AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00360_mtub_reg_100.orf -o00360_mtub_100.ace -a/home/amcguire/genomes/ORF_mtub.txt -z/home/amcguire/genomes/mtub.fna -g0.66 -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 = 0.66 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 aspC 30 aspC #2 Rv0338c 108 hypothetical protein Rv0338c #3 mmpS2 173 mmpS2 #4 hemA 49 hemA #5 Rv0858c 156 hypothetical protein Rv0858c #6 fadA3 52 fadA3 #7 Rv1075c 300 hypothetical protein Rv1075c #8 fdxC 212 fdxC #9 Rv1178 32 hypothetical protein Rv1178 #10 hisD 99 hisD #11 Rv2054 75 hypothetical protein Rv2054 #12 cobC 300 cobC #13 amiA2 61 amiA2 #14 scoA 82 scoA #15 fadD35 115 fadD35 #16 ltp1 32 ltp1 #17 Rv2792c 201 hypothetical protein Rv2792c #18 glnA4 159 glnA4 #19 rpsB 283 rpsB #20 gatC 84 gatC #21 Rv3137 300 hypothetical protein Rv3137 #22 fadE24 79 fadE24 #23 Rv3174 92 hypothetical protein Rv3174 #24 Rv3545c_fadA5 111 Rv3545c: hypothetical protein Rv3545c, fadA5: fadA5 #25 fadD3 47 fadD3 #26 hisC2 300 hisC2 Motif number 1 GTGCGACTTTCGCCGCGAGAAAGGCTGTCC 2 25 0 CGCCGCGAGA 0.688641 -84 GGGTCACTAGGTCCGCGCGATGGGCGGAAC 3 148 1 GTCCGCGCGA 0.589209 -26 CCTGTTAGGGTGCCGGTACGGGACCTAGTC 5 64 0 TGCCGGTACG 0.542822 -93 CCAACAGGTTGGCCGGGGGCCCTGTTAGGG 5 84 0 GGCCGGGGGC 0.9357 -73 GGCAAGGTATCGCTGCGGCGCGCATCGTCG 5 117 1 CGCTGCGGCG 0.596811 -40 CGGCGCGCATCGTCGCCCGGATAGGCTCGA 5 132 1 CGTCGCCCGG 0.837708 -25 GTCTTGTCCATGCCGGGAGCCGTC 6 39 1 TGCCGGGAGC 0.91011 -14 GTTGTCATTTCGCCGCGCGACGTGTTGAAG 7 23 0 CGCCGCGCGA 0.944156 -278 GCTCAGCCAACCCCGCGAACTTAGCTTGAC 7 151 1 CCCCGCGAAC 0.389598 -150 TTGCCGTCTATGCTGCCCGG 8 1 0 TGCTGCCCGG 0.489338 -212 TGACCGTGTACGCCGACGCATGTGCCAAGT 8 60 1 CGCCGACGCA 0.825464 -153 CCAAGGCTTCCTCCGGGCCCTGCTGAGGCA 8 135 0 CTCCGGGCCC 0.953465 -78 GCCGGCTGGGGGCAGCACCCGCT 9 4 1 GGCTGGGGGC 0.887356 -29 TCCGCCGCGAGCGGGTGCTGCC 9 21 0 CGCCGCGAGC 0.658918 -12 TACGTGACCGCGCCGCCGCCC 10 89 1 CGCCGCCGCC 0.806358 -11 TGACGCCAACGTCTGCGGGCTAGGCCCGAG 11 15 1 GTCTGCGGGC 0.634952 -61 GGCCCGAGTTCCTCGGGGGCGGACATCGAG 11 37 1 CCTCGGGGGC 0.792086 -39 TCTTGTCGGCCGCCAGTGCCTGGGAGATCG 12 15 1 CGCCAGTGCC 0.55699 -286 GGCGGGAGCTTGCCGAGGCGGTAGTTGATC 12 46 0 TGCCGAGGCG 0.763262 -255 GGCAAGCTCCCGCCGCCCGAGCCATCGGCT 12 62 1 CGCCGCCCGA 0.936949 -239 CGATCGAATGCGCCGCTGCGGCACGTCGCC 12 103 1 CGCCGCTGCG 0.647142 -198 TGCGGCACGTCGCCGCTGTCAGTTGACCAC 12 119 1 CGCCGCTGTC 0.940689 -182 GATCCGGAAGCTCTGCGGTGCGCAGTGTGT 12 151 0 CTCTGCGGTG 0.47656 -150 CGATCATCACCGCCGACGCCCTGTTAGCTG 12 238 1 CGCCGACGCC 0.967716 -63 TCGCGGTTGTCGCCGCGTAGACAACGCGTC 12 277 1 CGCCGCGTAG 0.732957 -24 CGCCGACGCGTTGTCTACGC 12 291 0 CGCCGACGCG 0.955829 -10 TAGTTTTGCACCCCGCCACGACATCGCGGG 13 16 1 CCCCGCCACG 0.757599 -46 ATACCATTGCCCCCGCGGTGCGTCTAGGGA 14 13 0 CCCCGCGGTG 0.579917 -70 GGTTCCTCCGCCTGGTGCCTACCGC 15 101 0 CTCCGCCTGG 0.836508 -15 CAACCGAATCGCCCGGCTCCTCCTCACCCC 17 12 0 GCCCGGCTCC 0.541245 -190 GGGGGATGCGGTCCGGGACGGCAACGGTGG 17 60 1 GTCCGGGACG 0.647537 -142 ACATGATGGGCGCTGGTGCCCATCATGTTC 18 28 0 CGCTGGTGCC 0.812935 -132 CGCGTCTACTCGCCGGCTCCGGCGGTTCGC 18 63 1 CGCCGGCTCC 0.962196 -97 ACATGCTGGCTGTCGCGGGCACCGCGAACC 18 86 0 TGTCGCGGGC 0.631008 -74 CATCTATAGGCTCCGGGCCCACATGCTGGC 18 106 0 CTCCGGGCCC 0.953465 -54 TCGCCGCCGCCCGTTTTGTGG 19 2 1 CGCCGCCGCC 0.806358 -282 TGGACAATGTCGTCGCTGTGGATTCCGCTG 19 29 1 CGTCGCTGTG 0.463215 -255 CTGTGGATTCCGCTGCCGGGAAAATCACCA 19 44 1 CGCTGCCGGG 0.932191 -240 ATGCGAGCTGCGCCGAGTAGTTTACACCGA 19 80 0 CGCCGAGTAG 0.4576 -204 GAAGTCAGCCCGCCGATGCGAGCTGCGCCG 19 95 0 CGCCGATGCG 0.898536 -189 CGGAAAGGCGGGCCGCGGTGCAGACACGCG 19 124 0 GGCCGCGGTG 0.585478 -160 CGCAACAGCATGCCGGGGCGGTCCCGCGGC 19 159 1 TGCCGGGGCG 0.832558 -125 CGAAGGGAACCGCCGCGGGACCGCCCCGGC 19 170 0 CGCCGCGGGA 0.524673 -114 GGGGATTTCCTCCCGGGTCCGGCATCGCGG 19 199 1 TCCCGGGTCC 0.591392 -85 CCCTGGCGTCTGCCGCGATGCCGGACCCGG 19 211 0 TGCCGCGATG 0.658746 -73 TCGCGGCAGACGCCAGGGCCCGGCTTCAGC 19 223 1 CGCCAGGGCC 0.873543 -61 CTTCAGCCGATGCCGGGCGAACAACCGACA 19 246 1 TGCCGGGCGA 0.783474 -38 GGACGGCCGACGCCGGCTGCCGAAACGCCG 20 41 0 CGCCGGCTGC 0.967579 -44 ATGTCACCATCGCCGGGATCATCACTGG 21 9 0 CGCCGGGATC 0.923883 -292 ACATACTGCTGGCCGCCTGCGTCCGGTCGC 21 35 1 GGCCGCCTGC 0.920923 -266 GCCTGCGTCCGGTCGCGGGCTGACTCCGGT 21 49 1 GGTCGCGGGC 0.52473 -252 ACCAGGAGCGTGCCGCTGGCCAGATCTCCC 21 80 1 TGCCGCTGGC 0.92224 -221 GGCCAGATCTCCCCGCGGGCCGCGCGGGAT 21 97 1 CCCCGCGGGC 0.510846 -204 GTATTTCTTGCTCCGCGGCTTATCCCGCGC 21 118 0 CTCCGCGGCT 0.738559 -183 GTCCTACCATGGCCGGGTGGGATGGGAGTT 21 182 0 GGCCGGGTGG 0.931408 -119 GCCGTTATTACGCCGAGCGTGAACTCAGTG 21 223 1 CGCCGAGCGT 0.705189 -78 ACCATCCTTTCGCCGAGCGTGTACCCAGTG 21 275 0 CGCCGAGCGT 0.705189 -26 GTTCGAATCTCTTCGGGCGCGCTCTTTACT 26 33 0 CTTCGGGCGC 0.627761 -268 GGATTTGAACCTCCGGTCCCCTTGAAGGGG 26 156 1 CTCCGGTCCC 0.786591 -145 AGCCCCATTCGGCCGCTCTGGCACGCCTCC 26 204 1 GGCCGCTCTG 0.600076 -97 TACGCTAGGCCTCCGGCGGCTCGGGGAGTC 26 256 0 CTCCGGCGGC 0.962026 -45 ********** Masking position 5 Map Score: 82.5102 Number of sites scoring better than the average of aligned sites = 74796 Number in coding regions = 70250 Number in noncoding regions = 4546 Number of orfs with sites within 600 bp upstream = 1473 Fraction of orfs with sites within 600 bp upstream = 0.236588 Motif number 2 AGACTAGGTCCCGTACCGGCACCCTAACAG 5 63 1 CCGTACCGGC 0.646959 -94 AACAGGGCCCCCGGCCAACCTGTTGGTTGG 5 88 1 CCGGCCAACC 0.926939 -69 TCGCTGCGGCGCGCATCGTCGCCCGGATAG 5 126 1 GCGCATCGTC 0.838795 -31 GCATCGTCGCCCGGATAGGCTCGACCGCC 5 138 1 CCGGATAGGC 0.909874 -19 AGTAAGGTATCCGGCTCACCCAGAGTTGTC 7 47 0 CCGGCTCACC 0.93951 -254 TCCACGAAATCGGCACAACCGTCCTAAACT 7 263 1 CGGCACAACC 0.856031 -38 GCATAGCAATCCGGCTTGCCGTCTATGCTG 8 16 0 CCGGCTTGCC 0.747873 -197 GCCGGCTGGGGGCAGCACCCGCTCGCGGC 9 10 1 GGGCAGCACC 0.776593 -23 GGCGGCTCCTCTTTGCCGGTC 10 2 1 GCGGCTCCTC 0.743318 -98 CTACGTGACCGCGCCGCCGCCC 10 88 1 GCGCCGCCGC 0.850381 -12 CGAGGAACTCGGGCCTAGCCCGCAGACGTT 11 22 0 GGGCCTAGCC 0.788431 -54 CGATCAACTACCGCCTCGGCAAGCTCCCGC 12 45 1 CCGCCTCGGC 0.962221 -256 CGGCGACGTGCCGCAGCGGCGCATTCGATC 12 104 0 CCGCAGCGGC 0.950675 -197 CGCAGAGCTTCCGGATCACCATCGACATCC 12 164 1 CCGGATCACC 0.938781 -137 ACGATCATCACCGCCGACGCCCTGTTAGCT 12 237 1 CCGCCGACGC 0.863093 -64 GACTATCGGCGCGGATACCCGCGATGTCGT 13 33 0 GCGGATACCC 0.733552 -29 ACCGCAGAGCCTCCTAGCATT 14 72 0 CCGCAGAGCC 0.91368 -11 CAGGCTCCAACCGAATCGCCCGGCTCCTCC 17 19 0 CCGAATCGCC 0.886643 -183 CCGTCCCGGACCGCATCCCCCTACATTGAG 17 51 0 CCGCATCCCC 0.957291 -151 GAATTGAACAGCGGCCCATCGCCGTGCGAC 17 112 0 GCGGCCCATC 0.826954 -90 ACCACTCAGACCGCAACAGCTGACAGCCCC 17 146 0 CCGCAACAGC 0.882399 -56 CTGACAACTACCGACCACTCAGACCGCAAC 17 159 0 CCGACCACTC 0.557957 -43 ATGTTCTTTTGCGCCTACTCGCG 18 4 0 GCGCCTACTC 0.6299 -156 AGAACATGATGGGCACCAGCGCCCATCATG 18 27 1 GGGCACCAGC 0.870915 -133 CGCGGGCACCGCGAACCGCCGGAGCCGGCG 18 73 0 GCGAACCGCC 0.899274 -87 ATTCCGCTGCCGGGAAAATCACCAGCTGGG 19 50 1 CGGGAAAATC 0.29943 -234 GTAGTTTACACCGACCCAGCTGGTGATTTT 19 64 0 CCGACCCAGC 0.866109 -220 TGTCTGCACCGCGGCCCGCCTTTCCGGGAT 19 128 1 GCGGCCCGCC 0.969825 -156 TTTCCGGGATCCGCAACAGCATGCCGGGGC 19 148 1 CCGCAACAGC 0.882399 -136 GGAACCGCCGCGGGACCGCCCCGGCATGCT 19 165 0 CGGGACCGCC 0.956293 -119 AATCCCCGAAGGGAACCGCCGCGGGACCGC 19 176 0 GGGAACCGCC 0.792416 -108 CCTCCCGGGTCCGGCATCGCGGCAGACGCC 19 207 1 CCGGCATCGC 0.486382 -77 GGCTGAAGCCGGGCCCTGGCGTCTGCCGCG 19 224 0 GGGCCCTGGC 0.565908 -60 GTTGTTCGCCCGGCATCGGCTGAAGCCGGG 19 241 0 CGGCATCGGC 0.914925 -43 CCGATGCCGGGCGAACAACCGACACATGAG 19 252 1 GCGAACAACC 0.686151 -32 ACGCCGGCTGCCGAAACGCCGTGGATACAT 20 32 0 CCGAAACGCC 0.809369 -53 GGTGGCCGGACGGCCGACGCCGGCTGCCGA 20 48 0 CGGCCGACGC 0.729392 -37 CGTCGGCCGTCCGGCCACCCATTAGGCTTT 20 59 1 CCGGCCACCC 0.943626 -26 GACCGCAAAGCCTAATGGGTGG 20 73 0 CCGCAAAGCC 0.882326 -12 TCACCATCGCCGGGATCATCACTGG 21 6 0 CGGGATCATC 0.638666 -295 GCGGGCCGCGCGGGATAAGCCGCGGAGCAA 21 111 1 CGGGATAAGC 0.703452 -190 AAGAACGCACGCGAAAAATCGCACTGGGTA 21 254 1 GCGAAAAATC 0.148525 -47 CGGGGTGATAGCGGACCACCCTATCTTACT 22 43 0 GCGGACCACC 0.945846 -37 ACGGCAGCCTCGGTCATCGGG 22 69 0 CGGCAGCCTC 0.664821 -11 GGGGCCAGGCTAGAACACGT 24 1 1 GGGGCCAGGC 0.833031 -111 CTCTTTACTAGCGCAAACGCGTTCCGTTGG 26 12 0 GCGCAAACGC 0.733204 -289 CCGAGAGTACCCGGACTCCCCGAGCCGCCG 26 243 1 CCGGACTCCC 0.795527 -58 ********** Masking position 3 Map Score: 57.3757 Number of sites scoring better than the average of aligned sites = 52301 Number in coding regions = 48896 Number in noncoding regions = 3405 Number of orfs with sites within 600 bp upstream = 1339 Fraction of orfs with sites within 600 bp upstream = 0.215066 Motif number 3 CGCTACCGTTGACAGGCTGAAGAATTCAGGAT 3 40 0 GCGGCTGAAG 0.938506 -134 GCATGGACAAGACGTGGTGAAGTTTAGGTCAA 6 20 0 GCTGGTGAAG 0.945439 -33 TTCGCCGCGCGACGTGTTGAAGGCACGTAGAC 7 13 0 GCTGTTGAAG 0.749719 -288 GAACAAACCCGTCACGGTGTGGACCAAATGTG 7 223 0 GCCGGTGTGG 0.911907 -78 CTTCCTCCGGGCCCTGCTGAGGCAATGCGTTC 8 127 0 GCTGCTGAGG 0.987001 -86 CCCGGAGGAAGCCTTGGCGAGGTGGACAGCAG 8 148 1 GCTGGCGAGG 0.983064 -65 GTATCTGGAAGACATGTTGAGGAGACGTCC 8 193 1 GCTGTTGAGG 0.898154 -20 GCCGGCTGGGGGCAGCACCCGCTCG 9 4 1 GCGGGGGCAG 0.83581 -29 GGGCGGCGGGAGCTTGCCGAGGCGGTAGTTGA 12 48 0 ACTGCCGAGG 0.858323 -253 TGACAGCGGCGACGTGCCGCAGCGGCGCATTC 12 108 0 GCTGCCGCAG 0.946633 -193 AAGCAGCTGTGCCTGGGCGATGAGCACACGGT 12 199 0 GCGGGCGATG 0.786638 -102 TACCCGCGATGTCGTGGCGGGGTGCAAAACTA 13 16 0 GCTGGCGGGG 0.908797 -46 ACGCGAGTCAGACATGCGGTAGGCACCAGGCG 15 86 1 GCTGCGGTAG 0.921986 -30 TGCGGTAGGCACCAGGCGGAGGAACC 15 100 1 ACGGCGGAGG 0.721275 -16 AGTTGTCAGTGGCGTGCTGTAGGAACAACAGT 17 180 1 GCTGCTGTAG 0.935019 -22 TTGACTAGCGGCCATGGTGTGGGAGGAAGTGC 18 137 1 GCTGGTGTGG 0.966057 -23 ATCCCGGAAAGGCGGGCCGCGGTGCAGACACG 19 126 0 GCGGCCGCGG 0.968653 -158 GGACCGCCCCGGCATGCTGTTGCGGATCCCGG 19 151 0 GCTGCTGTTG 0.819725 -133 TGCCGGGGCGGTCCCGCGGCGGTTCCCTTCGG 19 169 1 GCCGCGGCGG 0.932019 -115 GCCGGCTGCCGAAACGCCGTGGATACATCGTT 20 28 0 GACGCCGTGG 0.55144 -57 TAGCTGTCCTAGTGAGGACCTTCTGCC 24 95 0 GCTAGTGAGG 0.659045 -17 GTCCCCTAAAGGACTGCGGAGGCGAGAGGATT 26 129 1 GATGCGGAGG 0.813888 -172 * * ******** Masking position 9 Map Score: 33.5506 Number of sites scoring better than the average of aligned sites = 5190 Number in coding regions = 4733 Number in noncoding regions = 457 Number of orfs with sites within 600 bp upstream = 392 Fraction of orfs with sites within 600 bp upstream = 0.0629618 Motif number 4 GGGTAGTCGAGGGAGCTGGCCAGGTGGTGCTGCC 4 26 1 GGCGGCCAGT 0.834779 -24 ATACCTTACTGGGTGCAGTCATGCCCAACACTTCC 7 67 1 GGCGTCATCC 0.948913 -234 GTCAAGCTAAGTTCGCGGGGTTGGCTGAGCCAGAG 7 146 0 GGCGGGTTGC 0.896 -155 TAGCAATCCGGCTTGCCGTCTATGCTGCCCGG 8 8 0 GGCGTCTAGC 0.980719 -205 GCTATGTGTGGGCTGCTGTCCACCTCGCCAAGGCT 8 157 0 GGCGTCCACT 0.922582 -56 TGACGCCAACGTCTGCGGGCTAGGCCCGAGTTCCT 11 15 1 GGCGGCTAGC 0.941043 -61 ATTCTCTTGTCGGCCGCCAGTGCCTGGGAGATC 12 9 1 GGCGCCAGGC 0.906334 -292 AAGCTCTGCGGTGCGCAGTGTGTGCGTGGTCAACT 12 139 0 GGCGTGTGGC 0.972104 -162 CAATGTAGGGGGATGCGGTCCGGGACGGCAACGGT 17 53 1 GGCGTCCGGA 0.796496 -149 GCCGTGCGACGTAGGCCGTGTAGCCCAGTGTGCCA 17 87 0 GGCGTGTACC 0.965187 -115 GGCTCCGGCGGTTCGCGGTGCCCGCGACAGCCAGC 18 77 1 GGCGTGCCGC 0.925845 -83 GCTCGCATCGGCGGGCTGACTTCGCGTGTCTGCAC 19 102 1 GGCGACTTGC 0.838948 -182 CGGAAAGGCGGGCCGCGGTGCAGACACGCGAAGTC 19 119 0 GGCGTGCAAC 0.744628 -165 GGGCCCTGGCGTCTGCCGCGATGCCGGACCCGGGA 19 209 0 GGCGCGATCC 0.797296 -75 GGCAGCCGGCGTCGGCCGTCCGGCCACCCATTAGG 20 50 1 GGCGTCCGCC 0.984808 -35 GTGACATACTGCTGGCCGCCTGCGTCCGGTCGCGG 21 32 1 GGCGCCTGGT 0.697093 -269 CGCTCCTGGTGACCGGAGTCAGCCCGCGACCGGAC 21 55 0 GGGGTCAGCC 0.811736 -246 TACTCATACTGATCGCGGTCCTAGCGGTATTTCTT 21 139 0 GGCGTCCTGC 0.987462 -162 TGGGATGGGAGTTTGGCGTGCTACTCATACTGATC 21 160 0 GGGGTGCTCT 0.549303 -141 AACGGCTCATGCCAGCAGTCCTACCATGGCCGGGT 21 194 0 GGCGTCCTCC 0.913011 -107 CCATCCTTTCGCCGAGCGTGTACCCAGTGCGATTT 21 269 0 GAGGTGTACC 0.234726 -32 TCCGGAGTAAGATAGGGGTGCTTGTTAAGTTGT 22 9 0 GGGGTGCTGT 0.645024 -71 TCATCGGGGTGATAGCGGACCACCCTATCTTACTC 22 42 0 GGCGACCACC 0.90298 -38 CCCTTAGCGCGTGTACCGTCAAAGCACAAAGTACA 23 42 1 GACGTCAAGC 0.690512 -51 AATGCCTTTTGTCTGCGGTGAAGGCATGTTTTACT 24 60 1 GGCGTGAAGC 0.965548 -52 CAGCATATGTGGCGGCTGTGTACGCTAGGCCTCCG 26 271 0 GGCGTGTAGC 0.975945 -30 * ** ***** ** Masking position 8 Map Score: 37.8718 Number of sites scoring better than the average of aligned sites = 10743 Number in coding regions = 10071 Number in noncoding regions = 672 Number of orfs with sites within 600 bp upstream = 503 Fraction of orfs with sites within 600 bp upstream = 0.0807902 Motif number 5 GTTGGCCGGGGGCCCTGTTAGGGTGCCGGTACGGG 5 72 0 GGCCCTTGGG 0.838756 -85 GCCTATCCGGGCGACGATGCGCGCCGCAGCGATAC 5 123 0 GCGACTGCGC 0.771402 -34 GGCGGCTCCTCTTTGCCGGTCCTTTCTACTG 10 7 1 TCCTCTGGGC 0.753186 -93 TCTAACTGCAGCCTCGATGTCCGCCCCCGAGGAAC 11 44 0 GCCTCTGCGC 0.98459 -32 GGCCGCCAGTGCCTGGGAGATCGCGATCAACTACC 12 22 1 GCCTGAGCGG 0.934296 -279 CCTGTTAGCTGCCTGTGATGTCGCGGTTGTCGCCG 12 257 1 GCCTGATCGG 0.828477 -44 CGGCGCGGATACCCGCGATGTCGTGGCGGGGTGCA 13 22 0 ACCCGATCGG 0.49272 -40 TTGGAGCCTGGCCTCAATGTAGGGGGATGCGGTCC 17 39 1 GCCTCTGGGG 0.98669 -163 AGCCCAGTGTGCCACCGTTGCCGTCCCGGACCGCA 17 66 0 GCCACTTCGC 0.948677 -136 GCCCGCGACAGCCAGCATGTGGGCCCGGAGCCTAT 18 96 1 GCCAGTGGGC 0.941984 -64 TTGACTAGCGGCCATGGTGTGGGAGGAAGTGCG 18 137 1 GCCATTGGGG 0.781886 -23 TCGCCGCCGCCCGTTTTGTGGACAATGTCGTCG 19 9 1 GCCCGTTGGC 0.951627 -275 CGCATCGGCGGGCTGACTTCGCGTGTCTGCACCGC 19 105 1 GGCTGTTCGG 0.69957 -179 CTGCACCGCGGCCCGCCTTTCCGGGATCCGCAACA 19 131 1 GCCCGTTCGG 0.93978 -153 CCTGGCGTCTGCCGCGATGCCGGACCCGGGAGGAA 19 205 0 GCCGCTGGGC 0.768618 -79 ACATCGTTGTGCCACAGTGTTGGCC 20 1 0 GCCACTGGGC 0.978102 -84 GTCCGCTATCACCCCGATGACCGAGGCTGCCGT 22 57 1 ACCCCTGCGG 0.9483 -23 TGTTTACAACACCCCTTAGCGCGTGTACCGTCAAA 23 30 1 ACCCCAGCGG 0.829001 -63 TGAACCTCCGGTCCCCTTGAAGGGGGACAACTCAT 26 161 1 GTCCCTGGGG 0.848608 -140 GCTCTGGCACGCCTCCATGGACTTCCCGAGAGTAC 26 218 1 GCCTCTGCTC 0.758154 -83 ***** ** ** * Masking position 13 Map Score: 17.7768 Number of sites scoring better than the average of aligned sites = 12065 Number in coding regions = 11365 Number in noncoding regions = 700 Number of orfs with sites within 600 bp upstream = 536 Fraction of orfs with sites within 600 bp upstream = 0.0860906 Motif number 6 GGTATCGGGAGGCCTAAGGGTCACTAGGTCCG 3 131 1 GGCCTAGGGC 0.975225 -43 TCCTTCTTCAAGACTAGGTCCCGTACCGGCAC 5 53 1 AGACTAGTCC 0.648573 -104 CCAACAGGTTGGCCGGGGGCCCTGTTAGGGTG 5 82 0 GGCCGGGGCC 0.822054 -75 GAGTCTACGTGCCTTCAACACGT 7 2 1 AGTCTAGTGC 0.797407 -299 CACCCAGTAAGGTATCCGGCTCACCCAGAGTT 7 50 0 GGTATCGGCC 0.445082 -251 GAAGCGGCTGAGCCTCTGGCTCAGCCAACCCC 7 133 1 AGCCTCGGCC 0.977656 -168 CTGGGAGAATGGTCTACGTGACCGCGCCGCCG 10 75 1 GGTCTAGTGC 0.810341 -25 ATCTAACTGCAGCCTCGATGTCCGCCCCCGAG 11 48 0 AGCCTCATGC 0.858597 -28 GCACGTAAGAAGCCGATGGCTCGGGCGGCGGG 12 70 0 AGCCGAGGCC 0.955768 -231 CGTCAGGCCAAGCAGCTGTGCCTGGGCGATGA 12 208 0 AGCAGCGTGC 0.836205 -93 AGTGACGATTAACCGAAGTGTCCAGCATGAGT 15 28 0 AACCGAGTGC 0.503782 -88 TGGGCTACACGGCCTACGTCGCACGGCGATGG 17 95 1 GGCCTAGTCC 0.952557 -107 AACCATCTATAGGCTCCGGGCCCACATGCTGG 18 107 0 AGGCTCGGGC 0.84471 -53 CGGAAAGGCGGGCCGCGGTGCAGACACGCGAA 19 122 0 GGCCGCGTGA 0.686982 -162 GCATCGCGGCAGACGCCAGGGCCCGGCTTCAG 19 220 1 AGACGCAGGC 0.418008 -64 ACGGCAGCCTCGGTCATCGGGGTGATA 22 63 0 AGCCTCGTCT 0.60674 -17 TTGGTAGGTTAGCCTACAGGGC 25 1 0 AGCCTAAGGC 0.82019 -47 AGCCCCATTCGGCCGCTCTGGCACGCCTCCAT 26 204 1 GGCCGCCTGC 0.773343 -97 GTGTACGCTAGGCCTCCGGCGGCTCGGGGAGT 26 257 0 GGCCTCGGCG 0.766943 -44 GTCGACAGCATATGTGGCGGCTGTGTAC 26 283 0 AGCATAGTGC 0.764654 -18 ****** *** * Masking position 2 Map Score: 11.2685 Number of sites scoring better than the average of aligned sites = 13371 Number in coding regions = 12547 Number in noncoding regions = 824 Number of orfs with sites within 600 bp upstream = 560 Fraction of orfs with sites within 600 bp upstream = 0.0899454 Motif number 7 TGGAATTTGCTGTCAGGTGCCAAATCGTGA 1 11 0 GCGTCAGGGC 0.877278 -20 TCGCACAGATGTCAGGATGAGCAGGTTATGCA 2 49 1 GTAGGATGGC 0.906149 -60 GAGGGAGCTGGCCAGGTGGTGCTGCC 4 34 1 GCAGGTGGGC 0.964958 -16 GCCTATCCGGGCGACGATGCGCGCCGCAGCGA 5 126 0 GCACGATGGC 0.947068 -31 AACTGATCCCGTGAGCATGCGC 7 289 1 GTAGCATGGC 0.906148 -12 GGATTGCTATGCAACTAGGTGCATATTGACCG 8 34 1 GCACTAGGGC 0.94324 -179 GCCGGCTGGGGGCAGCACCCGC 9 1 1 GCGGCTGGGG 0.690622 -32 TCCGCCGCGAGCGGGTGCTGCCCCCAGC 9 15 0 GCAGCGGGGC 0.976676 -18 GAAAGGACCGGCAAAGAGGAGCCGCC 10 5 0 GCAAGAGGGC 0.91815 -95 TCAACTGACAGCGGCGACGTGCCGCAGCGGCG 12 113 0 GCGCGACGGC 0.805433 -188 CCGCGATGTCGTGGCGGGGTGCAAAACTATTG 13 13 0 GTGCGGGGGC 0.725755 -49 TAACTGAAATGCTAGGAGGCTCTGCGGT 14 65 1 GCAGGAGGTC 0.882778 -18 CGGGGTGAGGAGGAGCCGGGCGATTC 17 5 1 GTAGGAGGGC 0.975081 -197 CGCGAGTAGGCGCAAAAGAACAT 18 2 1 GCAGTAGGGC 0.976499 -158 GCCGGAGCCGGCGAGTAGACGCGAAAGAACAT 18 54 0 GCAGTAGAGC 0.649931 -106 GCCCGCGACAGCCAGCATGTGGGCCCGGAGCC 18 96 1 GCAGCATGGG 0.842846 -64 ATCCGCAACAGCATGCCGGGGCGGTCCCGCGG 19 156 1 GCTGCCGGGC 0.693805 -128 GCTGACTCCGGTCACCAGGAGCGTGCCGCTGG 21 67 1 GTACCAGGGC 0.943365 -234 TGGTAGGACTGCTGGCATGAGCCGTTATTACG 21 203 1 GCGGCATGGC 0.963992 -98 ** ****** ** Masking position 1 Map Score: 24.2329 Number of sites scoring better than the average of aligned sites = 3940 Number in coding regions = 3614 Number in noncoding regions = 326 Number of orfs with sites within 600 bp upstream = 272 Fraction of orfs with sites within 600 bp upstream = 0.0436878 Motif number 8 GCGTAGACGCTACCGTTGACAGGCTGAAGA 3 49 0 TACCGTTGAC 0.843214 -125 ACCTGGCCAGCTCCCTCGACTACCCCAGTA 4 21 0 CTCCCTCGAC 0.73227 -29 CTGCGGCGCGCATCGTCGCCCGGATAGGCT 5 129 1 CATCGTCGCC 0.893119 -28 GCTTCCGGATCACCATCGACATCCATTCGA 12 170 1 CACCATCGAC 0.972364 -131 TGACGATCATCACCGCCGACGCCCTGTTAG 12 235 1 CACCGCCGAC 0.960847 -66 GAGGTGAGAATACCATTGCCCCCGCGGTGC 14 22 0 TACCATTGCC 0.916612 -61 CCCAGTGTGCCACCGTTGCCGTCCCGGACC 17 69 0 CACCGTTGCC 0.983216 -133 ACATGATGGGCACCAGCGCCCATCATGTTC 18 30 1 CACCAGCGCC 0.949268 -130 CTTCCTCCCACACCATGGCCGCTAGTCAAC 18 136 0 CACCATGGCC 0.98534 -24 TCGCTGTGGATTCCGCTGCCGGGAAAATCA 19 41 1 TTCCGCTGCC 0.69171 -243 CGCGTGTCTGCACCGCGGCCCGCCTTTCCG 19 124 1 CACCGCGGCC 0.97912 -160 AGCAGTATGTCACCATCGCCGGGATCATCA 21 15 0 CACCATCGCC 0.990036 -286 CCAGCAGTCCTACCATGGCCGGGTGGGATG 21 188 0 TACCATGGCC 0.945747 -113 TCTGGCACGCCTCCATGGACTTCCCGAGAG 26 220 1 CTCCATGGAC 0.873022 -81 ********** Masking position 4 Map Score: 21.1977 Number of sites scoring better than the average of aligned sites = 6573 Number in coding regions = 6290 Number in noncoding regions = 283 Number of orfs with sites within 600 bp upstream = 227 Fraction of orfs with sites within 600 bp upstream = 0.03646 Motif number 9 CTCGTGTTCCGCCCATCGCGCGGACCTAGT 3 153 0 GCCCATCGCG 0.976858 -21 CGTGTTGAAGGCACGTAGACTC 7 3 0 GCACGTAGAC 0.857641 -298 CGTGCCTTCAACACGTCGCGCGGCGAAATG 7 18 1 ACACGTCGCG 0.963597 -283 TGACGAACAAACCCGTCACGGTGTGGACCA 7 229 0 ACCCGTCACG 0.768841 -72 CGTTGCACATACACGTCGACCACTTGGCAC 8 81 0 ACACGTCGAC 0.857641 -132 ACAGCAGCCCACACATAGCGGTATCTGGAA 8 173 1 ACACATAGCG 0.781327 -40 CGCCGCTGCGGCACGTCGCCGCTGTCAGTT 12 113 1 GCACGTCGCC 0.990692 -188 TCGACCGTGTGCTCATCGCCCAGGCACAGC 12 196 1 GCTCATCGCC 0.90608 -105 TTGAACAGCGGCCCATCGCCGTGCGACGTA 17 109 0 GCCCATCGCC 0.984208 -93 CAGCATGTGGGCCCGGAGCCTATAGATGGT 18 108 1 GCCCGGAGCC 0.921531 -52 GAAGACAAGCGCCCGTAGCTCAACGGATAG 26 93 0 GCCCGTAGCT 0.889975 -208 ********** Masking position 4 Map Score: 10.4139 Number of sites scoring better than the average of aligned sites = 3939 Number in coding regions = 3662 Number in noncoding regions = 277 Number of orfs with sites within 600 bp upstream = 247 Fraction of orfs with sites within 600 bp upstream = 0.0396723 Motif number 10 GGCAGCACCACCTGGCCAGCTCCCT 4 35 0 CACCACCTGG 0.849708 -15 GCCCCCGGCCAACCTGTTGGTTGGGCAAGG 5 94 1 AACCTGTTGG 0.849457 -63 GCCGCTTCGTCACATGCTGTATCGGACTAC 7 111 0 CACATGCTGT 0.914021 -190 CCGTACACGACTCATGCTGGACACTTCGGT 15 19 1 CTCATGCTGG 0.944629 -97 GGCGCAAAAGAACATGATGGGCACCAGCGC 18 19 1 AACATGATGG 0.910323 -141 GACGCGAAAGAACATGATGGGCGCTGGTGC 18 39 0 AACATGATGG 0.910323 -121 GCTCCGGGCCCACATGCTGGCTGTCGCGGG 18 97 0 CACATGCTGG 0.989605 -63 CCGGGAAAATCACCAGCTGGGTCGGTGTAA 19 59 1 CACCAGCTGG 0.971558 -225 ********** Masking position 8 Map Score: 4.17519 Number of sites scoring better than the average of aligned sites = 1058 Number in coding regions = 979 Number in noncoding regions = 79 Number of orfs with sites within 600 bp upstream = 83 Fraction of orfs with sites within 600 bp upstream = 0.0133312 Motif number 11 TACCCAGCTTTGCGCGTACCGGT 3 4 0 TGCGCGTACC 0.524433 -170 GGTAGTCGAGGGAGCTGGCCAGGTGGTGCT 4 27 1 GGAGCTGGCC 0.928291 -23 ACTGATCCCGTGAGCATGCGC 7 290 1 TGAGCATGCG 0.734255 -11 TCGACCACTTGGCACATGCGTCGGCGTACA 8 66 0 GGCACATGCG 0.877615 -147 CGATCTCCCAGGCACTGGCGGCCGACAAGA 12 15 0 GGCACTGGCG 0.853599 -286 TCGGGCGGCGGGAGCTTGCCGAGGCGGTAG 12 52 0 GGAGCTTGCC 0.961622 -249 AGAAGCCGATGGCTCGGGCGGCGGGAGCTT 12 65 0 GGCTCGGGCG 0.886384 -236 GTGCCGCAGCGGCGCATTCGATCGGGCACG 12 97 0 GGCGCATTCG 0.814984 -204 GAACATGATGGGCGCTGGTGCCCATCATGT 18 30 0 GGCGCTGGTG 0.835349 -130 GCGGTCCCGCGGCGGTTCCCTTCGGGGATT 19 176 1 GGCGGTTCCC 0.551251 -108 GCCGGGCCCTGGCGTCTGCCGCGATGCCGG 19 217 0 GGCGTCTGCC 0.729628 -67 CATACTGCTGGCCGCCTGCGTCCGGTCGCG 21 36 1 GCCGCCTGCG 0.8246 -265 CCGGTCACCAGGAGCGTGCCGCTGGCCAGA 21 74 1 GGAGCGTGCC 0.953267 -227 GCGTAATAACGGCTCATGCCAGCAGTCCTA 21 206 0 GGCTCATGCC 0.859682 -95 AGTGCGATTTTTCGCGTGCGTTCTTGCACT 21 249 0 TTCGCGTGCG 0.518011 -52 TGCTTTGTTAGGAGCGTCCG 25 38 1 GGAGCGTCCG 0.863092 -10 TTGAGCTACGGGCGCTTGTCTTCAGTTGTG 26 100 1 GGCGCTTGTC 0.897945 -201 ********** Masking position 9 Map Score: 8.97233 Number of sites scoring better than the average of aligned sites = 12422 Number in coding regions = 11598 Number in noncoding regions = 824 Number of orfs with sites within 600 bp upstream = 568 Fraction of orfs with sites within 600 bp upstream = 0.0912303 Motif number 12 TTGAGTGCTACGAATTGGGGTGACCTTCC 2 90 1 CGAATGGGGT 0.931497 -19 ACAAATTCCACAAAAGGGGGTTTGGATCCTT 5 27 1 CAAAGGGGGT 0.949592 -130 AGCACACGGTCGAATGGATGTCGATGGTGAT 12 178 0 CGAAGGATGT 0.946119 -123 CTGTTCAATTCGGAAGGGGCTGTCAGCTGTT 17 131 1 CGGAGGGGCT 0.919632 -71 ACCGCAAAGCCTAATGGGTGGCCGGACGGCC 20 63 0 CTAAGGGTGG 0.922234 -22 ACACGCTCGGCGAAAGGATGGTGCACCA 21 283 1 CGAAGGATGG 0.908619 -18 GGTACACGCGCTAAGGGGTGTTGTAAACAGG 23 28 0 CTAAGGGTGT 0.954426 -65 CCAGAGCGGCCGAATGGGGCTCACTGCTAAT 26 194 0 CGAAGGGGCT 0.977315 -107 **** ****** Masking position 4 Map Score: 2.27361 Number of sites scoring better than the average of aligned sites = 323 Number in coding regions = 274 Number in noncoding regions = 49 Number of orfs with sites within 600 bp upstream = 52 Fraction of orfs with sites within 600 bp upstream = 0.00835207 Motif number 13 TTTGCTGTCAGGTGCCAAATCGTGA 1 6 0 GGTGCCAAAT 0.710177 -25 TCCTGACATCTGTGCGACTTTCGCCGCGAG 2 36 0 TGTGCGACTT 0.626061 -73 AATGTCCTAACGTGCGTAGTAATCGGATGT 3 95 0 CGTGCGTAGT 0.72122 -79 GTCATTTCGCCGCGCGACGTGTTGAAGGCA 7 20 0 CGCGCGACGT 0.78545 -281 GTCTTTTTTAGGTGCCACAGCCAAAGAGTC 7 182 1 GGTGCCACAG 0.883887 -119 CGCCGACGCATGTGCCAAGTGGTCGACGTG 8 70 1 TGTGCCAAGT 0.891044 -143 TCGACGTGTATGTGCAACGTCTAGTATCAG 8 92 1 TGTGCAACGT 0.71311 -121 CGGCTTCTTACGTGCCCGATCGAATGCGCC 12 87 1 CGTGCCCGAT 0.734581 -214 ACAGCGGCGACGTGCCGCAGCGGCGCATTC 12 108 0 CGTGCCGCAG 0.746542 -193 GTGCGCAGTGTGTGCGTGGTCAACTGACAG 12 134 0 TGTGCGTGGT 0.718865 -167 GAAGCTCTGCGGTGCGCAGTGTGTGCGTGG 12 145 0 GGTGCGCAGT 0.553383 -156 GCCAAGCAGCTGTGCCTGGGCGATGAGCAC 12 204 0 TGTGCCTGGG 0.772207 -97 TCGAATAGCTCGTGCTACGTTAGTGACGAT 15 51 0 CGTGCTACGT 0.799558 -65 TGTAGCCCAGTGTGCCACCGTTGCCGTCCC 17 74 0 TGTGCCACCG 0.766886 -128 GGCCCATCGCCGTGCGACGTAGGCCGTGTA 17 100 0 CGTGCGACGT 0.968507 -102 GATACATCGTTGTGCCACAGTGTTGGCC 20 9 0 TGTGCCACAG 0.914467 -76 TCCATGGAGGCGTGCCAGAGCGGCCGAATG 26 209 0 CGTGCCAGAG 0.886655 -92 ********** Masking position 4 Map Score: 6.17811 Number of sites scoring better than the average of aligned sites = 2292 Number in coding regions = 2110 Number in noncoding regions = 182 Number of orfs with sites within 600 bp upstream = 173 Fraction of orfs with sites within 600 bp upstream = 0.0277867 Motif number 14 GACAGCCTTTCTCGCGGCGAAAGTCGCACA 2 26 1 CTCGCGGCGA 0.908704 -83 AGTGCTACGAATTGGGGTGACCTTCC 2 93 1 ATTGGGGTGA 0.726392 -16 GGTCGAGCCTATCCGGGCGACGATGCGCGC 5 134 0 ATCCGGGCGA 0.863132 -23 GAAATGACAACTCTGGGTGAGCCGGATACC 7 42 1 CTCTGGGTGA 0.95891 -259 ACATAGCGGTATCTGGAAGACATGTTGAGG 8 185 1 ATCTGGAAGA 0.734178 -28 ACTTGAGCTGCTCTGGGAGAATGGTCTACG 10 63 1 CTCTGGGAGA 0.973984 -37 CCGCGCGGCCCGCGGGGAGATCTGGCCAGC 21 94 0 CGCGGGGAGA 0.959714 -207 AGCCTCGGTCATCGGGGTGATAGCGGACCA 22 55 0 ATCGGGGTGA 0.96814 -25 TCCGGGTACTCTCGGGAAGTCCATGGAGGC 26 228 0 CTCGGGAAGT 0.845899 -73 CCTCCGGCGGCTCGGGGAGTCCGGGTACTC 26 247 0 CTCGGGGAGT 0.969469 -54 ********** Masking position 6 Map Score: 6.81839 Number of sites scoring better than the average of aligned sites = 597 Number in coding regions = 534 Number in noncoding regions = 63 Number of orfs with sites within 600 bp upstream = 60 Fraction of orfs with sites within 600 bp upstream = 0.00963701 Motif number 15 GTAGCGTCTACGCTAGCTAACGCAACGAGAC 3 66 1 CGTAGCTAAC 0.931047 -108 CCGATTTCGTGGATAGCTGACGAACAAACCC 7 245 0 GGTAGCTGAC 0.963369 -56 CAGCTCAAGTCGATATCTGACCGGTACAGTG 10 42 0 CGTATCTGAC 0.943583 -58 AGCGTCATCTAACTGCAGCCTCG 11 63 0 CGCATCTAAC 0.943583 -13 GTGTGTGCGTGGTCAACTGACAGCGGCGACG 12 126 0 GGCAACTGAC 0.928019 -175 GCGACATCACAGGCAGCTAACAGGGCGTCGG 12 250 0 AGCAGCTAAC 0.868756 -51 ACTCAGACCGCAACAGCTGACAGCCCCTTCC 17 142 0 CACAGCTGAC 0.952859 -60 TCAACGGATAGAGCATCTGACTACGGATCAG 26 73 0 GACATCTGAC 0.88167 -228 ** ******** Masking position 5 Map Score: 2.11565 Number of sites scoring better than the average of aligned sites = 660 Number in coding regions = 579 Number in noncoding regions = 81 Number of orfs with sites within 600 bp upstream = 78 Fraction of orfs with sites within 600 bp upstream = 0.0125281