AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00061_bsub_reg_100.orf -o00061_bsub_100.ace -a/home/amcguire/genomes/ORF_bsub.txt -z/home/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 yhfB 125 similar to 3-oxoacyl- acyl-carrier protein synthase #2 yjaX 164 similar to 3-oxoacyl- acyl-carrier protein synthase #3 yjaY 22 similar to 3-oxoacyl- acyl-carrier protein synthase #4 yjbW 102 similar to enoyl- acyl-carrier protein reductase #5 ylpC 108 ylpC #6 mmgA 137 acetyl-CoA acetyltransferase #7 accB 155 acetyl-CoA carboxylase subunit (biotin carboxyl carrier subunit) #8 yttI 300 similar to acetyl-CoA carboxylase #9 yusL 267 similar to 3-hydroxyacyl-CoA dehydrogenase Motif number 1 TTTTCAGCCTCCTTTTTCTTTTTCATA 1 6 1 AGCTCTTTTT 0.99313 -120 TTTTGTAAAAAACCTTCTTTTTAGTACCAGAT 1 61 1 AACTCTTTTT 0.976068 -65 TAGGGAAGACTCCTTTATATCTTAAATT 2 147 0 AGATCTTTAT 0.851618 -18 TGTTTGACGCAGCCTTCTTTTTTCATTCATTC 6 37 1 AGCTCTTTTT 0.99313 -101 CCGCTTGTTTAGCGGGCTTTTTTCCCTCATTC 7 11 0 AGCGCTTTTT 0.990378 -145 CCGCTAAACAAGCGGGCTTTTTGCGTTGCTGT 7 28 1 AGCGCTTTTT 0.990378 -128 CCTATGTATGAAATTTCTTTTTTTATAGGTTA 7 123 0 AAATCTTTTT 0.919987 -33 AACATTATTTTTGAATGCGCTG 8 1 1 AACTATTTTT 0.875728 -300 ACGGTACGGAAGCATACTTTTTCTTTTTCGTG 8 244 0 AGCTCTTTTT 0.99313 -57 CTGCCGCTGAAGACGGATTTTTTTTCTCTCGT 9 145 1 AGAGATTTTT 0.833888 -123 *** * ****** Masking position 8 Map Score: 18.547 Number of sites scoring better than the average of aligned sites = 294 Number in coding regions = 222 Number in noncoding regions = 72 Number of orfs with sites within 600 bp upstream = 72 Fraction of orfs with sites within 600 bp upstream = 0.0115644 Motif number 2 ATTAGTATCTGGTACTAAAAAGAAGGTTTT 1 69 0 GGTACTAAAA 0.969091 -57 TTTAGTACCAGATACTAATATCTAGTGTTA 1 80 1 GATACTAATA 0.980781 -46 ATTAGTATCAGGTACTAATTCTATCCTATT 2 89 0 GGTACTAATT 0.969091 -76 ATTAGTACCTGATACTAATAATTGATCACA 2 100 1 GATACTAATA 0.980781 -65 ATTAAGATCAGGTACTAATACT 4 91 1 GGTACTAATA 0.993422 -12 ATTAAGACTAGGTACTAATAGTAGTATATA 5 69 0 GGTACTAATA 0.993422 -40 TTTTTTATAGGTTACTACTAAAAGTACATA 7 107 0 GTTACTACTA 0.899038 -49 ********** Masking position 4 Map Score: 13.2638 Number of sites scoring better than the average of aligned sites = 3 Number in coding regions = 1 Number in noncoding regions = 2 Number of orfs with sites within 600 bp upstream = 2 Fraction of orfs with sites within 600 bp upstream = 0.000321234 Motif number 3 GTAGATAGGAATCTATGAAAAAGAAAAAGG 1 21 0 ATCTATGAAA 0.972565 -105 TTGCATTCCAATCTATGAAATTATATACTA 5 48 1 ATCTATGAAA 0.972565 -61 ACGGGCATGAATGAATGAAAAAAGAAGGCT 6 47 0 ATGAATGAAA 0.906298 -91 TCTAGTTGTCTTCTATGAATGTATGCTTTG 6 79 0 TTCTATGAAT 0.870395 -59 TCGCACTCCTATGTATGAAATTTCTTTTTT 7 132 0 ATGTATGAAA 0.97897 -24 TCGGAAAGGCTTGTATGAAATCAGATAAGG 8 53 0 TTGTATGAAA 0.97273 -248 TGTTATTTTTTTGTATGAAGCCTATAAAAG 9 212 0 TTGTATGAAG 0.928997 -56 ********** Masking position 5 Map Score: 8.55719 Number of sites scoring better than the average of aligned sites = 102 Number in coding regions = 79 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 25 Fraction of orfs with sites within 600 bp upstream = 0.00401542 Motif number 4 ACTAATAATTGATCACAACCTGATTGATCT 2 113 1 GATCACAACC 0.96609 -52 GATCACCAGCTGATGGTGAT 4 1 1 GATCACCAGC 0.965489 -102 ACGCAAAAGAGATCACCATCAGCTGGTGAT 4 12 0 GATCACCATC 0.847938 -91 ACCTTGTCCAGATGAAAAGCGCATACCGTA 4 46 0 GATGAAAAGC 0.879576 -57 ATTGTTTCTGGCTGAACACCAAAAACTTCT 5 16 0 GCTGAACACC 0.883927 -93 TTTTGAATGCGCTGTCAACCTTGTCGTTTC 8 19 1 GCTGTCAACC 0.914432 -282 CTTTTTATTCGATGACGTGCTCGGAAAGGC 8 73 0 GATGACGTGC 0.917609 -228 TTTGTCAAACGCTGTCATCCTCAATTCGAC 8 105 0 GCTGTCATCC 0.881977 -196 CTATCTGTTTGATGACATGCGGTGAAGAGA 8 171 1 GATGACATGC 0.968226 -130 TTTAACAAATGATTACCTCCCTTTTGTGAA 8 205 0 GATTACCTCC 0.863164 -96 ********** Masking position 3 Map Score: 7.12915 Number of sites scoring better than the average of aligned sites = 896 Number in coding regions = 828 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 53 Fraction of orfs with sites within 600 bp upstream = 0.00851269 Motif number 5 GAAAAAGAAAAAGGAGGCTGAAAA 1 5 0 AAGGAGGCTG 0.962587 -121 GGTATATGGAAAGGAGGCGT 2 1 0 AAGGAGGCGT 0.903732 -164 TTAAGATATAAAGGAGTCTTCCCTA 2 150 1 AAGGAGTCTT 0.618714 -15 TAGTTGTTAGAAGGAGGCTGTTTGACGCAG 6 19 1 AAGGAGGCTG 0.962587 -119 ATGAAAAAAGAAGGCTGCGTCAAACAGCCT 6 33 0 AAGGCTGCGT 0.936695 -105 GCAACGCAAAAAGCCCGCTTGTTTAGCGGG 7 27 0 AAGCCCGCTT 0.667531 -129 GCTGCTTCCCACGGCTGCTT 9 1 0 ACGGCTGCTT 0.936695 -267 GGACAATCATAATGCAGCTGCTTCCCACGG 9 17 0 AATGCAGCTG 0.806391 -251 TGTTTTTTATACTGCTGATTTTGACTTGTC 9 54 1 ACTGCTGATT 0.573981 -214 ACTCAGCATTACGGCGGCGGAAAACGGACA 9 80 0 ACGGCGGCGG 0.980438 -188 CCGCCGCCGTAATGCTGAGTCGGACCGGCA 9 90 1 AATGCTGAGT 0.573981 -178 CGCCGCGCTGACTGCCGCTGAAGACGGATT 9 134 1 ACTGCCGCTG 0.90334 -134 ********** Masking position 1 Map Score: 10.4341 Number of sites scoring better than the average of aligned sites = 2519 Number in coding regions = 2241 Number in noncoding regions = 278 Number of orfs with sites within 600 bp upstream = 188 Fraction of orfs with sites within 600 bp upstream = 0.030196 Motif number 6 AGGAATCTATGAAAAAGAAAAAGGAGGCTG 1 15 0 GAAAAAGAAA 0.969072 -111 GAAGGTTTTTTACAAAAAAAGAGAAGTGTA 1 48 0 TACAAAAAAA 0.886598 -78 TATCTGGTACTAAAAAGAAGGTTTTTTACA 1 64 0 TAAAAAGAAG 0.705821 -62 ATTGCCATGTGAAAAAAAATAGGATAGAAT 2 72 1 GAAAAAAAAT 0.820114 -93 ATGAATGAATGAAAAAAGAAGGCTGCGTCA 6 41 0 GAAAAAAGAA 0.857779 -97 GTAACCTATAAAAAAAGAAATTTCATACAT 7 122 1 AAAAAAGAAA 0.802535 -34 GACAGCGTTTGACAAAAAAAGTACAATAGT 8 119 1 GACAAAAAAA 0.959766 -182 ATATATTCACGAAAAAGAAAAAGTATGCTT 8 237 1 GAAAAAGAAA 0.969072 -64 AATGGTACGAGAGAAAAAAAATCCGTCTTC 9 153 0 GAGAAAAAAA 0.898978 -115 ATAGGCTTCATACAAAAAAATAACAAATTA 9 217 1 TACAAAAAAA 0.886598 -51 ********** Masking position 5 Map Score: 9.07771 Number of sites scoring better than the average of aligned sites = 539 Number in coding regions = 448 Number in noncoding regions = 91 Number of orfs with sites within 600 bp upstream = 98 Fraction of orfs with sites within 600 bp upstream = 0.0157404 Motif number 7 GAAAAGCGCATACCGTAGCAAACGCAAAAGAG 4 31 0 TCCGTACAAA 0.934524 -72 ATTCATTCATGCCCGTTTCAAAGCATACATTC 6 61 1 GCCGTTCAAA 0.851191 -77 CTGTCAACCTTGTCGTTTCAACACCTTATCTG 8 30 1 TTCGTTCAAC 0.898365 -271 AAAAGTATGCTTCCGTACCGTCTGATCAAGCG 8 255 1 TCCGTACGTC 0.961356 -46 AATGCCTTCCGGAACATCGTGCTTCGCT 8 283 0 TCCGGACATC 0.964903 -18 TAAAGGGAGATGCCGGTCCGACTCAGCATTAC 9 98 0 TCCGGTCGAC 0.990036 -170 CTTAAAAGATTTCCGGTTCGACTTCAATAGCT 9 246 0 TCCGGTCGAC 0.990037 -22 * ***** **** Masking position 5 Map Score: 2.68989 Number of sites scoring better than the average of aligned sites = 317 Number in coding regions = 294 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 8 ACTCTATGAGTAAGATGAACTGATAGTTTA 2 33 1 TAAGATGAAC 0.925229 -132 AAAAAGGTGAGGTGCACACAAG 3 8 1 TGAGGTGCAC 0.975386 -15 ATCTTCTGAATGAGGTGAAACC 6 126 1 TGAGGTGAAA 0.964636 -12 TCCGCTCCTGTAAGATGAACATAGTATGTA 7 83 1 TAAGATGAAC 0.925229 -73 TTTGATGACATGCGGTGAAGAGAACCCTTC 8 178 1 TGCGGTGAAG 0.964545 -123 ACTTAAGCCCGGAGGTGAAGGGAATGGTAC 9 175 0 GGAGGTGAAG 0.964545 -93 ********** Masking position 6 Map Score: 2.19676 Number of sites scoring better than the average of aligned sites = 154 Number in coding regions = 108 Number in noncoding regions = 46 Number of orfs with sites within 600 bp upstream = 47 Fraction of orfs with sites within 600 bp upstream = 0.00754899 Motif number 9 AGAGAAGTGTAGATAGGAATCTATGAAAAA 1 29 0 AGATAGGAAT 0.984737 -97 GGTTATGATATGATAGGAATTAAGATCAGG 4 73 1 TGATAGGAAT 0.962312 -30 ATAATTTCATAGATTGGAATGCAACGATTG 5 42 0 AGATTGGAAT 0.962312 -67 GAAATTTCATACATAGGAGTGCGATTGT 7 138 1 ACATAGGAGT 0.93385 -18 ********** Masking position 4 Map Score: 0.131356 Number of sites scoring better than the average of aligned sites = 38 Number in coding regions = 30 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 11 Fraction of orfs with sites within 600 bp upstream = 0.00176678 Motif number 10 AAAAAAGAAGGCTGCGTCAAACAGCCTCCTTCTA 6 26 0 GCCTAAACAG 0.921218 -112 CAAAAAGCCCGCTTGTTTAGCGGGCTTTTTTCCC 7 17 0 GCGTAGCGGG 0.958159 -139 ATCGTGCTTCGCTTGATCAGACGGTACGGAAGCA 8 262 0 GCGTAGACGG 0.991302 -39 TCATAATGCAGCTGCTTCCCACGGCTGCTT 9 7 0 GCCTCCACGG 0.932557 -261 CAGCATTACGGCGGCGGAAAACGGACAAGTCAAA 9 73 0 GCCGAAACGG 0.988265 -195 AGTCAGCGCGGCGAGCGTAAAGGGAGATGCCGGT 9 113 0 GCGGAAAGGG 0.950532 -155 CGCGCTGACTGCCGCTGAAGACGGATTTTTTTTC 9 137 1 GCCGAGACGG 0.975357 -131 TAAAAGTCGGGCAACTTAAGCCCGGAGGTGAAGG 9 184 0 GCCTAGCCCG 0.952981 -84 ** * * ****** Masking position 2 Map Score: 3.84334 Number of sites scoring better than the average of aligned sites = 402 Number in coding regions = 372 Number in noncoding regions = 30 Number of orfs with sites within 600 bp upstream = 18 Fraction of orfs with sites within 600 bp upstream = 0.0028911 Motif number 11 ********** No masking Map Score: -3.26606e-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 ********** No masking Map Score: -3.26606e-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: -3.26606e-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