57 TGGATGCTAGTAAATTTTTAACAAAATTTTAAA 17 62 0 TAAATTTTAA 0.86548 -42 TCTAAAATCTTTATATTACCTATTTA 18 150 0 AAAATTTTAT 0.826379 -16 TATTTCTCATAAAATCTTTATCTAATACAACAT 20 26 1 AAAATTTTAT 0.826379 -275 AAATAATAAAAAAATTTTTATATGATTATCAAC 20 90 1 AAAATTTTAT 0.826379 -211 TCAAATTATTTAAATTAAATGGTGTAGAGGTGA 20 274 1 TAAATAAATT 0.642716 -27 AAAATTAGATAAAATAAATTAGAATAAAAAAAG 21 19 0 AAAATAATTA 0.537209 -201 TACAATAATATAAATAAAAAAGAGTGCGCAATT 21 56 0 TAAATAAAAA 0.867095 -164 TTTTCGTCTATAAATTTATTTAACTATATAAAT 21 88 0 TAAATTATTA 0.610729 -132 TAAAATTTTTTAAATAATATCTATTTTCTTTTT 22 12 1 TAAATATATA 0.752858 -228 TCTTAAAAAGAAAATAAAAAGAAAATAGATATT 22 27 0 AAAATAAAAA 0.86002 -213 ATTTGATTAAAAAATTTAATTGTAATTGTTATT 22 173 1 AAAATTAATT 0.677913 -67 CTGATTAGGTAAAATTTTTATAACATCCCATCA 23 78 1 AAAATTTTAA 0.858333 -58 TAAATAACAGAAAATTAAAAAGTTTTGGTGGGA 23 111 1 AAAATAAAAT 0.82837 -25 AAACAAAGCAAAAATATTTAATATATCTTTTTC 24 40 0 AAAATTTTAA 0.858333 -46 AAATTGAGTTTAAATTAATTAATACAAAAATCT 26 77 0 TAAATAATTT 0.49196 -179 TTTTATCTCCTAAATCTTAAATTTTCTTAATCA 26 107 1 TAAATTTAAT 0.903761 -149 GTGCCTTTTTTAAATCAAAATAAATATTTGTGA 26 224 1 TAAATAAAAA 0.867095 -32 GGCAATAAAATAAATATATACTTATCGATTTAA 27 18 0 TAAATTATAT 0.778339 -96 TTTATTGCCATAAATATTTATCATGGATGTCAA 27 42 1 TAAATTTTAA 0.86548 -72 GTATCTTTCAAAAATAATAAAAATTTTATAAAG 28 50 1 AAAATATAAA 0.89841 -251 TCGCAGGAATAAAATCTTTAAAAGAAATCTTAA 28 108 1 AAAATTTTAA 0.858333 -193 TATACATCTTTAAATTTAAATTTATAAATTAAG 28 136 0 TAAATTAAAT 0.858538 -165 ATTTCCCACATAAATTTTAAATATACAATATCA 28 193 1 TAAATTTAAA 0.922758 -108 TAAATTTCATTAAATTATTTTTTATGAGGGATT 28 275 1 TAAATATTTT 0.57504 -26 TTCGCAGGAATAAATGATTTATTGAATAATGAT 29 36 1 TAAATATTTT 0.582261 -167 TGTGGATAATAAAATAAATAACATATGGTTTAT 29 150 0 AAAATAATAA 0.767804 -53 TTATCCACAATAAATTTTAAGATTTTATAAATA 29 174 1 TAAATTTAAT 0.903762 -29 ATTCCTCCTCAAAATCAATATTAAGAGATAGTT 30 109 0 AAAATAATAA 0.767804 -192 AACAATCTCTTAAATAATAAGTTAATGATTCAT 30 195 0 TAAATATAAT 0.880554 -106 ***** **** * Masking position 5 Map Score: 74.1216 Number of sites scoring better than the average of aligned sites = 2493 Number in coding regions = 1639 Number in noncoding regions = 854 Number of orfs with sites within 600 bp upstream = 566 Fraction of orfs with sites within 600 bp upstream = 0.0909091 Motif number 2 TTTAAAAAATAAATACTATTTAAAAATAGTTAA 1 247 0 AAATATTTAA 0.764005 -54 AATCTTAACTTAACAGTTTTTAATGGTGAATTT 1 278 1 TAATTTTTAA 0.85999 -23 TCTAAATGCCTTTTAATATATAATACTGCGAAA 2 71 0 TTATATATAA 0.895657 -97 TTTCGTAGAAATAAATTTTTTAAAGAAAATTTA 2 116 0 AAATTTTTAA 0.728456 -52 TAATAGCCGATTTGATTTTTAAACAGCTTTATT 3 51 0 TTATTTTAAA 0.752694 -233 ATCAATCATTAACAATTATTAAAAGTAATATAT 3 239 0 ACATATTAAA 0.449197 -45 CGGATTTTTAACAGAGTTTTTAATAATAGATGA 4 37 0 AAATTTTTAA 0.728638 -264 TATTTATAATTCTAAGTATTTAAATATTTTTAT 4 162 0 TTATATTTAA 0.90983 -139 TGAGGAAATATTTTATTATATAATAACACTCTT 4 221 1 TTATATATAA 0.893451 -80 AATAACACTCTTTGAGTATTTAAATTCCAAATT 4 242 1 TTATATTTAA 0.909829 -59 TAAATTCCAAATTCAATATATAAACTGTGGAAA 4 262 1 ATATATATAA 0.809503 -39 GAGAAGAAAATAACAATTTAAAAAAATAGAAGC 5 25 0 TAATTTAAAA 0.682952 -95 TATAACCTTGTGTTAATATTTAACGACTATAAT 5 64 0 TTATATTTAA 0.909765 -56 TAACACAAGGTTATATTATATAAAAGTAGCTTA 5 82 1 TAATATATAA 0.843647 -38 AAGTGTTGGTATTTAATATTTAATTACTAATCT 6 49 0 ATATATTTAA 0.81513 -135 CTTTTTTATATCAAACTTTTTAAAGTTCTTCAA 6 79 1 TAATTTTTAA 0.859988 -105 TTATTTTAGTAGTTAATATTTAAT 8 2 0 ATATATTTAA 0.815189 -281 TTTTATTAATTGAGATTATTAAAGTTCATTATT 8 37 1 TAATATTAAA 0.729426 -246 TCGTCCATATTCTTATTTTAAAAATTTTCGTCC 8 150 0 TTATTTAAAA 0.745781 -133 TTAAAGAAAATAATACTATAAAAAGAATAAAAT 8 236 1 TAATATAAAA 0.722002 -47 CTCTTTTTAATTTAATTTTAAAATCTCTTTTGT 9 14 1 TTATTTAAAA 0.730698 -34 ACTTACTTAATTTATAAATGTTAATTT 10 5 1 ATATTTATAA 0.778982 -156 CACCACTAATTTTTTAATCAACAGAGT 10 144 0 ATATTTTTAA 0.785338 -17 TAAATTTTTTTATTATTTTTTAATCAAAATATC 11 43 0 TTATTTTTAA 0.893186 -42 CTCAAATAATTTTTAATTTATAATGGATACCCC 12 246 0 TTATTTATAA 0.8788 -31 AAGTTTATTATATAACTATAAAAACTTTTGATG 13 76 1 TTATATAAAA 0.77967 -192 TCTATATTATTTAAAATATAAAAATCAAAAAAT 13 208 0 TAATATAAAA 0.690521 -60 TTTGGAATTGTTAAAATATATAATGATAAAATA 14 44 0 TAATATATAA 0.847965 -46 AATATTATCATTCAAATATTTAAATTTATTTTA 15 75 1 TCATATTTAA 0.836493 -53 TATATATAGCTTTTATTTTAAAATAAATTTAAA 15 93 0 TTATTTAAAA 0.731228 -35 AATATTTTTAACTTAATATTTAAAGCTTACTGT 16 18 0 ATATATTTAA 0.815189 -115 TGTTTTCAATTCCCAATATATAAAATTTATTGT 16 57 0 TCATATATAA 0.831568 -76 CTTATTACCATAAAATTTTAAAATTTTGTTAAA 17 46 1 TAATTTAAAA 0.682722 -58 ATTGGATGCTAGTAAATTTTTAACAAAATTTTA 17 64 0 ATATTTTTAA 0.785338 -40 GATAAGCGTGTCCTAATATTAAACCGAAGAGTA 18 86 1 TCATATTAAA 0.651028 -80 AACTAACAAATATTACTATTTAATAACTAATAT 19 32 1 TTATATTTAA 0.90983 -80 ACTATTTAATAACTAATATATAAGATTAACGAT 19 46 1 ACATATATAA 0.68337 -66 TATGAGAAAATGCTAATTTTTAAAAGCTCTAAG 20 131 1 TCATTTTTAA 0.809542 -170 TAATAGAATATCAAATTATTTAAATTAAATGGT 20 264 1 TAATATTTAA 0.880812 -37 TATAAATTTATTTAACTATATAAATACAATAAT 21 80 0 TTATATATAA 0.906573 -140 AAATTTGCGATTCTAATATATAAACTTTTCGTC 21 113 0 TCATATATAA 0.831343 -107 TTAAAATTTTTTAAATAATATCTA 22 2 1 TAATTTTTAA 0.859775 -238 ACAATTACAATTAAATTTTTTAATCAAATAAAA 22 169 0 TAATTTTTAA 0.826111 -71 AATAACATTAAACCAATTTTTAATT 22 225 1 ACATTTTTAA 0.650119 -15 TGCTTTGTTTAATCAATTTATAAGGGTGTAGTT 24 63 1 ATATTTATAA 0.778982 -23 CAATAATCTATTATAATTTATAATCATTAGTAT 27 72 1 TAATTTATAA 0.828046 -42 CAAAAATAATAAAAATTTTATAAAGATTATTAA 28 58 1 AAATTTATAA 0.721199 -243 CATCTTTAAATTTAAATTTATAAATTAAGATTT 28 132 0 TTATTTATAA 0.878399 -169 TCAGATTCATTATGAGTATTTAAATTTCATTAA 28 255 1 TTATATTTAA 0.909831 -46 CTAAATACCTTTTTAATATAAAAACTGCGAAGT 29 81 1 TTATATAAAA 0.766863 -122 CAATAAATTTTAAGATTTTATAAATAATAACT 29 181 1 TAATTTATAA 0.855435 -22 TGAATCATTAACTTATTATTTAAGAGATTGTTT 30 196 1 ATATATTTAA 0.815189 -105 CATAGTCCTCTAAAATTATAAAACAATCTCTTA 30 216 0 TAATATAAAA 0.721758 -85 * * * ******* Masking position 7 Map Score: 70.8237 Number of sites scoring better than the average of aligned sites = 1079 Number in coding regions = 657 Number in noncoding regions = 422 Number of orfs with sites within 600 bp upstream = 348 Fraction of orfs with sites within 600 bp upstream = 0.0558946 Motif number 3 CACCATTTTATTATTTTATTTTAGGTTGTTA 1 192 1 TTATTTATTT 0.402114 -109 TGTAAATTAATTTTATTTTTTCTTATGCCTA 3 171 1 TTTTTTTTTT 0.585941 -113 TAGCCCATGCTTCTATTTTTTTAAATTGTTA 5 17 1 TTCTTTTTTT 0.939315 -103 CTTTCTTTAATTCTATTTTTTATTTTTAGTC 6 14 1 TTCTTTTTTT 0.939315 -170 TAGTTTTTTGTTATTATTTTTTATGGACAAA 7 21 0 TTATATTTTT 0.789222 -62 AAAATTTTCGTCCTTCTTTTTCTATTTGTAA 8 132 0 TCCTCTTTTT 0.538461 -151 TTCGTCCATATTCTTATTTTAAAAATTTTCG 8 153 0 TTCTATTTTA 0.48147 -130 CTGCTAAATTTTATTCTTTTTATAGTATTAT 8 245 0 TTATCTTTTT 0.754271 -38 TTCCTCTTTTTAATTTAATTT 9 1 1 TTCCCTTTTT 0.776988 -47 ATAAATTTTTTTATTATTTTTTAATCAAAAT 11 46 0 TTATATTTTT 0.789222 -39 TTGACTATAATTCAGCTTTTTTGTCTAAAAC 13 110 1 TTCACTTTTT 0.607276 -158 AATTTGGATTTTTTGATTTTTATATTTTAAA 13 201 1 TTTTATTTTT 0.662634 -67 AAATTTTTGTTTCTTCTATTTTATTGTCTAT 13 236 0 TTCTCTATTT 0.814499 -32 ATGAAACTTTTTTTAATTTTTTATAACATTT 15 13 1 TTTTATTTTT 0.662634 -115 AATATTATCATTCAAATATTTAAATTTATTT 15 75 1 TTCAATATTT 0.319848 -53 ATTCCTATTTTTCTACTTTTTCTTATTACCA 17 25 1 TTCTCTTTTT 0.946271 -79 ATAAGACCATTTCTTATTTTTATGTTGTATT 20 49 0 TTCTATTTTT 0.955523 -252 TATGAGAAAATGCTAATTTTTAAAAGCTCTA 20 131 1 TGCTATTTTT 0.587313 -170 AAAGGAATTTTTCCTATTTTTATTTAAAGAT 20 173 1 TTCCATTTTT 0.809523 -128 ACTTTCTACTTTTTTTATTCTAAT 21 4 1 TTCTCTTTTT 0.946271 -216 ACTTTTTTTATTCTAATTTATTTTATCTAAT 21 18 1 TTCTATTTAT 0.48147 -202 AATTTATTTTATCTAATTTTTATCAATTGCG 21 32 1 ATCTATTTTT 0.628693 -188 AATATCTATTTTCTTTTTATTTTCTTTTTAA 22 27 1 TTCTTTTATT 0.400832 -213 GAGAAAGTTATTCTCATTTTTGCAGAAAAAT 22 58 1 TTCTATTTTT 0.955523 -182 ATTGTTGTTGTTCTTATTTTTTATTTGATTA 22 151 1 TTCTATTTTT 0.955523 -89 CTTTTTAATTTTCTGTTATTTATGATGGGAT 23 102 0 TTCTTTATTT 0.794193 -34 ACTTCTCTTTTTTTGTGATATT 25 3 1 TTCTTTTTTT 0.939315 -20 GGCAATGCAGTTCCGTTATTTGGTTAGCCAT 26 180 0 TTCCTTATTT 0.432909 -76 TATAAAATTTTTATTATTTTTGAAAGATACT 28 49 0 TTATATTTTT 0.789222 -252 AACATATGGTTTATGTTATTTAACAAAATTA 29 133 0 TTATTTATTT 0.402114 -70 GAACTTTAAAATCTCTTTTTTAACAGCTCCA 30 145 0 ATCTTTTTTT 0.54953 -156 **** ****** Masking position 7 Map Score: 26.0552 Number of sites scoring better than the average of aligned sites = 660 Number in coding regions = 544 Number in noncoding regions = 116 Number of orfs with sites within 600 bp upstream = 100 Fraction of orfs with sites within 600 bp upstream = 0.0160617 Motif number 4 TTTGTTTAACTTTTTCTAAAAGTTTCGTTTG 1 147 1 TTTTCTAAAA 0.940265 -154 AAGCATAAATTTTCTTTAAAAAATTTATTTC 2 111 1 TTTTTTAAAA 0.93487 -57 TTACATAGTCTTTCTCTAAAAATGATGTTGT 3 136 0 TTTTCTAAAA 0.941408 -148 CGTCCATATTCTTATTTTAAAAATTTTCGTC 8 151 0 CTTTTTTAAA 0.590415 -132 ATAGTATTATTTTCTTTAATAAATAGATAAC 8 224 0 TTTTTTAATA 0.661589 -59 ATATTGATATTTTGATTAAAAAATAATAAAA 11 38 1 TTTATTAAAA 0.849979 -47 TTTGATCAACCTTTTCTAAAAGGTTGTTCGA 12 108 1 CTTTCTAAAA 0.789445 -169 TCGAGTAACCTTTTACTAAAAGGTTGGGAGC 12 135 1 TTTACTAAAA 0.788837 -142 GATGAGTTCGTTTGATTAAAATAGGGCTTAA 12 201 1 TTTATTAAAA 0.849979 -76 ATTCAGCTTTTTTGTCTAAAACTAAGTTATT 13 119 1 TTTTCTAAAA 0.941408 -149 TATTGTCTATATTATTTAAAATATAAAAATC 13 215 0 ATTTTTAAAA 0.597852 -53 ACTCTACTATTTTATTTATAATATTATCATT 15 56 1 TTTTTTATAA 0.567181 -72 ATATATAGCTTTTATTTTAAAATAAATTTAA 15 94 0 TTTTTTTAAA 0.860248 -34 AGTCCTTCTCTTTATCTATAAAACGAAACAG 16 95 1 TTTTCTATAA 0.594632 -38 AATTTTAAAATTTTGTTAAAAATTTACTAGC 17 59 1 TTTGTTAAAA 0.73607 -45 TCATAAAATCTTTATCTAATACAACATAAAA 20 32 1 TTTTCTAATA 0.68636 -269 GAAAAATTCCTTTAGCTAAAAACTTAGAGCT 20 155 0 TTTGCTAAAA 0.757848 -146 TTTTTCCTATTTTTATTTAAAGATTTGATGT 20 180 1 TTTATTTAAA 0.650129 -121 CTCTACACCATTTAATTTAAATAATTTGATA 20 272 0 TTTATTTAAA 0.681575 -29 GAAAATAGATATTATTTAAAAAATTTTAA 22 9 0 ATTTTTAAAA 0.597852 -231 TGAGAATAACTTTCTCTTAAAAAGAAAATAA 22 43 0 TTTTCTTAAA 0.873669 -197 CATGCAAAAACTTATCTAAAACTTTCGATAC 22 103 0 CTTTCTAAAA 0.789451 -137 TTATTTTTTATTTGATTAAAAAATTTAATTG 22 164 1 TTTATTAAAA 0.849979 -76 TATAATTATCTTTATCTAAAATTTAA 24 6 0 TTTTCTAAAA 0.940926 -80 AATATATCTTTTTCTTTTATAATTATCTTTA 24 23 0 TTTTTTTATA 0.456912 -63 AAATATTTATTTTGATTTAAAAAAGGCACAG 26 222 0 TTTATTTAAA 0.710317 -34 TAAATTAAGATTTCTTTTAAAGATTTTATTC 28 114 0 TTTTTTTAAA 0.860688 -187 *** ******* Masking position 7 Map Score: 26.8078 Number of sites scoring better than the average of aligned sites = 672 Number in coding regions = 493 Number in noncoding regions = 179 Number of orfs with sites within 600 bp upstream = 149 Fraction of orfs with sites within 600 bp upstream = 0.0239319 Motif number 5 AGCTTTCCATTTCATCAAAATAGGATGCAT 1 40 0 TTCATCAAAA 0.886037 -261 TATAGTGTCATTCTCAAAAATAAATACAAC 3 111 1 TTCTCAAAAA 0.594128 -173 AATTGCTTAAATCTCCAAAACTTTATATAT 3 215 1 ATCTCCAAAA 0.762817 -69 TATAAAATTTTTCATAAAAATATTTAAATA 4 149 1 TTCATAAAAA 0.779673 -152 CCAATCACCAAAAAATGTTAAGG 6 171 0 ATCACCAAAA 0.901824 -13 GACGCTTTTGTCCATAAAAAATAATAACAA 7 15 1 TCCATAAAAA 0.530354 -68 TTATATACCCTTCACAAAAAGTATTTGGAA 7 53 1 TTCACAAAAA 0.806987 -30 TCAATCATCAAAAATAGATAACA 13 4 1 ATCATCAAAA 0.886037 -264 ATTATAGTCAATCATCAAAAGTTTTTATAG 13 91 0 ATCATCAAAA 0.886037 -177 AATTTCCCTCAAAATTTTTGTTTC 13 254 0 TCCCTCAAAA 0.511955 -14 TGTATCACCAAAAATAGTGAAGA 14 77 0 ATCACCAAAA 0.901824 -13 GGACACGCTTATCTTCAAAAACATTACATC 18 69 0 ATCTTCAAAA 0.731335 -97 GAATAACTTTCTCTTAAAAAGAAAATAAAA 22 41 0 CTCTTAAAAA 0.589363 -199 AATCCCACCAAAACTTTTTAATT 23 123 0 CCCACCAAAA 0.772501 -13 AATATCACAAAAAAAGAGAAGT 25 10 0 ATCACAAAAA 0.806987 -13 ATAGTTACCCCTCATCAAAAATTGATTAAG 26 132 0 CTCATCAAAA 0.900063 -124 AACAATCCCTCATAAAAAATAATTTAAT 28 283 0 CTCATAAAAA 0.803894 -18 CCATTAATTCCTCCTCAAAATCAATATTAA 30 118 0 CTCCTCAAAA 0.792009 -183 GATTTTAAAGTTCCCAAAAACAGAGGTTGA 30 163 1 TTCCCAAAAA 0.638695 -138 ********** Masking position 7 Map Score: 17.1453 Number of sites scoring better than the average of aligned sites = 428 Number in coding regions = 324 Number in noncoding regions = 104 Number of orfs with sites within 600 bp upstream = 106 Fraction of orfs with sites within 600 bp upstream = 0.0170254 Motif number 6 TAAATACTATTTAAAAATAGTTAATCCATAAATC 1 237 0 TTAAATTTAA 0.665287 -64 AAATCTTAACTTAACAGTTTTTAATGGTGAATTT 1 277 1 TTAACTTTAA 0.344712 -24 AATGAAAACTATAAATGTAATTAAATTAAAACAT 2 30 0 ATAAATTTAA 0.936358 -138 TTTCGTAGAAATAAATTTTTTAAAGAAAATTTAT 2 115 0 ATAAATTAAA 0.384528 -53 TAATTCAACAATAAAGCTGTTTAAAAATCAAATC 3 42 1 ATAAATTTAA 0.907162 -242 ATAAGAAAAAATAAAATTAATTTACATGGATTAC 3 163 0 ATAAATTTTA 0.637833 -121 TATATTACTTTTAATAATTGTTAATGATTGATAA 3 240 1 TTAATTTTAA 0.237695 -44 TACAAAAATGTTAAACATACTTAACATAATGTAA 4 115 0 TTAAATTTAA 0.830983 -186 AAAATTTTTCATAAAAATATTTAAATACTTAGAA 4 152 1 ATAAATTTAA 0.537095 -149 ACTTTTTTATATCAAACTTTTTAAAGTTCTTCAA 6 78 1 ATCAATTTAA 0.671539 -106 AATCCTTAGTATAAAAATTTTTATATATGATTTC 6 118 1 ATAAATTTAT 0.489851 -66 AAATAATAACAAAAAACTATTTATATACCCTTCA 7 33 1 AAAAATTTAT 0.401995 -50 ATTGAGATTATTAAAGTTCATTATTGGATATATC 8 45 1 TTAAATTTAT 0.780023 -238 ACATGGGTTGATAAACATAGTTATCTATTTATTA 8 205 1 ATAAATTTAT 0.677367 -78 AATGTGATATATTAAGGTTGTTATAATTACACAG 10 102 0 ATTAATTTAT 0.496399 -59 TATTACCTGTATAAATTTTTTTATTATTTTTTAA 11 53 0 ATAAATTTAT 0.813513 -32 ATTCAAATATTTAAATTTATTTTAAAATAAAAGC 15 84 1 TTAAATTTTA 0.511462 -44 TTCCCAATATATAAAATTTATTGTGATGCTAATA 16 47 0 ATAAATTTGT 0.292177 -86 CATAAAATTTTAAAATTTTGTTAAAAATTTACTA 17 54 1 TAAAATTTAA 0.507423 -50 CTCAAATAATAAAAAAATTTTTATATGATTATCA 20 87 1 AAAAATTTAT 0.321948 -214 TTAATAGAATATCAAATTATTTAAATTAAATGGT 20 263 1 ATCAATTTAA 0.671539 -38 CTTTTCGTCTATAAATTTATTTAACTATATAAAT 21 88 0 ATAAATTTAA 0.907162 -132 TTAAAATTTTTTAAATAATATCTA 22 1 1 TTAAATTTAA 0.834658 -239 AACAATTACAATTAAATTTTTTAATCAAATAAAA 22 169 0 ATTAATTTAA 0.71067 -71 AAATGATAGATTAAAGTTCATTTAATTCATCAA 23 10 0 TTAAATTTTA 0.516208 -126 TAAATTTTAGATAAAGATAATTATAAAAGAAAAA 24 12 1 ATAAATTTAT 0.714851 -74 TAAAATTGAGTTTAAATTAATTAATACAAAAATC 26 78 0 TTTAATTTAA 0.599312 -178 CTCCTAAATCTTAAATTTTCTTAATCAATTTTTG 26 113 1 TTAAATTTAA 0.900516 -143 TAAAAATTTTATAAAGATTATTAATAAAGTTAAT 28 67 1 ATAAATTTAA 0.826247 -234 AAAGTTGGTAATATACATCTTTAAATTTAAATTT 28 146 0 ATATATTTAA 0.374675 -155 TTATGAGTATTTAAATTTCATTAAATTATTTTTT 28 264 1 TTAAATTTAA 0.897936 -37 TAATTCATTCATTAATTTTGTTAAATAACATAAA 29 121 1 ATTAATTTAA 0.711642 -82 ***** * **** Masking position 8 Map Score: 33.4644 Number of sites scoring better than the average of aligned sites = 426 Number in coding regions = 278 Number in noncoding regions = 148 Number of orfs with sites within 600 bp upstream = 146 Fraction of orfs with sites within 600 bp upstream = 0.02345 Motif number 7 ACTTTTAGAAAAAGTTAAACAAAATCTTTCAG 1 138 0 AAAGTTAAAA 0.707164 -163 GATACAAACGAAACTTTTAGAAAAAGTTAAAC 1 150 0 AAACTTTAAA 0.58326 -151 TAATACTGCGAAAGTCTTAAAATGAAAACTAT 2 52 0 AAAGTCTAAA 0.894668 -116 TATTTCTACGAAAGTCCTAAATCTTATATTGA 2 136 1 AAAGTCTAAT 0.409356 -32 ATTCAACAATAAAGCTGTTTAAAAATCAAATC 3 44 1 AAAGCTTTAA 0.227557 -240 TAAACTGTGGAAAATCCTATAAAACCACT 4 282 1 AAAATCTAAA 0.502772 -19 CTATTATATTATAGTCGTTAAATATTAACACA 5 57 1 ATAGTCTTAA 0.455136 -63 CAAACTTTTTAAAGTTCTTCAAATGCTAAATC 6 90 1 AAAGTTTTAA 0.816419 -94 TTCTAATATCAAAGTTTTACAAATAGAAAAAG 8 116 1 AAAGTTTAAA 0.934129 -167 AGAAGGACGAAAATTTTTAAAATAAGAATATG 8 146 1 AAATTTTAAA 0.475013 -137 GTTATATAATAAACTTATAGAAGCTCAAAAGG 13 60 0 AAACTTTAAA 0.58326 -208 AAAAGTTTTTATAGTTATATAATAAACTTATA 13 73 0 ATAGTTTAAA 0.816419 -195 TAATGATAAAATAGTCATAAAAACAAAACTTA 14 25 0 ATAGTCTAAA 0.727049 -65 AAAATTAAAAAAAGTTTCATAA 15 1 0 AAAGTTCAAA 0.521041 -127 TACAAGTGAAAATGTTATAAAAAATTAAAAAA 15 21 0 AATGTTTAAA 0.699076 -107 TTATTACCATAAAATTTTAAAATTTTGTTAAA 17 47 1 AAAATTTAAA 0.628003 -57 CATAGTCCTAAAGTTCAATAAGCAAATGTTG 18 10 1 AAAGTTAAAA 0.707164 -156 TTAATGATGTAATGTTTTTGAAGATAAGCGTG 18 64 1 AATGTTTTAA 0.421471 -102 TCTAACAAAAAAAGTTTATGAAGATGTTTGGA 20 226 1 AAAGTTATAA 0.430947 -75 TTGTATTTATATAGTTAAATAAATTTATAGAC 21 84 1 ATAGTTAAAA 0.430946 -136 AATGGTATCGAAAGTTTTAGATAAGTTTTTGC 22 99 1 AAAGTTTAAT 0.536421 -141 AAATTGGTTTAATGTTATTGAATATAAAGTTA 22 212 0 AATGTTTTAA 0.421471 -28 TGATTAGGTAAAATTTTTATAACATCCCATCA 23 79 1 AAATTTTAAA 0.475013 -57 TTGGTTAGCCATAGTCTTATAATTTCAATCAT 26 160 0 ATAGTCTAAA 0.727049 -96 ATACTATACGAAAGTCATAAAATACTCGCATT 28 22 0 AAAGTCTAAA 0.894668 -279 AAAAATAATAAAAATTTTATAAAGATTATTAA 28 59 1 AAAATTTAAA 0.628003 -242 TATTCCTGCGAAAGTTCTATAATATTGAGGTG 29 16 0 AAAGTTTAAA 0.934129 -187 TATTATTTATAAAATCTTAAAATTTATTGTGG 29 178 0 AAAATCTAAA 0.502772 -25 ATATTAAGAGATAGTTCTTCAATATCAAAACC 30 93 0 ATAGTTTTAA 0.5824 -208 TATTTAAGAGATTGTTTTATAATTTTAGAGGA 30 212 1 ATTGTTTAAA 0.421471 -89 ****** ** ** Masking position 11 Map Score: 23.0376 Number of sites scoring better than the average of aligned sites = 831 Number in coding regions = 662 Number in noncoding regions = 169 Number of orfs with sites within 600 bp upstream = 180 Fraction of orfs with sites within 600 bp upstream = 0.028911 Motif number 8 TATATAATACTGCGAAAGTCTTAAAATGAA 2 58 0 TGCGAAAGTC 0.989841 -110 AATTTATTTCTACGAAAGTCCTAAATCTTA 2 132 1 TACGAAAGTC 0.957056 -36 TATTTCCTCATGCGAAAGTCCTATTTTATT 4 201 0 TGCGAAAGTC 0.989841 -100 TATATCAAACTGCGAAGTCCTATTCAAAGA 8 73 1 TGCGAAGTCC 0.877245 -210 AAAGATACTATACGAAAGTCATAAAATACT 28 28 0 TACGAAAGTC 0.957056 -273 ATTTTATTCCTGCGAAAGCCCCATTAACTT 28 93 0 TGCGAAAGCC 0.982199 -208 CATTTATTCCTGCGAAAGTTCTATAATATT 29 22 0 TGCGAAAGTT 0.91583 -181 ATATAAAAACTGCGAAGTTCTATATTAATT 29 96 1 TGCGAAGTTC 0.926578 -107 ********** Masking position 5 Map Score: 9.59638 Number of sites scoring better than the average of aligned sites = 40 Number in coding regions = 6 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 9 TTAAATACTTAGAATTATAAATAATTGGAAAT 4 172 1 AGAATTAAAT 0.511523 -129 AATAGAGAAGAAAATAACAATTTAAAAAAATA 5 30 0 AAAATCAATT 0.71741 -90 ATGAACTTTAATAATCTCAATTAATAAAAATT 8 34 0 ATAATCAATT 0.71741 -249 ATATATTTTAACAATTCCAAATCTTCACTATT 14 56 1 ACAATCAAAT 0.958777 -34 AGGTAATCACAATATAAATTGGATGCTAGT 17 84 0 ACAATAAATT 0.630991 -20 GGTCTTATTAACAATCTCAAATAATAAAAAAA 20 72 1 ACAATCAAAT 0.958777 -229 GGTCGTTAATAGAATATCAAATTATTTAAATT 20 258 1 AGAATCAAAT 0.922994 -43 TTTATATATTAGAATCGCAAATTTGTGGGGCT 21 122 1 AGAATCAAAT 0.922994 -98 AAGAACAACAACAATAACAATTGAAATAAAAC 22 134 0 ACAATCAATT 0.951391 -106 ATGGTTAATAACAATTACAATTAAATTTTTTA 22 180 0 ACAATCAATT 0.951391 -60 TTTTAAATATACAATATCAAATATCTTTGAGA 28 207 1 ACAATCAAAT 0.958777 -94 ***** ***** Masking position 4 Map Score: 6.9086 Number of sites scoring better than the average of aligned sites = 69 Number in coding regions = 61 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 10 CCTAAAATAAAATAATAAAATGGTGCCGAG 1 187 0 AATAATAAAA 0.905903 -114 AGGGTAAAGTAATGATAAAATTGAAATCAT 6 144 0 AATGATAAAA 0.908973 -40 AATAATCTCAATTAATAAAAATTTATTTTA 8 27 0 ATTAATAAAA 0.717839 -256 AAATTTTTAAAATAAGAATATGGACGAAAC 8 156 1 AATAAGAATA 0.642286 -127 TCTTGTCTCTAATGAGAAAAATTAACATTT 10 26 0 AATGAGAAAA 0.87574 -135 TTGATTAAAAAATAATAAAAAAATTTATAC 11 49 1 AATAATAAAA 0.905903 -36 TAAAATATATAATGATAAAATAGTCATAAA 14 36 0 AATGATAAAA 0.908973 -54 TAAATATTTGAATGATAATATTATAAATAA 15 67 0 AATGATAATA 0.725183 -61 ATTTTATGGTAATAAGAAAAAGTAGAAAAA 17 32 0 AATAAGAAAA 0.871707 -72 GATTAACGATAATAATAATACTAACTAATA 19 69 1 AATAATAATA 0.717839 -43 GAAATATACGATTAAGAAAAG 20 2 0 ATTAAGAAAA 0.642286 -299 AACAATCTCAAATAATAAAAAAATTTTTAT 20 81 1 AATAATAAAA 0.905903 -220 AGAGTGCGCAATTGATAAAAATTAGATAAA 21 39 0 ATTGATAAAA 0.725183 -181 TTTCTGCAAAAATGAGAATAACTTTCTCTT 22 56 0 AATGAGAATA 0.650639 -184 AGATAAAGATAATTATAAAAGAAAAAGATA 24 20 1 AATTATAAAA 0.662861 -66 TCAAAAATTGATTAAGAAAATTTAAGATTT 26 118 0 ATTAAGAAAA 0.642286 -138 ATCTTTCAAAAATAATAAAAATTTTATAAA 28 52 1 AATAATAAAA 0.905903 -249 TAATGAATCTGATGATAAAATTGAATCATC 28 237 0 GATGATAAAA 0.660869 -64 ATTTATTGTGGATAATAAAATAAATAACAT 29 159 0 GATAATAAAA 0.652629 -44 AGTCCTCTAAAATTATAAAACAATCTCTTA 30 216 0 AATTATAAAA 0.662861 -85 ********** Masking position 3 Map Score: 23.5127 Number of sites scoring better than the average of aligned sites = 287 Number in coding regions = 192 Number in noncoding regions = 95 Number of orfs with sites within 600 bp upstream = 100 Fraction of orfs with sites within 600 bp upstream = 0.0160617 Motif number 11 AAATCTAAAAAAATAAATATAACAACCTAA 1 212 0 AAATAAATAT 0.672257 -89 TACTATTTAAAAATAGTTAATCCATAAATC 1 237 0 AAATAGTTAA 0.404378 -64 TAAAGACTAAAAATAAAAAATAGAATTAAA 6 19 0 AAATAAAAAA 0.641831 -165 AAAGTTTTACAAATAGAAAAAGAAGGACGA 8 126 1 AAATAGAAAA 0.851023 -157 AAAATTTTTAAAATAAGAATATGGACGAAA 8 155 1 AAATAAGAAT 0.447583 -128 TTTCTTTAATAAATAGATAACTATGTTTAT 8 215 0 AAATAGATAA 0.909153 -68 AAACTTAGTTAAATAGGTATCCCAATAGGG 12 80 0 AAATAGGTAT 0.818999 -197 TGGATACCCCAAATAGAGATAGAGTTAAGC 12 226 0 AAATAGAGAT 0.676018 -51 CAATCATCAAAAATAGATAACATTTTCTAA 13 12 1 AAATAGATAA 0.909153 -256 GGAATTGTTAAAATATATAATGATAAAATA 14 44 0 AAATATATAA 0.306389 -46 GAAACAGCCAAAATAGGTGATGAT 16 119 1 AAATAGGTGA 0.329914 -14 AAAAGTAGAAAAATAGGAATTGGTGTTTTT 17 15 0 AAATAGGAAT 0.720892 -89 TTAGTGTTGTAAATAGGTAATATAAAGATT 18 141 1 AAATAGGTAA 0.873821 -25 TACAACATAAAAATAAGAAATGGTCTTATT 20 51 1 AAATAAGAAA 0.553583 -250 CTTTAAATAAAAATAGGAAAAATTCCTTTA 20 172 0 AAATAGGAAA 0.798104 -129 AATTGATAAAAATTAGATAAAATAAATTAG 21 30 0 AATTAGATAA 0.324342 -190 ACAATAATATAAATAAAAAAGAGTGCGCAA 21 58 0 AAATAAAAAA 0.641831 -162 AATAAAAAGAAAATAGATATTATTTAAAAA 22 18 0 AAATAGATAT 0.867349 -222 ACTTTCTCTTAAAAAGAAAATAAAAAGAAA 22 36 0 AAAAAGAAAA 0.565462 -204 TTTTTTAATCAAATAAAAAATAAGAACAAC 22 157 0 AAATAAAAAA 0.641831 -83 ATTATAAAAGAAAAAGATATATTAAATATT 24 31 1 AAAAAGATAT 0.598315 -55 AATATCACAAAAAAAGAGAAGT 25 3 0 AAAAAGAGAA 0.421124 -20 TTTTAAATCAAAATAAATATTTGTGAGGGA 26 231 1 AAATAAATAT 0.672257 -25 TTCTGAATTAAATCGATAAGTATATATTT 27 10 1 AAATCGATAA 0.415709 -104 TATGGCAATAAAATAAATATATACTTATCG 27 24 0 AAATAAATAT 0.672257 -90 TTTTTATATTAAAAAGGTATTTAGATGCCT 29 75 0 AAAAAGGTAT 0.507572 -128 GTGGATAATAAAATAAATAACATATGGTTT 29 152 0 AAATAAATAA 0.758415 -51 GGAGCTGTTAAAAAAGAGATTTTAAAGTTC 30 146 1 AAAAAGAGAT 0.322183 -155 ********** Masking position 2 Map Score: 16.412 Number of sites scoring better than the average of aligned sites = 626 Number in coding regions = 455 Number in noncoding regions = 171 Number of orfs with sites within 600 bp upstream = 160 Fraction of orfs with sites within 600 bp upstream = 0.0256987 Motif number 12 ATTTTTTAAATATCTCTGCTTTTAATT 4 8 1 AAATATCTCT 0.853402 -293 AATTTAATTTTAAAATCTCTTTTGTGAGGG 9 22 1 TAAAATCTCT 0.797276 -26 AAGTGAATAAATCAATCTCTTCATATTGAT 11 16 1 ATCAATCTCT 0.869589 -69 TGGTCTTATTAACAATCTCAAATAATAAAA 20 71 1 AACAATCTCA 0.773483 -230 CACTGCTTTTTTCTATCTCTTCATATTATC 21 168 0 TTCTATCTCT 0.610286 -52 AAATGAGAATAACTTTCTCTTAAAAAGAAA 22 47 0 AACTTTCTCT 0.668139 -193 TAATTAATACAAAAATCTCTATCCTTGTTT 26 65 0 AAAAATCTCT 0.908031 -191 AACAATCCCTCATAAAAAAT 28 291 0 AACAATCCCT 0.83501 -10 GATATTGAAGAACTATCTCTTAATATTGAT 30 99 1 AACTATCTCT 0.940636 -202 TTGGGAACTTTAAAATCTCTTTTTTAACAG 30 150 0 TAAAATCTCT 0.797276 -151 AAAATTATAAAACAATCTCTTAAATAATAA 30 208 0 AACAATCTCT 0.964125 -93 ********** Masking position 6 Map Score: 5.71034 Number of sites scoring better than the average of aligned sites = 260 Number in coding regions = 235 Number in noncoding regions = 25 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 13 TAAGAGGCATTGCCGAGCGTAGC 1 4 1 GAGGCATTGC 0.906816 -297 ATCAAAATAGGATGCATTGCCTCGCTACGC 1 27 0 GATGCATTGC 0.939531 -274 CAGCTTTATTGTTGAATTACTGTCATAAAT 3 31 0 GTTGAATTAC 0.640741 -253 TTTAATAATAGATGAATTAAAAGCAGAGAT 4 22 0 GATGAATTAA 0.89798 -279 GGACGAAACTGATGAATTGTAGATTTAAAC 8 177 1 GATGAATTGT 0.641722 -106 CTATGCTAAGAGGCATTACCGAGCGTAGC 12 10 1 GAGGCATTAC 0.921862 -267 GATCAAAACAGATGCATTACCTCGCTACGC 12 33 0 GATGCATTAC 0.949589 -244 TTGATGAATTAAATGAACTTTA 23 3 1 GATGAATTAA 0.89798 -133 TGATTTTGAGGAGGAATTAATGGAGCTGTT 30 125 1 GAGGAATTAA 0.846458 -176 AGATGAGGGTGATGAATTCAGTAGGGGAGT 30 262 1 GATGAATTCA 0.730339 -39 GGGAGTTTTAGATGCATTTAGGGAG 30 286 1 GATGCATTTA 0.710336 -15 ********** Masking position 6 Map Score: 4.12773 Number of sites scoring better than the average of aligned sites = 124 Number in coding regions = 94 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 14 TCCCTCGGCACCATTTTATTATTTTATTTT 1 184 1 CCATTTTATT 0.691104 -117 ATCAAATCGGCTATTATATTGAAGGAGTTA 3 68 1 CTATTATATT 0.782318 -216 TGCGAAAGTCCTATTTTATTTCCAATTATT 4 191 0 CTATTTTATT 0.949481 -110 GCATGAGGAAATATTTTATTATATAATAAC 4 218 1 ATATTTTATT 0.467474 -83 GCCCATGCTTCTATTTTTTTAAATTGTTAT 5 19 1 CTATTTTTTT 0.573499 -101 ATTTTCTTCTCTATTATATTATAGTCGTTA 5 47 1 CTATTATATT 0.782318 -73 TATATGATTTCAATTTTATCATTACTTTAC 6 141 1 CAATTTTATC 0.615195 -43 GAGTTAAGCCCTATTTTAATCAAACGAACT 12 205 0 CTATTTTAAT 0.560444 -72 ATTTTATTGTCTATATTATTTAAAATATAA 13 220 0 CTATATTATT 0.703363 -48 TTTGTTTCTTCTATTTTATTGTCTATATTA 13 232 0 CTATTTTATT 0.949481 -36 GTTTTTATGACTATTTTATCATTATATATT 14 33 1 CTATTTTATC 0.887358 -57 AATAACTCTACTATTTTATTTATAATATTA 15 52 1 CTATTTTATT 0.949481 -76 TTTTTTTATTCTAATTTATTTTATCTAATT 21 20 1 CTAATTTATT 0.560444 -200 ATTGCGCACTCTTTTTTATTTATATTATTG 21 57 1 CTTTTTTATT 0.560444 -163 TAAATAATATCTATTTTCTTTTTATTTTCT 22 22 1 CTATTTTCTT 0.665882 -218 AATTTAAACTCAATTTTATCTCCTAAATCT 26 94 1 CAATTTTATC 0.615195 -162 AAGTATATATTTATTTTATTGCCATAAATA 27 28 1 TTATTTTATT 0.607528 -86 TGAGATGATTCAATTTTATCATCAGATTCA 28 234 1 CAATTTTATC 0.615195 -67 TGCGAAAGTTCTATAATATTGAGGTGAATC 29 12 0 CTATAATATT 0.31196 -191 CATATGTTATTTATTTTATTATCCACAATA 29 156 1 TTATTTTATT 0.607528 -47 ********** Masking position 7 Map Score: 16.2865 Number of sites scoring better than the average of aligned sites = 288 Number in coding regions = 228 Number in noncoding regions = 60 Number of orfs with sites within 600 bp upstream = 63 Fraction of orfs with sites within 600 bp upstream = 0.0101189 Motif number 15 CCTTAAACTGTCATTATCAATCATTAACAATT 3 255 0 TATATCAATC 0.647851 -29 TAGATAACTATGTTTATCAACCCATGTTTAAA 8 200 0 TTTATCAACC 0.950935 -83 ACCACTAATTTTTTAATCAACAGAGTATAATT 10 138 0 TTTATCAACA 0.897957 -23 TTTTATTATTTTTTAATCAAAATATCAATATG 11 37 0 TTTATCAAAA 0.680962 -48 AATGCATCTGTTTTGATCAACGCACCATAGCT 12 45 1 TTTATCAACG 0.788036 -232 TTTAACTAAGTTTTGATCAACCTTTTCTAAAA 12 97 1 TTTATCAACC 0.901233 -180 TTAAGCCCTATTTTAATCAAACGAACTCATCT 12 200 0 TTTATCAAAC 0.793138 -77 AATTTTTATATGATTATCAACATTATTGATAT 20 102 1 TATATCAACA 0.91576 -199 GTTATTTATTTTATTATCCACAATAAATTTTA 29 161 1 TATATCCACA 0.689044 -42 AGTTAATGATTCATTATCAACCTCTGTTTTTG 30 177 0 TATATCAACC 0.949404 -124 CTCATCTAAATAATCATCAACATAGTCCTCTA 30 237 0 TATATCAACA 0.92109 -64 * ** ******* Masking position 6 Map Score: 6.52804 Number of sites scoring better than the average of aligned sites = 164 Number in coding regions = 136 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172