Multiple sequence alignment - TraesCS2B01G244200

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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 TraesCS2B01G244200 chr2B 100.000 2411 0 0 1 2411 248140213 248137803 0.000000e+00 4453.0
1 TraesCS2B01G244200 chr2D 92.410 1054 43 13 671 1712 192184104 192185132 0.000000e+00 1469.0
2 TraesCS2B01G244200 chr2D 87.217 618 44 13 18 616 192183505 192184106 0.000000e+00 671.0
3 TraesCS2B01G244200 chr2D 81.300 631 35 17 1810 2411 192185125 192185701 3.680000e-118 435.0
4 TraesCS2B01G244200 chr2D 98.182 110 2 0 1708 1817 382457280 382457171 2.450000e-45 193.0
5 TraesCS2B01G244200 chr2D 97.297 111 3 0 1710 1820 63660176 63660066 3.160000e-44 189.0
6 TraesCS2B01G244200 chr2A 89.727 1061 41 27 671 1712 205915173 205914162 0.000000e+00 1293.0
7 TraesCS2B01G244200 chr2A 85.593 354 28 13 279 621 205915510 205915169 1.370000e-92 350.0
8 TraesCS2B01G244200 chr2A 84.667 300 16 6 1997 2294 205913867 205913596 3.050000e-69 272.0
9 TraesCS2B01G244200 chr2A 94.286 140 8 0 67 206 205915685 205915546 5.220000e-52 215.0
10 TraesCS2B01G244200 chr2A 97.500 80 2 0 2332 2411 205913409 205913330 1.160000e-28 137.0
11 TraesCS2B01G244200 chr2A 87.826 115 11 1 1886 1997 205914068 205913954 5.410000e-27 132.0
12 TraesCS2B01G244200 chr2A 94.737 57 2 1 2290 2345 205913513 205913457 1.190000e-13 87.9
13 TraesCS2B01G244200 chr3D 83.655 881 112 20 671 1535 570839382 570840246 0.000000e+00 800.0
14 TraesCS2B01G244200 chr3D 82.653 98 11 4 487 583 570839196 570839288 5.520000e-12 82.4
15 TraesCS2B01G244200 chr3A 82.531 893 108 23 677 1541 703844881 703844009 0.000000e+00 741.0
16 TraesCS2B01G244200 chr3B 80.855 585 65 24 684 1238 757930742 757931309 1.330000e-112 416.0
17 TraesCS2B01G244200 chr5A 97.321 112 3 0 1708 1819 69844786 69844897 8.800000e-45 191.0
18 TraesCS2B01G244200 chr1A 98.165 109 2 0 1708 1816 294516628 294516520 8.800000e-45 191.0
19 TraesCS2B01G244200 chr1A 90.299 134 13 0 1689 1822 441770349 441770482 2.460000e-40 176.0
20 TraesCS2B01G244200 chr7A 97.297 111 3 0 1708 1818 165854014 165853904 3.160000e-44 189.0
21 TraesCS2B01G244200 chr4A 94.400 125 4 2 1693 1817 593739144 593739023 3.160000e-44 189.0
22 TraesCS2B01G244200 chr4A 95.726 117 3 2 1710 1825 278329260 278329145 1.140000e-43 187.0
23 TraesCS2B01G244200 chr7B 91.045 134 8 4 1683 1816 78552031 78552160 6.850000e-41 178.0


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 TraesCS2B01G244200 chr2B 248137803 248140213 2410 True 4453.000000 4453 100.000000 1 2411 1 chr2B.!!$R1 2410
1 TraesCS2B01G244200 chr2D 192183505 192185701 2196 False 858.333333 1469 86.975667 18 2411 3 chr2D.!!$F1 2393
2 TraesCS2B01G244200 chr2A 205913330 205915685 2355 True 355.271429 1293 90.619429 67 2411 7 chr2A.!!$R1 2344
3 TraesCS2B01G244200 chr3D 570839196 570840246 1050 False 441.200000 800 83.154000 487 1535 2 chr3D.!!$F1 1048
4 TraesCS2B01G244200 chr3A 703844009 703844881 872 True 741.000000 741 82.531000 677 1541 1 chr3A.!!$R1 864
5 TraesCS2B01G244200 chr3B 757930742 757931309 567 False 416.000000 416 80.855000 684 1238 1 chr3B.!!$F1 554

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
209 223 0.958876 GGGACCTAGGTTTTGGCGTG 60.959 60.0 17.53 0.0 0.0 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1530 1666 0.110295 ACCAGTGGCAGCACAATACA 59.89 50.0 9.78 0.0 0.0 2.29 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
48 49 2.454772 ACTTCCTCCCCCTTTTGGATTT 59.545 45.455 0.00 0.00 44.07 2.17
51 52 1.203300 CCTCCCCCTTTTGGATTTGGT 60.203 52.381 0.00 0.00 44.07 3.67
80 81 5.220854 GCACTGCTGTACCGATGAAATTAAT 60.221 40.000 0.00 0.00 0.00 1.40
119 120 3.886123 AGTTTGGATTGTAGGGATTCGG 58.114 45.455 0.00 0.00 0.00 4.30
138 139 3.810941 TCGGGTGTTCATTGAACTGTAAC 59.189 43.478 25.49 16.74 42.39 2.50
209 223 0.958876 GGGACCTAGGTTTTGGCGTG 60.959 60.000 17.53 0.00 0.00 5.34
223 239 6.088883 GGTTTTGGCGTGTTACTATTTTGATG 59.911 38.462 0.00 0.00 0.00 3.07
226 242 4.393680 TGGCGTGTTACTATTTTGATGGAC 59.606 41.667 0.00 0.00 0.00 4.02
228 244 5.447279 GGCGTGTTACTATTTTGATGGACAG 60.447 44.000 0.00 0.00 0.00 3.51
250 266 9.167311 GACAGAGTAACCAGATTTTGATTATGT 57.833 33.333 0.00 0.00 0.00 2.29
252 268 8.950210 CAGAGTAACCAGATTTTGATTATGTGT 58.050 33.333 0.00 0.00 0.00 3.72
259 275 7.006509 CCAGATTTTGATTATGTGTATCCCCT 58.993 38.462 0.00 0.00 0.00 4.79
302 326 9.973450 GATACATGATTGTGACTAACTGACTAT 57.027 33.333 0.00 0.00 36.53 2.12
318 342 6.905736 ACTGACTATGACTCTGAGATAGGAA 58.094 40.000 12.44 1.91 0.00 3.36
321 345 7.293828 TGACTATGACTCTGAGATAGGAATGT 58.706 38.462 12.44 0.06 0.00 2.71
329 353 2.766263 TGAGATAGGAATGTTGCGTCCT 59.234 45.455 0.00 0.00 46.29 3.85
330 354 3.126831 GAGATAGGAATGTTGCGTCCTG 58.873 50.000 2.42 0.00 44.25 3.86
331 355 2.766263 AGATAGGAATGTTGCGTCCTGA 59.234 45.455 2.42 0.00 44.25 3.86
332 356 3.389329 AGATAGGAATGTTGCGTCCTGAT 59.611 43.478 2.42 0.00 44.25 2.90
333 357 4.588951 AGATAGGAATGTTGCGTCCTGATA 59.411 41.667 2.42 0.00 44.25 2.15
334 358 3.627395 AGGAATGTTGCGTCCTGATAA 57.373 42.857 0.00 0.00 42.87 1.75
335 359 4.156455 AGGAATGTTGCGTCCTGATAAT 57.844 40.909 0.00 0.00 42.87 1.28
336 360 4.130118 AGGAATGTTGCGTCCTGATAATC 58.870 43.478 0.00 0.00 42.87 1.75
337 361 3.876914 GGAATGTTGCGTCCTGATAATCA 59.123 43.478 0.00 0.00 0.00 2.57
338 362 4.516698 GGAATGTTGCGTCCTGATAATCAT 59.483 41.667 0.00 0.00 0.00 2.45
339 363 5.428496 AATGTTGCGTCCTGATAATCATG 57.572 39.130 0.00 0.00 0.00 3.07
340 364 4.135747 TGTTGCGTCCTGATAATCATGA 57.864 40.909 0.00 0.00 0.00 3.07
382 406 9.793259 TGATGAAATAGGAACTTTTAGACAACT 57.207 29.630 0.00 0.00 41.75 3.16
621 716 6.915786 AGCAAGGATAAATTCCCTACTCATT 58.084 36.000 0.00 0.00 46.81 2.57
622 717 7.357471 AGCAAGGATAAATTCCCTACTCATTT 58.643 34.615 0.00 0.00 46.81 2.32
623 718 7.286316 AGCAAGGATAAATTCCCTACTCATTTG 59.714 37.037 0.00 0.00 46.81 2.32
625 720 8.971073 CAAGGATAAATTCCCTACTCATTTGTT 58.029 33.333 0.00 0.00 46.81 2.83
653 748 8.635877 AAAATAACTAAAATTGTTCACGCACA 57.364 26.923 0.00 0.00 0.00 4.57
654 749 7.617533 AATAACTAAAATTGTTCACGCACAC 57.382 32.000 0.00 0.00 0.00 3.82
655 750 4.624336 ACTAAAATTGTTCACGCACACA 57.376 36.364 0.00 0.00 0.00 3.72
656 751 4.347813 ACTAAAATTGTTCACGCACACAC 58.652 39.130 0.00 0.00 0.00 3.82
657 752 2.929531 AAATTGTTCACGCACACACA 57.070 40.000 0.00 0.00 0.00 3.72
658 753 2.929531 AATTGTTCACGCACACACAA 57.070 40.000 0.00 0.00 33.78 3.33
659 754 2.929531 ATTGTTCACGCACACACAAA 57.070 40.000 0.00 0.00 33.02 2.83
660 755 2.706555 TTGTTCACGCACACACAAAA 57.293 40.000 0.00 0.00 0.00 2.44
661 756 2.706555 TGTTCACGCACACACAAAAA 57.293 40.000 0.00 0.00 0.00 1.94
682 777 2.851263 AAACGTGCTTATCCCTGTCA 57.149 45.000 0.00 0.00 0.00 3.58
744 839 9.299963 CTTTCACTTTTCATGTGTAATGTTTCA 57.700 29.630 0.00 0.00 36.83 2.69
764 861 8.442384 TGTTTCAAAGTTCTTTGATTTTTGAGC 58.558 29.630 22.84 12.69 40.25 4.26
871 992 6.675026 TGCAATCATGAGTTTCTTCTCTTTG 58.325 36.000 0.09 0.00 35.68 2.77
973 1108 9.199982 CATCTTTCTGCAAACTGAATATTGTTT 57.800 29.630 0.00 0.00 36.91 2.83
1290 1425 2.433604 GTCTGATCCAGAGGATGAGCAA 59.566 50.000 7.52 0.00 43.27 3.91
1379 1514 1.705997 GGGTATGAAGGTCGCCCCAT 61.706 60.000 0.00 0.00 34.66 4.00
1380 1515 0.535102 GGTATGAAGGTCGCCCCATG 60.535 60.000 9.79 0.00 34.66 3.66
1417 1552 5.533482 ACATCGAGGATATGTAGCTTGTTC 58.467 41.667 3.06 0.00 35.82 3.18
1441 1576 9.581289 TTCAGAATTATTCAAAAGTCCCTTGTA 57.419 29.630 7.74 0.00 0.00 2.41
1484 1620 5.634859 CCACTTTGAAACTGATATTTGGTGC 59.365 40.000 0.00 0.00 0.00 5.01
1486 1622 4.433186 TTGAAACTGATATTTGGTGCCG 57.567 40.909 0.00 0.00 0.00 5.69
1488 1624 3.438781 TGAAACTGATATTTGGTGCCGAC 59.561 43.478 0.00 0.00 0.00 4.79
1496 1632 2.969628 TTTGGTGCCGACATTGTTTT 57.030 40.000 0.00 0.00 0.00 2.43
1530 1666 7.686438 TTGTACTTATCATGTTCAGTTGCAT 57.314 32.000 0.00 0.00 0.00 3.96
1536 1673 8.186163 ACTTATCATGTTCAGTTGCATGTATTG 58.814 33.333 0.00 0.00 42.09 1.90
1549 1686 0.110295 TGTATTGTGCTGCCACTGGT 59.890 50.000 0.00 0.00 42.54 4.00
1555 1692 1.349357 TGTGCTGCCACTGGTATAACA 59.651 47.619 0.00 0.00 42.54 2.41
1591 1728 7.608376 TGGAGCACTGTATCTAGATGTATCTAC 59.392 40.741 15.79 4.88 38.32 2.59
1593 1730 6.596106 AGCACTGTATCTAGATGTATCTACCG 59.404 42.308 15.79 3.54 38.32 4.02
1594 1731 6.372103 GCACTGTATCTAGATGTATCTACCGT 59.628 42.308 15.79 4.15 38.32 4.83
1595 1732 7.413219 GCACTGTATCTAGATGTATCTACCGTC 60.413 44.444 15.79 0.00 38.32 4.79
1596 1733 7.064847 CACTGTATCTAGATGTATCTACCGTCC 59.935 44.444 15.79 0.00 38.32 4.79
1598 1735 6.877855 TGTATCTAGATGTATCTACCGTCCAC 59.122 42.308 15.79 0.87 38.32 4.02
1600 1737 5.306394 TCTAGATGTATCTACCGTCCACTG 58.694 45.833 0.00 0.00 38.32 3.66
1601 1738 2.623889 AGATGTATCTACCGTCCACTGC 59.376 50.000 0.00 0.00 34.85 4.40
1602 1739 1.842052 TGTATCTACCGTCCACTGCA 58.158 50.000 0.00 0.00 0.00 4.41
1603 1740 2.172679 TGTATCTACCGTCCACTGCAA 58.827 47.619 0.00 0.00 0.00 4.08
1604 1741 2.165641 TGTATCTACCGTCCACTGCAAG 59.834 50.000 0.00 0.00 42.29 4.01
1620 1757 5.093169 CTGCAAGTCTTCAAAGTTGAGAG 57.907 43.478 0.00 0.00 38.61 3.20
1621 1758 4.769688 TGCAAGTCTTCAAAGTTGAGAGA 58.230 39.130 0.00 0.00 38.61 3.10
1622 1759 5.185454 TGCAAGTCTTCAAAGTTGAGAGAA 58.815 37.500 0.00 0.00 38.61 2.87
1633 1770 4.739046 AGTTGAGAGAATTTTGCAGTCG 57.261 40.909 0.00 0.00 0.00 4.18
1704 1841 9.521503 TTTCTTCACTGTATCTAGATGATTTCG 57.478 33.333 15.79 0.09 36.65 3.46
1705 1842 7.652727 TCTTCACTGTATCTAGATGATTTCGG 58.347 38.462 15.79 7.89 36.65 4.30
1706 1843 6.332735 TCACTGTATCTAGATGATTTCGGG 57.667 41.667 15.79 0.00 36.65 5.14
1707 1844 6.068670 TCACTGTATCTAGATGATTTCGGGA 58.931 40.000 15.79 1.94 36.65 5.14
1708 1845 6.207614 TCACTGTATCTAGATGATTTCGGGAG 59.792 42.308 15.79 1.05 36.65 4.30
1709 1846 6.015856 CACTGTATCTAGATGATTTCGGGAGT 60.016 42.308 15.79 1.59 36.65 3.85
1710 1847 7.175119 CACTGTATCTAGATGATTTCGGGAGTA 59.825 40.741 15.79 0.00 36.65 2.59
1711 1848 7.175293 ACTGTATCTAGATGATTTCGGGAGTAC 59.825 40.741 15.79 1.30 36.65 2.73
1712 1849 7.232188 TGTATCTAGATGATTTCGGGAGTACT 58.768 38.462 15.79 0.00 36.65 2.73
1713 1850 6.827586 ATCTAGATGATTTCGGGAGTACTC 57.172 41.667 14.87 14.87 29.59 2.59
1714 1851 5.712917 ATCTAGATGATTTCGGGAGTACTCC 59.287 44.000 30.72 30.72 39.62 3.85
1724 1861 1.104630 GGAGTACTCCCTCTGTTCCG 58.895 60.000 28.87 0.00 43.94 4.30
1725 1862 1.340795 GGAGTACTCCCTCTGTTCCGA 60.341 57.143 28.87 0.00 43.94 4.55
1726 1863 2.444421 GAGTACTCCCTCTGTTCCGAA 58.556 52.381 12.13 0.00 0.00 4.30
1727 1864 3.025262 GAGTACTCCCTCTGTTCCGAAT 58.975 50.000 12.13 0.00 0.00 3.34
1728 1865 3.442076 AGTACTCCCTCTGTTCCGAATT 58.558 45.455 0.00 0.00 0.00 2.17
1729 1866 4.607239 AGTACTCCCTCTGTTCCGAATTA 58.393 43.478 0.00 0.00 0.00 1.40
1730 1867 3.889520 ACTCCCTCTGTTCCGAATTAC 57.110 47.619 0.00 0.00 0.00 1.89
1731 1868 3.442076 ACTCCCTCTGTTCCGAATTACT 58.558 45.455 0.00 0.00 0.00 2.24
1732 1869 3.838903 ACTCCCTCTGTTCCGAATTACTT 59.161 43.478 0.00 0.00 0.00 2.24
1733 1870 4.184629 CTCCCTCTGTTCCGAATTACTTG 58.815 47.826 0.00 0.00 0.00 3.16
1734 1871 3.581332 TCCCTCTGTTCCGAATTACTTGT 59.419 43.478 0.00 0.00 0.00 3.16
1735 1872 3.933332 CCCTCTGTTCCGAATTACTTGTC 59.067 47.826 0.00 0.00 0.00 3.18
1736 1873 3.612860 CCTCTGTTCCGAATTACTTGTCG 59.387 47.826 0.00 0.00 37.01 4.35
1737 1874 4.235360 CTCTGTTCCGAATTACTTGTCGT 58.765 43.478 0.00 0.00 35.48 4.34
1738 1875 5.375417 TCTGTTCCGAATTACTTGTCGTA 57.625 39.130 0.00 0.00 35.48 3.43
1739 1876 5.396484 TCTGTTCCGAATTACTTGTCGTAG 58.604 41.667 0.00 0.00 35.48 3.51
1740 1877 4.487948 TGTTCCGAATTACTTGTCGTAGG 58.512 43.478 0.00 0.00 35.48 3.18
1741 1878 4.022068 TGTTCCGAATTACTTGTCGTAGGT 60.022 41.667 0.00 0.00 35.48 3.08
1742 1879 5.182950 TGTTCCGAATTACTTGTCGTAGGTA 59.817 40.000 0.00 0.00 35.48 3.08
1743 1880 6.127647 TGTTCCGAATTACTTGTCGTAGGTAT 60.128 38.462 0.00 0.00 35.48 2.73
1744 1881 5.824429 TCCGAATTACTTGTCGTAGGTATG 58.176 41.667 0.00 0.00 35.48 2.39
1745 1882 4.980434 CCGAATTACTTGTCGTAGGTATGG 59.020 45.833 0.00 0.00 35.48 2.74
1746 1883 5.221106 CCGAATTACTTGTCGTAGGTATGGA 60.221 44.000 0.00 0.00 35.48 3.41
1747 1884 6.444633 CGAATTACTTGTCGTAGGTATGGAT 58.555 40.000 0.00 0.00 32.61 3.41
1748 1885 6.362551 CGAATTACTTGTCGTAGGTATGGATG 59.637 42.308 0.00 0.00 32.61 3.51
1749 1886 6.726490 ATTACTTGTCGTAGGTATGGATGT 57.274 37.500 0.00 0.00 0.00 3.06
1750 1887 7.828508 ATTACTTGTCGTAGGTATGGATGTA 57.171 36.000 0.00 0.00 0.00 2.29
1751 1888 7.828508 TTACTTGTCGTAGGTATGGATGTAT 57.171 36.000 0.00 0.00 0.00 2.29
1752 1889 6.328641 ACTTGTCGTAGGTATGGATGTATC 57.671 41.667 0.00 0.00 0.00 2.24
1753 1890 6.069331 ACTTGTCGTAGGTATGGATGTATCT 58.931 40.000 0.00 0.00 0.00 1.98
1754 1891 7.229308 ACTTGTCGTAGGTATGGATGTATCTA 58.771 38.462 0.00 0.00 0.00 1.98
1755 1892 7.390996 ACTTGTCGTAGGTATGGATGTATCTAG 59.609 40.741 0.00 0.00 0.00 2.43
1756 1893 7.012661 TGTCGTAGGTATGGATGTATCTAGA 57.987 40.000 0.00 0.00 0.00 2.43
1757 1894 7.631007 TGTCGTAGGTATGGATGTATCTAGAT 58.369 38.462 10.73 10.73 0.00 1.98
1758 1895 7.553044 TGTCGTAGGTATGGATGTATCTAGATG 59.447 40.741 15.79 0.00 0.00 2.90
1759 1896 7.553402 GTCGTAGGTATGGATGTATCTAGATGT 59.447 40.741 15.79 1.25 0.00 3.06
1760 1897 8.765517 TCGTAGGTATGGATGTATCTAGATGTA 58.234 37.037 15.79 4.44 0.00 2.29
1761 1898 9.562408 CGTAGGTATGGATGTATCTAGATGTAT 57.438 37.037 15.79 9.11 0.00 2.29
1789 1926 7.251704 AGTTCTAGATACATCCATTTTTGCG 57.748 36.000 0.00 0.00 0.00 4.85
1790 1927 7.047891 AGTTCTAGATACATCCATTTTTGCGA 58.952 34.615 0.00 0.00 0.00 5.10
1791 1928 6.844696 TCTAGATACATCCATTTTTGCGAC 57.155 37.500 0.00 0.00 0.00 5.19
1792 1929 4.536364 AGATACATCCATTTTTGCGACG 57.464 40.909 0.00 0.00 0.00 5.12
1793 1930 4.188462 AGATACATCCATTTTTGCGACGA 58.812 39.130 0.00 0.00 0.00 4.20
1794 1931 2.900122 ACATCCATTTTTGCGACGAG 57.100 45.000 0.00 0.00 0.00 4.18
1795 1932 2.151202 ACATCCATTTTTGCGACGAGT 58.849 42.857 0.00 0.00 0.00 4.18
1796 1933 3.331150 ACATCCATTTTTGCGACGAGTA 58.669 40.909 0.00 0.00 0.00 2.59
1797 1934 3.749088 ACATCCATTTTTGCGACGAGTAA 59.251 39.130 0.00 0.00 0.00 2.24
1798 1935 4.394920 ACATCCATTTTTGCGACGAGTAAT 59.605 37.500 0.00 0.00 0.00 1.89
1799 1936 5.106317 ACATCCATTTTTGCGACGAGTAATT 60.106 36.000 0.00 0.00 0.00 1.40
1800 1937 5.365403 TCCATTTTTGCGACGAGTAATTT 57.635 34.783 0.00 0.00 0.00 1.82
1801 1938 5.150683 TCCATTTTTGCGACGAGTAATTTG 58.849 37.500 0.00 0.00 0.00 2.32
1802 1939 4.323336 CCATTTTTGCGACGAGTAATTTGG 59.677 41.667 0.00 0.00 0.00 3.28
1803 1940 4.815040 TTTTTGCGACGAGTAATTTGGA 57.185 36.364 0.00 0.00 0.00 3.53
1804 1941 4.815040 TTTTGCGACGAGTAATTTGGAA 57.185 36.364 0.00 0.00 0.00 3.53
1805 1942 3.799137 TTGCGACGAGTAATTTGGAAC 57.201 42.857 0.00 0.00 0.00 3.62
1806 1943 1.722464 TGCGACGAGTAATTTGGAACG 59.278 47.619 0.00 0.00 0.00 3.95
1807 1944 1.060122 GCGACGAGTAATTTGGAACGG 59.940 52.381 0.00 0.00 0.00 4.44
1808 1945 2.598589 CGACGAGTAATTTGGAACGGA 58.401 47.619 0.00 0.00 0.00 4.69
1864 2001 3.665675 CTCGCAGTTTCCCCTCGGG 62.666 68.421 0.00 0.00 46.11 5.14
1890 2054 9.717942 GATGTATATTTTCCACTCTAAGCTGAT 57.282 33.333 0.00 0.00 0.00 2.90
1899 2063 5.470098 TCCACTCTAAGCTGATTTGACAAAC 59.530 40.000 1.94 0.00 0.00 2.93
1985 2152 4.140536 CCCTATTCTCCAAGCTGATTTCC 58.859 47.826 0.00 0.00 0.00 3.13
1991 2158 3.055530 TCTCCAAGCTGATTTCCTGTCTC 60.056 47.826 0.00 0.00 0.00 3.36
2015 2271 8.325421 TCGTACTATAAGGCATCTTCTAAGAG 57.675 38.462 0.00 0.00 38.66 2.85
2031 2287 9.303116 TCTTCTAAGAGTAAAGATATAGGGCTG 57.697 37.037 0.00 0.00 0.00 4.85
2047 2303 4.442706 AGGGCTGTTTATAACATGACTCG 58.557 43.478 0.00 0.00 41.26 4.18
2050 2306 3.871594 GCTGTTTATAACATGACTCGCCT 59.128 43.478 0.00 0.00 41.26 5.52
2073 2329 3.175929 CACTTCGTTTTCTTTTGCCGTT 58.824 40.909 0.00 0.00 0.00 4.44
2085 2341 6.137794 TCTTTTGCCGTTATTCAAACTTGA 57.862 33.333 0.00 0.00 32.58 3.02
2086 2342 6.205784 TCTTTTGCCGTTATTCAAACTTGAG 58.794 36.000 0.00 0.00 38.61 3.02
2087 2343 5.508200 TTTGCCGTTATTCAAACTTGAGT 57.492 34.783 0.00 0.00 38.61 3.41
2088 2344 4.481930 TGCCGTTATTCAAACTTGAGTG 57.518 40.909 0.00 0.00 38.61 3.51
2089 2345 3.252215 TGCCGTTATTCAAACTTGAGTGG 59.748 43.478 0.00 0.00 38.61 4.00
2090 2346 3.252458 GCCGTTATTCAAACTTGAGTGGT 59.748 43.478 0.00 0.00 38.61 4.16
2091 2347 4.453136 GCCGTTATTCAAACTTGAGTGGTA 59.547 41.667 0.00 0.00 38.61 3.25
2092 2348 5.616204 GCCGTTATTCAAACTTGAGTGGTAC 60.616 44.000 0.00 0.00 38.61 3.34
2118 2374 2.158561 ATTCAGCAAAACCAGCGGCC 62.159 55.000 0.00 0.00 37.01 6.13
2119 2375 4.705519 CAGCAAAACCAGCGGCCG 62.706 66.667 24.05 24.05 37.01 6.13
2151 2407 1.733718 GCGGCTGCCTTTTCTTTGATC 60.734 52.381 17.92 0.00 33.98 2.92
2157 2413 2.226437 TGCCTTTTCTTTGATCGAGCAC 59.774 45.455 1.08 0.00 0.00 4.40
2158 2414 2.226437 GCCTTTTCTTTGATCGAGCACA 59.774 45.455 1.08 0.00 0.00 4.57
2199 2456 5.410924 TGGATTGAGATCAAACTCAGTACG 58.589 41.667 0.00 0.00 45.63 3.67
2281 2539 2.438411 CGTACACCATTAGGGGCAAAA 58.562 47.619 0.00 0.00 44.59 2.44
2299 2645 7.382898 GGGCAAAAGGTATTCACTAAATTTCA 58.617 34.615 0.00 0.00 0.00 2.69
2301 2647 7.061789 GGCAAAAGGTATTCACTAAATTTCACG 59.938 37.037 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 4.435970 TAGGGGAGCGACTGCCGA 62.436 66.667 10.33 0.49 43.15 5.54
11 12 4.208686 GTAGGGGAGCGACTGCCG 62.209 72.222 10.33 0.00 43.15 5.69
12 13 2.299503 GAAGTAGGGGAGCGACTGCC 62.300 65.000 8.52 8.52 44.31 4.85
13 14 1.142097 GAAGTAGGGGAGCGACTGC 59.858 63.158 0.00 0.00 43.24 4.40
14 15 0.684805 AGGAAGTAGGGGAGCGACTG 60.685 60.000 0.00 0.00 0.00 3.51
15 16 0.396001 GAGGAAGTAGGGGAGCGACT 60.396 60.000 0.00 0.00 0.00 4.18
16 17 1.393487 GGAGGAAGTAGGGGAGCGAC 61.393 65.000 0.00 0.00 0.00 5.19
17 18 1.076192 GGAGGAAGTAGGGGAGCGA 60.076 63.158 0.00 0.00 0.00 4.93
18 19 2.134933 GGGAGGAAGTAGGGGAGCG 61.135 68.421 0.00 0.00 0.00 5.03
19 20 1.766864 GGGGAGGAAGTAGGGGAGC 60.767 68.421 0.00 0.00 0.00 4.70
20 21 1.074395 GGGGGAGGAAGTAGGGGAG 60.074 68.421 0.00 0.00 0.00 4.30
21 22 1.166973 AAGGGGGAGGAAGTAGGGGA 61.167 60.000 0.00 0.00 0.00 4.81
51 52 1.081041 CGGTACAGCAGTGCGTACA 60.081 57.895 31.80 12.78 38.87 2.90
91 92 8.485578 AATCCCTACAATCCAAACTTAAACAA 57.514 30.769 0.00 0.00 0.00 2.83
106 107 1.979308 TGAACACCCGAATCCCTACAA 59.021 47.619 0.00 0.00 0.00 2.41
119 120 4.523813 CGTGTTACAGTTCAATGAACACC 58.476 43.478 25.63 10.24 44.42 4.16
138 139 6.072175 TCCTCCAAATTGATTTCTAAACCGTG 60.072 38.462 0.00 0.00 0.00 4.94
209 223 8.880750 GGTTACTCTGTCCATCAAAATAGTAAC 58.119 37.037 11.64 11.64 43.47 2.50
223 239 8.616076 CATAATCAAAATCTGGTTACTCTGTCC 58.384 37.037 0.00 0.00 33.35 4.02
226 242 8.950210 ACACATAATCAAAATCTGGTTACTCTG 58.050 33.333 0.00 0.00 33.35 3.35
250 266 4.825085 GTGTTTGACAAAAGAGGGGATACA 59.175 41.667 1.27 0.00 39.74 2.29
252 268 4.069304 CGTGTTTGACAAAAGAGGGGATA 58.931 43.478 1.27 0.00 0.00 2.59
259 275 4.452825 TGTATCCCGTGTTTGACAAAAGA 58.547 39.130 1.27 0.00 0.00 2.52
302 326 4.440663 CGCAACATTCCTATCTCAGAGTCA 60.441 45.833 0.00 0.00 0.00 3.41
318 342 4.707105 TCATGATTATCAGGACGCAACAT 58.293 39.130 5.40 0.00 31.68 2.71
321 345 4.959723 TCATCATGATTATCAGGACGCAA 58.040 39.130 11.84 0.00 40.17 4.85
338 362 8.630054 TTTCATCAGCATCATGATTATCATCA 57.370 30.769 5.16 0.00 43.85 3.07
383 407 9.743057 CGATTTATATGGCCTCAAAACAAAATA 57.257 29.630 3.32 0.00 0.00 1.40
458 482 4.097418 AGGACTACATTCTACAGCCACTT 58.903 43.478 0.00 0.00 0.00 3.16
579 614 6.042777 CCTTGCTCTGTCTAATACGATTTCA 58.957 40.000 0.00 0.00 0.00 2.69
583 618 7.526142 TTATCCTTGCTCTGTCTAATACGAT 57.474 36.000 0.00 0.00 0.00 3.73
627 722 9.088512 TGTGCGTGAACAATTTTAGTTATTTTT 57.911 25.926 0.00 0.00 0.00 1.94
628 723 8.536407 GTGTGCGTGAACAATTTTAGTTATTTT 58.464 29.630 0.00 0.00 0.00 1.82
629 724 7.702772 TGTGTGCGTGAACAATTTTAGTTATTT 59.297 29.630 0.00 0.00 0.00 1.40
630 725 7.166804 GTGTGTGCGTGAACAATTTTAGTTATT 59.833 33.333 0.00 0.00 0.00 1.40
631 726 6.635239 GTGTGTGCGTGAACAATTTTAGTTAT 59.365 34.615 0.00 0.00 0.00 1.89
632 727 5.966503 GTGTGTGCGTGAACAATTTTAGTTA 59.033 36.000 0.00 0.00 0.00 2.24
634 729 4.142578 TGTGTGTGCGTGAACAATTTTAGT 60.143 37.500 0.00 0.00 0.00 2.24
635 730 4.346970 TGTGTGTGCGTGAACAATTTTAG 58.653 39.130 0.00 0.00 0.00 1.85
636 731 4.357018 TGTGTGTGCGTGAACAATTTTA 57.643 36.364 0.00 0.00 0.00 1.52
637 732 3.223423 TGTGTGTGCGTGAACAATTTT 57.777 38.095 0.00 0.00 0.00 1.82
638 733 2.929531 TGTGTGTGCGTGAACAATTT 57.070 40.000 0.00 0.00 0.00 1.82
639 734 2.929531 TTGTGTGTGCGTGAACAATT 57.070 40.000 0.00 0.00 0.00 2.32
640 735 2.929531 TTTGTGTGTGCGTGAACAAT 57.070 40.000 0.00 0.00 32.90 2.71
641 736 2.706555 TTTTGTGTGTGCGTGAACAA 57.293 40.000 0.00 0.00 0.00 2.83
642 737 2.706555 TTTTTGTGTGTGCGTGAACA 57.293 40.000 0.00 0.00 0.00 3.18
661 756 3.482436 TGACAGGGATAAGCACGTTTTT 58.518 40.909 0.00 0.00 0.00 1.94
662 757 3.074412 CTGACAGGGATAAGCACGTTTT 58.926 45.455 0.00 0.00 0.00 2.43
663 758 2.615493 CCTGACAGGGATAAGCACGTTT 60.615 50.000 14.26 0.00 0.00 3.60
664 759 1.066143 CCTGACAGGGATAAGCACGTT 60.066 52.381 14.26 0.00 0.00 3.99
665 760 0.537188 CCTGACAGGGATAAGCACGT 59.463 55.000 14.26 0.00 0.00 4.49
666 761 3.369381 CCTGACAGGGATAAGCACG 57.631 57.895 14.26 0.00 0.00 5.34
676 771 0.401738 TCTTCCTTTGCCCTGACAGG 59.598 55.000 15.15 15.15 34.30 4.00
677 772 2.276732 TTCTTCCTTTGCCCTGACAG 57.723 50.000 0.00 0.00 0.00 3.51
678 773 2.517959 CATTCTTCCTTTGCCCTGACA 58.482 47.619 0.00 0.00 0.00 3.58
679 774 1.821136 CCATTCTTCCTTTGCCCTGAC 59.179 52.381 0.00 0.00 0.00 3.51
680 775 1.272648 CCCATTCTTCCTTTGCCCTGA 60.273 52.381 0.00 0.00 0.00 3.86
681 776 1.188863 CCCATTCTTCCTTTGCCCTG 58.811 55.000 0.00 0.00 0.00 4.45
682 777 0.041684 CCCCATTCTTCCTTTGCCCT 59.958 55.000 0.00 0.00 0.00 5.19
871 992 6.226787 AGCTATATGAGTACATGTTCAAGGC 58.773 40.000 2.30 6.49 37.87 4.35
973 1108 9.692749 GGTATGAATCAAAGTCTAATATCGTCA 57.307 33.333 0.00 0.00 0.00 4.35
1290 1425 3.265221 TCTCCCTCATCATGCTTTGAAGT 59.735 43.478 0.00 0.00 38.03 3.01
1330 1465 3.244249 GCTCCTAAGCTTCCCGTGATAAT 60.244 47.826 0.00 0.00 45.55 1.28
1379 1514 2.493278 TCGATGTCTTGCTCAGATGACA 59.507 45.455 0.00 0.00 42.50 3.58
1380 1515 3.114809 CTCGATGTCTTGCTCAGATGAC 58.885 50.000 0.00 0.00 32.60 3.06
1441 1576 9.388506 CAAAGTGGTGACTGAGATTTATAATCT 57.611 33.333 1.73 1.73 30.61 2.40
1484 1620 7.683746 ACAAAATCAAAAGAAAACAATGTCGG 58.316 30.769 0.00 0.00 0.00 4.79
1516 1652 5.848538 AGCACAATACATGCAACTGAACATG 60.849 40.000 0.00 1.62 45.92 3.21
1527 1663 0.813184 AGTGGCAGCACAATACATGC 59.187 50.000 0.00 0.00 43.74 4.06
1530 1666 0.110295 ACCAGTGGCAGCACAATACA 59.890 50.000 9.78 0.00 0.00 2.29
1536 1673 2.009774 CTGTTATACCAGTGGCAGCAC 58.990 52.381 9.78 1.98 0.00 4.40
1555 1692 3.326946 ACAGTGCTCCAGATATCCTCT 57.673 47.619 0.00 0.00 33.14 3.69
1591 1728 0.249868 TGAAGACTTGCAGTGGACGG 60.250 55.000 0.00 0.00 0.00 4.79
1593 1730 2.945668 ACTTTGAAGACTTGCAGTGGAC 59.054 45.455 0.00 0.00 0.00 4.02
1594 1731 3.281727 ACTTTGAAGACTTGCAGTGGA 57.718 42.857 0.00 0.00 0.00 4.02
1595 1732 3.378112 TCAACTTTGAAGACTTGCAGTGG 59.622 43.478 0.00 0.00 33.55 4.00
1596 1733 4.333649 TCTCAACTTTGAAGACTTGCAGTG 59.666 41.667 0.00 0.00 36.64 3.66
1598 1735 4.813161 TCTCTCAACTTTGAAGACTTGCAG 59.187 41.667 0.00 0.00 36.64 4.41
1600 1737 5.741388 TTCTCTCAACTTTGAAGACTTGC 57.259 39.130 0.00 0.00 36.64 4.01
1601 1738 9.017669 CAAAATTCTCTCAACTTTGAAGACTTG 57.982 33.333 0.00 0.00 36.64 3.16
1602 1739 7.704047 GCAAAATTCTCTCAACTTTGAAGACTT 59.296 33.333 0.00 0.00 36.64 3.01
1603 1740 7.148018 TGCAAAATTCTCTCAACTTTGAAGACT 60.148 33.333 0.00 0.00 36.64 3.24
1604 1741 6.974622 TGCAAAATTCTCTCAACTTTGAAGAC 59.025 34.615 0.00 0.00 36.64 3.01
1605 1742 7.099266 TGCAAAATTCTCTCAACTTTGAAGA 57.901 32.000 0.00 0.00 36.64 2.87
1606 1743 6.976925 ACTGCAAAATTCTCTCAACTTTGAAG 59.023 34.615 0.00 0.00 38.23 3.02
1607 1744 6.866480 ACTGCAAAATTCTCTCAACTTTGAA 58.134 32.000 0.00 0.00 36.64 2.69
1608 1745 6.455360 ACTGCAAAATTCTCTCAACTTTGA 57.545 33.333 0.00 0.00 35.57 2.69
1609 1746 5.397534 CGACTGCAAAATTCTCTCAACTTTG 59.602 40.000 0.00 0.00 0.00 2.77
1610 1747 5.066505 ACGACTGCAAAATTCTCTCAACTTT 59.933 36.000 0.00 0.00 0.00 2.66
1611 1748 4.576463 ACGACTGCAAAATTCTCTCAACTT 59.424 37.500 0.00 0.00 0.00 2.66
1612 1749 4.024556 CACGACTGCAAAATTCTCTCAACT 60.025 41.667 0.00 0.00 0.00 3.16
1613 1750 4.214437 CACGACTGCAAAATTCTCTCAAC 58.786 43.478 0.00 0.00 0.00 3.18
1614 1751 3.876914 ACACGACTGCAAAATTCTCTCAA 59.123 39.130 0.00 0.00 0.00 3.02
1615 1752 3.466836 ACACGACTGCAAAATTCTCTCA 58.533 40.909 0.00 0.00 0.00 3.27
1616 1753 4.214437 CAACACGACTGCAAAATTCTCTC 58.786 43.478 0.00 0.00 0.00 3.20
1617 1754 3.627577 ACAACACGACTGCAAAATTCTCT 59.372 39.130 0.00 0.00 0.00 3.10
1618 1755 3.952535 ACAACACGACTGCAAAATTCTC 58.047 40.909 0.00 0.00 0.00 2.87
1619 1756 4.370364 AACAACACGACTGCAAAATTCT 57.630 36.364 0.00 0.00 0.00 2.40
1620 1757 6.747659 ATAAACAACACGACTGCAAAATTC 57.252 33.333 0.00 0.00 0.00 2.17
1621 1758 8.810652 ATAATAAACAACACGACTGCAAAATT 57.189 26.923 0.00 0.00 0.00 1.82
1706 1843 2.125773 TCGGAACAGAGGGAGTACTC 57.874 55.000 14.87 14.87 37.77 2.59
1707 1844 2.599408 TTCGGAACAGAGGGAGTACT 57.401 50.000 0.00 0.00 0.00 2.73
1708 1845 3.889520 AATTCGGAACAGAGGGAGTAC 57.110 47.619 0.00 0.00 0.00 2.73
1709 1846 4.607239 AGTAATTCGGAACAGAGGGAGTA 58.393 43.478 0.00 0.00 0.00 2.59
1710 1847 3.442076 AGTAATTCGGAACAGAGGGAGT 58.558 45.455 0.00 0.00 0.00 3.85
1711 1848 4.184629 CAAGTAATTCGGAACAGAGGGAG 58.815 47.826 0.00 0.00 0.00 4.30
1712 1849 3.581332 ACAAGTAATTCGGAACAGAGGGA 59.419 43.478 0.00 0.00 0.00 4.20
1713 1850 3.933332 GACAAGTAATTCGGAACAGAGGG 59.067 47.826 0.00 0.00 0.00 4.30
1714 1851 3.612860 CGACAAGTAATTCGGAACAGAGG 59.387 47.826 0.00 0.00 0.00 3.69
1715 1852 4.235360 ACGACAAGTAATTCGGAACAGAG 58.765 43.478 0.00 0.00 39.63 3.35
1716 1853 4.247267 ACGACAAGTAATTCGGAACAGA 57.753 40.909 0.00 0.00 39.63 3.41
1717 1854 4.561606 CCTACGACAAGTAATTCGGAACAG 59.438 45.833 0.00 0.00 39.63 3.16
1718 1855 4.022068 ACCTACGACAAGTAATTCGGAACA 60.022 41.667 0.00 0.00 39.63 3.18
1719 1856 4.488879 ACCTACGACAAGTAATTCGGAAC 58.511 43.478 0.00 0.00 39.63 3.62
1720 1857 4.789012 ACCTACGACAAGTAATTCGGAA 57.211 40.909 0.00 0.00 39.63 4.30
1721 1858 5.221106 CCATACCTACGACAAGTAATTCGGA 60.221 44.000 0.00 0.00 39.63 4.55
1722 1859 4.980434 CCATACCTACGACAAGTAATTCGG 59.020 45.833 0.00 0.00 39.63 4.30
1723 1860 5.824429 TCCATACCTACGACAAGTAATTCG 58.176 41.667 0.00 0.00 41.14 3.34
1724 1861 7.208080 ACATCCATACCTACGACAAGTAATTC 58.792 38.462 0.00 0.00 34.45 2.17
1725 1862 7.120923 ACATCCATACCTACGACAAGTAATT 57.879 36.000 0.00 0.00 34.45 1.40
1726 1863 6.726490 ACATCCATACCTACGACAAGTAAT 57.274 37.500 0.00 0.00 34.45 1.89
1727 1864 7.722728 AGATACATCCATACCTACGACAAGTAA 59.277 37.037 0.00 0.00 34.45 2.24
1728 1865 7.229308 AGATACATCCATACCTACGACAAGTA 58.771 38.462 0.00 0.00 0.00 2.24
1729 1866 6.069331 AGATACATCCATACCTACGACAAGT 58.931 40.000 0.00 0.00 0.00 3.16
1730 1867 6.576662 AGATACATCCATACCTACGACAAG 57.423 41.667 0.00 0.00 0.00 3.16
1731 1868 7.455891 TCTAGATACATCCATACCTACGACAA 58.544 38.462 0.00 0.00 0.00 3.18
1732 1869 7.012661 TCTAGATACATCCATACCTACGACA 57.987 40.000 0.00 0.00 0.00 4.35
1733 1870 7.553402 ACATCTAGATACATCCATACCTACGAC 59.447 40.741 4.54 0.00 0.00 4.34
1734 1871 7.631007 ACATCTAGATACATCCATACCTACGA 58.369 38.462 4.54 0.00 0.00 3.43
1735 1872 7.867305 ACATCTAGATACATCCATACCTACG 57.133 40.000 4.54 0.00 0.00 3.51
1763 1900 8.826710 CGCAAAAATGGATGTATCTAGAACTAA 58.173 33.333 0.00 0.00 0.00 2.24
1764 1901 8.201464 TCGCAAAAATGGATGTATCTAGAACTA 58.799 33.333 0.00 0.00 0.00 2.24
1765 1902 7.011482 GTCGCAAAAATGGATGTATCTAGAACT 59.989 37.037 0.00 0.00 0.00 3.01
1766 1903 7.126398 GTCGCAAAAATGGATGTATCTAGAAC 58.874 38.462 0.00 0.00 0.00 3.01
1767 1904 6.019075 CGTCGCAAAAATGGATGTATCTAGAA 60.019 38.462 0.00 0.00 0.00 2.10
1768 1905 5.462068 CGTCGCAAAAATGGATGTATCTAGA 59.538 40.000 0.00 0.00 0.00 2.43
1769 1906 5.462068 TCGTCGCAAAAATGGATGTATCTAG 59.538 40.000 0.00 0.00 0.00 2.43
1770 1907 5.353111 TCGTCGCAAAAATGGATGTATCTA 58.647 37.500 0.00 0.00 0.00 1.98
1771 1908 4.188462 TCGTCGCAAAAATGGATGTATCT 58.812 39.130 0.00 0.00 0.00 1.98
1772 1909 4.034048 ACTCGTCGCAAAAATGGATGTATC 59.966 41.667 0.00 0.00 0.00 2.24
1773 1910 3.938963 ACTCGTCGCAAAAATGGATGTAT 59.061 39.130 0.00 0.00 0.00 2.29
1774 1911 3.331150 ACTCGTCGCAAAAATGGATGTA 58.669 40.909 0.00 0.00 0.00 2.29
1775 1912 2.151202 ACTCGTCGCAAAAATGGATGT 58.849 42.857 0.00 0.00 0.00 3.06
1776 1913 2.900122 ACTCGTCGCAAAAATGGATG 57.100 45.000 0.00 0.00 0.00 3.51
1777 1914 5.560966 AATTACTCGTCGCAAAAATGGAT 57.439 34.783 0.00 0.00 0.00 3.41
1778 1915 5.150683 CAAATTACTCGTCGCAAAAATGGA 58.849 37.500 0.00 0.00 0.00 3.41
1779 1916 4.323336 CCAAATTACTCGTCGCAAAAATGG 59.677 41.667 0.00 0.00 0.00 3.16
1780 1917 5.150683 TCCAAATTACTCGTCGCAAAAATG 58.849 37.500 0.00 0.00 0.00 2.32
1781 1918 5.365403 TCCAAATTACTCGTCGCAAAAAT 57.635 34.783 0.00 0.00 0.00 1.82
1782 1919 4.815040 TCCAAATTACTCGTCGCAAAAA 57.185 36.364 0.00 0.00 0.00 1.94
1783 1920 4.529446 GTTCCAAATTACTCGTCGCAAAA 58.471 39.130 0.00 0.00 0.00 2.44
1784 1921 3.363182 CGTTCCAAATTACTCGTCGCAAA 60.363 43.478 0.00 0.00 0.00 3.68
1785 1922 2.156117 CGTTCCAAATTACTCGTCGCAA 59.844 45.455 0.00 0.00 0.00 4.85
1786 1923 1.722464 CGTTCCAAATTACTCGTCGCA 59.278 47.619 0.00 0.00 0.00 5.10
1787 1924 1.060122 CCGTTCCAAATTACTCGTCGC 59.940 52.381 0.00 0.00 0.00 5.19
1788 1925 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
1789 1926 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
1790 1927 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
1791 1928 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
1792 1929 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
1793 1930 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
1794 1931 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
1795 1932 3.839490 TGTACTCCCTCCGTTCCAAATTA 59.161 43.478 0.00 0.00 0.00 1.40
1796 1933 2.640826 TGTACTCCCTCCGTTCCAAATT 59.359 45.455 0.00 0.00 0.00 1.82
1797 1934 2.262637 TGTACTCCCTCCGTTCCAAAT 58.737 47.619 0.00 0.00 0.00 2.32
1798 1935 1.719529 TGTACTCCCTCCGTTCCAAA 58.280 50.000 0.00 0.00 0.00 3.28
1799 1936 1.553248 CATGTACTCCCTCCGTTCCAA 59.447 52.381 0.00 0.00 0.00 3.53
1800 1937 1.191535 CATGTACTCCCTCCGTTCCA 58.808 55.000 0.00 0.00 0.00 3.53
1801 1938 1.192428 ACATGTACTCCCTCCGTTCC 58.808 55.000 0.00 0.00 0.00 3.62
1802 1939 3.329929 AAACATGTACTCCCTCCGTTC 57.670 47.619 0.00 0.00 0.00 3.95
1803 1940 3.782656 AAAACATGTACTCCCTCCGTT 57.217 42.857 0.00 0.00 0.00 4.44
1804 1941 4.766375 CATAAAACATGTACTCCCTCCGT 58.234 43.478 0.00 0.00 0.00 4.69
1805 1942 3.560068 GCATAAAACATGTACTCCCTCCG 59.440 47.826 0.00 0.00 0.00 4.63
1806 1943 3.883489 GGCATAAAACATGTACTCCCTCC 59.117 47.826 0.00 0.00 0.00 4.30
1807 1944 3.560068 CGGCATAAAACATGTACTCCCTC 59.440 47.826 0.00 0.00 0.00 4.30
1808 1945 3.541632 CGGCATAAAACATGTACTCCCT 58.458 45.455 0.00 0.00 0.00 4.20
1842 1979 2.359975 GGGGAAACTGCGAGTGGG 60.360 66.667 0.00 0.00 0.00 4.61
1864 2001 9.717942 ATCAGCTTAGAGTGGAAAATATACATC 57.282 33.333 0.00 0.00 0.00 3.06
1890 2054 4.814234 AGCACTAATCAGTCGTTTGTCAAA 59.186 37.500 0.00 0.00 30.46 2.69
1899 2063 8.269424 GTGTGAATAATAAGCACTAATCAGTCG 58.731 37.037 0.00 0.00 33.83 4.18
1928 2095 3.067180 GGGTTGGACAATATGCTGACATG 59.933 47.826 0.00 0.00 37.04 3.21
1985 2152 5.950758 AGATGCCTTATAGTACGAGACAG 57.049 43.478 0.00 0.00 0.00 3.51
1991 2158 8.101654 ACTCTTAGAAGATGCCTTATAGTACG 57.898 38.462 0.00 0.00 33.93 3.67
2025 2281 4.442706 CGAGTCATGTTATAAACAGCCCT 58.557 43.478 0.00 0.00 45.95 5.19
2031 2287 3.621268 TGCAGGCGAGTCATGTTATAAAC 59.379 43.478 0.00 0.00 0.00 2.01
2047 2303 2.492019 AAAGAAAACGAAGTGCAGGC 57.508 45.000 0.00 0.00 45.00 4.85
2050 2306 2.535331 GGCAAAAGAAAACGAAGTGCA 58.465 42.857 0.00 0.00 45.00 4.57
2085 2341 7.120726 GGTTTTGCTGAATAATACTGTACCACT 59.879 37.037 0.00 0.00 0.00 4.00
2086 2342 7.094549 TGGTTTTGCTGAATAATACTGTACCAC 60.095 37.037 0.00 0.00 0.00 4.16
2087 2343 6.943146 TGGTTTTGCTGAATAATACTGTACCA 59.057 34.615 0.00 0.00 0.00 3.25
2088 2344 7.385778 TGGTTTTGCTGAATAATACTGTACC 57.614 36.000 0.00 0.00 0.00 3.34
2089 2345 6.967199 GCTGGTTTTGCTGAATAATACTGTAC 59.033 38.462 0.00 0.00 0.00 2.90
2090 2346 6.183360 CGCTGGTTTTGCTGAATAATACTGTA 60.183 38.462 0.00 0.00 0.00 2.74
2091 2347 5.391950 CGCTGGTTTTGCTGAATAATACTGT 60.392 40.000 0.00 0.00 0.00 3.55
2092 2348 5.030295 CGCTGGTTTTGCTGAATAATACTG 58.970 41.667 0.00 0.00 0.00 2.74
2119 2375 4.426313 AGCCGCCTGGGGTTAAGC 62.426 66.667 10.09 5.86 46.87 3.09
2120 2376 2.438434 CAGCCGCCTGGGGTTAAG 60.438 66.667 10.09 0.00 46.87 1.85
2121 2377 4.733542 GCAGCCGCCTGGGGTTAA 62.734 66.667 10.09 0.00 46.87 2.01
2131 2387 0.244721 ATCAAAGAAAAGGCAGCCGC 59.755 50.000 5.55 0.00 37.44 6.53
2132 2388 1.466360 CGATCAAAGAAAAGGCAGCCG 60.466 52.381 5.55 0.00 0.00 5.52
2133 2389 1.812571 TCGATCAAAGAAAAGGCAGCC 59.187 47.619 1.84 1.84 0.00 4.85
2134 2390 2.730402 GCTCGATCAAAGAAAAGGCAGC 60.730 50.000 0.00 0.00 0.00 5.25
2135 2391 2.485426 TGCTCGATCAAAGAAAAGGCAG 59.515 45.455 0.00 0.00 0.00 4.85
2199 2456 5.871524 TCTCATGTTAGCAACTCTTCATCAC 59.128 40.000 0.00 0.00 0.00 3.06
2299 2645 3.737774 GCACTTTCTCTACCGTAAAACGT 59.262 43.478 0.00 0.00 40.58 3.99
2301 2647 5.857822 ATGCACTTTCTCTACCGTAAAAC 57.142 39.130 0.00 0.00 0.00 2.43
2361 2768 2.678336 GCCTGTACCAATAACTGAGCAC 59.322 50.000 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.