AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00280_tpal_reg_300.orf -o00280_tpal_300.ace -a/home/amcguire/genomes/ORF_tpal.txt -z/home/amcguire/genomes/tpal.fna -g0.53 -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 = 0.53 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: TP0244 21 ribosomal protein S7 Input sequences: #1 TP0231 100 conserved hypothetical protein #2 TP0232 99 T. pallidum predicted coding region TP0232 #3 TP0233 30 anti-sigma F factor antagonist, putative #4 TP0234 234 ribosomal protein L33 (rpmG) #5 TP0235 149 preprotein translocase subunit (secE) #6 TP0237 106 ribosomal protein L11 (rplK) #7 TP0240 108 ribosomal protein L7/L12 (rplL) #8 TP0241 262 DNA-directed RNA polymerase, beta subunit (rpoB) #9 TP0243 102 ribosomal protein S12 (rpsL) #10 TP0245 23 T. pallidum predicted coding region TP0245 #11 TP0246 145 T. pallidum predicted coding region TP0246 #12 TP0247 50 N-acetylmuramoyl-L-alanine amidase (amiA) #13 TP0248 66 T. pallidum predicted coding region TP0248 #14 TP0249 78 flagellar filament outer layer protein (flaA-1) #15 TP0250 50 T. pallidum predicted coding region TP0250 #16 TP0251 153 DNA-binding protein II #17 TP0417 26 apolipoprotein N-acyltransferase (cutE) Motif number 1 TGACCGGTAGTATGCGGTGCCTGGTATAGGTGCGGGACGGAAAGGAG 1 57 1 TTGGGGGGGA 0.82995 -44 TTGCCTGTAGCAGGGCATTCTGGTAGGCGGTGTGTGGTTTTGAG 2 8 1 TGGGCGGGGG 0.986238 -92 AGTGTGCGAAACCGCTAGTGGGGATGGCCT 3 2 1 GGCGGGGGGC 0.988498 -29 TTTAGGGAGGTGTTTCGTGCTTGATGTGTGAGGTGAGGCGTTATACA 4 53 1 TTCGGTGGGG 0.981762 -182 GGCGTTATACAATGCGGGCCGGCCTCCGGGCGGCTCGGGGAGTCCTG 4 89 1 ATGGCGGGTG 0.899791 -146 CCGCTCGGAAGCTTCCGTCTGTGGATGTGAGGAGGGGTGGT 4 204 1 GTCGGGAGGG 0.972089 -31 ATTGCCTGCCGCTTACGCGTTGGTTTCGGGTGTTTTGTTGTTTTTTA 6 50 1 GTCGGGGGTG 0.996566 -57 TTGTAACTTAGTTACGGGGTATGTGTTAGGCGGTCAGGCTTCTGGGG 7 18 1 GTGGGGGGCG 0.981721 -91 TTTTTTGCATGCGTCCGGCGCGTCGTTGTGTGCCTCTGACACCCTTT 8 20 1 GGCGTTGGTT 0.782516 -243 CCTTTCGTGTGGGAGGGCGTCGCGCTTTTGAGTAGAGCGTGGGCTTC 8 62 1 GGGGCTGGGG 0.993697 -201 TTTCATACTTGTTCTCGGCATTTTGGCATGCGGGTTGGGTCGCGTTC 8 116 1 GTCGTTGGTG 0.957578 -147 ATGCGGGTTGGGTCGCGTTCTCCTCACTTGAGTGGAGGGGACGGCGT 8 143 1 GTCGCTGGGG 0.994066 -120 TTGAGTGGAGGGGACGGCGTCTCCCCTGTGTGGGGAGTATTACGGTA 8 170 1 GGGGCTGGGG 0.993697 -93 GTGTGGGGAGTATTACGGTAGAGCGTGTGGTATAGGGAGCACCGTGT 8 197 1 TTCGGGGAGG 0.850358 -66 GCACCGTGTCGGTTCGGTGCAGCTTGAGGGGGGAGTGC 8 235 1 GTGGCGGGGG 0.996934 -28 CGCGTGTGCTGTGTGCGGCAAGGTTTACGGTGTTGAGGATTTTTTTG 9 48 1 GGCGGGGGGG 0.999195 -55 GTGATGCGAAGCGTGCGCAAGAGAATTTTGCGCGTTTTTTTTCCGCT 11 13 1 GGCGGTGGTT 0.942333 -133 TGAAGCACGGAATATCGCCACCTTTGCGGGGGATGCGCATTTTCGTT 11 59 1 ATCGTGGGGG 0.945708 -87 TGTGGTGCGTGGACGTATGTGCTTATTGTGAGTAGGGAGAGGGGA 12 9 1 GGCGGTGGTG 0.992942 -42 TAGGGGATGGGGCAGCATTGTACGGTGTAGTGAGGGCGGTGT 13 6 1 GTGGTGGGGG 0.992846 -61 CCTAGGGAGAGGGGGCGGTGGGGTTCTAGGCGCGGGGC 15 23 1 GGCGGGGGGG 0.999195 -28 CTCTTCACCCGAGGTGGTGCGCGTTTGAGGCGGCTGTTTGCCCGCGT 16 105 1 GGGGGGGGTT 0.969907 -49 * * ** * ** * * * Masking position 7 Map Score: 50.4145 Number of sites scoring better than the average of aligned sites = 951 Number in coding regions = 869 Number in noncoding regions = 82 Number of orfs with sites within 600 bp upstream = 61 Fraction of orfs with sites within 600 bp upstream = 0.00979762 Motif number 2 GGTCAACCAAACACGCAAACAGCAGGATAACACG 1 28 0 AACCACAGCA 0.692481 -73 CCCGCACCTATACCAGGCACCGCATACTACCGGT 1 59 0 TCCGCCCGCA 0.776058 -42 CAGAACTCAAAACCACACACCGCCTACCAGAATG 2 26 0 ACCCCCCGCC 0.985246 -74 AAGCACGAAACACCTCCCTAAACAGGCAGCCAAC 4 41 0 CCCCCAAACA 0.960503 -194 TATAACGCCTCACCTCACACATCAAGCACGAAAC 4 64 0 CCCCCCATCA 0.955731 -171 ACAGACAGGACTCCCCGAGCCGCCCGGAGGCCGG 4 107 0 CCCCACCGCC 0.973415 -128 GCCAACTGAGCTACAGAAGCAACACAGACAGGAC 4 130 0 CACGACAACA 0.531937 -105 AGCGGGATTGAACCGCTGACCTCAACCTTACCAT 4 175 0 ACCCGCCTCA 0.773338 -60 ACCACCCCTCCTCACATCCACAGACG 4 219 0 CCCCCTCACA 0.906982 -16 ACCCACAAATCCCCGGAAAACACCAGAAAACCCC 5 35 0 CCCGAACACC 0.771352 -115 ATGCGCATTGCAACACTCTCCACCCTGGAAGAAG 6 15 0 CACCCCCACC 0.99233 -92 AAAAACAACAAAACACCCGAAACCAACGCGTAAG 6 61 0 AACCCAAACC 0.862422 -46 CCAGAAGCCTGACCGCCTAACACATACCCCGTAA 7 29 0 GCCCTACACA 0.693361 -80 CAGGAAGACAGCACCCCAGAAGCCTGACCGCCTA 7 44 0 GACCAAAGCC 0.654358 -65 AAATAGAAGCCCACGCTCTACTCAAAAGCGCGAC 8 80 0 CACCCACTCA 0.964113 -183 GAGGAGAACGCGACCCAACCCGCATGCCAAAATG 8 134 0 CACCACCGCA 0.958479 -129 GGGAGACGCCGTCCCCTCCACTCAAGTGAGGAGA 8 161 0 GCCCCACTCA 0.959727 -102 CTCTACCGTAATACTCCCCACACAGGGGAGACGC 8 186 0 AACCCACACA 0.957252 -77 GCTCCCTATACCACACGCTCTACCGTAATACTCC 8 203 0 CACCCCTACC 0.844068 -60 GCACTCCCCCCTCAAGCTGCACCG 8 249 0 GACCCCCTCA 0.969607 -14 CCGTAAACCTTGCCGCACACAGCACACGCGGCTA 9 44 0 TCCCCCAGCA 0.841522 -59 AAAAAATCCTCAACACCGTAAACCTTGCCGCACA 9 59 0 CACCGAAACC 0.660604 -44 AAGCACATACGTCCACGCACCACA 12 1 0 GCCCCCCACA 0.990893 -50 ACCTGTCCCCTCTCCCTACTCACAATAAGCAC 12 29 0 CTCCCACTCA 0.710932 -22 CCAACACACCGCCCTCACTACACCGTACAATGCT 13 24 0 GCCCCACACC 0.982759 -43 CTCTTCGAGTATACGCTCACCGCCTATTTTGTCA 14 23 0 AACCCCCGCC 0.977975 -56 ACACACCGTTGTACAGTCTACACATTCGGGACTT 16 70 0 GACGCACACA 0.861584 -84 CAGCCGCCTCAAACGCGCACCACCTCGGGTGAAG 16 107 0 AACCCCCACC 0.979403 -47 * ** * * ***** Masking position 4 Map Score: 39.2735 Number of sites scoring better than the average of aligned sites = 2077 Number in coding regions = 1814 Number in noncoding regions = 263 Number of orfs with sites within 600 bp upstream = 153 Fraction of orfs with sites within 600 bp upstream = 0.0245744 Motif number 3 ATAGGTGCGGGACGGAAAGGAGAGAGGAT 1 82 1 GACGGAAAGG 0.924648 -19 TTCTGCCGGTAACAGAAAGAGTGTCGTGTG 2 55 1 AACAGAAAGA 0.634501 -45 ACCAGCCTGCCCCAGAAAGAAAGGCGCGTC 4 13 0 CCCAGAAAGA 0.984181 -222 ACAGAAGCAACACAGACAGGACTCCCCGAG 4 122 0 CACAGACAGG 0.926877 -113 AAGCACTCAGGCCAGGAAGGACTCGAACCT 5 115 0 GCCAGGAAGG 0.989079 -35 ACACTCTCCACCCTGGAAGAAGAAAA 6 7 0 CCCTGGAAGA 0.886578 -100 CCTATAAACGGACAGGAAGACAGCACCCCA 7 60 0 GACAGGAAGA 0.924087 -49 GACGCCCTCCCACACGAAAGGGTGTCAGAG 8 53 0 CACACGAAAG 0.589955 -210 CGTAATACTCCCCACACAGGGGAGACGCCG 8 184 0 CCCACACAGG 0.912119 -79 ACGCCCCAGGAAGAGACGCGTAT 10 10 0 CCCAGGAAGA 0.985399 -14 ATGCGCATCCCCCGCAAAGGTGGCGATATT 11 69 0 CCCGCAAAGG 0.946658 -77 GCCCCCTCTCCCTAGGAAGACTACTGCA 15 9 0 CCTAGGAAGA 0.878697 -42 GACACCGCTGCCCGGAAAGGTGTTTTCGCT 16 19 1 CCCGGAAAGG 0.985509 -135 AGGTGTTTTCGCTAGAAAGGCTGTGGCTCG 16 36 1 GCTAGAAAGG 0.899615 -118 ACTTTCCCCTGCCAGAAAAGCATTT 17 6 0 GCCAGAAAAG 0.899616 -21 ********** Masking position 8 Map Score: 20.6096 Number of sites scoring better than the average of aligned sites = 383 Number in coding regions = 336 Number in noncoding regions = 47 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405 Motif number 4 GCTGTTTGCGTGTTTGGTTGACCGGTAGTATGCG 1 39 1 TGTTTGGGCG 0.611271 -62 CGCCTTTCTTTCTGGGGCAGGCTGGTTGGCTGCC 4 17 1 TCTGGGGGCG 0.966412 -218 CGGGCCGGCCTCCGGGCGGCTCGGGGAGTCCTGT 4 103 1 TCCGGGCCCG 0.948114 -132 GACGGAAGCTTCCGAGCGGGATTGAACCGCTGAC 4 189 0 TCCGAGCGTG 0.669874 -46 GAAGCTTCCGTCTGTGGATGTGAGGAGGGGTGGT 4 211 1 TCTGTGGGGG 0.972242 -24 TCTGGTGTTTTCCGGGGATTTGTGGGTCAGTAGC 5 42 1 TCCGGGGTGG 0.886717 -108 TTCGAGTCCTTCCTGGCCTGAGTGCTTTCGAAAA 5 118 1 TCCTGGCGGG 0.989456 -32 TTTTCTTCTTCCAGGGTGGAGAGTGTTGCAATG 6 10 1 TCCAGGGGGG 0.951134 -97 ACGGGGTATGTGTTAGGCGGTCAGGCTTCTGGGG 7 31 1 TGTTAGGGCG 0.481097 -78 CGGTCAGGCTTCTGGGGTGCTGTCTTCCTGTCCG 7 48 1 TCTGGGGCGC 0.896768 -61 TGTCTGGTTTTTTTTGCATGCGTCCGGCGCGTCG 8 11 1 TTTTTGCGGC 0.634542 -252 GGCGCGTCGTTGTGTGCCTCTGACACCCTTTCGT 8 36 1 TGTGTGCCGC 0.548187 -227 CTGACACCCTTTCGTGTGGGAGGGCGTCGCGCTT 8 55 1 TTCGTGTGGG 0.587287 -208 GTTCTCGGCATTTTGGCATGCGGGTTGGGTCGCG 8 126 1 TTTTGGCGGG 0.939928 -137 TGAGGATTTTTTTGGGGAAGTGAGCGAAAAGA 9 81 1 TTTGGGGGGG 0.965448 -22 GTGGCGATATTCCGTGCTTCAGCGGAAAAAAAAC 11 46 0 TCCGTGCCGG 0.956982 -100 GCAGTAGTCTTCCTAGGGAGAGGGGGCGGTGGGG 15 12 1 TCCTAGGGGG 0.944441 -39 GCGGTGGGGTTCTAGGCGCGGGGC 15 37 1 TCTAGGCGGC 0.799905 -14 AAAACACCTTTCCGGGCAGCGGTGTCAAGTCGCT 16 11 0 TCCGGGCCGG 0.983747 -143 CATTCGGGACTTCTGGCGAGCCACAGCCTTTCTA 16 48 0 TTCTGGCGCC 0.714952 -106 GTTCTCTTCACCCGAGGTGGTGCGCGTTTGAGGC 16 102 1 CCCGAGGGGG 0.759643 -52 TTGAGGCGGCTGTTTGCCCGCGTGTGTTTCTTGT 16 129 1 TGTTTGCGGG 0.861697 -25 AAATGCTTTTCTGGCAGGGGAAAGTT 17 9 1 TTCTGGCGGA 0.562397 -18 ******* * * * Masking position 6 Map Score: 25.2541 Number of sites scoring better than the average of aligned sites = 1529 Number in coding regions = 1355 Number in noncoding regions = 174 Number of orfs with sites within 600 bp upstream = 134 Fraction of orfs with sites within 600 bp upstream = 0.0215226 Motif number 5 CACCTATACCAGGCACCGCATACTACCGGT 1 59 0 AGGCACCGCA 0.686214 -42 ACTCAAAACCACACACCGCCTACCAGAATG 2 26 0 ACACACCGCC 0.984566 -74 GCATTGTATAACGCCTCACCTCACACATCA 4 74 0 ACGCCTCACC 0.743391 -161 TACCATGGTTGCGCTCTGCCAACTGAGCTA 4 151 0 GCGCTCTGCC 0.973548 -84 TTGGAGACCGACGCTCTGCCATTAGAGCTA 5 72 0 ACGCTCTGCC 0.965231 -78 GCATTGCAACACTCTCCACCCTGGAAGAAG 6 15 0 ACTCTCCACC 0.821872 -92 AGGCAATCATGCGCATTGCAACACTCTCCA 6 27 0 GCGCATTGCA 0.758287 -80 TGACCGCCTAACACATACCCCGTAACTAAG 7 24 0 ACACATACCC 0.44417 -85 CAAAAGCGCGACGCCCTCCCACACGAAAGG 8 62 0 ACGCCCTCCC 0.854787 -201 CCTATACCACACGCTCTACCGTAATACTCC 8 203 0 ACGCTCTACC 0.889798 -60 GCACTCCCCCCTCAAGCTGC 8 253 0 GCACTCCCCC 0.93755 -10 AAACCTTGCCGCACACAGCACACGCGGCTA 9 44 0 GCACACAGCA 0.738858 -59 TCTTTTCGCTCACTTCCCCAAAAAAAT 9 86 0 GCTCACTTCC 0.502462 -17 TCTCTTGCGCACGCTTCGCATCACAT 11 7 0 ACGCTTCGCA 0.779539 -139 CAACGAAAATGCGCATCCCCCGCAAAGGTG 11 77 0 GCGCATCCCC 0.948502 -69 ACATACGTCCACGCACCACA 12 1 0 ACGCACCACA 0.915191 -50 AGAGAGTCCAACACACCGCCCTCACTACAC 13 35 0 ACACACCGCC 0.984566 -32 TCGAGTATACGCTCACCGCCTATTTTGTCA 14 23 0 GCTCACCGCC 0.977956 -56 GCGCCTAGAACCCCACCGCCCCCTCTCCCT 15 26 0 CCCCACCGCC 0.771149 -25 CGCCTCAAACGCGCACCACCTCGGGTGAAG 16 107 0 GCGCACCACC 0.986144 -47 ACACACGCGGGCAAACAGCCGCCTCAAACG 16 126 0 GCAAACAGCC 0.358859 -28 ********** Masking position 9 Map Score: 28.1902 Number of sites scoring better than the average of aligned sites = 1703 Number in coding regions = 1537 Number in noncoding regions = 166 Number of orfs with sites within 600 bp upstream = 151 Fraction of orfs with sites within 600 bp upstream = 0.0242531 Motif number 6 GGTAGGCGGTGTGTGGTTTTGAGTTCTGCC 2 32 1 GTGTGGTTTT 0.483024 -68 TGTTACGCACGGGGTTTTCTGGTGTTTTCC 5 25 1 GGGGTTTTCT 0.975367 -125 GGGGTTTTCTGGTGTTTTCCGGGGATTTGT 5 35 1 GGTGTTTTCC 0.800436 -115 CCGCTTACGCGTTGGTTTCGGGTGTTTTGT 6 58 1 GTTGGTTTCG 0.844822 -49 CGGGTGTTTTGTTGTTTTTTACGTCATAAG 6 76 1 GTTGTTTTTT 0.815879 -31 TCCGTTTATAGGGGTTATTTCGCATACAAG 7 78 1 GGGGTTATTT 0.699218 -31 TGTCTGGTTTTTTTTGCATGCGTCC 8 6 1 GGTTTTTTTT 0.549315 -257 TGAGTAGAGCGTGGGCTTCTATTTCTTTTC 8 90 1 GTGGGCTTCT 0.858967 -173 TACTCGAAGAGTGGTTATCTTATTGTGCGA 14 46 1 GTGGTTATCT 0.854092 -33 AGAGGGGGCGGTGGGGTTCTAGGCGCGGGG 15 30 1 GTGGGGTTCT 0.942286 -21 TGCCCGGAAAGGTGTTTTCGCTAGAAAGGC 16 27 1 GGTGTTTTCG 0.880689 -127 ACTGTACAACGGTGTGTTCTCTTCACCCGA 16 87 1 GGTGTGTTCT 0.922522 -67 GTTTGCCCGCGTGTGTTTCTTGTC 16 140 1 GTGTGTTTCT 0.853249 -14 ********** Masking position 8 Map Score: 8.41254 Number of sites scoring better than the average of aligned sites = 382 Number in coding regions = 341 Number in noncoding regions = 41 Number of orfs with sites within 600 bp upstream = 35 Fraction of orfs with sites within 600 bp upstream = 0.00562159 Motif number 7 GTGACGCGCCTTTCTTTCTGGGG 4 3 1 GACGCGCTTT 0.972735 -232 CCTTACCATGGTTGCGCTCTGCCAACTGAGC 4 153 0 GTTGCGCCTG 0.818128 -82 ATCTGTTACGCACGGGGTTTTCTGGTGTTTT 5 22 1 CACGGGGTTT 0.687485 -128 GAACCTTCAACATTCGGTTTTGGAGACCGAC 5 90 0 CATTCGGTTT 0.613415 -60 GGCAGGCAATCATGCGCATTGCAACACTCTC 6 29 0 CATGCGCTTG 0.985294 -78 TTGCCTGCCGCTTACGCGTTGGTTTCGGGTG 6 51 1 CTTACGCTTG 0.739243 -56 GTGGGAGGGCGTCGCGCTTTTGAGTAGAGCG 8 70 1 GTCGCGCTTT 0.954618 -193 GGCATTTTGGCATGCGGGTTGGGTCGCGTTC 8 132 1 CATGCGGTTG 0.968301 -131 GCACACAGCACACGCGGCTAGGATACTCAGA 9 33 0 CACGCGGTAG 0.8639 -70 GCAAGAGAATTTTGCGCGTTTTTTTTCCGCT 11 29 1 TTTGCGCTTT 0.761538 -117 CTTTGCGGGGGATGCGCATTTTCGTTGTGTA 11 80 1 GATGCGCTTT 0.972231 -66 GCCCCGCGCCTAGAACCCCACCG 15 38 0 CCCGCGCTAG 0.787434 -13 CACCCGAGGTGGTGCGCGTTTGAGGCGGCTG 16 110 1 GGTGCGCTTT 0.902907 -44 ******* *** Masking position 6 Map Score: 8.80642 Number of sites scoring better than the average of aligned sites = 841 Number in coding regions = 801 Number in noncoding regions = 40 Number of orfs with sites within 600 bp upstream = 43 Fraction of orfs with sites within 600 bp upstream = 0.00690652 Motif number 8 GGCGAGTAGATGTACTCCGT 1 1 1 GGCGAGTAGA 0.584554 -100 GTGCTTGATGTGTGAGGTGAGGCGTTATAC 4 69 1 TGTGAGGTGA 0.920767 -166 CGTCTGTGGATGTGAGGAGGGGTGGT 4 219 1 TGTGAGGAGG 0.988962 -16 TTCTTCTTCCAGGGTGGAGAGTGTTGCAAT 6 13 1 AGGGTGGAGA 0.502014 -94 ACGGGGTATGTGTTAGGCGGTCAGGCTTCT 7 31 1 TGTTAGGCGG 0.773539 -78 GCGTCGCGCTTTTGAGTAGAGCGTGGGCTT 8 78 1 TTTGAGTAGA 0.60819 -185 CCTCCACTCAAGTGAGGAGAACGCGACCCA 8 151 0 AGTGAGGAGA 0.948162 -112 TCTCCTCACTTGAGTGGAGGGGACGGCGTC 8 161 1 TGAGTGGAGG 0.85454 -102 GCGTCTCCCCTGTGTGGGGAGTATTACGGT 8 186 1 TGTGTGGGGA 0.902692 -77 ATGTGATGCGAAGCGTGCGCA 11 2 1 TGTGATGCGA 0.752543 -144 ATGTGCTTATTGTGAGTAGGGAGAGGGGAC 12 27 1 TGTGAGTAGG 0.942005 -24 GTCTTCCTAGGGAGAGGGGGCGGTGGGGTT 15 18 1 GGAGAGGGGG 0.828335 -33 CACCACCTCGGGTGAAGAGAACACACCGTT 16 94 0 GGTGAAGAGA 0.730782 -60 GTGGTGCGCGTTTGAGGCGGCTGTTTGCCC 16 118 1 TTTGAGGCGG 0.866974 -36 ********** Masking position 9 Map Score: 8.4988 Number of sites scoring better than the average of aligned sites = 517 Number in coding regions = 435 Number in noncoding regions = 82 Number of orfs with sites within 600 bp upstream = 67 Fraction of orfs with sites within 600 bp upstream = 0.0107613 Motif number 9 ********** No masking Map Score: -1.77392e-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 10 ********** No masking Map Score: -1.77392e-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 11 ********** No masking Map Score: -1.77392e-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