Multiple sequence alignment - TraesCS2D01G311500

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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 TraesCS2D01G311500 chr2D 100.000 2066 0 0 423 2488 400385479 400383414 0.000000e+00 3816.0
1 TraesCS2D01G311500 chr2D 100.000 215 0 0 1 215 400385901 400385687 4.990000e-107 398.0
2 TraesCS2D01G311500 chr2B 90.168 895 37 18 806 1657 474616219 474615333 0.000000e+00 1118.0
3 TraesCS2D01G311500 chr2B 91.509 318 14 7 1681 1987 474615259 474614944 2.290000e-115 425.0
4 TraesCS2D01G311500 chr2B 94.928 138 7 0 2265 2402 474614688 474614551 1.500000e-52 217.0
5 TraesCS2D01G311500 chr2B 90.123 162 15 1 458 618 474616465 474616304 2.510000e-50 209.0
6 TraesCS2D01G311500 chr2B 90.909 66 5 1 2419 2483 474614492 474614427 1.230000e-13 87.9
7 TraesCS2D01G311500 chr2A 94.143 683 26 7 994 1668 537510403 537509727 0.000000e+00 1027.0
8 TraesCS2D01G311500 chr2A 92.565 269 19 1 1681 1949 537509681 537509414 3.880000e-103 385.0
9 TraesCS2D01G311500 chr2A 96.602 206 7 0 1945 2150 537476918 537476713 2.370000e-90 342.0
10 TraesCS2D01G311500 chr2A 95.161 186 5 1 491 672 537511052 537510867 8.710000e-75 291.0
11 TraesCS2D01G311500 chr2A 96.429 168 5 1 25 192 537511628 537511462 2.440000e-70 276.0
12 TraesCS2D01G311500 chr2A 91.848 184 6 5 821 997 537510612 537510431 5.310000e-62 248.0
13 TraesCS2D01G311500 chr2A 97.143 105 2 1 688 792 537510882 537510779 2.540000e-40 176.0
14 TraesCS2D01G311500 chr7B 87.500 488 34 16 1681 2148 364209678 364210158 2.820000e-149 538.0
15 TraesCS2D01G311500 chr7B 94.531 128 7 0 2266 2393 364210161 364210288 5.430000e-47 198.0
16 TraesCS2D01G311500 chr3A 87.064 487 38 15 1681 2148 77530134 77530614 6.090000e-146 527.0
17 TraesCS2D01G311500 chr3A 95.312 128 6 0 2266 2393 77530617 77530744 1.170000e-48 204.0
18 TraesCS2D01G311500 chr6B 86.912 489 37 11 1681 2148 258336446 258336928 7.880000e-145 523.0
19 TraesCS2D01G311500 chr6B 94.697 132 7 0 2262 2393 258336927 258337058 3.240000e-49 206.0
20 TraesCS2D01G311500 chr5B 86.858 487 39 15 1681 2148 377140921 377141401 2.840000e-144 521.0
21 TraesCS2D01G311500 chr5B 85.714 490 44 13 1681 2148 647983746 647984231 6.180000e-136 494.0
22 TraesCS2D01G311500 chr5B 95.312 128 6 0 2266 2393 647984234 647984361 1.170000e-48 204.0
23 TraesCS2D01G311500 chr5B 94.531 128 7 0 2266 2393 377141404 377141531 5.430000e-47 198.0
24 TraesCS2D01G311500 chr5B 87.786 131 11 5 2139 2266 108559727 108559599 5.540000e-32 148.0
25 TraesCS2D01G311500 chr5B 89.474 57 6 0 2337 2393 11034050 11034106 3.430000e-09 73.1
26 TraesCS2D01G311500 chr5B 85.938 64 9 0 2423 2486 341051912 341051975 4.440000e-08 69.4
27 TraesCS2D01G311500 chr1B 92.606 284 15 2 1681 1964 640622606 640622883 1.070000e-108 403.0
28 TraesCS2D01G311500 chr1B 89.506 162 14 1 1990 2148 640638071 640638232 4.200000e-48 202.0
29 TraesCS2D01G311500 chr1B 92.424 132 5 1 2262 2393 640638231 640638357 1.520000e-42 183.0
30 TraesCS2D01G311500 chr1B 88.976 127 14 0 2140 2266 393079217 393079091 9.210000e-35 158.0
31 TraesCS2D01G311500 chr4A 83.231 489 30 14 1681 2148 724232212 724231755 3.850000e-108 401.0
32 TraesCS2D01G311500 chr4A 81.627 332 30 10 1787 2096 708850928 708851250 1.910000e-61 246.0
33 TraesCS2D01G311500 chr4A 90.580 138 8 1 2265 2402 724231753 724231621 7.070000e-41 178.0
34 TraesCS2D01G311500 chr5D 92.672 232 15 2 1757 1987 327296163 327296393 1.430000e-87 333.0
35 TraesCS2D01G311500 chr5D 88.182 110 13 0 1990 2099 327297533 327297642 5.580000e-27 132.0
36 TraesCS2D01G311500 chr5D 86.765 68 9 0 2419 2486 299811065 299811132 2.650000e-10 76.8
37 TraesCS2D01G311500 chr7D 95.122 123 5 1 2144 2265 277741955 277741833 2.530000e-45 193.0
38 TraesCS2D01G311500 chr1A 95.726 117 5 0 2149 2265 1161219 1161335 3.270000e-44 189.0
39 TraesCS2D01G311500 chr1A 96.262 107 4 0 2159 2265 373262741 373262635 2.540000e-40 176.0
40 TraesCS2D01G311500 chr5A 93.388 121 6 2 2146 2265 577433475 577433594 7.070000e-41 178.0
41 TraesCS2D01G311500 chr3B 92.373 118 9 0 2148 2265 526689436 526689553 4.260000e-38 169.0
42 TraesCS2D01G311500 chr6D 88.976 127 11 3 2142 2266 108860641 108860766 1.190000e-33 154.0
43 TraesCS2D01G311500 chr6D 88.095 126 14 1 2142 2266 302751867 302751992 5.540000e-32 148.0
44 TraesCS2D01G311500 chr6D 89.655 58 6 0 2419 2476 469432649 469432592 9.540000e-10 75.0
45 TraesCS2D01G311500 chr4D 93.333 45 2 1 2442 2485 426785395 426785439 5.740000e-07 65.8


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 TraesCS2D01G311500 chr2D 400383414 400385901 2487 True 2107.00 3816 100.000000 1 2488 2 chr2D.!!$R1 2487
1 TraesCS2D01G311500 chr2B 474614427 474616465 2038 True 411.38 1118 91.527400 458 2483 5 chr2B.!!$R1 2025
2 TraesCS2D01G311500 chr2A 537509414 537511628 2214 True 400.50 1027 94.548167 25 1949 6 chr2A.!!$R2 1924
3 TraesCS2D01G311500 chr7B 364209678 364210288 610 False 368.00 538 91.015500 1681 2393 2 chr7B.!!$F1 712
4 TraesCS2D01G311500 chr3A 77530134 77530744 610 False 365.50 527 91.188000 1681 2393 2 chr3A.!!$F1 712
5 TraesCS2D01G311500 chr6B 258336446 258337058 612 False 364.50 523 90.804500 1681 2393 2 chr6B.!!$F1 712
6 TraesCS2D01G311500 chr5B 377140921 377141531 610 False 359.50 521 90.694500 1681 2393 2 chr5B.!!$F3 712
7 TraesCS2D01G311500 chr5B 647983746 647984361 615 False 349.00 494 90.513000 1681 2393 2 chr5B.!!$F4 712
8 TraesCS2D01G311500 chr4A 724231621 724232212 591 True 289.50 401 86.905500 1681 2402 2 chr4A.!!$R1 721
9 TraesCS2D01G311500 chr5D 327296163 327297642 1479 False 232.50 333 90.427000 1757 2099 2 chr5D.!!$F2 342

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
445 446 0.167908 CCACACACACACACACACAC 59.832 55.0 0.0 0.0 0.0 3.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1964 2383 0.390866 ATGTGGCGACTTCAGAGCTG 60.391 55.0 0.0 0.0 0.0 4.24 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
20 21 3.526931 TGGCTACTTGCTAGTCATCAC 57.473 47.619 3.45 0.00 42.39 3.06
21 22 2.831526 TGGCTACTTGCTAGTCATCACA 59.168 45.455 3.45 0.00 42.39 3.58
22 23 3.190874 GGCTACTTGCTAGTCATCACAC 58.809 50.000 3.45 0.00 42.39 3.82
23 24 3.368427 GGCTACTTGCTAGTCATCACACA 60.368 47.826 3.45 0.00 42.39 3.72
43 44 5.877012 ACACATAGTTGACATGATTCACTCC 59.123 40.000 0.00 0.00 0.00 3.85
131 132 5.220643 GGAAAACTGACATGGCAAACAAAAG 60.221 40.000 1.11 0.00 0.00 2.27
158 159 1.003545 CATAGCACGCCACATAAGCAC 60.004 52.381 0.00 0.00 0.00 4.40
160 161 2.784596 CACGCCACATAAGCACGG 59.215 61.111 0.00 0.00 0.00 4.94
183 184 5.394773 GGAGGTTTAACTTTCCAAAACAGCA 60.395 40.000 12.02 0.00 35.33 4.41
184 185 6.043854 AGGTTTAACTTTCCAAAACAGCAA 57.956 33.333 0.00 0.00 35.33 3.91
185 186 6.468543 AGGTTTAACTTTCCAAAACAGCAAA 58.531 32.000 0.00 0.00 35.33 3.68
186 187 6.937465 AGGTTTAACTTTCCAAAACAGCAAAA 59.063 30.769 0.00 0.00 35.33 2.44
187 188 7.445707 AGGTTTAACTTTCCAAAACAGCAAAAA 59.554 29.630 0.00 0.00 35.33 1.94
188 189 7.748683 GGTTTAACTTTCCAAAACAGCAAAAAG 59.251 33.333 0.00 0.00 35.33 2.27
189 190 8.499967 GTTTAACTTTCCAAAACAGCAAAAAGA 58.500 29.630 0.00 0.00 34.12 2.52
190 191 8.608844 TTAACTTTCCAAAACAGCAAAAAGAA 57.391 26.923 0.00 0.00 0.00 2.52
194 195 7.860373 ACTTTCCAAAACAGCAAAAAGAAAAAC 59.140 29.630 0.00 0.00 0.00 2.43
199 200 8.811378 CCAAAACAGCAAAAAGAAAAACAAAAA 58.189 25.926 0.00 0.00 0.00 1.94
205 206 8.075574 CAGCAAAAAGAAAAACAAAAAGAGGTT 58.924 29.630 0.00 0.00 0.00 3.50
439 440 3.508474 CACCCCACACACACACAC 58.492 61.111 0.00 0.00 0.00 3.82
440 441 1.377856 CACCCCACACACACACACA 60.378 57.895 0.00 0.00 0.00 3.72
441 442 1.377987 ACCCCACACACACACACAC 60.378 57.895 0.00 0.00 0.00 3.82
442 443 1.377856 CCCCACACACACACACACA 60.378 57.895 0.00 0.00 0.00 3.72
443 444 1.653094 CCCCACACACACACACACAC 61.653 60.000 0.00 0.00 0.00 3.82
444 445 0.957888 CCCACACACACACACACACA 60.958 55.000 0.00 0.00 0.00 3.72
445 446 0.167908 CCACACACACACACACACAC 59.832 55.000 0.00 0.00 0.00 3.82
446 447 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
447 448 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
448 449 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
449 450 1.265365 CACACACACACACACACACAA 59.735 47.619 0.00 0.00 0.00 3.33
450 451 1.950216 ACACACACACACACACACAAA 59.050 42.857 0.00 0.00 0.00 2.83
451 452 2.359214 ACACACACACACACACACAAAA 59.641 40.909 0.00 0.00 0.00 2.44
452 453 3.181486 ACACACACACACACACACAAAAA 60.181 39.130 0.00 0.00 0.00 1.94
453 454 3.424861 CACACACACACACACACAAAAAG 59.575 43.478 0.00 0.00 0.00 2.27
454 455 2.985809 CACACACACACACACAAAAAGG 59.014 45.455 0.00 0.00 0.00 3.11
455 456 2.887783 ACACACACACACACAAAAAGGA 59.112 40.909 0.00 0.00 0.00 3.36
456 457 3.319405 ACACACACACACACAAAAAGGAA 59.681 39.130 0.00 0.00 0.00 3.36
460 461 6.034470 CACACACACACACAAAAAGGAATAAC 59.966 38.462 0.00 0.00 0.00 1.89
503 622 9.186837 TGAATAGGGTAAAACTTGTTACAAACA 57.813 29.630 0.00 0.00 40.21 2.83
569 693 4.990543 TGCAACGTTTATTGACTCTCAG 57.009 40.909 0.00 0.00 0.00 3.35
665 789 9.270640 AGAAAGCATGTCTAGCTAAATTATGAG 57.729 33.333 0.00 0.00 42.53 2.90
666 790 8.970859 AAAGCATGTCTAGCTAAATTATGAGT 57.029 30.769 0.00 0.00 42.53 3.41
667 791 8.970859 AAGCATGTCTAGCTAAATTATGAGTT 57.029 30.769 0.00 0.00 42.53 3.01
668 792 8.970859 AGCATGTCTAGCTAAATTATGAGTTT 57.029 30.769 0.00 0.00 41.32 2.66
669 793 9.050601 AGCATGTCTAGCTAAATTATGAGTTTC 57.949 33.333 0.00 0.00 41.32 2.78
670 794 8.286097 GCATGTCTAGCTAAATTATGAGTTTCC 58.714 37.037 0.00 0.00 0.00 3.13
671 795 9.330063 CATGTCTAGCTAAATTATGAGTTTCCA 57.670 33.333 0.00 0.00 0.00 3.53
673 797 9.547753 TGTCTAGCTAAATTATGAGTTTCCATC 57.452 33.333 0.00 0.00 0.00 3.51
674 798 8.994170 GTCTAGCTAAATTATGAGTTTCCATCC 58.006 37.037 0.00 0.00 0.00 3.51
675 799 6.867662 AGCTAAATTATGAGTTTCCATCCG 57.132 37.500 0.00 0.00 0.00 4.18
676 800 6.357367 AGCTAAATTATGAGTTTCCATCCGT 58.643 36.000 0.00 0.00 0.00 4.69
677 801 6.828785 AGCTAAATTATGAGTTTCCATCCGTT 59.171 34.615 0.00 0.00 0.00 4.44
678 802 7.339466 AGCTAAATTATGAGTTTCCATCCGTTT 59.661 33.333 0.00 0.00 0.00 3.60
679 803 7.644157 GCTAAATTATGAGTTTCCATCCGTTTC 59.356 37.037 0.00 0.00 0.00 2.78
680 804 5.734855 ATTATGAGTTTCCATCCGTTTCG 57.265 39.130 0.00 0.00 0.00 3.46
681 805 2.823924 TGAGTTTCCATCCGTTTCGA 57.176 45.000 0.00 0.00 0.00 3.71
682 806 3.114668 TGAGTTTCCATCCGTTTCGAA 57.885 42.857 0.00 0.00 0.00 3.71
683 807 3.468770 TGAGTTTCCATCCGTTTCGAAA 58.531 40.909 6.47 6.47 0.00 3.46
684 808 3.878103 TGAGTTTCCATCCGTTTCGAAAA 59.122 39.130 13.10 0.00 0.00 2.29
685 809 4.335874 TGAGTTTCCATCCGTTTCGAAAAA 59.664 37.500 13.10 1.64 0.00 1.94
718 844 0.253044 TCCACATTACTCTGCCTGCC 59.747 55.000 0.00 0.00 0.00 4.85
765 891 6.814954 ATACCTGCCATGGGTAGAATATAG 57.185 41.667 15.13 0.00 41.81 1.31
793 919 6.071952 GCACTCCTCAAAATCCTTCATTAACA 60.072 38.462 0.00 0.00 0.00 2.41
795 921 7.004086 ACTCCTCAAAATCCTTCATTAACACA 58.996 34.615 0.00 0.00 0.00 3.72
798 924 6.339587 TCAAAATCCTTCATTAACACACCC 57.660 37.500 0.00 0.00 0.00 4.61
799 925 5.048364 TCAAAATCCTTCATTAACACACCCG 60.048 40.000 0.00 0.00 0.00 5.28
800 926 1.816074 TCCTTCATTAACACACCCGC 58.184 50.000 0.00 0.00 0.00 6.13
1238 1581 4.142773 CGATCTCTTCCGCTTAGTAGATCC 60.143 50.000 0.00 0.00 37.24 3.36
1246 1590 3.886505 CCGCTTAGTAGATCCTCTTGTCT 59.113 47.826 0.00 0.00 0.00 3.41
1251 1595 1.067821 GTAGATCCTCTTGTCTGGGCG 59.932 57.143 0.00 0.00 0.00 6.13
1500 1848 0.179134 CGAGTAGCCTGCACCTACAC 60.179 60.000 17.48 12.23 38.07 2.90
1623 1975 3.192633 GTGGTGGAATAAAAACGCCAGAT 59.807 43.478 0.00 0.00 44.59 2.90
1636 1988 1.331756 CGCCAGATTAGTGGATTGTGC 59.668 52.381 0.00 0.00 40.44 4.57
1657 2009 1.801242 TGTCCAACCTTCTCTGTGGA 58.199 50.000 0.00 0.00 0.00 4.02
1658 2010 2.123589 TGTCCAACCTTCTCTGTGGAA 58.876 47.619 0.00 0.00 0.00 3.53
1659 2011 2.104792 TGTCCAACCTTCTCTGTGGAAG 59.895 50.000 0.00 0.00 41.49 3.46
1660 2012 1.072331 TCCAACCTTCTCTGTGGAAGC 59.928 52.381 0.00 0.00 40.76 3.86
1661 2013 1.202806 CCAACCTTCTCTGTGGAAGCA 60.203 52.381 0.00 0.00 40.76 3.91
1662 2014 2.575532 CAACCTTCTCTGTGGAAGCAA 58.424 47.619 0.00 0.00 40.76 3.91
1663 2015 2.951642 CAACCTTCTCTGTGGAAGCAAA 59.048 45.455 0.00 0.00 40.76 3.68
1664 2016 2.576615 ACCTTCTCTGTGGAAGCAAAC 58.423 47.619 0.00 0.00 40.76 2.93
1808 2227 8.945481 TCCCAATATGCAAAACAATTAGAATG 57.055 30.769 0.00 0.00 0.00 2.67
1809 2228 8.538701 TCCCAATATGCAAAACAATTAGAATGT 58.461 29.630 0.00 0.00 0.00 2.71
1964 2383 3.508012 TCACCTGCTTCTCTCTTACACTC 59.492 47.826 0.00 0.00 0.00 3.51
1991 3548 0.321653 AAGTCGCCACATCCTCCAAC 60.322 55.000 0.00 0.00 0.00 3.77
1997 3554 2.158900 CGCCACATCCTCCAACTATTCT 60.159 50.000 0.00 0.00 0.00 2.40
2002 3559 6.125029 CCACATCCTCCAACTATTCTGAAAT 58.875 40.000 0.00 0.00 0.00 2.17
2044 3601 3.517901 ACGGGATTCACCAAGAGTATTGA 59.482 43.478 0.00 0.00 41.20 2.57
2099 3728 9.435688 AATGTATTCAAGCATATAACTCGCATA 57.564 29.630 0.00 0.00 0.00 3.14
2148 3777 1.253100 CCGGGGCACAACAAATTAGT 58.747 50.000 0.00 0.00 0.00 2.24
2149 3778 2.438411 CCGGGGCACAACAAATTAGTA 58.562 47.619 0.00 0.00 0.00 1.82
2150 3779 2.162809 CCGGGGCACAACAAATTAGTAC 59.837 50.000 0.00 0.00 0.00 2.73
2151 3780 3.078837 CGGGGCACAACAAATTAGTACT 58.921 45.455 0.00 0.00 0.00 2.73
2152 3781 3.126343 CGGGGCACAACAAATTAGTACTC 59.874 47.826 0.00 0.00 0.00 2.59
2153 3782 4.332828 GGGGCACAACAAATTAGTACTCT 58.667 43.478 0.00 0.00 0.00 3.24
2154 3783 5.493809 GGGGCACAACAAATTAGTACTCTA 58.506 41.667 0.00 0.00 0.00 2.43
2155 3784 6.120220 GGGGCACAACAAATTAGTACTCTAT 58.880 40.000 0.00 0.00 0.00 1.98
2156 3785 6.260271 GGGGCACAACAAATTAGTACTCTATC 59.740 42.308 0.00 0.00 0.00 2.08
2157 3786 6.018994 GGGCACAACAAATTAGTACTCTATCG 60.019 42.308 0.00 0.00 0.00 2.92
2158 3787 6.018994 GGCACAACAAATTAGTACTCTATCGG 60.019 42.308 0.00 0.00 0.00 4.18
2159 3788 6.534079 GCACAACAAATTAGTACTCTATCGGT 59.466 38.462 0.00 0.00 0.00 4.69
2160 3789 7.254017 GCACAACAAATTAGTACTCTATCGGTC 60.254 40.741 0.00 0.00 0.00 4.79
2161 3790 7.222224 CACAACAAATTAGTACTCTATCGGTCC 59.778 40.741 0.00 0.00 0.00 4.46
2162 3791 6.069684 ACAAATTAGTACTCTATCGGTCCG 57.930 41.667 4.39 4.39 0.00 4.79
2163 3792 5.009410 ACAAATTAGTACTCTATCGGTCCGG 59.991 44.000 12.29 0.00 0.00 5.14
2164 3793 4.630644 ATTAGTACTCTATCGGTCCGGA 57.369 45.455 12.29 0.00 0.00 5.14
2165 3794 4.422073 TTAGTACTCTATCGGTCCGGAA 57.578 45.455 5.23 0.00 0.00 4.30
2166 3795 3.287867 AGTACTCTATCGGTCCGGAAA 57.712 47.619 5.23 0.00 0.00 3.13
2167 3796 3.830121 AGTACTCTATCGGTCCGGAAAT 58.170 45.455 5.23 2.74 0.00 2.17
2168 3797 4.978099 AGTACTCTATCGGTCCGGAAATA 58.022 43.478 5.23 3.92 0.00 1.40
2169 3798 4.759183 AGTACTCTATCGGTCCGGAAATAC 59.241 45.833 5.23 7.24 0.00 1.89
2170 3799 3.830121 ACTCTATCGGTCCGGAAATACT 58.170 45.455 5.23 0.00 0.00 2.12
2171 3800 4.213513 ACTCTATCGGTCCGGAAATACTT 58.786 43.478 5.23 0.00 0.00 2.24
2172 3801 4.037684 ACTCTATCGGTCCGGAAATACTTG 59.962 45.833 5.23 0.00 0.00 3.16
2173 3802 3.956199 TCTATCGGTCCGGAAATACTTGT 59.044 43.478 5.23 0.00 0.00 3.16
2174 3803 2.660189 TCGGTCCGGAAATACTTGTC 57.340 50.000 5.23 0.00 0.00 3.18
2175 3804 1.205417 TCGGTCCGGAAATACTTGTCC 59.795 52.381 5.23 0.00 0.00 4.02
2176 3805 1.741394 CGGTCCGGAAATACTTGTCCC 60.741 57.143 5.23 0.00 0.00 4.46
2177 3806 1.279846 GGTCCGGAAATACTTGTCCCA 59.720 52.381 5.23 0.00 0.00 4.37
2178 3807 2.290450 GGTCCGGAAATACTTGTCCCAA 60.290 50.000 5.23 0.00 0.00 4.12
2179 3808 3.414269 GTCCGGAAATACTTGTCCCAAA 58.586 45.455 5.23 0.00 0.00 3.28
2180 3809 3.822167 GTCCGGAAATACTTGTCCCAAAA 59.178 43.478 5.23 0.00 0.00 2.44
2181 3810 4.278919 GTCCGGAAATACTTGTCCCAAAAA 59.721 41.667 5.23 0.00 0.00 1.94
2182 3811 5.047590 GTCCGGAAATACTTGTCCCAAAAAT 60.048 40.000 5.23 0.00 0.00 1.82
2183 3812 6.151480 GTCCGGAAATACTTGTCCCAAAAATA 59.849 38.462 5.23 0.00 0.00 1.40
2184 3813 6.376018 TCCGGAAATACTTGTCCCAAAAATAG 59.624 38.462 0.00 0.00 0.00 1.73
2185 3814 6.376018 CCGGAAATACTTGTCCCAAAAATAGA 59.624 38.462 0.00 0.00 0.00 1.98
2186 3815 7.068226 CCGGAAATACTTGTCCCAAAAATAGAT 59.932 37.037 0.00 0.00 0.00 1.98
2187 3816 7.915397 CGGAAATACTTGTCCCAAAAATAGATG 59.085 37.037 0.00 0.00 0.00 2.90
2188 3817 8.749354 GGAAATACTTGTCCCAAAAATAGATGT 58.251 33.333 0.00 0.00 0.00 3.06
2194 3823 9.838339 ACTTGTCCCAAAAATAGATGTATCTAG 57.162 33.333 7.57 0.00 42.20 2.43
2196 3825 9.832445 TTGTCCCAAAAATAGATGTATCTAGAC 57.168 33.333 0.00 7.60 42.20 2.59
2197 3826 8.141909 TGTCCCAAAAATAGATGTATCTAGACG 58.858 37.037 0.00 0.00 42.20 4.18
2198 3827 8.142551 GTCCCAAAAATAGATGTATCTAGACGT 58.857 37.037 0.00 0.00 42.20 4.34
2199 3828 9.358406 TCCCAAAAATAGATGTATCTAGACGTA 57.642 33.333 0.00 0.00 42.20 3.57
2239 3868 8.279970 ACATCCATTTCTATTCATTTTCGTGA 57.720 30.769 0.00 0.00 0.00 4.35
2240 3869 8.184192 ACATCCATTTCTATTCATTTTCGTGAC 58.816 33.333 0.00 0.00 0.00 3.67
2241 3870 7.680442 TCCATTTCTATTCATTTTCGTGACA 57.320 32.000 0.00 0.00 0.00 3.58
2242 3871 8.105097 TCCATTTCTATTCATTTTCGTGACAA 57.895 30.769 0.00 0.00 0.00 3.18
2243 3872 8.236586 TCCATTTCTATTCATTTTCGTGACAAG 58.763 33.333 0.00 0.00 0.00 3.16
2244 3873 8.023128 CCATTTCTATTCATTTTCGTGACAAGT 58.977 33.333 0.00 0.00 0.00 3.16
2251 3880 8.874745 ATTCATTTTCGTGACAAGTAATTACG 57.125 30.769 9.91 0.00 36.20 3.18
2252 3881 6.823531 TCATTTTCGTGACAAGTAATTACGG 58.176 36.000 9.91 8.99 35.63 4.02
2253 3882 6.645827 TCATTTTCGTGACAAGTAATTACGGA 59.354 34.615 9.91 0.00 35.63 4.69
2254 3883 5.827568 TTTCGTGACAAGTAATTACGGAC 57.172 39.130 9.91 7.66 35.63 4.79
2255 3884 3.491356 TCGTGACAAGTAATTACGGACG 58.509 45.455 9.91 13.42 35.63 4.79
2256 3885 2.595536 CGTGACAAGTAATTACGGACGG 59.404 50.000 9.91 2.48 0.00 4.79
2257 3886 3.670359 CGTGACAAGTAATTACGGACGGA 60.670 47.826 9.91 0.00 0.00 4.69
2258 3887 3.855950 GTGACAAGTAATTACGGACGGAG 59.144 47.826 9.91 0.01 0.00 4.63
2259 3888 3.119388 TGACAAGTAATTACGGACGGAGG 60.119 47.826 9.91 0.00 0.00 4.30
2260 3889 2.167075 ACAAGTAATTACGGACGGAGGG 59.833 50.000 9.91 0.00 0.00 4.30
2261 3890 2.428171 CAAGTAATTACGGACGGAGGGA 59.572 50.000 9.91 0.00 0.00 4.20
2262 3891 2.305009 AGTAATTACGGACGGAGGGAG 58.695 52.381 9.91 0.00 0.00 4.30
2263 3892 2.027385 GTAATTACGGACGGAGGGAGT 58.973 52.381 0.00 0.00 0.00 3.85
2394 4023 5.929058 ATGCTAGTGATCTTTCTCTGACA 57.071 39.130 0.00 0.00 0.00 3.58
2395 4024 5.065704 TGCTAGTGATCTTTCTCTGACAC 57.934 43.478 0.00 0.00 0.00 3.67
2431 4102 6.569179 TTTGCTAAAACACATCTAAGTCCC 57.431 37.500 0.00 0.00 0.00 4.46
2435 4106 5.648092 GCTAAAACACATCTAAGTCCCATGT 59.352 40.000 0.00 0.00 0.00 3.21
2436 4107 6.151144 GCTAAAACACATCTAAGTCCCATGTT 59.849 38.462 0.00 0.00 0.00 2.71
2476 4147 6.909909 AGATTCGTGTGGGTATTTTCTTTTC 58.090 36.000 0.00 0.00 0.00 2.29
2477 4148 5.441709 TTCGTGTGGGTATTTTCTTTTCC 57.558 39.130 0.00 0.00 0.00 3.13
2478 4149 4.721132 TCGTGTGGGTATTTTCTTTTCCT 58.279 39.130 0.00 0.00 0.00 3.36
2483 4154 7.921745 CGTGTGGGTATTTTCTTTTCCTTTTTA 59.078 33.333 0.00 0.00 0.00 1.52
2484 4155 9.772973 GTGTGGGTATTTTCTTTTCCTTTTTAT 57.227 29.630 0.00 0.00 0.00 1.40
2485 4156 9.771534 TGTGGGTATTTTCTTTTCCTTTTTATG 57.228 29.630 0.00 0.00 0.00 1.90
2486 4157 8.717821 GTGGGTATTTTCTTTTCCTTTTTATGC 58.282 33.333 0.00 0.00 0.00 3.14
2487 4158 8.655901 TGGGTATTTTCTTTTCCTTTTTATGCT 58.344 29.630 0.00 0.00 0.00 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.849911 TGTGTGATGACTAGCAAGTAGC 58.150 45.455 0.00 0.00 46.19 3.58
3 4 6.800543 ACTATGTGTGATGACTAGCAAGTAG 58.199 40.000 0.00 0.00 35.56 2.57
4 5 6.775594 ACTATGTGTGATGACTAGCAAGTA 57.224 37.500 0.00 0.00 35.56 2.24
5 6 5.667539 ACTATGTGTGATGACTAGCAAGT 57.332 39.130 0.00 0.00 39.21 3.16
6 7 6.035435 GTCAACTATGTGTGATGACTAGCAAG 59.965 42.308 0.00 0.00 34.97 4.01
7 8 5.869344 GTCAACTATGTGTGATGACTAGCAA 59.131 40.000 0.00 0.00 34.97 3.91
8 9 5.047377 TGTCAACTATGTGTGATGACTAGCA 60.047 40.000 5.88 0.00 37.33 3.49
9 10 5.410924 TGTCAACTATGTGTGATGACTAGC 58.589 41.667 5.88 0.00 37.33 3.42
10 11 7.260603 TCATGTCAACTATGTGTGATGACTAG 58.739 38.462 5.88 0.00 37.33 2.57
11 12 7.169158 TCATGTCAACTATGTGTGATGACTA 57.831 36.000 5.88 0.00 37.33 2.59
12 13 6.041423 TCATGTCAACTATGTGTGATGACT 57.959 37.500 5.88 0.00 37.33 3.41
13 14 6.915544 ATCATGTCAACTATGTGTGATGAC 57.084 37.500 0.00 0.00 37.10 3.06
14 15 7.064966 GTGAATCATGTCAACTATGTGTGATGA 59.935 37.037 0.00 0.00 0.00 2.92
15 16 7.065443 AGTGAATCATGTCAACTATGTGTGATG 59.935 37.037 0.00 0.00 0.00 3.07
16 17 7.108194 AGTGAATCATGTCAACTATGTGTGAT 58.892 34.615 0.00 0.00 0.00 3.06
17 18 6.466812 AGTGAATCATGTCAACTATGTGTGA 58.533 36.000 0.00 0.00 0.00 3.58
18 19 6.183360 GGAGTGAATCATGTCAACTATGTGTG 60.183 42.308 0.00 0.00 0.00 3.82
19 20 5.877012 GGAGTGAATCATGTCAACTATGTGT 59.123 40.000 0.00 0.00 0.00 3.72
20 21 5.295292 GGGAGTGAATCATGTCAACTATGTG 59.705 44.000 0.00 0.00 0.00 3.21
21 22 5.190528 AGGGAGTGAATCATGTCAACTATGT 59.809 40.000 0.00 0.00 0.00 2.29
22 23 5.678583 AGGGAGTGAATCATGTCAACTATG 58.321 41.667 0.00 0.00 0.00 2.23
23 24 5.965033 AGGGAGTGAATCATGTCAACTAT 57.035 39.130 0.00 0.00 0.00 2.12
84 85 6.016943 TCCATTTGGTTCAGTTTTACTAACGG 60.017 38.462 0.00 0.00 36.34 4.44
131 132 3.364889 TGTGGCGTGCTATGTAGATAC 57.635 47.619 0.00 0.00 0.00 2.24
158 159 5.251601 TGTTTTGGAAAGTTAAACCTCCG 57.748 39.130 0.00 0.00 32.25 4.63
160 161 5.656480 TGCTGTTTTGGAAAGTTAAACCTC 58.344 37.500 0.00 0.00 32.25 3.85
422 423 1.377856 TGTGTGTGTGTGTGGGGTG 60.378 57.895 0.00 0.00 0.00 4.61
423 424 1.377987 GTGTGTGTGTGTGTGGGGT 60.378 57.895 0.00 0.00 0.00 4.95
424 425 1.377856 TGTGTGTGTGTGTGTGGGG 60.378 57.895 0.00 0.00 0.00 4.96
425 426 0.957888 TGTGTGTGTGTGTGTGTGGG 60.958 55.000 0.00 0.00 0.00 4.61
426 427 0.167908 GTGTGTGTGTGTGTGTGTGG 59.832 55.000 0.00 0.00 0.00 4.17
427 428 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
428 429 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
429 430 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
430 431 1.598882 TTGTGTGTGTGTGTGTGTGT 58.401 45.000 0.00 0.00 0.00 3.72
431 432 2.695613 TTTGTGTGTGTGTGTGTGTG 57.304 45.000 0.00 0.00 0.00 3.82
432 433 3.551863 CCTTTTTGTGTGTGTGTGTGTGT 60.552 43.478 0.00 0.00 0.00 3.72
433 434 2.985809 CCTTTTTGTGTGTGTGTGTGTG 59.014 45.455 0.00 0.00 0.00 3.82
434 435 2.887783 TCCTTTTTGTGTGTGTGTGTGT 59.112 40.909 0.00 0.00 0.00 3.72
435 436 3.567576 TCCTTTTTGTGTGTGTGTGTG 57.432 42.857 0.00 0.00 0.00 3.82
436 437 4.799564 ATTCCTTTTTGTGTGTGTGTGT 57.200 36.364 0.00 0.00 0.00 3.72
437 438 6.096036 TGTTATTCCTTTTTGTGTGTGTGTG 58.904 36.000 0.00 0.00 0.00 3.82
438 439 6.274157 TGTTATTCCTTTTTGTGTGTGTGT 57.726 33.333 0.00 0.00 0.00 3.72
439 440 6.200665 CCATGTTATTCCTTTTTGTGTGTGTG 59.799 38.462 0.00 0.00 0.00 3.82
440 441 6.097554 TCCATGTTATTCCTTTTTGTGTGTGT 59.902 34.615 0.00 0.00 0.00 3.72
441 442 6.511416 TCCATGTTATTCCTTTTTGTGTGTG 58.489 36.000 0.00 0.00 0.00 3.82
442 443 6.239289 CCTCCATGTTATTCCTTTTTGTGTGT 60.239 38.462 0.00 0.00 0.00 3.72
443 444 6.015519 TCCTCCATGTTATTCCTTTTTGTGTG 60.016 38.462 0.00 0.00 0.00 3.82
444 445 6.074648 TCCTCCATGTTATTCCTTTTTGTGT 58.925 36.000 0.00 0.00 0.00 3.72
445 446 6.588719 TCCTCCATGTTATTCCTTTTTGTG 57.411 37.500 0.00 0.00 0.00 3.33
446 447 7.797121 ATTCCTCCATGTTATTCCTTTTTGT 57.203 32.000 0.00 0.00 0.00 2.83
447 448 9.506018 AAAATTCCTCCATGTTATTCCTTTTTG 57.494 29.630 0.00 0.00 0.00 2.44
448 449 9.725019 GAAAATTCCTCCATGTTATTCCTTTTT 57.275 29.630 0.00 0.00 0.00 1.94
449 450 8.321353 GGAAAATTCCTCCATGTTATTCCTTTT 58.679 33.333 4.91 0.00 44.11 2.27
450 451 7.851228 GGAAAATTCCTCCATGTTATTCCTTT 58.149 34.615 4.91 0.00 44.11 3.11
451 452 7.423844 GGAAAATTCCTCCATGTTATTCCTT 57.576 36.000 4.91 0.00 44.11 3.36
656 780 6.373216 TCGAAACGGATGGAAACTCATAATTT 59.627 34.615 0.00 0.00 0.00 1.82
657 781 5.878116 TCGAAACGGATGGAAACTCATAATT 59.122 36.000 0.00 0.00 0.00 1.40
658 782 5.424757 TCGAAACGGATGGAAACTCATAAT 58.575 37.500 0.00 0.00 0.00 1.28
659 783 4.823157 TCGAAACGGATGGAAACTCATAA 58.177 39.130 0.00 0.00 0.00 1.90
660 784 4.459390 TCGAAACGGATGGAAACTCATA 57.541 40.909 0.00 0.00 0.00 2.15
661 785 3.328382 TCGAAACGGATGGAAACTCAT 57.672 42.857 0.00 0.00 0.00 2.90
662 786 2.823924 TCGAAACGGATGGAAACTCA 57.176 45.000 0.00 0.00 0.00 3.41
663 787 4.477302 TTTTCGAAACGGATGGAAACTC 57.523 40.909 10.79 0.00 0.00 3.01
664 788 4.904253 TTTTTCGAAACGGATGGAAACT 57.096 36.364 10.79 0.00 0.00 2.66
765 891 1.831580 AGGATTTTGAGGAGTGCTGC 58.168 50.000 0.00 0.00 0.00 5.25
971 1246 4.394712 GTCCTCTGGGCCGGTGTG 62.395 72.222 13.14 4.53 0.00 3.82
1020 1356 1.522580 GCTGAGGCGGATTGGAGTC 60.523 63.158 0.00 0.00 0.00 3.36
1118 1460 4.116328 CGAGCTTCTCCGTCGCCA 62.116 66.667 0.00 0.00 0.00 5.69
1238 1581 0.803768 CATCGACGCCCAGACAAGAG 60.804 60.000 0.00 0.00 0.00 2.85
1246 1590 2.186644 CATCACCATCGACGCCCA 59.813 61.111 0.00 0.00 0.00 5.36
1251 1595 1.835483 GCCATCGCATCACCATCGAC 61.835 60.000 0.00 0.00 34.92 4.20
1623 1975 3.500448 TGGACAAGCACAATCCACTAA 57.500 42.857 0.00 0.00 37.60 2.24
1636 1988 2.104792 TCCACAGAGAAGGTTGGACAAG 59.895 50.000 0.00 0.00 0.00 3.16
1657 2009 2.619646 ACAAAATACGGACGGTTTGCTT 59.380 40.909 13.77 0.00 34.94 3.91
1658 2010 2.223745 ACAAAATACGGACGGTTTGCT 58.776 42.857 13.77 3.96 34.94 3.91
1659 2011 2.691984 ACAAAATACGGACGGTTTGC 57.308 45.000 13.77 0.00 34.94 3.68
1660 2012 3.180782 GCAAACAAAATACGGACGGTTTG 59.819 43.478 13.67 13.67 44.64 2.93
1661 2013 3.373849 GCAAACAAAATACGGACGGTTT 58.626 40.909 0.00 0.00 0.00 3.27
1662 2014 2.602694 CGCAAACAAAATACGGACGGTT 60.603 45.455 0.00 0.00 0.00 4.44
1663 2015 1.069771 CGCAAACAAAATACGGACGGT 60.070 47.619 0.00 0.00 0.00 4.83
1664 2016 1.069771 ACGCAAACAAAATACGGACGG 60.070 47.619 0.00 0.00 0.00 4.79
1738 2147 9.516314 GCCCTTTTATGTTAAATCACAGTTATC 57.484 33.333 0.00 0.00 0.00 1.75
1761 2171 5.129650 GGAGGATATAGATGGTAAAGAGCCC 59.870 48.000 0.00 0.00 0.00 5.19
1809 2228 9.806448 ACTAATTGAATTGGCATGGTATGTATA 57.194 29.630 0.00 0.00 0.00 1.47
1964 2383 0.390866 ATGTGGCGACTTCAGAGCTG 60.391 55.000 0.00 0.00 0.00 4.24
1997 3554 8.559536 GTGTTTTCAGATAACAGTCAGATTTCA 58.440 33.333 6.68 0.00 36.27 2.69
2002 3559 4.988540 CCGTGTTTTCAGATAACAGTCAGA 59.011 41.667 6.68 0.00 36.27 3.27
2044 3601 9.017509 ACTTCAAACTATCATCATGTTCATTGT 57.982 29.630 0.00 0.00 0.00 2.71
2080 3709 6.808704 GTGAGATATGCGAGTTATATGCTTGA 59.191 38.462 0.00 0.00 0.00 3.02
2099 3728 7.392673 AGTTGAGAACTGCAAATTATGTGAGAT 59.607 33.333 0.00 0.00 41.01 2.75
2148 3777 4.978099 AGTATTTCCGGACCGATAGAGTA 58.022 43.478 17.49 0.00 39.76 2.59
2149 3778 3.830121 AGTATTTCCGGACCGATAGAGT 58.170 45.455 17.49 0.00 39.76 3.24
2150 3779 4.037684 ACAAGTATTTCCGGACCGATAGAG 59.962 45.833 17.49 0.00 39.76 2.43
2151 3780 3.956199 ACAAGTATTTCCGGACCGATAGA 59.044 43.478 17.49 0.46 39.76 1.98
2152 3781 4.296690 GACAAGTATTTCCGGACCGATAG 58.703 47.826 17.49 0.00 0.00 2.08
2153 3782 3.068590 GGACAAGTATTTCCGGACCGATA 59.931 47.826 17.49 2.18 0.00 2.92
2154 3783 2.159000 GGACAAGTATTTCCGGACCGAT 60.159 50.000 17.49 3.31 0.00 4.18
2155 3784 1.205417 GGACAAGTATTTCCGGACCGA 59.795 52.381 17.49 0.00 0.00 4.69
2156 3785 1.648504 GGACAAGTATTTCCGGACCG 58.351 55.000 1.83 6.99 0.00 4.79
2157 3786 1.279846 TGGGACAAGTATTTCCGGACC 59.720 52.381 1.83 0.00 31.92 4.46
2158 3787 2.773993 TGGGACAAGTATTTCCGGAC 57.226 50.000 1.83 0.00 31.92 4.79
2168 3797 9.838339 CTAGATACATCTATTTTTGGGACAAGT 57.162 33.333 0.00 0.00 40.37 3.16
2170 3799 9.832445 GTCTAGATACATCTATTTTTGGGACAA 57.168 33.333 0.00 0.00 40.37 3.18
2171 3800 8.141909 CGTCTAGATACATCTATTTTTGGGACA 58.858 37.037 0.00 0.00 38.60 4.02
2172 3801 8.142551 ACGTCTAGATACATCTATTTTTGGGAC 58.857 37.037 0.00 2.21 38.60 4.46
2173 3802 8.246430 ACGTCTAGATACATCTATTTTTGGGA 57.754 34.615 0.00 0.00 38.60 4.37
2213 3842 9.389755 TCACGAAAATGAATAGAAATGGATGTA 57.610 29.630 0.00 0.00 0.00 2.29
2214 3843 8.184192 GTCACGAAAATGAATAGAAATGGATGT 58.816 33.333 0.00 0.00 0.00 3.06
2215 3844 8.183536 TGTCACGAAAATGAATAGAAATGGATG 58.816 33.333 0.00 0.00 0.00 3.51
2216 3845 8.279970 TGTCACGAAAATGAATAGAAATGGAT 57.720 30.769 0.00 0.00 0.00 3.41
2217 3846 7.680442 TGTCACGAAAATGAATAGAAATGGA 57.320 32.000 0.00 0.00 0.00 3.41
2218 3847 8.023128 ACTTGTCACGAAAATGAATAGAAATGG 58.977 33.333 0.00 0.00 0.00 3.16
2219 3848 8.955061 ACTTGTCACGAAAATGAATAGAAATG 57.045 30.769 0.00 0.00 0.00 2.32
2225 3854 9.961266 CGTAATTACTTGTCACGAAAATGAATA 57.039 29.630 13.56 0.00 34.66 1.75
2226 3855 7.960738 CCGTAATTACTTGTCACGAAAATGAAT 59.039 33.333 13.56 0.00 34.66 2.57
2227 3856 7.171167 TCCGTAATTACTTGTCACGAAAATGAA 59.829 33.333 13.56 0.00 34.66 2.57
2228 3857 6.645827 TCCGTAATTACTTGTCACGAAAATGA 59.354 34.615 13.56 0.00 34.66 2.57
2229 3858 6.735063 GTCCGTAATTACTTGTCACGAAAATG 59.265 38.462 13.56 0.00 34.66 2.32
2230 3859 6.400303 CGTCCGTAATTACTTGTCACGAAAAT 60.400 38.462 13.56 0.00 34.66 1.82
2231 3860 5.107913 CGTCCGTAATTACTTGTCACGAAAA 60.108 40.000 13.56 0.00 34.66 2.29
2232 3861 4.382457 CGTCCGTAATTACTTGTCACGAAA 59.618 41.667 13.56 0.00 34.66 3.46
2233 3862 3.913763 CGTCCGTAATTACTTGTCACGAA 59.086 43.478 13.56 0.00 34.66 3.85
2234 3863 3.491356 CGTCCGTAATTACTTGTCACGA 58.509 45.455 13.56 0.00 34.66 4.35
2235 3864 2.595536 CCGTCCGTAATTACTTGTCACG 59.404 50.000 13.56 12.34 0.00 4.35
2236 3865 3.836949 TCCGTCCGTAATTACTTGTCAC 58.163 45.455 13.56 2.56 0.00 3.67
2237 3866 3.119388 CCTCCGTCCGTAATTACTTGTCA 60.119 47.826 13.56 0.00 0.00 3.58
2238 3867 3.442100 CCTCCGTCCGTAATTACTTGTC 58.558 50.000 13.56 2.48 0.00 3.18
2239 3868 2.167075 CCCTCCGTCCGTAATTACTTGT 59.833 50.000 13.56 0.00 0.00 3.16
2240 3869 2.428171 TCCCTCCGTCCGTAATTACTTG 59.572 50.000 13.56 5.06 0.00 3.16
2241 3870 2.692041 CTCCCTCCGTCCGTAATTACTT 59.308 50.000 13.56 0.00 0.00 2.24
2242 3871 2.305009 CTCCCTCCGTCCGTAATTACT 58.695 52.381 13.56 0.00 0.00 2.24
2243 3872 2.027385 ACTCCCTCCGTCCGTAATTAC 58.973 52.381 5.47 5.47 0.00 1.89
2244 3873 2.442236 ACTCCCTCCGTCCGTAATTA 57.558 50.000 0.00 0.00 0.00 1.40
2245 3874 2.442236 TACTCCCTCCGTCCGTAATT 57.558 50.000 0.00 0.00 0.00 1.40
2246 3875 2.671896 ATACTCCCTCCGTCCGTAAT 57.328 50.000 0.00 0.00 0.00 1.89
2247 3876 2.442236 AATACTCCCTCCGTCCGTAA 57.558 50.000 0.00 0.00 0.00 3.18
2248 3877 2.487265 GGTAATACTCCCTCCGTCCGTA 60.487 54.545 0.00 0.00 0.00 4.02
2249 3878 1.685148 GTAATACTCCCTCCGTCCGT 58.315 55.000 0.00 0.00 0.00 4.69
2250 3879 0.957362 GGTAATACTCCCTCCGTCCG 59.043 60.000 0.00 0.00 0.00 4.79
2251 3880 2.378378 AGGTAATACTCCCTCCGTCC 57.622 55.000 0.00 0.00 0.00 4.79
2252 3881 3.181468 CCAAAGGTAATACTCCCTCCGTC 60.181 52.174 0.00 0.00 0.00 4.79
2253 3882 2.770232 CCAAAGGTAATACTCCCTCCGT 59.230 50.000 0.00 0.00 0.00 4.69
2254 3883 3.036091 TCCAAAGGTAATACTCCCTCCG 58.964 50.000 0.00 0.00 0.00 4.63
2255 3884 3.778629 TGTCCAAAGGTAATACTCCCTCC 59.221 47.826 0.00 0.00 0.00 4.30
2256 3885 5.431179 TTGTCCAAAGGTAATACTCCCTC 57.569 43.478 0.00 0.00 0.00 4.30
2257 3886 5.340027 CCATTGTCCAAAGGTAATACTCCCT 60.340 44.000 0.00 0.00 0.00 4.20
2258 3887 4.887655 CCATTGTCCAAAGGTAATACTCCC 59.112 45.833 0.00 0.00 0.00 4.30
2259 3888 4.338400 GCCATTGTCCAAAGGTAATACTCC 59.662 45.833 3.52 0.00 32.14 3.85
2260 3889 4.947388 TGCCATTGTCCAAAGGTAATACTC 59.053 41.667 3.52 0.00 32.14 2.59
2261 3890 4.705023 GTGCCATTGTCCAAAGGTAATACT 59.295 41.667 3.52 0.00 32.14 2.12
2262 3891 4.461081 TGTGCCATTGTCCAAAGGTAATAC 59.539 41.667 3.52 0.32 32.14 1.89
2263 3892 4.667573 TGTGCCATTGTCCAAAGGTAATA 58.332 39.130 3.52 0.00 32.14 0.98
2417 4062 6.957631 TCAATAACATGGGACTTAGATGTGT 58.042 36.000 0.00 0.00 30.69 3.72
2435 4106 8.204160 ACACGAATCTCCACATAAGATCAATAA 58.796 33.333 0.00 0.00 32.29 1.40
2436 4107 7.653311 CACACGAATCTCCACATAAGATCAATA 59.347 37.037 0.00 0.00 32.29 1.90
2447 4118 1.634960 TACCCACACGAATCTCCACA 58.365 50.000 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.