Multiple sequence alignment - TraesCS6B01G429800

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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 TraesCS6B01G429800 chr6B 100.000 5915 0 0 1 5915 697676782 697670868 0.000000e+00 10924.0
1 TraesCS6B01G429800 chr6B 90.273 2817 247 16 2272 5081 697710375 697707579 0.000000e+00 3659.0
2 TraesCS6B01G429800 chr6B 82.394 1738 226 53 591 2282 697712514 697710811 0.000000e+00 1441.0
3 TraesCS6B01G429800 chr6B 94.046 571 30 3 1 571 703238652 703239218 0.000000e+00 863.0
4 TraesCS6B01G429800 chr6D 95.081 4513 149 29 591 5094 458717977 458713529 0.000000e+00 7036.0
5 TraesCS6B01G429800 chr6D 90.522 2817 243 16 2272 5081 458743668 458740869 0.000000e+00 3701.0
6 TraesCS6B01G429800 chr6D 83.247 1737 223 43 591 2280 458745821 458744106 0.000000e+00 1533.0
7 TraesCS6B01G429800 chr6D 93.717 573 27 9 1 571 48864459 48865024 0.000000e+00 850.0
8 TraesCS6B01G429800 chr6A 90.032 2809 267 8 2277 5081 604956871 604959670 0.000000e+00 3624.0
9 TraesCS6B01G429800 chr6A 82.336 1738 231 50 591 2280 604954718 604956427 0.000000e+00 1439.0
10 TraesCS6B01G429800 chr6A 88.861 404 37 2 5083 5478 596355108 596355511 1.920000e-134 490.0
11 TraesCS6B01G429800 chr6A 84.553 246 23 5 5469 5702 596361358 596361600 4.610000e-56 230.0
12 TraesCS6B01G429800 chr6A 89.130 138 12 3 5775 5912 596361590 596361724 1.020000e-37 169.0
13 TraesCS6B01G429800 chr6A 100.000 28 0 0 5083 5110 571701189 571701216 1.100000e-02 52.8
14 TraesCS6B01G429800 chr3D 94.261 575 26 7 1 574 17860540 17859972 0.000000e+00 872.0
15 TraesCS6B01G429800 chr3D 93.913 575 27 8 1 574 613452765 613452198 0.000000e+00 861.0
16 TraesCS6B01G429800 chr3D 100.000 29 0 0 564 592 17859946 17859918 3.000000e-03 54.7
17 TraesCS6B01G429800 chr3D 100.000 29 0 0 564 592 613452191 613452163 3.000000e-03 54.7
18 TraesCS6B01G429800 chr3D 100.000 28 0 0 564 591 752939 752966 1.100000e-02 52.8
19 TraesCS6B01G429800 chr7D 94.046 571 27 7 1 571 555080111 555080674 0.000000e+00 859.0
20 TraesCS6B01G429800 chr7D 76.831 833 142 39 664 1464 478759664 478760477 7.090000e-114 422.0
21 TraesCS6B01G429800 chr7D 76.060 401 69 19 764 1154 632763178 632762795 3.640000e-42 183.0
22 TraesCS6B01G429800 chr7D 100.000 28 0 0 5083 5110 201984069 201984042 1.100000e-02 52.8
23 TraesCS6B01G429800 chr5D 92.832 572 34 7 1 571 409294600 409295165 0.000000e+00 822.0
24 TraesCS6B01G429800 chr5D 91.769 571 38 8 1 568 386101633 386102197 0.000000e+00 785.0
25 TraesCS6B01G429800 chr5D 96.875 32 1 0 5079 5110 388806210 388806241 3.000000e-03 54.7
26 TraesCS6B01G429800 chr5D 100.000 29 0 0 564 592 409295175 409295203 3.000000e-03 54.7
27 TraesCS6B01G429800 chr3A 85.786 802 81 16 5083 5861 58038707 58037916 0.000000e+00 819.0
28 TraesCS6B01G429800 chr3A 89.237 511 28 13 9 518 747701341 747700857 1.090000e-171 614.0
29 TraesCS6B01G429800 chr3B 89.748 556 51 6 16 568 121574373 121573821 0.000000e+00 706.0
30 TraesCS6B01G429800 chr3B 81.333 75 14 0 5083 5157 113944156 113944082 1.780000e-05 62.1
31 TraesCS6B01G429800 chr5B 89.568 556 52 6 16 568 485447453 485448005 0.000000e+00 701.0
32 TraesCS6B01G429800 chr5B 89.725 545 50 6 16 557 596640451 596639910 0.000000e+00 691.0
33 TraesCS6B01G429800 chr7A 91.650 491 28 2 5083 5561 2976205 2976694 0.000000e+00 667.0
34 TraesCS6B01G429800 chr7B 79.893 751 94 47 613 1335 68201367 68200646 1.140000e-136 497.0
35 TraesCS6B01G429800 chr7B 76.869 428 72 22 740 1161 744572352 744571946 3.590000e-52 217.0
36 TraesCS6B01G429800 chr1D 75.652 920 147 51 633 1501 479197965 479198858 2.590000e-103 387.0
37 TraesCS6B01G429800 chr4A 82.960 446 55 17 5083 5520 642597733 642598165 3.340000e-102 383.0
38 TraesCS6B01G429800 chr1B 74.454 779 147 42 749 1499 666557844 666557090 7.500000e-74 289.0
39 TraesCS6B01G429800 chr5A 73.976 415 83 21 885 1279 458702129 458702538 1.720000e-30 145.0
40 TraesCS6B01G429800 chr2B 81.443 97 15 2 1171 1267 785930581 785930488 6.360000e-10 76.8


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 TraesCS6B01G429800 chr6B 697670868 697676782 5914 True 10924.00 10924 100.0000 1 5915 1 chr6B.!!$R1 5914
1 TraesCS6B01G429800 chr6B 697707579 697712514 4935 True 2550.00 3659 86.3335 591 5081 2 chr6B.!!$R2 4490
2 TraesCS6B01G429800 chr6B 703238652 703239218 566 False 863.00 863 94.0460 1 571 1 chr6B.!!$F1 570
3 TraesCS6B01G429800 chr6D 458713529 458717977 4448 True 7036.00 7036 95.0810 591 5094 1 chr6D.!!$R1 4503
4 TraesCS6B01G429800 chr6D 458740869 458745821 4952 True 2617.00 3701 86.8845 591 5081 2 chr6D.!!$R2 4490
5 TraesCS6B01G429800 chr6D 48864459 48865024 565 False 850.00 850 93.7170 1 571 1 chr6D.!!$F1 570
6 TraesCS6B01G429800 chr6A 604954718 604959670 4952 False 2531.50 3624 86.1840 591 5081 2 chr6A.!!$F4 4490
7 TraesCS6B01G429800 chr3D 17859918 17860540 622 True 463.35 872 97.1305 1 592 2 chr3D.!!$R1 591
8 TraesCS6B01G429800 chr3D 613452163 613452765 602 True 457.85 861 96.9565 1 592 2 chr3D.!!$R2 591
9 TraesCS6B01G429800 chr7D 555080111 555080674 563 False 859.00 859 94.0460 1 571 1 chr7D.!!$F2 570
10 TraesCS6B01G429800 chr7D 478759664 478760477 813 False 422.00 422 76.8310 664 1464 1 chr7D.!!$F1 800
11 TraesCS6B01G429800 chr5D 386101633 386102197 564 False 785.00 785 91.7690 1 568 1 chr5D.!!$F1 567
12 TraesCS6B01G429800 chr5D 409294600 409295203 603 False 438.35 822 96.4160 1 592 2 chr5D.!!$F3 591
13 TraesCS6B01G429800 chr3A 58037916 58038707 791 True 819.00 819 85.7860 5083 5861 1 chr3A.!!$R1 778
14 TraesCS6B01G429800 chr3B 121573821 121574373 552 True 706.00 706 89.7480 16 568 1 chr3B.!!$R2 552
15 TraesCS6B01G429800 chr5B 485447453 485448005 552 False 701.00 701 89.5680 16 568 1 chr5B.!!$F1 552
16 TraesCS6B01G429800 chr5B 596639910 596640451 541 True 691.00 691 89.7250 16 557 1 chr5B.!!$R1 541
17 TraesCS6B01G429800 chr7B 68200646 68201367 721 True 497.00 497 79.8930 613 1335 1 chr7B.!!$R1 722
18 TraesCS6B01G429800 chr1D 479197965 479198858 893 False 387.00 387 75.6520 633 1501 1 chr1D.!!$F1 868
19 TraesCS6B01G429800 chr1B 666557090 666557844 754 True 289.00 289 74.4540 749 1499 1 chr1B.!!$R1 750

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
635 640 0.250597 ATTCCTATTTACCGCCCGCC 60.251 55.000 0.00 0.0 0.00 6.13 F
1367 1468 0.591170 ACAGGAATTCGCGTGTTTGG 59.409 50.000 5.77 0.0 33.52 3.28 F
1806 1929 1.305297 AGGTCCACTGATCCAGCGA 60.305 57.895 0.00 0.0 34.37 4.93 F
3509 4094 2.638480 TATGAATTCCTCTTGGGGCG 57.362 50.000 2.27 0.0 35.33 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2056 2185 0.251341 AAGTGTCACCCCATTCTGCC 60.251 55.000 0.0 0.0 0.00 4.85 R
3105 3690 1.065926 CCAGTCATTGCTGCCTCACTA 60.066 52.381 0.0 0.0 35.28 2.74 R
3805 4390 4.191544 CCCATGTACACGAATGACTCAAT 58.808 43.478 0.0 0.0 0.00 2.57 R
5196 5810 0.391263 CGGCACTAAGTTCTCCACCC 60.391 60.000 0.0 0.0 0.00 4.61 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
217 218 3.637229 CACTTCTATACGTGGGTGGATCT 59.363 47.826 0.00 0.00 0.00 2.75
219 220 3.588210 TCTATACGTGGGTGGATCTGA 57.412 47.619 0.00 0.00 0.00 3.27
291 292 3.890936 GACGGAGCTTGCAGTGGCT 62.891 63.158 9.99 9.99 41.91 4.75
504 506 0.764369 AGGGGATGAAGGCGCATAGA 60.764 55.000 10.83 0.00 0.00 1.98
510 512 1.750193 TGAAGGCGCATAGAAAAGGG 58.250 50.000 10.83 0.00 0.00 3.95
586 590 4.258932 CACCGCGCCCAAACGTTT 62.259 61.111 7.96 7.96 34.88 3.60
587 591 3.956317 ACCGCGCCCAAACGTTTC 61.956 61.111 11.37 0.00 34.88 2.78
588 592 4.693525 CCGCGCCCAAACGTTTCC 62.694 66.667 11.37 1.75 34.88 3.13
589 593 4.693525 CGCGCCCAAACGTTTCCC 62.694 66.667 11.37 1.38 34.88 3.97
635 640 0.250597 ATTCCTATTTACCGCCCGCC 60.251 55.000 0.00 0.00 0.00 6.13
701 706 4.379243 CCCAGTTCTCGGCAGCGT 62.379 66.667 0.00 0.00 0.00 5.07
1069 1107 8.877808 TTGCACAAATGTTCAATGTGTATTAA 57.122 26.923 17.05 9.36 44.79 1.40
1071 1109 8.140628 TGCACAAATGTTCAATGTGTATTAACT 58.859 29.630 17.05 0.00 44.79 2.24
1239 1335 9.921637 ATGTTCAACGGATATTACAAAATGTTT 57.078 25.926 0.00 0.00 0.00 2.83
1246 1342 6.140108 CGGATATTACAAAATGTTTAGTGCGC 59.860 38.462 0.00 0.00 0.00 6.09
1314 1413 6.680625 GCTCCGTGAATCTATCAGTTGAACTA 60.681 42.308 0.00 0.00 39.19 2.24
1367 1468 0.591170 ACAGGAATTCGCGTGTTTGG 59.409 50.000 5.77 0.00 33.52 3.28
1389 1491 1.934525 TCACTCGCGCAACACTTTTTA 59.065 42.857 8.75 0.00 0.00 1.52
1398 1502 8.098629 TCGCGCAACACTTTTTATTATATTTG 57.901 30.769 8.75 0.00 0.00 2.32
1569 1676 3.161866 GGTCAGGCCCAATAAGAAAACA 58.838 45.455 0.00 0.00 0.00 2.83
1572 1679 5.420739 GGTCAGGCCCAATAAGAAAACAATA 59.579 40.000 0.00 0.00 0.00 1.90
1604 1711 2.029828 AGTAGAACAGTCGAAGCCACAG 60.030 50.000 0.00 0.00 0.00 3.66
1784 1907 2.101249 ACGTTTCCACTTCGACCACTAA 59.899 45.455 0.00 0.00 0.00 2.24
1806 1929 1.305297 AGGTCCACTGATCCAGCGA 60.305 57.895 0.00 0.00 34.37 4.93
1835 1958 3.537795 AGGGGAAGGTTTAGGGTTTTC 57.462 47.619 0.00 0.00 0.00 2.29
1840 1967 4.447325 GGGAAGGTTTAGGGTTTTCTCTGT 60.447 45.833 0.00 0.00 0.00 3.41
1938 2065 7.095229 CGGTCAATGTGGATAATTGTATACCAG 60.095 40.741 0.00 0.00 36.58 4.00
2186 2315 9.488762 TCAATCTTCTTGGTAGAATCCTTACTA 57.511 33.333 0.00 0.00 39.58 1.82
2308 2886 4.858850 TCTAGATGATTGTTTGCCACCAT 58.141 39.130 0.00 0.00 0.00 3.55
2314 2892 8.938801 AGATGATTGTTTGCCACCATATAATA 57.061 30.769 0.00 0.00 0.00 0.98
2367 2945 7.690952 TGTCCAGGTGTGTATTTTATTAACC 57.309 36.000 0.00 0.00 0.00 2.85
2368 2946 7.232188 TGTCCAGGTGTGTATTTTATTAACCA 58.768 34.615 0.00 0.00 0.00 3.67
2470 3048 5.245531 TGAGTTGATTTCCTCTATGCGTTT 58.754 37.500 0.00 0.00 0.00 3.60
2607 3191 7.151976 AGTTTAATGCGGCAAAGAATTTAAGT 58.848 30.769 6.82 0.00 35.03 2.24
2778 3362 4.530710 AGTTGTCGTATTAGTTGCCAGA 57.469 40.909 0.00 0.00 0.00 3.86
3054 3639 4.149511 TCCGCAGAATTGTGATTGGATA 57.850 40.909 6.80 0.00 36.95 2.59
3105 3690 8.434589 TTGAAATCCTTTCCCTAATGACAATT 57.565 30.769 0.00 0.00 38.90 2.32
3475 4060 4.517075 TGATTTGTGCGAAAGGTGTGAATA 59.483 37.500 0.00 0.00 0.00 1.75
3509 4094 2.638480 TATGAATTCCTCTTGGGGCG 57.362 50.000 2.27 0.00 35.33 6.13
3805 4390 5.699001 AGTATTTGTATTCGTGCTGACAACA 59.301 36.000 0.00 0.00 31.78 3.33
3859 4444 6.976636 TCAATATTGACTGCGAACATACAA 57.023 33.333 14.23 0.00 31.01 2.41
4079 4666 3.952931 TGTCCCTCTCTAGGTATATCGC 58.047 50.000 0.00 0.00 41.89 4.58
4120 4707 2.165437 GGTTTGCTGGTTTGACAACAGA 59.835 45.455 9.39 0.00 34.15 3.41
4473 5060 3.253188 CGGCATTGGATGTATTCGGAATT 59.747 43.478 8.76 0.00 0.00 2.17
4662 5251 2.783135 AGTGTTGCAGAATCGGTGAAT 58.217 42.857 0.00 0.00 0.00 2.57
4664 5253 4.517285 AGTGTTGCAGAATCGGTGAATAT 58.483 39.130 0.00 0.00 0.00 1.28
4695 5284 8.565896 TGTTGAACTTGATGCATCTTATAGTT 57.434 30.769 26.32 24.87 0.00 2.24
4844 5434 5.977129 CGTGCTTTTGGTCACTAAATTCTTT 59.023 36.000 0.00 0.00 0.00 2.52
5081 5695 0.329596 CTTTTAGGGGCAGCAGGAGT 59.670 55.000 0.00 0.00 0.00 3.85
5091 5705 2.297033 GGCAGCAGGAGTGAAAATTCAA 59.703 45.455 0.00 0.00 39.21 2.69
5115 5729 4.070552 GCTCGTCCTCGCCTGGTT 62.071 66.667 0.00 0.00 36.96 3.67
5124 5738 1.135527 CCTCGCCTGGTTACGTTATCA 59.864 52.381 0.00 0.00 0.00 2.15
5128 5742 1.260561 GCCTGGTTACGTTATCATGCG 59.739 52.381 0.00 0.00 0.00 4.73
5134 5748 1.202203 TACGTTATCATGCGCCGTTC 58.798 50.000 4.18 0.00 33.32 3.95
5135 5749 0.738063 ACGTTATCATGCGCCGTTCA 60.738 50.000 4.18 0.00 0.00 3.18
5138 5752 1.129624 GTTATCATGCGCCGTTCAACA 59.870 47.619 4.18 0.00 0.00 3.33
5142 5756 0.168788 CATGCGCCGTTCAACATCTT 59.831 50.000 4.18 0.00 0.00 2.40
5143 5757 1.396648 CATGCGCCGTTCAACATCTTA 59.603 47.619 4.18 0.00 0.00 2.10
5144 5758 1.514003 TGCGCCGTTCAACATCTTAA 58.486 45.000 4.18 0.00 0.00 1.85
5149 5763 4.671766 GCGCCGTTCAACATCTTAAAGATT 60.672 41.667 0.00 0.00 31.32 2.40
5159 5773 6.882610 ACATCTTAAAGATTTGACACAGCA 57.117 33.333 0.00 0.00 31.32 4.41
5162 5776 6.169419 TCTTAAAGATTTGACACAGCATCG 57.831 37.500 0.00 0.00 0.00 3.84
5173 5787 2.040544 CAGCATCGGTTGTGGGACC 61.041 63.158 0.00 0.00 36.31 4.46
5189 5803 3.964031 TGGGACCAAGTTGCTTTTAATGT 59.036 39.130 0.00 0.00 0.00 2.71
5196 5810 7.357303 ACCAAGTTGCTTTTAATGTACTAACG 58.643 34.615 0.00 0.00 0.00 3.18
5228 5842 1.437573 GTGCCGTAACGTCGTTTGC 60.438 57.895 16.98 16.20 0.00 3.68
5233 5847 0.787908 CGTAACGTCGTTTGCATGGC 60.788 55.000 16.98 0.00 0.00 4.40
5257 5871 0.038892 TAGTGACGGGACTTGCGTTC 60.039 55.000 0.00 0.00 0.00 3.95
5288 5903 1.380403 CCAGTTTGACGTGGGTTGCA 61.380 55.000 0.00 0.00 0.00 4.08
5289 5904 0.248458 CAGTTTGACGTGGGTTGCAC 60.248 55.000 0.00 0.00 0.00 4.57
5291 5906 0.454196 GTTTGACGTGGGTTGCACTT 59.546 50.000 0.00 0.00 0.00 3.16
5303 5918 0.975040 TTGCACTTGGGCTGTTTGGT 60.975 50.000 0.00 0.00 34.04 3.67
5304 5919 1.363807 GCACTTGGGCTGTTTGGTC 59.636 57.895 0.00 0.00 0.00 4.02
5322 5937 3.320541 TGGTCGGTCTGCAAAATCATTTT 59.679 39.130 0.00 0.00 0.00 1.82
5338 5953 1.404843 TTTTGGAAACCCTGTTCCCG 58.595 50.000 1.65 0.00 45.67 5.14
5369 5984 4.619336 GCGCTAGACATACTATGCTTCTTC 59.381 45.833 0.00 0.00 32.93 2.87
5377 5992 8.531982 AGACATACTATGCTTCTTCAAGTTACA 58.468 33.333 0.00 0.00 31.45 2.41
5397 6012 4.062293 ACACGTTTATTCAGCTAGCACAA 58.938 39.130 18.83 9.21 0.00 3.33
5435 6057 3.558931 TTCAGTTCTCACACCACACAT 57.441 42.857 0.00 0.00 0.00 3.21
5442 6064 5.360714 AGTTCTCACACCACACATGAAAATT 59.639 36.000 0.00 0.00 0.00 1.82
5448 6070 7.144661 TCACACCACACATGAAAATTTGATAC 58.855 34.615 0.00 0.00 0.00 2.24
5450 6072 7.115236 CACACCACACATGAAAATTTGATACAG 59.885 37.037 0.00 0.00 0.00 2.74
5456 6078 8.928733 ACACATGAAAATTTGATACAGCAATTC 58.071 29.630 0.00 0.00 0.00 2.17
5502 6128 4.094294 TCAATACGTTAGGATTGCTGCAAC 59.906 41.667 18.51 11.33 33.82 4.17
5508 6134 2.283145 AGGATTGCTGCAACTGTTCT 57.717 45.000 18.51 3.11 0.00 3.01
5509 6135 3.423539 AGGATTGCTGCAACTGTTCTA 57.576 42.857 18.51 0.00 0.00 2.10
5510 6136 3.960571 AGGATTGCTGCAACTGTTCTAT 58.039 40.909 18.51 0.00 0.00 1.98
5520 6146 1.204146 ACTGTTCTATCGGTGGCCAT 58.796 50.000 9.72 0.00 0.00 4.40
5523 6161 1.308998 GTTCTATCGGTGGCCATTGG 58.691 55.000 9.72 0.64 0.00 3.16
5541 6179 1.082756 GTGCACGCCTGTTCTTTCG 60.083 57.895 0.00 0.00 0.00 3.46
5556 6194 3.275143 TCTTTCGTCAGTTTCTTTGGCA 58.725 40.909 0.00 0.00 0.00 4.92
5557 6195 3.882888 TCTTTCGTCAGTTTCTTTGGCAT 59.117 39.130 0.00 0.00 0.00 4.40
5558 6196 3.624326 TTCGTCAGTTTCTTTGGCATG 57.376 42.857 0.00 0.00 0.00 4.06
5559 6197 2.571212 TCGTCAGTTTCTTTGGCATGT 58.429 42.857 0.00 0.00 0.00 3.21
5596 6236 3.052082 CGTGCTCTTGTGCCCTGG 61.052 66.667 0.00 0.00 0.00 4.45
5671 6311 1.194772 CTCGCCGAGGTTTTTCTTCAC 59.805 52.381 6.13 0.00 0.00 3.18
5676 6316 4.260866 CGCCGAGGTTTTTCTTCACTTTAA 60.261 41.667 0.00 0.00 0.00 1.52
5680 6320 7.223971 GCCGAGGTTTTTCTTCACTTTAATTTT 59.776 33.333 0.00 0.00 0.00 1.82
5697 6337 1.916506 TTTTGAATGCCCCGTCATCA 58.083 45.000 0.00 0.00 0.00 3.07
5743 6383 3.242413 GCGTTACTGTAATGGTGCAGATG 60.242 47.826 18.58 0.00 39.68 2.90
5745 6385 1.755179 ACTGTAATGGTGCAGATGGC 58.245 50.000 0.00 0.00 39.68 4.40
5747 6387 0.330941 TGTAATGGTGCAGATGGCCA 59.669 50.000 8.56 8.56 43.89 5.36
5749 6389 1.134946 GTAATGGTGCAGATGGCCAAC 59.865 52.381 10.96 7.42 43.89 3.77
5768 6409 4.095782 CCAACCAAATAACCGATGGTACTG 59.904 45.833 0.00 0.00 46.46 2.74
5769 6410 3.275999 ACCAAATAACCGATGGTACTGC 58.724 45.455 0.00 0.00 45.37 4.40
5775 6416 0.690762 ACCGATGGTACTGCCTTTGT 59.309 50.000 0.00 0.00 38.35 2.83
5780 6421 3.609853 GATGGTACTGCCTTTGTCATCA 58.390 45.455 0.00 0.00 38.35 3.07
5791 6432 3.399181 GTCATCACTGCCCCCGGA 61.399 66.667 0.73 0.00 0.00 5.14
5795 6436 3.047807 ATCACTGCCCCCGGACATG 62.048 63.158 0.73 0.00 0.00 3.21
5801 6442 3.807839 CCCCCGGACATGCCATCA 61.808 66.667 0.73 0.00 35.94 3.07
5802 6443 2.516930 CCCCGGACATGCCATCAC 60.517 66.667 0.73 0.00 35.94 3.06
5803 6444 2.271821 CCCGGACATGCCATCACA 59.728 61.111 0.73 0.00 35.94 3.58
5804 6445 1.378382 CCCGGACATGCCATCACAA 60.378 57.895 0.73 0.00 35.94 3.33
5805 6446 1.378882 CCCGGACATGCCATCACAAG 61.379 60.000 0.73 0.00 35.94 3.16
5806 6447 0.392863 CCGGACATGCCATCACAAGA 60.393 55.000 0.00 0.00 35.94 3.02
5807 6448 1.671979 CGGACATGCCATCACAAGAT 58.328 50.000 0.00 0.00 35.94 2.40
5850 6491 6.620877 ACAGAGGTACCACATTATTCTCAA 57.379 37.500 15.94 0.00 0.00 3.02
5855 6496 3.627395 ACCACATTATTCTCAAGCCGA 57.373 42.857 0.00 0.00 0.00 5.54
5861 6502 3.753294 TTATTCTCAAGCCGATCCTCC 57.247 47.619 0.00 0.00 0.00 4.30
5862 6503 1.500474 ATTCTCAAGCCGATCCTCCA 58.500 50.000 0.00 0.00 0.00 3.86
5863 6504 0.826715 TTCTCAAGCCGATCCTCCAG 59.173 55.000 0.00 0.00 0.00 3.86
5864 6505 0.033109 TCTCAAGCCGATCCTCCAGA 60.033 55.000 0.00 0.00 0.00 3.86
5865 6506 0.103937 CTCAAGCCGATCCTCCAGAC 59.896 60.000 0.00 0.00 0.00 3.51
5866 6507 1.144936 CAAGCCGATCCTCCAGACC 59.855 63.158 0.00 0.00 0.00 3.85
5867 6508 2.066999 AAGCCGATCCTCCAGACCC 61.067 63.158 0.00 0.00 0.00 4.46
5868 6509 2.764128 GCCGATCCTCCAGACCCA 60.764 66.667 0.00 0.00 0.00 4.51
5869 6510 2.367202 GCCGATCCTCCAGACCCAA 61.367 63.158 0.00 0.00 0.00 4.12
5870 6511 1.522569 CCGATCCTCCAGACCCAAC 59.477 63.158 0.00 0.00 0.00 3.77
5871 6512 1.522569 CGATCCTCCAGACCCAACC 59.477 63.158 0.00 0.00 0.00 3.77
5872 6513 1.915983 GATCCTCCAGACCCAACCC 59.084 63.158 0.00 0.00 0.00 4.11
5873 6514 1.972660 GATCCTCCAGACCCAACCCG 61.973 65.000 0.00 0.00 0.00 5.28
5874 6515 2.765705 ATCCTCCAGACCCAACCCGT 62.766 60.000 0.00 0.00 0.00 5.28
5875 6516 2.663196 CTCCAGACCCAACCCGTC 59.337 66.667 0.00 0.00 0.00 4.79
5876 6517 2.926242 TCCAGACCCAACCCGTCC 60.926 66.667 0.00 0.00 0.00 4.79
5877 6518 4.029809 CCAGACCCAACCCGTCCC 62.030 72.222 0.00 0.00 0.00 4.46
5878 6519 2.928396 CAGACCCAACCCGTCCCT 60.928 66.667 0.00 0.00 0.00 4.20
5879 6520 2.122099 AGACCCAACCCGTCCCTT 60.122 61.111 0.00 0.00 0.00 3.95
5880 6521 1.159184 AGACCCAACCCGTCCCTTA 59.841 57.895 0.00 0.00 0.00 2.69
5881 6522 0.253020 AGACCCAACCCGTCCCTTAT 60.253 55.000 0.00 0.00 0.00 1.73
5882 6523 1.008693 AGACCCAACCCGTCCCTTATA 59.991 52.381 0.00 0.00 0.00 0.98
5883 6524 1.415289 GACCCAACCCGTCCCTTATAG 59.585 57.143 0.00 0.00 0.00 1.31
5884 6525 0.108019 CCCAACCCGTCCCTTATAGC 59.892 60.000 0.00 0.00 0.00 2.97
5885 6526 0.834612 CCAACCCGTCCCTTATAGCA 59.165 55.000 0.00 0.00 0.00 3.49
5886 6527 1.202651 CCAACCCGTCCCTTATAGCAG 60.203 57.143 0.00 0.00 0.00 4.24
5887 6528 0.468648 AACCCGTCCCTTATAGCAGC 59.531 55.000 0.00 0.00 0.00 5.25
5888 6529 1.371558 CCCGTCCCTTATAGCAGCC 59.628 63.158 0.00 0.00 0.00 4.85
5889 6530 1.407656 CCCGTCCCTTATAGCAGCCA 61.408 60.000 0.00 0.00 0.00 4.75
5890 6531 0.034059 CCGTCCCTTATAGCAGCCAG 59.966 60.000 0.00 0.00 0.00 4.85
5891 6532 0.601311 CGTCCCTTATAGCAGCCAGC 60.601 60.000 0.00 0.00 46.19 4.85
5900 6541 4.410400 GCAGCCAGCGGGGTAAGT 62.410 66.667 7.43 0.00 44.97 2.24
5901 6542 2.436646 CAGCCAGCGGGGTAAGTG 60.437 66.667 7.43 0.00 44.97 3.16
5902 6543 4.410400 AGCCAGCGGGGTAAGTGC 62.410 66.667 5.55 0.00 44.90 4.40
5903 6544 4.410400 GCCAGCGGGGTAAGTGCT 62.410 66.667 4.64 0.00 40.16 4.40
5904 6545 2.351276 CCAGCGGGGTAAGTGCTT 59.649 61.111 0.00 0.00 36.69 3.91
5905 6546 2.040544 CCAGCGGGGTAAGTGCTTG 61.041 63.158 0.00 0.00 36.69 4.01
5906 6547 2.359975 AGCGGGGTAAGTGCTTGC 60.360 61.111 0.00 0.00 34.80 4.01
5907 6548 2.671619 GCGGGGTAAGTGCTTGCA 60.672 61.111 2.74 0.00 0.00 4.08
5908 6549 2.046285 GCGGGGTAAGTGCTTGCAT 61.046 57.895 0.00 0.00 0.00 3.96
5909 6550 1.595093 GCGGGGTAAGTGCTTGCATT 61.595 55.000 0.00 0.00 0.00 3.56
5910 6551 0.451783 CGGGGTAAGTGCTTGCATTC 59.548 55.000 0.00 0.00 0.00 2.67
5911 6552 0.817654 GGGGTAAGTGCTTGCATTCC 59.182 55.000 0.00 0.02 0.00 3.01
5912 6553 0.817654 GGGTAAGTGCTTGCATTCCC 59.182 55.000 0.00 5.31 0.00 3.97
5913 6554 1.544724 GGTAAGTGCTTGCATTCCCA 58.455 50.000 0.00 0.00 0.00 4.37
5914 6555 2.102578 GGTAAGTGCTTGCATTCCCAT 58.897 47.619 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 4.219846 ACCTCGCGACGACGATCG 62.220 66.667 14.88 14.88 46.93 3.69
13 14 2.350985 GACCTCGCGACGACGATC 60.351 66.667 12.29 7.04 42.02 3.69
14 15 3.873883 GGACCTCGCGACGACGAT 61.874 66.667 12.29 2.11 42.02 3.73
182 183 5.290158 CGTATAGAAGTGTTGCAACCGTTAT 59.710 40.000 26.14 17.82 0.00 1.89
184 185 3.430895 CGTATAGAAGTGTTGCAACCGTT 59.569 43.478 26.14 18.61 0.00 4.44
284 285 1.153745 GGTAGCGACTGAGCCACTG 60.154 63.158 0.00 0.00 38.01 3.66
285 286 2.352032 GGGTAGCGACTGAGCCACT 61.352 63.158 0.00 0.00 38.01 4.00
291 292 2.439701 CTCCCGGGTAGCGACTGA 60.440 66.667 22.86 0.00 0.00 3.41
504 506 4.777854 GCATCCCCGCCCCCTTTT 62.778 66.667 0.00 0.00 0.00 2.27
571 575 4.693525 GGAAACGTTTGGGCGCGG 62.694 66.667 20.10 0.00 34.88 6.46
574 578 1.737201 AAAGGGAAACGTTTGGGCG 59.263 52.632 20.10 0.00 45.92 6.13
589 593 2.866065 GCAACAACCCCAAATCCGAAAG 60.866 50.000 0.00 0.00 0.00 2.62
1264 1362 7.072030 CGAAACTTGAGGTATCAAACTTCTTG 58.928 38.462 8.73 0.00 44.68 3.02
1314 1413 8.127150 AGTATAACTAACCAACCGAACTAGTT 57.873 34.615 8.13 8.13 36.86 2.24
1367 1468 1.772063 AAAGTGTTGCGCGAGTGACC 61.772 55.000 12.10 0.00 0.00 4.02
1389 1491 4.199310 ACTCCAGCGTGCACAAATATAAT 58.801 39.130 18.64 0.00 0.00 1.28
1398 1502 2.758770 TACCGAACTCCAGCGTGCAC 62.759 60.000 6.82 6.82 0.00 4.57
1569 1676 3.844211 TGTTCTACTGGGCCAACTCTATT 59.156 43.478 8.04 0.00 0.00 1.73
1572 1679 1.625818 CTGTTCTACTGGGCCAACTCT 59.374 52.381 8.04 0.00 0.00 3.24
1604 1711 2.637872 TCTATGGGGCCATGCTAAGTAC 59.362 50.000 4.39 0.00 37.82 2.73
1701 1824 3.223226 ACCTTCGGTGTTCCACGT 58.777 55.556 0.00 0.00 32.98 4.49
1784 1907 0.326048 CTGGATCAGTGGACCTCCCT 60.326 60.000 0.00 0.00 35.38 4.20
1806 1929 4.229812 CCTAAACCTTCCCCTACCATTCTT 59.770 45.833 0.00 0.00 0.00 2.52
1835 1958 8.556036 CAAGATCTCTTCCTCTCTGCACAGAG 62.556 50.000 19.51 19.51 43.96 3.35
1840 1967 2.765135 CCAAGATCTCTTCCTCTCTGCA 59.235 50.000 0.00 0.00 33.11 4.41
1938 2065 5.949735 TCCTTCAAACAAAACACAAGAGAC 58.050 37.500 0.00 0.00 0.00 3.36
2056 2185 0.251341 AAGTGTCACCCCATTCTGCC 60.251 55.000 0.00 0.00 0.00 4.85
2186 2315 9.412460 TCAAGGAATGTTTGATAGCAGATAAAT 57.588 29.630 0.00 0.00 30.03 1.40
2308 2886 7.662897 TCATCATGCCTACACAACGTATTATA 58.337 34.615 0.00 0.00 0.00 0.98
2314 2892 2.760634 TCATCATGCCTACACAACGT 57.239 45.000 0.00 0.00 0.00 3.99
2445 3023 4.081420 ACGCATAGAGGAAATCAACTCAGT 60.081 41.667 0.00 0.00 36.20 3.41
2607 3191 9.259832 TGCTTGAGCCAGAATATCTCTATATTA 57.740 33.333 0.00 0.00 38.04 0.98
2622 3206 5.355071 TGTTAAATCAGTATGCTTGAGCCAG 59.645 40.000 0.00 0.00 41.18 4.85
2878 3462 8.936864 AGTATAGCAAGTAGACACAACAAATTC 58.063 33.333 0.00 0.00 0.00 2.17
2934 3518 3.901222 CAGTAAACCCCTTCCCAATTTGT 59.099 43.478 0.00 0.00 0.00 2.83
3011 3596 6.363626 CGGAACAAACGATCAGATAGGATAAG 59.636 42.308 0.00 0.00 0.00 1.73
3022 3607 1.872388 TTCTGCGGAACAAACGATCA 58.128 45.000 3.13 0.00 0.00 2.92
3023 3608 3.163594 CAATTCTGCGGAACAAACGATC 58.836 45.455 10.90 0.00 33.96 3.69
3054 3639 5.864418 AAATATCATCTGGCATTGTGCTT 57.136 34.783 1.64 0.00 44.28 3.91
3105 3690 1.065926 CCAGTCATTGCTGCCTCACTA 60.066 52.381 0.00 0.00 35.28 2.74
3324 3909 7.256332 GCTGAGGTTAATGGGAATCTGATACTA 60.256 40.741 0.00 0.00 0.00 1.82
3805 4390 4.191544 CCCATGTACACGAATGACTCAAT 58.808 43.478 0.00 0.00 0.00 2.57
3966 4551 7.233389 CTACATACCTGTAAGCATGTAGGAT 57.767 40.000 11.12 0.00 45.26 3.24
3990 4577 7.382898 TCAAACAAAGAAAGGGCCAAATATAC 58.617 34.615 6.18 0.00 0.00 1.47
4455 5042 7.095229 CGTGTATCAATTCCGAATACATCCAAT 60.095 37.037 0.00 0.00 31.50 3.16
4473 5060 0.461870 GCTCCATGGCACGTGTATCA 60.462 55.000 18.38 13.44 0.00 2.15
4662 5251 8.152898 AGATGCATCAAGTTCAACATAGCTATA 58.847 33.333 27.81 0.00 0.00 1.31
4664 5253 6.351711 AGATGCATCAAGTTCAACATAGCTA 58.648 36.000 27.81 0.00 0.00 3.32
4695 5284 5.499004 AAGCTAGTACCAAACAAGATCCA 57.501 39.130 0.00 0.00 0.00 3.41
4844 5434 7.125053 TGGAGTCAAGGACATATTGTGTACATA 59.875 37.037 0.00 0.00 44.69 2.29
4925 5539 9.158233 CCAAATCCTTTAAGTGTCGAAGTAATA 57.842 33.333 0.00 0.00 0.00 0.98
4926 5540 7.361799 GCCAAATCCTTTAAGTGTCGAAGTAAT 60.362 37.037 0.00 0.00 0.00 1.89
4927 5541 6.072893 GCCAAATCCTTTAAGTGTCGAAGTAA 60.073 38.462 0.00 0.00 0.00 2.24
4928 5542 5.410439 GCCAAATCCTTTAAGTGTCGAAGTA 59.590 40.000 0.00 0.00 0.00 2.24
4929 5543 4.215613 GCCAAATCCTTTAAGTGTCGAAGT 59.784 41.667 0.00 0.00 0.00 3.01
4930 5544 4.215399 TGCCAAATCCTTTAAGTGTCGAAG 59.785 41.667 0.00 0.00 0.00 3.79
4931 5545 4.138290 TGCCAAATCCTTTAAGTGTCGAA 58.862 39.130 0.00 0.00 0.00 3.71
4932 5546 3.745799 TGCCAAATCCTTTAAGTGTCGA 58.254 40.909 0.00 0.00 0.00 4.20
4933 5547 4.701956 ATGCCAAATCCTTTAAGTGTCG 57.298 40.909 0.00 0.00 0.00 4.35
4934 5548 7.391148 TTCTATGCCAAATCCTTTAAGTGTC 57.609 36.000 0.00 0.00 0.00 3.67
4935 5549 7.775053 TTTCTATGCCAAATCCTTTAAGTGT 57.225 32.000 0.00 0.00 0.00 3.55
4936 5550 8.925700 GTTTTTCTATGCCAAATCCTTTAAGTG 58.074 33.333 0.00 0.00 0.00 3.16
4937 5551 8.646900 TGTTTTTCTATGCCAAATCCTTTAAGT 58.353 29.630 0.00 0.00 0.00 2.24
4938 5552 8.925700 GTGTTTTTCTATGCCAAATCCTTTAAG 58.074 33.333 0.00 0.00 0.00 1.85
4939 5553 7.596995 CGTGTTTTTCTATGCCAAATCCTTTAA 59.403 33.333 0.00 0.00 0.00 1.52
4940 5554 7.087639 CGTGTTTTTCTATGCCAAATCCTTTA 58.912 34.615 0.00 0.00 0.00 1.85
4941 5555 5.925969 CGTGTTTTTCTATGCCAAATCCTTT 59.074 36.000 0.00 0.00 0.00 3.11
4942 5556 5.469479 CGTGTTTTTCTATGCCAAATCCTT 58.531 37.500 0.00 0.00 0.00 3.36
4943 5557 4.618227 GCGTGTTTTTCTATGCCAAATCCT 60.618 41.667 0.00 0.00 0.00 3.24
4944 5558 3.612423 GCGTGTTTTTCTATGCCAAATCC 59.388 43.478 0.00 0.00 0.00 3.01
4945 5559 4.233789 TGCGTGTTTTTCTATGCCAAATC 58.766 39.130 0.00 0.00 0.00 2.17
4946 5560 4.250116 TGCGTGTTTTTCTATGCCAAAT 57.750 36.364 0.00 0.00 0.00 2.32
4947 5561 3.717400 TGCGTGTTTTTCTATGCCAAA 57.283 38.095 0.00 0.00 0.00 3.28
4948 5562 3.181486 TGTTGCGTGTTTTTCTATGCCAA 60.181 39.130 0.00 0.00 0.00 4.52
4949 5563 2.359214 TGTTGCGTGTTTTTCTATGCCA 59.641 40.909 0.00 0.00 0.00 4.92
5081 5695 3.882888 ACGAGCACTCCTTTGAATTTTCA 59.117 39.130 0.00 0.00 34.92 2.69
5091 5705 2.995872 GCGAGGACGAGCACTCCTT 61.996 63.158 0.00 0.00 38.35 3.36
5115 5729 1.202203 GAACGGCGCATGATAACGTA 58.798 50.000 10.83 0.00 36.69 3.57
5124 5738 1.732941 TAAGATGTTGAACGGCGCAT 58.267 45.000 10.83 0.78 0.00 4.73
5128 5742 6.305638 GTCAAATCTTTAAGATGTTGAACGGC 59.694 38.462 21.82 12.97 35.56 5.68
5134 5748 7.140705 TGCTGTGTCAAATCTTTAAGATGTTG 58.859 34.615 8.34 13.57 34.65 3.33
5135 5749 7.275888 TGCTGTGTCAAATCTTTAAGATGTT 57.724 32.000 8.34 2.97 34.65 2.71
5138 5752 6.183360 CCGATGCTGTGTCAAATCTTTAAGAT 60.183 38.462 0.99 0.99 36.28 2.40
5142 5756 4.323417 ACCGATGCTGTGTCAAATCTTTA 58.677 39.130 0.00 0.00 0.00 1.85
5143 5757 3.149196 ACCGATGCTGTGTCAAATCTTT 58.851 40.909 0.00 0.00 0.00 2.52
5144 5758 2.783135 ACCGATGCTGTGTCAAATCTT 58.217 42.857 0.00 0.00 0.00 2.40
5149 5763 0.943673 CACAACCGATGCTGTGTCAA 59.056 50.000 0.00 0.00 38.49 3.18
5159 5773 0.476771 AACTTGGTCCCACAACCGAT 59.523 50.000 0.00 0.00 42.62 4.18
5162 5776 0.755327 AGCAACTTGGTCCCACAACC 60.755 55.000 0.00 0.00 39.94 3.77
5173 5787 6.799925 CCCGTTAGTACATTAAAAGCAACTTG 59.200 38.462 0.00 0.00 0.00 3.16
5189 5803 4.460382 CACTAAGTTCTCCACCCGTTAGTA 59.540 45.833 0.00 0.00 31.21 1.82
5196 5810 0.391263 CGGCACTAAGTTCTCCACCC 60.391 60.000 0.00 0.00 0.00 4.61
5257 5871 1.374252 AAACTGGGCGCGAGTACAG 60.374 57.895 12.10 14.07 40.88 2.74
5288 5903 1.528309 CCGACCAAACAGCCCAAGT 60.528 57.895 0.00 0.00 0.00 3.16
5289 5904 1.515521 GACCGACCAAACAGCCCAAG 61.516 60.000 0.00 0.00 0.00 3.61
5291 5906 2.112297 GACCGACCAAACAGCCCA 59.888 61.111 0.00 0.00 0.00 5.36
5303 5918 3.571828 TCCAAAATGATTTTGCAGACCGA 59.428 39.130 21.85 11.62 46.58 4.69
5304 5919 3.911868 TCCAAAATGATTTTGCAGACCG 58.088 40.909 21.85 9.74 46.58 4.79
5322 5937 2.114411 GCGGGAACAGGGTTTCCA 59.886 61.111 7.19 0.00 46.23 3.53
5324 5939 0.893727 ATGTGCGGGAACAGGGTTTC 60.894 55.000 0.00 0.00 32.52 2.78
5327 5942 2.351276 GATGTGCGGGAACAGGGT 59.649 61.111 0.00 0.00 32.52 4.34
5346 5961 4.167554 AGAAGCATAGTATGTCTAGCGC 57.832 45.455 11.73 0.00 33.70 5.92
5348 5963 7.206687 ACTTGAAGAAGCATAGTATGTCTAGC 58.793 38.462 11.73 4.87 31.68 3.42
5351 5966 8.531982 TGTAACTTGAAGAAGCATAGTATGTCT 58.468 33.333 11.73 4.92 31.68 3.41
5353 5968 7.275779 CGTGTAACTTGAAGAAGCATAGTATGT 59.724 37.037 11.73 0.00 31.68 2.29
5369 5984 6.128661 TGCTAGCTGAATAAACGTGTAACTTG 60.129 38.462 17.23 0.00 31.75 3.16
5377 5992 4.332819 GGATTGTGCTAGCTGAATAAACGT 59.667 41.667 17.23 0.00 0.00 3.99
5397 6012 8.109634 AGAACTGAATTTGTGTAACTATGGGAT 58.890 33.333 0.00 0.00 38.04 3.85
5481 6107 4.094887 CAGTTGCAGCAATCCTAACGTATT 59.905 41.667 11.96 0.00 0.00 1.89
5482 6108 3.623060 CAGTTGCAGCAATCCTAACGTAT 59.377 43.478 11.96 0.00 0.00 3.06
5483 6109 3.000041 CAGTTGCAGCAATCCTAACGTA 59.000 45.455 11.96 0.00 0.00 3.57
5484 6110 1.806542 CAGTTGCAGCAATCCTAACGT 59.193 47.619 11.96 0.00 0.00 3.99
5485 6111 1.806542 ACAGTTGCAGCAATCCTAACG 59.193 47.619 11.96 0.00 0.00 3.18
5486 6112 3.503748 AGAACAGTTGCAGCAATCCTAAC 59.496 43.478 11.96 0.00 0.00 2.34
5502 6128 1.942657 CAATGGCCACCGATAGAACAG 59.057 52.381 8.16 0.00 39.76 3.16
5508 6134 1.453015 GCACCAATGGCCACCGATA 60.453 57.895 8.16 0.00 0.00 2.92
5509 6135 2.755469 GCACCAATGGCCACCGAT 60.755 61.111 8.16 0.00 0.00 4.18
5510 6136 4.277009 TGCACCAATGGCCACCGA 62.277 61.111 8.16 0.00 0.00 4.69
5520 6146 1.034838 AAAGAACAGGCGTGCACCAA 61.035 50.000 12.15 0.00 0.00 3.67
5523 6161 1.082756 CGAAAGAACAGGCGTGCAC 60.083 57.895 6.82 6.82 0.00 4.57
5531 6169 5.266242 CCAAAGAAACTGACGAAAGAACAG 58.734 41.667 0.00 0.00 41.61 3.16
5532 6170 4.438200 GCCAAAGAAACTGACGAAAGAACA 60.438 41.667 0.00 0.00 0.00 3.18
5541 6179 2.029918 GGGACATGCCAAAGAAACTGAC 60.030 50.000 8.20 0.00 38.95 3.51
5574 6212 3.414700 GCACAAGAGCACGACGGG 61.415 66.667 0.00 0.00 0.00 5.28
5575 6213 3.414700 GGCACAAGAGCACGACGG 61.415 66.667 0.00 0.00 35.83 4.79
5577 6215 2.031163 AGGGCACAAGAGCACGAC 59.969 61.111 0.00 0.00 44.43 4.34
5578 6216 2.031012 CAGGGCACAAGAGCACGA 59.969 61.111 0.00 0.00 44.43 4.35
5579 6217 3.052082 CCAGGGCACAAGAGCACG 61.052 66.667 0.00 0.00 44.43 5.34
5580 6218 3.368571 GCCAGGGCACAAGAGCAC 61.369 66.667 5.20 0.00 41.49 4.40
5619 6259 3.031964 GCACCAGCAAGCGCACTAG 62.032 63.158 11.47 0.00 42.27 2.57
5620 6260 3.049674 GCACCAGCAAGCGCACTA 61.050 61.111 11.47 0.00 42.27 2.74
5671 6311 5.233988 TGACGGGGCATTCAAAAATTAAAG 58.766 37.500 0.00 0.00 0.00 1.85
5676 6316 2.830923 TGATGACGGGGCATTCAAAAAT 59.169 40.909 0.00 0.00 0.00 1.82
5680 6320 0.327924 AGTGATGACGGGGCATTCAA 59.672 50.000 0.00 0.00 0.00 2.69
5743 6383 1.136110 CCATCGGTTATTTGGTTGGCC 59.864 52.381 0.00 0.00 0.00 5.36
5745 6385 4.095782 CAGTACCATCGGTTATTTGGTTGG 59.904 45.833 0.00 0.00 40.87 3.77
5747 6387 3.692593 GCAGTACCATCGGTTATTTGGTT 59.307 43.478 0.00 0.00 40.87 3.67
5749 6389 2.616842 GGCAGTACCATCGGTTATTTGG 59.383 50.000 0.00 0.00 37.09 3.28
5755 6396 1.073284 ACAAAGGCAGTACCATCGGTT 59.927 47.619 0.00 0.00 43.14 4.44
5758 6399 2.093306 TGACAAAGGCAGTACCATCG 57.907 50.000 0.00 0.00 43.14 3.84
5764 6405 2.426522 GCAGTGATGACAAAGGCAGTA 58.573 47.619 0.00 0.00 0.00 2.74
5768 6409 1.598701 GGGGCAGTGATGACAAAGGC 61.599 60.000 0.00 0.00 0.00 4.35
5769 6410 0.967380 GGGGGCAGTGATGACAAAGG 60.967 60.000 0.00 0.00 0.00 3.11
5775 6416 3.399181 GTCCGGGGGCAGTGATGA 61.399 66.667 0.00 0.00 0.00 2.92
5791 6432 6.594744 TGAAGTATATCTTGTGATGGCATGT 58.405 36.000 3.81 0.00 36.40 3.21
5795 6436 5.471116 TGCATGAAGTATATCTTGTGATGGC 59.529 40.000 0.00 0.00 36.40 4.40
5797 6438 7.922837 TGTTGCATGAAGTATATCTTGTGATG 58.077 34.615 0.00 0.00 36.40 3.07
5798 6439 8.687292 ATGTTGCATGAAGTATATCTTGTGAT 57.313 30.769 0.00 0.00 36.40 3.06
5799 6440 7.989170 AGATGTTGCATGAAGTATATCTTGTGA 59.011 33.333 0.00 0.00 36.40 3.58
5800 6441 8.151141 AGATGTTGCATGAAGTATATCTTGTG 57.849 34.615 0.00 0.00 36.40 3.33
5801 6442 8.743085 AAGATGTTGCATGAAGTATATCTTGT 57.257 30.769 0.00 0.00 36.40 3.16
5803 6444 9.836864 TGTAAGATGTTGCATGAAGTATATCTT 57.163 29.630 9.74 9.74 37.40 2.40
5804 6445 9.486497 CTGTAAGATGTTGCATGAAGTATATCT 57.514 33.333 0.00 0.00 34.07 1.98
5805 6446 9.481340 TCTGTAAGATGTTGCATGAAGTATATC 57.519 33.333 0.00 0.00 38.67 1.63
5806 6447 9.486497 CTCTGTAAGATGTTGCATGAAGTATAT 57.514 33.333 0.00 0.00 45.62 0.86
5807 6448 7.928167 CCTCTGTAAGATGTTGCATGAAGTATA 59.072 37.037 0.00 0.00 45.62 1.47
5850 6491 2.444895 GGGTCTGGAGGATCGGCT 60.445 66.667 0.00 0.00 34.37 5.52
5855 6496 1.995626 CGGGTTGGGTCTGGAGGAT 60.996 63.158 0.00 0.00 0.00 3.24
5861 6502 1.196104 TAAGGGACGGGTTGGGTCTG 61.196 60.000 0.00 0.00 34.82 3.51
5862 6503 0.253020 ATAAGGGACGGGTTGGGTCT 60.253 55.000 0.00 0.00 34.82 3.85
5863 6504 1.415289 CTATAAGGGACGGGTTGGGTC 59.585 57.143 0.00 0.00 0.00 4.46
5864 6505 1.503800 CTATAAGGGACGGGTTGGGT 58.496 55.000 0.00 0.00 0.00 4.51
5865 6506 0.108019 GCTATAAGGGACGGGTTGGG 59.892 60.000 0.00 0.00 0.00 4.12
5866 6507 0.834612 TGCTATAAGGGACGGGTTGG 59.165 55.000 0.00 0.00 0.00 3.77
5867 6508 1.810412 GCTGCTATAAGGGACGGGTTG 60.810 57.143 0.00 0.00 0.00 3.77
5868 6509 0.468648 GCTGCTATAAGGGACGGGTT 59.531 55.000 0.00 0.00 0.00 4.11
5869 6510 1.408453 GGCTGCTATAAGGGACGGGT 61.408 60.000 0.00 0.00 0.00 5.28
5870 6511 1.371558 GGCTGCTATAAGGGACGGG 59.628 63.158 0.00 0.00 0.00 5.28
5871 6512 0.034059 CTGGCTGCTATAAGGGACGG 59.966 60.000 0.00 0.00 0.00 4.79
5872 6513 0.601311 GCTGGCTGCTATAAGGGACG 60.601 60.000 9.31 0.00 38.95 4.79
5873 6514 0.601311 CGCTGGCTGCTATAAGGGAC 60.601 60.000 14.58 0.00 40.11 4.46
5874 6515 1.748403 CGCTGGCTGCTATAAGGGA 59.252 57.895 14.58 0.00 40.11 4.20
5875 6516 1.302033 CCGCTGGCTGCTATAAGGG 60.302 63.158 14.58 3.24 40.11 3.95
5876 6517 1.302033 CCCGCTGGCTGCTATAAGG 60.302 63.158 14.58 7.44 40.11 2.69
5877 6518 1.302033 CCCCGCTGGCTGCTATAAG 60.302 63.158 14.58 0.00 40.11 1.73
5878 6519 0.761323 TACCCCGCTGGCTGCTATAA 60.761 55.000 14.58 0.00 40.11 0.98
5879 6520 0.761323 TTACCCCGCTGGCTGCTATA 60.761 55.000 14.58 0.00 40.11 1.31
5880 6521 2.044806 CTTACCCCGCTGGCTGCTAT 62.045 60.000 14.58 0.00 40.11 2.97
5881 6522 2.685743 TTACCCCGCTGGCTGCTA 60.686 61.111 14.58 0.00 40.11 3.49
5882 6523 4.101448 CTTACCCCGCTGGCTGCT 62.101 66.667 14.58 0.00 40.11 4.24
5883 6524 4.410400 ACTTACCCCGCTGGCTGC 62.410 66.667 6.26 6.26 37.83 5.25
5884 6525 2.436646 CACTTACCCCGCTGGCTG 60.437 66.667 0.00 0.00 37.83 4.85
5885 6526 4.410400 GCACTTACCCCGCTGGCT 62.410 66.667 0.00 0.00 37.83 4.75
5886 6527 3.920093 AAGCACTTACCCCGCTGGC 62.920 63.158 0.00 0.00 37.83 4.85
5887 6528 2.040544 CAAGCACTTACCCCGCTGG 61.041 63.158 0.00 0.00 35.79 4.85
5888 6529 2.690778 GCAAGCACTTACCCCGCTG 61.691 63.158 0.00 0.00 35.79 5.18
5889 6530 2.359975 GCAAGCACTTACCCCGCT 60.360 61.111 0.00 0.00 37.68 5.52
5890 6531 1.595093 AATGCAAGCACTTACCCCGC 61.595 55.000 0.00 0.00 0.00 6.13
5891 6532 0.451783 GAATGCAAGCACTTACCCCG 59.548 55.000 0.00 0.00 0.00 5.73
5892 6533 0.817654 GGAATGCAAGCACTTACCCC 59.182 55.000 0.00 0.00 0.00 4.95
5893 6534 0.817654 GGGAATGCAAGCACTTACCC 59.182 55.000 0.00 4.56 0.00 3.69
5894 6535 1.544724 TGGGAATGCAAGCACTTACC 58.455 50.000 0.00 4.41 0.00 2.85


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

AutoCloner maintained by Alex Coulton.