Multiple sequence alignment - TraesCS1B01G249900

Loading Multiple Alignment...

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 TraesCS1B01G249900 chr1B 100.000 2436 0 0 1 2436 442153352 442150917 0.000000e+00 4499.0
1 TraesCS1B01G249900 chr1B 97.872 564 12 0 1873 2436 60593145 60592582 0.000000e+00 976.0
2 TraesCS1B01G249900 chr1D 86.920 1789 127 47 1 1702 327998338 327996570 0.000000e+00 1908.0
3 TraesCS1B01G249900 chr1A 84.816 1844 152 60 1 1754 407130536 407128731 0.000000e+00 1736.0
4 TraesCS1B01G249900 chr1A 99.086 547 5 0 1890 2436 559618901 559618355 0.000000e+00 983.0
5 TraesCS1B01G249900 chr1A 99.086 547 5 0 1890 2436 590334973 590335519 0.000000e+00 983.0
6 TraesCS1B01G249900 chr4B 99.452 547 3 0 1890 2436 72899450 72898904 0.000000e+00 994.0
7 TraesCS1B01G249900 chr4B 98.909 550 6 0 1887 2436 211646160 211646709 0.000000e+00 983.0
8 TraesCS1B01G249900 chr7A 99.269 547 4 0 1890 2436 408560643 408560097 0.000000e+00 989.0
9 TraesCS1B01G249900 chr7A 99.088 548 5 0 1889 2436 511026675 511026128 0.000000e+00 985.0
10 TraesCS1B01G249900 chr7A 98.559 555 6 2 1883 2436 646948033 646948586 0.000000e+00 979.0
11 TraesCS1B01G249900 chr2B 99.269 547 4 0 1890 2436 52463814 52464360 0.000000e+00 989.0
12 TraesCS1B01G249900 chr2B 97.826 46 1 0 1850 1895 709783085 709783130 2.010000e-11 80.5
13 TraesCS1B01G249900 chr6A 93.151 73 5 0 1823 1895 13004290 13004362 9.210000e-20 108.0
14 TraesCS1B01G249900 chr6A 86.111 72 10 0 1824 1895 340041007 340040936 7.220000e-11 78.7
15 TraesCS1B01G249900 chr3A 93.151 73 5 0 1823 1895 281210551 281210479 9.210000e-20 108.0
16 TraesCS1B01G249900 chr7B 90.411 73 7 0 1823 1895 743748777 743748849 1.990000e-16 97.1
17 TraesCS1B01G249900 chr7B 86.111 72 10 0 1824 1895 710421157 710421228 7.220000e-11 78.7
18 TraesCS1B01G249900 chr5B 82.178 101 15 3 1793 1892 183700027 183700125 1.550000e-12 84.2
19 TraesCS1B01G249900 chr5B 80.412 97 16 3 32 126 693684508 693684413 1.210000e-08 71.3
20 TraesCS1B01G249900 chr2D 79.245 106 16 6 27 127 574355962 574356066 4.350000e-08 69.4


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 TraesCS1B01G249900 chr1B 442150917 442153352 2435 True 4499 4499 100.000 1 2436 1 chr1B.!!$R2 2435
1 TraesCS1B01G249900 chr1B 60592582 60593145 563 True 976 976 97.872 1873 2436 1 chr1B.!!$R1 563
2 TraesCS1B01G249900 chr1D 327996570 327998338 1768 True 1908 1908 86.920 1 1702 1 chr1D.!!$R1 1701
3 TraesCS1B01G249900 chr1A 407128731 407130536 1805 True 1736 1736 84.816 1 1754 1 chr1A.!!$R1 1753
4 TraesCS1B01G249900 chr1A 559618355 559618901 546 True 983 983 99.086 1890 2436 1 chr1A.!!$R2 546
5 TraesCS1B01G249900 chr1A 590334973 590335519 546 False 983 983 99.086 1890 2436 1 chr1A.!!$F1 546
6 TraesCS1B01G249900 chr4B 72898904 72899450 546 True 994 994 99.452 1890 2436 1 chr4B.!!$R1 546
7 TraesCS1B01G249900 chr4B 211646160 211646709 549 False 983 983 98.909 1887 2436 1 chr4B.!!$F1 549
8 TraesCS1B01G249900 chr7A 408560097 408560643 546 True 989 989 99.269 1890 2436 1 chr7A.!!$R1 546
9 TraesCS1B01G249900 chr7A 511026128 511026675 547 True 985 985 99.088 1889 2436 1 chr7A.!!$R2 547
10 TraesCS1B01G249900 chr7A 646948033 646948586 553 False 979 979 98.559 1883 2436 1 chr7A.!!$F1 553
11 TraesCS1B01G249900 chr2B 52463814 52464360 546 False 989 989 99.269 1890 2436 1 chr2B.!!$F1 546

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
128 130 0.179137 CGATGACAGCACGCCTTCTA 60.179 55.0 0.0 0.0 0.0 2.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1820 1950 0.309612 GCAAAACGTCGAACCCACAT 59.69 50.0 0.0 0.0 0.0 3.21 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
23 24 1.225855 AGCGACAAATGCTGTTTCGA 58.774 45.000 0.00 0.00 42.14 3.71
69 70 1.801771 AGACGACTTCTCGACTGTCTG 59.198 52.381 6.21 0.01 42.25 3.51
80 82 2.621526 TCGACTGTCTGCTACAACAAGA 59.378 45.455 6.21 0.00 37.74 3.02
102 104 3.068881 CTGGCTTCGGTGAGGGAA 58.931 61.111 0.00 0.00 0.00 3.97
109 111 4.452733 CGGTGAGGGAAGGGCGAC 62.453 72.222 0.00 0.00 0.00 5.19
112 114 2.363795 TGAGGGAAGGGCGACGAT 60.364 61.111 0.00 0.00 0.00 3.73
114 116 2.363795 AGGGAAGGGCGACGATGA 60.364 61.111 0.00 0.00 0.00 2.92
116 118 2.577059 GGAAGGGCGACGATGACA 59.423 61.111 0.00 0.00 0.00 3.58
128 130 0.179137 CGATGACAGCACGCCTTCTA 60.179 55.000 0.00 0.00 0.00 2.10
146 170 5.046591 CCTTCTACTTGTTGGTGGTCTATGA 60.047 44.000 0.00 0.00 0.00 2.15
147 171 5.661056 TCTACTTGTTGGTGGTCTATGAG 57.339 43.478 0.00 0.00 0.00 2.90
188 212 3.463944 ACTTCCTGTGTTCTTTGTACCG 58.536 45.455 0.00 0.00 0.00 4.02
190 214 3.102052 TCCTGTGTTCTTTGTACCGTC 57.898 47.619 0.00 0.00 0.00 4.79
191 215 2.431419 TCCTGTGTTCTTTGTACCGTCA 59.569 45.455 0.00 0.00 0.00 4.35
212 236 7.041848 CCGTCATAATGTTTGATGAATAGAGCA 60.042 37.037 0.00 0.00 33.96 4.26
253 287 2.725221 AAAAGCAAAATGGGTTGGCA 57.275 40.000 0.00 0.00 0.00 4.92
361 395 8.730680 CACACTTTGCAACTTTATTATCCTAGT 58.269 33.333 0.00 0.00 0.00 2.57
396 431 3.057033 ACATAGACCCACACTACACGAAC 60.057 47.826 0.00 0.00 0.00 3.95
397 432 1.405872 AGACCCACACTACACGAACA 58.594 50.000 0.00 0.00 0.00 3.18
398 433 1.758280 AGACCCACACTACACGAACAA 59.242 47.619 0.00 0.00 0.00 2.83
399 434 2.168936 AGACCCACACTACACGAACAAA 59.831 45.455 0.00 0.00 0.00 2.83
459 517 2.034305 ACGGTATAGCTGTAGCCTTTCG 59.966 50.000 13.26 2.69 43.38 3.46
553 611 4.912317 GGAACCTATTCTATTCCCTCCC 57.088 50.000 0.00 0.00 36.64 4.30
595 653 1.079612 TGCACACGCATCCTCTGAG 60.080 57.895 0.00 0.00 45.36 3.35
654 712 2.768492 CGCCCGGAGTACGTAGCTT 61.768 63.158 0.73 0.00 42.24 3.74
657 715 0.310232 CCCGGAGTACGTAGCTTAGC 59.690 60.000 0.73 0.00 42.24 3.09
658 716 1.307097 CCGGAGTACGTAGCTTAGCT 58.693 55.000 12.67 12.67 42.24 3.32
659 717 1.002684 CCGGAGTACGTAGCTTAGCTG 60.003 57.143 17.97 3.26 42.24 4.24
660 718 1.938577 CGGAGTACGTAGCTTAGCTGA 59.061 52.381 17.97 0.00 40.10 4.26
661 719 2.032722 CGGAGTACGTAGCTTAGCTGAG 60.033 54.545 17.97 12.63 40.10 3.35
662 720 2.287129 GGAGTACGTAGCTTAGCTGAGC 60.287 54.545 22.18 22.18 40.10 4.26
702 760 2.254459 CGACAAACAGGACTGATCGAG 58.746 52.381 6.29 0.00 31.98 4.04
811 872 5.450453 TGCTTTCGGAATTGGGGAATAATA 58.550 37.500 0.00 0.00 0.00 0.98
841 902 6.980397 AGCCGAAATGAATGAATTGGAAATAC 59.020 34.615 0.00 0.00 0.00 1.89
869 930 4.380531 ACTCACATGCGGGAAAGTATATG 58.619 43.478 0.00 0.00 0.00 1.78
922 986 4.319046 GCACATATATATACATGCCGCTGC 60.319 45.833 14.96 0.48 38.26 5.25
975 1045 2.159827 GCTCGAACGAACAAAGGATCAC 60.160 50.000 0.00 0.00 0.00 3.06
1069 1141 4.706476 TCAATCCCAAAACATCATCTCCAC 59.294 41.667 0.00 0.00 0.00 4.02
1082 1154 0.040692 TCTCCACGTCGAAGAACACG 60.041 55.000 5.05 0.00 39.69 4.49
1083 1155 1.606350 CTCCACGTCGAAGAACACGC 61.606 60.000 5.05 0.00 39.69 5.34
1084 1156 2.459904 CACGTCGAAGAACACGCG 59.540 61.111 3.53 3.53 39.69 6.01
1091 1163 1.954146 GAAGAACACGCGCCACTGA 60.954 57.895 5.73 0.00 0.00 3.41
1092 1164 1.291877 GAAGAACACGCGCCACTGAT 61.292 55.000 5.73 0.00 0.00 2.90
1125 1197 8.980481 TCAGTGAGTTGTACATGATCTATCTA 57.020 34.615 0.00 0.00 0.00 1.98
1126 1198 9.579932 TCAGTGAGTTGTACATGATCTATCTAT 57.420 33.333 0.00 0.00 0.00 1.98
1161 1237 9.122613 GCTCTAATTTTCTTTCACTTGATCAAC 57.877 33.333 3.38 0.00 0.00 3.18
1290 1378 4.166011 GAAGGATGGTGCGCGCAC 62.166 66.667 46.90 46.90 45.49 5.34
1314 1402 2.564458 GGCTAAAAACGCCCACCG 59.436 61.111 0.00 0.00 41.73 4.94
1443 1535 0.749091 TGCTGCGATTGAAGGGGATG 60.749 55.000 0.00 0.00 0.00 3.51
1474 1577 1.016627 CATGCCCACGGTTACAGATG 58.983 55.000 0.00 0.00 0.00 2.90
1506 1609 2.178521 CTGCGGCTCTACGTCGTT 59.821 61.111 1.78 0.00 44.09 3.85
1533 1636 9.706691 GGAGATCTTACATAATTAATTCGGTCA 57.293 33.333 3.39 0.00 0.00 4.02
1541 1644 4.558538 AATTAATTCGGTCATGCTCTGC 57.441 40.909 0.00 0.00 0.00 4.26
1545 1648 0.461548 TTCGGTCATGCTCTGCTAGG 59.538 55.000 0.00 0.00 0.00 3.02
1550 1653 2.616510 GGTCATGCTCTGCTAGGTGTTT 60.617 50.000 0.00 0.00 0.00 2.83
1567 1685 6.331061 AGGTGTTTTACGTCATGATCTAGTC 58.669 40.000 0.00 0.00 0.00 2.59
1569 1687 6.331061 GTGTTTTACGTCATGATCTAGTCCT 58.669 40.000 0.00 0.00 0.00 3.85
1572 1690 8.135529 TGTTTTACGTCATGATCTAGTCCTATG 58.864 37.037 0.00 0.00 0.00 2.23
1573 1691 7.818997 TTTACGTCATGATCTAGTCCTATGT 57.181 36.000 0.00 0.00 0.00 2.29
1574 1692 5.697473 ACGTCATGATCTAGTCCTATGTG 57.303 43.478 0.00 0.00 0.00 3.21
1575 1693 4.520874 ACGTCATGATCTAGTCCTATGTGG 59.479 45.833 0.00 0.00 37.10 4.17
1576 1694 4.520874 CGTCATGATCTAGTCCTATGTGGT 59.479 45.833 0.00 0.00 37.07 4.16
1577 1695 5.335269 CGTCATGATCTAGTCCTATGTGGTC 60.335 48.000 0.00 0.00 37.07 4.02
1578 1696 5.772672 GTCATGATCTAGTCCTATGTGGTCT 59.227 44.000 0.00 0.00 37.87 3.85
1579 1697 6.943146 GTCATGATCTAGTCCTATGTGGTCTA 59.057 42.308 0.00 0.00 35.81 2.59
1580 1698 6.943146 TCATGATCTAGTCCTATGTGGTCTAC 59.057 42.308 0.00 0.00 35.81 2.59
1581 1699 6.262056 TGATCTAGTCCTATGTGGTCTACA 57.738 41.667 0.00 0.00 44.87 2.74
1613 1731 1.486310 TCTTGCATCGTATCAAGGCCT 59.514 47.619 0.00 0.00 39.92 5.19
1623 1741 5.116180 TCGTATCAAGGCCTTGTATCTTTG 58.884 41.667 37.97 23.70 41.16 2.77
1624 1742 4.876107 CGTATCAAGGCCTTGTATCTTTGT 59.124 41.667 37.97 19.58 41.16 2.83
1627 1754 7.095607 CGTATCAAGGCCTTGTATCTTTGTATC 60.096 40.741 37.97 16.76 41.16 2.24
1631 1758 5.300752 AGGCCTTGTATCTTTGTATCATCG 58.699 41.667 0.00 0.00 0.00 3.84
1632 1759 5.070446 AGGCCTTGTATCTTTGTATCATCGA 59.930 40.000 0.00 0.00 0.00 3.59
1636 1763 8.345565 GCCTTGTATCTTTGTATCATCGAATTT 58.654 33.333 0.00 0.00 0.00 1.82
1702 1832 1.614903 TCCCAGCTTTTGATGTGCAAG 59.385 47.619 0.00 0.00 37.87 4.01
1703 1833 1.342174 CCCAGCTTTTGATGTGCAAGT 59.658 47.619 0.00 0.00 37.87 3.16
1704 1834 2.400399 CCAGCTTTTGATGTGCAAGTG 58.600 47.619 0.00 0.00 37.87 3.16
1706 1836 5.894015 CCAGCTTTTGATGTGCAAGTGCA 62.894 47.826 0.82 0.82 39.94 4.57
1734 1864 1.928868 ATGGCCATGCTTAATAGGGC 58.071 50.000 20.04 6.92 45.99 5.19
1735 1865 2.257353 GGCCATGCTTAATAGGGCG 58.743 57.895 0.00 0.00 45.52 6.13
1737 1867 1.614317 GGCCATGCTTAATAGGGCGAT 60.614 52.381 0.00 0.00 45.52 4.58
1744 1874 3.876914 TGCTTAATAGGGCGATGAACAAG 59.123 43.478 0.00 0.00 0.00 3.16
1751 1881 3.081804 AGGGCGATGAACAAGGTTTTAG 58.918 45.455 0.00 0.00 0.00 1.85
1754 1884 4.201920 GGGCGATGAACAAGGTTTTAGATC 60.202 45.833 0.00 0.00 0.00 2.75
1755 1885 4.636206 GGCGATGAACAAGGTTTTAGATCT 59.364 41.667 0.00 0.00 0.00 2.75
1756 1886 5.815740 GGCGATGAACAAGGTTTTAGATCTA 59.184 40.000 0.00 0.00 0.00 1.98
1757 1887 6.483640 GGCGATGAACAAGGTTTTAGATCTAT 59.516 38.462 2.58 0.00 0.00 1.98
1758 1888 7.012421 GGCGATGAACAAGGTTTTAGATCTATT 59.988 37.037 2.58 0.00 0.00 1.73
1759 1889 8.398665 GCGATGAACAAGGTTTTAGATCTATTT 58.601 33.333 2.58 0.00 0.00 1.40
1760 1890 9.708222 CGATGAACAAGGTTTTAGATCTATTTG 57.292 33.333 2.58 6.59 0.00 2.32
1763 1893 8.296713 TGAACAAGGTTTTAGATCTATTTGTGC 58.703 33.333 2.58 8.79 0.00 4.57
1764 1894 7.759489 ACAAGGTTTTAGATCTATTTGTGCA 57.241 32.000 2.58 0.00 0.00 4.57
1765 1895 8.177119 ACAAGGTTTTAGATCTATTTGTGCAA 57.823 30.769 2.58 0.00 0.00 4.08
1766 1896 8.806146 ACAAGGTTTTAGATCTATTTGTGCAAT 58.194 29.630 2.58 0.00 0.00 3.56
1767 1897 9.079833 CAAGGTTTTAGATCTATTTGTGCAATG 57.920 33.333 2.58 0.00 0.00 2.82
1768 1898 7.775120 AGGTTTTAGATCTATTTGTGCAATGG 58.225 34.615 2.58 0.00 0.00 3.16
1769 1899 7.397192 AGGTTTTAGATCTATTTGTGCAATGGT 59.603 33.333 2.58 0.00 0.00 3.55
1770 1900 7.702348 GGTTTTAGATCTATTTGTGCAATGGTC 59.298 37.037 2.58 0.00 0.00 4.02
1771 1901 6.942532 TTAGATCTATTTGTGCAATGGTCC 57.057 37.500 2.58 0.00 0.00 4.46
1772 1902 4.210331 AGATCTATTTGTGCAATGGTCCC 58.790 43.478 0.00 0.00 0.00 4.46
1773 1903 3.448093 TCTATTTGTGCAATGGTCCCA 57.552 42.857 0.00 0.00 0.00 4.37
1774 1904 3.355378 TCTATTTGTGCAATGGTCCCAG 58.645 45.455 0.00 0.00 0.00 4.45
1775 1905 0.609662 ATTTGTGCAATGGTCCCAGC 59.390 50.000 0.00 0.00 0.00 4.85
1776 1906 0.469705 TTTGTGCAATGGTCCCAGCT 60.470 50.000 0.00 0.00 0.00 4.24
1777 1907 0.469705 TTGTGCAATGGTCCCAGCTT 60.470 50.000 0.00 0.00 0.00 3.74
1778 1908 0.403655 TGTGCAATGGTCCCAGCTTA 59.596 50.000 0.00 0.00 0.00 3.09
1779 1909 1.202989 TGTGCAATGGTCCCAGCTTAA 60.203 47.619 0.00 0.00 0.00 1.85
1780 1910 2.102578 GTGCAATGGTCCCAGCTTAAT 58.897 47.619 0.00 0.00 0.00 1.40
1781 1911 3.287222 GTGCAATGGTCCCAGCTTAATA 58.713 45.455 0.00 0.00 0.00 0.98
1782 1912 3.316308 GTGCAATGGTCCCAGCTTAATAG 59.684 47.826 0.00 0.00 0.00 1.73
1783 1913 3.053693 TGCAATGGTCCCAGCTTAATAGT 60.054 43.478 0.00 0.00 0.00 2.12
1784 1914 3.565902 GCAATGGTCCCAGCTTAATAGTC 59.434 47.826 0.00 0.00 0.00 2.59
1785 1915 4.137543 CAATGGTCCCAGCTTAATAGTCC 58.862 47.826 0.00 0.00 0.00 3.85
1786 1916 2.124411 TGGTCCCAGCTTAATAGTCCC 58.876 52.381 0.00 0.00 0.00 4.46
1787 1917 2.124411 GGTCCCAGCTTAATAGTCCCA 58.876 52.381 0.00 0.00 0.00 4.37
1788 1918 2.104963 GGTCCCAGCTTAATAGTCCCAG 59.895 54.545 0.00 0.00 0.00 4.45
1789 1919 1.768870 TCCCAGCTTAATAGTCCCAGC 59.231 52.381 0.00 0.00 0.00 4.85
1790 1920 1.771255 CCCAGCTTAATAGTCCCAGCT 59.229 52.381 0.00 0.00 43.59 4.24
1791 1921 2.173569 CCCAGCTTAATAGTCCCAGCTT 59.826 50.000 0.00 0.00 40.75 3.74
1792 1922 3.372025 CCCAGCTTAATAGTCCCAGCTTT 60.372 47.826 0.00 0.00 40.75 3.51
1793 1923 4.273318 CCAGCTTAATAGTCCCAGCTTTT 58.727 43.478 0.00 0.00 40.75 2.27
1794 1924 4.096984 CCAGCTTAATAGTCCCAGCTTTTG 59.903 45.833 0.00 0.00 40.75 2.44
1795 1925 4.943705 CAGCTTAATAGTCCCAGCTTTTGA 59.056 41.667 0.00 0.00 40.75 2.69
1796 1926 4.944317 AGCTTAATAGTCCCAGCTTTTGAC 59.056 41.667 0.00 0.00 39.69 3.18
1797 1927 4.700213 GCTTAATAGTCCCAGCTTTTGACA 59.300 41.667 9.10 0.00 0.00 3.58
1798 1928 5.358160 GCTTAATAGTCCCAGCTTTTGACAT 59.642 40.000 9.10 0.37 0.00 3.06
1799 1929 6.127619 GCTTAATAGTCCCAGCTTTTGACATT 60.128 38.462 9.10 8.69 0.00 2.71
1800 1930 7.577616 GCTTAATAGTCCCAGCTTTTGACATTT 60.578 37.037 9.10 5.33 0.00 2.32
1801 1931 6.670695 AATAGTCCCAGCTTTTGACATTTT 57.329 33.333 9.10 0.00 0.00 1.82
1802 1932 6.670695 ATAGTCCCAGCTTTTGACATTTTT 57.329 33.333 9.10 0.00 0.00 1.94
1825 1955 8.939201 TTTTGTGGCATGTATAAAATATGTGG 57.061 30.769 0.00 0.00 0.00 4.17
1826 1956 6.647334 TGTGGCATGTATAAAATATGTGGG 57.353 37.500 0.00 0.00 0.00 4.61
1827 1957 6.132658 TGTGGCATGTATAAAATATGTGGGT 58.867 36.000 0.00 0.00 0.00 4.51
1828 1958 6.609212 TGTGGCATGTATAAAATATGTGGGTT 59.391 34.615 0.00 0.00 0.00 4.11
1829 1959 7.145323 GTGGCATGTATAAAATATGTGGGTTC 58.855 38.462 0.00 0.00 0.00 3.62
1830 1960 6.016693 TGGCATGTATAAAATATGTGGGTTCG 60.017 38.462 0.00 0.00 0.00 3.95
1831 1961 6.205853 GGCATGTATAAAATATGTGGGTTCGA 59.794 38.462 0.00 0.00 0.00 3.71
1832 1962 7.075741 GCATGTATAAAATATGTGGGTTCGAC 58.924 38.462 0.00 0.00 0.00 4.20
1833 1963 6.831727 TGTATAAAATATGTGGGTTCGACG 57.168 37.500 0.00 0.00 0.00 5.12
1834 1964 6.339730 TGTATAAAATATGTGGGTTCGACGT 58.660 36.000 0.00 0.00 0.00 4.34
1835 1965 6.817641 TGTATAAAATATGTGGGTTCGACGTT 59.182 34.615 0.00 0.00 0.00 3.99
1836 1966 6.746745 ATAAAATATGTGGGTTCGACGTTT 57.253 33.333 0.00 0.00 0.00 3.60
1837 1967 5.441709 AAAATATGTGGGTTCGACGTTTT 57.558 34.783 0.00 0.00 0.00 2.43
1838 1968 4.413495 AATATGTGGGTTCGACGTTTTG 57.587 40.909 0.00 0.00 0.00 2.44
1839 1969 0.309612 ATGTGGGTTCGACGTTTTGC 59.690 50.000 0.00 0.00 0.00 3.68
1840 1970 0.745128 TGTGGGTTCGACGTTTTGCT 60.745 50.000 0.00 0.00 0.00 3.91
1841 1971 1.219646 GTGGGTTCGACGTTTTGCTA 58.780 50.000 0.00 0.00 0.00 3.49
1842 1972 1.598601 GTGGGTTCGACGTTTTGCTAA 59.401 47.619 0.00 0.00 0.00 3.09
1843 1973 2.224784 GTGGGTTCGACGTTTTGCTAAT 59.775 45.455 0.00 0.00 0.00 1.73
1844 1974 2.224549 TGGGTTCGACGTTTTGCTAATG 59.775 45.455 0.00 0.00 0.00 1.90
1845 1975 2.224784 GGGTTCGACGTTTTGCTAATGT 59.775 45.455 0.00 0.00 0.00 2.71
1846 1976 3.304190 GGGTTCGACGTTTTGCTAATGTT 60.304 43.478 0.00 0.00 0.00 2.71
1847 1977 3.662186 GGTTCGACGTTTTGCTAATGTTG 59.338 43.478 0.00 5.75 0.00 3.33
1848 1978 4.276460 GTTCGACGTTTTGCTAATGTTGT 58.724 39.130 0.00 0.00 0.00 3.32
1849 1979 4.123276 TCGACGTTTTGCTAATGTTGTC 57.877 40.909 0.00 3.40 0.00 3.18
1850 1980 2.894000 CGACGTTTTGCTAATGTTGTCG 59.106 45.455 0.00 9.04 41.34 4.35
1851 1981 2.646250 ACGTTTTGCTAATGTTGTCGC 58.354 42.857 0.00 0.00 0.00 5.19
1852 1982 1.637086 CGTTTTGCTAATGTTGTCGCG 59.363 47.619 0.00 0.00 0.00 5.87
1853 1983 1.382088 GTTTTGCTAATGTTGTCGCGC 59.618 47.619 0.00 0.00 0.00 6.86
1854 1984 0.588737 TTTGCTAATGTTGTCGCGCA 59.411 45.000 8.75 0.00 0.00 6.09
1855 1985 0.801872 TTGCTAATGTTGTCGCGCAT 59.198 45.000 8.75 0.00 0.00 4.73
1856 1986 1.646189 TGCTAATGTTGTCGCGCATA 58.354 45.000 8.75 0.00 0.00 3.14
1857 1987 2.003301 TGCTAATGTTGTCGCGCATAA 58.997 42.857 8.75 0.00 0.00 1.90
1858 1988 2.030335 TGCTAATGTTGTCGCGCATAAG 59.970 45.455 8.75 0.00 0.00 1.73
1859 1989 2.030457 GCTAATGTTGTCGCGCATAAGT 59.970 45.455 8.75 0.00 0.00 2.24
1860 1990 3.485216 GCTAATGTTGTCGCGCATAAGTT 60.485 43.478 8.75 0.32 0.00 2.66
1861 1991 3.552604 AATGTTGTCGCGCATAAGTTT 57.447 38.095 8.75 0.00 0.00 2.66
1862 1992 2.308347 TGTTGTCGCGCATAAGTTTG 57.692 45.000 8.75 0.00 0.00 2.93
1863 1993 0.974836 GTTGTCGCGCATAAGTTTGC 59.025 50.000 8.75 1.37 39.29 3.68
1864 1994 0.871722 TTGTCGCGCATAAGTTTGCT 59.128 45.000 8.75 0.00 40.54 3.91
1865 1995 1.715993 TGTCGCGCATAAGTTTGCTA 58.284 45.000 8.75 0.00 40.54 3.49
1866 1996 1.658596 TGTCGCGCATAAGTTTGCTAG 59.341 47.619 8.75 0.00 40.54 3.42
1867 1997 1.924524 GTCGCGCATAAGTTTGCTAGA 59.075 47.619 8.75 0.00 40.54 2.43
1868 1998 2.034507 GTCGCGCATAAGTTTGCTAGAG 60.035 50.000 8.75 0.00 40.54 2.43
1869 1999 1.927174 CGCGCATAAGTTTGCTAGAGT 59.073 47.619 8.75 0.00 40.54 3.24
1870 2000 3.113322 CGCGCATAAGTTTGCTAGAGTA 58.887 45.455 8.75 0.00 40.54 2.59
1871 2001 3.180584 CGCGCATAAGTTTGCTAGAGTAG 59.819 47.826 8.75 0.00 40.54 2.57
1872 2002 3.491267 GCGCATAAGTTTGCTAGAGTAGG 59.509 47.826 0.30 0.00 40.54 3.18
1873 2003 4.683832 CGCATAAGTTTGCTAGAGTAGGT 58.316 43.478 0.00 0.00 40.54 3.08
1874 2004 4.504461 CGCATAAGTTTGCTAGAGTAGGTG 59.496 45.833 0.00 0.00 40.54 4.00
1875 2005 5.420409 GCATAAGTTTGCTAGAGTAGGTGT 58.580 41.667 0.00 0.00 39.57 4.16
1876 2006 5.292101 GCATAAGTTTGCTAGAGTAGGTGTG 59.708 44.000 0.00 0.00 39.57 3.82
1877 2007 3.963428 AGTTTGCTAGAGTAGGTGTGG 57.037 47.619 0.00 0.00 0.00 4.17
1878 2008 2.567615 AGTTTGCTAGAGTAGGTGTGGG 59.432 50.000 0.00 0.00 0.00 4.61
1879 2009 2.302157 GTTTGCTAGAGTAGGTGTGGGT 59.698 50.000 0.00 0.00 0.00 4.51
1880 2010 1.557099 TGCTAGAGTAGGTGTGGGTG 58.443 55.000 0.00 0.00 0.00 4.61
1881 2011 1.076513 TGCTAGAGTAGGTGTGGGTGA 59.923 52.381 0.00 0.00 0.00 4.02
1885 2015 2.902608 AGAGTAGGTGTGGGTGATGAA 58.097 47.619 0.00 0.00 0.00 2.57
1908 2038 8.318412 TGAACTATGTAAGACAATAGGCTTTGA 58.682 33.333 13.77 0.00 0.00 2.69
2396 2526 0.037975 GACGGTAGCCTGTTTCCGAA 60.038 55.000 9.37 0.00 44.86 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 0.806868 CAGGCACATCGAAACAGCAT 59.193 50.000 0.00 0.00 0.00 3.79
15 16 0.798776 GGACAGGCACATCGAAACAG 59.201 55.000 0.00 0.00 0.00 3.16
20 21 0.321564 CCAAAGGACAGGCACATCGA 60.322 55.000 0.00 0.00 0.00 3.59
21 22 1.308069 CCCAAAGGACAGGCACATCG 61.308 60.000 0.00 0.00 33.47 3.84
23 24 1.607467 GCCCAAAGGACAGGCACAT 60.607 57.895 0.00 0.00 46.34 3.21
69 70 2.229784 AGCCAGCAAATCTTGTTGTAGC 59.770 45.455 3.12 0.93 39.84 3.58
80 82 0.962356 CCTCACCGAAGCCAGCAAAT 60.962 55.000 0.00 0.00 0.00 2.32
102 104 3.381983 TGCTGTCATCGTCGCCCT 61.382 61.111 0.00 0.00 0.00 5.19
109 111 0.179137 TAGAAGGCGTGCTGTCATCG 60.179 55.000 0.00 0.00 0.00 3.84
112 114 0.679505 AAGTAGAAGGCGTGCTGTCA 59.320 50.000 0.00 0.00 0.00 3.58
114 116 0.393077 ACAAGTAGAAGGCGTGCTGT 59.607 50.000 0.00 0.00 0.00 4.40
116 118 1.512926 CAACAAGTAGAAGGCGTGCT 58.487 50.000 0.00 0.00 0.00 4.40
128 130 6.895756 TCTATACTCATAGACCACCAACAAGT 59.104 38.462 0.00 0.00 38.58 3.16
171 195 2.828877 TGACGGTACAAAGAACACAGG 58.171 47.619 0.00 0.00 0.00 4.00
172 196 6.147164 ACATTATGACGGTACAAAGAACACAG 59.853 38.462 0.00 0.00 0.00 3.66
173 197 5.992829 ACATTATGACGGTACAAAGAACACA 59.007 36.000 0.00 0.00 0.00 3.72
183 207 9.256477 TCTATTCATCAAACATTATGACGGTAC 57.744 33.333 0.00 0.00 31.99 3.34
188 212 9.049523 TCTGCTCTATTCATCAAACATTATGAC 57.950 33.333 0.00 0.00 31.99 3.06
190 214 9.880064 CTTCTGCTCTATTCATCAAACATTATG 57.120 33.333 0.00 0.00 0.00 1.90
191 215 9.624373 ACTTCTGCTCTATTCATCAAACATTAT 57.376 29.630 0.00 0.00 0.00 1.28
252 286 4.186926 CACAGTCCCATGTTGTCTATCTG 58.813 47.826 0.00 0.00 0.00 2.90
253 287 3.198635 CCACAGTCCCATGTTGTCTATCT 59.801 47.826 0.00 0.00 0.00 1.98
379 414 2.228138 TTGTTCGTGTAGTGTGGGTC 57.772 50.000 0.00 0.00 0.00 4.46
396 431 6.761731 TGTTTGCCTTTTAATGTCGATTTG 57.238 33.333 0.00 0.00 0.00 2.32
397 432 7.778470 TTTGTTTGCCTTTTAATGTCGATTT 57.222 28.000 0.00 0.00 0.00 2.17
398 433 7.148820 CGATTTGTTTGCCTTTTAATGTCGATT 60.149 33.333 0.00 0.00 0.00 3.34
399 434 6.307800 CGATTTGTTTGCCTTTTAATGTCGAT 59.692 34.615 0.00 0.00 0.00 3.59
459 517 1.008538 CACCTTTGTTCTGCCACGC 60.009 57.895 0.00 0.00 0.00 5.34
525 583 0.397535 TAGAATAGGTTCCCGGCCGT 60.398 55.000 26.12 6.67 34.81 5.68
638 696 0.310232 GCTAAGCTACGTACTCCGGG 59.690 60.000 0.00 0.00 42.24 5.73
654 712 0.179043 ACGGAGATCGAGCTCAGCTA 60.179 55.000 29.93 0.00 39.88 3.32
657 715 1.154814 TCGACGGAGATCGAGCTCAG 61.155 60.000 29.93 27.82 45.84 3.35
658 716 1.153429 TCGACGGAGATCGAGCTCA 60.153 57.895 29.93 8.28 45.84 4.26
659 717 3.720531 TCGACGGAGATCGAGCTC 58.279 61.111 22.26 22.26 45.84 4.09
667 725 2.357396 TCGGTTCGTCGACGGAGA 60.357 61.111 35.05 24.64 40.29 3.71
689 747 2.816204 ATCATGCTCGATCAGTCCTG 57.184 50.000 0.00 0.00 0.00 3.86
702 760 8.830201 ATTGACAAGTAAGAGATCTATCATGC 57.170 34.615 0.00 0.00 0.00 4.06
811 872 8.408043 TCCAATTCATTCATTTCGGCTTATAT 57.592 30.769 0.00 0.00 0.00 0.86
841 902 2.093306 TCCCGCATGTGAGTTACTTG 57.907 50.000 8.11 0.00 37.47 3.16
848 909 3.748048 CCATATACTTTCCCGCATGTGAG 59.252 47.826 8.11 0.00 0.00 3.51
869 930 1.903890 TGCCTCCCTCGATCGATCC 60.904 63.158 19.78 3.63 0.00 3.36
922 986 6.015095 TGCAACTATGTAGATAGATGGACAGG 60.015 42.308 13.54 0.00 36.12 4.00
1069 1141 4.117372 GGCGCGTGTTCTTCGACG 62.117 66.667 8.43 0.00 38.63 5.12
1082 1154 3.945179 CTGAAGAATTAATCAGTGGCGC 58.055 45.455 0.00 0.00 38.57 6.53
1091 1163 9.725019 TCATGTACAACTCACTGAAGAATTAAT 57.275 29.630 0.00 0.00 0.00 1.40
1092 1164 9.725019 ATCATGTACAACTCACTGAAGAATTAA 57.275 29.630 0.00 0.00 0.00 1.40
1128 1200 9.950496 AAGTGAAAGAAAATTAGAGCTGAGATA 57.050 29.630 0.00 0.00 0.00 1.98
1161 1237 1.301244 CGGGTAGCCTATGCAGCAG 60.301 63.158 9.73 0.00 41.13 4.24
1290 1378 1.516169 GCGTTTTTAGCCATGCCCG 60.516 57.895 0.00 0.00 0.00 6.13
1314 1402 9.444534 GAGACTGAAATGAAAGAAGAAGAAAAC 57.555 33.333 0.00 0.00 0.00 2.43
1316 1404 8.737168 TGAGACTGAAATGAAAGAAGAAGAAA 57.263 30.769 0.00 0.00 0.00 2.52
1319 1407 9.962783 AAAATGAGACTGAAATGAAAGAAGAAG 57.037 29.630 0.00 0.00 0.00 2.85
1346 1434 1.481056 AACGCCAGGGTGAGTAAGCT 61.481 55.000 5.77 0.00 0.00 3.74
1474 1577 2.105930 CAGCTAGAGCCTGCGGTC 59.894 66.667 0.00 0.00 43.38 4.79
1506 1609 9.706691 GACCGAATTAATTATGTAAGATCTCCA 57.293 33.333 0.00 0.00 0.00 3.86
1529 1632 0.539051 ACACCTAGCAGAGCATGACC 59.461 55.000 0.00 0.00 0.00 4.02
1533 1636 3.262420 CGTAAAACACCTAGCAGAGCAT 58.738 45.455 0.00 0.00 0.00 3.79
1541 1644 7.481642 ACTAGATCATGACGTAAAACACCTAG 58.518 38.462 0.00 0.00 0.00 3.02
1545 1648 6.331061 AGGACTAGATCATGACGTAAAACAC 58.669 40.000 0.00 0.00 0.00 3.32
1550 1653 6.206829 CCACATAGGACTAGATCATGACGTAA 59.793 42.308 0.00 0.00 41.22 3.18
1567 1685 3.179443 ACGCATTGTAGACCACATAGG 57.821 47.619 0.00 0.00 45.67 2.57
1577 1695 8.518209 ACGATGCAAGATATCTACGCATTGTAG 61.518 40.741 35.11 26.98 46.62 2.74
1578 1696 5.572896 CGATGCAAGATATCTACGCATTGTA 59.427 40.000 29.35 15.18 42.02 2.41
1579 1697 4.386954 CGATGCAAGATATCTACGCATTGT 59.613 41.667 29.35 17.27 42.02 2.71
1580 1698 4.386954 ACGATGCAAGATATCTACGCATTG 59.613 41.667 32.27 32.27 44.18 2.82
1581 1699 4.560128 ACGATGCAAGATATCTACGCATT 58.440 39.130 29.35 18.96 42.02 3.56
1645 1772 9.006839 CAAGACGACCATAGGTAGTATATGTTA 57.993 37.037 1.88 0.00 41.38 2.41
1646 1773 7.523380 GCAAGACGACCATAGGTAGTATATGTT 60.523 40.741 1.88 0.00 41.38 2.71
1706 1836 0.616371 AGCATGGCCATTGCACATTT 59.384 45.000 29.62 14.42 40.13 2.32
1707 1837 0.616371 AAGCATGGCCATTGCACATT 59.384 45.000 29.62 18.55 40.13 2.71
1708 1838 1.487300 TAAGCATGGCCATTGCACAT 58.513 45.000 29.62 21.08 40.13 3.21
1709 1839 1.264295 TTAAGCATGGCCATTGCACA 58.736 45.000 29.62 19.22 40.13 4.57
1710 1840 2.607631 ATTAAGCATGGCCATTGCAC 57.392 45.000 29.62 16.36 40.13 4.57
1711 1841 2.629137 CCTATTAAGCATGGCCATTGCA 59.371 45.455 29.62 16.99 40.13 4.08
1719 1849 3.057969 TCATCGCCCTATTAAGCATGG 57.942 47.619 0.00 0.00 0.00 3.66
1734 1864 9.708222 CAAATAGATCTAAAACCTTGTTCATCG 57.292 33.333 6.52 0.00 0.00 3.84
1737 1867 8.296713 GCACAAATAGATCTAAAACCTTGTTCA 58.703 33.333 6.52 0.00 0.00 3.18
1744 1874 7.547227 ACCATTGCACAAATAGATCTAAAACC 58.453 34.615 6.52 0.00 0.00 3.27
1751 1881 3.953612 TGGGACCATTGCACAAATAGATC 59.046 43.478 0.00 0.00 0.00 2.75
1754 1884 2.159198 GCTGGGACCATTGCACAAATAG 60.159 50.000 0.00 0.00 0.00 1.73
1755 1885 1.824230 GCTGGGACCATTGCACAAATA 59.176 47.619 0.00 0.00 0.00 1.40
1756 1886 0.609662 GCTGGGACCATTGCACAAAT 59.390 50.000 0.00 0.00 0.00 2.32
1757 1887 0.469705 AGCTGGGACCATTGCACAAA 60.470 50.000 5.53 0.00 0.00 2.83
1758 1888 0.469705 AAGCTGGGACCATTGCACAA 60.470 50.000 5.53 0.00 0.00 3.33
1759 1889 0.403655 TAAGCTGGGACCATTGCACA 59.596 50.000 5.53 0.00 0.00 4.57
1760 1890 1.544724 TTAAGCTGGGACCATTGCAC 58.455 50.000 5.53 0.00 0.00 4.57
1761 1891 2.530460 ATTAAGCTGGGACCATTGCA 57.470 45.000 5.53 0.00 0.00 4.08
1762 1892 3.555966 ACTATTAAGCTGGGACCATTGC 58.444 45.455 0.00 0.00 0.00 3.56
1763 1893 4.137543 GGACTATTAAGCTGGGACCATTG 58.862 47.826 0.00 0.00 0.00 2.82
1764 1894 3.138468 GGGACTATTAAGCTGGGACCATT 59.862 47.826 0.00 0.00 0.00 3.16
1765 1895 2.711547 GGGACTATTAAGCTGGGACCAT 59.288 50.000 0.00 0.00 0.00 3.55
1766 1896 2.124411 GGGACTATTAAGCTGGGACCA 58.876 52.381 0.00 0.00 0.00 4.02
1767 1897 2.104963 CTGGGACTATTAAGCTGGGACC 59.895 54.545 0.00 0.00 0.00 4.46
1768 1898 2.485657 GCTGGGACTATTAAGCTGGGAC 60.486 54.545 0.00 0.00 32.82 4.46
1769 1899 1.768870 GCTGGGACTATTAAGCTGGGA 59.231 52.381 0.00 0.00 32.82 4.37
1770 1900 1.771255 AGCTGGGACTATTAAGCTGGG 59.229 52.381 0.00 0.00 44.14 4.45
1771 1901 3.567478 AAGCTGGGACTATTAAGCTGG 57.433 47.619 0.00 0.00 45.04 4.85
1772 1902 4.943705 TCAAAAGCTGGGACTATTAAGCTG 59.056 41.667 0.00 0.00 45.04 4.24
1774 1904 4.700213 TGTCAAAAGCTGGGACTATTAAGC 59.300 41.667 12.24 0.00 35.86 3.09
1775 1905 7.396540 AATGTCAAAAGCTGGGACTATTAAG 57.603 36.000 12.24 0.00 32.84 1.85
1776 1906 7.775053 AAATGTCAAAAGCTGGGACTATTAA 57.225 32.000 12.24 0.00 32.84 1.40
1777 1907 7.775053 AAAATGTCAAAAGCTGGGACTATTA 57.225 32.000 12.24 0.00 32.84 0.98
1778 1908 6.670695 AAAATGTCAAAAGCTGGGACTATT 57.329 33.333 12.24 8.40 32.84 1.73
1779 1909 6.670695 AAAAATGTCAAAAGCTGGGACTAT 57.329 33.333 12.24 4.12 32.84 2.12
1799 1929 9.376075 CCACATATTTTATACATGCCACAAAAA 57.624 29.630 0.00 0.00 0.00 1.94
1800 1930 7.984050 CCCACATATTTTATACATGCCACAAAA 59.016 33.333 0.00 0.00 0.00 2.44
1801 1931 7.124901 ACCCACATATTTTATACATGCCACAAA 59.875 33.333 0.00 0.00 0.00 2.83
1802 1932 6.609212 ACCCACATATTTTATACATGCCACAA 59.391 34.615 0.00 0.00 0.00 3.33
1803 1933 6.132658 ACCCACATATTTTATACATGCCACA 58.867 36.000 0.00 0.00 0.00 4.17
1804 1934 6.648879 ACCCACATATTTTATACATGCCAC 57.351 37.500 0.00 0.00 0.00 5.01
1805 1935 6.016693 CGAACCCACATATTTTATACATGCCA 60.017 38.462 0.00 0.00 0.00 4.92
1806 1936 6.205853 TCGAACCCACATATTTTATACATGCC 59.794 38.462 0.00 0.00 0.00 4.40
1807 1937 7.075741 GTCGAACCCACATATTTTATACATGC 58.924 38.462 0.00 0.00 0.00 4.06
1808 1938 7.042321 ACGTCGAACCCACATATTTTATACATG 60.042 37.037 0.00 0.00 0.00 3.21
1809 1939 6.987992 ACGTCGAACCCACATATTTTATACAT 59.012 34.615 0.00 0.00 0.00 2.29
1810 1940 6.339730 ACGTCGAACCCACATATTTTATACA 58.660 36.000 0.00 0.00 0.00 2.29
1811 1941 6.833342 ACGTCGAACCCACATATTTTATAC 57.167 37.500 0.00 0.00 0.00 1.47
1812 1942 7.846644 AAACGTCGAACCCACATATTTTATA 57.153 32.000 0.00 0.00 0.00 0.98
1813 1943 6.746745 AAACGTCGAACCCACATATTTTAT 57.253 33.333 0.00 0.00 0.00 1.40
1814 1944 6.372185 CAAAACGTCGAACCCACATATTTTA 58.628 36.000 0.00 0.00 0.00 1.52
1815 1945 5.216648 CAAAACGTCGAACCCACATATTTT 58.783 37.500 0.00 0.00 0.00 1.82
1816 1946 4.789784 CAAAACGTCGAACCCACATATTT 58.210 39.130 0.00 0.00 0.00 1.40
1817 1947 3.365565 GCAAAACGTCGAACCCACATATT 60.366 43.478 0.00 0.00 0.00 1.28
1818 1948 2.160813 GCAAAACGTCGAACCCACATAT 59.839 45.455 0.00 0.00 0.00 1.78
1819 1949 1.532007 GCAAAACGTCGAACCCACATA 59.468 47.619 0.00 0.00 0.00 2.29
1820 1950 0.309612 GCAAAACGTCGAACCCACAT 59.690 50.000 0.00 0.00 0.00 3.21
1821 1951 0.745128 AGCAAAACGTCGAACCCACA 60.745 50.000 0.00 0.00 0.00 4.17
1822 1952 1.219646 TAGCAAAACGTCGAACCCAC 58.780 50.000 0.00 0.00 0.00 4.61
1823 1953 1.950828 TTAGCAAAACGTCGAACCCA 58.049 45.000 0.00 0.00 0.00 4.51
1824 1954 2.224784 ACATTAGCAAAACGTCGAACCC 59.775 45.455 0.00 0.00 0.00 4.11
1825 1955 3.531262 ACATTAGCAAAACGTCGAACC 57.469 42.857 0.00 0.00 0.00 3.62
1826 1956 4.276460 ACAACATTAGCAAAACGTCGAAC 58.724 39.130 0.00 0.00 0.00 3.95
1827 1957 4.520078 GACAACATTAGCAAAACGTCGAA 58.480 39.130 0.00 0.00 0.00 3.71
1828 1958 3.362207 CGACAACATTAGCAAAACGTCGA 60.362 43.478 0.00 0.00 45.73 4.20
1829 1959 2.894000 CGACAACATTAGCAAAACGTCG 59.106 45.455 0.00 0.00 38.99 5.12
1830 1960 2.650297 GCGACAACATTAGCAAAACGTC 59.350 45.455 0.00 0.00 0.00 4.34
1831 1961 2.646250 GCGACAACATTAGCAAAACGT 58.354 42.857 0.00 0.00 0.00 3.99
1832 1962 1.637086 CGCGACAACATTAGCAAAACG 59.363 47.619 0.00 0.00 0.00 3.60
1833 1963 1.382088 GCGCGACAACATTAGCAAAAC 59.618 47.619 12.10 0.00 0.00 2.43
1834 1964 1.002359 TGCGCGACAACATTAGCAAAA 60.002 42.857 12.10 0.00 0.00 2.44
1835 1965 0.588737 TGCGCGACAACATTAGCAAA 59.411 45.000 12.10 0.00 0.00 3.68
1836 1966 0.801872 ATGCGCGACAACATTAGCAA 59.198 45.000 12.10 0.00 38.15 3.91
1837 1967 1.646189 TATGCGCGACAACATTAGCA 58.354 45.000 12.10 0.00 39.02 3.49
1838 1968 2.030457 ACTTATGCGCGACAACATTAGC 59.970 45.455 12.10 0.00 0.00 3.09
1839 1969 3.925688 ACTTATGCGCGACAACATTAG 57.074 42.857 12.10 9.57 0.00 1.73
1840 1970 4.399112 CAAACTTATGCGCGACAACATTA 58.601 39.130 12.10 0.00 0.00 1.90
1841 1971 3.233578 CAAACTTATGCGCGACAACATT 58.766 40.909 12.10 0.00 0.00 2.71
1842 1972 2.850321 CAAACTTATGCGCGACAACAT 58.150 42.857 12.10 6.19 0.00 2.71
1843 1973 1.661743 GCAAACTTATGCGCGACAACA 60.662 47.619 12.10 0.00 36.45 3.33
1844 1974 0.974836 GCAAACTTATGCGCGACAAC 59.025 50.000 12.10 0.00 36.45 3.32
1845 1975 3.376347 GCAAACTTATGCGCGACAA 57.624 47.368 12.10 0.00 36.45 3.18
1852 1982 5.292101 CACACCTACTCTAGCAAACTTATGC 59.708 44.000 0.00 0.00 46.78 3.14
1853 1983 5.812642 CCACACCTACTCTAGCAAACTTATG 59.187 44.000 0.00 0.00 0.00 1.90
1854 1984 5.104900 CCCACACCTACTCTAGCAAACTTAT 60.105 44.000 0.00 0.00 0.00 1.73
1855 1985 4.222145 CCCACACCTACTCTAGCAAACTTA 59.778 45.833 0.00 0.00 0.00 2.24
1856 1986 3.008049 CCCACACCTACTCTAGCAAACTT 59.992 47.826 0.00 0.00 0.00 2.66
1857 1987 2.567615 CCCACACCTACTCTAGCAAACT 59.432 50.000 0.00 0.00 0.00 2.66
1858 1988 2.302157 ACCCACACCTACTCTAGCAAAC 59.698 50.000 0.00 0.00 0.00 2.93
1859 1989 2.301870 CACCCACACCTACTCTAGCAAA 59.698 50.000 0.00 0.00 0.00 3.68
1860 1990 1.899814 CACCCACACCTACTCTAGCAA 59.100 52.381 0.00 0.00 0.00 3.91
1861 1991 1.076513 TCACCCACACCTACTCTAGCA 59.923 52.381 0.00 0.00 0.00 3.49
1862 1992 1.848652 TCACCCACACCTACTCTAGC 58.151 55.000 0.00 0.00 0.00 3.42
1863 1993 3.632333 TCATCACCCACACCTACTCTAG 58.368 50.000 0.00 0.00 0.00 2.43
1864 1994 3.750501 TCATCACCCACACCTACTCTA 57.249 47.619 0.00 0.00 0.00 2.43
1865 1995 2.567615 GTTCATCACCCACACCTACTCT 59.432 50.000 0.00 0.00 0.00 3.24
1866 1996 2.567615 AGTTCATCACCCACACCTACTC 59.432 50.000 0.00 0.00 0.00 2.59
1867 1997 2.621070 AGTTCATCACCCACACCTACT 58.379 47.619 0.00 0.00 0.00 2.57
1868 1998 4.081087 ACATAGTTCATCACCCACACCTAC 60.081 45.833 0.00 0.00 0.00 3.18
1869 1999 4.101114 ACATAGTTCATCACCCACACCTA 58.899 43.478 0.00 0.00 0.00 3.08
1870 2000 2.912956 ACATAGTTCATCACCCACACCT 59.087 45.455 0.00 0.00 0.00 4.00
1871 2001 3.350219 ACATAGTTCATCACCCACACC 57.650 47.619 0.00 0.00 0.00 4.16
1872 2002 5.581085 GTCTTACATAGTTCATCACCCACAC 59.419 44.000 0.00 0.00 0.00 3.82
1873 2003 5.247337 TGTCTTACATAGTTCATCACCCACA 59.753 40.000 0.00 0.00 0.00 4.17
1874 2004 5.730550 TGTCTTACATAGTTCATCACCCAC 58.269 41.667 0.00 0.00 0.00 4.61
1875 2005 6.367374 TTGTCTTACATAGTTCATCACCCA 57.633 37.500 0.00 0.00 0.00 4.51
1876 2006 7.657761 CCTATTGTCTTACATAGTTCATCACCC 59.342 40.741 0.00 0.00 0.00 4.61
1877 2007 7.171678 GCCTATTGTCTTACATAGTTCATCACC 59.828 40.741 0.00 0.00 0.00 4.02
1878 2008 7.928706 AGCCTATTGTCTTACATAGTTCATCAC 59.071 37.037 0.00 0.00 0.00 3.06
1879 2009 8.023021 AGCCTATTGTCTTACATAGTTCATCA 57.977 34.615 0.00 0.00 0.00 3.07
1880 2010 8.894768 AAGCCTATTGTCTTACATAGTTCATC 57.105 34.615 0.00 0.00 0.00 2.92
1881 2011 9.113838 CAAAGCCTATTGTCTTACATAGTTCAT 57.886 33.333 0.00 0.00 0.00 2.57
1885 2015 7.275920 CCTCAAAGCCTATTGTCTTACATAGT 58.724 38.462 0.00 0.00 0.00 2.12
1908 2038 4.280019 GGTTGTGCCGGTTCCCCT 62.280 66.667 1.90 0.00 0.00 4.79
2380 2510 1.154197 GTGTTCGGAAACAGGCTACC 58.846 55.000 0.00 0.00 45.78 3.18
2396 2526 0.773644 AACCTGATTGCCTGGAGTGT 59.226 50.000 0.00 0.00 37.33 3.55


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

AutoCloner maintained by Alex Coulton.