AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00220_mjan_reg_300.orf -o00220_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 Input sequences: #1 MJ0069 145 acetylglutamate kinase (argB) #2 MJ0188 300 inosine-5'-monophosphate dehydrogenase, putative #3 MJ0313 142 spermidine synthase (speE) #4 MJ0429 167 argininosuccinate synthetase (argG) #5 MJ0721 194 acetylornithine aminotransferase (argD) #6 MJ0791 300 argininosuccinate lyase (argH) #7 MJ0881 300 ornithine carbamoyltransferase (argF) #8 MJ1096 221 N-acetyl-gamma-glutamyl-phosphate reductase (argC) #9 MJ1097 108 diaminopimelate decarboxylase (lysA) #10 MJ1098 227 RNA maturase isolog #11 MJ1099 205 conserved hypothetical protein Motif number 1 AAATTAAGATTTTAGATAAAACGAGATTTT 1 30 0 TTTAGATAAA 0.510053 -116 AAAATCTTAATTTTTATTAATTACCTTAGT 1 47 1 TTTTTATTAA 0.850597 -99 AAACAATAACTTTAAATAATAGAAGCCGTA 1 77 0 TTTAAATAAT 0.791205 -69 TTTGATAAATTTTAAATAATTCCTTTATCC 1 104 1 TTTAAATAAT 0.791205 -42 CGTGTTTCATTTTTTATATATTCTTTTTAT 2 12 1 TTTTTATATA 0.908863 -289 TTATATATTCTTTTTATATATTCCCACAAT 2 25 1 TTTTTATATA 0.908863 -276 GATACCATATTATATATTATTTTCGGTTTT 2 75 1 TATATATTAT 0.448373 -226 TGTTGAAGTATTTATATCTAATCCTTAAAA 2 136 1 TTTATATCTA 0.69718 -165 AATTTTTAAATTTTTATATTGTAATAGAAC 2 263 0 TTTTTATATT 0.945614 -38 CATGCAAAAATTTTTATAGACAAAAGGTTT 3 58 1 TTTTTATAGA 0.712634 -85 TACATCACCTTATTTATTTTAGGAGGTGTA 3 121 0 TATTTATTTT 0.661518 -22 TTATTAGCAGTTTATATATAATAGGTGAGT 4 54 1 TTTATATATA 0.584726 -114 ATCCTTAAACTTTTTGTATTTTATTGCTTA 4 103 0 TTTTTGTATT 0.681572 -65 ACAAAATATTTTTATATCTTACATAAAATT 4 137 0 TTTATATCTT 0.793253 -31 TGTGAAAGTATTTTTATTAATATTGCTATA 5 33 0 TTTTTATTAA 0.850597 -162 TTGTTGAGTATTTTAATCATTTTTGATATG 5 90 0 TTTTAATCAT 0.800209 -105 ATTATAAGTATTTATATTTTGTGTTGTTTT 5 120 0 TTTATATTTT 0.823948 -75 AAAGTTTTATTTTTAATTTTAAAATCATTT 5 165 1 TTTTAATTTT 0.842936 -30 ACAAAACCTCTATATATATTATGATTTAAA 6 105 1 TATATATATT 0.599006 -196 ACTATTTAACTTTAAATCATAATATATATA 6 115 0 TTTAAATCAT 0.646712 -186 TTATTAGAATTTTTAATAATAAAACAATTA 6 171 1 TTTTAATAAT 0.892471 -130 ATATTTCATTTTTTGATATAAAATTATAAA 6 233 0 TTTTGATATA 0.726984 -68 TTTAATCGTGTTTAAATAATATTGATTATG 6 265 0 TTTAAATAAT 0.791205 -36 CACCAATGCATTTTAATCGTGTTTAAATAA 6 276 0 TTTTAATCGT 0.506513 -25 ATTATTGTATTTTTTATAATAAATTAACTG 7 19 0 TTTTTATAAT 0.940423 -282 TTTGTAATTCTTTTTATTTATTAACTTTGT 7 90 0 TTTTTATTTA 0.862275 -211 ATATTTGATGTTTTTGTAATTCTTTTTATT 7 102 0 TTTTTGTAAT 0.660849 -199 AACAATTAACTATTAATAATATTTGATGTT 7 120 0 TATTAATAAT 0.612961 -181 ATATTGCCCTTATTTATTTAATTTCATTCA 7 161 1 TATTTATTTA 0.544393 -140 CATGAGCCATTATTTATATTGTTGTAGTTT 7 241 0 TATTTATATT 0.768491 -60 TAAAAACTATTTTATATTATCATGAGCCAT 7 261 0 TTTATATTAT 0.809774 -40 ATAAAATAGTTTTTAATAGTATAAAAGGTG 7 276 1 TTTTAATAGT 0.680203 -25 AATCTTTAATTTTTTATCTATTCTTTTATT 8 14 1 TTTTTATCTA 0.836941 -208 ATGGATTCCTTTTAAATCTAATAGATGCTC 8 67 0 TTTAAATCTA 0.551446 -155 TTTAATAAACTTTTTGTAAAAAAACAGGAT 8 102 0 TTTTTGTAAA 0.543491 -120 TTTTATTAGTTTTTAATAAACTTTTTGTAA 8 113 0 TTTTAATAAA 0.835204 -109 TAGGAAGGCGTTTAGATTTTATTAGTTTTT 8 129 0 TTTAGATTTT 0.539555 -93 AATTTAAGATTTTTTATAAAACCTTTGAAC 8 197 0 TTTTTATAAA 0.880606 -25 CCGGGCGTTATTTTTATTTTATCATATAAA 9 82 1 TTTTTATTTT 0.911051 -27 ATTTTTATAATTTTTAATTTT 10 2 1 TTTTTATAAT 0.940423 -226 TTTTTATAATTTTTAATTTTGTTTTCTTTT 10 12 1 TTTTAATTTT 0.842936 -216 TTTTGTTTTCTTTTTATAATGTTAGGGAAA 10 28 1 TTTTTATAAT 0.940423 -200 TTACAAAATGTTTTGATTATTATCTTTAAT 11 32 0 TTTTGATTAT 0.700065 -174 AAGTGTTCCTTATTAATTTTAATACTTTTG 11 103 1 TATTAATTTT 0.505943 -103 AAACATTAAGTTTTTATATATATTGTCATT 11 151 1 TTTTTATATA 0.908863 -55 ********** Masking position 7 Map Score: 44.2343 Number of sites scoring better than the average of aligned sites = 3962 Number in coding regions = 2725 Number in noncoding regions = 1237 Number of orfs with sites within 600 bp upstream = 679 Fraction of orfs with sites within 600 bp upstream = 0.109059 Motif number 2 CGTTTTATCTAAAATCTTAATTTTTATTAATTAC 1 37 1 AAAATAATTT 0.747511 -109 ATTGTTTGATAAATTTTAAATAATTCCTTTATCC 1 100 1 AAATTAAAAT 0.884305 -46 ATATAAAAAGAATATATAAAAAATGAAACACGT 2 10 0 AATATAAAAT 0.904846 -291 CTTCAACATCAAATTAATAACTATCCTTTAACCT 2 110 0 AAATAAATAT 0.783612 -191 ATTACAATATAAAAATTTAAAAATTTATGCTGAT 2 268 1 AAAATAAAAT 0.976597 -33 AATTTCAAATCATCAATTTTAGGATTTTTC 3 7 1 AAATTAATTT 0.678094 -136 ATAAAATACAAAAAGTTTAAGGATTTATAATTTT 4 109 1 AAAATAAGAT 0.850025 -59 CTTATCACCAAAAAGATTAATTATAGCAATATTA 5 12 1 AAAATAATAT 0.974903 -183 AAAACAACACAAAATATAAATACTTATAATGCAT 5 120 1 AAAATAAACT 0.784057 -75 TTTTAAAATTAAAAATAAAACTTTTAAGGGAAGT 5 155 0 AAAAAAATTT 0.789897 -40 GCACCATACAAAAAATTAAAGAATAGTTGGCGAT 6 34 0 AAAATAAAAT 0.976618 -267 ACATTTGTGAAAAATGTGGAAAATAATAGGGGCA 6 65 0 AAAATGAAAT 0.748099 -236 ATTTAAAGTTAAATAGTAAATTATATATGTTAAA 6 128 1 AAATTAATAT 0.898475 -173 TAAAAATTCTAATAAGTTAAAAATTTTAACATAT 6 152 0 AATATAAAAT 0.904906 -149 AATTTTTAATAATAAAACAATTATAACTTTAAAA 6 178 1 AATAAAATAT 0.783617 -123 TATAACTTTAAAAAAGTAAATTATTTTTAACTAT 6 199 1 AAAATAATAT 0.974896 -102 ATTTTATATCAAAAAATGAAATATAACATAATCA 6 239 1 AAAATAATAT 0.974908 -62 ATTTATTATAAAAAATACAATAATAAAACAGTTC 7 25 1 AAAAAAAAAT 0.944723 -276 AAGAATTACAAAAACATCAAATATTATTAATAGT 7 108 1 AAAATAATAT 0.974908 -193 AGAAACTACAACAATATAAATAATGGCTCATGAT 7 239 1 ACAATAAAAT 0.748088 -62 AGAATAGATAAAAAATTAAAGATTGGA 8 4 0 AAAATAAATT 0.908334 -218 TTTCAGTTTAAAAAATAAAAGAATAGATAAAAAA 8 23 0 AAAAAAAAAT 0.944723 -199 GTTTTATAAAAAATCTTAAATTATACA 8 205 1 AAATTAATAT 0.897457 -17 AACAAAATTAAAAATTATAAAAAT 10 1 0 AAAAAAAAAT 0.942631 -227 AAAGAAGTATAAAAGAACAAAAATTGCTTATTAA 10 88 1 AAAAAAAAAT 0.944727 -140 ATATAAGAAGAATAAAAAAAGAATGGGTTATTCC 10 194 1 AATAAAAAAT 0.795648 -34 GGCGTTCATTAATACCTCAATTATTACAAAATGT 11 51 0 AATATAATAT 0.898486 -155 TTAAAATTTTAAAACATTAAGTTTTTATATATAT 11 140 1 AAAATAATTT 0.902411 -66 **** * ** *** Masking position 10 Map Score: 44.4 Number of sites scoring better than the average of aligned sites = 936 Number in coding regions = 619 Number in noncoding regions = 317 Number of orfs with sites within 600 bp upstream = 245 Fraction of orfs with sites within 600 bp upstream = 0.0393511 Motif number 3 CTCATAAACTTAAAAGGTTTT 1 135 1 TAAAAGGTTT 0.899754 -11 ATCTAATCCTTAAAATAATTTACAATGGAA 2 151 1 TAAAATAATT 0.67343 -150 TAGCACCATGCAAAAATTTTTATAGACAAA 3 52 1 CAAAAATTTT 0.803988 -91 TTTTTATAGACAAAAGGTTTAATTAACATT 3 68 1 CAAAAGGTTT 0.968958 -75 CAATAAAATACAAAAAGTTTAAGGATTTAT 4 107 1 CAAAAAGTTT 0.940798 -61 CAATCCCTCACAAAATATTTTTATATCTTA 4 146 0 CAAAATATTT 0.89819 -22 ACTTATCACCAAAAAGATTAATTATAGCA 5 10 1 CAAAAAGATT 0.927599 -185 ACTTTCACATAAAAATGTTTTGTTGGTGAC 5 54 1 AAAAATGTTT 0.879628 -141 AAACCATATCAAAAATGATTAAAATACTCA 5 86 1 AAAAATGATT 0.906595 -109 TTACTTCCCTTAAAAGTTTTATTTTTAATT 5 153 1 TAAAAGTTTT 0.69881 -42 TTAATCACCAAAATGATTTTAAAATTAA 5 177 0 CAAAATGATT 0.965112 -18 TTATATATGTTAAAATTTTTAACTTATTAG 6 148 1 TAAAATTTTT 0.684958 -153 TAAAATAGTTAAAAATAATTTACTTTTTTA 6 207 0 AAAAATAATT 0.716923 -94 GTTAATAAATAAAAAGAATTACAAAAACAT 7 95 1 AAAAAGAATT 0.697956 -206 TGTTTTTTTACAAAAAGTTTATTAAAAACT 8 106 1 CAAAAAGTTT 0.940798 -116 TCAATTATTACAAAATGTTTTGATTATTAT 11 39 0 CAAAATGTTT 0.970824 -167 TAATGTCTTTCAAAAGTATTAAAATTAATA 11 113 0 CAAAAGTATT 0.867104 -93 TATTGATTTCAAAAATGATTAATGACAATA 11 171 0 AAAAATGATT 0.906595 -35 ********** Masking position 9 Map Score: 21.7269 Number of sites scoring better than the average of aligned sites = 543 Number in coding regions = 394 Number in noncoding regions = 149 Number of orfs with sites within 600 bp upstream = 135 Fraction of orfs with sites within 600 bp upstream = 0.0216833 Motif number 4 CTTATCTCACCAACTACCAAAAA 1 3 1 TATTCACCAA 0.969899 -143 TTTATCCCCAAAAATTTCTAT 4 1 1 TTTTCCCCAA 0.907817 -167 GGAGTATATATAACTCACCTATTATATATAA 4 65 0 TAATCACCTA 0.908888 -103 ACTTATCACCAAAAAGATTAAT 5 2 1 CTTTCACCAA 0.907817 -193 TGATATGGTTTAAGTCACCAACAAAACATTT 5 66 0 TAATCACCAA 0.956195 -129 TTAATCACCAAAATGATTTTA 5 184 0 TTATCACCAA 0.969913 -11 ATTTTCCACATTTTTCACAAATGTAATAATA 6 75 1 TTTTCACAAA 0.803755 -226 TATTTCACCAATGCATTTTAA 6 290 0 TATTCACCAA 0.969899 -11 TTTATCACCTTTTATACTATT 7 290 0 TTTTCACCTT 0.855988 -11 TTAATCACCTTTGCTATAATC 11 1 1 TTATCACCTT 0.80237 -205 *** ******* Masking position 5 Map Score: 9.1225 Number of sites scoring better than the average of aligned sites = 151 Number in coding regions = 103 Number in noncoding regions = 48 Number of orfs with sites within 600 bp upstream = 61 Fraction of orfs with sites within 600 bp upstream = 0.00979762 Motif number 5 TTAATAAAAATTAAGATTTTAGATAAAACGA 1 36 0 TTAGATTTTA 0.801787 -110 AAAACCTTTTAAGTTTATGAGTGGATA 1 129 0 TTTAAGTTTA 0.464806 -17 ACGTGTTTCATTTTTTATATATTCTTT 2 7 1 TTCTTTTTTA 0.698327 -294 TTTCGCAGTTTGTATATTTTATTAAAGGCAT 2 232 0 TGTTATTTTA 0.619792 -69 GCATAAATTTTTAAATTTTTATATTGTAATA 2 267 0 TTAATTTTTA 0.768546 -34 TACATCACCTTATTTATTTTAGGAGGTGTAA 3 120 0 TATTATTTTA 0.509011 -23 ACAGTTATTATTAGCAGTTTATATATAATAG 4 47 1 TTACAGTTTA 0.523313 -121 CCTTAAACTTTTTGTATTTTATTGCTTATAG 4 100 0 TTTTATTTTA 0.88391 -68 GTTTAAGGATTTATAATTTTATGTAAGATAT 4 123 1 TTAAATTTTA 0.850259 -45 TGTTTTTTGTTGAGTATTTTAATCATTTTTG 5 95 0 TGATATTTTA 0.743262 -100 AAAGTTTTATTTTTAATTTTAAAATCATTTT 5 165 1 TTTAATTTTA 0.762768 -30 CAACTATTCTTTAATTTTTTGTATGGTGCCC 6 39 1 TTATTTTTTG 0.440038 -262 CATATATAATTTACTATTTAACTTTAAATCA 6 126 0 TTATATTTAA 0.620854 -175 TCTAATAAGTTAAAAATTTTAACATATATAA 6 148 0 TAAAATTTTA 0.345369 -153 TAAAAATAATTTACTTTTTTAAAGTTATAAT 6 197 0 TTATTTTTTA 0.922218 -104 TTTAACTATTTTATAATTTTATATCAAAAAA 6 224 1 TTAAATTTTA 0.850259 -77 TTATAATAAATTAACTGTTTAAGAA 7 5 0 TTACTGTTTA 0.482282 -296 GTTTTATTATTGTATTTTTTATAATAAATTA 7 23 0 TGTTTTTTTA 0.588518 -278 TTCAGTGCTATAAGTTTTTTAAGAACTGTTT 7 50 0 TAATTTTTTA 0.617392 -251 TCAAATATTATTAATAGTTAATTGTTAATTC 7 124 1 TTATAGTTAA 0.300572 -177 AATATTGCCCTTATTTATTTAATTTCATTCA 7 160 1 TTATTATTTA 0.380399 -141 TCCAATCTTTAATTTTTTATCTATTCTTT 8 9 1 TTATTTTTTA 0.917811 -213 TATCTATTCTTTTATTTTTTAAACTGAAAAT 8 28 1 TTTTTTTTTA 0.869755 -194 TTAGATTTTATTAGTTTTTAATAAACTTTTT 8 117 0 TTATTTTTAA 0.5896 -105 TAGGAAGGCGTTTAGATTTTATTAGTTTTTA 8 128 0 TTTGATTTTA 0.695984 -94 CCGGGCGTTATTTTTATTTTATCATATAAAG 9 82 1 TTTTATTTTA 0.88391 -27 TTTAATTTTGTTTTCTTTTTATAATGTTAGG 10 23 1 TTTCTTTTTA 0.667622 -205 GAATAACCCATTCTTTTTTTATTCTTCTTAT 10 196 0 TTCTTTTTTA 0.698362 -32 TTGAAAGACATTAAAATTTTAAAACATTAAG 11 130 1 TTAAATTTTA 0.791343 -76 TTTTAAAACATTAAGTTTTTATATATATTGT 11 146 1 TTAGTTTTTA 0.78015 -60 *** ******* Masking position 8 Map Score: 26.2911 Number of sites scoring better than the average of aligned sites = 1559 Number in coding regions = 1007 Number in noncoding regions = 552 Number of orfs with sites within 600 bp upstream = 408 Fraction of orfs with sites within 600 bp upstream = 0.0655316 Motif number 6 CTATGGAATAATAATGCCTTTAGGCATTTAA 2 201 1 AAATGCCTTT 0.861145 -100 TTTAGGCATTTAAATGCCTTTAATAAAATAT 2 219 1 TAATGCCTTT 0.967609 -82 TAATAAAATCTAAACGCCTTCCTATAGAAGC 8 135 1 TAACGCCTTC 0.986756 -87 AGGAATATAATGAATGGCTTCTATAGGAAGG 8 151 0 TAATGGCTTC 0.946012 -71 GAGGTATTAATGAACGCCTTCTATAAGAAGA 11 67 1 TAACGCCTTC 0.986756 -139 AAGGAACACTTGAACGTCTTCTTATAGAAGG 11 83 0 TAACGTCTTC 0.961796 -123 TTTTAAAATTTTAATGTCTTTCAAAAGTATT 11 123 0 TAATGTCTTT 0.909861 -83 * ********* Masking position 4 Map Score: 5.42763 Number of sites scoring better than the average of aligned sites = 131 Number in coding regions = 84 Number in noncoding regions = 47 Number of orfs with sites within 600 bp upstream = 43 Fraction of orfs with sites within 600 bp upstream = 0.00690652 Motif number 7 CCTGGCTAGGCGACCCGGGCT 9 2 0 CGACCCGGGC 0.998164 -107 GTTCAAATCCCCTCCCGGGCGTTATTTTTA 9 68 1 CCTCCCGGGC 0.994043 -41 TCTGGCTAGGCGACCCGGGCTTTATCATTT 10 131 0 CGACCCGGGC 0.998164 -97 ********** Masking position 5 Map Score: 2.81383 Number of sites scoring better than the average of aligned sites = 2 Number in coding regions = 0 Number in noncoding regions = 2 Number of orfs with sites within 600 bp upstream = 2 Fraction of orfs with sites within 600 bp upstream = 0.000321234 Motif number 8 ATTAATCATAACGTTGAGTATTGTGGGAATA 2 43 0 AGTTGAGTAT 0.831832 -258 AAAAATCCTAAAATTGATGATTTGAAATT 3 9 0 AATTGATGAT 0.794877 -134 ATTTCTATTTAGATTGATTATTGACAGTTAT 4 24 1 AATTGATTAT 0.953603 -144 TTTTTGTATTTTATTGCTTATAGTTTTGGAG 4 92 0 TATTGCTTAT 0.869211 -76 ATCACCAAAAAGATTAATTATAGCAATATTA 5 15 1 AATTAATTAT 0.642425 -180 GTGTTGTTTTTTGTTGAGTATTTTAATCATT 5 99 0 TGTTGAGTAT 0.806296 -96 TGTTTAAATAATATTGATTATGTTATATTTC 6 256 0 AATTGATTAT 0.95174 -45 CTTAAACAGTTAATTTATTATAAAAAATACA 7 13 1 TATTTATTAT 0.602047 -288 TTATTAAGTATGATTGAGTATCAATAGAAAA 10 60 1 TATTGAGTAT 0.91558 -168 AAAAGAACAAAAATTGCTTATTAATAGGCGT 10 98 1 AATTGCTTAT 0.887609 -130 ATTATTATCTTTAATGATTATAGCAAAGGTG 11 16 0 TAATGATTAT 0.686508 -190 * ********* Masking position 10 Map Score: 4.64566 Number of sites scoring better than the average of aligned sites = 220 Number in coding regions = 193 Number in noncoding regions = 27 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 9 ACCTTAGTTACGGCTTCTATTATTTAAAGT 1 69 1 CGGCTTCTAT 0.843613 -77 ATTAACATTACTCCATTTATAACTATTATA 3 89 1 CTCCATTTAT 0.69994 -54 ATATATAACTCACCTATTATATATAAACTG 4 61 0 CACCTATTAT 0.918274 -107 GGAGCGTCATCGCCAACTATTCTTTAATTT 6 26 1 CGCCAACTAT 0.922672 -275 TTGTATGGTGCCCCTATTATTTTCCACATT 6 57 1 CCCCTATTAT 0.904251 -244 TTTATCACCTTTTATACTATTAAAA 7 286 0 CACCTTTTAT 0.918274 -15 ATCATTTCTACGCCTATTAATAAGCAATTT 10 108 0 CGCCTATTAA 0.856302 -120 TATTAATGAACGCCTTCTATAAGAAGACGT 11 71 1 CGCCTTCTAT 0.970232 -135 ********** Masking position 9 Map Score: 2.76719 Number of sites scoring better than the average of aligned sites = 56 Number in coding regions = 41 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 10 CTAAGGTAATTAATAAAAATTAAGATTTTA 1 46 0 TAATAAAAAT 0.657714 -100 AAAAAGAATATATAAAAAATGAAACACGT 2 10 0 TATAAAAAAT 0.859187 -291 TGGGAATATATAAAAAGAATATATAAAAAA 2 21 0 TAAAAAGAAT 0.955512 -280 TATTTATGGGTAAGAAAAATCCTAAAATTG 3 24 0 TAAGAAAAAT 0.812364 -119 TTACACCTCCTAAAATAAATAAGGTGATGT 3 120 1 TAAAATAAAT 0.504588 -23 ATAGCAATATTAATAAAAATACTTTCACAT 5 34 1 TAATAAAAAT 0.657714 -161 AGGGGCACCATACAAAAAATTAAAGAATAG 6 42 0 TACAAAAAAT 0.652472 -259 ATAAAATAGTTAAAAATAATTTACTTTTTT 6 208 0 TAAAAATAAT 0.767923 -93 GTTAATTTATTATAAAAAATACAATAATAA 7 21 1 TATAAAAAAT 0.859187 -280 AGTTAATAAATAAAAAGAATTACAAAAACA 7 94 1 TAAAAAGAAT 0.955512 -207 ACTACAACAATATAAATAATGGCTCATGAT 7 243 1 TATAAATAAT 0.629097 -58 CTATTAGATTTAAAAGGAATCCATCTAAAA 8 73 1 TAAAAGGAAT 0.879542 -149 AACCTTATAGTAAGAGGAATATAATGAATG 8 166 0 TAAGAGGAAT 0.726455 -56 TCAAAGGTTTTATAAAAAATCTTAAATTAT 8 199 1 TATAAAAAAT 0.859187 -23 TATTTTATCATATAAAGAATTGG 9 96 1 TATAAAGAAT 0.916733 -13 CCTAACATTATAAAAAGAAAACAAAATTAA 10 24 0 TAAAAAGAAA 0.605782 -204 TGCATCCATATAAGAAGAATAAAAAAAGAA 10 187 1 TAAGAAGAAT 0.886517 -41 AAGAAGAATAAAAAAAGAATGGGTTATTCC 10 198 1 AAAAAAGAAT 0.619112 -30 CCAACCATAAGGAATAACCCATTCT 10 213 0 CATAAGGAAT 0.295679 -15 ********** Masking position 5 Map Score: 19.4627 Number of sites scoring better than the average of aligned sites = 505 Number in coding regions = 365 Number in noncoding regions = 140 Number of orfs with sites within 600 bp upstream = 145 Fraction of orfs with sites within 600 bp upstream = 0.0232894 Motif number 11 TAAAAACCGAAAATAATATATAATATGGTAT 2 76 0 AAATAATTAT 0.491446 -225 TTCCATTGTAAATTATTTTAAGGATTAGATA 2 150 0 AATTATTTAA 0.377825 -151 TCGTAGGAATAAATGTTCTATGGAATAATAA 2 184 1 AAATGTTTAT 0.923139 -117 CTCCATTTATAACTATTATATTTACACCTCC 3 99 1 AACTATTTAT 0.938598 -44 TATATAACTCACCTATTATATATAAACTGCT 4 59 0 ACCTATTTAT 0.674774 -109 TAAGATATAAAAATATTTTGTGAGGGATTGT 4 146 1 AAATATTTGT 0.7616 -22 TTTCACATAAAAATGTTTTGTTGGTGACTTA 5 56 1 AAATGTTTGT 0.777088 -139 TACTTCCCTTAAAAGTTTTATTTTTAATTTT 5 154 1 AAAAGTTTAT 0.541745 -41 CGTCATCGCCAACTATTCTTTAATTTTTTGT 6 30 1 AACTATTTTT 0.61928 -271 TTAAAGTTATAATTGTTTTATTATTAAAAAT 6 179 0 AATTGTTTAT 0.79148 -122 AATTATTTTTAACTATTTTATAATTTTATAT 6 217 1 AACTATTTAT 0.938638 -84 GTTTTTTAAGAACTGTTTTATTATTGTATTT 7 37 0 AACTGTTTAT 0.943166 -264 TACTATTAAAAACTATTTTATATTATCATGA 7 266 0 AACTATTTAT 0.938638 -35 TTTAAACTGAAAATATTATAAAGAGCATCTA 8 45 1 AAATATTTAA 0.657701 -177 AGGTTCGTTCAAAGGTTTTATAAAAAATCTT 8 191 1 AAAGGTTTAT 0.636647 -31 ******* *** Masking position 1 Map Score: 9.88022 Number of sites scoring better than the average of aligned sites = 287 Number in coding regions = 212 Number in noncoding regions = 75 Number of orfs with sites within 600 bp upstream = 97 Fraction of orfs with sites within 600 bp upstream = 0.0155798 Motif number 12 GCGCCCTATCCTGGCTAGGCGACCCGGGCT 9 11 0 CTGGCTAGGC 0.994776 -98 CCTGAAAAAACTGGCTCCGCAGGCCAGCGC 9 37 0 CTGGCTCCGC 0.988622 -72 CCCATGCTATCTGGCTAGGCGACCCGGGCT 10 140 0 CTGGCTAGGC 0.994776 -88 ********** Masking position 6 Map Score: 1.15447 Number of sites scoring better than the average of aligned sites = 2 Number in coding regions = 0 Number in noncoding regions = 2 Number of orfs with sites within 600 bp upstream = 2 Fraction of orfs with sites within 600 bp upstream = 0.000321234 Motif number 13 TCCATTTATAACTATTATATTTACACCTCC 3 100 1 ACTATTATAT 0.924373 -43 ATATAACTCACCTATTATATATAAACTGCT 4 59 0 CCTATTATAT 0.817158 -109 TAAAGTTATAATTGTTTTATTATTAAAAAT 6 179 0 ATTGTTTTAT 0.745213 -122 ATTATTTTTAACTATTTTATAATTTTATAT 6 218 1 ACTATTTTAT 0.957992 -83 TTTTTTAAGAACTGTTTTATTATTGTATTT 7 37 0 ACTGTTTTAT 0.949765 -264 ACTATTAAAAACTATTTTATATTATCATGA 7 266 0 ACTATTTTAT 0.957992 -35 ********** Masking position 5 Map Score: 2.16105 Number of sites scoring better than the average of aligned sites = 71 Number in coding regions = 50 Number in noncoding regions = 21 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 14 TTTTTATTAATTACCTTAGTTACGGCTTCTAT 1 57 1 TACCTTATTA 0.930982 -89 TATCAAACAATAACTTTAAATAATAGAAGCCG 1 79 0 TACTTTAATA 0.799743 -67 AACTATCCTTTAACCTTACTAAAAACCGAAAA 2 94 0 TACCTTATAA 0.888879 -207 GGCATTTAAATGCCTTTAATAAAATATACAAA 2 223 1 TCCTTTATAA 0.726727 -78 GGATTTTTCTTACCCATAAATAGCACCATGCA 3 32 1 TCCCATAATA 0.842984 -111 TCTACATCACCTTATTTATTTTAGGAGG 3 125 0 TACCTTATTA 0.931359 -18 AATGCATTACTTCCCTTAAAAGTTTTATTTTT 5 147 1 TCCCTTAAAG 0.706102 -48 AAAACAATTATAACTTTAAAAAAGTAAATTAT 6 191 1 TACTTTAAAA 0.701912 -110 TAATTGTTAATTCCCATAAATATTGCCCTTAT 7 142 1 TCCCATAATA 0.842984 -159 CCATAAATATTGCCCTTATTTATTTAATTTCA 7 155 1 TCCCTTATTA 0.94794 -146 TTTATCACCTTTTATACTATTAAAAA 7 285 0 TACCTTTATA 0.671993 -16 * ****** *** Masking position 7 Map Score: 4.24166 Number of sites scoring better than the average of aligned sites = 184 Number in coding regions = 132 Number in noncoding regions = 52 Number of orfs with sites within 600 bp upstream = 51 Fraction of orfs with sites within 600 bp upstream = 0.00819146 Motif number 15 ********** No masking Map Score: -4.73689e-12 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0