Multiple sequence alignment - TraesCS5D01G245200

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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 TraesCS5D01G245200 chr5D 100.000 2270 0 0 1 2270 353695599 353697868 0.000000e+00 4193.0
1 TraesCS5D01G245200 chr5D 91.419 1550 98 20 19 1548 494865658 494864124 0.000000e+00 2093.0
2 TraesCS5D01G245200 chr3A 92.378 1089 74 6 466 1548 743711141 743710056 0.000000e+00 1543.0
3 TraesCS5D01G245200 chr3A 88.586 806 51 19 19 813 83522950 83522175 0.000000e+00 941.0
4 TraesCS5D01G245200 chr3A 87.654 405 32 11 19 408 94165912 94165511 2.660000e-124 455.0
5 TraesCS5D01G245200 chr7A 88.903 811 67 18 19 824 287557542 287556750 0.000000e+00 977.0
6 TraesCS5D01G245200 chr7A 90.437 732 63 6 766 1491 6752216 6751486 0.000000e+00 957.0
7 TraesCS5D01G245200 chr7A 87.849 502 30 12 217 714 670290804 670290330 5.480000e-156 560.0
8 TraesCS5D01G245200 chr1B 90.922 716 60 4 766 1476 394375087 394375802 0.000000e+00 957.0
9 TraesCS5D01G245200 chr1B 90.000 730 69 3 766 1491 388170114 388169385 0.000000e+00 941.0
10 TraesCS5D01G245200 chr1B 81.887 265 34 12 1632 1887 566982211 566981952 6.350000e-51 211.0
11 TraesCS5D01G245200 chr2B 90.014 731 67 5 766 1491 798711305 798710576 0.000000e+00 941.0
12 TraesCS5D01G245200 chr7B 89.617 732 69 6 766 1491 211695136 211695866 0.000000e+00 924.0
13 TraesCS5D01G245200 chr7B 86.667 240 27 5 1909 2145 658353754 658353991 6.220000e-66 261.0
14 TraesCS5D01G245200 chr7B 85.283 265 13 6 451 714 591368497 591368258 1.350000e-62 250.0
15 TraesCS5D01G245200 chr3D 89.589 730 72 3 766 1491 516529378 516528649 0.000000e+00 924.0
16 TraesCS5D01G245200 chr3D 86.486 111 10 5 460 569 605267126 605267232 1.420000e-22 117.0
17 TraesCS5D01G245200 chr1A 89.930 715 68 3 766 1476 579648295 579649009 0.000000e+00 918.0
18 TraesCS5D01G245200 chr2A 88.585 622 57 7 214 824 770919664 770920282 0.000000e+00 743.0
19 TraesCS5D01G245200 chr5A 83.793 580 81 13 1699 2270 18067894 18068468 2.570000e-149 538.0
20 TraesCS5D01G245200 chr6B 89.031 392 39 3 19 408 11750021 11750410 1.220000e-132 483.0
21 TraesCS5D01G245200 chrUn 88.471 399 29 12 19 405 352657394 352657787 1.230000e-127 466.0
22 TraesCS5D01G245200 chrUn 88.308 402 30 12 19 408 449510960 449510564 1.230000e-127 466.0
23 TraesCS5D01G245200 chrUn 87.781 401 34 9 19 408 84018968 84019364 2.660000e-124 455.0
24 TraesCS5D01G245200 chrUn 87.387 111 9 5 460 569 45994415 45994309 3.060000e-24 122.0
25 TraesCS5D01G245200 chr5B 88.030 401 32 10 19 408 611487586 611487191 5.710000e-126 460.0
26 TraesCS5D01G245200 chr3B 87.980 391 34 10 19 407 814605926 814605547 1.240000e-122 449.0
27 TraesCS5D01G245200 chr3B 84.658 365 50 6 1909 2269 598043390 598043752 2.140000e-95 359.0
28 TraesCS5D01G245200 chr3B 85.714 273 13 6 443 714 44402650 44402403 4.810000e-67 265.0
29 TraesCS5D01G245200 chr4B 86.567 402 36 11 19 408 41576010 41575615 5.790000e-116 427.0
30 TraesCS5D01G245200 chr4B 85.348 273 14 5 443 714 41575617 41575370 2.240000e-65 259.0
31 TraesCS5D01G245200 chr7D 91.089 101 7 2 471 570 80268733 80268832 3.930000e-28 135.0
32 TraesCS5D01G245200 chr7D 93.333 60 3 1 1490 1548 10752219 10752160 1.120000e-13 87.9
33 TraesCS5D01G245200 chr7D 87.671 73 7 2 1998 2069 135419087 135419016 1.440000e-12 84.2


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 TraesCS5D01G245200 chr5D 353695599 353697868 2269 False 4193 4193 100.0000 1 2270 1 chr5D.!!$F1 2269
1 TraesCS5D01G245200 chr5D 494864124 494865658 1534 True 2093 2093 91.4190 19 1548 1 chr5D.!!$R1 1529
2 TraesCS5D01G245200 chr3A 743710056 743711141 1085 True 1543 1543 92.3780 466 1548 1 chr3A.!!$R3 1082
3 TraesCS5D01G245200 chr3A 83522175 83522950 775 True 941 941 88.5860 19 813 1 chr3A.!!$R1 794
4 TraesCS5D01G245200 chr7A 287556750 287557542 792 True 977 977 88.9030 19 824 1 chr7A.!!$R2 805
5 TraesCS5D01G245200 chr7A 6751486 6752216 730 True 957 957 90.4370 766 1491 1 chr7A.!!$R1 725
6 TraesCS5D01G245200 chr1B 394375087 394375802 715 False 957 957 90.9220 766 1476 1 chr1B.!!$F1 710
7 TraesCS5D01G245200 chr1B 388169385 388170114 729 True 941 941 90.0000 766 1491 1 chr1B.!!$R1 725
8 TraesCS5D01G245200 chr2B 798710576 798711305 729 True 941 941 90.0140 766 1491 1 chr2B.!!$R1 725
9 TraesCS5D01G245200 chr7B 211695136 211695866 730 False 924 924 89.6170 766 1491 1 chr7B.!!$F1 725
10 TraesCS5D01G245200 chr3D 516528649 516529378 729 True 924 924 89.5890 766 1491 1 chr3D.!!$R1 725
11 TraesCS5D01G245200 chr1A 579648295 579649009 714 False 918 918 89.9300 766 1476 1 chr1A.!!$F1 710
12 TraesCS5D01G245200 chr2A 770919664 770920282 618 False 743 743 88.5850 214 824 1 chr2A.!!$F1 610
13 TraesCS5D01G245200 chr5A 18067894 18068468 574 False 538 538 83.7930 1699 2270 1 chr5A.!!$F1 571
14 TraesCS5D01G245200 chr4B 41575370 41576010 640 True 343 427 85.9575 19 714 2 chr4B.!!$R1 695

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
427 477 0.593128 GAGCACACCACAATCCACAC 59.407 55.0 0.0 0.0 0.0 3.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1657 1724 0.03213 TGAGTCACAGACAGCGGAAC 59.968 55.0 0.0 0.0 34.6 3.62 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
220 221 1.232621 GGTACCGGCTGCTCGTTTTT 61.233 55.000 0.00 0.00 0.00 1.94
241 242 0.966920 TTCCCTTCGTGTGGAGTCTC 59.033 55.000 0.00 0.00 30.91 3.36
372 385 3.074412 CAACGAGCCAACAAGGTAATCT 58.926 45.455 0.00 0.00 40.61 2.40
427 477 0.593128 GAGCACACCACAATCCACAC 59.407 55.000 0.00 0.00 0.00 3.82
574 627 7.201556 CGTATTCAACTATCCATCCATGTATGC 60.202 40.741 0.00 0.00 0.00 3.14
579 635 5.593786 ACTATCCATCCATGTATGCCTAGA 58.406 41.667 10.38 0.00 0.00 2.43
599 657 7.816995 GCCTAGAGTTCCAATCATCTTATGTAG 59.183 40.741 0.00 0.00 0.00 2.74
775 834 8.165212 TGAATAAGTACTTTACATCGTTGACG 57.835 34.615 14.49 0.00 41.45 4.35
978 1042 5.645929 TGTCTCTGAGTTAAAAGTGTTGCAA 59.354 36.000 4.32 0.00 0.00 4.08
1084 1148 3.964688 TGCCTATCGGATCCTCTTAACAA 59.035 43.478 10.75 0.00 0.00 2.83
1107 1171 2.869636 GCATGTGACTATAGCCTCAGCC 60.870 54.545 0.00 0.00 41.25 4.85
1200 1264 0.030369 GCTTGGCTATGTGCTGCATC 59.970 55.000 5.27 0.09 42.39 3.91
1238 1302 5.047872 TGGACAATGTTGATCTTGATTGTGG 60.048 40.000 16.53 0.00 38.76 4.17
1264 1328 7.147312 CCTTAATGACTTTGCATCAAGAAACA 58.853 34.615 5.15 3.39 26.90 2.83
1267 1331 6.585695 ATGACTTTGCATCAAGAAACATCT 57.414 33.333 5.15 0.00 0.00 2.90
1294 1359 6.924111 AGAAACTTTTTCTGAAGCACTGAAA 58.076 32.000 0.32 10.21 41.97 2.69
1321 1386 1.960689 TGTTGTCGATGGAGTCAGTCA 59.039 47.619 0.00 0.00 0.00 3.41
1350 1415 7.333528 TGGTTCTTATTTGAGGTAATCATGC 57.666 36.000 0.00 0.00 37.89 4.06
1441 1506 3.961480 ATTGTTGTCGATGGAGTCAGA 57.039 42.857 0.00 0.00 0.00 3.27
1442 1507 3.744238 TTGTTGTCGATGGAGTCAGAA 57.256 42.857 0.00 0.00 0.00 3.02
1504 1571 4.228666 TGTAAGTTACATAGGGGCCATGTT 59.771 41.667 14.00 0.36 37.74 2.71
1557 1624 2.762459 CGGCCCTGGGTGCTACTA 60.762 66.667 15.56 0.00 0.00 1.82
1558 1625 2.908796 GGCCCTGGGTGCTACTAC 59.091 66.667 15.56 0.00 0.00 2.73
1559 1626 1.689582 GGCCCTGGGTGCTACTACT 60.690 63.158 15.56 0.00 0.00 2.57
1560 1627 1.272554 GGCCCTGGGTGCTACTACTT 61.273 60.000 15.56 0.00 0.00 2.24
1561 1628 0.107654 GCCCTGGGTGCTACTACTTG 60.108 60.000 15.56 0.00 0.00 3.16
1562 1629 0.107654 CCCTGGGTGCTACTACTTGC 60.108 60.000 3.97 0.00 0.00 4.01
1563 1630 0.460284 CCTGGGTGCTACTACTTGCG 60.460 60.000 0.00 0.00 0.00 4.85
1564 1631 0.460284 CTGGGTGCTACTACTTGCGG 60.460 60.000 0.00 0.00 0.00 5.69
1565 1632 1.814169 GGGTGCTACTACTTGCGGC 60.814 63.158 0.00 0.00 0.00 6.53
1566 1633 2.165301 GGTGCTACTACTTGCGGCG 61.165 63.158 0.51 0.51 0.00 6.46
1567 1634 1.445582 GTGCTACTACTTGCGGCGT 60.446 57.895 9.37 0.00 0.00 5.68
1568 1635 0.179156 GTGCTACTACTTGCGGCGTA 60.179 55.000 9.37 0.00 0.00 4.42
1569 1636 0.179156 TGCTACTACTTGCGGCGTAC 60.179 55.000 9.37 0.00 0.00 3.67
1570 1637 0.179156 GCTACTACTTGCGGCGTACA 60.179 55.000 9.37 0.00 0.00 2.90
1571 1638 1.535437 GCTACTACTTGCGGCGTACAT 60.535 52.381 9.37 0.00 0.00 2.29
1572 1639 2.805845 CTACTACTTGCGGCGTACATT 58.194 47.619 9.37 0.00 0.00 2.71
1573 1640 1.355971 ACTACTTGCGGCGTACATTG 58.644 50.000 9.37 0.00 0.00 2.82
1574 1641 1.067425 ACTACTTGCGGCGTACATTGA 60.067 47.619 9.37 0.00 0.00 2.57
1575 1642 1.996898 CTACTTGCGGCGTACATTGAA 59.003 47.619 9.37 0.00 0.00 2.69
1576 1643 0.796312 ACTTGCGGCGTACATTGAAG 59.204 50.000 9.37 0.00 0.00 3.02
1577 1644 1.075542 CTTGCGGCGTACATTGAAGA 58.924 50.000 9.37 0.00 0.00 2.87
1578 1645 1.463056 CTTGCGGCGTACATTGAAGAA 59.537 47.619 9.37 0.00 0.00 2.52
1579 1646 1.075542 TGCGGCGTACATTGAAGAAG 58.924 50.000 9.37 0.00 0.00 2.85
1580 1647 1.076332 GCGGCGTACATTGAAGAAGT 58.924 50.000 9.37 0.00 0.00 3.01
1581 1648 1.201921 GCGGCGTACATTGAAGAAGTG 60.202 52.381 9.37 0.00 0.00 3.16
1582 1649 2.066262 CGGCGTACATTGAAGAAGTGT 58.934 47.619 0.00 0.00 0.00 3.55
1583 1650 3.247442 CGGCGTACATTGAAGAAGTGTA 58.753 45.455 0.00 0.00 0.00 2.90
1584 1651 3.676172 CGGCGTACATTGAAGAAGTGTAA 59.324 43.478 0.00 0.00 30.87 2.41
1585 1652 4.150980 CGGCGTACATTGAAGAAGTGTAAA 59.849 41.667 0.00 0.00 30.87 2.01
1586 1653 5.333492 CGGCGTACATTGAAGAAGTGTAAAA 60.333 40.000 0.00 0.00 30.87 1.52
1587 1654 6.432107 GGCGTACATTGAAGAAGTGTAAAAA 58.568 36.000 0.00 0.00 30.87 1.94
1588 1655 6.358822 GGCGTACATTGAAGAAGTGTAAAAAC 59.641 38.462 0.00 0.00 30.87 2.43
1589 1656 7.130269 GCGTACATTGAAGAAGTGTAAAAACT 58.870 34.615 0.00 0.00 30.87 2.66
1590 1657 7.642586 GCGTACATTGAAGAAGTGTAAAAACTT 59.357 33.333 0.00 0.00 43.08 2.66
1591 1658 8.943925 CGTACATTGAAGAAGTGTAAAAACTTG 58.056 33.333 0.00 0.00 40.48 3.16
1592 1659 9.233232 GTACATTGAAGAAGTGTAAAAACTTGG 57.767 33.333 0.00 0.00 40.48 3.61
1593 1660 6.756542 ACATTGAAGAAGTGTAAAAACTTGGC 59.243 34.615 0.00 0.00 40.48 4.52
1594 1661 6.524101 TTGAAGAAGTGTAAAAACTTGGCT 57.476 33.333 0.00 0.00 40.48 4.75
1595 1662 6.131544 TGAAGAAGTGTAAAAACTTGGCTC 57.868 37.500 0.00 0.00 40.48 4.70
1596 1663 4.813296 AGAAGTGTAAAAACTTGGCTCG 57.187 40.909 0.00 0.00 40.48 5.03
1597 1664 3.564225 AGAAGTGTAAAAACTTGGCTCGG 59.436 43.478 0.00 0.00 40.48 4.63
1598 1665 3.202829 AGTGTAAAAACTTGGCTCGGA 57.797 42.857 0.00 0.00 0.00 4.55
1599 1666 2.876550 AGTGTAAAAACTTGGCTCGGAC 59.123 45.455 0.00 0.00 0.00 4.79
1600 1667 1.868498 TGTAAAAACTTGGCTCGGACG 59.132 47.619 0.00 0.00 0.00 4.79
1601 1668 1.869132 GTAAAAACTTGGCTCGGACGT 59.131 47.619 0.00 0.00 0.00 4.34
1602 1669 0.661020 AAAAACTTGGCTCGGACGTG 59.339 50.000 0.00 0.00 0.00 4.49
1603 1670 1.782028 AAAACTTGGCTCGGACGTGC 61.782 55.000 9.96 9.96 0.00 5.34
1604 1671 2.933878 AAACTTGGCTCGGACGTGCA 62.934 55.000 18.51 4.44 36.47 4.57
1605 1672 2.664851 CTTGGCTCGGACGTGCAA 60.665 61.111 18.51 6.43 36.47 4.08
1606 1673 2.203084 TTGGCTCGGACGTGCAAA 60.203 55.556 18.51 11.98 36.47 3.68
1607 1674 2.443957 CTTGGCTCGGACGTGCAAAC 62.444 60.000 18.51 4.30 36.47 2.93
1608 1675 2.970324 GGCTCGGACGTGCAAACA 60.970 61.111 18.51 0.00 36.47 2.83
1609 1676 2.248431 GCTCGGACGTGCAAACAC 59.752 61.111 8.11 0.00 43.76 3.32
1621 1688 2.118228 GCAAACACAGTGCAAATCGA 57.882 45.000 0.00 0.00 41.80 3.59
1622 1689 2.458951 GCAAACACAGTGCAAATCGAA 58.541 42.857 0.00 0.00 41.80 3.71
1623 1690 3.052036 GCAAACACAGTGCAAATCGAAT 58.948 40.909 0.00 0.00 41.80 3.34
1624 1691 3.490526 GCAAACACAGTGCAAATCGAATT 59.509 39.130 0.00 0.00 41.80 2.17
1625 1692 4.025813 GCAAACACAGTGCAAATCGAATTT 60.026 37.500 0.00 0.00 41.80 1.82
1639 1706 7.301054 CAAATCGAATTTGGATATGACTAGGC 58.699 38.462 10.60 0.00 44.44 3.93
1640 1707 5.808366 TCGAATTTGGATATGACTAGGCT 57.192 39.130 0.00 0.00 0.00 4.58
1641 1708 6.174720 TCGAATTTGGATATGACTAGGCTT 57.825 37.500 0.00 0.00 0.00 4.35
1642 1709 5.991606 TCGAATTTGGATATGACTAGGCTTG 59.008 40.000 0.00 0.00 0.00 4.01
1643 1710 5.334414 CGAATTTGGATATGACTAGGCTTGC 60.334 44.000 0.00 0.00 0.00 4.01
1644 1711 3.492102 TTGGATATGACTAGGCTTGCC 57.508 47.619 2.97 2.97 0.00 4.52
1645 1712 2.694397 TGGATATGACTAGGCTTGCCT 58.306 47.619 18.74 18.74 0.00 4.75
1646 1713 2.369860 TGGATATGACTAGGCTTGCCTG 59.630 50.000 23.03 14.98 0.00 4.85
1647 1714 2.421619 GATATGACTAGGCTTGCCTGC 58.578 52.381 23.03 12.84 0.00 4.85
1648 1715 1.500474 TATGACTAGGCTTGCCTGCT 58.500 50.000 23.03 8.36 0.00 4.24
1649 1716 0.622665 ATGACTAGGCTTGCCTGCTT 59.377 50.000 23.03 7.69 0.00 3.91
1650 1717 0.321919 TGACTAGGCTTGCCTGCTTG 60.322 55.000 23.03 12.68 0.00 4.01
1651 1718 1.001641 ACTAGGCTTGCCTGCTTGG 60.002 57.895 23.03 10.51 39.35 3.61
1660 1727 3.365265 CCTGCTTGGCACGGGTTC 61.365 66.667 0.00 0.00 33.79 3.62
1661 1728 3.365265 CTGCTTGGCACGGGTTCC 61.365 66.667 0.00 0.00 33.79 3.62
1671 1738 2.738521 CGGGTTCCGCTGTCTGTG 60.739 66.667 0.00 0.00 41.17 3.66
1672 1739 2.741092 GGGTTCCGCTGTCTGTGA 59.259 61.111 0.00 0.00 0.00 3.58
1673 1740 1.668151 GGGTTCCGCTGTCTGTGAC 60.668 63.158 0.00 0.00 0.00 3.67
1674 1741 1.367840 GGTTCCGCTGTCTGTGACT 59.632 57.895 0.00 0.00 33.15 3.41
1675 1742 0.667792 GGTTCCGCTGTCTGTGACTC 60.668 60.000 0.00 0.00 33.15 3.36
1676 1743 0.032130 GTTCCGCTGTCTGTGACTCA 59.968 55.000 0.00 0.00 33.15 3.41
1677 1744 0.750249 TTCCGCTGTCTGTGACTCAA 59.250 50.000 0.00 0.00 33.15 3.02
1678 1745 0.750249 TCCGCTGTCTGTGACTCAAA 59.250 50.000 0.00 0.00 33.15 2.69
1679 1746 1.143305 CCGCTGTCTGTGACTCAAAG 58.857 55.000 0.00 0.00 33.15 2.77
1680 1747 1.143305 CGCTGTCTGTGACTCAAAGG 58.857 55.000 0.00 0.00 33.15 3.11
1681 1748 1.539065 CGCTGTCTGTGACTCAAAGGT 60.539 52.381 0.00 0.00 33.15 3.50
1682 1749 2.288213 CGCTGTCTGTGACTCAAAGGTA 60.288 50.000 0.00 0.00 33.15 3.08
1683 1750 3.321497 GCTGTCTGTGACTCAAAGGTAG 58.679 50.000 0.00 0.00 33.15 3.18
1684 1751 3.862642 GCTGTCTGTGACTCAAAGGTAGG 60.863 52.174 0.00 0.00 33.15 3.18
1685 1752 2.632996 TGTCTGTGACTCAAAGGTAGGG 59.367 50.000 0.00 0.00 33.15 3.53
1686 1753 2.897969 GTCTGTGACTCAAAGGTAGGGA 59.102 50.000 0.00 0.00 0.00 4.20
1687 1754 3.056465 GTCTGTGACTCAAAGGTAGGGAG 60.056 52.174 0.00 0.00 34.85 4.30
1688 1755 2.234908 CTGTGACTCAAAGGTAGGGAGG 59.765 54.545 0.00 0.00 32.98 4.30
1689 1756 2.158219 TGTGACTCAAAGGTAGGGAGGA 60.158 50.000 0.00 0.00 32.98 3.71
1690 1757 2.234168 GTGACTCAAAGGTAGGGAGGAC 59.766 54.545 0.00 0.00 32.98 3.85
1691 1758 1.477295 GACTCAAAGGTAGGGAGGACG 59.523 57.143 0.00 0.00 32.98 4.79
1692 1759 1.203149 ACTCAAAGGTAGGGAGGACGT 60.203 52.381 0.00 0.00 32.98 4.34
1693 1760 1.204941 CTCAAAGGTAGGGAGGACGTG 59.795 57.143 0.00 0.00 0.00 4.49
1694 1761 0.974383 CAAAGGTAGGGAGGACGTGT 59.026 55.000 0.00 0.00 0.00 4.49
1695 1762 0.974383 AAAGGTAGGGAGGACGTGTG 59.026 55.000 0.00 0.00 0.00 3.82
1696 1763 0.903454 AAGGTAGGGAGGACGTGTGG 60.903 60.000 0.00 0.00 0.00 4.17
1697 1764 2.577593 GTAGGGAGGACGTGTGGC 59.422 66.667 0.00 0.00 0.00 5.01
1721 1788 2.068834 TTTTTCGCACAAACCCCCTA 57.931 45.000 0.00 0.00 0.00 3.53
1806 1876 1.654954 CCAGTAGGTCCCGTCTGTCG 61.655 65.000 8.93 0.00 39.52 4.35
1818 1888 2.871133 CGTCTGTCGGTGCAGTATTTA 58.129 47.619 0.00 0.00 37.70 1.40
1826 1896 7.065324 TCTGTCGGTGCAGTATTTAAAATTAGG 59.935 37.037 0.00 0.00 37.70 2.69
1828 1898 7.554835 TGTCGGTGCAGTATTTAAAATTAGGAT 59.445 33.333 0.00 0.00 0.00 3.24
1829 1899 7.855904 GTCGGTGCAGTATTTAAAATTAGGATG 59.144 37.037 0.00 0.00 0.00 3.51
1844 1914 5.828299 TTAGGATGAAAAATGTAAGCCCG 57.172 39.130 0.00 0.00 0.00 6.13
1851 1922 0.988832 AAATGTAAGCCCGGGTCTCA 59.011 50.000 24.63 16.44 0.00 3.27
1852 1923 1.213296 AATGTAAGCCCGGGTCTCAT 58.787 50.000 24.63 17.92 0.00 2.90
1856 1927 1.117150 TAAGCCCGGGTCTCATACAC 58.883 55.000 24.63 0.79 0.00 2.90
1857 1928 0.907704 AAGCCCGGGTCTCATACACA 60.908 55.000 24.63 0.00 0.00 3.72
1864 1935 1.403780 GGGTCTCATACACACGACCAC 60.404 57.143 9.25 0.00 45.98 4.16
1887 1958 3.876300 GCACACAGCCGGACTTAG 58.124 61.111 5.05 0.00 37.23 2.18
1888 1959 2.391389 GCACACAGCCGGACTTAGC 61.391 63.158 5.05 0.00 37.23 3.09
1889 1960 1.005037 CACACAGCCGGACTTAGCA 60.005 57.895 5.05 0.00 0.00 3.49
1894 1965 0.741221 CAGCCGGACTTAGCAACTCC 60.741 60.000 5.05 0.00 0.00 3.85
1898 1969 0.320374 CGGACTTAGCAACTCCACCA 59.680 55.000 0.00 0.00 0.00 4.17
1912 1983 2.666508 CTCCACCAATTACGTCTTGACG 59.333 50.000 19.74 19.74 39.31 4.35
1913 1984 1.730064 CCACCAATTACGTCTTGACGG 59.270 52.381 23.99 9.91 37.45 4.79
1931 2002 3.793559 ACGGCCTCATTACATAACTCAC 58.206 45.455 0.00 0.00 0.00 3.51
1982 2055 0.530744 AGCTGAAATGTGCTGCCATG 59.469 50.000 0.00 0.00 38.21 3.66
1986 2059 1.542472 TGAAATGTGCTGCCATGAGTG 59.458 47.619 0.00 0.00 0.00 3.51
1987 2060 1.542915 GAAATGTGCTGCCATGAGTGT 59.457 47.619 0.00 0.00 0.00 3.55
1988 2061 0.885879 AATGTGCTGCCATGAGTGTG 59.114 50.000 0.00 0.00 0.00 3.82
2004 2077 3.965258 TGGCCCATTCGCACCTGT 61.965 61.111 0.00 0.00 0.00 4.00
2007 2080 1.212751 GCCCATTCGCACCTGTTTC 59.787 57.895 0.00 0.00 0.00 2.78
2008 2081 1.883021 CCCATTCGCACCTGTTTCC 59.117 57.895 0.00 0.00 0.00 3.13
2010 2083 1.247567 CCATTCGCACCTGTTTCCTT 58.752 50.000 0.00 0.00 0.00 3.36
2011 2084 2.432444 CCATTCGCACCTGTTTCCTTA 58.568 47.619 0.00 0.00 0.00 2.69
2013 2086 3.119849 CCATTCGCACCTGTTTCCTTAAG 60.120 47.826 0.00 0.00 0.00 1.85
2015 2088 3.478857 TCGCACCTGTTTCCTTAAGAA 57.521 42.857 3.36 0.00 0.00 2.52
2016 2089 3.811083 TCGCACCTGTTTCCTTAAGAAA 58.189 40.909 3.36 0.24 42.28 2.52
2017 2090 4.394729 TCGCACCTGTTTCCTTAAGAAAT 58.605 39.130 3.36 0.00 45.99 2.17
2018 2091 4.825085 TCGCACCTGTTTCCTTAAGAAATT 59.175 37.500 3.36 0.00 45.99 1.82
2020 2093 5.402270 CGCACCTGTTTCCTTAAGAAATTTG 59.598 40.000 3.36 1.74 45.99 2.32
2021 2094 6.280643 GCACCTGTTTCCTTAAGAAATTTGT 58.719 36.000 3.36 0.00 45.99 2.83
2022 2095 7.430441 GCACCTGTTTCCTTAAGAAATTTGTA 58.570 34.615 3.36 0.00 45.99 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
131 132 1.972660 GCCCTAGCCCATCTCGTTGT 61.973 60.000 0.00 0.00 0.00 3.32
132 133 1.227674 GCCCTAGCCCATCTCGTTG 60.228 63.158 0.00 0.00 0.00 4.10
220 221 1.766496 AGACTCCACACGAAGGGAAAA 59.234 47.619 0.00 0.00 31.58 2.29
224 225 1.213013 CGAGACTCCACACGAAGGG 59.787 63.158 0.00 0.00 0.00 3.95
232 233 4.863984 GAACCGTCGAGACTCCAC 57.136 61.111 0.00 0.00 0.00 4.02
372 385 3.903714 ACTGACGGATGGAATGGATCATA 59.096 43.478 0.00 0.00 0.00 2.15
449 499 7.183293 TCAGGAACATGTATGGATCATGGATAT 59.817 37.037 0.00 0.00 44.57 1.63
574 627 9.083422 TCTACATAAGATGATTGGAACTCTAGG 57.917 37.037 0.00 0.00 0.00 3.02
650 708 4.890158 TCTTCTTAGGCAACATGACAGA 57.110 40.909 0.00 0.00 41.41 3.41
705 764 9.794685 AAAGTTTCAGATCACTTTCTTTCTTTC 57.205 29.630 3.67 0.00 38.59 2.62
775 834 5.717119 ACTGGTCAATGAAAGAATTGCATC 58.283 37.500 1.73 0.00 37.44 3.91
866 927 1.506493 CCGACTGCTATCATCCAAGC 58.494 55.000 0.00 0.00 39.25 4.01
937 1001 8.803397 TCAGAGACAAAATCATGAAGATCAAT 57.197 30.769 0.00 0.00 35.39 2.57
978 1042 5.606348 TCAAACCATTTGGCAAAGTTACT 57.394 34.783 18.61 0.00 40.98 2.24
991 1055 5.769662 TCTCAAGTGCTAACATCAAACCATT 59.230 36.000 0.00 0.00 0.00 3.16
1084 1148 3.556633 GCTGAGGCTATAGTCACATGCAT 60.557 47.826 7.19 0.00 35.22 3.96
1200 1264 5.605534 ACATTGTCCAAGATATCCTTCTCG 58.394 41.667 0.00 0.00 31.42 4.04
1238 1302 5.314923 TCTTGATGCAAAGTCATTAAGGC 57.685 39.130 0.00 0.00 39.26 4.35
1264 1328 7.067981 AGTGCTTCAGAAAAAGTTTCTTCAGAT 59.932 33.333 0.47 0.00 0.00 2.90
1267 1331 6.150976 TCAGTGCTTCAGAAAAAGTTTCTTCA 59.849 34.615 0.47 0.00 0.00 3.02
1294 1359 7.500992 ACTGACTCCATCGACAACAATAATAT 58.499 34.615 0.00 0.00 0.00 1.28
1350 1415 9.643693 AAAGATAGCAAAATGAAACTAACATGG 57.356 29.630 0.00 0.00 0.00 3.66
1395 1460 7.989416 ATAACTAAATTCAAACCGACTCCAA 57.011 32.000 0.00 0.00 0.00 3.53
1478 1544 3.847780 TGGCCCCTATGTAACTTACAACT 59.152 43.478 0.00 0.00 42.76 3.16
1483 1549 4.787551 CAACATGGCCCCTATGTAACTTA 58.212 43.478 7.56 0.00 37.77 2.24
1527 1594 2.282603 GGCCGGCCCTGTGTTTTA 60.283 61.111 36.64 0.00 0.00 1.52
1548 1615 2.165301 CGCCGCAAGTAGTAGCACC 61.165 63.158 0.00 0.00 0.00 5.01
1549 1616 0.179156 TACGCCGCAAGTAGTAGCAC 60.179 55.000 0.00 0.00 0.00 4.40
1550 1617 0.179156 GTACGCCGCAAGTAGTAGCA 60.179 55.000 0.00 0.00 0.00 3.49
1551 1618 0.179156 TGTACGCCGCAAGTAGTAGC 60.179 55.000 0.00 0.00 0.00 3.58
1552 1619 2.486951 ATGTACGCCGCAAGTAGTAG 57.513 50.000 0.00 0.00 0.00 2.57
1553 1620 2.164017 TCAATGTACGCCGCAAGTAGTA 59.836 45.455 0.00 0.00 0.00 1.82
1554 1621 1.067425 TCAATGTACGCCGCAAGTAGT 60.067 47.619 0.00 0.00 0.00 2.73
1555 1622 1.635844 TCAATGTACGCCGCAAGTAG 58.364 50.000 0.00 0.00 0.00 2.57
1556 1623 1.996898 CTTCAATGTACGCCGCAAGTA 59.003 47.619 0.00 0.00 0.00 2.24
1557 1624 0.796312 CTTCAATGTACGCCGCAAGT 59.204 50.000 0.00 0.00 0.00 3.16
1558 1625 1.075542 TCTTCAATGTACGCCGCAAG 58.924 50.000 0.00 0.00 0.00 4.01
1559 1626 1.463056 CTTCTTCAATGTACGCCGCAA 59.537 47.619 0.00 0.00 0.00 4.85
1560 1627 1.075542 CTTCTTCAATGTACGCCGCA 58.924 50.000 0.00 0.00 0.00 5.69
1561 1628 1.076332 ACTTCTTCAATGTACGCCGC 58.924 50.000 0.00 0.00 0.00 6.53
1562 1629 2.066262 ACACTTCTTCAATGTACGCCG 58.934 47.619 0.00 0.00 0.00 6.46
1563 1630 5.600908 TTTACACTTCTTCAATGTACGCC 57.399 39.130 0.00 0.00 0.00 5.68
1564 1631 7.130269 AGTTTTTACACTTCTTCAATGTACGC 58.870 34.615 0.00 0.00 0.00 4.42
1565 1632 8.943925 CAAGTTTTTACACTTCTTCAATGTACG 58.056 33.333 0.00 0.00 34.60 3.67
1566 1633 9.233232 CCAAGTTTTTACACTTCTTCAATGTAC 57.767 33.333 0.00 0.00 34.60 2.90
1567 1634 7.918562 GCCAAGTTTTTACACTTCTTCAATGTA 59.081 33.333 0.00 0.00 34.60 2.29
1568 1635 6.756542 GCCAAGTTTTTACACTTCTTCAATGT 59.243 34.615 0.00 0.00 34.60 2.71
1569 1636 6.980397 AGCCAAGTTTTTACACTTCTTCAATG 59.020 34.615 0.00 0.00 34.60 2.82
1570 1637 7.112452 AGCCAAGTTTTTACACTTCTTCAAT 57.888 32.000 0.00 0.00 34.60 2.57
1571 1638 6.524101 AGCCAAGTTTTTACACTTCTTCAA 57.476 33.333 0.00 0.00 34.60 2.69
1572 1639 5.220777 CGAGCCAAGTTTTTACACTTCTTCA 60.221 40.000 0.00 0.00 34.60 3.02
1573 1640 5.205565 CGAGCCAAGTTTTTACACTTCTTC 58.794 41.667 0.00 0.00 34.60 2.87
1574 1641 4.036380 CCGAGCCAAGTTTTTACACTTCTT 59.964 41.667 0.00 0.00 34.60 2.52
1575 1642 3.564225 CCGAGCCAAGTTTTTACACTTCT 59.436 43.478 0.00 0.00 34.60 2.85
1576 1643 3.562557 TCCGAGCCAAGTTTTTACACTTC 59.437 43.478 0.00 0.00 34.60 3.01
1577 1644 3.314357 GTCCGAGCCAAGTTTTTACACTT 59.686 43.478 0.00 0.00 37.49 3.16
1578 1645 2.876550 GTCCGAGCCAAGTTTTTACACT 59.123 45.455 0.00 0.00 0.00 3.55
1579 1646 2.349155 CGTCCGAGCCAAGTTTTTACAC 60.349 50.000 0.00 0.00 0.00 2.90
1580 1647 1.868498 CGTCCGAGCCAAGTTTTTACA 59.132 47.619 0.00 0.00 0.00 2.41
1581 1648 1.869132 ACGTCCGAGCCAAGTTTTTAC 59.131 47.619 0.00 0.00 0.00 2.01
1582 1649 1.868498 CACGTCCGAGCCAAGTTTTTA 59.132 47.619 0.00 0.00 0.00 1.52
1583 1650 0.661020 CACGTCCGAGCCAAGTTTTT 59.339 50.000 0.00 0.00 0.00 1.94
1584 1651 1.782028 GCACGTCCGAGCCAAGTTTT 61.782 55.000 0.00 0.00 0.00 2.43
1585 1652 2.251642 GCACGTCCGAGCCAAGTTT 61.252 57.895 0.00 0.00 0.00 2.66
1586 1653 2.665185 GCACGTCCGAGCCAAGTT 60.665 61.111 0.00 0.00 0.00 2.66
1587 1654 2.933878 TTTGCACGTCCGAGCCAAGT 62.934 55.000 6.65 0.00 0.00 3.16
1588 1655 2.250939 TTTGCACGTCCGAGCCAAG 61.251 57.895 6.65 0.00 0.00 3.61
1589 1656 2.203084 TTTGCACGTCCGAGCCAA 60.203 55.556 6.65 0.00 0.00 4.52
1590 1657 2.970324 GTTTGCACGTCCGAGCCA 60.970 61.111 6.65 0.00 0.00 4.75
1591 1658 2.970324 TGTTTGCACGTCCGAGCC 60.970 61.111 6.65 0.00 0.00 4.70
1592 1659 2.248431 GTGTTTGCACGTCCGAGC 59.752 61.111 2.09 2.09 35.75 5.03
1602 1669 2.118228 TCGATTTGCACTGTGTTTGC 57.882 45.000 9.86 0.00 40.63 3.68
1603 1670 5.425398 CAAATTCGATTTGCACTGTGTTTG 58.575 37.500 9.86 5.20 42.57 2.93
1604 1671 4.507388 CCAAATTCGATTTGCACTGTGTTT 59.493 37.500 9.86 0.00 46.27 2.83
1605 1672 4.050553 CCAAATTCGATTTGCACTGTGTT 58.949 39.130 9.86 0.00 46.27 3.32
1606 1673 3.317711 TCCAAATTCGATTTGCACTGTGT 59.682 39.130 9.86 0.00 46.27 3.72
1607 1674 3.899734 TCCAAATTCGATTTGCACTGTG 58.100 40.909 2.76 2.76 46.27 3.66
1608 1675 4.789012 ATCCAAATTCGATTTGCACTGT 57.211 36.364 12.18 0.00 46.27 3.55
1609 1676 6.415867 GTCATATCCAAATTCGATTTGCACTG 59.584 38.462 12.18 8.27 46.27 3.66
1610 1677 6.319658 AGTCATATCCAAATTCGATTTGCACT 59.680 34.615 12.18 6.33 46.27 4.40
1611 1678 6.498304 AGTCATATCCAAATTCGATTTGCAC 58.502 36.000 12.18 4.90 46.27 4.57
1612 1679 6.698008 AGTCATATCCAAATTCGATTTGCA 57.302 33.333 12.18 0.00 46.27 4.08
1613 1680 7.301054 CCTAGTCATATCCAAATTCGATTTGC 58.699 38.462 12.18 0.00 46.27 3.68
1614 1681 7.173907 AGCCTAGTCATATCCAAATTCGATTTG 59.826 37.037 11.19 11.19 46.98 2.32
1615 1682 7.227156 AGCCTAGTCATATCCAAATTCGATTT 58.773 34.615 0.00 0.00 0.00 2.17
1616 1683 6.773638 AGCCTAGTCATATCCAAATTCGATT 58.226 36.000 0.00 0.00 0.00 3.34
1617 1684 6.365970 AGCCTAGTCATATCCAAATTCGAT 57.634 37.500 0.00 0.00 0.00 3.59
1618 1685 5.808366 AGCCTAGTCATATCCAAATTCGA 57.192 39.130 0.00 0.00 0.00 3.71
1619 1686 5.334414 GCAAGCCTAGTCATATCCAAATTCG 60.334 44.000 0.00 0.00 0.00 3.34
1620 1687 5.048434 GGCAAGCCTAGTCATATCCAAATTC 60.048 44.000 3.29 0.00 0.00 2.17
1621 1688 4.829492 GGCAAGCCTAGTCATATCCAAATT 59.171 41.667 3.29 0.00 0.00 1.82
1622 1689 4.105377 AGGCAAGCCTAGTCATATCCAAAT 59.895 41.667 12.82 0.00 46.14 2.32
1623 1690 3.459598 AGGCAAGCCTAGTCATATCCAAA 59.540 43.478 12.82 0.00 46.14 3.28
1624 1691 3.048600 AGGCAAGCCTAGTCATATCCAA 58.951 45.455 12.82 0.00 46.14 3.53
1625 1692 2.369860 CAGGCAAGCCTAGTCATATCCA 59.630 50.000 14.18 0.00 46.28 3.41
1626 1693 2.873649 GCAGGCAAGCCTAGTCATATCC 60.874 54.545 14.18 0.00 46.28 2.59
1627 1694 2.038295 AGCAGGCAAGCCTAGTCATATC 59.962 50.000 14.18 0.00 46.28 1.63
1628 1695 2.053244 AGCAGGCAAGCCTAGTCATAT 58.947 47.619 14.18 0.00 46.28 1.78
1629 1696 1.500474 AGCAGGCAAGCCTAGTCATA 58.500 50.000 14.18 0.00 46.28 2.15
1630 1697 0.622665 AAGCAGGCAAGCCTAGTCAT 59.377 50.000 14.18 0.00 46.28 3.06
1631 1698 0.321919 CAAGCAGGCAAGCCTAGTCA 60.322 55.000 14.18 0.00 46.28 3.41
1632 1699 1.028868 CCAAGCAGGCAAGCCTAGTC 61.029 60.000 14.18 6.21 46.28 2.59
1633 1700 1.001641 CCAAGCAGGCAAGCCTAGT 60.002 57.895 14.18 0.57 46.28 2.57
1634 1701 3.915575 CCAAGCAGGCAAGCCTAG 58.084 61.111 14.18 9.45 46.28 3.02
1643 1710 3.365265 GAACCCGTGCCAAGCAGG 61.365 66.667 2.40 2.40 40.08 4.85
1644 1711 3.365265 GGAACCCGTGCCAAGCAG 61.365 66.667 0.00 0.00 40.08 4.24
1655 1722 1.668151 GTCACAGACAGCGGAACCC 60.668 63.158 0.00 0.00 32.09 4.11
1656 1723 0.667792 GAGTCACAGACAGCGGAACC 60.668 60.000 0.00 0.00 34.60 3.62
1657 1724 0.032130 TGAGTCACAGACAGCGGAAC 59.968 55.000 0.00 0.00 34.60 3.62
1658 1725 0.750249 TTGAGTCACAGACAGCGGAA 59.250 50.000 0.00 0.00 34.60 4.30
1659 1726 0.750249 TTTGAGTCACAGACAGCGGA 59.250 50.000 0.00 0.00 34.60 5.54
1660 1727 1.143305 CTTTGAGTCACAGACAGCGG 58.857 55.000 0.00 0.00 34.60 5.52
1661 1728 1.143305 CCTTTGAGTCACAGACAGCG 58.857 55.000 7.90 0.00 34.60 5.18
1662 1729 2.246719 ACCTTTGAGTCACAGACAGC 57.753 50.000 7.90 0.00 34.60 4.40
1663 1730 3.306364 CCCTACCTTTGAGTCACAGACAG 60.306 52.174 7.90 4.40 34.60 3.51
1664 1731 2.632996 CCCTACCTTTGAGTCACAGACA 59.367 50.000 7.90 0.00 34.60 3.41
1665 1732 2.897969 TCCCTACCTTTGAGTCACAGAC 59.102 50.000 7.90 0.00 0.00 3.51
1666 1733 3.165875 CTCCCTACCTTTGAGTCACAGA 58.834 50.000 7.90 0.00 0.00 3.41
1667 1734 2.234908 CCTCCCTACCTTTGAGTCACAG 59.765 54.545 0.00 0.00 0.00 3.66
1668 1735 2.158219 TCCTCCCTACCTTTGAGTCACA 60.158 50.000 0.00 0.00 0.00 3.58
1669 1736 2.234168 GTCCTCCCTACCTTTGAGTCAC 59.766 54.545 0.00 0.00 0.00 3.67
1670 1737 2.537143 GTCCTCCCTACCTTTGAGTCA 58.463 52.381 0.00 0.00 0.00 3.41
1671 1738 1.477295 CGTCCTCCCTACCTTTGAGTC 59.523 57.143 0.00 0.00 0.00 3.36
1672 1739 1.203149 ACGTCCTCCCTACCTTTGAGT 60.203 52.381 0.00 0.00 0.00 3.41
1673 1740 1.204941 CACGTCCTCCCTACCTTTGAG 59.795 57.143 0.00 0.00 0.00 3.02
1674 1741 1.263356 CACGTCCTCCCTACCTTTGA 58.737 55.000 0.00 0.00 0.00 2.69
1675 1742 0.974383 ACACGTCCTCCCTACCTTTG 59.026 55.000 0.00 0.00 0.00 2.77
1676 1743 0.974383 CACACGTCCTCCCTACCTTT 59.026 55.000 0.00 0.00 0.00 3.11
1677 1744 0.903454 CCACACGTCCTCCCTACCTT 60.903 60.000 0.00 0.00 0.00 3.50
1678 1745 1.305046 CCACACGTCCTCCCTACCT 60.305 63.158 0.00 0.00 0.00 3.08
1679 1746 3.015312 GCCACACGTCCTCCCTACC 62.015 68.421 0.00 0.00 0.00 3.18
1680 1747 2.577593 GCCACACGTCCTCCCTAC 59.422 66.667 0.00 0.00 0.00 3.18
1681 1748 2.682494 GGCCACACGTCCTCCCTA 60.682 66.667 0.00 0.00 0.00 3.53
1682 1749 4.640690 AGGCCACACGTCCTCCCT 62.641 66.667 5.01 0.00 0.00 4.20
1683 1750 4.394712 CAGGCCACACGTCCTCCC 62.395 72.222 5.01 0.00 0.00 4.30
1684 1751 2.676163 AAACAGGCCACACGTCCTCC 62.676 60.000 5.01 0.00 0.00 4.30
1685 1752 0.818040 AAAACAGGCCACACGTCCTC 60.818 55.000 5.01 0.00 0.00 3.71
1686 1753 0.395173 AAAAACAGGCCACACGTCCT 60.395 50.000 5.01 0.00 0.00 3.85
1687 1754 2.112029 AAAAACAGGCCACACGTCC 58.888 52.632 5.01 0.00 0.00 4.79
1740 1808 0.395173 ACGTCAACAGGGGCTTTTGT 60.395 50.000 0.00 0.00 0.00 2.83
1743 1811 1.106944 CCAACGTCAACAGGGGCTTT 61.107 55.000 0.00 0.00 0.00 3.51
1747 1815 1.178534 AATGCCAACGTCAACAGGGG 61.179 55.000 0.00 0.00 0.00 4.79
1788 1858 1.801332 CGACAGACGGGACCTACTG 59.199 63.158 10.06 10.06 38.46 2.74
1799 1869 5.600908 TTTTAAATACTGCACCGACAGAC 57.399 39.130 7.01 0.00 40.25 3.51
1800 1870 6.811253 AATTTTAAATACTGCACCGACAGA 57.189 33.333 7.01 0.00 40.25 3.41
1801 1871 7.065324 TCCTAATTTTAAATACTGCACCGACAG 59.935 37.037 0.00 0.00 43.59 3.51
1818 1888 7.763985 CGGGCTTACATTTTTCATCCTAATTTT 59.236 33.333 0.00 0.00 0.00 1.82
1826 1896 2.758423 ACCCGGGCTTACATTTTTCATC 59.242 45.455 24.08 0.00 0.00 2.92
1828 1898 2.164338 GACCCGGGCTTACATTTTTCA 58.836 47.619 24.08 0.00 0.00 2.69
1829 1899 2.422479 GAGACCCGGGCTTACATTTTTC 59.578 50.000 24.08 6.32 0.00 2.29
1836 1906 1.117150 TGTATGAGACCCGGGCTTAC 58.883 55.000 24.08 17.84 0.00 2.34
1844 1914 3.735181 GGTCGTGTGTATGAGACCC 57.265 57.895 2.29 0.00 45.39 4.46
1851 1922 0.454600 CTAGCCGTGGTCGTGTGTAT 59.545 55.000 0.00 0.00 35.01 2.29
1852 1923 1.878070 CTAGCCGTGGTCGTGTGTA 59.122 57.895 0.00 0.00 35.01 2.90
1856 1927 2.809601 GTGCTAGCCGTGGTCGTG 60.810 66.667 13.29 0.00 35.01 4.35
1857 1928 3.299977 TGTGCTAGCCGTGGTCGT 61.300 61.111 13.29 0.00 35.01 4.34
1881 1952 4.092968 CGTAATTGGTGGAGTTGCTAAGTC 59.907 45.833 0.00 0.00 0.00 3.01
1887 1958 2.423577 AGACGTAATTGGTGGAGTTGC 58.576 47.619 0.00 0.00 0.00 4.17
1888 1959 4.062293 TCAAGACGTAATTGGTGGAGTTG 58.938 43.478 11.79 0.00 0.00 3.16
1889 1960 4.062991 GTCAAGACGTAATTGGTGGAGTT 58.937 43.478 11.79 0.00 0.00 3.01
1912 1983 3.793559 ACGTGAGTTATGTAATGAGGCC 58.206 45.455 0.00 0.00 46.40 5.19
1958 2030 1.817357 CAGCACATTTCAGCTCCAGA 58.183 50.000 0.00 0.00 39.50 3.86
1982 2055 2.359850 TGCGAATGGGCCACACTC 60.360 61.111 9.28 5.07 0.00 3.51
1986 2059 3.443045 CAGGTGCGAATGGGCCAC 61.443 66.667 9.28 0.00 0.00 5.01
1987 2060 2.992817 AAACAGGTGCGAATGGGCCA 62.993 55.000 9.61 9.61 0.00 5.36
1988 2061 2.212900 GAAACAGGTGCGAATGGGCC 62.213 60.000 0.00 0.00 0.00 5.80
1991 2064 1.247567 AAGGAAACAGGTGCGAATGG 58.752 50.000 0.00 0.00 0.00 3.16
2022 2095 9.901172 ATGGAGATTAGAATTTACGTACCTTTT 57.099 29.630 0.00 0.00 0.00 2.27


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

AutoCloner maintained by Alex Coulton.