AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00670_bsub_reg_300.orf -o00670_bsub_300.ace -a/home/amcguire/alignace/lib/ORF_bsub.txt -z/skink1/amcguire/genomes/bsub.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 Input sequences: #1 purE 300 phosphoribosylaminoimidazole carboxylase I #2 purC 72 phosphoribosylaminoimidazole succinocarboxamide synthetase #3 purM 101 phosphoribosylaminoimidazole synthetase #4 yloB 115 similar to calcium-transporting ATPase #5 yloC 82 similar to hypothetical proteins #6 yloD 233 similar to guanylate kinase #7 yloI 80 similar to pantothenate metabolism flavoprotein #8 def 26 polypeptide deformylase #9 thyA 300 thymidylate synthase A #10 thyB 83 thymidylate synthase B #11 ypjP 259 ypjP #12 ypiP 296 ypiP #13 yphP 106 similar to hypothetical proteins from B. subtilis #14 ilvD 288 dihydroxy-acid dehydratase #15 ypgR 59 similar to hypothetical proteins #16 bsaA 300 glutathione peroxidase #17 panB 245 ketopantoate hydroxymethyltransferase #18 ypjH 31 alternate gene name: jojH; similar to lipopolysaccharide biosynthesis-related protein #19 ypjD 300 alternate gene name: jojD #20 yqhZ 263 similar to transcription termination #21 accB 155 acetyl-CoA carboxylase subunit (biotin carboxyl carrier subunit) #22 spoIIIAC 22 spoIIIAC #23 spoIIIAA 75 spoIIIAA #24 yqhV 144 alternate gene name: yqgE #25 efp 24 elongation factor P #26 yqhS 86 similar to 3-dehydroquinate dehydratase #27 yqhR 226 yqhR #28 yqhI 300 similar to aminomethyltransferase #29 glyA 206 serine hydroxymethyltransferase #30 ywlF 156 alternate gene name: ipc-32d; similar to ribose 5-phosphate epimerase (pentose phosphate) #31 ywlE 75 alternate gene name: ipc-31d; similar to protein-tyrosine-phosphatase #32 ywlD 78 alternate gene name: ipc-30d; similar to hypothetical proteins #33 ywlC 156 alternate gene name: ipc-29d; similar to hypothetical proteins #34 ywlB 66 alternate gene name: ipc-28d #35 spoIIR 140 alternate gene name: ipc-27d, csfX Motif number 1 GGCTGCCTTTCTCTTTCTGCCCTCGTTCGGG 3 44 1 CTCTTTCTCC 0.958264 -58 CACCCTCTCATTCTTCCTGCATTCGATAATT 4 13 1 TTCTTCCTCA 0.596111 -103 ATTCCGCGGTCTCTTGCATCCTGAATCATCC 6 181 0 CTCTTGCACC 0.769881 -53 TTTTTTCATCCTTTAAAAGTA 10 73 0 TTTTTTCACC 0.945704 -11 TGCCAAATTCTTTTTTCATCCGAATACAGCG 12 234 1 TTTTTTCACC 0.945704 -63 AGGTTCTTTCTCCCCCTGTAAGAA 12 283 0 TTCTTTCTCC 0.965526 -14 CACAAAACCCCTTTTCCTTCCATTAGATAGC 19 174 1 CTTTTCCTCC 0.910809 -127 TTGCTGTTTTCTTTTTCATCCACTATAATAT 19 209 0 CTTTTTCACC 0.934548 -92 GAAATCAAGGTTTTTTTACCCTATTACCGAA 20 160 0 TTTTTTTACC 0.672726 -104 TTTCTTTCTCCTTTGATCCTCT 20 252 0 TTCTTTCTCT 0.566755 -12 TTTATTTTTGCTCCCCTCACGT 22 8 0 TTTTTGCTCC 0.866859 -15 CAGAGCCTCCTCCTTTCTACCGATTGGCTTC 23 55 0 TCCTTTCTCC 0.728072 -21 GGGAACAGACTTCTTTTTTCCTTT 24 4 0 TTCTTTTTCC 0.767731 -141 GGAGCAGGCTTTTTTTGTGCCCAAAAACAGA 24 40 1 TTTTTTGTCC 0.658845 -105 GCTATGGCAATTTTTTCAGCCTGTCAATCTA 27 89 0 TTTTTTCACC 0.945704 -138 CATAGCCTTGCTTTTCCTACATGCATTATAC 27 114 1 CTTTTCCTCA 0.546521 -113 CTGCTTTTCCTCCCAGCGTGTGTG 30 143 0 CTTTTCCTCC 0.910809 -14 TCGCCGTTTCTTTTTTCTTCATATATAATAG 31 33 1 TTTTTTCTCA 0.767027 -43 ACACGCCCCGCTTTTTTAGCCTATGCGTGTC 32 39 0 CTTTTTTACC 0.627574 -40 CGTTTTTGCGTTCTTTCTTCCAATCTATGAG 34 36 0 TTCTTTCTCC 0.965526 -31 CTTGCTAGATTTTTTTCACCCTGCACGTTTA 35 56 1 TTTTTTCACC 0.945704 -85 ******** ** Masking position 5 Map Score: 23.146 Number of sites scoring better than the average of aligned sites = 953 Number in coding regions = 823 Number in noncoding regions = 130 Number of orfs with sites within 600 bp upstream = 154 Fraction of orfs with sites within 600 bp upstream = 0.024735 Motif number 2 GAAAAATGACATAAAGGCAGCGCAGTTCGGC 3 16 1 ATAAAGGCGC 0.97158 -86 GGGCAGAAAGAGAAAGGCAGCCGAACTGCGC 3 35 0 AGAAAGGCGC 0.981987 -67 ACCGATTAACAGAAAGCCCGTGATATGAA 11 9 0 AGAAAGCCGT 0.839661 -251 TCAATCATGCGGAAAGCCTCCTTTCATGAAA 11 98 1 GGAAAGCCCC 0.876828 -162 AAAAAAAGCCCCCTCTAGTATCC 13 94 0 AAAAAGCCCC 0.925831 -13 AATAAGATAAATACAGGCCGCCCTCACCTTG 14 187 0 ATACAGGCGC 0.940234 -102 CAAAGCATGAAGAAAGCCGGCTTACATAGCC 20 75 1 AGAAAGCCGC 0.98851 -189 GAATGAGGGAAAAAAGCCCGCTAAACAAGCG 21 11 1 AAAAAGCCGC 0.977672 -145 ACAGCAACGCAAAAAGCCCGCTTGTTTAGCG 21 29 0 AAAAAGCCGC 0.977672 -127 GAGGCTTGTCATAAAGTCTGCCTCACATCAT 23 14 1 ATAAAGTCGC 0.840983 -62 TTGGGCACAAAAAAAGCCTGCTCCCATTTGG 24 33 0 AAAAAGCCGC 0.977672 -112 AAACCTCGGGATACAGGCGCCGAAGGAGCAA 28 66 1 ATACAGGCCC 0.817679 -235 ATCAAAGAGCGGACAGGCTGCGCGGTCAATA 30 95 1 GGACAGGCGC 0.879259 -62 TGCGCGGTCAATAAAGCGGGCGGGCCGCATC 30 113 1 ATAAAGCGGC 0.829557 -44 ******** ** Masking position 5 Map Score: 17.4714 Number of sites scoring better than the average of aligned sites = 530 Number in coding regions = 452 Number in noncoding regions = 78 Number of orfs with sites within 600 bp upstream = 65 Fraction of orfs with sites within 600 bp upstream = 0.0104401 Motif number 3 AGAGCGGGTATTTTTTATTTTCTGAAAACA 1 256 1 TTTTTTATTT 0.934571 -45 TTCATATCCTTCTTTCATTTTCAGTTGCTA 9 276 0 TCTTTCATTT 0.698596 -25 CAGAAATGATTTTTTTATAG 10 1 0 TTTTTTATAG 0.806613 -83 TCAGAAATGATTTTTTATTGTGTTACACTA 10 34 1 TTTTTTATTG 0.921456 -50 GGGGACACTTTCTTTTATTTTAAGGCGTGA 13 17 1 TCTTTTATTT 0.896199 -90 GATCTGCACCTTTTTTATCT 14 1 0 TTTTTTATCT 0.845729 -288 ATCATGCACCTTTTTTATGTGAATTCACTT 14 28 1 TTTTTTATGT 0.748671 -261 ATATGGCTCGTTTTTTATCTTATCATTCTA 16 156 0 TTTTTTATCT 0.845729 -145 GAGCGGCAATTTTTTCATTTGGCTTGGTTC 19 96 0 TTTTTCATTT 0.793157 -205 AAAAAACATATTTTTTATTTTAATCGGAGC 19 122 0 TTTTTTATTT 0.934571 -179 TGAAATTTCTTTTTTTATAGGTTACTACTA 21 117 0 TTTTTTATAG 0.806613 -39 AACCTCCCATTTTTTTATATGATATGCTCT 24 114 0 TTTTTTATAT 0.835482 -31 AAGTGTGAGCTTTTTTATTGACATTTCATT 27 179 1 TTTTTTATTG 0.921456 -48 GCCAGTCTTTTCTTTTATTTTAAGATAGTG 29 23 1 TCTTTTATTT 0.896199 -184 CGACTTCGTTTCTTTTATTGGTATA 31 6 0 TCTTTTATTG 0.876409 -70 ********** Masking position 7 Map Score: 13.5287 Number of sites scoring better than the average of aligned sites = 498 Number in coding regions = 290 Number in noncoding regions = 208 Number of orfs with sites within 600 bp upstream = 204 Fraction of orfs with sites within 600 bp upstream = 0.0327658 Motif number 4 CCATATTCCCAAGATTATATGAGGTCGTGTTTTG 1 76 0 AAATATGAGG 0.756203 -225 GTGATATCTCTATAAGAGAGCAGGGGAGTGGACG 4 86 1 TAAGAGCAGG 0.697998 -30 CGGTTTTGTAAAGTGCAGAGGGGGAGAATTCA 7 59 1 AAAGAGGGGG 0.927092 -22 GAAATACAGGTGTAAAAGAGGGGGATTAACTCCT 9 151 1 TGAGAGGGGG 0.903025 -150 TCAGATGAAGGATACTAGAGGGGGCTTTTTTT 13 85 1 GAAGAGGGGG 0.726167 -22 ACGAAAGAACAAAACAAGGTGAGGGCGGCCTGTA 14 173 1 AAAGGTGAGG 0.760663 -116 AAACAATTGAAAGAATTTAGGAGGATCACC 14 269 1 AATTAGGAGG 0.843064 -20 AAGTCACAGATATGCTATAGGAGGACGATC 15 40 1 TAATAGGAGG 0.953981 -20 AATCAGCACCAAGGACATAGGAGGGACTTAC 16 280 1 AAATAGGAGG 0.95872 -21 TCATCTCCTCTAAACATGAGGAGGAGAAAAC 17 225 1 TATGAGGAGG 0.885355 -21 AACATGTAAGAGGATGATAGGAGGTTTCGTTCA 19 278 1 AGATAGGAGG 0.950135 -23 GCTTAACACGAAACCAAGGGGAGGGCGGCCCTTT 20 14 1 AAAGGGGAGG 0.959672 -250 TTCTTTAAAATGTATGATGTGAGGCAGACTTTAT 23 24 0 TGATGTGAGG 0.59102 -52 AGCCAATCGGTAGAAAGGAGGAGGCTCTG 23 57 1 TAGGAGGAGG 0.819165 -19 CATATCATATAAAAAAATGGGAGGTTGGGAGAGT 24 118 1 AAATGGGAGG 0.936611 -27 TTGGAATATAGGAGGACATTAAAC 25 2 1 TGATAGGAGG 0.944468 -23 GCTGCGCCGTTGATAAAGGGGAGGAATTAG 28 281 1 TGAGGGGAGG 0.945731 -20 ATGGTACGATAGTGTTTTAGGAGGTTTAAG 35 7 0 AGTTAGGAGG 0.815067 -134 ** ******** Masking position 13 Map Score: 14.6568 Number of sites scoring better than the average of aligned sites = 453 Number in coding regions = 256 Number in noncoding regions = 197 Number of orfs with sites within 600 bp upstream = 221 Fraction of orfs with sites within 600 bp upstream = 0.0354963 Motif number 5 ACAAACCGGGCATGGTACATGTATCGTCAGT 1 201 0 CATGTACATG 0.901176 -100 TAGAGACGTCTATTTTACAGGGGGAACGTAG 6 53 1 TATTTACAGG 0.930853 -181 ATCAGTTTCATATAGTACATGACTTGCATGT 11 182 1 TATGTACATG 0.905323 -78 GAGCCAAACGCTTCTTACAGGGGGAGAAAGA 12 272 1 CTTTTACAGG 0.908775 -25 CTCCTATCATCCTCTTACATGTTAGCTAATT 19 270 0 CCTTTACATG 0.755347 -31 GCCCTTTGGTTTTTTTACACGTTACCCTTTA 20 41 1 TTTTTACACG 0.69161 -223 ATACTATGTTCATCTTACAGGAGCGGACTTG 21 79 0 CATTTACAGG 0.931087 -77 GAAGTGAACATTTTTTACATGAGAAACCCTC 26 48 1 TTTTTACATG 0.894105 -39 CCTTTCACTCTATTGTACAGGAAACACCGCT 27 51 1 TATGTACAGG 0.917198 -176 TAGCCTTGCTTTTCCTACATGCATTATACCC 27 116 1 TTTCTACATG 0.663614 -111 AGAGAACCTTCATTTTACATGAGGTGTTTCT 28 226 1 CATTTACATG 0.918512 -75 TTACCATCACTATTGTACATGGTTTTTAAGG 29 147 0 TATGTACATG 0.905323 -60 TAACGCTTGTTTTATTACAGGACATCTTTTA 33 69 1 TTTTTACAGG 0.907243 -88 *** ******* Masking position 7 Map Score: 10.3214 Number of sites scoring better than the average of aligned sites = 142 Number in coding regions = 99 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 49 Fraction of orfs with sites within 600 bp upstream = 0.00787022 Motif number 6 CCGTAAATTGCCGGACTATGCAGGAAAGTG 1 132 1 CCGGACTATG 0.910855 -169 TTCTAAGCCGCCGCAGTTTGAAAATTCCCA 2 30 1 CCGCAGTTTG 0.98351 -43 GATTGTCAGCCCGGAGTCTGCGCCAATCAA 6 149 1 CCGGAGTCTG 0.965892 -85 TTCAAATAGTCAGGTGTTTGTGTATACC 9 9 0 CAGGTGTTTG 0.879572 -292 AATGTTATCAACGGTGTATGTACCAAACTG 9 83 1 ACGGTGTATG 0.70439 -218 TTTATTCCGGCCGCAGTATGGCATATTTAG 12 118 0 CCGCAGTATG 0.969028 -179 ACAGCTCAAACCGCTCTTTGCCGACCACAA 12 191 0 CCGCTCTTTG 0.931961 -106 ATAGACATTGCAGCAGTCTGCCTTGATCCA 17 91 1 CAGCAGTCTG 0.893227 -155 GAGATTCACTCCGCAGTTTGCTCCTTCGGC 28 84 0 CCGCAGTTTG 0.98351 -217 CGCAGCCTGTCCGCTCTTTGATTCACACCA 30 87 0 CCGCTCTTTG 0.931961 -70 TGTTGTGAATAAGGAGTTTGGTCAGAA 33 140 1 AAGGAGTTTG 0.656169 -17 ********** Masking position 7 Map Score: 10.1448 Number of sites scoring better than the average of aligned sites = 304 Number in coding regions = 284 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 7 CTGTTCTCATAATAAAAGGGCAATAGACAC 5 42 0 AATAAAAGGG 0.688946 -41 AGTCTGCGCCAATCAAACGGATGATTCAGG 6 163 1 AATCAAACGG 0.608401 -71 ATACAGGTGTAAAAGAGGGGGATTAACTCC 9 154 1 AAAAGAGGGG 0.681468 -147 CGGCCGGAATAAACAAACGGTTGAGCACCT 12 135 1 AAACAAACGG 0.837619 -162 GCTGTATACGAAACAAGGTGCCAAATTCTT 12 216 1 AAACAAGGTG 0.879961 -81 AGATAAAAAAGGTGCAGATCATGC 14 5 1 AAAAAAGGTG 0.820105 -284 GAATTCACATAAAAAAGGTGCATGATCTGC 14 24 0 AAAAAAGGTG 0.820105 -265 CGAAAGAACAAAACAAGGTGAGGGCGGCCT 14 174 1 AAACAAGGTG 0.879961 -115 AACAGCCCATAAATAAACTGAAAATTGTCA 14 224 1 AAATAAACTG 0.262793 -65 AGTATACCAAAATCAACGGGCTTGTACCAA 17 15 0 AATCAACGGG 0.668523 -231 CTTAACACGAAACCAAGGGGAGGGCGGCCC 20 15 1 AACCAAGGGG 0.895214 -249 CGTGTAAAAAAACCAAAGGGCCGCCCTCCC 20 32 0 AACCAAAGGG 0.747007 -232 TCATGCTTTGAAATAAAGGGTAACGTGTAA 20 55 0 AAATAAAGGG 0.792275 -209 AAAGCCCGCTAAACAAGCGGGCTTTTTGCG 21 23 1 AAACAAGCGG 0.937206 -133 ATATCATATAAAAAAATGGGAGGTTGGGAG 24 119 1 AAAAAATGGG 0.604227 -26 TAAAATTTGAAAATAACGGGTATAATGCAT 27 134 0 AAATAACGGG 0.683523 -93 CTGCGCGGTCAATAAAGCGGGCGGGCCGCA 30 112 1 AATAAAGCGG 0.736533 -45 TAATAGAGAAAAATAAGGGGTGACTGAC 31 58 1 AAATAAGGGG 0.916913 -18 CGCATAGGCTAAAAAAGCGGGGCGTGTCCA 32 43 1 AAAAAAGCGG 0.90274 -36 GAAAGAACGCAAAAACGGGGTGAACGG 34 50 1 AAAAACGGGG 0.681468 -17 ********** Masking position 2 Map Score: 16.6301 Number of sites scoring better than the average of aligned sites = 841 Number in coding regions = 662 Number in noncoding regions = 179 Number of orfs with sites within 600 bp upstream = 188 Fraction of orfs with sites within 600 bp upstream = 0.030196 Motif number 8 AAAAGCGCCTTAAAGGAGTGAATAGG 3 86 1 TAAAGGGTGA 0.94629 -16 ATAAGCATGCTTATAGAGTGATATCTCTATA 4 69 1 TTATAGGTGA 0.68744 -47 ATCTTAGGGGTAATAGCGTGTCTATTGCCCT 5 25 1 TAATAGGTGT 0.54119 -58 TTTGCAGTTTTTATGGTGTGTTCAGACGGTC 12 71 0 TTATGGGTGT 0.836448 -226 TTCTTTTATTTTAAGGCGTGAACATTTGAAA 13 26 1 TTAAGGGTGA 0.938303 -81 ATAGATTGAAAATTGGCGTGAAAATTCCT 16 9 0 AATTGGGTGA 0.612069 -292 CTGTGAAACCAAAAGGCGTGTCAGTGCGTTT 16 82 0 AAAAGGGTGT 0.904296 -219 AATAATCATATTAAGGTGTGTGAAAATATTC 20 132 1 TTAAGGGTGT 0.87563 -132 AACCCTCGCGAAAAGGAGAGATTGT 26 72 1 AAAAGGGAGA 0.684746 -15 CGCAGCTGCCAAAAAGTGTGAGCTTTTTTAT 27 166 1 AAAAAGGTGA 0.802508 -61 AAAGCACATCATATGGTGTGAATCAAAGAGC 30 74 1 ATATGGGTGA 0.927526 -83 ATAGAGAAAAATAAGGGGTGACTGAC 31 60 1 ATAAGGGTGA 0.94629 -16 AAGAACGCAAAAACGGGGTGAACGG 34 52 1 AAACGGGTGA 0.844265 -15 ****** **** Masking position 6 Map Score: 6.31221 Number of sites scoring better than the average of aligned sites = 309 Number in coding regions = 202 Number in noncoding regions = 107 Number of orfs with sites within 600 bp upstream = 132 Fraction of orfs with sites within 600 bp upstream = 0.0212014 Motif number 9 GTTTTTACACAAAGTGCATAGCAACGAATCTCC 11 139 1 AATGCAAGCA 0.970658 -121 CGAATCTCCTAATTTGCATATCAGTTTCATATA 11 163 1 AATGCAATCA 0.975552 -97 GCACATCCAAAACATGCAAGTCATGTACTATAT 11 191 0 AATGCAGTCA 0.924689 -69 CACACCATAAAAACTGCAAAGCAGCTTTCTAAA 12 82 1 AATGCAAGCA 0.970658 -215 AGATAAAAAAGGTGCAGATCATGCACCTTTT 14 9 1 AATGCAATCA 0.975552 -280 TTGCAGAAGAAAACGGCAGATCATCTCCTCTAA 17 205 1 AAGGCAATCA 0.924689 -41 GGTTCATTTCAATATGCAGAACAATCTGGCTGA 19 68 0 AATGCAAACA 0.923829 -233 ** **** **** Masking position 8 Map Score: 3.45364 Number of sites scoring better than the average of aligned sites = 50 Number in coding regions = 44 Number in noncoding regions = 6 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701 Motif number 10 TCGTTGACATTATCCATGTCCGTTGTTAAGATAAAC 1 33 1 TATCCTCTGT 0.922461 -268 TTCTGCGATATATCCATGTCAGTTTTATCGATCACT 1 158 0 TATCCTCTTT 0.978162 -143 GTGAGGATCTTATTCCACTCACTGTGTGTTTAAAGA 9 184 0 TATTCTCTTG 0.823018 -117 GACTATTCATATCCTTCTTTCATTTTCAG 9 282 0 TATTCTCTTT 0.94597 -19 GACTGCTTATTCCTCTCTATTTTATTGTCATGT 11 237 0 TATTCTCTTT 0.94597 -23 TTCATCCCTCTGTCCCAGTCCTTTTTTGGATCAAGG 17 111 0 TGTCCTCTTT 0.922461 -135 CTCCTATCCGTATCCTGTTCTTTGTTTTTACCATCA 29 169 0 TATCCTCTTT 0.978162 -38 TACACATACTTATCCACTTCTTTATTAGCGTTGTCC 33 21 1 TATCCTCTTT 0.978162 -136 ***** ** * ** Masking position 9 Map Score: 2.89201 Number of sites scoring better than the average of aligned sites = 28 Number in coding regions = 20 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555 Motif number 11 TCATGATGTGCTTGGGGGCGAACA 18 18 1 CTTGGGGGCG 0.883146 -14 CCTGCTCCCATTTGGGAACAGACTTCTTTT 24 18 0 TTTGGGAACA 0.866297 -127 AGATTCTGTTTTTGGGCACAAAAAAAGCCT 24 45 0 TTTGGGCACA 0.971239 -100 CATTTCATTTTTTGGGCACACTTTAACTGG 27 200 1 TTTGGGCACA 0.971239 -27 GCAAACCACCTTTGGGGACGTCTTTGCGTA 28 168 1 TTTGGGGACG 0.973333 -133 TCTAACCCTTTTTGGACACGCATAGGCTAA 32 25 1 TTTGGACACG 0.950103 -54 AAATAACCCCCTTGGACACGCCCCGCTTTT 32 55 0 CTTGGACACG 0.927591 -24 ********** Masking position 3 Map Score: 2.26732 Number of sites scoring better than the average of aligned sites = 55 Number in coding regions = 46 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 13 Fraction of orfs with sites within 600 bp upstream = 0.00208802 Motif number 12 ACAATCGAAATCATCCGATTGGCGGAGATGA 6 124 0 TCATCCGTTG 0.986735 -110 GCATCCTGAATCATCCGTTTGATTGGCGCAG 6 166 0 TCATCCGTTG 0.986743 -68 GGGTTCTTCGTCCGTATGTAGCGTCAAT 6 216 0 TCGTCCGATG 0.922151 -18 CAGCAGGTGCTCAACCGTTTGTTTATTCCGG 12 138 0 TCAACCGTTG 0.97005 -159 AATTCTTTTTTCATCCGAATACAGCGATGTT 12 239 1 TCATCCGATA 0.807702 -58 TTGATCCTCTTTATCCGCTTGTCGTTAAGCC 20 231 0 TTATCCGTTG 0.906184 -33 CCTCCTCCTTTCTACCGATTGGCTTCTTTAA 23 50 0 TCTACCGTTG 0.888787 -26 ******* *** Masking position 10 Map Score: 2.65768 Number of sites scoring better than the average of aligned sites = 166 Number in coding regions = 157 Number in noncoding regions = 9 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 13 TGGCCCATAAGTTTCTACCCGGCAACCGTAAATTGCCGGACT 1 107 1 GTTTGCAAAA 0.78656 -194 CTTCTAATGCTTTTGTTTTCAGAAAATAAAAAATACCCGCTC 1 257 0 TTTTGAAAAA 0.858427 -44 TACGGCTTCTTCTAAGCCGCCGCAGTTTGAAAATTCCCAACA 2 21 1 TCTAGCAAAA 0.478203 -52 CCCTCTGCACTTTACAAAACCGCACGGAAAAAAATAACAACC 7 39 0 TTTAGCAAAA 0.793564 -42 CTATTTGAATTTTTATGTACCGCAATATCAAACCATTTCGTA 9 30 1 TTTTGCAAAA 0.964006 -271 AATTGTAATGTTTTATAGAATGATAAGATAAAAAACGAGCCA 16 141 1 TTTTGATAAA 0.628478 -160 TTATTTTACCTTTTTTAAATCGCAATTCAAAATGTAAACATC 16 240 0 TTTTGCAAAA 0.598452 -61 TAACGGAAGGTTTTTTGGCTTGCAGAAGAAAACGGCAGATCA 17 186 1 TTTTGCAAAA 0.955725 -60 GGAAAAGGGGTTTTGTGTGATGCTTGGAGAAATTAGATTAAA 19 149 0 TTTTGCTAAA 0.886537 -152 AGCGTTTATATTATAGTGGATGAAAAAGAAAACAGCAAACGT 19 202 1 TTATGAAAAA 0.610292 -99 CACGTTACCCTTTATTTCAAAGCATGAAGAAAGCCGGCTTAC 20 58 1 TTTAGCAAAA 0.878414 -206 TAACATATTTTTTTCGTATCCGCATATTGAAATCAAGGTTTT 20 177 0 TTTTGCAAAA 0.956748 -87 TATTTTCAAATTTTACTCGCAGCTGCCAAAAAGTGTGAGCTT 27 149 1 TTTTGCTAAA 0.886421 -78 TTCCTCCCCTTTATCAACGGCGCAGCTAAAAAACATACAAAA 28 265 0 TTATGCAAAA 0.866578 -36 TTTTTCTCTATTATATATGAAGAAAAAAGAAACGGCGACTTC 31 29 0 TTATGAAAAA 0.610293 -47 CGCCCCGCTTTTTTAGCCTATGCGTGTCCAAAAAGGGTTAGA 32 25 0 TTTTGCGAAA 0.820794 -54 **** *** *** Masking position 20 Map Score: 13.5671 Number of sites scoring better than the average of aligned sites = 280 Number in coding regions = 217 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 71 Fraction of orfs with sites within 600 bp upstream = 0.0114038 Motif number 14 TCTGTTCCCCACCTTCTAATGCT 1 288 0 GTTCCCCACC 0.973577 -13 TTTGTTACCCTCCAAGACGTGAG 8 14 0 GTTACCCTCC 0.861561 -13 AGTGGAATAAGATCCTCACTTTATCTGCAA 9 201 1 GATCCTCACT 0.798299 -100 GAAAACGGCAGATCATCTCCTCTAAACATG 17 213 1 GATCATCTCC 0.83749 -33 CAGCGAGATCCTCTCCTATCCGTATC 29 191 0 GATCCTCTCC 0.975449 -16 GGTCCCCACCGTTCCTCTCCGTGCTTTGTT 35 120 0 GTTCCTCTCC 0.975449 -21 CGGTCCCCACCGTTCCTCTCC 35 130 0 GGTCCCCACC 0.955749 -11 ********** Masking position 3 Map Score: 2.03559 Number of sites scoring better than the average of aligned sites = 125 Number in coding regions = 97 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 29 Fraction of orfs with sites within 600 bp upstream = 0.00465789 Motif number 15 TTCTGAAAACAAAAGCATTAGAAGGTGGGGAA 1 275 1 AAAAGCATAA 0.744826 -26 AGATATTTTGAAAAGCGCCTTAAAGGAGTGAA 3 76 1 AAAAGCGCTA 0.621975 -26 TTCTCATAATAAAAGGGCAATAGACACGCTAT 5 37 0 AAAAGGGCAA 0.947255 -46 TTGCGATTTAAAAAAGGTAAAATAATCAGCAC 16 257 1 AAAAAGGTAA 0.545855 -44 GCTGATGTGGAAAAGGGCATAAAGCAAAAGTG 19 16 1 AAAAGGGCTA 0.840154 -285 GGCATAAAGCAAAAGTGTAATACCTGTAAAAC 19 31 1 AAAAGTGTAA 0.608733 -270 GCTAACATGTAAGAGGATGATAGGAGGTTTCG 19 275 1 AAGAGGATAA 0.763674 -26 AATATTCGGTAATAGGGTAAAAAAACCTTGAT 20 156 1 AATAGGGTAA 0.815635 -108 CAAGCGGATAAAGAGGATCAAAGGAGAAAGAA 20 241 1 AAGAGGATAA 0.763674 -23 ATCATACTGGAAAAGGATTATACA 26 3 0 AAAAGGATAA 0.903138 -84 GAATATAGTGAAAAGCACATCATATGGTGTGA 30 63 1 AAAAGCACTA 0.437247 -94 TGCGTGTCCAAAAAGGGTTAGAACATCTGACT 32 15 0 AAAAGGGTAA 0.951796 -64 TTATACTTTCAAAAGGATTACACGCGTAAAAC 33 97 1 AAAAGGATAA 0.903138 -60 CCTTGTCCATAATAGGGCTAGAAACAAAGCAC 35 98 1 AATAGGGCAA 0.80095 -43 ******** * * Masking position 4 Map Score: 5.26522 Number of sites scoring better than the average of aligned sites = 392 Number in coding regions = 311 Number in noncoding regions = 81 Number of orfs with sites within 600 bp upstream = 96 Fraction of orfs with sites within 600 bp upstream = 0.0154192