Multiple sequence alignment - TraesCS6B01G359600

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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 TraesCS6B01G359600 chr6B 100.000 1665 0 0 804 2468 631246257 631244593 0.000000e+00 3075.0
1 TraesCS6B01G359600 chr6B 100.000 547 0 0 1 547 631247060 631246514 0.000000e+00 1011.0
2 TraesCS6B01G359600 chr6B 86.675 818 57 31 806 1603 631193167 631193952 0.000000e+00 859.0
3 TraesCS6B01G359600 chr6B 93.585 530 28 6 19 547 631192612 631193136 0.000000e+00 785.0
4 TraesCS6B01G359600 chr6B 88.581 578 43 13 824 1398 631844074 631843517 0.000000e+00 680.0
5 TraesCS6B01G359600 chr6B 86.325 585 40 20 824 1398 631741230 631740676 3.510000e-168 601.0
6 TraesCS6B01G359600 chr6B 87.327 434 35 10 1908 2337 631194225 631194642 1.720000e-131 479.0
7 TraesCS6B01G359600 chr6B 82.724 492 68 10 23 507 631741789 631741308 2.930000e-114 422.0
8 TraesCS6B01G359600 chr6B 80.614 521 55 25 32 508 631535623 631535105 6.490000e-96 361.0
9 TraesCS6B01G359600 chr6B 94.393 107 3 3 1787 1892 631193950 631194054 7.060000e-36 161.0
10 TraesCS6B01G359600 chr6B 90.909 121 7 4 24 141 631846270 631846151 2.540000e-35 159.0
11 TraesCS6B01G359600 chr6B 91.228 57 2 3 1813 1867 630918911 630918856 9.470000e-10 75.0
12 TraesCS6B01G359600 chr6D 89.163 812 44 20 805 1598 418770151 418769366 0.000000e+00 972.0
13 TraesCS6B01G359600 chr6D 89.019 683 38 14 940 1603 418732921 418733585 0.000000e+00 811.0
14 TraesCS6B01G359600 chr6D 87.478 559 36 18 824 1373 418892868 418892335 4.510000e-172 614.0
15 TraesCS6B01G359600 chr6D 86.957 552 54 12 1 547 418770736 418770198 2.710000e-169 604.0
16 TraesCS6B01G359600 chr6D 84.274 585 39 29 1787 2337 418733583 418734148 2.810000e-144 521.0
17 TraesCS6B01G359600 chr6D 79.322 590 48 30 23 547 418883710 418883130 1.820000e-91 346.0
18 TraesCS6B01G359600 chr6D 93.750 48 3 0 190 237 418944883 418944836 3.400000e-09 73.1
19 TraesCS6B01G359600 chr6D 97.436 39 1 0 805 843 418732792 418732830 1.580000e-07 67.6
20 TraesCS6B01G359600 chr6D 100.000 29 0 0 2345 2373 457782305 457782333 1.000000e-03 54.7
21 TraesCS6B01G359600 chr6A 94.128 579 22 5 807 1375 562271797 562272373 0.000000e+00 870.0
22 TraesCS6B01G359600 chr6A 91.097 629 31 16 943 1561 562400521 562399908 0.000000e+00 828.0
23 TraesCS6B01G359600 chr6A 88.562 612 38 14 805 1402 562488070 562487477 0.000000e+00 713.0
24 TraesCS6B01G359600 chr6A 87.629 582 52 15 824 1398 562250712 562251280 0.000000e+00 658.0
25 TraesCS6B01G359600 chr6A 85.492 579 50 18 826 1398 562470630 562470080 7.660000e-160 573.0
26 TraesCS6B01G359600 chr6A 87.866 478 43 10 1 466 562271200 562271674 4.640000e-152 547.0
27 TraesCS6B01G359600 chr6A 86.765 476 40 14 1 471 562402410 562401953 2.190000e-140 508.0
28 TraesCS6B01G359600 chr6A 78.024 587 55 38 23 547 562471253 562470679 3.990000e-78 302.0
29 TraesCS6B01G359600 chr6A 93.846 195 12 0 1599 1793 448652262 448652068 6.670000e-76 294.0
30 TraesCS6B01G359600 chr6A 85.062 241 11 11 23 240 562249684 562249922 3.190000e-54 222.0
31 TraesCS6B01G359600 chr6A 77.580 281 34 16 2077 2337 562272943 562273214 2.560000e-30 143.0
32 TraesCS6B01G359600 chr6A 91.509 106 4 3 1788 1889 562399849 562399745 9.200000e-30 141.0
33 TraesCS6B01G359600 chr6A 82.963 135 12 3 333 467 562250432 562250555 7.210000e-21 111.0
34 TraesCS6B01G359600 chr6A 82.759 87 8 6 1787 1867 291949342 291949257 1.220000e-08 71.3
35 TraesCS6B01G359600 chr1B 96.721 183 6 0 1603 1785 301635710 301635892 3.080000e-79 305.0
36 TraesCS6B01G359600 chr1B 94.792 192 10 0 1601 1792 364224708 364224517 1.430000e-77 300.0
37 TraesCS6B01G359600 chr1B 92.233 206 14 2 1601 1805 92553607 92553811 8.630000e-75 291.0
38 TraesCS6B01G359600 chr5B 96.216 185 7 0 1601 1785 610350258 610350074 1.110000e-78 303.0
39 TraesCS6B01G359600 chr5B 95.263 190 8 1 1597 1785 584166852 584167041 1.430000e-77 300.0
40 TraesCS6B01G359600 chr7A 95.722 187 8 0 1599 1785 664781373 664781187 3.990000e-78 302.0
41 TraesCS6B01G359600 chr7B 96.175 183 7 0 1603 1785 129963820 129963638 1.430000e-77 300.0
42 TraesCS6B01G359600 chr4B 94.764 191 10 0 1599 1789 522286077 522285887 5.160000e-77 298.0


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 TraesCS6B01G359600 chr6B 631244593 631247060 2467 True 2043.000000 3075 100.000000 1 2468 2 chr6B.!!$R3 2467
1 TraesCS6B01G359600 chr6B 631192612 631194642 2030 False 571.000000 859 90.495000 19 2337 4 chr6B.!!$F1 2318
2 TraesCS6B01G359600 chr6B 631740676 631741789 1113 True 511.500000 601 84.524500 23 1398 2 chr6B.!!$R4 1375
3 TraesCS6B01G359600 chr6B 631843517 631846270 2753 True 419.500000 680 89.745000 24 1398 2 chr6B.!!$R5 1374
4 TraesCS6B01G359600 chr6B 631535105 631535623 518 True 361.000000 361 80.614000 32 508 1 chr6B.!!$R2 476
5 TraesCS6B01G359600 chr6D 418769366 418770736 1370 True 788.000000 972 88.060000 1 1598 2 chr6D.!!$R4 1597
6 TraesCS6B01G359600 chr6D 418892335 418892868 533 True 614.000000 614 87.478000 824 1373 1 chr6D.!!$R2 549
7 TraesCS6B01G359600 chr6D 418732792 418734148 1356 False 466.533333 811 90.243000 805 2337 3 chr6D.!!$F2 1532
8 TraesCS6B01G359600 chr6D 418883130 418883710 580 True 346.000000 346 79.322000 23 547 1 chr6D.!!$R1 524
9 TraesCS6B01G359600 chr6A 562487477 562488070 593 True 713.000000 713 88.562000 805 1402 1 chr6A.!!$R3 597
10 TraesCS6B01G359600 chr6A 562271200 562273214 2014 False 520.000000 870 86.524667 1 2337 3 chr6A.!!$F2 2336
11 TraesCS6B01G359600 chr6A 562399745 562402410 2665 True 492.333333 828 89.790333 1 1889 3 chr6A.!!$R4 1888
12 TraesCS6B01G359600 chr6A 562470080 562471253 1173 True 437.500000 573 81.758000 23 1398 2 chr6A.!!$R5 1375
13 TraesCS6B01G359600 chr6A 562249684 562251280 1596 False 330.333333 658 85.218000 23 1398 3 chr6A.!!$F1 1375

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
872 3896 2.12432 GCACACCACACCACACCT 60.124 61.111 0.0 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2434 5884 0.037734 CCACCACCCTGAACCCTAAC 59.962 60.0 0.0 0.0 0.0 2.34 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
329 407 2.214216 CCACCTTCCACTCCCACGA 61.214 63.158 0.00 0.00 0.00 4.35
473 3334 3.080765 ACGATCCATCACCCGCCA 61.081 61.111 0.00 0.00 0.00 5.69
477 3338 3.182590 ATCCATCACCCGCCATCCG 62.183 63.158 0.00 0.00 0.00 4.18
872 3896 2.124320 GCACACCACACCACACCT 60.124 61.111 0.00 0.00 0.00 4.00
941 3997 2.902343 GCAAGTAGCATCCGGGCC 60.902 66.667 0.00 0.00 44.79 5.80
1236 4316 2.490685 GACGAGTTCCTCCGCCTC 59.509 66.667 0.00 0.00 0.00 4.70
1237 4317 3.066233 GACGAGTTCCTCCGCCTCC 62.066 68.421 0.00 0.00 0.00 4.30
1380 4478 0.812811 TACCTCCTGATCGACCGACG 60.813 60.000 0.00 0.00 44.09 5.12
1392 4492 2.427575 CCGACGGATCATCGAGCG 60.428 66.667 8.64 10.74 42.25 5.03
1467 4567 4.554363 CGAGCGCCGAGTGGGTAG 62.554 72.222 2.29 0.00 41.76 3.18
1468 4568 3.138798 GAGCGCCGAGTGGGTAGA 61.139 66.667 2.29 0.00 38.44 2.59
1483 4584 3.041946 GGGTAGAAGTCCATCTGTCCAT 58.958 50.000 0.00 0.00 31.10 3.41
1501 4622 1.586578 CATACGACGCACATGTACACC 59.413 52.381 0.00 0.00 0.00 4.16
1516 4637 0.959553 ACACCACACGTACAGAGAGG 59.040 55.000 0.00 0.00 0.00 3.69
1517 4638 0.388649 CACCACACGTACAGAGAGGC 60.389 60.000 0.00 0.00 0.00 4.70
1525 4646 1.028905 GTACAGAGAGGCGCAGAGAT 58.971 55.000 10.83 0.00 0.00 2.75
1527 4648 1.028905 ACAGAGAGGCGCAGAGATAC 58.971 55.000 10.83 0.00 0.00 2.24
1529 4650 1.001487 CAGAGAGGCGCAGAGATACAG 60.001 57.143 10.83 0.00 0.00 2.74
1530 4651 1.133945 AGAGAGGCGCAGAGATACAGA 60.134 52.381 10.83 0.00 0.00 3.41
1531 4652 1.266718 GAGAGGCGCAGAGATACAGAG 59.733 57.143 10.83 0.00 0.00 3.35
1532 4653 1.133945 AGAGGCGCAGAGATACAGAGA 60.134 52.381 10.83 0.00 0.00 3.10
1533 4654 1.885887 GAGGCGCAGAGATACAGAGAT 59.114 52.381 10.83 0.00 0.00 2.75
1534 4655 3.078097 GAGGCGCAGAGATACAGAGATA 58.922 50.000 10.83 0.00 0.00 1.98
1535 4656 2.817258 AGGCGCAGAGATACAGAGATAC 59.183 50.000 10.83 0.00 0.00 2.24
1536 4657 2.554462 GGCGCAGAGATACAGAGATACA 59.446 50.000 10.83 0.00 0.00 2.29
1537 4658 3.192422 GGCGCAGAGATACAGAGATACAT 59.808 47.826 10.83 0.00 0.00 2.29
1561 4710 3.957497 AGAGAGGCAGTAGGTGATTAGTG 59.043 47.826 0.00 0.00 0.00 2.74
1565 4714 2.500098 GGCAGTAGGTGATTAGTGTGGA 59.500 50.000 0.00 0.00 0.00 4.02
1576 4729 7.499232 AGGTGATTAGTGTGGAATATTGCTTAC 59.501 37.037 8.53 7.18 0.00 2.34
1577 4730 7.255139 GGTGATTAGTGTGGAATATTGCTTACC 60.255 40.741 8.53 0.00 0.00 2.85
1592 4745 2.029380 GCTTACCATTTCGGCCTTTGTT 60.029 45.455 0.00 0.00 39.03 2.83
1595 4759 3.552132 ACCATTTCGGCCTTTGTTTTT 57.448 38.095 0.00 0.00 39.03 1.94
1596 4760 3.462982 ACCATTTCGGCCTTTGTTTTTC 58.537 40.909 0.00 0.00 39.03 2.29
1598 4762 4.126437 CCATTTCGGCCTTTGTTTTTCTT 58.874 39.130 0.00 0.00 0.00 2.52
1599 4763 4.211164 CCATTTCGGCCTTTGTTTTTCTTC 59.789 41.667 0.00 0.00 0.00 2.87
1600 4764 4.729227 TTTCGGCCTTTGTTTTTCTTCT 57.271 36.364 0.00 0.00 0.00 2.85
1601 4765 3.708563 TCGGCCTTTGTTTTTCTTCTG 57.291 42.857 0.00 0.00 0.00 3.02
1602 4766 3.283751 TCGGCCTTTGTTTTTCTTCTGA 58.716 40.909 0.00 0.00 0.00 3.27
1603 4767 3.315191 TCGGCCTTTGTTTTTCTTCTGAG 59.685 43.478 0.00 0.00 0.00 3.35
1604 4768 3.550842 CGGCCTTTGTTTTTCTTCTGAGG 60.551 47.826 0.00 0.00 0.00 3.86
1605 4769 3.384789 GGCCTTTGTTTTTCTTCTGAGGT 59.615 43.478 0.00 0.00 0.00 3.85
1606 4770 4.363138 GCCTTTGTTTTTCTTCTGAGGTG 58.637 43.478 0.00 0.00 0.00 4.00
1607 4771 4.737649 GCCTTTGTTTTTCTTCTGAGGTGG 60.738 45.833 0.00 0.00 0.00 4.61
1608 4772 4.402474 CCTTTGTTTTTCTTCTGAGGTGGT 59.598 41.667 0.00 0.00 0.00 4.16
1609 4773 4.981806 TTGTTTTTCTTCTGAGGTGGTG 57.018 40.909 0.00 0.00 0.00 4.17
1610 4774 3.963129 TGTTTTTCTTCTGAGGTGGTGT 58.037 40.909 0.00 0.00 0.00 4.16
1611 4775 4.340617 TGTTTTTCTTCTGAGGTGGTGTT 58.659 39.130 0.00 0.00 0.00 3.32
1612 4776 4.770010 TGTTTTTCTTCTGAGGTGGTGTTT 59.230 37.500 0.00 0.00 0.00 2.83
1613 4777 4.981806 TTTTCTTCTGAGGTGGTGTTTG 57.018 40.909 0.00 0.00 0.00 2.93
1614 4778 3.644966 TTCTTCTGAGGTGGTGTTTGT 57.355 42.857 0.00 0.00 0.00 2.83
1615 4779 3.644966 TCTTCTGAGGTGGTGTTTGTT 57.355 42.857 0.00 0.00 0.00 2.83
1616 4780 3.963129 TCTTCTGAGGTGGTGTTTGTTT 58.037 40.909 0.00 0.00 0.00 2.83
1617 4781 3.945285 TCTTCTGAGGTGGTGTTTGTTTC 59.055 43.478 0.00 0.00 0.00 2.78
1618 4782 3.644966 TCTGAGGTGGTGTTTGTTTCT 57.355 42.857 0.00 0.00 0.00 2.52
1619 4783 3.541632 TCTGAGGTGGTGTTTGTTTCTC 58.458 45.455 0.00 0.00 0.00 2.87
1620 4784 3.199946 TCTGAGGTGGTGTTTGTTTCTCT 59.800 43.478 0.00 0.00 0.00 3.10
1621 4785 4.407621 TCTGAGGTGGTGTTTGTTTCTCTA 59.592 41.667 0.00 0.00 0.00 2.43
1622 4786 4.703897 TGAGGTGGTGTTTGTTTCTCTAG 58.296 43.478 0.00 0.00 0.00 2.43
1623 4787 4.163458 TGAGGTGGTGTTTGTTTCTCTAGT 59.837 41.667 0.00 0.00 0.00 2.57
1624 4788 4.704965 AGGTGGTGTTTGTTTCTCTAGTC 58.295 43.478 0.00 0.00 0.00 2.59
1625 4789 3.813724 GGTGGTGTTTGTTTCTCTAGTCC 59.186 47.826 0.00 0.00 0.00 3.85
1626 4790 4.444449 GGTGGTGTTTGTTTCTCTAGTCCT 60.444 45.833 0.00 0.00 0.00 3.85
1627 4791 5.221581 GGTGGTGTTTGTTTCTCTAGTCCTA 60.222 44.000 0.00 0.00 0.00 2.94
1628 4792 5.927115 GTGGTGTTTGTTTCTCTAGTCCTAG 59.073 44.000 0.00 0.00 34.56 3.02
1629 4793 5.011738 TGGTGTTTGTTTCTCTAGTCCTAGG 59.988 44.000 0.82 0.82 34.06 3.02
1630 4794 5.245526 GGTGTTTGTTTCTCTAGTCCTAGGA 59.754 44.000 7.62 7.62 34.06 2.94
1631 4795 6.157904 GTGTTTGTTTCTCTAGTCCTAGGAC 58.842 44.000 31.29 31.29 44.86 3.85
1645 4809 6.608539 GTCCTAGGACTTTTTCTAGTTCCT 57.391 41.667 31.12 0.00 41.57 3.36
1646 4810 6.399743 GTCCTAGGACTTTTTCTAGTTCCTG 58.600 44.000 31.12 0.00 41.57 3.86
1647 4811 6.014413 GTCCTAGGACTTTTTCTAGTTCCTGT 60.014 42.308 31.12 0.00 41.57 4.00
1648 4812 6.014499 TCCTAGGACTTTTTCTAGTTCCTGTG 60.014 42.308 7.62 0.00 33.10 3.66
1649 4813 5.888982 AGGACTTTTTCTAGTTCCTGTGA 57.111 39.130 0.00 0.00 29.95 3.58
1650 4814 5.612351 AGGACTTTTTCTAGTTCCTGTGAC 58.388 41.667 0.00 0.00 29.95 3.67
1651 4815 5.367060 AGGACTTTTTCTAGTTCCTGTGACT 59.633 40.000 0.00 0.00 29.95 3.41
1652 4816 6.056236 GGACTTTTTCTAGTTCCTGTGACTT 58.944 40.000 0.00 0.00 0.00 3.01
1653 4817 6.542735 GGACTTTTTCTAGTTCCTGTGACTTT 59.457 38.462 0.00 0.00 0.00 2.66
1654 4818 7.067129 GGACTTTTTCTAGTTCCTGTGACTTTT 59.933 37.037 0.00 0.00 0.00 2.27
1655 4819 8.349568 ACTTTTTCTAGTTCCTGTGACTTTTT 57.650 30.769 0.00 0.00 0.00 1.94
1656 4820 9.457436 ACTTTTTCTAGTTCCTGTGACTTTTTA 57.543 29.630 0.00 0.00 0.00 1.52
1678 4842 2.849294 AAAGACTCTCAAGGAGGTGC 57.151 50.000 0.00 0.00 45.83 5.01
1679 4843 2.022718 AAGACTCTCAAGGAGGTGCT 57.977 50.000 0.00 0.00 45.83 4.40
1680 4844 2.022718 AGACTCTCAAGGAGGTGCTT 57.977 50.000 0.00 0.00 45.83 3.91
1681 4845 1.899142 AGACTCTCAAGGAGGTGCTTC 59.101 52.381 0.00 0.00 45.83 3.86
1682 4846 1.899142 GACTCTCAAGGAGGTGCTTCT 59.101 52.381 0.00 0.00 45.83 2.85
1683 4847 3.093057 GACTCTCAAGGAGGTGCTTCTA 58.907 50.000 0.00 0.00 45.83 2.10
1684 4848 3.511477 ACTCTCAAGGAGGTGCTTCTAA 58.489 45.455 0.00 0.00 45.83 2.10
1685 4849 3.513515 ACTCTCAAGGAGGTGCTTCTAAG 59.486 47.826 0.00 0.00 45.83 2.18
1686 4850 2.834549 TCTCAAGGAGGTGCTTCTAAGG 59.165 50.000 0.00 0.00 0.00 2.69
1687 4851 2.834549 CTCAAGGAGGTGCTTCTAAGGA 59.165 50.000 0.00 0.00 0.00 3.36
1688 4852 2.567615 TCAAGGAGGTGCTTCTAAGGAC 59.432 50.000 5.86 5.86 45.39 3.85
1689 4853 2.569404 CAAGGAGGTGCTTCTAAGGACT 59.431 50.000 13.12 1.24 45.42 3.85
1690 4854 2.909217 AGGAGGTGCTTCTAAGGACTT 58.091 47.619 13.12 6.52 45.42 3.01
1691 4855 3.252351 AGGAGGTGCTTCTAAGGACTTT 58.748 45.455 13.12 3.63 45.42 2.66
1692 4856 3.653352 AGGAGGTGCTTCTAAGGACTTTT 59.347 43.478 13.12 1.47 45.42 2.27
1693 4857 4.844655 AGGAGGTGCTTCTAAGGACTTTTA 59.155 41.667 13.12 0.00 45.42 1.52
1694 4858 5.046231 AGGAGGTGCTTCTAAGGACTTTTAG 60.046 44.000 13.12 0.00 45.42 1.85
1695 4859 4.580868 AGGTGCTTCTAAGGACTTTTAGC 58.419 43.478 13.12 0.00 45.42 3.09
1696 4860 4.041691 AGGTGCTTCTAAGGACTTTTAGCA 59.958 41.667 13.12 9.74 45.42 3.49
1697 4861 4.760204 GGTGCTTCTAAGGACTTTTAGCAA 59.240 41.667 13.12 1.75 45.42 3.91
1698 4862 5.240844 GGTGCTTCTAAGGACTTTTAGCAAA 59.759 40.000 13.12 0.00 45.42 3.68
1699 4863 6.238925 GGTGCTTCTAAGGACTTTTAGCAAAA 60.239 38.462 13.12 0.00 45.42 2.44
1700 4864 7.200455 GTGCTTCTAAGGACTTTTAGCAAAAA 58.800 34.615 7.07 0.00 43.15 1.94
1738 4902 2.524306 CCATGTTTGGTTTGCTAGGGA 58.476 47.619 0.00 0.00 38.30 4.20
1739 4903 2.231235 CCATGTTTGGTTTGCTAGGGAC 59.769 50.000 0.00 0.00 38.30 4.46
1740 4904 3.157087 CATGTTTGGTTTGCTAGGGACT 58.843 45.455 0.00 0.00 46.37 3.85
1741 4905 3.306472 TGTTTGGTTTGCTAGGGACTT 57.694 42.857 0.00 0.00 41.75 3.01
1742 4906 3.637769 TGTTTGGTTTGCTAGGGACTTT 58.362 40.909 0.00 0.00 41.75 2.66
1743 4907 4.027437 TGTTTGGTTTGCTAGGGACTTTT 58.973 39.130 0.00 0.00 41.75 2.27
1744 4908 4.468153 TGTTTGGTTTGCTAGGGACTTTTT 59.532 37.500 0.00 0.00 41.75 1.94
1766 4930 6.947644 TTTTAGTCCCTACACCAAAAAGTC 57.052 37.500 0.00 0.00 0.00 3.01
1767 4931 3.503800 AGTCCCTACACCAAAAAGTCC 57.496 47.619 0.00 0.00 0.00 3.85
1768 4932 2.107726 AGTCCCTACACCAAAAAGTCCC 59.892 50.000 0.00 0.00 0.00 4.46
1769 4933 2.107726 GTCCCTACACCAAAAAGTCCCT 59.892 50.000 0.00 0.00 0.00 4.20
1770 4934 2.107552 TCCCTACACCAAAAAGTCCCTG 59.892 50.000 0.00 0.00 0.00 4.45
1771 4935 2.514803 CCTACACCAAAAAGTCCCTGG 58.485 52.381 0.00 0.00 36.24 4.45
1772 4936 2.107552 CCTACACCAAAAAGTCCCTGGA 59.892 50.000 0.00 0.00 34.16 3.86
1773 4937 2.838637 ACACCAAAAAGTCCCTGGAA 57.161 45.000 0.00 0.00 34.16 3.53
1774 4938 3.108847 ACACCAAAAAGTCCCTGGAAA 57.891 42.857 0.00 0.00 34.16 3.13
1775 4939 2.764010 ACACCAAAAAGTCCCTGGAAAC 59.236 45.455 0.00 0.00 34.16 2.78
1776 4940 2.763448 CACCAAAAAGTCCCTGGAAACA 59.237 45.455 0.00 0.00 39.59 2.83
1777 4941 3.196685 CACCAAAAAGTCCCTGGAAACAA 59.803 43.478 0.00 0.00 42.06 2.83
1778 4942 3.841255 ACCAAAAAGTCCCTGGAAACAAA 59.159 39.130 0.00 0.00 42.06 2.83
1779 4943 4.188462 CCAAAAAGTCCCTGGAAACAAAC 58.812 43.478 0.00 0.00 42.06 2.93
1780 4944 4.323104 CCAAAAAGTCCCTGGAAACAAACA 60.323 41.667 0.00 0.00 42.06 2.83
1781 4945 4.465632 AAAAGTCCCTGGAAACAAACAC 57.534 40.909 0.00 0.00 42.06 3.32
1782 4946 2.067365 AGTCCCTGGAAACAAACACC 57.933 50.000 0.00 0.00 42.06 4.16
1783 4947 1.037493 GTCCCTGGAAACAAACACCC 58.963 55.000 0.00 0.00 42.06 4.61
1784 4948 0.105913 TCCCTGGAAACAAACACCCC 60.106 55.000 0.00 0.00 42.06 4.95
1785 4949 0.105709 CCCTGGAAACAAACACCCCT 60.106 55.000 0.00 0.00 42.06 4.79
1869 5056 0.039888 TTCGATCGCAGTCGTCACAA 60.040 50.000 11.09 0.00 42.07 3.33
1870 5057 0.454452 TCGATCGCAGTCGTCACAAG 60.454 55.000 11.09 0.00 42.07 3.16
1896 5087 7.654520 GCCGGTTTACATATACAACTTGATCTA 59.345 37.037 1.90 0.00 0.00 1.98
1902 5248 9.961265 TTACATATACAACTTGATCTACTTCCG 57.039 33.333 0.00 0.00 0.00 4.30
1904 5250 3.678056 ACAACTTGATCTACTTCCGCA 57.322 42.857 0.00 0.00 0.00 5.69
1913 5259 1.112113 CTACTTCCGCAGCTTCCCTA 58.888 55.000 0.00 0.00 0.00 3.53
1915 5261 0.912486 ACTTCCGCAGCTTCCCTATT 59.088 50.000 0.00 0.00 0.00 1.73
1924 5270 4.488879 GCAGCTTCCCTATTGTCTTTTTG 58.511 43.478 0.00 0.00 0.00 2.44
1927 5288 3.258123 GCTTCCCTATTGTCTTTTTGGCA 59.742 43.478 0.00 0.00 0.00 4.92
1930 5291 5.208463 TCCCTATTGTCTTTTTGGCAAAC 57.792 39.130 13.10 2.16 44.06 2.93
1939 5300 2.977772 TTTTGGCAAACACTTCCAGG 57.022 45.000 13.10 0.00 0.00 4.45
1954 5322 4.202151 ACTTCCAGGTCAAATTGAACAAGC 60.202 41.667 13.99 0.00 36.30 4.01
1965 5333 5.649782 AATTGAACAAGCTCGAAATGGAT 57.350 34.783 0.00 0.00 0.00 3.41
2008 5383 0.523072 CCAAACAGGCGATGAACCAG 59.477 55.000 0.00 0.00 0.00 4.00
2009 5384 0.109597 CAAACAGGCGATGAACCAGC 60.110 55.000 0.00 0.00 0.00 4.85
2048 5467 1.933247 CTTCAATCCTCTCCTGTCGC 58.067 55.000 0.00 0.00 0.00 5.19
2051 5470 0.248825 CAATCCTCTCCTGTCGCTCG 60.249 60.000 0.00 0.00 0.00 5.03
2059 5478 2.434884 CTGTCGCTCGTGCCCATT 60.435 61.111 3.52 0.00 35.36 3.16
2071 5490 0.401356 TGCCCATTGAGTCTCAGCAA 59.599 50.000 11.04 0.00 0.00 3.91
2198 5637 1.144691 TCAGGGTGTGGGTTCATCAA 58.855 50.000 0.00 0.00 0.00 2.57
2212 5651 5.241506 GGGTTCATCAACATTGAGTTTCAGA 59.758 40.000 0.23 0.00 41.08 3.27
2213 5652 6.376978 GGTTCATCAACATTGAGTTTCAGAG 58.623 40.000 0.23 0.00 41.08 3.35
2217 5656 4.136796 TCAACATTGAGTTTCAGAGTGGG 58.863 43.478 0.00 0.00 38.74 4.61
2305 5755 1.426215 CCCCTACCCTACCTCTCTCTC 59.574 61.905 0.00 0.00 0.00 3.20
2308 5758 3.323775 CCTACCCTACCTCTCTCTCTCT 58.676 54.545 0.00 0.00 0.00 3.10
2316 5766 6.187682 CCTACCTCTCTCTCTCTCTTTCTTT 58.812 44.000 0.00 0.00 0.00 2.52
2369 5819 8.589335 TCTGATTTAGTTACACTTCAGTTGAC 57.411 34.615 0.00 0.00 34.11 3.18
2370 5820 8.421784 TCTGATTTAGTTACACTTCAGTTGACT 58.578 33.333 0.00 0.00 34.11 3.41
2371 5821 8.365399 TGATTTAGTTACACTTCAGTTGACTG 57.635 34.615 4.77 4.77 45.08 3.51
2384 5834 3.750130 CAGTTGACTGATCTGACTTTGGG 59.250 47.826 5.19 0.00 46.59 4.12
2385 5835 3.392616 AGTTGACTGATCTGACTTTGGGT 59.607 43.478 6.60 0.00 0.00 4.51
2386 5836 3.685139 TGACTGATCTGACTTTGGGTC 57.315 47.619 6.60 0.00 44.70 4.46
2398 5848 5.532025 GACTTTGGGTCAGTCGATTTTAG 57.468 43.478 0.00 0.00 43.94 1.85
2399 5849 4.324267 ACTTTGGGTCAGTCGATTTTAGG 58.676 43.478 0.00 0.00 0.00 2.69
2400 5850 3.343941 TTGGGTCAGTCGATTTTAGGG 57.656 47.619 0.00 0.00 0.00 3.53
2401 5851 1.557832 TGGGTCAGTCGATTTTAGGGG 59.442 52.381 0.00 0.00 0.00 4.79
2402 5852 1.134189 GGGTCAGTCGATTTTAGGGGG 60.134 57.143 0.00 0.00 0.00 5.40
2426 5876 4.356979 CCGGAGAGGCTACCTGAA 57.643 61.111 0.00 0.00 31.76 3.02
2427 5877 2.827715 CCGGAGAGGCTACCTGAAT 58.172 57.895 0.00 0.00 31.76 2.57
2428 5878 1.996798 CCGGAGAGGCTACCTGAATA 58.003 55.000 0.00 0.00 31.76 1.75
2429 5879 2.530701 CCGGAGAGGCTACCTGAATAT 58.469 52.381 0.00 0.00 31.76 1.28
2430 5880 2.494073 CCGGAGAGGCTACCTGAATATC 59.506 54.545 0.00 0.00 31.76 1.63
2431 5881 3.426615 CGGAGAGGCTACCTGAATATCT 58.573 50.000 8.26 0.00 31.76 1.98
2432 5882 4.567958 CCGGAGAGGCTACCTGAATATCTA 60.568 50.000 0.00 0.00 31.76 1.98
2433 5883 5.197451 CGGAGAGGCTACCTGAATATCTAT 58.803 45.833 8.26 0.00 31.76 1.98
2434 5884 5.067153 CGGAGAGGCTACCTGAATATCTATG 59.933 48.000 8.26 0.00 31.76 2.23
2435 5885 5.955355 GGAGAGGCTACCTGAATATCTATGT 59.045 44.000 0.00 0.00 31.76 2.29
2436 5886 6.439058 GGAGAGGCTACCTGAATATCTATGTT 59.561 42.308 0.00 0.00 31.76 2.71
2437 5887 7.616150 GGAGAGGCTACCTGAATATCTATGTTA 59.384 40.741 0.00 0.00 31.76 2.41
2438 5888 8.588290 AGAGGCTACCTGAATATCTATGTTAG 57.412 38.462 0.00 0.00 31.76 2.34
2439 5889 7.617723 AGAGGCTACCTGAATATCTATGTTAGG 59.382 40.741 0.00 0.00 31.76 2.69
2440 5890 6.670027 AGGCTACCTGAATATCTATGTTAGGG 59.330 42.308 0.00 0.00 29.57 3.53
2441 5891 6.440965 GGCTACCTGAATATCTATGTTAGGGT 59.559 42.308 0.00 0.00 0.00 4.34
2442 5892 7.038231 GGCTACCTGAATATCTATGTTAGGGTT 60.038 40.741 0.00 0.00 0.00 4.11
2443 5893 8.035984 GCTACCTGAATATCTATGTTAGGGTTC 58.964 40.741 0.00 0.00 0.00 3.62
2444 5894 7.931015 ACCTGAATATCTATGTTAGGGTTCA 57.069 36.000 0.00 0.00 0.00 3.18
2445 5895 7.967908 ACCTGAATATCTATGTTAGGGTTCAG 58.032 38.462 0.00 0.00 37.92 3.02
2446 5896 7.390027 CCTGAATATCTATGTTAGGGTTCAGG 58.610 42.308 14.21 14.21 43.62 3.86
2447 5897 7.316393 TGAATATCTATGTTAGGGTTCAGGG 57.684 40.000 0.00 0.00 0.00 4.45
2448 5898 6.849697 TGAATATCTATGTTAGGGTTCAGGGT 59.150 38.462 0.00 0.00 0.00 4.34
2449 5899 6.688073 ATATCTATGTTAGGGTTCAGGGTG 57.312 41.667 0.00 0.00 0.00 4.61
2450 5900 3.112263 TCTATGTTAGGGTTCAGGGTGG 58.888 50.000 0.00 0.00 0.00 4.61
2451 5901 1.755200 ATGTTAGGGTTCAGGGTGGT 58.245 50.000 0.00 0.00 0.00 4.16
2452 5902 0.768622 TGTTAGGGTTCAGGGTGGTG 59.231 55.000 0.00 0.00 0.00 4.17
2453 5903 0.037734 GTTAGGGTTCAGGGTGGTGG 59.962 60.000 0.00 0.00 0.00 4.61
2454 5904 0.402272 TTAGGGTTCAGGGTGGTGGT 60.402 55.000 0.00 0.00 0.00 4.16
2455 5905 1.131303 TAGGGTTCAGGGTGGTGGTG 61.131 60.000 0.00 0.00 0.00 4.17
2456 5906 2.115266 GGTTCAGGGTGGTGGTGG 59.885 66.667 0.00 0.00 0.00 4.61
2457 5907 2.115266 GTTCAGGGTGGTGGTGGG 59.885 66.667 0.00 0.00 0.00 4.61
2458 5908 3.182263 TTCAGGGTGGTGGTGGGG 61.182 66.667 0.00 0.00 0.00 4.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
329 407 2.033208 GCGGGATAGGTAAGGTGGAGT 61.033 57.143 0.00 0.00 0.00 3.85
454 2163 3.272334 GCGGGTGATGGATCGTGC 61.272 66.667 0.00 0.00 0.00 5.34
862 3885 1.227438 GCGTGTGTAGGTGTGGTGT 60.227 57.895 0.00 0.00 0.00 4.16
872 3896 1.284715 CGAGAGGTGTGCGTGTGTA 59.715 57.895 0.00 0.00 0.00 2.90
1013 4069 2.579684 CTTCCCCTTCTTCTCCGCCG 62.580 65.000 0.00 0.00 0.00 6.46
1361 4459 0.812811 CGTCGGTCGATCAGGAGGTA 60.813 60.000 0.00 0.00 42.86 3.08
1420 4520 3.031964 GCTCACAGTCGCCATGCAC 62.032 63.158 0.00 0.00 0.00 4.57
1421 4521 2.743538 GCTCACAGTCGCCATGCA 60.744 61.111 0.00 0.00 0.00 3.96
1422 4522 2.743538 TGCTCACAGTCGCCATGC 60.744 61.111 0.00 0.00 0.00 4.06
1423 4523 2.393768 GGTGCTCACAGTCGCCATG 61.394 63.158 2.21 0.00 33.28 3.66
1456 4556 1.409427 GATGGACTTCTACCCACTCGG 59.591 57.143 0.00 0.00 34.92 4.63
1457 4557 2.099921 CAGATGGACTTCTACCCACTCG 59.900 54.545 0.00 0.00 34.92 4.18
1461 4561 2.225522 TGGACAGATGGACTTCTACCCA 60.226 50.000 0.00 0.00 36.79 4.51
1462 4562 2.467880 TGGACAGATGGACTTCTACCC 58.532 52.381 0.00 0.00 0.00 3.69
1463 4563 4.261656 CGTATGGACAGATGGACTTCTACC 60.262 50.000 0.00 0.00 0.00 3.18
1464 4564 4.579340 TCGTATGGACAGATGGACTTCTAC 59.421 45.833 0.00 0.00 0.00 2.59
1465 4565 4.579340 GTCGTATGGACAGATGGACTTCTA 59.421 45.833 0.00 0.00 45.36 2.10
1466 4566 3.381908 GTCGTATGGACAGATGGACTTCT 59.618 47.826 0.00 0.00 45.36 2.85
1467 4567 3.707793 GTCGTATGGACAGATGGACTTC 58.292 50.000 0.00 0.00 45.36 3.01
1468 4568 2.099263 CGTCGTATGGACAGATGGACTT 59.901 50.000 0.56 0.00 46.42 3.01
1483 4584 0.597072 TGGTGTACATGTGCGTCGTA 59.403 50.000 9.11 0.00 0.00 3.43
1501 4622 1.801913 GCGCCTCTCTGTACGTGTG 60.802 63.158 0.00 0.00 0.00 3.82
1511 4632 1.266718 CTCTGTATCTCTGCGCCTCTC 59.733 57.143 4.18 0.00 0.00 3.20
1516 4637 3.906014 TGTATCTCTGTATCTCTGCGC 57.094 47.619 0.00 0.00 0.00 6.09
1517 4638 5.411053 TCTCATGTATCTCTGTATCTCTGCG 59.589 44.000 0.00 0.00 0.00 5.18
1525 4646 5.053978 TGCCTCTCTCATGTATCTCTGTA 57.946 43.478 0.00 0.00 0.00 2.74
1527 4648 3.890756 ACTGCCTCTCTCATGTATCTCTG 59.109 47.826 0.00 0.00 0.00 3.35
1529 4650 4.458989 CCTACTGCCTCTCTCATGTATCTC 59.541 50.000 0.00 0.00 0.00 2.75
1530 4651 4.141041 ACCTACTGCCTCTCTCATGTATCT 60.141 45.833 0.00 0.00 0.00 1.98
1531 4652 4.022416 CACCTACTGCCTCTCTCATGTATC 60.022 50.000 0.00 0.00 0.00 2.24
1532 4653 3.894427 CACCTACTGCCTCTCTCATGTAT 59.106 47.826 0.00 0.00 0.00 2.29
1533 4654 3.053619 TCACCTACTGCCTCTCTCATGTA 60.054 47.826 0.00 0.00 0.00 2.29
1534 4655 2.106566 CACCTACTGCCTCTCTCATGT 58.893 52.381 0.00 0.00 0.00 3.21
1535 4656 2.382882 TCACCTACTGCCTCTCTCATG 58.617 52.381 0.00 0.00 0.00 3.07
1536 4657 2.836636 TCACCTACTGCCTCTCTCAT 57.163 50.000 0.00 0.00 0.00 2.90
1537 4658 2.836636 ATCACCTACTGCCTCTCTCA 57.163 50.000 0.00 0.00 0.00 3.27
1561 4710 5.519722 CCGAAATGGTAAGCAATATTCCAC 58.480 41.667 0.00 0.00 0.00 4.02
1565 4714 4.215109 AGGCCGAAATGGTAAGCAATATT 58.785 39.130 0.00 0.00 41.21 1.28
1576 4729 3.727726 AGAAAAACAAAGGCCGAAATGG 58.272 40.909 0.00 0.00 42.50 3.16
1577 4730 5.049828 AGAAGAAAAACAAAGGCCGAAATG 58.950 37.500 0.00 0.00 0.00 2.32
1592 4745 4.340617 ACAAACACCACCTCAGAAGAAAA 58.659 39.130 0.00 0.00 0.00 2.29
1595 4759 3.644966 AACAAACACCACCTCAGAAGA 57.355 42.857 0.00 0.00 0.00 2.87
1596 4760 3.947834 AGAAACAAACACCACCTCAGAAG 59.052 43.478 0.00 0.00 0.00 2.85
1598 4762 3.199946 AGAGAAACAAACACCACCTCAGA 59.800 43.478 0.00 0.00 0.00 3.27
1599 4763 3.545703 AGAGAAACAAACACCACCTCAG 58.454 45.455 0.00 0.00 0.00 3.35
1600 4764 3.644966 AGAGAAACAAACACCACCTCA 57.355 42.857 0.00 0.00 0.00 3.86
1601 4765 4.704965 ACTAGAGAAACAAACACCACCTC 58.295 43.478 0.00 0.00 0.00 3.85
1602 4766 4.444449 GGACTAGAGAAACAAACACCACCT 60.444 45.833 0.00 0.00 0.00 4.00
1603 4767 3.813724 GGACTAGAGAAACAAACACCACC 59.186 47.826 0.00 0.00 0.00 4.61
1604 4768 4.704965 AGGACTAGAGAAACAAACACCAC 58.295 43.478 0.00 0.00 0.00 4.16
1605 4769 5.011738 CCTAGGACTAGAGAAACAAACACCA 59.988 44.000 1.05 0.00 35.21 4.17
1606 4770 5.245526 TCCTAGGACTAGAGAAACAAACACC 59.754 44.000 7.62 0.00 35.21 4.16
1607 4771 6.157904 GTCCTAGGACTAGAGAAACAAACAC 58.842 44.000 31.12 2.21 41.57 3.32
1608 4772 6.342338 GTCCTAGGACTAGAGAAACAAACA 57.658 41.667 31.12 0.00 41.57 2.83
1622 4786 6.014413 ACAGGAACTAGAAAAAGTCCTAGGAC 60.014 42.308 31.29 31.29 40.90 3.85
1623 4787 6.014499 CACAGGAACTAGAAAAAGTCCTAGGA 60.014 42.308 7.62 7.62 36.02 2.94
1624 4788 6.014499 TCACAGGAACTAGAAAAAGTCCTAGG 60.014 42.308 0.82 0.82 36.02 3.02
1625 4789 6.869388 GTCACAGGAACTAGAAAAAGTCCTAG 59.131 42.308 0.00 0.00 36.02 3.02
1626 4790 6.553852 AGTCACAGGAACTAGAAAAAGTCCTA 59.446 38.462 0.00 0.00 36.02 2.94
1627 4791 5.367060 AGTCACAGGAACTAGAAAAAGTCCT 59.633 40.000 0.00 0.00 36.02 3.85
1628 4792 5.612351 AGTCACAGGAACTAGAAAAAGTCC 58.388 41.667 0.00 0.00 36.02 3.85
1629 4793 7.555306 AAAGTCACAGGAACTAGAAAAAGTC 57.445 36.000 0.00 0.00 36.02 3.01
1630 4794 7.939784 AAAAGTCACAGGAACTAGAAAAAGT 57.060 32.000 0.00 0.00 36.02 2.66
1657 4821 3.137360 AGCACCTCCTTGAGAGTCTTTTT 59.863 43.478 0.00 0.00 41.47 1.94
1658 4822 2.708325 AGCACCTCCTTGAGAGTCTTTT 59.292 45.455 0.00 0.00 41.47 2.27
1659 4823 2.334023 AGCACCTCCTTGAGAGTCTTT 58.666 47.619 0.00 0.00 41.47 2.52
1660 4824 2.022718 AGCACCTCCTTGAGAGTCTT 57.977 50.000 0.00 0.00 41.47 3.01
1661 4825 1.899142 GAAGCACCTCCTTGAGAGTCT 59.101 52.381 0.00 0.00 41.47 3.24
1662 4826 1.899142 AGAAGCACCTCCTTGAGAGTC 59.101 52.381 0.00 0.00 41.47 3.36
1663 4827 2.022718 AGAAGCACCTCCTTGAGAGT 57.977 50.000 0.00 0.00 41.47 3.24
1664 4828 3.118811 CCTTAGAAGCACCTCCTTGAGAG 60.119 52.174 0.00 0.00 42.83 3.20
1665 4829 2.834549 CCTTAGAAGCACCTCCTTGAGA 59.165 50.000 0.00 0.00 0.00 3.27
1666 4830 2.834549 TCCTTAGAAGCACCTCCTTGAG 59.165 50.000 0.00 0.00 0.00 3.02
1667 4831 2.567615 GTCCTTAGAAGCACCTCCTTGA 59.432 50.000 0.00 0.00 0.00 3.02
1668 4832 2.569404 AGTCCTTAGAAGCACCTCCTTG 59.431 50.000 0.00 0.00 0.00 3.61
1669 4833 2.909217 AGTCCTTAGAAGCACCTCCTT 58.091 47.619 0.00 0.00 0.00 3.36
1670 4834 2.632763 AGTCCTTAGAAGCACCTCCT 57.367 50.000 0.00 0.00 0.00 3.69
1671 4835 3.704800 AAAGTCCTTAGAAGCACCTCC 57.295 47.619 0.00 0.00 0.00 4.30
1672 4836 4.632251 GCTAAAAGTCCTTAGAAGCACCTC 59.368 45.833 0.00 0.00 31.59 3.85
1673 4837 4.041691 TGCTAAAAGTCCTTAGAAGCACCT 59.958 41.667 6.73 0.00 31.59 4.00
1674 4838 4.324267 TGCTAAAAGTCCTTAGAAGCACC 58.676 43.478 6.73 0.00 31.59 5.01
1675 4839 5.941948 TTGCTAAAAGTCCTTAGAAGCAC 57.058 39.130 9.21 0.00 31.59 4.40
1676 4840 6.952773 TTTTGCTAAAAGTCCTTAGAAGCA 57.047 33.333 6.73 6.73 31.59 3.91
1677 4841 7.859613 CTTTTTGCTAAAAGTCCTTAGAAGC 57.140 36.000 20.79 0.00 43.34 3.86
1707 4871 4.835284 ACCAAACATGGTGGAACTTTTT 57.165 36.364 21.08 0.00 41.33 1.94
1708 4872 4.835284 AACCAAACATGGTGGAACTTTT 57.165 36.364 21.08 5.06 42.20 2.27
1709 4873 4.512484 CAAACCAAACATGGTGGAACTTT 58.488 39.130 21.08 10.49 42.20 2.66
1710 4874 3.681313 GCAAACCAAACATGGTGGAACTT 60.681 43.478 21.08 10.21 42.20 2.66
1711 4875 2.158971 GCAAACCAAACATGGTGGAACT 60.159 45.455 21.08 5.60 42.20 3.01
1712 4876 2.158971 AGCAAACCAAACATGGTGGAAC 60.159 45.455 21.08 9.25 42.20 3.62
1713 4877 2.114616 AGCAAACCAAACATGGTGGAA 58.885 42.857 21.08 0.00 42.20 3.53
1714 4878 1.786937 AGCAAACCAAACATGGTGGA 58.213 45.000 21.08 0.00 42.20 4.02
1715 4879 2.029110 CCTAGCAAACCAAACATGGTGG 60.029 50.000 14.45 14.45 42.20 4.61
1716 4880 2.029110 CCCTAGCAAACCAAACATGGTG 60.029 50.000 0.47 0.00 42.20 4.17
1717 4881 2.158385 TCCCTAGCAAACCAAACATGGT 60.158 45.455 0.00 0.00 45.55 3.55
1718 4882 2.231235 GTCCCTAGCAAACCAAACATGG 59.769 50.000 0.00 0.00 0.00 3.66
1719 4883 3.157087 AGTCCCTAGCAAACCAAACATG 58.843 45.455 0.00 0.00 0.00 3.21
1720 4884 3.525800 AGTCCCTAGCAAACCAAACAT 57.474 42.857 0.00 0.00 0.00 2.71
1721 4885 3.306472 AAGTCCCTAGCAAACCAAACA 57.694 42.857 0.00 0.00 0.00 2.83
1722 4886 4.665833 AAAAGTCCCTAGCAAACCAAAC 57.334 40.909 0.00 0.00 0.00 2.93
1742 4906 6.321945 GGACTTTTTGGTGTAGGGACTAAAAA 59.678 38.462 0.00 0.00 45.48 1.94
1743 4907 5.829391 GGACTTTTTGGTGTAGGGACTAAAA 59.171 40.000 0.00 0.00 45.48 1.52
1744 4908 5.379187 GGACTTTTTGGTGTAGGGACTAAA 58.621 41.667 0.00 0.00 45.48 1.85
1745 4909 4.202493 GGGACTTTTTGGTGTAGGGACTAA 60.202 45.833 0.00 0.00 45.48 2.24
1746 4910 3.328637 GGGACTTTTTGGTGTAGGGACTA 59.671 47.826 0.00 0.00 41.75 2.59
1747 4911 2.107726 GGGACTTTTTGGTGTAGGGACT 59.892 50.000 0.00 0.00 46.37 3.85
1748 4912 2.107726 AGGGACTTTTTGGTGTAGGGAC 59.892 50.000 0.00 0.00 27.25 4.46
1749 4913 2.107552 CAGGGACTTTTTGGTGTAGGGA 59.892 50.000 0.00 0.00 34.60 4.20
1750 4914 2.514803 CAGGGACTTTTTGGTGTAGGG 58.485 52.381 0.00 0.00 34.60 3.53
1751 4915 2.107552 TCCAGGGACTTTTTGGTGTAGG 59.892 50.000 0.00 0.00 34.60 3.18
1752 4916 3.502123 TCCAGGGACTTTTTGGTGTAG 57.498 47.619 0.00 0.00 34.60 2.74
1753 4917 3.955524 TTCCAGGGACTTTTTGGTGTA 57.044 42.857 0.00 0.00 34.60 2.90
1754 4918 2.764010 GTTTCCAGGGACTTTTTGGTGT 59.236 45.455 0.00 0.00 34.60 4.16
1755 4919 2.763448 TGTTTCCAGGGACTTTTTGGTG 59.237 45.455 0.00 0.00 34.60 4.17
1756 4920 3.108847 TGTTTCCAGGGACTTTTTGGT 57.891 42.857 0.00 0.00 34.60 3.67
1757 4921 4.188462 GTTTGTTTCCAGGGACTTTTTGG 58.812 43.478 0.00 0.00 34.60 3.28
1758 4922 4.629634 GTGTTTGTTTCCAGGGACTTTTTG 59.370 41.667 0.00 0.00 34.60 2.44
1759 4923 4.323180 GGTGTTTGTTTCCAGGGACTTTTT 60.323 41.667 0.00 0.00 34.60 1.94
1760 4924 3.196901 GGTGTTTGTTTCCAGGGACTTTT 59.803 43.478 0.00 0.00 34.60 2.27
1761 4925 2.764010 GGTGTTTGTTTCCAGGGACTTT 59.236 45.455 0.00 0.00 34.60 2.66
1762 4926 2.384828 GGTGTTTGTTTCCAGGGACTT 58.615 47.619 0.00 0.00 34.60 3.01
1763 4927 1.411074 GGGTGTTTGTTTCCAGGGACT 60.411 52.381 0.00 0.00 43.88 3.85
1764 4928 1.037493 GGGTGTTTGTTTCCAGGGAC 58.963 55.000 0.00 0.00 0.00 4.46
1765 4929 0.105913 GGGGTGTTTGTTTCCAGGGA 60.106 55.000 0.00 0.00 0.00 4.20
1766 4930 0.105709 AGGGGTGTTTGTTTCCAGGG 60.106 55.000 0.00 0.00 0.00 4.45
1767 4931 1.412343 CAAGGGGTGTTTGTTTCCAGG 59.588 52.381 0.00 0.00 0.00 4.45
1768 4932 2.383855 TCAAGGGGTGTTTGTTTCCAG 58.616 47.619 0.00 0.00 0.00 3.86
1769 4933 2.534042 TCAAGGGGTGTTTGTTTCCA 57.466 45.000 0.00 0.00 0.00 3.53
1770 4934 3.641436 AGAATCAAGGGGTGTTTGTTTCC 59.359 43.478 5.59 0.00 35.98 3.13
1771 4935 4.937201 AGAATCAAGGGGTGTTTGTTTC 57.063 40.909 0.00 0.00 35.77 2.78
1772 4936 4.683129 GCAAGAATCAAGGGGTGTTTGTTT 60.683 41.667 0.00 0.00 0.00 2.83
1773 4937 3.181466 GCAAGAATCAAGGGGTGTTTGTT 60.181 43.478 0.00 0.00 0.00 2.83
1774 4938 2.365293 GCAAGAATCAAGGGGTGTTTGT 59.635 45.455 0.00 0.00 0.00 2.83
1775 4939 2.364970 TGCAAGAATCAAGGGGTGTTTG 59.635 45.455 0.00 0.00 0.00 2.93
1776 4940 2.365293 GTGCAAGAATCAAGGGGTGTTT 59.635 45.455 0.00 0.00 0.00 2.83
1777 4941 1.963515 GTGCAAGAATCAAGGGGTGTT 59.036 47.619 0.00 0.00 0.00 3.32
1778 4942 1.133513 TGTGCAAGAATCAAGGGGTGT 60.134 47.619 0.00 0.00 0.00 4.16
1779 4943 1.619654 TGTGCAAGAATCAAGGGGTG 58.380 50.000 0.00 0.00 0.00 4.61
1780 4944 2.173519 CATGTGCAAGAATCAAGGGGT 58.826 47.619 0.00 0.00 0.00 4.95
1781 4945 1.134907 GCATGTGCAAGAATCAAGGGG 60.135 52.381 0.00 0.00 41.59 4.79
1782 4946 2.288961 GCATGTGCAAGAATCAAGGG 57.711 50.000 0.00 0.00 41.59 3.95
1826 5005 9.878599 GAATTCAACTGTTAATTATACATCGGG 57.121 33.333 0.00 0.00 0.00 5.14
1869 5056 5.736813 TCAAGTTGTATATGTAAACCGGCT 58.263 37.500 0.00 0.00 0.00 5.52
1870 5057 6.482308 AGATCAAGTTGTATATGTAAACCGGC 59.518 38.462 0.00 0.00 0.00 6.13
1896 5087 0.912486 AATAGGGAAGCTGCGGAAGT 59.088 50.000 0.00 0.00 0.00 3.01
1900 5246 0.179000 AGACAATAGGGAAGCTGCGG 59.821 55.000 0.00 0.00 0.00 5.69
1901 5247 2.029838 AAGACAATAGGGAAGCTGCG 57.970 50.000 0.00 0.00 0.00 5.18
1902 5248 4.488879 CAAAAAGACAATAGGGAAGCTGC 58.511 43.478 0.00 0.00 0.00 5.25
1904 5250 3.511540 GCCAAAAAGACAATAGGGAAGCT 59.488 43.478 0.00 0.00 0.00 3.74
1913 5259 4.875536 GGAAGTGTTTGCCAAAAAGACAAT 59.124 37.500 0.00 0.00 0.00 2.71
1915 5261 3.259374 TGGAAGTGTTTGCCAAAAAGACA 59.741 39.130 0.00 0.00 0.00 3.41
1924 5270 1.398692 TTGACCTGGAAGTGTTTGCC 58.601 50.000 0.00 0.00 0.00 4.52
1927 5288 5.186797 TGTTCAATTTGACCTGGAAGTGTTT 59.813 36.000 0.00 0.00 0.00 2.83
1930 5291 4.916983 TGTTCAATTTGACCTGGAAGTG 57.083 40.909 0.00 0.00 0.00 3.16
1939 5300 5.117592 CCATTTCGAGCTTGTTCAATTTGAC 59.882 40.000 0.00 0.00 0.00 3.18
1954 5322 5.107453 GCCGAACTATGTAATCCATTTCGAG 60.107 44.000 9.49 3.63 42.41 4.04
1965 5333 4.459390 TTAGCACTGCCGAACTATGTAA 57.541 40.909 0.00 0.00 0.00 2.41
2005 5380 2.322355 AAGAGATGTTCCGATGCTGG 57.678 50.000 0.00 0.00 0.00 4.85
2008 5383 2.410053 GCGATAAGAGATGTTCCGATGC 59.590 50.000 0.00 0.00 0.00 3.91
2009 5384 3.906998 AGCGATAAGAGATGTTCCGATG 58.093 45.455 0.00 0.00 0.00 3.84
2013 5388 5.178438 GGATTGAAGCGATAAGAGATGTTCC 59.822 44.000 0.00 0.00 0.00 3.62
2048 5467 0.247460 TGAGACTCAATGGGCACGAG 59.753 55.000 1.64 0.00 0.00 4.18
2051 5470 0.321919 TGCTGAGACTCAATGGGCAC 60.322 55.000 11.84 0.00 0.00 5.01
2094 5513 4.250464 CCCCATGCATCATGATTAATTGC 58.750 43.478 5.16 8.42 43.81 3.56
2198 5637 2.224867 CCCCCACTCTGAAACTCAATGT 60.225 50.000 0.00 0.00 0.00 2.71
2212 5651 1.068121 CTTTCTTCACCTCCCCCACT 58.932 55.000 0.00 0.00 0.00 4.00
2213 5652 1.003696 CTCTTTCTTCACCTCCCCCAC 59.996 57.143 0.00 0.00 0.00 4.61
2217 5656 1.978580 TCACCTCTTTCTTCACCTCCC 59.021 52.381 0.00 0.00 0.00 4.30
2255 5694 0.526524 GGAAGAGGATCACGCGTGAG 60.527 60.000 40.50 18.81 43.61 3.51
2259 5698 2.230025 AGATATGGAAGAGGATCACGCG 59.770 50.000 3.53 3.53 37.82 6.01
2346 5796 8.365399 CAGTCAACTGAAGTGTAACTAAATCA 57.635 34.615 4.05 0.00 46.88 2.57
2362 5812 3.750130 CCCAAAGTCAGATCAGTCAACTG 59.250 47.826 3.69 3.69 45.08 3.16
2363 5813 3.392616 ACCCAAAGTCAGATCAGTCAACT 59.607 43.478 0.00 0.00 0.00 3.16
2364 5814 3.744660 ACCCAAAGTCAGATCAGTCAAC 58.255 45.455 0.00 0.00 0.00 3.18
2365 5815 4.008074 GACCCAAAGTCAGATCAGTCAA 57.992 45.455 0.00 0.00 45.55 3.18
2366 5816 3.685139 GACCCAAAGTCAGATCAGTCA 57.315 47.619 0.00 0.00 45.55 3.41
2376 5826 4.392138 CCTAAAATCGACTGACCCAAAGTC 59.608 45.833 0.00 0.00 46.51 3.01
2377 5827 4.324267 CCTAAAATCGACTGACCCAAAGT 58.676 43.478 0.00 0.00 0.00 2.66
2378 5828 3.689649 CCCTAAAATCGACTGACCCAAAG 59.310 47.826 0.00 0.00 0.00 2.77
2379 5829 3.560453 CCCCTAAAATCGACTGACCCAAA 60.560 47.826 0.00 0.00 0.00 3.28
2380 5830 2.026636 CCCCTAAAATCGACTGACCCAA 60.027 50.000 0.00 0.00 0.00 4.12
2381 5831 1.557832 CCCCTAAAATCGACTGACCCA 59.442 52.381 0.00 0.00 0.00 4.51
2382 5832 1.134189 CCCCCTAAAATCGACTGACCC 60.134 57.143 0.00 0.00 0.00 4.46
2383 5833 2.327200 CCCCCTAAAATCGACTGACC 57.673 55.000 0.00 0.00 0.00 4.02
2409 5859 1.996798 TATTCAGGTAGCCTCTCCGG 58.003 55.000 0.00 0.00 0.00 5.14
2410 5860 3.426615 AGATATTCAGGTAGCCTCTCCG 58.573 50.000 0.00 0.00 0.00 4.63
2411 5861 5.955355 ACATAGATATTCAGGTAGCCTCTCC 59.045 44.000 0.00 0.00 0.00 3.71
2412 5862 7.475137 AACATAGATATTCAGGTAGCCTCTC 57.525 40.000 0.00 0.00 0.00 3.20
2413 5863 7.617723 CCTAACATAGATATTCAGGTAGCCTCT 59.382 40.741 0.00 0.00 0.00 3.69
2414 5864 7.147811 CCCTAACATAGATATTCAGGTAGCCTC 60.148 44.444 0.00 0.00 0.00 4.70
2415 5865 6.670027 CCCTAACATAGATATTCAGGTAGCCT 59.330 42.308 0.00 0.00 0.00 4.58
2416 5866 6.440965 ACCCTAACATAGATATTCAGGTAGCC 59.559 42.308 0.00 0.00 0.00 3.93
2417 5867 7.483580 ACCCTAACATAGATATTCAGGTAGC 57.516 40.000 0.00 0.00 0.00 3.58
2418 5868 9.090103 TGAACCCTAACATAGATATTCAGGTAG 57.910 37.037 0.00 0.00 0.00 3.18
2419 5869 9.090103 CTGAACCCTAACATAGATATTCAGGTA 57.910 37.037 0.00 0.00 36.39 3.08
2420 5870 7.016661 CCTGAACCCTAACATAGATATTCAGGT 59.983 40.741 21.35 5.42 44.00 4.00
2421 5871 7.390027 CCTGAACCCTAACATAGATATTCAGG 58.610 42.308 18.92 18.92 43.82 3.86
2422 5872 7.016661 ACCCTGAACCCTAACATAGATATTCAG 59.983 40.741 0.00 0.00 37.89 3.02
2423 5873 6.849697 ACCCTGAACCCTAACATAGATATTCA 59.150 38.462 0.00 0.00 0.00 2.57
2424 5874 7.162082 CACCCTGAACCCTAACATAGATATTC 58.838 42.308 0.00 0.00 0.00 1.75
2425 5875 6.044404 CCACCCTGAACCCTAACATAGATATT 59.956 42.308 0.00 0.00 0.00 1.28
2426 5876 5.548056 CCACCCTGAACCCTAACATAGATAT 59.452 44.000 0.00 0.00 0.00 1.63
2427 5877 4.905456 CCACCCTGAACCCTAACATAGATA 59.095 45.833 0.00 0.00 0.00 1.98
2428 5878 3.716872 CCACCCTGAACCCTAACATAGAT 59.283 47.826 0.00 0.00 0.00 1.98
2429 5879 3.112263 CCACCCTGAACCCTAACATAGA 58.888 50.000 0.00 0.00 0.00 1.98
2430 5880 2.844348 ACCACCCTGAACCCTAACATAG 59.156 50.000 0.00 0.00 0.00 2.23
2431 5881 2.574369 CACCACCCTGAACCCTAACATA 59.426 50.000 0.00 0.00 0.00 2.29
2432 5882 1.354368 CACCACCCTGAACCCTAACAT 59.646 52.381 0.00 0.00 0.00 2.71
2433 5883 0.768622 CACCACCCTGAACCCTAACA 59.231 55.000 0.00 0.00 0.00 2.41
2434 5884 0.037734 CCACCACCCTGAACCCTAAC 59.962 60.000 0.00 0.00 0.00 2.34
2435 5885 0.402272 ACCACCACCCTGAACCCTAA 60.402 55.000 0.00 0.00 0.00 2.69
2436 5886 1.131303 CACCACCACCCTGAACCCTA 61.131 60.000 0.00 0.00 0.00 3.53
2437 5887 2.038762 ACCACCACCCTGAACCCT 60.039 61.111 0.00 0.00 0.00 4.34
2438 5888 2.115266 CACCACCACCCTGAACCC 59.885 66.667 0.00 0.00 0.00 4.11
2439 5889 2.115266 CCACCACCACCCTGAACC 59.885 66.667 0.00 0.00 0.00 3.62
2440 5890 2.115266 CCCACCACCACCCTGAAC 59.885 66.667 0.00 0.00 0.00 3.18
2441 5891 3.182263 CCCCACCACCACCCTGAA 61.182 66.667 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.