Multiple sequence alignment - TraesCS5B01G187600

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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 TraesCS5B01G187600 chr5B 100.000 2363 0 0 1 2363 339534800 339537162 0.000000e+00 4364
1 TraesCS5B01G187600 chr5D 92.148 2025 101 21 1 2004 298862373 298864360 0.000000e+00 2806
2 TraesCS5B01G187600 chr5D 92.949 156 10 1 2012 2166 475931788 475931943 2.360000e-55 226
3 TraesCS5B01G187600 chr5D 89.404 151 16 0 2210 2360 298864467 298864617 8.620000e-45 191
4 TraesCS5B01G187600 chr5A 89.638 2046 108 45 2 2004 398927567 398925583 0.000000e+00 2508
5 TraesCS5B01G187600 chr5A 88.701 177 19 1 2009 2184 645384668 645384492 5.120000e-52 215
6 TraesCS5B01G187600 chr3D 90.374 187 15 3 2008 2192 520836836 520836651 2.350000e-60 243
7 TraesCS5B01G187600 chr4B 90.556 180 15 2 2006 2184 29711810 29711632 1.090000e-58 237
8 TraesCS5B01G187600 chr3B 92.994 157 10 1 2010 2165 764767597 764767753 6.570000e-56 228
9 TraesCS5B01G187600 chr2B 92.258 155 11 1 2012 2165 122223974 122224128 3.950000e-53 219
10 TraesCS5B01G187600 chr7B 88.701 177 19 1 2009 2184 112349661 112349837 5.120000e-52 215
11 TraesCS5B01G187600 chr7A 88.953 172 18 1 2007 2177 637261 637090 6.620000e-51 211
12 TraesCS5B01G187600 chr3A 90.244 164 13 2 2028 2189 544423670 544423508 6.620000e-51 211


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 TraesCS5B01G187600 chr5B 339534800 339537162 2362 False 4364.0 4364 100.000 1 2363 1 chr5B.!!$F1 2362
1 TraesCS5B01G187600 chr5D 298862373 298864617 2244 False 1498.5 2806 90.776 1 2360 2 chr5D.!!$F2 2359
2 TraesCS5B01G187600 chr5A 398925583 398927567 1984 True 2508.0 2508 89.638 2 2004 1 chr5A.!!$R1 2002

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
757 774 0.038159 GTGTGAGTGAGGAAGGGACG 60.038 60.0 0.0 0.0 0.0 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1742 1788 0.179051 TTTCCCACGGCGTACAAACT 60.179 50.0 14.22 0.0 0.0 2.66 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
38 39 5.220557 TCGTTAAATGCATCACATGACAG 57.779 39.130 0.00 0.00 39.60 3.51
46 47 3.940852 TGCATCACATGACAGAACCATAC 59.059 43.478 0.00 0.00 0.00 2.39
62 64 1.060553 CATACGCCAGCTGTTTACACG 59.939 52.381 13.81 8.72 0.00 4.49
153 158 6.810911 TGCATTTGCTTTACTGGTTCTTTTA 58.189 32.000 3.94 0.00 42.66 1.52
167 172 8.442374 ACTGGTTCTTTTATTGTCCTTTAGGTA 58.558 33.333 0.00 0.00 36.34 3.08
175 180 4.374689 TTGTCCTTTAGGTACCATGCAA 57.625 40.909 15.94 6.35 36.34 4.08
202 207 3.244700 ACCTGCTTGCTGAAGTTACTGAT 60.245 43.478 1.05 0.00 0.00 2.90
205 210 3.077359 GCTTGCTGAAGTTACTGATGGT 58.923 45.455 0.00 0.00 0.00 3.55
315 321 2.551071 GGGCTCCATATTGGTAGAGTGC 60.551 54.545 0.00 0.00 39.03 4.40
334 340 0.953960 CGAGCCTTGGTTTAGCCGTT 60.954 55.000 0.00 0.00 41.21 4.44
365 371 7.167468 GGTGTTTTAATGCACTGTTAGTTTCAG 59.833 37.037 0.00 0.00 38.68 3.02
429 436 7.504238 ACTTGAGTCCTATCTCTGAATTACGAT 59.496 37.037 0.00 0.00 35.68 3.73
635 643 7.067494 AGAGTAACAAGAAACAAAATCTGTGCT 59.933 33.333 0.00 0.00 38.67 4.40
640 648 3.319122 AGAAACAAAATCTGTGCTCCCAC 59.681 43.478 0.00 0.00 38.67 4.61
659 667 2.806244 CACACTTTACCTCCTTTGTCCG 59.194 50.000 0.00 0.00 0.00 4.79
757 774 0.038159 GTGTGAGTGAGGAAGGGACG 60.038 60.000 0.00 0.00 0.00 4.79
1339 1369 2.033602 GCGGTAACAGGGGCAAGT 59.966 61.111 0.00 0.00 0.00 3.16
1408 1443 0.038159 CAGGTGTCGTCTCTGTTCCC 60.038 60.000 0.00 0.00 0.00 3.97
1410 1445 0.391597 GGTGTCGTCTCTGTTCCCAA 59.608 55.000 0.00 0.00 0.00 4.12
1414 1449 1.067776 GTCGTCTCTGTTCCCAACGAT 60.068 52.381 0.00 0.00 43.32 3.73
1415 1450 2.163010 GTCGTCTCTGTTCCCAACGATA 59.837 50.000 0.00 0.00 43.32 2.92
1416 1451 3.021695 TCGTCTCTGTTCCCAACGATAT 58.978 45.455 0.00 0.00 37.43 1.63
1417 1452 4.036027 GTCGTCTCTGTTCCCAACGATATA 59.964 45.833 0.00 0.00 43.32 0.86
1418 1453 4.275196 TCGTCTCTGTTCCCAACGATATAG 59.725 45.833 0.00 0.00 37.43 1.31
1435 1470 7.415229 ACGATATAGTATATGCGTGTGTATGG 58.585 38.462 18.54 0.00 0.00 2.74
1446 1481 4.341520 TGCGTGTGTATGGTGTGGTATATA 59.658 41.667 0.00 0.00 0.00 0.86
1447 1482 5.011227 TGCGTGTGTATGGTGTGGTATATAT 59.989 40.000 0.00 0.00 0.00 0.86
1448 1483 5.575606 GCGTGTGTATGGTGTGGTATATATC 59.424 44.000 0.00 0.00 0.00 1.63
1449 1484 6.571731 GCGTGTGTATGGTGTGGTATATATCT 60.572 42.308 0.00 0.00 0.00 1.98
1450 1485 7.362315 GCGTGTGTATGGTGTGGTATATATCTA 60.362 40.741 0.00 0.00 0.00 1.98
1451 1486 8.182227 CGTGTGTATGGTGTGGTATATATCTAG 58.818 40.741 0.00 0.00 0.00 2.43
1452 1487 8.467598 GTGTGTATGGTGTGGTATATATCTAGG 58.532 40.741 0.00 0.00 0.00 3.02
1453 1488 8.174757 TGTGTATGGTGTGGTATATATCTAGGT 58.825 37.037 0.00 0.00 0.00 3.08
1454 1489 9.690913 GTGTATGGTGTGGTATATATCTAGGTA 57.309 37.037 0.00 0.00 0.00 3.08
1483 1518 5.697473 TCTAGCTGATCCTGTAAATCGAG 57.303 43.478 0.00 0.00 0.00 4.04
1491 1526 5.995282 TGATCCTGTAAATCGAGTTGTGTTT 59.005 36.000 8.63 0.00 0.00 2.83
1500 1535 2.607635 TCGAGTTGTGTTTGTTGCTCTC 59.392 45.455 0.00 0.00 0.00 3.20
1509 1544 2.050836 TTGTTGCTCTCTGCCGGGAA 62.051 55.000 2.18 0.00 42.00 3.97
1519 1554 1.306141 TGCCGGGAAGGATCTGAGT 60.306 57.895 2.18 0.00 45.00 3.41
1520 1555 1.330655 TGCCGGGAAGGATCTGAGTC 61.331 60.000 2.18 0.00 45.00 3.36
1521 1556 1.045911 GCCGGGAAGGATCTGAGTCT 61.046 60.000 2.18 0.00 45.00 3.24
1522 1557 0.749649 CCGGGAAGGATCTGAGTCTG 59.250 60.000 0.00 0.00 45.00 3.51
1523 1558 1.686428 CCGGGAAGGATCTGAGTCTGA 60.686 57.143 1.83 1.83 45.00 3.27
1524 1559 1.680735 CGGGAAGGATCTGAGTCTGAG 59.319 57.143 5.90 0.00 0.00 3.35
1534 1569 1.133982 CTGAGTCTGAGATCGGGTGTG 59.866 57.143 0.00 0.00 0.00 3.82
1554 1589 2.298629 CCTGCTGATCGATCGTGCG 61.299 63.158 26.69 22.16 33.57 5.34
1556 1591 2.956439 GCTGATCGATCGTGCGCA 60.956 61.111 21.56 5.66 0.00 6.09
1596 1632 8.561738 AAATGTAGGTCGATTTAAGTTGATGT 57.438 30.769 0.00 0.00 0.00 3.06
1614 1650 3.667497 TGTCAGGCAGAAGAACTACAG 57.333 47.619 0.00 0.00 0.00 2.74
1633 1669 1.287730 GGCAAGACTCACTCACAGCG 61.288 60.000 0.00 0.00 0.00 5.18
1644 1681 2.279851 CACAGCGGTCCGTGTGAA 60.280 61.111 28.32 0.00 45.84 3.18
1650 1687 1.503818 GCGGTCCGTGTGAATTGTGT 61.504 55.000 13.94 0.00 0.00 3.72
1662 1699 6.035843 GTGTGAATTGTGTTGTGAAGATTGT 58.964 36.000 0.00 0.00 0.00 2.71
1667 1704 4.898829 TGTGTTGTGAAGATTGTCCTTG 57.101 40.909 0.00 0.00 0.00 3.61
1679 1716 0.036164 TGTCCTTGTCCCATGAACCG 59.964 55.000 0.00 0.00 0.00 4.44
1680 1717 0.676782 GTCCTTGTCCCATGAACCGG 60.677 60.000 0.00 0.00 0.00 5.28
1686 1723 1.420514 TGTCCCATGAACCGGTTTACA 59.579 47.619 23.22 16.37 0.00 2.41
1692 1730 3.427503 CCATGAACCGGTTTACATTCTGC 60.428 47.826 23.22 5.56 0.00 4.26
1700 1738 2.156098 GTTTACATTCTGCAACGGGGA 58.844 47.619 0.00 0.00 0.00 4.81
1740 1786 0.743688 TGCAACGCATGAACCTTTGT 59.256 45.000 0.00 0.00 31.71 2.83
1742 1788 2.359214 TGCAACGCATGAACCTTTGTAA 59.641 40.909 0.00 0.00 31.71 2.41
1746 1792 4.911514 ACGCATGAACCTTTGTAAGTTT 57.088 36.364 0.00 0.00 0.00 2.66
1747 1793 4.606961 ACGCATGAACCTTTGTAAGTTTG 58.393 39.130 0.00 0.00 0.00 2.93
1748 1794 4.097286 ACGCATGAACCTTTGTAAGTTTGT 59.903 37.500 0.00 0.00 0.00 2.83
1749 1795 5.297278 ACGCATGAACCTTTGTAAGTTTGTA 59.703 36.000 0.00 0.00 0.00 2.41
1750 1796 5.623673 CGCATGAACCTTTGTAAGTTTGTAC 59.376 40.000 0.00 0.00 0.00 2.90
1758 1804 0.792031 GTAAGTTTGTACGCCGTGGG 59.208 55.000 0.00 0.00 0.00 4.61
1792 1841 1.821216 TCGTGAAATTCCTTGGCTCC 58.179 50.000 0.00 0.00 0.00 4.70
1795 1844 2.351738 CGTGAAATTCCTTGGCTCCAAC 60.352 50.000 0.00 0.00 0.00 3.77
1812 1861 3.882888 TCCAACAAAGAAGCTCGAAATGT 59.117 39.130 0.00 0.00 0.00 2.71
1822 1872 4.739046 AGCTCGAAATGTGTGAAAAGAG 57.261 40.909 0.00 0.00 0.00 2.85
1839 1889 1.076024 AGAGTGGCACCAATGGAATGT 59.924 47.619 15.27 0.00 0.00 2.71
1847 1897 3.319755 CACCAATGGAATGTTGTGCTTC 58.680 45.455 6.16 0.00 0.00 3.86
1859 1909 1.304254 TGTGCTTCGCAGTTTGCTTA 58.696 45.000 0.00 0.00 42.25 3.09
1899 1949 0.902984 TGGCCTAGGAGCGAGAAACA 60.903 55.000 14.75 0.00 0.00 2.83
1917 1967 0.518636 CAGTGTCCTGATTTGTGCGG 59.481 55.000 0.00 0.00 41.50 5.69
1919 1969 1.971167 TGTCCTGATTTGTGCGGCC 60.971 57.895 0.00 0.00 0.00 6.13
1920 1970 1.675641 GTCCTGATTTGTGCGGCCT 60.676 57.895 0.00 0.00 0.00 5.19
1924 1974 0.449388 CTGATTTGTGCGGCCTCTTC 59.551 55.000 0.00 0.00 0.00 2.87
1945 1998 3.760693 CCGTCAACTAGATGGTGGG 57.239 57.895 0.00 0.00 46.53 4.61
1976 2029 1.445942 CTCCACGACACCACACCTT 59.554 57.895 0.00 0.00 0.00 3.50
2004 2057 0.944311 TTTTCTCTCGAGGCGCACAC 60.944 55.000 13.56 0.00 0.00 3.82
2005 2058 3.610791 TTCTCTCGAGGCGCACACG 62.611 63.158 13.56 11.83 44.07 4.49
2015 2068 3.188786 CGCACACGCTCTTAGGCC 61.189 66.667 0.00 0.00 35.30 5.19
2016 2069 2.266055 GCACACGCTCTTAGGCCT 59.734 61.111 11.78 11.78 34.30 5.19
2017 2070 1.376037 GCACACGCTCTTAGGCCTT 60.376 57.895 12.58 0.00 34.30 4.35
2018 2071 1.639298 GCACACGCTCTTAGGCCTTG 61.639 60.000 12.58 3.04 34.30 3.61
2019 2072 0.320771 CACACGCTCTTAGGCCTTGT 60.321 55.000 12.58 3.87 0.00 3.16
2020 2073 1.067142 CACACGCTCTTAGGCCTTGTA 60.067 52.381 12.58 0.00 0.00 2.41
2021 2074 1.067071 ACACGCTCTTAGGCCTTGTAC 60.067 52.381 12.58 0.00 0.00 2.90
2022 2075 1.067142 CACGCTCTTAGGCCTTGTACA 60.067 52.381 12.58 0.00 0.00 2.90
2023 2076 1.621814 ACGCTCTTAGGCCTTGTACAA 59.378 47.619 12.58 8.28 0.00 2.41
2024 2077 2.038033 ACGCTCTTAGGCCTTGTACAAA 59.962 45.455 12.58 0.00 0.00 2.83
2025 2078 2.673368 CGCTCTTAGGCCTTGTACAAAG 59.327 50.000 12.58 7.59 0.00 2.77
2026 2079 3.010420 GCTCTTAGGCCTTGTACAAAGG 58.990 50.000 12.58 13.49 40.39 3.11
2027 2080 3.610911 CTCTTAGGCCTTGTACAAAGGG 58.389 50.000 12.58 14.91 37.88 3.95
2028 2081 3.253220 TCTTAGGCCTTGTACAAAGGGA 58.747 45.455 12.58 6.88 37.88 4.20
2029 2082 3.263425 TCTTAGGCCTTGTACAAAGGGAG 59.737 47.826 12.58 6.16 37.88 4.30
2030 2083 0.698818 AGGCCTTGTACAAAGGGAGG 59.301 55.000 16.08 11.34 37.88 4.30
2031 2084 0.404426 GGCCTTGTACAAAGGGAGGT 59.596 55.000 16.08 0.00 37.88 3.85
2032 2085 1.534729 GCCTTGTACAAAGGGAGGTG 58.465 55.000 16.08 0.00 37.88 4.00
2033 2086 1.534729 CCTTGTACAAAGGGAGGTGC 58.465 55.000 10.03 0.00 33.79 5.01
2034 2087 1.073923 CCTTGTACAAAGGGAGGTGCT 59.926 52.381 10.03 0.00 33.79 4.40
2035 2088 2.489073 CCTTGTACAAAGGGAGGTGCTT 60.489 50.000 10.03 0.00 33.79 3.91
2036 2089 2.561478 TGTACAAAGGGAGGTGCTTC 57.439 50.000 0.00 0.00 0.00 3.86
2037 2090 1.270625 TGTACAAAGGGAGGTGCTTCG 60.271 52.381 0.00 0.00 0.00 3.79
2038 2091 1.001633 GTACAAAGGGAGGTGCTTCGA 59.998 52.381 0.00 0.00 0.00 3.71
2039 2092 0.472471 ACAAAGGGAGGTGCTTCGAA 59.528 50.000 0.00 0.00 0.00 3.71
2040 2093 1.133915 ACAAAGGGAGGTGCTTCGAAA 60.134 47.619 0.00 0.00 0.00 3.46
2041 2094 1.953686 CAAAGGGAGGTGCTTCGAAAA 59.046 47.619 0.00 0.00 0.00 2.29
2042 2095 2.358322 AAGGGAGGTGCTTCGAAAAA 57.642 45.000 0.00 0.00 0.00 1.94
2043 2096 2.586648 AGGGAGGTGCTTCGAAAAAT 57.413 45.000 0.00 0.00 0.00 1.82
2044 2097 3.713826 AGGGAGGTGCTTCGAAAAATA 57.286 42.857 0.00 0.00 0.00 1.40
2045 2098 4.028993 AGGGAGGTGCTTCGAAAAATAA 57.971 40.909 0.00 0.00 0.00 1.40
2046 2099 4.403734 AGGGAGGTGCTTCGAAAAATAAA 58.596 39.130 0.00 0.00 0.00 1.40
2047 2100 4.217767 AGGGAGGTGCTTCGAAAAATAAAC 59.782 41.667 0.00 0.00 0.00 2.01
2048 2101 4.482386 GGAGGTGCTTCGAAAAATAAACC 58.518 43.478 0.00 1.25 0.00 3.27
2049 2102 4.155310 AGGTGCTTCGAAAAATAAACCG 57.845 40.909 0.00 0.00 0.00 4.44
2050 2103 3.816523 AGGTGCTTCGAAAAATAAACCGA 59.183 39.130 0.00 0.00 0.00 4.69
2051 2104 4.083484 AGGTGCTTCGAAAAATAAACCGAG 60.083 41.667 0.00 0.00 32.41 4.63
2052 2105 4.319984 GGTGCTTCGAAAAATAAACCGAGT 60.320 41.667 0.00 0.00 32.41 4.18
2053 2106 5.209977 GTGCTTCGAAAAATAAACCGAGTT 58.790 37.500 0.00 0.00 32.41 3.01
2054 2107 5.684184 GTGCTTCGAAAAATAAACCGAGTTT 59.316 36.000 0.00 7.11 39.24 2.66
2055 2108 6.197655 GTGCTTCGAAAAATAAACCGAGTTTT 59.802 34.615 0.00 0.00 37.01 2.43
2056 2109 6.752815 TGCTTCGAAAAATAAACCGAGTTTTT 59.247 30.769 0.00 0.00 37.01 1.94
2057 2110 7.043920 TGCTTCGAAAAATAAACCGAGTTTTTC 60.044 33.333 0.00 10.77 43.32 2.29
2058 2111 7.166970 GCTTCGAAAAATAAACCGAGTTTTTCT 59.833 33.333 15.97 0.00 43.99 2.52
2059 2112 7.901874 TCGAAAAATAAACCGAGTTTTTCTG 57.098 32.000 15.97 11.43 43.99 3.02
2060 2113 7.695820 TCGAAAAATAAACCGAGTTTTTCTGA 58.304 30.769 15.97 12.85 43.99 3.27
2061 2114 8.182881 TCGAAAAATAAACCGAGTTTTTCTGAA 58.817 29.630 15.97 0.00 43.99 3.02
2062 2115 8.469125 CGAAAAATAAACCGAGTTTTTCTGAAG 58.531 33.333 15.97 2.70 43.99 3.02
2063 2116 7.694388 AAAATAAACCGAGTTTTTCTGAAGC 57.306 32.000 7.22 0.00 37.01 3.86
2064 2117 6.385649 AATAAACCGAGTTTTTCTGAAGCA 57.614 33.333 7.22 0.00 37.01 3.91
2065 2118 3.971032 AACCGAGTTTTTCTGAAGCAG 57.029 42.857 0.00 0.00 0.00 4.24
2066 2119 1.604278 ACCGAGTTTTTCTGAAGCAGC 59.396 47.619 0.00 0.00 0.00 5.25
2067 2120 1.398960 CCGAGTTTTTCTGAAGCAGCG 60.399 52.381 0.00 0.00 0.00 5.18
2068 2121 1.526887 CGAGTTTTTCTGAAGCAGCGA 59.473 47.619 0.00 0.00 0.00 4.93
2069 2122 2.158449 CGAGTTTTTCTGAAGCAGCGAT 59.842 45.455 0.00 0.00 0.00 4.58
2070 2123 3.486584 GAGTTTTTCTGAAGCAGCGATG 58.513 45.455 0.00 0.00 0.00 3.84
2071 2124 1.981533 GTTTTTCTGAAGCAGCGATGC 59.018 47.619 19.88 19.88 0.00 3.91
2072 2125 0.523072 TTTTCTGAAGCAGCGATGCC 59.477 50.000 24.00 8.67 34.90 4.40
2073 2126 0.321919 TTTCTGAAGCAGCGATGCCT 60.322 50.000 24.00 10.01 34.90 4.75
2074 2127 0.536724 TTCTGAAGCAGCGATGCCTA 59.463 50.000 24.00 8.02 34.90 3.93
2075 2128 0.755079 TCTGAAGCAGCGATGCCTAT 59.245 50.000 24.00 9.21 34.90 2.57
2076 2129 1.139654 TCTGAAGCAGCGATGCCTATT 59.860 47.619 24.00 10.56 34.90 1.73
2077 2130 1.945394 CTGAAGCAGCGATGCCTATTT 59.055 47.619 24.00 10.14 34.90 1.40
2078 2131 1.942657 TGAAGCAGCGATGCCTATTTC 59.057 47.619 24.00 19.19 34.90 2.17
2079 2132 2.216898 GAAGCAGCGATGCCTATTTCT 58.783 47.619 24.00 0.00 34.90 2.52
2080 2133 3.181466 TGAAGCAGCGATGCCTATTTCTA 60.181 43.478 24.00 7.57 34.90 2.10
2081 2134 2.760374 AGCAGCGATGCCTATTTCTAC 58.240 47.619 24.00 0.00 34.90 2.59
2082 2135 2.103094 AGCAGCGATGCCTATTTCTACA 59.897 45.455 24.00 0.00 34.90 2.74
2083 2136 2.478134 GCAGCGATGCCTATTTCTACAG 59.522 50.000 16.30 0.00 0.00 2.74
2084 2137 3.062763 CAGCGATGCCTATTTCTACAGG 58.937 50.000 0.00 0.00 34.85 4.00
2085 2138 2.965831 AGCGATGCCTATTTCTACAGGA 59.034 45.455 0.00 0.00 33.42 3.86
2086 2139 3.006323 AGCGATGCCTATTTCTACAGGAG 59.994 47.826 0.00 0.00 33.42 3.69
2087 2140 3.005897 GCGATGCCTATTTCTACAGGAGA 59.994 47.826 0.00 0.00 33.42 3.71
2088 2141 4.804108 CGATGCCTATTTCTACAGGAGAG 58.196 47.826 0.00 0.00 34.93 3.20
2089 2142 4.520874 CGATGCCTATTTCTACAGGAGAGA 59.479 45.833 0.00 0.00 34.93 3.10
2090 2143 5.563867 CGATGCCTATTTCTACAGGAGAGAC 60.564 48.000 0.00 0.00 34.93 3.36
2091 2144 3.632604 TGCCTATTTCTACAGGAGAGACG 59.367 47.826 0.00 0.00 34.93 4.18
2092 2145 3.551250 GCCTATTTCTACAGGAGAGACGC 60.551 52.174 0.00 0.00 34.93 5.19
2093 2146 3.886505 CCTATTTCTACAGGAGAGACGCT 59.113 47.826 0.00 0.00 34.93 5.07
2094 2147 4.339814 CCTATTTCTACAGGAGAGACGCTT 59.660 45.833 0.00 0.00 34.93 4.68
2095 2148 5.531659 CCTATTTCTACAGGAGAGACGCTTA 59.468 44.000 0.00 0.00 34.93 3.09
2096 2149 4.966965 TTTCTACAGGAGAGACGCTTAG 57.033 45.455 0.00 0.00 34.93 2.18
2097 2150 3.630892 TCTACAGGAGAGACGCTTAGT 57.369 47.619 0.00 0.00 0.00 2.24
2098 2151 3.952931 TCTACAGGAGAGACGCTTAGTT 58.047 45.455 0.00 0.00 0.00 2.24
2099 2152 5.095145 TCTACAGGAGAGACGCTTAGTTA 57.905 43.478 0.00 0.00 0.00 2.24
2100 2153 5.494724 TCTACAGGAGAGACGCTTAGTTAA 58.505 41.667 0.00 0.00 0.00 2.01
2101 2154 4.705337 ACAGGAGAGACGCTTAGTTAAG 57.295 45.455 0.00 0.00 36.40 1.85
2102 2155 9.223557 TTCTACAGGAGAGACGCTTAGTTAAGC 62.224 44.444 12.72 12.72 44.08 3.09
2118 2171 9.817809 CTTAGTTAAGCATCTATCCTGTACAAA 57.182 33.333 0.00 0.00 0.00 2.83
2125 2178 8.438676 AGCATCTATCCTGTACAAATAAACAC 57.561 34.615 0.00 0.00 0.00 3.32
2126 2179 7.499232 AGCATCTATCCTGTACAAATAAACACC 59.501 37.037 0.00 0.00 0.00 4.16
2127 2180 7.518370 GCATCTATCCTGTACAAATAAACACCG 60.518 40.741 0.00 0.00 0.00 4.94
2128 2181 6.342906 TCTATCCTGTACAAATAAACACCGG 58.657 40.000 0.00 0.00 0.00 5.28
2129 2182 4.354893 TCCTGTACAAATAAACACCGGT 57.645 40.909 0.00 0.00 0.00 5.28
2130 2183 4.066490 TCCTGTACAAATAAACACCGGTG 58.934 43.478 32.83 32.83 0.00 4.94
2131 2184 3.365565 CCTGTACAAATAAACACCGGTGC 60.366 47.826 34.26 14.11 0.00 5.01
2132 2185 3.478509 TGTACAAATAAACACCGGTGCT 58.521 40.909 34.26 20.93 0.00 4.40
2133 2186 3.884091 TGTACAAATAAACACCGGTGCTT 59.116 39.130 34.26 29.48 0.00 3.91
2134 2187 5.061853 TGTACAAATAAACACCGGTGCTTA 58.938 37.500 34.26 30.62 0.00 3.09
2135 2188 4.759516 ACAAATAAACACCGGTGCTTAG 57.240 40.909 34.26 21.12 0.00 2.18
2136 2189 3.504520 ACAAATAAACACCGGTGCTTAGG 59.495 43.478 34.26 24.21 0.00 2.69
2137 2190 3.706600 AATAAACACCGGTGCTTAGGA 57.293 42.857 34.26 14.15 0.00 2.94
2138 2191 3.706600 ATAAACACCGGTGCTTAGGAA 57.293 42.857 34.26 13.77 0.00 3.36
2139 2192 2.351706 AAACACCGGTGCTTAGGAAA 57.648 45.000 34.26 0.00 0.00 3.13
2140 2193 1.892209 AACACCGGTGCTTAGGAAAG 58.108 50.000 34.26 7.12 35.68 2.62
2155 2208 7.089770 CTTAGGAAAGCCTGGTTTATTTCTC 57.910 40.000 0.00 0.00 46.45 2.87
2156 2209 5.262455 AGGAAAGCCTGGTTTATTTCTCT 57.738 39.130 0.00 0.41 44.90 3.10
2157 2210 6.388619 AGGAAAGCCTGGTTTATTTCTCTA 57.611 37.500 0.00 0.00 44.90 2.43
2158 2211 6.790319 AGGAAAGCCTGGTTTATTTCTCTAA 58.210 36.000 0.00 0.00 44.90 2.10
2159 2212 6.887002 AGGAAAGCCTGGTTTATTTCTCTAAG 59.113 38.462 0.00 0.00 44.90 2.18
2160 2213 6.404844 GGAAAGCCTGGTTTATTTCTCTAAGC 60.405 42.308 0.00 0.00 33.25 3.09
2161 2214 5.179452 AGCCTGGTTTATTTCTCTAAGCA 57.821 39.130 0.00 0.00 0.00 3.91
2162 2215 4.944317 AGCCTGGTTTATTTCTCTAAGCAC 59.056 41.667 0.00 0.00 0.00 4.40
2163 2216 4.096532 GCCTGGTTTATTTCTCTAAGCACC 59.903 45.833 0.00 0.00 0.00 5.01
2164 2217 5.501156 CCTGGTTTATTTCTCTAAGCACCT 58.499 41.667 0.00 0.00 0.00 4.00
2165 2218 5.946377 CCTGGTTTATTTCTCTAAGCACCTT 59.054 40.000 0.00 0.00 0.00 3.50
2166 2219 6.127897 CCTGGTTTATTTCTCTAAGCACCTTG 60.128 42.308 0.00 0.00 0.00 3.61
2167 2220 5.183140 TGGTTTATTTCTCTAAGCACCTTGC 59.817 40.000 0.00 0.00 45.46 4.01
2178 2231 2.178474 GCACCTTGCATCGTACAATG 57.822 50.000 0.00 0.00 44.26 2.82
2196 2301 5.772521 ACAATGCCTTAAAAAGCTACTGTG 58.227 37.500 0.00 0.00 0.00 3.66
2216 2321 6.605995 ACTGTGCTAGTACTATGGATACAACA 59.394 38.462 12.42 0.00 45.34 3.33
2254 2369 7.624549 AGTACCATCAATACAACTGATGTCTT 58.375 34.615 10.89 0.00 45.81 3.01
2257 2372 6.372659 ACCATCAATACAACTGATGTCTTGTC 59.627 38.462 13.23 0.00 45.81 3.18
2289 2404 1.066143 CGGGTGCTCTTGGAACATACT 60.066 52.381 0.00 0.00 39.30 2.12
2294 2409 3.623510 GTGCTCTTGGAACATACTAAGGC 59.376 47.826 0.00 0.00 39.30 4.35
2306 2421 0.179108 ACTAAGGCCATCTTCGACGC 60.179 55.000 5.01 0.00 36.93 5.19
2309 2424 1.888436 AAGGCCATCTTCGACGCTGA 61.888 55.000 5.01 0.00 0.00 4.26
2338 2453 4.098416 GTTTAGGCGCTTGAGCAATAAAG 58.902 43.478 7.64 0.00 42.21 1.85
2340 2455 1.094785 GGCGCTTGAGCAATAAAGGA 58.905 50.000 7.64 0.00 42.21 3.36
2345 2460 4.972440 GCGCTTGAGCAATAAAGGAAATAG 59.028 41.667 0.00 0.00 42.21 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 4.678509 TGTGATGCATTTAACGAAGGAC 57.321 40.909 0.00 0.00 0.00 3.85
38 39 1.165270 AAACAGCTGGCGTATGGTTC 58.835 50.000 19.93 0.00 0.00 3.62
46 47 2.173382 GCGTGTAAACAGCTGGCG 59.827 61.111 19.93 12.68 0.00 5.69
62 64 1.089920 ATCCAAAGTCGTGCATCTGC 58.910 50.000 0.00 0.00 42.50 4.26
153 158 4.584638 TGCATGGTACCTAAAGGACAAT 57.415 40.909 14.36 0.00 38.94 2.71
167 172 1.750399 GCAGGTCCGATTGCATGGT 60.750 57.895 0.00 0.00 40.02 3.55
175 180 0.392193 CTTCAGCAAGCAGGTCCGAT 60.392 55.000 0.00 0.00 0.00 4.18
205 210 4.946160 AACCTCCCTAACATTGGATGAA 57.054 40.909 0.00 0.00 0.00 2.57
315 321 0.953960 AACGGCTAAACCAAGGCTCG 60.954 55.000 0.00 0.00 39.79 5.03
334 340 5.528043 ACAGTGCATTAAAACACCATGAA 57.472 34.783 0.00 0.00 37.51 2.57
365 371 4.456911 TCAAGAGCTCATGAACAATCAACC 59.543 41.667 18.81 0.00 39.49 3.77
429 436 5.829391 GGAAAGGGTACACCAGTTTTAAGAA 59.171 40.000 0.00 0.00 43.89 2.52
439 446 2.158219 TCTCAGAGGAAAGGGTACACCA 60.158 50.000 0.00 0.00 43.89 4.17
512 520 3.030291 CCATGGGCCATAAAAAGTGCTA 58.970 45.455 20.73 0.00 0.00 3.49
525 533 1.683385 GAATCTTTGCTACCATGGGCC 59.317 52.381 18.09 0.00 0.00 5.80
629 637 1.072331 AGGTAAAGTGTGGGAGCACAG 59.928 52.381 0.00 0.00 41.52 3.66
635 643 2.781174 ACAAAGGAGGTAAAGTGTGGGA 59.219 45.455 0.00 0.00 0.00 4.37
640 648 2.038033 TCCGGACAAAGGAGGTAAAGTG 59.962 50.000 0.00 0.00 33.19 3.16
659 667 2.346766 TGGTGTGTATCATGGCATCC 57.653 50.000 0.00 0.00 0.00 3.51
757 774 1.078143 GCCACCCTCTCACATCCAC 60.078 63.158 0.00 0.00 0.00 4.02
1033 1051 1.277557 CTGGTACTGGAAGAAGCTGCT 59.722 52.381 0.00 0.00 37.43 4.24
1322 1352 1.022982 GTACTTGCCCCTGTTACCGC 61.023 60.000 0.00 0.00 0.00 5.68
1408 1443 8.734030 CATACACACGCATATACTATATCGTTG 58.266 37.037 9.19 11.48 0.00 4.10
1410 1445 7.066645 ACCATACACACGCATATACTATATCGT 59.933 37.037 7.30 7.30 0.00 3.73
1414 1449 7.309920 CACACCATACACACGCATATACTATA 58.690 38.462 0.00 0.00 0.00 1.31
1415 1450 6.156519 CACACCATACACACGCATATACTAT 58.843 40.000 0.00 0.00 0.00 2.12
1416 1451 5.508320 CCACACCATACACACGCATATACTA 60.508 44.000 0.00 0.00 0.00 1.82
1417 1452 4.368315 CACACCATACACACGCATATACT 58.632 43.478 0.00 0.00 0.00 2.12
1418 1453 3.493129 CCACACCATACACACGCATATAC 59.507 47.826 0.00 0.00 0.00 1.47
1466 1501 5.171476 ACACAACTCGATTTACAGGATCAG 58.829 41.667 0.00 0.00 0.00 2.90
1483 1518 2.454055 GCAGAGAGCAACAAACACAAC 58.546 47.619 0.00 0.00 44.79 3.32
1500 1535 1.333636 ACTCAGATCCTTCCCGGCAG 61.334 60.000 0.00 0.00 0.00 4.85
1509 1544 2.488891 CCCGATCTCAGACTCAGATCCT 60.489 54.545 10.43 0.00 42.34 3.24
1519 1554 3.298958 GGCACACCCGATCTCAGA 58.701 61.111 0.00 0.00 0.00 3.27
1534 1569 1.953138 CACGATCGATCAGCAGGGC 60.953 63.158 24.34 0.00 0.00 5.19
1596 1632 1.276421 GCCTGTAGTTCTTCTGCCTGA 59.724 52.381 0.00 0.00 0.00 3.86
1614 1650 1.287730 CGCTGTGAGTGAGTCTTGCC 61.288 60.000 0.00 0.00 0.00 4.52
1633 1669 1.673920 ACAACACAATTCACACGGACC 59.326 47.619 0.00 0.00 0.00 4.46
1644 1681 5.360714 ACAAGGACAATCTTCACAACACAAT 59.639 36.000 0.00 0.00 0.00 2.71
1650 1687 3.117701 TGGGACAAGGACAATCTTCACAA 60.118 43.478 0.00 0.00 31.92 3.33
1667 1704 2.188062 TGTAAACCGGTTCATGGGAC 57.812 50.000 22.53 12.07 0.00 4.46
1679 1716 1.201414 CCCCGTTGCAGAATGTAAACC 59.799 52.381 0.00 0.00 43.85 3.27
1680 1717 2.156098 TCCCCGTTGCAGAATGTAAAC 58.844 47.619 0.00 0.00 43.85 2.01
1686 1723 2.238646 TGTCTAATCCCCGTTGCAGAAT 59.761 45.455 0.00 0.00 0.00 2.40
1692 1730 3.555168 GCCTATCTGTCTAATCCCCGTTG 60.555 52.174 0.00 0.00 0.00 4.10
1700 1738 3.319405 CAGACGGTGCCTATCTGTCTAAT 59.681 47.826 7.02 0.00 45.95 1.73
1740 1786 0.678395 TCCCACGGCGTACAAACTTA 59.322 50.000 14.22 0.00 0.00 2.24
1742 1788 0.179051 TTTCCCACGGCGTACAAACT 60.179 50.000 14.22 0.00 0.00 2.66
1746 1792 2.356075 CGTTTCCCACGGCGTACA 60.356 61.111 14.22 0.00 45.89 2.90
1792 1841 4.438797 CACACATTTCGAGCTTCTTTGTTG 59.561 41.667 0.00 0.00 0.00 3.33
1795 1844 4.472691 TCACACATTTCGAGCTTCTTTG 57.527 40.909 0.00 0.00 0.00 2.77
1812 1861 2.136298 TTGGTGCCACTCTTTTCACA 57.864 45.000 0.00 0.00 0.00 3.58
1822 1872 1.344114 ACAACATTCCATTGGTGCCAC 59.656 47.619 1.86 0.00 37.86 5.01
1859 1909 2.262915 GCAGTAGAGCCGCAGTGT 59.737 61.111 0.00 0.00 0.00 3.55
1899 1949 1.237285 GCCGCACAAATCAGGACACT 61.237 55.000 0.00 0.00 0.00 3.55
1917 1967 0.246635 TAGTTGACGGCTGAAGAGGC 59.753 55.000 0.00 0.00 41.46 4.70
1919 1969 3.443037 CATCTAGTTGACGGCTGAAGAG 58.557 50.000 0.00 0.00 0.00 2.85
1920 1970 2.166459 CCATCTAGTTGACGGCTGAAGA 59.834 50.000 0.00 0.00 0.00 2.87
1924 1974 1.645034 CACCATCTAGTTGACGGCTG 58.355 55.000 2.20 0.00 29.64 4.85
1941 1991 2.046217 GGAAAGGAGACCGCCCAC 60.046 66.667 0.00 0.00 0.00 4.61
1945 1998 1.079057 GTGGAGGAAAGGAGACCGC 60.079 63.158 0.00 0.00 0.00 5.68
1976 2029 1.544691 CTCGAGAGAAAAGAACGGGGA 59.455 52.381 6.58 0.00 41.32 4.81
2004 2057 2.380084 TTGTACAAGGCCTAAGAGCG 57.620 50.000 5.16 0.00 0.00 5.03
2005 2058 3.010420 CCTTTGTACAAGGCCTAAGAGC 58.990 50.000 5.16 1.40 0.00 4.09
2006 2059 3.263425 TCCCTTTGTACAAGGCCTAAGAG 59.737 47.826 5.16 0.00 36.10 2.85
2007 2060 3.253220 TCCCTTTGTACAAGGCCTAAGA 58.747 45.455 5.16 4.63 36.10 2.10
2010 2063 1.913419 CCTCCCTTTGTACAAGGCCTA 59.087 52.381 5.16 0.00 36.10 3.93
2011 2064 0.698818 CCTCCCTTTGTACAAGGCCT 59.301 55.000 12.03 0.00 36.10 5.19
2012 2065 0.404426 ACCTCCCTTTGTACAAGGCC 59.596 55.000 12.03 0.00 36.10 5.19
2015 2068 2.568623 AGCACCTCCCTTTGTACAAG 57.431 50.000 8.56 3.50 0.00 3.16
2016 2069 2.808933 CGAAGCACCTCCCTTTGTACAA 60.809 50.000 3.59 3.59 0.00 2.41
2017 2070 1.270625 CGAAGCACCTCCCTTTGTACA 60.271 52.381 0.00 0.00 0.00 2.90
2018 2071 1.001633 TCGAAGCACCTCCCTTTGTAC 59.998 52.381 0.00 0.00 0.00 2.90
2019 2072 1.344065 TCGAAGCACCTCCCTTTGTA 58.656 50.000 0.00 0.00 0.00 2.41
2020 2073 0.472471 TTCGAAGCACCTCCCTTTGT 59.528 50.000 0.00 0.00 0.00 2.83
2021 2074 1.604604 TTTCGAAGCACCTCCCTTTG 58.395 50.000 0.00 0.00 0.00 2.77
2022 2075 2.358322 TTTTCGAAGCACCTCCCTTT 57.642 45.000 0.00 0.00 0.00 3.11
2023 2076 2.358322 TTTTTCGAAGCACCTCCCTT 57.642 45.000 0.00 0.00 0.00 3.95
2024 2077 2.586648 ATTTTTCGAAGCACCTCCCT 57.413 45.000 0.00 0.00 0.00 4.20
2025 2078 4.482386 GTTTATTTTTCGAAGCACCTCCC 58.518 43.478 0.00 0.00 0.00 4.30
2026 2079 4.482386 GGTTTATTTTTCGAAGCACCTCC 58.518 43.478 0.00 0.00 0.00 4.30
2027 2080 4.083696 TCGGTTTATTTTTCGAAGCACCTC 60.084 41.667 0.00 0.00 0.00 3.85
2028 2081 3.816523 TCGGTTTATTTTTCGAAGCACCT 59.183 39.130 0.00 0.00 0.00 4.00
2029 2082 4.149910 TCGGTTTATTTTTCGAAGCACC 57.850 40.909 0.00 0.00 0.00 5.01
2030 2083 4.779987 ACTCGGTTTATTTTTCGAAGCAC 58.220 39.130 0.00 0.00 0.00 4.40
2031 2084 5.427036 AACTCGGTTTATTTTTCGAAGCA 57.573 34.783 0.00 0.00 0.00 3.91
2032 2085 6.742999 AAAACTCGGTTTATTTTTCGAAGC 57.257 33.333 0.00 0.00 34.43 3.86
2037 2090 8.266682 GCTTCAGAAAAACTCGGTTTATTTTTC 58.733 33.333 11.59 11.59 45.95 2.29
2038 2091 7.762159 TGCTTCAGAAAAACTCGGTTTATTTTT 59.238 29.630 3.01 0.00 38.03 1.94
2039 2092 7.262048 TGCTTCAGAAAAACTCGGTTTATTTT 58.738 30.769 3.01 0.00 34.43 1.82
2040 2093 6.801575 TGCTTCAGAAAAACTCGGTTTATTT 58.198 32.000 3.01 0.00 34.43 1.40
2041 2094 6.385649 TGCTTCAGAAAAACTCGGTTTATT 57.614 33.333 3.01 1.51 34.43 1.40
2042 2095 5.562890 GCTGCTTCAGAAAAACTCGGTTTAT 60.563 40.000 0.00 0.00 31.96 1.40
2043 2096 4.261031 GCTGCTTCAGAAAAACTCGGTTTA 60.261 41.667 0.00 0.00 31.96 2.01
2044 2097 3.489229 GCTGCTTCAGAAAAACTCGGTTT 60.489 43.478 0.00 0.00 33.51 3.27
2045 2098 2.033424 GCTGCTTCAGAAAAACTCGGTT 59.967 45.455 0.00 0.00 32.44 4.44
2046 2099 1.604278 GCTGCTTCAGAAAAACTCGGT 59.396 47.619 0.00 0.00 32.44 4.69
2047 2100 1.398960 CGCTGCTTCAGAAAAACTCGG 60.399 52.381 0.00 0.00 32.44 4.63
2048 2101 1.526887 TCGCTGCTTCAGAAAAACTCG 59.473 47.619 0.00 0.00 32.44 4.18
2049 2102 3.486584 CATCGCTGCTTCAGAAAAACTC 58.513 45.455 0.00 0.00 32.44 3.01
2050 2103 2.351157 GCATCGCTGCTTCAGAAAAACT 60.351 45.455 3.51 0.00 45.32 2.66
2051 2104 1.981533 GCATCGCTGCTTCAGAAAAAC 59.018 47.619 3.51 0.00 45.32 2.43
2052 2105 2.336554 GCATCGCTGCTTCAGAAAAA 57.663 45.000 3.51 0.00 45.32 1.94
2063 2116 3.062763 CCTGTAGAAATAGGCATCGCTG 58.937 50.000 0.00 0.00 0.00 5.18
2064 2117 2.965831 TCCTGTAGAAATAGGCATCGCT 59.034 45.455 0.00 0.00 34.08 4.93
2065 2118 3.005897 TCTCCTGTAGAAATAGGCATCGC 59.994 47.826 0.00 0.00 34.08 4.58
2066 2119 4.520874 TCTCTCCTGTAGAAATAGGCATCG 59.479 45.833 0.00 0.00 34.08 3.84
2067 2120 5.563867 CGTCTCTCCTGTAGAAATAGGCATC 60.564 48.000 0.00 0.00 34.08 3.91
2068 2121 4.279671 CGTCTCTCCTGTAGAAATAGGCAT 59.720 45.833 0.00 0.00 34.08 4.40
2069 2122 3.632604 CGTCTCTCCTGTAGAAATAGGCA 59.367 47.826 0.00 0.00 34.08 4.75
2070 2123 3.551250 GCGTCTCTCCTGTAGAAATAGGC 60.551 52.174 0.00 0.00 34.08 3.93
2071 2124 3.886505 AGCGTCTCTCCTGTAGAAATAGG 59.113 47.826 0.00 0.00 35.36 2.57
2072 2125 5.508200 AAGCGTCTCTCCTGTAGAAATAG 57.492 43.478 0.00 0.00 32.46 1.73
2073 2126 6.120905 ACTAAGCGTCTCTCCTGTAGAAATA 58.879 40.000 0.00 0.00 32.46 1.40
2074 2127 4.951094 ACTAAGCGTCTCTCCTGTAGAAAT 59.049 41.667 0.00 0.00 32.46 2.17
2075 2128 4.333690 ACTAAGCGTCTCTCCTGTAGAAA 58.666 43.478 0.00 0.00 32.46 2.52
2076 2129 3.952931 ACTAAGCGTCTCTCCTGTAGAA 58.047 45.455 0.00 0.00 32.46 2.10
2077 2130 3.630892 ACTAAGCGTCTCTCCTGTAGA 57.369 47.619 0.00 0.00 0.00 2.59
2078 2131 5.812652 CTTAACTAAGCGTCTCTCCTGTAG 58.187 45.833 0.00 0.00 0.00 2.74
2079 2132 5.814764 CTTAACTAAGCGTCTCTCCTGTA 57.185 43.478 0.00 0.00 0.00 2.74
2080 2133 4.705337 CTTAACTAAGCGTCTCTCCTGT 57.295 45.455 0.00 0.00 0.00 4.00
2092 2145 9.817809 TTTGTACAGGATAGATGCTTAACTAAG 57.182 33.333 0.00 0.00 36.40 2.18
2099 2152 8.893727 GTGTTTATTTGTACAGGATAGATGCTT 58.106 33.333 0.00 0.00 0.00 3.91
2100 2153 7.499232 GGTGTTTATTTGTACAGGATAGATGCT 59.501 37.037 0.00 0.00 0.00 3.79
2101 2154 7.518370 CGGTGTTTATTTGTACAGGATAGATGC 60.518 40.741 0.00 0.00 0.00 3.91
2102 2155 7.042051 CCGGTGTTTATTTGTACAGGATAGATG 60.042 40.741 0.00 0.00 0.00 2.90
2103 2156 6.990349 CCGGTGTTTATTTGTACAGGATAGAT 59.010 38.462 0.00 0.00 0.00 1.98
2104 2157 6.070653 ACCGGTGTTTATTTGTACAGGATAGA 60.071 38.462 6.12 0.00 0.00 1.98
2105 2158 6.036735 CACCGGTGTTTATTTGTACAGGATAG 59.963 42.308 26.95 0.00 0.00 2.08
2106 2159 5.875910 CACCGGTGTTTATTTGTACAGGATA 59.124 40.000 26.95 0.00 0.00 2.59
2107 2160 4.698304 CACCGGTGTTTATTTGTACAGGAT 59.302 41.667 26.95 0.00 0.00 3.24
2108 2161 4.066490 CACCGGTGTTTATTTGTACAGGA 58.934 43.478 26.95 0.00 0.00 3.86
2109 2162 3.365565 GCACCGGTGTTTATTTGTACAGG 60.366 47.826 33.92 4.71 0.00 4.00
2110 2163 3.500680 AGCACCGGTGTTTATTTGTACAG 59.499 43.478 33.92 5.41 0.00 2.74
2111 2164 3.478509 AGCACCGGTGTTTATTTGTACA 58.521 40.909 33.92 0.00 0.00 2.90
2112 2165 4.492791 AAGCACCGGTGTTTATTTGTAC 57.507 40.909 32.15 13.53 32.21 2.90
2113 2166 4.696402 CCTAAGCACCGGTGTTTATTTGTA 59.304 41.667 34.77 19.63 36.07 2.41
2114 2167 3.504520 CCTAAGCACCGGTGTTTATTTGT 59.495 43.478 34.77 18.03 36.07 2.83
2115 2168 3.754323 TCCTAAGCACCGGTGTTTATTTG 59.246 43.478 34.77 26.58 36.07 2.32
2116 2169 4.023726 TCCTAAGCACCGGTGTTTATTT 57.976 40.909 34.77 22.87 36.07 1.40
2117 2170 3.706600 TCCTAAGCACCGGTGTTTATT 57.293 42.857 34.77 25.26 36.07 1.40
2118 2171 3.706600 TTCCTAAGCACCGGTGTTTAT 57.293 42.857 34.77 20.03 36.07 1.40
2119 2172 3.404899 CTTTCCTAAGCACCGGTGTTTA 58.595 45.455 33.17 33.17 35.63 2.01
2120 2173 2.227194 CTTTCCTAAGCACCGGTGTTT 58.773 47.619 34.40 34.40 37.72 2.83
2121 2174 1.892209 CTTTCCTAAGCACCGGTGTT 58.108 50.000 33.92 27.29 0.00 3.32
2122 2175 3.625745 CTTTCCTAAGCACCGGTGT 57.374 52.632 33.92 19.11 0.00 4.16
2131 2184 6.887002 AGAGAAATAAACCAGGCTTTCCTAAG 59.113 38.462 0.00 0.00 41.93 2.18
2132 2185 6.790319 AGAGAAATAAACCAGGCTTTCCTAA 58.210 36.000 0.00 0.00 41.93 2.69
2133 2186 6.388619 AGAGAAATAAACCAGGCTTTCCTA 57.611 37.500 0.00 0.00 41.93 2.94
2134 2187 5.262455 AGAGAAATAAACCAGGCTTTCCT 57.738 39.130 0.00 0.00 45.66 3.36
2135 2188 6.404844 GCTTAGAGAAATAAACCAGGCTTTCC 60.405 42.308 0.00 0.00 0.00 3.13
2136 2189 6.151144 TGCTTAGAGAAATAAACCAGGCTTTC 59.849 38.462 0.00 0.00 0.00 2.62
2137 2190 6.010219 TGCTTAGAGAAATAAACCAGGCTTT 58.990 36.000 0.00 0.00 0.00 3.51
2138 2191 5.416013 GTGCTTAGAGAAATAAACCAGGCTT 59.584 40.000 0.00 0.00 0.00 4.35
2139 2192 4.944317 GTGCTTAGAGAAATAAACCAGGCT 59.056 41.667 0.00 0.00 0.00 4.58
2140 2193 4.096532 GGTGCTTAGAGAAATAAACCAGGC 59.903 45.833 0.00 0.00 0.00 4.85
2141 2194 5.501156 AGGTGCTTAGAGAAATAAACCAGG 58.499 41.667 0.00 0.00 0.00 4.45
2142 2195 6.623767 GCAAGGTGCTTAGAGAAATAAACCAG 60.624 42.308 0.00 0.00 40.96 4.00
2143 2196 5.183140 GCAAGGTGCTTAGAGAAATAAACCA 59.817 40.000 0.00 0.00 40.96 3.67
2144 2197 5.183140 TGCAAGGTGCTTAGAGAAATAAACC 59.817 40.000 1.43 0.00 45.31 3.27
2145 2198 6.254281 TGCAAGGTGCTTAGAGAAATAAAC 57.746 37.500 1.43 0.00 45.31 2.01
2146 2199 6.183360 CGATGCAAGGTGCTTAGAGAAATAAA 60.183 38.462 0.00 0.00 45.31 1.40
2147 2200 5.294306 CGATGCAAGGTGCTTAGAGAAATAA 59.706 40.000 0.00 0.00 45.31 1.40
2148 2201 4.811024 CGATGCAAGGTGCTTAGAGAAATA 59.189 41.667 0.00 0.00 45.31 1.40
2149 2202 3.624861 CGATGCAAGGTGCTTAGAGAAAT 59.375 43.478 0.00 0.00 45.31 2.17
2150 2203 3.002791 CGATGCAAGGTGCTTAGAGAAA 58.997 45.455 0.00 0.00 45.31 2.52
2151 2204 2.028112 ACGATGCAAGGTGCTTAGAGAA 60.028 45.455 0.00 0.00 45.31 2.87
2152 2205 1.550524 ACGATGCAAGGTGCTTAGAGA 59.449 47.619 0.00 0.00 45.31 3.10
2153 2206 2.015736 ACGATGCAAGGTGCTTAGAG 57.984 50.000 0.00 0.00 45.31 2.43
2154 2207 2.232696 TGTACGATGCAAGGTGCTTAGA 59.767 45.455 9.34 0.00 45.31 2.10
2155 2208 2.616960 TGTACGATGCAAGGTGCTTAG 58.383 47.619 9.34 0.00 45.31 2.18
2156 2209 2.753055 TGTACGATGCAAGGTGCTTA 57.247 45.000 9.34 0.00 45.31 3.09
2157 2210 1.890876 TTGTACGATGCAAGGTGCTT 58.109 45.000 9.34 0.00 45.31 3.91
2158 2211 1.739466 CATTGTACGATGCAAGGTGCT 59.261 47.619 10.18 0.00 45.31 4.40
2159 2212 2.178474 CATTGTACGATGCAAGGTGC 57.822 50.000 10.18 0.00 45.29 5.01
2167 2220 5.640732 AGCTTTTTAAGGCATTGTACGATG 58.359 37.500 17.52 17.52 0.00 3.84
2168 2221 5.897377 AGCTTTTTAAGGCATTGTACGAT 57.103 34.783 0.00 0.00 0.00 3.73
2169 2222 5.935789 AGTAGCTTTTTAAGGCATTGTACGA 59.064 36.000 0.00 0.00 0.00 3.43
2170 2223 6.021596 CAGTAGCTTTTTAAGGCATTGTACG 58.978 40.000 0.00 0.00 0.00 3.67
2171 2224 6.801862 CACAGTAGCTTTTTAAGGCATTGTAC 59.198 38.462 0.00 0.00 0.00 2.90
2172 2225 6.569610 GCACAGTAGCTTTTTAAGGCATTGTA 60.570 38.462 0.00 0.00 0.00 2.41
2173 2226 5.772521 CACAGTAGCTTTTTAAGGCATTGT 58.227 37.500 0.00 0.00 0.00 2.71
2174 2227 4.622740 GCACAGTAGCTTTTTAAGGCATTG 59.377 41.667 0.00 0.00 0.00 2.82
2175 2228 4.524328 AGCACAGTAGCTTTTTAAGGCATT 59.476 37.500 0.00 0.00 43.70 3.56
2176 2229 4.082125 AGCACAGTAGCTTTTTAAGGCAT 58.918 39.130 0.00 0.00 43.70 4.40
2177 2230 3.486383 AGCACAGTAGCTTTTTAAGGCA 58.514 40.909 0.00 0.00 43.70 4.75
2178 2231 4.695928 ACTAGCACAGTAGCTTTTTAAGGC 59.304 41.667 0.00 0.00 43.70 4.35
2179 2232 7.097834 AGTACTAGCACAGTAGCTTTTTAAGG 58.902 38.462 0.00 0.00 43.70 2.69
2196 2301 6.501781 ACGTTGTTGTATCCATAGTACTAGC 58.498 40.000 8.85 0.00 0.00 3.42
2238 2353 4.627467 GCGAGACAAGACATCAGTTGTATT 59.373 41.667 0.00 0.00 40.33 1.89
2246 2361 0.318120 TGCAGCGAGACAAGACATCA 59.682 50.000 0.00 0.00 0.00 3.07
2254 2369 1.741401 CCCGAAATGCAGCGAGACA 60.741 57.895 7.83 0.00 0.00 3.41
2257 2372 2.787249 CACCCGAAATGCAGCGAG 59.213 61.111 7.83 0.00 0.00 5.03
2289 2404 0.179111 CAGCGTCGAAGATGGCCTTA 60.179 55.000 8.81 0.00 45.11 2.69
2294 2409 3.698382 GCTCAGCGTCGAAGATGG 58.302 61.111 16.33 8.46 45.11 3.51
2306 2421 1.421485 CGCCTAAACAAGCGCTCAG 59.579 57.895 12.06 9.66 46.50 3.35


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

AutoCloner maintained by Alex Coulton.