Multiple sequence alignment - TraesCS1B01G451300

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 TraesCS1B01G451300 chr1B 100.000 2309 0 0 1 2309 668918596 668920904 0.000000e+00 4265
1 TraesCS1B01G451300 chr7D 98.103 1529 28 1 1 1528 23563082 23564610 0.000000e+00 2662
2 TraesCS1B01G451300 chr7D 97.907 1529 31 1 1 1528 135769093 135770621 0.000000e+00 2645
3 TraesCS1B01G451300 chr7D 97.842 1529 32 1 1 1528 400291676 400290148 0.000000e+00 2639
4 TraesCS1B01G451300 chr7D 97.711 1529 34 1 1 1528 135763962 135762434 0.000000e+00 2628
5 TraesCS1B01G451300 chr7D 97.646 1529 35 1 1 1528 14171011 14169483 0.000000e+00 2623
6 TraesCS1B01G451300 chr3D 97.776 1529 33 1 1 1528 564344208 564345736 0.000000e+00 2634
7 TraesCS1B01G451300 chr6D 97.711 1529 34 1 1 1528 402531207 402529679 0.000000e+00 2628
8 TraesCS1B01G451300 chr6D 97.449 1529 38 1 1 1528 392049939 392048411 0.000000e+00 2606
9 TraesCS1B01G451300 chr2D 97.646 1529 35 1 1 1528 70659368 70657840 0.000000e+00 2623
10 TraesCS1B01G451300 chr1D 89.716 282 22 4 1655 1932 480527002 480527280 1.010000e-93 353
11 TraesCS1B01G451300 chr1D 83.019 212 18 4 1991 2185 480527566 480527776 2.360000e-40 176
12 TraesCS1B01G451300 chr1D 83.019 212 18 4 1991 2185 480528173 480528383 2.360000e-40 176
13 TraesCS1B01G451300 chr3B 87.156 109 10 4 1754 1858 567805835 567805727 1.120000e-23 121


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 TraesCS1B01G451300 chr1B 668918596 668920904 2308 False 4265 4265 100.000000 1 2309 1 chr1B.!!$F1 2308
1 TraesCS1B01G451300 chr7D 23563082 23564610 1528 False 2662 2662 98.103000 1 1528 1 chr7D.!!$F1 1527
2 TraesCS1B01G451300 chr7D 135769093 135770621 1528 False 2645 2645 97.907000 1 1528 1 chr7D.!!$F2 1527
3 TraesCS1B01G451300 chr7D 400290148 400291676 1528 True 2639 2639 97.842000 1 1528 1 chr7D.!!$R3 1527
4 TraesCS1B01G451300 chr7D 135762434 135763962 1528 True 2628 2628 97.711000 1 1528 1 chr7D.!!$R2 1527
5 TraesCS1B01G451300 chr7D 14169483 14171011 1528 True 2623 2623 97.646000 1 1528 1 chr7D.!!$R1 1527
6 TraesCS1B01G451300 chr3D 564344208 564345736 1528 False 2634 2634 97.776000 1 1528 1 chr3D.!!$F1 1527
7 TraesCS1B01G451300 chr6D 402529679 402531207 1528 True 2628 2628 97.711000 1 1528 1 chr6D.!!$R2 1527
8 TraesCS1B01G451300 chr6D 392048411 392049939 1528 True 2606 2606 97.449000 1 1528 1 chr6D.!!$R1 1527
9 TraesCS1B01G451300 chr2D 70657840 70659368 1528 True 2623 2623 97.646000 1 1528 1 chr2D.!!$R1 1527
10 TraesCS1B01G451300 chr1D 480527002 480528383 1381 False 235 353 85.251333 1655 2185 3 chr1D.!!$F1 530

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
130 131 1.717791 GCCATGCGCTTGTCATAGCA 61.718 55.0 20.4 4.44 41.28 3.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1610 1612 0.035739 AACGACACGGTGGCCTAATT 59.964 50.0 13.48 0.0 0.0 1.4 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
130 131 1.717791 GCCATGCGCTTGTCATAGCA 61.718 55.000 20.40 4.44 41.28 3.49
332 333 4.935352 AGAGTGTTCAGGCTATCAGATC 57.065 45.455 0.00 0.00 0.00 2.75
442 443 3.374058 GGCTAGCGCACTTGAGAAATTTA 59.626 43.478 11.47 0.00 38.10 1.40
571 572 5.411977 CAGATTGAAGGTGCCATCTCATATC 59.588 44.000 0.00 0.00 0.00 1.63
835 836 7.176589 ACTACTAGATTTGAGGAACTGAAGG 57.823 40.000 0.00 0.00 41.55 3.46
1026 1027 2.702898 TGCCAAACACATTCATGTCG 57.297 45.000 0.00 0.00 39.39 4.35
1062 1063 4.265904 TGAGTTTGTTAGAGATGCGGAA 57.734 40.909 0.00 0.00 0.00 4.30
1102 1103 7.012327 TCTCAATTGCTTATCGTATCCTTTTGG 59.988 37.037 0.00 0.00 42.21 3.28
1133 1134 3.057736 GTGACTGTTGCATCAGCTGAAAT 60.058 43.478 22.50 1.31 42.74 2.17
1211 1212 7.343068 CAAGAAAGATTGAATGGATTGGCCAC 61.343 42.308 3.88 0.00 40.11 5.01
1313 1314 3.589988 AGTCTCGTTTCACATGATCACC 58.410 45.455 0.00 0.00 0.00 4.02
1334 1335 3.733337 CGGAGGTTAGCATGCTATTTCT 58.267 45.455 27.35 22.24 0.00 2.52
1411 1412 8.199449 ACAGGGAAAATAACATATGCTTGATTG 58.801 33.333 1.58 0.00 0.00 2.67
1492 1494 4.934356 TGGATTTTTGTCTCTATTGGGCT 58.066 39.130 0.00 0.00 0.00 5.19
1496 1498 3.350219 TTTGTCTCTATTGGGCTCACC 57.650 47.619 0.00 0.00 40.81 4.02
1528 1530 2.186826 CCGGGGCCATCGAAATCAC 61.187 63.158 17.64 0.00 0.00 3.06
1529 1531 1.153168 CGGGGCCATCGAAATCACT 60.153 57.895 4.39 0.00 0.00 3.41
1530 1532 1.439353 CGGGGCCATCGAAATCACTG 61.439 60.000 4.39 0.00 0.00 3.66
1531 1533 1.103398 GGGGCCATCGAAATCACTGG 61.103 60.000 4.39 0.00 0.00 4.00
1532 1534 0.394352 GGGCCATCGAAATCACTGGT 60.394 55.000 4.39 0.00 0.00 4.00
1533 1535 1.017387 GGCCATCGAAATCACTGGTC 58.983 55.000 0.00 0.00 0.00 4.02
1534 1536 0.652592 GCCATCGAAATCACTGGTCG 59.347 55.000 2.64 0.00 36.12 4.79
1535 1537 1.290203 CCATCGAAATCACTGGTCGG 58.710 55.000 0.00 0.00 35.51 4.79
1536 1538 1.405526 CCATCGAAATCACTGGTCGGT 60.406 52.381 0.00 0.00 35.51 4.69
1537 1539 1.660607 CATCGAAATCACTGGTCGGTG 59.339 52.381 3.66 3.66 39.29 4.94
1538 1540 0.677288 TCGAAATCACTGGTCGGTGT 59.323 50.000 9.44 0.00 38.28 4.16
1539 1541 0.790207 CGAAATCACTGGTCGGTGTG 59.210 55.000 9.44 0.00 38.28 3.82
1540 1542 0.517316 GAAATCACTGGTCGGTGTGC 59.483 55.000 9.44 0.00 38.28 4.57
1541 1543 0.108585 AAATCACTGGTCGGTGTGCT 59.891 50.000 9.44 0.00 38.28 4.40
1542 1544 0.320771 AATCACTGGTCGGTGTGCTC 60.321 55.000 9.44 0.00 38.28 4.26
1543 1545 2.172483 ATCACTGGTCGGTGTGCTCC 62.172 60.000 9.44 0.00 38.28 4.70
1544 1546 2.842462 ACTGGTCGGTGTGCTCCA 60.842 61.111 0.00 0.00 0.00 3.86
1545 1547 2.217038 ACTGGTCGGTGTGCTCCAT 61.217 57.895 0.00 0.00 0.00 3.41
1546 1548 1.742880 CTGGTCGGTGTGCTCCATG 60.743 63.158 0.00 0.00 0.00 3.66
1547 1549 2.347490 GGTCGGTGTGCTCCATGT 59.653 61.111 0.00 0.00 0.00 3.21
1548 1550 1.741770 GGTCGGTGTGCTCCATGTC 60.742 63.158 0.00 0.00 0.00 3.06
1549 1551 1.741770 GTCGGTGTGCTCCATGTCC 60.742 63.158 0.00 0.00 0.00 4.02
1550 1552 2.213513 TCGGTGTGCTCCATGTCCA 61.214 57.895 0.00 0.00 0.00 4.02
1551 1553 1.078214 CGGTGTGCTCCATGTCCAT 60.078 57.895 0.00 0.00 0.00 3.41
1552 1554 1.371337 CGGTGTGCTCCATGTCCATG 61.371 60.000 0.14 0.14 38.51 3.66
1553 1555 1.660560 GGTGTGCTCCATGTCCATGC 61.661 60.000 1.64 0.00 37.49 4.06
1554 1556 1.378911 TGTGCTCCATGTCCATGCC 60.379 57.895 1.64 0.00 37.49 4.40
1555 1557 2.123428 GTGCTCCATGTCCATGCCC 61.123 63.158 1.64 0.00 37.49 5.36
1556 1558 2.276409 GCTCCATGTCCATGCCCA 59.724 61.111 1.64 0.00 37.49 5.36
1557 1559 1.152610 GCTCCATGTCCATGCCCAT 60.153 57.895 1.64 0.00 37.49 4.00
1558 1560 1.461091 GCTCCATGTCCATGCCCATG 61.461 60.000 13.18 13.18 38.51 3.66
1559 1561 0.106369 CTCCATGTCCATGCCCATGT 60.106 55.000 16.81 0.00 37.37 3.21
1560 1562 0.335705 TCCATGTCCATGCCCATGTT 59.664 50.000 16.81 0.00 37.37 2.71
1561 1563 0.462375 CCATGTCCATGCCCATGTTG 59.538 55.000 16.81 4.38 37.37 3.33
1562 1564 0.179094 CATGTCCATGCCCATGTTGC 60.179 55.000 12.32 0.00 37.11 4.17
1563 1565 1.669049 ATGTCCATGCCCATGTTGCG 61.669 55.000 7.42 0.00 37.11 4.85
1564 1566 2.755064 TCCATGCCCATGTTGCGG 60.755 61.111 7.42 0.00 37.11 5.69
1566 1568 3.069946 CATGCCCATGTTGCGGGT 61.070 61.111 0.13 0.00 46.40 5.28
1567 1569 1.752310 CATGCCCATGTTGCGGGTA 60.752 57.895 0.13 0.00 46.40 3.69
1568 1570 1.453745 ATGCCCATGTTGCGGGTAG 60.454 57.895 0.00 0.00 46.40 3.18
1569 1571 1.920734 ATGCCCATGTTGCGGGTAGA 61.921 55.000 0.00 0.00 46.40 2.59
1570 1572 1.152963 GCCCATGTTGCGGGTAGAT 60.153 57.895 0.00 0.00 46.40 1.98
1571 1573 1.447317 GCCCATGTTGCGGGTAGATG 61.447 60.000 0.00 0.00 46.40 2.90
1572 1574 0.180171 CCCATGTTGCGGGTAGATGA 59.820 55.000 0.00 0.00 39.05 2.92
1573 1575 1.586422 CCATGTTGCGGGTAGATGAG 58.414 55.000 0.00 0.00 0.00 2.90
1574 1576 1.138859 CCATGTTGCGGGTAGATGAGA 59.861 52.381 0.00 0.00 0.00 3.27
1575 1577 2.224378 CCATGTTGCGGGTAGATGAGAT 60.224 50.000 0.00 0.00 0.00 2.75
1576 1578 2.890808 TGTTGCGGGTAGATGAGATC 57.109 50.000 0.00 0.00 0.00 2.75
1577 1579 1.412710 TGTTGCGGGTAGATGAGATCC 59.587 52.381 0.00 0.00 0.00 3.36
1578 1580 0.673985 TTGCGGGTAGATGAGATCCG 59.326 55.000 0.00 0.00 43.13 4.18
1579 1581 0.179001 TGCGGGTAGATGAGATCCGA 60.179 55.000 4.15 0.00 42.94 4.55
1580 1582 1.178276 GCGGGTAGATGAGATCCGAT 58.822 55.000 4.15 0.00 42.94 4.18
1581 1583 1.133407 GCGGGTAGATGAGATCCGATC 59.867 57.143 4.15 0.00 42.94 3.69
1582 1584 1.398739 CGGGTAGATGAGATCCGATCG 59.601 57.143 8.51 8.51 42.94 3.69
1583 1585 2.712709 GGGTAGATGAGATCCGATCGA 58.287 52.381 18.66 2.91 0.00 3.59
1584 1586 2.680841 GGGTAGATGAGATCCGATCGAG 59.319 54.545 18.66 6.99 0.00 4.04
1585 1587 2.680841 GGTAGATGAGATCCGATCGAGG 59.319 54.545 18.66 0.00 0.00 4.63
1586 1588 2.869101 AGATGAGATCCGATCGAGGA 57.131 50.000 18.66 6.61 45.54 3.71
1587 1589 2.432444 AGATGAGATCCGATCGAGGAC 58.568 52.381 18.66 5.11 44.07 3.85
1588 1590 1.129624 GATGAGATCCGATCGAGGACG 59.870 57.143 18.66 0.00 44.07 4.79
1601 1603 4.505313 TCGAGGACGATGATTGATTAGG 57.495 45.455 0.00 0.00 43.81 2.69
1602 1604 3.889538 TCGAGGACGATGATTGATTAGGT 59.110 43.478 0.00 0.00 43.81 3.08
1603 1605 5.067954 TCGAGGACGATGATTGATTAGGTA 58.932 41.667 0.00 0.00 43.81 3.08
1604 1606 5.181433 TCGAGGACGATGATTGATTAGGTAG 59.819 44.000 0.00 0.00 43.81 3.18
1605 1607 5.140747 AGGACGATGATTGATTAGGTAGC 57.859 43.478 0.00 0.00 0.00 3.58
1606 1608 4.835615 AGGACGATGATTGATTAGGTAGCT 59.164 41.667 0.00 0.00 0.00 3.32
1607 1609 5.305644 AGGACGATGATTGATTAGGTAGCTT 59.694 40.000 0.00 0.00 0.00 3.74
1608 1610 6.493802 AGGACGATGATTGATTAGGTAGCTTA 59.506 38.462 0.00 0.00 0.00 3.09
1609 1611 6.809196 GGACGATGATTGATTAGGTAGCTTAG 59.191 42.308 0.00 0.00 0.00 2.18
1610 1612 7.309255 GGACGATGATTGATTAGGTAGCTTAGA 60.309 40.741 0.00 0.00 0.00 2.10
1611 1613 7.952671 ACGATGATTGATTAGGTAGCTTAGAA 58.047 34.615 0.00 0.00 0.00 2.10
1612 1614 8.589338 ACGATGATTGATTAGGTAGCTTAGAAT 58.411 33.333 0.00 0.00 0.00 2.40
1613 1615 9.429359 CGATGATTGATTAGGTAGCTTAGAATT 57.571 33.333 0.00 0.00 0.00 2.17
1617 1619 9.157104 GATTGATTAGGTAGCTTAGAATTAGGC 57.843 37.037 0.00 0.00 32.40 3.93
1618 1620 7.005709 TGATTAGGTAGCTTAGAATTAGGCC 57.994 40.000 0.00 0.00 32.63 5.19
1619 1621 6.557253 TGATTAGGTAGCTTAGAATTAGGCCA 59.443 38.462 5.01 0.00 32.63 5.36
1620 1622 4.691326 AGGTAGCTTAGAATTAGGCCAC 57.309 45.455 5.01 0.00 32.63 5.01
1621 1623 3.391626 AGGTAGCTTAGAATTAGGCCACC 59.608 47.826 5.01 0.00 41.70 4.61
1622 1624 2.622064 AGCTTAGAATTAGGCCACCG 57.378 50.000 5.01 0.00 32.63 4.94
1623 1625 1.838077 AGCTTAGAATTAGGCCACCGT 59.162 47.619 5.01 0.00 32.63 4.83
1624 1626 1.940613 GCTTAGAATTAGGCCACCGTG 59.059 52.381 5.01 0.00 0.00 4.94
1625 1627 2.679930 GCTTAGAATTAGGCCACCGTGT 60.680 50.000 5.01 0.00 0.00 4.49
1626 1628 2.973694 TAGAATTAGGCCACCGTGTC 57.026 50.000 5.01 0.00 0.00 3.67
1627 1629 0.108329 AGAATTAGGCCACCGTGTCG 60.108 55.000 5.01 0.00 0.00 4.35
1628 1630 0.390735 GAATTAGGCCACCGTGTCGT 60.391 55.000 5.01 0.00 0.00 4.34
1629 1631 0.035739 AATTAGGCCACCGTGTCGTT 59.964 50.000 5.01 0.00 0.00 3.85
1630 1632 0.896923 ATTAGGCCACCGTGTCGTTA 59.103 50.000 5.01 0.00 0.00 3.18
1631 1633 0.038343 TTAGGCCACCGTGTCGTTAC 60.038 55.000 5.01 0.00 0.00 2.50
1632 1634 2.198906 TAGGCCACCGTGTCGTTACG 62.199 60.000 5.01 0.00 43.35 3.18
1633 1635 2.050168 GCCACCGTGTCGTTACGA 60.050 61.111 2.33 2.33 46.46 3.43
1634 1636 1.661197 GCCACCGTGTCGTTACGAA 60.661 57.895 9.65 0.00 46.46 3.85
1635 1637 1.214373 GCCACCGTGTCGTTACGAAA 61.214 55.000 9.65 0.00 46.46 3.46
1636 1638 0.780002 CCACCGTGTCGTTACGAAAG 59.220 55.000 9.65 3.73 46.46 2.62
1637 1639 0.160182 CACCGTGTCGTTACGAAAGC 59.840 55.000 9.65 0.00 46.46 3.51
1638 1640 0.248990 ACCGTGTCGTTACGAAAGCA 60.249 50.000 9.65 0.04 46.46 3.91
1639 1641 0.433492 CCGTGTCGTTACGAAAGCAG 59.567 55.000 9.65 0.00 46.46 4.24
1640 1642 1.126079 CGTGTCGTTACGAAAGCAGT 58.874 50.000 9.65 0.00 46.46 4.40
1641 1643 1.519758 CGTGTCGTTACGAAAGCAGTT 59.480 47.619 9.65 0.00 46.46 3.16
1642 1644 2.655577 CGTGTCGTTACGAAAGCAGTTG 60.656 50.000 9.65 0.00 46.46 3.16
1643 1645 1.862201 TGTCGTTACGAAAGCAGTTGG 59.138 47.619 9.65 0.00 37.72 3.77
1644 1646 1.193874 GTCGTTACGAAAGCAGTTGGG 59.806 52.381 9.65 0.00 37.72 4.12
1645 1647 1.068895 TCGTTACGAAAGCAGTTGGGA 59.931 47.619 4.50 0.00 31.06 4.37
1646 1648 1.868498 CGTTACGAAAGCAGTTGGGAA 59.132 47.619 0.00 0.00 0.00 3.97
1647 1649 2.349155 CGTTACGAAAGCAGTTGGGAAC 60.349 50.000 0.00 1.57 35.86 3.62
1648 1650 1.504359 TACGAAAGCAGTTGGGAACG 58.496 50.000 0.00 0.00 36.23 3.95
1649 1651 1.082104 CGAAAGCAGTTGGGAACGC 60.082 57.895 0.00 0.00 36.23 4.84
1650 1652 1.781025 CGAAAGCAGTTGGGAACGCA 61.781 55.000 0.00 0.00 34.79 5.24
1651 1653 0.598065 GAAAGCAGTTGGGAACGCAT 59.402 50.000 0.00 0.00 34.79 4.73
1652 1654 0.314935 AAAGCAGTTGGGAACGCATG 59.685 50.000 0.00 0.00 34.79 4.06
1653 1655 0.537143 AAGCAGTTGGGAACGCATGA 60.537 50.000 0.00 0.00 34.79 3.07
1683 1685 2.899339 GCTGCGGCAGAATCCCTC 60.899 66.667 32.72 9.86 38.54 4.30
1684 1686 2.906458 CTGCGGCAGAATCCCTCT 59.094 61.111 25.33 0.00 32.44 3.69
1690 1692 1.875576 CGGCAGAATCCCTCTATGCAC 60.876 57.143 0.00 0.00 31.12 4.57
1702 1704 0.578683 CTATGCACGCGTGAATGGAG 59.421 55.000 41.19 26.89 29.30 3.86
1711 1713 5.623335 CACGCGTGAATGGAGTAATAAAAA 58.377 37.500 34.93 0.00 0.00 1.94
1792 1797 1.134280 CCAATGGCTAGGGTCAGAGTG 60.134 57.143 0.00 0.00 0.00 3.51
1802 1807 1.963338 GTCAGAGTGTGCACCTGGC 60.963 63.158 15.69 12.33 45.13 4.85
1818 1823 0.684535 TGGCAACCAGAGTTCGATCA 59.315 50.000 0.00 0.00 32.45 2.92
1829 1834 0.999406 GTTCGATCATGTGTGGACCG 59.001 55.000 0.00 0.00 0.00 4.79
1836 1841 3.417069 TCATGTGTGGACCGAATTTCT 57.583 42.857 0.00 0.00 0.00 2.52
1838 1843 1.890876 TGTGTGGACCGAATTTCTGG 58.109 50.000 5.95 5.95 0.00 3.86
1848 1853 2.945668 CCGAATTTCTGGGATTCTCACC 59.054 50.000 0.00 0.00 32.60 4.02
1849 1854 3.609853 CGAATTTCTGGGATTCTCACCA 58.390 45.455 0.00 0.00 32.60 4.17
1882 1966 6.183360 GCATATACATGTCGGCTCTAAATTCC 60.183 42.308 0.00 0.00 34.40 3.01
1889 1973 4.893524 TGTCGGCTCTAAATTCCTATCTGA 59.106 41.667 0.00 0.00 0.00 3.27
1979 2752 2.103373 TGGGCAGCACAAAGTTTGTTA 58.897 42.857 18.59 0.00 43.23 2.41
1981 2754 3.123050 GGGCAGCACAAAGTTTGTTAAG 58.877 45.455 18.59 11.65 43.23 1.85
1982 2755 3.430236 GGGCAGCACAAAGTTTGTTAAGT 60.430 43.478 18.59 1.19 43.23 2.24
1999 2838 2.401583 AGTCGGCTGCAATCAATGTA 57.598 45.000 0.50 0.00 0.00 2.29
2006 2845 2.541178 GCTGCAATCAATGTAGAGCTGC 60.541 50.000 0.00 0.00 43.78 5.25
2027 2866 2.561569 CCGGTTTGGCCAGTAAGATAG 58.438 52.381 5.11 0.00 36.97 2.08
2067 2906 7.932335 AGAGATGACATAGTAAAGGTAACGAG 58.068 38.462 0.00 0.00 46.39 4.18
2069 2908 6.606395 AGATGACATAGTAAAGGTAACGAGGT 59.394 38.462 0.00 0.00 46.39 3.85
2083 2924 4.525411 AACGAGGTTTCTACAAACAACG 57.475 40.909 0.00 8.93 43.41 4.10
2093 2934 6.956299 TTCTACAAACAACGGTAGAATAGC 57.044 37.500 9.49 0.00 46.26 2.97
2094 2935 5.413499 TCTACAAACAACGGTAGAATAGCC 58.587 41.667 0.00 0.00 42.08 3.93
2098 2939 3.247006 ACAACGGTAGAATAGCCACTG 57.753 47.619 0.00 0.00 35.15 3.66
2113 2956 2.529151 CCACTGCGCAAAATATTCACC 58.471 47.619 13.05 0.00 0.00 4.02
2114 2957 2.094803 CCACTGCGCAAAATATTCACCA 60.095 45.455 13.05 0.00 0.00 4.17
2165 3020 2.437413 GGGAGGCTTACAACAGAAAGG 58.563 52.381 0.00 0.00 0.00 3.11
2205 3060 7.894376 AAAATTGTGAATAGTTCATTGCAGG 57.106 32.000 0.00 0.00 42.47 4.85
2206 3061 6.594788 AATTGTGAATAGTTCATTGCAGGT 57.405 33.333 0.00 0.00 42.47 4.00
2207 3062 5.627499 TTGTGAATAGTTCATTGCAGGTC 57.373 39.130 0.00 0.00 42.47 3.85
2208 3063 4.650734 TGTGAATAGTTCATTGCAGGTCA 58.349 39.130 0.00 0.00 42.47 4.02
2209 3064 5.069318 TGTGAATAGTTCATTGCAGGTCAA 58.931 37.500 0.00 0.00 42.47 3.18
2210 3065 5.534278 TGTGAATAGTTCATTGCAGGTCAAA 59.466 36.000 0.00 0.00 42.47 2.69
2211 3066 6.088824 GTGAATAGTTCATTGCAGGTCAAAG 58.911 40.000 0.00 0.00 42.47 2.77
2212 3067 5.769662 TGAATAGTTCATTGCAGGTCAAAGT 59.230 36.000 0.00 0.00 38.34 2.66
2213 3068 6.265196 TGAATAGTTCATTGCAGGTCAAAGTT 59.735 34.615 0.00 0.00 38.34 2.66
2214 3069 7.446931 TGAATAGTTCATTGCAGGTCAAAGTTA 59.553 33.333 0.00 0.00 38.34 2.24
2215 3070 5.438761 AGTTCATTGCAGGTCAAAGTTAC 57.561 39.130 0.00 0.00 38.34 2.50
2216 3071 4.024048 AGTTCATTGCAGGTCAAAGTTACG 60.024 41.667 0.00 0.00 38.34 3.18
2217 3072 3.734463 TCATTGCAGGTCAAAGTTACGA 58.266 40.909 0.00 0.00 38.34 3.43
2218 3073 3.745975 TCATTGCAGGTCAAAGTTACGAG 59.254 43.478 0.00 0.00 38.34 4.18
2219 3074 2.902705 TGCAGGTCAAAGTTACGAGT 57.097 45.000 0.00 0.00 0.00 4.18
2220 3075 3.188159 TGCAGGTCAAAGTTACGAGTT 57.812 42.857 0.00 0.00 0.00 3.01
2221 3076 4.325028 TGCAGGTCAAAGTTACGAGTTA 57.675 40.909 0.00 0.00 0.00 2.24
2222 3077 4.053295 TGCAGGTCAAAGTTACGAGTTAC 58.947 43.478 0.00 0.00 0.00 2.50
2223 3078 4.053295 GCAGGTCAAAGTTACGAGTTACA 58.947 43.478 0.00 0.00 0.00 2.41
2224 3079 4.150098 GCAGGTCAAAGTTACGAGTTACAG 59.850 45.833 0.00 0.00 0.00 2.74
2225 3080 5.526115 CAGGTCAAAGTTACGAGTTACAGA 58.474 41.667 0.00 0.00 0.00 3.41
2226 3081 5.981315 CAGGTCAAAGTTACGAGTTACAGAA 59.019 40.000 0.00 0.00 0.00 3.02
2227 3082 6.477688 CAGGTCAAAGTTACGAGTTACAGAAA 59.522 38.462 0.00 0.00 0.00 2.52
2228 3083 7.010738 CAGGTCAAAGTTACGAGTTACAGAAAA 59.989 37.037 0.00 0.00 0.00 2.29
2229 3084 7.713942 AGGTCAAAGTTACGAGTTACAGAAAAT 59.286 33.333 0.00 0.00 0.00 1.82
2230 3085 8.008279 GGTCAAAGTTACGAGTTACAGAAAATC 58.992 37.037 0.00 0.00 0.00 2.17
2231 3086 8.008279 GTCAAAGTTACGAGTTACAGAAAATCC 58.992 37.037 0.00 0.00 0.00 3.01
2232 3087 7.711772 TCAAAGTTACGAGTTACAGAAAATCCA 59.288 33.333 0.00 0.00 0.00 3.41
2233 3088 7.653767 AAGTTACGAGTTACAGAAAATCCAG 57.346 36.000 0.00 0.00 0.00 3.86
2234 3089 6.756221 AGTTACGAGTTACAGAAAATCCAGT 58.244 36.000 0.00 0.00 0.00 4.00
2235 3090 6.645415 AGTTACGAGTTACAGAAAATCCAGTG 59.355 38.462 0.00 0.00 0.00 3.66
2236 3091 5.209818 ACGAGTTACAGAAAATCCAGTGA 57.790 39.130 0.00 0.00 0.00 3.41
2237 3092 5.607477 ACGAGTTACAGAAAATCCAGTGAA 58.393 37.500 0.00 0.00 0.00 3.18
2238 3093 5.465724 ACGAGTTACAGAAAATCCAGTGAAC 59.534 40.000 0.00 0.00 0.00 3.18
2239 3094 5.696724 CGAGTTACAGAAAATCCAGTGAACT 59.303 40.000 0.00 0.00 0.00 3.01
2240 3095 6.346919 CGAGTTACAGAAAATCCAGTGAACTG 60.347 42.308 3.35 3.35 43.40 3.16
2241 3096 6.357367 AGTTACAGAAAATCCAGTGAACTGT 58.643 36.000 9.49 0.00 42.27 3.55
2242 3097 6.828785 AGTTACAGAAAATCCAGTGAACTGTT 59.171 34.615 9.49 0.00 42.27 3.16
2243 3098 7.339466 AGTTACAGAAAATCCAGTGAACTGTTT 59.661 33.333 9.49 3.88 42.27 2.83
2244 3099 8.617809 GTTACAGAAAATCCAGTGAACTGTTTA 58.382 33.333 9.49 0.00 42.27 2.01
2245 3100 7.027778 ACAGAAAATCCAGTGAACTGTTTAC 57.972 36.000 7.31 7.31 42.27 2.01
2246 3101 6.601613 ACAGAAAATCCAGTGAACTGTTTACA 59.398 34.615 16.38 0.00 42.27 2.41
2257 3112 2.036556 CTGTTTACAGGCTTGCAACG 57.963 50.000 0.00 0.00 40.20 4.10
2258 3113 1.333619 CTGTTTACAGGCTTGCAACGT 59.666 47.619 0.00 0.00 40.20 3.99
2259 3114 1.332375 TGTTTACAGGCTTGCAACGTC 59.668 47.619 0.00 0.00 0.00 4.34
2260 3115 1.332375 GTTTACAGGCTTGCAACGTCA 59.668 47.619 0.00 0.00 0.00 4.35
2261 3116 1.669604 TTACAGGCTTGCAACGTCAA 58.330 45.000 0.00 0.00 0.00 3.18
2262 3117 1.890876 TACAGGCTTGCAACGTCAAT 58.109 45.000 0.00 0.00 0.00 2.57
2263 3118 0.593128 ACAGGCTTGCAACGTCAATC 59.407 50.000 0.00 0.00 0.00 2.67
2264 3119 0.109597 CAGGCTTGCAACGTCAATCC 60.110 55.000 0.00 2.50 33.62 3.01
2265 3120 0.250901 AGGCTTGCAACGTCAATCCT 60.251 50.000 6.57 6.57 37.65 3.24
2266 3121 0.109597 GGCTTGCAACGTCAATCCTG 60.110 55.000 0.00 0.00 31.45 3.86
2267 3122 0.874390 GCTTGCAACGTCAATCCTGA 59.126 50.000 0.00 0.00 0.00 3.86
2268 3123 1.266718 GCTTGCAACGTCAATCCTGAA 59.733 47.619 0.00 0.00 31.88 3.02
2269 3124 2.666619 GCTTGCAACGTCAATCCTGAAG 60.667 50.000 0.00 0.00 37.12 3.02
2270 3125 2.542020 TGCAACGTCAATCCTGAAGA 57.458 45.000 0.00 0.00 35.30 2.87
2271 3126 2.844946 TGCAACGTCAATCCTGAAGAA 58.155 42.857 0.00 0.00 35.30 2.52
2272 3127 2.548057 TGCAACGTCAATCCTGAAGAAC 59.452 45.455 0.00 0.00 35.30 3.01
2273 3128 2.548057 GCAACGTCAATCCTGAAGAACA 59.452 45.455 0.00 0.00 35.30 3.18
2274 3129 3.003275 GCAACGTCAATCCTGAAGAACAA 59.997 43.478 0.00 0.00 35.30 2.83
2275 3130 4.497340 GCAACGTCAATCCTGAAGAACAAA 60.497 41.667 0.00 0.00 35.30 2.83
2276 3131 5.577835 CAACGTCAATCCTGAAGAACAAAA 58.422 37.500 0.00 0.00 35.30 2.44
2277 3132 5.169836 ACGTCAATCCTGAAGAACAAAAC 57.830 39.130 0.00 0.00 35.30 2.43
2278 3133 4.638421 ACGTCAATCCTGAAGAACAAAACA 59.362 37.500 0.00 0.00 35.30 2.83
2279 3134 5.207768 CGTCAATCCTGAAGAACAAAACAG 58.792 41.667 0.00 0.00 33.31 3.16
2280 3135 5.007626 CGTCAATCCTGAAGAACAAAACAGA 59.992 40.000 0.00 0.00 33.31 3.41
2281 3136 6.458206 CGTCAATCCTGAAGAACAAAACAGAA 60.458 38.462 0.00 0.00 33.31 3.02
2282 3137 7.428826 GTCAATCCTGAAGAACAAAACAGAAT 58.571 34.615 0.00 0.00 31.88 2.40
2283 3138 7.380602 GTCAATCCTGAAGAACAAAACAGAATG 59.619 37.037 0.00 0.00 35.93 2.67
2284 3139 7.285172 TCAATCCTGAAGAACAAAACAGAATGA 59.715 33.333 0.00 0.00 39.69 2.57
2285 3140 7.587037 ATCCTGAAGAACAAAACAGAATGAA 57.413 32.000 0.00 0.00 39.69 2.57
2286 3141 6.795399 TCCTGAAGAACAAAACAGAATGAAC 58.205 36.000 0.00 0.00 39.69 3.18
2287 3142 6.376864 TCCTGAAGAACAAAACAGAATGAACA 59.623 34.615 0.00 0.00 39.69 3.18
2288 3143 6.694411 CCTGAAGAACAAAACAGAATGAACAG 59.306 38.462 0.00 0.00 39.69 3.16
2289 3144 7.156876 TGAAGAACAAAACAGAATGAACAGT 57.843 32.000 0.00 0.00 39.69 3.55
2290 3145 7.601856 TGAAGAACAAAACAGAATGAACAGTT 58.398 30.769 0.00 0.00 39.69 3.16
2291 3146 7.754924 TGAAGAACAAAACAGAATGAACAGTTC 59.245 33.333 6.32 6.32 39.69 3.01
2292 3147 7.156876 AGAACAAAACAGAATGAACAGTTCA 57.843 32.000 18.42 18.42 45.01 3.18
2293 3148 7.029563 AGAACAAAACAGAATGAACAGTTCAC 58.970 34.615 18.49 6.95 43.48 3.18
2294 3149 6.515272 ACAAAACAGAATGAACAGTTCACT 57.485 33.333 18.49 7.67 43.48 3.41
2295 3150 7.624360 ACAAAACAGAATGAACAGTTCACTA 57.376 32.000 18.49 0.00 43.48 2.74
2296 3151 7.472543 ACAAAACAGAATGAACAGTTCACTAC 58.527 34.615 18.49 12.03 43.48 2.73
2297 3152 7.336931 ACAAAACAGAATGAACAGTTCACTACT 59.663 33.333 18.49 13.91 43.48 2.57
2298 3153 7.865706 AAACAGAATGAACAGTTCACTACTT 57.134 32.000 18.49 8.75 43.48 2.24
2299 3154 7.865706 AACAGAATGAACAGTTCACTACTTT 57.134 32.000 18.49 8.38 43.48 2.66
2300 3155 8.958119 AACAGAATGAACAGTTCACTACTTTA 57.042 30.769 18.49 0.00 43.48 1.85
2301 3156 8.958119 ACAGAATGAACAGTTCACTACTTTAA 57.042 30.769 18.49 0.00 43.48 1.52
2302 3157 9.046296 ACAGAATGAACAGTTCACTACTTTAAG 57.954 33.333 18.49 7.05 43.48 1.85
2303 3158 9.261180 CAGAATGAACAGTTCACTACTTTAAGA 57.739 33.333 18.49 0.00 43.48 2.10
2304 3159 9.262358 AGAATGAACAGTTCACTACTTTAAGAC 57.738 33.333 18.49 0.00 43.48 3.01
2305 3160 9.262358 GAATGAACAGTTCACTACTTTAAGACT 57.738 33.333 18.49 0.00 43.48 3.24
2306 3161 8.819643 ATGAACAGTTCACTACTTTAAGACTC 57.180 34.615 18.49 0.00 43.48 3.36
2307 3162 8.008513 TGAACAGTTCACTACTTTAAGACTCT 57.991 34.615 12.24 0.00 33.85 3.24
2308 3163 7.921214 TGAACAGTTCACTACTTTAAGACTCTG 59.079 37.037 12.24 0.00 33.85 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 1.548719 TGTCATACCCTTGTCCACGAG 59.451 52.381 0.00 0.00 0.00 4.18
72 73 9.495572 CTTGGATTAGTTTCAAGTAGTCTTCTT 57.504 33.333 0.00 0.00 34.76 2.52
75 76 7.604545 GCTCTTGGATTAGTTTCAAGTAGTCTT 59.395 37.037 0.00 0.00 38.99 3.01
130 131 7.071196 TGCCATATCACTAAGAGTAAGGTTCAT 59.929 37.037 0.00 0.00 0.00 2.57
175 176 3.957497 TGCACAACACCAAAGAAGGTAAT 59.043 39.130 0.00 0.00 40.77 1.89
253 254 9.349713 AGACTTAACTGTCATTTTTGGAACATA 57.650 29.630 0.00 0.00 37.57 2.29
332 333 2.743636 TCTTAACTCGGGTGCTTGAG 57.256 50.000 0.00 0.00 38.21 3.02
383 384 2.089201 TCTTAGTCTTGGCGTCATCGA 58.911 47.619 0.00 0.00 39.71 3.59
442 443 7.040548 CCAAATGACCATGCCAAGTAAAAATTT 60.041 33.333 0.00 0.00 0.00 1.82
571 572 5.869888 AGCCGTCATTTCTGTACTTCTTAAG 59.130 40.000 0.00 0.00 0.00 1.85
707 708 7.447374 TCATTCTGGTTATTTTCGTCATTGT 57.553 32.000 0.00 0.00 0.00 2.71
793 794 5.264395 AGTAGTTAGGGAAGCAATTGCAAT 58.736 37.500 30.89 19.66 45.16 3.56
835 836 3.825143 ACCAAATATGCTCCCAAATGC 57.175 42.857 0.00 0.00 0.00 3.56
1026 1027 4.576463 ACAAACTCAAATATCTGATCCGCC 59.424 41.667 0.00 0.00 0.00 6.13
1102 1103 1.566018 GCAACAGTCACAGGTACGGC 61.566 60.000 0.00 0.00 0.00 5.68
1211 1212 4.524749 CATATTCTTCTCAATGCAGCACG 58.475 43.478 0.00 0.00 0.00 5.34
1313 1314 3.733337 AGAAATAGCATGCTAACCTCCG 58.267 45.455 30.06 0.00 31.73 4.63
1479 1481 0.105039 CCGGTGAGCCCAATAGAGAC 59.895 60.000 0.00 0.00 0.00 3.36
1518 1520 1.275291 ACACCGACCAGTGATTTCGAT 59.725 47.619 9.52 0.00 40.34 3.59
1528 1530 1.742880 CATGGAGCACACCGACCAG 60.743 63.158 0.00 0.00 35.84 4.00
1529 1531 2.347114 CATGGAGCACACCGACCA 59.653 61.111 0.00 0.00 36.83 4.02
1530 1532 1.741770 GACATGGAGCACACCGACC 60.742 63.158 0.00 0.00 0.00 4.79
1531 1533 1.741770 GGACATGGAGCACACCGAC 60.742 63.158 0.00 0.00 0.00 4.79
1532 1534 1.552799 ATGGACATGGAGCACACCGA 61.553 55.000 0.00 0.00 0.00 4.69
1533 1535 1.078214 ATGGACATGGAGCACACCG 60.078 57.895 0.00 0.00 0.00 4.94
1534 1536 1.660560 GCATGGACATGGAGCACACC 61.661 60.000 13.63 0.00 39.16 4.16
1535 1537 1.660560 GGCATGGACATGGAGCACAC 61.661 60.000 13.63 0.00 39.16 3.82
1536 1538 1.378911 GGCATGGACATGGAGCACA 60.379 57.895 13.63 0.00 39.16 4.57
1537 1539 2.123428 GGGCATGGACATGGAGCAC 61.123 63.158 13.63 0.00 39.16 4.40
1538 1540 1.940242 ATGGGCATGGACATGGAGCA 61.940 55.000 13.63 0.00 39.16 4.26
1539 1541 1.152610 ATGGGCATGGACATGGAGC 60.153 57.895 13.63 0.00 39.16 4.70
1540 1542 0.106369 ACATGGGCATGGACATGGAG 60.106 55.000 13.63 0.00 46.60 3.86
1541 1543 0.335705 AACATGGGCATGGACATGGA 59.664 50.000 13.63 0.00 46.60 3.41
1542 1544 0.462375 CAACATGGGCATGGACATGG 59.538 55.000 13.63 0.03 46.60 3.66
1544 1546 1.669049 CGCAACATGGGCATGGACAT 61.669 55.000 11.48 0.00 42.91 3.06
1545 1547 2.341875 CGCAACATGGGCATGGACA 61.342 57.895 11.48 0.00 42.91 4.02
1546 1548 2.491152 CGCAACATGGGCATGGAC 59.509 61.111 11.48 0.00 42.91 4.02
1547 1549 2.755064 CCGCAACATGGGCATGGA 60.755 61.111 11.48 0.00 42.91 3.41
1548 1550 3.840594 CCCGCAACATGGGCATGG 61.841 66.667 11.48 7.40 42.91 3.66
1554 1556 1.138859 TCTCATCTACCCGCAACATGG 59.861 52.381 0.00 0.00 0.00 3.66
1555 1557 2.602257 TCTCATCTACCCGCAACATG 57.398 50.000 0.00 0.00 0.00 3.21
1556 1558 2.037772 GGATCTCATCTACCCGCAACAT 59.962 50.000 0.00 0.00 0.00 2.71
1557 1559 1.412710 GGATCTCATCTACCCGCAACA 59.587 52.381 0.00 0.00 0.00 3.33
1558 1560 1.603172 CGGATCTCATCTACCCGCAAC 60.603 57.143 0.00 0.00 33.47 4.17
1559 1561 0.673985 CGGATCTCATCTACCCGCAA 59.326 55.000 0.00 0.00 33.47 4.85
1560 1562 0.179001 TCGGATCTCATCTACCCGCA 60.179 55.000 0.00 0.00 39.96 5.69
1561 1563 1.133407 GATCGGATCTCATCTACCCGC 59.867 57.143 10.73 0.00 39.96 6.13
1562 1564 1.398739 CGATCGGATCTCATCTACCCG 59.601 57.143 15.50 0.00 41.36 5.28
1563 1565 2.680841 CTCGATCGGATCTCATCTACCC 59.319 54.545 16.41 0.00 0.00 3.69
1564 1566 2.680841 CCTCGATCGGATCTCATCTACC 59.319 54.545 16.41 0.00 0.00 3.18
1565 1567 3.372822 GTCCTCGATCGGATCTCATCTAC 59.627 52.174 16.41 3.58 35.11 2.59
1566 1568 3.601435 GTCCTCGATCGGATCTCATCTA 58.399 50.000 16.41 0.00 35.11 1.98
1567 1569 2.432444 GTCCTCGATCGGATCTCATCT 58.568 52.381 16.41 0.00 35.11 2.90
1568 1570 1.129624 CGTCCTCGATCGGATCTCATC 59.870 57.143 16.41 2.68 39.71 2.92
1569 1571 1.160989 CGTCCTCGATCGGATCTCAT 58.839 55.000 16.41 0.00 39.71 2.90
1570 1572 0.106149 TCGTCCTCGATCGGATCTCA 59.894 55.000 16.41 1.92 41.35 3.27
1571 1573 2.915775 TCGTCCTCGATCGGATCTC 58.084 57.895 16.41 2.04 41.35 2.75
1581 1583 4.244425 ACCTAATCAATCATCGTCCTCG 57.756 45.455 0.00 0.00 38.55 4.63
1582 1584 5.047660 AGCTACCTAATCAATCATCGTCCTC 60.048 44.000 0.00 0.00 0.00 3.71
1583 1585 4.835615 AGCTACCTAATCAATCATCGTCCT 59.164 41.667 0.00 0.00 0.00 3.85
1584 1586 5.140747 AGCTACCTAATCAATCATCGTCC 57.859 43.478 0.00 0.00 0.00 4.79
1585 1587 7.594714 TCTAAGCTACCTAATCAATCATCGTC 58.405 38.462 0.00 0.00 0.00 4.20
1586 1588 7.526142 TCTAAGCTACCTAATCAATCATCGT 57.474 36.000 0.00 0.00 0.00 3.73
1587 1589 8.994429 ATTCTAAGCTACCTAATCAATCATCG 57.006 34.615 0.00 0.00 0.00 3.84
1591 1593 9.157104 GCCTAATTCTAAGCTACCTAATCAATC 57.843 37.037 0.00 0.00 0.00 2.67
1592 1594 8.103935 GGCCTAATTCTAAGCTACCTAATCAAT 58.896 37.037 0.00 0.00 0.00 2.57
1593 1595 7.071950 TGGCCTAATTCTAAGCTACCTAATCAA 59.928 37.037 3.32 0.00 0.00 2.57
1594 1596 6.557253 TGGCCTAATTCTAAGCTACCTAATCA 59.443 38.462 3.32 0.00 0.00 2.57
1595 1597 6.874664 GTGGCCTAATTCTAAGCTACCTAATC 59.125 42.308 3.32 0.00 31.25 1.75
1596 1598 6.770542 GTGGCCTAATTCTAAGCTACCTAAT 58.229 40.000 3.32 0.00 31.25 1.73
1597 1599 6.170846 GTGGCCTAATTCTAAGCTACCTAA 57.829 41.667 3.32 0.00 31.25 2.69
1598 1600 5.803237 GTGGCCTAATTCTAAGCTACCTA 57.197 43.478 3.32 0.00 31.25 3.08
1599 1601 4.691326 GTGGCCTAATTCTAAGCTACCT 57.309 45.455 3.32 0.00 31.25 3.08
1601 1603 3.181468 ACGGTGGCCTAATTCTAAGCTAC 60.181 47.826 3.32 0.00 36.14 3.58
1602 1604 3.036091 ACGGTGGCCTAATTCTAAGCTA 58.964 45.455 3.32 0.00 0.00 3.32
1603 1605 1.838077 ACGGTGGCCTAATTCTAAGCT 59.162 47.619 3.32 0.00 0.00 3.74
1604 1606 1.940613 CACGGTGGCCTAATTCTAAGC 59.059 52.381 3.32 0.00 0.00 3.09
1605 1607 3.195661 GACACGGTGGCCTAATTCTAAG 58.804 50.000 13.48 0.00 0.00 2.18
1606 1608 2.417651 CGACACGGTGGCCTAATTCTAA 60.418 50.000 13.48 0.00 0.00 2.10
1607 1609 1.135527 CGACACGGTGGCCTAATTCTA 59.864 52.381 13.48 0.00 0.00 2.10
1608 1610 0.108329 CGACACGGTGGCCTAATTCT 60.108 55.000 13.48 0.00 0.00 2.40
1609 1611 0.390735 ACGACACGGTGGCCTAATTC 60.391 55.000 13.48 0.00 0.00 2.17
1610 1612 0.035739 AACGACACGGTGGCCTAATT 59.964 50.000 13.48 0.00 0.00 1.40
1611 1613 0.896923 TAACGACACGGTGGCCTAAT 59.103 50.000 13.48 0.00 0.00 1.73
1612 1614 0.038343 GTAACGACACGGTGGCCTAA 60.038 55.000 13.48 0.00 0.00 2.69
1613 1615 1.586028 GTAACGACACGGTGGCCTA 59.414 57.895 13.48 0.00 0.00 3.93
1614 1616 2.341176 GTAACGACACGGTGGCCT 59.659 61.111 13.48 0.54 0.00 5.19
1615 1617 3.107661 CGTAACGACACGGTGGCC 61.108 66.667 13.48 0.00 38.26 5.36
1616 1618 1.214373 TTTCGTAACGACACGGTGGC 61.214 55.000 13.48 8.79 42.19 5.01
1617 1619 0.780002 CTTTCGTAACGACACGGTGG 59.220 55.000 13.48 0.00 42.19 4.61
1618 1620 0.160182 GCTTTCGTAACGACACGGTG 59.840 55.000 6.58 6.58 42.19 4.94
1619 1621 0.248990 TGCTTTCGTAACGACACGGT 60.249 50.000 12.25 0.00 42.19 4.83
1620 1622 0.433492 CTGCTTTCGTAACGACACGG 59.567 55.000 12.25 0.48 42.19 4.94
1621 1623 1.126079 ACTGCTTTCGTAACGACACG 58.874 50.000 7.13 7.13 43.28 4.49
1622 1624 2.348218 CCAACTGCTTTCGTAACGACAC 60.348 50.000 0.00 0.00 34.89 3.67
1623 1625 1.862201 CCAACTGCTTTCGTAACGACA 59.138 47.619 0.00 0.00 34.89 4.35
1624 1626 1.193874 CCCAACTGCTTTCGTAACGAC 59.806 52.381 0.00 0.00 34.89 4.34
1625 1627 1.068895 TCCCAACTGCTTTCGTAACGA 59.931 47.619 0.00 0.00 0.00 3.85
1626 1628 1.504359 TCCCAACTGCTTTCGTAACG 58.496 50.000 0.00 0.00 0.00 3.18
1627 1629 2.349155 CGTTCCCAACTGCTTTCGTAAC 60.349 50.000 0.00 0.00 0.00 2.50
1628 1630 1.868498 CGTTCCCAACTGCTTTCGTAA 59.132 47.619 0.00 0.00 0.00 3.18
1629 1631 1.504359 CGTTCCCAACTGCTTTCGTA 58.496 50.000 0.00 0.00 0.00 3.43
1630 1632 1.782028 GCGTTCCCAACTGCTTTCGT 61.782 55.000 0.00 0.00 0.00 3.85
1631 1633 1.082104 GCGTTCCCAACTGCTTTCG 60.082 57.895 0.00 0.00 0.00 3.46
1632 1634 0.598065 ATGCGTTCCCAACTGCTTTC 59.402 50.000 0.00 0.00 33.95 2.62
1633 1635 0.314935 CATGCGTTCCCAACTGCTTT 59.685 50.000 0.00 0.00 33.95 3.51
1634 1636 0.537143 TCATGCGTTCCCAACTGCTT 60.537 50.000 0.00 0.00 33.95 3.91
1635 1637 1.073025 TCATGCGTTCCCAACTGCT 59.927 52.632 0.00 0.00 33.95 4.24
1636 1638 1.210155 GTCATGCGTTCCCAACTGC 59.790 57.895 0.00 0.00 0.00 4.40
1637 1639 1.135603 CATGTCATGCGTTCCCAACTG 60.136 52.381 0.00 0.00 0.00 3.16
1638 1640 1.167851 CATGTCATGCGTTCCCAACT 58.832 50.000 0.00 0.00 0.00 3.16
1639 1641 1.164411 TCATGTCATGCGTTCCCAAC 58.836 50.000 8.03 0.00 0.00 3.77
1640 1642 1.744522 CATCATGTCATGCGTTCCCAA 59.255 47.619 8.03 0.00 0.00 4.12
1641 1643 1.065564 TCATCATGTCATGCGTTCCCA 60.066 47.619 8.03 0.00 0.00 4.37
1642 1644 1.331756 GTCATCATGTCATGCGTTCCC 59.668 52.381 8.03 0.00 0.00 3.97
1643 1645 2.283298 AGTCATCATGTCATGCGTTCC 58.717 47.619 8.03 0.00 0.00 3.62
1644 1646 4.093514 CAAAGTCATCATGTCATGCGTTC 58.906 43.478 8.03 0.00 0.00 3.95
1645 1647 3.671433 GCAAAGTCATCATGTCATGCGTT 60.671 43.478 8.03 0.00 0.00 4.84
1646 1648 2.159476 GCAAAGTCATCATGTCATGCGT 60.159 45.455 8.03 0.00 0.00 5.24
1647 1649 2.096980 AGCAAAGTCATCATGTCATGCG 59.903 45.455 8.03 2.12 37.61 4.73
1648 1650 3.435566 CAGCAAAGTCATCATGTCATGC 58.564 45.455 8.03 5.06 0.00 4.06
1649 1651 3.435566 GCAGCAAAGTCATCATGTCATG 58.564 45.455 6.47 6.47 0.00 3.07
1650 1652 2.096980 CGCAGCAAAGTCATCATGTCAT 59.903 45.455 0.00 0.00 0.00 3.06
1651 1653 1.465777 CGCAGCAAAGTCATCATGTCA 59.534 47.619 0.00 0.00 0.00 3.58
1652 1654 1.202110 CCGCAGCAAAGTCATCATGTC 60.202 52.381 0.00 0.00 0.00 3.06
1653 1655 0.806868 CCGCAGCAAAGTCATCATGT 59.193 50.000 0.00 0.00 0.00 3.21
1683 1685 0.578683 CTCCATTCACGCGTGCATAG 59.421 55.000 33.63 21.84 0.00 2.23
1684 1686 0.108377 ACTCCATTCACGCGTGCATA 60.108 50.000 33.63 20.86 0.00 3.14
1744 1749 6.904626 ACTGCCCTGTTCTCATTTTATCTAT 58.095 36.000 0.00 0.00 0.00 1.98
1802 1807 3.124128 CACACATGATCGAACTCTGGTTG 59.876 47.826 0.00 0.00 35.58 3.77
1818 1823 2.436417 CCAGAAATTCGGTCCACACAT 58.564 47.619 0.00 0.00 0.00 3.21
1829 1834 4.400567 CCTTGGTGAGAATCCCAGAAATTC 59.599 45.833 0.00 0.00 36.91 2.17
1836 1841 1.289160 CCTCCTTGGTGAGAATCCCA 58.711 55.000 0.00 0.00 34.33 4.37
1838 1843 3.485764 GCCTCCTTGGTGAGAATCC 57.514 57.895 0.00 0.00 38.35 3.01
1848 1853 2.738846 GACATGTATATGCGCCTCCTTG 59.261 50.000 4.18 0.00 37.85 3.61
1849 1854 2.610479 CGACATGTATATGCGCCTCCTT 60.610 50.000 4.18 0.00 37.85 3.36
1938 2711 9.337396 TGCCCACTTAAATTTGTACTCTATATG 57.663 33.333 0.00 0.00 0.00 1.78
1949 2722 3.383620 TGTGCTGCCCACTTAAATTTG 57.616 42.857 0.00 0.00 44.92 2.32
1959 2732 0.901124 AACAAACTTTGTGCTGCCCA 59.099 45.000 7.93 0.00 44.59 5.36
1979 2752 1.538047 ACATTGATTGCAGCCGACTT 58.462 45.000 0.00 0.00 0.00 3.01
1981 2754 2.279741 TCTACATTGATTGCAGCCGAC 58.720 47.619 0.00 0.00 0.00 4.79
1982 2755 2.554142 CTCTACATTGATTGCAGCCGA 58.446 47.619 0.00 0.00 0.00 5.54
2054 2893 7.224557 TGTTTGTAGAAACCTCGTTACCTTTAC 59.775 37.037 12.51 0.00 40.81 2.01
2057 2896 5.673514 TGTTTGTAGAAACCTCGTTACCTT 58.326 37.500 12.51 0.00 40.81 3.50
2058 2897 5.280654 TGTTTGTAGAAACCTCGTTACCT 57.719 39.130 12.51 0.00 40.81 3.08
2059 2898 5.556947 CGTTGTTTGTAGAAACCTCGTTACC 60.557 44.000 12.51 0.00 40.81 2.85
2060 2899 5.426240 CGTTGTTTGTAGAAACCTCGTTAC 58.574 41.667 12.51 1.89 40.81 2.50
2061 2900 4.507388 CCGTTGTTTGTAGAAACCTCGTTA 59.493 41.667 19.47 0.00 40.81 3.18
2062 2901 3.310501 CCGTTGTTTGTAGAAACCTCGTT 59.689 43.478 19.47 0.00 40.81 3.85
2065 2904 5.291971 TCTACCGTTGTTTGTAGAAACCTC 58.708 41.667 12.51 5.28 40.23 3.85
2067 2906 5.989551 TTCTACCGTTGTTTGTAGAAACC 57.010 39.130 12.51 0.00 45.95 3.27
2083 2924 0.179084 TGCGCAGTGGCTATTCTACC 60.179 55.000 5.66 0.00 38.10 3.18
2092 2933 1.919918 GTGAATATTTTGCGCAGTGGC 59.080 47.619 11.31 0.00 0.00 5.01
2093 2934 2.094803 TGGTGAATATTTTGCGCAGTGG 60.095 45.455 11.31 0.00 0.00 4.00
2094 2935 3.173599 CTGGTGAATATTTTGCGCAGTG 58.826 45.455 11.31 0.00 0.00 3.66
2098 2939 5.168526 TGATACTGGTGAATATTTTGCGC 57.831 39.130 0.00 0.00 0.00 6.09
2113 2956 2.386272 TGCTGCACGCATGATACTG 58.614 52.632 0.00 0.00 45.47 2.74
2114 2957 4.939399 TGCTGCACGCATGATACT 57.061 50.000 0.00 0.00 45.47 2.12
2180 3035 8.584157 ACCTGCAATGAACTATTCACAATTTTA 58.416 29.630 0.00 0.00 43.48 1.52
2185 3040 5.069318 TGACCTGCAATGAACTATTCACAA 58.931 37.500 0.00 0.00 43.48 3.33
2186 3041 4.650734 TGACCTGCAATGAACTATTCACA 58.349 39.130 0.00 0.00 43.48 3.58
2187 3042 5.627499 TTGACCTGCAATGAACTATTCAC 57.373 39.130 0.00 0.00 43.48 3.18
2188 3043 5.769662 ACTTTGACCTGCAATGAACTATTCA 59.230 36.000 0.00 0.00 45.01 2.57
2189 3044 6.259550 ACTTTGACCTGCAATGAACTATTC 57.740 37.500 0.00 0.00 36.15 1.75
2190 3045 6.655078 AACTTTGACCTGCAATGAACTATT 57.345 33.333 0.00 0.00 36.15 1.73
2191 3046 6.128282 CGTAACTTTGACCTGCAATGAACTAT 60.128 38.462 0.00 0.00 36.15 2.12
2192 3047 5.178623 CGTAACTTTGACCTGCAATGAACTA 59.821 40.000 0.00 0.00 36.15 2.24
2193 3048 4.024048 CGTAACTTTGACCTGCAATGAACT 60.024 41.667 0.00 0.00 36.15 3.01
2194 3049 4.024387 TCGTAACTTTGACCTGCAATGAAC 60.024 41.667 0.00 0.00 36.15 3.18
2195 3050 4.130857 TCGTAACTTTGACCTGCAATGAA 58.869 39.130 0.00 0.00 36.15 2.57
2196 3051 3.734463 TCGTAACTTTGACCTGCAATGA 58.266 40.909 0.00 0.00 36.15 2.57
2197 3052 3.498397 ACTCGTAACTTTGACCTGCAATG 59.502 43.478 0.00 0.00 36.15 2.82
2198 3053 3.740115 ACTCGTAACTTTGACCTGCAAT 58.260 40.909 0.00 0.00 36.15 3.56
2199 3054 3.188159 ACTCGTAACTTTGACCTGCAA 57.812 42.857 0.00 0.00 33.88 4.08
2200 3055 2.902705 ACTCGTAACTTTGACCTGCA 57.097 45.000 0.00 0.00 0.00 4.41
2201 3056 4.053295 TGTAACTCGTAACTTTGACCTGC 58.947 43.478 0.00 0.00 0.00 4.85
2202 3057 5.526115 TCTGTAACTCGTAACTTTGACCTG 58.474 41.667 0.00 0.00 0.00 4.00
2203 3058 5.779529 TCTGTAACTCGTAACTTTGACCT 57.220 39.130 0.00 0.00 0.00 3.85
2204 3059 6.833342 TTTCTGTAACTCGTAACTTTGACC 57.167 37.500 0.00 0.00 0.00 4.02
2205 3060 8.008279 GGATTTTCTGTAACTCGTAACTTTGAC 58.992 37.037 0.00 0.00 0.00 3.18
2206 3061 7.711772 TGGATTTTCTGTAACTCGTAACTTTGA 59.288 33.333 0.00 0.00 0.00 2.69
2207 3062 7.857569 TGGATTTTCTGTAACTCGTAACTTTG 58.142 34.615 0.00 0.00 0.00 2.77
2208 3063 7.713942 ACTGGATTTTCTGTAACTCGTAACTTT 59.286 33.333 0.00 0.00 0.00 2.66
2209 3064 7.170998 CACTGGATTTTCTGTAACTCGTAACTT 59.829 37.037 0.00 0.00 0.00 2.66
2210 3065 6.645415 CACTGGATTTTCTGTAACTCGTAACT 59.355 38.462 0.00 0.00 0.00 2.24
2211 3066 6.643770 TCACTGGATTTTCTGTAACTCGTAAC 59.356 38.462 0.00 0.00 0.00 2.50
2212 3067 6.751157 TCACTGGATTTTCTGTAACTCGTAA 58.249 36.000 0.00 0.00 0.00 3.18
2213 3068 6.335471 TCACTGGATTTTCTGTAACTCGTA 57.665 37.500 0.00 0.00 0.00 3.43
2214 3069 5.209818 TCACTGGATTTTCTGTAACTCGT 57.790 39.130 0.00 0.00 0.00 4.18
2215 3070 5.696724 AGTTCACTGGATTTTCTGTAACTCG 59.303 40.000 0.00 0.00 0.00 4.18
2216 3071 6.892691 CAGTTCACTGGATTTTCTGTAACTC 58.107 40.000 0.00 0.00 40.20 3.01
2217 3072 6.867662 CAGTTCACTGGATTTTCTGTAACT 57.132 37.500 0.00 0.00 40.20 2.24
2232 3087 2.618709 GCAAGCCTGTAAACAGTTCACT 59.381 45.455 9.17 0.00 42.27 3.41
2233 3088 2.357637 TGCAAGCCTGTAAACAGTTCAC 59.642 45.455 9.17 0.00 42.27 3.18
2234 3089 2.649190 TGCAAGCCTGTAAACAGTTCA 58.351 42.857 9.17 0.00 42.27 3.18
2235 3090 3.372060 GTTGCAAGCCTGTAAACAGTTC 58.628 45.455 0.00 1.25 42.27 3.01
2236 3091 2.223479 CGTTGCAAGCCTGTAAACAGTT 60.223 45.455 0.00 0.00 42.27 3.16
2237 3092 1.333619 CGTTGCAAGCCTGTAAACAGT 59.666 47.619 0.00 0.00 42.27 3.55
2238 3093 1.333619 ACGTTGCAAGCCTGTAAACAG 59.666 47.619 0.00 3.02 43.40 3.16
2239 3094 1.332375 GACGTTGCAAGCCTGTAAACA 59.668 47.619 0.00 0.00 0.00 2.83
2240 3095 1.332375 TGACGTTGCAAGCCTGTAAAC 59.668 47.619 0.00 0.00 0.00 2.01
2241 3096 1.669604 TGACGTTGCAAGCCTGTAAA 58.330 45.000 0.00 0.00 0.00 2.01
2242 3097 1.669604 TTGACGTTGCAAGCCTGTAA 58.330 45.000 0.00 0.00 0.00 2.41
2243 3098 1.804151 GATTGACGTTGCAAGCCTGTA 59.196 47.619 0.00 0.00 0.00 2.74
2244 3099 0.593128 GATTGACGTTGCAAGCCTGT 59.407 50.000 0.00 0.00 0.00 4.00
2245 3100 3.389741 GATTGACGTTGCAAGCCTG 57.610 52.632 0.00 0.00 0.00 4.85
2247 3102 4.868195 GGATTGACGTTGCAAGCC 57.132 55.556 8.32 8.32 45.70 4.35
2248 3103 0.874390 TCAGGATTGACGTTGCAAGC 59.126 50.000 0.00 0.00 33.64 4.01
2249 3104 2.807967 TCTTCAGGATTGACGTTGCAAG 59.192 45.455 0.00 0.00 31.71 4.01
2250 3105 2.844946 TCTTCAGGATTGACGTTGCAA 58.155 42.857 0.00 0.00 31.71 4.08
2251 3106 2.542020 TCTTCAGGATTGACGTTGCA 57.458 45.000 0.00 0.00 31.71 4.08
2252 3107 2.548057 TGTTCTTCAGGATTGACGTTGC 59.452 45.455 0.00 0.00 31.71 4.17
2253 3108 4.811555 TTGTTCTTCAGGATTGACGTTG 57.188 40.909 0.00 0.00 31.71 4.10
2254 3109 5.124776 TGTTTTGTTCTTCAGGATTGACGTT 59.875 36.000 0.00 0.00 31.71 3.99
2255 3110 4.638421 TGTTTTGTTCTTCAGGATTGACGT 59.362 37.500 0.00 0.00 31.71 4.34
2256 3111 5.007626 TCTGTTTTGTTCTTCAGGATTGACG 59.992 40.000 0.00 0.00 31.71 4.35
2257 3112 6.377327 TCTGTTTTGTTCTTCAGGATTGAC 57.623 37.500 0.00 0.00 31.71 3.18
2258 3113 7.285172 TCATTCTGTTTTGTTCTTCAGGATTGA 59.715 33.333 0.00 0.00 0.00 2.57
2259 3114 7.428020 TCATTCTGTTTTGTTCTTCAGGATTG 58.572 34.615 0.00 0.00 0.00 2.67
2260 3115 7.587037 TCATTCTGTTTTGTTCTTCAGGATT 57.413 32.000 0.00 0.00 0.00 3.01
2261 3116 7.068593 TGTTCATTCTGTTTTGTTCTTCAGGAT 59.931 33.333 0.00 0.00 0.00 3.24
2262 3117 6.376864 TGTTCATTCTGTTTTGTTCTTCAGGA 59.623 34.615 0.00 0.00 0.00 3.86
2263 3118 6.563422 TGTTCATTCTGTTTTGTTCTTCAGG 58.437 36.000 0.00 0.00 0.00 3.86
2264 3119 7.253422 ACTGTTCATTCTGTTTTGTTCTTCAG 58.747 34.615 0.00 0.00 0.00 3.02
2265 3120 7.156876 ACTGTTCATTCTGTTTTGTTCTTCA 57.843 32.000 0.00 0.00 0.00 3.02
2266 3121 7.754924 TGAACTGTTCATTCTGTTTTGTTCTTC 59.245 33.333 18.69 0.00 34.08 2.87
2267 3122 7.542130 GTGAACTGTTCATTCTGTTTTGTTCTT 59.458 33.333 24.44 0.00 42.47 2.52
2268 3123 7.029563 GTGAACTGTTCATTCTGTTTTGTTCT 58.970 34.615 24.44 0.00 42.47 3.01
2269 3124 7.029563 AGTGAACTGTTCATTCTGTTTTGTTC 58.970 34.615 24.44 8.35 42.47 3.18
2270 3125 6.924111 AGTGAACTGTTCATTCTGTTTTGTT 58.076 32.000 24.44 0.00 42.47 2.83
2271 3126 6.515272 AGTGAACTGTTCATTCTGTTTTGT 57.485 33.333 24.44 0.00 42.47 2.83
2272 3127 7.697691 AGTAGTGAACTGTTCATTCTGTTTTG 58.302 34.615 24.44 0.00 42.47 2.44
2273 3128 7.865706 AGTAGTGAACTGTTCATTCTGTTTT 57.134 32.000 24.44 7.46 42.47 2.43
2274 3129 7.865706 AAGTAGTGAACTGTTCATTCTGTTT 57.134 32.000 24.44 13.49 42.47 2.83
2275 3130 7.865706 AAAGTAGTGAACTGTTCATTCTGTT 57.134 32.000 24.44 13.98 42.47 3.16
2276 3131 8.958119 TTAAAGTAGTGAACTGTTCATTCTGT 57.042 30.769 24.44 18.46 42.47 3.41
2277 3132 9.261180 TCTTAAAGTAGTGAACTGTTCATTCTG 57.739 33.333 24.44 11.27 42.47 3.02
2278 3133 9.262358 GTCTTAAAGTAGTGAACTGTTCATTCT 57.738 33.333 24.44 19.32 42.47 2.40
2279 3134 9.262358 AGTCTTAAAGTAGTGAACTGTTCATTC 57.738 33.333 24.44 16.97 42.47 2.67
2280 3135 9.262358 GAGTCTTAAAGTAGTGAACTGTTCATT 57.738 33.333 24.44 22.12 42.47 2.57
2281 3136 8.643324 AGAGTCTTAAAGTAGTGAACTGTTCAT 58.357 33.333 24.44 15.80 42.47 2.57
2282 3137 7.921214 CAGAGTCTTAAAGTAGTGAACTGTTCA 59.079 37.037 18.69 18.69 38.88 3.18
2283 3138 8.288217 CAGAGTCTTAAAGTAGTGAACTGTTC 57.712 38.462 13.49 13.49 38.88 3.18


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

AutoCloner maintained by Alex Coulton.