AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i006_Pyrimidine_Biosynthesis_II_mjan_reg_300.orf -o006_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 RMJ14456 184 M_jannaschii_chromosome #2 RMJ00407 205 M_jannaschii_chromosome #3 RMJ01820 25 M_jannaschii_chromosome #4 RMJ02054 97 M_jannaschii_chromosome #5 RMJ04312 88 M_jannaschii_chromosome #6 RMJ00776 21 M_jannaschii_chromosome #7 RMJ00835 128 M_jannaschii_chromosome #8 RMJ09510 85 M_jannaschii_chromosome #9 RMJ09945 140 M_jannaschii_chromosome #10 RMJ06351 220 M_jannaschii_chromosome #11 RMJ07785 131 M_jannaschii_chromosome #12 RMJ15852 162 M_jannaschii_chromosome #13 RMJ09311 240 M_jannaschii_chromosome #14 RMJ09076 45 M_jannaschii_chromosome #15 RMJ08813 224 M_jannaschii_chromosome #16 RMJ02718 147 M_jannaschii_chromosome #17 RMJ10497 83 M_jannaschii_chromosome Motif number 1 TAGAATTAGCTTCTTATTATTATCAAAAAATC 1 47 1 TTTATTATTA 0.683569 -138 TATAATGTTTTCTTAATTTTTAATTTACCATT 1 99 1 TTAATTTTTA 0.817535 -86 TATTATGATATTAAATTTTTAATGGTAAATTA 1 119 0 TAATTTTTAA 0.905121 -66 AGATTCACCTCAATATTATAGAACTTTCGCA 2 10 1 TATATTATAG 0.664144 -196 CCATATGTTATTTATTTTATTATCCACAATAA 2 155 1 TATTTTATTA 0.891199 -51 TATAAAATCTTAAAATTTATTGTGGATAATAA 2 171 0 TAATTTATTG 0.936492 -35 CAAAGTTATTATTTATAAAATCTTAAAA 2 188 0 TTATTTATAA 0.922556 -18 AATTAAAAATTTTTGGAGGGATATA 3 4 1 TAAATTTTTG 0.795867 -22 GCTTCAAACTTTTTATTTTTTGTTGTAAATAT 4 11 1 TTATTTTTTG 0.930482 -87 TGTAAATATTTATAATTTATAGAACATCTGGT 4 34 1 TAATTTATAG 0.927144 -64 AGCTATTTGTTTAATTTTTTTATCTATATTGG 7 42 1 TATTTTTTTA 0.89575 -87 GTTTATTCAATACATTTTTTAATCTTTGGAAA 7 73 1 TATTTTTTAA 0.880986 -56 CATATTAAGCTATTTTTTATTACAT 7 114 1 TTTTTTATTA 0.87559 -15 TATATGTGATTGAAAATTATAAGGGTTGATAT 8 37 1 TAAATTATAA 0.764133 -49 TTATAAGGGTTGATATTTATAAGATGTCAAAA 8 53 1 TTATTTATAA 0.92235 -33 TTTTTTTCTCTTTTATTTATTATGTATAAATT 9 29 1 TTATTTATTA 0.932728 -112 TAGTTTATATTTATTTTTATAAATTTATACAT 9 50 0 TTTTTTATAA 0.857905 -91 GAGGTTATTATATTATTTTTTGCAAGTAGATT 9 105 1 TTATTTTTTG 0.930481 -36 AATATAAAATTTTTTGGGGATAACAA 10 5 1 TAATTTTTTG 0.939374 -216 TATTTTTATCTGATTATTTTAATTGGATATGT 10 123 1 TTTATTTTAA 0.66106 -98 GATATGTGTTTGGAATTTTTAGTTTGATATTA 10 148 1 TAATTTTTAG 0.930484 -73 TGATATTAGGTTATATTTTTAGTTTTTTGCTC 10 172 1 TTATTTTTAG 0.91976 -49 TTTTAATTTTTTATTTTTTATGA 12 2 1 TAATTTTTTA 0.944273 -161 ATTACAATTTTAGTATTTATAATTTGTCATTA 12 50 0 TTATTTATAA 0.922556 -113 TAATTTTTTGTAGATTTTATTACTACATTATT 12 79 0 TATTTTATTA 0.891198 -84 AGCACTAAAGTAGTTATTATAAGTTATTAATA 12 110 1 TTTATTATAA 0.649867 -53 ATTGGACTATTTTTATTTTTGTAAAATTTTT 13 10 1 TTTATTTTTG 0.675313 -231 AAATAAGTAATTTAATTTTTTAAAGTTATATA 13 48 0 TAATTTTTTA 0.944273 -193 ATTTTGGCTATGGAAATTATTGATAATAATAC 13 114 0 TAAATTATTG 0.819796 -127 TTTCTATCTTTACAATTTTTAATTTTGGCTAT 13 135 0 TAATTTTTAA 0.935727 -106 AGGAAATTTTTAATATTTTTAATATTT 13 224 1 TTATTTTTAA 0.892731 -17 AATTCATCCTTTTTATAAAAATTTACGT 14 7 1 TTTTTTATAA 0.8581 -39 TAAAAAACGGTTTAATTTTTTAAATTTCTATA 15 42 0 TAATTTTTTA 0.944273 -183 TCAAAATTAATAAAATTTATTGATAAAGATTT 15 160 0 TAATTTATTG 0.936492 -65 TGAAAAACACTATAATTTTTAGTTAAGATTAA 15 189 1 TAATTTTTAG 0.930481 -36 ATTATTCCAATTTTTTATTAGAGTTTT 16 131 0 TAATTTTTTA 0.944533 -17 AACTAAAAACTTAAATTTATTAAATACTT 17 8 0 TAATTTATTA 0.914844 -76 TTTAAGTTTTTAGTTTTTATTATTTTATTTTT 17 25 1 TTTTTTATTA 0.87559 -59 GTTTTTATTATTTTATTTTTAGTTTTTAATAG 17 37 1 TTATTTTTAG 0.920003 -47 * ********* Masking position 7 Map Score: 66.0756 Number of sites scoring better than the average of aligned sites = 1583 Number in coding regions = 1053 Number in noncoding regions = 530 Number of orfs with sites within 600 bp upstream = 411 Fraction of orfs with sites within 600 bp upstream = 0.0660135 Motif number 2 TGTGTATTTCTATAATGTTTTCTTAATTTTT 1 89 1 TATAATGTTT 0.882593 -96 GGTATTATGATATTAAATTTTTAATGGTAAA 1 122 0 TATTAAATTT 0.581982 -63 AGAATTAGTATTTAAAACTTTTGGTTGGGTG 1 156 1 TTTAAAATTT 0.871621 -29 ACCTCAATATTATAGAACTTTCGCAGGAATA 2 17 1 TATAGAATTT 0.891505 -189 AATGAATTAATATAGAACTTCGCAGTTTTTA 2 99 0 TATAGAATTC 0.468492 -107 AGTTATTATTTATAAAATCTTAAAATTTATT 2 182 0 TATAAAACTT 0.532066 -24 TTCTATAAATTATAAATATTTACAACAAAAA 4 27 0 TATAAATTTT 0.871391 -71 ATCTCACCATTATTAAGGTTTTAAAGATAAT 4 76 0 TATTAAGTTT 0.386597 -22 TAGCTATTTGTTTAATTTTTTTATCTATATT 7 41 1 TTTAATTTTT 0.641122 -88 TTTTTTTATCTATATTGGTTTATTCAATACA 7 56 1 TATATTGTTT 0.784343 -73 CAATCACATATATATACTTTTTTAAAGATAG 8 18 0 TATATACTTT 0.465432 -68 TTATTTATTATGTATAAATTTATAAAAATAA 9 41 1 TGTATAATTT 0.672918 -100 TAAAATAGTTTATATTTATTTTTATAAATTT 9 56 0 TATATTTTTT 0.724704 -85 GGGAGGTTATTATATTATTTTTTGCAAGTAG 9 103 1 TATATTATTT 0.889309 -38 AATATAAAATTTTTTGGGGATAA 10 3 1 TATAAAATTT 0.953872 -218 TTTTAATTTTTTATTTTTTATG 12 2 1 TTTAATTTTT 0.641122 -161 TTTTTATTTTTGTAAAATTTTTACCTTTTAT 13 20 1 TGTAAAATTT 0.809609 -221 TTTTACCTTTTATATAACTTTAAAAAATTAA 13 38 1 TATATAATTT 0.909129 -203 AAATAAGTAATTTAATTTTTTAAAGTTATAT 13 49 0 TTTAATTTTT 0.641122 -192 ATTACTTATTTATAATATTTTAGCTGGATAA 13 69 1 TATAATATTT 0.943201 -172 ATTTTAGCTGGATAATATTTTCACAATTTGT 13 85 1 GATAATATTT 0.721814 -156 TTGTCATGCTTATATAAATTTTCTATCTTTA 13 155 0 TATATAATTT 0.909129 -86 CGTAGAACTTTATAAAAATTCTTATGCTTGT 13 182 0 TATAAAATTC 0.689267 -59 TGAGGAAATTTTTAATATTTTTAATATTT 13 222 1 TTTAATATTT 0.845015 -19 TCATCCTTTTTATAAAAATTTACGTATATAT 14 14 1 TATAAAATTT 0.953872 -32 TATGGATTTCTATAGAAATTTAAAAAATTAA 15 32 1 TATAGAATTT 0.891505 -193 TAAAAAACGGTTTAATTTTTTAAATTTCTAT 15 43 0 TTTAATTTTT 0.641122 -182 TATGCAGTTATATAGTGTTTTTCAAACTTCT 15 85 1 TATAGTGTTT 0.749195 -140 AAAATTTATTGATAAAGATTTGAACGCCTTC 15 150 0 GATAAAGTTT 0.593937 -75 ATCAATAAATTTTATTAATTTTGAAAAACAC 15 168 1 TTTATTATTT 0.725113 -57 AACTAAAAATTATAGTGTTTTTCAAAATTAA 15 182 0 TATAGTGTTT 0.749195 -43 TTTATATAATTTTGTGGGATGTC 16 3 1 TATATAATTT 0.909129 -145 TCAGAGATGAGGTAAATTTTTCTCATAGACA 16 30 0 GGTAAATTTT 0.178784 -118 TGCAGTATTTTATAATATTTGCATGGTTAAA 16 68 0 TATAATATTG 0.491854 -80 GTTTTTAGTTTTTATTATTTTATTTTTAGTT 17 30 1 TTTATTATTT 0.725113 -54 TCACCTGAATTATAAAATTTTCTATTAAAAA 17 59 0 TATAAAATTT 0.953872 -25 ******* *** Masking position 3 Map Score: 39.5279 Number of sites scoring better than the average of aligned sites = 1431 Number in coding regions = 942 Number in noncoding regions = 489 Number of orfs with sites within 600 bp upstream = 393 Fraction of orfs with sites within 600 bp upstream = 0.0631224 Motif number 3 TTTTTAATATAAAAACTGCGAAGTTCTATATTA 2 90 1 AAAATGGAAG 0.954408 -116 GTTATTTAACAAAATTAATGAATGAATTAATAT 2 117 0 AAAAAAGAAT 0.407007 -89 AATTAAAAATTTTTGGAGGGATATA 3 6 1 AAAATTGGAG 0.915664 -20 AACAAAAAATAAAAAGTTTGAAGC 4 2 0 AAAATTGAAG 0.8444 -96 TTTATTATAAAAGGTGAGAGG 6 9 1 AAAATGGAGG 0.955972 -13 ATGTGATTGAAAATTATAAGGGTTGATATTTAT 8 40 1 AAATTAGGGT 0.587514 -46 ATAAGATGTCAAAAGGTGGGAGTAG 8 71 1 AAAATGGAGT 0.842705 -15 TAAAAGAGAAAAAAAGAATGGGGAAGTTAGTAT 9 11 0 AAAAAAGGGG 0.852345 -130 AGTTAAGTTTAAATTTTGGGAGGTTATTATATT 9 86 1 AAATTGGAGG 0.917559 -55 AATATAAAATTTTTTGGGGATAACAATGT 10 7 1 AAATTTGGGG 0.852345 -214 ACAGCAGATAAAAAATTGGGGAGCAAAAAACTA 10 191 0 AAAATGGGAG 0.97668 -30 AAGGTTCATCAAAATGAGTGGGGCTTCACTTCG 11 61 1 AAAAAGGGGG 0.957022 -71 TTGTAGCTATAAATAAAGTGGAGCTGAACGAAG 11 89 0 AAATAGGGAG 0.916698 -43 TTATAGCTACAAAAGTAATGGAGTGATTTTTT 11 110 1 AAAAAAGGAG 0.847685 -22 AGCCAAAATTAAAAATTGTAAAGATAGAAAATT 13 137 1 AAAATGAAAG 0.494377 -104 AGTTAAGATTAAATGTAGGGGATAAC 15 209 1 AAATAGGGAT 0.730839 -16 GACCTTTTTCAAATGTTGAGGAGATGAATAAAA 16 102 1 AAATTGGGAG 0.955493 -46 AAACTCTAATAAAAAATTGGAATAAT 16 132 1 AAAATTGAAT 0.572467 -16 **** ** **** Masking position 3 Map Score: 20.2121 Number of sites scoring better than the average of aligned sites = 725 Number in coding regions = 621 Number in noncoding regions = 104 Number of orfs with sites within 600 bp upstream = 121 Fraction of orfs with sites within 600 bp upstream = 0.0194346 Motif number 4 CATTAAAAATTTAATATCATAATACCATAAG 1 127 1 TTAATACATA 0.929806 -58 TTTAGGCATCTAAATACCTTTTTAATATAAA 2 72 1 TAAATACTTT 0.916578 -134 TTAATTTTGTTAAATAACATAAACCATATGT 2 132 1 TAAATACATA 0.951257 -74 GATAATAAAATAAATAACATATGGTTTATGT 2 148 0 TAAATACATA 0.951257 -58 GATTTTATAAATAATAACTTTG 2 194 1 ATAATACTTT 0.563811 -12 GTTGTTATTGTTATTATCTTTAAAACCTTAA 4 64 1 TTATTACTTT 0.666958 -34 CAAATAGCTATTATTAACATATACCTTTTAT 7 20 0 TTATTACATA 0.780785 -109 ATGTAATAAAAAATAGCTTAATATGTAATC 7 109 0 AAAATACTTA 0.833439 -20 AACAGTGCTTTAAATTCCTTAAACATTGTTA 10 31 0 TAAATTCTTA 0.91642 -190 AAAATCATGATAAATTTCATAAAAAATAAAA 12 19 0 TAAATTCATA 0.881623 -144 CACCGTAATATTAATAACTTATAATAACTAC 12 119 0 TTAATACTTA 0.951257 -44 TTTAAAAAATTAAATTACTTATTTATAATAT 13 56 1 TAAATTCTTA 0.908418 -185 TTATTATCAATAATTTCCATAGCCAAAATTA 13 117 1 TAATTTCATA 0.666956 -124 CCGTTTTTTATAAATATCTTTTATGCAGTTA 15 64 1 TAAATACTTT 0.916578 -161 AAGGAGTTCATTAATACCTTAGTTATTTAAG 15 114 0 TTAATACTTA 0.951323 -111 ****** **** Masking position 3 Map Score: 16.7573 Number of sites scoring better than the average of aligned sites = 332 Number in coding regions = 245 Number in noncoding regions = 87 Number of orfs with sites within 600 bp upstream = 90 Fraction of orfs with sites within 600 bp upstream = 0.0144555 Motif number 5 TTAGTATGAATTTTGATAGTATTAGAATTAG 1 25 1 TTTTATAGTA 0.505645 -160 GATTACGATTTTTTGATAATAATAAGAAGCT 1 54 0 TTTTATAATA 0.917471 -131 GTTTTCTTAATTTTTAATTTACCATTAAAAA 1 105 1 TTTTAATTTA 0.267488 -80 TCTAAATACCTTTTTAATATAAAAACTGCGA 2 80 1 TTTTAATATA 0.770707 -126 AATTTTAAGATTTTATAAATAATAACTTTG 2 186 1 TTTTTAAATA 0.522067 -20 ATTATTAAGGTTTTAAAGATAATAACAATAA 4 68 0 TTTTAAGATA 0.911 -30 AAAAGGTATATGTTAATAATAGCTATTTGTT 7 22 1 TGTTATAATA 0.472475 -107 ATTAAGCTATTTTTTATTACAT 7 117 1 TTTTATTACA 0.600289 -12 ATATATACTTTTTTAAAGATAGCAAAAAA 8 9 0 TTTTAAGATA 0.911 -77 ATGTATAAATTTATAAAAATAAATATAAACT 9 50 1 TTATAAAATA 0.487835 -91 AAGATTTTGATTTTGAAAACATTGCCAACTA 10 94 1 TTTTAAAACA 0.905664 -127 AATTTTTTATTTTTTATGAAATTTATCATGA 12 15 1 TTTTATGAAA 0.510319 -148 TTATCATGATTTTTAATGACAAATTATAAAT 12 37 1 TTTTATGACA 0.820795 -126 TAAAATGTGATTTTCATAACACCACCGTAAT 12 141 0 TTTTATAACA 0.873827 -22 TAATTTAATTTTTTAAAGTTATATAAAAGGT 13 42 0 TTTTAAGTTA 0.527005 -199 TTAAATTACTTATTTATAATATTTTAGCTGG 13 65 1 TATTATAATA 0.544766 -176 ATAATACAAATTGTGAAAATATTATCCAGCT 13 90 0 TTGTAAAATA 0.723193 -151 CTATGGAAATTATTGATAATAATACAAATTG 13 108 0 TATTATAATA 0.642967 -133 AAATTAAAAATTGTAAAGATAGAAAATTTAT 13 142 1 TTGTAAGATA 0.632826 -99 AAATATTAAAAATATTAAAAATTT 13 227 0 TATTAAAATA 0.62396 -14 TATACGTAAATTTTTATAAAAAGGATGAATT 14 11 0 TTTTATAAAA 0.526268 -35 TTAAACCGTTTTTTATAAATATCTTTTATGC 15 59 1 TTTTTAAATA 0.522067 -166 ATTTAAGAAGTTTGAAAAACACTATATAACT 15 90 0 TTTGAAAACA 0.606932 -135 TTTTATTAATTTTGAAAAACACTATAATTTT 15 177 1 TTTGAAAACA 0.606932 -48 **** ****** Masking position 1 Map Score: 14.0498 Number of sites scoring better than the average of aligned sites = 1270 Number in coding regions = 966 Number in noncoding regions = 304 Number of orfs with sites within 600 bp upstream = 254 Fraction of orfs with sites within 600 bp upstream = 0.0407967 Motif number 6 TATTTATTTTATTATCCACAATAAATTTTAAGA 2 163 1 ATTATCCACA 0.734458 -43 TATATCCCTCCAAAAATTTTTAA 3 13 0 TATATCCCTA 0.664055 -13 AATCTCACCATTATTAAGGTTTT 4 85 0 AATCTCACCA 0.894791 -13 GAAATCACCTAAATATGGATATT 5 76 0 GAAATCACCA 0.78181 -13 ATAATATCCCCCTTAATCTACTTGC 9 126 0 AATATCCCCA 0.97888 -15 CTTAAACATTGTTATCCCCAAAAAATTTTATAT 10 12 0 GTTATCCCCA 0.976053 -209 TAATGCATAAGTTCTCCCTTCCATAAAACTCCC 11 12 0 GTTCTCCCTA 0.751837 -120 AAATATCACCTATATATACGTAAA 14 32 0 AATATCACCA 0.951876 -14 GTTATCCCCTACATTTAATCTTA 15 212 0 GTTATCCCCA 0.976053 -13 AATATCACCTGAATTATAAAATT 17 71 0 AATATCACCA 0.951876 -13 ********* * Masking position 5 Map Score: 4.66264 Number of sites scoring better than the average of aligned sites = 135 Number in coding regions = 89 Number in noncoding regions = 46 Number of orfs with sites within 600 bp upstream = 57 Fraction of orfs with sites within 600 bp upstream = 0.00915516 Motif number 7 TGTTATTGTTATTATCTTTAAAACCTTAAT 4 66 1 ATTATCTTTA 0.740197 -32 TAAACAAATAGCTATTATTAACATATACCT 7 25 0 GCTATTATTA 0.71642 -104 TACATATTAAGCTATTTTTTATTACAT 7 112 1 GCTATTTTTT 0.71642 -17 TTTTTTGCTATCTTTAAAAAAGTATA 8 7 1 GCTATCTTTA 0.924206 -79 ATAGTTTATATTTATTTTTATAAATTTATA 9 53 0 TTTATTTTTA 0.862613 -88 AACATTGCCAACTATTTTTATCTGATTATT 10 111 1 ACTATTTTTA 0.947539 -110 GATATTAGGTTATATTTTTAGTTTTTTGCT 10 173 1 TATATTTTTA 0.814188 -48 ATTGGACTATTTTTATTTTTGTAAA 13 6 1 ACTATTTTTA 0.947539 -235 ATATAAATTTTCTATCTTTACAATTTTTAA 13 145 0 TCTATCTTTA 0.925597 -96 GGAAATTTTTAATATTTTTAATATTT 13 225 1 AATATTTTTA 0.780539 -16 TTAACTTTTGTCTATTTTTATGGATTTCTA 15 14 1 TCTATTTTTA 0.956994 -211 TTTTTATTATTTTATTTTTAGTTTTTAATA 17 38 1 TTTATTTTTA 0.862613 -46 ********** Masking position 4 Map Score: 12.0677 Number of sites scoring better than the average of aligned sites = 246 Number in coding regions = 182 Number in noncoding regions = 64 Number of orfs with sites within 600 bp upstream = 61 Fraction of orfs with sites within 600 bp upstream = 0.00979762 Motif number 8 ATACATTCACCCAACCAAAAGTTTTAAATA 1 164 0 CCAACCAAAA 0.900838 -21 TATATCCCTCCAAAAATTTTTAATT 3 11 0 CCCTCCAAAA 0.971445 -15 AATATAATAACCTCCCAAAATTTAAACTTA 9 89 0 CCTCCCAAAA 0.971445 -52 ATAAGTTCTCCCTTCCATAAAACTCCCC 11 9 0 CCTTCCATAA 0.946317 -123 GATTTGAACGCCTTCCAAAGAAGGAGTTCA 15 135 0 CCTTCCAAAG 0.963064 -90 ********** Masking position 7 Map Score: 0.811468 Number of sites scoring better than the average of aligned sites = 64 Number in coding regions = 44 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 9 TTAAAAATTAAGAAAACATTATAGAAATAC 1 92 0 AGAAAACATT 0.697199 -93 AATTAAAAATTTTTGGAGGGATA 3 4 1 TAAAAATTTT 0.717375 -22 TATTTTTTGTTGTAAATATTTATAATTTAT 4 24 1 TGTAAATATT 0.747263 -74 TATATGTGATTGAAAATTATAAGGGTTGAT 8 37 1 TGAAAATTAT 0.585479 -49 TGTTATCCCCAAAAAATTTTATATT 10 6 0 AAAAAATTTT 0.665395 -215 CAATCTATGTAGAAGATTTTGATTTTGAAA 10 82 1 AGAAGATTTT 0.763932 -139 ATTTTGATTTTGAAAACATTGCCAACTATT 10 97 1 TGAAAACATT 0.745707 -124 GCTAATTTTTTGTAGATTTTATTACTACAT 12 83 0 TGTAGATTTT 0.546747 -80 TTTTTATTTTTGTAAAATTTTTACCTTTTA 13 20 1 TGTAAAATTT 0.47549 -221 ATACAAATTGTGAAAATATTATCCAGCTAA 13 88 0 TGAAAATATT 0.909932 -153 TTGTAAAGATAGAAAATTTATATAAGCATG 13 152 1 AGAAAATTTA 0.525831 -89 TGGGACTATGAGGAAATTTTTAATATTTTT 13 214 1 AGGAAATTTT 0.689921 -27 AAATATTAAAAATATTAAAAATTTCC 13 225 0 TAAAAATATT 0.608424 -16 GATGTCTATGAGAAAAATTTACCTCATCTC 16 28 1 AGAAAAATTT 0.708637 -120 ATTTTAACCATGCAAATATTATAAAATACT 16 66 1 TGCAAATATT 0.634279 -82 AGTTTTTAATAGAAAATTTTATAATTCAGG 17 57 1 AGAAAATTTT 0.928356 -27 ********** Masking position 6 Map Score: 5.64653 Number of sites scoring better than the average of aligned sites = 897 Number in coding regions = 734 Number in noncoding regions = 163 Number of orfs with sites within 600 bp upstream = 152 Fraction of orfs with sites within 600 bp upstream = 0.0244137 Motif number 10 ********** No masking Map Score: -2.59896e-14 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 Motif number 11 ********** No masking Map Score: -2.59896e-14 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 Motif number 12 ********** No masking Map Score: -2.59896e-14 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