Multiple sequence alignment - TraesCS3A01G475500

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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 TraesCS3A01G475500 chr3A 100.000 5952 0 0 1 5952 707081512 707087463 0.000000e+00 10992.0
1 TraesCS3A01G475500 chr3A 87.227 321 39 2 4642 4961 707093624 707093943 1.220000e-96 364.0
2 TraesCS3A01G475500 chr3D 93.741 4649 220 45 664 5281 571996028 571991420 0.000000e+00 6907.0
3 TraesCS3A01G475500 chr3D 81.019 648 103 14 1 637 48818477 48817839 1.150000e-136 497.0
4 TraesCS3A01G475500 chr3D 83.596 445 44 14 4735 5173 572917135 572917556 2.010000e-104 390.0
5 TraesCS3A01G475500 chr3D 82.776 389 42 14 4675 5061 573072880 573073245 2.070000e-84 324.0
6 TraesCS3A01G475500 chr3D 88.550 131 15 0 4608 4738 571967732 571967602 6.170000e-35 159.0
7 TraesCS3A01G475500 chr3B 93.174 4688 210 54 637 5281 762026008 762030628 0.000000e+00 6783.0
8 TraesCS3A01G475500 chr3B 83.107 515 68 14 40 546 462868574 462868071 9.100000e-123 451.0
9 TraesCS3A01G475500 chr3B 83.871 434 48 14 4642 5069 762099953 762100370 1.550000e-105 394.0
10 TraesCS3A01G475500 chr6D 92.716 659 47 1 5289 5946 29249683 29249025 0.000000e+00 950.0
11 TraesCS3A01G475500 chr6D 81.327 648 106 10 1 637 395505595 395506238 4.110000e-141 512.0
12 TraesCS3A01G475500 chr7D 90.376 665 63 1 5289 5952 540874400 540875064 0.000000e+00 872.0
13 TraesCS3A01G475500 chr7D 82.582 643 100 8 1 636 99835042 99834405 1.870000e-154 556.0
14 TraesCS3A01G475500 chr7D 81.802 555 77 15 22 561 7666498 7665953 1.520000e-120 444.0
15 TraesCS3A01G475500 chr7A 90.075 665 65 1 5289 5952 394799339 394800003 0.000000e+00 861.0
16 TraesCS3A01G475500 chr7A 82.012 656 112 5 5289 5941 650653325 650653977 2.420000e-153 553.0
17 TraesCS3A01G475500 chr5D 88.271 665 76 2 5289 5952 72695104 72694441 0.000000e+00 795.0
18 TraesCS3A01G475500 chr5D 85.714 665 90 4 5289 5952 110435718 110436378 0.000000e+00 697.0
19 TraesCS3A01G475500 chr5D 82.496 577 87 9 1 568 430168261 430167690 1.490000e-135 494.0
20 TraesCS3A01G475500 chr4A 87.237 666 82 3 5289 5952 287344029 287344693 0.000000e+00 756.0
21 TraesCS3A01G475500 chr4D 87.852 568 60 6 1 560 451300910 451301476 0.000000e+00 658.0
22 TraesCS3A01G475500 chr4D 81.664 649 99 17 1 639 49517096 49517734 6.840000e-144 521.0
23 TraesCS3A01G475500 chr6A 84.187 664 104 1 5289 5952 27461184 27461846 1.400000e-180 643.0
24 TraesCS3A01G475500 chr6A 82.901 655 99 8 5304 5952 84706299 84705652 1.440000e-160 577.0
25 TraesCS3A01G475500 chr1B 82.616 558 85 7 1 549 678253475 678252921 3.230000e-132 483.0
26 TraesCS3A01G475500 chr1B 79.592 147 21 5 3757 3900 575711709 575711849 4.910000e-16 97.1
27 TraesCS3A01G475500 chr1D 82.840 338 40 10 926 1260 448757370 448757692 2.710000e-73 287.0
28 TraesCS3A01G475500 chr1D 76.748 572 87 30 679 1231 448791386 448791930 1.630000e-70 278.0
29 TraesCS3A01G475500 chr1D 78.767 146 24 4 3757 3900 425674406 425674546 2.280000e-14 91.6
30 TraesCS3A01G475500 chr1D 78.082 146 25 4 3757 3900 425571257 425571397 1.060000e-12 86.1
31 TraesCS3A01G475500 chr1D 83.544 79 11 2 3826 3903 47988304 47988227 8.270000e-09 73.1
32 TraesCS3A01G475500 chr1D 84.000 75 12 0 3826 3900 460621151 460621225 8.270000e-09 73.1
33 TraesCS3A01G475500 chr1A 81.459 329 50 9 935 1260 544394607 544394927 5.920000e-65 259.0
34 TraesCS3A01G475500 chr1A 78.912 147 22 5 3757 3900 521258792 521258932 2.280000e-14 91.6
35 TraesCS3A01G475500 chrUn 88.550 131 15 0 4608 4738 348060145 348060275 6.170000e-35 159.0
36 TraesCS3A01G475500 chrUn 88.550 131 15 0 4608 4738 439257464 439257334 6.170000e-35 159.0
37 TraesCS3A01G475500 chrUn 78.912 147 22 5 3760 3903 7465003 7464863 2.280000e-14 91.6


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 TraesCS3A01G475500 chr3A 707081512 707087463 5951 False 10992 10992 100.000 1 5952 1 chr3A.!!$F1 5951
1 TraesCS3A01G475500 chr3D 571991420 571996028 4608 True 6907 6907 93.741 664 5281 1 chr3D.!!$R3 4617
2 TraesCS3A01G475500 chr3D 48817839 48818477 638 True 497 497 81.019 1 637 1 chr3D.!!$R1 636
3 TraesCS3A01G475500 chr3B 762026008 762030628 4620 False 6783 6783 93.174 637 5281 1 chr3B.!!$F1 4644
4 TraesCS3A01G475500 chr3B 462868071 462868574 503 True 451 451 83.107 40 546 1 chr3B.!!$R1 506
5 TraesCS3A01G475500 chr6D 29249025 29249683 658 True 950 950 92.716 5289 5946 1 chr6D.!!$R1 657
6 TraesCS3A01G475500 chr6D 395505595 395506238 643 False 512 512 81.327 1 637 1 chr6D.!!$F1 636
7 TraesCS3A01G475500 chr7D 540874400 540875064 664 False 872 872 90.376 5289 5952 1 chr7D.!!$F1 663
8 TraesCS3A01G475500 chr7D 99834405 99835042 637 True 556 556 82.582 1 636 1 chr7D.!!$R2 635
9 TraesCS3A01G475500 chr7D 7665953 7666498 545 True 444 444 81.802 22 561 1 chr7D.!!$R1 539
10 TraesCS3A01G475500 chr7A 394799339 394800003 664 False 861 861 90.075 5289 5952 1 chr7A.!!$F1 663
11 TraesCS3A01G475500 chr7A 650653325 650653977 652 False 553 553 82.012 5289 5941 1 chr7A.!!$F2 652
12 TraesCS3A01G475500 chr5D 72694441 72695104 663 True 795 795 88.271 5289 5952 1 chr5D.!!$R1 663
13 TraesCS3A01G475500 chr5D 110435718 110436378 660 False 697 697 85.714 5289 5952 1 chr5D.!!$F1 663
14 TraesCS3A01G475500 chr5D 430167690 430168261 571 True 494 494 82.496 1 568 1 chr5D.!!$R2 567
15 TraesCS3A01G475500 chr4A 287344029 287344693 664 False 756 756 87.237 5289 5952 1 chr4A.!!$F1 663
16 TraesCS3A01G475500 chr4D 451300910 451301476 566 False 658 658 87.852 1 560 1 chr4D.!!$F2 559
17 TraesCS3A01G475500 chr4D 49517096 49517734 638 False 521 521 81.664 1 639 1 chr4D.!!$F1 638
18 TraesCS3A01G475500 chr6A 27461184 27461846 662 False 643 643 84.187 5289 5952 1 chr6A.!!$F1 663
19 TraesCS3A01G475500 chr6A 84705652 84706299 647 True 577 577 82.901 5304 5952 1 chr6A.!!$R1 648
20 TraesCS3A01G475500 chr1B 678252921 678253475 554 True 483 483 82.616 1 549 1 chr1B.!!$R1 548
21 TraesCS3A01G475500 chr1D 448791386 448791930 544 False 278 278 76.748 679 1231 1 chr1D.!!$F4 552

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
578 595 0.109532 TCTTTGTCCACGGATTGGCA 59.890 50.000 0.0 0.0 46.47 4.92 F
590 609 0.462581 GATTGGCATCCAGTCTGCGA 60.463 55.000 0.0 0.0 40.59 5.10 F
1435 1494 0.520404 GCGATGGCTGCAATAGATGG 59.480 55.000 0.5 0.0 35.83 3.51 F
2652 2711 1.230116 TGGTGACATGGGGGATGGA 60.230 57.895 0.0 0.0 36.23 3.41 F
3705 3764 0.179051 CCTCCATGCTCTGCTTCTCC 60.179 60.000 0.0 0.0 0.00 3.71 F
4178 4238 0.370273 CGCATCTTTCACAGGTACGC 59.630 55.000 0.0 0.0 0.00 4.42 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1555 1614 0.524392 CCTTCTGCACGTAGAGAGCG 60.524 60.000 0.00 0.00 0.00 5.03 R
2467 2526 1.670949 GGCTCAGCGTCTCCATCAGA 61.671 60.000 0.00 0.00 0.00 3.27 R
3026 3085 2.032681 GGTCTTGCCGTCCTTGCT 59.967 61.111 0.00 0.00 0.00 3.91 R
4499 4570 0.165944 GTTCCTTGTCGCCGTTCATG 59.834 55.000 0.00 0.00 0.00 3.07 R
4699 4771 0.036022 AGAAGACCCAGCTGCTGAAC 59.964 55.000 30.10 18.99 32.44 3.18 R
5281 5354 0.111061 AGGGCATGCAGTCAGTTCAA 59.889 50.000 21.36 0.00 0.00 2.69 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
33 34 1.331447 CTTCGCATCCGCAATCATCAA 59.669 47.619 0.00 0.00 38.40 2.57
34 35 1.596603 TCGCATCCGCAATCATCAAT 58.403 45.000 0.00 0.00 38.40 2.57
38 39 2.292569 GCATCCGCAATCATCAATGAGT 59.707 45.455 0.00 0.00 37.99 3.41
75 76 4.077184 CCGCCGCTACTTGGGTCA 62.077 66.667 0.00 0.00 0.00 4.02
77 78 2.813908 GCCGCTACTTGGGTCACG 60.814 66.667 0.00 0.00 0.00 4.35
88 89 2.426023 GGTCACGTGAAGGCCACT 59.574 61.111 21.95 0.00 43.53 4.00
117 118 4.675029 GCCGGTGTACACAGCCGT 62.675 66.667 26.51 0.00 40.99 5.68
129 130 3.936203 AGCCGTTGTCTTGCCCGA 61.936 61.111 0.00 0.00 0.00 5.14
144 145 2.237143 TGCCCGATTCTTCTCTTGTGAT 59.763 45.455 0.00 0.00 0.00 3.06
211 212 2.125106 CCCCTACCGCTGAAGCAC 60.125 66.667 2.79 0.00 42.21 4.40
324 340 2.160417 CCGAACATGAGGAAGACAAAGC 59.840 50.000 0.00 0.00 0.00 3.51
334 350 2.632377 GAAGACAAAGCGATCCATGGA 58.368 47.619 18.88 18.88 0.00 3.41
358 375 7.333672 GGACGGCCATTTAGATTAGGTATTAAG 59.666 40.741 0.00 0.00 0.00 1.85
393 410 1.402968 CGGACTAGCACCGCTTAGTTA 59.597 52.381 14.35 0.00 43.74 2.24
394 411 2.541178 CGGACTAGCACCGCTTAGTTAG 60.541 54.545 14.35 0.00 43.74 2.34
541 558 6.709397 TGTGAAAATGTATGTGGTTACGGTTA 59.291 34.615 0.00 0.00 0.00 2.85
561 578 2.121992 GATGGCATCCTCCCGCATCT 62.122 60.000 16.75 0.00 0.00 2.90
562 579 1.713005 ATGGCATCCTCCCGCATCTT 61.713 55.000 0.00 0.00 0.00 2.40
573 590 0.744414 CCGCATCTTTGTCCACGGAT 60.744 55.000 0.00 0.00 43.19 4.18
577 594 1.133025 CATCTTTGTCCACGGATTGGC 59.867 52.381 0.00 0.00 46.47 4.52
578 595 0.109532 TCTTTGTCCACGGATTGGCA 59.890 50.000 0.00 0.00 46.47 4.92
579 598 1.176527 CTTTGTCCACGGATTGGCAT 58.823 50.000 0.00 0.00 46.47 4.40
590 609 0.462581 GATTGGCATCCAGTCTGCGA 60.463 55.000 0.00 0.00 40.59 5.10
603 622 4.155733 TGCGAACGGATGCGGGAT 62.156 61.111 12.44 0.00 0.00 3.85
611 630 2.925724 ACGGATGCGGGATGAAATTTA 58.074 42.857 12.44 0.00 0.00 1.40
613 632 2.616376 CGGATGCGGGATGAAATTTACA 59.384 45.455 0.00 0.00 0.00 2.41
615 634 3.882888 GGATGCGGGATGAAATTTACAGA 59.117 43.478 0.00 0.00 0.00 3.41
617 636 5.335191 GGATGCGGGATGAAATTTACAGATC 60.335 44.000 0.00 0.00 0.00 2.75
618 637 4.522114 TGCGGGATGAAATTTACAGATCA 58.478 39.130 0.00 0.00 0.00 2.92
640 659 2.028476 CCGTTGGAGATGTCCTTACACA 60.028 50.000 10.72 0.00 44.30 3.72
653 672 2.609737 CCTTACACAGACACTCGAACCC 60.610 54.545 0.00 0.00 0.00 4.11
659 680 2.028930 ACAGACACTCGAACCCAATCTC 60.029 50.000 0.00 0.00 0.00 2.75
670 691 5.822519 TCGAACCCAATCTCCAAATATCTTG 59.177 40.000 0.00 0.00 0.00 3.02
671 692 5.822519 CGAACCCAATCTCCAAATATCTTGA 59.177 40.000 0.00 0.00 0.00 3.02
672 693 6.017605 CGAACCCAATCTCCAAATATCTTGAG 60.018 42.308 0.00 0.00 0.00 3.02
674 695 6.973642 ACCCAATCTCCAAATATCTTGAGAA 58.026 36.000 0.00 0.00 0.00 2.87
675 696 7.589993 ACCCAATCTCCAAATATCTTGAGAAT 58.410 34.615 0.00 0.00 0.00 2.40
676 697 8.063770 ACCCAATCTCCAAATATCTTGAGAATT 58.936 33.333 0.00 0.00 0.00 2.17
677 698 8.574737 CCCAATCTCCAAATATCTTGAGAATTC 58.425 37.037 0.00 0.00 0.00 2.17
771 793 8.421249 AGAAATATTCTGGTCCATTGAACAAA 57.579 30.769 0.00 0.00 37.86 2.83
783 805 9.191995 GGTCCATTGAACAAACTACTAAAATTG 57.808 33.333 0.00 0.00 0.00 2.32
858 883 1.089481 CCGCGTAGATTGTGGCATGT 61.089 55.000 4.92 0.00 0.00 3.21
876 907 5.047802 GGCATGTATGAAAGAATACCATGGG 60.048 44.000 18.09 0.00 32.93 4.00
894 925 3.803340 TGGGAATAGGACTCCAAGTCTT 58.197 45.455 7.02 2.31 44.46 3.01
898 929 5.104318 GGGAATAGGACTCCAAGTCTTCAAT 60.104 44.000 7.02 0.00 44.46 2.57
902 933 5.053978 AGGACTCCAAGTCTTCAATGTTT 57.946 39.130 7.02 0.00 44.46 2.83
923 960 3.630892 AGACGCTTCTAGGTAGTCTCA 57.369 47.619 0.00 0.00 37.61 3.27
924 961 3.272581 AGACGCTTCTAGGTAGTCTCAC 58.727 50.000 0.00 0.00 37.61 3.51
936 973 3.251487 GGTAGTCTCACGGATAGAGAAGC 59.749 52.174 0.00 0.00 43.22 3.86
945 982 3.136809 ACGGATAGAGAAGCAGTAGGAGA 59.863 47.826 0.00 0.00 0.00 3.71
998 1038 9.199982 CAATTAATTAGATTGCCCATCATCAAC 57.800 33.333 0.00 0.00 33.75 3.18
1009 1049 4.586001 GCCCATCATCAACCATGTCTTATT 59.414 41.667 0.00 0.00 33.66 1.40
1014 1054 6.918892 TCATCAACCATGTCTTATTTACGG 57.081 37.500 0.00 0.00 33.66 4.02
1047 1087 6.920758 CGATAGATTTTCTCAAGACCTTCGAT 59.079 38.462 0.00 0.00 39.76 3.59
1068 1108 2.183300 CCGGCGAAGAATCCGTCA 59.817 61.111 9.30 0.00 43.87 4.35
1205 1248 2.346803 CAACATCCAGGTTCGTCGATT 58.653 47.619 0.00 0.00 0.00 3.34
1214 1257 1.664151 GGTTCGTCGATTTGTCCATCC 59.336 52.381 0.00 0.00 0.00 3.51
1239 1282 2.561467 TACACCCTCGATCTCGCCCA 62.561 60.000 0.00 0.00 39.60 5.36
1249 1292 0.608640 ATCTCGCCCACGTTCTTCTT 59.391 50.000 0.00 0.00 41.18 2.52
1260 1303 1.731424 CGTTCTTCTTCGCCGAGCTAA 60.731 52.381 0.00 0.00 0.00 3.09
1282 1331 3.899981 CTACTGCCCTGCAACGCCA 62.900 63.158 2.44 0.00 38.41 5.69
1306 1355 3.757836 TGCATCATGGCATATGGCT 57.242 47.368 27.41 12.22 44.01 4.75
1307 1356 1.541379 TGCATCATGGCATATGGCTC 58.459 50.000 27.41 11.50 44.01 4.70
1308 1357 1.074889 TGCATCATGGCATATGGCTCT 59.925 47.619 27.41 13.80 44.01 4.09
1316 1365 4.980339 TGGCATATGGCTCTTGATCTAA 57.020 40.909 27.41 2.84 44.01 2.10
1352 1401 8.721019 ATCGGATTAATTTGTTGCAATCAATT 57.279 26.923 17.88 17.88 34.29 2.32
1354 1403 8.655092 TCGGATTAATTTGTTGCAATCAATTTC 58.345 29.630 18.61 13.07 34.29 2.17
1355 1404 7.904461 CGGATTAATTTGTTGCAATCAATTTCC 59.096 33.333 18.61 17.97 34.29 3.13
1360 1409 5.389859 TTGTTGCAATCAATTTCCGATCT 57.610 34.783 0.59 0.00 34.29 2.75
1363 1412 2.754002 TGCAATCAATTTCCGATCTGCA 59.246 40.909 0.00 0.00 35.99 4.41
1403 1460 4.572389 GGATCACACATGTTTTAGAGCGAT 59.428 41.667 0.00 0.00 0.00 4.58
1435 1494 0.520404 GCGATGGCTGCAATAGATGG 59.480 55.000 0.50 0.00 35.83 3.51
1436 1495 1.879372 GCGATGGCTGCAATAGATGGA 60.879 52.381 0.50 0.00 35.83 3.41
1451 1510 7.877097 GCAATAGATGGAGAGATTGACTGTATT 59.123 37.037 0.00 0.00 32.16 1.89
1460 1519 8.354426 GGAGAGATTGACTGTATTAGTAACCTC 58.646 40.741 0.00 0.00 40.53 3.85
1555 1614 3.596214 TCCATAGGAAAAGCTTCGTGTC 58.404 45.455 0.00 0.00 32.14 3.67
1603 1662 3.871006 TGCAGTTCATCGATGGTATGTTC 59.129 43.478 24.61 9.22 0.00 3.18
1690 1749 3.123050 CTGATCGATCGTAACAATGGCA 58.877 45.455 20.03 0.00 0.00 4.92
1771 1830 4.140599 CGGCAGAGCGGCTTCTCT 62.141 66.667 2.97 0.00 43.78 3.10
2171 2230 2.116772 AGTTCCGGGACCTCGACA 59.883 61.111 10.03 0.00 0.00 4.35
2284 2343 3.000819 TCCATCGGCGACCAGGTT 61.001 61.111 13.76 0.00 0.00 3.50
2419 2478 2.847234 AAGGTGCAGGACGGGTCA 60.847 61.111 0.75 0.00 0.00 4.02
2652 2711 1.230116 TGGTGACATGGGGGATGGA 60.230 57.895 0.00 0.00 36.23 3.41
3584 3643 1.520342 GAGTGCGGCATCCTCACTC 60.520 63.158 17.00 17.00 46.38 3.51
3655 3714 0.891373 AGATGAGGGCGATCATACCG 59.109 55.000 4.06 0.00 40.02 4.02
3671 3730 1.234615 ACCGAAAATCCAGGCACGTG 61.235 55.000 12.28 12.28 0.00 4.49
3705 3764 0.179051 CCTCCATGCTCTGCTTCTCC 60.179 60.000 0.00 0.00 0.00 3.71
3948 4007 1.577736 ACTGCCCTGCTATCTTCAGT 58.422 50.000 0.00 0.00 0.00 3.41
3954 4013 3.452474 CCCTGCTATCTTCAGTTCTTCG 58.548 50.000 0.00 0.00 0.00 3.79
3956 4015 4.109050 CCTGCTATCTTCAGTTCTTCGTC 58.891 47.826 0.00 0.00 0.00 4.20
3957 4016 4.109050 CTGCTATCTTCAGTTCTTCGTCC 58.891 47.826 0.00 0.00 0.00 4.79
3967 4027 0.391661 TTCTTCGTCCTGGCATGAGC 60.392 55.000 0.00 0.00 41.10 4.26
3990 4050 0.455633 CACTCCTTGCTTGCGATTGC 60.456 55.000 0.00 0.00 43.20 3.56
4048 4108 2.347697 TCATGGACGACAACTTCTCG 57.652 50.000 0.00 0.00 37.17 4.04
4063 4123 2.561733 TCTCGACCATCATCAACGTC 57.438 50.000 0.00 0.00 0.00 4.34
4156 4216 1.195448 GCACTCATGGTCAACTTCGTG 59.805 52.381 0.00 0.00 0.00 4.35
4159 4219 2.069273 CTCATGGTCAACTTCGTGTCC 58.931 52.381 0.00 0.00 0.00 4.02
4177 4237 0.999406 CCGCATCTTTCACAGGTACG 59.001 55.000 0.00 0.00 0.00 3.67
4178 4238 0.370273 CGCATCTTTCACAGGTACGC 59.630 55.000 0.00 0.00 0.00 4.42
4179 4239 1.438651 GCATCTTTCACAGGTACGCA 58.561 50.000 0.00 0.00 0.00 5.24
4180 4240 1.128692 GCATCTTTCACAGGTACGCAC 59.871 52.381 0.00 0.00 0.00 5.34
4181 4241 2.412870 CATCTTTCACAGGTACGCACA 58.587 47.619 0.00 0.00 0.00 4.57
4204 4266 6.015940 ACAACCTGAAACTCCATTGATTCTTC 60.016 38.462 0.00 0.00 0.00 2.87
4206 4268 6.251471 ACCTGAAACTCCATTGATTCTTCAT 58.749 36.000 0.00 0.00 0.00 2.57
4212 4283 8.585471 AAACTCCATTGATTCTTCATACATGT 57.415 30.769 2.69 2.69 0.00 3.21
4233 4304 6.716934 TGTCATCTCCTGGTATTCTCTTAC 57.283 41.667 0.00 0.00 0.00 2.34
4238 4309 5.374921 TCTCCTGGTATTCTCTTACGTAGG 58.625 45.833 0.00 0.00 32.57 3.18
4240 4311 6.100279 TCTCCTGGTATTCTCTTACGTAGGTA 59.900 42.308 4.48 0.00 32.87 3.08
4242 4313 5.824624 CCTGGTATTCTCTTACGTAGGTACA 59.175 44.000 4.48 0.00 0.00 2.90
4244 4315 7.014038 CCTGGTATTCTCTTACGTAGGTACATT 59.986 40.741 4.48 0.00 0.00 2.71
4245 4316 7.709947 TGGTATTCTCTTACGTAGGTACATTG 58.290 38.462 4.48 0.00 0.00 2.82
4322 4393 2.290260 GGTGAACCTGATCATGGACACA 60.290 50.000 25.42 16.86 37.25 3.72
4325 4396 3.265791 GAACCTGATCATGGACACACTC 58.734 50.000 15.51 2.44 0.00 3.51
4331 4402 3.695606 ATGGACACACTCGGCGCT 61.696 61.111 7.64 0.00 0.00 5.92
4499 4570 4.416738 GGGGACAGCCTCCTGCAC 62.417 72.222 0.00 0.00 43.02 4.57
4595 4666 4.509970 CCTACACACAAGATCGAAACACAA 59.490 41.667 0.00 0.00 0.00 3.33
4596 4667 4.955925 ACACACAAGATCGAAACACAAA 57.044 36.364 0.00 0.00 0.00 2.83
4597 4668 5.499139 ACACACAAGATCGAAACACAAAT 57.501 34.783 0.00 0.00 0.00 2.32
4598 4669 5.890334 ACACACAAGATCGAAACACAAATT 58.110 33.333 0.00 0.00 0.00 1.82
4603 4674 8.567948 ACACAAGATCGAAACACAAATTAATCT 58.432 29.630 0.00 0.00 0.00 2.40
4605 4676 8.237267 ACAAGATCGAAACACAAATTAATCTCC 58.763 33.333 0.00 0.00 0.00 3.71
4609 4680 6.595794 TCGAAACACAAATTAATCTCCGAAC 58.404 36.000 0.00 0.00 0.00 3.95
4612 4683 7.268447 CGAAACACAAATTAATCTCCGAACTTC 59.732 37.037 0.00 0.00 0.00 3.01
4613 4684 6.496338 ACACAAATTAATCTCCGAACTTCC 57.504 37.500 0.00 0.00 0.00 3.46
4699 4771 1.133253 CAACGTCTTCAGCGGCATG 59.867 57.895 1.45 0.00 0.00 4.06
4977 5049 7.489574 TTTGAAGACTTTTTGCTGTTGTTTT 57.510 28.000 0.00 0.00 0.00 2.43
5009 5081 9.997172 AGGAAGAGGAAAATATGTTAATCCTTT 57.003 29.630 9.81 3.55 40.53 3.11
5092 5164 1.936547 GCAATGACCATTCCGAGAGAC 59.063 52.381 0.00 0.00 0.00 3.36
5105 5177 5.277857 TCCGAGAGACTTGAGTTTCTTTT 57.722 39.130 5.76 0.00 39.28 2.27
5240 5313 4.116747 AGAGAGATGAGTTTTAGCCACG 57.883 45.455 0.00 0.00 0.00 4.94
5273 5346 6.420903 GGATTGTTGCTAAAAGTCCAAAACTC 59.579 38.462 0.00 0.00 37.17 3.01
5281 5354 6.293790 GCTAAAAGTCCAAAACTCGTTACCAT 60.294 38.462 0.00 0.00 37.17 3.55
5282 5355 6.459670 AAAAGTCCAAAACTCGTTACCATT 57.540 33.333 0.00 0.00 37.17 3.16
5283 5356 5.432885 AAGTCCAAAACTCGTTACCATTG 57.567 39.130 0.00 0.00 37.17 2.82
5284 5357 4.710324 AGTCCAAAACTCGTTACCATTGA 58.290 39.130 0.00 0.00 30.02 2.57
5285 5358 5.127491 AGTCCAAAACTCGTTACCATTGAA 58.873 37.500 0.00 0.00 30.02 2.69
5286 5359 5.008316 AGTCCAAAACTCGTTACCATTGAAC 59.992 40.000 0.00 0.00 30.02 3.18
5287 5360 5.008316 GTCCAAAACTCGTTACCATTGAACT 59.992 40.000 0.00 0.00 0.00 3.01
5292 5365 4.307432 ACTCGTTACCATTGAACTGACTG 58.693 43.478 0.00 0.00 0.00 3.51
5302 5375 0.321919 GAACTGACTGCATGCCCTCA 60.322 55.000 16.68 14.15 0.00 3.86
5410 5483 2.781757 TGATCTCATTGCCCCTCTCATT 59.218 45.455 0.00 0.00 0.00 2.57
5429 5502 2.759795 GGAGTGCCAAGGCTCCTT 59.240 61.111 12.96 0.00 45.78 3.36
5461 5534 4.810191 AATCTTCGTCTGGCTACTCTTT 57.190 40.909 0.00 0.00 0.00 2.52
5543 5620 1.342672 CCCCCGGTGTGCTAGGTTAT 61.343 60.000 0.00 0.00 0.00 1.89
5567 5644 0.908198 AGACTCCATGCACCTCTTCC 59.092 55.000 0.00 0.00 0.00 3.46
5569 5646 1.280421 GACTCCATGCACCTCTTCCTT 59.720 52.381 0.00 0.00 0.00 3.36
5622 5700 2.289569 GCATTGGGATTCTGCCACAAAA 60.290 45.455 0.00 0.00 37.69 2.44
5706 5785 2.715749 TGGTCCTCATGGCAATACTG 57.284 50.000 0.00 0.00 0.00 2.74
5767 5846 5.934625 AGGAGTGTTGATCAATGTTCTGTAC 59.065 40.000 12.12 0.00 0.00 2.90
5778 5857 7.786046 TCAATGTTCTGTACTAACCCTTAGA 57.214 36.000 8.56 0.00 36.73 2.10
5782 5861 7.364149 TGTTCTGTACTAACCCTTAGAAACA 57.636 36.000 8.56 0.00 36.73 2.83
5863 5942 0.888619 CTTCTCGTGCCACTCCTACA 59.111 55.000 0.00 0.00 0.00 2.74
5898 5977 3.304928 GCACCATGCCTATGTAATTCTGC 60.305 47.826 0.00 0.00 37.42 4.26
5930 6009 1.940613 CGGCAGCCCTTTGAGTAATAC 59.059 52.381 5.63 0.00 0.00 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 5.219343 TCTACTCATTGATGATTGCGGAT 57.781 39.130 0.00 0.00 36.02 4.18
33 34 5.600484 CCTCCCATGTTCTACTTCTACTCAT 59.400 44.000 0.00 0.00 0.00 2.90
34 35 4.956700 CCTCCCATGTTCTACTTCTACTCA 59.043 45.833 0.00 0.00 0.00 3.41
38 39 3.039011 GGCCTCCCATGTTCTACTTCTA 58.961 50.000 0.00 0.00 0.00 2.10
117 118 2.303022 AGAGAAGAATCGGGCAAGACAA 59.697 45.455 0.00 0.00 0.00 3.18
129 130 5.174395 CGAAGGTCATCACAAGAGAAGAAT 58.826 41.667 0.00 0.00 0.00 2.40
144 145 1.079405 GCGGGATCAACGAAGGTCA 60.079 57.895 12.48 0.00 0.00 4.02
220 224 1.198094 TTCCCCACAGCTCATCGGAA 61.198 55.000 0.00 0.00 0.00 4.30
306 318 3.126001 TCGCTTTGTCTTCCTCATGTT 57.874 42.857 0.00 0.00 0.00 2.71
334 350 7.742767 ACTTAATACCTAATCTAAATGGCCGT 58.257 34.615 0.00 0.00 0.00 5.68
358 375 0.960286 GTCCGGCTCTGGAGGTATAC 59.040 60.000 0.00 0.00 39.14 1.47
501 518 8.321650 ACATTTTCACAACAACTCAAACAAAT 57.678 26.923 0.00 0.00 0.00 2.32
504 521 8.031864 ACATACATTTTCACAACAACTCAAACA 58.968 29.630 0.00 0.00 0.00 2.83
573 590 0.955428 GTTCGCAGACTGGATGCCAA 60.955 55.000 4.26 0.00 40.67 4.52
577 594 0.179100 ATCCGTTCGCAGACTGGATG 60.179 55.000 4.26 0.00 38.01 3.51
578 595 0.179100 CATCCGTTCGCAGACTGGAT 60.179 55.000 4.26 0.00 39.99 3.41
579 598 1.215382 CATCCGTTCGCAGACTGGA 59.785 57.895 4.26 0.00 34.32 3.86
582 601 2.507102 CGCATCCGTTCGCAGACT 60.507 61.111 0.00 0.00 34.32 3.24
586 605 4.155733 ATCCCGCATCCGTTCGCA 62.156 61.111 0.00 0.00 0.00 5.10
590 609 1.762708 AATTTCATCCCGCATCCGTT 58.237 45.000 0.00 0.00 0.00 4.44
603 622 5.309638 TCCAACGGTGATCTGTAAATTTCA 58.690 37.500 0.00 0.00 32.25 2.69
611 630 1.902508 ACATCTCCAACGGTGATCTGT 59.097 47.619 0.00 0.00 34.23 3.41
613 632 1.482593 GGACATCTCCAACGGTGATCT 59.517 52.381 0.00 0.00 34.23 2.75
615 634 1.573108 AGGACATCTCCAACGGTGAT 58.427 50.000 0.00 0.00 39.39 3.06
617 636 2.028476 TGTAAGGACATCTCCAACGGTG 60.028 50.000 0.00 0.00 39.39 4.94
618 637 2.028385 GTGTAAGGACATCTCCAACGGT 60.028 50.000 0.00 0.00 39.39 4.83
640 659 1.550976 GGAGATTGGGTTCGAGTGTCT 59.449 52.381 0.00 0.00 0.00 3.41
670 691 7.385478 CCTTCCGTAAGCCTAATAAGAATTCTC 59.615 40.741 8.78 0.00 0.00 2.87
671 692 7.217906 CCTTCCGTAAGCCTAATAAGAATTCT 58.782 38.462 0.88 0.88 0.00 2.40
672 693 6.427242 CCCTTCCGTAAGCCTAATAAGAATTC 59.573 42.308 0.00 0.00 0.00 2.17
674 695 5.221864 CCCCTTCCGTAAGCCTAATAAGAAT 60.222 44.000 0.00 0.00 0.00 2.40
675 696 4.102054 CCCCTTCCGTAAGCCTAATAAGAA 59.898 45.833 0.00 0.00 0.00 2.52
676 697 3.644738 CCCCTTCCGTAAGCCTAATAAGA 59.355 47.826 0.00 0.00 0.00 2.10
677 698 3.644738 TCCCCTTCCGTAAGCCTAATAAG 59.355 47.826 0.00 0.00 0.00 1.73
680 701 2.047830 CTCCCCTTCCGTAAGCCTAAT 58.952 52.381 0.00 0.00 0.00 1.73
795 817 7.665559 GTGGATCAGCCCATATACTTCATAAAA 59.334 37.037 0.00 0.00 38.66 1.52
801 823 3.327757 TGGTGGATCAGCCCATATACTTC 59.672 47.826 0.00 0.00 38.66 3.01
804 826 3.521126 AGATGGTGGATCAGCCCATATAC 59.479 47.826 9.31 0.37 39.06 1.47
845 870 7.013655 GGTATTCTTTCATACATGCCACAATCT 59.986 37.037 0.00 0.00 32.02 2.40
858 883 8.383175 GTCCTATTCCCATGGTATTCTTTCATA 58.617 37.037 11.73 0.00 0.00 2.15
876 907 6.410540 ACATTGAAGACTTGGAGTCCTATTC 58.589 40.000 11.33 6.80 46.18 1.75
894 925 5.401531 ACCTAGAAGCGTCTAAACATTGA 57.598 39.130 10.65 0.00 35.89 2.57
898 929 5.251764 AGACTACCTAGAAGCGTCTAAACA 58.748 41.667 10.65 0.00 35.89 2.83
902 933 4.440880 GTGAGACTACCTAGAAGCGTCTA 58.559 47.826 9.11 9.11 35.29 2.59
923 960 3.136809 TCTCCTACTGCTTCTCTATCCGT 59.863 47.826 0.00 0.00 0.00 4.69
924 961 3.745799 TCTCCTACTGCTTCTCTATCCG 58.254 50.000 0.00 0.00 0.00 4.18
936 973 3.685139 TGCAGTCCTTTTCTCCTACTG 57.315 47.619 0.00 0.00 40.38 2.74
945 982 4.156455 TCAACTCTCTTGCAGTCCTTTT 57.844 40.909 0.00 0.00 0.00 2.27
988 1028 7.355017 CGTAAATAAGACATGGTTGATGATGG 58.645 38.462 0.00 0.00 35.80 3.51
1023 1063 7.708752 ACATCGAAGGTCTTGAGAAAATCTATC 59.291 37.037 0.00 0.00 0.00 2.08
1026 1066 5.641209 CACATCGAAGGTCTTGAGAAAATCT 59.359 40.000 0.00 0.00 0.00 2.40
1047 1087 2.435938 GGATTCTTCGCCGGCACA 60.436 61.111 28.98 9.54 0.00 4.57
1205 1248 2.104111 GGGTGTATCATCGGATGGACAA 59.896 50.000 20.75 4.39 34.89 3.18
1214 1257 2.159639 CGAGATCGAGGGTGTATCATCG 60.160 54.545 0.00 0.00 43.02 3.84
1239 1282 1.733399 GCTCGGCGAAGAAGAACGT 60.733 57.895 12.13 0.00 0.00 3.99
1249 1292 1.874231 CAGTAGATCTTAGCTCGGCGA 59.126 52.381 10.14 10.14 0.00 5.54
1260 1303 0.176680 CGTTGCAGGGCAGTAGATCT 59.823 55.000 0.00 0.00 40.61 2.75
1301 1350 7.951347 AATCAGTTTTTAGATCAAGAGCCAT 57.049 32.000 0.00 0.00 0.00 4.40
1302 1351 8.862325 TTAATCAGTTTTTAGATCAAGAGCCA 57.138 30.769 0.00 0.00 0.00 4.75
1303 1352 9.943163 GATTAATCAGTTTTTAGATCAAGAGCC 57.057 33.333 10.68 0.00 0.00 4.70
1304 1353 9.643652 CGATTAATCAGTTTTTAGATCAAGAGC 57.356 33.333 15.57 0.00 0.00 4.09
1306 1355 9.884636 TCCGATTAATCAGTTTTTAGATCAAGA 57.115 29.630 15.57 0.00 0.00 3.02
1339 1388 4.735985 CAGATCGGAAATTGATTGCAACA 58.264 39.130 0.00 0.00 36.72 3.33
1352 1401 0.179111 GTCGTCCATGCAGATCGGAA 60.179 55.000 0.00 0.00 0.00 4.30
1354 1403 0.873312 CTGTCGTCCATGCAGATCGG 60.873 60.000 0.00 0.00 32.39 4.18
1355 1404 0.179127 ACTGTCGTCCATGCAGATCG 60.179 55.000 4.53 0.00 34.60 3.69
1360 1409 0.315886 ACGTAACTGTCGTCCATGCA 59.684 50.000 0.00 0.00 36.85 3.96
1363 1412 1.250328 TCCACGTAACTGTCGTCCAT 58.750 50.000 0.00 0.00 39.55 3.41
1397 1454 3.000078 TCGCTAACAAATTTCGATCGCTC 60.000 43.478 11.09 0.00 0.00 5.03
1403 1460 3.006940 AGCCATCGCTAACAAATTTCGA 58.993 40.909 1.97 1.97 46.08 3.71
1435 1494 8.354426 GGAGGTTACTAATACAGTCAATCTCTC 58.646 40.741 0.00 0.00 38.80 3.20
1436 1495 7.013464 CGGAGGTTACTAATACAGTCAATCTCT 59.987 40.741 0.00 0.00 38.80 3.10
1460 1519 1.940613 GCCAGCTTAATTCTACCACGG 59.059 52.381 0.00 0.00 0.00 4.94
1555 1614 0.524392 CCTTCTGCACGTAGAGAGCG 60.524 60.000 0.00 0.00 0.00 5.03
1603 1662 2.741985 TTGCCGGTGATGCAGACG 60.742 61.111 1.90 0.00 40.35 4.18
1633 1692 7.639113 TGGACATAAATCAAACTAATGGGAC 57.361 36.000 0.00 0.00 0.00 4.46
1690 1749 4.415783 GGGCACCGGAGAAACATT 57.584 55.556 9.46 0.00 40.86 2.71
1771 1830 2.519541 AGCTCCTCGGCGCTGATA 60.520 61.111 21.31 10.31 34.64 2.15
2171 2230 4.243793 TCTCGATCTTCTTCTTCTCCCT 57.756 45.455 0.00 0.00 0.00 4.20
2398 2457 2.589157 CCCGTCCTGCACCTTGGTA 61.589 63.158 0.00 0.00 0.00 3.25
2419 2478 2.581354 GTCACCAGCATCCTCGCT 59.419 61.111 0.00 0.00 45.21 4.93
2467 2526 1.670949 GGCTCAGCGTCTCCATCAGA 61.671 60.000 0.00 0.00 0.00 3.27
2728 2787 4.103103 CTGAGCGTGACGGCGAGA 62.103 66.667 16.62 0.00 38.18 4.04
3026 3085 2.032681 GGTCTTGCCGTCCTTGCT 59.967 61.111 0.00 0.00 0.00 3.91
3655 3714 1.523758 AGACACGTGCCTGGATTTTC 58.476 50.000 17.22 1.86 0.00 2.29
3671 3730 4.802248 GCATGGAGGATGGTGATAGAAGAC 60.802 50.000 0.00 0.00 31.99 3.01
3705 3764 1.328680 CCATCGGCATCAACTTCTTCG 59.671 52.381 0.00 0.00 0.00 3.79
3746 3805 3.364441 GCCATCACCTGCACGCAA 61.364 61.111 0.00 0.00 0.00 4.85
3948 4007 0.391661 GCTCATGCCAGGACGAAGAA 60.392 55.000 0.00 0.00 0.00 2.52
3954 4013 1.065854 AGTGTAAGCTCATGCCAGGAC 60.066 52.381 0.00 0.00 40.80 3.85
3956 4015 1.661341 GAGTGTAAGCTCATGCCAGG 58.339 55.000 0.00 0.00 40.80 4.45
3957 4016 1.209019 AGGAGTGTAAGCTCATGCCAG 59.791 52.381 0.00 0.00 40.80 4.85
3967 4027 1.795768 TCGCAAGCAAGGAGTGTAAG 58.204 50.000 0.00 0.00 37.18 2.34
3990 4050 1.068333 CCTTGGCAACCTGACAATTCG 60.068 52.381 0.00 0.00 45.60 3.34
3996 4056 1.239347 GTTCTCCTTGGCAACCTGAC 58.761 55.000 0.00 0.00 0.00 3.51
4048 4108 0.739462 TGGCGACGTTGATGATGGTC 60.739 55.000 7.08 0.00 0.00 4.02
4063 4123 3.508840 GAGCGTCCCCATTTGGCG 61.509 66.667 0.00 0.00 0.00 5.69
4156 4216 2.000447 GTACCTGTGAAAGATGCGGAC 59.000 52.381 0.00 0.00 0.00 4.79
4159 4219 0.370273 GCGTACCTGTGAAAGATGCG 59.630 55.000 0.00 0.00 0.00 4.73
4177 4237 2.622942 TCAATGGAGTTTCAGGTTGTGC 59.377 45.455 0.00 0.00 0.00 4.57
4178 4238 5.242393 AGAATCAATGGAGTTTCAGGTTGTG 59.758 40.000 0.00 0.00 0.00 3.33
4179 4239 5.388654 AGAATCAATGGAGTTTCAGGTTGT 58.611 37.500 0.00 0.00 0.00 3.32
4180 4240 5.972107 AGAATCAATGGAGTTTCAGGTTG 57.028 39.130 0.00 0.00 0.00 3.77
4181 4241 6.070656 TGAAGAATCAATGGAGTTTCAGGTT 58.929 36.000 0.00 0.00 30.99 3.50
4204 4266 7.002250 AGAATACCAGGAGATGACATGTATG 57.998 40.000 0.00 0.00 0.00 2.39
4206 4268 6.377080 AGAGAATACCAGGAGATGACATGTA 58.623 40.000 0.00 0.00 0.00 2.29
4212 4283 5.446860 ACGTAAGAGAATACCAGGAGATGA 58.553 41.667 0.00 0.00 43.62 2.92
4233 4304 9.405587 ACATTTCAAATTTTCAATGTACCTACG 57.594 29.630 17.56 0.00 37.94 3.51
4499 4570 0.165944 GTTCCTTGTCGCCGTTCATG 59.834 55.000 0.00 0.00 0.00 3.07
4595 4666 6.884295 TGTCAATGGAAGTTCGGAGATTAATT 59.116 34.615 0.00 0.00 35.04 1.40
4596 4667 6.316390 GTGTCAATGGAAGTTCGGAGATTAAT 59.684 38.462 0.00 0.00 35.04 1.40
4597 4668 5.642063 GTGTCAATGGAAGTTCGGAGATTAA 59.358 40.000 0.00 0.00 35.04 1.40
4598 4669 5.046591 AGTGTCAATGGAAGTTCGGAGATTA 60.047 40.000 0.00 0.00 35.04 1.75
4603 4674 3.485463 AAGTGTCAATGGAAGTTCGGA 57.515 42.857 0.00 0.00 0.00 4.55
4605 4676 4.527564 GTGAAAGTGTCAATGGAAGTTCG 58.472 43.478 0.00 0.00 38.23 3.95
4609 4680 4.339247 ACAAGGTGAAAGTGTCAATGGAAG 59.661 41.667 0.00 0.00 38.23 3.46
4612 4683 3.631686 TCACAAGGTGAAAGTGTCAATGG 59.368 43.478 0.00 0.00 39.78 3.16
4613 4684 4.601019 GTCACAAGGTGAAAGTGTCAATG 58.399 43.478 0.00 0.00 44.49 2.82
4699 4771 0.036022 AGAAGACCCAGCTGCTGAAC 59.964 55.000 30.10 18.99 32.44 3.18
4939 5011 0.040514 TTCAAAATCACACGGCGCTG 60.041 50.000 16.39 16.39 0.00 5.18
5009 5081 4.168014 GCATGCAAAGATCGTTTTCATCA 58.832 39.130 14.21 0.00 0.00 3.07
5010 5082 4.168014 TGCATGCAAAGATCGTTTTCATC 58.832 39.130 20.30 0.00 0.00 2.92
5011 5083 4.171005 CTGCATGCAAAGATCGTTTTCAT 58.829 39.130 22.88 0.00 0.00 2.57
5105 5177 7.840342 AGCACAACAAATAAACAATGACAAA 57.160 28.000 0.00 0.00 0.00 2.83
5213 5286 8.634444 GTGGCTAAAACTCATCTCTCTATTAGA 58.366 37.037 0.00 0.00 0.00 2.10
5240 5313 1.544724 TAGCAACAATCCACCTTGGC 58.455 50.000 0.00 0.00 37.47 4.52
5273 5346 2.805671 TGCAGTCAGTTCAATGGTAACG 59.194 45.455 0.00 0.00 42.51 3.18
5281 5354 0.111061 AGGGCATGCAGTCAGTTCAA 59.889 50.000 21.36 0.00 0.00 2.69
5282 5355 0.321919 GAGGGCATGCAGTCAGTTCA 60.322 55.000 21.36 0.00 0.00 3.18
5283 5356 0.321919 TGAGGGCATGCAGTCAGTTC 60.322 55.000 21.36 6.22 0.00 3.01
5284 5357 0.322277 CTGAGGGCATGCAGTCAGTT 60.322 55.000 28.16 6.07 33.20 3.16
5285 5358 1.298993 CTGAGGGCATGCAGTCAGT 59.701 57.895 28.16 6.42 33.20 3.41
5286 5359 2.113433 GCTGAGGGCATGCAGTCAG 61.113 63.158 30.47 30.47 41.35 3.51
5287 5360 2.045634 GCTGAGGGCATGCAGTCA 60.046 61.111 21.36 19.08 41.35 3.41
5302 5375 2.490217 CGTTGATCGTCCTCCGCT 59.510 61.111 0.00 0.00 36.19 5.52
5311 5384 1.067425 TGGTGTAGGAACCGTTGATCG 60.067 52.381 0.00 0.00 43.73 3.69
5384 5457 3.462579 AGAGGGGCAATGAGATCATTCTT 59.537 43.478 5.09 0.00 44.10 2.52
5386 5459 3.181447 TGAGAGGGGCAATGAGATCATTC 60.181 47.826 5.09 1.82 44.10 2.67
5429 5502 4.083324 CCAGACGAAGATTTTTAGCTTGCA 60.083 41.667 0.00 0.00 0.00 4.08
5461 5534 1.760613 CTGGTATTGAGGCGGTCCTTA 59.239 52.381 0.00 0.00 44.46 2.69
5543 5620 1.552337 GAGGTGCATGGAGTCTTCAGA 59.448 52.381 0.00 0.00 0.00 3.27
5622 5700 3.504906 CCAAAGCTCAGTGATGTCATTGT 59.495 43.478 0.00 0.00 35.43 2.71
5706 5785 1.976474 TGCCGCCCAAATCTTCCAC 60.976 57.895 0.00 0.00 0.00 4.02
5727 5806 6.317789 ACACTCCTAAACAACATGTCATTG 57.682 37.500 0.00 0.00 0.00 2.82
5853 5932 1.202348 CGTGCAGAGATGTAGGAGTGG 60.202 57.143 0.00 0.00 0.00 4.00
5930 6009 0.183731 GGAGCTCCCCCACCTAAATG 59.816 60.000 23.19 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.