Multiple sequence alignment - TraesCS5A01G386100

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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 TraesCS5A01G386100 chr5A 100.000 2585 0 0 1 2585 583688052 583685468 0.000000e+00 4774
1 TraesCS5A01G386100 chr5A 99.417 857 4 1 1 857 379237321 379238176 0.000000e+00 1554
2 TraesCS5A01G386100 chr5A 98.953 860 8 1 1 860 53464392 53463534 0.000000e+00 1537
3 TraesCS5A01G386100 chr5A 94.915 118 6 0 1679 1796 594645791 594645674 4.390000e-43 185
4 TraesCS5A01G386100 chr5A 95.652 46 2 0 1 46 671984228 671984273 9.920000e-10 75
5 TraesCS5A01G386100 chr3B 99.183 857 7 0 1 857 583084832 583083976 0.000000e+00 1544
6 TraesCS5A01G386100 chr1B 99.068 858 7 1 1 858 223147531 223146675 0.000000e+00 1539
7 TraesCS5A01G386100 chr2B 99.067 857 7 1 1 857 408299309 408300164 0.000000e+00 1537
8 TraesCS5A01G386100 chr2B 95.352 753 30 4 106 856 691269764 691270513 0.000000e+00 1192
9 TraesCS5A01G386100 chr2B 87.128 839 79 14 857 1669 597225515 597224680 0.000000e+00 924
10 TraesCS5A01G386100 chr6D 93.510 755 43 5 108 860 51335691 51334941 0.000000e+00 1118
11 TraesCS5A01G386100 chrUn 93.501 754 42 6 106 857 61007576 61008324 0.000000e+00 1114
12 TraesCS5A01G386100 chrUn 91.667 120 10 0 1677 1796 82538064 82538183 1.590000e-37 167
13 TraesCS5A01G386100 chr5D 92.432 740 41 4 886 1610 463635545 463634806 0.000000e+00 1042
14 TraesCS5A01G386100 chr5D 93.023 559 30 9 1813 2364 463634790 463634234 0.000000e+00 808
15 TraesCS5A01G386100 chr1D 93.211 707 39 8 106 810 18608154 18607455 0.000000e+00 1031
16 TraesCS5A01G386100 chr5B 89.676 833 45 14 875 1681 570380594 570379777 0.000000e+00 1024
17 TraesCS5A01G386100 chr5B 91.930 632 45 5 1809 2438 570379758 570379131 0.000000e+00 880
18 TraesCS5A01G386100 chr2D 87.366 839 77 11 857 1669 508093309 508092474 0.000000e+00 935
19 TraesCS5A01G386100 chr2A 87.089 790 68 18 908 1669 652594915 652594132 0.000000e+00 863
20 TraesCS5A01G386100 chr2A 91.057 123 10 1 1674 1796 634615430 634615551 5.720000e-37 165
21 TraesCS5A01G386100 chr2A 89.147 129 13 1 1677 1805 78848938 78848811 2.660000e-35 159
22 TraesCS5A01G386100 chr2A 89.831 59 5 1 800 858 520611489 520611432 9.920000e-10 75
23 TraesCS5A01G386100 chr6A 93.388 121 7 1 1675 1795 407693481 407693362 7.350000e-41 178
24 TraesCS5A01G386100 chr6A 91.736 121 9 1 1679 1799 117376355 117376236 1.590000e-37 167
25 TraesCS5A01G386100 chr4B 90.984 122 9 2 1675 1796 667341303 667341422 2.060000e-36 163
26 TraesCS5A01G386100 chr7B 88.148 135 13 3 1672 1805 352434576 352434708 9.580000e-35 158
27 TraesCS5A01G386100 chr7B 88.636 132 12 3 1675 1805 604493975 604493846 9.580000e-35 158
28 TraesCS5A01G386100 chr4D 92.523 107 8 0 1 107 490407377 490407483 1.240000e-33 154


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 TraesCS5A01G386100 chr5A 583685468 583688052 2584 True 4774 4774 100.0000 1 2585 1 chr5A.!!$R2 2584
1 TraesCS5A01G386100 chr5A 379237321 379238176 855 False 1554 1554 99.4170 1 857 1 chr5A.!!$F1 856
2 TraesCS5A01G386100 chr5A 53463534 53464392 858 True 1537 1537 98.9530 1 860 1 chr5A.!!$R1 859
3 TraesCS5A01G386100 chr3B 583083976 583084832 856 True 1544 1544 99.1830 1 857 1 chr3B.!!$R1 856
4 TraesCS5A01G386100 chr1B 223146675 223147531 856 True 1539 1539 99.0680 1 858 1 chr1B.!!$R1 857
5 TraesCS5A01G386100 chr2B 408299309 408300164 855 False 1537 1537 99.0670 1 857 1 chr2B.!!$F1 856
6 TraesCS5A01G386100 chr2B 691269764 691270513 749 False 1192 1192 95.3520 106 856 1 chr2B.!!$F2 750
7 TraesCS5A01G386100 chr2B 597224680 597225515 835 True 924 924 87.1280 857 1669 1 chr2B.!!$R1 812
8 TraesCS5A01G386100 chr6D 51334941 51335691 750 True 1118 1118 93.5100 108 860 1 chr6D.!!$R1 752
9 TraesCS5A01G386100 chrUn 61007576 61008324 748 False 1114 1114 93.5010 106 857 1 chrUn.!!$F1 751
10 TraesCS5A01G386100 chr5D 463634234 463635545 1311 True 925 1042 92.7275 886 2364 2 chr5D.!!$R1 1478
11 TraesCS5A01G386100 chr1D 18607455 18608154 699 True 1031 1031 93.2110 106 810 1 chr1D.!!$R1 704
12 TraesCS5A01G386100 chr5B 570379131 570380594 1463 True 952 1024 90.8030 875 2438 2 chr5B.!!$R1 1563
13 TraesCS5A01G386100 chr2D 508092474 508093309 835 True 935 935 87.3660 857 1669 1 chr2D.!!$R1 812
14 TraesCS5A01G386100 chr2A 652594132 652594915 783 True 863 863 87.0890 908 1669 1 chr2A.!!$R3 761

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
932 953 0.808755 TCAGCTACGCACTCATCGAA 59.191 50.0 0.0 0.0 0.0 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2452 2513 0.039035 AGTCTCTTGGAGCCGAGTCT 59.961 55.0 3.76 0.0 0.0 3.24 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
213 215 8.967218 CGTCTTCACAAATGAATGTAACAAAAT 58.033 29.630 0.00 0.00 43.92 1.82
741 748 4.080582 TGAGTGGAGAAGAAAAACAGGACA 60.081 41.667 0.00 0.00 0.00 4.02
864 871 6.128227 CGTCTCCAAACGTTTCCCATTAATTA 60.128 38.462 11.37 0.00 37.86 1.40
866 873 7.539710 GTCTCCAAACGTTTCCCATTAATTAAC 59.460 37.037 11.37 0.00 0.00 2.01
871 878 5.195185 ACGTTTCCCATTAATTAACCCGAT 58.805 37.500 0.00 0.00 0.00 4.18
877 884 3.756434 CCATTAATTAACCCGATGGCGAT 59.244 43.478 0.00 0.00 40.82 4.58
892 899 4.858200 GATCTGCTTGCACGCGCG 62.858 66.667 30.96 30.96 42.97 6.86
932 953 0.808755 TCAGCTACGCACTCATCGAA 59.191 50.000 0.00 0.00 0.00 3.71
945 966 6.467364 CGCACTCATCGAATGATACTACATAG 59.533 42.308 0.00 0.00 38.85 2.23
1523 1559 4.154347 GCTCAGCCCCGACTCCTG 62.154 72.222 0.00 0.00 0.00 3.86
1581 1617 2.682494 TGGAGCTACCGTGACCCC 60.682 66.667 0.00 0.00 42.61 4.95
1621 1667 2.867855 GCCTCCATGCCATGCCATG 61.868 63.158 9.68 9.68 41.71 3.66
1629 1675 2.203001 CCATGCCATGGCGTCGTA 60.203 61.111 28.95 12.70 44.70 3.43
1667 1713 4.979204 TGCCACAGCACTACGTAC 57.021 55.556 0.00 0.00 46.52 3.67
1668 1714 2.347630 TGCCACAGCACTACGTACT 58.652 52.632 0.00 0.00 46.52 2.73
1669 1715 1.536940 TGCCACAGCACTACGTACTA 58.463 50.000 0.00 0.00 46.52 1.82
1670 1716 1.471287 TGCCACAGCACTACGTACTAG 59.529 52.381 0.00 0.00 46.52 2.57
1674 1720 3.686241 CCACAGCACTACGTACTAGTACA 59.314 47.826 28.03 12.29 33.53 2.90
1678 1724 6.257411 CACAGCACTACGTACTAGTACATAGT 59.743 42.308 27.75 27.75 43.28 2.12
1679 1725 7.436376 CACAGCACTACGTACTAGTACATAGTA 59.564 40.741 30.85 22.43 41.39 1.82
1689 1735 6.783517 ACTAGTACATAGTACTCCCTCCAT 57.216 41.667 12.64 0.00 43.17 3.41
1690 1736 6.781943 ACTAGTACATAGTACTCCCTCCATC 58.218 44.000 12.64 0.00 43.17 3.51
1691 1737 5.000570 AGTACATAGTACTCCCTCCATCC 57.999 47.826 0.00 0.00 0.00 3.51
1692 1738 2.877866 ACATAGTACTCCCTCCATCCG 58.122 52.381 0.00 0.00 0.00 4.18
1693 1739 2.445905 ACATAGTACTCCCTCCATCCGA 59.554 50.000 0.00 0.00 0.00 4.55
1694 1740 3.117246 ACATAGTACTCCCTCCATCCGAA 60.117 47.826 0.00 0.00 0.00 4.30
1695 1741 2.544844 AGTACTCCCTCCATCCGAAA 57.455 50.000 0.00 0.00 0.00 3.46
1696 1742 2.829023 AGTACTCCCTCCATCCGAAAA 58.171 47.619 0.00 0.00 0.00 2.29
1697 1743 3.385115 AGTACTCCCTCCATCCGAAAAT 58.615 45.455 0.00 0.00 0.00 1.82
1698 1744 4.553678 AGTACTCCCTCCATCCGAAAATA 58.446 43.478 0.00 0.00 0.00 1.40
1699 1745 3.840124 ACTCCCTCCATCCGAAAATAC 57.160 47.619 0.00 0.00 0.00 1.89
1700 1746 3.385115 ACTCCCTCCATCCGAAAATACT 58.615 45.455 0.00 0.00 0.00 2.12
1701 1747 3.780850 ACTCCCTCCATCCGAAAATACTT 59.219 43.478 0.00 0.00 0.00 2.24
1702 1748 4.130118 CTCCCTCCATCCGAAAATACTTG 58.870 47.826 0.00 0.00 0.00 3.16
1703 1749 3.521937 TCCCTCCATCCGAAAATACTTGT 59.478 43.478 0.00 0.00 0.00 3.16
1704 1750 3.877508 CCCTCCATCCGAAAATACTTGTC 59.122 47.826 0.00 0.00 0.00 3.18
1705 1751 4.384208 CCCTCCATCCGAAAATACTTGTCT 60.384 45.833 0.00 0.00 0.00 3.41
1706 1752 5.186198 CCTCCATCCGAAAATACTTGTCTT 58.814 41.667 0.00 0.00 0.00 3.01
1707 1753 6.346096 CCTCCATCCGAAAATACTTGTCTTA 58.654 40.000 0.00 0.00 0.00 2.10
1708 1754 6.480320 CCTCCATCCGAAAATACTTGTCTTAG 59.520 42.308 0.00 0.00 0.00 2.18
1709 1755 7.177832 TCCATCCGAAAATACTTGTCTTAGA 57.822 36.000 0.00 0.00 0.00 2.10
1710 1756 7.617225 TCCATCCGAAAATACTTGTCTTAGAA 58.383 34.615 0.00 0.00 0.00 2.10
1711 1757 8.098286 TCCATCCGAAAATACTTGTCTTAGAAA 58.902 33.333 0.00 0.00 0.00 2.52
1712 1758 8.893727 CCATCCGAAAATACTTGTCTTAGAAAT 58.106 33.333 0.00 0.00 0.00 2.17
1713 1759 9.708222 CATCCGAAAATACTTGTCTTAGAAATG 57.292 33.333 0.00 0.00 0.00 2.32
1714 1760 9.667107 ATCCGAAAATACTTGTCTTAGAAATGA 57.333 29.630 0.00 0.00 0.00 2.57
1715 1761 9.667107 TCCGAAAATACTTGTCTTAGAAATGAT 57.333 29.630 0.00 0.00 0.00 2.45
1782 1828 9.456147 TTCATTTTTAAGGATGAGTATTTCCGA 57.544 29.630 0.00 0.00 37.10 4.55
1783 1829 9.456147 TCATTTTTAAGGATGAGTATTTCCGAA 57.544 29.630 0.00 0.00 37.10 4.30
1784 1830 9.503427 CATTTTTAAGGATGAGTATTTCCGAAC 57.497 33.333 0.00 0.00 37.10 3.95
1785 1831 6.897259 TTTAAGGATGAGTATTTCCGAACG 57.103 37.500 0.00 0.00 37.10 3.95
1786 1832 4.730949 AAGGATGAGTATTTCCGAACGA 57.269 40.909 0.00 0.00 37.10 3.85
1787 1833 4.730949 AGGATGAGTATTTCCGAACGAA 57.269 40.909 0.00 0.00 37.10 3.85
1788 1834 4.683832 AGGATGAGTATTTCCGAACGAAG 58.316 43.478 0.00 0.00 37.10 3.79
1789 1835 3.802685 GGATGAGTATTTCCGAACGAAGG 59.197 47.826 0.00 0.00 0.00 3.46
1790 1836 3.241067 TGAGTATTTCCGAACGAAGGG 57.759 47.619 0.00 0.00 0.00 3.95
1796 1842 1.619654 TTCCGAACGAAGGGAGTACA 58.380 50.000 0.00 0.00 33.01 2.90
1805 1851 5.263968 ACGAAGGGAGTACATACTGAATG 57.736 43.478 0.00 0.00 41.74 2.67
1828 1880 8.603242 ATGTGGAAATAACGATGATAGGTAAC 57.397 34.615 0.00 0.00 0.00 2.50
1920 1972 1.067821 CTGCGTGATCTCCTTCTACCC 59.932 57.143 0.00 0.00 0.00 3.69
1928 1980 2.866515 TCTCCTTCTACCCCTCTCTCT 58.133 52.381 0.00 0.00 0.00 3.10
1929 1981 2.781174 TCTCCTTCTACCCCTCTCTCTC 59.219 54.545 0.00 0.00 0.00 3.20
1930 1982 2.783510 CTCCTTCTACCCCTCTCTCTCT 59.216 54.545 0.00 0.00 0.00 3.10
1933 1985 3.181443 CCTTCTACCCCTCTCTCTCTCTC 60.181 56.522 0.00 0.00 0.00 3.20
1935 1987 3.314693 TCTACCCCTCTCTCTCTCTCTC 58.685 54.545 0.00 0.00 0.00 3.20
1943 1995 4.280677 CCTCTCTCTCTCTCTCTCTCTCTC 59.719 54.167 0.00 0.00 0.00 3.20
1945 1997 5.523588 TCTCTCTCTCTCTCTCTCTCTCTT 58.476 45.833 0.00 0.00 0.00 2.85
2053 2113 4.447138 TGAAAGCTACAAGGGGAAAAGA 57.553 40.909 0.00 0.00 0.00 2.52
2094 2154 2.962421 TGAAAAATCCGACCTTGGCTTT 59.038 40.909 0.00 0.00 0.00 3.51
2222 2282 8.413229 TGATTGTAACTATGATCTCAATCGACA 58.587 33.333 0.00 0.00 41.91 4.35
2223 2283 9.416794 GATTGTAACTATGATCTCAATCGACAT 57.583 33.333 0.00 0.00 34.34 3.06
2278 2339 1.872952 CCATTCTCTGACAACGCAACA 59.127 47.619 0.00 0.00 0.00 3.33
2379 2440 5.180117 AGTGCTTAGCTCACTGTTTGTATTG 59.820 40.000 5.60 0.00 42.63 1.90
2412 2473 6.049790 GGCAACAAAACCATAACCTACAAAA 58.950 36.000 0.00 0.00 0.00 2.44
2455 2516 4.830826 CTTGTAAAGGTGTTTGGGAGAC 57.169 45.455 0.00 0.00 41.27 3.36
2456 2517 4.461198 CTTGTAAAGGTGTTTGGGAGACT 58.539 43.478 0.00 0.00 41.27 3.24
2457 2518 4.081322 TGTAAAGGTGTTTGGGAGACTC 57.919 45.455 0.00 0.00 0.00 3.36
2458 2519 2.256117 AAAGGTGTTTGGGAGACTCG 57.744 50.000 0.00 0.00 0.00 4.18
2459 2520 0.396811 AAGGTGTTTGGGAGACTCGG 59.603 55.000 0.00 0.00 0.00 4.63
2460 2521 1.671379 GGTGTTTGGGAGACTCGGC 60.671 63.158 0.00 0.00 0.00 5.54
2461 2522 1.371558 GTGTTTGGGAGACTCGGCT 59.628 57.895 0.00 0.00 0.00 5.52
2462 2523 0.670854 GTGTTTGGGAGACTCGGCTC 60.671 60.000 0.00 0.00 0.00 4.70
2469 2530 2.875188 GAGACTCGGCTCCAAGAGA 58.125 57.895 0.00 0.00 37.87 3.10
2470 2531 0.454196 GAGACTCGGCTCCAAGAGAC 59.546 60.000 0.00 0.00 37.87 3.36
2471 2532 0.039035 AGACTCGGCTCCAAGAGACT 59.961 55.000 0.00 0.00 35.13 3.24
2472 2533 0.454196 GACTCGGCTCCAAGAGACTC 59.546 60.000 0.00 0.00 35.13 3.36
2473 2534 1.309499 ACTCGGCTCCAAGAGACTCG 61.309 60.000 0.00 0.00 35.13 4.18
2474 2535 2.202676 CGGCTCCAAGAGACTCGC 60.203 66.667 0.00 0.00 35.13 5.03
2475 2536 2.705821 CGGCTCCAAGAGACTCGCT 61.706 63.158 0.00 0.00 35.13 4.93
2476 2537 1.140804 GGCTCCAAGAGACTCGCTC 59.859 63.158 0.00 0.00 44.29 5.03
2485 2546 2.570442 GAGACTCGCTCGATTTCCTT 57.430 50.000 0.00 0.00 33.17 3.36
2486 2547 2.456010 GAGACTCGCTCGATTTCCTTC 58.544 52.381 0.00 0.00 33.17 3.46
2487 2548 1.819288 AGACTCGCTCGATTTCCTTCA 59.181 47.619 0.00 0.00 0.00 3.02
2488 2549 2.231478 AGACTCGCTCGATTTCCTTCAA 59.769 45.455 0.00 0.00 0.00 2.69
2489 2550 3.118956 AGACTCGCTCGATTTCCTTCAAT 60.119 43.478 0.00 0.00 0.00 2.57
2490 2551 3.600388 ACTCGCTCGATTTCCTTCAATT 58.400 40.909 0.00 0.00 0.00 2.32
2491 2552 4.003648 ACTCGCTCGATTTCCTTCAATTT 58.996 39.130 0.00 0.00 0.00 1.82
2492 2553 4.142816 ACTCGCTCGATTTCCTTCAATTTG 60.143 41.667 0.00 0.00 0.00 2.32
2493 2554 3.126858 TCGCTCGATTTCCTTCAATTTGG 59.873 43.478 0.00 0.00 0.00 3.28
2494 2555 3.182182 GCTCGATTTCCTTCAATTTGGC 58.818 45.455 0.00 0.00 0.00 4.52
2495 2556 3.774066 CTCGATTTCCTTCAATTTGGCC 58.226 45.455 0.00 0.00 0.00 5.36
2496 2557 2.495669 TCGATTTCCTTCAATTTGGCCC 59.504 45.455 0.00 0.00 0.00 5.80
2497 2558 2.735126 CGATTTCCTTCAATTTGGCCCG 60.735 50.000 0.00 0.00 0.00 6.13
2498 2559 1.710816 TTTCCTTCAATTTGGCCCGT 58.289 45.000 0.00 0.00 0.00 5.28
2499 2560 1.253100 TTCCTTCAATTTGGCCCGTC 58.747 50.000 0.00 0.00 0.00 4.79
2500 2561 0.958382 TCCTTCAATTTGGCCCGTCG 60.958 55.000 0.00 0.00 0.00 5.12
2501 2562 1.506262 CTTCAATTTGGCCCGTCGG 59.494 57.895 3.60 3.60 0.00 4.79
2502 2563 0.958382 CTTCAATTTGGCCCGTCGGA 60.958 55.000 14.39 0.00 0.00 4.55
2503 2564 0.322997 TTCAATTTGGCCCGTCGGAT 60.323 50.000 14.39 0.00 0.00 4.18
2504 2565 1.029408 TCAATTTGGCCCGTCGGATG 61.029 55.000 14.39 0.00 0.00 3.51
2505 2566 2.414785 AATTTGGCCCGTCGGATGC 61.415 57.895 14.39 8.55 0.00 3.91
2506 2567 2.837031 AATTTGGCCCGTCGGATGCT 62.837 55.000 14.39 0.00 0.00 3.79
2507 2568 4.776322 TTGGCCCGTCGGATGCTG 62.776 66.667 14.39 0.00 0.00 4.41
2511 2572 3.770040 CCCGTCGGATGCTGGTCA 61.770 66.667 14.39 0.00 0.00 4.02
2512 2573 2.264480 CCGTCGGATGCTGGTCAA 59.736 61.111 4.91 0.00 0.00 3.18
2513 2574 1.375396 CCGTCGGATGCTGGTCAAA 60.375 57.895 4.91 0.00 0.00 2.69
2514 2575 1.635663 CCGTCGGATGCTGGTCAAAC 61.636 60.000 4.91 0.00 0.00 2.93
2515 2576 1.787847 GTCGGATGCTGGTCAAACG 59.212 57.895 0.00 0.00 0.00 3.60
2516 2577 1.375396 TCGGATGCTGGTCAAACGG 60.375 57.895 0.00 0.00 0.00 4.44
2517 2578 2.398554 CGGATGCTGGTCAAACGGG 61.399 63.158 0.00 0.00 0.00 5.28
2518 2579 1.303317 GGATGCTGGTCAAACGGGT 60.303 57.895 0.00 0.00 0.00 5.28
2519 2580 1.305930 GGATGCTGGTCAAACGGGTC 61.306 60.000 0.00 0.00 0.00 4.46
2520 2581 1.635663 GATGCTGGTCAAACGGGTCG 61.636 60.000 0.00 0.00 0.00 4.79
2521 2582 2.280592 GCTGGTCAAACGGGTCGT 60.281 61.111 0.00 0.00 43.97 4.34
2532 2593 2.825861 ACGGGTCGTTTCTATGTTGT 57.174 45.000 0.00 0.00 36.35 3.32
2533 2594 3.116079 ACGGGTCGTTTCTATGTTGTT 57.884 42.857 0.00 0.00 36.35 2.83
2534 2595 3.469739 ACGGGTCGTTTCTATGTTGTTT 58.530 40.909 0.00 0.00 36.35 2.83
2535 2596 3.249080 ACGGGTCGTTTCTATGTTGTTTG 59.751 43.478 0.00 0.00 36.35 2.93
2536 2597 3.249080 CGGGTCGTTTCTATGTTGTTTGT 59.751 43.478 0.00 0.00 0.00 2.83
2537 2598 4.609783 CGGGTCGTTTCTATGTTGTTTGTC 60.610 45.833 0.00 0.00 0.00 3.18
2538 2599 4.451557 GGTCGTTTCTATGTTGTTTGTCG 58.548 43.478 0.00 0.00 0.00 4.35
2539 2600 4.025480 GGTCGTTTCTATGTTGTTTGTCGT 60.025 41.667 0.00 0.00 0.00 4.34
2540 2601 5.495502 GTCGTTTCTATGTTGTTTGTCGTT 58.504 37.500 0.00 0.00 0.00 3.85
2541 2602 5.391433 GTCGTTTCTATGTTGTTTGTCGTTG 59.609 40.000 0.00 0.00 0.00 4.10
2542 2603 4.668837 CGTTTCTATGTTGTTTGTCGTTGG 59.331 41.667 0.00 0.00 0.00 3.77
2543 2604 5.502706 CGTTTCTATGTTGTTTGTCGTTGGA 60.503 40.000 0.00 0.00 0.00 3.53
2544 2605 6.435428 GTTTCTATGTTGTTTGTCGTTGGAT 58.565 36.000 0.00 0.00 0.00 3.41
2545 2606 5.856126 TCTATGTTGTTTGTCGTTGGATC 57.144 39.130 0.00 0.00 0.00 3.36
2546 2607 3.536158 ATGTTGTTTGTCGTTGGATCG 57.464 42.857 0.00 0.00 0.00 3.69
2547 2608 1.003331 TGTTGTTTGTCGTTGGATCGC 60.003 47.619 0.00 0.00 0.00 4.58
2548 2609 0.589223 TTGTTTGTCGTTGGATCGCC 59.411 50.000 0.00 0.00 0.00 5.54
2549 2610 0.533085 TGTTTGTCGTTGGATCGCCA 60.533 50.000 0.00 0.00 44.17 5.69
2550 2611 0.110373 GTTTGTCGTTGGATCGCCAC 60.110 55.000 0.00 0.00 45.94 5.01
2551 2612 0.533085 TTTGTCGTTGGATCGCCACA 60.533 50.000 0.00 0.00 45.94 4.17
2552 2613 0.948623 TTGTCGTTGGATCGCCACAG 60.949 55.000 0.00 0.00 45.94 3.66
2553 2614 2.100631 GTCGTTGGATCGCCACAGG 61.101 63.158 0.00 0.00 45.94 4.00
2554 2615 2.819595 CGTTGGATCGCCACAGGG 60.820 66.667 0.00 0.00 45.94 4.45
2555 2616 2.351276 GTTGGATCGCCACAGGGT 59.649 61.111 0.00 0.00 45.94 4.34
2556 2617 1.303317 GTTGGATCGCCACAGGGTT 60.303 57.895 0.00 0.00 45.94 4.11
2557 2618 1.303236 TTGGATCGCCACAGGGTTG 60.303 57.895 0.00 0.00 45.94 3.77
2558 2619 2.063015 TTGGATCGCCACAGGGTTGT 62.063 55.000 0.00 0.00 45.94 3.32
2559 2620 1.745489 GGATCGCCACAGGGTTGTC 60.745 63.158 0.00 0.00 34.62 3.18
2560 2621 2.047274 ATCGCCACAGGGTTGTCG 60.047 61.111 0.00 0.00 34.62 4.35
2561 2622 4.980805 TCGCCACAGGGTTGTCGC 62.981 66.667 0.00 0.00 37.97 5.19
2564 2625 4.619227 CCACAGGGTTGTCGCGGT 62.619 66.667 6.13 0.00 34.62 5.68
2565 2626 2.590575 CACAGGGTTGTCGCGGTT 60.591 61.111 6.13 0.00 34.62 4.44
2566 2627 2.590575 ACAGGGTTGTCGCGGTTG 60.591 61.111 6.13 0.00 32.04 3.77
2567 2628 2.280524 CAGGGTTGTCGCGGTTGA 60.281 61.111 6.13 0.00 0.00 3.18
2568 2629 1.671054 CAGGGTTGTCGCGGTTGAT 60.671 57.895 6.13 0.00 0.00 2.57
2569 2630 1.072505 AGGGTTGTCGCGGTTGATT 59.927 52.632 6.13 0.00 0.00 2.57
2570 2631 0.536460 AGGGTTGTCGCGGTTGATTT 60.536 50.000 6.13 0.00 0.00 2.17
2571 2632 0.312729 GGGTTGTCGCGGTTGATTTT 59.687 50.000 6.13 0.00 0.00 1.82
2572 2633 1.404477 GGTTGTCGCGGTTGATTTTG 58.596 50.000 6.13 0.00 0.00 2.44
2573 2634 1.002251 GGTTGTCGCGGTTGATTTTGA 60.002 47.619 6.13 0.00 0.00 2.69
2574 2635 2.041244 GTTGTCGCGGTTGATTTTGAC 58.959 47.619 6.13 0.00 0.00 3.18
2575 2636 0.589223 TGTCGCGGTTGATTTTGACC 59.411 50.000 6.13 0.00 0.00 4.02
2576 2637 0.872388 GTCGCGGTTGATTTTGACCT 59.128 50.000 6.13 0.00 33.69 3.85
2577 2638 1.136057 GTCGCGGTTGATTTTGACCTC 60.136 52.381 6.13 0.00 33.69 3.85
2578 2639 0.179225 CGCGGTTGATTTTGACCTCG 60.179 55.000 0.00 0.00 37.73 4.63
2579 2640 0.454452 GCGGTTGATTTTGACCTCGC 60.454 55.000 0.00 0.00 33.69 5.03
2580 2641 0.179225 CGGTTGATTTTGACCTCGCG 60.179 55.000 0.00 0.00 33.69 5.87
2581 2642 0.168128 GGTTGATTTTGACCTCGCGG 59.832 55.000 6.13 0.00 33.08 6.46
2583 2644 2.070783 GTTGATTTTGACCTCGCGGTA 58.929 47.619 6.13 0.00 45.73 4.02
2584 2645 2.459060 TGATTTTGACCTCGCGGTAA 57.541 45.000 6.13 0.00 45.73 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
213 215 3.603158 TTTGCTACTACCAGCGATGAA 57.397 42.857 0.06 0.00 44.88 2.57
741 748 3.590574 GGGGCCACCACTTCCCTT 61.591 66.667 4.39 0.00 39.95 3.95
864 871 2.203070 GCAGATCGCCATCGGGTT 60.203 61.111 0.00 0.00 36.17 4.11
866 873 2.109799 AAGCAGATCGCCATCGGG 59.890 61.111 6.02 0.00 44.04 5.14
871 878 3.120385 CGTGCAAGCAGATCGCCA 61.120 61.111 0.00 0.00 44.04 5.69
892 899 1.598130 GTGGTGACTGTGGGAGTGC 60.598 63.158 0.00 0.00 33.83 4.40
945 966 4.331168 CACTGCACTTCACTTATTAGAGCC 59.669 45.833 0.00 0.00 0.00 4.70
1044 1077 1.664321 CCGAGACCCACTTCCCGTAG 61.664 65.000 0.00 0.00 0.00 3.51
1275 1308 4.794439 CTGGTGCGATCGTGCCGA 62.794 66.667 17.81 8.91 41.13 5.54
1327 1360 2.908940 ACCCAACTGCTGCTGCAC 60.909 61.111 14.93 0.00 45.31 4.57
1414 1450 3.444034 TCGTCCAGGAAGTACTGATTGAG 59.556 47.826 0.00 0.00 40.97 3.02
1617 1663 1.002033 GGTAGTAGTACGACGCCATGG 60.002 57.143 7.63 7.63 0.00 3.66
1619 1665 0.940126 CGGTAGTAGTACGACGCCAT 59.060 55.000 17.51 0.00 0.00 4.40
1621 1667 1.010685 GCGGTAGTAGTACGACGCC 60.011 63.158 20.85 10.91 35.18 5.68
1625 1671 3.005898 CGCGCGGTAGTAGTACGA 58.994 61.111 24.84 0.00 0.00 3.43
1627 1673 0.383614 GTAGCGCGCGGTAGTAGTAC 60.384 60.000 38.48 25.84 0.00 2.73
1629 1675 0.530650 TAGTAGCGCGCGGTAGTAGT 60.531 55.000 38.36 27.32 34.19 2.73
1665 1711 7.037730 GGATGGAGGGAGTACTATGTACTAGTA 60.038 44.444 9.95 0.00 41.10 1.82
1666 1712 6.240234 GGATGGAGGGAGTACTATGTACTAGT 60.240 46.154 9.95 0.00 43.28 2.57
1667 1713 6.181908 GGATGGAGGGAGTACTATGTACTAG 58.818 48.000 9.95 0.00 0.00 2.57
1668 1714 5.280368 CGGATGGAGGGAGTACTATGTACTA 60.280 48.000 9.95 0.00 0.00 1.82
1669 1715 4.506979 CGGATGGAGGGAGTACTATGTACT 60.507 50.000 9.77 9.77 0.00 2.73
1670 1716 3.757493 CGGATGGAGGGAGTACTATGTAC 59.243 52.174 0.00 0.05 0.00 2.90
1674 1720 3.897657 TTCGGATGGAGGGAGTACTAT 57.102 47.619 0.00 0.00 0.00 2.12
1678 1724 4.553678 AGTATTTTCGGATGGAGGGAGTA 58.446 43.478 0.00 0.00 0.00 2.59
1679 1725 3.385115 AGTATTTTCGGATGGAGGGAGT 58.615 45.455 0.00 0.00 0.00 3.85
1680 1726 4.130118 CAAGTATTTTCGGATGGAGGGAG 58.870 47.826 0.00 0.00 0.00 4.30
1681 1727 3.521937 ACAAGTATTTTCGGATGGAGGGA 59.478 43.478 0.00 0.00 0.00 4.20
1682 1728 3.877508 GACAAGTATTTTCGGATGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
1683 1729 4.770795 AGACAAGTATTTTCGGATGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
1684 1730 7.265673 TCTAAGACAAGTATTTTCGGATGGAG 58.734 38.462 0.00 0.00 0.00 3.86
1685 1731 7.177832 TCTAAGACAAGTATTTTCGGATGGA 57.822 36.000 0.00 0.00 0.00 3.41
1686 1732 7.843490 TTCTAAGACAAGTATTTTCGGATGG 57.157 36.000 0.00 0.00 0.00 3.51
1687 1733 9.708222 CATTTCTAAGACAAGTATTTTCGGATG 57.292 33.333 0.00 0.00 0.00 3.51
1688 1734 9.667107 TCATTTCTAAGACAAGTATTTTCGGAT 57.333 29.630 0.00 0.00 0.00 4.18
1689 1735 9.667107 ATCATTTCTAAGACAAGTATTTTCGGA 57.333 29.630 0.00 0.00 0.00 4.55
1756 1802 9.456147 TCGGAAATACTCATCCTTAAAAATGAA 57.544 29.630 2.18 0.00 31.81 2.57
1757 1803 9.456147 TTCGGAAATACTCATCCTTAAAAATGA 57.544 29.630 0.00 0.88 33.36 2.57
1758 1804 9.503427 GTTCGGAAATACTCATCCTTAAAAATG 57.497 33.333 0.00 0.00 33.36 2.32
1759 1805 8.395633 CGTTCGGAAATACTCATCCTTAAAAAT 58.604 33.333 0.00 0.00 33.36 1.82
1760 1806 7.603404 TCGTTCGGAAATACTCATCCTTAAAAA 59.397 33.333 0.00 0.00 33.36 1.94
1761 1807 7.098477 TCGTTCGGAAATACTCATCCTTAAAA 58.902 34.615 0.00 0.00 33.36 1.52
1762 1808 6.632909 TCGTTCGGAAATACTCATCCTTAAA 58.367 36.000 0.00 0.00 33.36 1.52
1763 1809 6.211587 TCGTTCGGAAATACTCATCCTTAA 57.788 37.500 0.00 0.00 33.36 1.85
1764 1810 5.840243 TCGTTCGGAAATACTCATCCTTA 57.160 39.130 0.00 0.00 33.36 2.69
1765 1811 4.730949 TCGTTCGGAAATACTCATCCTT 57.269 40.909 0.00 0.00 33.36 3.36
1766 1812 4.441634 CCTTCGTTCGGAAATACTCATCCT 60.442 45.833 0.00 0.00 33.34 3.24
1767 1813 3.802685 CCTTCGTTCGGAAATACTCATCC 59.197 47.826 0.00 0.00 33.34 3.51
1768 1814 3.802685 CCCTTCGTTCGGAAATACTCATC 59.197 47.826 0.00 0.00 33.34 2.92
1769 1815 3.449737 TCCCTTCGTTCGGAAATACTCAT 59.550 43.478 0.00 0.00 33.34 2.90
1770 1816 2.827322 TCCCTTCGTTCGGAAATACTCA 59.173 45.455 0.00 0.00 33.34 3.41
1771 1817 3.119209 ACTCCCTTCGTTCGGAAATACTC 60.119 47.826 0.00 0.00 33.34 2.59
1772 1818 2.830321 ACTCCCTTCGTTCGGAAATACT 59.170 45.455 0.00 0.00 33.34 2.12
1773 1819 3.242549 ACTCCCTTCGTTCGGAAATAC 57.757 47.619 0.00 0.00 33.34 1.89
1774 1820 3.763360 TGTACTCCCTTCGTTCGGAAATA 59.237 43.478 0.00 0.00 33.34 1.40
1775 1821 2.564062 TGTACTCCCTTCGTTCGGAAAT 59.436 45.455 0.00 0.00 33.34 2.17
1776 1822 1.962807 TGTACTCCCTTCGTTCGGAAA 59.037 47.619 0.00 0.00 33.34 3.13
1777 1823 1.619654 TGTACTCCCTTCGTTCGGAA 58.380 50.000 0.00 0.00 0.00 4.30
1778 1824 1.843368 ATGTACTCCCTTCGTTCGGA 58.157 50.000 0.00 0.00 0.00 4.55
1779 1825 2.686915 AGTATGTACTCCCTTCGTTCGG 59.313 50.000 0.00 0.00 0.00 4.30
1780 1826 3.376234 TCAGTATGTACTCCCTTCGTTCG 59.624 47.826 0.00 0.00 37.40 3.95
1781 1827 4.978083 TCAGTATGTACTCCCTTCGTTC 57.022 45.455 0.00 0.00 37.40 3.95
1782 1828 5.187186 ACATTCAGTATGTACTCCCTTCGTT 59.813 40.000 0.00 0.00 45.62 3.85
1783 1829 4.710375 ACATTCAGTATGTACTCCCTTCGT 59.290 41.667 0.00 0.00 45.62 3.85
1784 1830 5.043903 CACATTCAGTATGTACTCCCTTCG 58.956 45.833 0.00 0.00 45.71 3.79
1785 1831 5.128827 TCCACATTCAGTATGTACTCCCTTC 59.871 44.000 0.00 0.00 45.71 3.46
1786 1832 5.030147 TCCACATTCAGTATGTACTCCCTT 58.970 41.667 0.00 0.00 45.71 3.95
1787 1833 4.620723 TCCACATTCAGTATGTACTCCCT 58.379 43.478 0.00 0.00 45.71 4.20
1788 1834 5.353394 TTCCACATTCAGTATGTACTCCC 57.647 43.478 0.00 0.00 45.71 4.30
1789 1835 8.827677 GTTATTTCCACATTCAGTATGTACTCC 58.172 37.037 0.00 0.00 45.71 3.85
1790 1836 8.540492 CGTTATTTCCACATTCAGTATGTACTC 58.460 37.037 0.00 0.00 45.71 2.59
1796 1842 8.908786 ATCATCGTTATTTCCACATTCAGTAT 57.091 30.769 0.00 0.00 0.00 2.12
1805 1851 6.919662 TCGTTACCTATCATCGTTATTTCCAC 59.080 38.462 0.00 0.00 0.00 4.02
1811 1857 4.756642 TCCGTCGTTACCTATCATCGTTAT 59.243 41.667 0.00 0.00 0.00 1.89
1882 1934 2.418197 GCAGACGCTAAACCCACATCTA 60.418 50.000 0.00 0.00 34.30 1.98
1920 1972 4.222336 AGAGAGAGAGAGAGAGAGAGAGG 58.778 52.174 0.00 0.00 0.00 3.69
1928 1980 8.421249 AAAAATCAAAGAGAGAGAGAGAGAGA 57.579 34.615 0.00 0.00 0.00 3.10
2053 2113 0.250513 GACAGAGCCAAACCGGAGAT 59.749 55.000 9.46 0.00 36.56 2.75
2219 2279 5.927689 TGTTTCATCTGCCAAAATCAATGTC 59.072 36.000 0.00 0.00 0.00 3.06
2222 2282 5.808540 CGATGTTTCATCTGCCAAAATCAAT 59.191 36.000 7.89 0.00 0.00 2.57
2223 2283 5.162794 CGATGTTTCATCTGCCAAAATCAA 58.837 37.500 7.89 0.00 0.00 2.57
2320 2381 7.759489 TTTACTAAAGGTTGATGTTGCATCT 57.241 32.000 10.02 0.00 0.00 2.90
2379 2440 5.687770 ATGGTTTTGTTGCCTTAATTTGC 57.312 34.783 0.00 0.00 0.00 3.68
2388 2449 4.857509 TGTAGGTTATGGTTTTGTTGCC 57.142 40.909 0.00 0.00 0.00 4.52
2421 2482 8.635765 ACACCTTTACAAGTGATGTATCATTT 57.364 30.769 0.00 0.00 43.84 2.32
2438 2499 2.038033 CCGAGTCTCCCAAACACCTTTA 59.962 50.000 0.00 0.00 0.00 1.85
2439 2500 1.202770 CCGAGTCTCCCAAACACCTTT 60.203 52.381 0.00 0.00 0.00 3.11
2440 2501 0.396811 CCGAGTCTCCCAAACACCTT 59.603 55.000 0.00 0.00 0.00 3.50
2441 2502 2.058675 CCGAGTCTCCCAAACACCT 58.941 57.895 0.00 0.00 0.00 4.00
2442 2503 1.671379 GCCGAGTCTCCCAAACACC 60.671 63.158 0.00 0.00 0.00 4.16
2443 2504 0.670854 GAGCCGAGTCTCCCAAACAC 60.671 60.000 0.00 0.00 0.00 3.32
2444 2505 1.671742 GAGCCGAGTCTCCCAAACA 59.328 57.895 0.00 0.00 0.00 2.83
2445 2506 1.079057 GGAGCCGAGTCTCCCAAAC 60.079 63.158 6.98 0.00 45.40 2.93
2446 2507 3.388841 GGAGCCGAGTCTCCCAAA 58.611 61.111 6.98 0.00 45.40 3.28
2451 2512 0.454196 GTCTCTTGGAGCCGAGTCTC 59.546 60.000 3.76 0.00 0.00 3.36
2452 2513 0.039035 AGTCTCTTGGAGCCGAGTCT 59.961 55.000 3.76 0.00 0.00 3.24
2453 2514 0.454196 GAGTCTCTTGGAGCCGAGTC 59.546 60.000 3.76 0.00 0.00 3.36
2454 2515 1.309499 CGAGTCTCTTGGAGCCGAGT 61.309 60.000 3.76 0.00 0.00 4.18
2455 2516 1.431440 CGAGTCTCTTGGAGCCGAG 59.569 63.158 0.00 0.00 0.00 4.63
2456 2517 2.701780 GCGAGTCTCTTGGAGCCGA 61.702 63.158 0.00 0.00 0.00 5.54
2457 2518 2.202676 GCGAGTCTCTTGGAGCCG 60.203 66.667 0.00 0.00 0.00 5.52
2458 2519 1.140804 GAGCGAGTCTCTTGGAGCC 59.859 63.158 0.00 0.00 38.78 4.70
2459 2520 1.226547 CGAGCGAGTCTCTTGGAGC 60.227 63.158 0.00 0.00 39.70 4.70
2460 2521 1.021202 ATCGAGCGAGTCTCTTGGAG 58.979 55.000 0.00 0.00 39.70 3.86
2461 2522 1.464734 AATCGAGCGAGTCTCTTGGA 58.535 50.000 0.00 0.00 39.70 3.53
2462 2523 2.189342 GAAATCGAGCGAGTCTCTTGG 58.811 52.381 0.00 0.00 39.70 3.61
2463 2524 2.159310 AGGAAATCGAGCGAGTCTCTTG 60.159 50.000 0.00 0.00 39.70 3.02
2464 2525 2.096248 AGGAAATCGAGCGAGTCTCTT 58.904 47.619 0.00 0.00 39.70 2.85
2465 2526 1.757682 AGGAAATCGAGCGAGTCTCT 58.242 50.000 0.00 0.00 39.70 3.10
2466 2527 2.159366 TGAAGGAAATCGAGCGAGTCTC 60.159 50.000 0.00 0.00 38.47 3.36
2467 2528 1.819288 TGAAGGAAATCGAGCGAGTCT 59.181 47.619 0.00 0.00 0.00 3.24
2468 2529 2.279582 TGAAGGAAATCGAGCGAGTC 57.720 50.000 0.00 0.00 0.00 3.36
2469 2530 2.743636 TTGAAGGAAATCGAGCGAGT 57.256 45.000 0.00 0.00 0.00 4.18
2470 2531 4.337763 CAAATTGAAGGAAATCGAGCGAG 58.662 43.478 0.00 0.00 0.00 5.03
2471 2532 3.126858 CCAAATTGAAGGAAATCGAGCGA 59.873 43.478 0.00 0.00 0.00 4.93
2472 2533 3.429085 CCAAATTGAAGGAAATCGAGCG 58.571 45.455 0.00 0.00 0.00 5.03
2473 2534 3.182182 GCCAAATTGAAGGAAATCGAGC 58.818 45.455 0.00 0.00 0.00 5.03
2474 2535 3.429410 GGGCCAAATTGAAGGAAATCGAG 60.429 47.826 4.39 0.00 0.00 4.04
2475 2536 2.495669 GGGCCAAATTGAAGGAAATCGA 59.504 45.455 4.39 0.00 0.00 3.59
2476 2537 2.735126 CGGGCCAAATTGAAGGAAATCG 60.735 50.000 4.39 0.00 0.00 3.34
2477 2538 2.233676 ACGGGCCAAATTGAAGGAAATC 59.766 45.455 4.39 0.00 0.00 2.17
2478 2539 2.233676 GACGGGCCAAATTGAAGGAAAT 59.766 45.455 4.39 0.00 0.00 2.17
2479 2540 1.616374 GACGGGCCAAATTGAAGGAAA 59.384 47.619 4.39 0.00 0.00 3.13
2480 2541 1.253100 GACGGGCCAAATTGAAGGAA 58.747 50.000 4.39 0.00 0.00 3.36
2481 2542 0.958382 CGACGGGCCAAATTGAAGGA 60.958 55.000 4.39 0.00 0.00 3.36
2482 2543 1.506262 CGACGGGCCAAATTGAAGG 59.494 57.895 4.39 0.00 0.00 3.46
2483 2544 0.958382 TCCGACGGGCCAAATTGAAG 60.958 55.000 15.25 0.00 0.00 3.02
2484 2545 0.322997 ATCCGACGGGCCAAATTGAA 60.323 50.000 15.25 0.00 0.00 2.69
2485 2546 1.029408 CATCCGACGGGCCAAATTGA 61.029 55.000 15.25 0.00 0.00 2.57
2486 2547 1.433064 CATCCGACGGGCCAAATTG 59.567 57.895 15.25 0.00 0.00 2.32
2487 2548 2.414785 GCATCCGACGGGCCAAATT 61.415 57.895 15.25 0.00 0.00 1.82
2488 2549 2.828549 GCATCCGACGGGCCAAAT 60.829 61.111 15.25 0.00 0.00 2.32
2489 2550 4.028490 AGCATCCGACGGGCCAAA 62.028 61.111 15.25 0.00 0.00 3.28
2490 2551 4.776322 CAGCATCCGACGGGCCAA 62.776 66.667 15.25 0.00 0.00 4.52
2494 2555 2.796483 TTTGACCAGCATCCGACGGG 62.796 60.000 15.25 0.00 0.00 5.28
2495 2556 1.375396 TTTGACCAGCATCCGACGG 60.375 57.895 7.84 7.84 0.00 4.79
2496 2557 1.787847 GTTTGACCAGCATCCGACG 59.212 57.895 0.00 0.00 0.00 5.12
2497 2558 1.635663 CCGTTTGACCAGCATCCGAC 61.636 60.000 0.00 0.00 0.00 4.79
2498 2559 1.375396 CCGTTTGACCAGCATCCGA 60.375 57.895 0.00 0.00 0.00 4.55
2499 2560 2.398554 CCCGTTTGACCAGCATCCG 61.399 63.158 0.00 0.00 0.00 4.18
2500 2561 1.303317 ACCCGTTTGACCAGCATCC 60.303 57.895 0.00 0.00 0.00 3.51
2501 2562 1.635663 CGACCCGTTTGACCAGCATC 61.636 60.000 0.00 0.00 0.00 3.91
2502 2563 1.671054 CGACCCGTTTGACCAGCAT 60.671 57.895 0.00 0.00 0.00 3.79
2503 2564 2.280524 CGACCCGTTTGACCAGCA 60.281 61.111 0.00 0.00 0.00 4.41
2504 2565 2.280592 ACGACCCGTTTGACCAGC 60.281 61.111 0.00 0.00 36.35 4.85
2513 2574 2.825861 ACAACATAGAAACGACCCGT 57.174 45.000 0.00 0.00 43.97 5.28
2514 2575 3.249080 ACAAACAACATAGAAACGACCCG 59.751 43.478 0.00 0.00 0.00 5.28
2515 2576 4.609783 CGACAAACAACATAGAAACGACCC 60.610 45.833 0.00 0.00 0.00 4.46
2516 2577 4.025480 ACGACAAACAACATAGAAACGACC 60.025 41.667 0.00 0.00 0.00 4.79
2517 2578 5.074430 ACGACAAACAACATAGAAACGAC 57.926 39.130 0.00 0.00 0.00 4.34
2518 2579 5.494618 CAACGACAAACAACATAGAAACGA 58.505 37.500 0.00 0.00 0.00 3.85
2519 2580 4.668837 CCAACGACAAACAACATAGAAACG 59.331 41.667 0.00 0.00 0.00 3.60
2520 2581 5.812652 TCCAACGACAAACAACATAGAAAC 58.187 37.500 0.00 0.00 0.00 2.78
2521 2582 6.565060 CGATCCAACGACAAACAACATAGAAA 60.565 38.462 0.00 0.00 35.09 2.52
2522 2583 5.107259 CGATCCAACGACAAACAACATAGAA 60.107 40.000 0.00 0.00 35.09 2.10
2523 2584 4.387559 CGATCCAACGACAAACAACATAGA 59.612 41.667 0.00 0.00 35.09 1.98
2524 2585 4.637968 CGATCCAACGACAAACAACATAG 58.362 43.478 0.00 0.00 35.09 2.23
2525 2586 3.120477 GCGATCCAACGACAAACAACATA 60.120 43.478 0.00 0.00 35.09 2.29
2526 2587 2.350388 GCGATCCAACGACAAACAACAT 60.350 45.455 0.00 0.00 35.09 2.71
2527 2588 1.003331 GCGATCCAACGACAAACAACA 60.003 47.619 0.00 0.00 35.09 3.33
2528 2589 1.662026 GGCGATCCAACGACAAACAAC 60.662 52.381 0.00 0.00 41.34 3.32
2529 2590 0.589223 GGCGATCCAACGACAAACAA 59.411 50.000 0.00 0.00 41.34 2.83
2530 2591 2.240230 GGCGATCCAACGACAAACA 58.760 52.632 0.00 0.00 41.34 2.83
2535 2596 2.100631 CCTGTGGCGATCCAACGAC 61.101 63.158 0.00 0.00 45.53 4.34
2536 2597 2.264480 CCTGTGGCGATCCAACGA 59.736 61.111 0.00 0.00 45.53 3.85
2537 2598 2.819595 CCCTGTGGCGATCCAACG 60.820 66.667 0.00 0.00 45.53 4.10
2538 2599 1.303317 AACCCTGTGGCGATCCAAC 60.303 57.895 0.00 0.00 45.53 3.77
2539 2600 1.303236 CAACCCTGTGGCGATCCAA 60.303 57.895 0.00 0.00 45.53 3.53
2540 2601 2.350895 CAACCCTGTGGCGATCCA 59.649 61.111 0.00 0.00 40.85 3.41
2541 2602 1.745489 GACAACCCTGTGGCGATCC 60.745 63.158 0.00 0.00 35.30 3.36
2542 2603 3.890674 GACAACCCTGTGGCGATC 58.109 61.111 0.00 0.00 35.30 3.69
2547 2608 4.619227 ACCGCGACAACCCTGTGG 62.619 66.667 8.23 0.00 35.30 4.17
2548 2609 2.590575 AACCGCGACAACCCTGTG 60.591 61.111 8.23 0.00 35.30 3.66
2549 2610 2.391724 ATCAACCGCGACAACCCTGT 62.392 55.000 8.23 0.00 38.98 4.00
2550 2611 1.234615 AATCAACCGCGACAACCCTG 61.235 55.000 8.23 0.00 0.00 4.45
2551 2612 0.536460 AAATCAACCGCGACAACCCT 60.536 50.000 8.23 0.00 0.00 4.34
2552 2613 0.312729 AAAATCAACCGCGACAACCC 59.687 50.000 8.23 0.00 0.00 4.11
2553 2614 1.002251 TCAAAATCAACCGCGACAACC 60.002 47.619 8.23 0.00 0.00 3.77
2554 2615 2.041244 GTCAAAATCAACCGCGACAAC 58.959 47.619 8.23 0.00 0.00 3.32
2555 2616 1.002251 GGTCAAAATCAACCGCGACAA 60.002 47.619 8.23 0.00 0.00 3.18
2556 2617 0.589223 GGTCAAAATCAACCGCGACA 59.411 50.000 8.23 0.00 0.00 4.35
2557 2618 0.872388 AGGTCAAAATCAACCGCGAC 59.128 50.000 8.23 0.00 40.63 5.19
2558 2619 1.153353 GAGGTCAAAATCAACCGCGA 58.847 50.000 8.23 0.00 40.63 5.87
2559 2620 3.676091 GAGGTCAAAATCAACCGCG 57.324 52.632 0.00 0.00 40.63 6.46
2560 2621 0.454452 GCGAGGTCAAAATCAACCGC 60.454 55.000 0.00 0.00 40.63 5.68
2561 2622 0.179225 CGCGAGGTCAAAATCAACCG 60.179 55.000 0.00 0.00 40.63 4.44
2562 2623 3.676091 CGCGAGGTCAAAATCAACC 57.324 52.632 0.00 0.00 35.69 3.77


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

AutoCloner maintained by Alex Coulton.