AlignACE version 2.2 July 7, 1998 alignACE -a/home/amcguire/alignace/lib/ORF_bsub.txt -z/skink1/amcguire/genomes/bsub.fna -imalT_bsub_opreg_300.orf -g0.435 -x5 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 = 0.435 maxlen = 30 weight = 0.8 exclude = 0 Input sequences: #1 glgD 23 ADP-glucose pyrophosphorylase #2 glgB 300 1,4-alpha-glucan branching enzyme #3 yurJ 181 similar to multiple sugar ABC transporter (ATP-binding protein) #4 yurN 57 similar to sugar permease #5 yurO 80 similar to multiple sugar-binding protein #6 yurP 215 similar to opine catabolism #7 yurQ 102 yurQ #8 yurR 300 similar to opine catabolism #9 yvfL 39 similar to maltodextrin transport system permease #10 yvfK 140 similar to maltose/maltodextrin-binding protein #11 lacR 179 transcriptional regulator (LacI family) #12 yvfI 300 similar to transcriptional regulator (GntR family) #13 yvdH 39 similar to maltodextrin transport system permease #14 yvdG 95 similar to maltose/maltodextrin-binding protein #15 yvdF 112 similar to glucan 1,4-alpha-maltohydrolase #16 yvdE 205 similar to transcriptional regulator (LacI family) #17 yvdD 116 similar to hypothetical proteins #18 msmX 120 multiple sugar-binding transport ATP-binding protein #19 yxkF 183 similar to hypothetical proteins Motif number 1 AAGAAAAACGAAATATATGGAGATTTTTGTAG 2 166 0 AAATATAGGG 0.958403 -135 ACTATAAATGAAAACTATGATGTCAGAAAGGA 2 272 1 AAAACTAGAG 0.722099 -29 TAACGGGTCAAAAGATAGGGGGACTTTTCTG 3 161 1 AAAGATAGGG 0.973667 -21 ATCAAAGAAAAGGTGAAGCTTCGCA 4 4 1 AAAGAAAGGG 0.977187 -54 TCCTTTATAAAAAGAAAAGGTGCGAAGCTTCA 4 24 0 AAAGAAAGGG 0.977187 -34 ACGTTATATAATAAAAACGAGGAGTGAAGGAT 6 194 1 ATAAAAAGAG 0.610436 -22 ATCTTTAATGAAAAAGAGGACGTGAACTGATT 7 81 1 AAAAAGAGAG 0.879505 -22 CACTATCAATAGAGAAAGGATGATACCATGAG 8 148 0 AGAGAAAGAG 0.71443 -153 AGACATTATAATAGAAAAGGTGTTTGCAT 8 282 1 ATAGAAAGGG 0.91418 -19 TAAAACAAAAAAATATATGAAGAAGTAGCGGA 12 134 1 AAATATAGAG 0.9022 -167 TTCTGCGCTAAAAGCGATGGGGCTTGTCGAA 12 280 1 AAAGCGAGGG 0.959522 -21 GCGTCCGGAAGAATAGAGGGCGGAAAA 13 23 1 GAATAGAGGG 0.77619 -17 ATAGTTTCGTAAATAGAAGGAGGAAAAGAG 14 76 1 AAATAGAGGG 0.968671 -20 AATAAAACGGAAATCAAAGGGGGAAAC 15 96 1 AAATCAAGGG 0.92728 -17 TATTACTGCTAAATATACGATGCAGGCCAAAG 16 132 0 AAATATAGAG 0.9022 -74 GATAATAAGCACAGATAAGGAGGGGATGAAA 16 185 1 ACAGATAGGG 0.843594 -21 AGCGTTTACAATAACAAAGGGGGATGTTAG 18 101 1 ATAACAAGGG 0.651528 -20 GCTTCAGCGGAAATAGAAGAAGACATGCAGGA 19 29 0 AAATAGAGAG 0.92526 -155 ******* ** * Masking position 7 Map Score: 19.3026 Number of sites scoring better than the average of aligned sites = 804 Number in coding regions = 615 Number in noncoding regions = 189 Number of orfs with sites within 600 bp upstream = 227 Fraction of orfs with sites within 600 bp upstream = 0.03646 Motif number 2 CCTGCAAGGTTTTTTTGTTTTTATAAATCA 2 97 1 TTTTTTGTTT 0.865233 -204 TTAGATTTTGTTCTTTATTTTAAAAACAGA 2 136 1 TTCTTTATTT 0.952646 -165 GAAAGGGCTTTTTTTTATTTCTTCGAATAA 2 240 1 TTTTTTATTT 0.956744 -61 TGACATCATAGTTTTCATTTATAGTATTTA 2 267 0 GTTTTCATTT 0.85379 -34 CAAATTTACATTTTTTATTTTAGAAATATA 3 68 1 TTTTTTATTT 0.956744 -114 TGCATAATGGTTCTTCATTTTCAGA 5 6 0 TTCTTCATTT 0.948181 -75 TTCACTCCTCGTTTTTATTATATAACGTTA 6 192 0 GTTTTTATTA 0.546437 -24 TCACGTCCTCTTTTTCATTAAAGATAAATG 7 76 0 TTTTTCATTA 0.790582 -27 CGCGTCTGTTTTCTTCATTTTCATGACGAT 8 113 1 TTCTTCATTT 0.948181 -188 CACTAAGTCATTTTTTATTTAGGTAAAAAA 10 24 1 TTTTTTATTT 0.956744 -117 CTTCATATATTTTTTTGTTTTAATCTGTTT 12 126 0 TTTTTTGTTT 0.865233 -175 CATCCGCTACTTCTTCATATATTTTTTTGT 12 138 0 TTCTTCATAT 0.660699 -163 GGGAAATCTCTTTTTTATTTCTCTTTGGCC 16 110 1 TTTTTTATTT 0.956744 -96 CACTCCTGCATTCTTTATGTATTTCATATT 17 17 1 TTCTTTATGT 0.760367 -100 ********** Masking position 5 Map Score: 15.9605 Number of sites scoring better than the average of aligned sites = 688 Number in coding regions = 492 Number in noncoding regions = 196 Number of orfs with sites within 600 bp upstream = 203 Fraction of orfs with sites within 600 bp upstream = 0.0326052 Motif number 3 CTATAAGTATAAGCGCTTTCAGGAAAGGGC 2 218 1 AAGCGCTTTC 0.992301 -83 AAATAAAAAAAAGCCCTTTCCTGAAAGCGC 2 230 0 AAGCCCTTTC 0.949514 -71 GAAAAGCTAGAACAGCTTTATTATATTTGT 7 29 0 AACAGCTTTA 0.691516 -74 TTACCAAATCAAATGCTTTCCTTCGACCTT 8 245 0 AAATGCTTTC 0.792437 -56 ATTATCTTTAAAGCGCTTTCATTCCTACCG 10 106 1 AAGCGCTTTC 0.992301 -35 GGCGCTTGCTGAGAGCTTTCAAGTCAGCCG 12 229 1 GAGAGCTTTC 0.85996 -72 GCGGTTCGCGAAGCACTTTCTGCGCTAAAA 12 263 1 AAGCACTTTC 0.957222 -38 AAGCGGTTACAACAACTTTCGATTTGTTAC 14 24 0 AACAACTTTC 0.831097 -72 AAGTTGTTGTAACCGCTTTCTATAGGACAA 14 36 1 AACCGCTTTC 0.985198 -60 AGAAATAAAAAAGAGATTTCCCTTAAGGAA 16 102 0 AAGAGATTTC 0.81315 -104 TTGTTATTGTAAACGCTTTCTTATATTGAG 18 88 0 AAACGCTTTC 0.966154 -33 ********** Masking position 2 Map Score: 14.5131 Number of sites scoring better than the average of aligned sites = 498 Number in coding regions = 414 Number in noncoding regions = 84 Number of orfs with sites within 600 bp upstream = 79 Fraction of orfs with sites within 600 bp upstream = 0.0126887 Motif number 4 TGGAGATTTTTGTAGTCTGTTTTTAAAATAAAG 2 148 0 TGTATCTTTT 0.811114 -153 GTAGCCTCCTTTTAACCTATTATTTATATTATA 3 14 1 TTTACCTTAT 0.546981 -168 TTATTTATATTATAATGTATTATGACGTTATAA 3 33 1 TATATGTTAT 0.947066 -149 TGCATTAGACTATAATGTTATATAACATTATAG 5 32 1 TATATGTTAT 0.947066 -49 TATATAACATTATAGTCTAATGTCCAGAGGAGG 5 50 1 TATATCTTGT 0.803579 -31 TATAACATTATATATTGTTATATTAAAGTCCGC 6 159 0 TATATGTTAT 0.947066 -57 GTTTTTATTATATAACGTTATATAACATTATAT 6 179 0 TATACGTTAT 0.849678 -37 GTCCAATCTCTTTACTCTCCTATCGAATATCCT 8 182 0 TTTATCTTAT 0.792608 -119 CCTTTTCTATTATAATGTCTATTCATTTTACCA 8 269 0 TATATGTATT 0.580366 -32 TACGATCTATTATACTCTGTTTTGTGGGCCGCC 12 49 0 TATATCTTTT 0.917957 -252 CTATAACAATTGTATTGTCCTATAGAAAGCGGT 14 47 0 TGTATGTTAT 0.872881 -49 TGGGACAATATATAGTGTGTTTTTGAATGTTTA 17 65 1 TATATGTTTT 0.928552 -52 CTATACCGGATATACTCTTTTTTAGTGGAGAAC 19 105 1 TATATCTTTT 0.917957 -79 **** *** *** Masking position 4 Map Score: 8.92559 Number of sites scoring better than the average of aligned sites = 90 Number in coding regions = 59 Number in noncoding regions = 31 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 5 TGTCTTAGATTTTGTTCTTTATTTTAAAAACAGACTACAA 2 132 1 TTTTTTTAAA 0.894704 -169 TCTCCATATATTTCGTTTTTCTTCAGAAAATGAAGTTAAT 2 175 1 TTTTTTCAAA 0.940462 -126 GAAAGGGCTTTTTTTTATTTCTTCGAATAAATACTATAAA 2 240 1 TTTTTTCAAA 0.940193 -61 GGTAGCCTCCTTTTAACCTATTATTTATATTATAATGTAT 3 13 1 TTTATTTAAT 0.481913 -169 CGATTCCCATTTTTGCTATATTTCTAAAATAAAAAATGTA 3 74 0 TTTCTTCAAT 0.89777 -108 ATATAGACCCTTTGTCTGTCATCCGAATAAATTATTGAGA 6 87 1 TTTCTTCAAA 0.977271 -129 TCCTTCGACCTTTTGCCCTAATGTGGAAAAACCGCGAAGT 8 217 0 TTTCTTTAAA 0.957965 -84 TAGTAAAATATTTTACTTTCTTTTTCACAAATGTCAAGTG 11 116 0 TTTCTTTAAA 0.958552 -64 GCCAAAAGATTTTGACTATTTTGTCAAAAAGTCTTGTACT 12 12 0 TTTCTTTAAA 0.958554 -289 TTACAACAACTTTCGATTTGTTACCGATAACAGAATG 14 8 0 TTTATTCAAA 0.894369 -88 GAACAATCCTTTTCACCCTGTTACCGATAACAGAATAAGG 15 14 0 TTTCTTCAAA 0.977272 -99 GTTCCCACAATTTCATCATGATACTTTCAAACTATGAGCC 15 50 1 TTTTTTCTAA 0.627024 -63 AATAGAGGACTTTATCACTAGTTTGGATAATAAGCACAGA 16 160 1 TTTCTTTAAA 0.958525 -46 *** * * * * * ** Masking position 19 Map Score: 13.837 Number of sites scoring better than the average of aligned sites = 187 Number in coding regions = 121 Number in noncoding regions = 66 Number of orfs with sites within 600 bp upstream = 72 Fraction of orfs with sites within 600 bp upstream = 0.0115644 Motif number 6 ACCGCCCTTTCACGGCGGTAACACGGGTTCGAAT 2 32 1 CACGCGGAAC 0.980634 -269 AAAAGTCCAAAACAGCGGTAATGCAAAAGTCGTG 8 66 0 AACGCGGAGC 0.997474 -235 GGACTTTTGCCACTGCCGCATCGCGTCTGTTTTC 8 92 1 CACGCCGAGC 0.989358 -209 ATCATTCGGAACCGGCGGAATTGCCCGGGAAATG 11 17 0 ACCGCGGAGC 0.993121 -163 GTGCTTCGCGAACCGCTGAACGGCTGACTTGAAA 12 245 0 AACGCTGAGC 0.986955 -56 AACGGCGGGATAGCGTCCGGAAGA 13 1 1 AACGCGGAGC 0.997474 -39 *** **** * ** Masking position 10 Map Score: 6.01334 Number of sites scoring better than the average of aligned sites = 35 Number in coding regions = 30 Number in noncoding regions = 5 Number of orfs with sites within 600 bp upstream = 6 Fraction of orfs with sites within 600 bp upstream = 0.000963701 Motif number 7 TTACTGAAGAGGGGGCAGAGTCA 1 3 1 ATGAAGGCAT 0.983986 -21 CATACAGAAAAGAAAAGCTAGAACAGCTTTATTATATTT 7 31 0 AAAAAGGCAT 0.715251 -72 TCGTGGTCAGCGTGAACACAGATCAGGATCAGGCACAGG 8 32 0 CTGAACGCAT 0.980478 -269 GTGGAAAAACCGCGAAGTTCGTCCAATCTCTTTACTCTC 8 196 0 CCGAAGGCAT 0.982203 -105 TCAGCAAGCGCCTGAACAGAGTCCAGTTTATCCCCCGGC 12 202 0 CTGAACGCAT 0.980478 -99 TTTCCGTTTTATTGAAGCCGGCTCATAGTTTGAAAGTAT 15 70 0 ATGAAGGCAT 0.983985 -43 GATATTATCACATGAAGATGGGACAATATATAGTGTGTT 17 47 1 CTGAAGGCAT 0.989844 -70 TGGGTGATTTTATGAACGCTGCCCATTTTAGCGAGAGGG 18 36 1 TTGAACGCAT 0.905877 -85 GACATGCAGGACCAAAGGAGGGTCATCTT 19 1 0 ACAAAGGCAT 0.872634 -183 * ***** * ** * Masking position 6 Map Score: 5.28593 Number of sites scoring better than the average of aligned sites = 95 Number in coding regions = 81 Number in noncoding regions = 14 Number of orfs with sites within 600 bp upstream = 17 Fraction of orfs with sites within 600 bp upstream = 0.00273049 Motif number 8 TGACTCTGCCCCCTCTTCAGTA 1 12 0 TGCTCTGCCC 0.990952 -12 TTCTCCGTCTTGTGACTGCGCCTGTGCCTGAT 8 12 1 TGGACTGCGC 0.988149 -289 TTTGGACTTTTGCCACTGCCGCATCGCGTCTG 8 89 1 TGCACTGCCC 0.990952 -212 TACGAACAACTGAGACTGAGCCGCAAATGGTT 11 50 1 TGGACTGAGC 0.928052 -130 TGTATCTGCCTCCATTATTCAG 11 168 0 TGATCTGCCC 0.975699 -12 GTGGAGAGAATGAGTCTGCCACCTAGCGTATG 16 32 1 TGGTCTGCCC 0.99377 -174 ** ******* * Masking position 7 Map Score: 4.85711 Number of sites scoring better than the average of aligned sites = 56 Number in coding regions = 48 Number in noncoding regions = 8 Number of orfs with sites within 600 bp upstream = 8 Fraction of orfs with sites within 600 bp upstream = 0.00128493 Motif number 9 CCGTGAAAGGGCGGTGTCTTAACCGCTTGA 2 17 0 GCGGTGTCTT 0.746379 -284 ATAAGTATAAGCGCTTTCAGGAAAGGGCTT 2 220 1 GCGCTTTCAG 0.895472 -81 GAAACAACTTGGTCTTTCTGTTATTTTTAG 3 120 0 GGTCTTTCTG 0.871625 -62 CTTGACTTAAGCTCTGGCTTCGCTGTTCAA 6 27 0 GCTCTGGCTT 0.965124 -189 CTTAAGTCAAGTTCTGGCTTTTGATTTGGG 6 46 1 GTTCTGGCTT 0.707406 -170 TGTTTGTCATGCTCTTACTTA 7 2 0 GCTCTTACTT 0.787038 -101 TATCTTTAAAGCGCTTTCATTCCTACCGAA 10 108 1 GCGCTTTCAT 0.84258 -33 TGCACAAAGCCCTCTGGCTGCCATGTAAAA 11 88 0 CCTCTGGCTG 0.83799 -92 GTAACTTGTAGGTCTGGCTGTTTACGATCT 12 74 0 GGTCTGGCTG 0.913457 -227 CTCTGTTCAGGCGCTTGCTGAGAGCTTTCA 12 220 1 GCGCTTGCTG 0.980884 -81 GGTTCGCGAAGCACTTTCTGCGCTAAAAGC 12 265 1 GCACTTTCTG 0.855389 -36 GTTATTGTAAACGCTTTCTTATATTGAGTG 18 86 0 ACGCTTTCTT 0.653054 -35 ********** Masking position 5 Map Score: 4.3555 Number of sites scoring better than the average of aligned sites = 1286 Number in coding regions = 1181 Number in noncoding regions = 105 Number of orfs with sites within 600 bp upstream = 94 Fraction of orfs with sites within 600 bp upstream = 0.015098 Motif number 10 TTTATTTTAGAAATATAGCAAAAATGGGAA 3 81 1 AAATATAGCA 0.834869 -101 CGATTACTCTAAAAATAACAGAAAGACCAA 3 112 1 AAAAATAACA 0.765748 -70 GACTATAATGTTATATAACATTATAGTCTA 5 37 0 TTATATAACA 0.861688 -44 CCGCGGACTTTAATATAACAATATATAATG 6 157 1 TAATATAACA 0.951703 -59 TTATATAACGTTATATAACATTATATATTG 6 175 0 TTATATAACA 0.861688 -41 GCTTTAAAGATAATATAGCATGCCTGAGAA 10 90 0 TAATATAGCA 0.905461 -51 TAAAATATTTTACTAAAACAATGCGAGCTG 11 141 1 TACTAAAACA 0.71942 -39 CTATTTACGAAACTATAACAATTGTATTGT 14 62 0 AACTATAACA 0.895083 -34 AGAAAGCGTTTACAATAACAAAGGGGGATG 18 97 1 TACAATAACA 0.837125 -24 ********** Masking position 5 Map Score: 2.79344 Number of sites scoring better than the average of aligned sites = 97 Number in coding regions = 48 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 57 Fraction of orfs with sites within 600 bp upstream = 0.00915516 Motif number 11 AGGGTAGCCTCCTTTTAACCT 3 1 1 AGGGAGCCTC 0.990963 -181 CATATCTAATAGGGCATCCGCTACTTCTTCA 12 151 0 AGGGATCCGC 0.971871 -150 GATTTCCCTTAAGGAAACCTCACTTTGTTAA 16 87 0 AAGGAACCTC 0.972037 -119 GGTTTCCTTAAGGGAAATCTCTTTTTTATTT 16 99 1 AGGGAATCTC 0.973814 -107 AGAAACTGAAAGGGAAACCTCATTCGTTTAC 19 67 0 AGGGAACCTC 0.994743 -117 **** ****** Masking position 6 Map Score: 2.41548 Number of sites scoring better than the average of aligned sites = 16 Number in coding regions = 11 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 12 TAGAAATATAGCAAAAATGGGAATCGATTA 3 88 1 GCAAAAATGG 0.972329 -94 CAGCGGTAATGCAAAAGTCGTGGTCAGCGT 8 58 0 GCAAAAGTCG 0.968808 -243 TGCGGCAGTGGCAAAAGTCCAAAACAGCGG 8 82 0 GCAAAAGTCC 0.856547 -219 GATACCATGAGCGAAAATCGTCATGAAAAT 8 129 0 GCGAAAATCG 0.954113 -172 TTAGATATGATCAAAAATGGCGAATTGAAG 12 173 1 TCAAAAATGG 0.820081 -128 CACTTTCTGCGCTAAAAGCGATGGGGCTTG 12 276 1 GCTAAAAGCG 0.883881 -25 ATTCCCTCTCGCTAAAATGGGCAGCGTTCA 18 48 0 GCTAAAATGG 0.949582 -73 ********** Masking position 5 Map Score: 1.85573 Number of sites scoring better than the average of aligned sites = 261 Number in coding regions = 246 Number in noncoding regions = 15 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 13 GGTGCGAAGCTTCACCTTTTCTTTGAT 4 8 0 TTCACCTTTT 0.665009 -50 GGCTTCGCTGTTCAATCCGCAGACTGACGT 6 12 0 TTCAATCCGC 0.877632 -204 ATCCTTCACTCCTCGTTTTTATTA 6 202 0 TTCACTCCTC 0.942813 -14 CGTTTTCACCTCTCTTACAATACA 9 26 0 TTCACCTCTC 0.942813 -14 CCGCAAATGGTTCAGTCTTTTTACATGGCA 11 70 1 TTCAGTCTTT 0.549583 -110 GCCTCCATTATTCAGCTCGCATTGTTTTAG 11 153 0 TTCAGCTCGC 0.941723 -27 TTCAATGCAATTCACCCCGTAACTTGTAGG 12 92 0 TTCACCCCGT 0.963358 -209 ATCCCCCGGCTTCAATTCGCCATTTTTGAT 12 182 0 TTCAATTCGC 0.753737 -119 TTTTCCGCCCTCTATTCTTCCG 13 28 0 TTCCGCCCTC 0.831988 -12 AACAATCCTTTTCACCCTGTTACCGATAAC 15 23 0 TTCACCCTGT 0.88121 -90 ********** Masking position 2 Map Score: 2.41231 Number of sites scoring better than the average of aligned sites = 828 Number in coding regions = 682 Number in noncoding regions = 146 Number of orfs with sites within 600 bp upstream = 136 Fraction of orfs with sites within 600 bp upstream = 0.0218439 Motif number 14 ATTTATTCGGATGACAGACAAAGGGTCTATAT 6 87 0 ATGACGAAAA 0.951873 -129 AAGTAAGAGCATGACAAACAAATATAATAAAG 7 12 1 ATGACAAAAA 0.659745 -91 CCTCTTTTTCATTAAAGATAAATGCTAACACA 7 68 0 ATTAAGAAAA 0.778457 -35 ATAATATAGCATGCCTGAGAAAATGTGTAAAC 10 79 0 ATGCCGAAAA 0.974911 -62 TAGCGTATGAATCCATGAAAAATCGAGTGTTT 16 55 1 ATCCAGAAAA 0.852996 -151 TAAATATACGATGCAGGCCAAAGAGAAATAAA 16 123 0 ATGCAGCAAA 0.936522 -83 AAAGTCCTCTATTACTGCTAAATATACGATGC 16 141 0 ATTACGCAAA 0.688595 -65 ATTGGAAATATGCACGAAAAATGGCTGGGTG 18 10 1 ATGCAGAAAA 0.967931 -111 AGAAGAAGACATGCAGGACCAAAGGAGGGTCA 19 15 0 ATGCAGACAA 0.875808 -169 ***** ** *** Masking position 2 Map Score: 0.811111 Number of sites scoring better than the average of aligned sites = 508 Number in coding regions = 465 Number in noncoding regions = 43 Number of orfs with sites within 600 bp upstream = 56 Fraction of orfs with sites within 600 bp upstream = 0.00899454 Motif number 15 ATAAAAAAAAGCCCTTTCCTGAAAGCGCTTA 2 227 0 GCCCTTTCTG 0.964029 -74 CTGCGCCTGTGCCTGATCCTGATCTGTGTTC 8 27 1 GCCTGATCTG 0.985448 -274 GCGCCTTATTCTGTTATCGGTAA 15 3 1 GCCTTATCTG 0.991412 -110 TGTGTGTTTCGCCTTATACTGAATATACAGA 19 139 1 GCCTTATCTG 0.991412 -45 ******* *** Masking position 7 Map Score: 0.536829 Number of sites scoring better than the average of aligned sites = 7 Number in coding regions = 5 Number in noncoding regions = 2 Number of orfs with sites within 600 bp upstream = 3 Fraction of orfs with sites within 600 bp upstream = 0.00048185