AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i156_HYP_operon_mjan_reg_300.orf -o156_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: RMJ00065 39 M_jannaschii_chromosome RMJ03270 23 M_jannaschii_chromosome Input sequences: #1 RMJ06415 136 M_jannaschii_chromosome #2 RMJ09179 92 M_jannaschii_chromosome #3 RMJ05733 98 M_jannaschii_chromosome #4 RMJ01661 64 M_jannaschii_chromosome #5 RMJ06098 126 M_jannaschii_chromosome #6 RMJ06698 114 M_jannaschii_chromosome #7 RMJ01449 116 M_jannaschii_chromosome #8 RMJ03306 46 M_jannaschii_chromosome #9 RMJ02791 283 M_jannaschii_chromosome #10 RMJ03956 300 M_jannaschii_chromosome #11 RMJ03929 123 M_jannaschii_chromosome #12 RMJ14233 69 M_jannaschii_chromosome #13 RMJ00153 62 M_jannaschii_chromosome #14 RMJ00927 156 M_jannaschii_chromosome #15 RMJ06922 26 M_jannaschii_chromosome #16 RMJ13401 29 M_jannaschii_chromosome #17 RMJ08184 47 M_jannaschii_chromosome #18 RMJ08818 185 M_jannaschii_chromosome #19 RMJ07253 72 M_jannaschii_chromosome Motif number 1 TAAATACTTAAAAAGCAATAAAAAACATTTTTA 1 41 1 AAAAAATAAA 0.907837 -96 ATAATTTCATAAACAGAATTTTATATTAAAAGA 1 90 1 AAACAATTTA 0.768265 -47 TTTATCACCAAAAATAAATTACAGTCTTTTAAT 1 114 0 AAAAAATTAA 0.858098 -23 ATAAATCTTCAAACTCTTAAACAATACGGCGAT 2 66 1 AAACTTAAAA 0.77184 -27 ATTTTGCATTAAAAAGAAATTTATCATTTAAGG 3 69 1 AAAAAAATTA 0.689006 -30 CAAAATAATTTTTATTTTATATTA 4 2 1 AAAAATTTTA 0.882329 -63 CCACCTTATTAAACAAATTAAAAAATTATGGGA 4 37 0 AAACATTAAA 0.90228 -28 ACTTTTAATGAAACTTTTTTAAAATCCGATGAA 5 36 1 AAACTTTTAA 0.828505 -91 AAATCCGATGAAAGGTTTAAATAGATGATGAAA 5 57 1 AAAGTTAAAA 0.656412 -70 TTGTTAGATTAAAGATATATAGAAATAATTTCA 5 85 0 AAAGATATAA 0.579142 -42 TACCTTATAAAAAAGAATTATAAAAT 6 4 0 AAAAATTATA 0.924436 -111 AGGTTTAATCAAAACTATAAAAATCTTAATAAT 7 12 0 AAAAATAAAA 0.860539 -105 AGTTTTGATTAAACCTTTTTAAAAAGTTGGATT 7 29 1 AAACTTTTAA 0.828505 -88 CATATAAAAACCATATAAAATAAAAATTAG 8 27 0 AAACTATAAA 0.843758 -20 CGGGCTATGAAAACTCTTTAAGAGTTTTCATGT 9 26 0 AAACTTTAAA 0.887254 -258 TCAAAGTTCCAAACTGAATATTATAAAGCTGTG 9 147 0 AAACAATATA 0.843758 -137 CTATGGAAAGAAAAGGTTATTTAGGTGAGTTGT 9 252 1 AAAATTATTA 0.733449 -32 TATTCAATAGAAAAGATTTATTACTGCGTAAGA 10 177 1 AAAATTTATA 0.912486 -124 ATAGGATAACAAAACTATTAATATCAACAAACA 10 240 1 AAAAATTAAA 0.934871 -61 AACACAAAATAAAAATATTAAAAATAAAAAAAA 10 269 1 AAAAATTAAA 0.934871 -32 ATTTTAAAACAAAATTAAAAAAATGAAGTAAAA 11 18 0 AAAAAAAAAA 0.808957 -106 ATTTTGTTTTAAAATTTTATTGAAAGATTGTAA 11 36 1 AAAATTATTA 0.733449 -88 GAAAGATTGTAAAAAATATATCAAAATATTTAA 11 57 1 AAAATATATA 0.87738 -67 AAATAAAATAAATAAAATAAAATTATT 13 5 1 AAAAAATAAA 0.907837 -58 CCCAACAATAAAAGTTTATTTGAAAATAGAATA 13 37 0 AAAGTATTTA 0.614751 -26 AATTAATAAAAAAAGCAAAAACAAAAAATCCAT 14 89 0 AAAAAAAAAA 0.808957 -68 TTAAGATTTAAAAAATAATATCATTACTCAATG 14 122 0 AAAAAATATA 0.893565 -35 ATAAGCAAAAACTTTATAAGGGGCTAATA 16 7 1 AAAATTTATA 0.912487 -23 TGCCACCACGAAAAGTATTATTAATTAATAATA 17 15 1 AAAAATTATA 0.924436 -33 TAAAAGGAATTATTATTAATTAATA 17 33 0 AAAGATTATA 0.81632 -15 AAACAAATTCAAACATAATTAAACGTAAAAAAT 18 24 0 AAACAATTAA 0.795494 -162 ATTTTATGATAAAGTTTATATAAAACAAATTCA 18 46 0 AAAGTATATA 0.72217 -140 TATGTATATTAAAAATTTTAATAATATCAATTA 18 83 1 AAAATTTAAA 0.924436 -103 TGTAGTTTTGAAAATCTAATTGATATTATTAAA 18 99 0 AAAATAATTA 0.653773 -87 ACTACATATTAAAAAATTAAATAATAATCAAAT 18 126 1 AAAATTAAAA 0.840231 -60 ATATTTTATAAAAAGTATTTTAATGTCTTTGGT 19 17 0 AAAAATTTTA 0.882496 -56 AATAATAGTTAAAATATTTTATAAAAAGTATTT 19 30 0 AAAATTTTAA 0.882495 -43 **** ***** * Masking position 3 Map Score: 48.2096 Number of sites scoring better than the average of aligned sites = 2527 Number in coding regions = 1726 Number in noncoding regions = 801 Number of orfs with sites within 600 bp upstream = 516 Fraction of orfs with sites within 600 bp upstream = 0.0828783 Motif number 2 GCAATAAAAAACATTTTTATTAATACTAAAAA 1 55 1 ACTTTTTTTA 0.691353 -82 TCATAAACAGAATTTTATATTAAAAGACTGTA 1 96 1 AATTTATTTA 0.897833 -41 TCTCACCATGAAATTTAAGAATTAGTAAGACC 2 13 1 AATTTAAAAT 0.803417 -80 AGTAAGACCAAATTTTAAGATAAGTTATAAAT 2 36 1 AATTTAAATA 0.919693 -57 AAGAGTTTGAAGATTTATTTATAACTTATCTT 2 52 0 AGTTTATTAT 0.555032 -41 ATTTATCACCAAATTTTTTATATGATAATTTT 3 34 1 AATTTTTATA 0.910093 -65 TTTATATGATAATTTTAAAATTTTGCATTAAA 3 50 1 AATTTAAATT 0.490937 -49 CATTAAAAAGAAATTTATCATTTAAGGTGATA 3 75 1 AATTTATATT 0.898084 -24 CAAAATAATTTTTATTTTATATTATTTC 4 7 1 AATTTTATTT 0.694857 -58 TATTTCCCATAATTTTTTAATTTGTTTAATAA 4 33 1 AATTTTTATT 0.848794 -32 CTTTTAATGAAACTTTTTTAAAATCCGATGAA 5 37 1 AATTTTTAAA 0.865828 -90 ACACCTTTTGAGATTTATGATTATTTAGCGAG 6 89 0 AGTTTATATT 0.778447 -26 TCCTTAATCCAACTTTTTAAAAAGGTTTAATC 7 35 0 AATTTTTAAA 0.865828 -82 TCTTATTTCTAATTTTTATTTTATATGGTTTT 8 19 1 AATTTTATTT 0.694857 -28 AACTTTAAGAAAGTTACATGAA 9 1 1 AATTTAAAAA 0.880359 -283 ATATACCCCCAAATTTAATTTACACCTCCGAG 9 103 0 AATTTAATTA 0.865066 -181 GAACTTTCACAGCTTTATAATATTCAGTTTGG 9 140 1 AGTTTATATA 0.863195 -144 AAGAAATTTAAATAACACTAAATTT 10 4 1 AATTTAATAA 0.803417 -297 CAAAAATCTAAGGTTTATTAAATAGGACTTAA 10 100 1 AGTTTATAAA 0.800892 -201 TTTATCACCTTTTTTTTATTTTTAATAT 10 283 0 ACTTTTTTTA 0.691353 -18 TTCATAACAAACTTTTATCAATGATTATGGAG 12 40 1 ACTTTATAAT 0.691353 -30 ATAGAATAATAATTTTATTTTATTTATTTTAT 13 13 0 AATTTATTTA 0.898393 -50 TTTTAGGTGTAAGTTTTAAATATGACTAACAA 14 36 1 AATTTTAATA 0.880351 -121 CACCTTTTTAAGATTTAAAAAATAATATCATT 14 130 0 AGTTTAAAAA 0.74515 -27 AAAATTTTTTACGTTTAATTATGTTTGAATTT 18 21 1 ACTTTAATAT 0.475543 -165 TTTTATGATAAAGTTTATATAAAACAAATTCA 18 46 0 AATTTATTAA 0.849329 -140 ATACATATTAAATTTTATGATAAAGTTTATAT 18 58 0 AATTTATATA 0.940748 -128 GATATTATTAAAATTTTTAATATACATATTAA 18 79 0 AATTTTTATA 0.91009 -107 ATTATTATTTAATTTTTTAATATGTAGTTTTG 18 122 0 AATTTTTATA 0.910087 -64 AATAATAATCAAATTTAAAATTAAATGGAGAT 18 145 1 AATTTAAATT 0.509975 -41 ACATTAAAATACTTTTTATAAAATATTTTAAC 19 24 1 ACTTTTAAAA 0.65084 -49 ** ***** *** Masking position 6 Map Score: 35.239 Number of sites scoring better than the average of aligned sites = 2225 Number in coding regions = 1561 Number in noncoding regions = 664 Number of orfs with sites within 600 bp upstream = 458 Fraction of orfs with sites within 600 bp upstream = 0.0735625 Motif number 3 GTAATTTATTTTTGGTGATAAA 1 125 1 TTTGGTGATA 0.989799 -12 TATCTTAAAATTTGGTCTTACTAATTCTTA 2 28 0 TTTGGTCTTA 0.785883 -65 ATATAAAAAATTTGGTGATAAATTTATAGG 3 27 0 TTTGGTGATA 0.989799 -72 ATTTATCATTTAAGGTGATAGG 3 87 1 TAAGGTGATA 0.853561 -12 CCTCATATTGTGATATATCCTATTA 5 6 1 TATTGTGATA 0.925741 -121 GACAATAAAATTTAGTGTTATTTAAATTTC 10 13 0 TTTAGTGTTA 0.771901 -288 TTATTTTGTGTTTGTTGATATTAATAGTTT 10 251 0 TTTGTTGATA 0.937329 -50 AATACTTAAATATTTTGATATATTTTTTAC 11 65 0 TATTTTGATA 0.657703 -59 ACATATTAAATTTTATGATAAAGTTTATAT 18 58 0 TTTTATGATA 0.677513 -128 GATATTATTTTTTGGTGTTAAA 18 174 1 TTTGGTGTTA 0.971845 -12 TTTTAATGTCTTTGGTGATAAC 19 3 0 TTTGGTGATA 0.989799 -70 TTATAAGATGTATGGTGATTAT 19 61 1 TATGGTGATT 0.853638 -12 ********** Masking position 6 Map Score: 14.3083 Number of sites scoring better than the average of aligned sites = 368 Number in coding regions = 260 Number in noncoding regions = 108 Number of orfs with sites within 600 bp upstream = 138 Fraction of orfs with sites within 600 bp upstream = 0.0221651 Motif number 4 TAGGTGCAGTTTATATTAATTAGATTTAGT 1 10 1 TTTTATTAAT 0.754464 -127 TTAATAAAAATGTTTTTTATTGCTTTTTAAG 1 47 0 TGTTTTTATT 0.471435 -90 TTATCTGTTTTTAGTATTAATAAAAATGTTT 1 63 0 TTATATTAAT 0.874506 -74 AATGATAAATTTCTTTTTAATGCAAAATTTT 3 66 0 TTCTTTTAAT 0.514115 -33 TAATATAAAATAAAAATTATTTTG 4 4 0 TAAAATTATT 0.509894 -61 TAATTTTTATTTTATATTATTTCCCATAATT 4 16 1 TTTTATTATT 0.834792 -49 TATATCCTATTAACTTTTAATGAAACTTTTT 5 24 1 TAATTTTAAT 0.780175 -103 TTAAAATGTCTTCATTTTAATCTCGCTAAAT 6 68 1 TTCTTTTAAT 0.514115 -47 CTTTTGAGATTTATGATTATTTAGCGAGATT 6 86 0 TTAGATTATT 0.510784 -29 TTCTTATTTCTAATTTTTATTTTATATGGTT 8 18 1 TAATTTTATT 0.853723 -29 TAAATAACACTAAATTTTATTGTCAATCAAC 10 19 1 TAATTTTATT 0.853723 -282 TTTGTGTTTGTTGATATTAATAGTTTTGTTA 10 246 0 TTGTATTAAT 0.635038 -55 CACCTTTTTTTTATTTTTAATATTTTTATTT 10 275 0 TTATTTTAAT 0.809071 -26 TCTCACTCTTTAACTTTTATTGAATACTTAA 11 86 0 TAATTTTATT 0.853723 -38 TTTTATTTTATTTATTTTATTT 13 2 0 TTTTTTTATT 0.754463 -61 AAATAAAATAAAATTATTATTCTATTTTCAA 13 20 1 AAATATTATT 0.498433 -43 CTCTATTTACTATCTATTATTTTTAGGTGTA 14 16 1 TATTATTATT 0.808872 -141 TAAATATGACTAACAATTATTTTAGCATAAC 14 52 1 TAAAATTATT 0.509897 -105 GTTTTTGCTTTTTTTATTAATTCATTGAGTA 14 100 1 TTTTATTAAT 0.754467 -57 GCCACCACGAAAAGTATTATTAATTAATAAT 17 16 1 AAATATTATT 0.498433 -32 TAAAAGGAATTATTATTAATTAATAATACT 17 28 0 TTATATTAAT 0.874506 -20 GAAAATCTAATTGATATTATTAAAATTTTTA 18 92 0 TTGTATTATT 0.741026 -94 ATTTTAAATTTGATTATTATTTAATTTTTTA 18 135 0 TGATATTATT 0.768855 -51 TAAAATATTTTAACTATTATTATAAGATGTA 19 42 1 TAATATTATT 0.90564 -31 *** ******* Masking position 7 Map Score: 20.709 Number of sites scoring better than the average of aligned sites = 1007 Number in coding regions = 629 Number in noncoding regions = 378 Number of orfs with sites within 600 bp upstream = 334 Fraction of orfs with sites within 600 bp upstream = 0.053646 Motif number 5 TGCAGTTTATATTAATTAGATTTAGTTAAATACTTA 1 15 1 ATATTTTTAT 0.609573 -122 TGTTTATGAAATTATCTGTTTTTAGTATTAATAAAA 1 69 0 ATACTTTTAT 0.880415 -68 CCAAAAATAAATTACAGTCTTTTAATATAAAATTCT 1 104 0 ATAAGTTTAT 0.859591 -33 TTTGGTGATAAATTTATAGGTTTAATGTTGTCGGTG 3 11 0 ATTATTTTAT 0.962529 -88 TCCCATAATTTTTTAATTTGTTTAATAAGGTGGCTT 4 37 1 TTTATTTTAT 0.886213 -28 TGAAATTATTTCTATATATCTTTAATCTAACAACTC 5 85 1 TTAATTTTAT 0.773296 -42 ATTTATCCCAATTTTAGCCCTTTAATAACAATTTCC 7 64 0 ATTAGTTTAT 0.917931 -53 ATTAAATAGGACTTAAGCACTTTATATTGGACATTT 10 116 1 ATTAGTTTAA 0.469725 -185 AAAATTTCAAAATTGAGTGTTTTAATAGGTCTTACG 10 203 0 ATTAGTTTAT 0.925257 -98 TTTTTTTTATTTTTAATATTTTTATTTTGTGTTTGT 10 266 0 TTTATTTTAT 0.886213 -35 TTTGAATTTTACTTCATTTTTTTAATTTTGTTTTAA 11 12 1 ATTATTTTAT 0.9628 -112 ATAGTCTCCAACTATATATGTTTAAT 12 1 0 ATAATTTTAT 0.910662 -69 TAATAATTTTATTTTATTTATTTTATTT 13 3 0 ATTATTTTTT 0.66235 -60 ACTTCCTCTATTTACTATCTATTATT 14 1 1 ATTCTTTTAT 0.935032 -156 GATTTTTTGTTTTTGCTTTTTTTATTAATTCATTGA 14 92 1 TTTCTTTTAT 0.812709 -65 CTCCACCAAAATTTTTTACGTTTAATTATGTTTGAA 18 14 1 ATTTTTTTAT 0.829586 -172 TTATCATAAAATTTAATATGTATATTAAAAATTTTA 18 67 1 ATTATTATAT 0.659349 -119 ACCAAAAAATAATATCTCCATTTAATTTTAAATTTG 18 154 0 ATACTTTTAT 0.86626 -32 * ** ** **** * Masking position 11 Map Score: 20.5094 Number of sites scoring better than the average of aligned sites = 590 Number in coding regions = 428 Number in noncoding regions = 162 Number of orfs with sites within 600 bp upstream = 136 Fraction of orfs with sites within 600 bp upstream = 0.0218439 Motif number 6 CTAAAAACAGATAATTTCATAAACAGAATTTT 1 80 1 ATAATTCATA 0.967906 -57 ATTATTTCCCATAATTTTTTAATTTGTTTAAT 4 31 1 ATAATTTTTA 0.583517 -34 ATATATAGAAATAATTTCATCATCTATTTAAA 5 72 0 ATAATTCATA 0.967906 -55 ATAATACATTATATTTTCTCAACATTAAAATG 6 44 1 ATATTTCTCA 0.700589 -71 TCTCAACATTAAAATGTCTTCATTTTAATCTC 6 60 1 AAAATTCTTA 0.693189 -55 TCTACTTTATATACTCTCACTATATATATGTG 10 49 0 ATACTTCACA 0.854692 -252 TGTGATTTTCATAATCTCACTCTTTAACTTTT 11 99 0 ATAATTCACC 0.841557 -25 GTTGGAGACTATAATTTCATAACAAACTTTTA 12 25 1 ATAATTCATA 0.967906 -45 TTATTTTAGCATAACATCATTATGGATTTTTT 14 68 1 ATAACTCATA 0.850287 -89 GATTTAAAAAATAATATCATTACTCAATGAAT 14 119 0 ATAATTCATA 0.967906 -38 ACACCAAAAAATAATATCTCCATTTAATTTTA 18 160 0 ATAATTCTCA 0.943276 -26 ***** **** * Masking position 3 Map Score: 8.10266 Number of sites scoring better than the average of aligned sites = 206 Number in coding regions = 184 Number in noncoding regions = 22 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 7 CCTATCACCTTAAATGATAAATTTC 3 84 0 CACCTTAAAT 0.675628 -15 AAAAGCCACCTTATTAAACAAATTAA 4 49 0 CACCTTATTA 0.969479 -16 ATAATTTCATCATCTATTTAAACCTTTCAT 5 64 0 CATCTATTTA 0.475175 -63 TATCAAAACTTACCTTATAAAAAAGAATTA 6 17 0 TACCTTATAA 0.676607 -98 ATCAACACCTTTTGAGATTTATGAT 6 100 0 CACCTTTTGA 0.861983 -15 TTCCTTAATCCAACTTTTTAAAAAGGTTTA 7 38 0 CAACTTTTTA 0.61528 -79 TATAACAACTCACCTAAATAACCTTTTCTT 9 259 0 CACCTAAATA 0.76603 -25 CACCTTATAACAACTCACCT 9 274 0 CACCTTATAA 0.969479 -10 TTTATCACCTTTTTTTTATTTTTAA 10 286 0 CACCTTTTTT 0.80566 -15 TTAAAACTTACACCTAAAAATAATAGATAG 14 25 0 CACCTAAAAA 0.76603 -132 AGTTTCACCTTTTTAAGATTTAAAA 14 142 0 CACCTTTTTA 0.953046 -15 TATTAGCCCCTTATAAAGTTTTTGCT 16 14 0 CCCCTTATAA 0.833612 -16 AATCACCATACATCTTATAATAATAGTTAA 19 51 0 CATCTTATAA 0.815274 -22 ********** Masking position 5 Map Score: 10.2128 Number of sites scoring better than the average of aligned sites = 181 Number in coding regions = 118 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 78 Fraction of orfs with sites within 600 bp upstream = 0.0125281 Motif number 8 TATATCCACAGAACTTTCACAGCTTTATAA 9 130 1 GAACTTTCAC 0.989565 -154 ATTCAGTTTGGAACTTTGACGCCTTTTAGG 9 161 1 GAACTTTGAC 0.972509 -123 TATTGGCACAGAACTTTCACAGGAAAGTAT 9 208 0 GAACTTTCAC 0.989565 -76 GTCATATTTAAAACTTACACCTAAAAATAA 14 32 0 AAACTTACAC 0.904274 -125 ********** Masking position 5 Map Score: 1.64833 Number of sites scoring better than the average of aligned sites = 14 Number in coding regions = 8 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 5 Fraction of orfs with sites within 600 bp upstream = 0.000803084 Motif number 9 CAACCTTTCTTGAGTTGTTAGATTAAAGAT 5 102 0 TGAGTTGTTA 0.959105 -25 AGCGTAGCAAGGAGGTGTTAGCTTTGATGA 9 75 0 GGAGGTGTTA 0.982772 -209 TGCTACGCTCGGAGGTGTAAATTAAATTTG 9 96 1 GGAGGTGTAA 0.975496 -188 GTTATTTAGGTGAGTTGTTATAAGGTG 9 267 1 TGAGTTGTTA 0.959105 -17 TCTATTATTTTTAGGTGTAAGTTTTAAATA 14 28 1 TTAGGTGTAA 0.876007 -129 ********** Masking position 6 Map Score: 2.03104 Number of sites scoring better than the average of aligned sites = 40 Number in coding regions = 3 Number in noncoding regions = 37 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 10 AAAACATTTTTATTAATACTAAAAACAGAT 1 62 1 TATTAATACT 0.433255 -75 TCTTACTAATTCTTAAATTTCATGGTGAGA 2 13 0 TCTTAAATTT 0.52566 -80 TTATAACTTATCTTAAAATTTGGTCTTACT 2 36 0 TCTTAAAATT 0.762784 -57 TATATGATAATTTTAAAATTTTGCATTAAA 3 52 1 TTTTAAAATT 0.794999 -47 TGATATATCCTATTAACTTTTAATGAAACT 5 21 1 TATTAACTTT 0.351857 -106 TATAATGTATTATCAAAACTTACCTTATAA 6 27 0 TATCAAAACT 0.91185 -88 AATTATTAAGATTTTTATAGTTT 7 4 1 TATTAAGATT 0.743186 -113 AAAAAGGTTTAATCAAAACTATAAAAATCT 7 19 0 AATCAAAACT 0.616375 -98 AGCTTCGGGCTATGAAAACTCTTTAAGAGT 9 34 0 TATGAAAACT 0.600487 -250 CGGAGGTGTAAATTAAATTTGGGGGTATAT 9 105 1 AATTAAATTT 0.468533 -179 AATTTAGTGTTATTTAAATTTCTT 10 5 0 TATTTAAATT 0.692115 -296 GTGCCTTTGGTATCTAAATTCCAAATGTCC 10 144 0 TATCTAAATT 0.685865 -157 GCGTAAGACCTATTAAAACACTCAATTTTG 10 202 1 TATTAAAACA 0.550969 -99 TTTGTTATCCTATCAAAATTTCAAAATTGA 10 223 0 TATCAAAATT 0.934904 -78 TTTGATAGGATAACAAAACTATTAATATCA 10 236 1 TAACAAAACT 0.36763 -65 AAAATAAAAATATTAAAAATAAAAAAAAGG 10 274 1 TATTAAAAAT 0.569547 -27 TTTAATTTTGTTTTAAAATTTTATTGAAAG 11 32 1 TTTTAAAATT 0.794999 -92 GTAAAAAATATATCAAAATATTTAAGTATT 11 65 1 TATCAAAATA 0.597902 -59 AGTTTCACCTTTTTAAGATTTAAAAAATAA 14 137 0 TTTTAAGATT 0.405598 -20 TTAATATACATATTAAATTTTATGATAAAG 18 65 0 TATTAAATTT 0.850246 -121 TAATTGATATTATTAAAATTTTTAATATAC 18 86 0 TATTAAAATT 0.942292 -100 TCAATTAGATTTTCAAAACTACATATTAAA 18 109 1 TTTCAAAACT 0.70888 -77 ATTTGATTATTATTTAATTTTTTAATATGT 18 129 0 TATTTAATTT 0.46759 -57 ATTAAATAATAATCAAATTTAAAATTAAAT 18 141 1 AATCAAATTT 0.434963 -45 ********** Masking position 6 Map Score: 12.675 Number of sites scoring better than the average of aligned sites = 1675 Number in coding regions = 1184 Number in noncoding regions = 491 Number of orfs with sites within 600 bp upstream = 408 Fraction of orfs with sites within 600 bp upstream = 0.0655316 Motif number 11 CTTAAATTTCATGGTGAGAGT 2 2 0 ATGGTGAGAG 0.922377 -91 TTCTGTGCCAATAGGGGGCGAAGCCCCCTA 9 225 1 ATAGGGGGCG 0.979176 -59 TTTTCTTTCCATAGGGGGCTTCGCCCCCTA 9 236 0 ATAGGGGGCT 0.859141 -48 ACACATATATATAGTGAGAGTATATAAAGT 10 48 1 ATAGTGAGAG 0.946406 -253 TTAAACATATATAGTTGGAGACTATAATTT 12 12 1 ATAGTTGGAG 0.893577 -58 ATCAATGATTATGGAGGGAGAGTT 12 56 1 ATGGAGGGAG 0.968152 -14 TAGATAGTAAATAGAGGAAGT 14 2 0 ATAGAGGAAG 0.854222 -155 ********** Masking position 1 Map Score: 1.74816 Number of sites scoring better than the average of aligned sites = 120 Number in coding regions = 94 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 26 Fraction of orfs with sites within 600 bp upstream = 0.00417604 Motif number 12 ********** No masking Map Score: -5.63217e-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 Motif number 13 ********** No masking Map Score: -5.63217e-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 Motif number 14 ********** No masking Map Score: -5.63217e-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