AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00710_mgen_reg_300.orf -o00710_mgen_300.ace -a/home/amcguire/genomes/ORF_mgen.txt -z/home/amcguire/genomes/mgen.fna -g0.32 -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 = 0.32 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: MG022 29 DNA-directed RNA polymerase, subunit delta (rpoE) MG301 30 glyceraldehyde-3-phosphate dehydrogenase (gap) Input sequences: #1 MG014 239 ABC transporter, ATP-binding protein #2 MG015 46 ABC transporter, ATP-binding protein #3 MG017 65 ATP-dependent RNA helicase, putative #4 MG018 188 ATP-dependent RNA helicase, putative #5 MG019 41 heat shock protein (dnaJ) #6 MG062 300 PTS system, fructose-specific IIABC component (fruA) #7 MG063 94 1-phosphofructokinase (fruK) #8 MG064 255 conserved hypothetical protein #9 MG210.1 200 conserved hypothetical protein #10 MG211 189 conserved hypothetical protein #11 MG304 176 ABC transporter, ATP binding protein #12 MG305 87 heat shock protein 70 (dnaK) #13 MG309 53 lipoprotein, putative #14 MG406 140 conserved hypothetical protein #15 MG407 66 enolase (eno) #16 MG431 59 triosephosphate isomerase (tpiA) #17 MG432 85 conserved hypothetical protein Motif number 1 TAAAATTGTTATAATAATTAGTTAAATACCCT 1 160 0 ATAATAATAT 0.819794 -80 AATTAATCTCTTTAAAATCTTTCAAGAACTTG 2 19 0 TTTAAAATTT 0.878759 -28 TGATCAAAAATTAATAATGTTTGTCTTTCAAC 3 25 0 TTAATAATTT 0.922596 -41 ATTGCGCTTTTTAAAACTGTTTTTGATGATTA 4 145 1 TTAAAACTTT 0.839405 -44 CCTTAGAGTGTTAATTATAATTCTTGCT 5 7 0 TTAATTATAT 0.719859 -35 AGCTACAGCTTTTAAAATTAGTCTAATGTAAA 6 21 0 TTTAAAATAT 0.909584 -280 TAGTTGCATATTTATAATAAATTTAACAACAA 6 266 0 TTTATAATAT 0.909585 -35 TTAAATCAACATAATAATCAATTGCGCAAGCG 7 14 0 ATAATAATAT 0.819794 -81 CCAGATTGTTTTAACAATCTTTAGTATGATCT 8 74 1 TTAACAATTT 0.887682 -182 AGAGACAAATTTAAAAATCAGTTCTTTTAAAA 8 219 0 TTAAAAATAT 0.942999 -37 TTAATACTCCTTAATAATTTTTGTTAGTTAAT 9 40 0 TTAATAATTT 0.922596 -161 TTAAGGAGTATTAACACTTTTTTACTAGTTTT 9 58 1 TTAACACTTT 0.776075 -143 TTTACTAGTTTTTAAACTAACTTTTTTAAGTG 9 78 1 TTTAAACTAT 0.815211 -123 AATAGTGCCATTAATTCTAACTTTTAATTTTT 9 159 0 TTAATTCTAT 0.52982 -42 GTGATATCCTTTTAAACTTTTTTAAAGCTAGC 10 45 0 TTTAAACTTT 0.760676 -145 TTTATAAATTTTAAAAATAAGTCAGAGCTAAA 11 94 0 TTAAAAATAT 0.942999 -83 CTAATTTTTGTTTATAATTACTGAGTAATTGT 12 46 1 TTTATAATAT 0.909585 -42 TTTTAGATCAATAACAATTACTCAGTAATTAT 12 59 0 ATAACAATAT 0.751026 -29 AAATATAAATTTTAAAATTATTGAAATTTTTG 13 24 1 TTTAAAATAT 0.909584 -30 AATTATTACCTTAATTATTTTTGTAGCTTGGT 14 48 1 TTAATTATTT 0.649289 -93 AACAACTGCTATTAAAATTAGTACAAATAACC 14 77 0 ATTAAAATAT 0.734429 -64 AATAATTTTATTAACAATATTTTTCTATTTAA 15 44 1 TTAACAATTT 0.887682 -23 ATTTTGGTAATTAATAATTTCTTATTTACTAT 17 41 0 TTAATAATTT 0.922596 -45 TACCAAAATTATTAAAATAATTGTTCTTAACT 17 64 1 ATTAAAATAT 0.734493 -22 ******** * * Masking position 8 Map Score: 26.6434 Number of sites scoring better than the average of aligned sites = 221 Number in coding regions = 179 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 2 ATTTTGGTTAAATTAAAATTGTTATAATAATTAGTTA 1 168 0 AAATTTATAA 0.621485 -72 CTGTTTTGATTATAAAAACTGTTAAAATTCGAGGGGT 1 205 0 TAATTTAAAA 0.936887 -35 TGTAAAACCAAGTTCTTGAAAGATTTTAAAG 2 5 1 ACATTTGAAA 0.706868 -42 ATAAATTTAATAGTGTTGAAAGACAAACATT 3 5 1 AATTTTGAAA 0.766593 -61 AAACCTTTGTAGTGCTTGTTCATAAAAAAGTAAACGG 4 39 0 ACTTATAAAA 0.613467 -150 ATCTATTTGAAATAATTCTTCATAAAACCTTTGTAGT 4 63 0 AATTATAAAA 0.773971 -126 AAATAGATTATTTAAGAAGATTTGAAAACATTCCCAT 4 92 1 TAAATTGAAA 0.549645 -97 TGTAATCATCAAAAACAGTTTTAAAAAGCGCAATTTG 4 142 0 AAATTAAAAA 0.837852 -47 AAAAACAATTAGCTACAGCTTTTAAAATTAGTCTAAT 6 26 0 AAATTTAAAA 0.955644 -275 GAACAAACTGAATCAAAGAATTTGAAATTGTCTTTCA 6 65 1 AAAATTGAAA 0.640087 -236 AACAACAAAATTGAATAAAAATAAAAAACAGACCCTG 6 117 1 TAAATAAAAA 0.549039 -184 CCCAGTTTGTTGTTAAATTTATTATAAATATGCAACT 6 260 1 TAATTTATAA 0.515783 -41 TAATCCCCTTACCACCAGGTATTAAAACACTATTTTT 7 54 0 ACATTTAAAA 0.908975 -41 AAAAGATCATACTAAAGATTGTTAAAACAATCTGGAT 8 72 0 AAGTTTAAAA 0.684175 -184 CAAATTTAAAAATCAGTTCTTTTAAAAAAAGACAATG 8 209 0 AATTTTAAAA 0.932132 -47 AAAAAGTTAGTTTAAAAACTAGTAAAAAAGTGTTAAT 9 67 0 TAATGTAAAA 0.490018 -134 GAAATTAAACTAGGATTACACTTAAAAAAGTTAGTTT 9 91 0 TATATTAAAA 0.763939 -110 TTCTTTACTAATAGCTACTTGTAAAAAATTAAAAGTT 9 136 1 ACATTAAAAA 0.705447 -65 TGCCTAAGATTGAAGTTAAAAATGATGATTT 10 5 1 TATATTAAAA 0.763939 -185 ATGATGATTTAGAGCTAGCTTTAAAAAAGTTTAAAAG 10 32 1 ACATTAAAAA 0.705447 -158 TTCATATAGAACATATTCCAAATAAAAAAGAGCAGCA 11 15 1 AATAATAAAA 0.539279 -162 GTTTTTTGGTAGATAAAAAACAAAAAAGCAGCTGTTG 11 52 0 AAAAAAAAAA 0.30573 -125 AACTAAGCTTATTTATAAATTTTAAAAATAAGTCAGA 11 100 0 AAATTTAAAA 0.923998 -77 ATAAGCTTAGTTTGCTACAAGTTAAAAACCTCAGTTT 11 125 1 TCAATTAAAA 0.701751 -52 ACTGAGTAATTGTTATTGATCTAAAAAAAAAGT 12 65 1 TATTTAAAAA 0.694239 -23 CAGTCAAAAATTTCAATAATTTTAAAATTTATATTTT 13 23 0 TATTTTAAAA 0.525151 -31 TTGTTAAAACAACAACTGCTATTAAAATTAGTACAAA 14 82 0 AATTTTAAAA 0.932134 -59 TGTCCAAATTATTGCCTTTTGTTAAAACAACAACTGC 14 100 0 ACTTTTAAAA 0.864242 -41 TTACTTGAATTAATAGAAATCTTAAAACATATAATAA 15 12 1 TAATTTAAAA 0.936898 -55 TTAAATAGAAAAATATTGTTAATAAAATTATTATATG 15 39 0 AATTATAAAA 0.773971 -28 GAAAATGGTTTTTGAAAACTTATAAAATCTTTCAT 16 35 1 TAATATAAAA 0.693828 -25 AATTATTAATTACCAAAATTATTAAAATAATTGTTCT 17 54 1 TAATTTAAAA 0.936701 -32 * * * * ****** Masking position 16 Map Score: 28.6345 Number of sites scoring better than the average of aligned sites = 867 Number in coding regions = 774 Number in noncoding regions = 93 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 3 ATAACAATTTTAATTTAACCAAAATACCCCTCG 1 180 1 TAATACCAAA 0.543855 -60 TTTAACAGTTTTTATAATCAAAACAGCTAATTT 1 216 1 TTTAACAAAA 0.911841 -24 TTTGATCAGCTAAATAAAACAAAGCAA 3 49 1 TAAAAACAAA 0.424139 -17 CTCAAAAAACTAATACATCAAACTTCAACCGTT 4 11 1 TAATACAAAC 0.543855 -178 CGTTTACTTTTTTATGAACAAGCACTACAAAGG 4 40 1 TTTAACAAGC 0.528171 -149 CAATGGTTTTGTAATCATCAAAAACAGTTTTAA 4 155 0 GTAAACAAAA 0.876113 -34 GCTAATTGTTTTTTAGAACAAACTGAATCAAAG 6 50 1 TTTTACAAAC 0.66536 -251 GTTAACAGCATTTAACAACAAAATTGAATAAAA 6 104 1 TTTAACAAAA 0.912046 -197 GCTTCCGCCATTAAATATCCAACAGACCATCAG 6 151 0 TTAAACCAAC 0.877976 -150 TTATAATAAATTTAACAACAAACTGGGAGCGTA 6 254 0 TTTAACAAAC 0.851546 -47 TATGTTGATTTAAACAAGCAAAAAAATAGTGTT 7 33 1 TAAAACAAAA 0.861405 -62 GCGTAATATTTTAACTATCCAGATTGTTTTAAC 8 56 1 TTAAACCAGA 0.717406 -200 AATTCACTAATTAACTAACAAAAATTATTAAGG 9 31 1 TTAAACAAAA 0.959217 -170 AAGGGATGCGGTTAAGAGAAAAACAAAAGATAG 10 122 1 GTTAAAAAAA 0.400522 -68 TTTTTGTTTTTTATCTACCAAAAAACAGATTTT 11 63 1 TTATACAAAA 0.890791 -114 AACCTCAGTTTTAAATACCCAAAACACCAAAAC 11 151 1 TTAAACCAAA 0.928616 -26 TACTCAGTAATTATAAACAAAAATTAGCACTCA 12 40 0 TTATAAAAAA 0.636063 -48 GTGGTAATAATAAAAATATAAATTTT 13 4 1 GTAAAAAAAA 0.602415 -50 ATTAAATAGAAAAATATTGTTAAT 15 53 0 TTAAAAAAAA 0.834417 -14 TAAGAAATTATTAATTACCAAAATTATTAAAAT 17 49 1 TTAAACAAAA 0.959214 -37 **** * ***** Masking position 7 Map Score: 16.874 Number of sites scoring better than the average of aligned sites = 649 Number in coding regions = 580 Number in noncoding regions = 69 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 4 ACTAATTATTATAACAATTTTAATTTAACCA 1 170 1 ATACAATTTT 0.813385 -70 CCCTCGAATTTTAACAGTTTTTATAATCAAA 1 207 1 TTACAGTTTT 0.937661 -33 AAAATTAGCTGTTTTGATTATAAAA 1 225 0 TTACTGTTTT 0.619846 -15 ATAAATTTAATAGTGTTGAAAGACAAA 3 7 1 TTATAGTGTT 0.631807 -59 AAGACAAACATTATTAATTTTTGATCAGCTA 3 30 1 TTATAATTTT 0.962785 -36 GAAGTTTGATGTATTAGTTTTTTGAG 4 6 0 GTATAGTTTT 0.836906 -183 CCAGATTGTTTTAACAATCTTTAGTATGATC 8 74 1 TTACAATCTT 0.696296 -182 TTAATACTCCTTAATAATTTTTGTTAGTTAA 9 41 0 TTATAATTTT 0.962784 -160 TTAAGGAGTATTAACACTTTTTTACTAGTTT 9 58 1 TTACACTTTT 0.841814 -143 TAACACTTTTTTACTAGTTTTTAAACTAACT 9 69 1 TTATAGTTTT 0.944648 -132 CTAAGCTTATTTATAAATTTTAAAAATAAGT 11 104 0 TTAAAATTTT 0.865478 -73 CAAACTTTAATTAGCACTTTTAGTGTTTGAG 12 13 1 TTACACTTTT 0.841814 -75 AATAATAAAAATATAAATTTTAAAATTATTG 13 16 1 ATAAAATTTT 0.55162 -38 GTCAAAAATTTCAATAATTTTAAAATTTATA 13 27 0 TCATAATTTT 0.692447 -27 AATAATTAAGGTAATAATTTTTGCAACCTTT 14 36 0 GTATAATTTT 0.886082 -105 AATTATTACCTTAATTATTTTTGTAGCTTGG 14 48 1 TTATTATTTT 0.737138 -93 TTGGTTATTTGTACTAATTTTAATAGCAGTT 14 75 1 GTATAATTTT 0.886089 -66 CTTAAAACATATAATAATTTTATTAACAATA 15 32 1 ATATAATTTT 0.831766 -35 AATAATTTTATTAACAATATTTTTCTATTTA 15 44 1 TTACAATATT 0.73174 -23 ATGAAAGATTTTATAAGTTTTCAAAAACCAT 16 39 0 TTAAAGTTTT 0.80931 -21 TACTATCTTATTAGTAATATTAAGCTTAGTG 17 16 0 TTATAATATT 0.755792 -70 ATTTTGGTAATTAATAATTTCTTATTTACTA 17 42 0 TTATAATTTC 0.692446 -44 AACAATTATTTTAATAATTTTGGTAATTAAT 17 58 0 TTATAATTTT 0.962784 -28 *** ******* Masking position 8 Map Score: 26.5447 Number of sites scoring better than the average of aligned sites = 201 Number in coding regions = 178 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 19 Fraction of orfs with sites within 600 bp upstream = 0.00305172 Motif number 5 CTTTTTAAAACTGTTTTTGATGATTACAAA 4 151 1 CTGTTTTTGA 0.950212 -38 GCTAAATCAATGGTTTTGTAATCATCAAAA 4 165 0 TGGTTTTGTA 0.837291 -24 CTGTAGCTAATTGTTTTTTAGAACAAACTG 6 45 1 TTGTTTTTTA 0.965318 -256 CCATCAGGGTCTGTTTTTTATTTTTATTCA 6 128 0 CTGTTTTTTA 0.922886 -173 ATCTTTAATCTTGTTTTTGAGTTTGCAAAG 8 122 1 TTGTTTTTGA 0.977967 -134 AGCTGCTTTTTTGTTTTTTATCTACCAAAA 11 56 1 TTGTTTTTTA 0.965318 -121 ATTGTTTTGGTGTTTTGGGTA 11 166 0 TTGTTTTGGT 0.728662 -11 TACTGAGTAATTGTTATTGATCTAAAAAAA 12 64 1 TTGTTATTGA 0.861983 -24 ACTTTTTTTTTAGATCAATAAC 12 76 0 TTTTTTTTTA 0.708599 -12 GAAAAGAAAATGGTTTTTGAAAACTTATAA 16 30 1 TGGTTTTTGA 0.950212 -30 ********** Masking position 5 Map Score: 9.094 Number of sites scoring better than the average of aligned sites = 119 Number in coding regions = 107 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 10 Fraction of orfs with sites within 600 bp upstream = 0.00160617 Motif number 6 GTGCTCTATCAGTTGAGCTACATCCCCATT 1 38 1 AGTTGAGCTA 0.870978 -202 TGCTCTAACCAACTGAGCTATACTTCCAAG 1 120 1 AACTGAGCTA 0.957559 -120 ATAAGAATCAAATTGCGCTTTTTAAAACTG 4 134 1 AATTGCGCTT 0.708349 -55 ATATTACGCGAATTAAGCTTAGGCTTTCGC 8 35 0 AATTAAGCTT 0.928874 -221 TTTGCAAAGTAATTTAGCTACAGCTTTAGT 8 143 1 AATTTAGCTA 0.868103 -113 AACTACCAGAAATTAAACTAGGATTACACT 9 106 0 AATTAAACTA 0.563318 -95 GAAGTTTCGCAGTTTAGCTAGCCATTAAG 10 171 1 AGTTTAGCTA 0.695218 -19 ACTTGTAGCAAACTAAGCTTATTTATAAAT 11 117 0 AACTAAGCTT 0.937984 -60 GGGTATTTAAAACTGAGGTTTTTAACTTGT 11 141 0 AACTGAGGTT 0.776935 -36 CTACAAAAATAATTAAGGTAATAATTTTTG 14 44 0 AATTAAGGTA 0.794403 -97 TAGTACAAATAACCAAGCTACAAAAATAAT 14 61 0 AACCAAGCTA 0.781428 -80 TATTGCACTAAGCTTAATATTACTA 17 6 1 CACTAAGCTT 0.721995 -80 ********** Masking position 9 Map Score: 4.32502 Number of sites scoring better than the average of aligned sites = 136 Number in coding regions = 112 Number in noncoding regions = 24 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 7 ATAATCAAAACAGCTAATTTT 1 229 1 CAGCTATTTT 0.943903 -11 TTAAAAGCTGTAGCTAATTGTTTTTTAGAAC 6 38 1 TAGCTATTGT 0.805032 -263 TTTTCTTACTTTGCTATCTTTAATCTTGTTT 8 107 1 TTGCTACTTT 0.937574 -149 TAACACTTTTTTACTAGTTTTTAAACTAACT 9 69 1 TTACTATTTT 0.721282 -132 AGTTTAATTTCTGGTAGTTTTCTTTACTAAT 9 117 1 CTGGTATTTT 0.719936 -84 TCTTTACTAATAGCTACTTGTAAAAAATTAA 9 137 1 TAGCTATTGT 0.805032 -64 TGATGATTTAGAGCTAGCTTTAAAAAAGTTT 10 33 1 GAGCTACTTT 0.925124 -157 CGCTTTTTCTGTGCTATCTTTTGTTTTTCTC 10 137 0 GTGCTACTTT 0.950826 -53 AGCTGTTGTGCTGCTCTTTTTTATTTGGAAT 11 29 0 CTGCTCTTTT 0.818857 -148 AGCAGCACAACAGCTGCTTTTTTGTTTTTTA 11 45 1 CAGCTGTTTT 0.742834 -132 TAGTGTTTGAGTGCTAATTTTTGTTTATAAT 12 33 1 GTGCTATTTT 0.963414 -55 GTAATAATTTTTGCAACCTTTCTATTGTTTC 14 26 0 TTGCAACTTT 0.615129 -115 TTGGTTATTTGTACTAATTTTAATAGCAGTT 14 75 1 GTACTATTTT 0.769144 -66 ****** **** Masking position 9 Map Score: 6.32565 Number of sites scoring better than the average of aligned sites = 207 Number in coding regions = 191 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 8 CCTGATTTGCACTCAGGAGGTTGAGGGT 1 8 0 ACTCAGGGGT 0.96428 -232 TGGAAGTATAGCTCAGTTGGTTAGAGCACAC 1 117 0 GCTCAGTGGT 0.929474 -123 ATATTTAATGGCGGAAGCGGTGGGATTCGAA 6 166 1 GCGGAAGGGT 0.957789 -135 AGGACACCCTGCTAAGGTGTTAGATCGTTCT 6 209 0 GCTAAGGGTT 0.77786 -92 CTGGGAGCGTACTCAAGTGGTTAAGAGGACA 6 234 0 ACTCAAGGGT 0.944501 -67 ATAATCAATTGCGCAAGCGTAA 7 2 0 GCGCAAGGTA 0.828705 -93 GCATCCCTTTGCGCAAGTGGTATTCATGGCG 10 100 0 GCGCAAGGGT 0.991599 -90 CACAGAAAAAGCGCAGGAAGTTTCGCAGTTT 10 155 1 GCGCAGGAGT 0.95435 -35 ******* *** Masking position 5 Map Score: 3.41578 Number of sites scoring better than the average of aligned sites = 14 Number in coding regions = 7 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 5 Fraction of orfs with sites within 600 bp upstream = 0.000803084 Motif number 9 TTGCTTTGTTTTATTTAGCTG 3 55 0 TTCTTTGTTT 0.649342 -11 CTTCAACCGTTTACTTTTTTATGAACAAGCA 4 33 1 TTCTTTTTTA 0.560108 -156 ACTTGCATCCTTAGAGTGTTAATTATAATTC 5 16 0 TTGAGTGTTA 0.757852 -26 TGAAATTGTCTTTCATTGTTAACAGCATTTA 6 87 1 TTCATTGTTA 0.895411 -214 ATCTTTTTTCTTACTTTGCTATCTTTAATCT 8 102 1 TTCTTTGCTA 0.971517 -154 TGTAGCTAAATTACTTTGCAAACTCAAAAAC 8 134 0 TTCTTTGCAA 0.811679 -122 TTCTGGTAGTTTTCTTTACTAATAGCTACTT 9 125 1 TTCTTTACTA 0.748974 -76 ACCTGCGTACTTCCAGTGATATCCTTTTAAA 10 61 0 TTCAGTGATA 0.70945 -129 TCCTGCGCTTTTTCTGTGCTATCTTTTGTTT 10 142 0 TTCTGTGCTA 0.96963 -48 ATAAATAAGCTTAGTTTGCTACAAGTTAAAA 11 121 1 TTGTTTGCTA 0.930078 -56 ACTTTTAGTGTTTGAGTGCTAATTTTTGTTT 12 28 1 TTGAGTGCTA 0.88001 -60 ** ******** Masking position 7 Map Score: 4.16853 Number of sites scoring better than the average of aligned sites = 128 Number in coding regions = 116 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 10 GTTTTGATTATAAAAACTGTTAAAATTCGA 1 210 0 TAAAAACTGT 0.91336 -30 TTAATCTCTTTAAAATCTTTCAAGAACTTG 2 19 0 TAAAATCTTT 0.788714 -28 ATTGCGCTTTTTAAAACTGTTTTTGATGAT 4 145 1 TTAAAACTGT 0.807657 -44 TAGTCTAATGTAAATTCTGTCTTA 6 5 0 TAAATTCTGT 0.857401 -296 AGACTAATTTTAAAAGCTGTAGCTAATTGT 6 29 1 TAAAAGCTGT 0.968943 -272 ATTTTGTTGTTAAATGCTGTTAACAATGAA 6 98 0 TAAATGCTGT 0.885596 -203 CTGTTTTCAACTAAAGCTGTAGCTAAATTA 8 152 0 CTAAAGCTGT 0.767476 -104 GAAAACAGAAATAAAGCTGTGGAACTTGTA 8 174 1 ATAAAGCTGT 0.8491 -82 AGACAAATTTAAAAATCAGTTCTTTTAAAA 8 219 0 AAAAATCAGT 0.582325 -37 AGTCAGAGCTAAAAATCTGTTTTTTGGTAG 11 77 0 AAAAATCTGT 0.91645 -100 TGAAAACTTATAAAATCTTTCAT 16 47 1 TAAAATCTTT 0.788714 -13 ********** Masking position 4 Map Score: 7.91699 Number of sites scoring better than the average of aligned sites = 103 Number in coding regions = 89 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 12 Fraction of orfs with sites within 600 bp upstream = 0.0019274 Motif number 11 ********** No masking Map Score: 6.58916e-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 12 TTTAGCTGATCAAAAATTAATAATGTTTGT 3 33 0 CAAAAATTAA 0.59293 -33 ACTAATACATCAAACTTCAACCGTTTACTT 4 19 1 CAAACTTCAA 0.91916 -170 TTTTTACCATCAAATATTAA 8 1 0 CAAATATTAA 0.827354 -255 AATTACTTTGCAAACTCAAAAACAAGATTA 8 127 0 CAAACTCAAA 0.837357 -129 TAGTCAGAGACAAATTTAAAAATCAGTTCT 8 226 0 CAAATTTAAA 0.786343 -30 TTAAATACCCAAAACACCAAAACAAT 11 161 1 AAAACACCAA 0.695513 -16 AACAAACTTTAATTAGCACTTT 12 3 1 CAAACTTTAA 0.903989 -85 AATTAGCACTCAAACACTAAAAGTGCTAAT 12 22 0 CAAACACTAA 0.870195 -66 GGTAATAATAAAAATATAAATTTTAAAATT 13 13 1 AAAATATAAA 0.509432 -41 TGCACAGTCAAAAATTTCAATAATTTTAAA 13 34 0 AAAATTTCAA 0.620189 -20 ********** Masking position 4 Map Score: 0.451521 Number of sites scoring better than the average of aligned sites = 160 Number in coding regions = 142 Number in noncoding regions = 18 Number of orfs with sites within 600 bp upstream = 12 Fraction of orfs with sites within 600 bp upstream = 0.0019274 Motif number 13 ********** No masking Map Score: 6.58916e-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: 6.58916e-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 15 ********** No masking Map Score: 6.58916e-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