Multiple sequence alignment - TraesCS5D01G310500

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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 TraesCS5D01G310500 chr5D 100.000 4195 0 0 1 4195 407022876 407018682 0.000000e+00 7747.0
1 TraesCS5D01G310500 chr5D 84.119 1039 106 24 1070 2073 407108677 407107663 0.000000e+00 950.0
2 TraesCS5D01G310500 chr5D 85.890 815 78 12 2404 3204 407107032 407106241 0.000000e+00 833.0
3 TraesCS5D01G310500 chr5D 84.940 332 30 5 2082 2394 407107439 407107109 6.770000e-83 318.0
4 TraesCS5D01G310500 chr5A 91.440 2570 110 31 1588 4102 512600271 512602785 0.000000e+00 3426.0
5 TraesCS5D01G310500 chr5A 87.164 1823 133 37 1447 3201 512458728 512460517 0.000000e+00 1977.0
6 TraesCS5D01G310500 chr5A 88.889 693 32 9 701 1376 512599608 512600272 0.000000e+00 811.0
7 TraesCS5D01G310500 chr5A 88.000 450 41 4 1 437 512582916 512583365 1.730000e-143 520.0
8 TraesCS5D01G310500 chr5B 92.789 1567 84 16 1571 3115 488111812 488113371 0.000000e+00 2241.0
9 TraesCS5D01G310500 chr5B 88.130 1786 124 33 1447 3181 488014925 488016673 0.000000e+00 2043.0
10 TraesCS5D01G310500 chr5B 91.373 1391 93 11 1 1376 488110436 488111814 0.000000e+00 1879.0
11 TraesCS5D01G310500 chr5B 87.173 382 29 3 1060 1426 488014557 488014933 2.330000e-112 416.0
12 TraesCS5D01G310500 chr2A 81.833 611 89 12 2393 2999 30858336 30858928 1.050000e-135 494.0
13 TraesCS5D01G310500 chr2A 80.861 627 99 15 2393 3013 30765790 30766401 1.360000e-129 473.0
14 TraesCS5D01G310500 chr2A 81.535 417 46 15 1 393 680259649 680259240 8.760000e-82 315.0
15 TraesCS5D01G310500 chr2A 85.950 242 29 3 1097 1336 30764403 30764641 1.940000e-63 254.0
16 TraesCS5D01G310500 chr2A 80.488 328 36 14 40 341 680256048 680255723 4.220000e-55 226.0
17 TraesCS5D01G310500 chr2A 95.385 65 3 0 395 459 41172399 41172463 2.060000e-18 104.0
18 TraesCS5D01G310500 chr2D 79.971 679 113 13 2393 3066 28896075 28896735 2.930000e-131 479.0
19 TraesCS5D01G310500 chr2D 85.463 227 30 1 1111 1337 28827641 28827864 2.520000e-57 233.0
20 TraesCS5D01G310500 chr2B 79.853 680 108 15 2393 3066 46672921 46673577 1.770000e-128 470.0
21 TraesCS5D01G310500 chr2B 78.361 610 110 14 2393 2998 46505454 46506045 3.960000e-100 375.0
22 TraesCS5D01G310500 chr2B 81.842 380 45 10 36 393 640516035 640515658 8.820000e-77 298.0
23 TraesCS5D01G310500 chr2B 80.940 383 46 14 35 393 640513235 640512856 1.150000e-70 278.0
24 TraesCS5D01G310500 chr2B 85.776 232 30 1 1106 1337 46504374 46504602 4.190000e-60 243.0
25 TraesCS5D01G310500 chr2B 94.118 68 4 0 392 459 63186883 63186950 2.060000e-18 104.0
26 TraesCS5D01G310500 chrUn 84.097 371 45 9 36 393 39759712 39760081 3.100000e-91 346.0
27 TraesCS5D01G310500 chr3B 84.097 371 45 8 36 393 289629727 289630096 3.100000e-91 346.0
28 TraesCS5D01G310500 chr3D 82.090 402 58 5 1 393 202502759 202503155 8.690000e-87 331.0
29 TraesCS5D01G310500 chr3D 90.625 64 4 2 1229 1292 511326614 511326553 2.690000e-12 84.2
30 TraesCS5D01G310500 chr3A 81.612 397 53 10 10 393 256750046 256749657 1.130000e-80 311.0
31 TraesCS5D01G310500 chr3A 90.625 64 4 2 1229 1292 647453231 647453170 2.690000e-12 84.2
32 TraesCS5D01G310500 chr1D 80.189 424 51 16 2 393 257054540 257054962 1.910000e-73 287.0
33 TraesCS5D01G310500 chr7A 78.740 381 53 14 32 393 589399806 589399435 3.260000e-56 230.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5D01G310500 chr5D 407018682 407022876 4194 True 7747.000000 7747 100.0000 1 4195 1 chr5D.!!$R1 4194
1 TraesCS5D01G310500 chr5D 407106241 407108677 2436 True 700.333333 950 84.9830 1070 3204 3 chr5D.!!$R2 2134
2 TraesCS5D01G310500 chr5A 512599608 512602785 3177 False 2118.500000 3426 90.1645 701 4102 2 chr5A.!!$F3 3401
3 TraesCS5D01G310500 chr5A 512458728 512460517 1789 False 1977.000000 1977 87.1640 1447 3201 1 chr5A.!!$F1 1754
4 TraesCS5D01G310500 chr5B 488110436 488113371 2935 False 2060.000000 2241 92.0810 1 3115 2 chr5B.!!$F2 3114
5 TraesCS5D01G310500 chr5B 488014557 488016673 2116 False 1229.500000 2043 87.6515 1060 3181 2 chr5B.!!$F1 2121
6 TraesCS5D01G310500 chr2A 30858336 30858928 592 False 494.000000 494 81.8330 2393 2999 1 chr2A.!!$F1 606
7 TraesCS5D01G310500 chr2A 30764403 30766401 1998 False 363.500000 473 83.4055 1097 3013 2 chr2A.!!$F3 1916
8 TraesCS5D01G310500 chr2A 680255723 680259649 3926 True 270.500000 315 81.0115 1 393 2 chr2A.!!$R1 392
9 TraesCS5D01G310500 chr2D 28896075 28896735 660 False 479.000000 479 79.9710 2393 3066 1 chr2D.!!$F2 673
10 TraesCS5D01G310500 chr2B 46672921 46673577 656 False 470.000000 470 79.8530 2393 3066 1 chr2B.!!$F1 673
11 TraesCS5D01G310500 chr2B 46504374 46506045 1671 False 309.000000 375 82.0685 1106 2998 2 chr2B.!!$F3 1892
12 TraesCS5D01G310500 chr2B 640512856 640516035 3179 True 288.000000 298 81.3910 35 393 2 chr2B.!!$R1 358

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
787 812 0.178068 ACGTGACAACAAGCTCAGGT 59.822 50.0 0.00 0.0 32.1 4.00 F
1042 1105 0.676151 GGCTGCTCCCTCACTTTCAG 60.676 60.0 0.00 0.0 0.0 3.02 F
1386 1470 0.953471 TCAAACTTGGTCCCGCATCG 60.953 55.0 0.00 0.0 0.0 3.84 F
3019 6371 0.259065 TCGCATACCAGGAGTCCTCT 59.741 55.0 9.36 0.0 0.0 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2688 5821 0.958382 GCCCGTGCAACCTCATGTTA 60.958 55.000 0.00 0.00 34.69 2.41 R
2934 6068 0.312416 CGTAGAAGAGCCCGATGAGG 59.688 60.000 0.00 0.00 40.63 3.86 R
3079 6431 3.118298 ACCGGACTAAGTACCTCTCTCTC 60.118 52.174 9.46 0.00 0.00 3.20 R
3905 7429 0.323957 AGAGGCAAAGGGAACGTACC 59.676 55.000 1.11 1.11 0.00 3.34 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
77 79 2.558554 AAACCGAGGCAGATCGTCCG 62.559 60.000 4.80 0.00 41.12 4.79
91 93 1.869690 GTCCGCCTGAGCAACTTTC 59.130 57.895 0.00 0.00 39.83 2.62
221 242 2.688446 TCACCACTATAGTGCTTCCTCG 59.312 50.000 24.85 13.08 44.34 4.63
233 254 4.890581 AGTGCTTCCTCGTCTAGTTCATAT 59.109 41.667 0.00 0.00 0.00 1.78
249 270 7.552458 AGTTCATATTTGTAATCGTGCATCA 57.448 32.000 0.00 0.00 0.00 3.07
268 289 5.745294 GCATCACACAATTCATCCATTGTAC 59.255 40.000 0.00 0.00 44.08 2.90
274 299 8.180920 CACACAATTCATCCATTGTACGATTTA 58.819 33.333 0.00 0.00 44.08 1.40
315 340 9.119418 TCAAGATGTGTTCTTCAATGTTTTCTA 57.881 29.630 0.00 0.00 42.98 2.10
319 344 7.857734 TGTGTTCTTCAATGTTTTCTACTCA 57.142 32.000 0.00 0.00 0.00 3.41
349 374 8.531146 TCTGATATTCATGTGTGAGTAGTTTGA 58.469 33.333 0.00 0.00 35.39 2.69
368 393 4.640771 TGATAAGGTATGGATTGAGGCC 57.359 45.455 0.00 0.00 0.00 5.19
374 399 1.141657 GTATGGATTGAGGCCTGAGCA 59.858 52.381 12.00 0.00 42.56 4.26
378 403 1.030457 GATTGAGGCCTGAGCATTGG 58.970 55.000 12.00 0.00 42.56 3.16
382 407 1.000396 AGGCCTGAGCATTGGAACC 60.000 57.895 3.11 0.00 42.56 3.62
392 417 6.266131 TGAGCATTGGAACCCTCTATATTT 57.734 37.500 0.00 0.00 0.00 1.40
393 418 7.387265 TGAGCATTGGAACCCTCTATATTTA 57.613 36.000 0.00 0.00 0.00 1.40
398 423 7.554476 GCATTGGAACCCTCTATATTTATCTCC 59.446 40.741 0.00 0.00 0.00 3.71
439 464 4.077300 TGCAAAGGAGCATATACTCAGG 57.923 45.455 5.32 0.00 40.11 3.86
494 519 7.418337 TCTTAATGTCTATACAAGGCTCACA 57.582 36.000 0.00 0.00 39.58 3.58
506 531 0.729116 GGCTCACATGAACACCATCG 59.271 55.000 0.00 0.00 31.94 3.84
507 532 0.729116 GCTCACATGAACACCATCGG 59.271 55.000 0.00 0.00 31.94 4.18
554 579 7.333174 TGTCACAACATCACAACAATCGTATAT 59.667 33.333 0.00 0.00 0.00 0.86
577 602 0.889186 ATGGTCCAGGTGAAACGCAC 60.889 55.000 0.00 0.00 46.98 5.34
588 613 1.153329 AAACGCACCGTGAACCAGA 60.153 52.632 1.65 0.00 39.99 3.86
619 644 7.972623 AGATCGAGTACAAAATAGAAAGACG 57.027 36.000 0.00 0.00 0.00 4.18
621 646 8.242053 AGATCGAGTACAAAATAGAAAGACGAA 58.758 33.333 0.00 0.00 0.00 3.85
645 670 7.962964 AAGTTAACTCATGAATGAAGAACGA 57.037 32.000 8.95 0.00 36.18 3.85
684 709 0.761802 CACTATGGCCCCCTCTTCTC 59.238 60.000 0.00 0.00 0.00 2.87
715 740 1.721489 GCATTAACACACGTGACTGCG 60.721 52.381 25.01 7.31 37.94 5.18
763 788 0.669318 ACACCAATACTGCGACGTGG 60.669 55.000 0.00 0.00 35.39 4.94
772 797 2.244382 GCGACGTGGAACAACGTG 59.756 61.111 12.13 6.13 43.46 4.49
787 812 0.178068 ACGTGACAACAAGCTCAGGT 59.822 50.000 0.00 0.00 32.10 4.00
794 819 2.369860 ACAACAAGCTCAGGTCAGATGA 59.630 45.455 0.00 0.00 0.00 2.92
835 860 2.173669 CCAGCCACATTAGACCGCG 61.174 63.158 0.00 0.00 0.00 6.46
836 861 2.173669 CAGCCACATTAGACCGCGG 61.174 63.158 26.86 26.86 0.00 6.46
837 862 2.895372 GCCACATTAGACCGCGGG 60.895 66.667 31.76 13.10 0.00 6.13
838 863 2.897207 CCACATTAGACCGCGGGA 59.103 61.111 31.76 11.78 0.00 5.14
839 864 1.227263 CCACATTAGACCGCGGGAG 60.227 63.158 31.76 14.16 0.00 4.30
840 865 1.227263 CACATTAGACCGCGGGAGG 60.227 63.158 31.76 16.01 37.30 4.30
841 866 2.280186 CATTAGACCGCGGGAGGC 60.280 66.667 31.76 15.59 38.69 4.70
842 867 3.547513 ATTAGACCGCGGGAGGCC 61.548 66.667 31.76 12.62 38.94 5.19
851 876 2.124487 CGGGAGGCCGCCAAATTA 60.124 61.111 28.06 0.00 0.00 1.40
852 877 2.186826 CGGGAGGCCGCCAAATTAG 61.187 63.158 28.06 6.89 0.00 1.73
853 878 1.226262 GGGAGGCCGCCAAATTAGA 59.774 57.895 28.06 0.00 0.00 2.10
854 879 1.101635 GGGAGGCCGCCAAATTAGAC 61.102 60.000 28.06 2.86 0.00 2.59
855 880 1.101635 GGAGGCCGCCAAATTAGACC 61.102 60.000 22.24 0.00 0.00 3.85
856 881 1.436983 GAGGCCGCCAAATTAGACCG 61.437 60.000 13.15 0.00 0.00 4.79
857 882 2.407616 GCCGCCAAATTAGACCGC 59.592 61.111 0.00 0.00 0.00 5.68
1042 1105 0.676151 GGCTGCTCCCTCACTTTCAG 60.676 60.000 0.00 0.00 0.00 3.02
1057 1120 5.354513 TCACTTTCAGAGTACTCCGTATCTG 59.645 44.000 19.38 9.96 40.42 2.90
1066 1130 6.015180 AGAGTACTCCGTATCTGGTAGACTAG 60.015 46.154 19.38 0.00 0.00 2.57
1347 1431 1.516423 GGAGGTACTGCCGTCCTTC 59.484 63.158 0.00 0.00 42.57 3.46
1377 1461 6.514376 CGTTTTAACCTAGCATCAAACTTGGT 60.514 38.462 0.00 0.00 43.75 3.67
1380 1464 2.290960 ACCTAGCATCAAACTTGGTCCC 60.291 50.000 0.00 0.00 38.65 4.46
1382 1466 1.212751 GCATCAAACTTGGTCCCGC 59.787 57.895 0.00 0.00 0.00 6.13
1383 1467 1.523154 GCATCAAACTTGGTCCCGCA 61.523 55.000 0.00 0.00 0.00 5.69
1385 1469 1.133025 CATCAAACTTGGTCCCGCATC 59.867 52.381 0.00 0.00 0.00 3.91
1386 1470 0.953471 TCAAACTTGGTCCCGCATCG 60.953 55.000 0.00 0.00 0.00 3.84
1426 1544 4.067896 CAGCACAGATCTACAGTTGGTTT 58.932 43.478 0.00 0.00 0.00 3.27
1427 1545 5.237815 CAGCACAGATCTACAGTTGGTTTA 58.762 41.667 0.00 0.00 0.00 2.01
1430 1548 5.547465 CACAGATCTACAGTTGGTTTACCA 58.453 41.667 0.00 0.00 45.94 3.25
1443 1561 4.069304 TGGTTTACCAGTTGTGTAGATGC 58.931 43.478 0.00 0.00 42.01 3.91
1444 1562 4.069304 GGTTTACCAGTTGTGTAGATGCA 58.931 43.478 0.00 0.00 35.64 3.96
1445 1563 4.700213 GGTTTACCAGTTGTGTAGATGCAT 59.300 41.667 0.00 0.00 35.64 3.96
1446 1564 5.163754 GGTTTACCAGTTGTGTAGATGCATC 60.164 44.000 19.37 19.37 35.64 3.91
1447 1565 3.701205 ACCAGTTGTGTAGATGCATCA 57.299 42.857 27.81 11.65 0.00 3.07
1448 1566 3.603532 ACCAGTTGTGTAGATGCATCAG 58.396 45.455 27.81 6.36 0.00 2.90
1449 1567 3.008375 ACCAGTTGTGTAGATGCATCAGT 59.992 43.478 27.81 11.41 0.00 3.41
1450 1568 4.005650 CCAGTTGTGTAGATGCATCAGTT 58.994 43.478 27.81 10.67 0.00 3.16
1451 1569 4.456911 CCAGTTGTGTAGATGCATCAGTTT 59.543 41.667 27.81 10.30 0.00 2.66
1452 1570 5.388111 CAGTTGTGTAGATGCATCAGTTTG 58.612 41.667 27.81 11.02 0.00 2.93
1453 1571 4.083110 AGTTGTGTAGATGCATCAGTTTGC 60.083 41.667 27.81 11.62 43.07 3.68
1459 1577 2.816087 AGATGCATCAGTTTGCGTTCTT 59.184 40.909 27.81 0.00 45.77 2.52
1474 1593 4.215399 TGCGTTCTTGGATTCAGTTTTAGG 59.785 41.667 0.00 0.00 0.00 2.69
1480 1599 8.841300 GTTCTTGGATTCAGTTTTAGGATATCC 58.159 37.037 14.41 14.41 0.00 2.59
1484 1603 6.326583 TGGATTCAGTTTTAGGATATCCGAGT 59.673 38.462 16.21 1.54 42.08 4.18
1503 1622 5.972382 CCGAGTAACTCTTGCAGATAACTAC 59.028 44.000 0.00 0.00 0.00 2.73
1505 1624 6.689241 CGAGTAACTCTTGCAGATAACTACTG 59.311 42.308 0.00 0.00 38.27 2.74
1506 1625 7.469537 AGTAACTCTTGCAGATAACTACTGT 57.530 36.000 0.00 0.00 37.64 3.55
1507 1626 7.897864 AGTAACTCTTGCAGATAACTACTGTT 58.102 34.615 0.00 0.00 39.98 3.16
1576 1701 1.542472 CATGCATGGCTCAGTTGTTGA 59.458 47.619 19.40 0.00 0.00 3.18
1580 1705 2.730090 GCATGGCTCAGTTGTTGAATCG 60.730 50.000 0.00 0.00 34.81 3.34
1724 1874 5.261040 TCTGATCTGAATTTTTCCCCACT 57.739 39.130 0.00 0.00 0.00 4.00
1726 1876 5.711976 TCTGATCTGAATTTTTCCCCACTTC 59.288 40.000 0.00 0.00 0.00 3.01
2073 4166 8.097078 AGTCTGCTATAGAATCAATCAAATGC 57.903 34.615 3.21 0.00 37.12 3.56
2554 5550 4.559251 GCTACCATATACTCTTGCGATTCG 59.441 45.833 0.62 0.62 0.00 3.34
2688 5821 2.357517 CTGGACGCGGTGCTTCTT 60.358 61.111 12.47 0.00 0.00 2.52
2698 5831 2.699954 CGGTGCTTCTTAACATGAGGT 58.300 47.619 0.00 0.00 0.00 3.85
2934 6068 4.516195 GAGAGCTTCCCGACGGCC 62.516 72.222 8.86 0.00 0.00 6.13
2981 6326 2.129555 ATCGGAAAGCAGCTGGTGGT 62.130 55.000 20.97 10.83 39.08 4.16
3014 6359 0.963856 TGACGTCGCATACCAGGAGT 60.964 55.000 11.62 0.00 0.00 3.85
3019 6371 0.259065 TCGCATACCAGGAGTCCTCT 59.741 55.000 9.36 0.00 0.00 3.69
3066 6418 6.333416 CGTTCAGAGACCAGAATTCAGATAA 58.667 40.000 8.44 0.00 0.00 1.75
3067 6419 6.983307 CGTTCAGAGACCAGAATTCAGATAAT 59.017 38.462 8.44 0.00 0.00 1.28
3068 6420 8.138074 CGTTCAGAGACCAGAATTCAGATAATA 58.862 37.037 8.44 0.00 0.00 0.98
3149 6512 5.192327 CAGTGTTTGGAGAAAGCAGAATT 57.808 39.130 0.00 0.00 28.55 2.17
3284 6656 2.752358 CTCTCTTGGGCTGCCACA 59.248 61.111 22.05 13.20 0.00 4.17
3360 6733 3.157881 GGCCTTGAAAAAGGTAAGAGCT 58.842 45.455 0.00 0.00 42.00 4.09
3436 6809 8.565896 TTTAATGTTGAATGTGTCAGCTCTAT 57.434 30.769 0.00 0.00 38.25 1.98
3437 6810 8.565896 TTAATGTTGAATGTGTCAGCTCTATT 57.434 30.769 0.00 0.00 38.25 1.73
3481 6854 6.293698 TCGATTGATTCATGTCATCCTCATT 58.706 36.000 0.00 0.00 0.00 2.57
3564 6963 6.430864 TGGTGAGAATAGACTCATCTTCTCT 58.569 40.000 9.74 0.00 46.36 3.10
3566 6965 8.055790 TGGTGAGAATAGACTCATCTTCTCTTA 58.944 37.037 9.74 0.00 46.36 2.10
3567 6966 8.567948 GGTGAGAATAGACTCATCTTCTCTTAG 58.432 40.741 11.22 0.00 46.36 2.18
3568 6967 8.076178 GTGAGAATAGACTCATCTTCTCTTAGC 58.924 40.741 11.22 0.00 46.36 3.09
3569 6968 7.777440 TGAGAATAGACTCATCTTCTCTTAGCA 59.223 37.037 11.22 0.00 38.72 3.49
3572 6971 9.410556 GAATAGACTCATCTTCTCTTAGCAATC 57.589 37.037 0.00 0.00 36.29 2.67
3606 7059 0.323725 TGGGAAGAAGGGCAAGATGC 60.324 55.000 0.00 0.00 44.08 3.91
3641 7094 3.483954 GCTGAAGCATGCCCTAGAA 57.516 52.632 15.66 0.00 41.59 2.10
3642 7095 1.020437 GCTGAAGCATGCCCTAGAAC 58.980 55.000 15.66 0.00 41.59 3.01
3660 7113 5.194473 AGAACTGGATCCTAGTAGTGTCA 57.806 43.478 14.23 0.00 0.00 3.58
3716 7169 1.160137 GCCAATATGGTCATCTCGCC 58.840 55.000 0.00 0.00 40.46 5.54
3767 7220 0.991920 TGCCTTCTTCTAACCCCTGG 59.008 55.000 0.00 0.00 0.00 4.45
3771 7224 1.985895 CTTCTTCTAACCCCTGGTGGT 59.014 52.381 1.46 1.46 41.55 4.16
3775 7228 2.608368 TAACCCCTGGTGGTCCCG 60.608 66.667 7.23 0.00 37.76 5.14
3833 7357 8.311650 TCTTATTTGCACTTCTTCTGTTCTAC 57.688 34.615 0.00 0.00 0.00 2.59
3905 7429 1.012486 GGTTCCTGCAGGTAACGACG 61.012 60.000 31.58 4.22 46.39 5.12
3942 7500 3.100817 CTCTGTTCTGTTTTGTGTTGCG 58.899 45.455 0.00 0.00 0.00 4.85
3961 7786 5.801350 TGCGAACTAAAGAATGATCCAAG 57.199 39.130 0.00 0.00 0.00 3.61
4055 7934 8.934825 GCAACATTCAAATACACCACATAAAAT 58.065 29.630 0.00 0.00 0.00 1.82
4083 8902 8.794335 ATTTTGGAGTTAGTTGAAGTCTATCC 57.206 34.615 0.00 0.00 37.60 2.59
4105 8924 5.360714 TCCTTGAGCTTTTTCACAACATTCT 59.639 36.000 0.00 0.00 0.00 2.40
4106 8925 6.044682 CCTTGAGCTTTTTCACAACATTCTT 58.955 36.000 0.00 0.00 0.00 2.52
4111 8930 6.276091 AGCTTTTTCACAACATTCTTCCTTC 58.724 36.000 0.00 0.00 0.00 3.46
4113 8932 7.285401 AGCTTTTTCACAACATTCTTCCTTCTA 59.715 33.333 0.00 0.00 0.00 2.10
4115 8934 9.617975 CTTTTTCACAACATTCTTCCTTCTATC 57.382 33.333 0.00 0.00 0.00 2.08
4117 8936 7.672983 TTCACAACATTCTTCCTTCTATCAC 57.327 36.000 0.00 0.00 0.00 3.06
4118 8937 6.768483 TCACAACATTCTTCCTTCTATCACA 58.232 36.000 0.00 0.00 0.00 3.58
4120 8939 5.639506 ACAACATTCTTCCTTCTATCACACG 59.360 40.000 0.00 0.00 0.00 4.49
4121 8940 5.407407 ACATTCTTCCTTCTATCACACGT 57.593 39.130 0.00 0.00 0.00 4.49
4123 8942 3.232213 TCTTCCTTCTATCACACGTGC 57.768 47.619 17.22 0.00 0.00 5.34
4124 8943 2.560981 TCTTCCTTCTATCACACGTGCA 59.439 45.455 17.22 2.20 0.00 4.57
4125 8944 2.654749 TCCTTCTATCACACGTGCAG 57.345 50.000 17.22 9.02 0.00 4.41
4127 8946 2.094700 TCCTTCTATCACACGTGCAGTC 60.095 50.000 17.22 0.00 0.00 3.51
4128 8947 2.352715 CCTTCTATCACACGTGCAGTCA 60.353 50.000 17.22 0.00 0.00 3.41
4129 8948 3.515630 CTTCTATCACACGTGCAGTCAT 58.484 45.455 17.22 3.07 0.00 3.06
4132 8951 4.610945 TCTATCACACGTGCAGTCATATG 58.389 43.478 17.22 3.63 0.00 1.78
4134 8953 2.606108 TCACACGTGCAGTCATATGTC 58.394 47.619 17.22 0.00 0.00 3.06
4135 8954 2.029470 TCACACGTGCAGTCATATGTCA 60.029 45.455 17.22 0.00 0.00 3.58
4137 8956 2.736721 ACACGTGCAGTCATATGTCAAC 59.263 45.455 17.22 0.00 0.00 3.18
4138 8957 2.995939 CACGTGCAGTCATATGTCAACT 59.004 45.455 0.82 0.00 0.00 3.16
4141 8960 3.679502 CGTGCAGTCATATGTCAACTGAA 59.320 43.478 21.25 11.94 42.37 3.02
4142 8961 4.330894 CGTGCAGTCATATGTCAACTGAAT 59.669 41.667 21.25 0.00 42.37 2.57
4143 8962 5.519927 CGTGCAGTCATATGTCAACTGAATA 59.480 40.000 21.25 8.32 42.37 1.75
4146 8965 9.045223 GTGCAGTCATATGTCAACTGAATAATA 57.955 33.333 21.25 3.38 42.37 0.98
4147 8966 9.612066 TGCAGTCATATGTCAACTGAATAATAA 57.388 29.630 21.25 1.52 42.37 1.40
4192 9011 9.541143 AACAAAAATACTTTACCAATTGACTGG 57.459 29.630 7.12 0.00 42.68 4.00
4194 9013 9.927668 CAAAAATACTTTACCAATTGACTGGAT 57.072 29.630 7.12 0.00 38.96 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 49 1.819305 GCCTCGGTTTCCATGCCATAT 60.819 52.381 0.00 0.00 0.00 1.78
77 79 3.119352 CCCTTTATGAAAGTTGCTCAGGC 60.119 47.826 0.00 0.00 36.77 4.85
91 93 3.838244 TTCGAGATGGTCCCCTTTATG 57.162 47.619 0.00 0.00 0.00 1.90
221 242 8.126871 TGCACGATTACAAATATGAACTAGAC 57.873 34.615 0.00 0.00 0.00 2.59
268 289 9.992910 TCTTGAAGATTGATTGATTGTAAATCG 57.007 29.630 0.00 0.00 36.93 3.34
274 299 8.118976 ACACATCTTGAAGATTGATTGATTGT 57.881 30.769 17.86 5.70 31.32 2.71
319 344 8.868103 ACTACTCACACATGAATATCAGATCAT 58.132 33.333 0.00 0.00 36.74 2.45
329 354 8.103305 ACCTTATCAAACTACTCACACATGAAT 58.897 33.333 0.00 0.00 33.30 2.57
331 356 7.004555 ACCTTATCAAACTACTCACACATGA 57.995 36.000 0.00 0.00 0.00 3.07
349 374 4.242811 TCAGGCCTCAATCCATACCTTAT 58.757 43.478 0.00 0.00 0.00 1.73
368 393 3.853355 ATAGAGGGTTCCAATGCTCAG 57.147 47.619 0.00 0.00 0.00 3.35
374 399 8.997301 AGGAGATAAATATAGAGGGTTCCAAT 57.003 34.615 0.00 0.00 0.00 3.16
392 417 7.878127 ACAAAATCGAACAAGAGAAAGGAGATA 59.122 33.333 0.00 0.00 0.00 1.98
393 418 6.712547 ACAAAATCGAACAAGAGAAAGGAGAT 59.287 34.615 0.00 0.00 0.00 2.75
398 423 5.273170 TGCACAAAATCGAACAAGAGAAAG 58.727 37.500 0.00 0.00 0.00 2.62
410 435 2.420628 TGCTCCTTTGCACAAAATCG 57.579 45.000 0.00 0.00 38.12 3.34
439 464 8.667076 TTCAACCAAAGGTAGAGTAGTTTTAC 57.333 34.615 0.00 0.00 33.12 2.01
474 499 6.239217 TCATGTGAGCCTTGTATAGACATT 57.761 37.500 0.00 0.00 34.86 2.71
476 501 5.046663 TGTTCATGTGAGCCTTGTATAGACA 60.047 40.000 0.00 0.00 0.00 3.41
480 505 4.019771 TGGTGTTCATGTGAGCCTTGTATA 60.020 41.667 0.00 0.00 0.00 1.47
507 532 1.334960 CGTCAAAGCATTGGTGTCCAC 60.335 52.381 1.24 0.00 37.15 4.02
510 535 1.333619 ACACGTCAAAGCATTGGTGTC 59.666 47.619 9.86 0.00 37.36 3.67
511 536 1.333619 GACACGTCAAAGCATTGGTGT 59.666 47.619 13.98 13.98 41.56 4.16
512 537 1.333308 TGACACGTCAAAGCATTGGTG 59.667 47.619 1.24 5.77 36.53 4.17
513 538 1.333619 GTGACACGTCAAAGCATTGGT 59.666 47.619 0.50 0.00 41.85 3.67
514 539 1.333308 TGTGACACGTCAAAGCATTGG 59.667 47.619 0.50 0.00 41.85 3.16
515 540 2.753989 TGTGACACGTCAAAGCATTG 57.246 45.000 0.50 0.00 41.85 2.82
516 541 2.421775 TGTTGTGACACGTCAAAGCATT 59.578 40.909 0.50 0.00 41.85 3.56
517 542 2.013400 TGTTGTGACACGTCAAAGCAT 58.987 42.857 0.50 0.00 41.85 3.79
518 543 1.443802 TGTTGTGACACGTCAAAGCA 58.556 45.000 0.50 1.93 41.85 3.91
519 544 2.031560 TGATGTTGTGACACGTCAAAGC 59.968 45.455 0.50 0.00 39.31 3.51
520 545 3.063316 TGTGATGTTGTGACACGTCAAAG 59.937 43.478 0.50 0.00 42.94 2.77
554 579 1.001974 CGTTTCACCTGGACCATCTGA 59.998 52.381 0.00 0.00 0.00 3.27
588 613 4.771590 TTTTGTACTCGATCTACCGTGT 57.228 40.909 0.00 0.00 39.24 4.49
592 617 9.235537 GTCTTTCTATTTTGTACTCGATCTACC 57.764 37.037 0.00 0.00 0.00 3.18
619 644 8.495949 TCGTTCTTCATTCATGAGTTAACTTTC 58.504 33.333 10.02 0.00 38.19 2.62
621 646 7.962964 TCGTTCTTCATTCATGAGTTAACTT 57.037 32.000 10.02 0.00 38.19 2.66
631 656 1.331756 GCCGCATCGTTCTTCATTCAT 59.668 47.619 0.00 0.00 0.00 2.57
669 694 2.003548 GTGGAGAAGAGGGGGCCAT 61.004 63.158 4.39 0.00 0.00 4.40
715 740 2.027073 TGTTCGTGCGAGCCACATC 61.027 57.895 6.02 0.00 44.91 3.06
763 788 2.095213 TGAGCTTGTTGTCACGTTGTTC 59.905 45.455 0.00 0.00 0.00 3.18
772 797 2.533266 TCTGACCTGAGCTTGTTGTC 57.467 50.000 0.00 0.00 0.00 3.18
787 812 3.891366 TGCGTTCTATCTGGATCATCTGA 59.109 43.478 0.00 0.00 0.00 3.27
794 819 0.389391 CCGGTGCGTTCTATCTGGAT 59.611 55.000 0.00 0.00 0.00 3.41
835 860 1.101635 GTCTAATTTGGCGGCCTCCC 61.102 60.000 21.46 5.77 0.00 4.30
836 861 1.101635 GGTCTAATTTGGCGGCCTCC 61.102 60.000 21.46 4.25 0.00 4.30
837 862 1.436983 CGGTCTAATTTGGCGGCCTC 61.437 60.000 21.46 0.00 0.00 4.70
838 863 1.451387 CGGTCTAATTTGGCGGCCT 60.451 57.895 21.46 1.61 0.00 5.19
839 864 3.107447 CGGTCTAATTTGGCGGCC 58.893 61.111 13.32 13.32 0.00 6.13
840 865 2.407616 GCGGTCTAATTTGGCGGC 59.592 61.111 8.12 8.12 0.00 6.53
841 866 2.707039 CGCGGTCTAATTTGGCGG 59.293 61.111 0.00 0.00 42.86 6.13
843 868 1.361793 TGTACGCGGTCTAATTTGGC 58.638 50.000 12.47 0.00 0.00 4.52
844 869 4.407496 TTTTGTACGCGGTCTAATTTGG 57.593 40.909 12.47 0.00 0.00 3.28
845 870 6.996106 TCTATTTTGTACGCGGTCTAATTTG 58.004 36.000 12.47 4.49 0.00 2.32
846 871 7.599630 TTCTATTTTGTACGCGGTCTAATTT 57.400 32.000 12.47 0.00 0.00 1.82
847 872 7.546667 TCTTTCTATTTTGTACGCGGTCTAATT 59.453 33.333 12.47 5.50 0.00 1.40
848 873 7.037438 TCTTTCTATTTTGTACGCGGTCTAAT 58.963 34.615 12.47 6.04 0.00 1.73
849 874 6.389091 TCTTTCTATTTTGTACGCGGTCTAA 58.611 36.000 12.47 3.23 0.00 2.10
850 875 5.953183 TCTTTCTATTTTGTACGCGGTCTA 58.047 37.500 12.47 0.00 0.00 2.59
851 876 4.813027 TCTTTCTATTTTGTACGCGGTCT 58.187 39.130 12.47 0.00 0.00 3.85
852 877 4.860907 TCTCTTTCTATTTTGTACGCGGTC 59.139 41.667 12.47 3.06 0.00 4.79
853 878 4.813027 TCTCTTTCTATTTTGTACGCGGT 58.187 39.130 12.47 0.00 0.00 5.68
854 879 5.575606 TCTTCTCTTTCTATTTTGTACGCGG 59.424 40.000 12.47 0.00 0.00 6.46
855 880 6.527023 TCTCTTCTCTTTCTATTTTGTACGCG 59.473 38.462 3.53 3.53 0.00 6.01
856 881 7.461677 CGTCTCTTCTCTTTCTATTTTGTACGC 60.462 40.741 0.00 0.00 0.00 4.42
857 882 7.749570 TCGTCTCTTCTCTTTCTATTTTGTACG 59.250 37.037 0.00 0.00 0.00 3.67
1057 1120 3.024547 TGGTGATCTGCACTAGTCTACC 58.975 50.000 0.00 0.00 46.86 3.18
1066 1130 1.297664 GATGAGCTGGTGATCTGCAC 58.702 55.000 0.00 0.00 46.98 4.57
1347 1431 7.807907 AGTTTGATGCTAGGTTAAAACGAATTG 59.192 33.333 0.00 0.00 33.77 2.32
1380 1464 1.202463 AGGAGACTGAATTCCGATGCG 60.202 52.381 2.27 0.00 41.13 4.73
1382 1466 3.201290 CCAAGGAGACTGAATTCCGATG 58.799 50.000 2.27 0.00 42.68 3.84
1383 1467 2.420687 GCCAAGGAGACTGAATTCCGAT 60.421 50.000 2.27 0.00 42.68 4.18
1385 1469 1.339055 TGCCAAGGAGACTGAATTCCG 60.339 52.381 2.27 0.00 42.68 4.30
1386 1470 2.363683 CTGCCAAGGAGACTGAATTCC 58.636 52.381 2.27 0.00 42.68 3.01
1387 1471 1.742268 GCTGCCAAGGAGACTGAATTC 59.258 52.381 0.00 0.00 42.68 2.17
1426 1544 4.222810 ACTGATGCATCTACACAACTGGTA 59.777 41.667 26.32 1.49 0.00 3.25
1427 1545 3.008375 ACTGATGCATCTACACAACTGGT 59.992 43.478 26.32 7.63 0.00 4.00
1430 1548 4.083110 GCAAACTGATGCATCTACACAACT 60.083 41.667 26.32 1.68 45.70 3.16
1431 1549 4.161333 GCAAACTGATGCATCTACACAAC 58.839 43.478 26.32 8.06 45.70 3.32
1432 1550 3.120234 CGCAAACTGATGCATCTACACAA 60.120 43.478 26.32 5.15 46.76 3.33
1433 1551 2.416202 CGCAAACTGATGCATCTACACA 59.584 45.455 26.32 6.55 46.76 3.72
1434 1552 2.416547 ACGCAAACTGATGCATCTACAC 59.583 45.455 26.32 10.75 46.76 2.90
1435 1553 2.698803 ACGCAAACTGATGCATCTACA 58.301 42.857 26.32 7.31 46.76 2.74
1436 1554 3.372206 AGAACGCAAACTGATGCATCTAC 59.628 43.478 26.32 9.14 46.76 2.59
1437 1555 3.599343 AGAACGCAAACTGATGCATCTA 58.401 40.909 26.32 12.54 46.76 1.98
1438 1556 2.430465 AGAACGCAAACTGATGCATCT 58.570 42.857 26.32 5.39 46.76 2.90
1439 1557 2.907910 AGAACGCAAACTGATGCATC 57.092 45.000 20.14 20.14 46.76 3.91
1440 1558 2.352030 CCAAGAACGCAAACTGATGCAT 60.352 45.455 0.00 0.00 46.76 3.96
1441 1559 1.001487 CCAAGAACGCAAACTGATGCA 60.001 47.619 9.93 0.00 46.76 3.96
1442 1560 1.266718 TCCAAGAACGCAAACTGATGC 59.733 47.619 0.00 0.00 42.94 3.91
1443 1561 3.837213 ATCCAAGAACGCAAACTGATG 57.163 42.857 0.00 0.00 0.00 3.07
1444 1562 3.820467 TGAATCCAAGAACGCAAACTGAT 59.180 39.130 0.00 0.00 0.00 2.90
1445 1563 3.210227 TGAATCCAAGAACGCAAACTGA 58.790 40.909 0.00 0.00 0.00 3.41
1446 1564 3.003689 ACTGAATCCAAGAACGCAAACTG 59.996 43.478 0.00 0.00 0.00 3.16
1447 1565 3.214328 ACTGAATCCAAGAACGCAAACT 58.786 40.909 0.00 0.00 0.00 2.66
1448 1566 3.626028 ACTGAATCCAAGAACGCAAAC 57.374 42.857 0.00 0.00 0.00 2.93
1449 1567 4.647424 AAACTGAATCCAAGAACGCAAA 57.353 36.364 0.00 0.00 0.00 3.68
1450 1568 4.647424 AAAACTGAATCCAAGAACGCAA 57.353 36.364 0.00 0.00 0.00 4.85
1451 1569 4.215399 CCTAAAACTGAATCCAAGAACGCA 59.785 41.667 0.00 0.00 0.00 5.24
1452 1570 4.454504 TCCTAAAACTGAATCCAAGAACGC 59.545 41.667 0.00 0.00 0.00 4.84
1453 1571 6.743575 ATCCTAAAACTGAATCCAAGAACG 57.256 37.500 0.00 0.00 0.00 3.95
1459 1577 6.326583 ACTCGGATATCCTAAAACTGAATCCA 59.673 38.462 19.61 0.00 32.65 3.41
1474 1593 5.440234 TCTGCAAGAGTTACTCGGATATC 57.560 43.478 6.73 0.00 38.67 1.63
1484 1603 8.123639 AGAACAGTAGTTATCTGCAAGAGTTA 57.876 34.615 0.00 0.00 42.53 2.24
1505 1624 2.361438 AGCCGCCACTATACTGTAGAAC 59.639 50.000 0.00 0.00 0.00 3.01
1506 1625 2.361119 CAGCCGCCACTATACTGTAGAA 59.639 50.000 0.00 0.00 0.00 2.10
1507 1626 1.954382 CAGCCGCCACTATACTGTAGA 59.046 52.381 0.00 0.00 0.00 2.59
1515 1634 1.003118 TGAAGAAACAGCCGCCACTAT 59.997 47.619 0.00 0.00 0.00 2.12
1518 1637 1.576421 CTGAAGAAACAGCCGCCAC 59.424 57.895 0.00 0.00 0.00 5.01
1553 1678 1.542915 ACAACTGAGCCATGCATGAAC 59.457 47.619 28.31 18.60 0.00 3.18
1576 1701 1.651987 CGAACCACATGCTACCGATT 58.348 50.000 0.00 0.00 0.00 3.34
1580 1705 0.378257 CATGCGAACCACATGCTACC 59.622 55.000 0.00 0.00 38.58 3.18
1665 1813 1.204704 TCCATGTACAGAACTGCCGAG 59.795 52.381 0.33 0.00 0.00 4.63
1724 1874 3.655486 CAGCAAAATGTCATGCCTTGAA 58.345 40.909 6.71 0.00 43.57 2.69
1726 1876 1.730064 GCAGCAAAATGTCATGCCTTG 59.270 47.619 0.00 0.00 43.57 3.61
2073 4166 4.156455 ACCAGTATATCAGCCAAGGTTG 57.844 45.455 0.00 0.00 0.00 3.77
2554 5550 3.440522 GCCCTGTTCATTGGAAGTTAGAC 59.559 47.826 0.00 0.00 32.62 2.59
2688 5821 0.958382 GCCCGTGCAACCTCATGTTA 60.958 55.000 0.00 0.00 34.69 2.41
2934 6068 0.312416 CGTAGAAGAGCCCGATGAGG 59.688 60.000 0.00 0.00 40.63 3.86
2981 6326 4.034258 GTCACTCCCGTGCGACGA 62.034 66.667 0.00 0.00 46.05 4.20
3019 6371 3.754850 CACATCAGTGCTTCTCAATCCAA 59.245 43.478 0.00 0.00 39.21 3.53
3077 6429 4.374399 CGGACTAAGTACCTCTCTCTCTC 58.626 52.174 0.00 0.00 0.00 3.20
3079 6431 3.118298 ACCGGACTAAGTACCTCTCTCTC 60.118 52.174 9.46 0.00 0.00 3.20
3149 6512 3.514309 GCTTCCTGGTTCACCTAAGTAGA 59.486 47.826 0.00 0.00 36.82 2.59
3284 6656 4.758674 CGGCAAGATGATAGAAATGGACAT 59.241 41.667 0.00 0.00 0.00 3.06
3347 6720 8.919777 AAGTTATTGTGTAGCTCTTACCTTTT 57.080 30.769 0.00 0.00 0.00 2.27
3360 6733 8.927675 AGACCAAACCAATAAGTTATTGTGTA 57.072 30.769 26.39 0.00 43.05 2.90
3386 6759 8.533569 AGTTTCCCAAAGTCAATAGAAAGAAA 57.466 30.769 0.00 0.00 0.00 2.52
3454 6827 6.040842 TGAGGATGACATGAATCAATCGAGTA 59.959 38.462 0.00 0.00 30.82 2.59
3455 6828 5.163374 TGAGGATGACATGAATCAATCGAGT 60.163 40.000 0.00 0.00 30.82 4.18
3460 6833 7.891498 TCAAATGAGGATGACATGAATCAAT 57.109 32.000 0.00 0.00 30.82 2.57
3471 6844 5.757988 TGGATGTCATTCAAATGAGGATGA 58.242 37.500 5.68 0.00 45.38 2.92
3481 6854 4.340097 GCTCAATCCATGGATGTCATTCAA 59.660 41.667 27.97 6.71 34.70 2.69
3567 6966 0.674895 AAGACCACCTGAGCGATTGC 60.675 55.000 0.00 0.00 43.24 3.56
3568 6967 1.466167 CAAAGACCACCTGAGCGATTG 59.534 52.381 0.00 0.00 0.00 2.67
3569 6968 1.611673 CCAAAGACCACCTGAGCGATT 60.612 52.381 0.00 0.00 0.00 3.34
3572 6971 1.672356 CCCAAAGACCACCTGAGCG 60.672 63.158 0.00 0.00 0.00 5.03
3623 7076 1.020437 GTTCTAGGGCATGCTTCAGC 58.980 55.000 18.92 0.00 42.50 4.26
3624 7077 2.286872 CAGTTCTAGGGCATGCTTCAG 58.713 52.381 18.92 11.68 0.00 3.02
3625 7078 1.065199 CCAGTTCTAGGGCATGCTTCA 60.065 52.381 18.92 1.46 0.00 3.02
3626 7079 1.210478 TCCAGTTCTAGGGCATGCTTC 59.790 52.381 18.92 10.46 0.00 3.86
3627 7080 1.289160 TCCAGTTCTAGGGCATGCTT 58.711 50.000 18.92 9.04 0.00 3.91
3628 7081 1.419387 GATCCAGTTCTAGGGCATGCT 59.581 52.381 18.92 0.24 0.00 3.79
3629 7082 1.544314 GGATCCAGTTCTAGGGCATGC 60.544 57.143 9.90 9.90 0.00 4.06
3630 7083 2.053244 AGGATCCAGTTCTAGGGCATG 58.947 52.381 15.82 0.00 0.00 4.06
3631 7084 2.503869 AGGATCCAGTTCTAGGGCAT 57.496 50.000 15.82 0.00 0.00 4.40
3632 7085 2.247635 ACTAGGATCCAGTTCTAGGGCA 59.752 50.000 15.82 0.00 35.92 5.36
3633 7086 2.965562 ACTAGGATCCAGTTCTAGGGC 58.034 52.381 15.82 0.00 35.92 5.19
3634 7087 5.074115 CACTACTAGGATCCAGTTCTAGGG 58.926 50.000 15.82 7.37 35.92 3.53
3635 7088 5.697067 ACACTACTAGGATCCAGTTCTAGG 58.303 45.833 15.82 6.96 35.92 3.02
3636 7089 6.261381 GTGACACTACTAGGATCCAGTTCTAG 59.739 46.154 15.82 8.92 37.20 2.43
3637 7090 6.120905 GTGACACTACTAGGATCCAGTTCTA 58.879 44.000 15.82 0.00 0.00 2.10
3638 7091 4.951094 GTGACACTACTAGGATCCAGTTCT 59.049 45.833 15.82 0.00 0.00 3.01
3639 7092 4.201930 CGTGACACTACTAGGATCCAGTTC 60.202 50.000 15.82 9.90 0.00 3.01
3640 7093 3.695060 CGTGACACTACTAGGATCCAGTT 59.305 47.826 15.82 0.00 0.00 3.16
3641 7094 3.280295 CGTGACACTACTAGGATCCAGT 58.720 50.000 15.82 16.82 0.00 4.00
3642 7095 2.033550 GCGTGACACTACTAGGATCCAG 59.966 54.545 15.82 11.76 0.00 3.86
3660 7113 3.560251 ACCAGCCACCAAGAGCGT 61.560 61.111 0.00 0.00 0.00 5.07
3716 7169 1.750572 GAGCTTCATGCAGTCGAGCG 61.751 60.000 0.00 0.00 45.94 5.03
3767 7220 2.332654 GCATGAACCACGGGACCAC 61.333 63.158 0.00 0.00 0.00 4.16
3771 7224 1.549243 TAGCAGCATGAACCACGGGA 61.549 55.000 0.00 0.00 39.69 5.14
3775 7228 1.709147 CGCCTAGCAGCATGAACCAC 61.709 60.000 0.00 0.00 39.69 4.16
3833 7357 1.022982 ACATGATGTGTGCCTGCGAG 61.023 55.000 0.00 0.00 40.28 5.03
3905 7429 0.323957 AGAGGCAAAGGGAACGTACC 59.676 55.000 1.11 1.11 0.00 3.34
3910 7434 1.882623 CAGAACAGAGGCAAAGGGAAC 59.117 52.381 0.00 0.00 0.00 3.62
3942 7500 9.750125 AACAAAACTTGGATCATTCTTTAGTTC 57.250 29.630 0.00 0.00 34.12 3.01
3961 7786 9.971744 GGTTCATGCATTTAATCATAACAAAAC 57.028 29.630 0.00 0.00 0.00 2.43
4059 7938 7.974504 AGGATAGACTTCAACTAACTCCAAAA 58.025 34.615 0.00 0.00 0.00 2.44
4083 8902 6.199719 GGAAGAATGTTGTGAAAAAGCTCAAG 59.800 38.462 0.00 0.00 0.00 3.02
4105 8924 2.299013 ACTGCACGTGTGATAGAAGGAA 59.701 45.455 18.38 0.00 0.00 3.36
4106 8925 1.893137 ACTGCACGTGTGATAGAAGGA 59.107 47.619 18.38 0.00 0.00 3.36
4111 8930 4.363138 ACATATGACTGCACGTGTGATAG 58.637 43.478 18.38 12.66 0.00 2.08
4113 8932 3.190079 GACATATGACTGCACGTGTGAT 58.810 45.455 18.38 2.02 0.00 3.06
4115 8934 2.336667 TGACATATGACTGCACGTGTG 58.663 47.619 18.38 12.87 0.00 3.82
4117 8936 2.995939 AGTTGACATATGACTGCACGTG 59.004 45.455 12.28 12.28 0.00 4.49
4118 8937 2.995939 CAGTTGACATATGACTGCACGT 59.004 45.455 10.38 0.00 34.97 4.49
4120 8939 5.808042 ATTCAGTTGACATATGACTGCAC 57.192 39.130 10.38 2.57 40.36 4.57
4121 8940 9.612066 TTATTATTCAGTTGACATATGACTGCA 57.388 29.630 10.38 3.83 40.36 4.41
4166 8985 9.541143 CCAGTCAATTGGTAAAGTATTTTTGTT 57.459 29.630 5.42 0.00 40.09 2.83
4167 8986 8.919145 TCCAGTCAATTGGTAAAGTATTTTTGT 58.081 29.630 5.42 0.00 36.90 2.83
4168 8987 9.927668 ATCCAGTCAATTGGTAAAGTATTTTTG 57.072 29.630 5.42 0.00 36.90 2.44


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

AutoCloner maintained by Alex Coulton.