AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00670_hinf_reg_100.orf -o00670_hinf_100.ace -a/home/amcguire/genomes/ORF_hinf.txt -z/home/amcguire/genomes/hinf.fna -g0.38 -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 = 0.38 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 HI0609 300 methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase (folD) #2 HI0622 300 polypeptide deformylase (def) #3 HI0623 92 methionyl-tRNA formyltransferase (fmt) #4 HI0887 187 phosphoribosylaminoimidazolecarboxamide formyltransferase (purH) #5 HI0889 123 serine hydroxymethyltransferase (serine methylase) (glyA) #6 HI0899_HI0900 100 HI0899: dihydrofolate reductase (folA), HI0900: glutamate 5-kinase (gamma-glutamyl kinase) (proB) #7 HI0901 80 conserved hypothetical protein #8 HI1428 54 phosphoribosylglycinamide formyltransferase (purN) #9 HI1429 179 phosphoribosylaminoimidazole synthetase (purM) #10 HI1444 300 5,10 methylenetetrahydrofolate reductase (metF) #11 HI1587 300 DNA-binding protein H-NS (hns) #12 HI1588 69 formyltetrahydrofolate deformylase (purU) Motif number 1 TTTCGTATTTTCTTGAAATTTTTATAAAAGAAATCCTT 1 10 0 TTATTATAAA 0.955664 -291 AATCAAAAATTTCATTGACTGAAATAAAAACAAACTTAT 1 146 0 TAATAATAAA 0.92358 -155 TAACGAACAATGATTTTTTTACAATGAAAAAGGGGGATA 1 224 0 TTTTAATAAA 0.968839 -77 TACCAAATACTTATCTAAGTTAAATAAAAACAGAAGGAC 2 86 1 TTATAATAAA 0.973445 -215 TTTGGGAATTTATTCATTATTTAATCAAATAAGTGTCTA 2 154 1 TTTTAATAAA 0.968838 -147 AAGGATAAAATTATGAAACTACAACTAAA 4 1 0 TTATAACAAA 0.780163 -187 ATATTTAATCTTTTCTATATTTAAGCAAACGTTTGCGTT 4 112 1 TTTTAAGAAA 0.747847 -76 CATCGCTTATTTTTAACTATTTAATGAAAGGAAAATACA 4 159 1 TTTTAATAAA 0.968821 -29 ATTCCTAAATTTTCATCACTTAAATGAAATTAATTCATC 5 24 0 TCATAATAAA 0.814564 -100 AACTGTTTATGGATAAAAATTTAATTAAAATTTCATTCC 5 58 0 GTATAATAAA 0.932707 -66 TCGTTTTACCTTAAATTTTTCCTATAAAAATAGCTCAAG 7 50 0 TATTTATAAA 0.854459 -31 TAAATCTTGAGCTTATTTGTACTATTAAAGTAGTACAAA 9 20 1 GTTTTATAAA 0.87082 -160 TTAATGACATTTTTAAAATTAAAATGAAATTGCTTGCAA 9 69 0 TTATAATAAA 0.973365 -111 GATTAACCTCGATCAATTGAAATAAAAATTGGGCAGA 9 153 0 TAATAATAAA 0.923582 -27 AATAAATGGATAATTATTGTTCAATAATAACTAATTTTT 10 167 0 TTTTAATATA 0.656511 -134 GTATGATTATTATTAATAATTCAATAAATGGATAATTAT 10 189 0 TTATAATAAT 0.695314 -112 TGAATAAATTGAAATTGACTCATATTAAAACCTATTTTA 10 234 1 GAATTATAAA 0.723791 -67 GATTCTAAAATAGTATTTGTACAATAAAATAGGTTTTAA 10 258 0 TTTTAATAAA 0.968828 -43 TTATTAAAGTTTATAAAATTTTTATAAAATCTGTTGGCA 11 136 0 TTATTATAAA 0.955614 -165 GTGTTTATTTTCTTTATATTTTTATTAAAGTTTATAAAA 11 157 0 TTATTATAAA 0.955669 -144 AAAATTTATTGTAAATATCTATTATTAAATAAATGGTCG 11 214 0 GATTTATAAA 0.686969 -87 CAATAAATTTTATTTTCTCTATTATTAAATAAATTTTCC 11 242 1 TTTTTATAAA 0.947518 -59 * * * * *** *** Masking position 10 Map Score: 27.6172 Number of sites scoring better than the average of aligned sites = 255 Number in coding regions = 153 Number in noncoding regions = 102 Number of orfs with sites within 600 bp upstream = 94 Fraction of orfs with sites within 600 bp upstream = 0.015098 Motif number 2 CTTCTTTCGTATTTTCTTGAAATTTTTATAAAAGA 1 18 0 ATTTTTATTT 0.889755 -283 AATTGTTCAAAATTATTCCACTTTAAGAAATATCC 1 194 1 AATTATTTTA 0.765169 -107 GCTTTTGGGAATTTATTCATTATTTAATCAAATAA 2 151 1 ATTTATATTT 0.830733 -150 AATTTCTCTTGTTTTTAAGGGTAGA 2 286 0 AATTTTTTTT 0.794261 -15 TAGTTTCATAATTTTATCCTTATTTTTGCCCACAT 4 19 1 ATTTTTATTT 0.889758 -169 TTATGCCTGAAATTTATCGTATTTTTACCGCACTT 4 68 1 AATTTTTTTT 0.794258 -120 AAGAAATTATATTTAATCTTTTCTATATTTAAGCA 4 104 1 ATTTATTCTA 0.805684 -84 TGTATTTTCCTTTCATTAAATAGTTAAA 4 170 0 ATTTTCATTA 0.860704 -18 CATTATGATGAATTAATTTCATTTAAGTGATGAAA 5 18 1 AATTATTTTA 0.765169 -106 ATGGATAAAAATTTAATTAAAATTTCATTCCTAAA 5 54 0 ATTTATATTT 0.83073 -70 ATATTAAGTGATTTTTCATTGATTTAGTGATAACG 6 43 0 ATTTTCATTT 0.816574 -58 ATCCCCCTAAAATTTGCCGTTACTATACCTGATAT 6 74 0 AATTTCACTA 0.48288 -27 TTGCAATCAAAATTTATTTGTACTACTTTAATAGT 9 40 0 AATTTTACTA 0.628658 -140 AAATTAATTCATTTAATGACATTTTTAAAATTAAA 9 85 0 ATTTATTTTT 0.871993 -95 TATTGTATTTATTTAACACGCATTTATCTTTCTAT 10 35 1 ATTTACATTT 0.73025 -266 AAGTGCGGTAATTTTTTGTGTATTTTTATAGAAAG 10 62 0 ATTTTTATTT 0.889758 -239 GTTAGCAATGATTTACCCCATTTTACAACGAAAAA 10 99 0 ATTTACTTTA 0.839104 -202 ATCTGTTGGCATTTTGTTTGTTTTACGGTAATCTC 11 112 0 ATTTTTTTTA 0.939571 -189 TTTTATAAAAATTTTATAAACTTTAATAAAAATAT 11 146 1 ATTTTTTTTA 0.939571 -155 AAACAGATATATTTTTTTGTGTTTATTTTCTTTAT 11 179 0 ATTTTTTTTA 0.939571 -122 TTTACAATAAATTTTATTTTCTCTATTATTAAATA 11 238 1 ATTTTTTCTA 0.872096 -63 TATTAAATAAATTTTCCCACATTTAATGTTATTTA 11 264 1 ATTTTCTTTA 0.895575 -37 ATTTAATGTTATTTATTGAGGTTTATT 11 284 1 ATTTATTTTA 0.904352 -17 ACTAGAACCTATTTTATGGGTTCTATTTTTTTATC 12 25 1 ATTTTTTCTA 0.872096 -45 ***** * **** Masking position 4 Map Score: 29.3195 Number of sites scoring better than the average of aligned sites = 890 Number in coding regions = 579 Number in noncoding regions = 311 Number of orfs with sites within 600 bp upstream = 255 Fraction of orfs with sites within 600 bp upstream = 0.0409573 Motif number 3 TTGCGCTACCAAGCTGCGCTACTCGCCGAT 1 102 1 AAGCTGCGCT 0.866417 -199 TACTCGCCGATAAGTGCGGTCAATTATAAG 1 121 1 TAAGTGCGGT 0.906241 -180 TGCCGATGGTAGTGTGGGGTTTCCCCATGT 2 35 1 AGTGTGGGGT 0.958903 -266 AACGTAGGGTGGGCTTTAGCCAGCA 3 6 1 AGGGTGGGCT 0.97967 -87 ATTTCAAAAAACGGTGGGCTTAAGCCCACC 3 39 1 ACGGTGGGCT 0.947304 -54 GATAGGAAGTAGGGTGGGCTTAAGCCCACC 3 51 0 AGGGTGGGCT 0.97967 -42 AGCCCACATAAATGTGGGCAAAAATAAGGA 4 35 0 AATGTGGGCA 0.811853 -153 TGCCCACATTTATGTGGGCTTTTTTATGCC 4 45 1 TATGTGGGCT 0.893012 -143 ATAATTTCTTAAAGTGCGGTAAAAATACGA 4 84 0 AAAGTGCGGT 0.977344 -104 AACGAAAAAGAAAGTGCGGTAATTTTTTGT 10 78 0 AAAGTGCGGT 0.977344 -223 TTTTCGTTGTAAAATGGGGTAAATCATTGC 10 100 1 AAAATGGGGT 0.824837 -201 ATTGCTAACAAAAGTGCGGTAGTTTTGAGT 10 125 1 AAAGTGCGGT 0.977344 -176 ********** Masking position 5 Map Score: 15.9166 Number of sites scoring better than the average of aligned sites = 1260 Number in coding regions = 777 Number in noncoding regions = 483 Number of orfs with sites within 600 bp upstream = 317 Fraction of orfs with sites within 600 bp upstream = 0.0509155 Motif number 4 AAGGATTTCTTTTATAAAAATTTCAAGA 1 6 1 TTTTTATAAA 0.869699 -295 AAATTTTTGATTTTTCAACTTAATTGTTCAAAA 1 173 1 TTTTCCTTAA 0.381945 -128 TAAAAAAATCATTGTTCGTTAAAATAGCAAACG 1 242 1 ATTTTTTAAA 0.708702 -59 GAATTTATTCATTATTTAATCAAATAAGTGTCT 2 159 1 ATTTTATCAA 0.812635 -142 TTTTGAAATGATTGCTGGCTAAAGCCCACCCTA 3 15 0 ATTCTCTAAA 0.567965 -78 ATACGATAAATTTCAGGCATAAAAAAGCCCACA 4 57 0 TTTAGATAAA 0.482569 -131 ATTCCTAAATTTTCATCACTTAAATGAAATTAA 5 30 0 TTTATCTTAA 0.399413 -94 TTAATTAAAATTTCATTCCTAAATTTTCATCAC 5 44 0 TTTATCTAAA 0.792136 -80 TTAATTAAATTTTTATCCATAAACAGTTAAACT 5 69 1 TTTATATAAA 0.838684 -55 TGTCCTTTGGTTGATAAAAGCACTGATT 7 6 1 TTTGTATAAA 0.636582 -75 ATAGCTCAAGATTGTTTCATAAATCAGTGCTTT 7 27 0 ATTTTATAAA 0.942937 -54 TTACCTTAAATTTTTCCTATAAAAATAGCTCAA 7 51 0 TTTTCATAAA 0.820995 -30 TTTTTCTCCTAAATCTTGAGCTT 9 1 1 TTTTCCTAAA 0.779612 -179 CGTTTGCGATATTGTTAAATTAATTCATTTAAT 9 103 0 ATTTTATTAA 0.746618 -77 AATCTGCCCAATTTTTATTTCAATTGATCGAGG 9 151 1 ATTTTTTCAA 0.396867 -29 ATTTTTTGCGCTAAAAAACAAATCT 10 3 1 TTTTGCTAAA 0.707919 -298 TTTTTTGTGTATTTTTATAGAAAGATAAATGCG 10 53 0 ATTTTAGAAA 0.578741 -248 ATAATAACTAATTTTTAGATCAACACATACTCA 10 150 0 ATTTTATCAA 0.822846 -151 ATGGATAATTATTGTTCAATAATAACTAATTTT 10 168 0 ATTTTATAAT 0.476053 -133 ATTATTATTAATAATTCAATAAATGGATAATTA 10 190 0 ATATTATAAA 0.42736 -111 TAATCATACTTTTAATGAATAAATTGAAATTGA 10 219 1 TTTATATAAA 0.514729 -82 TAAAATAGTATTTGTACAATAAAATAGGTTTTA 10 259 0 TTTTAATAAA 0.47859 -42 GTAAATATCTATTATTAAATAAATGGTCGAAAC 11 210 0 ATTTTATAAA 0.635654 -91 TATTTTCTCTATTATTAAATAAATTTTCCCACA 11 252 1 ATTTTATAAA 0.635654 -49 TGGGTTCTATTTTTTTATCTAAACATAGCACAC 12 41 1 TTTTTCTAAA 0.928994 -29 *** ** ***** Masking position 2 Map Score: 15.676 Number of sites scoring better than the average of aligned sites = 1033 Number in coding regions = 705 Number in noncoding regions = 328 Number of orfs with sites within 600 bp upstream = 248 Fraction of orfs with sites within 600 bp upstream = 0.039833 Motif number 5 AAGGATTTCTTTTATAAAAATTTC 1 5 1 ATTTCTTTTA 0.571417 -296 TCAATTATAAGTTTGTTTTTATTTCAGTCA 1 140 1 GTTTGTTTTT 0.930592 -161 ATAGCAAACGCTTTCTTTTTCATCACATAA 1 265 1 CTTTCTTTTT 0.956167 -36 GACACGGGGTCCTTCTGTTTTTATTTAACT 2 103 0 CCTTCTGTTT 0.861483 -198 AATTTCTCTTGTTTTTAAGGGTAGAA 2 285 0 TCTTGTTTTT 0.830376 -16 ATAATTTTATCCTTATTTTTGCCCACATTT 4 26 1 CCTTATTTTT 0.830376 -162 AATTCTCATCGCTTATTTTTAACTATTTAA 4 153 1 GCTTATTTTT 0.750556 -35 AATACAATAGATTTGTTTTTTAGCGCAAAA 10 14 0 ATTTGTTTTT 0.856129 -287 AATTACCGCACTTTCTTTTTCGTTGTAAAA 10 84 1 CTTTCTTTTT 0.956167 -217 GCAACTATTCCTTTCTTTTTTCTTCTTCGT 11 25 1 CTTTCTTTTT 0.956167 -276 TTGGCATTTTGTTTGTTTTACGGTAATCTC 11 112 0 GTTTGTTTTA 0.750252 -189 AGATATATTTTTTTGTGTTTATTTTCTTTA 11 180 0 TTTTGTGTTT 0.673452 -121 ********** Masking position 6 Map Score: 7.20004 Number of sites scoring better than the average of aligned sites = 582 Number in coding regions = 420 Number in noncoding regions = 162 Number of orfs with sites within 600 bp upstream = 132 Fraction of orfs with sites within 600 bp upstream = 0.0212014 Motif number 6 GGGTAGAATTTTAGTGGGATTATAGCACAGC 2 262 0 TTAGTGGATT 0.929392 -39 ACGGCAAATTTTAGGGGGATTT 6 89 1 TTAGGGGATT 0.985651 -12 TTCAGCCCTTTTGGGCTGATTTCTATAAGGA 8 29 1 TTGGGCGATT 0.990676 -26 GAAATAAAAATTGGGCAGATTATATCATCAA 9 141 0 TTGGGCGATT 0.990676 -39 TTTGTAGTGATTGGGGAGATTACCGTAAAAC 11 97 1 TTGGGGGATT 0.99358 -204 ****** **** Masking position 9 Map Score: 4.24549 Number of sites scoring better than the average of aligned sites = 20 Number in coding regions = 15 Number in noncoding regions = 5 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 7 AAGGATTTCTTTTATAAAAATTTCAAGA 1 9 1 CTTTTATAAA 0.74787 -292 TTTATAAAAATTTCAAGAAAATACGAAAGA 1 21 1 TTTCAAGAAA 0.502295 -280 AATTATTCCACTTTAAGAAATATCCCCCTT 1 204 1 CTTTAAGAAA 0.893937 -97 ACTTATCTAAGTTAAATAAAAACAGAAGGA 2 94 1 GTTAAATAAA 0.599291 -207 AAATTACTTACTTATTGAAAATTAAAATTA 2 191 0 CTTATTGAAA 0.599791 -110 AAGCCCACCGTTTTTTGAAATGATTGCTGG 3 30 0 TTTTTTGAAA 0.462637 -63 TTTTACCGCACTTTAAGAAATTATATTTAA 4 90 1 CTTTAAGAAA 0.893937 -98 TCTTTTCTATATTTAAGCAAACGTTTGCGT 4 120 1 ATTTAAGCAA 0.398845 -68 TTTTTAACTATTTAATGAAAGGAAAATACA 4 168 1 TTTAATGAAA 0.476184 -20 GGAATGAAATTTTAATTAAATTTTTATCCA 5 58 1 TTTAATTAAA 0.334137 -66 AAAAGCACTGATTTATGAAACAATCTTGAG 7 26 1 ATTTATGAAA 0.692827 -55 TTTCTTCCTTATAGAAATCAGCCCAAA 8 38 0 CTTATAGAAA 0.819539 -17 ATAAATGCGTGTTAAATAAATACAATAGAT 10 32 0 GTTAAATAAA 0.599291 -269 TTTGTGTATTTTTATAGAAAGATAAATGCG 10 53 0 TTTATAGAAA 0.546051 -248 ATTATTAATAATTCAATAAATGGATAATTA 10 190 0 ATTCAATAAA 0.549521 -111 TACAAATACTATTTTAGAATCCTAAAGGAA 10 276 1 ATTTTAGAAT 0.21808 -25 ATGCCAACAGATTTTATAAAAATTTTATAA 11 135 1 ATTTTATAAA 0.707955 -166 TTTTATAAAAATTTTATAAACTTTAATAAA 11 146 1 ATTTTATAAA 0.707955 -155 ATTTTATAAACTTTAATAAAAATATAAAGA 11 156 1 CTTTAATAAA 0.826309 -145 AATATCTATTATTAAATAAATGGTCGAAAC 11 210 0 ATTAAATAAA 0.758038 -91 TTTCTCTATTATTAAATAAATTTTCCCACA 11 255 1 ATTAAATAAA 0.758038 -46 ********** Masking position 3 Map Score: 12.4874 Number of sites scoring better than the average of aligned sites = 835 Number in coding regions = 633 Number in noncoding regions = 202 Number of orfs with sites within 600 bp upstream = 149 Fraction of orfs with sites within 600 bp upstream = 0.0239319 Motif number 8 TATTTCAGTCAATGAAATTTTTGATTTTTCA 1 159 1 AATGAATTTT 0.895485 -142 ACTTATTGAAAATTAAAATTAGACACTTATT 2 181 0 AATTAAATTA 0.759486 -120 CACTTTAAGAAATTATATTTAATCTTTTCTA 4 98 1 AATTTATTTA 0.619116 -90 ATGATGAATTAATTTCATTTAAGTGATGAAA 5 22 1 AATTCATTTA 0.806141 -102 TCATTTAAGTGATGAAAATTTAGGAATGAAA 5 36 1 GATGAAATTT 0.50559 -88 ATAAAAATTTAATTAAAATTTCATTCCTAAA 5 54 0 AATTAAATTT 0.892191 -70 TGATAACGTTAATGCCAATTTTAAGAACTTG 6 20 0 AATGCAATTT 0.897233 -81 AAAAGGGCTGAATTTAAATTTAAGATTTTA 8 10 0 AATTAAATTT 0.886201 -45 AATTGCTTGCAATCAAAATTTATTTGTACTA 9 50 0 AATCAAATTT 0.633444 -130 GATTGCAAGCAATTTCATTTTAATTTTAAAA 9 67 1 AATTCATTTT 0.916033 -113 TAATTCATTTAATGACATTTTTAAAATTAAA 9 85 0 AATGCATTTT 0.908468 -95 AATATGAGTCAATTTCAATTTATTCATTAAA 10 229 0 AATTCAATTT 0.905063 -72 ATTTACAATAAATTTTATTTTCTCTATTATT 11 237 1 AATTTATTTT 0.809669 -64 CTCTATTATTAAATAAATTTTCCCACATTTA 11 258 1 AAATAATTTT 0.462938 -43 TCCCACATTTAATGTTATTTATTGAGGTTTA 11 278 1 AATGTATTTA 0.596521 -23 **** ****** Masking position 7 Map Score: 10.344 Number of sites scoring better than the average of aligned sites = 489 Number in coding regions = 378 Number in noncoding regions = 111 Number of orfs with sites within 600 bp upstream = 91 Fraction of orfs with sites within 600 bp upstream = 0.0146161 Motif number 9 TGATGAAAAAGAAAGCGTTTGCTATTTTAACG 1 258 0 GAACGTTTGC 0.612566 -43 CACCGTTTTTTGAAATGATTGCTGGCTAAAGC 3 23 0 TAATGATTGC 0.858259 -70 CTATATTTAAGCAAACGTTTGCGTTATAATTC 4 126 1 GAACGTTTGC 0.49994 -62 AAATTAAAATGAAATTGCTTGCAATCAAAATT 9 61 0 GAATGCTTGC 0.911082 -119 TAACAATATCGCAAACGTTTGCTTGATGATAT 9 119 1 GAACGTTTGC 0.49994 -61 GTAAAATGGGGTAAATCATTGCTAACAAAAGT 10 108 1 GAATCATTGC 0.896341 -193 * ** ******* Masking position 4 Map Score: 2.97493 Number of sites scoring better than the average of aligned sites = 66 Number in coding regions = 43 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 10 ATTCCCAAAAGCTAAAACCCCATATCTTTC 2 133 0 GCTAAAACCC 0.986741 -168 TATTAGCTGTGCTATAATCCCACTAAAATT 2 257 1 GCTATAATCC 0.881132 -44 ATGATTGCTGGCTAAAGCCCACCCTACGTT 3 11 0 GCTAAAGCCC 0.991388 -82 AGTAGGGTGGGCTTAAGCCCACCGTTTTTT 3 44 0 GCTTAAGCCC 0.978521 -49 ********** Masking position 6 Map Score: 0.83527 Number of sites scoring better than the average of aligned sites = 36 Number in coding regions = 13 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 11 ATCCTTGATATTATGTGATGAAAAAGAAAG 1 275 0 TTATGTGATG 0.934211 -26 AATTAGACACTTATTTGATTAAATAATGAA 2 166 0 TTATTTGATT 0.94051 -135 TTAATTTCATTTAAGTGATGAAAATTTAGG 5 30 1 TTAAGTGATG 0.934211 -94 TGTTCTCCTGTTATGTAATTTATGGCAGAT 5 102 0 TTATGTAATT 0.764853 -22 TAAGTGATTTTTCATTGATTTAGTGATAAC 6 44 0 TTCATTGATT 0.80766 -57 ATACCTGATATTAAGTGATTTTTCATTGAT 6 55 0 TTAAGTGATT 0.961651 -46 TATTGTTAAATTAATTCATTTAATGACATT 9 97 0 TTAATTCATT 0.752434 -83 TTTATTTGATTTCGGCAACTA 11 2 1 TTATTTGATT 0.94051 -299 ********** Masking position 8 Map Score: 3.38066 Number of sites scoring better than the average of aligned sites = 144 Number in coding regions = 112 Number in noncoding regions = 32 Number of orfs with sites within 600 bp upstream = 30 Fraction of orfs with sites within 600 bp upstream = 0.0048185 Motif number 12 ********** No masking Map Score: -4.09683e-13 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: -4.09683e-13 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 TGATTTTTTTACAATGAAAAAGGGGGATAT 1 223 0 ACAATGAAAA 0.693117 -78 ATTTGATTAAATAATGAATAAATTCCCAAA 2 154 0 ATAATGAATA 0.50674 -147 ATCAATTACCATAACGTAGAACATT 3 78 1 ATAACGTAGA 0.832224 -15 GTGGGCAAAAATAAGGATAAAATTATGAAA 4 22 0 ATAAGGATAA 0.693114 -166 GTTTGCTTAAATATAGAAAAGATTAAATAT 4 112 0 ATATAGAAAA 0.593518 -76 GATGAGAATTATAACGCAAACGTTTGCTTA 4 133 0 ATAACGCAAA 0.924534 -55 TGATTTAGTGATAACGTTAATGCCAATTTT 6 29 0 ATAACGTTAA 0.638865 -72 GCTGATTTCTATAAGGAAGAAA 8 43 1 ATAAGGAAGA 0.863268 -12 TAATTTAACAATATCGCAAACGTTTGCTTG 9 114 1 ATATCGCAAA 0.73297 -66 ACCCCATTTTACAACGAAAAAGAAAGTGCG 10 90 0 ACAACGAAAA 0.908039 -211 TTCAGAGTGGATAACGAAGAAGAAAAAAGA 11 38 0 ATAACGAAGA 0.946934 -263 TAATAAAAATATAAAGAAAATAAACACAAA 11 169 1 ATAAAGAAAA 0.866966 -132 ********** Masking position 3 Map Score: 3.5562 Number of sites scoring better than the average of aligned sites = 377 Number in coding regions = 297 Number in noncoding regions = 80 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813 Motif number 15 ********** No masking Map Score: -4.09683e-13 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