Multiple sequence alignment - TraesCS6B01G004400

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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 TraesCS6B01G004400 chr6B 100.000 4601 0 0 1 4601 3383841 3388441 0.000000e+00 8497.0
1 TraesCS6B01G004400 chr6B 80.800 250 35 10 503 752 642223392 642223628 2.830000e-42 183.0
2 TraesCS6B01G004400 chr6B 79.842 253 39 10 503 754 642265974 642266215 1.700000e-39 174.0
3 TraesCS6B01G004400 chr6B 76.761 142 28 4 1535 1674 663794587 663794725 1.780000e-09 75.0
4 TraesCS6B01G004400 chr6B 92.593 54 1 2 3410 3463 687291357 687291307 1.780000e-09 75.0
5 TraesCS6B01G004400 chr6A 98.470 4379 38 9 36 4401 287268 291630 0.000000e+00 7688.0
6 TraesCS6B01G004400 chr6A 81.028 253 36 11 503 754 571190460 571190701 1.690000e-44 191.0
7 TraesCS6B01G004400 chr6A 100.000 28 0 0 4206 4233 447622361 447622334 8.000000e-03 52.8
8 TraesCS6B01G004400 chr6D 92.337 2336 105 23 1426 3740 805924 808206 0.000000e+00 3254.0
9 TraesCS6B01G004400 chr6D 87.201 1461 73 39 2 1422 804504 805890 0.000000e+00 1557.0
10 TraesCS6B01G004400 chr6D 87.901 405 26 6 3797 4178 808387 808791 5.430000e-124 455.0
11 TraesCS6B01G004400 chr6D 80.632 253 37 11 503 754 426859782 426860023 7.860000e-43 185.0
12 TraesCS6B01G004400 chr5B 89.468 978 73 18 2239 3204 402845776 402844817 0.000000e+00 1208.0
13 TraesCS6B01G004400 chr5B 93.258 89 6 0 4512 4600 1128650 1128562 1.040000e-26 132.0
14 TraesCS6B01G004400 chr5B 78.302 106 21 2 3915 4019 590069301 590069405 2.970000e-07 67.6
15 TraesCS6B01G004400 chr7A 85.867 375 41 11 11 377 8382681 8383051 5.580000e-104 388.0
16 TraesCS6B01G004400 chr7A 77.980 604 96 26 30 625 735375819 735375245 1.230000e-90 344.0
17 TraesCS6B01G004400 chr7A 77.483 604 97 26 30 625 735393886 735393314 4.440000e-85 326.0
18 TraesCS6B01G004400 chr7B 77.649 604 96 27 30 625 744462671 744463243 9.540000e-87 331.0
19 TraesCS6B01G004400 chr7B 77.483 604 97 26 30 625 744495301 744495873 4.440000e-85 326.0
20 TraesCS6B01G004400 chr7B 78.876 516 80 19 30 538 744506894 744507387 5.740000e-84 322.0
21 TraesCS6B01G004400 chr7D 78.058 515 87 15 30 538 632362939 632363433 7.480000e-78 302.0
22 TraesCS6B01G004400 chr5A 91.216 148 12 1 1 147 568161736 568161589 2.810000e-47 200.0
23 TraesCS6B01G004400 chr1A 78.516 256 34 12 503 757 557050306 557050071 1.030000e-31 148.0
24 TraesCS6B01G004400 chr1A 96.875 32 1 0 3967 3998 433738900 433738931 2.000000e-03 54.7
25 TraesCS6B01G004400 chr1A 96.875 32 1 0 3967 3998 481218307 481218338 2.000000e-03 54.7
26 TraesCS6B01G004400 chrUn 93.258 89 6 0 4512 4600 203739173 203739085 1.040000e-26 132.0
27 TraesCS6B01G004400 chrUn 80.791 177 23 6 2418 2589 459903794 459903624 1.340000e-25 128.0
28 TraesCS6B01G004400 chrUn 92.135 89 7 0 4512 4600 65496890 65496978 4.830000e-25 126.0
29 TraesCS6B01G004400 chrUn 92.135 89 7 0 4512 4600 158308558 158308646 4.830000e-25 126.0
30 TraesCS6B01G004400 chrUn 92.135 89 7 0 4512 4600 158329345 158329433 4.830000e-25 126.0
31 TraesCS6B01G004400 chrUn 92.135 89 7 0 4512 4600 158412123 158412211 4.830000e-25 126.0
32 TraesCS6B01G004400 chrUn 92.135 89 7 0 4512 4600 158413188 158413276 4.830000e-25 126.0
33 TraesCS6B01G004400 chrUn 92.222 90 5 2 4512 4600 158414253 158414341 4.830000e-25 126.0
34 TraesCS6B01G004400 chrUn 80.226 177 24 6 2418 2589 460612493 460612663 6.250000e-24 122.0
35 TraesCS6B01G004400 chrUn 80.208 96 16 3 1535 1630 332731891 332731983 8.260000e-08 69.4
36 TraesCS6B01G004400 chr4B 88.462 104 11 1 4499 4601 27031017 27031120 1.740000e-24 124.0
37 TraesCS6B01G004400 chr4B 100.000 29 0 0 3970 3998 451241136 451241108 2.000000e-03 54.7
38 TraesCS6B01G004400 chr4B 100.000 29 0 0 3970 3998 451260586 451260558 2.000000e-03 54.7
39 TraesCS6B01G004400 chr4B 100.000 29 0 0 3970 3998 451309916 451309888 2.000000e-03 54.7
40 TraesCS6B01G004400 chr4A 86.408 103 12 1 2418 2520 657199350 657199250 1.350000e-20 111.0
41 TraesCS6B01G004400 chr4A 80.208 96 16 3 1535 1630 592757106 592757198 8.260000e-08 69.4
42 TraesCS6B01G004400 chr4A 80.208 96 16 3 1535 1630 593045185 593045277 8.260000e-08 69.4
43 TraesCS6B01G004400 chr3B 82.258 124 20 2 561 683 43731524 43731646 6.300000e-19 106.0
44 TraesCS6B01G004400 chr1D 75.646 271 35 18 476 738 433416188 433415941 6.300000e-19 106.0
45 TraesCS6B01G004400 chr1D 81.395 86 11 4 3930 4013 83128754 83128836 1.070000e-06 65.8
46 TraesCS6B01G004400 chr2A 92.647 68 3 2 507 574 748817084 748817149 3.790000e-16 97.1
47 TraesCS6B01G004400 chr2A 93.617 47 3 0 1276 1322 770683237 770683191 2.300000e-08 71.3


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 TraesCS6B01G004400 chr6B 3383841 3388441 4600 False 8497.000000 8497 100.000000 1 4601 1 chr6B.!!$F1 4600
1 TraesCS6B01G004400 chr6A 287268 291630 4362 False 7688.000000 7688 98.470000 36 4401 1 chr6A.!!$F1 4365
2 TraesCS6B01G004400 chr6D 804504 808791 4287 False 1755.333333 3254 89.146333 2 4178 3 chr6D.!!$F2 4176
3 TraesCS6B01G004400 chr5B 402844817 402845776 959 True 1208.000000 1208 89.468000 2239 3204 1 chr5B.!!$R2 965
4 TraesCS6B01G004400 chr7A 735375245 735375819 574 True 344.000000 344 77.980000 30 625 1 chr7A.!!$R1 595
5 TraesCS6B01G004400 chr7A 735393314 735393886 572 True 326.000000 326 77.483000 30 625 1 chr7A.!!$R2 595
6 TraesCS6B01G004400 chr7B 744462671 744463243 572 False 331.000000 331 77.649000 30 625 1 chr7B.!!$F1 595
7 TraesCS6B01G004400 chr7B 744495301 744495873 572 False 326.000000 326 77.483000 30 625 1 chr7B.!!$F2 595

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
411 426 1.448540 CACCGCCGAGCTGAAAGAT 60.449 57.895 0.00 0.00 34.07 2.40 F
819 865 2.108075 TGTGGGCCTCTGATTTCTGAAA 59.892 45.455 4.53 5.15 0.00 2.69 F
988 1045 2.928801 ACATGTAGCTTGTCACCACA 57.071 45.000 0.00 0.00 0.00 4.17 F
1511 1598 4.663636 ATCCTTTTAACAACGCTCTTCG 57.336 40.909 0.00 0.00 45.38 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
3325 3445 1.645034 CGGGTACTGCAAGAGACATG 58.355 55.0 0.0 0.0 37.43 3.21 R
3338 3458 0.465824 TCAGAGAGCTAGGCGGGTAC 60.466 60.0 0.0 0.0 0.00 3.34 R
3339 3459 0.478942 ATCAGAGAGCTAGGCGGGTA 59.521 55.0 0.0 0.0 0.00 3.69 R
4425 4696 0.036306 ACCGCCCAAGACCTAAAGTG 59.964 55.0 0.0 0.0 0.00 3.16 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
24 25 7.939784 TGTTATGCTCTAGTTACTTCTGAGA 57.060 36.000 11.68 0.00 0.00 3.27
48 49 5.535030 ACCTCAACCTATGTTCTTGGTTTTC 59.465 40.000 0.00 0.00 40.44 2.29
173 180 5.048294 TGTTCTCTCTGACACGCTGTTATTA 60.048 40.000 0.00 0.00 0.00 0.98
183 190 2.096819 ACGCTGTTATTATTGTTGCCCG 59.903 45.455 0.00 0.00 0.00 6.13
191 198 1.536943 TATTGTTGCCCGTTTGCCCC 61.537 55.000 0.00 0.00 0.00 5.80
411 426 1.448540 CACCGCCGAGCTGAAAGAT 60.449 57.895 0.00 0.00 34.07 2.40
598 613 6.024049 GCTTGTCAAACTGAATCTTAATCGG 58.976 40.000 0.00 0.00 0.00 4.18
605 620 3.375299 ACTGAATCTTAATCGGCAAGTGC 59.625 43.478 0.00 0.00 41.14 4.40
634 651 6.899393 TTGCTTGTTATCATCTTCCTGTTT 57.101 33.333 0.00 0.00 0.00 2.83
715 746 7.973388 TGGTTCTTTAAGATTGGAATATTTGCG 59.027 33.333 0.00 0.00 0.00 4.85
726 757 7.397892 TTGGAATATTTGCGGATTTCTGTTA 57.602 32.000 0.00 0.00 0.00 2.41
819 865 2.108075 TGTGGGCCTCTGATTTCTGAAA 59.892 45.455 4.53 5.15 0.00 2.69
820 866 3.157087 GTGGGCCTCTGATTTCTGAAAA 58.843 45.455 4.53 0.00 0.00 2.29
988 1045 2.928801 ACATGTAGCTTGTCACCACA 57.071 45.000 0.00 0.00 0.00 4.17
1511 1598 4.663636 ATCCTTTTAACAACGCTCTTCG 57.336 40.909 0.00 0.00 45.38 3.79
3325 3445 7.328737 CCAAGCAACTCGGTAACTGATATATAC 59.671 40.741 0.00 0.00 0.00 1.47
3326 3446 7.520451 AGCAACTCGGTAACTGATATATACA 57.480 36.000 0.00 0.00 0.00 2.29
3327 3447 8.123639 AGCAACTCGGTAACTGATATATACAT 57.876 34.615 0.00 0.00 0.00 2.29
3328 3448 8.029522 AGCAACTCGGTAACTGATATATACATG 58.970 37.037 0.00 0.00 0.00 3.21
3329 3449 7.813148 GCAACTCGGTAACTGATATATACATGT 59.187 37.037 2.69 2.69 0.00 3.21
3330 3450 9.343103 CAACTCGGTAACTGATATATACATGTC 57.657 37.037 0.00 0.00 0.00 3.06
3331 3451 8.865420 ACTCGGTAACTGATATATACATGTCT 57.135 34.615 0.00 0.00 0.00 3.41
3332 3452 8.948145 ACTCGGTAACTGATATATACATGTCTC 58.052 37.037 0.00 0.00 0.00 3.36
3333 3453 9.168451 CTCGGTAACTGATATATACATGTCTCT 57.832 37.037 0.00 0.00 0.00 3.10
3334 3454 9.516546 TCGGTAACTGATATATACATGTCTCTT 57.483 33.333 0.00 0.00 0.00 2.85
3335 3455 9.561270 CGGTAACTGATATATACATGTCTCTTG 57.439 37.037 0.00 0.00 0.00 3.02
3336 3456 9.360093 GGTAACTGATATATACATGTCTCTTGC 57.640 37.037 0.00 0.00 0.00 4.01
3337 3457 9.914131 GTAACTGATATATACATGTCTCTTGCA 57.086 33.333 0.00 0.00 0.00 4.08
3339 3459 8.187913 ACTGATATATACATGTCTCTTGCAGT 57.812 34.615 0.00 8.44 0.00 4.40
3340 3460 9.301897 ACTGATATATACATGTCTCTTGCAGTA 57.698 33.333 0.00 0.00 0.00 2.74
3705 3829 5.449177 CCACTGCTTGCTACTAAATTAAGCC 60.449 44.000 0.00 0.00 42.17 4.35
4315 4586 7.889873 TGTGAACCCTTTTCTAATTTGAGAA 57.110 32.000 0.00 0.00 33.57 2.87
4408 4679 7.990541 TCTGATGTTTCATTTGAAAACTGTG 57.009 32.000 7.28 0.40 44.58 3.66
4409 4680 7.770201 TCTGATGTTTCATTTGAAAACTGTGA 58.230 30.769 7.28 2.43 44.58 3.58
4410 4681 8.249638 TCTGATGTTTCATTTGAAAACTGTGAA 58.750 29.630 7.28 0.00 44.58 3.18
4411 4682 8.945481 TGATGTTTCATTTGAAAACTGTGAAT 57.055 26.923 7.28 0.00 44.58 2.57
4412 4683 9.381033 TGATGTTTCATTTGAAAACTGTGAATT 57.619 25.926 7.28 0.00 44.58 2.17
4423 4694 9.528018 TTGAAAACTGTGAATTTATTGTCTTCC 57.472 29.630 0.00 0.00 0.00 3.46
4424 4695 8.141268 TGAAAACTGTGAATTTATTGTCTTCCC 58.859 33.333 0.00 0.00 0.00 3.97
4425 4696 6.590234 AACTGTGAATTTATTGTCTTCCCC 57.410 37.500 0.00 0.00 0.00 4.81
4426 4697 5.640147 ACTGTGAATTTATTGTCTTCCCCA 58.360 37.500 0.00 0.00 0.00 4.96
4427 4698 5.476945 ACTGTGAATTTATTGTCTTCCCCAC 59.523 40.000 0.00 0.00 0.00 4.61
4428 4699 5.640147 TGTGAATTTATTGTCTTCCCCACT 58.360 37.500 0.00 0.00 0.00 4.00
4429 4700 6.074648 TGTGAATTTATTGTCTTCCCCACTT 58.925 36.000 0.00 0.00 0.00 3.16
4430 4701 6.553100 TGTGAATTTATTGTCTTCCCCACTTT 59.447 34.615 0.00 0.00 0.00 2.66
4431 4702 7.726291 TGTGAATTTATTGTCTTCCCCACTTTA 59.274 33.333 0.00 0.00 0.00 1.85
4432 4703 8.244113 GTGAATTTATTGTCTTCCCCACTTTAG 58.756 37.037 0.00 0.00 0.00 1.85
4433 4704 7.396055 TGAATTTATTGTCTTCCCCACTTTAGG 59.604 37.037 0.00 0.00 0.00 2.69
4434 4705 5.853572 TTATTGTCTTCCCCACTTTAGGT 57.146 39.130 0.00 0.00 0.00 3.08
4435 4706 3.782656 TTGTCTTCCCCACTTTAGGTC 57.217 47.619 0.00 0.00 0.00 3.85
4436 4707 2.986050 TGTCTTCCCCACTTTAGGTCT 58.014 47.619 0.00 0.00 0.00 3.85
4437 4708 3.323775 TGTCTTCCCCACTTTAGGTCTT 58.676 45.455 0.00 0.00 0.00 3.01
4438 4709 3.072476 TGTCTTCCCCACTTTAGGTCTTG 59.928 47.826 0.00 0.00 0.00 3.02
4439 4710 2.642807 TCTTCCCCACTTTAGGTCTTGG 59.357 50.000 0.00 0.00 0.00 3.61
4441 4712 0.323451 CCCCACTTTAGGTCTTGGGC 60.323 60.000 0.00 0.00 46.62 5.36
4442 4713 0.676782 CCCACTTTAGGTCTTGGGCG 60.677 60.000 0.00 0.00 42.40 6.13
4443 4714 0.676782 CCACTTTAGGTCTTGGGCGG 60.677 60.000 0.00 0.00 0.00 6.13
4444 4715 0.036306 CACTTTAGGTCTTGGGCGGT 59.964 55.000 0.00 0.00 0.00 5.68
4445 4716 0.036306 ACTTTAGGTCTTGGGCGGTG 59.964 55.000 0.00 0.00 0.00 4.94
4446 4717 1.302993 TTTAGGTCTTGGGCGGTGC 60.303 57.895 0.00 0.00 0.00 5.01
4447 4718 1.774894 TTTAGGTCTTGGGCGGTGCT 61.775 55.000 0.00 0.00 0.00 4.40
4448 4719 2.463589 TTAGGTCTTGGGCGGTGCTG 62.464 60.000 0.00 0.00 0.00 4.41
4449 4720 4.643387 GGTCTTGGGCGGTGCTGT 62.643 66.667 0.00 0.00 0.00 4.40
4450 4721 3.357079 GTCTTGGGCGGTGCTGTG 61.357 66.667 0.00 0.00 0.00 3.66
4451 4722 3.872603 TCTTGGGCGGTGCTGTGT 61.873 61.111 0.00 0.00 0.00 3.72
4452 4723 3.663176 CTTGGGCGGTGCTGTGTG 61.663 66.667 0.00 0.00 0.00 3.82
4453 4724 4.182433 TTGGGCGGTGCTGTGTGA 62.182 61.111 0.00 0.00 0.00 3.58
4454 4725 3.705934 TTGGGCGGTGCTGTGTGAA 62.706 57.895 0.00 0.00 0.00 3.18
4455 4726 2.672996 GGGCGGTGCTGTGTGAAT 60.673 61.111 0.00 0.00 0.00 2.57
4456 4727 1.376683 GGGCGGTGCTGTGTGAATA 60.377 57.895 0.00 0.00 0.00 1.75
4457 4728 0.748005 GGGCGGTGCTGTGTGAATAT 60.748 55.000 0.00 0.00 0.00 1.28
4458 4729 0.378257 GGCGGTGCTGTGTGAATATG 59.622 55.000 0.00 0.00 0.00 1.78
4459 4730 0.378257 GCGGTGCTGTGTGAATATGG 59.622 55.000 0.00 0.00 0.00 2.74
4460 4731 1.016627 CGGTGCTGTGTGAATATGGG 58.983 55.000 0.00 0.00 0.00 4.00
4461 4732 0.740737 GGTGCTGTGTGAATATGGGC 59.259 55.000 0.00 0.00 0.00 5.36
4462 4733 0.740737 GTGCTGTGTGAATATGGGCC 59.259 55.000 0.00 0.00 0.00 5.80
4463 4734 0.395586 TGCTGTGTGAATATGGGCCC 60.396 55.000 17.59 17.59 0.00 5.80
4464 4735 1.447317 GCTGTGTGAATATGGGCCCG 61.447 60.000 19.37 0.00 0.00 6.13
4465 4736 0.107214 CTGTGTGAATATGGGCCCGT 60.107 55.000 23.08 23.08 0.00 5.28
4466 4737 0.107410 TGTGTGAATATGGGCCCGTC 60.107 55.000 23.23 13.75 0.00 4.79
4467 4738 0.818040 GTGTGAATATGGGCCCGTCC 60.818 60.000 23.23 11.87 0.00 4.79
4468 4739 0.986019 TGTGAATATGGGCCCGTCCT 60.986 55.000 23.23 8.91 34.39 3.85
4469 4740 0.182775 GTGAATATGGGCCCGTCCTT 59.817 55.000 23.23 15.81 34.39 3.36
4470 4741 0.923358 TGAATATGGGCCCGTCCTTT 59.077 50.000 23.23 13.19 34.39 3.11
4471 4742 1.286553 TGAATATGGGCCCGTCCTTTT 59.713 47.619 23.23 10.45 34.39 2.27
4472 4743 2.510382 TGAATATGGGCCCGTCCTTTTA 59.490 45.455 23.23 7.19 34.39 1.52
4473 4744 3.053544 TGAATATGGGCCCGTCCTTTTAA 60.054 43.478 23.23 0.00 34.39 1.52
4474 4745 3.895704 ATATGGGCCCGTCCTTTTAAT 57.104 42.857 23.23 3.04 34.39 1.40
4475 4746 2.543037 ATGGGCCCGTCCTTTTAATT 57.457 45.000 19.37 0.00 34.39 1.40
4476 4747 1.842052 TGGGCCCGTCCTTTTAATTC 58.158 50.000 19.37 0.00 34.39 2.17
4477 4748 0.736636 GGGCCCGTCCTTTTAATTCG 59.263 55.000 5.69 0.00 34.39 3.34
4478 4749 0.736636 GGCCCGTCCTTTTAATTCGG 59.263 55.000 0.00 0.00 40.72 4.30
4479 4750 0.099968 GCCCGTCCTTTTAATTCGGC 59.900 55.000 0.00 0.00 39.87 5.54
4480 4751 1.455248 CCCGTCCTTTTAATTCGGCA 58.545 50.000 0.00 0.00 39.87 5.69
4481 4752 1.813786 CCCGTCCTTTTAATTCGGCAA 59.186 47.619 0.00 0.00 39.87 4.52
4482 4753 2.414957 CCCGTCCTTTTAATTCGGCAAC 60.415 50.000 0.00 0.00 39.87 4.17
4494 4765 4.606071 GGCAACGAGAGCACATCT 57.394 55.556 0.00 0.00 42.61 2.90
4495 4766 2.846371 GGCAACGAGAGCACATCTT 58.154 52.632 0.00 0.00 38.84 2.40
4496 4767 0.723981 GGCAACGAGAGCACATCTTC 59.276 55.000 0.00 0.00 38.84 2.87
4497 4768 1.674221 GGCAACGAGAGCACATCTTCT 60.674 52.381 0.00 0.00 38.84 2.85
4498 4769 1.658095 GCAACGAGAGCACATCTTCTC 59.342 52.381 0.00 0.00 38.84 2.87
4499 4770 2.673610 GCAACGAGAGCACATCTTCTCT 60.674 50.000 0.00 0.00 41.95 3.10
4500 4771 3.583806 CAACGAGAGCACATCTTCTCTT 58.416 45.455 0.00 0.00 39.57 2.85
4501 4772 3.951775 ACGAGAGCACATCTTCTCTTT 57.048 42.857 0.00 0.00 39.57 2.52
4502 4773 4.264460 ACGAGAGCACATCTTCTCTTTT 57.736 40.909 0.00 0.00 39.57 2.27
4503 4774 5.392767 ACGAGAGCACATCTTCTCTTTTA 57.607 39.130 0.00 0.00 39.57 1.52
4504 4775 5.784177 ACGAGAGCACATCTTCTCTTTTAA 58.216 37.500 0.00 0.00 39.57 1.52
4505 4776 5.635700 ACGAGAGCACATCTTCTCTTTTAAC 59.364 40.000 0.00 0.00 39.57 2.01
4506 4777 5.635280 CGAGAGCACATCTTCTCTTTTAACA 59.365 40.000 0.00 0.00 39.57 2.41
4507 4778 6.146184 CGAGAGCACATCTTCTCTTTTAACAA 59.854 38.462 0.00 0.00 39.57 2.83
4508 4779 7.307396 CGAGAGCACATCTTCTCTTTTAACAAA 60.307 37.037 0.00 0.00 39.57 2.83
4509 4780 7.869800 AGAGCACATCTTCTCTTTTAACAAAG 58.130 34.615 0.00 0.00 36.33 2.77
4510 4781 6.442112 AGCACATCTTCTCTTTTAACAAAGC 58.558 36.000 0.00 0.00 39.56 3.51
4511 4782 6.264067 AGCACATCTTCTCTTTTAACAAAGCT 59.736 34.615 0.00 0.00 39.56 3.74
4512 4783 6.920210 GCACATCTTCTCTTTTAACAAAGCTT 59.080 34.615 0.00 0.00 39.56 3.74
4513 4784 7.436376 GCACATCTTCTCTTTTAACAAAGCTTT 59.564 33.333 5.69 5.69 39.56 3.51
4514 4785 8.749499 CACATCTTCTCTTTTAACAAAGCTTTG 58.251 33.333 32.53 32.53 39.56 2.77
4515 4786 7.922811 ACATCTTCTCTTTTAACAAAGCTTTGG 59.077 33.333 35.65 20.58 42.34 3.28
4516 4787 6.805713 TCTTCTCTTTTAACAAAGCTTTGGG 58.194 36.000 35.65 17.78 42.34 4.12
4517 4788 4.944048 TCTCTTTTAACAAAGCTTTGGGC 58.056 39.130 35.65 0.00 42.34 5.36
4533 4804 4.132999 GCTCCCAGAGCGATTTCC 57.867 61.111 0.06 0.00 45.85 3.13
4534 4805 1.221840 GCTCCCAGAGCGATTTCCA 59.778 57.895 0.06 0.00 45.85 3.53
4535 4806 1.092345 GCTCCCAGAGCGATTTCCAC 61.092 60.000 0.06 0.00 45.85 4.02
4536 4807 0.807667 CTCCCAGAGCGATTTCCACG 60.808 60.000 0.00 0.00 0.00 4.94
4537 4808 1.218047 CCCAGAGCGATTTCCACGA 59.782 57.895 0.00 0.00 0.00 4.35
4538 4809 0.179073 CCCAGAGCGATTTCCACGAT 60.179 55.000 0.00 0.00 0.00 3.73
4539 4810 1.656652 CCAGAGCGATTTCCACGATT 58.343 50.000 0.00 0.00 0.00 3.34
4540 4811 1.328680 CCAGAGCGATTTCCACGATTG 59.671 52.381 0.00 0.00 0.00 2.67
4541 4812 2.270923 CAGAGCGATTTCCACGATTGA 58.729 47.619 0.00 0.00 0.00 2.57
4542 4813 2.029728 CAGAGCGATTTCCACGATTGAC 59.970 50.000 0.00 0.00 0.00 3.18
4544 4815 0.996462 GCGATTTCCACGATTGACGA 59.004 50.000 0.00 0.00 45.77 4.20
4545 4816 1.593006 GCGATTTCCACGATTGACGAT 59.407 47.619 0.00 0.00 45.77 3.73
4546 4817 2.347661 GCGATTTCCACGATTGACGATC 60.348 50.000 0.00 0.00 45.77 3.69
4547 4818 2.218759 CGATTTCCACGATTGACGATCC 59.781 50.000 0.00 0.00 45.77 3.36
4548 4819 2.018542 TTTCCACGATTGACGATCCC 57.981 50.000 0.00 0.00 45.77 3.85
4549 4820 0.177141 TTCCACGATTGACGATCCCC 59.823 55.000 0.00 0.00 45.77 4.81
4550 4821 1.591594 CCACGATTGACGATCCCCG 60.592 63.158 0.00 0.00 45.77 5.73
4551 4822 1.591594 CACGATTGACGATCCCCGG 60.592 63.158 0.00 0.00 45.77 5.73
4552 4823 2.029073 CGATTGACGATCCCCGGG 59.971 66.667 15.80 15.80 45.77 5.73
4553 4824 2.426023 GATTGACGATCCCCGGGG 59.574 66.667 35.80 35.80 43.93 5.73
4554 4825 2.366435 ATTGACGATCCCCGGGGT 60.366 61.111 38.73 25.91 43.93 4.95
4555 4826 2.660258 GATTGACGATCCCCGGGGTG 62.660 65.000 38.73 29.41 43.93 4.61
4560 4831 4.419921 GATCCCCGGGGTGCGTTT 62.420 66.667 38.73 17.40 36.47 3.60
4561 4832 3.010314 ATCCCCGGGGTGCGTTTA 61.010 61.111 38.73 19.01 36.47 2.01
4562 4833 3.333899 ATCCCCGGGGTGCGTTTAC 62.334 63.158 38.73 0.00 36.47 2.01
4564 4835 4.685467 CCCGGGGTGCGTTTACGT 62.685 66.667 14.71 0.00 42.22 3.57
4565 4836 3.416382 CCGGGGTGCGTTTACGTG 61.416 66.667 0.00 0.00 42.22 4.49
4566 4837 3.416382 CGGGGTGCGTTTACGTGG 61.416 66.667 0.00 0.00 42.22 4.94
4567 4838 3.729698 GGGGTGCGTTTACGTGGC 61.730 66.667 0.00 0.00 42.22 5.01
4568 4839 3.729698 GGGTGCGTTTACGTGGCC 61.730 66.667 0.00 0.00 42.22 5.36
4569 4840 4.079748 GGTGCGTTTACGTGGCCG 62.080 66.667 0.00 0.00 42.22 6.13
4571 4842 3.037249 TGCGTTTACGTGGCCGTC 61.037 61.111 0.00 0.00 46.28 4.79
4572 4843 3.037249 GCGTTTACGTGGCCGTCA 61.037 61.111 0.00 0.00 46.28 4.35
4573 4844 2.385091 GCGTTTACGTGGCCGTCAT 61.385 57.895 0.00 0.00 46.28 3.06
4574 4845 1.705727 CGTTTACGTGGCCGTCATC 59.294 57.895 0.00 0.00 46.28 2.92
4575 4846 1.009903 CGTTTACGTGGCCGTCATCA 61.010 55.000 0.00 0.00 46.28 3.07
4576 4847 1.149987 GTTTACGTGGCCGTCATCAA 58.850 50.000 0.00 0.00 46.28 2.57
4577 4848 1.136169 GTTTACGTGGCCGTCATCAAC 60.136 52.381 0.00 0.00 46.28 3.18
4578 4849 0.033642 TTACGTGGCCGTCATCAACA 59.966 50.000 0.00 0.00 46.28 3.33
4579 4850 0.668096 TACGTGGCCGTCATCAACAC 60.668 55.000 0.00 0.00 46.28 3.32
4580 4851 1.667830 CGTGGCCGTCATCAACACT 60.668 57.895 0.00 0.00 0.00 3.55
4581 4852 1.227999 CGTGGCCGTCATCAACACTT 61.228 55.000 0.00 0.00 0.00 3.16
4582 4853 0.238289 GTGGCCGTCATCAACACTTG 59.762 55.000 0.00 0.00 0.00 3.16
4583 4854 0.107643 TGGCCGTCATCAACACTTGA 59.892 50.000 0.00 0.00 45.01 3.02
4584 4855 1.234821 GGCCGTCATCAACACTTGAA 58.765 50.000 0.00 0.00 43.95 2.69
4585 4856 1.197721 GGCCGTCATCAACACTTGAAG 59.802 52.381 0.00 0.00 43.95 3.02
4586 4857 1.873591 GCCGTCATCAACACTTGAAGT 59.126 47.619 0.00 0.00 43.95 3.01
4587 4858 2.290641 GCCGTCATCAACACTTGAAGTT 59.709 45.455 0.00 0.00 43.95 2.66
4588 4859 3.243068 GCCGTCATCAACACTTGAAGTTT 60.243 43.478 0.00 0.00 43.95 2.66
4589 4860 4.733523 GCCGTCATCAACACTTGAAGTTTT 60.734 41.667 0.00 0.00 43.95 2.43
4590 4861 4.734854 CCGTCATCAACACTTGAAGTTTTG 59.265 41.667 15.97 15.97 43.95 2.44
4591 4862 4.734854 CGTCATCAACACTTGAAGTTTTGG 59.265 41.667 20.28 8.65 43.95 3.28
4592 4863 4.504097 GTCATCAACACTTGAAGTTTTGGC 59.496 41.667 20.28 8.17 43.95 4.52
4593 4864 4.402155 TCATCAACACTTGAAGTTTTGGCT 59.598 37.500 20.28 8.71 43.95 4.75
4594 4865 4.108699 TCAACACTTGAAGTTTTGGCTG 57.891 40.909 20.28 1.75 36.74 4.85
4595 4866 3.761218 TCAACACTTGAAGTTTTGGCTGA 59.239 39.130 20.28 3.91 36.74 4.26
4596 4867 4.402155 TCAACACTTGAAGTTTTGGCTGAT 59.598 37.500 20.28 0.00 36.74 2.90
4597 4868 5.105392 TCAACACTTGAAGTTTTGGCTGATT 60.105 36.000 20.28 0.00 36.74 2.57
4598 4869 4.936891 ACACTTGAAGTTTTGGCTGATTC 58.063 39.130 0.00 0.00 0.00 2.52
4599 4870 4.646492 ACACTTGAAGTTTTGGCTGATTCT 59.354 37.500 0.00 0.00 0.00 2.40
4600 4871 5.827797 ACACTTGAAGTTTTGGCTGATTCTA 59.172 36.000 0.00 0.00 0.00 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.148052 GGTCTCAGAAGTAACTAGAGCATAACA 60.148 40.741 0.00 0.00 35.36 2.41
7 8 6.127842 GGTTGAGGTCTCAGAAGTAACTAGAG 60.128 46.154 0.00 0.00 41.13 2.43
9 10 5.712917 AGGTTGAGGTCTCAGAAGTAACTAG 59.287 44.000 0.75 0.00 41.13 2.57
18 19 4.678256 AGAACATAGGTTGAGGTCTCAGA 58.322 43.478 0.00 0.00 41.13 3.27
21 22 4.020128 ACCAAGAACATAGGTTGAGGTCTC 60.020 45.833 0.00 0.00 37.36 3.36
23 24 4.287766 ACCAAGAACATAGGTTGAGGTC 57.712 45.455 0.00 0.00 37.36 3.85
24 25 4.724279 AACCAAGAACATAGGTTGAGGT 57.276 40.909 0.00 0.00 43.60 3.85
173 180 2.740438 GGGCAAACGGGCAACAAT 59.260 55.556 0.00 0.00 45.66 2.71
191 198 1.267574 TAGTTGGCAGCCTGAGAGGG 61.268 60.000 14.15 0.00 35.37 4.30
401 412 3.931578 ACTAAGCGTTGATCTTTCAGCT 58.068 40.909 0.00 0.00 35.53 4.24
411 426 4.740268 ACATGACGAATACTAAGCGTTGA 58.260 39.130 0.00 0.00 38.51 3.18
605 620 5.747197 GGAAGATGATAACAAGCAAAGCATG 59.253 40.000 0.00 0.00 33.24 4.06
634 651 5.691305 GCTCAAATAACACAGCAACAATCAA 59.309 36.000 0.00 0.00 0.00 2.57
715 746 5.468409 GCCAATCTAGCTCTAACAGAAATCC 59.532 44.000 0.00 0.00 0.00 3.01
819 865 8.762645 TGAGACACTTCCTTATCATCTACATTT 58.237 33.333 0.00 0.00 0.00 2.32
820 866 8.311395 TGAGACACTTCCTTATCATCTACATT 57.689 34.615 0.00 0.00 0.00 2.71
867 913 2.118313 CCACAAGATCATGAGTGGCA 57.882 50.000 16.37 0.00 44.25 4.92
988 1045 5.767168 AGAAACAAGAAGCTAGATGCAAGTT 59.233 36.000 0.00 0.00 45.94 2.66
3325 3445 1.645034 CGGGTACTGCAAGAGACATG 58.355 55.000 0.00 0.00 37.43 3.21
3336 3456 0.466555 AGAGAGCTAGGCGGGTACTG 60.467 60.000 0.00 0.00 38.10 2.74
3337 3457 0.466555 CAGAGAGCTAGGCGGGTACT 60.467 60.000 0.00 0.00 0.00 2.73
3338 3458 0.465824 TCAGAGAGCTAGGCGGGTAC 60.466 60.000 0.00 0.00 0.00 3.34
3339 3459 0.478942 ATCAGAGAGCTAGGCGGGTA 59.521 55.000 0.00 0.00 0.00 3.69
3340 3460 0.825840 GATCAGAGAGCTAGGCGGGT 60.826 60.000 0.00 0.00 0.00 5.28
3705 3829 6.199531 GCATACATCACAACATAATTTGCCAG 59.800 38.462 0.00 0.00 0.00 4.85
4018 4287 2.140717 GTTCTCCGCGGAAAAGAAAGA 58.859 47.619 30.53 17.99 31.26 2.52
4401 4672 6.553100 TGGGGAAGACAATAAATTCACAGTTT 59.447 34.615 0.00 0.00 0.00 2.66
4402 4673 6.015434 GTGGGGAAGACAATAAATTCACAGTT 60.015 38.462 0.00 0.00 0.00 3.16
4403 4674 5.476945 GTGGGGAAGACAATAAATTCACAGT 59.523 40.000 0.00 0.00 0.00 3.55
4404 4675 5.711976 AGTGGGGAAGACAATAAATTCACAG 59.288 40.000 0.00 0.00 0.00 3.66
4405 4676 5.640147 AGTGGGGAAGACAATAAATTCACA 58.360 37.500 0.00 0.00 0.00 3.58
4406 4677 6.590234 AAGTGGGGAAGACAATAAATTCAC 57.410 37.500 0.00 0.00 0.00 3.18
4407 4678 7.396055 CCTAAAGTGGGGAAGACAATAAATTCA 59.604 37.037 0.00 0.00 0.00 2.57
4408 4679 7.396339 ACCTAAAGTGGGGAAGACAATAAATTC 59.604 37.037 0.00 0.00 0.00 2.17
4409 4680 7.246027 ACCTAAAGTGGGGAAGACAATAAATT 58.754 34.615 0.00 0.00 0.00 1.82
4410 4681 6.800890 ACCTAAAGTGGGGAAGACAATAAAT 58.199 36.000 0.00 0.00 0.00 1.40
4411 4682 6.045106 AGACCTAAAGTGGGGAAGACAATAAA 59.955 38.462 0.00 0.00 0.00 1.40
4412 4683 5.550403 AGACCTAAAGTGGGGAAGACAATAA 59.450 40.000 0.00 0.00 0.00 1.40
4413 4684 5.098663 AGACCTAAAGTGGGGAAGACAATA 58.901 41.667 0.00 0.00 0.00 1.90
4414 4685 3.916989 AGACCTAAAGTGGGGAAGACAAT 59.083 43.478 0.00 0.00 0.00 2.71
4415 4686 3.323775 AGACCTAAAGTGGGGAAGACAA 58.676 45.455 0.00 0.00 0.00 3.18
4416 4687 2.986050 AGACCTAAAGTGGGGAAGACA 58.014 47.619 0.00 0.00 0.00 3.41
4417 4688 3.559384 CCAAGACCTAAAGTGGGGAAGAC 60.559 52.174 0.00 0.00 0.00 3.01
4418 4689 2.642807 CCAAGACCTAAAGTGGGGAAGA 59.357 50.000 0.00 0.00 0.00 2.87
4419 4690 2.290960 CCCAAGACCTAAAGTGGGGAAG 60.291 54.545 0.00 0.00 46.04 3.46
4420 4691 1.708551 CCCAAGACCTAAAGTGGGGAA 59.291 52.381 0.00 0.00 46.04 3.97
4421 4692 1.368374 CCCAAGACCTAAAGTGGGGA 58.632 55.000 0.00 0.00 46.04 4.81
4422 4693 3.978876 CCCAAGACCTAAAGTGGGG 57.021 57.895 0.00 0.00 46.04 4.96
4424 4695 0.676782 CCGCCCAAGACCTAAAGTGG 60.677 60.000 0.00 0.00 0.00 4.00
4425 4696 0.036306 ACCGCCCAAGACCTAAAGTG 59.964 55.000 0.00 0.00 0.00 3.16
4426 4697 0.036306 CACCGCCCAAGACCTAAAGT 59.964 55.000 0.00 0.00 0.00 2.66
4427 4698 1.305930 GCACCGCCCAAGACCTAAAG 61.306 60.000 0.00 0.00 0.00 1.85
4428 4699 1.302993 GCACCGCCCAAGACCTAAA 60.303 57.895 0.00 0.00 0.00 1.85
4429 4700 2.221299 AGCACCGCCCAAGACCTAA 61.221 57.895 0.00 0.00 0.00 2.69
4430 4701 2.606519 AGCACCGCCCAAGACCTA 60.607 61.111 0.00 0.00 0.00 3.08
4431 4702 4.335647 CAGCACCGCCCAAGACCT 62.336 66.667 0.00 0.00 0.00 3.85
4432 4703 4.643387 ACAGCACCGCCCAAGACC 62.643 66.667 0.00 0.00 0.00 3.85
4433 4704 3.357079 CACAGCACCGCCCAAGAC 61.357 66.667 0.00 0.00 0.00 3.01
4434 4705 3.872603 ACACAGCACCGCCCAAGA 61.873 61.111 0.00 0.00 0.00 3.02
4435 4706 3.663176 CACACAGCACCGCCCAAG 61.663 66.667 0.00 0.00 0.00 3.61
4436 4707 2.974692 ATTCACACAGCACCGCCCAA 62.975 55.000 0.00 0.00 0.00 4.12
4437 4708 2.118233 TATTCACACAGCACCGCCCA 62.118 55.000 0.00 0.00 0.00 5.36
4438 4709 0.748005 ATATTCACACAGCACCGCCC 60.748 55.000 0.00 0.00 0.00 6.13
4439 4710 0.378257 CATATTCACACAGCACCGCC 59.622 55.000 0.00 0.00 0.00 6.13
4440 4711 0.378257 CCATATTCACACAGCACCGC 59.622 55.000 0.00 0.00 0.00 5.68
4441 4712 1.016627 CCCATATTCACACAGCACCG 58.983 55.000 0.00 0.00 0.00 4.94
4442 4713 0.740737 GCCCATATTCACACAGCACC 59.259 55.000 0.00 0.00 0.00 5.01
4443 4714 0.740737 GGCCCATATTCACACAGCAC 59.259 55.000 0.00 0.00 0.00 4.40
4444 4715 0.395586 GGGCCCATATTCACACAGCA 60.396 55.000 19.95 0.00 0.00 4.41
4445 4716 1.447317 CGGGCCCATATTCACACAGC 61.447 60.000 24.92 0.00 0.00 4.40
4446 4717 0.107214 ACGGGCCCATATTCACACAG 60.107 55.000 24.92 2.51 0.00 3.66
4447 4718 0.107410 GACGGGCCCATATTCACACA 60.107 55.000 24.92 0.00 0.00 3.72
4448 4719 0.818040 GGACGGGCCCATATTCACAC 60.818 60.000 24.92 0.00 0.00 3.82
4449 4720 0.986019 AGGACGGGCCCATATTCACA 60.986 55.000 24.92 0.00 37.37 3.58
4450 4721 0.182775 AAGGACGGGCCCATATTCAC 59.817 55.000 24.92 3.92 37.37 3.18
4451 4722 0.923358 AAAGGACGGGCCCATATTCA 59.077 50.000 24.92 0.00 37.37 2.57
4452 4723 2.067365 AAAAGGACGGGCCCATATTC 57.933 50.000 24.92 11.88 37.37 1.75
4453 4724 3.673543 TTAAAAGGACGGGCCCATATT 57.326 42.857 24.92 7.71 37.37 1.28
4454 4725 3.895704 ATTAAAAGGACGGGCCCATAT 57.104 42.857 24.92 6.17 37.37 1.78
4455 4726 3.558033 GAATTAAAAGGACGGGCCCATA 58.442 45.455 24.92 0.00 37.37 2.74
4456 4727 2.384828 GAATTAAAAGGACGGGCCCAT 58.615 47.619 24.92 6.18 37.37 4.00
4457 4728 1.842052 GAATTAAAAGGACGGGCCCA 58.158 50.000 24.92 0.00 37.37 5.36
4458 4729 0.736636 CGAATTAAAAGGACGGGCCC 59.263 55.000 13.57 13.57 37.37 5.80
4459 4730 0.736636 CCGAATTAAAAGGACGGGCC 59.263 55.000 0.00 0.00 39.92 5.80
4460 4731 0.099968 GCCGAATTAAAAGGACGGGC 59.900 55.000 0.00 0.00 43.15 6.13
4461 4732 1.455248 TGCCGAATTAAAAGGACGGG 58.545 50.000 0.00 0.00 43.15 5.28
4462 4733 2.726681 CGTTGCCGAATTAAAAGGACGG 60.727 50.000 0.00 0.00 45.26 4.79
4463 4734 2.158058 TCGTTGCCGAATTAAAAGGACG 59.842 45.455 0.00 0.00 40.86 4.79
4464 4735 3.434299 TCTCGTTGCCGAATTAAAAGGAC 59.566 43.478 0.00 0.00 43.69 3.85
4465 4736 3.666274 TCTCGTTGCCGAATTAAAAGGA 58.334 40.909 0.00 0.00 43.69 3.36
4466 4737 3.727970 GCTCTCGTTGCCGAATTAAAAGG 60.728 47.826 0.00 0.00 43.69 3.11
4467 4738 3.120338 TGCTCTCGTTGCCGAATTAAAAG 60.120 43.478 0.00 0.00 43.69 2.27
4468 4739 2.809119 TGCTCTCGTTGCCGAATTAAAA 59.191 40.909 0.00 0.00 43.69 1.52
4469 4740 2.158841 GTGCTCTCGTTGCCGAATTAAA 59.841 45.455 0.00 0.00 43.69 1.52
4470 4741 1.730064 GTGCTCTCGTTGCCGAATTAA 59.270 47.619 0.00 0.00 43.69 1.40
4471 4742 1.337354 TGTGCTCTCGTTGCCGAATTA 60.337 47.619 0.00 0.00 43.69 1.40
4472 4743 0.602638 TGTGCTCTCGTTGCCGAATT 60.603 50.000 0.00 0.00 43.69 2.17
4473 4744 0.391661 ATGTGCTCTCGTTGCCGAAT 60.392 50.000 0.00 0.00 43.69 3.34
4474 4745 1.005037 ATGTGCTCTCGTTGCCGAA 60.005 52.632 0.00 0.00 43.69 4.30
4475 4746 1.446099 GATGTGCTCTCGTTGCCGA 60.446 57.895 0.00 0.00 41.73 5.54
4476 4747 1.016130 AAGATGTGCTCTCGTTGCCG 61.016 55.000 0.00 0.00 31.03 5.69
4477 4748 0.723981 GAAGATGTGCTCTCGTTGCC 59.276 55.000 0.00 0.00 31.03 4.52
4478 4749 1.658095 GAGAAGATGTGCTCTCGTTGC 59.342 52.381 0.00 0.00 31.03 4.17
4479 4750 3.229276 AGAGAAGATGTGCTCTCGTTG 57.771 47.619 0.00 0.00 36.84 4.10
4480 4751 3.951775 AAGAGAAGATGTGCTCTCGTT 57.048 42.857 0.00 0.00 40.43 3.85
4481 4752 3.951775 AAAGAGAAGATGTGCTCTCGT 57.048 42.857 0.00 0.00 40.43 4.18
4482 4753 5.635280 TGTTAAAAGAGAAGATGTGCTCTCG 59.365 40.000 0.00 0.00 40.43 4.04
4483 4754 7.426929 TTGTTAAAAGAGAAGATGTGCTCTC 57.573 36.000 0.00 0.00 40.43 3.20
4484 4755 7.521261 GCTTTGTTAAAAGAGAAGATGTGCTCT 60.521 37.037 0.00 0.00 44.81 4.09
4485 4756 6.580416 GCTTTGTTAAAAGAGAAGATGTGCTC 59.420 38.462 2.46 0.00 44.81 4.26
4486 4757 6.264067 AGCTTTGTTAAAAGAGAAGATGTGCT 59.736 34.615 2.46 0.00 44.81 4.40
4487 4758 6.442112 AGCTTTGTTAAAAGAGAAGATGTGC 58.558 36.000 2.46 0.00 44.81 4.57
4488 4759 8.749499 CAAAGCTTTGTTAAAAGAGAAGATGTG 58.251 33.333 27.59 0.00 44.81 3.21
4489 4760 7.922811 CCAAAGCTTTGTTAAAAGAGAAGATGT 59.077 33.333 31.67 0.00 44.81 3.06
4490 4761 7.383300 CCCAAAGCTTTGTTAAAAGAGAAGATG 59.617 37.037 31.67 14.08 44.81 2.90
4491 4762 7.436933 CCCAAAGCTTTGTTAAAAGAGAAGAT 58.563 34.615 31.67 0.00 44.81 2.40
4492 4763 6.682861 GCCCAAAGCTTTGTTAAAAGAGAAGA 60.683 38.462 31.67 0.00 44.81 2.87
4493 4764 5.463392 GCCCAAAGCTTTGTTAAAAGAGAAG 59.537 40.000 31.67 15.18 44.81 2.85
4494 4765 5.356426 GCCCAAAGCTTTGTTAAAAGAGAA 58.644 37.500 31.67 0.00 44.81 2.87
4495 4766 4.944048 GCCCAAAGCTTTGTTAAAAGAGA 58.056 39.130 31.67 0.00 44.81 3.10
4517 4788 0.807667 CGTGGAAATCGCTCTGGGAG 60.808 60.000 0.00 0.00 0.00 4.30
4518 4789 1.218047 CGTGGAAATCGCTCTGGGA 59.782 57.895 0.00 0.00 0.00 4.37
4519 4790 0.179073 ATCGTGGAAATCGCTCTGGG 60.179 55.000 0.00 0.00 0.00 4.45
4520 4791 1.328680 CAATCGTGGAAATCGCTCTGG 59.671 52.381 0.00 0.00 0.00 3.86
4521 4792 2.029728 GTCAATCGTGGAAATCGCTCTG 59.970 50.000 0.00 0.00 0.00 3.35
4522 4793 2.271800 GTCAATCGTGGAAATCGCTCT 58.728 47.619 0.00 0.00 0.00 4.09
4523 4794 1.005975 CGTCAATCGTGGAAATCGCTC 60.006 52.381 0.00 0.00 34.52 5.03
4524 4795 0.999406 CGTCAATCGTGGAAATCGCT 59.001 50.000 0.00 0.00 34.52 4.93
4525 4796 0.996462 TCGTCAATCGTGGAAATCGC 59.004 50.000 0.00 0.00 40.80 4.58
4526 4797 2.218759 GGATCGTCAATCGTGGAAATCG 59.781 50.000 0.00 0.00 40.80 3.34
4527 4798 2.544267 GGGATCGTCAATCGTGGAAATC 59.456 50.000 0.00 0.00 40.80 2.17
4528 4799 2.561569 GGGATCGTCAATCGTGGAAAT 58.438 47.619 0.00 0.00 40.80 2.17
4529 4800 1.406341 GGGGATCGTCAATCGTGGAAA 60.406 52.381 0.00 0.00 40.80 3.13
4530 4801 0.177141 GGGGATCGTCAATCGTGGAA 59.823 55.000 0.00 0.00 40.80 3.53
4531 4802 1.820581 GGGGATCGTCAATCGTGGA 59.179 57.895 0.00 0.00 40.80 4.02
4532 4803 1.591594 CGGGGATCGTCAATCGTGG 60.592 63.158 0.00 0.00 40.80 4.94
4533 4804 1.591594 CCGGGGATCGTCAATCGTG 60.592 63.158 0.00 0.00 40.80 4.35
4534 4805 2.792947 CCCGGGGATCGTCAATCGT 61.793 63.158 14.71 0.00 40.80 3.73
4535 4806 2.029073 CCCGGGGATCGTCAATCG 59.971 66.667 14.71 0.00 41.41 3.34
4536 4807 2.426023 CCCCGGGGATCGTCAATC 59.574 66.667 38.41 0.00 37.50 2.67
4537 4808 2.366435 ACCCCGGGGATCGTCAAT 60.366 61.111 46.68 19.04 38.96 2.57
4538 4809 3.395702 CACCCCGGGGATCGTCAA 61.396 66.667 46.68 0.00 38.96 3.18
4543 4814 3.033919 TAAACGCACCCCGGGGATC 62.034 63.158 46.68 32.00 42.52 3.36
4544 4815 3.010314 TAAACGCACCCCGGGGAT 61.010 61.111 46.68 27.04 42.52 3.85
4545 4816 4.019312 GTAAACGCACCCCGGGGA 62.019 66.667 46.68 19.94 42.52 4.81
4547 4818 4.685467 ACGTAAACGCACCCCGGG 62.685 66.667 15.80 15.80 44.43 5.73
4548 4819 3.416382 CACGTAAACGCACCCCGG 61.416 66.667 1.74 0.00 44.43 5.73
4549 4820 3.416382 CCACGTAAACGCACCCCG 61.416 66.667 1.74 0.00 44.43 5.73
4550 4821 3.729698 GCCACGTAAACGCACCCC 61.730 66.667 1.74 0.00 44.43 4.95
4551 4822 3.729698 GGCCACGTAAACGCACCC 61.730 66.667 0.00 0.00 44.43 4.61
4552 4823 4.079748 CGGCCACGTAAACGCACC 62.080 66.667 2.24 0.96 44.43 5.01
4563 4834 0.238289 CAAGTGTTGATGACGGCCAC 59.762 55.000 2.24 0.00 0.00 5.01
4564 4835 0.107643 TCAAGTGTTGATGACGGCCA 59.892 50.000 2.24 0.00 34.08 5.36
4565 4836 1.197721 CTTCAAGTGTTGATGACGGCC 59.802 52.381 0.00 0.00 39.84 6.13
4566 4837 1.873591 ACTTCAAGTGTTGATGACGGC 59.126 47.619 8.96 0.00 39.84 5.68
4567 4838 4.552166 AAACTTCAAGTGTTGATGACGG 57.448 40.909 8.96 0.00 39.84 4.79
4568 4839 4.734854 CCAAAACTTCAAGTGTTGATGACG 59.265 41.667 20.52 1.12 44.33 4.35
4569 4840 4.504097 GCCAAAACTTCAAGTGTTGATGAC 59.496 41.667 20.52 4.85 44.33 3.06
4570 4841 4.402155 AGCCAAAACTTCAAGTGTTGATGA 59.598 37.500 20.52 0.00 44.33 2.92
4571 4842 4.505191 CAGCCAAAACTTCAAGTGTTGATG 59.495 41.667 20.52 14.49 44.33 3.07
4572 4843 4.402155 TCAGCCAAAACTTCAAGTGTTGAT 59.598 37.500 20.52 7.10 44.33 2.57
4573 4844 3.761218 TCAGCCAAAACTTCAAGTGTTGA 59.239 39.130 20.52 5.17 44.33 3.18
4574 4845 4.108699 TCAGCCAAAACTTCAAGTGTTG 57.891 40.909 13.00 13.00 41.89 3.33
4575 4846 5.127682 AGAATCAGCCAAAACTTCAAGTGTT 59.872 36.000 0.00 0.00 0.00 3.32
4576 4847 4.646492 AGAATCAGCCAAAACTTCAAGTGT 59.354 37.500 0.00 0.00 0.00 3.55
4577 4848 5.192327 AGAATCAGCCAAAACTTCAAGTG 57.808 39.130 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.