Multiple sequence alignment - TraesCS5B01G066900

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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 TraesCS5B01G066900 chr5B 100.000 6639 0 0 1 6639 74994136 75000774 0.000000e+00 12261
1 TraesCS5B01G066900 chr5B 89.198 611 49 8 5644 6247 75065833 75066433 0.000000e+00 747
2 TraesCS5B01G066900 chr5D 94.832 5437 184 44 1 5399 69101523 69106900 0.000000e+00 8394
3 TraesCS5B01G066900 chr5D 90.811 838 64 10 5414 6247 69106887 69107715 0.000000e+00 1109
4 TraesCS5B01G066900 chr5D 79.931 289 35 6 5755 6041 69108366 69108633 2.440000e-44 191
5 TraesCS5B01G066900 chr5D 85.075 134 6 11 6328 6450 69107713 69107843 2.510000e-24 124
6 TraesCS5B01G066900 chr5A 94.534 5470 186 47 1 5399 59706014 59711441 0.000000e+00 8340
7 TraesCS5B01G066900 chr5A 90.844 841 61 9 5414 6247 59711427 59712258 0.000000e+00 1112
8 TraesCS5B01G066900 chr5A 87.842 329 21 9 6328 6639 59712256 59712582 1.050000e-97 368
9 TraesCS5B01G066900 chr5A 82.340 453 42 17 5414 5857 59712832 59713255 6.330000e-95 359
10 TraesCS5B01G066900 chr5A 95.745 94 2 1 6237 6330 202818737 202818646 4.150000e-32 150
11 TraesCS5B01G066900 chr3B 87.333 150 17 2 1876 2025 434983346 434983493 3.180000e-38 171
12 TraesCS5B01G066900 chr6D 87.248 149 17 2 1878 2025 41929222 41929075 1.140000e-37 169
13 TraesCS5B01G066900 chr3D 86.667 150 18 2 1876 2025 337306289 337306436 1.480000e-36 165
14 TraesCS5B01G066900 chr3D 93.617 94 5 1 6242 6334 85592097 85592004 8.980000e-29 139
15 TraesCS5B01G066900 chr6A 85.811 148 20 1 1878 2025 52399590 52399444 8.910000e-34 156
16 TraesCS5B01G066900 chr2A 96.667 90 2 1 6243 6331 632921880 632921969 1.490000e-31 148
17 TraesCS5B01G066900 chr2A 95.604 91 3 1 6246 6335 362443077 362443167 1.930000e-30 145
18 TraesCS5B01G066900 chr2A 91.262 103 6 2 6230 6331 693209879 693209979 3.230000e-28 137
19 TraesCS5B01G066900 chr4B 92.233 103 4 4 6245 6344 358445886 358445785 6.940000e-30 143
20 TraesCS5B01G066900 chr7B 92.157 102 5 3 6245 6345 648271792 648271693 2.500000e-29 141
21 TraesCS5B01G066900 chr7B 86.957 115 13 2 6219 6331 485503890 485504004 1.940000e-25 128
22 TraesCS5B01G066900 chr1A 90.476 105 8 2 1876 1980 487729166 487729268 3.230000e-28 137
23 TraesCS5B01G066900 chr2B 90.385 104 7 3 6230 6331 488385645 488385543 4.180000e-27 134
24 TraesCS5B01G066900 chr1B 89.524 105 9 2 1876 1980 522010952 522011054 1.500000e-26 132
25 TraesCS5B01G066900 chr4D 86.792 106 13 1 1930 2035 211384923 211384819 4.210000e-22 117


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 TraesCS5B01G066900 chr5B 74994136 75000774 6638 False 12261.00 12261 100.00000 1 6639 1 chr5B.!!$F1 6638
1 TraesCS5B01G066900 chr5B 75065833 75066433 600 False 747.00 747 89.19800 5644 6247 1 chr5B.!!$F2 603
2 TraesCS5B01G066900 chr5D 69101523 69108633 7110 False 2454.50 8394 87.66225 1 6450 4 chr5D.!!$F1 6449
3 TraesCS5B01G066900 chr5A 59706014 59713255 7241 False 2544.75 8340 88.89000 1 6639 4 chr5A.!!$F1 6638

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
783 796 0.401395 AAGGGTGAGGACTTGGGTCA 60.401 55.000 0.00 0.00 43.77 4.02 F
1319 1336 0.693767 CCATGCTCCTCCTCCTCCTT 60.694 60.000 0.00 0.00 0.00 3.36 F
2231 2263 1.078426 GCCGCTGGTGAGTTGGTAT 60.078 57.895 0.00 0.00 0.00 2.73 F
2257 2289 3.146104 ACCTCTGGGATTCTGTTGTTG 57.854 47.619 0.00 0.00 36.25 3.33 F
2538 2581 3.184379 CGGCATTGGACTTGATATGTACG 59.816 47.826 0.00 0.00 0.00 3.67 F
3560 3620 1.203162 TGAACAGGCATCCCAATTGGT 60.203 47.619 22.91 2.44 34.77 3.67 F
4613 4685 0.613012 AAGGAAGGCTTGCCCACATC 60.613 55.000 15.60 2.35 35.39 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2382 2423 0.110644 GTTCGGCAACTCGAGCAAAG 60.111 55.000 13.61 0.71 40.42 2.77 R
2686 2729 0.465460 GAGCACCCAGAACACCAACA 60.465 55.000 0.00 0.00 0.00 3.33 R
3234 3294 1.277557 AGAGTGCACAGATGAGAACCC 59.722 52.381 21.04 0.00 0.00 4.11 R
3446 3506 1.487850 TTTCCAAAATGGGGCCCTGC 61.488 55.000 25.93 6.38 38.32 4.85 R
4062 4122 3.004752 AGGAATTCGCTAGCACCATTT 57.995 42.857 16.45 0.25 0.00 2.32 R
5256 5347 0.027194 CGGACATTGCAGCATCTTCG 59.973 55.000 0.00 0.00 0.00 3.79 R
6578 6709 0.036765 TCGTCTGCTTGCCGGTTAAT 60.037 50.000 1.90 0.00 0.00 1.40 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
124 125 2.172483 CTTGCTCACCGCTGGTAGGT 62.172 60.000 0.00 0.00 43.97 3.08
126 127 1.448013 GCTCACCGCTGGTAGGTTC 60.448 63.158 0.00 0.00 40.59 3.62
185 186 0.475475 CTCAGCAGGCCCATCCATAA 59.525 55.000 0.00 0.00 37.29 1.90
203 204 4.216042 CCATAATCTCTGCAACACACAACA 59.784 41.667 0.00 0.00 0.00 3.33
290 291 1.131126 CAGCATCACCTAAACCTTGCG 59.869 52.381 0.00 0.00 35.34 4.85
518 520 2.321719 TCCAGTGTAAGCTACCACACA 58.678 47.619 21.45 5.30 45.99 3.72
559 561 2.969238 CCGCCAGCCAGCTATTCG 60.969 66.667 0.00 0.00 0.00 3.34
625 628 4.475135 GCGGGTGAGAGGGGAAGC 62.475 72.222 0.00 0.00 0.00 3.86
660 667 1.069296 CGTGAACCTTGTACGGACGTA 60.069 52.381 0.00 0.00 34.43 3.57
756 769 4.821589 GAGCGAAGGAGCACGGGG 62.822 72.222 0.00 0.00 40.15 5.73
775 788 1.996187 GGAGGGGAAGGGTGAGGAC 60.996 68.421 0.00 0.00 0.00 3.85
783 796 0.401395 AAGGGTGAGGACTTGGGTCA 60.401 55.000 0.00 0.00 43.77 4.02
993 1010 2.011222 GTTTGTTTCGTGGTGGACTCA 58.989 47.619 0.00 0.00 0.00 3.41
994 1011 2.616842 GTTTGTTTCGTGGTGGACTCAT 59.383 45.455 0.00 0.00 0.00 2.90
995 1012 1.877637 TGTTTCGTGGTGGACTCATG 58.122 50.000 0.00 0.00 0.00 3.07
996 1013 1.414550 TGTTTCGTGGTGGACTCATGA 59.585 47.619 0.00 0.00 0.00 3.07
997 1014 2.069273 GTTTCGTGGTGGACTCATGAG 58.931 52.381 21.37 21.37 32.55 2.90
998 1015 1.338107 TTCGTGGTGGACTCATGAGT 58.662 50.000 28.23 28.23 45.84 3.41
1063 1080 1.685765 CGTCATCTCCCACCTCCCA 60.686 63.158 0.00 0.00 0.00 4.37
1117 1134 1.383799 CCAACCATGCTCCCCTTCA 59.616 57.895 0.00 0.00 0.00 3.02
1319 1336 0.693767 CCATGCTCCTCCTCCTCCTT 60.694 60.000 0.00 0.00 0.00 3.36
1435 1459 1.455383 GCCCCCATCTAATTGGTGCG 61.455 60.000 0.00 0.00 34.77 5.34
1454 1478 2.761559 CGCGATGATATGTTGGGGTTA 58.238 47.619 0.00 0.00 0.00 2.85
1472 1496 3.081061 GTTAGCAATGTGGTGGTGATGA 58.919 45.455 0.00 0.00 0.00 2.92
1476 1500 3.579586 AGCAATGTGGTGGTGATGATTTT 59.420 39.130 0.00 0.00 0.00 1.82
1764 1791 7.378461 GCTTGTTATTCATTTCAAACTCGACAA 59.622 33.333 0.00 0.00 0.00 3.18
1874 1903 6.039941 ACCGTCAAATTTTGAATGGTTCTGTA 59.960 34.615 22.39 0.00 43.94 2.74
1944 1976 3.491447 CCTTGTGCTTTTCTGACCAAAGG 60.491 47.826 4.51 0.00 32.66 3.11
1949 1981 2.031120 CTTTTCTGACCAAAGGGCACA 58.969 47.619 0.00 0.00 34.69 4.57
1987 2019 3.798999 GCACATTAAGCGCAATTAACG 57.201 42.857 11.47 1.50 0.00 3.18
1995 2027 1.711060 GCGCAATTAACGGCTAGGCA 61.711 55.000 17.45 0.00 0.00 4.75
2036 2068 2.554370 AGGCGTGCCTTTTGTAACTA 57.446 45.000 7.79 0.00 45.70 2.24
2037 2069 2.148768 AGGCGTGCCTTTTGTAACTAC 58.851 47.619 7.79 0.00 45.70 2.73
2038 2070 2.148768 GGCGTGCCTTTTGTAACTACT 58.851 47.619 2.98 0.00 0.00 2.57
2231 2263 1.078426 GCCGCTGGTGAGTTGGTAT 60.078 57.895 0.00 0.00 0.00 2.73
2257 2289 3.146104 ACCTCTGGGATTCTGTTGTTG 57.854 47.619 0.00 0.00 36.25 3.33
2376 2417 3.565764 ATAGCTTTACCATGCAGCTCA 57.434 42.857 9.45 0.00 43.03 4.26
2382 2423 4.328169 GCTTTACCATGCAGCTCATTTTTC 59.672 41.667 0.00 0.00 31.79 2.29
2425 2468 8.585471 ACTGATAATTTATTGGCATGATAGGG 57.415 34.615 0.00 0.00 0.00 3.53
2489 2532 7.739498 TTATTACTGTTCTTGTTCCCAGTTC 57.261 36.000 0.00 0.00 38.91 3.01
2507 2550 3.689649 AGTTCGGATTTACTTGATGTGCC 59.310 43.478 0.00 0.00 0.00 5.01
2538 2581 3.184379 CGGCATTGGACTTGATATGTACG 59.816 47.826 0.00 0.00 0.00 3.67
2686 2729 3.686227 TCAGGCAAATATGATGGGGTT 57.314 42.857 0.00 0.00 0.00 4.11
2744 2787 4.629634 TGCTACAACGGTATGAATTCTGTG 59.370 41.667 7.05 0.00 0.00 3.66
2826 2869 7.180322 TGATATTTGGCCATTGTACATGTTT 57.820 32.000 6.09 0.00 0.00 2.83
2827 2870 8.298729 TGATATTTGGCCATTGTACATGTTTA 57.701 30.769 6.09 0.00 0.00 2.01
2828 2871 8.922237 TGATATTTGGCCATTGTACATGTTTAT 58.078 29.630 6.09 0.00 0.00 1.40
2829 2872 9.195411 GATATTTGGCCATTGTACATGTTTATG 57.805 33.333 6.09 5.65 40.24 1.90
2838 2881 9.567848 CCATTGTACATGTTTATGTTTACCTTC 57.432 33.333 2.30 0.00 45.01 3.46
3033 3079 9.118236 GATTTTCATCTTCAGAAAAACCTTACG 57.882 33.333 5.35 0.00 45.02 3.18
3039 3085 6.050432 TCTTCAGAAAAACCTTACGTGCTTA 58.950 36.000 0.00 0.00 0.00 3.09
3042 3088 4.213482 CAGAAAAACCTTACGTGCTTAGCT 59.787 41.667 5.60 0.00 0.00 3.32
3045 3091 3.396260 AACCTTACGTGCTTAGCTTGA 57.604 42.857 5.60 0.00 0.00 3.02
3217 3277 5.706833 TCAATTCTGCTTGAGCTAATTGTCA 59.293 36.000 25.69 15.42 45.02 3.58
3228 3288 6.530120 TGAGCTAATTGTCACTTGGTCTTAA 58.470 36.000 0.00 0.00 0.00 1.85
3234 3294 9.398170 CTAATTGTCACTTGGTCTTAATTTGTG 57.602 33.333 0.00 0.00 0.00 3.33
3244 3304 5.710099 TGGTCTTAATTTGTGGGTTCTCATC 59.290 40.000 0.00 0.00 0.00 2.92
3383 3443 3.384168 TGGCTACAAGATACACCCAGAT 58.616 45.455 0.00 0.00 0.00 2.90
3446 3506 8.692110 TTGCTTTTATAGAATTGCACATTGAG 57.308 30.769 0.00 0.00 0.00 3.02
3500 3560 8.714179 CGGATTTGTTTTAGTTGTATCAGTACA 58.286 33.333 0.00 0.00 39.00 2.90
3560 3620 1.203162 TGAACAGGCATCCCAATTGGT 60.203 47.619 22.91 2.44 34.77 3.67
3694 3754 2.224621 ACTGTTGAAGGGTCTCCACATG 60.225 50.000 0.00 0.00 34.83 3.21
4154 4214 9.031537 ACCCGAACCTCATTTTAAGATTTAATT 57.968 29.630 0.00 0.00 0.00 1.40
4207 4267 5.993055 TCATCCAAATGACTATTCTGCAGA 58.007 37.500 13.74 13.74 36.98 4.26
4258 4318 3.429085 CACCAGCAAGCGTATCAAATTC 58.571 45.455 0.00 0.00 0.00 2.17
4351 4411 9.195411 CAACTGTTAAAATAAATGCACATCTGT 57.805 29.630 0.00 0.00 0.00 3.41
4393 4464 5.809001 TCCATATTTAGCTAAGCCATGAGG 58.191 41.667 18.41 11.43 38.23 3.86
4413 4484 6.872920 TGAGGCTTAACAACTTGAAAACATT 58.127 32.000 0.00 0.00 0.00 2.71
4417 4488 9.830975 AGGCTTAACAACTTGAAAACATTAAAT 57.169 25.926 0.00 0.00 0.00 1.40
4419 4490 9.862585 GCTTAACAACTTGAAAACATTAAATGG 57.137 29.630 0.00 0.00 33.60 3.16
4508 4580 9.524496 TTTGTAGTTATCTGTTGTAGACTAGGA 57.476 33.333 0.00 0.00 38.49 2.94
4613 4685 0.613012 AAGGAAGGCTTGCCCACATC 60.613 55.000 15.60 2.35 35.39 3.06
4614 4686 1.000396 GGAAGGCTTGCCCACATCT 60.000 57.895 3.46 0.00 35.39 2.90
4628 4700 7.156876 TGCCCACATCTTATTTTTCTAACAG 57.843 36.000 0.00 0.00 0.00 3.16
5136 5227 3.120060 GCGCATTCATTGTGAGTTCTCTT 60.120 43.478 0.30 0.00 38.12 2.85
5244 5335 7.339466 TCTGCTCTTCCATAACGCTATCATATA 59.661 37.037 0.00 0.00 0.00 0.86
5283 5374 1.263484 GCTGCAATGTCCGAGATGATG 59.737 52.381 0.00 0.00 0.00 3.07
5362 5454 5.500234 CTGGTGGATATTGAAAAGTCAGGA 58.500 41.667 0.00 0.00 34.49 3.86
5375 5467 7.394016 TGAAAAGTCAGGATATTGCTTCTGTA 58.606 34.615 0.00 0.00 0.00 2.74
5390 5482 4.393371 GCTTCTGTATTTGGTGGAGACTTC 59.607 45.833 0.00 0.00 0.00 3.01
5391 5483 5.551233 CTTCTGTATTTGGTGGAGACTTCA 58.449 41.667 0.00 0.00 0.00 3.02
5392 5484 5.152623 TCTGTATTTGGTGGAGACTTCAG 57.847 43.478 0.00 0.00 0.00 3.02
5393 5485 4.593206 TCTGTATTTGGTGGAGACTTCAGT 59.407 41.667 0.00 0.00 0.00 3.41
5394 5486 4.641396 TGTATTTGGTGGAGACTTCAGTG 58.359 43.478 0.00 0.00 0.00 3.66
5395 5487 4.346709 TGTATTTGGTGGAGACTTCAGTGA 59.653 41.667 0.00 0.00 0.00 3.41
5396 5488 4.647564 ATTTGGTGGAGACTTCAGTGAT 57.352 40.909 0.00 0.00 0.00 3.06
5397 5489 3.407424 TTGGTGGAGACTTCAGTGATG 57.593 47.619 4.53 4.53 0.00 3.07
5398 5490 2.329267 TGGTGGAGACTTCAGTGATGT 58.671 47.619 11.21 11.21 0.00 3.06
5399 5491 2.705658 TGGTGGAGACTTCAGTGATGTT 59.294 45.455 12.51 3.92 0.00 2.71
5400 5492 3.136443 TGGTGGAGACTTCAGTGATGTTT 59.864 43.478 12.51 7.44 0.00 2.83
5401 5493 4.137543 GGTGGAGACTTCAGTGATGTTTT 58.862 43.478 12.51 5.24 0.00 2.43
5402 5494 4.580580 GGTGGAGACTTCAGTGATGTTTTT 59.419 41.667 12.51 3.04 0.00 1.94
5469 5562 4.667504 GCACGAAGTAAAACTAACAAACGG 59.332 41.667 0.00 0.00 41.61 4.44
5498 5591 6.229936 ACATAAATGGCTGCTGAATTCATT 57.770 33.333 8.96 0.24 0.00 2.57
5565 5659 1.600916 GCCACAAGCCCGAAGAGTT 60.601 57.895 0.00 0.00 34.35 3.01
5575 5669 2.470286 GAAGAGTTTGCGTCGCCG 59.530 61.111 15.88 0.00 37.07 6.46
5593 5687 1.002624 GGAGGACATGGCAAACGGA 60.003 57.895 0.00 0.00 0.00 4.69
5626 5720 1.606224 GCCTTGACAATGGCCAAACTG 60.606 52.381 10.96 10.63 43.11 3.16
5740 5834 5.685511 CGTGAAACCACTTAAGGTCAAAATG 59.314 40.000 7.53 0.00 42.25 2.32
5741 5835 6.569780 GTGAAACCACTTAAGGTCAAAATGT 58.430 36.000 7.53 0.00 42.25 2.71
5756 5851 6.147164 GGTCAAAATGTTGTCGTCTCATTCTA 59.853 38.462 0.00 0.00 36.07 2.10
5768 5863 7.021790 GTCGTCTCATTCTAAAACCATTTTCC 58.978 38.462 0.00 0.00 34.19 3.13
5779 5874 1.202879 ACCATTTTCCAGCCGTTCTCA 60.203 47.619 0.00 0.00 0.00 3.27
5780 5875 1.885887 CCATTTTCCAGCCGTTCTCAA 59.114 47.619 0.00 0.00 0.00 3.02
5781 5876 2.493278 CCATTTTCCAGCCGTTCTCAAT 59.507 45.455 0.00 0.00 0.00 2.57
5782 5877 3.428045 CCATTTTCCAGCCGTTCTCAATC 60.428 47.826 0.00 0.00 0.00 2.67
5783 5878 2.859165 TTTCCAGCCGTTCTCAATCT 57.141 45.000 0.00 0.00 0.00 2.40
5784 5879 2.386661 TTCCAGCCGTTCTCAATCTC 57.613 50.000 0.00 0.00 0.00 2.75
5788 5883 1.066573 CAGCCGTTCTCAATCTCTGGT 60.067 52.381 0.00 0.00 0.00 4.00
5795 5890 5.391310 CCGTTCTCAATCTCTGGTGATTTTG 60.391 44.000 0.00 0.00 34.77 2.44
5809 5904 4.550422 GTGATTTTGTCCAGAAGAAAGGC 58.450 43.478 0.00 0.00 0.00 4.35
5812 5907 0.112412 TTGTCCAGAAGAAAGGCCCC 59.888 55.000 0.00 0.00 0.00 5.80
5911 6007 1.666888 GGAAAATGCGTGAAGGTGCAG 60.667 52.381 0.00 0.00 45.52 4.41
5912 6008 0.318955 AAAATGCGTGAAGGTGCAGC 60.319 50.000 8.11 8.11 45.52 5.25
5951 6047 4.320494 GCAACATGGTCTGAACTTTACTGG 60.320 45.833 0.00 0.00 0.00 4.00
5971 6067 4.661222 TGGAGGATTAATTGCTTGTCACA 58.339 39.130 0.00 0.00 0.00 3.58
6014 6110 5.419542 GACCCCTTTGGCTAAAATGATTTC 58.580 41.667 0.00 0.00 37.83 2.17
6018 6114 5.818857 CCCTTTGGCTAAAATGATTTCCATG 59.181 40.000 0.00 0.00 35.24 3.66
6039 6135 4.151883 TGGGAAATTTGAAGGACTGGAAG 58.848 43.478 0.00 0.00 42.29 3.46
6059 6158 9.109393 CTGGAAGTCATTAATAATTTTCCTCGA 57.891 33.333 15.62 0.00 34.98 4.04
6069 6168 9.834628 TTAATAATTTTCCTCGATGTGTTGTTC 57.165 29.630 0.00 0.00 0.00 3.18
6080 6179 2.988570 TGTGTTGTTCGGTTTGTAGGT 58.011 42.857 0.00 0.00 0.00 3.08
6094 6193 5.049612 GGTTTGTAGGTTTGACTTCTACAGC 60.050 44.000 0.00 0.00 42.56 4.40
6250 6359 8.621532 TTGATGCAAATTATATCAGGTACTCC 57.378 34.615 0.00 0.00 34.60 3.85
6251 6360 7.168219 TGATGCAAATTATATCAGGTACTCCC 58.832 38.462 0.00 0.00 34.60 4.30
6253 6362 6.769512 TGCAAATTATATCAGGTACTCCCTC 58.230 40.000 0.00 0.00 43.86 4.30
6254 6363 6.174049 GCAAATTATATCAGGTACTCCCTCC 58.826 44.000 0.00 0.00 43.86 4.30
6255 6364 6.239887 GCAAATTATATCAGGTACTCCCTCCA 60.240 42.308 0.00 0.00 43.86 3.86
6256 6365 7.529560 GCAAATTATATCAGGTACTCCCTCCAT 60.530 40.741 0.00 0.00 43.86 3.41
6257 6366 8.386264 CAAATTATATCAGGTACTCCCTCCATT 58.614 37.037 0.00 0.00 43.86 3.16
6258 6367 7.741554 ATTATATCAGGTACTCCCTCCATTC 57.258 40.000 0.00 0.00 43.86 2.67
6259 6368 2.176247 TCAGGTACTCCCTCCATTCC 57.824 55.000 0.00 0.00 43.86 3.01
6260 6369 1.364678 TCAGGTACTCCCTCCATTCCA 59.635 52.381 0.00 0.00 43.86 3.53
6261 6370 2.196595 CAGGTACTCCCTCCATTCCAA 58.803 52.381 0.00 0.00 43.86 3.53
6262 6371 2.576191 CAGGTACTCCCTCCATTCCAAA 59.424 50.000 0.00 0.00 43.86 3.28
6263 6372 3.010138 CAGGTACTCCCTCCATTCCAAAA 59.990 47.826 0.00 0.00 43.86 2.44
6264 6373 3.858638 AGGTACTCCCTCCATTCCAAAAT 59.141 43.478 0.00 0.00 40.71 1.82
6265 6374 5.043762 AGGTACTCCCTCCATTCCAAAATA 58.956 41.667 0.00 0.00 40.71 1.40
6266 6375 5.132816 AGGTACTCCCTCCATTCCAAAATAG 59.867 44.000 0.00 0.00 40.71 1.73
6267 6376 5.132144 GGTACTCCCTCCATTCCAAAATAGA 59.868 44.000 0.00 0.00 0.00 1.98
6268 6377 6.183361 GGTACTCCCTCCATTCCAAAATAGAT 60.183 42.308 0.00 0.00 0.00 1.98
6269 6378 5.699143 ACTCCCTCCATTCCAAAATAGATG 58.301 41.667 0.00 0.00 0.00 2.90
6270 6379 5.433051 ACTCCCTCCATTCCAAAATAGATGA 59.567 40.000 0.00 0.00 0.00 2.92
6271 6380 5.694995 TCCCTCCATTCCAAAATAGATGAC 58.305 41.667 0.00 0.00 0.00 3.06
6272 6381 5.433051 TCCCTCCATTCCAAAATAGATGACT 59.567 40.000 0.00 0.00 0.00 3.41
6273 6382 6.068853 TCCCTCCATTCCAAAATAGATGACTT 60.069 38.462 0.00 0.00 0.00 3.01
6274 6383 7.128728 TCCCTCCATTCCAAAATAGATGACTTA 59.871 37.037 0.00 0.00 0.00 2.24
6275 6384 7.779798 CCCTCCATTCCAAAATAGATGACTTAA 59.220 37.037 0.00 0.00 0.00 1.85
6276 6385 8.624776 CCTCCATTCCAAAATAGATGACTTAAC 58.375 37.037 0.00 0.00 0.00 2.01
6277 6386 9.401058 CTCCATTCCAAAATAGATGACTTAACT 57.599 33.333 0.00 0.00 0.00 2.24
6278 6387 9.753674 TCCATTCCAAAATAGATGACTTAACTT 57.246 29.630 0.00 0.00 0.00 2.66
6308 6417 9.694137 ACTAGTTTAGTACAAAGTTGAGTCATC 57.306 33.333 0.00 0.00 37.23 2.92
6309 6418 9.915629 CTAGTTTAGTACAAAGTTGAGTCATCT 57.084 33.333 0.00 0.00 0.00 2.90
6316 6425 9.003658 AGTACAAAGTTGAGTCATCTATTTTGG 57.996 33.333 14.35 0.00 40.00 3.28
6317 6426 8.999431 GTACAAAGTTGAGTCATCTATTTTGGA 58.001 33.333 14.35 6.88 40.00 3.53
6318 6427 8.463930 ACAAAGTTGAGTCATCTATTTTGGAA 57.536 30.769 14.35 0.00 40.00 3.53
6319 6428 8.352942 ACAAAGTTGAGTCATCTATTTTGGAAC 58.647 33.333 14.35 0.00 40.00 3.62
6320 6429 6.727824 AGTTGAGTCATCTATTTTGGAACG 57.272 37.500 1.70 0.00 0.00 3.95
6321 6430 5.643777 AGTTGAGTCATCTATTTTGGAACGG 59.356 40.000 1.70 0.00 0.00 4.44
6322 6431 5.414789 TGAGTCATCTATTTTGGAACGGA 57.585 39.130 0.00 0.00 0.00 4.69
6323 6432 5.419542 TGAGTCATCTATTTTGGAACGGAG 58.580 41.667 0.00 0.00 0.00 4.63
6324 6433 4.770795 AGTCATCTATTTTGGAACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
6325 6434 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
6326 6435 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
6327 6436 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
6328 6437 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
6334 6443 1.112950 GGAACGGAGGGAGTAGGAAG 58.887 60.000 0.00 0.00 0.00 3.46
6355 6464 0.900647 AAGTAGACGTGGCTCCTGCT 60.901 55.000 0.00 0.00 39.59 4.24
6406 6524 8.650143 AGGATTTCTATATGGAGTTCTCTCTC 57.350 38.462 0.00 0.00 40.29 3.20
6605 6736 1.604278 GGCAAGCAGACGAAAGAGTTT 59.396 47.619 0.00 0.00 0.00 2.66
6606 6737 2.603173 GGCAAGCAGACGAAAGAGTTTG 60.603 50.000 0.00 0.00 0.00 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
124 125 1.959985 GAGATGAGCGAGATCCCTGAA 59.040 52.381 0.00 0.00 0.00 3.02
126 127 1.326328 TGAGATGAGCGAGATCCCTG 58.674 55.000 0.00 0.00 0.00 4.45
185 186 4.717233 TTTTGTTGTGTGTTGCAGAGAT 57.283 36.364 0.00 0.00 0.00 2.75
336 338 3.732471 GCTTAGTGAGGTCTAGAGCAACG 60.732 52.174 23.18 9.79 31.31 4.10
503 505 0.665068 CGCGTGTGTGGTAGCTTACA 60.665 55.000 0.00 0.00 0.00 2.41
525 527 3.479370 GCTGTAGCCTTGCACGAG 58.521 61.111 0.00 0.00 34.31 4.18
611 614 1.671901 CTCTCGCTTCCCCTCTCACC 61.672 65.000 0.00 0.00 0.00 4.02
613 616 0.395036 CTCTCTCGCTTCCCCTCTCA 60.395 60.000 0.00 0.00 0.00 3.27
621 624 0.801836 GCTCTGCACTCTCTCGCTTC 60.802 60.000 0.00 0.00 0.00 3.86
622 625 1.215117 GCTCTGCACTCTCTCGCTT 59.785 57.895 0.00 0.00 0.00 4.68
625 628 1.513800 CACGCTCTGCACTCTCTCG 60.514 63.158 0.00 0.00 0.00 4.04
756 769 2.692741 CCTCACCCTTCCCCTCCC 60.693 72.222 0.00 0.00 0.00 4.30
775 788 1.073199 AACCCGCTCTTGACCCAAG 59.927 57.895 0.51 0.51 42.25 3.61
783 796 1.598130 GAGCACACAACCCGCTCTT 60.598 57.895 3.46 0.00 46.86 2.85
993 1010 2.098280 CGAGGAAGACGACATGACTCAT 59.902 50.000 0.00 0.00 0.00 2.90
994 1011 1.468914 CGAGGAAGACGACATGACTCA 59.531 52.381 0.00 0.00 0.00 3.41
995 1012 1.795889 GCGAGGAAGACGACATGACTC 60.796 57.143 0.00 0.00 0.00 3.36
996 1013 0.171455 GCGAGGAAGACGACATGACT 59.829 55.000 0.00 0.00 0.00 3.41
997 1014 0.802607 GGCGAGGAAGACGACATGAC 60.803 60.000 0.00 0.00 38.75 3.06
998 1015 1.248101 TGGCGAGGAAGACGACATGA 61.248 55.000 0.00 0.00 43.96 3.07
999 1016 1.215382 TGGCGAGGAAGACGACATG 59.785 57.895 0.00 0.00 43.96 3.21
1063 1080 4.473520 CTTCCGCTGGCCCGATGT 62.474 66.667 0.00 0.00 0.00 3.06
1117 1134 1.235696 GGAGCAGGAGGGAGAGGAT 59.764 63.158 0.00 0.00 0.00 3.24
1293 1310 2.268920 GAGGAGCATGGAACGGCA 59.731 61.111 0.00 0.00 33.60 5.69
1319 1336 4.284550 AAAGCAGCGCAAGGGGGA 62.285 61.111 11.47 0.00 38.28 4.81
1416 1440 1.455383 CGCACCAATTAGATGGGGGC 61.455 60.000 0.00 0.00 44.50 5.80
1422 1446 2.238942 TCATCGCGCACCAATTAGAT 57.761 45.000 8.75 0.00 0.00 1.98
1435 1459 2.484264 GCTAACCCCAACATATCATCGC 59.516 50.000 0.00 0.00 0.00 4.58
1454 1478 2.519771 ATCATCACCACCACATTGCT 57.480 45.000 0.00 0.00 0.00 3.91
1472 1496 3.552890 GCAACCAAAGCGGAAGAGAAAAT 60.553 43.478 0.00 0.00 38.63 1.82
1476 1500 2.629002 GCAACCAAAGCGGAAGAGA 58.371 52.632 0.00 0.00 38.63 3.10
1944 1976 2.911819 TAATTGCGCTTAAGTGTGCC 57.088 45.000 17.00 1.89 42.20 5.01
1987 2019 2.977405 CGATAGCAAAATGCCTAGCC 57.023 50.000 0.00 0.00 46.52 3.93
2036 2068 7.470935 TGTATACTGTACACACAACCATAGT 57.529 36.000 4.17 0.00 33.22 2.12
2037 2069 7.042725 GCATGTATACTGTACACACAACCATAG 60.043 40.741 0.30 0.00 33.22 2.23
2038 2070 6.759356 GCATGTATACTGTACACACAACCATA 59.241 38.462 0.30 0.00 33.22 2.74
2231 2263 5.014123 ACAACAGAATCCCAGAGGTATCAAA 59.986 40.000 0.00 0.00 0.00 2.69
2376 2417 3.642705 GGCAACTCGAGCAAAGAAAAAT 58.357 40.909 13.61 0.00 0.00 1.82
2382 2423 0.110644 GTTCGGCAACTCGAGCAAAG 60.111 55.000 13.61 0.71 40.42 2.77
2425 2468 7.235409 TTGGTACATTATCAGATGCGGTCATC 61.235 42.308 0.00 4.82 43.75 2.92
2459 2502 9.629878 TGGGAACAAGAACAGTAATAAAAGTAA 57.370 29.630 0.00 0.00 37.44 2.24
2489 2532 2.276201 TCGGCACATCAAGTAAATCCG 58.724 47.619 0.00 0.00 37.21 4.18
2538 2581 4.400567 AGCCAGCAGAAATATGTTCCTTTC 59.599 41.667 0.00 0.00 0.00 2.62
2686 2729 0.465460 GAGCACCCAGAACACCAACA 60.465 55.000 0.00 0.00 0.00 3.33
2798 2841 8.922237 ACATGTACAATGGCCAAATATCAATTA 58.078 29.630 10.96 0.00 0.00 1.40
2799 2842 7.794041 ACATGTACAATGGCCAAATATCAATT 58.206 30.769 10.96 0.00 0.00 2.32
2809 2852 5.991933 AACATAAACATGTACAATGGCCA 57.008 34.783 8.56 8.56 33.81 5.36
3033 3079 4.691860 ATGACACATTCAAGCTAAGCAC 57.308 40.909 0.00 0.00 37.92 4.40
3039 3085 4.019860 AGACCTGTATGACACATTCAAGCT 60.020 41.667 0.00 0.00 37.92 3.74
3042 3088 4.041567 ACCAGACCTGTATGACACATTCAA 59.958 41.667 0.00 0.00 37.92 2.69
3045 3091 4.640771 AACCAGACCTGTATGACACATT 57.359 40.909 0.00 0.00 36.29 2.71
3184 3244 6.544931 AGCTCAAGCAGAATTGATAGCATTTA 59.455 34.615 4.59 0.00 45.16 1.40
3217 3277 5.454966 AGAACCCACAAATTAAGACCAAGT 58.545 37.500 0.00 0.00 0.00 3.16
3228 3288 2.821969 GCACAGATGAGAACCCACAAAT 59.178 45.455 0.00 0.00 0.00 2.32
3234 3294 1.277557 AGAGTGCACAGATGAGAACCC 59.722 52.381 21.04 0.00 0.00 4.11
3244 3304 3.488310 GCACATTTTCAAAGAGTGCACAG 59.512 43.478 21.04 3.29 45.39 3.66
3290 3350 8.504815 GTCCTTTTTAGTGATTGAACTAGTTCC 58.495 37.037 28.43 16.10 38.77 3.62
3383 3443 9.072375 TGGTTCAAAAACACATTATGTAGATCA 57.928 29.630 0.00 0.00 42.31 2.92
3446 3506 1.487850 TTTCCAAAATGGGGCCCTGC 61.488 55.000 25.93 6.38 38.32 4.85
3500 3560 7.556844 AGTAAGAGATGTTTCGAACCACATAT 58.443 34.615 13.96 11.63 33.62 1.78
3560 3620 3.355378 AGCAGCAATGGCAGTTACAATA 58.645 40.909 0.00 0.00 44.61 1.90
3694 3754 4.448060 GCTTCGGCTCTTTACCATACATAC 59.552 45.833 0.00 0.00 38.08 2.39
4062 4122 3.004752 AGGAATTCGCTAGCACCATTT 57.995 42.857 16.45 0.25 0.00 2.32
4105 4165 7.035612 GGTGGATGTTCAAATTCTTATGGAAC 58.964 38.462 0.00 0.00 36.70 3.62
4154 4214 7.279981 CCATGAAAATTGACTTGATCCTACGTA 59.720 37.037 0.00 0.00 0.00 3.57
4207 4267 4.586001 AGAGGATTGCACAACACAGAAAAT 59.414 37.500 0.00 0.00 0.00 1.82
4246 4306 4.434713 AAACCACAGGAATTTGATACGC 57.565 40.909 0.00 0.00 0.00 4.42
4258 4318 5.755849 ACATAGGAATAGGAAAACCACAGG 58.244 41.667 0.00 0.00 0.00 4.00
4393 4464 9.862585 CCATTTAATGTTTTCAAGTTGTTAAGC 57.137 29.630 2.11 2.18 0.00 3.09
4554 4626 1.089920 GGTTGACCAGTAGCTGCATG 58.910 55.000 4.12 0.00 35.64 4.06
5136 5227 5.801531 AAGACAGGTGTATGTGTTACTCA 57.198 39.130 0.00 0.00 35.14 3.41
5220 5311 4.607293 ATGATAGCGTTATGGAAGAGCA 57.393 40.909 0.00 0.00 0.00 4.26
5244 5335 4.445385 GCAGCATCTTCGTTTTGACAAAAT 59.555 37.500 16.03 0.00 32.22 1.82
5256 5347 0.027194 CGGACATTGCAGCATCTTCG 59.973 55.000 0.00 0.00 0.00 3.79
5362 5454 6.543831 GTCTCCACCAAATACAGAAGCAATAT 59.456 38.462 0.00 0.00 0.00 1.28
5375 5467 4.202503 ACATCACTGAAGTCTCCACCAAAT 60.203 41.667 0.00 0.00 0.00 2.32
5406 5498 9.427821 ACATCATATCACTTAAGTCTAGTTCCT 57.572 33.333 4.77 0.00 0.00 3.36
5426 5519 8.039603 TCGTGCATTCTAAACTTAAACATCAT 57.960 30.769 0.00 0.00 0.00 2.45
5434 5527 9.048446 AGTTTTACTTCGTGCATTCTAAACTTA 57.952 29.630 0.00 0.00 31.41 2.24
5442 5535 7.356154 CGTTTGTTAGTTTTACTTCGTGCATTC 60.356 37.037 0.00 0.00 0.00 2.67
5469 5562 3.378112 TCAGCAGCCATTTATGTTGTAGC 59.622 43.478 0.00 0.00 0.00 3.58
5498 5591 2.158813 AGGCACCGTTCAGAAAAGAAGA 60.159 45.455 0.00 0.00 0.00 2.87
5575 5669 1.002624 TCCGTTTGCCATGTCCTCC 60.003 57.895 0.00 0.00 0.00 4.30
5593 5687 2.568956 TGTCAAGGCTAGCATCTGAACT 59.431 45.455 18.24 0.00 0.00 3.01
5626 5720 2.262915 CGTGCTCACTCCAGGGAC 59.737 66.667 0.00 0.00 0.00 4.46
5678 5772 6.591062 GCCACATGTTATCACATCACAATTTT 59.409 34.615 0.00 0.00 42.14 1.82
5681 5775 4.201940 CGCCACATGTTATCACATCACAAT 60.202 41.667 0.00 0.00 42.14 2.71
5740 5834 5.917541 TGGTTTTAGAATGAGACGACAAC 57.082 39.130 0.00 0.00 0.00 3.32
5741 5835 7.504924 AAATGGTTTTAGAATGAGACGACAA 57.495 32.000 0.00 0.00 0.00 3.18
5756 5851 2.698274 AGAACGGCTGGAAAATGGTTTT 59.302 40.909 0.00 0.00 35.12 2.43
5768 5863 1.066573 ACCAGAGATTGAGAACGGCTG 60.067 52.381 0.00 0.00 0.00 4.85
5788 5883 3.573967 GGCCTTTCTTCTGGACAAAATCA 59.426 43.478 0.00 0.00 0.00 2.57
5795 5890 1.000771 GGGGGCCTTTCTTCTGGAC 60.001 63.158 0.84 0.00 0.00 4.02
5809 5904 0.466922 GTCATGCCAATCAGAGGGGG 60.467 60.000 0.00 0.00 0.00 5.40
5812 5907 1.137675 TCGAGTCATGCCAATCAGAGG 59.862 52.381 0.00 0.00 0.00 3.69
5849 5945 8.250143 ACAAGGGGATGGAATTATTATGTTTC 57.750 34.615 0.00 0.00 0.00 2.78
5951 6047 4.943705 TCCTGTGACAAGCAATTAATCCTC 59.056 41.667 0.00 0.00 0.00 3.71
5971 6067 1.065418 CCCTGGATTTAGCGTGTTCCT 60.065 52.381 0.00 0.00 0.00 3.36
6014 6110 3.196254 CCAGTCCTTCAAATTTCCCATGG 59.804 47.826 4.14 4.14 0.00 3.66
6018 6114 4.152647 ACTTCCAGTCCTTCAAATTTCCC 58.847 43.478 0.00 0.00 0.00 3.97
6059 6158 3.547746 ACCTACAAACCGAACAACACAT 58.452 40.909 0.00 0.00 0.00 3.21
6069 6168 5.051816 TGTAGAAGTCAAACCTACAAACCG 58.948 41.667 0.00 0.00 39.56 4.44
6247 6356 5.767168 GTCATCTATTTTGGAATGGAGGGAG 59.233 44.000 0.00 0.00 36.39 4.30
6248 6357 5.433051 AGTCATCTATTTTGGAATGGAGGGA 59.567 40.000 0.00 0.00 36.39 4.20
6249 6358 5.699143 AGTCATCTATTTTGGAATGGAGGG 58.301 41.667 0.00 0.00 36.39 4.30
6250 6359 8.624776 GTTAAGTCATCTATTTTGGAATGGAGG 58.375 37.037 0.00 0.00 36.39 4.30
6251 6360 9.401058 AGTTAAGTCATCTATTTTGGAATGGAG 57.599 33.333 0.00 0.00 36.39 3.86
6252 6361 9.753674 AAGTTAAGTCATCTATTTTGGAATGGA 57.246 29.630 0.00 0.00 37.20 3.41
6282 6391 9.694137 GATGACTCAACTTTGTACTAAACTAGT 57.306 33.333 0.00 0.00 42.68 2.57
6283 6392 9.915629 AGATGACTCAACTTTGTACTAAACTAG 57.084 33.333 0.00 0.00 0.00 2.57
6290 6399 9.003658 CCAAAATAGATGACTCAACTTTGTACT 57.996 33.333 0.00 0.00 0.00 2.73
6291 6400 8.999431 TCCAAAATAGATGACTCAACTTTGTAC 58.001 33.333 0.00 0.00 0.00 2.90
6292 6401 9.567776 TTCCAAAATAGATGACTCAACTTTGTA 57.432 29.630 0.00 0.00 0.00 2.41
6293 6402 8.352942 GTTCCAAAATAGATGACTCAACTTTGT 58.647 33.333 0.00 0.00 0.00 2.83
6294 6403 7.535258 CGTTCCAAAATAGATGACTCAACTTTG 59.465 37.037 0.00 0.00 0.00 2.77
6295 6404 7.308589 CCGTTCCAAAATAGATGACTCAACTTT 60.309 37.037 0.00 0.00 0.00 2.66
6296 6405 6.149474 CCGTTCCAAAATAGATGACTCAACTT 59.851 38.462 0.00 0.00 0.00 2.66
6297 6406 5.643777 CCGTTCCAAAATAGATGACTCAACT 59.356 40.000 0.00 0.00 0.00 3.16
6298 6407 5.642063 TCCGTTCCAAAATAGATGACTCAAC 59.358 40.000 0.00 0.00 0.00 3.18
6299 6408 5.800296 TCCGTTCCAAAATAGATGACTCAA 58.200 37.500 0.00 0.00 0.00 3.02
6300 6409 5.414789 TCCGTTCCAAAATAGATGACTCA 57.585 39.130 0.00 0.00 0.00 3.41
6301 6410 4.811557 CCTCCGTTCCAAAATAGATGACTC 59.188 45.833 0.00 0.00 0.00 3.36
6302 6411 4.384208 CCCTCCGTTCCAAAATAGATGACT 60.384 45.833 0.00 0.00 0.00 3.41
6303 6412 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
6304 6413 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
6305 6414 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
6306 6415 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
6307 6416 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
6308 6417 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
6309 6418 3.453353 CCTACTCCCTCCGTTCCAAAATA 59.547 47.826 0.00 0.00 0.00 1.40
6310 6419 2.238898 CCTACTCCCTCCGTTCCAAAAT 59.761 50.000 0.00 0.00 0.00 1.82
6311 6420 1.626825 CCTACTCCCTCCGTTCCAAAA 59.373 52.381 0.00 0.00 0.00 2.44
6312 6421 1.203212 TCCTACTCCCTCCGTTCCAAA 60.203 52.381 0.00 0.00 0.00 3.28
6313 6422 0.410663 TCCTACTCCCTCCGTTCCAA 59.589 55.000 0.00 0.00 0.00 3.53
6314 6423 0.410663 TTCCTACTCCCTCCGTTCCA 59.589 55.000 0.00 0.00 0.00 3.53
6315 6424 1.112950 CTTCCTACTCCCTCCGTTCC 58.887 60.000 0.00 0.00 0.00 3.62
6316 6425 0.460722 GCTTCCTACTCCCTCCGTTC 59.539 60.000 0.00 0.00 0.00 3.95
6317 6426 0.252103 TGCTTCCTACTCCCTCCGTT 60.252 55.000 0.00 0.00 0.00 4.44
6318 6427 0.252103 TTGCTTCCTACTCCCTCCGT 60.252 55.000 0.00 0.00 0.00 4.69
6319 6428 0.461961 CTTGCTTCCTACTCCCTCCG 59.538 60.000 0.00 0.00 0.00 4.63
6320 6429 1.574263 ACTTGCTTCCTACTCCCTCC 58.426 55.000 0.00 0.00 0.00 4.30
6321 6430 3.382227 GTCTACTTGCTTCCTACTCCCTC 59.618 52.174 0.00 0.00 0.00 4.30
6322 6431 3.367321 GTCTACTTGCTTCCTACTCCCT 58.633 50.000 0.00 0.00 0.00 4.20
6323 6432 2.099427 CGTCTACTTGCTTCCTACTCCC 59.901 54.545 0.00 0.00 0.00 4.30
6324 6433 2.754002 ACGTCTACTTGCTTCCTACTCC 59.246 50.000 0.00 0.00 0.00 3.85
6325 6434 3.427773 CCACGTCTACTTGCTTCCTACTC 60.428 52.174 0.00 0.00 0.00 2.59
6326 6435 2.492484 CCACGTCTACTTGCTTCCTACT 59.508 50.000 0.00 0.00 0.00 2.57
6327 6436 2.877335 CCACGTCTACTTGCTTCCTAC 58.123 52.381 0.00 0.00 0.00 3.18
6328 6437 1.203994 GCCACGTCTACTTGCTTCCTA 59.796 52.381 0.00 0.00 0.00 2.94
6334 6443 0.737715 CAGGAGCCACGTCTACTTGC 60.738 60.000 0.00 0.00 0.00 4.01
6406 6524 6.992063 AAGGACTACTTCATATGCAGTTTG 57.008 37.500 13.31 9.37 32.85 2.93
6467 6588 8.585881 TGTATAAGATTGAGTACCATAGGAAGC 58.414 37.037 0.00 0.00 0.00 3.86
6513 6634 6.412362 TCCTAGCTCTTGAGAATATTCCAC 57.588 41.667 11.92 7.45 0.00 4.02
6574 6705 3.649073 GTCTGCTTGCCGGTTAATTTTT 58.351 40.909 1.90 0.00 0.00 1.94
6575 6706 2.351350 CGTCTGCTTGCCGGTTAATTTT 60.351 45.455 1.90 0.00 0.00 1.82
6576 6707 1.199097 CGTCTGCTTGCCGGTTAATTT 59.801 47.619 1.90 0.00 0.00 1.82
6577 6708 0.802494 CGTCTGCTTGCCGGTTAATT 59.198 50.000 1.90 0.00 0.00 1.40
6578 6709 0.036765 TCGTCTGCTTGCCGGTTAAT 60.037 50.000 1.90 0.00 0.00 1.40
6605 6736 1.338011 TGTCAAGCGATGATGCACTCA 60.338 47.619 0.00 0.00 40.97 3.41
6606 6737 1.326852 CTGTCAAGCGATGATGCACTC 59.673 52.381 0.00 0.00 40.97 3.51


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

AutoCloner maintained by Alex Coulton.