AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00670_synecho_reg_300.orf -o00670_synecho_300.ace -a/home/amcguire/genomes/ORF_synecho.txt -z/home/amcguire/genomes/synecho.fna -g0.48 -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 = 0.48 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: slr0496 158 hypothetical protein. slr0480 24 ycf46; hypothetical protein. Input sequences: #1 sll0931 171 hypothetical protein. [EC:2.1.1.45] #2 sll0930 43 hypothetical protein. #3 sll0928 111 apcD; allophycocyanin-B. #4 sll0927 168 metX; S-adenosylmethionine synthetase. [EC:2.5.1.6] #5 sll0925 266 hypothetical 23.0 kD protein sll0925. [SP:Y925_SYNY3] #6 slr0974 300 infC; translation initiation factor IF-3. [SP:IF3_SYNY3] #7 sll1931 300 glyA; serine hydroxymethyltransferase (serine methylase) (SHMT). #8 sll0171 168 gcvT; probable aminomethyltransferase (glycine cleavage system T #9 sll0170 205 dnak2, dnaK; dnaK protein 2 (heat shock protein 70) (HSP70). #10 sll0169 187 hypothetical protein. #11 sll0168 88 hypothetical protein. #12 sll0163 300 beta transducin-like protein. [SP:Y163_SYNY3] #13 sll0753 73 folD; methylenetetrahydrofolate dehydrogenase. [EC:1.5.1.5] #14 sll0751 135 ycf22; hypothetical protein. #15 slr0782 90 hypothetical protein. [SP:Y782_SYNY3] #16 sll0750 145 sensory transduction histidine kinase. [EC:2.7.-.-] #17 sll0749 188 hypothetical protein. #18 sll0325 222 hypothetical protein. #19 slr0342 130 petB; cytochrome b6. [EC:1.10.99.1] [SP:CYB6_SYNY3] #20 slr0343 251 petD; cytochrome b6-F complex subunit 4 (17 kD polypeptide). #21 slr0344 127 rfbW; mannosyl transferase. #22 slr0345 204 hypothetical protein. #23 sll0322 45 hypF; transcriptional regulatory protein hypF. [SP:HYPF_SYNY3] #24 sll0321 138 hypothetical protein. #25 sll0320 33 rnd; ribonuclease D. [EC:3.1.26.3] #26 sll0319 276 hypothetical protein. #27 sll0318 164 hypothetical protein. #28 slr0350 174 transposase. #29 slr0351 152 hypothetical protein. #30 sll0317 139 transposase. #31 sll0315 123 transposase. #32 slr0353 300 hypothetical protein. #33 sll0070 90 purU; formyltetrahydrofolate deformylase (formyl-fh(4) hydrolase). #34 sll0069 26 hypothetical protein. #35 sll0068 157 hypothetical protein. #36 sll0067 93 gst; glutathione S-transferase. [EC:2.5.1.18] #37 sll0066 99 hypothetical protein. #38 sll0065 181 ilvN; acetolactate synthase. [EC:4.1.3.18] #39 slr0053 64 hypothetical 20.1 kD protein slr0053. [SP:Y053_SYNY3] #40 slr0054 135 dgkA; probable diacylglycerol kinase (DAGK) (diglyceride kinase) #41 slr0055 143 trpG; anthranilate synthase component II. [EC:4.1.3.27] #42 slr0056 146 G4; chlorophyll synthase 33 kD subunit. #43 sll0064 300 hypothetical protein. #44 slr0070 35 fmt; methionyl-tRNA formyltransferase. [EC:2.1.2.9] #45 slr0468 164 hypothetical protein. [EC:3.1.21.3] #46 slr0469 238 rpsD, rps4; 30S ribosomal protein S4. [SP:RS4_SYNY3] #47 sll0462 200 hypothetical protein. #48 sll0461 300 proA; gamma-glutamyl phosphate reductase. [EC:1.2.1.41] #49 slr0482 57 hypothetical protein. #50 slr0483 177 hypothetical protein. #51 slr0484 76 sensory transduction histidine kinase. #52 slr0487 135 hypothetical protein. #53 slr0488 126 hypothetical protein. #54 slr0492 187 menE; O-succinylbenzoic acid-CoA ligase. [EC:6.2.1.26] #55 sll0456 93 hypothetical protein. #56 sll0455 127 hom; homoserine dehydrogenase (HDH). [EC:1.1.1.3] [SP:DHOM_SYNY3] #57 slr0495 40 lipopeptide antibiotics iturin a biosynthesis protein. #58 sll0454 202 pheS; phenylalanyl-tRNA synthetase alpha chain (phenylalanine--tRNA #59 sll0691 135 hypothetical protein. #60 ssl1300 255 hypothetical protein. #61 sll0689 300 NaH-antiporter protein. #62 slr0212 236 metH; 5-methyltetrahydrofolate-homocysteine methyltransferase. #63 ssr0336 300 hypothetical protein. #64 slr0527 161 exsB; ExsB. #65 slr0528 128 murE; UDP-MurNac-tripeptide synthetase. [EC:6.3.2.13] #66 sll0514 300 hypothetical 62.4 kD protein sll0514. [SP:Y514_SYNY3] #67 slr0597 161 purH; phosphoribosyl aminoimidazole carboxy formyl #68 sll0565 35 hypothetical protein. #69 sll0564 44 hypothetical protein. #70 slr0598 33 hypothetical protein. #71 slr0599 110 eukaryotic protein kinase. #72 slr0600 143 hypothetical protein. [EC:1.6.4.5] #73 slr0601 45 hypothetical protein. #74 sll0563 151 hypothetical protein. #75 slr0603 198 dnaE; DNA polymerase III alpha subunit. [EC:2.7.7.7] #76 slr0604 111 lepA; GTP-binding protein lepA. [SP:LEPA_SYNY3] #77 slr0605 300 hypothetical protein. Motif number 1 AGATAAAGGGGGCGATCGCCGATCCTTGGG 22 31 1 GGCGATCGCC 0.499999 -174 GGCTTGGGAAACCGATCCCCAGCAGAGTTT 36 29 0 ACCGATCCCC 0.881545 -65 ATTTTAGGACGGCGATCGCCGGGGATAATT 42 11 1 GGCGATCGCC 0.499999 -136 CTCCAGTGCTGGCGATCGCCGTTTGGTTAG 47 171 1 GGCGATCGCC 0.499999 -30 ACTGTCCCTTGGCGATCGCCATTTTGACTA 48 110 1 GGCGATCGCC 0.499999 -191 GTTAGAGGTAGCCAATCGCCGGATTGACAG 48 172 0 GCCAATCGCC 0.862832 -129 GCAAGGATTTGGCGATCGCCTTTTTTGGTT 55 39 1 GGCGATCGCC 0.499999 -55 AGAATGGGGAGCCGATCGCCAGTAACCTAA 56 80 1 GCCGATCGCC 0.521779 -48 TGCCCCCAGGGCTGATCGCCAAGCTTCC 66 283 1 GCTGATCGCC 0.834679 -18 AATTGCCCCAGGCGATCGCCGCTTGATACC 69 24 1 GGCGATCGCC 0.499999 -21 CGCCTGGATCGGCGATCGCCAATGGAGAAT 76 57 1 GGCGATCGCC 0.499999 -55 CAACTTTTTCGCCAATCCCCGCCTCAGCAA 77 62 1 GCCAATCCCC 0.933921 -239 ********** Masking position 5 Map Score: 37.3716 Number of sites scoring better than the average of aligned sites = 5863 Number in coding regions = 5323 Number in noncoding regions = 540 Number of orfs with sites within 600 bp upstream = 332 Fraction of orfs with sites within 600 bp upstream = 0.0533248 Motif number 2 GAAAGTCCGGCTCCCCCAGCTTAATTTTGTT 1 126 1 CTCCCCAGCT 0.549668 -46 TTGCCCCATACTGCCCCAGGCTAAATACCCT 3 48 0 CTCCCCAGGC 0.975257 -64 ATACAGGTTATTTTCCCTGGTACGGGAACGG 4 31 0 TTTCCCTGGT 0.334327 -138 TTTACTCGCTCTCCCCTAGGGTACTCTGGCT 5 108 1 CTCCCTAGGG 0.731916 -159 TGTATTTTAGCTTCCCATGGCTAGCCAATGG 5 169 1 CTCCCATGGC 0.919456 -98 CACAAGTTTTCGGCCCCTGTCCTAGAATGGG 6 29 0 CGCCCCTGTC 0.634058 -272 GTGAACGTGTCGGCCCCAGGCAATGGATTGG 9 118 1 CGCCCCAGGC 0.934688 -88 CCCCCTATCCCCGTCCCTGGCAGTGTCAACG 12 120 1 CCTCCCTGGC 0.77996 -181 TCGAATAGGCTTTTCCCTGCCCATAATTGTA 12 266 1 TTTCCCTGCC 0.815408 -35 TTAAACTCTATTCCCCCGGTCAAAGTTCCAC 14 71 0 TTCCCCGGTC 0.399526 -65 TTCAATAAAATGTTCCCTGCCTGCCATTGAG 15 50 0 TGTCCCTGCC 0.615953 -41 CTATGACGGTTTGACCAAGGGTGGAAAAGCT 18 91 1 TTACCAAGGG 0.368563 -132 CGGACTTCCCTTTCCCCAGGGCTTGAAGCTG 18 167 0 TTCCCCAGGG 0.920646 -56 TATGCTGAATTTATCCATGGGAGCTTTAACC 24 114 0 TTTCCATGGG 0.369595 -25 CCCCAGGGCTTTACCCATGGCCGAAAAATCG 26 104 0 TTCCCATGGC 0.918526 -173 TCCCACTTAGTGCCCCCAGGGAATTTTTCTG 33 14 0 TGCCCCAGGG 0.808148 -77 CGGTAATTATTTGCCCCGGCCAACGGTTCTA 35 113 1 TTCCCCGGCC 0.781377 -45 TGGGGATCGGTTTCCCAAGCCAGGACAACAT 36 38 1 TTCCCAAGCC 0.825215 -56 CTCAAGCACGTCTCCCCAGGGTTGTCCTGAG 37 50 1 TCCCCCAGGG 0.827533 -50 ACGATTGTTTTTGCCCTTGCCATAGATTTTT 38 11 0 TTCCCTTGCC 0.854728 -171 AGCCTTATATCCTACCATGCCCGCCGGGCAA 38 107 0 CCACCATGCC 0.347849 -75 CGACTGGGCCCTAACCCAGACCG 38 169 1 CTACCCAGAC 0.307627 -13 CCCAAAAACACTGACCCAGCCTATCACCCTT 41 37 1 CTACCCAGCC 0.816618 -107 ACCCAGCCTATCACCCTTGGGGCTAGGAATG 41 50 1 TCCCCTTGGG 0.581527 -94 TTACCCCCATTGTTCCATGGCATTCCTAGCC 41 70 0 TGTCCATGGC 0.416644 -74 ACCTCCCCCATTTCCCCAGACAGAT 46 224 1 TTCCCCAGAC 0.669635 -15 TTTTGAGCCATTACCCATGTCCCATTTAAAT 47 16 1 TTCCCATGTC 0.522741 -185 AGCCAGATTATCCACCCTGGCTGACTGTCCC 48 87 1 TCACCCTGGC 0.812844 -214 CCTGGCTGACTGTCCCTTGGCGATCGCCATT 48 102 1 TGCCCTTGGC 0.803663 -199 TGTCTCCAGACCGCCCCAGCCTCTTTTTCCT 50 157 0 CCCCCCAGCC 0.89482 -21 AACTCTTTCATTGCCCTTGGGAAAATTTCTT 53 100 1 TTCCCTTGGG 0.770646 -27 ACAATTTTTTCTAACCCAGGCTAACACAACG 54 45 1 CTACCCAGGC 0.895099 -143 TTCAGTATTCTTTTCCCTGCCCAAGTCCAGA 56 48 1 TTTCCCTGCC 0.815408 -80 GATGTTGGCCTTGACCATGGCCGAGGAAAGA 58 77 1 TTACCATGGC 0.709349 -126 AAAATTTTAACTACCCAAGGCTGAGCTAAAA 60 227 1 CTCCCAAGGC 0.901579 -29 CTATTGACCATTGCCCCTGGTCTACAGTGAA 61 175 1 TTCCCCTGGT 0.742162 -126 TTTTGTATGACTCCCCTTGCCCGATTTACAG 62 136 1 CTCCCTTGCC 0.856272 -101 GAAAATTCTGCTCCCCTTGGGGGAAACGAGT 66 55 1 CTCCCTTGGG 0.772846 -246 AACAGCGGTGTTTACCCTGGCATGTCTATTT 66 156 1 TTACCCTGGC 0.913054 -145 GATTTTGCTTTGCCCCCAGGGCTGATCGCCA 66 273 1 TGCCCCAGGG 0.808148 -28 CTAGGGGACTTTTCCCCTGCCCT 67 149 1 TTCCCCTGCC 0.962001 -13 AACACCGAAATTGCCCCAGGCGATCGCCGCT 69 16 1 TTCCCCAGGC 0.974954 -29 AGAATGCCCCCTATCCTAGGCAGAATAACGT 72 38 1 CTTCCTAGGC 0.615141 -106 TAGTGGACTTTCGCCCTAGCCCGCCGGGAAA 72 101 0 TCCCCTAGCC 0.661318 -43 GAAAACTCCTTCACCCCAGTCACCCCAGATT 73 13 0 TCCCCCAGTC 0.609999 -33 TGATCCCATACTTACCCTGCCCTGGTTTGGA 77 161 1 CTACCCTGCC 0.847314 -140 CTAGACCAATCTCACCTTGGCTAATAATTCC 77 255 0 CTACCTTGGC 0.711918 -46 ** ******** Masking position 6 Map Score: 44.7431 Number of sites scoring better than the average of aligned sites = 4672 Number in coding regions = 4186 Number in noncoding regions = 486 Number of orfs with sites within 600 bp upstream = 484 Fraction of orfs with sites within 600 bp upstream = 0.0777385 Motif number 3 TGTTGTTATTGGGAATTTTCCCCTTTTCT 1 153 1 GGGAATTTTC 0.778074 -19 GACGATCTGAGGGGATTTTTCTTTTGGCTG 6 91 0 GGGGATTTTT 0.932645 -210 TGGGGGTCAGGGGGGCTTTTAAAGCATGTT 6 125 0 GGGGGCTTTT 0.960637 -176 TTGGGGGCTAGGGGACTTTCAATACAGGTT 8 24 0 GGGGACTTTC 0.925539 -145 CTTTAACCAGGGGGATTTTTTGTGCTTTTT 8 83 1 GGGGATTTTT 0.932645 -86 AACAAATTCGGGCGGCTTTTTCCGCATTTC 12 17 0 GGCGGCTTTT 0.892251 -284 ACCAGTTATCGGCGGATTTTGAAGCATTTT 15 18 1 GGCGGATTTT 0.606541 -73 ATGGCAGGCAGGGAACATTTTATTGAAGTT 15 54 1 GGGAACATTT 0.735938 -37 ACTGGGGGTTGGCAAATTTTGTTGTGACCT 17 32 0 GGCAAATTTT 0.508308 -157 TGCCAAGTTTGGGAGCTTTTCCACCCTTGG 18 105 0 GGGAGCTTTT 0.933736 -118 ATTTATCCATGGGAGCTTTAACCCCCCTAT 24 107 0 GGGAGCTTTA 0.794868 -32 GGCTCCGTTGGGGAACATTTTCGGGCTTGA 26 218 1 GGGAACATTT 0.735938 -59 AGTGCCCCCAGGGAATTTTTCTGACT 33 7 0 GGGAATTTTT 0.888828 -84 AGAAACCTCAGGCGATTTTCAATTAATAGT 43 62 0 GGCGATTTTC 0.673239 -239 ACGCCGGGCCGGGGATTTTAAGGCCTATGA 43 92 1 GGGGATTTTA 0.791999 -209 CATAATCCCCGGGAACATTTACCAAGAAAT 43 161 0 GGGAACATTT 0.735938 -140 TTGATGTTCGGGGGATTTTTTCTGGCCCAT 50 110 0 GGGGATTTTT 0.932645 -68 ATCGGTAACGGGCGATTTTTCCTAGGTTTA 58 44 1 GGCGATTTTT 0.824511 -159 TAAGCTTTTCGGGGATTCTTACTTTGGGTA 60 73 1 GGGGATTCTT 0.487087 -183 TCAAACAAGGGGGAGATTTAACTGCCACAC 61 93 1 GGGAGATTTA 0.419062 -208 CTAAAAATTGGGGAGCTTTTGCCTTATCCT 61 257 1 GGGAGCTTTT 0.933736 -44 AGGAGCATCGGGCGGTTTTTAAAACACGCC 65 11 0 GGCGGTTTTT 0.801794 -118 CACAATGGCTGGAGACTTTTACATAGTCCT 65 52 0 GGAGACTTTT 0.517842 -77 GCTAAAACTAGGGAATTTTAAAGTTTGTCA 67 92 1 GGGAATTTTA 0.687357 -70 TGAGAAGCTAGGGGACTTTTCCCCTGCCCT 67 142 1 GGGGACTTTT 0.965923 -20 GGGGAAATTTAGTAAATTTCT 72 2 1 GGGAAATTTA 0.455876 -142 GCCTAGGATAGGGGGCATTCTTTTAGCAGA 72 29 0 GGGGGCATTC 0.645697 -115 TCTGAATGTAGGGAGCTTTTCATTTCTGGT 75 109 1 GGGAGCTTTT 0.933736 -90 CGATCCAGGCGGCAACTTTCATAATGGGAT 76 38 0 GGCAACTTTC 0.708899 -74 ********** Masking position 9 Map Score: 27.2534 Number of sites scoring better than the average of aligned sites = 1175 Number in coding regions = 880 Number in noncoding regions = 295 Number of orfs with sites within 600 bp upstream = 206 Fraction of orfs with sites within 600 bp upstream = 0.0330871 Motif number 4 AAACTAAAACTTTGCCGACAGGCCCTCGCG 1 74 1 TTTGCCGACA 0.858428 -98 AGCCGGACTTTCTGCAATCCAATGCCGATG 1 108 0 TCTGCAATCC 0.667184 -64 AAAAACCTGCTTTGCCAGCCTAAATCGCGC 10 13 0 TTTGCCAGCC 0.916792 -175 TTATCCCGAATTTGCCATCAAACCAGGCGG 12 61 0 TTTGCCATCA 0.956009 -240 CACAACAAAATTTGCCAACCCCCAGTTTAC 17 36 1 TTTGCCAACC 0.966339 -153 AAAAAATTCCTTTGCAAACAAAATAAGCTG 20 65 1 TTTGCAAACA 0.837464 -187 ATTAAACTATTTTGCCAACCATGAACCTGC 21 75 1 TTTGCCAACC 0.966339 -53 GTTGTTCCATTTTGCCATCCTCTCCCCCCA 26 39 1 TTTGCCATCC 0.957521 -238 CGCCATAACAATTGCCAACATTTATTGTTT 27 86 1 ATTGCCAACA 0.796749 -79 CCAGCTCCCATTGGCCATCAATTCCGTTAC 32 89 0 TTGGCCATCA 0.826418 -212 TTGCCCAGTATTTGCAAACATCTCC 37 85 1 TTTGCAAACA 0.837464 -15 TTTATGTAACTTTGCCAACACGTCATAGGC 43 114 0 TTTGCCAACA 0.96513 -187 TTACCGAATATCTGCCATCCCCCGACGATG 51 31 0 TCTGCCATCC 0.915027 -46 CCATTATTGTTTTGCAATCAACATTGGCT 55 10 0 TTTGCAATCA 0.801808 -84 TGAACAAGCAATTGCCAGCATTTTAACGTC 63 113 1 ATTGCCAGCA 0.600718 -188 CCCAATCAAATCTGCCGTCAATGAAGGTCA 64 22 1 TCTGCCGTCA 0.694606 -140 ACAGTCTGCCAACAATTGAGGTTA 67 5 1 TCTGCCAACA 0.929689 -157 GAGGTTAGCATTGGCCAACCCTGGAAAAGT 67 28 1 TTGGCCAACC 0.862813 -134 ********** Masking position 5 Map Score: 17.9816 Number of sites scoring better than the average of aligned sites = 365 Number in coding regions = 316 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 55 Fraction of orfs with sites within 600 bp upstream = 0.00883392 Motif number 5 TGTTATTGGGAATTTTCCCCTTTTCT 1 156 1 AATTTTCCCC 0.823516 -16 GTTTAGCCTGAGTTGCCCCATACTGCCCCA 3 61 0 AGTTGCCCCA 0.87329 -51 GGGCTCTGCTAATTTCCCCATTCTAGGACA 6 13 1 AATTTCCCCA 0.911733 -288 ACTTTCAGTCAGTTTCCCCCTAAATTTGGG 6 151 0 AGTTTCCCCC 0.943698 -150 TATTCCGTGCTATTTCCCCATAAGCTTTTA 10 137 1 TATTTCCCCA 0.677028 -51 TTCCTGTCTTCCCACCGATCTGAG 19 117 0 TGTCTTCCCA 0.405303 -14 TCCACCTTGTCATTTTCCCACTTAGTGCCC 33 30 0 CATTTTCCCA 0.726832 -61 GCCTCAAGCACGTCTCCCCAGGGTTGTCCT 37 48 1 CGTCTCCCCA 0.833299 -52 CCCCCAACCAAGTTACCCCCATTGTTCCAT 41 83 0 AGTTACCCCC 0.873548 -61 ATGGTTGGTCAATTATCCCCGGCGATCGCC 42 21 0 AATTATCCCC 0.657908 -126 AAACCTCCCCCATTTCCCCAGACAGAT 46 222 1 CATTTCCCCA 0.864793 -17 CACGGCCTAATGTTTCCCCAATCAAAGGGG 52 60 1 TGTTTCCCCA 0.758009 -76 GCAGCAAAGAAATTTTCCCAAGGGCAATGA 53 107 0 AATTTTCCCA 0.811212 -20 AGGAAAGACCAATTATCCCCTGTTGATCAA 58 100 1 AATTATCCCC 0.657908 -103 ATAGAGTCATAATTTTCCCCTTGAATTATC 60 165 1 AATTTTCCCC 0.823516 -91 CATCCCGCTCAATCGCCCCACTAAAATCCC 61 60 1 AATCGCCCCA 0.706942 -241 GTGGCAGTTAAATCTCCCCCTTGTTTGAGT 61 91 0 AATCTCCCCC 0.854369 -210 CATCGTAACTCGTTTCCCCCAAGGGGAGCA 66 63 0 CGTTTCCCCC 0.912118 -238 ACAAAGCAAACGTCGCCCCCATCGTAACTC 66 82 0 CGTCGCCCCC 0.707936 -219 AAAGTTTGTCAGTTTCCCCCAACTTCAAAG 67 111 1 AGTTTCCCCC 0.943698 -51 TCAACACCGAAATTGCCCCAGGCGATCGCC 69 14 1 AATTGCCCCA 0.821819 -31 CCTTCACCCCAGTCACCCCAGATTCT 73 7 0 AGTCACCCCA 0.768901 -39 GGGGTGAAGGAGTTTTCCCAATTCTAGCT 73 27 1 AGTTTTCCCA 0.865245 -19 TGAAGATTGCCATTATCCCATTATGAAAGT 76 24 1 CATTATCCCA 0.523044 -88 AGTCAGCCATAGTTATCCCAAA 76 100 1 AGTTATCCCA 0.725754 -12 ********** Masking position 3 Map Score: 26.1493 Number of sites scoring better than the average of aligned sites = 1210 Number in coding regions = 1034 Number in noncoding regions = 176 Number of orfs with sites within 600 bp upstream = 178 Fraction of orfs with sites within 600 bp upstream = 0.0285898 Motif number 6 AGTCCGGCTCCCCCAGCTTAATTTTGTTGTT 1 129 1 CCCCACTTAA 0.46542 -43 CTGCTAATTTCCCCATTCTAGGACAGGGGCC 6 18 1 CCCCATCTAG 0.908724 -283 CCCTAAATCTCCTCACTAAAGCTCCGGCAAT 6 189 0 CCTCATAAAG 0.343137 -112 TTCCGACTGTCCTCACCATAGATGAGCAGAC 16 25 0 CCTCACATAG 0.563871 -121 CTACTGTCGACCTTACCCAAGAGTGGAAAAT 20 226 1 CCTTACCAAG 0.648275 -26 GCTTTAACCCCCCTATTCTAGATTCAATCCG 24 92 0 CCCTATCTAG 0.775711 -47 CGAAAATGTTCCCCAACGGAGCCCCAGAGAG 26 210 0 CCCCACGGAG 0.889676 -67 AACCCCATGGCCCCATCATAGTTTATTTTTA 35 40 1 CCCCACATAG 0.909149 -118 TACCAAATCTACCTACCCTAGAACCGTTGGC 35 131 0 ACCTACCTAG 0.35691 -27 GGAAACCGATCCCCAGCAGAGTTTTGCAAAA 36 22 0 CCCCACAGAG 0.90743 -72 TTGCAAAATTCCTCACTAGAGTTAGGGAAGC 38 67 0 CCTCATAGAG 0.283845 -115 CACGACTGGGCCCTAACCCAGACCG 38 167 1 CCCTACCCAG 0.675432 -15 AAGGTTTAACCCCCAACCAAGTTACCCCCAT 41 91 0 CCCCACCAAG 0.976228 -53 GCCTTTGCTCCCCCACCGGAGTTGCCCTGGG 47 122 1 CCCCACGGAG 0.889676 -79 TCCTGTAGCCCTAACCAAACGGCGATCGC 47 182 0 CCCTACCAAA 0.817014 -19 TTTGACGGACACCCACCCAAGTAACAAAAAG 48 223 0 ACCCACCAAG 0.673467 -78 CCTAATGTTTCCCCAATCAAAGGGGATAGCA 52 65 1 CCCCATCAAA 0.800901 -71 AGCCTGACAACCCAAGCCGAGCTTATGGAGT 52 99 0 CCCAACCGAG 0.708058 -37 GGAACCTAAACCCTAACTAAGCCGTTGTGTT 54 67 0 CCCTACTAAG 0.55507 -121 ATTTTGCTCACCCTAACCAAAAAAGGCGATC 55 52 0 CCCTACCAAA 0.817014 -42 ACCGATTCTACCCCAGCAGAGAGCGCAAATC 58 19 0 CCCCACAGAG 0.90743 -184 CGTAATTCCGCCCTAGCAAAGGCCTTGTTTA 58 166 0 CCCTACAAAG 0.817781 -37 CGCTCAATCGCCCCACTAAAATCCCTACTCA 61 65 1 CCCCATAAAA 0.558592 -236 CCACTAAAATCCCTACTCAAACAAGGGGGAG 61 77 1 CCCTATCAAA 0.582885 -224 GGTTGTTTTTCCCCAATCAAATCTGCCGTCA 64 11 1 CCCCATCAAA 0.800901 -151 TTTACATAGTCCTCAGCCAAAATTAGGAGCA 65 34 0 CCTCACCAAA 0.624138 -95 CAAACGTCGCCCCCATCGTAACTCGTTTCCC 66 75 0 CCCCACGTAA 0.720403 -226 AAAGAATGCCCCCTATCCTAGGCAGAATAAC 72 36 1 CCCTACCTAG 0.917015 -108 AAGGAGTTTTCCCAATTCTAGCT 73 33 1 CCCAATCTAG 0.436588 -13 AGGTGCTAGTCCCCATTGTAAAAGGTTTATC 74 39 0 CCCCATGTAA 0.446416 -113 ***** ***** Masking position 5 Map Score: 21.9413 Number of sites scoring better than the average of aligned sites = 1547 Number in coding regions = 1395 Number in noncoding regions = 152 Number of orfs with sites within 600 bp upstream = 173 Fraction of orfs with sites within 600 bp upstream = 0.0277867 Motif number 7 CAGGCCGGATAACCCCATTTACCCTTTCCCAAAG 5 137 0 AACCCCAACC 0.981867 -130 ATGCTTTAAAAGCCCCCCTGACCCCCAAATTTAG 6 128 1 AGCCCCCACC 0.983291 -173 AGTTTTATTCTGCCCCCTAAATCTCCTCACTAAA 6 200 0 TGCCCCCACT 0.497881 -101 CTGTATTGAAAGTCCCCTAGCCCCCAATACTGGG 8 27 1 AGTCCCCCCC 0.881144 -142 GTGGTGATTTAGTCCCCCCTATCCCCGTCCCTGG 12 106 1 AGTCCCCACC 0.900431 -195 TGGTAAGAATAACCCCATTTACCTAGATTCAGAC 16 72 1 AACCCCAACT 0.878518 -74 ACGAGGAACTAACCCCCAAACTCAACTGCTTGAA 17 93 1 AACCCCCCCA 0.845799 -96 CGCCGGAGTCAACCCCCTCCATCCCTGATCCTTA 18 28 0 AACCCCCACC 0.986261 -195 CCCTGATTTTAACCCTCGTTCTCCTGGGAGCCTT 22 72 0 AACCCTCCCC 0.812795 -133 TGCCGCAAGAAACCCCAAACATCCTGCAATAATT 22 129 1 AACCCCAACC 0.981867 -76 TCCCCAACGGAGCCCCAGAGAGACAGTCTGCAGG 26 198 0 AGCCCCAAAC 0.638365 -79 TAGGATTGTTAACCCCATCAAGCCCGAAAATGTT 26 231 0 AACCCCAACC 0.981867 -46 GGGAAACCCTAACCCCATGGCCCCATCATAGTTT 35 30 1 AACCCCACCC 0.977968 -128 GGCGTATTTCTGCCCCAATTCGCCTAAATACTGA 40 29 1 TGCCCCACCC 0.821136 -107 AAAACGGCATAATCCCCGGGAACATTTACCAAGA 43 164 0 AATCCCCACA 0.506951 -137 GGCTACCTCTAACCTCCAAAACCCCTAGCCTTTC 48 189 1 AACCTCCACC 0.740578 -112 AACTCAAACAAACCCCACCAATCGAGATTGCCGT 63 33 1 AACCCCAACG 0.809231 -268 AATATGGCTTAGCCCTAAATCCCCAACGTGCATT 63 73 1 AGCCCTACCC 0.728609 -228 CATTGCAACCCCTAAGAACCTATTGGCCAG 65 109 0 AACCCCTACC 0.86248 -20 AGCGTTGTCAATCCCATCGCTCTGGTCTGGGAT 66 10 1 AATCCCACCT 0.476719 -291 AAAACTCCTTCACCCCAGTCACCCCAGATTCT 73 9 0 CACCCCAACC 0.85167 -37 ******* * ** Masking position 4 Map Score: 17.0267 Number of sites scoring better than the average of aligned sites = 937 Number in coding regions = 785 Number in noncoding regions = 152 Number of orfs with sites within 600 bp upstream = 141 Fraction of orfs with sites within 600 bp upstream = 0.022647 Motif number 8 AGCCCTTTAATATTGTCGGAGCTTTTATTTAGTG 1 24 1 TTTGCGGCTT 0.904682 -148 AGTCCTCTAGTATTGCCGGAGCTTTAGTGAGGAG 6 178 1 TTTGCGGCTT 0.904682 -123 TCCTCGCTATTTTTGACTAGGCTTGCCCAGTCTT 12 193 1 TTTGCAGCTT 0.704918 -108 AAGATCGCAATTTTGAGGTGGCTTGATATTAACA 21 23 1 TTTGGTGCTT 0.911769 -105 TATAGACAATTATTGCCGTTGATTAAGGGAGTAA 32 59 1 TTTGCTGATT 0.97244 -242 CACTGGGGAATTATGACTTTGATTGTGCGGGCCA 32 204 0 TATGCTGATT 0.739177 -97 TAATCCTAGATGTTGTCCTGGCTTGGGAAACCGA 36 44 0 TTTGCTGCTT 0.96043 -50 TTGTTTTTGCCCTTGCCATAGATTTTT 38 4 0 CTTGCTGATT 0.807705 -178 ATTGCACGCTTTTTGAGCGTGATTTAATCTTTCA 42 113 1 TTTGGGGATT 0.854534 -34 TAAAAACACTTTTTGAGATTGATTTCTTGGTAAA 43 140 1 TTTGGTGATT 0.937589 -161 TTTGACTAAATTTGGGCTTTGATTGTTTAATTAT 48 132 1 TTGGCTGATT 0.807705 -169 GTAAACAAATTTTTGACGTTGATTGGTGCTGTCC 54 103 0 TTTGCTGATT 0.97244 -85 GGCCCAGAGCTTTTGAGTTAGATTATTTTTTCAA 59 45 0 TTTGGTGATT 0.937589 -91 ATCTCGGGTATATTGACCTTCATTGACGGCAGAT 64 31 0 TTTGCTCATT 0.721719 -131 TACCCGCCGTTATTGTGATTGATTTTGCTTTGCC 66 253 1 TTTGGTGATT 0.937589 -48 TTAACGATATTCTTGTCCTTGAATGAACTTAACT 74 78 0 TTTGCTGAAT 0.739177 -74 ATATTGTCTTCGATTATCCTTGTCC 77 286 0 TTTGCTGATT 0.97244 -15 * *** * * **** Masking position 14 Map Score: 13.2556 Number of sites scoring better than the average of aligned sites = 71 Number in coding regions = 55 Number in noncoding regions = 16 Number of orfs with sites within 600 bp upstream = 20 Fraction of orfs with sites within 600 bp upstream = 0.00321234 Motif number 9 AGGCTAAATACCCTCTCATCCTGAGGCAGTG 3 31 0 CCCTTCATCC 0.550452 -81 GCAATTTACTCGCTCTCCCCTAGGGTACTCT 5 104 1 CGCTTCCCCT 0.416214 -163 TTAAAAGCCCCCCTGACCCCCAAATTTAGGG 6 133 1 CCCTACCCCC 0.729133 -168 ATTGAAAGTCCCCTAGCCCCCAATACTGGGG 8 31 1 CCCTGCCCCC 0.880129 -138 ATTTAGTCCCCCCTATCCCCGTCCCTGGCAG 12 112 1 CCCTTCCCCG 0.942883 -189 TAACGCCTAGGGCTTTCCTCGCTATTTTTGA 12 178 1 GGCTTCCTCG 0.5872 -123 AGCCGGACTTCCCTTTCCCCAGGGCTTGAAG 18 170 0 CCCTTCCCCA 0.681655 -53 TTAACTTGGAGCCTCTGCCCC 19 1 0 GCCTTGCCCC 0.966504 -130 CATTTTGCCATCCTCTCCCCCCAACCGCTAG 26 46 1 TCCTTCCCCC 0.915414 -231 AAAGCCCATTGCCGTTGCTCGATTTTTCGGC 26 85 1 GCCGTGCTCG 0.420901 -192 GGGTTAACAATCCTATGCCGCGTTGACTATT 26 250 1 TCCTTGCCGC 0.49475 -27 TGAGCTTTTGGCCTGTGCCCTTCCTTCAATC 28 22 0 GCCTTGCCCT 0.703834 -153 GGCCTATCCTTCCTTCTTTAAC 37 2 1 GCCTTCCTTC 0.43084 -98 CACTGACCCAGCCTATCACCCTTGGGGCTAG 41 45 1 GCCTTCACCC 0.728494 -99 TATTGTGCCTGCCTTTGCTCCCCCACCGGAG 47 112 1 GCCTTGCTCC 0.929416 -89 TTTGCGGGTGGGCTTTGCCCCCTATAATTTT 48 278 1 GGCTTGCCCC 0.844921 -23 TTTTTCCTGCGCCTATCCTCCGGGTTTGATG 50 134 0 GCCTTCCTCC 0.954381 -44 TTAAAAACCGCCCGATGCTCCTAATTTTGGC 65 19 1 CCCGTGCTCC 0.668702 -110 TGATTGATTTTGCTTTGCCCCCAGGGCTGAT 66 268 1 TGCTTGCCCC 0.562589 -33 AGCAATGCCCTATGCTCCTAGCTTGTCC 70 8 1 CCCTTGCTCC 0.929416 -26 GGGGCCTCTCCTCGGCTTAATATT 71 4 1 GCCTTCCTCG 0.882813 -107 TGGACTTTCGCCCTAGCCCGCCGGGAAACCA 72 98 0 CCCTGCCCGC 0.513504 -46 ACTTCCATTGCCCTGCCCCCC 75 1 0 CCCTCCCCCC 0.799585 -198 CACATTGTAATCCTTTCCTCGGTTAGAATTG 75 51 1 TCCTTCCTCG 0.640081 -148 GATTAAAACGCCCTTTGCTGCTGTTTCAGCT 77 18 0 CCCTTGCTGC 0.654331 -283 CAACTTTTTCGCCAATCCCCGCCTCAGCAAT 77 62 1 GCCATCCCCG 0.481256 -239 **** ****** Masking position 3 Map Score: 20.1047 Number of sites scoring better than the average of aligned sites = 1736 Number in coding regions = 1487 Number in noncoding regions = 249 Number of orfs with sites within 600 bp upstream = 252 Fraction of orfs with sites within 600 bp upstream = 0.0404754 Motif number 10 GCCCCTGTCCTAGAATGGGGAAATTAGCAGAG 6 16 0 TAAAGGGGAA 0.610088 -285 ATGCCATTGGTCAAAAGGGGAGTTAACGCCAC 9 14 0 TCAAGGGGAG 0.916726 -192 AAGTTAGTACAATTATGGGCAGGGAAAAGCCT 12 272 0 AATAGGGCAG 0.760648 -29 AAAATGATAGAATAAAGGGCAGAAATATTAGA 31 90 1 AAAAGGGCAG 0.939612 -34 AATTTTCCGATAATATGGGCAGAAGCTAAACA 49 31 0 TATAGGGCAG 0.670041 -27 CGCTCCTGAAAAAAGGGGAGGAAGAATGGC 50 9 1 AAAAGGGGAG 0.971532 -169 CAAGTCCAGATAGAATGGGGAGCCGATCGCCA 56 69 1 TAAAGGGGAG 0.956154 -59 TCCCTACTCAAACAAGGGGGAGATTTAACTGC 61 86 1 AAAAGGGGAG 0.971532 -215 TACGCCACTAAAAATTGGGGAGCTTTTGCCTT 61 250 1 AAATGGGGAG 0.784098 -51 TCCGTCCAGCAAGAAGGGGGAGT 64 149 1 AAAAGGGGAG 0.971532 -13 GGCGGGTAAAACTAATGGGCAGAACCATTACC 66 229 0 ACAAGGGCAG 0.887068 -72 ATAAACCTTTTACAATGGGGACTAGCACCTAA 74 40 1 TAAAGGGGAC 0.698709 -112 ACTATGGCTGACTAACGGTGAGAAATATTCTC 76 81 0 ACAAGGTGAG 0.53156 -31 ** ** ****** Masking position 11 Map Score: 8.80557 Number of sites scoring better than the average of aligned sites = 216 Number in coding regions = 174 Number in noncoding regions = 42 Number of orfs with sites within 600 bp upstream = 51 Fraction of orfs with sites within 600 bp upstream = 0.00819146 Motif number 11 GGGTCTAAAACCCCGTCTTTCAGAGTGTGAT 7 202 0 CCCCGTCTTC 0.941704 -99 GAGCCTGGTTCCCAGACGTTCTGTTCCAACC 26 169 1 CCCAGACGTC 0.884068 -108 TGGGTTAGGGCCCAGTCGTGCAAAGTTAGTG 38 156 0 CCCAGTCGTC 0.922684 -26 ACCAAGTTACCCCCATTGTTCCATGGCATTC 41 76 0 CCCCATTGTC 0.870218 -68 ATTAATAATTCCCAAACGTCCCATTATACCC 45 30 1 CCCAAACGTC 0.855558 -135 TCCCATTATACCCCATTGTCCAAGCAAAACC 45 48 1 CCCCATTGTC 0.870218 -117 CATTCTTCCTCCCCTTTTTTCAGGAGCG 50 8 0 CCCCTTTTTC 0.745381 -170 AATTTGTTTACCCCGACTTACTTGAATCCTA 54 126 1 CCCCGACTTC 0.911678 -62 TTACGAGAGACCCATTTTTCC 58 192 1 CCCATTTTTC 0.537742 -11 AGCCCTAAATCCCCAACGTGCATTAAAAATT 63 83 1 CCCCAACGTC 0.937129 -218 ACTCCCCCTTCTTGCTGGACGGAGA 64 147 0 CCCCTTCTTC 0.910589 -15 CAAACGTCGCCCCCATCGTAACTCGTTTCCC 66 75 0 CCCCATCGTA 0.605748 -226 TGCCAATGATCCCATACTTACCCTGCCCTGG 77 155 1 CCCATACTTC 0.721138 -146 ********* * Masking position 9 Map Score: 7.20051 Number of sites scoring better than the average of aligned sites = 252 Number in coding regions = 216 Number in noncoding regions = 36 Number of orfs with sites within 600 bp upstream = 40 Fraction of orfs with sites within 600 bp upstream = 0.00642467 Motif number 12 CCGATTCTCTCGGATTTTCGGCCTGCAATTTA 5 80 1 CGTTTTCGGC 0.973698 -187 GAGGGCCGCACAAGTTTTCGGCCCCTGTCCTA 6 36 0 CATTTTCGGC 0.98113 -265 TTTTTAAGAACCATTCAACGGCGTAGGTTCAT 6 266 1 CATCAACGGC 0.740976 -35 ATTGGAACCATGGCTTTTCGGCCCATCGTTGT 9 144 1 TGTTTTCGGC 0.763838 -62 CCCCCCAACCAGTTATCGGCGGATTTTGAA 15 9 1 CATTATCGGC 0.93529 -82 TGATTATATGCGATTTTACGGCTCCGCCGGAG 18 54 0 CATTTACGGC 0.93529 -169 TGCCGTTGCTCGATTTTTCGGCCATGGGTAAA 26 94 1 CATTTTCGGC 0.98113 -183 ATCCGACGGACTACTCTTCAGCTTCCCTAACT 38 47 1 CATCTTCAGC 0.763838 -135 CTTCAGATCTTCGGCTACGGCGTAT 40 4 1 CGTCTTCGGC 0.963449 -132 CCTGGCATGTCTATTTTTCGGCACCAAAAATG 66 171 1 CATTTTCGGC 0.98113 -130 * * ******** Masking position 5 Map Score: 6.3442 Number of sites scoring better than the average of aligned sites = 65 Number in coding regions = 55 Number in noncoding regions = 10 Number of orfs with sites within 600 bp upstream = 16 Fraction of orfs with sites within 600 bp upstream = 0.00256987 Motif number 13 GCCAAAAGAAAAATCCCCTCAGATCGTCTC 6 93 1 AAATCCCCTC 0.798512 -208 AAAGTTTTGTGAATCCCCTGAGAAGGTGTT 6 239 0 GAATCCCCTG 0.708109 -62 AAAGCACAAAAAATCCCCCTGGTTAAAGGA 8 81 0 AAATCCCCCT 0.872208 -88 AAATGCTTCAAAATCCGCCGATAACTGGTT 15 17 0 AAATCCGCCG 0.736107 -74 GGTTTAAACGAAATTGCCCGATCAAACTCA 19 91 1 AAATTGCCCG 0.889074 -40 AGTCAGAAAAATTCCCTGGGGGCACTAA 33 9 1 AAATTCCCTG 0.811719 -82 TATTAATTGAAAATCGCCTGAGGTTTCTAC 43 64 1 AAATCGCCTG 0.94328 -237 ATAGGCCTTAAAATCCCCGGCCCGGCGTAG 43 90 0 AAATCCCCGG 0.836525 -211 GGGCCAGAAAAAATCCCCCGAACATCAAAC 50 112 1 AAATCCCCCG 0.96867 -66 AACCTAGGAAAAATCGCCCGTTACCGATTC 58 42 0 AAATCGCCCG 0.96867 -161 TAATAATACCAAATTGCCTTGGCCCAGAGC 59 69 0 AAATTGCCTT 0.487627 -67 CGTGTTTTAAAAACCGCCCGATGCTCCTAA 65 13 1 AAACCGCCCG 0.818516 -116 TTCAACACCGAAATTGCCCCAGGCGATCGC 69 13 1 AAATTGCCCC 0.656358 -32 TGTGATCAATAAATCGCCTTCACATTGTAA 75 31 1 AAATCGCCTT 0.785922 -168 ********** Masking position 3 Map Score: 6.87441 Number of sites scoring better than the average of aligned sites = 531 Number in coding regions = 463 Number in noncoding regions = 68 Number of orfs with sites within 600 bp upstream = 78 Fraction of orfs with sites within 600 bp upstream = 0.0125281 Motif number 14 GGGCCGAAAAGCCATGGTTCCAATCCATTGC 9 137 0 GCCATGTTCC 0.889564 -69 TATTCCCCCGGTCAAAGTTCCACAGAGGAGC 14 63 0 GTCAAGTTCC 0.833052 -73 TGATTGCATTGCCAAACATCCTCTCAATCTT 20 19 0 GCCAACATCC 0.929109 -233 CGCAAGAAACCCCAAACATCCTGCAATAATT 22 132 1 CCCAACATCC 0.685146 -73 CATCAAGCCCGAAAATGTTCCCCAACGGAGC 26 219 0 GAAAAGTTCC 0.453868 -58 CCAAGTTACCCCCATTGTTCCATGGCATTCC 41 75 0 CCCATGTTCC 0.572177 -69 TGATTTCTTGGTAAATGTTCCCGGGGATTAT 43 159 1 GTAAAGTTCC 0.6774 -142 TTCAAAAAATGCCACCCTTCCGTGGTTAGGG 46 179 1 GCCACCTTCC 0.84331 -60 TTAGTTTTTCGCCATTCTTCCTCCCCTTTTT 50 20 0 GCCATCTTCC 0.901723 -158 GCAGGATAAGGCAAAAGCTCCCCAATTTTTA 61 258 0 GCAAAGCTCC 0.685657 -43 TGAATAGCTTGTAAAACATCCTTTTCTTGAT 62 38 1 GTAAACATCC 0.499983 -199 TGTACTGGTTGCAAAGCTTCCTGGCTGACCT 64 89 1 GCAAACTTCC 0.929544 -73 AGGGCTGATCGCCAAGCTTCC 66 290 1 GCCAACTTCC 0.969089 -11 CTCCTTCACCGCAAAACTTCCATAGCGATAA 77 119 1 GCAAACTTCC 0.929544 -182 ATAATTTTTTGCCAATGATCCCATACTTACC 77 146 1 GCCAAGATCC 0.920038 -155 ***** ***** Masking position 4 Map Score: 7.76191 Number of sites scoring better than the average of aligned sites = 416 Number in coding regions = 367 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 46 Fraction of orfs with sites within 600 bp upstream = 0.00738837 Motif number 15 GGAGCATATTTGGGCGCAGAGCTGGAGGTTTAT 14 35 0 TGGGCGAGCT 0.986953 -101 AGTGGCAGAGTTTCCGGTGAGCTTGAGCTCTGT 24 29 1 TTTCCGAGCT 0.779489 -110 GCAACGGCAATGGGCTTTGAGCTTGTCTAGCGG 26 70 0 TGGGCGAGCT 0.986953 -207 AACGGTTCCTTTGACGTCGAGCTTTAGCTCAAA 28 117 1 TTGACGAGCT 0.90902 -58 AGGGATTGTATGTCCTTTGAGCTAAAGCTCGAC 28 132 0 TGTCCGAGCT 0.900431 -43 TTGCAAATACTGGGCAAAGAGCTCAGGACAACC 37 69 0 TGGGCGAGCT 0.986953 -31 CCAAATTGCCTTGGCCCAGAGCTTTTGAGTTAG 59 58 0 TTGGCGAGCT 0.967287 -78 TGCCCTGGTTTGGACTCGGAGCTTACGACTAAT 77 178 1 TGGACGAGCT 0.96235 -123 ***** ***** Masking position 10 Map Score: 5.36653 Number of sites scoring better than the average of aligned sites = 37 Number in coding regions = 30 Number in noncoding regions = 7 Number of orfs with sites within 600 bp upstream = 9 Fraction of orfs with sites within 600 bp upstream = 0.00144555