Multiple sequence alignment - TraesCS3D01G133400

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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 TraesCS3D01G133400 chr3D 100.000 1673 0 0 994 2666 92857596 92855924 0.000000e+00 3090.0
1 TraesCS3D01G133400 chr3D 100.000 633 0 0 1 633 92858589 92857957 0.000000e+00 1170.0
2 TraesCS3D01G133400 chr3D 82.622 679 80 16 1002 1649 92877825 92878496 1.390000e-157 566.0
3 TraesCS3D01G133400 chr5D 99.526 633 3 0 1 633 80364380 80363748 0.000000e+00 1153.0
4 TraesCS3D01G133400 chr5D 92.958 142 10 0 2525 2666 388600536 388600395 9.670000e-50 207.0
5 TraesCS3D01G133400 chr5B 96.209 633 17 2 1 631 327004426 327003799 0.000000e+00 1029.0
6 TraesCS3D01G133400 chr5B 93.080 578 36 3 57 632 103343568 103342993 0.000000e+00 843.0
7 TraesCS3D01G133400 chr5B 87.380 523 57 7 1943 2463 488711792 488711277 2.290000e-165 592.0
8 TraesCS3D01G133400 chr5B 82.642 651 70 15 1 633 269279058 269278433 1.090000e-148 536.0
9 TraesCS3D01G133400 chr5B 92.958 142 10 0 2525 2666 488711193 488711052 9.670000e-50 207.0
10 TraesCS3D01G133400 chr5B 98.113 53 1 0 1 53 103343600 103343548 2.830000e-15 93.5
11 TraesCS3D01G133400 chr3B 95.853 627 23 3 1 625 23321572 23322197 0.000000e+00 1011.0
12 TraesCS3D01G133400 chr3B 95.073 548 14 2 1061 1596 143597629 143598175 0.000000e+00 850.0
13 TraesCS3D01G133400 chr3B 90.448 513 47 1 2156 2666 143598168 143598680 0.000000e+00 675.0
14 TraesCS3D01G133400 chr3B 87.382 531 62 5 1935 2463 756616420 756616947 2.940000e-169 604.0
15 TraesCS3D01G133400 chr3B 77.634 617 108 20 1039 1646 143571343 143571938 5.460000e-92 348.0
16 TraesCS3D01G133400 chr3B 87.562 201 25 0 1247 1447 143543057 143542857 1.600000e-57 233.0
17 TraesCS3D01G133400 chr3B 97.297 74 1 1 1002 1074 143590429 143590502 1.000000e-24 124.0
18 TraesCS3D01G133400 chr7A 95.118 635 26 4 1 633 321656123 321656754 0.000000e+00 996.0
19 TraesCS3D01G133400 chr4D 93.858 635 36 2 1 633 258925363 258924730 0.000000e+00 953.0
20 TraesCS3D01G133400 chr4D 92.754 138 10 0 2529 2666 424550156 424550019 1.620000e-47 200.0
21 TraesCS3D01G133400 chr2A 89.266 531 53 4 1935 2463 631847373 631847901 0.000000e+00 662.0
22 TraesCS3D01G133400 chr2A 92.254 142 11 0 2525 2666 631847994 631848135 4.500000e-48 202.0
23 TraesCS3D01G133400 chr5A 88.889 531 55 4 1935 2463 650516324 650515796 0.000000e+00 651.0
24 TraesCS3D01G133400 chr5A 92.254 142 10 1 2525 2666 650510071 650509931 1.620000e-47 200.0
25 TraesCS3D01G133400 chr6A 88.743 533 55 5 1934 2463 143073649 143074179 0.000000e+00 647.0
26 TraesCS3D01G133400 chr6A 87.992 533 56 6 1935 2463 116952408 116951880 8.100000e-175 623.0
27 TraesCS3D01G133400 chr6A 92.857 140 10 0 2525 2664 143074271 143074410 1.250000e-48 204.0
28 TraesCS3D01G133400 chr4A 87.759 531 61 4 1935 2463 702024846 702024318 3.770000e-173 617.0
29 TraesCS3D01G133400 chr3A 84.211 646 63 16 1039 1652 547190151 547189513 2.290000e-165 592.0
30 TraesCS3D01G133400 chr3A 80.000 365 52 8 1247 1590 547187614 547187250 1.580000e-62 250.0
31 TraesCS3D01G133400 chr4B 87.140 521 62 5 1937 2456 434495806 434495290 1.060000e-163 586.0
32 TraesCS3D01G133400 chr1D 83.384 656 81 15 1 633 401941739 401942389 1.380000e-162 582.0
33 TraesCS3D01G133400 chr1D 82.953 657 83 14 1 633 401987029 401987680 1.390000e-157 566.0
34 TraesCS3D01G133400 chr1D 82.801 657 82 19 1 633 401983324 401983973 2.320000e-155 558.0
35 TraesCS3D01G133400 chr1B 86.389 529 70 2 1934 2461 58984403 58983876 6.400000e-161 577.0
36 TraesCS3D01G133400 chr2D 82.893 643 88 10 1 627 461373158 461372522 2.320000e-155 558.0
37 TraesCS3D01G133400 chr2D 92.254 142 11 0 2525 2666 179877027 179876886 4.500000e-48 202.0
38 TraesCS3D01G133400 chr2D 92.254 142 11 0 2525 2666 603008425 603008566 4.500000e-48 202.0
39 TraesCS3D01G133400 chr2B 82.770 592 80 14 57 631 794909681 794910267 2.370000e-140 508.0


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 TraesCS3D01G133400 chr3D 92855924 92858589 2665 True 2130.00 3090 100.0000 1 2666 2 chr3D.!!$R1 2665
1 TraesCS3D01G133400 chr3D 92877825 92878496 671 False 566.00 566 82.6220 1002 1649 1 chr3D.!!$F1 647
2 TraesCS3D01G133400 chr5D 80363748 80364380 632 True 1153.00 1153 99.5260 1 633 1 chr5D.!!$R1 632
3 TraesCS3D01G133400 chr5B 327003799 327004426 627 True 1029.00 1029 96.2090 1 631 1 chr5B.!!$R2 630
4 TraesCS3D01G133400 chr5B 269278433 269279058 625 True 536.00 536 82.6420 1 633 1 chr5B.!!$R1 632
5 TraesCS3D01G133400 chr5B 103342993 103343600 607 True 468.25 843 95.5965 1 632 2 chr5B.!!$R3 631
6 TraesCS3D01G133400 chr5B 488711052 488711792 740 True 399.50 592 90.1690 1943 2666 2 chr5B.!!$R4 723
7 TraesCS3D01G133400 chr3B 23321572 23322197 625 False 1011.00 1011 95.8530 1 625 1 chr3B.!!$F1 624
8 TraesCS3D01G133400 chr3B 143597629 143598680 1051 False 762.50 850 92.7605 1061 2666 2 chr3B.!!$F5 1605
9 TraesCS3D01G133400 chr3B 756616420 756616947 527 False 604.00 604 87.3820 1935 2463 1 chr3B.!!$F4 528
10 TraesCS3D01G133400 chr3B 143571343 143571938 595 False 348.00 348 77.6340 1039 1646 1 chr3B.!!$F2 607
11 TraesCS3D01G133400 chr7A 321656123 321656754 631 False 996.00 996 95.1180 1 633 1 chr7A.!!$F1 632
12 TraesCS3D01G133400 chr4D 258924730 258925363 633 True 953.00 953 93.8580 1 633 1 chr4D.!!$R1 632
13 TraesCS3D01G133400 chr2A 631847373 631848135 762 False 432.00 662 90.7600 1935 2666 2 chr2A.!!$F1 731
14 TraesCS3D01G133400 chr5A 650515796 650516324 528 True 651.00 651 88.8890 1935 2463 1 chr5A.!!$R2 528
15 TraesCS3D01G133400 chr6A 116951880 116952408 528 True 623.00 623 87.9920 1935 2463 1 chr6A.!!$R1 528
16 TraesCS3D01G133400 chr6A 143073649 143074410 761 False 425.50 647 90.8000 1934 2664 2 chr6A.!!$F1 730
17 TraesCS3D01G133400 chr4A 702024318 702024846 528 True 617.00 617 87.7590 1935 2463 1 chr4A.!!$R1 528
18 TraesCS3D01G133400 chr3A 547187250 547190151 2901 True 421.00 592 82.1055 1039 1652 2 chr3A.!!$R1 613
19 TraesCS3D01G133400 chr4B 434495290 434495806 516 True 586.00 586 87.1400 1937 2456 1 chr4B.!!$R1 519
20 TraesCS3D01G133400 chr1D 401941739 401942389 650 False 582.00 582 83.3840 1 633 1 chr1D.!!$F1 632
21 TraesCS3D01G133400 chr1D 401983324 401987680 4356 False 562.00 566 82.8770 1 633 2 chr1D.!!$F2 632
22 TraesCS3D01G133400 chr1B 58983876 58984403 527 True 577.00 577 86.3890 1934 2461 1 chr1B.!!$R1 527
23 TraesCS3D01G133400 chr2D 461372522 461373158 636 True 558.00 558 82.8930 1 627 1 chr2D.!!$R2 626
24 TraesCS3D01G133400 chr2B 794909681 794910267 586 False 508.00 508 82.7700 57 631 1 chr2B.!!$F1 574

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
1030 4783 5.603813 ACCCCTTGCTTAGGTATATTTACGA 59.396 40.0 0.0 0.0 43.07 3.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2282 7797 0.185416 GATCTGTAGTCGGAGGGGGA 59.815 60.0 0.0 0.0 32.02 4.81 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
1029 4782 5.699458 CACCCCTTGCTTAGGTATATTTACG 59.301 44.000 4.99 0.00 43.07 3.18
1030 4783 5.603813 ACCCCTTGCTTAGGTATATTTACGA 59.396 40.000 0.00 0.00 43.07 3.43
1031 4784 5.930569 CCCCTTGCTTAGGTATATTTACGAC 59.069 44.000 0.00 0.00 43.07 4.34
1032 4785 5.632347 CCCTTGCTTAGGTATATTTACGACG 59.368 44.000 0.00 0.00 43.07 5.12
1033 4786 6.211515 CCTTGCTTAGGTATATTTACGACGT 58.788 40.000 5.52 5.52 39.39 4.34
1057 4814 7.223193 CGTATACAAACATGGAATTTCCGTCTA 59.777 37.037 7.21 0.00 40.17 2.59
1122 4886 0.891373 TTGCCCTCGTCTTCTCTCTG 59.109 55.000 0.00 0.00 0.00 3.35
1182 4946 0.463204 ACCTGTGCGAGATCATCCAG 59.537 55.000 0.00 0.00 0.00 3.86
1330 5100 1.530655 TGCGTGACTGACTGGGAGA 60.531 57.895 0.00 0.00 0.00 3.71
1522 5310 3.801114 TGTTCGGTGATGATAGGACAG 57.199 47.619 0.00 0.00 0.00 3.51
1582 5370 1.303236 TTGGGTGGGCAATCTCACG 60.303 57.895 0.00 0.00 34.93 4.35
1611 5402 4.511246 CCCTGCCGCATCCACCAT 62.511 66.667 0.00 0.00 0.00 3.55
1617 5408 1.524621 CCGCATCCACCATCTCACC 60.525 63.158 0.00 0.00 0.00 4.02
1619 5410 1.918253 GCATCCACCATCTCACCCT 59.082 57.895 0.00 0.00 0.00 4.34
1635 5426 0.820871 CCCTGGCAGAGACTAGTGAC 59.179 60.000 17.94 0.00 0.00 3.67
1652 5447 4.372656 AGTGACAGAAGGTTCTCTTTTCG 58.627 43.478 0.00 0.00 35.50 3.46
1653 5448 4.120589 GTGACAGAAGGTTCTCTTTTCGT 58.879 43.478 0.00 0.00 35.50 3.85
1654 5449 4.209495 GTGACAGAAGGTTCTCTTTTCGTC 59.791 45.833 0.00 0.00 35.50 4.20
1655 5450 3.729966 ACAGAAGGTTCTCTTTTCGTCC 58.270 45.455 0.00 0.00 35.50 4.79
1656 5451 2.731976 CAGAAGGTTCTCTTTTCGTCCG 59.268 50.000 0.00 0.00 35.50 4.79
1657 5452 2.067013 GAAGGTTCTCTTTTCGTCCGG 58.933 52.381 0.00 0.00 35.50 5.14
1658 5453 0.320697 AGGTTCTCTTTTCGTCCGGG 59.679 55.000 0.00 0.00 0.00 5.73
1659 5454 0.319405 GGTTCTCTTTTCGTCCGGGA 59.681 55.000 0.00 0.00 0.00 5.14
1660 5455 1.270465 GGTTCTCTTTTCGTCCGGGAA 60.270 52.381 0.00 0.00 0.00 3.97
1661 5456 2.486918 GTTCTCTTTTCGTCCGGGAAA 58.513 47.619 0.00 0.95 34.28 3.13
1662 5457 2.450609 TCTCTTTTCGTCCGGGAAAG 57.549 50.000 0.00 7.81 37.24 2.62
1663 5458 1.690352 TCTCTTTTCGTCCGGGAAAGT 59.310 47.619 0.00 0.00 37.24 2.66
1664 5459 1.798813 CTCTTTTCGTCCGGGAAAGTG 59.201 52.381 0.00 5.11 37.24 3.16
1665 5460 1.413445 TCTTTTCGTCCGGGAAAGTGA 59.587 47.619 0.00 4.50 37.24 3.41
1666 5461 2.038033 TCTTTTCGTCCGGGAAAGTGAT 59.962 45.455 0.00 0.00 37.24 3.06
1667 5462 1.803334 TTTCGTCCGGGAAAGTGATG 58.197 50.000 0.00 0.00 32.45 3.07
1668 5463 0.672401 TTCGTCCGGGAAAGTGATGC 60.672 55.000 0.00 0.00 0.00 3.91
1669 5464 1.079127 CGTCCGGGAAAGTGATGCT 60.079 57.895 0.00 0.00 0.00 3.79
1670 5465 1.361668 CGTCCGGGAAAGTGATGCTG 61.362 60.000 0.00 0.00 0.00 4.41
1671 5466 1.026718 GTCCGGGAAAGTGATGCTGG 61.027 60.000 0.00 0.00 38.46 4.85
1672 5467 1.002134 CCGGGAAAGTGATGCTGGT 60.002 57.895 0.00 0.00 32.83 4.00
1673 5468 0.609131 CCGGGAAAGTGATGCTGGTT 60.609 55.000 0.00 0.00 32.83 3.67
1674 5469 1.247567 CGGGAAAGTGATGCTGGTTT 58.752 50.000 0.00 0.00 0.00 3.27
1675 5470 1.068333 CGGGAAAGTGATGCTGGTTTG 60.068 52.381 0.00 0.00 0.00 2.93
1676 5471 2.238521 GGGAAAGTGATGCTGGTTTGA 58.761 47.619 0.00 0.00 0.00 2.69
1677 5472 2.827921 GGGAAAGTGATGCTGGTTTGAT 59.172 45.455 0.00 0.00 0.00 2.57
1678 5473 4.016444 GGGAAAGTGATGCTGGTTTGATA 58.984 43.478 0.00 0.00 0.00 2.15
1679 5474 4.646492 GGGAAAGTGATGCTGGTTTGATAT 59.354 41.667 0.00 0.00 0.00 1.63
1680 5475 5.450965 GGGAAAGTGATGCTGGTTTGATATG 60.451 44.000 0.00 0.00 0.00 1.78
1681 5476 5.450965 GGAAAGTGATGCTGGTTTGATATGG 60.451 44.000 0.00 0.00 0.00 2.74
1682 5477 4.240881 AGTGATGCTGGTTTGATATGGT 57.759 40.909 0.00 0.00 0.00 3.55
1683 5478 3.949754 AGTGATGCTGGTTTGATATGGTG 59.050 43.478 0.00 0.00 0.00 4.17
1684 5479 2.689471 TGATGCTGGTTTGATATGGTGC 59.311 45.455 0.00 0.00 0.00 5.01
1685 5480 1.473258 TGCTGGTTTGATATGGTGCC 58.527 50.000 0.00 0.00 0.00 5.01
1686 5481 0.381801 GCTGGTTTGATATGGTGCCG 59.618 55.000 0.00 0.00 0.00 5.69
1687 5482 0.381801 CTGGTTTGATATGGTGCCGC 59.618 55.000 0.00 0.00 0.00 6.53
1688 5483 1.355210 GGTTTGATATGGTGCCGCG 59.645 57.895 0.00 0.00 0.00 6.46
1689 5484 1.298339 GTTTGATATGGTGCCGCGC 60.298 57.895 0.00 0.00 0.00 6.86
1690 5485 2.818487 TTTGATATGGTGCCGCGCG 61.818 57.895 25.67 25.67 0.00 6.86
1703 5498 4.735132 GCGCGCTGTGTGGGACTA 62.735 66.667 26.67 0.00 0.00 2.59
1704 5499 2.507102 CGCGCTGTGTGGGACTAG 60.507 66.667 5.56 0.00 0.00 2.57
1705 5500 2.657237 GCGCTGTGTGGGACTAGT 59.343 61.111 0.00 0.00 0.00 2.57
1715 5510 2.140717 GTGGGACTAGTTTGTTGACCG 58.859 52.381 0.00 0.00 0.00 4.79
1725 5520 6.812160 ACTAGTTTGTTGACCGATGAGATTAC 59.188 38.462 0.00 0.00 0.00 1.89
1726 5521 5.547465 AGTTTGTTGACCGATGAGATTACA 58.453 37.500 0.00 0.00 0.00 2.41
1727 5522 6.173339 AGTTTGTTGACCGATGAGATTACAT 58.827 36.000 0.00 0.00 0.00 2.29
1728 5523 6.313905 AGTTTGTTGACCGATGAGATTACATC 59.686 38.462 0.00 0.00 41.98 3.06
1740 5535 7.907214 ATGAGATTACATCGGGCTATTTTAC 57.093 36.000 0.00 0.00 0.00 2.01
1741 5536 7.062749 TGAGATTACATCGGGCTATTTTACT 57.937 36.000 0.00 0.00 0.00 2.24
1742 5537 7.506114 TGAGATTACATCGGGCTATTTTACTT 58.494 34.615 0.00 0.00 0.00 2.24
1743 5538 7.990886 TGAGATTACATCGGGCTATTTTACTTT 59.009 33.333 0.00 0.00 0.00 2.66
1744 5539 8.747538 AGATTACATCGGGCTATTTTACTTTT 57.252 30.769 0.00 0.00 0.00 2.27
1745 5540 8.837389 AGATTACATCGGGCTATTTTACTTTTC 58.163 33.333 0.00 0.00 0.00 2.29
1746 5541 8.747538 ATTACATCGGGCTATTTTACTTTTCT 57.252 30.769 0.00 0.00 0.00 2.52
1747 5542 8.570068 TTACATCGGGCTATTTTACTTTTCTT 57.430 30.769 0.00 0.00 0.00 2.52
1748 5543 6.852664 ACATCGGGCTATTTTACTTTTCTTG 58.147 36.000 0.00 0.00 0.00 3.02
1749 5544 5.890424 TCGGGCTATTTTACTTTTCTTGG 57.110 39.130 0.00 0.00 0.00 3.61
1750 5545 4.157105 TCGGGCTATTTTACTTTTCTTGGC 59.843 41.667 0.00 0.00 0.00 4.52
1751 5546 4.082463 CGGGCTATTTTACTTTTCTTGGCA 60.082 41.667 0.00 0.00 0.00 4.92
1752 5547 5.410924 GGGCTATTTTACTTTTCTTGGCAG 58.589 41.667 0.00 0.00 0.00 4.85
1753 5548 4.864806 GGCTATTTTACTTTTCTTGGCAGC 59.135 41.667 0.00 0.00 0.00 5.25
1754 5549 4.864806 GCTATTTTACTTTTCTTGGCAGCC 59.135 41.667 3.66 3.66 0.00 4.85
1755 5550 3.363341 TTTTACTTTTCTTGGCAGCCG 57.637 42.857 7.03 0.00 0.00 5.52
1756 5551 2.264005 TTACTTTTCTTGGCAGCCGA 57.736 45.000 7.03 3.46 0.00 5.54
1757 5552 1.808411 TACTTTTCTTGGCAGCCGAG 58.192 50.000 21.92 21.92 36.39 4.63
1758 5553 0.179018 ACTTTTCTTGGCAGCCGAGT 60.179 50.000 25.90 6.63 36.45 4.18
1759 5554 0.954452 CTTTTCTTGGCAGCCGAGTT 59.046 50.000 25.90 0.00 36.45 3.01
1760 5555 0.667993 TTTTCTTGGCAGCCGAGTTG 59.332 50.000 25.90 4.34 36.45 3.16
1761 5556 0.465460 TTTCTTGGCAGCCGAGTTGT 60.465 50.000 25.90 0.00 36.45 3.32
1762 5557 0.394938 TTCTTGGCAGCCGAGTTGTA 59.605 50.000 25.90 6.16 36.45 2.41
1763 5558 0.037326 TCTTGGCAGCCGAGTTGTAG 60.037 55.000 25.90 2.85 36.45 2.74
1764 5559 0.320771 CTTGGCAGCCGAGTTGTAGT 60.321 55.000 19.90 0.00 30.61 2.73
1765 5560 0.970640 TTGGCAGCCGAGTTGTAGTA 59.029 50.000 7.03 0.00 0.00 1.82
1766 5561 0.245539 TGGCAGCCGAGTTGTAGTAC 59.754 55.000 7.03 0.00 0.00 2.73
1767 5562 0.531200 GGCAGCCGAGTTGTAGTACT 59.469 55.000 0.00 0.00 0.00 2.73
1768 5563 1.067071 GGCAGCCGAGTTGTAGTACTT 60.067 52.381 0.00 0.00 0.00 2.24
1769 5564 2.260481 GCAGCCGAGTTGTAGTACTTC 58.740 52.381 0.00 0.00 0.00 3.01
1770 5565 2.094649 GCAGCCGAGTTGTAGTACTTCT 60.095 50.000 0.00 0.00 0.00 2.85
1771 5566 3.128242 GCAGCCGAGTTGTAGTACTTCTA 59.872 47.826 0.00 0.00 0.00 2.10
1772 5567 4.380233 GCAGCCGAGTTGTAGTACTTCTAA 60.380 45.833 0.00 0.00 0.00 2.10
1773 5568 5.679127 GCAGCCGAGTTGTAGTACTTCTAAT 60.679 44.000 0.00 0.00 0.00 1.73
1774 5569 6.459298 GCAGCCGAGTTGTAGTACTTCTAATA 60.459 42.308 0.00 0.00 0.00 0.98
1775 5570 7.478322 CAGCCGAGTTGTAGTACTTCTAATAA 58.522 38.462 0.00 0.00 0.00 1.40
1776 5571 7.644551 CAGCCGAGTTGTAGTACTTCTAATAAG 59.355 40.741 0.00 0.00 0.00 1.73
1777 5572 6.417339 GCCGAGTTGTAGTACTTCTAATAAGC 59.583 42.308 0.00 0.00 0.00 3.09
1778 5573 7.681543 GCCGAGTTGTAGTACTTCTAATAAGCT 60.682 40.741 0.00 0.00 0.00 3.74
1779 5574 7.856894 CCGAGTTGTAGTACTTCTAATAAGCTC 59.143 40.741 0.00 0.00 0.00 4.09
1780 5575 8.396390 CGAGTTGTAGTACTTCTAATAAGCTCA 58.604 37.037 0.00 0.00 0.00 4.26
1786 5581 9.632807 GTAGTACTTCTAATAAGCTCATCATGG 57.367 37.037 0.00 0.00 0.00 3.66
1787 5582 8.484214 AGTACTTCTAATAAGCTCATCATGGA 57.516 34.615 0.00 0.00 0.00 3.41
1788 5583 8.928448 AGTACTTCTAATAAGCTCATCATGGAA 58.072 33.333 0.00 0.00 0.00 3.53
1789 5584 9.717942 GTACTTCTAATAAGCTCATCATGGAAT 57.282 33.333 0.00 0.00 0.00 3.01
1790 5585 8.845413 ACTTCTAATAAGCTCATCATGGAATC 57.155 34.615 0.00 0.00 0.00 2.52
1791 5586 8.435187 ACTTCTAATAAGCTCATCATGGAATCA 58.565 33.333 0.00 0.00 0.00 2.57
1792 5587 9.451002 CTTCTAATAAGCTCATCATGGAATCAT 57.549 33.333 0.00 0.00 0.00 2.45
1802 5597 3.793797 CATGGAATCATGCATGTGTGT 57.206 42.857 25.43 9.85 46.76 3.72
1803 5598 4.118093 CATGGAATCATGCATGTGTGTT 57.882 40.909 25.43 15.71 46.76 3.32
1804 5599 5.251601 CATGGAATCATGCATGTGTGTTA 57.748 39.130 25.43 6.27 46.76 2.41
1805 5600 5.838529 CATGGAATCATGCATGTGTGTTAT 58.161 37.500 25.43 8.46 46.76 1.89
1808 5603 7.401955 TGGAATCATGCATGTGTGTTATTTA 57.598 32.000 25.43 3.20 0.00 1.40
1812 5607 8.637281 AATCATGCATGTGTGTTATTTATGTG 57.363 30.769 25.43 0.00 0.00 3.21
1814 5609 7.249858 TCATGCATGTGTGTTATTTATGTGAC 58.750 34.615 25.43 0.00 0.00 3.67
1815 5610 5.948588 TGCATGTGTGTTATTTATGTGACC 58.051 37.500 0.00 0.00 0.00 4.02
1816 5611 5.027737 GCATGTGTGTTATTTATGTGACCG 58.972 41.667 0.00 0.00 0.00 4.79
1817 5612 5.568482 CATGTGTGTTATTTATGTGACCGG 58.432 41.667 0.00 0.00 0.00 5.28
1826 5621 7.863375 TGTTATTTATGTGACCGGTTTTTCTTG 59.137 33.333 9.42 0.00 0.00 3.02
1827 5622 5.838531 TTTATGTGACCGGTTTTTCTTGT 57.161 34.783 9.42 0.00 0.00 3.16
1830 5625 4.522722 TGTGACCGGTTTTTCTTGTTTT 57.477 36.364 9.42 0.00 0.00 2.43
1831 5626 4.487019 TGTGACCGGTTTTTCTTGTTTTC 58.513 39.130 9.42 0.00 0.00 2.29
1833 5628 4.796830 GTGACCGGTTTTTCTTGTTTTCTC 59.203 41.667 9.42 0.00 0.00 2.87
1836 5631 6.374894 TGACCGGTTTTTCTTGTTTTCTCTAA 59.625 34.615 9.42 0.00 0.00 2.10
1837 5632 7.067737 TGACCGGTTTTTCTTGTTTTCTCTAAT 59.932 33.333 9.42 0.00 0.00 1.73
1840 5635 9.908152 CCGGTTTTTCTTGTTTTCTCTAATTAT 57.092 29.630 0.00 0.00 0.00 1.28
1874 5669 3.989817 GCAACTTGCAAAAACTGGATAGG 59.010 43.478 8.97 0.00 44.26 2.57
1888 5697 8.732746 AAACTGGATAGGATGTGTTAATGTAC 57.267 34.615 0.00 0.00 0.00 2.90
1889 5698 6.513180 ACTGGATAGGATGTGTTAATGTACG 58.487 40.000 0.00 0.00 0.00 3.67
1890 5699 6.322969 ACTGGATAGGATGTGTTAATGTACGA 59.677 38.462 0.00 0.00 0.00 3.43
1891 5700 7.114866 TGGATAGGATGTGTTAATGTACGAA 57.885 36.000 0.00 0.00 0.00 3.85
1892 5701 6.982141 TGGATAGGATGTGTTAATGTACGAAC 59.018 38.462 0.00 0.00 0.00 3.95
1896 5705 7.766219 AGGATGTGTTAATGTACGAACATAC 57.234 36.000 10.02 4.52 45.79 2.39
1898 5707 7.985184 AGGATGTGTTAATGTACGAACATACAT 59.015 33.333 10.02 9.58 45.79 2.29
1899 5708 8.061857 GGATGTGTTAATGTACGAACATACATG 58.938 37.037 10.02 0.00 45.79 3.21
1902 5720 7.385478 TGTGTTAATGTACGAACATACATGTGT 59.615 33.333 9.11 0.00 45.79 3.72
1904 5722 9.420551 TGTTAATGTACGAACATACATGTGTTA 57.579 29.630 9.11 0.00 45.79 2.41
1910 5728 5.927030 ACGAACATACATGTGTTAAAGCAG 58.073 37.500 9.11 0.00 42.08 4.24
1918 5736 5.827666 ACATGTGTTAAAGCAGGTTGTTAC 58.172 37.500 0.00 0.00 0.00 2.50
1926 5744 0.040425 GCAGGTTGTTACGCTTGTGG 60.040 55.000 0.00 0.00 0.00 4.17
1929 5747 1.134340 AGGTTGTTACGCTTGTGGACA 60.134 47.619 0.00 0.00 0.00 4.02
1948 5766 7.181305 TGTGGACATATTTTAGGGTCTGTTCTA 59.819 37.037 0.00 0.00 0.00 2.10
2011 6009 2.359900 CAGCCTGAACGGAATAGCTTT 58.640 47.619 0.00 0.00 33.16 3.51
2036 6034 1.041447 GCTGCAATCCAGGAAGCCAT 61.041 55.000 13.24 0.00 42.03 4.40
2042 6040 1.526315 ATCCAGGAAGCCATGATGGA 58.474 50.000 17.22 0.00 40.96 3.41
2043 6041 1.526315 TCCAGGAAGCCATGATGGAT 58.474 50.000 17.22 5.85 40.96 3.41
2157 6156 2.726822 AAACGGTTCGCTCCTCACCC 62.727 60.000 0.00 0.00 0.00 4.61
2165 6164 2.122729 CTCCTCACCCCCACCTCA 59.877 66.667 0.00 0.00 0.00 3.86
2178 6973 0.321564 CACCTCACTTGATCCCGCAA 60.322 55.000 0.00 0.00 0.00 4.85
2181 6976 1.200020 CCTCACTTGATCCCGCAAAAC 59.800 52.381 0.00 0.00 0.00 2.43
2204 7446 1.263356 CCTCGTTCACAACTCCCCTA 58.737 55.000 0.00 0.00 0.00 3.53
2282 7797 1.454479 CCCATCGCTGGCCAAATCT 60.454 57.895 7.01 0.00 41.64 2.40
2400 7960 2.203224 TCTCGGAGGAGCTAGCCG 60.203 66.667 12.13 13.48 46.08 5.52
2476 8036 1.829222 CAGGCCCCGAAGACTAAACTA 59.171 52.381 0.00 0.00 0.00 2.24
2491 8051 2.726832 AACTACAAGGTGAGCTCGTC 57.273 50.000 9.64 4.68 0.00 4.20
2515 8128 4.285775 CCCTTCTCTTCTTCCCTATGGATC 59.714 50.000 0.00 0.00 41.40 3.36
2579 8192 2.683212 AGAAGCTGCCTCGCTCCT 60.683 61.111 0.00 0.00 39.86 3.69
2590 8203 0.600255 CTCGCTCCTGAACGGTTTGT 60.600 55.000 0.00 0.00 0.00 2.83
2626 8239 5.598830 TGAAGTGAGAAGTCAGGTTAGAAGT 59.401 40.000 0.00 0.00 31.53 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1012 4765 8.998377 TGTATACGTCGTAAATATACCTAAGCA 58.002 33.333 9.52 0.00 32.89 3.91
1023 4776 7.830940 TTCCATGTTTGTATACGTCGTAAAT 57.169 32.000 9.52 0.00 0.00 1.40
1024 4777 7.830940 ATTCCATGTTTGTATACGTCGTAAA 57.169 32.000 9.52 0.00 0.00 2.01
1029 4782 6.183360 ACGGAAATTCCATGTTTGTATACGTC 60.183 38.462 13.04 0.00 35.91 4.34
1030 4783 5.644636 ACGGAAATTCCATGTTTGTATACGT 59.355 36.000 13.04 0.00 35.91 3.57
1031 4784 6.036735 AGACGGAAATTCCATGTTTGTATACG 59.963 38.462 13.04 0.00 35.91 3.06
1032 4785 7.316544 AGACGGAAATTCCATGTTTGTATAC 57.683 36.000 13.04 0.00 35.91 1.47
1033 4786 7.223193 CGTAGACGGAAATTCCATGTTTGTATA 59.777 37.037 13.04 0.00 35.91 1.47
1057 4814 1.613437 CTCCCAAACCAATGCTTTCGT 59.387 47.619 0.00 0.00 0.00 3.85
1122 4886 1.377856 GAGCAGGAGGAACAAGGCC 60.378 63.158 0.00 0.00 0.00 5.19
1182 4946 0.318784 CTTCCTCCGCGTAGTATGCC 60.319 60.000 4.92 0.00 0.00 4.40
1522 5310 3.590824 CCATCCTGTTTGGCCGAC 58.409 61.111 0.00 0.00 35.26 4.79
1606 5397 1.077930 CTGCCAGGGTGAGATGGTG 60.078 63.158 0.00 0.00 38.91 4.17
1611 5402 0.704664 TAGTCTCTGCCAGGGTGAGA 59.295 55.000 0.00 8.40 34.86 3.27
1617 5408 1.476085 CTGTCACTAGTCTCTGCCAGG 59.524 57.143 0.00 0.00 0.00 4.45
1619 5410 2.586648 TCTGTCACTAGTCTCTGCCA 57.413 50.000 0.00 0.00 0.00 4.92
1635 5426 2.731976 CGGACGAAAAGAGAACCTTCTG 59.268 50.000 0.00 0.00 37.73 3.02
1652 5447 1.026718 CCAGCATCACTTTCCCGGAC 61.027 60.000 0.73 0.00 0.00 4.79
1653 5448 1.299648 CCAGCATCACTTTCCCGGA 59.700 57.895 0.73 0.00 0.00 5.14
1654 5449 0.609131 AACCAGCATCACTTTCCCGG 60.609 55.000 0.00 0.00 0.00 5.73
1655 5450 1.068333 CAAACCAGCATCACTTTCCCG 60.068 52.381 0.00 0.00 0.00 5.14
1656 5451 2.238521 TCAAACCAGCATCACTTTCCC 58.761 47.619 0.00 0.00 0.00 3.97
1657 5452 5.450965 CCATATCAAACCAGCATCACTTTCC 60.451 44.000 0.00 0.00 0.00 3.13
1658 5453 5.126061 ACCATATCAAACCAGCATCACTTTC 59.874 40.000 0.00 0.00 0.00 2.62
1659 5454 5.018809 ACCATATCAAACCAGCATCACTTT 58.981 37.500 0.00 0.00 0.00 2.66
1660 5455 4.400251 CACCATATCAAACCAGCATCACTT 59.600 41.667 0.00 0.00 0.00 3.16
1661 5456 3.949754 CACCATATCAAACCAGCATCACT 59.050 43.478 0.00 0.00 0.00 3.41
1662 5457 3.489738 GCACCATATCAAACCAGCATCAC 60.490 47.826 0.00 0.00 0.00 3.06
1663 5458 2.689471 GCACCATATCAAACCAGCATCA 59.311 45.455 0.00 0.00 0.00 3.07
1664 5459 2.035066 GGCACCATATCAAACCAGCATC 59.965 50.000 0.00 0.00 0.00 3.91
1665 5460 2.034124 GGCACCATATCAAACCAGCAT 58.966 47.619 0.00 0.00 0.00 3.79
1666 5461 1.473258 GGCACCATATCAAACCAGCA 58.527 50.000 0.00 0.00 0.00 4.41
1667 5462 0.381801 CGGCACCATATCAAACCAGC 59.618 55.000 0.00 0.00 0.00 4.85
1668 5463 0.381801 GCGGCACCATATCAAACCAG 59.618 55.000 0.00 0.00 0.00 4.00
1669 5464 1.372838 CGCGGCACCATATCAAACCA 61.373 55.000 0.00 0.00 0.00 3.67
1670 5465 1.355210 CGCGGCACCATATCAAACC 59.645 57.895 0.00 0.00 0.00 3.27
1671 5466 1.298339 GCGCGGCACCATATCAAAC 60.298 57.895 8.83 0.00 0.00 2.93
1672 5467 2.818487 CGCGCGGCACCATATCAAA 61.818 57.895 24.84 0.00 0.00 2.69
1673 5468 3.268603 CGCGCGGCACCATATCAA 61.269 61.111 24.84 0.00 0.00 2.57
1686 5481 4.735132 TAGTCCCACACAGCGCGC 62.735 66.667 26.66 26.66 0.00 6.86
1687 5482 2.507102 CTAGTCCCACACAGCGCG 60.507 66.667 0.00 0.00 0.00 6.86
1688 5483 0.602905 AAACTAGTCCCACACAGCGC 60.603 55.000 0.00 0.00 0.00 5.92
1689 5484 1.148310 CAAACTAGTCCCACACAGCG 58.852 55.000 0.00 0.00 0.00 5.18
1690 5485 2.256117 ACAAACTAGTCCCACACAGC 57.744 50.000 0.00 0.00 0.00 4.40
1691 5486 3.560068 GTCAACAAACTAGTCCCACACAG 59.440 47.826 0.00 0.00 0.00 3.66
1692 5487 3.537580 GTCAACAAACTAGTCCCACACA 58.462 45.455 0.00 0.00 0.00 3.72
1693 5488 2.876550 GGTCAACAAACTAGTCCCACAC 59.123 50.000 0.00 0.00 0.00 3.82
1694 5489 2.484065 CGGTCAACAAACTAGTCCCACA 60.484 50.000 0.00 0.00 0.00 4.17
1695 5490 2.140717 CGGTCAACAAACTAGTCCCAC 58.859 52.381 0.00 0.00 0.00 4.61
1696 5491 2.040939 TCGGTCAACAAACTAGTCCCA 58.959 47.619 0.00 0.00 0.00 4.37
1697 5492 2.825861 TCGGTCAACAAACTAGTCCC 57.174 50.000 0.00 0.00 0.00 4.46
1698 5493 3.921677 TCATCGGTCAACAAACTAGTCC 58.078 45.455 0.00 0.00 0.00 3.85
1699 5494 4.806330 TCTCATCGGTCAACAAACTAGTC 58.194 43.478 0.00 0.00 0.00 2.59
1700 5495 4.866508 TCTCATCGGTCAACAAACTAGT 57.133 40.909 0.00 0.00 0.00 2.57
1701 5496 6.811665 TGTAATCTCATCGGTCAACAAACTAG 59.188 38.462 0.00 0.00 0.00 2.57
1702 5497 6.693466 TGTAATCTCATCGGTCAACAAACTA 58.307 36.000 0.00 0.00 0.00 2.24
1703 5498 5.547465 TGTAATCTCATCGGTCAACAAACT 58.453 37.500 0.00 0.00 0.00 2.66
1704 5499 5.856126 TGTAATCTCATCGGTCAACAAAC 57.144 39.130 0.00 0.00 0.00 2.93
1705 5500 6.662414 GATGTAATCTCATCGGTCAACAAA 57.338 37.500 0.00 0.00 41.17 2.83
1715 5510 7.819900 AGTAAAATAGCCCGATGTAATCTCATC 59.180 37.037 0.00 0.00 42.58 2.92
1725 5520 6.265577 CCAAGAAAAGTAAAATAGCCCGATG 58.734 40.000 0.00 0.00 0.00 3.84
1726 5521 5.163550 GCCAAGAAAAGTAAAATAGCCCGAT 60.164 40.000 0.00 0.00 0.00 4.18
1727 5522 4.157105 GCCAAGAAAAGTAAAATAGCCCGA 59.843 41.667 0.00 0.00 0.00 5.14
1728 5523 4.082463 TGCCAAGAAAAGTAAAATAGCCCG 60.082 41.667 0.00 0.00 0.00 6.13
1729 5524 5.400066 TGCCAAGAAAAGTAAAATAGCCC 57.600 39.130 0.00 0.00 0.00 5.19
1730 5525 4.864806 GCTGCCAAGAAAAGTAAAATAGCC 59.135 41.667 0.00 0.00 0.00 3.93
1731 5526 4.864806 GGCTGCCAAGAAAAGTAAAATAGC 59.135 41.667 15.17 0.00 0.00 2.97
1732 5527 5.095490 CGGCTGCCAAGAAAAGTAAAATAG 58.905 41.667 20.29 0.00 0.00 1.73
1733 5528 4.762765 TCGGCTGCCAAGAAAAGTAAAATA 59.237 37.500 20.29 0.00 0.00 1.40
1734 5529 3.572255 TCGGCTGCCAAGAAAAGTAAAAT 59.428 39.130 20.29 0.00 0.00 1.82
1735 5530 2.952978 TCGGCTGCCAAGAAAAGTAAAA 59.047 40.909 20.29 0.00 0.00 1.52
1736 5531 2.552315 CTCGGCTGCCAAGAAAAGTAAA 59.448 45.455 20.29 0.00 0.00 2.01
1737 5532 2.151202 CTCGGCTGCCAAGAAAAGTAA 58.849 47.619 20.29 0.00 0.00 2.24
1738 5533 1.071699 ACTCGGCTGCCAAGAAAAGTA 59.928 47.619 20.29 0.00 0.00 2.24
1739 5534 0.179018 ACTCGGCTGCCAAGAAAAGT 60.179 50.000 20.29 8.51 0.00 2.66
1740 5535 0.954452 AACTCGGCTGCCAAGAAAAG 59.046 50.000 20.29 7.90 0.00 2.27
1741 5536 0.667993 CAACTCGGCTGCCAAGAAAA 59.332 50.000 20.29 0.00 0.00 2.29
1742 5537 0.465460 ACAACTCGGCTGCCAAGAAA 60.465 50.000 20.29 0.00 0.00 2.52
1743 5538 0.394938 TACAACTCGGCTGCCAAGAA 59.605 50.000 20.29 0.00 0.00 2.52
1744 5539 0.037326 CTACAACTCGGCTGCCAAGA 60.037 55.000 20.29 7.81 0.00 3.02
1745 5540 0.320771 ACTACAACTCGGCTGCCAAG 60.321 55.000 20.29 13.01 0.00 3.61
1746 5541 0.970640 TACTACAACTCGGCTGCCAA 59.029 50.000 20.29 0.00 0.00 4.52
1747 5542 0.245539 GTACTACAACTCGGCTGCCA 59.754 55.000 20.29 5.07 0.00 4.92
1748 5543 0.531200 AGTACTACAACTCGGCTGCC 59.469 55.000 9.11 9.11 0.00 4.85
1749 5544 2.094649 AGAAGTACTACAACTCGGCTGC 60.095 50.000 0.00 0.00 0.00 5.25
1750 5545 3.851976 AGAAGTACTACAACTCGGCTG 57.148 47.619 0.00 0.00 0.00 4.85
1751 5546 7.636150 TTATTAGAAGTACTACAACTCGGCT 57.364 36.000 0.00 0.00 0.00 5.52
1752 5547 6.417339 GCTTATTAGAAGTACTACAACTCGGC 59.583 42.308 0.00 0.00 0.00 5.54
1753 5548 7.705214 AGCTTATTAGAAGTACTACAACTCGG 58.295 38.462 0.00 0.00 0.00 4.63
1754 5549 8.396390 TGAGCTTATTAGAAGTACTACAACTCG 58.604 37.037 0.00 0.00 0.00 4.18
1760 5555 9.632807 CCATGATGAGCTTATTAGAAGTACTAC 57.367 37.037 0.00 0.00 0.00 2.73
1761 5556 9.588096 TCCATGATGAGCTTATTAGAAGTACTA 57.412 33.333 0.00 0.00 0.00 1.82
1762 5557 8.484214 TCCATGATGAGCTTATTAGAAGTACT 57.516 34.615 0.00 0.00 0.00 2.73
1763 5558 9.717942 ATTCCATGATGAGCTTATTAGAAGTAC 57.282 33.333 0.00 0.00 0.00 2.73
1764 5559 9.935241 GATTCCATGATGAGCTTATTAGAAGTA 57.065 33.333 0.00 0.00 0.00 2.24
1765 5560 8.435187 TGATTCCATGATGAGCTTATTAGAAGT 58.565 33.333 0.00 0.00 0.00 3.01
1766 5561 8.843885 TGATTCCATGATGAGCTTATTAGAAG 57.156 34.615 0.00 0.00 0.00 2.85
1783 5578 6.474140 AATAACACACATGCATGATTCCAT 57.526 33.333 32.75 15.46 0.00 3.41
1784 5579 5.918426 AATAACACACATGCATGATTCCA 57.082 34.783 32.75 12.97 0.00 3.53
1785 5580 7.922278 ACATAAATAACACACATGCATGATTCC 59.078 33.333 32.75 0.00 0.00 3.01
1786 5581 8.748582 CACATAAATAACACACATGCATGATTC 58.251 33.333 32.75 0.00 0.00 2.52
1787 5582 8.468399 TCACATAAATAACACACATGCATGATT 58.532 29.630 32.75 20.65 0.00 2.57
1788 5583 7.916977 GTCACATAAATAACACACATGCATGAT 59.083 33.333 32.75 17.20 0.00 2.45
1789 5584 7.249858 GTCACATAAATAACACACATGCATGA 58.750 34.615 32.75 9.93 0.00 3.07
1790 5585 6.473131 GGTCACATAAATAACACACATGCATG 59.527 38.462 25.09 25.09 0.00 4.06
1791 5586 6.563422 GGTCACATAAATAACACACATGCAT 58.437 36.000 0.00 0.00 0.00 3.96
1792 5587 5.391416 CGGTCACATAAATAACACACATGCA 60.391 40.000 0.00 0.00 0.00 3.96
1793 5588 5.027737 CGGTCACATAAATAACACACATGC 58.972 41.667 0.00 0.00 0.00 4.06
1794 5589 5.123186 ACCGGTCACATAAATAACACACATG 59.877 40.000 0.00 0.00 0.00 3.21
1795 5590 5.250200 ACCGGTCACATAAATAACACACAT 58.750 37.500 0.00 0.00 0.00 3.21
1796 5591 4.643463 ACCGGTCACATAAATAACACACA 58.357 39.130 0.00 0.00 0.00 3.72
1797 5592 5.616488 AACCGGTCACATAAATAACACAC 57.384 39.130 8.04 0.00 0.00 3.82
1798 5593 6.636562 AAAACCGGTCACATAAATAACACA 57.363 33.333 8.04 0.00 0.00 3.72
1799 5594 7.364970 AGAAAAACCGGTCACATAAATAACAC 58.635 34.615 8.04 0.00 0.00 3.32
1800 5595 7.513371 AGAAAAACCGGTCACATAAATAACA 57.487 32.000 8.04 0.00 0.00 2.41
1801 5596 7.863877 ACAAGAAAAACCGGTCACATAAATAAC 59.136 33.333 8.04 0.00 0.00 1.89
1802 5597 7.942990 ACAAGAAAAACCGGTCACATAAATAA 58.057 30.769 8.04 0.00 0.00 1.40
1803 5598 7.513371 ACAAGAAAAACCGGTCACATAAATA 57.487 32.000 8.04 0.00 0.00 1.40
1804 5599 6.399639 ACAAGAAAAACCGGTCACATAAAT 57.600 33.333 8.04 0.00 0.00 1.40
1805 5600 5.838531 ACAAGAAAAACCGGTCACATAAA 57.161 34.783 8.04 0.00 0.00 1.40
1808 5603 4.729227 AAACAAGAAAAACCGGTCACAT 57.271 36.364 8.04 0.00 0.00 3.21
1812 5607 5.244785 AGAGAAAACAAGAAAAACCGGTC 57.755 39.130 8.04 0.00 0.00 4.79
1814 5609 9.908152 ATAATTAGAGAAAACAAGAAAAACCGG 57.092 29.630 0.00 0.00 0.00 5.28
1836 5631 8.292444 TGCAAGTTGCTTCCTATTTACATAAT 57.708 30.769 27.17 0.00 45.31 1.28
1837 5632 7.695480 TGCAAGTTGCTTCCTATTTACATAA 57.305 32.000 27.17 0.00 45.31 1.90
1840 5635 6.398234 TTTGCAAGTTGCTTCCTATTTACA 57.602 33.333 27.17 0.66 45.31 2.41
1844 5639 5.754890 CAGTTTTTGCAAGTTGCTTCCTATT 59.245 36.000 27.17 6.43 45.31 1.73
1846 5641 4.441356 CCAGTTTTTGCAAGTTGCTTCCTA 60.441 41.667 27.17 5.03 45.31 2.94
1849 5644 3.520569 TCCAGTTTTTGCAAGTTGCTTC 58.479 40.909 27.17 13.07 45.31 3.86
1850 5645 3.608316 TCCAGTTTTTGCAAGTTGCTT 57.392 38.095 27.17 4.84 45.31 3.91
1851 5646 3.825143 ATCCAGTTTTTGCAAGTTGCT 57.175 38.095 27.17 4.26 45.31 3.91
1856 5651 5.047802 ACACATCCTATCCAGTTTTTGCAAG 60.048 40.000 0.00 0.00 0.00 4.01
1862 5657 9.174166 GTACATTAACACATCCTATCCAGTTTT 57.826 33.333 0.00 0.00 0.00 2.43
1865 5660 6.322969 TCGTACATTAACACATCCTATCCAGT 59.677 38.462 0.00 0.00 0.00 4.00
1867 5662 6.718522 TCGTACATTAACACATCCTATCCA 57.281 37.500 0.00 0.00 0.00 3.41
1870 5665 9.472361 GTATGTTCGTACATTAACACATCCTAT 57.528 33.333 13.12 0.00 42.29 2.57
1871 5666 8.468399 TGTATGTTCGTACATTAACACATCCTA 58.532 33.333 13.12 0.00 42.29 2.94
1872 5667 7.324935 TGTATGTTCGTACATTAACACATCCT 58.675 34.615 13.12 0.00 42.29 3.24
1873 5668 7.528481 TGTATGTTCGTACATTAACACATCC 57.472 36.000 13.12 0.00 42.29 3.51
1874 5669 8.600625 ACATGTATGTTCGTACATTAACACATC 58.399 33.333 13.12 0.00 42.29 3.06
1888 5697 5.106712 ACCTGCTTTAACACATGTATGTTCG 60.107 40.000 0.00 0.00 41.89 3.95
1889 5698 6.254281 ACCTGCTTTAACACATGTATGTTC 57.746 37.500 0.00 0.00 41.89 3.18
1890 5699 6.040391 ACAACCTGCTTTAACACATGTATGTT 59.960 34.615 0.00 2.12 44.87 2.71
1891 5700 5.534654 ACAACCTGCTTTAACACATGTATGT 59.465 36.000 0.00 0.00 42.84 2.29
1892 5701 6.012658 ACAACCTGCTTTAACACATGTATG 57.987 37.500 0.00 0.00 0.00 2.39
1894 5703 6.292973 CGTAACAACCTGCTTTAACACATGTA 60.293 38.462 0.00 0.00 0.00 2.29
1896 5705 4.909305 CGTAACAACCTGCTTTAACACATG 59.091 41.667 0.00 0.00 0.00 3.21
1898 5707 3.242804 GCGTAACAACCTGCTTTAACACA 60.243 43.478 0.00 0.00 0.00 3.72
1899 5708 3.002965 AGCGTAACAACCTGCTTTAACAC 59.997 43.478 0.00 0.00 32.89 3.32
1902 5720 3.628487 ACAAGCGTAACAACCTGCTTTAA 59.372 39.130 0.00 0.00 44.74 1.52
1904 5722 2.021457 ACAAGCGTAACAACCTGCTTT 58.979 42.857 0.00 0.00 44.74 3.51
1910 5728 1.301423 TGTCCACAAGCGTAACAACC 58.699 50.000 0.00 0.00 0.00 3.77
1918 5736 3.945285 ACCCTAAAATATGTCCACAAGCG 59.055 43.478 0.00 0.00 0.00 4.68
1929 5747 9.453830 AGGAGATTAGAACAGACCCTAAAATAT 57.546 33.333 0.00 0.00 0.00 1.28
1948 5766 2.637165 AGTTTGGAGTGGGAGGAGATT 58.363 47.619 0.00 0.00 0.00 2.40
2011 6009 0.324614 TCCTGGATTGCAGCTTCGAA 59.675 50.000 0.00 0.00 0.00 3.71
2061 6059 2.579684 AAGCTGGGAATCGGTCGCTC 62.580 60.000 0.00 0.00 39.89 5.03
2094 6092 4.403453 CGTAAATAACTGCAGCTTCCAAC 58.597 43.478 15.27 5.20 0.00 3.77
2096 6094 3.006940 CCGTAAATAACTGCAGCTTCCA 58.993 45.455 15.27 0.00 0.00 3.53
2133 6131 2.036217 TGAGGAGCGAACCGTTTTCTTA 59.964 45.455 0.00 0.00 34.73 2.10
2157 6156 1.221840 CGGGATCAAGTGAGGTGGG 59.778 63.158 0.00 0.00 0.00 4.61
2165 6164 0.898326 GGGGTTTTGCGGGATCAAGT 60.898 55.000 0.00 0.00 0.00 3.16
2190 6985 0.195096 AGGGGTAGGGGAGTTGTGAA 59.805 55.000 0.00 0.00 0.00 3.18
2204 7446 0.402121 GCAGAGGAGAAACAAGGGGT 59.598 55.000 0.00 0.00 0.00 4.95
2272 7787 2.316586 GGAGGGGGAGATTTGGCCA 61.317 63.158 0.00 0.00 0.00 5.36
2282 7797 0.185416 GATCTGTAGTCGGAGGGGGA 59.815 60.000 0.00 0.00 32.02 4.81
2466 8026 4.082679 CGAGCTCACCTTGTAGTTTAGTCT 60.083 45.833 15.40 0.00 0.00 3.24
2476 8036 2.584391 GGGGACGAGCTCACCTTGT 61.584 63.158 21.14 8.60 39.81 3.16
2491 8051 2.708325 CCATAGGGAAGAAGAGAAGGGG 59.292 54.545 0.00 0.00 35.59 4.79
2515 8128 4.803426 GCTGGAGCGAGGACACCG 62.803 72.222 0.00 0.00 0.00 4.94
2579 8192 0.736053 GGAGTGCAACAAACCGTTCA 59.264 50.000 0.00 0.00 41.43 3.18
2626 8239 7.667219 AGCTTCTCAAAAACTTCTCATATCCAA 59.333 33.333 0.00 0.00 0.00 3.53


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

AutoCloner maintained by Alex Coulton.