AlignACE version 2.2 July 7, 1998 AlignACE -jLSM.orf -y -e Parameter values: expect = 10 ncols = 10 npass = 1000 maxnpass = 100 nruns = 1000 maxnruns = 100 repeat = 15 maxreps = 3 nread = 500 ncycles = 1 fragment = 1 psfact = 0.1 gcback = 0.38 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 YBL026W 600 bp YBL026W LSM2 1-54, 183-416 snRNA-associated protein of the Sm class #2 YDR378C 446 bp YDR378C LSM6 1-372 Sm-like protein #3 YER112W 600 bp YER112W LSM4 1-564 U6 snRNA associated protein #4 YER146W 600 bp YER146W LSM5 1-282 Sm-like protein #5 YJL124C 359 bp YJL124C LSM1 1-519 Like Sm-B protein\; contains the Sm consensus motifs and most closely resembles Sm-B (Fromont-Racine et al, 1997 Nature Genetics 16:277-282) #6 YJR022W 300 bp YJR022W LSM8 1-387 Sm-like protein #7 YLR438C-A 312 bp YLR438C-A LSM3 1-270 Putative snRNP protein containing Sm-like domain\; coprecipitates with U4, U5 and U6 snRNAs #8 YNL147W 300 bp YNL147W LSM7 1-18, 139-444 Sm-like protein Motif number 1 TTTGCTACGATTTCTTTTTTTACTCTCCGG 1 115 1 TTTCTTTTTT 0.941554 -486 GAATAATCAGTTTTATATTTAGTGAACATA 1 227 0 TTTTATATTT 0.709546 -374 CTGTTTTCGGTTTTATTTTTTTTGGTTCAA 1 474 0 TTTTATTTTT 0.923538 -127 TTCGAAAGTATTGTATTCTTTTATTGAATT 1 548 0 TTGTATTCTT 0.904212 -53 CATTTCATCTTTGCATACTTGGCGTTTCTA 2 106 0 TTGCATACTT 0.740455 -341 TTAAGTAACATTTCATTTTTTCCGCCACCG 3 46 1 TTTCATTTTT 0.947503 -555 ACCTACTGCCTTTTATTTTTAGGCTCTAAA 3 128 1 TTTTATTTTT 0.923538 -473 AATGCGGAATTTGCCTTTTTCATAGTACAG 3 299 0 TTGCCTTTTT 0.931266 -302 ACTTTTACGATTTCCTTCTTTACCGCTTCC 3 488 0 TTTCCTTCTT 0.974817 -113 CCGGACCCGATTTCTTTTTTTCTACACGTT 4 190 1 TTTCTTTTTT 0.941554 -411 TTTCGTCCTGTTTTTTTCTTGACCACGGTC 4 246 0 TTTTTTTCTT 0.941554 -355 TATACGTATATTGTATTCTTCTTTTTTTTC 4 290 1 TTGTATTCTT 0.904212 -311 GTATTCTTCTTTTTTTTCTTTGCTGCCCTT 4 302 1 TTTTTTTCTT 0.941554 -299 TTATTATCTATTTCATTTTTTAACCAGAGG 4 332 1 TTTCATTTTT 0.947503 -269 AACAGAATACTTGCTTTCTTATTGAAGTAG 4 476 1 TTGCTTTCTT 0.926419 -125 TCTCTGTATTTTTTCTACTTCAATAAGAAA 4 490 0 TTTTCTACTT 0.839727 -111 CCTCTATTTTTTTCATATTTTCCATTATTC 5 111 0 TTTCATATTT 0.784963 -249 TATATTTTCTTTTCCTTTTCAACAGGATTG 5 250 1 TTTCCTTTTC 0.798831 -110 TTTTGCTTGTTTTCCTTCTTTCTGTTCTTG 6 200 1 TTTCCTTCTT 0.974817 -101 TAAGATTAGTTTTTTTTTTTCCCTTTACGC 6 266 0 TTTTTTTTTT 0.915118 -35 AAATGATATTTTTTCTTCTTCCTGATGCGC 7 112 1 TTTTCTTCTT 0.962832 -201 TTCTTGCTTTTTTTCTTCTTTCAATATCGC 7 173 0 TTTTCTTCTT 0.962832 -140 TGCCATGTAATTTTTTTTTCTATCTCTTTA 8 48 1 TTTTTTTTTC 0.623012 -253 TTCTTGTCGCTTGTCTTCTTCAACTGCCGT 8 98 1 TTGTCTTCTT 0.931266 -203 CTCAAATAACTTTCTTTTTTACTGTAGTAG 8 239 0 TTTCTTTTTT 0.941554 -62 ********** Masking position 6 Map Score: 33.8283 Number of sites scoring better than the average of aligned sites = 7066 Number in coding regions = 2960 Number in noncoding regions = 4106 Number of orfs with sites within 600 bp upstream = 2108 Fraction of orfs with sites within 600 bp upstream = 0.33858 Motif number 2 TCGAAGTGCTTTGCTACGATTTCTTTTTTTACTCT 1 106 1 TTGCTCATTT 0.646337 -495 ACGATTTCTTTTTTTACTCTCCGGTTATTTTGAGC 1 121 1 TTTTTCCCGT 0.960062 -480 TTTATATATTTCTTTGCCCAGCTTTTAAGCGTTCA 1 179 1 TCTTTCCCTT 0.832621 -422 AACTGATTATTCTCTCCTCTATATTGTCATCTCGG 1 245 1 TCTCTCCTTT 0.939341 -356 CCCTAAGTAGTTTCTTCCAACTAGTTAGGCCTCAG 1 354 0 TTTCTCATGT 0.898286 -247 ACGGGAAACTTTTTTCCGCTGTTGTAATTGTATCA 1 398 1 TTTTTCCTGT 0.971478 -203 GCTTAAATCGTTGCATCGCTTCAGTAACTTTTAAT 2 263 0 TTGCACCCGT 0.824639 -184 AACATTTCATTTTTTCCGCCACCGTACACAGAGTA 3 52 1 TTTTTCCCGT 0.960062 -549 TTTATCAGTTTTTCAACTCTGTTTTACTAATACTA 3 530 0 TTTCACCTTT 0.734618 -71 AATAATAGTATTTCTGCACCCTGGCCTGGAAAGAA 4 111 1 TTTCTCCTGC 0.935911 -490 GAAAGAATGCTCGATGCGCCCTGGTTGATTGGCGC 4 139 1 TCGATCCTGT 0.727853 -462 GATTTCTTTTTTTCTACACGTTGGTCTGATGTCTC 4 198 1 TTTCTCCTGT 0.986813 -403 GTCCTGTTTTTTTCTTGACCACGGTCACTACTAAC 4 237 0 TTTCTGCCGT 0.766086 -364 TTTTTTTTCTTTGCTGCCCTTTTATTATCTATTTC 4 311 1 TTGCTCCTAT 0.762746 -290 TTACTAAATGTTTCTACACGTCTGCAGTATCCTTG 6 165 1 TTTCTCCCGC 0.911555 -136 TATCTGCGTGTCTCTCCCCTGTTGTATTGGTTGCT 7 249 0 TCTCTCCTGT 0.981417 -64 CATGTAATTTTTTTTTCTATCTCTTTATTTGAATT 8 51 1 TTTTTCATTT 0.540993 -250 TTATTTGAATTCGTTGCTCTATGTTCTTGTCGCTT 8 75 1 TCGTTCCTTT 0.832621 -226 CAGCTACAGCTTTTTTCGCCTTTGTTCGAAAGAAC 8 154 0 TTTTTCCTGT 0.971478 -147 TTCTTAATTGTCGTTTCCCAGTTGTCTGTTTTCAG 8 186 0 TCGTTCCTGT 0.944338 -115 ***** * * * ** Masking position 1 Map Score: 13.6375 Number of sites scoring better than the average of aligned sites = 2191 Number in coding regions = 1469 Number in noncoding regions = 722 Number of orfs with sites within 600 bp upstream = 608 Fraction of orfs with sites within 600 bp upstream = 0.097655 Motif number 3 GCTCAAAATAACCGGAGAGTAAAAAAAGAAATCG 1 122 0 ACGAGTAAAA 0.852236 -479 TGATACAATTACAACAGCGGAAAAAAGTTTCCCG 1 399 0 ACGCGGAAAA 0.977939 -202 TTATAGTACGGCATATAAGGAAAACAAATCCAGA 1 515 1 GCAAGGAAAA 0.939716 -86 ACGAACAGCTGCCCCCGGGTAAAATGTTTTAATA 2 418 0 GCGGGTAAAA 0.968492 -29 TACTCTGTGTACGGTGGCGGAAAAAATGAAATGT 3 53 0 ACGCGGAAAA 0.977939 -548 CAGGAAACTGGCGGTAAAGGAAAAGTAGTACTTT 3 268 0 GCAAGGAAAA 0.939716 -333 ATCACGTGACACGTGTGCGGCAAATTTCGTAATT 3 357 0 ACGCGGCAAA 0.840687 -244 GAACATCATTGCTACTCCGTAAAACATGATAGTA 3 400 0 GCCCGTAAAA 0.894829 -201 TAAATCTTCAACTCGAACTGAAAAGAAACACAAT 3 561 1 ACACTGAAAA 0.727298 -40 TAATAAAAGGGCAGCAAAGAAAAAAAAGAAGAAT 4 304 0 GCAAGAAAAA 0.77483 -297 TCTTACGATTGCCTCTGGTTAAAAAATGAAATAG 4 339 0 GCGGTTAAAA 0.814628 -262 CAAAACCCGAGCATCCGGGTAATAAAAGAGCAGG 4 422 0 GCGGGTAATA 0.711721 -179 TATTTTCAGGACTTAAAGGGAAAATCAACAAGAA 6 224 0 ACAGGGAAAA 0.941384 -77 TACTATCATGGCGTAAAGGGAAAAAAAAAAACTA 6 256 1 GCAGGGAAAA 0.973353 -45 CCGTTTCCCTGCGAGCCGGAAAAAAGTACTGTTC 8 124 1 GCCGGAAAAA 0.82034 -177 GTTCTTTCGAACAAAGGCGAAAAAAGCTGTAGCT 8 154 1 ACGCGAAAAA 0.907283 -147 GGCGAAAAAAGCTGTAGCTGAAAACAGACAACTG 8 169 1 GCGCTGAAAA 0.935124 -132 ** ******** Masking position 12 Map Score: 11.1832 Number of sites scoring better than the average of aligned sites = 1493 Number in coding regions = 989 Number in noncoding regions = 504 Number of orfs with sites within 600 bp upstream = 437 Fraction of orfs with sites within 600 bp upstream = 0.0701895 Motif number 4 ACGAACAGCTGCCCCCGGGTAAAATGTTTT 2 422 0 GCCCCCGGGT 0.983116 -25 CGCGGGCGGGGGAAGGAAATA 4 2 1 GCGGGCGGGG 0.943006 -599 GAAGGAAATAGCGGCCTGGCGTGAGTCGGC 4 22 1 GCGGCCTGGC 0.980821 -579 TAGTATTTCTGCACCCTGGCCTGGAAAGAA 4 116 1 GCACCCTGGC 0.986771 -485 AATGCTCGATGCGCCCTGGTTGATTGGCGC 4 144 1 GCGCCCTGGT 0.995346 -457 CAAAACCCGAGCATCCGGGTAATAAAAGAG 4 426 0 GCATCCGGGT 0.986363 -175 TTTTGTCTTTGCATCCGGGTAGCAAAACAG 4 451 1 GCATCCGGGT 0.986363 -150 ATTATTCAACGAACGCGGGTAACAAGTCGG 5 88 0 GAACGCGGGT 0.940693 -272 GAAAGCTATCGAGCCCTGGTAAGAGAGTAC 7 59 0 GAGCCCTGGT 0.976836 -254 ********** Masking position 6 Map Score: 8.5562 Number of sites scoring better than the average of aligned sites = 149 Number in coding regions = 93 Number in noncoding regions = 56 Number of orfs with sites within 600 bp upstream = 59 Fraction of orfs with sites within 600 bp upstream = 0.00947639 Motif number 5 TGATTATTCTCTCCTCTATATTGTCATCTCGG 1 248 1 CTCCTCTTTT 0.938647 -353 ATAATTAAAGTTGCTCTGTTTTCGGTTTTATT 1 487 0 TTGCTCTTTT 0.968932 -114 CTACGTTATATTTCACTTTATTAAAAGTACAA 2 46 1 TTTCACTTTT 0.733506 -401 AATTGGGTAGCATCTTTTTTTTAATAGATAGT 3 176 1 CATCTTTTTT 0.833096 -425 ATCAGTTTTTCAACTCTGTTTTACTAATACTA 3 530 0 CAACTCTTTT 0.864731 -71 ATATTGTATTCTTCTTTTTTTTCTTTGCTGCC 4 297 1 CTTCTTTTTT 0.885358 -304 AGGGCTATATTATCTCTCTCTTACGATTGCCT 4 359 0 TATCTCTTTT 0.926258 -242 ATAGCCCTTTTTGGTCTTTTTTGGCACCTTCA 4 383 1 TTGGTCTTTT 0.696265 -218 CAGCCGGACCCTGCTCTTTTATTACCCGGATG 4 413 1 CTGCTCTTAT 0.791721 -188 CCTTTTTCGCTTTCTCTGTATTTTTTCTACTT 4 500 0 TTTCTCTTTT 0.951062 -101 TATTCACGACTTCCTCTATTTTTTTCATATTT 5 121 0 TTCCTCTTTT 0.904756 -239 GATTCGAGGGCTGCTTTCTTTTATAGGTTTTG 5 321 0 CTGCTTTTTT 0.925337 -39 CATCACCGTTCAGATCTATATTCTCCCACAGT 6 47 0 CAGATCTTTT 0.616857 -254 GCTTGTTTTCCTTCTTTCTGTTCTTGTTGATT 6 204 1 CTTCTTTTTT 0.885358 -97 TTTTTTTTTCTATCTCTTTATTTGAATTCGTT 8 58 1 TATCTCTTTT 0.926258 -243 TTTGAATTCGTTGCTCTATGTTCTTGTCGCTT 8 78 1 TTGCTCTTTT 0.968932 -223 TGCTCTCAAATAACTTTCTTTTTTACTGTAGT 8 241 0 TAACTTTTTT 0.494791 -60 TATTTGAGAGCAGCACTTTGTTTACTACACAG 8 261 1 CAGCACTTTT 0.821364 -40 ******* * ** Masking position 7 Map Score: 12.0804 Number of sites scoring better than the average of aligned sites = 1968 Number in coding regions = 1185 Number in noncoding regions = 783 Number of orfs with sites within 600 bp upstream = 640 Fraction of orfs with sites within 600 bp upstream = 0.102795 Motif number 6 CGAAGTGCTTTGCTACGATTTCTTTTTTTACT 1 107 1 TCTCGATTTC 0.991828 -494 AGGTCTATGATACTACGATTTCACGAAAGAAA 3 446 0 TCTCGATTTC 0.991828 -155 GTTAATTTACTTTTACGATTTCCTTCTTTACC 3 494 0 TTTCGATTTC 0.98721 -107 ATTATCTCTCTCTTACGATTGCCTCTGGTTAA 4 351 0 TTTCGATTGC 0.96578 -250 CAAGGAAGCCTTTTTCGCTTTCTCTGTATTTT 4 508 0 TTTCGCTTTC 0.984613 -93 TACCAACATTTGCTCCGCTTTCAAAACCTATA 5 300 1 TCTCGCTTTC 0.99016 -60 * ** ******* Masking position 4 Map Score: 3.90835 Number of sites scoring better than the average of aligned sites = 82 Number in coding regions = 62 Number in noncoding regions = 20 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 7 TCTTAAAGGTACGATAAAAAGGTCACCTTT 1 16 0 ACGATAAAAA 0.948479 -585 TTTGATGAAGACCAAAAACAGCATCGAAGT 1 83 1 ACCAAAAACA 0.819743 -518 GTTTTCTGCAATGATAAAAATAGCTACTTT 1 315 1 ATGATAAAAA 0.857824 -286 GAAGTTTTGAACCAAAAAAAATAAAACCGA 1 468 1 ACCAAAAAAA 0.963624 -133 GGAGATTTTGATGAAAAAAAT 2 2 0 ATGAAAAAAA 0.944353 -445 CTACGATTTCACGAAAGAAAGCTGCAATAA 3 436 0 ACGAAAGAAA 0.898878 -165 GACCGTGGTCAAGAAAAAAACAGGACGAAA 4 246 1 AAGAAAAAAA 0.944353 -355 AAGGGCAGCAAAGAAAAAAAAGAAGAATAC 4 302 0 AAGAAAAAAA 0.944353 -299 AATGGAAAATATGAAAAAAATAGAGGAAGT 5 115 1 ATGAAAAAAA 0.944353 -245 AGAAAAAAATACCATAAAAATATAATAAAA 7 11 0 ACCATAAAAA 0.904015 -302 ATATTGAAAGAAGAAAAAAAGCAAGAAAGC 7 176 1 AAGAAAAAAA 0.944353 -137 CAGAACATTAACCAAAAAAAC 8 290 1 ACCAAAAAAA 0.963624 -11 ********** Masking position 6 Map Score: 12.8115 Number of sites scoring better than the average of aligned sites = 2191 Number in coding regions = 739 Number in noncoding regions = 1452 Number of orfs with sites within 600 bp upstream = 1095 Fraction of orfs with sites within 600 bp upstream = 0.175875 Motif number 8 AAACTGGTGTTTAAAACTTATTTAAAAGTAGC 1 287 0 TTAAAATTAT 0.771325 -314 ACAGAGCAACTTTAATTATAGTACGGCATATA 1 500 1 TTTAATATAT 0.874447 -101 AAGAGTTCATTGTACTTTTAATAAAGTGAAAT 2 55 0 TGTACTTTAT 0.855936 -392 TATGCAAAGATGAAATGTTAATCAATAGGGGA 2 119 1 TGAAATTTAT 0.928305 -328 AACTTTTAATTGTAATGATAATGCACGTCAAT 2 241 0 TGTAATATAT 0.917876 -206 ATCATTACAATTAAAAGTTACTGAAGCGATGC 2 254 1 TTAAAATTAT 0.771322 -193 TGAAATGTAATGTACTTATATTACCTCCTTCT 3 15 1 TGTACTATAT 0.837229 -586 GCGGAAAAAATGAAATGTTACTTAAGAAGGAG 3 39 0 TGAAATTTAT 0.928304 -562 ATAACAATAATTTAAAGATATTCATAGTGATA 3 217 1 TTTAAAATAT 0.744349 -384 TTTAAACTCATTTAAAATTACTTATCACTATG 3 239 0 TTTAAATTAT 0.766702 -362 CTTTCTTTCGTGAAATCGTAGTATCATAGACC 3 445 1 TGAAATGTAT 0.774734 -156 TCAACTCTGTTTTACTAATACTACTTCGTTAA 3 521 0 TTTACTATAT 0.762162 -80 CAAGGGCTGATTAAATATTAGTGAAGATACAA 5 203 1 TTAAATTTAT 0.889727 -157 TTTAGTTTGCTGAAATGATATTTTTTCTTCTT 7 100 1 TGAAATATAT 0.917879 -213 ****** *** * Masking position 4 Map Score: 2.41909 Number of sites scoring better than the average of aligned sites = 1237 Number in coding regions = 679 Number in noncoding regions = 558 Number of orfs with sites within 600 bp upstream = 383 Fraction of orfs with sites within 600 bp upstream = 0.0615162 Motif number 9 CAATACTGTGTGGCAGGAAAAGATTTGATGAAG 1 60 1 TGGCGAAAGA 0.978183 -541 TCAAAATAACCGGAGAGTAAAAAAAGAAATCGT 1 121 0 CGGAGAAAAA 0.656403 -480 AATTATAGTACGGCATATAAGGAAAACAAATCC 1 513 1 CGGCAAAGGA 0.983166 -88 AATGAACTCTTGGTAATAAAAGATAAGGATTAG 2 76 1 TGGTTAAAGA 0.729732 -371 TTACATTAAACGGCTAAAAGAAAGGCCTATAGT 2 374 0 CGGCAAGAAA 0.861533 -73 TACAGGAAACTGGCGGTAAAGGAAAAGTAGTAC 3 271 0 TGGCTAAGGA 0.953056 -330 ATGATGGAAGCGGTAAAGAAGGAAATCGTAAAA 3 483 1 CGGTAAAGGA 0.899974 -118 TTCTGCACCCTGGCCTGGAAAGAATGCTCGATG 4 122 1 TGGCGAAAGA 0.978183 -479 AATACTATCATGGCGTAAAGGGAAAAAAAAAAA 6 254 1 TGGCAAGGGA 0.936623 -47 TCTATCTCTGCGGCTAGAAAAAAATACCATAAA 7 23 0 CGGCGAAAAA 0.956267 -290 CGCAGGGAAACGGCAGTTGAAGAAGACAAGCGA 8 104 0 CGGCTGAAGA 0.869227 -197 TACTTTTTTCCGGCTCGCAGGGAAACGGCAGTT 8 119 0 CGGCGAGGGA 0.98465 -182 **** * ***** Masking position 13 Map Score: 3.49944 Number of sites scoring better than the average of aligned sites = 860 Number in coding regions = 612 Number in noncoding regions = 248 Number of orfs with sites within 600 bp upstream = 230 Fraction of orfs with sites within 600 bp upstream = 0.0369419 Motif number 10 ATTTCTTTTTTTCTACACGTTGGTCTGATG 4 199 1 TTCTACACGT 0.984637 -402 CAAGCATAGCGTATACACGTGCACTCACAA 4 560 1 GTATACACGT 0.984637 -41 TACTAAATGTTTCTACACGTCTGCAGTATC 6 166 1 TTCTACACGT 0.984637 -135 TACTGTAGTAGTATACACGTACATGCGTAT 8 220 0 GTATACACGT 0.984637 -81 ********** Masking position 5 Map Score: 1.05505 Number of sites scoring better than the average of aligned sites = 25 Number in coding regions = 20 Number in noncoding regions = 5 Number of orfs with sites within 600 bp upstream = 4 Fraction of orfs with sites within 600 bp upstream = 0.000642467 Motif number 11 ATGATCAAAATGCGTGTGGGCGGCTACAATGC 3 324 0 TGGTGTGGCG 0.99276 -277 TGGCGCAGAGCGTGTGTCAGTGCCGGACCCGA 4 168 1 CGGTGTCGTG 0.974967 -433 CTTCTGTGTATGCTTGTGAGTGCACGTGTATA 4 571 0 TGTTGTGGTG 0.983146 -30 CGTGATGTTGTGTGTGTGTGTGTATTTATCTG 7 278 0 TGGTGTGGTG 0.996726 -35 TTTCTTGAGTGTGCGTGATGTTGTGTG 7 296 0 TGGTGTGGTG 0.996726 -17 ** ***** *** Masking position 7 Map Score: 1.77865 Number of sites scoring better than the average of aligned sites = 398 Number in coding regions = 54 Number in noncoding regions = 344 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813 Motif number 12 TTTATTTTTTTTGGTTCAAAACTTCCTCAT 1 463 0 TTGGTTCAAA 0.96077 -138 GCGTGAGATATGTGTTCGAAAGTATTGTAT 1 562 0 TGTGTTCGAA 0.97143 -39 CGCAGAGGAGTGGGTTCAAATTCGGCCGAC 5 63 1 TGGGTTCAAA 0.97143 -297 CTGCCTCTTGTTTGTTCAAACCTCAGCTTT 7 201 0 TTTGTTCAAA 0.886145 -112 TTTTTTCGCCTTTGTTCGAAAGAACAGTAC 8 149 0 TTTGTTCGAA 0.96077 -152 ********** Masking position 5 Map Score: 0.541947 Number of sites scoring better than the average of aligned sites = 173 Number in coding regions = 135 Number in noncoding regions = 38 Number of orfs with sites within 600 bp upstream = 22 Fraction of orfs with sites within 600 bp upstream = 0.00353357 Motif number 13 ********** No masking Map Score: -7.41563e-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 14 AGTGAACATATGGGCAATTCCAGTGAACGC 1 207 0 TGGGCAATTC 0.97845 -394 CTTTGCATACTTGGCGTTTCTAATCCTTAT 2 98 0 TTGGCGTTTC 0.92969 -349 GATATGAAAATTGGCATTCCTTGGAGAATG 2 176 0 TTGGCATTCC 0.978793 -271 TACTGCAGCGTTGGCAATCCTGTTGAAAAG 5 264 0 TTGGCAATCC 0.988521 -96 GATAGCTTTCAGGGCAATTCTTTTAGTTTG 7 79 1 AGGGCAATTC 0.91804 -234 ATGCGCCCTTTTGGCTATCCGTGCTGTGTG 7 136 1 TTGGCTATCC 0.9632 -177 ********** Masking position 8 Map Score: 0.392723 Number of sites scoring better than the average of aligned sites = 221 Number in coding regions = 176 Number in noncoding regions = 45 Number of orfs with sites within 600 bp upstream = 39 Fraction of orfs with sites within 600 bp upstream = 0.00626405 Motif number 15 ********** No masking Map Score: -7.41563e-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