Multiple sequence alignment - TraesCS1D01G370100

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1D01G370100 chr1D 100.000 2336 0 0 1 2336 448656530 448658865 0.000000e+00 4314
1 TraesCS1D01G370100 chr1A 89.313 1544 99 35 1 1492 544376888 544378417 0.000000e+00 1877
2 TraesCS1D01G370100 chr1A 86.715 414 37 7 990 1400 590097538 590097936 5.920000e-121 444
3 TraesCS1D01G370100 chr1B 86.767 1587 125 33 633 2183 614456588 614458125 0.000000e+00 1688
4 TraesCS1D01G370100 chr1B 94.792 192 9 1 160 351 614456393 614456583 4.880000e-77 298
5 TraesCS1D01G370100 chr1B 92.222 180 10 2 1 177 614456190 614456368 3.850000e-63 252
6 TraesCS1D01G370100 chr3B 79.352 247 25 20 993 1222 456863007 456863244 1.450000e-32 150


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1D01G370100 chr1D 448656530 448658865 2335 False 4314 4314 100.000000 1 2336 1 chr1D.!!$F1 2335
1 TraesCS1D01G370100 chr1A 544376888 544378417 1529 False 1877 1877 89.313000 1 1492 1 chr1A.!!$F1 1491
2 TraesCS1D01G370100 chr1B 614456190 614458125 1935 False 746 1688 91.260333 1 2183 3 chr1B.!!$F1 2182

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
814 894 0.036875 CCCCTCCCGCTCCATAAATC 59.963 60.0 0.0 0.0 0.0 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2203 2336 0.035152 CCATGCAGTGGTGGAGCTTA 60.035 55.0 0.0 0.0 43.44 3.09 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
110 112 5.005779 GTGATCTCTAATGTTAACAGCCGTG 59.994 44.000 14.65 4.65 0.00 4.94
132 134 2.783288 GGACGATGGGACTCGGACC 61.783 68.421 0.00 0.00 42.88 4.46
184 231 2.706190 ACTTGTCCCACTCTAACTGCTT 59.294 45.455 0.00 0.00 0.00 3.91
247 295 1.005805 AGCAACATGACAAGGGCCATA 59.994 47.619 6.18 0.00 0.00 2.74
258 306 0.844661 AGGGCCATACAACCACTCCA 60.845 55.000 6.18 0.00 0.00 3.86
326 374 1.176619 ACGATCGACCTGGACACACA 61.177 55.000 24.34 0.00 0.00 3.72
356 404 4.699522 GCCGGAGCCGACAAAGGT 62.700 66.667 5.05 0.00 42.83 3.50
359 407 2.380410 CGGAGCCGACAAAGGTTCG 61.380 63.158 2.00 0.00 41.67 3.95
394 442 1.999289 GATCGTCGCGTCGCTGTAG 60.999 63.158 20.62 4.18 0.00 2.74
395 443 4.806481 TCGTCGCGTCGCTGTAGC 62.806 66.667 20.62 0.00 37.78 3.58
400 448 2.772189 GCGTCGCTGTAGCAGTTG 59.228 61.111 10.68 0.00 42.21 3.16
431 479 0.108472 GTACGGGCTCACCAAGGTAC 60.108 60.000 0.00 0.00 40.22 3.34
432 480 1.597797 TACGGGCTCACCAAGGTACG 61.598 60.000 0.00 0.00 40.22 3.67
433 481 2.436115 GGGCTCACCAAGGTACGC 60.436 66.667 0.00 0.00 39.85 4.42
434 482 2.345991 GGCTCACCAAGGTACGCA 59.654 61.111 12.17 0.00 35.26 5.24
435 483 1.302192 GGCTCACCAAGGTACGCAA 60.302 57.895 12.17 0.00 35.26 4.85
436 484 0.887387 GGCTCACCAAGGTACGCAAA 60.887 55.000 12.17 0.00 35.26 3.68
437 485 0.517316 GCTCACCAAGGTACGCAAAG 59.483 55.000 6.96 0.00 0.00 2.77
438 486 0.517316 CTCACCAAGGTACGCAAAGC 59.483 55.000 0.00 0.00 0.00 3.51
439 487 0.887387 TCACCAAGGTACGCAAAGCC 60.887 55.000 0.00 0.00 0.00 4.35
465 513 4.446413 CGTACACGCCACCCTCCC 62.446 72.222 0.00 0.00 0.00 4.30
466 514 4.446413 GTACACGCCACCCTCCCG 62.446 72.222 0.00 0.00 0.00 5.14
507 576 3.569049 AACGTTCCGGCTGGACTCG 62.569 63.158 26.73 26.73 46.45 4.18
508 577 4.796231 CGTTCCGGCTGGACTCGG 62.796 72.222 15.79 1.24 46.45 4.63
574 643 3.490078 GCGTCCTTGTTTGAATTGAACCA 60.490 43.478 0.00 0.00 0.00 3.67
575 644 4.795962 GCGTCCTTGTTTGAATTGAACCAT 60.796 41.667 0.00 0.00 0.00 3.55
601 670 3.418068 GCGTGCTGTCAGCCTGTC 61.418 66.667 21.99 8.94 41.51 3.51
602 671 2.029518 CGTGCTGTCAGCCTGTCA 59.970 61.111 21.99 0.00 41.51 3.58
626 695 2.361230 GAAACGGAAGGGCCTGGG 60.361 66.667 6.92 1.29 0.00 4.45
682 751 2.338620 CTGACAGCGACGGGTGAA 59.661 61.111 0.00 0.00 44.37 3.18
703 772 6.703607 GTGAACAGAGTAGATTATCACCATGG 59.296 42.308 11.19 11.19 31.81 3.66
738 807 2.874457 GCGGCCATATCCTATCCGTTTT 60.874 50.000 2.24 0.00 41.89 2.43
747 816 7.014230 CCATATCCTATCCGTTTTGGTTTTCAT 59.986 37.037 0.00 0.00 39.52 2.57
802 875 1.001269 CCTTTCGGTTTCCCCTCCC 60.001 63.158 0.00 0.00 0.00 4.30
810 883 1.003704 TTTCCCCTCCCGCTCCATA 59.996 57.895 0.00 0.00 0.00 2.74
814 894 0.036875 CCCCTCCCGCTCCATAAATC 59.963 60.000 0.00 0.00 0.00 2.17
924 1007 2.874780 GCGACGCGTAGACACAGG 60.875 66.667 23.92 1.44 0.00 4.00
1252 1335 2.870372 CAAAGGCGGCGAAGAAGG 59.130 61.111 12.98 0.00 0.00 3.46
1343 1440 1.022735 GCCAGTGGCTGATTCATCTG 58.977 55.000 27.48 0.00 46.69 2.90
1347 1444 3.369787 CCAGTGGCTGATTCATCTGTACA 60.370 47.826 0.00 0.00 32.44 2.90
1352 1449 3.406764 GCTGATTCATCTGTACATCCCC 58.593 50.000 0.00 0.00 0.00 4.81
1353 1450 3.181451 GCTGATTCATCTGTACATCCCCA 60.181 47.826 0.00 0.00 0.00 4.96
1358 1455 1.210234 CATCTGTACATCCCCACAGCA 59.790 52.381 0.00 0.00 41.58 4.41
1367 1467 0.966875 TCCCCACAGCACGTACGTAT 60.967 55.000 22.34 10.16 0.00 3.06
1372 1477 4.395854 CCCCACAGCACGTACGTATATATA 59.604 45.833 22.34 0.00 0.00 0.86
1374 1479 5.969435 CCCACAGCACGTACGTATATATATG 59.031 44.000 22.34 13.44 0.00 1.78
1403 1508 4.158015 TCGGTAGTTTCTTCCCTTCTCTT 58.842 43.478 0.00 0.00 0.00 2.85
1405 1510 4.004314 GGTAGTTTCTTCCCTTCTCTTGC 58.996 47.826 0.00 0.00 0.00 4.01
1416 1521 3.372206 CCCTTCTCTTGCGTTACTGATTG 59.628 47.826 0.00 0.00 0.00 2.67
1418 1523 5.168569 CCTTCTCTTGCGTTACTGATTGTA 58.831 41.667 0.00 0.00 0.00 2.41
1419 1524 5.062308 CCTTCTCTTGCGTTACTGATTGTAC 59.938 44.000 0.00 0.00 0.00 2.90
1421 1526 4.921515 TCTCTTGCGTTACTGATTGTACAC 59.078 41.667 0.00 0.00 0.00 2.90
1422 1527 4.623002 TCTTGCGTTACTGATTGTACACA 58.377 39.130 0.00 0.00 0.00 3.72
1423 1528 5.234752 TCTTGCGTTACTGATTGTACACAT 58.765 37.500 0.00 0.00 0.00 3.21
1424 1529 4.919677 TGCGTTACTGATTGTACACATG 57.080 40.909 0.00 0.00 0.00 3.21
1425 1530 4.311606 TGCGTTACTGATTGTACACATGT 58.688 39.130 0.00 0.00 0.00 3.21
1430 1545 9.401873 GCGTTACTGATTGTACACATGTATATA 57.598 33.333 0.00 0.00 32.54 0.86
1444 1559 8.504815 ACACATGTATATAGAGTAGTAAGTGCG 58.495 37.037 0.00 0.00 0.00 5.34
1458 1580 0.526954 AGTGCGCGGATTTAGTACGG 60.527 55.000 8.83 0.00 33.64 4.02
1506 1628 1.062364 TGAGCCTCCATGGATGATCC 58.938 55.000 26.23 4.05 38.35 3.36
1521 1643 2.977914 TGATCCCTCTTTTTGCGAGAG 58.022 47.619 0.00 0.00 40.24 3.20
1539 1661 1.137872 GAGCGGGTCTCATCATCACTT 59.862 52.381 0.00 0.00 41.51 3.16
1553 1675 6.591448 TCATCATCACTTGATTGTACAGTGTC 59.409 38.462 0.00 5.39 42.62 3.67
1554 1676 5.237815 TCATCACTTGATTGTACAGTGTCC 58.762 41.667 0.00 0.00 31.21 4.02
1557 1679 3.675225 CACTTGATTGTACAGTGTCCTCG 59.325 47.826 0.00 0.00 0.00 4.63
1559 1681 4.202223 ACTTGATTGTACAGTGTCCTCGTT 60.202 41.667 0.00 0.00 0.00 3.85
1570 1692 4.393062 CAGTGTCCTCGTTCATTTTGCTAT 59.607 41.667 0.00 0.00 0.00 2.97
1575 1697 4.391830 TCCTCGTTCATTTTGCTATGTGAC 59.608 41.667 0.00 0.00 0.00 3.67
1592 1714 5.006153 TGTGACCAGATATTTGTAGGACG 57.994 43.478 0.00 0.00 0.00 4.79
1620 1742 5.392057 GGATTACTGGCAGTAGAACTTTTGC 60.392 44.000 25.00 8.88 31.47 3.68
1639 1762 2.542178 TGCTACTTAAACGTGCTGTGTG 59.458 45.455 0.00 0.00 0.00 3.82
1649 1772 3.985008 ACGTGCTGTGTGTATTCTGTTA 58.015 40.909 0.00 0.00 0.00 2.41
1660 1783 6.801862 GTGTGTATTCTGTTATGTGCTTTTCC 59.198 38.462 0.00 0.00 0.00 3.13
1708 1834 9.753669 CTACGCAATTGTTTTTCTTTTTCTTTT 57.246 25.926 7.40 0.00 0.00 2.27
1748 1874 4.507388 GCTTCAGTGCTTCACAGATCTATC 59.493 45.833 0.00 0.00 36.74 2.08
1753 1879 5.685068 CAGTGCTTCACAGATCTATCTAACG 59.315 44.000 0.00 0.00 36.74 3.18
1799 1925 4.620332 GCTATGTTCAGAGACAAGTCTGCT 60.620 45.833 7.57 2.33 43.28 4.24
1801 1927 2.695147 TGTTCAGAGACAAGTCTGCTCA 59.305 45.455 7.57 0.00 43.28 4.26
1804 1930 4.613925 TCAGAGACAAGTCTGCTCATTT 57.386 40.909 7.57 0.00 43.28 2.32
1808 1934 3.072944 AGACAAGTCTGCTCATTTCTGC 58.927 45.455 1.20 0.00 38.75 4.26
1815 1941 3.688185 GTCTGCTCATTTCTGCAATCTGA 59.312 43.478 0.00 0.00 38.81 3.27
1823 1949 6.569780 TCATTTCTGCAATCTGAAATCATGG 58.430 36.000 8.29 0.27 44.05 3.66
1842 1968 1.602920 GGGCGTTTTCTTTCTTGCTGG 60.603 52.381 0.00 0.00 0.00 4.85
1845 1971 1.066908 CGTTTTCTTTCTTGCTGGGCA 59.933 47.619 0.00 0.00 36.47 5.36
1849 1975 1.259609 TCTTTCTTGCTGGGCATTGG 58.740 50.000 0.00 0.00 38.76 3.16
1851 1977 0.178938 TTTCTTGCTGGGCATTGGGA 60.179 50.000 0.00 0.00 38.76 4.37
1873 2004 5.595952 GGAAAAAGGCCAATCATCTCATACT 59.404 40.000 5.01 0.00 0.00 2.12
1877 2008 6.705863 AAGGCCAATCATCTCATACTTTTC 57.294 37.500 5.01 0.00 0.00 2.29
1880 2011 5.240403 GGCCAATCATCTCATACTTTTCTCC 59.760 44.000 0.00 0.00 0.00 3.71
1899 2030 1.827315 CGCCGCTTTCTTTGACACGA 61.827 55.000 0.00 0.00 0.00 4.35
1900 2031 0.306533 GCCGCTTTCTTTGACACGAA 59.693 50.000 0.00 0.00 0.00 3.85
1902 2033 2.639751 CCGCTTTCTTTGACACGAAAG 58.360 47.619 16.57 16.57 45.46 2.62
1957 2088 2.552743 GGTTTAATCTTATCGCTGGGGC 59.447 50.000 0.00 0.00 0.00 5.80
1974 2105 2.093128 GGGGCGAATAGTTCAAGGAGAA 60.093 50.000 0.00 0.00 0.00 2.87
1983 2114 8.342634 CGAATAGTTCAAGGAGAAACAGAAAAA 58.657 33.333 0.00 0.00 38.13 1.94
1988 2119 5.997385 TCAAGGAGAAACAGAAAAATACGC 58.003 37.500 0.00 0.00 0.00 4.42
1991 2122 4.935808 AGGAGAAACAGAAAAATACGCGAT 59.064 37.500 15.93 0.00 0.00 4.58
1993 2124 5.390567 GGAGAAACAGAAAAATACGCGATGT 60.391 40.000 15.93 1.11 0.00 3.06
2002 2133 1.220529 ATACGCGATGTGCAATCCAG 58.779 50.000 15.93 0.00 46.97 3.86
2016 2147 3.244976 CAATCCAGCAAATTTCGTCACC 58.755 45.455 0.00 0.00 0.00 4.02
2023 2154 0.889186 AAATTTCGTCACCGCCAGCT 60.889 50.000 0.00 0.00 0.00 4.24
2077 2210 6.098409 TGTTAAAGAGATGATCCTCAGGGTAC 59.902 42.308 0.00 0.00 35.68 3.34
2091 2224 1.297689 GGTACCCTTTGACCCCGAC 59.702 63.158 0.00 0.00 0.00 4.79
2095 2228 1.221021 CCCTTTGACCCCGACTAGC 59.779 63.158 0.00 0.00 0.00 3.42
2100 2233 0.606604 TTGACCCCGACTAGCTCAAC 59.393 55.000 0.00 0.00 0.00 3.18
2108 2241 3.250744 CCGACTAGCTCAACGAAATGAA 58.749 45.455 0.00 0.00 0.00 2.57
2115 2248 6.975772 ACTAGCTCAACGAAATGAAGTAGATC 59.024 38.462 0.00 0.00 0.00 2.75
2137 2270 9.720769 AGATCTTCGAATTTAACCTAACTTTGA 57.279 29.630 0.00 0.00 0.00 2.69
2178 2311 1.771783 TTTGCTGCTGGGCTGAGAGA 61.772 55.000 0.00 0.00 0.00 3.10
2187 2320 2.183046 GCTGAGAGAGCCACGGTC 59.817 66.667 0.00 0.00 42.54 4.79
2188 2321 2.347322 GCTGAGAGAGCCACGGTCT 61.347 63.158 0.00 0.00 43.43 3.85
2189 2322 1.032657 GCTGAGAGAGCCACGGTCTA 61.033 60.000 0.00 0.00 40.67 2.59
2190 2323 1.021202 CTGAGAGAGCCACGGTCTAG 58.979 60.000 0.00 0.00 40.67 2.43
2191 2324 1.032657 TGAGAGAGCCACGGTCTAGC 61.033 60.000 0.00 0.00 40.67 3.42
2192 2325 0.750182 GAGAGAGCCACGGTCTAGCT 60.750 60.000 0.00 0.00 40.67 3.32
2193 2326 0.323908 AGAGAGCCACGGTCTAGCTT 60.324 55.000 0.00 0.00 40.67 3.74
2194 2327 0.533032 GAGAGCCACGGTCTAGCTTT 59.467 55.000 0.00 0.00 40.67 3.51
2195 2328 0.247736 AGAGCCACGGTCTAGCTTTG 59.752 55.000 0.00 0.00 38.70 2.77
2196 2329 1.362406 GAGCCACGGTCTAGCTTTGC 61.362 60.000 0.00 0.00 36.87 3.68
2197 2330 2.399356 GCCACGGTCTAGCTTTGCC 61.399 63.158 0.00 0.00 0.00 4.52
2198 2331 1.745489 CCACGGTCTAGCTTTGCCC 60.745 63.158 0.00 0.00 0.00 5.36
2199 2332 1.745489 CACGGTCTAGCTTTGCCCC 60.745 63.158 0.00 0.00 0.00 5.80
2200 2333 2.221299 ACGGTCTAGCTTTGCCCCA 61.221 57.895 0.00 0.00 0.00 4.96
2201 2334 1.002624 CGGTCTAGCTTTGCCCCAA 60.003 57.895 0.00 0.00 0.00 4.12
2202 2335 1.305930 CGGTCTAGCTTTGCCCCAAC 61.306 60.000 0.00 0.00 0.00 3.77
2203 2336 0.038310 GGTCTAGCTTTGCCCCAACT 59.962 55.000 0.00 0.00 0.00 3.16
2204 2337 1.280998 GGTCTAGCTTTGCCCCAACTA 59.719 52.381 0.00 0.00 0.00 2.24
2205 2338 2.290705 GGTCTAGCTTTGCCCCAACTAA 60.291 50.000 0.00 0.00 0.00 2.24
2206 2339 3.010420 GTCTAGCTTTGCCCCAACTAAG 58.990 50.000 0.00 0.00 0.00 2.18
2207 2340 1.745653 CTAGCTTTGCCCCAACTAAGC 59.254 52.381 0.00 0.00 45.11 3.09
2208 2341 2.658548 GCTTTGCCCCAACTAAGCT 58.341 52.632 0.00 0.00 42.63 3.74
2209 2342 0.528017 GCTTTGCCCCAACTAAGCTC 59.472 55.000 0.00 0.00 42.63 4.09
2210 2343 1.177401 CTTTGCCCCAACTAAGCTCC 58.823 55.000 0.00 0.00 0.00 4.70
2211 2344 0.480690 TTTGCCCCAACTAAGCTCCA 59.519 50.000 0.00 0.00 0.00 3.86
2212 2345 0.251165 TTGCCCCAACTAAGCTCCAC 60.251 55.000 0.00 0.00 0.00 4.02
2213 2346 1.378646 GCCCCAACTAAGCTCCACC 60.379 63.158 0.00 0.00 0.00 4.61
2214 2347 2.074967 CCCCAACTAAGCTCCACCA 58.925 57.895 0.00 0.00 0.00 4.17
2215 2348 0.322546 CCCCAACTAAGCTCCACCAC 60.323 60.000 0.00 0.00 0.00 4.16
2216 2349 0.693049 CCCAACTAAGCTCCACCACT 59.307 55.000 0.00 0.00 0.00 4.00
2217 2350 1.611673 CCCAACTAAGCTCCACCACTG 60.612 57.143 0.00 0.00 0.00 3.66
2218 2351 1.160137 CAACTAAGCTCCACCACTGC 58.840 55.000 0.00 0.00 0.00 4.40
2219 2352 0.764890 AACTAAGCTCCACCACTGCA 59.235 50.000 0.00 0.00 0.00 4.41
2220 2353 0.987294 ACTAAGCTCCACCACTGCAT 59.013 50.000 0.00 0.00 0.00 3.96
2221 2354 1.339438 ACTAAGCTCCACCACTGCATG 60.339 52.381 0.00 0.00 0.00 4.06
2233 2366 2.569059 CACTGCATGGATTAGAGGTGG 58.431 52.381 0.00 0.00 0.00 4.61
2234 2367 2.092753 CACTGCATGGATTAGAGGTGGT 60.093 50.000 0.00 0.00 0.00 4.16
2235 2368 2.092753 ACTGCATGGATTAGAGGTGGTG 60.093 50.000 0.00 0.00 0.00 4.17
2236 2369 1.212688 TGCATGGATTAGAGGTGGTGG 59.787 52.381 0.00 0.00 0.00 4.61
2237 2370 1.212935 GCATGGATTAGAGGTGGTGGT 59.787 52.381 0.00 0.00 0.00 4.16
2238 2371 2.923121 CATGGATTAGAGGTGGTGGTG 58.077 52.381 0.00 0.00 0.00 4.17
2239 2372 1.285280 TGGATTAGAGGTGGTGGTGG 58.715 55.000 0.00 0.00 0.00 4.61
2240 2373 0.546598 GGATTAGAGGTGGTGGTGGG 59.453 60.000 0.00 0.00 0.00 4.61
2241 2374 1.286248 GATTAGAGGTGGTGGTGGGT 58.714 55.000 0.00 0.00 0.00 4.51
2242 2375 1.633945 GATTAGAGGTGGTGGTGGGTT 59.366 52.381 0.00 0.00 0.00 4.11
2243 2376 0.768622 TTAGAGGTGGTGGTGGGTTG 59.231 55.000 0.00 0.00 0.00 3.77
2244 2377 1.774894 TAGAGGTGGTGGTGGGTTGC 61.775 60.000 0.00 0.00 0.00 4.17
2245 2378 3.425014 AGGTGGTGGTGGGTTGCA 61.425 61.111 0.00 0.00 0.00 4.08
2246 2379 2.203625 GGTGGTGGTGGGTTGCAT 60.204 61.111 0.00 0.00 0.00 3.96
2247 2380 2.275380 GGTGGTGGTGGGTTGCATC 61.275 63.158 0.00 0.00 0.00 3.91
2248 2381 2.282110 TGGTGGTGGGTTGCATCG 60.282 61.111 0.00 0.00 0.00 3.84
2249 2382 3.747976 GGTGGTGGGTTGCATCGC 61.748 66.667 4.94 4.94 0.00 4.58
2250 2383 2.672996 GTGGTGGGTTGCATCGCT 60.673 61.111 12.44 0.00 0.00 4.93
2251 2384 1.376683 GTGGTGGGTTGCATCGCTA 60.377 57.895 12.44 0.00 0.00 4.26
2252 2385 1.376683 TGGTGGGTTGCATCGCTAC 60.377 57.895 12.44 8.86 33.89 3.58
2253 2386 2.461110 GGTGGGTTGCATCGCTACG 61.461 63.158 12.44 0.00 35.33 3.51
2254 2387 1.447140 GTGGGTTGCATCGCTACGA 60.447 57.895 12.44 0.00 41.13 3.43
2255 2388 1.017177 GTGGGTTGCATCGCTACGAA 61.017 55.000 12.44 0.00 39.99 3.85
2256 2389 1.017177 TGGGTTGCATCGCTACGAAC 61.017 55.000 12.44 0.00 39.99 3.95
2257 2390 1.017177 GGGTTGCATCGCTACGAACA 61.017 55.000 4.67 0.00 39.99 3.18
2258 2391 0.370273 GGTTGCATCGCTACGAACAG 59.630 55.000 0.00 0.00 39.99 3.16
2259 2392 0.247301 GTTGCATCGCTACGAACAGC 60.247 55.000 0.00 0.00 39.99 4.40
2276 2409 4.412933 CGTGGTGACGTGAACACT 57.587 55.556 20.84 0.00 40.91 3.55
2277 2410 3.555401 CGTGGTGACGTGAACACTA 57.445 52.632 20.84 4.73 40.91 2.74
2278 2411 1.405461 CGTGGTGACGTGAACACTAG 58.595 55.000 20.84 2.59 40.91 2.57
2279 2412 1.268896 CGTGGTGACGTGAACACTAGT 60.269 52.381 20.84 0.00 40.91 2.57
2280 2413 2.031769 CGTGGTGACGTGAACACTAGTA 60.032 50.000 20.84 0.00 40.91 1.82
2281 2414 3.303406 GTGGTGACGTGAACACTAGTAC 58.697 50.000 16.39 2.56 38.20 2.73
2282 2415 3.004106 GTGGTGACGTGAACACTAGTACT 59.996 47.826 16.39 0.00 38.20 2.73
2283 2416 3.004002 TGGTGACGTGAACACTAGTACTG 59.996 47.826 5.39 0.00 38.20 2.74
2284 2417 3.562505 GTGACGTGAACACTAGTACTGG 58.437 50.000 5.39 4.89 35.66 4.00
2285 2418 3.004106 GTGACGTGAACACTAGTACTGGT 59.996 47.826 5.98 5.98 35.66 4.00
2286 2419 3.004002 TGACGTGAACACTAGTACTGGTG 59.996 47.826 31.08 31.08 45.90 4.17
2293 2426 2.960819 CACTAGTACTGGTGTTGAGCC 58.039 52.381 26.42 0.00 37.30 4.70
2294 2427 2.299013 CACTAGTACTGGTGTTGAGCCA 59.701 50.000 26.42 0.00 37.30 4.75
2295 2428 2.299297 ACTAGTACTGGTGTTGAGCCAC 59.701 50.000 11.56 0.00 34.52 5.01
2300 2433 2.904866 GGTGTTGAGCCACCGCAA 60.905 61.111 0.00 0.00 45.03 4.85
2301 2434 2.485795 GGTGTTGAGCCACCGCAAA 61.486 57.895 0.00 0.00 45.03 3.68
2302 2435 1.008538 GTGTTGAGCCACCGCAAAG 60.009 57.895 0.00 0.00 37.52 2.77
2303 2436 1.453015 TGTTGAGCCACCGCAAAGT 60.453 52.632 0.00 0.00 37.52 2.66
2304 2437 1.034838 TGTTGAGCCACCGCAAAGTT 61.035 50.000 0.00 0.00 37.52 2.66
2305 2438 0.594796 GTTGAGCCACCGCAAAGTTG 60.595 55.000 0.00 0.00 37.52 3.16
2317 2450 2.681152 CAAAGTTGCACCGGTTCTAC 57.319 50.000 2.97 7.72 0.00 2.59
2318 2451 1.944024 CAAAGTTGCACCGGTTCTACA 59.056 47.619 19.18 6.90 0.00 2.74
2319 2452 2.552315 CAAAGTTGCACCGGTTCTACAT 59.448 45.455 19.18 6.19 0.00 2.29
2320 2453 2.561478 AGTTGCACCGGTTCTACATT 57.439 45.000 19.18 0.00 0.00 2.71
2321 2454 2.858745 AGTTGCACCGGTTCTACATTT 58.141 42.857 19.18 0.00 0.00 2.32
2322 2455 4.010667 AGTTGCACCGGTTCTACATTTA 57.989 40.909 19.18 0.00 0.00 1.40
2323 2456 4.585879 AGTTGCACCGGTTCTACATTTAT 58.414 39.130 19.18 0.00 0.00 1.40
2324 2457 5.736813 AGTTGCACCGGTTCTACATTTATA 58.263 37.500 19.18 0.00 0.00 0.98
2325 2458 6.354130 AGTTGCACCGGTTCTACATTTATAT 58.646 36.000 19.18 0.00 0.00 0.86
2326 2459 6.826741 AGTTGCACCGGTTCTACATTTATATT 59.173 34.615 19.18 0.00 0.00 1.28
2327 2460 7.988599 AGTTGCACCGGTTCTACATTTATATTA 59.011 33.333 19.18 0.00 0.00 0.98
2328 2461 7.718272 TGCACCGGTTCTACATTTATATTAC 57.282 36.000 2.97 0.00 0.00 1.89
2329 2462 7.502696 TGCACCGGTTCTACATTTATATTACT 58.497 34.615 2.97 0.00 0.00 2.24
2330 2463 7.988599 TGCACCGGTTCTACATTTATATTACTT 59.011 33.333 2.97 0.00 0.00 2.24
2331 2464 8.493547 GCACCGGTTCTACATTTATATTACTTC 58.506 37.037 2.97 0.00 0.00 3.01
2332 2465 8.985805 CACCGGTTCTACATTTATATTACTTCC 58.014 37.037 2.97 0.00 0.00 3.46
2333 2466 8.931568 ACCGGTTCTACATTTATATTACTTCCT 58.068 33.333 0.00 0.00 0.00 3.36
2334 2467 9.420551 CCGGTTCTACATTTATATTACTTCCTC 57.579 37.037 0.00 0.00 0.00 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
110 112 1.519455 CGAGTCCCATCGTCCTTGC 60.519 63.158 0.00 0.00 37.91 4.01
184 231 3.013921 ACGAAAAGCTCCAAAACAGTGA 58.986 40.909 0.00 0.00 0.00 3.41
247 295 1.102978 GCAACAGTTGGAGTGGTTGT 58.897 50.000 15.28 0.00 41.89 3.32
258 306 0.610232 GCCTCCATCCAGCAACAGTT 60.610 55.000 0.00 0.00 0.00 3.16
352 400 1.003839 TGGCTTCGATGCGAACCTT 60.004 52.632 16.13 0.00 41.05 3.50
353 401 1.741770 GTGGCTTCGATGCGAACCT 60.742 57.895 16.13 0.00 41.05 3.50
356 404 3.487202 GCGTGGCTTCGATGCGAA 61.487 61.111 16.13 5.34 43.75 4.70
388 436 1.746991 GGCTCCCAACTGCTACAGC 60.747 63.158 0.00 0.00 42.50 4.40
394 442 3.050275 GACACGGCTCCCAACTGC 61.050 66.667 0.00 0.00 0.00 4.40
395 443 2.149803 TACGACACGGCTCCCAACTG 62.150 60.000 0.00 0.00 0.00 3.16
422 470 1.602605 GGGCTTTGCGTACCTTGGT 60.603 57.895 0.00 0.00 0.00 3.67
431 479 4.404654 GGCTTCACGGGCTTTGCG 62.405 66.667 0.00 0.00 0.00 4.85
432 480 4.404654 CGGCTTCACGGGCTTTGC 62.405 66.667 0.00 0.00 0.00 3.68
433 481 1.669760 TACGGCTTCACGGGCTTTG 60.670 57.895 0.00 0.00 38.39 2.77
434 482 1.670083 GTACGGCTTCACGGGCTTT 60.670 57.895 0.00 0.00 38.39 3.51
435 483 2.047560 GTACGGCTTCACGGGCTT 60.048 61.111 0.00 0.00 38.39 4.35
436 484 3.307906 TGTACGGCTTCACGGGCT 61.308 61.111 0.00 0.00 38.39 5.19
437 485 3.116531 GTGTACGGCTTCACGGGC 61.117 66.667 0.00 0.00 38.39 6.13
502 571 3.969250 TTTCCCATGCCGCCGAGTC 62.969 63.158 0.00 0.00 0.00 3.36
595 664 1.557443 CGTTTCCGTCAGTGACAGGC 61.557 60.000 22.66 10.78 32.09 4.85
596 665 0.944311 CCGTTTCCGTCAGTGACAGG 60.944 60.000 22.66 21.79 32.09 4.00
597 666 0.031585 TCCGTTTCCGTCAGTGACAG 59.968 55.000 22.66 12.10 32.09 3.51
598 667 0.460722 TTCCGTTTCCGTCAGTGACA 59.539 50.000 22.66 1.39 32.09 3.58
599 668 1.137513 CTTCCGTTTCCGTCAGTGAC 58.862 55.000 13.56 13.56 0.00 3.67
600 669 0.032952 CCTTCCGTTTCCGTCAGTGA 59.967 55.000 0.00 0.00 0.00 3.41
601 670 0.949105 CCCTTCCGTTTCCGTCAGTG 60.949 60.000 0.00 0.00 0.00 3.66
602 671 1.370064 CCCTTCCGTTTCCGTCAGT 59.630 57.895 0.00 0.00 0.00 3.41
626 695 0.097674 ATTCAAGCATCAACTCGCGC 59.902 50.000 0.00 0.00 0.00 6.86
636 705 5.176406 CGATCACTCGTTCATATTCAAGCAT 59.824 40.000 0.00 0.00 40.07 3.79
682 751 4.655649 TGCCATGGTGATAATCTACTCTGT 59.344 41.667 14.67 0.00 0.00 3.41
700 769 2.788640 GCCGGTTCATGCATGCCAT 61.789 57.895 22.25 6.01 33.39 4.40
703 772 4.557605 CCGCCGGTTCATGCATGC 62.558 66.667 22.25 11.82 0.00 4.06
802 875 1.337260 CGGGAGGAGATTTATGGAGCG 60.337 57.143 0.00 0.00 0.00 5.03
810 883 2.158943 GGAAACGATCGGGAGGAGATTT 60.159 50.000 20.98 7.90 0.00 2.17
814 894 0.103208 CAGGAAACGATCGGGAGGAG 59.897 60.000 20.98 1.16 0.00 3.69
938 1021 4.774503 AAGAGGAGCTGCGCCTGC 62.775 66.667 29.76 19.23 43.20 4.85
978 1061 4.410400 CGCCGCCCTTCCTTTCCT 62.410 66.667 0.00 0.00 0.00 3.36
1245 1328 2.677979 GCCGTCGTTGCCCTTCTTC 61.678 63.158 0.00 0.00 0.00 2.87
1337 1429 1.486310 GCTGTGGGGATGTACAGATGA 59.514 52.381 0.33 0.00 45.46 2.92
1339 1431 1.210478 GTGCTGTGGGGATGTACAGAT 59.790 52.381 0.33 0.00 45.46 2.90
1343 1440 0.533491 TACGTGCTGTGGGGATGTAC 59.467 55.000 0.00 0.00 36.84 2.90
1347 1444 0.966875 TACGTACGTGCTGTGGGGAT 60.967 55.000 30.25 1.29 0.00 3.85
1352 1449 9.545611 TTTACATATATATACGTACGTGCTGTG 57.454 33.333 30.25 19.35 0.00 3.66
1372 1477 6.156429 AGGGAAGAAACTACCGAGATTTACAT 59.844 38.462 0.00 0.00 0.00 2.29
1374 1479 5.975282 AGGGAAGAAACTACCGAGATTTAC 58.025 41.667 0.00 0.00 0.00 2.01
1379 1484 3.762823 GAGAAGGGAAGAAACTACCGAGA 59.237 47.826 0.00 0.00 0.00 4.04
1403 1508 4.311606 ACATGTGTACAATCAGTAACGCA 58.688 39.130 0.00 0.00 33.72 5.24
1418 1523 8.504815 CGCACTTACTACTCTATATACATGTGT 58.495 37.037 9.11 4.04 0.00 3.72
1419 1524 7.482113 GCGCACTTACTACTCTATATACATGTG 59.518 40.741 9.11 0.00 0.00 3.21
1421 1526 6.683286 CGCGCACTTACTACTCTATATACATG 59.317 42.308 8.75 0.00 0.00 3.21
1422 1527 6.183360 CCGCGCACTTACTACTCTATATACAT 60.183 42.308 8.75 0.00 0.00 2.29
1423 1528 5.121298 CCGCGCACTTACTACTCTATATACA 59.879 44.000 8.75 0.00 0.00 2.29
1424 1529 5.349817 TCCGCGCACTTACTACTCTATATAC 59.650 44.000 8.75 0.00 0.00 1.47
1425 1530 5.482006 TCCGCGCACTTACTACTCTATATA 58.518 41.667 8.75 0.00 0.00 0.86
1430 1545 1.390565 ATCCGCGCACTTACTACTCT 58.609 50.000 8.75 0.00 0.00 3.24
1441 1556 0.526096 GACCGTACTAAATCCGCGCA 60.526 55.000 8.75 0.00 0.00 6.09
1444 1559 2.049228 CATCGACCGTACTAAATCCGC 58.951 52.381 0.00 0.00 0.00 5.54
1458 1580 3.072944 ACGCTACCCTCTATACATCGAC 58.927 50.000 0.00 0.00 0.00 4.20
1506 1628 1.639298 CCCGCTCTCGCAAAAAGAGG 61.639 60.000 2.62 0.00 40.54 3.69
1521 1643 1.134699 TCAAGTGATGATGAGACCCGC 60.135 52.381 0.00 0.00 31.50 6.13
1539 1661 3.319689 TGAACGAGGACACTGTACAATCA 59.680 43.478 0.00 0.00 0.00 2.57
1553 1675 4.437390 GGTCACATAGCAAAATGAACGAGG 60.437 45.833 0.00 0.00 0.00 4.63
1554 1676 4.154015 TGGTCACATAGCAAAATGAACGAG 59.846 41.667 0.00 0.00 31.09 4.18
1557 1679 5.627499 TCTGGTCACATAGCAAAATGAAC 57.373 39.130 1.26 0.00 34.56 3.18
1559 1681 8.407832 CAAATATCTGGTCACATAGCAAAATGA 58.592 33.333 1.26 0.00 34.56 2.57
1570 1692 4.142026 CCGTCCTACAAATATCTGGTCACA 60.142 45.833 0.00 0.00 0.00 3.58
1575 1697 3.393800 CTGCCGTCCTACAAATATCTGG 58.606 50.000 0.00 0.00 0.00 3.86
1592 1714 1.762957 TCTACTGCCAGTAATCCTGCC 59.237 52.381 5.98 0.00 40.06 4.85
1611 1733 5.395486 CAGCACGTTTAAGTAGCAAAAGTTC 59.605 40.000 0.00 0.00 0.00 3.01
1620 1742 6.365247 AGAATACACACAGCACGTTTAAGTAG 59.635 38.462 0.00 0.00 0.00 2.57
1639 1762 7.989826 AGATGGAAAAGCACATAACAGAATAC 58.010 34.615 0.00 0.00 0.00 1.89
1649 1772 3.508793 CACTGGAAGATGGAAAAGCACAT 59.491 43.478 0.00 0.00 37.43 3.21
1660 1783 2.391616 TGCTGCTACACTGGAAGATG 57.608 50.000 0.00 0.00 37.43 2.90
1708 1834 7.338196 GCACTGAAGCCTACTGATCTATCTATA 59.662 40.741 0.00 0.00 0.00 1.31
1709 1835 6.152661 GCACTGAAGCCTACTGATCTATCTAT 59.847 42.308 0.00 0.00 0.00 1.98
1711 1837 4.280677 GCACTGAAGCCTACTGATCTATCT 59.719 45.833 0.00 0.00 0.00 1.98
1712 1838 4.280677 AGCACTGAAGCCTACTGATCTATC 59.719 45.833 0.00 0.00 34.23 2.08
1713 1839 4.222336 AGCACTGAAGCCTACTGATCTAT 58.778 43.478 0.00 0.00 34.23 1.98
1748 1874 0.671781 AGCTTGAGCAGTGCCGTTAG 60.672 55.000 12.58 5.66 45.16 2.34
1753 1879 2.749441 GGGAGCTTGAGCAGTGCC 60.749 66.667 12.58 3.92 45.16 5.01
1799 1925 6.406512 CCCATGATTTCAGATTGCAGAAATGA 60.407 38.462 14.35 8.18 42.67 2.57
1801 1927 5.684030 GCCCATGATTTCAGATTGCAGAAAT 60.684 40.000 10.46 10.46 44.61 2.17
1804 1930 2.691526 GCCCATGATTTCAGATTGCAGA 59.308 45.455 0.00 0.00 0.00 4.26
1808 1934 3.788333 AACGCCCATGATTTCAGATTG 57.212 42.857 0.00 0.00 0.00 2.67
1815 1941 4.871933 AGAAAGAAAACGCCCATGATTT 57.128 36.364 0.00 0.00 0.00 2.17
1823 1949 1.602920 CCCAGCAAGAAAGAAAACGCC 60.603 52.381 0.00 0.00 0.00 5.68
1842 1968 0.399833 TTGGCCTTTTTCCCAATGCC 59.600 50.000 3.32 0.00 36.25 4.40
1849 1975 5.595952 AGTATGAGATGATTGGCCTTTTTCC 59.404 40.000 3.32 0.00 0.00 3.13
1851 1977 7.486407 AAAGTATGAGATGATTGGCCTTTTT 57.514 32.000 3.32 0.00 0.00 1.94
1873 2004 1.001815 CAAAGAAAGCGGCGGAGAAAA 60.002 47.619 9.78 0.00 0.00 2.29
1877 2008 1.227999 TGTCAAAGAAAGCGGCGGAG 61.228 55.000 9.78 0.00 0.00 4.63
1880 2011 1.438710 CGTGTCAAAGAAAGCGGCG 60.439 57.895 0.51 0.51 0.00 6.46
1911 2042 0.520404 ATTCAGTTTGCAGCAGCGAG 59.480 50.000 0.00 0.00 46.23 5.03
1913 2044 2.245096 GTAATTCAGTTTGCAGCAGCG 58.755 47.619 0.00 0.00 46.23 5.18
1957 2088 7.421530 TTTCTGTTTCTCCTTGAACTATTCG 57.578 36.000 0.00 0.00 33.88 3.34
1963 2094 6.359883 GCGTATTTTTCTGTTTCTCCTTGAAC 59.640 38.462 0.00 0.00 33.88 3.18
1974 2105 3.058570 TGCACATCGCGTATTTTTCTGTT 60.059 39.130 5.77 0.00 46.97 3.16
1983 2114 1.220529 CTGGATTGCACATCGCGTAT 58.779 50.000 5.77 0.00 46.97 3.06
1986 2117 2.023741 GCTGGATTGCACATCGCG 59.976 61.111 0.00 0.00 46.97 5.87
1988 2119 2.572191 ATTTGCTGGATTGCACATCG 57.428 45.000 0.00 0.00 43.20 3.84
1991 2122 2.035704 ACGAAATTTGCTGGATTGCACA 59.964 40.909 0.00 0.00 43.20 4.57
1993 2124 2.295629 TGACGAAATTTGCTGGATTGCA 59.704 40.909 0.00 0.00 41.65 4.08
2023 2154 4.731720 CACAATTAAACATGCATGTCCGA 58.268 39.130 31.45 19.63 40.80 4.55
2077 2210 1.221021 GCTAGTCGGGGTCAAAGGG 59.779 63.158 0.00 0.00 0.00 3.95
2080 2213 1.344065 TTGAGCTAGTCGGGGTCAAA 58.656 50.000 5.97 0.00 44.54 2.69
2088 2221 3.921021 ACTTCATTTCGTTGAGCTAGTCG 59.079 43.478 0.00 0.00 0.00 4.18
2091 2224 7.199766 AGATCTACTTCATTTCGTTGAGCTAG 58.800 38.462 0.00 0.00 31.80 3.42
2137 2270 9.949174 GCAAAATAACTGATGGTTTGAAAATTT 57.051 25.926 0.00 0.00 39.17 1.82
2140 2273 7.254727 GCAGCAAAATAACTGATGGTTTGAAAA 60.255 33.333 0.00 0.00 39.17 2.29
2147 2280 4.445452 CAGCAGCAAAATAACTGATGGT 57.555 40.909 0.00 0.00 44.48 3.55
2152 2285 1.547372 AGCCCAGCAGCAAAATAACTG 59.453 47.619 0.00 0.00 36.96 3.16
2153 2286 1.547372 CAGCCCAGCAGCAAAATAACT 59.453 47.619 0.00 0.00 34.23 2.24
2156 2289 1.004628 TCTCAGCCCAGCAGCAAAATA 59.995 47.619 0.00 0.00 34.23 1.40
2158 2291 0.892358 CTCTCAGCCCAGCAGCAAAA 60.892 55.000 0.00 0.00 34.23 2.44
2162 2295 2.187424 CTCTCTCAGCCCAGCAGC 59.813 66.667 0.00 0.00 0.00 5.25
2183 2316 1.002624 TTGGGGCAAAGCTAGACCG 60.003 57.895 4.98 0.00 0.00 4.79
2184 2317 0.038310 AGTTGGGGCAAAGCTAGACC 59.962 55.000 2.28 2.28 0.00 3.85
2185 2318 2.781681 TAGTTGGGGCAAAGCTAGAC 57.218 50.000 0.00 0.00 0.00 2.59
2186 2319 2.618045 GCTTAGTTGGGGCAAAGCTAGA 60.618 50.000 0.00 0.00 40.87 2.43
2187 2320 1.745653 GCTTAGTTGGGGCAAAGCTAG 59.254 52.381 0.00 0.00 40.87 3.42
2188 2321 1.834188 GCTTAGTTGGGGCAAAGCTA 58.166 50.000 0.00 0.00 40.87 3.32
2189 2322 2.658548 GCTTAGTTGGGGCAAAGCT 58.341 52.632 0.00 0.00 40.87 3.74
2190 2323 0.528017 GAGCTTAGTTGGGGCAAAGC 59.472 55.000 0.00 0.00 43.66 3.51
2191 2324 1.177401 GGAGCTTAGTTGGGGCAAAG 58.823 55.000 0.00 0.00 0.00 2.77
2192 2325 0.480690 TGGAGCTTAGTTGGGGCAAA 59.519 50.000 0.00 0.00 0.00 3.68
2193 2326 0.251165 GTGGAGCTTAGTTGGGGCAA 60.251 55.000 0.00 0.00 0.00 4.52
2194 2327 1.378762 GTGGAGCTTAGTTGGGGCA 59.621 57.895 0.00 0.00 0.00 5.36
2195 2328 1.378646 GGTGGAGCTTAGTTGGGGC 60.379 63.158 0.00 0.00 0.00 5.80
2196 2329 0.322546 GTGGTGGAGCTTAGTTGGGG 60.323 60.000 0.00 0.00 0.00 4.96
2197 2330 0.693049 AGTGGTGGAGCTTAGTTGGG 59.307 55.000 0.00 0.00 0.00 4.12
2198 2331 1.813513 CAGTGGTGGAGCTTAGTTGG 58.186 55.000 0.00 0.00 0.00 3.77
2199 2332 1.160137 GCAGTGGTGGAGCTTAGTTG 58.840 55.000 0.00 0.00 0.00 3.16
2200 2333 0.764890 TGCAGTGGTGGAGCTTAGTT 59.235 50.000 0.00 0.00 0.00 2.24
2201 2334 0.987294 ATGCAGTGGTGGAGCTTAGT 59.013 50.000 0.00 0.00 0.00 2.24
2202 2335 1.376543 CATGCAGTGGTGGAGCTTAG 58.623 55.000 0.00 0.00 0.00 2.18
2203 2336 0.035152 CCATGCAGTGGTGGAGCTTA 60.035 55.000 0.00 0.00 43.44 3.09
2204 2337 1.303888 CCATGCAGTGGTGGAGCTT 60.304 57.895 0.00 0.00 43.44 3.74
2205 2338 1.569030 ATCCATGCAGTGGTGGAGCT 61.569 55.000 12.14 0.00 46.87 4.09
2206 2339 0.682209 AATCCATGCAGTGGTGGAGC 60.682 55.000 12.14 0.00 46.87 4.70
2207 2340 2.171237 TCTAATCCATGCAGTGGTGGAG 59.829 50.000 12.14 8.79 46.87 3.86
2213 2346 2.092753 ACCACCTCTAATCCATGCAGTG 60.093 50.000 0.00 0.00 0.00 3.66
2214 2347 2.092753 CACCACCTCTAATCCATGCAGT 60.093 50.000 0.00 0.00 0.00 4.40
2215 2348 2.569059 CACCACCTCTAATCCATGCAG 58.431 52.381 0.00 0.00 0.00 4.41
2216 2349 1.212688 CCACCACCTCTAATCCATGCA 59.787 52.381 0.00 0.00 0.00 3.96
2217 2350 1.212935 ACCACCACCTCTAATCCATGC 59.787 52.381 0.00 0.00 0.00 4.06
2218 2351 2.421952 CCACCACCACCTCTAATCCATG 60.422 54.545 0.00 0.00 0.00 3.66
2219 2352 1.846439 CCACCACCACCTCTAATCCAT 59.154 52.381 0.00 0.00 0.00 3.41
2220 2353 1.285280 CCACCACCACCTCTAATCCA 58.715 55.000 0.00 0.00 0.00 3.41
2221 2354 0.546598 CCCACCACCACCTCTAATCC 59.453 60.000 0.00 0.00 0.00 3.01
2222 2355 1.286248 ACCCACCACCACCTCTAATC 58.714 55.000 0.00 0.00 0.00 1.75
2223 2356 1.354368 CAACCCACCACCACCTCTAAT 59.646 52.381 0.00 0.00 0.00 1.73
2224 2357 0.768622 CAACCCACCACCACCTCTAA 59.231 55.000 0.00 0.00 0.00 2.10
2225 2358 1.774894 GCAACCCACCACCACCTCTA 61.775 60.000 0.00 0.00 0.00 2.43
2226 2359 3.133365 GCAACCCACCACCACCTCT 62.133 63.158 0.00 0.00 0.00 3.69
2227 2360 2.597510 GCAACCCACCACCACCTC 60.598 66.667 0.00 0.00 0.00 3.85
2228 2361 2.713531 GATGCAACCCACCACCACCT 62.714 60.000 0.00 0.00 0.00 4.00
2229 2362 2.203625 ATGCAACCCACCACCACC 60.204 61.111 0.00 0.00 0.00 4.61
2230 2363 2.625823 CGATGCAACCCACCACCAC 61.626 63.158 0.00 0.00 0.00 4.16
2231 2364 2.282110 CGATGCAACCCACCACCA 60.282 61.111 0.00 0.00 0.00 4.17
2232 2365 2.813226 TAGCGATGCAACCCACCACC 62.813 60.000 0.00 0.00 0.00 4.61
2233 2366 1.376683 TAGCGATGCAACCCACCAC 60.377 57.895 0.00 0.00 0.00 4.16
2234 2367 1.376683 GTAGCGATGCAACCCACCA 60.377 57.895 0.00 0.00 0.00 4.17
2235 2368 2.461110 CGTAGCGATGCAACCCACC 61.461 63.158 0.00 0.00 0.00 4.61
2236 2369 1.017177 TTCGTAGCGATGCAACCCAC 61.017 55.000 0.00 0.00 35.23 4.61
2237 2370 1.017177 GTTCGTAGCGATGCAACCCA 61.017 55.000 0.00 0.00 35.23 4.51
2238 2371 1.017177 TGTTCGTAGCGATGCAACCC 61.017 55.000 0.00 0.00 35.23 4.11
2239 2372 0.370273 CTGTTCGTAGCGATGCAACC 59.630 55.000 0.00 0.00 35.23 3.77
2240 2373 0.247301 GCTGTTCGTAGCGATGCAAC 60.247 55.000 0.00 0.00 35.23 4.17
2241 2374 2.078226 GCTGTTCGTAGCGATGCAA 58.922 52.632 0.00 0.00 35.23 4.08
2242 2375 3.780693 GCTGTTCGTAGCGATGCA 58.219 55.556 0.00 0.00 35.23 3.96
2260 2393 2.503920 ACTAGTGTTCACGTCACCAC 57.496 50.000 0.00 1.66 36.58 4.16
2261 2394 3.004002 CAGTACTAGTGTTCACGTCACCA 59.996 47.826 5.39 0.00 36.58 4.17
2262 2395 3.562505 CAGTACTAGTGTTCACGTCACC 58.437 50.000 5.39 0.00 36.58 4.02
2263 2396 3.004106 ACCAGTACTAGTGTTCACGTCAC 59.996 47.826 5.39 0.00 36.22 3.67
2264 2397 3.004002 CACCAGTACTAGTGTTCACGTCA 59.996 47.826 12.69 0.00 0.00 4.35
2265 2398 3.004106 ACACCAGTACTAGTGTTCACGTC 59.996 47.826 19.66 0.00 44.65 4.34
2266 2399 2.954318 ACACCAGTACTAGTGTTCACGT 59.046 45.455 19.66 0.00 44.65 4.49
2267 2400 3.637998 ACACCAGTACTAGTGTTCACG 57.362 47.619 19.66 0.00 44.65 4.35
2273 2406 2.299013 TGGCTCAACACCAGTACTAGTG 59.701 50.000 18.36 18.36 39.93 2.74
2274 2407 2.299297 GTGGCTCAACACCAGTACTAGT 59.701 50.000 0.00 0.00 38.04 2.57
2275 2408 2.960819 GTGGCTCAACACCAGTACTAG 58.039 52.381 0.00 0.00 38.04 2.57
2284 2417 1.008538 CTTTGCGGTGGCTCAACAC 60.009 57.895 0.00 0.00 40.82 3.32
2285 2418 1.034838 AACTTTGCGGTGGCTCAACA 61.035 50.000 0.00 0.00 40.82 3.33
2286 2419 0.594796 CAACTTTGCGGTGGCTCAAC 60.595 55.000 0.00 0.00 40.82 3.18
2287 2420 1.732917 CAACTTTGCGGTGGCTCAA 59.267 52.632 0.00 0.00 40.82 3.02
2288 2421 2.844451 GCAACTTTGCGGTGGCTCA 61.844 57.895 0.00 0.00 45.11 4.26
2289 2422 2.050077 GCAACTTTGCGGTGGCTC 60.050 61.111 0.00 0.00 45.11 4.70
2298 2431 1.944024 TGTAGAACCGGTGCAACTTTG 59.056 47.619 16.99 0.00 36.74 2.77
2299 2432 2.335316 TGTAGAACCGGTGCAACTTT 57.665 45.000 16.99 0.00 36.74 2.66
2300 2433 2.561478 ATGTAGAACCGGTGCAACTT 57.439 45.000 16.99 5.73 36.74 2.66
2301 2434 2.561478 AATGTAGAACCGGTGCAACT 57.439 45.000 16.99 11.75 36.74 3.16
2302 2435 4.957759 ATAAATGTAGAACCGGTGCAAC 57.042 40.909 16.99 10.83 0.00 4.17
2303 2436 7.988599 AGTAATATAAATGTAGAACCGGTGCAA 59.011 33.333 16.99 0.00 0.00 4.08
2304 2437 7.502696 AGTAATATAAATGTAGAACCGGTGCA 58.497 34.615 16.99 9.56 0.00 4.57
2305 2438 7.958053 AGTAATATAAATGTAGAACCGGTGC 57.042 36.000 8.52 5.95 0.00 5.01
2306 2439 8.985805 GGAAGTAATATAAATGTAGAACCGGTG 58.014 37.037 8.52 0.00 0.00 4.94
2307 2440 8.931568 AGGAAGTAATATAAATGTAGAACCGGT 58.068 33.333 0.00 0.00 0.00 5.28
2308 2441 9.420551 GAGGAAGTAATATAAATGTAGAACCGG 57.579 37.037 0.00 0.00 0.00 5.28


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.