Multiple sequence alignment - TraesCS3D01G299000

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS3D01G299000 chr3D 100.000 2529 0 0 1 2529 414165428 414162900 0.000000e+00 4671.0
1 TraesCS3D01G299000 chr3D 92.593 81 5 1 2401 2481 501884771 501884692 5.720000e-22 115.0
2 TraesCS3D01G299000 chr3A 95.055 991 42 6 756 1744 536774202 536775187 0.000000e+00 1552.0
3 TraesCS3D01G299000 chr3A 90.184 652 50 6 1892 2529 536775235 536775886 0.000000e+00 837.0
4 TraesCS3D01G299000 chr3A 87.033 455 35 15 171 618 536769056 536769493 2.260000e-135 492.0
5 TraesCS3D01G299000 chr3A 89.209 139 9 3 1761 1893 210932199 210932337 4.330000e-38 169.0
6 TraesCS3D01G299000 chr3A 88.800 125 2 5 646 770 536769625 536769737 2.620000e-30 143.0
7 TraesCS3D01G299000 chr3B 89.791 1146 67 25 632 1744 540192724 540191596 0.000000e+00 1423.0
8 TraesCS3D01G299000 chr3B 91.473 645 42 5 1892 2529 540191568 540190930 0.000000e+00 874.0
9 TraesCS3D01G299000 chr3B 85.345 580 39 23 63 639 540195138 540194602 2.200000e-155 558.0
10 TraesCS3D01G299000 chr3B 93.878 98 5 1 1762 1858 133002344 133002247 2.030000e-31 147.0
11 TraesCS3D01G299000 chr4D 92.810 153 8 3 1756 1906 403149489 403149640 4.240000e-53 219.0
12 TraesCS3D01G299000 chr4D 94.118 136 6 2 1762 1896 23484349 23484215 3.300000e-49 206.0
13 TraesCS3D01G299000 chr4D 88.660 97 5 4 2320 2410 123399312 123399216 2.060000e-21 113.0
14 TraesCS3D01G299000 chr4D 88.660 97 5 4 2320 2410 134960802 134960706 2.060000e-21 113.0
15 TraesCS3D01G299000 chr4D 88.764 89 6 3 1 86 358867257 358867344 3.440000e-19 106.0
16 TraesCS3D01G299000 chr1A 93.478 138 8 1 1763 1899 547695375 547695512 1.190000e-48 204.0
17 TraesCS3D01G299000 chr1A 93.023 129 7 1 2192 2318 371924496 371924624 1.190000e-43 187.0
18 TraesCS3D01G299000 chr1A 95.775 71 3 0 1 71 351418669 351418599 5.720000e-22 115.0
19 TraesCS3D01G299000 chr5D 93.798 129 6 1 2192 2318 432422061 432421933 2.570000e-45 193.0
20 TraesCS3D01G299000 chr1D 93.798 129 5 2 2192 2318 254420129 254420256 9.230000e-45 191.0
21 TraesCS3D01G299000 chr1D 90.000 90 5 2 2317 2402 212447777 212447866 2.060000e-21 113.0
22 TraesCS3D01G299000 chrUn 93.023 129 7 1 2192 2318 390488509 390488381 1.190000e-43 187.0
23 TraesCS3D01G299000 chrUn 88.660 97 5 4 2320 2410 171006074 171005978 2.060000e-21 113.0
24 TraesCS3D01G299000 chr7D 93.023 129 7 1 2192 2318 231529351 231529479 1.190000e-43 187.0
25 TraesCS3D01G299000 chr7D 93.023 129 7 1 2192 2318 231529877 231530005 1.190000e-43 187.0
26 TraesCS3D01G299000 chr7D 88.660 97 5 4 2320 2410 382087592 382087496 2.060000e-21 113.0
27 TraesCS3D01G299000 chr2D 93.023 129 7 1 2192 2318 33937214 33937342 1.190000e-43 187.0
28 TraesCS3D01G299000 chr2D 92.500 80 6 0 1 80 325035793 325035714 5.720000e-22 115.0
29 TraesCS3D01G299000 chr2B 91.971 137 5 2 1762 1897 779289633 779289502 1.190000e-43 187.0
30 TraesCS3D01G299000 chr2B 90.278 144 7 3 1762 1898 786108330 786108187 5.560000e-42 182.0
31 TraesCS3D01G299000 chr6D 91.304 138 9 2 1762 1898 372816408 372816273 4.300000e-43 185.0
32 TraesCS3D01G299000 chr6D 95.775 71 3 0 1 71 268891781 268891711 5.720000e-22 115.0
33 TraesCS3D01G299000 chr6D 93.617 47 2 1 2435 2481 57940293 57940338 4.510000e-08 69.4
34 TraesCS3D01G299000 chr5A 90.370 135 12 1 1762 1895 22613380 22613246 2.590000e-40 176.0
35 TraesCS3D01G299000 chr6A 89.928 139 7 3 1764 1895 38683341 38683203 3.340000e-39 172.0
36 TraesCS3D01G299000 chr6A 92.308 78 4 2 1 77 79870275 79870199 2.660000e-20 110.0
37 TraesCS3D01G299000 chr6A 89.412 85 6 2 1 85 161434860 161434779 1.240000e-18 104.0
38 TraesCS3D01G299000 chr1B 96.203 79 3 0 2401 2479 569629129 569629207 2.040000e-26 130.0
39 TraesCS3D01G299000 chr1B 95.312 64 3 0 2418 2481 670589197 670589260 4.450000e-18 102.0
40 TraesCS3D01G299000 chr6B 91.111 90 4 2 2317 2402 715993546 715993635 4.420000e-23 119.0
41 TraesCS3D01G299000 chr4A 97.101 69 2 0 1 69 69114300 69114368 1.590000e-22 117.0
42 TraesCS3D01G299000 chr4A 93.333 75 5 0 1 75 308246608 308246534 7.400000e-21 111.0
43 TraesCS3D01G299000 chr4A 93.056 72 5 0 1 72 518447327 518447398 3.440000e-19 106.0
44 TraesCS3D01G299000 chr4B 88.660 97 5 4 2320 2410 495565753 495565657 2.060000e-21 113.0


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 TraesCS3D01G299000 chr3D 414162900 414165428 2528 True 4671.000000 4671 100.000000 1 2529 1 chr3D.!!$R1 2528
1 TraesCS3D01G299000 chr3A 536774202 536775886 1684 False 1194.500000 1552 92.619500 756 2529 2 chr3A.!!$F3 1773
2 TraesCS3D01G299000 chr3A 536769056 536769737 681 False 317.500000 492 87.916500 171 770 2 chr3A.!!$F2 599
3 TraesCS3D01G299000 chr3B 540190930 540195138 4208 True 951.666667 1423 88.869667 63 2529 3 chr3B.!!$R2 2466

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
34 35 0.105298 ATAGTTCGGGACCCCCTACC 60.105 60.0 4.46 0.0 42.67 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1886 3928 0.036294 AAACCAGAGACTTAGGGCGC 60.036 55.0 0.0 0.0 0.0 6.53 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
22 23 3.173599 TCGACCTTAAACGCATAGTTCG 58.826 45.455 0.00 0.00 43.37 3.95
23 24 2.280708 CGACCTTAAACGCATAGTTCGG 59.719 50.000 0.00 0.00 43.37 4.30
24 25 2.606272 GACCTTAAACGCATAGTTCGGG 59.394 50.000 0.00 0.00 43.37 5.14
25 26 2.234414 ACCTTAAACGCATAGTTCGGGA 59.766 45.455 0.00 0.00 43.37 5.14
26 27 2.606272 CCTTAAACGCATAGTTCGGGAC 59.394 50.000 0.00 0.00 43.37 4.46
27 28 2.298411 TAAACGCATAGTTCGGGACC 57.702 50.000 0.00 0.00 43.37 4.46
28 29 0.392060 AAACGCATAGTTCGGGACCC 60.392 55.000 0.00 0.00 43.37 4.46
29 30 2.108362 CGCATAGTTCGGGACCCC 59.892 66.667 4.46 0.00 0.00 4.95
30 31 2.509422 GCATAGTTCGGGACCCCC 59.491 66.667 4.46 0.00 41.09 5.40
31 32 2.070650 GCATAGTTCGGGACCCCCT 61.071 63.158 4.46 0.84 42.67 4.79
32 33 0.761702 GCATAGTTCGGGACCCCCTA 60.762 60.000 4.46 3.30 42.67 3.53
33 34 1.046204 CATAGTTCGGGACCCCCTAC 58.954 60.000 4.46 0.29 42.67 3.18
34 35 0.105298 ATAGTTCGGGACCCCCTACC 60.105 60.000 4.46 0.00 42.67 3.18
35 36 2.242408 TAGTTCGGGACCCCCTACCC 62.242 65.000 4.46 0.00 42.67 3.69
39 40 3.759101 GGGACCCCCTACCCGAGA 61.759 72.222 0.00 0.00 41.34 4.04
40 41 2.613421 GGACCCCCTACCCGAGAT 59.387 66.667 0.00 0.00 0.00 2.75
41 42 1.533513 GGACCCCCTACCCGAGATC 60.534 68.421 0.00 0.00 0.00 2.75
42 43 1.533513 GACCCCCTACCCGAGATCC 60.534 68.421 0.00 0.00 0.00 3.36
43 44 2.600769 CCCCCTACCCGAGATCCG 60.601 72.222 0.00 0.00 38.18 4.18
44 45 3.303928 CCCCTACCCGAGATCCGC 61.304 72.222 0.00 0.00 36.84 5.54
45 46 3.303928 CCCTACCCGAGATCCGCC 61.304 72.222 0.00 0.00 36.84 6.13
46 47 3.671411 CCTACCCGAGATCCGCCG 61.671 72.222 0.00 0.00 36.84 6.46
47 48 3.671411 CTACCCGAGATCCGCCGG 61.671 72.222 0.00 0.00 44.94 6.13
48 49 4.511246 TACCCGAGATCCGCCGGT 62.511 66.667 1.63 11.60 43.93 5.28
50 51 4.157120 CCCGAGATCCGCCGGTTT 62.157 66.667 1.63 0.00 43.93 3.27
51 52 2.125269 CCGAGATCCGCCGGTTTT 60.125 61.111 1.63 0.00 40.78 2.43
52 53 2.461110 CCGAGATCCGCCGGTTTTG 61.461 63.158 1.63 0.00 40.78 2.44
53 54 1.447140 CGAGATCCGCCGGTTTTGA 60.447 57.895 1.63 0.00 0.00 2.69
54 55 1.693083 CGAGATCCGCCGGTTTTGAC 61.693 60.000 1.63 0.00 0.00 3.18
55 56 0.672401 GAGATCCGCCGGTTTTGACA 60.672 55.000 1.63 0.00 0.00 3.58
56 57 0.953960 AGATCCGCCGGTTTTGACAC 60.954 55.000 1.63 0.00 0.00 3.67
57 58 1.918868 GATCCGCCGGTTTTGACACC 61.919 60.000 1.63 0.00 0.00 4.16
89 90 0.811219 TCGAGCTTTCGATGGCATGG 60.811 55.000 3.81 3.19 37.20 3.66
92 93 2.717485 CTTTCGATGGCATGGGCG 59.283 61.111 3.81 2.10 42.47 6.13
111 112 1.270305 CGCTCAAAGAACCAGGTGAGA 60.270 52.381 7.99 0.00 39.94 3.27
134 135 0.400213 TCCTTGTCGTGAGGCCATTT 59.600 50.000 5.01 0.00 34.17 2.32
166 168 1.414550 CCTTCCTAGCAGAGTTAGCCC 59.585 57.143 0.00 0.00 0.00 5.19
205 216 5.184864 ACATTTTGGTCTTCAACACTTGTGA 59.815 36.000 7.83 0.00 34.67 3.58
217 228 7.439157 TCAACACTTGTGATTATTTCTCCAG 57.561 36.000 7.83 0.00 0.00 3.86
221 232 5.359009 CACTTGTGATTATTTCTCCAGCCAT 59.641 40.000 0.00 0.00 0.00 4.40
249 260 3.244561 ACTTTTGATGGATCTCACACCGT 60.245 43.478 0.00 0.00 0.00 4.83
298 309 0.250338 AGACAAAAGAGTCCACGGGC 60.250 55.000 0.00 0.00 39.34 6.13
308 319 3.133362 AGAGTCCACGGGCGAATAATTTA 59.867 43.478 0.00 0.00 0.00 1.40
309 320 3.872771 GAGTCCACGGGCGAATAATTTAA 59.127 43.478 0.00 0.00 0.00 1.52
376 388 2.184448 CTTTCGTGTGCTTGTTGTTGG 58.816 47.619 0.00 0.00 0.00 3.77
383 395 2.757868 TGTGCTTGTTGTTGGCTTAACT 59.242 40.909 6.08 0.00 40.05 2.24
413 425 3.826157 TGGTTGCTCGGAGAATTCATTTT 59.174 39.130 9.69 0.00 34.09 1.82
545 559 9.388506 TGCTTGAAAGTTTTCCAAAATTATCAA 57.611 25.926 2.41 0.00 36.36 2.57
571 661 8.962679 AGAAAACAGTACAACATGTTAAAAGGA 58.037 29.630 11.53 0.00 38.66 3.36
671 2646 5.461032 TTTTACATGTCTTCCCGCAAAAT 57.539 34.783 0.00 0.00 0.00 1.82
672 2647 6.576662 TTTTACATGTCTTCCCGCAAAATA 57.423 33.333 0.00 0.00 0.00 1.40
676 2651 5.469479 ACATGTCTTCCCGCAAAATAAAAG 58.531 37.500 0.00 0.00 0.00 2.27
677 2652 5.242838 ACATGTCTTCCCGCAAAATAAAAGA 59.757 36.000 0.00 0.00 0.00 2.52
678 2653 5.371115 TGTCTTCCCGCAAAATAAAAGAG 57.629 39.130 0.00 0.00 0.00 2.85
888 2897 3.049080 GCCTTCTTCCCGGCCAGAT 62.049 63.158 2.24 0.00 40.43 2.90
963 2972 1.741770 GCCTTCACCGTCGCTGAAT 60.742 57.895 3.55 0.00 0.00 2.57
1016 3025 2.534272 CCCCACCTCCCCTTTCCA 60.534 66.667 0.00 0.00 0.00 3.53
1526 3536 3.630168 TGCAGGCCTAATTGCAATCTTA 58.370 40.909 14.52 2.21 46.42 2.10
1551 3561 4.100035 TCTGAATCAGTGTGTGTCTGTTCT 59.900 41.667 10.36 0.00 34.86 3.01
1552 3562 4.769688 TGAATCAGTGTGTGTCTGTTCTT 58.230 39.130 0.00 0.00 34.86 2.52
1555 3565 6.821160 TGAATCAGTGTGTGTCTGTTCTTTTA 59.179 34.615 0.00 0.00 34.86 1.52
1637 3648 8.248945 CCTTGCTTTGTGAAATGAGATATTCTT 58.751 33.333 0.00 0.00 0.00 2.52
1711 3722 5.297776 CAGTAATCCAACTTCATCACCATCC 59.702 44.000 0.00 0.00 0.00 3.51
1765 3807 8.668510 AAGTATATCATTGTGAGTTGCTAAGG 57.331 34.615 0.00 0.00 0.00 2.69
1767 3809 2.436417 TCATTGTGAGTTGCTAAGGCC 58.564 47.619 0.00 0.00 37.74 5.19
1768 3810 1.131126 CATTGTGAGTTGCTAAGGCCG 59.869 52.381 0.00 0.00 37.74 6.13
1769 3811 1.234615 TTGTGAGTTGCTAAGGCCGC 61.235 55.000 0.00 0.00 37.74 6.53
1771 3813 2.434359 GAGTTGCTAAGGCCGCGT 60.434 61.111 4.92 0.00 37.74 6.01
1773 3815 1.967597 GAGTTGCTAAGGCCGCGTTC 61.968 60.000 4.92 0.00 37.74 3.95
1774 3816 3.115892 TTGCTAAGGCCGCGTTCG 61.116 61.111 4.92 0.00 37.74 3.95
1787 3829 3.112709 GTTCGGCAGTCCACGCTC 61.113 66.667 0.00 0.00 0.00 5.03
1788 3830 4.373116 TTCGGCAGTCCACGCTCC 62.373 66.667 0.00 0.00 0.00 4.70
1790 3832 4.379243 CGGCAGTCCACGCTCCTT 62.379 66.667 0.00 0.00 0.00 3.36
1791 3833 2.435059 GGCAGTCCACGCTCCTTC 60.435 66.667 0.00 0.00 0.00 3.46
1792 3834 2.343758 GCAGTCCACGCTCCTTCA 59.656 61.111 0.00 0.00 0.00 3.02
1793 3835 1.301716 GCAGTCCACGCTCCTTCAA 60.302 57.895 0.00 0.00 0.00 2.69
1794 3836 0.884704 GCAGTCCACGCTCCTTCAAA 60.885 55.000 0.00 0.00 0.00 2.69
1795 3837 1.813513 CAGTCCACGCTCCTTCAAAT 58.186 50.000 0.00 0.00 0.00 2.32
1796 3838 1.734465 CAGTCCACGCTCCTTCAAATC 59.266 52.381 0.00 0.00 0.00 2.17
1797 3839 1.087501 GTCCACGCTCCTTCAAATCC 58.912 55.000 0.00 0.00 0.00 3.01
1798 3840 0.984230 TCCACGCTCCTTCAAATCCT 59.016 50.000 0.00 0.00 0.00 3.24
1799 3841 2.093658 GTCCACGCTCCTTCAAATCCTA 60.094 50.000 0.00 0.00 0.00 2.94
1800 3842 2.168521 TCCACGCTCCTTCAAATCCTAG 59.831 50.000 0.00 0.00 0.00 3.02
1801 3843 2.168521 CCACGCTCCTTCAAATCCTAGA 59.831 50.000 0.00 0.00 0.00 2.43
1802 3844 3.369471 CCACGCTCCTTCAAATCCTAGAA 60.369 47.826 0.00 0.00 0.00 2.10
1803 3845 4.446371 CACGCTCCTTCAAATCCTAGAAT 58.554 43.478 0.00 0.00 0.00 2.40
1804 3846 4.509600 CACGCTCCTTCAAATCCTAGAATC 59.490 45.833 0.00 0.00 0.00 2.52
1805 3847 4.407296 ACGCTCCTTCAAATCCTAGAATCT 59.593 41.667 0.00 0.00 0.00 2.40
1806 3848 5.598830 ACGCTCCTTCAAATCCTAGAATCTA 59.401 40.000 0.00 0.00 0.00 1.98
1807 3849 5.923684 CGCTCCTTCAAATCCTAGAATCTAC 59.076 44.000 0.00 0.00 0.00 2.59
1808 3850 5.923684 GCTCCTTCAAATCCTAGAATCTACG 59.076 44.000 0.00 0.00 0.00 3.51
1809 3851 6.406692 TCCTTCAAATCCTAGAATCTACGG 57.593 41.667 0.00 0.00 0.00 4.02
1810 3852 6.134055 TCCTTCAAATCCTAGAATCTACGGA 58.866 40.000 9.71 9.71 0.00 4.69
1811 3853 6.265649 TCCTTCAAATCCTAGAATCTACGGAG 59.734 42.308 11.93 0.00 0.00 4.63
1812 3854 5.455056 TCAAATCCTAGAATCTACGGAGC 57.545 43.478 11.93 0.00 0.00 4.70
1813 3855 4.893524 TCAAATCCTAGAATCTACGGAGCA 59.106 41.667 11.93 0.00 0.00 4.26
1814 3856 5.010112 TCAAATCCTAGAATCTACGGAGCAG 59.990 44.000 11.93 6.36 0.00 4.24
1815 3857 2.231529 TCCTAGAATCTACGGAGCAGC 58.768 52.381 0.00 0.00 0.00 5.25
1816 3858 2.158593 TCCTAGAATCTACGGAGCAGCT 60.159 50.000 0.00 0.00 0.00 4.24
1817 3859 2.030363 CCTAGAATCTACGGAGCAGCTG 60.030 54.545 10.11 10.11 0.00 4.24
1818 3860 1.479709 AGAATCTACGGAGCAGCTGT 58.520 50.000 16.64 1.59 39.97 4.40
1819 3861 1.827969 AGAATCTACGGAGCAGCTGTT 59.172 47.619 16.64 9.79 37.31 3.16
1820 3862 3.024547 AGAATCTACGGAGCAGCTGTTA 58.975 45.455 16.64 0.00 37.31 2.41
1821 3863 3.067461 AGAATCTACGGAGCAGCTGTTAG 59.933 47.826 16.64 9.65 37.31 2.34
1822 3864 0.456221 TCTACGGAGCAGCTGTTAGC 59.544 55.000 16.64 0.00 42.84 3.09
1831 3873 4.100981 GCTGTTAGCTCGCTCCAG 57.899 61.111 11.86 11.86 38.45 3.86
1832 3874 1.520342 GCTGTTAGCTCGCTCCAGG 60.520 63.158 15.78 0.00 38.45 4.45
1833 3875 1.142748 CTGTTAGCTCGCTCCAGGG 59.857 63.158 0.00 0.00 0.00 4.45
1834 3876 1.304962 TGTTAGCTCGCTCCAGGGA 60.305 57.895 0.00 0.00 35.61 4.20
1835 3877 0.687757 TGTTAGCTCGCTCCAGGGAT 60.688 55.000 0.00 0.00 36.39 3.85
1836 3878 0.466124 GTTAGCTCGCTCCAGGGATT 59.534 55.000 0.00 0.00 36.39 3.01
1837 3879 1.687123 GTTAGCTCGCTCCAGGGATTA 59.313 52.381 0.00 0.00 36.39 1.75
1838 3880 2.300437 GTTAGCTCGCTCCAGGGATTAT 59.700 50.000 0.00 0.00 36.39 1.28
1839 3881 2.310779 AGCTCGCTCCAGGGATTATA 57.689 50.000 0.00 0.00 36.39 0.98
1840 3882 2.609747 AGCTCGCTCCAGGGATTATAA 58.390 47.619 0.00 0.00 36.39 0.98
1841 3883 2.300437 AGCTCGCTCCAGGGATTATAAC 59.700 50.000 0.00 0.00 36.39 1.89
1842 3884 2.613223 GCTCGCTCCAGGGATTATAACC 60.613 54.545 0.00 0.00 36.39 2.85
1850 3892 2.881111 GGGATTATAACCCCAGCTCC 57.119 55.000 10.42 0.23 42.24 4.70
1851 3893 1.003233 GGGATTATAACCCCAGCTCCG 59.997 57.143 10.42 0.00 42.24 4.63
1852 3894 1.697982 GGATTATAACCCCAGCTCCGT 59.302 52.381 0.00 0.00 0.00 4.69
1853 3895 2.289506 GGATTATAACCCCAGCTCCGTC 60.290 54.545 0.00 0.00 0.00 4.79
1854 3896 1.125633 TTATAACCCCAGCTCCGTCC 58.874 55.000 0.00 0.00 0.00 4.79
1855 3897 1.111116 TATAACCCCAGCTCCGTCCG 61.111 60.000 0.00 0.00 0.00 4.79
1860 3902 4.504916 CCAGCTCCGTCCGCTCTG 62.505 72.222 0.00 0.00 35.07 3.35
1861 3903 4.504916 CAGCTCCGTCCGCTCTGG 62.505 72.222 0.00 0.00 35.07 3.86
1864 3906 3.522731 CTCCGTCCGCTCTGGGAG 61.523 72.222 0.00 0.00 40.05 4.30
1893 3935 4.424566 GACACCGAACGCGCCCTA 62.425 66.667 5.73 0.00 35.83 3.53
1894 3936 3.919973 GACACCGAACGCGCCCTAA 62.920 63.158 5.73 0.00 35.83 2.69
1895 3937 3.186047 CACCGAACGCGCCCTAAG 61.186 66.667 5.73 0.00 35.83 2.18
1896 3938 3.688159 ACCGAACGCGCCCTAAGT 61.688 61.111 5.73 0.00 35.83 2.24
1897 3939 2.884207 CCGAACGCGCCCTAAGTC 60.884 66.667 5.73 0.00 35.83 3.01
1898 3940 2.181021 CGAACGCGCCCTAAGTCT 59.819 61.111 5.73 0.00 0.00 3.24
1899 3941 1.872679 CGAACGCGCCCTAAGTCTC 60.873 63.158 5.73 0.00 0.00 3.36
1900 3942 1.511768 GAACGCGCCCTAAGTCTCT 59.488 57.895 5.73 0.00 0.00 3.10
1901 3943 0.802607 GAACGCGCCCTAAGTCTCTG 60.803 60.000 5.73 0.00 0.00 3.35
1902 3944 2.105128 CGCGCCCTAAGTCTCTGG 59.895 66.667 0.00 0.00 0.00 3.86
1945 3987 7.902920 AGATATATTGGTTGCCTTGAACATT 57.097 32.000 0.00 0.00 0.00 2.71
1965 4007 7.943079 ACATTGTGATGTAAAATGAGGATGA 57.057 32.000 1.89 0.00 44.51 2.92
1981 4023 6.582636 TGAGGATGACATTTAAACGAGCTAT 58.417 36.000 0.00 0.00 0.00 2.97
1987 4029 7.290857 TGACATTTAAACGAGCTATGAGAAC 57.709 36.000 0.00 0.00 0.00 3.01
1988 4030 6.871492 TGACATTTAAACGAGCTATGAGAACA 59.129 34.615 0.00 0.00 0.00 3.18
1993 4035 5.597813 AAACGAGCTATGAGAACAACAAG 57.402 39.130 0.00 0.00 0.00 3.16
2000 4042 4.390297 GCTATGAGAACAACAAGTCCTGTC 59.610 45.833 0.00 0.00 37.23 3.51
2021 4064 2.691409 TCCATTCCTTTGAGCCTACG 57.309 50.000 0.00 0.00 0.00 3.51
2027 4070 1.215647 CTTTGAGCCTACGGACGCT 59.784 57.895 0.00 0.00 38.27 5.07
2028 4071 1.078759 CTTTGAGCCTACGGACGCTG 61.079 60.000 0.00 0.00 34.84 5.18
2039 4082 1.699656 CGGACGCTGCAAGAATCCAG 61.700 60.000 0.00 0.00 38.92 3.86
2062 4105 2.057922 CCAGCACCATCCTACCCTATT 58.942 52.381 0.00 0.00 0.00 1.73
2063 4106 2.224621 CCAGCACCATCCTACCCTATTG 60.225 54.545 0.00 0.00 0.00 1.90
2086 4129 0.593128 CAAAACAGCAGGCTTACGCT 59.407 50.000 0.00 0.00 39.66 5.07
2088 4131 1.318576 AAACAGCAGGCTTACGCTTT 58.681 45.000 0.00 0.00 35.96 3.51
2090 4133 2.178912 ACAGCAGGCTTACGCTTTAA 57.821 45.000 0.00 0.00 35.96 1.52
2131 4174 5.619086 CGTTTGAACCACTCACAACTTCTTT 60.619 40.000 0.00 0.00 32.21 2.52
2338 4383 2.069165 GCTTCCCCCAAGGTGACACT 62.069 60.000 5.39 0.00 36.75 3.55
2361 4406 1.142262 AGGTTACCTCCTTTTGTGCGT 59.858 47.619 0.00 0.00 33.52 5.24
2491 4541 5.104900 ACGCTAGGGAGTCTCAAACAAATAT 60.105 40.000 14.59 0.00 0.00 1.28
2522 4578 0.916358 ACATGGCCAAGGCTCTAGGT 60.916 55.000 10.96 3.33 41.60 3.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.548216 CGAACTATGCGTTTAAGGTCG 57.452 47.619 0.50 0.50 43.22 4.79
3 4 2.606272 CCCGAACTATGCGTTTAAGGTC 59.394 50.000 0.00 0.00 35.56 3.85
4 5 2.234414 TCCCGAACTATGCGTTTAAGGT 59.766 45.455 0.00 0.00 35.56 3.50
5 6 2.606272 GTCCCGAACTATGCGTTTAAGG 59.394 50.000 0.00 0.00 35.56 2.69
6 7 2.606272 GGTCCCGAACTATGCGTTTAAG 59.394 50.000 0.00 0.00 35.56 1.85
7 8 2.620242 GGTCCCGAACTATGCGTTTAA 58.380 47.619 0.00 0.00 35.56 1.52
8 9 1.134729 GGGTCCCGAACTATGCGTTTA 60.135 52.381 0.00 0.00 35.56 2.01
9 10 0.392060 GGGTCCCGAACTATGCGTTT 60.392 55.000 0.00 0.00 35.56 3.60
10 11 1.219935 GGGTCCCGAACTATGCGTT 59.780 57.895 0.00 0.00 38.91 4.84
11 12 2.728435 GGGGTCCCGAACTATGCGT 61.728 63.158 0.48 0.00 0.00 5.24
12 13 2.108362 GGGGTCCCGAACTATGCG 59.892 66.667 0.48 0.00 0.00 4.73
13 14 2.509422 GGGGGTCCCGAACTATGC 59.491 66.667 0.48 0.00 36.85 3.14
22 23 3.097429 ATCTCGGGTAGGGGGTCCC 62.097 68.421 0.00 0.00 45.90 4.46
23 24 1.533513 GATCTCGGGTAGGGGGTCC 60.534 68.421 0.00 0.00 0.00 4.46
24 25 1.533513 GGATCTCGGGTAGGGGGTC 60.534 68.421 0.00 0.00 0.00 4.46
25 26 2.613421 GGATCTCGGGTAGGGGGT 59.387 66.667 0.00 0.00 0.00 4.95
26 27 2.600769 CGGATCTCGGGTAGGGGG 60.601 72.222 0.00 0.00 34.75 5.40
27 28 3.303928 GCGGATCTCGGGTAGGGG 61.304 72.222 5.87 0.00 39.69 4.79
28 29 3.303928 GGCGGATCTCGGGTAGGG 61.304 72.222 5.87 0.00 39.69 3.53
29 30 3.671411 CGGCGGATCTCGGGTAGG 61.671 72.222 0.00 0.00 39.69 3.18
30 31 3.671411 CCGGCGGATCTCGGGTAG 61.671 72.222 24.41 0.00 42.32 3.18
35 36 1.447140 TCAAAACCGGCGGATCTCG 60.447 57.895 35.78 16.34 42.76 4.04
36 37 0.672401 TGTCAAAACCGGCGGATCTC 60.672 55.000 35.78 16.90 0.00 2.75
37 38 0.953960 GTGTCAAAACCGGCGGATCT 60.954 55.000 35.78 13.84 0.00 2.75
38 39 1.500396 GTGTCAAAACCGGCGGATC 59.500 57.895 35.78 9.52 0.00 3.36
39 40 1.969589 GGTGTCAAAACCGGCGGAT 60.970 57.895 35.78 20.37 0.00 4.18
40 41 2.592287 GGTGTCAAAACCGGCGGA 60.592 61.111 35.78 6.54 0.00 5.54
46 47 1.066454 CCCTTTGTCGGTGTCAAAACC 59.934 52.381 0.00 0.00 34.96 3.27
47 48 1.746787 ACCCTTTGTCGGTGTCAAAAC 59.253 47.619 0.00 0.00 34.96 2.43
48 49 1.746220 CACCCTTTGTCGGTGTCAAAA 59.254 47.619 0.00 0.00 44.87 2.44
49 50 1.384525 CACCCTTTGTCGGTGTCAAA 58.615 50.000 0.00 0.00 44.87 2.69
50 51 3.088259 CACCCTTTGTCGGTGTCAA 57.912 52.632 0.00 0.00 44.87 3.18
51 52 4.868026 CACCCTTTGTCGGTGTCA 57.132 55.556 0.00 0.00 44.87 3.58
55 56 0.249741 CTCGAACACCCTTTGTCGGT 60.250 55.000 0.00 0.00 37.51 4.69
56 57 1.566018 GCTCGAACACCCTTTGTCGG 61.566 60.000 0.00 0.00 37.51 4.79
57 58 0.600255 AGCTCGAACACCCTTTGTCG 60.600 55.000 0.00 0.00 37.51 4.35
58 59 1.594331 AAGCTCGAACACCCTTTGTC 58.406 50.000 0.00 0.00 37.51 3.18
59 60 1.947456 GAAAGCTCGAACACCCTTTGT 59.053 47.619 0.00 0.00 41.74 2.83
60 61 2.688364 GAAAGCTCGAACACCCTTTG 57.312 50.000 0.00 0.00 0.00 2.77
89 90 1.600916 ACCTGGTTCTTTGAGCGCC 60.601 57.895 2.29 0.00 0.00 6.53
92 93 2.147150 GTCTCACCTGGTTCTTTGAGC 58.853 52.381 0.00 0.00 36.26 4.26
134 135 0.474854 TAGGAAGGTGGAGGCCAACA 60.475 55.000 5.01 0.00 45.07 3.33
166 168 4.096382 CCAAAATGTATCTCGAAGTTGGGG 59.904 45.833 0.00 0.00 32.40 4.96
205 216 6.073314 AGTTATGCATGGCTGGAGAAATAAT 58.927 36.000 10.16 0.00 0.00 1.28
217 228 4.389890 TCCATCAAAAGTTATGCATGGC 57.610 40.909 10.16 1.52 32.32 4.40
221 232 5.945191 TGTGAGATCCATCAAAAGTTATGCA 59.055 36.000 0.00 0.00 0.00 3.96
249 260 5.042463 TCATGGTTTTAGTGAAGTGGACA 57.958 39.130 0.00 0.00 0.00 4.02
315 326 9.586435 GCCACATAGTTTCTATTTAGCATTTTT 57.414 29.630 0.00 0.00 0.00 1.94
360 372 0.179140 AAGCCAACAACAAGCACACG 60.179 50.000 0.00 0.00 0.00 4.49
418 430 8.779303 TCATGCACGAGTTCTAATTTAAAGAAA 58.221 29.630 0.00 0.00 34.86 2.52
420 432 7.899178 TCATGCACGAGTTCTAATTTAAAGA 57.101 32.000 0.00 0.00 0.00 2.52
421 433 9.559958 AAATCATGCACGAGTTCTAATTTAAAG 57.440 29.630 0.00 0.00 0.00 1.85
424 436 8.726068 TGAAAATCATGCACGAGTTCTAATTTA 58.274 29.630 0.00 0.00 0.00 1.40
428 441 6.545508 CATGAAAATCATGCACGAGTTCTAA 58.454 36.000 7.35 0.00 46.37 2.10
545 559 8.962679 TCCTTTTAACATGTTGTACTGTTTTCT 58.037 29.630 21.42 0.00 36.92 2.52
640 2615 7.574217 GCGGGAAGACATGTAAAATTTCAAGTA 60.574 37.037 0.00 0.00 0.00 2.24
791 2767 6.434302 TGGTGAATGGATCAATGGAACTATT 58.566 36.000 0.00 0.00 40.50 1.73
888 2897 2.659063 CGTGGCCTGATCTGGACCA 61.659 63.158 20.95 21.70 33.07 4.02
971 2980 1.958205 GATCGGCAGATGCGGGAAG 60.958 63.158 3.36 0.00 43.26 3.46
997 3006 2.309504 GGAAAGGGGAGGTGGGGAG 61.310 68.421 0.00 0.00 0.00 4.30
1011 3020 2.188469 GCTACGGCCCGATGGAAA 59.812 61.111 11.71 0.00 0.00 3.13
1444 3454 1.222936 GCCCTCACCTGGATCACTG 59.777 63.158 0.00 0.00 0.00 3.66
1526 3536 4.965814 ACAGACACACACTGATTCAGATT 58.034 39.130 20.33 3.51 38.55 2.40
1551 3561 7.444183 CCCGAGCCTACATTTGATTCTATAAAA 59.556 37.037 0.00 0.00 0.00 1.52
1552 3562 6.934645 CCCGAGCCTACATTTGATTCTATAAA 59.065 38.462 0.00 0.00 0.00 1.40
1555 3565 4.263068 CCCCGAGCCTACATTTGATTCTAT 60.263 45.833 0.00 0.00 0.00 1.98
1571 3581 4.849329 CGTACTGACGCCCCGAGC 62.849 72.222 0.00 0.00 43.21 5.03
1593 3603 5.418840 AGCAAGGTTGGGTTATCAACTATTG 59.581 40.000 15.11 15.11 44.52 1.90
1637 3648 4.630894 ATTTCACGAGTTGCAACAAGAA 57.369 36.364 30.11 22.29 0.00 2.52
1680 3691 6.770303 TGATGAAGTTGGATTACTGTTGAACA 59.230 34.615 0.00 0.00 0.00 3.18
1693 3704 4.387026 AAAGGATGGTGATGAAGTTGGA 57.613 40.909 0.00 0.00 0.00 3.53
1711 3722 5.287226 GCATGATGCATTTCCCTCTAAAAG 58.713 41.667 13.36 0.00 44.26 2.27
1771 3813 4.373116 GGAGCGTGGACTGCCGAA 62.373 66.667 0.00 0.00 36.79 4.30
1773 3815 4.379243 AAGGAGCGTGGACTGCCG 62.379 66.667 0.00 0.00 36.79 5.69
1774 3816 2.435059 GAAGGAGCGTGGACTGCC 60.435 66.667 0.00 0.00 0.00 4.85
1775 3817 0.884704 TTTGAAGGAGCGTGGACTGC 60.885 55.000 0.00 0.00 0.00 4.40
1776 3818 1.734465 GATTTGAAGGAGCGTGGACTG 59.266 52.381 0.00 0.00 0.00 3.51
1777 3819 1.339151 GGATTTGAAGGAGCGTGGACT 60.339 52.381 0.00 0.00 0.00 3.85
1778 3820 1.087501 GGATTTGAAGGAGCGTGGAC 58.912 55.000 0.00 0.00 0.00 4.02
1779 3821 0.984230 AGGATTTGAAGGAGCGTGGA 59.016 50.000 0.00 0.00 0.00 4.02
1780 3822 2.168521 TCTAGGATTTGAAGGAGCGTGG 59.831 50.000 0.00 0.00 0.00 4.94
1781 3823 3.526931 TCTAGGATTTGAAGGAGCGTG 57.473 47.619 0.00 0.00 0.00 5.34
1782 3824 4.407296 AGATTCTAGGATTTGAAGGAGCGT 59.593 41.667 0.00 0.00 0.00 5.07
1783 3825 4.954875 AGATTCTAGGATTTGAAGGAGCG 58.045 43.478 0.00 0.00 0.00 5.03
1784 3826 5.923684 CGTAGATTCTAGGATTTGAAGGAGC 59.076 44.000 7.48 0.00 0.00 4.70
1785 3827 6.265649 TCCGTAGATTCTAGGATTTGAAGGAG 59.734 42.308 13.63 0.00 0.00 3.69
1786 3828 6.134055 TCCGTAGATTCTAGGATTTGAAGGA 58.866 40.000 13.63 0.00 0.00 3.36
1787 3829 6.406692 TCCGTAGATTCTAGGATTTGAAGG 57.593 41.667 13.63 0.00 0.00 3.46
1788 3830 5.923684 GCTCCGTAGATTCTAGGATTTGAAG 59.076 44.000 13.63 3.54 31.66 3.02
1789 3831 5.362717 TGCTCCGTAGATTCTAGGATTTGAA 59.637 40.000 13.63 0.00 31.66 2.69
1790 3832 4.893524 TGCTCCGTAGATTCTAGGATTTGA 59.106 41.667 13.63 3.37 31.66 2.69
1791 3833 5.201713 TGCTCCGTAGATTCTAGGATTTG 57.798 43.478 13.63 4.60 31.66 2.32
1792 3834 4.262249 GCTGCTCCGTAGATTCTAGGATTT 60.262 45.833 13.63 0.00 31.66 2.17
1793 3835 3.257127 GCTGCTCCGTAGATTCTAGGATT 59.743 47.826 13.63 0.00 31.66 3.01
1794 3836 2.823154 GCTGCTCCGTAGATTCTAGGAT 59.177 50.000 13.63 0.00 31.66 3.24
1795 3837 2.158593 AGCTGCTCCGTAGATTCTAGGA 60.159 50.000 13.63 11.53 0.00 2.94
1796 3838 2.030363 CAGCTGCTCCGTAGATTCTAGG 60.030 54.545 0.00 6.44 0.00 3.02
1797 3839 2.621055 ACAGCTGCTCCGTAGATTCTAG 59.379 50.000 15.27 0.00 0.00 2.43
1798 3840 2.656002 ACAGCTGCTCCGTAGATTCTA 58.344 47.619 15.27 0.00 0.00 2.10
1799 3841 1.479709 ACAGCTGCTCCGTAGATTCT 58.520 50.000 15.27 0.00 0.00 2.40
1800 3842 2.301577 AACAGCTGCTCCGTAGATTC 57.698 50.000 15.27 0.00 0.00 2.52
1801 3843 2.482142 GCTAACAGCTGCTCCGTAGATT 60.482 50.000 15.27 0.00 38.45 2.40
1802 3844 1.067821 GCTAACAGCTGCTCCGTAGAT 59.932 52.381 15.27 0.00 38.45 1.98
1803 3845 0.456221 GCTAACAGCTGCTCCGTAGA 59.544 55.000 15.27 0.00 38.45 2.59
1804 3846 2.964911 GCTAACAGCTGCTCCGTAG 58.035 57.895 15.27 8.87 38.45 3.51
1814 3856 1.520342 CCTGGAGCGAGCTAACAGC 60.520 63.158 18.16 0.00 42.84 4.40
1815 3857 1.142748 CCCTGGAGCGAGCTAACAG 59.857 63.158 17.19 17.19 33.58 3.16
1816 3858 0.687757 ATCCCTGGAGCGAGCTAACA 60.688 55.000 0.00 0.00 0.00 2.41
1817 3859 0.466124 AATCCCTGGAGCGAGCTAAC 59.534 55.000 0.00 0.00 0.00 2.34
1818 3860 2.082140 TAATCCCTGGAGCGAGCTAA 57.918 50.000 0.00 0.00 0.00 3.09
1819 3861 2.310779 ATAATCCCTGGAGCGAGCTA 57.689 50.000 0.00 0.00 0.00 3.32
1820 3862 2.300437 GTTATAATCCCTGGAGCGAGCT 59.700 50.000 0.00 0.00 0.00 4.09
1821 3863 2.613223 GGTTATAATCCCTGGAGCGAGC 60.613 54.545 0.00 0.00 0.00 5.03
1822 3864 2.028020 GGGTTATAATCCCTGGAGCGAG 60.028 54.545 3.04 0.00 41.58 5.03
1823 3865 1.975680 GGGTTATAATCCCTGGAGCGA 59.024 52.381 3.04 0.00 41.58 4.93
1824 3866 1.003233 GGGGTTATAATCCCTGGAGCG 59.997 57.143 24.58 0.00 46.44 5.03
1825 3867 2.881111 GGGGTTATAATCCCTGGAGC 57.119 55.000 24.58 0.00 46.44 4.70
1832 3874 1.697982 ACGGAGCTGGGGTTATAATCC 59.302 52.381 6.18 6.18 0.00 3.01
1833 3875 2.289506 GGACGGAGCTGGGGTTATAATC 60.290 54.545 0.00 0.00 0.00 1.75
1834 3876 1.697982 GGACGGAGCTGGGGTTATAAT 59.302 52.381 0.00 0.00 0.00 1.28
1835 3877 1.125633 GGACGGAGCTGGGGTTATAA 58.874 55.000 0.00 0.00 0.00 0.98
1836 3878 1.111116 CGGACGGAGCTGGGGTTATA 61.111 60.000 0.00 0.00 0.00 0.98
1837 3879 2.432300 CGGACGGAGCTGGGGTTAT 61.432 63.158 0.00 0.00 0.00 1.89
1838 3880 3.072468 CGGACGGAGCTGGGGTTA 61.072 66.667 0.00 0.00 0.00 2.85
1843 3885 4.504916 CAGAGCGGACGGAGCTGG 62.505 72.222 6.28 0.00 46.13 4.85
1844 3886 4.504916 CCAGAGCGGACGGAGCTG 62.505 72.222 6.28 0.00 46.13 4.24
1847 3889 3.522731 CTCCCAGAGCGGACGGAG 61.523 72.222 0.00 0.00 36.56 4.63
1867 3909 3.379445 TTCGGTGTCCCTCCGCTC 61.379 66.667 0.00 0.00 46.49 5.03
1868 3910 3.692406 GTTCGGTGTCCCTCCGCT 61.692 66.667 0.00 0.00 46.49 5.52
1876 3918 3.919973 TTAGGGCGCGTTCGGTGTC 62.920 63.158 8.43 0.00 35.95 3.67
1877 3919 3.927163 CTTAGGGCGCGTTCGGTGT 62.927 63.158 8.43 0.00 35.95 4.16
1878 3920 3.186047 CTTAGGGCGCGTTCGGTG 61.186 66.667 8.43 0.00 35.95 4.94
1879 3921 3.637926 GACTTAGGGCGCGTTCGGT 62.638 63.158 8.43 0.00 35.95 4.69
1880 3922 2.884207 GACTTAGGGCGCGTTCGG 60.884 66.667 8.43 0.00 35.95 4.30
1881 3923 1.872679 GAGACTTAGGGCGCGTTCG 60.873 63.158 8.43 0.00 39.07 3.95
1882 3924 0.802607 CAGAGACTTAGGGCGCGTTC 60.803 60.000 8.43 0.00 0.00 3.95
1883 3925 1.215647 CAGAGACTTAGGGCGCGTT 59.784 57.895 8.43 0.00 0.00 4.84
1884 3926 2.711922 CCAGAGACTTAGGGCGCGT 61.712 63.158 8.43 0.00 0.00 6.01
1885 3927 2.105128 CCAGAGACTTAGGGCGCG 59.895 66.667 0.00 0.00 0.00 6.86
1886 3928 0.036294 AAACCAGAGACTTAGGGCGC 60.036 55.000 0.00 0.00 0.00 6.53
1887 3929 2.289444 TGAAAACCAGAGACTTAGGGCG 60.289 50.000 0.00 0.00 0.00 6.13
1888 3930 3.418684 TGAAAACCAGAGACTTAGGGC 57.581 47.619 0.00 0.00 0.00 5.19
1889 3931 4.757149 CACTTGAAAACCAGAGACTTAGGG 59.243 45.833 0.00 0.00 0.00 3.53
1890 3932 5.368989 ACACTTGAAAACCAGAGACTTAGG 58.631 41.667 0.00 0.00 0.00 2.69
1891 3933 9.877178 ATATACACTTGAAAACCAGAGACTTAG 57.123 33.333 0.00 0.00 0.00 2.18
1892 3934 9.871238 GATATACACTTGAAAACCAGAGACTTA 57.129 33.333 0.00 0.00 0.00 2.24
1893 3935 8.375506 TGATATACACTTGAAAACCAGAGACTT 58.624 33.333 0.00 0.00 0.00 3.01
1894 3936 7.907389 TGATATACACTTGAAAACCAGAGACT 58.093 34.615 0.00 0.00 0.00 3.24
1895 3937 8.547967 TTGATATACACTTGAAAACCAGAGAC 57.452 34.615 0.00 0.00 0.00 3.36
1896 3938 9.219603 CTTTGATATACACTTGAAAACCAGAGA 57.780 33.333 0.00 0.00 0.00 3.10
1897 3939 9.219603 TCTTTGATATACACTTGAAAACCAGAG 57.780 33.333 0.00 0.00 0.00 3.35
1898 3940 9.739276 ATCTTTGATATACACTTGAAAACCAGA 57.261 29.630 0.00 0.00 0.00 3.86
1935 3977 7.543172 CCTCATTTTACATCACAATGTTCAAGG 59.457 37.037 0.00 0.00 43.74 3.61
1945 3987 7.943079 AATGTCATCCTCATTTTACATCACA 57.057 32.000 0.00 0.00 32.50 3.58
1965 4007 7.172532 TGTTGTTCTCATAGCTCGTTTAAATGT 59.827 33.333 7.28 0.00 0.00 2.71
1981 4023 4.442706 GAAGACAGGACTTGTTGTTCTCA 58.557 43.478 0.00 0.00 41.05 3.27
1987 4029 3.503748 GGAATGGAAGACAGGACTTGTTG 59.496 47.826 0.00 0.00 41.05 3.33
1988 4030 3.395941 AGGAATGGAAGACAGGACTTGTT 59.604 43.478 0.00 0.00 41.05 2.83
1993 4035 4.006319 CTCAAAGGAATGGAAGACAGGAC 58.994 47.826 0.00 0.00 0.00 3.85
2000 4042 2.939103 CGTAGGCTCAAAGGAATGGAAG 59.061 50.000 0.00 0.00 0.00 3.46
2021 4064 0.674895 ACTGGATTCTTGCAGCGTCC 60.675 55.000 0.00 0.00 44.57 4.79
2027 4070 1.202915 TGCTGGAACTGGATTCTTGCA 60.203 47.619 0.00 0.00 40.48 4.08
2028 4071 1.200948 GTGCTGGAACTGGATTCTTGC 59.799 52.381 0.00 0.00 37.48 4.01
2039 4082 0.107165 GGGTAGGATGGTGCTGGAAC 60.107 60.000 0.00 0.00 0.00 3.62
2062 4105 3.488384 CGTAAGCCTGCTGTTTTGAAACA 60.488 43.478 8.81 8.81 45.88 2.83
2063 4106 3.042887 CGTAAGCCTGCTGTTTTGAAAC 58.957 45.455 0.00 0.00 39.33 2.78
2082 4125 2.073816 CCGACATGAACCTTAAAGCGT 58.926 47.619 0.00 0.00 0.00 5.07
2108 4151 4.965119 AGAAGTTGTGAGTGGTTCAAAC 57.035 40.909 0.00 0.00 37.61 2.93
2111 4154 4.584874 TGAAAGAAGTTGTGAGTGGTTCA 58.415 39.130 0.00 0.00 0.00 3.18
2131 4174 7.451501 TTGCTTTGATTAGATGTTGTCATGA 57.548 32.000 0.00 0.00 34.06 3.07
2491 4541 2.805194 TGGCCATGTCAATGTTCATCA 58.195 42.857 0.00 0.00 31.27 3.07
2501 4551 0.543277 CTAGAGCCTTGGCCATGTCA 59.457 55.000 6.09 0.00 0.00 3.58


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

AutoCloner maintained by Alex Coulton.