Multiple sequence alignment - TraesCS7D01G010800

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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 TraesCS7D01G010800 chr7D 100.000 3009 0 0 1 3009 5016487 5019495 0.000000e+00 5557.0
1 TraesCS7D01G010800 chr7D 100.000 207 0 0 2803 3009 207601670 207601876 1.690000e-102 383.0
2 TraesCS7D01G010800 chr4A 94.083 2687 89 19 5 2659 738051852 738054500 0.000000e+00 4017.0
3 TraesCS7D01G010800 chr4A 93.927 2651 88 17 37 2659 737870262 737867657 0.000000e+00 3936.0
4 TraesCS7D01G010800 chr4A 79.417 1200 200 29 877 2051 738379844 738381021 0.000000e+00 804.0
5 TraesCS7D01G010800 chr4A 78.928 1101 197 23 910 2001 649121681 649122755 0.000000e+00 715.0
6 TraesCS7D01G010800 chr4A 82.075 742 117 9 952 1686 738367168 738366436 1.180000e-173 619.0
7 TraesCS7D01G010800 chr4A 79.771 875 156 17 1149 2008 738034463 738035331 1.530000e-172 616.0
8 TraesCS7D01G010800 chr4A 78.128 951 168 23 1128 2051 738080889 738081826 4.350000e-158 568.0
9 TraesCS7D01G010800 chr4A 94.667 150 6 2 2658 2806 607328831 607328979 6.490000e-57 231.0
10 TraesCS7D01G010800 chr4A 85.714 56 8 0 1681 1736 60926383 60926328 3.240000e-05 60.2
11 TraesCS7D01G010800 chr7A 91.430 2042 123 20 151 2171 5598867 5600877 0.000000e+00 2754.0
12 TraesCS7D01G010800 chr7A 91.675 1910 116 13 151 2046 6276015 6277895 0.000000e+00 2606.0
13 TraesCS7D01G010800 chr7A 91.414 1910 121 13 151 2046 6216567 6218447 0.000000e+00 2579.0
14 TraesCS7D01G010800 chr7A 86.441 1180 137 10 886 2060 5362578 5363739 0.000000e+00 1271.0
15 TraesCS7D01G010800 chr7A 79.424 1181 209 22 885 2051 5367116 5365956 0.000000e+00 804.0
16 TraesCS7D01G010800 chr7A 94.570 442 24 0 2218 2659 5600885 5601326 0.000000e+00 684.0
17 TraesCS7D01G010800 chr7A 82.172 617 102 6 947 1561 4974420 4973810 9.560000e-145 523.0
18 TraesCS7D01G010800 chr7A 88.462 78 5 1 89 166 5598778 5598851 1.150000e-14 91.6
19 TraesCS7D01G010800 chr7A 88.312 77 5 1 89 165 6216487 6216559 4.130000e-14 89.8
20 TraesCS7D01G010800 chr7A 88.312 77 5 1 89 165 6275929 6276001 4.130000e-14 89.8
21 TraesCS7D01G010800 chrUn 89.665 687 59 4 1364 2046 334640591 334641269 0.000000e+00 865.0
22 TraesCS7D01G010800 chrUn 80.395 709 114 14 910 1614 372550122 372549435 1.600000e-142 516.0
23 TraesCS7D01G010800 chr3D 99.528 212 1 0 2798 3009 26458885 26459096 1.310000e-103 387.0
24 TraesCS7D01G010800 chr3D 93.878 147 7 2 2658 2803 572150844 572150989 1.400000e-53 220.0
25 TraesCS7D01G010800 chr3D 85.854 205 29 0 2150 2354 360338664 360338460 5.050000e-53 219.0
26 TraesCS7D01G010800 chr3D 85.854 205 26 3 2150 2354 282947607 282947808 6.530000e-52 215.0
27 TraesCS7D01G010800 chr5D 100.000 208 0 0 2802 3009 564967940 564967733 4.710000e-103 385.0
28 TraesCS7D01G010800 chr5D 85.514 214 28 3 2150 2363 437021210 437021000 1.400000e-53 220.0
29 TraesCS7D01G010800 chr5D 91.667 156 9 4 2654 2806 204523665 204523819 2.350000e-51 213.0
30 TraesCS7D01G010800 chr5D 97.059 34 1 0 1695 1728 417626592 417626559 1.170000e-04 58.4
31 TraesCS7D01G010800 chr6D 100.000 207 0 0 2803 3009 470275603 470275809 1.690000e-102 383.0
32 TraesCS7D01G010800 chr6D 100.000 206 0 0 2804 3009 22276950 22277155 6.090000e-102 381.0
33 TraesCS7D01G010800 chr6D 100.000 206 0 0 2804 3009 24905757 24905962 6.090000e-102 381.0
34 TraesCS7D01G010800 chr6D 100.000 206 0 0 2804 3009 430520290 430520495 6.090000e-102 381.0
35 TraesCS7D01G010800 chr6D 100.000 206 0 0 2804 3009 458057307 458057512 6.090000e-102 381.0
36 TraesCS7D01G010800 chr6D 100.000 206 0 0 2804 3009 458713078 458712873 6.090000e-102 381.0
37 TraesCS7D01G010800 chr6D 92.308 39 2 1 1695 1733 470961817 470961780 2.000000e-03 54.7
38 TraesCS7D01G010800 chr2A 87.560 209 22 4 2147 2354 754661995 754661790 3.880000e-59 239.0
39 TraesCS7D01G010800 chr2A 87.081 209 23 4 2147 2354 754678026 754677821 1.800000e-57 233.0
40 TraesCS7D01G010800 chr2A 93.333 150 8 2 2658 2806 778445373 778445225 1.400000e-53 220.0
41 TraesCS7D01G010800 chr1D 86.321 212 26 3 2150 2359 407008898 407008688 8.390000e-56 228.0
42 TraesCS7D01G010800 chr1A 94.000 150 7 2 2658 2806 586941420 586941568 3.020000e-55 226.0
43 TraesCS7D01G010800 chr1A 93.333 150 8 2 2658 2806 586938743 586938891 1.400000e-53 220.0
44 TraesCS7D01G010800 chr6B 93.878 147 7 2 2658 2803 376334569 376334714 1.400000e-53 220.0
45 TraesCS7D01G010800 chr5A 93.377 151 7 3 2658 2806 680908541 680908690 1.400000e-53 220.0
46 TraesCS7D01G010800 chr5A 91.720 157 9 4 2658 2812 677981766 677981920 6.530000e-52 215.0
47 TraesCS7D01G010800 chr5A 87.349 166 15 6 2660 2822 193945333 193945171 5.120000e-43 185.0
48 TraesCS7D01G010800 chr7B 87.273 55 6 1 1682 1736 57633393 57633340 9.010000e-06 62.1
49 TraesCS7D01G010800 chr4D 85.714 56 8 0 1681 1736 403396623 403396568 3.240000e-05 60.2
50 TraesCS7D01G010800 chr4B 85.714 56 8 0 1681 1736 500254462 500254407 3.240000e-05 60.2
51 TraesCS7D01G010800 chr3A 77.895 95 21 0 1870 1964 649772338 649772244 3.240000e-05 60.2


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 TraesCS7D01G010800 chr7D 5016487 5019495 3008 False 5557.000000 5557 100.000000 1 3009 1 chr7D.!!$F1 3008
1 TraesCS7D01G010800 chr4A 738051852 738054500 2648 False 4017.000000 4017 94.083000 5 2659 1 chr4A.!!$F4 2654
2 TraesCS7D01G010800 chr4A 737867657 737870262 2605 True 3936.000000 3936 93.927000 37 2659 1 chr4A.!!$R2 2622
3 TraesCS7D01G010800 chr4A 738379844 738381021 1177 False 804.000000 804 79.417000 877 2051 1 chr4A.!!$F6 1174
4 TraesCS7D01G010800 chr4A 649121681 649122755 1074 False 715.000000 715 78.928000 910 2001 1 chr4A.!!$F2 1091
5 TraesCS7D01G010800 chr4A 738366436 738367168 732 True 619.000000 619 82.075000 952 1686 1 chr4A.!!$R3 734
6 TraesCS7D01G010800 chr4A 738034463 738035331 868 False 616.000000 616 79.771000 1149 2008 1 chr4A.!!$F3 859
7 TraesCS7D01G010800 chr4A 738080889 738081826 937 False 568.000000 568 78.128000 1128 2051 1 chr4A.!!$F5 923
8 TraesCS7D01G010800 chr7A 6275929 6277895 1966 False 1347.900000 2606 89.993500 89 2046 2 chr7A.!!$F4 1957
9 TraesCS7D01G010800 chr7A 6216487 6218447 1960 False 1334.400000 2579 89.863000 89 2046 2 chr7A.!!$F3 1957
10 TraesCS7D01G010800 chr7A 5362578 5363739 1161 False 1271.000000 1271 86.441000 886 2060 1 chr7A.!!$F1 1174
11 TraesCS7D01G010800 chr7A 5598778 5601326 2548 False 1176.533333 2754 91.487333 89 2659 3 chr7A.!!$F2 2570
12 TraesCS7D01G010800 chr7A 5365956 5367116 1160 True 804.000000 804 79.424000 885 2051 1 chr7A.!!$R2 1166
13 TraesCS7D01G010800 chr7A 4973810 4974420 610 True 523.000000 523 82.172000 947 1561 1 chr7A.!!$R1 614
14 TraesCS7D01G010800 chrUn 334640591 334641269 678 False 865.000000 865 89.665000 1364 2046 1 chrUn.!!$F1 682
15 TraesCS7D01G010800 chrUn 372549435 372550122 687 True 516.000000 516 80.395000 910 1614 1 chrUn.!!$R1 704
16 TraesCS7D01G010800 chr1A 586938743 586941568 2825 False 223.000000 226 93.666500 2658 2806 2 chr1A.!!$F1 148

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
280 334 0.266453 TAATCCCCTCCCATCCACGA 59.734 55.0 0.0 0.0 0.0 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2054 2212 0.320771 AGTCAGATGGCGCGTCTTTT 60.321 50.0 13.81 0.0 0.0 2.27 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
240 294 1.614241 ATACCACGACTCCCAGCCAC 61.614 60.000 0.00 0.00 0.00 5.01
280 334 0.266453 TAATCCCCTCCCATCCACGA 59.734 55.000 0.00 0.00 0.00 4.35
285 339 1.476007 CCCTCCCATCCACGATCTCC 61.476 65.000 0.00 0.00 0.00 3.71
341 398 0.931702 CGTTGTCGCTGTGGTTGTTA 59.068 50.000 0.00 0.00 0.00 2.41
343 400 0.931702 TTGTCGCTGTGGTTGTTACG 59.068 50.000 0.00 0.00 0.00 3.18
352 409 1.666872 GGTTGTTACGCAGGCGAGT 60.667 57.895 21.62 0.87 42.83 4.18
366 423 2.346365 GAGTTGGGACGGGGACAC 59.654 66.667 0.00 0.00 0.00 3.67
505 568 3.542676 ACGACTGGCCGTTCCACA 61.543 61.111 0.00 0.00 40.72 4.17
785 865 9.784531 TCCTGGTATAAATTTCTTCAGATGATC 57.215 33.333 0.00 0.00 0.00 2.92
795 875 4.042884 TCTTCAGATGATCCACCCATCTT 58.957 43.478 0.00 0.00 46.03 2.40
796 876 4.476113 TCTTCAGATGATCCACCCATCTTT 59.524 41.667 0.00 0.00 46.03 2.52
797 877 5.667172 TCTTCAGATGATCCACCCATCTTTA 59.333 40.000 0.00 0.00 46.03 1.85
798 878 5.974156 TCAGATGATCCACCCATCTTTAA 57.026 39.130 0.00 0.00 46.03 1.52
861 946 1.071128 GCCTCTCATAGCTGCAGGG 59.929 63.158 17.12 6.43 0.00 4.45
1093 1181 2.360726 TCCCGACTACGCTGCTGA 60.361 61.111 0.00 0.00 38.29 4.26
1620 1726 7.603651 TGTCTTAACTAGCTTGGTCTTCTAAG 58.396 38.462 0.00 0.00 35.65 2.18
1752 1901 1.538687 AAGTTGGCCAATGGAGCAGC 61.539 55.000 23.66 5.85 0.00 5.25
1753 1902 2.117858 TTGGCCAATGGAGCAGCA 59.882 55.556 16.05 0.00 0.00 4.41
1754 1903 1.980232 TTGGCCAATGGAGCAGCAG 60.980 57.895 16.05 0.00 0.00 4.24
1783 1932 0.041535 TGGCAATTTGGGCTCAGGAT 59.958 50.000 0.00 0.00 0.00 3.24
1863 2012 2.257409 ATCCCTCATCAAGCGCGGTT 62.257 55.000 19.31 19.31 0.00 4.44
1968 2117 3.118454 CAAACGACTCCGCCGCAT 61.118 61.111 0.00 0.00 39.95 4.73
2123 2281 4.699522 GCGTCGCCCTCCTTTGGT 62.700 66.667 5.75 0.00 0.00 3.67
2131 2289 1.752198 CCTCCTTTGGTGACACGGA 59.248 57.895 0.00 0.00 42.67 4.69
2141 2299 3.986006 GACACGGAGGGCGACACA 61.986 66.667 0.00 0.00 0.00 3.72
2154 2312 1.404181 GCGACACACTGAGCATTCCTA 60.404 52.381 0.00 0.00 0.00 2.94
2176 2334 4.845580 CGCCGCCTTGGAGCTCAT 62.846 66.667 17.19 0.00 42.00 2.90
2177 2335 2.439156 GCCGCCTTGGAGCTCATT 60.439 61.111 17.19 0.00 42.00 2.57
2185 2343 2.416747 CTTGGAGCTCATTGTTCGTCA 58.583 47.619 17.19 0.00 0.00 4.35
2199 2357 3.622612 TGTTCGTCATATGTGGCTTCATG 59.377 43.478 1.90 0.00 0.00 3.07
2205 2363 3.455543 TCATATGTGGCTTCATGTCCTCA 59.544 43.478 1.90 1.00 0.00 3.86
2229 2387 1.610554 GGCGTTAGTGCTAGGGGTGA 61.611 60.000 0.00 0.00 34.52 4.02
2304 2462 2.357760 GCCTGCGTTTGTACCGGA 60.358 61.111 9.46 0.00 0.00 5.14
2361 2519 7.330700 CAGTGTGAAAGCCTTTTTCAGTAAAAA 59.669 33.333 2.80 0.00 41.21 1.94
2486 2644 3.244596 GCTTCCTCCCATACTAATGTCCC 60.245 52.174 0.00 0.00 0.00 4.46
2487 2645 2.605257 TCCTCCCATACTAATGTCCCG 58.395 52.381 0.00 0.00 0.00 5.14
2599 2757 2.555757 AGTGCTTGCTCATTTGGAACTC 59.444 45.455 0.00 0.00 0.00 3.01
2604 2762 0.796312 GCTCATTTGGAACTCGCGAA 59.204 50.000 11.33 0.00 0.00 4.70
2678 2836 7.881232 TGTTTCTTGTTAGAATAAATCCGAGGT 59.119 33.333 0.00 0.00 40.01 3.85
2726 5561 0.179059 ATCACACAAGCACGACACCA 60.179 50.000 0.00 0.00 0.00 4.17
2727 5562 0.809636 TCACACAAGCACGACACCAG 60.810 55.000 0.00 0.00 0.00 4.00
2728 5563 0.809636 CACACAAGCACGACACCAGA 60.810 55.000 0.00 0.00 0.00 3.86
2730 5565 1.013596 CACAAGCACGACACCAGAAA 58.986 50.000 0.00 0.00 0.00 2.52
2750 5585 2.600470 TTGTTAACGAGGTTCACCGT 57.400 45.000 0.26 0.00 42.08 4.83
2751 5586 2.138596 TGTTAACGAGGTTCACCGTC 57.861 50.000 0.26 0.00 42.08 4.79
2802 5637 3.391665 CTCCTCCCCATGACACCGC 62.392 68.421 0.00 0.00 0.00 5.68
2806 5641 4.033776 CCCCATGACACCGCCACT 62.034 66.667 0.00 0.00 0.00 4.00
2807 5642 2.665089 CCCCATGACACCGCCACTA 61.665 63.158 0.00 0.00 0.00 2.74
2808 5643 1.153369 CCCATGACACCGCCACTAG 60.153 63.158 0.00 0.00 0.00 2.57
2809 5644 1.596934 CCATGACACCGCCACTAGT 59.403 57.895 0.00 0.00 0.00 2.57
2810 5645 0.821517 CCATGACACCGCCACTAGTA 59.178 55.000 0.00 0.00 0.00 1.82
2811 5646 1.470979 CCATGACACCGCCACTAGTAC 60.471 57.143 0.00 0.00 0.00 2.73
2812 5647 1.203758 CATGACACCGCCACTAGTACA 59.796 52.381 0.00 0.00 0.00 2.90
2813 5648 1.330234 TGACACCGCCACTAGTACAA 58.670 50.000 0.00 0.00 0.00 2.41
2814 5649 1.687660 TGACACCGCCACTAGTACAAA 59.312 47.619 0.00 0.00 0.00 2.83
2815 5650 2.102757 TGACACCGCCACTAGTACAAAA 59.897 45.455 0.00 0.00 0.00 2.44
2816 5651 2.477754 GACACCGCCACTAGTACAAAAC 59.522 50.000 0.00 0.00 0.00 2.43
2817 5652 2.158928 ACACCGCCACTAGTACAAAACA 60.159 45.455 0.00 0.00 0.00 2.83
2818 5653 2.478894 CACCGCCACTAGTACAAAACAG 59.521 50.000 0.00 0.00 0.00 3.16
2819 5654 2.073816 CCGCCACTAGTACAAAACAGG 58.926 52.381 0.00 0.00 0.00 4.00
2820 5655 2.073816 CGCCACTAGTACAAAACAGGG 58.926 52.381 0.00 0.00 0.00 4.45
2821 5656 1.810755 GCCACTAGTACAAAACAGGGC 59.189 52.381 0.00 0.00 0.00 5.19
2822 5657 2.552373 GCCACTAGTACAAAACAGGGCT 60.552 50.000 7.61 0.00 36.04 5.19
2823 5658 3.751518 CCACTAGTACAAAACAGGGCTT 58.248 45.455 0.00 0.00 0.00 4.35
2824 5659 4.142038 CCACTAGTACAAAACAGGGCTTT 58.858 43.478 0.00 0.00 0.00 3.51
2825 5660 4.215613 CCACTAGTACAAAACAGGGCTTTC 59.784 45.833 0.00 0.00 0.00 2.62
2826 5661 4.062991 ACTAGTACAAAACAGGGCTTTCG 58.937 43.478 0.00 0.00 0.00 3.46
2827 5662 2.927028 AGTACAAAACAGGGCTTTCGT 58.073 42.857 0.00 0.00 0.00 3.85
2828 5663 2.876550 AGTACAAAACAGGGCTTTCGTC 59.123 45.455 0.00 0.00 0.00 4.20
2829 5664 1.757682 ACAAAACAGGGCTTTCGTCA 58.242 45.000 0.00 0.00 0.00 4.35
2830 5665 1.404035 ACAAAACAGGGCTTTCGTCAC 59.596 47.619 0.00 0.00 0.00 3.67
2831 5666 1.403679 CAAAACAGGGCTTTCGTCACA 59.596 47.619 0.00 0.00 0.00 3.58
2832 5667 1.308998 AAACAGGGCTTTCGTCACAG 58.691 50.000 0.00 0.00 0.00 3.66
2833 5668 0.535102 AACAGGGCTTTCGTCACAGG 60.535 55.000 0.00 0.00 0.00 4.00
2834 5669 1.672356 CAGGGCTTTCGTCACAGGG 60.672 63.158 0.00 0.00 0.00 4.45
2835 5670 3.056328 GGGCTTTCGTCACAGGGC 61.056 66.667 0.00 0.00 0.00 5.19
2836 5671 2.281484 GGCTTTCGTCACAGGGCA 60.281 61.111 0.00 0.00 0.00 5.36
2837 5672 1.896660 GGCTTTCGTCACAGGGCAA 60.897 57.895 0.00 0.00 0.00 4.52
2838 5673 1.244019 GGCTTTCGTCACAGGGCAAT 61.244 55.000 0.00 0.00 0.00 3.56
2839 5674 1.448985 GCTTTCGTCACAGGGCAATA 58.551 50.000 0.00 0.00 0.00 1.90
2840 5675 2.017049 GCTTTCGTCACAGGGCAATAT 58.983 47.619 0.00 0.00 0.00 1.28
2841 5676 2.423538 GCTTTCGTCACAGGGCAATATT 59.576 45.455 0.00 0.00 0.00 1.28
2842 5677 3.487544 GCTTTCGTCACAGGGCAATATTC 60.488 47.826 0.00 0.00 0.00 1.75
2843 5678 3.342377 TTCGTCACAGGGCAATATTCA 57.658 42.857 0.00 0.00 0.00 2.57
2844 5679 2.627945 TCGTCACAGGGCAATATTCAC 58.372 47.619 0.00 0.00 0.00 3.18
2845 5680 2.027653 TCGTCACAGGGCAATATTCACA 60.028 45.455 0.00 0.00 0.00 3.58
2846 5681 2.945008 CGTCACAGGGCAATATTCACAT 59.055 45.455 0.00 0.00 0.00 3.21
2847 5682 3.378112 CGTCACAGGGCAATATTCACATT 59.622 43.478 0.00 0.00 0.00 2.71
2848 5683 4.574421 CGTCACAGGGCAATATTCACATTA 59.426 41.667 0.00 0.00 0.00 1.90
2849 5684 5.277490 CGTCACAGGGCAATATTCACATTAG 60.277 44.000 0.00 0.00 0.00 1.73
2850 5685 5.590259 GTCACAGGGCAATATTCACATTAGT 59.410 40.000 0.00 0.00 0.00 2.24
2851 5686 5.822519 TCACAGGGCAATATTCACATTAGTC 59.177 40.000 0.00 0.00 0.00 2.59
2852 5687 5.009010 CACAGGGCAATATTCACATTAGTCC 59.991 44.000 0.00 0.00 0.00 3.85
2853 5688 4.520492 CAGGGCAATATTCACATTAGTCCC 59.480 45.833 0.00 0.00 0.00 4.46
2854 5689 3.502211 GGGCAATATTCACATTAGTCCCG 59.498 47.826 0.00 0.00 0.00 5.14
2855 5690 3.502211 GGCAATATTCACATTAGTCCCGG 59.498 47.826 0.00 0.00 0.00 5.73
2856 5691 4.134563 GCAATATTCACATTAGTCCCGGT 58.865 43.478 0.00 0.00 0.00 5.28
2857 5692 4.578928 GCAATATTCACATTAGTCCCGGTT 59.421 41.667 0.00 0.00 0.00 4.44
2858 5693 5.277828 GCAATATTCACATTAGTCCCGGTTC 60.278 44.000 0.00 0.00 0.00 3.62
2859 5694 3.992943 ATTCACATTAGTCCCGGTTCA 57.007 42.857 0.00 0.00 0.00 3.18
2860 5695 3.328382 TTCACATTAGTCCCGGTTCAG 57.672 47.619 0.00 0.00 0.00 3.02
2861 5696 2.253610 TCACATTAGTCCCGGTTCAGT 58.746 47.619 0.00 0.00 0.00 3.41
2862 5697 2.232941 TCACATTAGTCCCGGTTCAGTC 59.767 50.000 0.00 0.00 0.00 3.51
2863 5698 2.028476 CACATTAGTCCCGGTTCAGTCA 60.028 50.000 0.00 0.00 0.00 3.41
2864 5699 2.028385 ACATTAGTCCCGGTTCAGTCAC 60.028 50.000 0.00 0.00 0.00 3.67
2865 5700 0.599558 TTAGTCCCGGTTCAGTCACG 59.400 55.000 0.00 0.00 0.00 4.35
2866 5701 0.250858 TAGTCCCGGTTCAGTCACGA 60.251 55.000 0.00 0.00 0.00 4.35
2867 5702 1.111116 AGTCCCGGTTCAGTCACGAA 61.111 55.000 0.00 0.00 0.00 3.85
2868 5703 0.942884 GTCCCGGTTCAGTCACGAAC 60.943 60.000 0.00 4.51 43.75 3.95
2872 5707 3.946907 GTTCAGTCACGAACCGGG 58.053 61.111 6.32 0.00 39.52 5.73
2873 5708 1.364901 GTTCAGTCACGAACCGGGA 59.635 57.895 6.32 0.00 39.52 5.14
2880 5715 1.259609 TCACGAACCGGGACTAATGT 58.740 50.000 6.32 0.00 32.99 2.71
2881 5716 1.067425 TCACGAACCGGGACTAATGTG 60.067 52.381 6.32 4.66 32.99 3.21
2882 5717 1.067425 CACGAACCGGGACTAATGTGA 60.067 52.381 6.32 0.00 28.17 3.58
2883 5718 1.203994 ACGAACCGGGACTAATGTGAG 59.796 52.381 6.32 0.00 0.00 3.51
2884 5719 1.653151 GAACCGGGACTAATGTGAGC 58.347 55.000 6.32 0.00 0.00 4.26
2885 5720 0.981183 AACCGGGACTAATGTGAGCA 59.019 50.000 6.32 0.00 0.00 4.26
2886 5721 1.204146 ACCGGGACTAATGTGAGCAT 58.796 50.000 6.32 0.00 36.80 3.79
2887 5722 1.559682 ACCGGGACTAATGTGAGCATT 59.440 47.619 6.32 0.00 46.14 3.56
2888 5723 1.942657 CCGGGACTAATGTGAGCATTG 59.057 52.381 0.00 0.00 44.32 2.82
2889 5724 1.942657 CGGGACTAATGTGAGCATTGG 59.057 52.381 3.39 3.10 44.32 3.16
2894 5729 1.942657 CTAATGTGAGCATTGGTCCCG 59.057 52.381 12.99 0.00 44.32 5.14
2895 5730 0.680921 AATGTGAGCATTGGTCCCGG 60.681 55.000 12.99 0.00 43.12 5.73
2896 5731 1.852157 ATGTGAGCATTGGTCCCGGT 61.852 55.000 12.99 0.00 29.54 5.28
2897 5732 1.303317 GTGAGCATTGGTCCCGGTT 60.303 57.895 12.99 0.00 0.00 4.44
2898 5733 1.002624 TGAGCATTGGTCCCGGTTC 60.003 57.895 12.99 0.00 0.00 3.62
2899 5734 2.046314 AGCATTGGTCCCGGTTCG 60.046 61.111 0.00 0.00 0.00 3.95
2900 5735 2.359478 GCATTGGTCCCGGTTCGT 60.359 61.111 0.00 0.00 0.00 3.85
2901 5736 2.686816 GCATTGGTCCCGGTTCGTG 61.687 63.158 0.00 0.00 0.00 4.35
2902 5737 2.359478 ATTGGTCCCGGTTCGTGC 60.359 61.111 0.00 0.00 0.00 5.34
2903 5738 4.973055 TTGGTCCCGGTTCGTGCG 62.973 66.667 0.00 0.00 0.00 5.34
2908 5743 4.745751 CCCGGTTCGTGCGGCTAA 62.746 66.667 0.00 0.00 0.00 3.09
2909 5744 3.186047 CCGGTTCGTGCGGCTAAG 61.186 66.667 0.00 0.00 0.00 2.18
2910 5745 3.186047 CGGTTCGTGCGGCTAAGG 61.186 66.667 0.00 0.00 0.00 2.69
2911 5746 3.497031 GGTTCGTGCGGCTAAGGC 61.497 66.667 0.00 0.00 37.82 4.35
2912 5747 2.740826 GTTCGTGCGGCTAAGGCA 60.741 61.111 0.00 0.00 40.87 4.75
2913 5748 2.106683 GTTCGTGCGGCTAAGGCAT 61.107 57.895 0.00 0.00 43.19 4.40
2914 5749 1.376683 TTCGTGCGGCTAAGGCATT 60.377 52.632 0.00 0.00 43.19 3.56
2915 5750 0.108089 TTCGTGCGGCTAAGGCATTA 60.108 50.000 0.00 0.00 43.19 1.90
2916 5751 0.529773 TCGTGCGGCTAAGGCATTAG 60.530 55.000 13.70 13.70 43.19 1.73
2917 5752 0.810031 CGTGCGGCTAAGGCATTAGT 60.810 55.000 18.55 0.00 43.19 2.24
2918 5753 0.938008 GTGCGGCTAAGGCATTAGTC 59.062 55.000 18.55 15.72 43.19 2.59
2919 5754 0.179056 TGCGGCTAAGGCATTAGTCC 60.179 55.000 16.40 16.54 39.96 3.85
2920 5755 0.885150 GCGGCTAAGGCATTAGTCCC 60.885 60.000 16.40 10.33 39.96 4.46
2921 5756 0.600255 CGGCTAAGGCATTAGTCCCG 60.600 60.000 16.40 17.46 39.96 5.14
2922 5757 0.250338 GGCTAAGGCATTAGTCCCGG 60.250 60.000 18.55 0.00 40.55 5.73
2923 5758 0.468648 GCTAAGGCATTAGTCCCGGT 59.531 55.000 18.55 0.00 40.55 5.28
2924 5759 1.134189 GCTAAGGCATTAGTCCCGGTT 60.134 52.381 18.55 0.00 40.55 4.44
2925 5760 2.835027 CTAAGGCATTAGTCCCGGTTC 58.165 52.381 9.96 0.00 34.77 3.62
2926 5761 0.988832 AAGGCATTAGTCCCGGTTCA 59.011 50.000 0.00 0.00 0.00 3.18
2927 5762 0.252197 AGGCATTAGTCCCGGTTCAC 59.748 55.000 0.00 0.00 0.00 3.18
2928 5763 0.746923 GGCATTAGTCCCGGTTCACC 60.747 60.000 0.00 0.00 0.00 4.02
2929 5764 0.252197 GCATTAGTCCCGGTTCACCT 59.748 55.000 0.00 0.00 0.00 4.00
2930 5765 2.012051 GCATTAGTCCCGGTTCACCTG 61.012 57.143 0.00 0.00 0.00 4.00
2931 5766 0.909623 ATTAGTCCCGGTTCACCTGG 59.090 55.000 0.00 0.00 41.25 4.45
2932 5767 1.196104 TTAGTCCCGGTTCACCTGGG 61.196 60.000 15.89 15.89 45.27 4.45
2933 5768 4.717313 GTCCCGGTTCACCTGGGC 62.717 72.222 16.78 7.94 44.29 5.36
2937 5772 3.966543 CGGTTCACCTGGGCCCTT 61.967 66.667 25.70 3.96 0.00 3.95
2938 5773 2.526110 GGTTCACCTGGGCCCTTT 59.474 61.111 25.70 3.52 0.00 3.11
2939 5774 1.771646 GGTTCACCTGGGCCCTTTA 59.228 57.895 25.70 0.48 0.00 1.85
2940 5775 0.323451 GGTTCACCTGGGCCCTTTAG 60.323 60.000 25.70 12.48 0.00 1.85
2941 5776 0.404426 GTTCACCTGGGCCCTTTAGT 59.596 55.000 25.70 12.09 0.00 2.24
2942 5777 0.696501 TTCACCTGGGCCCTTTAGTC 59.303 55.000 25.70 0.00 0.00 2.59
2943 5778 1.205460 TCACCTGGGCCCTTTAGTCC 61.205 60.000 25.70 0.00 0.00 3.85
2944 5779 1.929088 ACCTGGGCCCTTTAGTCCC 60.929 63.158 25.70 0.00 40.47 4.46
2945 5780 2.590092 CTGGGCCCTTTAGTCCCG 59.410 66.667 25.70 0.00 42.98 5.14
2946 5781 3.012722 TGGGCCCTTTAGTCCCGG 61.013 66.667 25.70 0.00 42.98 5.73
2947 5782 3.013327 GGGCCCTTTAGTCCCGGT 61.013 66.667 17.04 0.00 0.00 5.28
2948 5783 2.609534 GGGCCCTTTAGTCCCGGTT 61.610 63.158 17.04 0.00 0.00 4.44
2949 5784 1.378119 GGCCCTTTAGTCCCGGTTG 60.378 63.158 0.00 0.00 0.00 3.77
2950 5785 1.378119 GCCCTTTAGTCCCGGTTGG 60.378 63.158 0.00 0.00 0.00 3.77
2951 5786 2.072366 CCCTTTAGTCCCGGTTGGT 58.928 57.895 0.00 0.00 34.77 3.67
2952 5787 0.322187 CCCTTTAGTCCCGGTTGGTG 60.322 60.000 0.00 0.00 34.77 4.17
2953 5788 0.958876 CCTTTAGTCCCGGTTGGTGC 60.959 60.000 0.00 0.00 34.77 5.01
2954 5789 0.958876 CTTTAGTCCCGGTTGGTGCC 60.959 60.000 0.00 0.00 34.77 5.01
2955 5790 1.706995 TTTAGTCCCGGTTGGTGCCA 61.707 55.000 0.00 0.00 34.77 4.92
2956 5791 2.400269 TTAGTCCCGGTTGGTGCCAC 62.400 60.000 0.00 0.00 34.77 5.01
2959 5794 4.939368 CCCGGTTGGTGCCACGAA 62.939 66.667 0.00 0.00 0.00 3.85
2960 5795 3.656045 CCGGTTGGTGCCACGAAC 61.656 66.667 13.59 13.59 36.30 3.95
2962 5797 3.656045 GGTTGGTGCCACGAACCG 61.656 66.667 23.24 0.00 44.79 4.44
2963 5798 3.656045 GTTGGTGCCACGAACCGG 61.656 66.667 11.21 0.00 40.86 5.28
2964 5799 4.939368 TTGGTGCCACGAACCGGG 62.939 66.667 6.32 0.00 40.86 5.73
2967 5802 4.309950 GTGCCACGAACCGGGACT 62.310 66.667 6.32 0.00 41.35 3.85
2968 5803 2.601067 TGCCACGAACCGGGACTA 60.601 61.111 6.32 0.00 28.17 2.59
2969 5804 2.208619 TGCCACGAACCGGGACTAA 61.209 57.895 6.32 0.00 28.17 2.24
2970 5805 1.004679 GCCACGAACCGGGACTAAA 60.005 57.895 6.32 0.00 28.17 1.85
2971 5806 1.017701 GCCACGAACCGGGACTAAAG 61.018 60.000 6.32 0.00 28.17 1.85
2972 5807 0.390735 CCACGAACCGGGACTAAAGG 60.391 60.000 6.32 0.00 28.17 3.11
2973 5808 0.390735 CACGAACCGGGACTAAAGGG 60.391 60.000 6.32 0.00 28.17 3.95
2974 5809 0.833409 ACGAACCGGGACTAAAGGGT 60.833 55.000 6.32 0.00 0.00 4.34
2975 5810 0.390735 CGAACCGGGACTAAAGGGTG 60.391 60.000 6.32 0.00 31.96 4.61
2976 5811 0.675837 GAACCGGGACTAAAGGGTGC 60.676 60.000 6.32 0.00 31.96 5.01
2977 5812 2.125269 CCGGGACTAAAGGGTGCG 60.125 66.667 0.00 0.00 0.00 5.34
2978 5813 2.652095 CCGGGACTAAAGGGTGCGA 61.652 63.158 0.00 0.00 0.00 5.10
2979 5814 1.520666 CGGGACTAAAGGGTGCGAT 59.479 57.895 0.00 0.00 0.00 4.58
2980 5815 0.810031 CGGGACTAAAGGGTGCGATG 60.810 60.000 0.00 0.00 0.00 3.84
2981 5816 1.095807 GGGACTAAAGGGTGCGATGC 61.096 60.000 0.00 0.00 0.00 3.91
2982 5817 1.095807 GGACTAAAGGGTGCGATGCC 61.096 60.000 0.00 0.00 0.00 4.40
2983 5818 1.077716 ACTAAAGGGTGCGATGCCC 60.078 57.895 1.67 1.67 46.43 5.36
2988 5823 3.749981 GGGTGCGATGCCCATTAG 58.250 61.111 4.76 0.00 45.40 1.73
2989 5824 1.152963 GGGTGCGATGCCCATTAGT 60.153 57.895 4.76 0.00 45.40 2.24
2990 5825 0.107831 GGGTGCGATGCCCATTAGTA 59.892 55.000 4.76 0.00 45.40 1.82
2991 5826 1.226746 GGTGCGATGCCCATTAGTAC 58.773 55.000 0.00 0.00 0.00 2.73
2992 5827 1.226746 GTGCGATGCCCATTAGTACC 58.773 55.000 0.00 0.00 0.00 3.34
2993 5828 0.249699 TGCGATGCCCATTAGTACCG 60.250 55.000 0.00 0.00 0.00 4.02
2994 5829 0.949105 GCGATGCCCATTAGTACCGG 60.949 60.000 0.00 0.00 0.00 5.28
2995 5830 0.391597 CGATGCCCATTAGTACCGGT 59.608 55.000 13.98 13.98 0.00 5.28
2996 5831 1.202604 CGATGCCCATTAGTACCGGTT 60.203 52.381 15.04 0.00 0.00 4.44
2997 5832 2.218603 GATGCCCATTAGTACCGGTTG 58.781 52.381 15.04 3.82 0.00 3.77
2998 5833 0.253610 TGCCCATTAGTACCGGTTGG 59.746 55.000 15.04 14.60 42.84 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 0.330604 AGGAGGACGTAGCAGTACCA 59.669 55.000 0.00 0.00 0.00 3.25
240 294 1.597461 GTGGGGGAGAAGAAGACCG 59.403 63.158 0.00 0.00 0.00 4.79
280 334 2.311688 GATCCACAACGCCGGGAGAT 62.312 60.000 2.18 0.00 33.47 2.75
310 364 1.683790 CGACAACGAACGCCTCCATC 61.684 60.000 0.00 0.00 42.66 3.51
341 398 4.681978 GTCCCAACTCGCCTGCGT 62.682 66.667 11.68 0.00 40.74 5.24
352 409 1.611261 CCTAGTGTCCCCGTCCCAA 60.611 63.158 0.00 0.00 0.00 4.12
366 423 3.528370 CCTCCCACGACGGCCTAG 61.528 72.222 0.00 0.00 0.00 3.02
785 865 4.690280 GCACAACAAATTAAAGATGGGTGG 59.310 41.667 0.00 0.00 0.00 4.61
794 874 3.827008 TGGCAGGCACAACAAATTAAA 57.173 38.095 0.00 0.00 0.00 1.52
795 875 3.827008 TTGGCAGGCACAACAAATTAA 57.173 38.095 0.00 0.00 0.00 1.40
796 876 3.133721 AGTTTGGCAGGCACAACAAATTA 59.866 39.130 17.95 0.00 35.56 1.40
797 877 2.093021 AGTTTGGCAGGCACAACAAATT 60.093 40.909 17.95 4.86 35.56 1.82
798 878 1.485895 AGTTTGGCAGGCACAACAAAT 59.514 42.857 17.95 0.41 35.56 2.32
861 946 1.961277 CAGCGACAAGGGTGGTCAC 60.961 63.158 0.00 0.00 34.97 3.67
1093 1181 5.279156 GGTTTGCATTCTGGAACTTCTTGAT 60.279 40.000 0.00 0.00 0.00 2.57
1351 1439 4.453892 GCAGAGCCCTTGGGCCAT 62.454 66.667 25.53 12.75 35.12 4.40
1752 1901 4.202182 CCCAAATTGCCAATAGACCATCTG 60.202 45.833 0.00 0.00 0.00 2.90
1753 1902 3.962718 CCCAAATTGCCAATAGACCATCT 59.037 43.478 0.00 0.00 0.00 2.90
1754 1903 3.493176 GCCCAAATTGCCAATAGACCATC 60.493 47.826 0.00 0.00 0.00 3.51
1783 1932 5.402997 TTGCCATCAATTCATTGCAGTTA 57.597 34.783 0.00 0.00 37.68 2.24
1863 2012 2.811514 GCCGCCATCTCCTCCATGA 61.812 63.158 0.00 0.00 0.00 3.07
2053 2211 1.067142 AGTCAGATGGCGCGTCTTTTA 60.067 47.619 13.81 0.00 0.00 1.52
2054 2212 0.320771 AGTCAGATGGCGCGTCTTTT 60.321 50.000 13.81 0.00 0.00 2.27
2081 2239 3.837578 GGATCGTGCTCGACCCTA 58.162 61.111 14.42 0.00 45.68 3.53
2108 2266 1.671379 GTCACCAAAGGAGGGCGAC 60.671 63.158 0.00 0.00 0.00 5.19
2119 2277 4.308458 CGCCCTCCGTGTCACCAA 62.308 66.667 0.00 0.00 0.00 3.67
2123 2281 3.986006 GTGTCGCCCTCCGTGTCA 61.986 66.667 0.00 0.00 38.35 3.58
2131 2289 2.116983 AATGCTCAGTGTGTCGCCCT 62.117 55.000 0.00 0.00 0.00 5.19
2141 2299 2.014068 GCGCCTTTAGGAATGCTCAGT 61.014 52.381 0.00 0.00 37.39 3.41
2173 2331 3.872696 AGCCACATATGACGAACAATGA 58.127 40.909 10.38 0.00 0.00 2.57
2176 2334 3.669536 TGAAGCCACATATGACGAACAA 58.330 40.909 10.38 0.00 0.00 2.83
2177 2335 3.326836 TGAAGCCACATATGACGAACA 57.673 42.857 10.38 0.00 0.00 3.18
2185 2343 3.742327 CGTGAGGACATGAAGCCACATAT 60.742 47.826 0.00 0.00 35.25 1.78
2247 2405 2.705658 CACCCAAGGCAGGATACATAGA 59.294 50.000 0.00 0.00 41.41 1.98
2289 2447 1.153353 ACAATCCGGTACAAACGCAG 58.847 50.000 0.00 0.00 0.00 5.18
2336 2494 6.524101 TTTACTGAAAAAGGCTTTCACACT 57.476 33.333 13.76 7.99 34.96 3.55
2365 2523 8.374184 AGGCCCTTGCTTATTCTTAATTTTAA 57.626 30.769 0.00 0.00 37.74 1.52
2371 2529 4.278310 GGAAGGCCCTTGCTTATTCTTAA 58.722 43.478 7.88 0.00 37.74 1.85
2486 2644 4.259135 CGTACACGGATAAAAGCAAGTACG 60.259 45.833 0.00 0.00 44.56 3.67
2487 2645 4.622740 ACGTACACGGATAAAAGCAAGTAC 59.377 41.667 6.72 0.00 44.95 2.73
2693 2851 0.684535 TGTGATTGCTTGGTCCTCGA 59.315 50.000 0.00 0.00 0.00 4.04
2726 5561 4.212636 CGGTGAACCTCGTTAACAATTTCT 59.787 41.667 6.39 0.00 28.88 2.52
2727 5562 4.024641 ACGGTGAACCTCGTTAACAATTTC 60.025 41.667 6.39 3.29 36.04 2.17
2728 5563 3.878699 ACGGTGAACCTCGTTAACAATTT 59.121 39.130 6.39 0.00 36.04 1.82
2730 5565 3.062042 GACGGTGAACCTCGTTAACAAT 58.938 45.455 6.39 0.00 39.88 2.71
2750 5585 2.146724 CCCGGGGATGTAGCCATGA 61.147 63.158 14.71 0.00 0.00 3.07
2751 5586 2.431683 CCCGGGGATGTAGCCATG 59.568 66.667 14.71 0.00 0.00 3.66
2802 5637 3.418684 AGCCCTGTTTTGTACTAGTGG 57.581 47.619 5.39 0.00 0.00 4.00
2806 5641 4.060205 GACGAAAGCCCTGTTTTGTACTA 58.940 43.478 0.00 0.00 34.69 1.82
2807 5642 2.876550 GACGAAAGCCCTGTTTTGTACT 59.123 45.455 0.00 0.00 34.69 2.73
2808 5643 2.614983 TGACGAAAGCCCTGTTTTGTAC 59.385 45.455 0.00 0.00 34.69 2.90
2809 5644 2.614983 GTGACGAAAGCCCTGTTTTGTA 59.385 45.455 0.00 0.00 34.69 2.41
2810 5645 1.404035 GTGACGAAAGCCCTGTTTTGT 59.596 47.619 0.00 0.00 36.84 2.83
2811 5646 1.403679 TGTGACGAAAGCCCTGTTTTG 59.596 47.619 0.00 0.00 0.00 2.44
2812 5647 1.676006 CTGTGACGAAAGCCCTGTTTT 59.324 47.619 0.00 0.00 0.00 2.43
2813 5648 1.308998 CTGTGACGAAAGCCCTGTTT 58.691 50.000 0.00 0.00 0.00 2.83
2814 5649 0.535102 CCTGTGACGAAAGCCCTGTT 60.535 55.000 0.00 0.00 0.00 3.16
2815 5650 1.071471 CCTGTGACGAAAGCCCTGT 59.929 57.895 0.00 0.00 0.00 4.00
2816 5651 1.672356 CCCTGTGACGAAAGCCCTG 60.672 63.158 0.00 0.00 0.00 4.45
2817 5652 2.750350 CCCTGTGACGAAAGCCCT 59.250 61.111 0.00 0.00 0.00 5.19
2818 5653 3.056328 GCCCTGTGACGAAAGCCC 61.056 66.667 0.00 0.00 0.00 5.19
2819 5654 1.244019 ATTGCCCTGTGACGAAAGCC 61.244 55.000 0.00 0.00 0.00 4.35
2820 5655 1.448985 TATTGCCCTGTGACGAAAGC 58.551 50.000 0.00 0.00 0.00 3.51
2821 5656 3.689161 TGAATATTGCCCTGTGACGAAAG 59.311 43.478 0.00 0.00 0.00 2.62
2822 5657 3.438781 GTGAATATTGCCCTGTGACGAAA 59.561 43.478 0.00 0.00 0.00 3.46
2823 5658 3.006940 GTGAATATTGCCCTGTGACGAA 58.993 45.455 0.00 0.00 0.00 3.85
2824 5659 2.027653 TGTGAATATTGCCCTGTGACGA 60.028 45.455 0.00 0.00 0.00 4.20
2825 5660 2.355197 TGTGAATATTGCCCTGTGACG 58.645 47.619 0.00 0.00 0.00 4.35
2826 5661 4.989279 AATGTGAATATTGCCCTGTGAC 57.011 40.909 0.00 0.00 0.00 3.67
2827 5662 5.754782 ACTAATGTGAATATTGCCCTGTGA 58.245 37.500 0.00 0.00 0.00 3.58
2828 5663 5.009010 GGACTAATGTGAATATTGCCCTGTG 59.991 44.000 0.00 0.00 0.00 3.66
2829 5664 5.133221 GGACTAATGTGAATATTGCCCTGT 58.867 41.667 0.00 0.00 0.00 4.00
2830 5665 4.520492 GGGACTAATGTGAATATTGCCCTG 59.480 45.833 0.00 0.00 30.77 4.45
2831 5666 4.729868 GGGACTAATGTGAATATTGCCCT 58.270 43.478 0.00 0.00 30.77 5.19
2832 5667 3.502211 CGGGACTAATGTGAATATTGCCC 59.498 47.826 0.00 0.00 0.00 5.36
2833 5668 3.502211 CCGGGACTAATGTGAATATTGCC 59.498 47.826 0.00 0.00 0.00 4.52
2834 5669 4.134563 ACCGGGACTAATGTGAATATTGC 58.865 43.478 6.32 0.00 0.00 3.56
2835 5670 5.820423 TGAACCGGGACTAATGTGAATATTG 59.180 40.000 6.32 0.00 0.00 1.90
2836 5671 5.996644 TGAACCGGGACTAATGTGAATATT 58.003 37.500 6.32 0.00 0.00 1.28
2837 5672 5.130477 ACTGAACCGGGACTAATGTGAATAT 59.870 40.000 6.32 0.00 0.00 1.28
2838 5673 4.468510 ACTGAACCGGGACTAATGTGAATA 59.531 41.667 6.32 0.00 0.00 1.75
2839 5674 3.263425 ACTGAACCGGGACTAATGTGAAT 59.737 43.478 6.32 0.00 0.00 2.57
2840 5675 2.635915 ACTGAACCGGGACTAATGTGAA 59.364 45.455 6.32 0.00 0.00 3.18
2841 5676 2.232941 GACTGAACCGGGACTAATGTGA 59.767 50.000 6.32 0.00 0.00 3.58
2842 5677 2.028476 TGACTGAACCGGGACTAATGTG 60.028 50.000 6.32 0.00 0.00 3.21
2843 5678 2.028385 GTGACTGAACCGGGACTAATGT 60.028 50.000 6.32 0.00 0.00 2.71
2844 5679 2.618053 GTGACTGAACCGGGACTAATG 58.382 52.381 6.32 0.00 0.00 1.90
2845 5680 1.203994 CGTGACTGAACCGGGACTAAT 59.796 52.381 6.32 0.00 0.00 1.73
2846 5681 0.599558 CGTGACTGAACCGGGACTAA 59.400 55.000 6.32 0.00 0.00 2.24
2847 5682 0.250858 TCGTGACTGAACCGGGACTA 60.251 55.000 6.32 0.00 0.00 2.59
2848 5683 1.111116 TTCGTGACTGAACCGGGACT 61.111 55.000 6.32 0.00 0.00 3.85
2849 5684 0.942884 GTTCGTGACTGAACCGGGAC 60.943 60.000 6.32 0.00 41.88 4.46
2850 5685 1.364901 GTTCGTGACTGAACCGGGA 59.635 57.895 6.32 0.00 41.88 5.14
2851 5686 3.946907 GTTCGTGACTGAACCGGG 58.053 61.111 6.32 0.00 41.88 5.73
2855 5690 0.942884 GTCCCGGTTCGTGACTGAAC 60.943 60.000 0.00 10.38 45.91 3.18
2856 5691 1.111116 AGTCCCGGTTCGTGACTGAA 61.111 55.000 9.22 0.00 42.28 3.02
2857 5692 0.250858 TAGTCCCGGTTCGTGACTGA 60.251 55.000 17.52 2.93 43.49 3.41
2858 5693 0.599558 TTAGTCCCGGTTCGTGACTG 59.400 55.000 17.52 0.00 43.49 3.51
2859 5694 1.203994 CATTAGTCCCGGTTCGTGACT 59.796 52.381 13.76 13.76 45.32 3.41
2860 5695 1.067354 ACATTAGTCCCGGTTCGTGAC 60.067 52.381 0.00 0.00 34.71 3.67
2861 5696 1.067425 CACATTAGTCCCGGTTCGTGA 60.067 52.381 0.00 0.00 0.00 4.35
2862 5697 1.067425 TCACATTAGTCCCGGTTCGTG 60.067 52.381 0.00 0.00 0.00 4.35
2863 5698 1.203994 CTCACATTAGTCCCGGTTCGT 59.796 52.381 0.00 0.00 0.00 3.85
2864 5699 1.922570 CTCACATTAGTCCCGGTTCG 58.077 55.000 0.00 0.00 0.00 3.95
2865 5700 1.066430 TGCTCACATTAGTCCCGGTTC 60.066 52.381 0.00 0.00 0.00 3.62
2866 5701 0.981183 TGCTCACATTAGTCCCGGTT 59.019 50.000 0.00 0.00 0.00 4.44
2867 5702 1.204146 ATGCTCACATTAGTCCCGGT 58.796 50.000 0.00 0.00 30.07 5.28
2868 5703 1.942657 CAATGCTCACATTAGTCCCGG 59.057 52.381 0.00 0.00 44.83 5.73
2869 5704 1.942657 CCAATGCTCACATTAGTCCCG 59.057 52.381 0.00 0.00 44.83 5.14
2870 5705 2.945668 GACCAATGCTCACATTAGTCCC 59.054 50.000 6.20 0.00 44.37 4.46
2873 5708 2.680805 CGGGACCAATGCTCACATTAGT 60.681 50.000 0.00 0.00 44.83 2.24
2874 5709 1.942657 CGGGACCAATGCTCACATTAG 59.057 52.381 0.00 0.00 44.83 1.73
2875 5710 1.408127 CCGGGACCAATGCTCACATTA 60.408 52.381 0.00 0.00 44.83 1.90
2877 5712 1.077501 CCGGGACCAATGCTCACAT 60.078 57.895 0.00 0.00 38.49 3.21
2878 5713 2.063015 AACCGGGACCAATGCTCACA 62.063 55.000 6.32 0.00 0.00 3.58
2879 5714 1.303317 AACCGGGACCAATGCTCAC 60.303 57.895 6.32 0.00 0.00 3.51
2880 5715 1.002624 GAACCGGGACCAATGCTCA 60.003 57.895 6.32 0.00 0.00 4.26
2881 5716 2.106683 CGAACCGGGACCAATGCTC 61.107 63.158 6.32 0.00 0.00 4.26
2882 5717 2.046314 CGAACCGGGACCAATGCT 60.046 61.111 6.32 0.00 0.00 3.79
2883 5718 2.359478 ACGAACCGGGACCAATGC 60.359 61.111 6.32 0.00 0.00 3.56
2884 5719 2.686816 GCACGAACCGGGACCAATG 61.687 63.158 6.32 0.00 28.17 2.82
2885 5720 2.359478 GCACGAACCGGGACCAAT 60.359 61.111 6.32 0.00 28.17 3.16
2886 5721 4.973055 CGCACGAACCGGGACCAA 62.973 66.667 6.32 0.00 28.17 3.67
2891 5726 4.745751 TTAGCCGCACGAACCGGG 62.746 66.667 6.32 0.00 45.66 5.73
2893 5728 3.186047 CCTTAGCCGCACGAACCG 61.186 66.667 0.00 0.00 0.00 4.44
2894 5729 3.497031 GCCTTAGCCGCACGAACC 61.497 66.667 0.00 0.00 0.00 3.62
2895 5730 1.644786 AATGCCTTAGCCGCACGAAC 61.645 55.000 0.00 0.00 39.49 3.95
2896 5731 0.108089 TAATGCCTTAGCCGCACGAA 60.108 50.000 0.00 0.00 39.49 3.85
2897 5732 0.529773 CTAATGCCTTAGCCGCACGA 60.530 55.000 0.00 0.00 39.49 4.35
2898 5733 0.810031 ACTAATGCCTTAGCCGCACG 60.810 55.000 8.50 0.00 39.49 5.34
2899 5734 0.938008 GACTAATGCCTTAGCCGCAC 59.062 55.000 8.50 0.00 39.49 5.34
2900 5735 0.179056 GGACTAATGCCTTAGCCGCA 60.179 55.000 8.50 0.00 38.33 5.69
2901 5736 0.885150 GGGACTAATGCCTTAGCCGC 60.885 60.000 8.50 2.93 38.33 6.53
2902 5737 0.600255 CGGGACTAATGCCTTAGCCG 60.600 60.000 8.50 10.12 38.33 5.52
2903 5738 0.250338 CCGGGACTAATGCCTTAGCC 60.250 60.000 8.50 10.09 38.33 3.93
2904 5739 0.468648 ACCGGGACTAATGCCTTAGC 59.531 55.000 6.32 2.56 38.33 3.09
2905 5740 2.169769 TGAACCGGGACTAATGCCTTAG 59.830 50.000 6.32 7.17 40.25 2.18
2906 5741 2.093341 GTGAACCGGGACTAATGCCTTA 60.093 50.000 6.32 0.00 33.05 2.69
2907 5742 0.988832 TGAACCGGGACTAATGCCTT 59.011 50.000 6.32 0.00 33.05 4.35
2908 5743 0.252197 GTGAACCGGGACTAATGCCT 59.748 55.000 6.32 0.00 33.05 4.75
2909 5744 0.746923 GGTGAACCGGGACTAATGCC 60.747 60.000 6.32 0.00 0.00 4.40
2910 5745 0.252197 AGGTGAACCGGGACTAATGC 59.748 55.000 6.32 0.00 42.08 3.56
2911 5746 2.024176 CAGGTGAACCGGGACTAATG 57.976 55.000 6.32 0.00 42.08 1.90
2920 5755 2.132089 TAAAGGGCCCAGGTGAACCG 62.132 60.000 27.56 0.00 42.08 4.44
2921 5756 0.323451 CTAAAGGGCCCAGGTGAACC 60.323 60.000 27.56 0.00 0.00 3.62
2922 5757 0.404426 ACTAAAGGGCCCAGGTGAAC 59.596 55.000 27.56 0.00 0.00 3.18
2923 5758 0.696501 GACTAAAGGGCCCAGGTGAA 59.303 55.000 27.56 1.43 0.00 3.18
2924 5759 1.205460 GGACTAAAGGGCCCAGGTGA 61.205 60.000 27.56 0.00 37.05 4.02
2925 5760 1.303282 GGACTAAAGGGCCCAGGTG 59.697 63.158 27.56 13.92 37.05 4.00
2926 5761 3.836617 GGACTAAAGGGCCCAGGT 58.163 61.111 27.56 16.46 37.05 4.00
2931 5766 1.378119 CAACCGGGACTAAAGGGCC 60.378 63.158 6.32 0.00 44.23 5.80
2932 5767 1.378119 CCAACCGGGACTAAAGGGC 60.378 63.158 6.32 0.00 40.01 5.19
2933 5768 0.322187 CACCAACCGGGACTAAAGGG 60.322 60.000 6.32 0.00 41.15 3.95
2934 5769 0.958876 GCACCAACCGGGACTAAAGG 60.959 60.000 6.32 0.00 41.15 3.11
2935 5770 0.958876 GGCACCAACCGGGACTAAAG 60.959 60.000 6.32 0.00 41.15 1.85
2936 5771 1.073548 GGCACCAACCGGGACTAAA 59.926 57.895 6.32 0.00 41.15 1.85
2937 5772 2.148052 TGGCACCAACCGGGACTAA 61.148 57.895 6.32 0.00 41.15 2.24
2938 5773 2.527123 TGGCACCAACCGGGACTA 60.527 61.111 6.32 0.00 41.15 2.59
2939 5774 4.265056 GTGGCACCAACCGGGACT 62.265 66.667 6.32 0.00 41.15 3.85
2942 5777 4.939368 TTCGTGGCACCAACCGGG 62.939 66.667 12.86 0.00 44.81 5.73
2943 5778 3.656045 GTTCGTGGCACCAACCGG 61.656 66.667 16.03 0.00 38.77 5.28
2944 5779 3.656045 GGTTCGTGGCACCAACCG 61.656 66.667 27.29 9.64 34.04 4.44
2945 5780 3.656045 CGGTTCGTGGCACCAACC 61.656 66.667 30.06 30.06 36.91 3.77
2946 5781 3.656045 CCGGTTCGTGGCACCAAC 61.656 66.667 18.22 18.22 33.36 3.77
2947 5782 4.939368 CCCGGTTCGTGGCACCAA 62.939 66.667 12.86 1.99 33.36 3.67
2950 5785 2.438951 TTAGTCCCGGTTCGTGGCAC 62.439 60.000 7.79 7.79 0.00 5.01
2951 5786 1.756408 TTTAGTCCCGGTTCGTGGCA 61.756 55.000 0.00 0.00 0.00 4.92
2952 5787 1.004679 TTTAGTCCCGGTTCGTGGC 60.005 57.895 0.00 0.00 0.00 5.01
2953 5788 0.390735 CCTTTAGTCCCGGTTCGTGG 60.391 60.000 0.00 0.00 0.00 4.94
2954 5789 0.390735 CCCTTTAGTCCCGGTTCGTG 60.391 60.000 0.00 0.00 0.00 4.35
2955 5790 0.833409 ACCCTTTAGTCCCGGTTCGT 60.833 55.000 0.00 0.00 0.00 3.85
2956 5791 0.390735 CACCCTTTAGTCCCGGTTCG 60.391 60.000 0.00 0.00 0.00 3.95
2957 5792 0.675837 GCACCCTTTAGTCCCGGTTC 60.676 60.000 0.00 0.00 0.00 3.62
2958 5793 1.377612 GCACCCTTTAGTCCCGGTT 59.622 57.895 0.00 0.00 0.00 4.44
2959 5794 2.951101 CGCACCCTTTAGTCCCGGT 61.951 63.158 0.00 0.00 0.00 5.28
2960 5795 1.968050 ATCGCACCCTTTAGTCCCGG 61.968 60.000 0.00 0.00 0.00 5.73
2961 5796 0.810031 CATCGCACCCTTTAGTCCCG 60.810 60.000 0.00 0.00 0.00 5.14
2962 5797 1.095807 GCATCGCACCCTTTAGTCCC 61.096 60.000 0.00 0.00 0.00 4.46
2963 5798 1.095807 GGCATCGCACCCTTTAGTCC 61.096 60.000 0.00 0.00 0.00 3.85
2964 5799 1.095807 GGGCATCGCACCCTTTAGTC 61.096 60.000 0.40 0.00 44.68 2.59
2965 5800 1.077716 GGGCATCGCACCCTTTAGT 60.078 57.895 0.40 0.00 44.68 2.24
2966 5801 3.827634 GGGCATCGCACCCTTTAG 58.172 61.111 0.40 0.00 44.68 1.85
2972 5807 1.226746 GTACTAATGGGCATCGCACC 58.773 55.000 0.00 0.00 0.00 5.01
2973 5808 1.226746 GGTACTAATGGGCATCGCAC 58.773 55.000 0.00 0.00 0.00 5.34
2974 5809 0.249699 CGGTACTAATGGGCATCGCA 60.250 55.000 0.00 0.00 0.00 5.10
2975 5810 0.949105 CCGGTACTAATGGGCATCGC 60.949 60.000 0.00 0.00 0.00 4.58
2976 5811 0.391597 ACCGGTACTAATGGGCATCG 59.608 55.000 4.49 0.00 0.00 3.84
2977 5812 2.218603 CAACCGGTACTAATGGGCATC 58.781 52.381 8.00 0.00 0.00 3.91
2978 5813 1.133915 CCAACCGGTACTAATGGGCAT 60.134 52.381 8.00 0.00 0.00 4.40
2979 5814 0.253610 CCAACCGGTACTAATGGGCA 59.746 55.000 8.00 0.00 0.00 5.36
2980 5815 0.253894 ACCAACCGGTACTAATGGGC 59.746 55.000 23.01 0.00 46.71 5.36
2981 5816 1.407712 CCACCAACCGGTACTAATGGG 60.408 57.143 23.01 13.27 46.94 4.00
2982 5817 2.015081 GCCACCAACCGGTACTAATGG 61.015 57.143 18.75 18.75 46.94 3.16
2983 5818 1.339247 TGCCACCAACCGGTACTAATG 60.339 52.381 8.00 0.73 46.94 1.90
2984 5819 0.985760 TGCCACCAACCGGTACTAAT 59.014 50.000 8.00 0.00 46.94 1.73
2985 5820 0.035176 GTGCCACCAACCGGTACTAA 59.965 55.000 8.00 0.00 46.94 2.24
2986 5821 1.672898 GTGCCACCAACCGGTACTA 59.327 57.895 8.00 0.00 46.94 1.82
2987 5822 2.428622 GTGCCACCAACCGGTACT 59.571 61.111 8.00 0.00 46.94 2.73
2988 5823 2.670592 GGTGCCACCAACCGGTAC 60.671 66.667 8.00 0.00 46.94 3.34


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

AutoCloner maintained by Alex Coulton.