AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i293_mixed_aquae_reg_300.orf -o293_aquae_300.ace -a/home/amcguire/genomes/ORF_aquae.txt -z/home/amcguire/genomes/aquae.fna -g0.44 -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 = 0.44 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: RAA00379 24 Aquifex_aeolicus Input sequences: #1 RAA00873 101 Aquifex_aeolicus #2 RAA01212 215 Aquifex_aeolicus #3 RAA01457 117 Aquifex_aeolicus #4 RAA01459 211 Aquifex_aeolicus #5 RAA01460 33 Aquifex_aeolicus #6 RAA01422 300 Aquifex_aeolicus #7 RAA00423 85 Aquifex_aeolicus #8 RAA00381 300 Aquifex_aeolicus #9 RAA00584 128 Aquifex_aeolicus #10 RAA00786 300 Aquifex_aeolicus #11 RAA00789 56 Aquifex_aeolicus #12 RAA01712 45 Aquifex_aeolicus #13 RAA00799 24 Aquifex_aeolicus Motif number 1 CAAGCGTGCAGGGTTATGCCCTTACAATAAGGGA 6 12 1 GGTAGCCCTA 0.99607 -289 AGAAAGAAATGTCGCAATCCCTTATTGTAAGGGC 6 29 0 GCCATCCCTA 0.993154 -272 TTCCCAATCAATGTTATGCCCTTACAATAAGGGA 6 79 1 AGTAGCCCTA 0.985009 -222 AGAAAGAAATGTCGCAATCCCTTATTGTAAGGGC 6 96 0 GCCATCCCTA 0.993154 -205 TTCCCAATCAATGTTATGCCCTTACAATAAGGGA 6 146 1 AGTAGCCCTA 0.985009 -155 ATAAAGCAAAGTCGCAATCCCTTATTGTAAGGGC 6 163 0 GCCATCCCTA 0.993154 -138 GATAAGGCATACGTTACGCCCTAACAGTAAGGGA 6 211 1 AGTAGCCCTA 0.985009 -90 GGGAAATTTTATCACGATCCCTTACTGTTAGGGC 6 228 0 ACCGTCCCTA 0.845829 -73 CAGGCACGCAGGGTTACGCCCTAATAGTGAGGGA 8 74 1 GGTAGCCCTA 0.99607 -227 TGAACTCGCAGTCGCAATCCCTCACTATTAGGGC 8 91 0 GCCATCCCTA 0.993154 -210 CTTTTTAGTAGCGGTATTCTCTGAACTCGCAGTC 8 112 0 GGTATCTCTA 0.905788 -189 AGTGTTGATTGGGTTACGCCCTAACAGTAAGGGA 8 144 1 GGTAGCCCTA 0.99607 -157 TATCTGATAAGCCACAATCCCTTACTGTTAGGGC 8 161 0 GCCATCCCTA 0.993154 -140 TCTGCCAGTTGAGCTACGCCCCAAGCCTTCCAGA 9 41 0 GGTAGCCCCA 0.973666 -88 * * ** ***** * Masking position 14 Map Score: 37.5607 Number of sites scoring better than the average of aligned sites = 55 Number in coding regions = 38 Number in noncoding regions = 17 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701 Motif number 2 AAAGGAAGACGATACCCCTTGAGAAGTTTG 4 91 1 GATACCCCTT 0.827543 -121 AGCGTGCAGGGTTATGCCCTTACAATAAGG 6 14 1 GTTATGCCCT 0.978692 -287 AAGAAATGTCGCAATCCCTTATTGTAAGGG 6 30 0 GCAATCCCTT 0.975383 -271 CCCAATCAATGTTATGCCCTTACAATAAGG 6 81 1 GTTATGCCCT 0.978692 -220 AAGAAATGTCGCAATCCCTTATTGTAAGGG 6 97 0 GCAATCCCTT 0.975383 -204 CCCAATCAATGTTATGCCCTTACAATAAGG 6 148 1 GTTATGCCCT 0.978692 -153 AAGCAAAGTCGCAATCCCTTATTGTAAGGG 6 164 0 GCAATCCCTT 0.975383 -137 TAAGGCATACGTTACGCCCTAACAGTAAGG 6 213 1 GTTACGCCCT 0.974176 -88 GGCACGCAGGGTTACGCCCTAATAGTGAGG 8 76 1 GTTACGCCCT 0.974176 -225 ACTCGCAGTCGCAATCCCTCACTATTAGGG 8 92 0 GCAATCCCTC 0.914066 -209 TGTTGATTGGGTTACGCCCTAACAGTAAGG 8 146 1 GTTACGCCCT 0.974176 -155 CTGATAAGCCACAATCCCTTACTGTTAGGG 8 162 0 ACAATCCCTT 0.691539 -139 CCTTGGTTTTGTAATCCCTTCTAATCCCTC 8 201 1 GTAATCCCTT 0.970239 -100 TGCCAGTTGAGCTACGCCCCAAGCCTTCCA 9 43 0 GCTACGCCCC 0.924858 -86 AAGGCTACAAGTACTCCCTTGTTTTTGCCT 10 103 1 GTACTCCCTT 0.815613 -198 ********** Masking position 7 Map Score: 29.6093 Number of sites scoring better than the average of aligned sites = 125 Number in coding regions = 101 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 3 CCGTAGATCAGAAAACTTTATTATACATAAG 2 32 0 GAAAATTTAT 0.910308 -184 AATTTACCTTGAAAAATTAGTTAAAAATTTG 3 90 0 GAAAATTAGT 0.704244 -28 AATTTTTCAAGGTAAATTTATAGAT 3 103 1 GGTAATTTAT 0.777129 -15 TGAAAACCTCGGAGAATTTTTCAAGGAACTC 4 35 1 GGAGATTTTT 0.969616 -177 GATACCCCTTGAGAAGTTTGAAACCATAAGG 4 101 1 GAGAATTTGA 0.54687 -111 GAATACAAAAGGGGAATTTTTAAGAAGAACT 4 144 1 GGGGATTTTT 0.920682 -68 ACATTGATTGGGAAATTTTTTTAAATGCACA 6 62 0 GGAAATTTTT 0.980344 -239 ACATTGATTGGGAAATTTTTTTAAATGCACA 6 129 0 GGAAATTTTT 0.980344 -172 GTAAATTTGGGGAAATTTTATCACGATCCCT 6 240 0 GGAAATTTAT 0.974412 -61 CTGCGGTATTGCAAACTTTTTGCAGTTTAAC 7 33 1 GCAAATTTTT 0.828362 -53 TTCACCTGATGGAAAATTTTTAGGAGTCGTG 10 29 1 GGAAATTTTT 0.980344 -272 TGAAACAACGGGAAAATTTGATGGAAACTTT 10 140 1 GGAAATTTGA 0.925497 -161 AAAATTTGATGGAAACTTTTTAAGATACGAT 10 152 1 GGAAATTTTT 0.980344 -149 AAATTTATAAGGGAACTTTTTACCTTTAAGA 10 212 0 GGGAATTTTT 0.948036 -89 ACAATTGATAGAAGATTTTAAGAACGATTTT 10 254 1 GAAGATTTAA 0.660857 -47 GAACGATTTTGAAAAATTAATTGAGGAGGTT 10 275 1 GAAAATTAAT 0.687352 -26 TATTTAGTTAGGAGAGTTTAAAAC 11 43 1 GGAGATTTAA 0.879499 -14 TTGGAGAATTAGTATAACAAACT 13 12 0 GGAGATTAGT 0.850213 -13 ***** ***** Masking position 7 Map Score: 24.8108 Number of sites scoring better than the average of aligned sites = 354 Number in coding regions = 312 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 4 TTTATCAGGTGCAATAAAGGAAAGTTCAAGT 1 81 1 GCAAGGAAAG 0.942419 -21 AGGAATAAATTTAAAGAAAAACTTATGTAT 2 7 1 AAAAAGAAAA 0.93892 -209 TCTGATCTACGGAGGAATGGAAAATGAGGAGAGT 2 51 1 GGAAGGAAAA 0.881071 -165 ACCTTAAGAGGAAAAGAAGGGAAGGGTGGCTCCC 2 126 1 GAAAGGGAAG 0.979833 -90 CTCCCTGTGGAAATTTACGGAAAGGGAGTTGAGA 2 155 1 AAAAGGAAAG 0.986847 -61 GAAGAGATTAAAAAGGAAAGGAAGACGATACCCC 4 75 1 AAAAAGGAAG 0.949963 -137 AAATTTTTTTAAATGCACAGAAAGAAATGTCGCA 6 47 0 AAAAAGAAAG 0.971396 -254 AAATTTTTTTAAATGCACAGAAAGAAATGTCGCA 6 114 0 AAAAAGAAAG 0.971396 -187 AAGGGATTACAAAACCAAGGAAAAAATATCTGAT 8 187 0 AAAAGGAAAA 0.971396 -114 TCGTGGAAATGAAGATATGGAAAGTACCAAAAGA 10 55 1 GAAAGGAAAG 0.988625 -246 CTTATACAATGAAACAACGGGAAAATTTGATGGA 10 131 1 GAAAGGGAAA 0.956508 -170 TATAAAGAGAAAACTAAAAGAAAAGGGC 11 5 0 AAAAAGAAAA 0.93892 -52 *** * ****** Masking position 7 Map Score: 16.7696 Number of sites scoring better than the average of aligned sites = 603 Number in coding regions = 554 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 52 Fraction of orfs with sites within 600 bp upstream = 0.00835207 Motif number 5 TACAATAAGGGATTGCGACATTTCTTTCTGT 6 34 1 GATTGGACAT 0.993459 -267 GCATAACATTGATTGGGAAATTTTTTTAAAT 6 67 0 GATTGGAAAT 0.976433 -234 TACAATAAGGGATTGCGACATTTCTTTCTGT 6 101 1 GATTGGACAT 0.993459 -200 GCATAACATTGATTGGGAAATTTTTTTAAAT 6 134 0 GATTGGAAAT 0.976433 -167 TACAATAAGGGATTGCGACTTTGCTTTATAA 6 168 1 GATTGGACTT 0.991499 -133 AATAGTGAGGGATTGCGACTGCGAGTTCAGA 8 96 1 GATTGGACTG 0.972893 -205 AACAGTAAGGGATTGTGGCTTATCAGATATT 8 166 1 GATTGGGCTT 0.972894 -135 ***** ***** Masking position 2 Map Score: 12.5796 Number of sites scoring better than the average of aligned sites = 6 Number in coding regions = 3 Number in noncoding regions = 3 Number of orfs with sites within 600 bp upstream = 1 Fraction of orfs with sites within 600 bp upstream = 0.000160617 Motif number 6 ACTAACCTCTCCTTAGAATATCTTAAAA 1 9 1 CTCCTTAGAA 0.769487 -93 CTCCTTAGAATATCTTAAAACAAATTTTAA 1 19 1 TATCTTAAAA 0.732024 -83 TCAATAATTCTATCTTAAAATTTGTTTTAA 1 33 0 TATCTTAAAA 0.732024 -69 TACATAAGTTTTTCTTTAAATTTATTCCT 2 10 0 TTTCTTTAAA 0.785512 -206 TTCCCTTCTTTTCCTCTTAAGGTCGCTCTT 2 119 0 TTCCTCTTAA 0.346843 -97 GGTTCCCACCTCCTTTTAAGTTTTTTCTG 3 10 1 CTCCTTTTAA 0.776738 -108 TCTATAAATTTACCTTGAAAAATTAGTTAA 3 97 0 TACCTTGAAA 0.734167 -21 ATTTAACTTTTTCCTCAAAATCT 4 4 0 TTCCTCAAAA 0.789704 -208 CTTTAAAGAGTTCCTTGAAAAATTCTCCGA 4 43 0 TTCCTTGAAA 0.886936 -169 TTAATCTCTTCCTCTTTAAAGAGTTCCTTG 4 56 0 CCTCTTTAAA 0.689723 -156 GGTAAAAGTTCTTCTTAAAAATTCCCCTTT 4 151 0 CTTCTTAAAA 0.918021 -61 TCCCTGCTCCTTTAAATAGGTGTTTA 5 18 0 CTCCTTTAAA 0.920325 -16 CCTTCTAATCCCTCTTGAAAAACTCCTTTC 8 217 1 CCTCTTGAAA 0.685421 -84 ATATTCTTATATCCTTAAAAACTTATAAGG 8 271 1 ATCCTTAAAA 0.706913 -30 GTCCGTACCTCCTTATAAGTTTTTAAGG 8 283 0 CTCCTTATAA 0.881096 -18 ATTTCCACGACTCCTAAAAATTTTCCATCA 10 35 0 CTCCTAAAAA 0.663985 -266 ATAATTATCGTATCTTAAAAAGTTTCCATC 10 159 0 TATCTTAAAA 0.732024 -142 GGTAAAAAGTTCCCTTATAAATTTACGGAT 10 219 1 TCCCTTATAA 0.685817 -82 TTTCAAAATCGTTCTTAAAATCTTCTATCA 10 259 0 GTTCTTAAAA 0.619353 -42 ********** Masking position 5 Map Score: 15.5661 Number of sites scoring better than the average of aligned sites = 957 Number in coding regions = 861 Number in noncoding regions = 96 Number of orfs with sites within 600 bp upstream = 97 Fraction of orfs with sites within 600 bp upstream = 0.0155798 Motif number 7 AAAATTTGTTTTAAGATATTCTAAGGAGAG 1 17 0 TTAAGATATT 0.636098 -85 TTTATTATACATAAGTTTTTCTTTAAATTT 2 17 0 ATAAGTTTTT 0.917219 -199 AGAGTAAAGGTTAAGCTTTTACCAAGGAAA 2 80 1 TTAAGCTTTT 0.850944 -136 CCACCTCCTTTTAAGTTTTTTCTGACATTT 3 16 1 TTAAGTTTTT 0.960758 -102 AGCCAAATTTTTAACTAATTTTTCAAGGTA 3 87 1 TTAACTAATT 0.690175 -31 GTTTTCAAATTTAACTTTTTCCTCAAAATC 4 12 0 TTAACTTTTT 0.915716 -200 TTATCGCTTATTAAGTATTATAAAGCAAAG 6 186 0 TTAAGTATTA 0.609411 -115 TTTTTGCAGTTTAACTATTTTTTAAAAGTA 7 49 1 TTAACTATTT 0.83107 -37 AAGAAGTCTAATAAGTTATTGATAGAGCGT 8 31 1 ATAAGTTATT 0.83391 -270 GTACCTCCTTATAAGTTTTTAAGGATATAA 8 277 0 ATAAGTTTTT 0.917219 -24 ********** Masking position 4 Map Score: 5.26552 Number of sites scoring better than the average of aligned sites = 293 Number in coding regions = 259 Number in noncoding regions = 34 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 8 GAATGGAAAATGAGGAGAGTAAAGGTTAAG 2 65 1 TGAGGAGAGT 0.88329 -151 AAACCCGGAAGGAAGAGCGACCTTAAGAGG 2 107 1 GGAAGAGCGA 0.923728 -109 AAACTTAAAAGGAGGTGGGAACC 3 4 0 GGAGGTGGGA 0.946478 -114 TCTTTAAAGAGGAAGAGATTAAAAAGGAAA 4 64 1 GGAAGAGATT 0.85062 -148 GGAAGAGAGATTTATTAATG 4 202 0 GGAAGAGAGA 0.953804 -10 CCTATTTAAAGGAGCAGGGA 5 24 1 GGAGCAGGGA 0.942039 -10 GTAATCTTCAGGAGGAGGTC 7 76 1 GGAGGAGGTC 0.957475 -10 AAGGAGTTTTTCAAGAGGGATTAGAAGGGA 8 215 0 TCAAGAGGGA 0.776846 -86 TAAAAACTTATAAGGAGGTACGGAC 8 286 1 TAAGGAGGTA 0.701386 -15 AAAAATTAATTGAGGAGGTTGTGAA 10 286 1 TGAGGAGGTT 0.933786 -15 CTTTAAACTCGGAAGAGGTGAATGGG 12 30 1 GGAAGAGGTG 0.922107 -16 ********** Masking position 3 Map Score: 5.3154 Number of sites scoring better than the average of aligned sites = 1141 Number in coding regions = 1042 Number in noncoding regions = 99 Number of orfs with sites within 600 bp upstream = 98 Fraction of orfs with sites within 600 bp upstream = 0.0157404 Motif number 9 TATTGCACCTGATAAAGCTTACTGGACTTTA 1 66 0 GATAAAGCTA 0.863133 -36 TCAAGTCTTTTAAAAGCCAAATTTTTAACTA 3 73 1 TAAAAGCCAA 0.847935 -45 TATTAAGTATTATAAAGCAAAGTCGCAATCC 6 177 0 TATAAAGCAA 0.936337 -124 CTTAATAAGCGATAAGGCATACGTTACGCCC 6 201 1 GATAAGGCAA 0.984311 -100 ATAGTCGTTAGAAAAAGCACAAATACAAGTA 6 268 0 GAAAAAGCAA 0.92965 -33 AAAAATATCTGATAAGCCACAATCCCTTACT 8 169 0 GATAAGCCAA 0.963601 -132 TGTTTCATTGTATAAGGCAAAAACAAGGGAG 10 116 0 TATAAGGCAA 0.968129 -185 ********* * Masking position 5 Map Score: 3.74024 Number of sites scoring better than the average of aligned sites = 77 Number in coding regions = 71 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 10 AGGAATAAATTTAAAGAAAA 2 1 1 AGGAATAAAT 0.932783 -215 GACAGTTTACAGGTATATATTGATAAATGT 3 40 0 AGGTATATAT 0.740845 -78 TTGAAAAATTAGTTAAAAATTTGGCTTTTA 3 83 0 AGTTAAAAAT 0.721843 -35 AGATTTTGAGGAAAAAGTTAAATTTGAA 4 9 1 AGGAAAAAGT 0.897288 -203 TTGACCAAGCAGGTAAAAGTTCTTCTTAAA 4 162 0 AGGTAAAAGT 0.927471 -50 ACCGCAGGGCAGGTTTAAATATTCTTATT 7 10 0 AGGTTTAAAT 0.865183 -76 TACAAAACCAAGGAAAAAATATCTGATAAG 8 184 0 AGGAAAAAAT 0.953089 -117 GGAGGATTAAATGGCTGGGGCG 9 117 0 AGGATTAAAT 0.81431 -12 ATTTTCCATCAGGTGAAAATACGCTCCGTT 10 16 0 AGGTGAAAAT 0.887645 -285 AACATCTTAAAGGTAAAAAGTTCCCTTATA 10 208 1 AGGTAAAAAG 0.861174 -93 ********** Masking position 7 Map Score: 7.6221 Number of sites scoring better than the average of aligned sites = 197 Number in coding regions = 177 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 24 Fraction of orfs with sites within 600 bp upstream = 0.0038548 Motif number 11 TTTAAGTTTTTTCTGACATTTATCAATATA 3 25 1 TTCTGACATT 0.736418 -93 CAATAAGGGATTGCGACATTTCTTTCTGTG 6 36 1 TTGCGACATT 0.983414 -265 ATAACATTGATTGGGAAATTTTTTTAAATG 6 66 0 TTGGGAAATT 0.892882 -235 CAATAAGGGATTGCGACATTTCTTTCTGTG 6 103 1 TTGCGACATT 0.983414 -198 ATAACATTGATTGGGAAATTTTTTTAAATG 6 133 0 TTGGGAAATT 0.892882 -168 CAATAAGGGATTGCGACTTTGCTTTATAAT 6 170 1 TTGCGACTTT 0.979644 -131 TAGTGAGGGATTGCGACTGCGAGTTCAGAG 8 98 1 TTGCGACTGC 0.724303 -203 CATTTATCTTTTGGTACTTTCCATATCTTC 10 65 0 TTGGTACTTT 0.743583 -236 CATTCACCTCTTCCGAGTTTAAAGCAAGAT 12 24 0 TTCCGAGTTT 0.738087 -22 ********** Masking position 6 Map Score: 4.44226 Number of sites scoring better than the average of aligned sites = 105 Number in coding regions = 97 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 12 TGAGGAGAGTAAAGGTTAAGCTTTTACCAA 2 75 1 AAAGGTTAAG 0.768685 -141 AGAGATTTATTAATGTGATGGCGTTTTGAC 4 187 0 TAATGTGATG 0.775533 -25 ACAAGCGTGCAGGGTTATGCCCTTACAAT 6 10 1 CAGGGTTATG 0.964246 -291 ATTTCCCAATCAATGTTATGCCCTTACAAT 6 77 1 CAATGTTATG 0.97075 -224 ATTTCCCAATCAATGTTATGCCCTTACAAT 6 144 1 CAATGTTATG 0.97075 -157 CACAGGCACGCAGGGTTACGCCCTAATAGT 8 72 1 CAGGGTTACG 0.92395 -229 CGATAATTATCAATGTGAAGGACACCATAA 10 179 1 CAATGTGAAG 0.922898 -122 ********** Masking position 8 Map Score: 2.37642 Number of sites scoring better than the average of aligned sites = 44 Number in coding regions = 37 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701 Motif number 13 GGTCGCTCTTCCTTCCGGGTTTCCTTGGTA 2 99 0 CCTTCCGGGT 0.961236 -117 TTCTCAACTCCCTTTCCGTAAATTTCCACA 2 160 0 CCTTTCCGTA 0.893034 -56 AGACTTCTTACCTTCACGAAACGAATGTT 8 10 0 CCTTCACGAA 0.964873 -291 TTGAAAAACTCCTTTCCGGAGCTAAATTCA 8 231 1 CCTTTCCGGA 0.957934 -70 ACGCCCCAAGCCTTCCAGAAATAATATTAT 9 30 0 CCTTCCAGAA 0.961801 -99 GTACTTGTAGCCTTCAGGATGGCATTTATC 10 87 0 CCTTCAGGAT 0.935409 -214 GAACTTTTTACCTTTAAGATGTTTATGGTG 10 201 0 CCTTTAAGAT 0.81927 -100 ********** Masking position 4 Map Score: 2.51284 Number of sites scoring better than the average of aligned sites = 422 Number in coding regions = 394 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 27 Fraction of orfs with sites within 600 bp upstream = 0.00433665 Motif number 14 AAGCTTTTACCAAGGAAACCCGGAAGGAAGAGC 2 92 1 CAAGAACCGG 0.854985 -124 GAGTTGAGAATAAGCACGCCTGGATTAACGTTA 2 180 1 TAAGCGCCGG 0.970189 -36 ACAAGCGTGCAGGGTTATGCCCTT 6 2 1 CAAGTGCAGG 0.949475 -299 AAAAAGTTTGCAATACCGCAGGGCAGGTTTAAA 7 21 0 CAATCGCAGG 0.940324 -65 TTTTTAGACACAGGCACGCAGGGTTACGCCCTA 8 64 1 CAGGCGCAGG 0.993229 -237 GGACTCGAACCTGGAACCCCCGGATCCAAAGTC 9 81 0 CTGGCCCCGG 0.967956 -48 GATTAAATGGCTGGGGCGCCAGGACTCGAACCT 9 102 0 CTGGCGCCGG 0.992239 -27 **** **** ** Masking position 9 Map Score: 1.30553 Number of sites scoring better than the average of aligned sites = 40 Number in coding regions = 33 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 15 CATAAGTTTTTCTTTAAATTTATTCCT 2 8 0 TCTTTAAATT 0.789012 -208 CAGGTATATATTGATAAATGTCAGAAAAAA 3 31 0 TTGATAAATG 0.682921 -87 CATGTCAAGTCTTTTAAAAGCCAAATTTTT 3 69 1 CTTTTAAAAG 0.448904 -49 ATCTATAAATTTACCTTGAAA 3 107 0 TCTATAAATT 0.730941 -11 TTCTCCGAGGTTTTCAAATTTAACTTTTTC 4 21 0 TTTTCAAATT 0.789021 -191 GGAAGAGAGATTTATTAATGTGATGGCGTT 4 192 0 TTTATTAATG 0.592365 -20 TTGGGAAATTTTTTTAAATGCACAGAAAGA 6 56 0 TTTTTAAATG 0.943421 -245 TTGGGAAATTTTTTTAAATGCACAGAAAGA 6 123 0 TTTTTAAATG 0.943421 -178 GTTTAACTATTTTTTAAAAGTAATCTTCAG 7 57 1 TTTTTAAAAG 0.810735 -29 AAAAAGTTCCCTTATAAATTTACGGATATT 10 222 1 CTTATAAATT 0.730839 -79 CTCAATTAATTTTTCAAAATCGTTCTTAAA 10 270 0 TTTTCAAAAT 0.570662 -31 TAGTTTTCTCTTTATAAATTTATTTAGTTA 11 23 1 TTTATAAATT 0.886857 -34 ********** Masking position 7 Map Score: 4.27198 Number of sites scoring better than the average of aligned sites = 249 Number in coding regions = 203 Number in noncoding regions = 46 Number of orfs with sites within 600 bp upstream = 54 Fraction of orfs with sites within 600 bp upstream = 0.00867331