Multiple sequence alignment - TraesCS5D01G395600

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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 TraesCS5D01G395600 chr5D 100.000 2899 0 0 1 2899 463195978 463193080 0.000000e+00 5354.0
1 TraesCS5D01G395600 chr5D 94.915 118 6 0 2428 2545 463193433 463193316 4.930000e-43 185.0
2 TraesCS5D01G395600 chr5D 94.915 118 6 0 2546 2663 463193551 463193434 4.930000e-43 185.0
3 TraesCS5D01G395600 chr5A 91.792 1864 98 32 513 2333 583569124 583567273 0.000000e+00 2543.0
4 TraesCS5D01G395600 chr5A 84.314 102 9 5 2400 2496 89704359 89704458 3.080000e-15 93.5
5 TraesCS5D01G395600 chr5B 94.297 1543 53 14 513 2040 570077994 570076472 0.000000e+00 2329.0
6 TraesCS5D01G395600 chr5B 86.476 525 53 8 5 513 107374038 107373516 7.020000e-156 560.0
7 TraesCS5D01G395600 chr5B 89.091 275 27 2 2020 2293 570076456 570076184 3.580000e-89 339.0
8 TraesCS5D01G395600 chr5B 90.741 54 4 1 2793 2845 570073275 570073222 1.440000e-08 71.3
9 TraesCS5D01G395600 chr1D 87.476 527 46 10 2 514 482526705 482527225 8.950000e-165 590.0
10 TraesCS5D01G395600 chr4B 86.948 521 51 8 2 507 465034792 465035310 1.170000e-158 569.0
11 TraesCS5D01G395600 chr6D 86.389 529 51 8 2 513 378424283 378424807 2.520000e-155 558.0
12 TraesCS5D01G395600 chr2B 86.011 529 55 7 1 513 77735140 77735665 1.520000e-152 549.0
13 TraesCS5D01G395600 chr2B 85.311 531 59 7 1 514 624619229 624619757 5.500000e-147 531.0
14 TraesCS5D01G395600 chr2B 81.553 103 18 1 2376 2477 358917975 358917873 1.850000e-12 84.2
15 TraesCS5D01G395600 chr3D 84.061 527 63 9 2 512 545023111 545023632 3.360000e-134 488.0
16 TraesCS5D01G395600 chr1B 83.902 528 68 5 2 513 296840527 296841053 3.360000e-134 488.0
17 TraesCS5D01G395600 chr1B 90.123 81 5 2 2400 2477 36010424 36010344 5.110000e-18 102.0
18 TraesCS5D01G395600 chr3B 82.950 522 50 13 1 513 34676602 34677093 4.440000e-118 435.0
19 TraesCS5D01G395600 chr3B 91.250 80 5 2 2400 2477 325873023 325872944 1.100000e-19 108.0
20 TraesCS5D01G395600 chr3B 88.750 80 7 2 2400 2477 763282468 763282547 2.380000e-16 97.1
21 TraesCS5D01G395600 chr7A 86.352 403 37 6 131 517 429433685 429433285 9.600000e-115 424.0
22 TraesCS5D01G395600 chrUn 76.757 370 73 7 78 436 104804857 104805224 8.200000e-46 195.0
23 TraesCS5D01G395600 chr6B 91.250 80 5 2 2400 2477 703947247 703947168 1.100000e-19 108.0
24 TraesCS5D01G395600 chr6B 92.000 75 6 0 2400 2474 422348298 422348372 3.950000e-19 106.0
25 TraesCS5D01G395600 chr7B 90.000 80 6 2 2400 2477 191674911 191674990 5.110000e-18 102.0
26 TraesCS5D01G395600 chr2A 89.157 83 3 5 2400 2477 714629641 714629722 6.610000e-17 99.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5D01G395600 chr5D 463193080 463195978 2898 True 1908.0 5354 96.610000 1 2899 3 chr5D.!!$R1 2898
1 TraesCS5D01G395600 chr5A 583567273 583569124 1851 True 2543.0 2543 91.792000 513 2333 1 chr5A.!!$R1 1820
2 TraesCS5D01G395600 chr5B 570073222 570077994 4772 True 913.1 2329 91.376333 513 2845 3 chr5B.!!$R2 2332
3 TraesCS5D01G395600 chr5B 107373516 107374038 522 True 560.0 560 86.476000 5 513 1 chr5B.!!$R1 508
4 TraesCS5D01G395600 chr1D 482526705 482527225 520 False 590.0 590 87.476000 2 514 1 chr1D.!!$F1 512
5 TraesCS5D01G395600 chr4B 465034792 465035310 518 False 569.0 569 86.948000 2 507 1 chr4B.!!$F1 505
6 TraesCS5D01G395600 chr6D 378424283 378424807 524 False 558.0 558 86.389000 2 513 1 chr6D.!!$F1 511
7 TraesCS5D01G395600 chr2B 77735140 77735665 525 False 549.0 549 86.011000 1 513 1 chr2B.!!$F1 512
8 TraesCS5D01G395600 chr2B 624619229 624619757 528 False 531.0 531 85.311000 1 514 1 chr2B.!!$F2 513
9 TraesCS5D01G395600 chr3D 545023111 545023632 521 False 488.0 488 84.061000 2 512 1 chr3D.!!$F1 510
10 TraesCS5D01G395600 chr1B 296840527 296841053 526 False 488.0 488 83.902000 2 513 1 chr1B.!!$F1 511

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
901 923 1.006832 CACGCAGTCCGGATAAAAGG 58.993 55.0 7.81 0.0 41.61 3.11 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2361 4912 0.034896 TCGCCTTGGACAAGAAGGAC 59.965 55.0 13.35 0.0 42.44 3.85 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
44 46 9.358872 GAAAATTAGAGAAAATTGTGTCCATCC 57.641 33.333 0.00 0.00 0.00 3.51
93 97 9.442047 AAAGAATAGGTGTGAATGTTTCTCTAG 57.558 33.333 0.00 0.00 0.00 2.43
139 143 6.003950 ACCCATGTATATAACTGGACATTGC 58.996 40.000 11.68 0.00 31.61 3.56
178 183 6.521162 TCGTGCTTATTGCTATCCATTTCTA 58.479 36.000 0.00 0.00 43.37 2.10
279 294 4.277921 TGAAATGTTGAAGTGTGCATGCTA 59.722 37.500 20.33 5.09 0.00 3.49
292 307 4.281941 TGTGCATGCTAAAATGTTGGGTAA 59.718 37.500 20.33 0.00 0.00 2.85
330 345 5.778862 TGAGAAATACGTGATGAAGTGTGA 58.221 37.500 0.00 0.00 0.00 3.58
342 357 6.206634 GTGATGAAGTGTGAAATTGGGTAAGA 59.793 38.462 0.00 0.00 0.00 2.10
403 418 1.105457 CCGACCGGGTACAAGTATGA 58.895 55.000 6.32 0.00 0.00 2.15
466 487 5.687166 AAAAATAGTGAGACGGGTATGGA 57.313 39.130 0.00 0.00 0.00 3.41
519 541 1.639298 GGTGCCATGTTGAGCTCGAC 61.639 60.000 24.90 24.90 0.00 4.20
580 602 1.105167 CCACCGCCATCAATGAGCAT 61.105 55.000 0.00 0.00 0.00 3.79
687 709 2.172659 GACGCGCGGTTCTTTTCC 59.827 61.111 35.22 7.17 0.00 3.13
693 715 1.136774 GCGGTTCTTTTCCCATCGC 59.863 57.895 0.00 0.00 35.12 4.58
845 867 1.239296 CCACGTACCACCTCTCGTCA 61.239 60.000 0.00 0.00 34.30 4.35
901 923 1.006832 CACGCAGTCCGGATAAAAGG 58.993 55.000 7.81 0.00 41.61 3.11
921 943 3.860605 ACACGCACAGGCCACAGA 61.861 61.111 5.01 0.00 36.38 3.41
984 1008 1.189524 TTCCCCGTGACCAATCGAGT 61.190 55.000 0.00 0.00 0.00 4.18
1094 1124 3.368571 GTTCGACGTCTCCGGGGT 61.369 66.667 14.70 0.00 38.78 4.95
1485 1515 2.526873 AAGCCGGTGGACCAGAGT 60.527 61.111 1.90 0.00 35.14 3.24
1642 1672 4.131088 GGGACGTCCTCTCGGTGC 62.131 72.222 32.52 10.90 35.95 5.01
1660 1690 2.762234 CGCTCCGCCGAACTCTACT 61.762 63.158 0.00 0.00 0.00 2.57
1665 1695 1.506718 CGCCGAACTCTACTGCTCA 59.493 57.895 0.00 0.00 0.00 4.26
1700 1734 5.503031 CGTTTTCTCCTCCATGATTGATTCG 60.503 44.000 0.00 0.00 0.00 3.34
1704 1738 6.233905 TCTCCTCCATGATTGATTCGTTTA 57.766 37.500 0.00 0.00 0.00 2.01
1705 1739 6.830912 TCTCCTCCATGATTGATTCGTTTAT 58.169 36.000 0.00 0.00 0.00 1.40
1710 1744 7.205737 TCCATGATTGATTCGTTTATCCATG 57.794 36.000 0.00 0.00 0.00 3.66
1716 1750 5.351948 TGATTCGTTTATCCATGACTCCA 57.648 39.130 0.00 0.00 0.00 3.86
1930 1967 3.135279 TCTCCTCCCTCCATCTAGAGTT 58.865 50.000 0.00 0.00 31.53 3.01
1935 1972 3.892588 CTCCCTCCATCTAGAGTTGTACC 59.107 52.174 0.00 0.00 31.53 3.34
1982 2019 4.643387 GGTGCGGTGCAGGGTTCT 62.643 66.667 0.00 0.00 40.08 3.01
1983 2020 3.357079 GTGCGGTGCAGGGTTCTG 61.357 66.667 0.00 0.00 40.08 3.02
1984 2021 4.641645 TGCGGTGCAGGGTTCTGG 62.642 66.667 0.00 0.00 41.19 3.86
1986 2023 3.953775 CGGTGCAGGGTTCTGGGT 61.954 66.667 0.00 0.00 41.19 4.51
1987 2024 2.520968 GGTGCAGGGTTCTGGGTT 59.479 61.111 0.00 0.00 41.19 4.11
1988 2025 1.152546 GGTGCAGGGTTCTGGGTTT 60.153 57.895 0.00 0.00 41.19 3.27
1989 2026 1.463553 GGTGCAGGGTTCTGGGTTTG 61.464 60.000 0.00 0.00 41.19 2.93
1990 2027 0.755327 GTGCAGGGTTCTGGGTTTGT 60.755 55.000 0.00 0.00 41.19 2.83
1991 2028 0.847373 TGCAGGGTTCTGGGTTTGTA 59.153 50.000 0.00 0.00 41.19 2.41
1992 2029 1.244816 GCAGGGTTCTGGGTTTGTAC 58.755 55.000 0.00 0.00 41.19 2.90
1993 2030 1.905637 CAGGGTTCTGGGTTTGTACC 58.094 55.000 0.00 0.00 44.22 3.34
2050 2159 7.909121 CGTCTAGTCGTTTCTTGTATAGAATGT 59.091 37.037 0.93 0.00 42.32 2.71
2051 2160 9.570488 GTCTAGTCGTTTCTTGTATAGAATGTT 57.430 33.333 0.00 0.00 42.32 2.71
2077 2186 3.243737 ACGTGTAAGATCAGCAGTGTCAA 60.244 43.478 0.00 0.00 0.00 3.18
2108 2217 3.565063 ACAATAACACGGGCGTTAAACTT 59.435 39.130 0.00 0.00 35.12 2.66
2110 2219 1.666054 AACACGGGCGTTAAACTTCA 58.334 45.000 0.00 0.00 0.00 3.02
2111 2220 1.666054 ACACGGGCGTTAAACTTCAA 58.334 45.000 0.00 0.00 0.00 2.69
2122 2234 6.020916 GGCGTTAAACTTCAAACAAACTCTTC 60.021 38.462 0.00 0.00 0.00 2.87
2134 2246 2.798283 CAAACTCTTCGGAACACGCTTA 59.202 45.455 0.00 0.00 43.86 3.09
2136 2248 3.314541 ACTCTTCGGAACACGCTTATT 57.685 42.857 0.00 0.00 43.86 1.40
2190 2305 2.222678 GCTGATACATCGCTGGACATTG 59.777 50.000 0.00 0.00 0.00 2.82
2203 2318 4.673580 GCTGGACATTGCTGAAGTTATGTG 60.674 45.833 0.00 0.00 31.76 3.21
2204 2319 3.191162 TGGACATTGCTGAAGTTATGTGC 59.809 43.478 0.00 0.00 39.06 4.57
2213 2328 3.550820 TGAAGTTATGTGCAACTGTGGT 58.449 40.909 0.00 0.00 38.74 4.16
2236 2351 2.288702 TGGAAATGCACATTTTGGGACG 60.289 45.455 9.81 0.00 40.77 4.79
2243 2358 0.039618 ACATTTTGGGACGGCCTGAT 59.960 50.000 7.57 0.00 0.00 2.90
2248 2363 0.331278 TTGGGACGGCCTGATGATTT 59.669 50.000 7.57 0.00 0.00 2.17
2250 2365 1.025041 GGGACGGCCTGATGATTTTC 58.975 55.000 7.57 0.00 0.00 2.29
2251 2366 1.025041 GGACGGCCTGATGATTTTCC 58.975 55.000 0.00 0.00 0.00 3.13
2252 2367 1.408822 GGACGGCCTGATGATTTTCCT 60.409 52.381 0.00 0.00 0.00 3.36
2253 2368 2.369394 GACGGCCTGATGATTTTCCTT 58.631 47.619 0.00 0.00 0.00 3.36
2256 2371 3.056607 ACGGCCTGATGATTTTCCTTTTG 60.057 43.478 0.00 0.00 0.00 2.44
2258 2373 4.321899 CGGCCTGATGATTTTCCTTTTGAA 60.322 41.667 0.00 0.00 0.00 2.69
2259 2374 5.173664 GGCCTGATGATTTTCCTTTTGAAG 58.826 41.667 0.00 0.00 33.63 3.02
2263 2378 7.664758 CCTGATGATTTTCCTTTTGAAGTTCT 58.335 34.615 4.17 0.00 33.63 3.01
2290 2405 0.682292 TCCCGTGATGTGCACTGTTA 59.318 50.000 19.41 0.00 45.49 2.41
2293 2408 2.095853 CCCGTGATGTGCACTGTTAATC 59.904 50.000 19.41 12.42 45.49 1.75
2294 2409 2.741517 CCGTGATGTGCACTGTTAATCA 59.258 45.455 19.41 14.94 45.49 2.57
2295 2410 3.374988 CCGTGATGTGCACTGTTAATCAT 59.625 43.478 19.41 0.00 45.49 2.45
2320 3964 2.836981 CCTCTCACATTCTTCCTCCACT 59.163 50.000 0.00 0.00 0.00 4.00
2324 3968 0.329596 ACATTCTTCCTCCACTGCCC 59.670 55.000 0.00 0.00 0.00 5.36
2327 3971 1.149101 TTCTTCCTCCACTGCCCTTT 58.851 50.000 0.00 0.00 0.00 3.11
2333 3977 1.340114 CCTCCACTGCCCTTTAACCTC 60.340 57.143 0.00 0.00 0.00 3.85
2335 3979 1.628846 TCCACTGCCCTTTAACCTCTC 59.371 52.381 0.00 0.00 0.00 3.20
2338 4889 2.054799 ACTGCCCTTTAACCTCTCACA 58.945 47.619 0.00 0.00 0.00 3.58
2342 4893 3.330701 TGCCCTTTAACCTCTCACATTCT 59.669 43.478 0.00 0.00 0.00 2.40
2343 4894 4.202567 TGCCCTTTAACCTCTCACATTCTT 60.203 41.667 0.00 0.00 0.00 2.52
2344 4895 4.396478 GCCCTTTAACCTCTCACATTCTTC 59.604 45.833 0.00 0.00 0.00 2.87
2347 4898 5.877564 CCTTTAACCTCTCACATTCTTCTCC 59.122 44.000 0.00 0.00 0.00 3.71
2354 4905 5.182760 CCTCTCACATTCTTCTCCAAAAAGG 59.817 44.000 0.00 0.00 39.47 3.11
2358 4909 2.009681 TTCTTCTCCAAAAAGGCCCC 57.990 50.000 0.00 0.00 37.29 5.80
2359 4910 0.856982 TCTTCTCCAAAAAGGCCCCA 59.143 50.000 0.00 0.00 37.29 4.96
2360 4911 0.969149 CTTCTCCAAAAAGGCCCCAC 59.031 55.000 0.00 0.00 37.29 4.61
2361 4912 0.825840 TTCTCCAAAAAGGCCCCACG 60.826 55.000 0.00 0.00 37.29 4.94
2362 4913 1.530655 CTCCAAAAAGGCCCCACGT 60.531 57.895 0.00 0.00 37.29 4.49
2363 4914 1.524008 CTCCAAAAAGGCCCCACGTC 61.524 60.000 0.00 0.00 37.29 4.34
2365 4916 1.530655 CAAAAAGGCCCCACGTCCT 60.531 57.895 0.00 0.00 0.00 3.85
2381 4932 0.034896 TCCTTCTTGTCCAAGGCGAC 59.965 55.000 7.16 0.00 40.43 5.19
2384 4935 0.179234 TTCTTGTCCAAGGCGACACA 59.821 50.000 7.16 0.00 42.37 3.72
2388 4939 4.680237 TCCAAGGCGACACAGGCG 62.680 66.667 0.00 0.00 41.99 5.52
2438 4989 1.805945 CTTCCTTTCCTCGCCGTCG 60.806 63.158 0.00 0.00 0.00 5.12
2491 5044 2.647158 GCGGGGTCGTCTTCCTCTT 61.647 63.158 0.00 0.00 38.89 2.85
2499 5052 1.140052 TCGTCTTCCTCTTGTTTGGCA 59.860 47.619 0.00 0.00 0.00 4.92
2500 5053 1.532868 CGTCTTCCTCTTGTTTGGCAG 59.467 52.381 0.00 0.00 0.00 4.85
2527 5080 1.262640 TTAGGGTGGGAAGGCTCGAC 61.263 60.000 0.00 0.00 0.00 4.20
2529 5082 4.097361 GGTGGGAAGGCTCGACCC 62.097 72.222 14.72 14.72 43.51 4.46
2541 5094 1.535444 TCGACCCCCTTCTTCTGCA 60.535 57.895 0.00 0.00 0.00 4.41
2545 5098 1.840635 GACCCCCTTCTTCTGCATAGT 59.159 52.381 0.00 0.00 0.00 2.12
2546 5099 1.840635 ACCCCCTTCTTCTGCATAGTC 59.159 52.381 0.00 0.00 0.00 2.59
2547 5100 1.141858 CCCCCTTCTTCTGCATAGTCC 59.858 57.143 0.00 0.00 0.00 3.85
2548 5101 2.122768 CCCCTTCTTCTGCATAGTCCT 58.877 52.381 0.00 0.00 0.00 3.85
2549 5102 2.103941 CCCCTTCTTCTGCATAGTCCTC 59.896 54.545 0.00 0.00 0.00 3.71
2550 5103 2.223923 CCCTTCTTCTGCATAGTCCTCG 60.224 54.545 0.00 0.00 0.00 4.63
2551 5104 2.468831 CTTCTTCTGCATAGTCCTCGC 58.531 52.381 0.00 0.00 0.00 5.03
2552 5105 0.747255 TCTTCTGCATAGTCCTCGCC 59.253 55.000 0.00 0.00 0.00 5.54
2553 5106 0.596083 CTTCTGCATAGTCCTCGCCG 60.596 60.000 0.00 0.00 0.00 6.46
2554 5107 1.320344 TTCTGCATAGTCCTCGCCGT 61.320 55.000 0.00 0.00 0.00 5.68
2555 5108 1.299468 CTGCATAGTCCTCGCCGTC 60.299 63.158 0.00 0.00 0.00 4.79
2556 5109 2.004808 CTGCATAGTCCTCGCCGTCA 62.005 60.000 0.00 0.00 0.00 4.35
2557 5110 1.364171 GCATAGTCCTCGCCGTCAT 59.636 57.895 0.00 0.00 0.00 3.06
2558 5111 0.664767 GCATAGTCCTCGCCGTCATC 60.665 60.000 0.00 0.00 0.00 2.92
2559 5112 0.386100 CATAGTCCTCGCCGTCATCG 60.386 60.000 0.00 0.00 0.00 3.84
2607 5160 2.346365 GGCGGGGTCGTCTTTCTT 59.654 61.111 0.00 0.00 38.10 2.52
2609 5162 0.887836 GGCGGGGTCGTCTTTCTTTT 60.888 55.000 0.00 0.00 38.10 2.27
2615 5168 3.490249 GGGGTCGTCTTTCTTTTGTTTGG 60.490 47.826 0.00 0.00 0.00 3.28
2616 5169 3.129813 GGGTCGTCTTTCTTTTGTTTGGT 59.870 43.478 0.00 0.00 0.00 3.67
2618 5171 5.505159 GGGTCGTCTTTCTTTTGTTTGGTAG 60.505 44.000 0.00 0.00 0.00 3.18
2619 5172 4.968181 GTCGTCTTTCTTTTGTTTGGTAGC 59.032 41.667 0.00 0.00 0.00 3.58
2624 5177 6.693113 GTCTTTCTTTTGTTTGGTAGCAGAAG 59.307 38.462 0.00 0.00 0.00 2.85
2645 5198 1.262640 TTAGGGTGGGAAGGCTCGAC 61.263 60.000 0.00 0.00 0.00 4.20
2657 5210 1.219393 GCTCGACCCCCTTCTTCTG 59.781 63.158 0.00 0.00 0.00 3.02
2665 5218 1.144503 CCCCCTTCTTCTGCATAGCAT 59.855 52.381 0.00 0.00 38.13 3.79
2667 5220 2.158711 CCCCTTCTTCTGCATAGCATGA 60.159 50.000 0.00 0.00 38.13 3.07
2670 5223 2.229675 TCTTCTGCATAGCATGACGG 57.770 50.000 0.00 0.00 38.13 4.79
2673 5226 2.916702 TCTGCATAGCATGACGGATT 57.083 45.000 0.00 0.00 38.13 3.01
2687 5240 4.091549 TGACGGATTTAGGTAGGTTGACT 58.908 43.478 0.00 0.00 0.00 3.41
2693 5246 3.520290 TTAGGTAGGTTGACTGCATCG 57.480 47.619 0.00 0.00 32.86 3.84
2694 5247 0.108138 AGGTAGGTTGACTGCATCGC 60.108 55.000 0.00 0.00 32.86 4.58
2698 5251 2.482374 GTTGACTGCATCGCTGGC 59.518 61.111 0.00 0.00 36.03 4.85
2699 5252 2.032376 TTGACTGCATCGCTGGCA 59.968 55.556 0.00 0.00 43.48 4.92
2706 5259 4.172512 CATCGCTGGCAGGCCTCT 62.173 66.667 17.64 0.00 36.94 3.69
2707 5260 4.172512 ATCGCTGGCAGGCCTCTG 62.173 66.667 17.64 0.00 43.64 3.35
2723 5276 2.364970 CCTCTGGGCTCTATCTTGTCTG 59.635 54.545 0.00 0.00 0.00 3.51
2731 5284 4.362279 GCTCTATCTTGTCTGCTCTTCTG 58.638 47.826 0.00 0.00 0.00 3.02
2734 5287 0.037882 TCTTGTCTGCTCTTCTGCGG 60.038 55.000 0.00 0.00 40.46 5.69
2735 5288 1.633852 CTTGTCTGCTCTTCTGCGGC 61.634 60.000 0.00 0.00 39.06 6.53
2753 5306 1.226859 CGCGACGATTCCCTAGCAA 60.227 57.895 0.00 0.00 0.00 3.91
2762 5315 3.068732 CGATTCCCTAGCAATGTCTCTCA 59.931 47.826 0.00 0.00 0.00 3.27
2765 5318 1.751351 CCCTAGCAATGTCTCTCACGA 59.249 52.381 0.00 0.00 0.00 4.35
2766 5319 2.223688 CCCTAGCAATGTCTCTCACGAG 60.224 54.545 0.00 0.00 38.67 4.18
2769 5322 1.889170 AGCAATGTCTCTCACGAGTGA 59.111 47.619 5.76 5.76 38.45 3.41
2776 5329 0.387878 CTCTCACGAGTGACAGCCAC 60.388 60.000 1.24 0.00 46.03 5.01
2786 5339 1.891919 GACAGCCACGGCAACTTCA 60.892 57.895 11.35 0.00 44.88 3.02
2787 5340 1.845809 GACAGCCACGGCAACTTCAG 61.846 60.000 11.35 0.00 44.88 3.02
2789 5342 1.598130 AGCCACGGCAACTTCAGTC 60.598 57.895 11.35 0.00 44.88 3.51
2790 5343 1.891919 GCCACGGCAACTTCAGTCA 60.892 57.895 2.36 0.00 41.49 3.41
2791 5344 1.444119 GCCACGGCAACTTCAGTCAA 61.444 55.000 2.36 0.00 41.49 3.18
2800 5377 4.376146 GCAACTTCAGTCAACTCTTCTCT 58.624 43.478 0.00 0.00 0.00 3.10
2834 5411 4.285790 TGTGCCCCCTCCCCTCTT 62.286 66.667 0.00 0.00 0.00 2.85
2835 5412 3.732849 GTGCCCCCTCCCCTCTTG 61.733 72.222 0.00 0.00 0.00 3.02
2838 5415 3.093172 CCCCCTCCCCTCTTGCTC 61.093 72.222 0.00 0.00 0.00 4.26
2840 5417 2.285668 CCCTCCCCTCTTGCTCCA 60.286 66.667 0.00 0.00 0.00 3.86
2841 5418 1.695597 CCCTCCCCTCTTGCTCCAT 60.696 63.158 0.00 0.00 0.00 3.41
2842 5419 1.530771 CCTCCCCTCTTGCTCCATG 59.469 63.158 0.00 0.00 0.00 3.66
2845 5422 2.123982 CCCTCTTGCTCCATGGGC 60.124 66.667 13.02 14.76 0.00 5.36
2846 5423 2.123982 CCTCTTGCTCCATGGGCC 60.124 66.667 13.02 0.00 0.00 5.80
2847 5424 2.123982 CTCTTGCTCCATGGGCCC 60.124 66.667 17.59 17.59 0.00 5.80
2848 5425 4.113815 TCTTGCTCCATGGGCCCG 62.114 66.667 19.37 2.86 0.00 6.13
2849 5426 4.431131 CTTGCTCCATGGGCCCGT 62.431 66.667 19.37 15.91 0.00 5.28
2850 5427 3.012119 TTGCTCCATGGGCCCGTA 61.012 61.111 18.59 0.00 0.00 4.02
2851 5428 2.343475 CTTGCTCCATGGGCCCGTAT 62.343 60.000 18.59 1.38 0.00 3.06
2852 5429 2.032681 GCTCCATGGGCCCGTATC 59.967 66.667 18.59 1.99 0.00 2.24
2853 5430 2.750350 CTCCATGGGCCCGTATCC 59.250 66.667 18.59 0.00 0.00 2.59
2854 5431 1.843376 CTCCATGGGCCCGTATCCT 60.843 63.158 18.59 0.00 0.00 3.24
2855 5432 2.116983 CTCCATGGGCCCGTATCCTG 62.117 65.000 18.59 3.33 0.00 3.86
2856 5433 2.431683 CATGGGCCCGTATCCTGG 59.568 66.667 18.59 0.00 0.00 4.45
2857 5434 2.039831 ATGGGCCCGTATCCTGGT 60.040 61.111 17.34 0.00 0.00 4.00
2858 5435 2.452064 ATGGGCCCGTATCCTGGTG 61.452 63.158 17.34 0.00 0.00 4.17
2859 5436 3.873812 GGGCCCGTATCCTGGTGG 61.874 72.222 5.69 0.00 0.00 4.61
2860 5437 4.564110 GGCCCGTATCCTGGTGGC 62.564 72.222 0.00 0.00 41.42 5.01
2861 5438 4.910585 GCCCGTATCCTGGTGGCG 62.911 72.222 0.00 0.00 31.55 5.69
2862 5439 3.467226 CCCGTATCCTGGTGGCGT 61.467 66.667 0.00 0.00 0.00 5.68
2863 5440 2.129146 CCCGTATCCTGGTGGCGTA 61.129 63.158 0.00 0.00 0.00 4.42
2864 5441 1.362717 CCGTATCCTGGTGGCGTAG 59.637 63.158 0.00 0.00 0.00 3.51
2877 5454 3.794270 CGTAGCGTTGGTGGGATG 58.206 61.111 0.00 0.00 0.00 3.51
2878 5455 2.461110 CGTAGCGTTGGTGGGATGC 61.461 63.158 0.00 0.00 0.00 3.91
2879 5456 2.112815 GTAGCGTTGGTGGGATGCC 61.113 63.158 0.00 0.00 0.00 4.40
2880 5457 2.597818 TAGCGTTGGTGGGATGCCA 61.598 57.895 0.00 0.00 0.00 4.92
2881 5458 2.535485 TAGCGTTGGTGGGATGCCAG 62.535 60.000 6.02 0.00 37.31 4.85
2882 5459 2.350895 CGTTGGTGGGATGCCAGA 59.649 61.111 6.02 0.00 37.31 3.86
2883 5460 1.077501 CGTTGGTGGGATGCCAGAT 60.078 57.895 6.02 0.00 37.31 2.90
2884 5461 1.097547 CGTTGGTGGGATGCCAGATC 61.098 60.000 6.02 0.00 37.31 2.75
2885 5462 0.257039 GTTGGTGGGATGCCAGATCT 59.743 55.000 6.02 0.00 37.31 2.75
2886 5463 0.256752 TTGGTGGGATGCCAGATCTG 59.743 55.000 16.24 16.24 37.31 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
93 97 3.057736 TGAGTAGGCTGTACGTGAACTTC 60.058 47.826 0.00 0.00 0.00 3.01
139 143 5.725110 AAGCACGAAATAGATGCACTAAG 57.275 39.130 0.00 0.00 41.97 2.18
186 191 7.171508 TGCACGATGGAATAGAAAGAATGATAC 59.828 37.037 0.00 0.00 0.00 2.24
198 203 5.233957 TGATTTGTTGCACGATGGAATAG 57.766 39.130 0.00 0.00 28.47 1.73
270 285 3.317603 ACCCAACATTTTAGCATGCAC 57.682 42.857 21.98 0.00 0.00 4.57
272 287 7.710475 ACATATTTACCCAACATTTTAGCATGC 59.290 33.333 10.51 10.51 0.00 4.06
310 325 7.271223 CCAATTTCACACTTCATCACGTATTTC 59.729 37.037 0.00 0.00 0.00 2.17
317 332 4.853924 ACCCAATTTCACACTTCATCAC 57.146 40.909 0.00 0.00 0.00 3.06
330 345 6.000219 CCATCTCGATCATCTTACCCAATTT 59.000 40.000 0.00 0.00 0.00 1.82
397 412 8.585018 CCTTGGGTTTTAAATTGTTCTCATACT 58.415 33.333 0.00 0.00 0.00 2.12
403 418 5.364778 GCACCTTGGGTTTTAAATTGTTCT 58.635 37.500 0.00 0.00 31.02 3.01
451 472 2.561569 CCAAATCCATACCCGTCTCAC 58.438 52.381 0.00 0.00 0.00 3.51
463 484 1.040339 GGTAATGGCCGCCAAATCCA 61.040 55.000 18.00 0.00 36.95 3.41
466 487 2.124693 CGGGTAATGGCCGCCAAAT 61.125 57.895 18.00 11.22 36.95 2.32
640 662 2.513897 CGGTGGGGAATTCGGCTC 60.514 66.667 0.00 0.00 0.00 4.70
687 709 4.923942 AGATGGCCGCTGCGATGG 62.924 66.667 25.45 8.11 35.91 3.51
693 715 1.088340 CAGTGAGAAGATGGCCGCTG 61.088 60.000 0.00 0.00 0.00 5.18
805 827 3.414700 CGTGGCCGAGTTGCACTC 61.415 66.667 0.00 6.31 41.71 3.51
845 867 0.178912 AGGAGGGGACACGTAAGGTT 60.179 55.000 0.00 0.00 46.39 3.50
889 911 0.391927 CGTGTGGCCTTTTATCCGGA 60.392 55.000 6.61 6.61 0.00 5.14
984 1008 2.549992 GCTCATGTCTGTGTGGGTGTTA 60.550 50.000 0.00 0.00 0.00 2.41
1648 1678 1.929836 CAATGAGCAGTAGAGTTCGGC 59.070 52.381 0.00 0.00 0.00 5.54
1649 1679 3.238108 ACAATGAGCAGTAGAGTTCGG 57.762 47.619 0.00 0.00 0.00 4.30
1650 1680 7.197017 AGTATAACAATGAGCAGTAGAGTTCG 58.803 38.462 0.00 0.00 0.00 3.95
1651 1681 7.377397 CGAGTATAACAATGAGCAGTAGAGTTC 59.623 40.741 0.00 0.00 0.00 3.01
1660 1690 6.312918 GGAGAAAACGAGTATAACAATGAGCA 59.687 38.462 0.00 0.00 0.00 4.26
1665 1695 6.942976 TGGAGGAGAAAACGAGTATAACAAT 58.057 36.000 0.00 0.00 0.00 2.71
1710 1744 0.883833 CAGTTGGTTGCCATGGAGTC 59.116 55.000 18.40 3.82 31.53 3.36
1716 1750 0.179032 TGTCGTCAGTTGGTTGCCAT 60.179 50.000 0.00 0.00 31.53 4.40
1930 1967 4.817063 GCGTACGCTCGCGGTACA 62.817 66.667 31.95 0.00 46.31 2.90
1981 2018 3.469739 ACAAAGTACGGTACAAACCCAG 58.530 45.455 19.62 5.49 43.54 4.45
1982 2019 3.557228 ACAAAGTACGGTACAAACCCA 57.443 42.857 19.62 0.00 43.54 4.51
1983 2020 3.428534 CGTACAAAGTACGGTACAAACCC 59.571 47.826 19.62 3.15 43.54 4.11
1984 2021 4.295051 TCGTACAAAGTACGGTACAAACC 58.705 43.478 24.08 2.66 39.81 3.27
1985 2022 5.881637 TTCGTACAAAGTACGGTACAAAC 57.118 39.130 24.08 9.03 39.81 2.93
1986 2023 8.581057 TTTATTCGTACAAAGTACGGTACAAA 57.419 30.769 24.08 16.92 39.81 2.83
1987 2024 8.581057 TTTTATTCGTACAAAGTACGGTACAA 57.419 30.769 24.08 14.24 39.81 2.41
1988 2025 8.646356 CATTTTATTCGTACAAAGTACGGTACA 58.354 33.333 24.08 11.56 39.81 2.90
1989 2026 8.110002 CCATTTTATTCGTACAAAGTACGGTAC 58.890 37.037 24.08 10.29 40.90 3.34
1990 2027 7.816995 ACCATTTTATTCGTACAAAGTACGGTA 59.183 33.333 24.08 16.30 40.90 4.02
1991 2028 6.650390 ACCATTTTATTCGTACAAAGTACGGT 59.350 34.615 24.08 17.09 40.90 4.83
1992 2029 6.957077 CACCATTTTATTCGTACAAAGTACGG 59.043 38.462 24.08 10.96 40.90 4.02
1993 2030 7.476183 CACACCATTTTATTCGTACAAAGTACG 59.524 37.037 20.17 20.17 41.79 3.67
2050 2159 5.182570 ACACTGCTGATCTTACACGTACTAA 59.817 40.000 0.00 0.00 0.00 2.24
2051 2160 4.698780 ACACTGCTGATCTTACACGTACTA 59.301 41.667 0.00 0.00 0.00 1.82
2056 2165 2.946564 TGACACTGCTGATCTTACACG 58.053 47.619 0.00 0.00 0.00 4.49
2067 2176 2.166050 TGTTTTGCACATTGACACTGCT 59.834 40.909 0.00 0.00 0.00 4.24
2077 2186 3.648009 CCCGTGTTATTGTTTTGCACAT 58.352 40.909 0.00 0.00 34.43 3.21
2108 2217 3.062909 CGTGTTCCGAAGAGTTTGTTTGA 59.937 43.478 0.00 0.00 39.56 2.69
2110 2219 2.223180 GCGTGTTCCGAAGAGTTTGTTT 60.223 45.455 0.00 0.00 39.56 2.83
2111 2220 1.329599 GCGTGTTCCGAAGAGTTTGTT 59.670 47.619 0.00 0.00 39.56 2.83
2122 2234 3.806316 AAGACAAATAAGCGTGTTCCG 57.194 42.857 0.00 0.00 40.40 4.30
2190 2305 3.558505 CACAGTTGCACATAACTTCAGC 58.441 45.455 0.00 0.00 38.78 4.26
2203 2318 1.336240 GCATTTCCAGACCACAGTTGC 60.336 52.381 0.00 0.00 0.00 4.17
2204 2319 1.955778 TGCATTTCCAGACCACAGTTG 59.044 47.619 0.00 0.00 0.00 3.16
2213 2328 3.006752 GTCCCAAAATGTGCATTTCCAGA 59.993 43.478 10.15 5.38 39.88 3.86
2236 2351 4.806640 TCAAAAGGAAAATCATCAGGCC 57.193 40.909 0.00 0.00 0.00 5.19
2243 2358 8.746052 TGACTAGAACTTCAAAAGGAAAATCA 57.254 30.769 0.00 0.00 34.44 2.57
2248 2363 7.230712 GGGATTTGACTAGAACTTCAAAAGGAA 59.769 37.037 9.51 0.00 43.20 3.36
2250 2365 6.348540 CGGGATTTGACTAGAACTTCAAAAGG 60.349 42.308 9.51 0.00 43.20 3.11
2251 2366 6.204882 ACGGGATTTGACTAGAACTTCAAAAG 59.795 38.462 9.51 5.70 43.20 2.27
2252 2367 6.017440 CACGGGATTTGACTAGAACTTCAAAA 60.017 38.462 9.51 0.00 43.20 2.44
2253 2368 5.468746 CACGGGATTTGACTAGAACTTCAAA 59.531 40.000 8.25 8.25 43.89 2.69
2256 2371 4.817517 TCACGGGATTTGACTAGAACTTC 58.182 43.478 0.00 0.00 0.00 3.01
2258 2373 4.223032 ACATCACGGGATTTGACTAGAACT 59.777 41.667 0.00 0.00 0.00 3.01
2259 2374 4.330074 CACATCACGGGATTTGACTAGAAC 59.670 45.833 8.12 0.00 33.90 3.01
2263 2378 2.027653 TGCACATCACGGGATTTGACTA 60.028 45.455 17.84 0.25 33.90 2.59
2290 2405 6.101442 AGGAAGAATGTGAGAGGATGATGATT 59.899 38.462 0.00 0.00 0.00 2.57
2293 2408 5.293319 AGGAAGAATGTGAGAGGATGATG 57.707 43.478 0.00 0.00 0.00 3.07
2294 2409 4.347583 GGAGGAAGAATGTGAGAGGATGAT 59.652 45.833 0.00 0.00 0.00 2.45
2295 2410 3.708631 GGAGGAAGAATGTGAGAGGATGA 59.291 47.826 0.00 0.00 0.00 2.92
2320 3964 3.330701 AGAATGTGAGAGGTTAAAGGGCA 59.669 43.478 0.00 0.00 0.00 5.36
2324 3968 6.467677 TGGAGAAGAATGTGAGAGGTTAAAG 58.532 40.000 0.00 0.00 0.00 1.85
2327 3971 6.433847 TTTGGAGAAGAATGTGAGAGGTTA 57.566 37.500 0.00 0.00 0.00 2.85
2333 3977 4.321527 GGCCTTTTTGGAGAAGAATGTGAG 60.322 45.833 0.00 0.00 38.35 3.51
2335 3979 3.306294 GGGCCTTTTTGGAGAAGAATGTG 60.306 47.826 0.84 0.00 38.35 3.21
2338 4889 2.158173 TGGGGCCTTTTTGGAGAAGAAT 60.158 45.455 0.84 0.00 38.35 2.40
2342 4893 0.825840 CGTGGGGCCTTTTTGGAGAA 60.826 55.000 0.84 0.00 38.35 2.87
2343 4894 1.228429 CGTGGGGCCTTTTTGGAGA 60.228 57.895 0.84 0.00 38.35 3.71
2344 4895 1.524008 GACGTGGGGCCTTTTTGGAG 61.524 60.000 0.84 0.00 38.35 3.86
2347 4898 1.112916 AAGGACGTGGGGCCTTTTTG 61.113 55.000 0.84 0.00 41.60 2.44
2354 4905 1.671379 GACAAGAAGGACGTGGGGC 60.671 63.158 0.00 0.00 32.54 5.80
2358 4909 1.512926 CCTTGGACAAGAAGGACGTG 58.487 55.000 13.35 0.00 42.44 4.49
2359 4910 0.250338 GCCTTGGACAAGAAGGACGT 60.250 55.000 13.35 0.00 42.44 4.34
2360 4911 1.291877 CGCCTTGGACAAGAAGGACG 61.292 60.000 13.35 5.58 42.44 4.79
2361 4912 0.034896 TCGCCTTGGACAAGAAGGAC 59.965 55.000 13.35 0.00 42.44 3.85
2362 4913 0.034896 GTCGCCTTGGACAAGAAGGA 59.965 55.000 13.35 4.93 42.44 3.36
2363 4914 0.250295 TGTCGCCTTGGACAAGAAGG 60.250 55.000 13.35 0.00 43.55 3.46
2381 4932 1.745489 GGCTAGGTTTCCGCCTGTG 60.745 63.158 0.00 0.00 40.62 3.66
2384 4935 3.782443 CGGGCTAGGTTTCCGCCT 61.782 66.667 0.00 0.00 43.29 5.52
2388 4939 4.501285 GGCCCGGGCTAGGTTTCC 62.501 72.222 42.70 21.56 41.60 3.13
2389 4940 4.851179 CGGCCCGGGCTAGGTTTC 62.851 72.222 42.70 24.27 41.60 2.78
2500 5053 0.328258 TTCCCACCCTAAGCTTCTGC 59.672 55.000 0.00 0.00 40.05 4.26
2509 5062 1.684734 GTCGAGCCTTCCCACCCTA 60.685 63.158 0.00 0.00 0.00 3.53
2510 5063 3.003763 GTCGAGCCTTCCCACCCT 61.004 66.667 0.00 0.00 0.00 4.34
2527 5080 1.141858 GGACTATGCAGAAGAAGGGGG 59.858 57.143 5.89 0.00 0.00 5.40
2529 5082 2.223923 CGAGGACTATGCAGAAGAAGGG 60.224 54.545 5.89 0.00 0.00 3.95
2541 5094 1.950007 CGATGACGGCGAGGACTAT 59.050 57.895 16.62 0.00 35.72 2.12
2602 5155 5.348164 GCTTCTGCTACCAAACAAAAGAAA 58.652 37.500 0.00 0.00 36.03 2.52
2604 5157 4.568152 GCTTCTGCTACCAAACAAAAGA 57.432 40.909 0.00 0.00 36.03 2.52
2618 5171 0.328258 TTCCCACCCTAAGCTTCTGC 59.672 55.000 0.00 0.00 40.05 4.26
2619 5172 1.065126 CCTTCCCACCCTAAGCTTCTG 60.065 57.143 0.00 0.00 0.00 3.02
2624 5177 1.224870 GAGCCTTCCCACCCTAAGC 59.775 63.158 0.00 0.00 0.00 3.09
2627 5180 1.684734 GTCGAGCCTTCCCACCCTA 60.685 63.158 0.00 0.00 0.00 3.53
2628 5181 3.003763 GTCGAGCCTTCCCACCCT 61.004 66.667 0.00 0.00 0.00 4.34
2645 5198 0.548031 TGCTATGCAGAAGAAGGGGG 59.452 55.000 3.11 0.00 33.32 5.40
2657 5210 3.403038 ACCTAAATCCGTCATGCTATGC 58.597 45.455 0.00 0.00 0.00 3.14
2665 5218 4.081862 CAGTCAACCTACCTAAATCCGTCA 60.082 45.833 0.00 0.00 0.00 4.35
2667 5220 3.369157 GCAGTCAACCTACCTAAATCCGT 60.369 47.826 0.00 0.00 0.00 4.69
2670 5223 4.508124 CGATGCAGTCAACCTACCTAAATC 59.492 45.833 0.00 0.00 0.00 2.17
2673 5226 2.418197 GCGATGCAGTCAACCTACCTAA 60.418 50.000 0.00 0.00 0.00 2.69
2706 5259 1.759445 GAGCAGACAAGATAGAGCCCA 59.241 52.381 0.00 0.00 0.00 5.36
2707 5260 2.038659 AGAGCAGACAAGATAGAGCCC 58.961 52.381 0.00 0.00 0.00 5.19
2708 5261 3.384467 AGAAGAGCAGACAAGATAGAGCC 59.616 47.826 0.00 0.00 0.00 4.70
2709 5262 4.362279 CAGAAGAGCAGACAAGATAGAGC 58.638 47.826 0.00 0.00 0.00 4.09
2710 5263 4.362279 GCAGAAGAGCAGACAAGATAGAG 58.638 47.826 0.00 0.00 0.00 2.43
2711 5264 3.181492 CGCAGAAGAGCAGACAAGATAGA 60.181 47.826 0.00 0.00 0.00 1.98
2712 5265 3.114809 CGCAGAAGAGCAGACAAGATAG 58.885 50.000 0.00 0.00 0.00 2.08
2713 5266 2.159184 CCGCAGAAGAGCAGACAAGATA 60.159 50.000 0.00 0.00 0.00 1.98
2714 5267 1.405256 CCGCAGAAGAGCAGACAAGAT 60.405 52.381 0.00 0.00 0.00 2.40
2715 5268 0.037882 CCGCAGAAGAGCAGACAAGA 60.038 55.000 0.00 0.00 0.00 3.02
2716 5269 1.633852 GCCGCAGAAGAGCAGACAAG 61.634 60.000 0.00 0.00 0.00 3.16
2717 5270 1.669115 GCCGCAGAAGAGCAGACAA 60.669 57.895 0.00 0.00 0.00 3.18
2718 5271 2.047844 GCCGCAGAAGAGCAGACA 60.048 61.111 0.00 0.00 0.00 3.41
2734 5287 3.030882 GCTAGGGAATCGTCGCGC 61.031 66.667 0.00 0.00 41.49 6.86
2735 5288 0.597637 ATTGCTAGGGAATCGTCGCG 60.598 55.000 0.00 0.00 41.49 5.87
2737 5290 2.128035 GACATTGCTAGGGAATCGTCG 58.872 52.381 0.00 0.00 0.00 5.12
2739 5292 3.034635 AGAGACATTGCTAGGGAATCGT 58.965 45.455 0.00 0.00 0.00 3.73
2741 5294 4.376146 GTGAGAGACATTGCTAGGGAATC 58.624 47.826 0.00 0.00 0.00 2.52
2743 5296 2.166459 CGTGAGAGACATTGCTAGGGAA 59.834 50.000 0.00 0.00 0.00 3.97
2762 5315 4.664677 GCCGTGGCTGTCACTCGT 62.665 66.667 11.02 0.00 43.94 4.18
2765 5318 2.591715 GTTGCCGTGGCTGTCACT 60.592 61.111 12.84 0.00 43.94 3.41
2766 5319 2.117941 GAAGTTGCCGTGGCTGTCAC 62.118 60.000 12.84 1.45 42.51 3.67
2769 5322 1.893808 CTGAAGTTGCCGTGGCTGT 60.894 57.895 12.84 0.00 42.51 4.40
2772 5325 1.444119 TTGACTGAAGTTGCCGTGGC 61.444 55.000 3.30 3.30 42.35 5.01
2776 5329 1.871080 AGAGTTGACTGAAGTTGCCG 58.129 50.000 0.00 0.00 0.00 5.69
2779 5332 5.461737 GTCAGAGAAGAGTTGACTGAAGTTG 59.538 44.000 0.00 0.00 38.90 3.16
2786 5339 5.124776 CCTATTCGTCAGAGAAGAGTTGACT 59.875 44.000 2.84 0.00 37.66 3.41
2787 5340 5.336744 CCTATTCGTCAGAGAAGAGTTGAC 58.663 45.833 1.57 0.00 37.66 3.18
2789 5342 4.440802 CCCCTATTCGTCAGAGAAGAGTTG 60.441 50.000 1.57 0.00 37.66 3.16
2790 5343 3.702045 CCCCTATTCGTCAGAGAAGAGTT 59.298 47.826 1.57 0.00 37.66 3.01
2791 5344 3.292460 CCCCTATTCGTCAGAGAAGAGT 58.708 50.000 1.57 0.00 37.66 3.24
2800 5377 2.364579 ACCCGCCCCTATTCGTCA 60.365 61.111 0.00 0.00 0.00 4.35
2830 5407 2.123982 GGGCCCATGGAGCAAGAG 60.124 66.667 19.95 0.00 0.00 2.85
2832 5409 2.343475 ATACGGGCCCATGGAGCAAG 62.343 60.000 24.92 14.07 0.00 4.01
2833 5410 2.337879 GATACGGGCCCATGGAGCAA 62.338 60.000 24.92 0.00 0.00 3.91
2834 5411 2.772191 ATACGGGCCCATGGAGCA 60.772 61.111 24.92 0.00 0.00 4.26
2835 5412 2.032681 GATACGGGCCCATGGAGC 59.967 66.667 24.92 14.96 0.00 4.70
2836 5413 1.843376 AGGATACGGGCCCATGGAG 60.843 63.158 24.92 7.44 46.39 3.86
2837 5414 2.146724 CAGGATACGGGCCCATGGA 61.147 63.158 24.92 2.42 46.39 3.41
2838 5415 2.431683 CAGGATACGGGCCCATGG 59.568 66.667 24.92 8.33 46.39 3.66
2846 5423 1.362717 CTACGCCACCAGGATACGG 59.637 63.158 0.00 0.00 46.39 4.02
2847 5424 1.299926 GCTACGCCACCAGGATACG 60.300 63.158 0.00 0.00 46.39 3.06
2848 5425 1.299926 CGCTACGCCACCAGGATAC 60.300 63.158 0.00 0.00 36.89 2.24
2849 5426 1.324740 AACGCTACGCCACCAGGATA 61.325 55.000 0.00 0.00 36.89 2.59
2850 5427 2.656069 AACGCTACGCCACCAGGAT 61.656 57.895 0.00 0.00 36.89 3.24
2851 5428 3.307906 AACGCTACGCCACCAGGA 61.308 61.111 0.00 0.00 36.89 3.86
2852 5429 3.118454 CAACGCTACGCCACCAGG 61.118 66.667 0.00 0.00 38.23 4.45
2853 5430 3.118454 CCAACGCTACGCCACCAG 61.118 66.667 0.00 0.00 0.00 4.00
2854 5431 3.931247 ACCAACGCTACGCCACCA 61.931 61.111 0.00 0.00 0.00 4.17
2855 5432 3.419759 CACCAACGCTACGCCACC 61.420 66.667 0.00 0.00 0.00 4.61
2856 5433 3.419759 CCACCAACGCTACGCCAC 61.420 66.667 0.00 0.00 0.00 5.01
2857 5434 4.690719 CCCACCAACGCTACGCCA 62.691 66.667 0.00 0.00 0.00 5.69
2858 5435 3.675619 ATCCCACCAACGCTACGCC 62.676 63.158 0.00 0.00 0.00 5.68
2859 5436 2.125269 ATCCCACCAACGCTACGC 60.125 61.111 0.00 0.00 0.00 4.42
2860 5437 2.461110 GCATCCCACCAACGCTACG 61.461 63.158 0.00 0.00 0.00 3.51
2861 5438 2.112815 GGCATCCCACCAACGCTAC 61.113 63.158 0.00 0.00 0.00 3.58
2862 5439 2.270850 GGCATCCCACCAACGCTA 59.729 61.111 0.00 0.00 0.00 4.26
2863 5440 3.925630 CTGGCATCCCACCAACGCT 62.926 63.158 0.00 0.00 36.56 5.07
2864 5441 3.443045 CTGGCATCCCACCAACGC 61.443 66.667 0.00 0.00 36.56 4.84
2865 5442 1.077501 ATCTGGCATCCCACCAACG 60.078 57.895 0.00 0.00 36.56 4.10
2866 5443 0.257039 AGATCTGGCATCCCACCAAC 59.743 55.000 0.00 0.00 36.56 3.77
2867 5444 0.256752 CAGATCTGGCATCCCACCAA 59.743 55.000 15.38 0.00 36.56 3.67
2868 5445 1.638679 CCAGATCTGGCATCCCACCA 61.639 60.000 28.45 0.00 44.73 4.17
2869 5446 1.150081 CCAGATCTGGCATCCCACC 59.850 63.158 28.45 0.00 44.73 4.61
2870 5447 4.894201 CCAGATCTGGCATCCCAC 57.106 61.111 28.45 0.00 44.73 4.61


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

AutoCloner maintained by Alex Coulton.