Multiple sequence alignment - TraesCS4A01G409600

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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 TraesCS4A01G409600 chr4A 100.000 2823 0 0 1 2823 682364105 682366927 0.000000e+00 5214.0
1 TraesCS4A01G409600 chr4A 91.549 284 23 1 2351 2633 66892284 66892567 9.480000e-105 390.0
2 TraesCS4A01G409600 chr4D 91.336 2366 112 33 1 2309 475674475 475676804 0.000000e+00 3147.0
3 TraesCS4A01G409600 chr4D 87.113 194 11 3 2638 2823 475676824 475677011 1.020000e-49 207.0
4 TraesCS4A01G409600 chr4D 79.775 267 32 13 27 271 87539412 87539146 1.040000e-39 174.0
5 TraesCS4A01G409600 chr4B 91.071 2363 103 44 1 2302 600240849 600243164 0.000000e+00 3096.0
6 TraesCS4A01G409600 chr4B 90.116 172 10 2 2638 2809 600243191 600243355 1.700000e-52 217.0
7 TraesCS4A01G409600 chr2A 92.933 283 19 1 2351 2632 745560571 745560853 7.280000e-111 411.0
8 TraesCS4A01G409600 chr2A 91.034 290 24 2 2351 2638 161365966 161366255 9.480000e-105 390.0
9 TraesCS4A01G409600 chr2A 91.549 284 23 1 2351 2633 639969127 639969410 9.480000e-105 390.0
10 TraesCS4A01G409600 chr2A 91.549 284 23 1 2351 2633 639976499 639976782 9.480000e-105 390.0
11 TraesCS4A01G409600 chr1A 92.606 284 20 1 2351 2633 232326144 232326427 9.410000e-110 407.0
12 TraesCS4A01G409600 chr1A 80.135 297 47 8 91 377 520566379 520566085 7.920000e-51 211.0
13 TraesCS4A01G409600 chr7A 91.844 282 22 1 2351 2631 619588651 619588932 2.640000e-105 392.0
14 TraesCS4A01G409600 chr7A 77.546 383 56 18 23 376 19094925 19094544 1.330000e-48 204.0
15 TraesCS4A01G409600 chr5A 91.519 283 23 1 2351 2632 681937270 681937552 3.410000e-104 388.0
16 TraesCS4A01G409600 chr5A 90.877 285 24 2 2351 2633 307705554 307705838 5.710000e-102 381.0
17 TraesCS4A01G409600 chr5A 80.808 99 19 0 1496 1594 244430624 244430722 8.380000e-11 78.7
18 TraesCS4A01G409600 chr2B 73.947 380 71 17 23 378 721117139 721116764 8.210000e-26 128.0
19 TraesCS4A01G409600 chr2B 76.493 268 38 14 16 260 767410708 767410443 3.820000e-24 122.0
20 TraesCS4A01G409600 chr5D 77.251 211 30 11 3 197 25010865 25011073 1.070000e-19 108.0
21 TraesCS4A01G409600 chr6D 77.103 214 28 13 23 215 200480514 200480727 1.380000e-18 104.0
22 TraesCS4A01G409600 chr5B 82.828 99 17 0 1496 1594 207587881 207587783 3.870000e-14 89.8


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G409600 chr4A 682364105 682366927 2822 False 5214.0 5214 100.0000 1 2823 1 chr4A.!!$F2 2822
1 TraesCS4A01G409600 chr4D 475674475 475677011 2536 False 1677.0 3147 89.2245 1 2823 2 chr4D.!!$F1 2822
2 TraesCS4A01G409600 chr4B 600240849 600243355 2506 False 1656.5 3096 90.5935 1 2809 2 chr4B.!!$F1 2808


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
144 145 0.246635 GCGTGTATGGTGAGTGGTCT 59.753 55.0 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2137 2213 0.181114 CACGGGATGGTGATGGATGT 59.819 55.0 0.0 0.0 40.38 3.06 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
30 31 2.252714 GGGCCGGATAGAAGAGAGAAT 58.747 52.381 5.05 0.00 0.00 2.40
31 32 3.181422 TGGGCCGGATAGAAGAGAGAATA 60.181 47.826 5.05 0.00 0.00 1.75
48 49 7.559897 AGAGAGAATAAAAAGTTGACCAAACCA 59.440 33.333 0.00 0.00 39.85 3.67
51 52 8.250143 AGAATAAAAAGTTGACCAAACCAGAT 57.750 30.769 0.00 0.00 39.85 2.90
75 76 4.335416 CCTCAAAGCCTCCTTAAATGTCA 58.665 43.478 0.00 0.00 0.00 3.58
131 132 3.376078 GGAGTGACCGGGCGTGTA 61.376 66.667 6.32 0.00 0.00 2.90
136 137 2.510691 GACCGGGCGTGTATGGTG 60.511 66.667 6.32 0.00 34.12 4.17
143 144 0.739813 GGCGTGTATGGTGAGTGGTC 60.740 60.000 0.00 0.00 0.00 4.02
144 145 0.246635 GCGTGTATGGTGAGTGGTCT 59.753 55.000 0.00 0.00 0.00 3.85
247 250 2.037121 TGCATGTGACCGGATGTATAGG 59.963 50.000 9.46 0.00 0.00 2.57
288 292 3.248602 GGCTGCATAGACGAAAACATAGG 59.751 47.826 0.50 0.00 0.00 2.57
306 310 1.137479 AGGGAGTCAAAACGAACACGA 59.863 47.619 0.00 0.00 0.00 4.35
314 318 0.249573 AAACGAACACGACCGGACAT 60.250 50.000 9.46 0.00 0.00 3.06
330 349 1.200716 GACATTGGTCGGACGTGTCTA 59.799 52.381 22.01 2.14 36.98 2.59
379 398 1.943340 GCTGTAGATGCCCTAACAAGC 59.057 52.381 0.00 0.00 0.00 4.01
445 464 2.703007 CCCCTGGATCCTTCTAGAACAG 59.297 54.545 14.23 7.04 32.42 3.16
454 473 5.599999 TCCTTCTAGAACAGCTGTATTCC 57.400 43.478 22.01 9.89 0.00 3.01
459 478 1.003118 AGAACAGCTGTATTCCCGCAA 59.997 47.619 22.01 0.00 0.00 4.85
498 518 5.514059 TCTTTAATGAATTTGCAAAGCGC 57.486 34.783 18.19 0.00 42.89 5.92
530 551 1.739929 CGCTGTATTCACACCGGCA 60.740 57.895 0.00 0.00 31.48 5.69
569 590 3.344515 ACCTTCCGTTTCTATCCTTTGC 58.655 45.455 0.00 0.00 0.00 3.68
571 592 3.343617 CTTCCGTTTCTATCCTTTGCCA 58.656 45.455 0.00 0.00 0.00 4.92
612 634 9.376171 CAGCGTATATTGCGAATTAATAACAAA 57.624 29.630 3.96 0.00 37.44 2.83
622 644 8.908903 TGCGAATTAATAACAAATAATCCCAGT 58.091 29.630 0.00 0.00 0.00 4.00
675 697 4.383335 CCCCGTATTTAGTGACCAGCTAAA 60.383 45.833 0.00 0.00 41.04 1.85
697 719 2.094762 ATCCAAATCGCGTATAGCCC 57.905 50.000 5.77 0.00 44.76 5.19
709 731 2.356173 TATAGCCCCTGGACGCGGTA 62.356 60.000 12.47 0.00 0.00 4.02
854 895 5.163513 AGCAAAGATAGCAACAAAAATCCG 58.836 37.500 0.00 0.00 0.00 4.18
959 1000 7.355017 GCTTTTGTTTTCCATTTCTTTCCATC 58.645 34.615 0.00 0.00 0.00 3.51
960 1001 7.520453 GCTTTTGTTTTCCATTTCTTTCCATCC 60.520 37.037 0.00 0.00 0.00 3.51
961 1002 6.491714 TTGTTTTCCATTTCTTTCCATCCA 57.508 33.333 0.00 0.00 0.00 3.41
962 1003 6.684897 TGTTTTCCATTTCTTTCCATCCAT 57.315 33.333 0.00 0.00 0.00 3.41
970 1011 2.278245 TCTTTCCATCCATCCCTGTGT 58.722 47.619 0.00 0.00 0.00 3.72
1029 1073 1.133253 CGGCGATGTTGACAAGCAG 59.867 57.895 0.00 8.31 36.00 4.24
1105 1149 4.020617 CGGTGGCTGCTTCTCCCA 62.021 66.667 0.00 0.00 0.00 4.37
1845 1911 1.626747 CGAGCATCATCGATAGCCAG 58.373 55.000 0.00 0.00 45.56 4.85
1877 1943 8.589338 GGAGCTGGTAGATTAAATTAGAGATCA 58.411 37.037 0.00 0.00 0.00 2.92
1896 1962 1.649171 CATATCCGTGATTAGCGTCGC 59.351 52.381 9.80 9.80 0.00 5.19
1974 2041 4.505324 GGACTGCCCTTTAGGATTAGTT 57.495 45.455 0.00 0.00 38.24 2.24
1975 2042 4.200092 GGACTGCCCTTTAGGATTAGTTG 58.800 47.826 0.00 0.00 38.24 3.16
2043 2110 0.605589 GGGTCAGTCAGTCAGTCAGG 59.394 60.000 0.00 0.00 0.00 3.86
2047 2114 0.037512 CAGTCAGTCAGTCAGGCAGG 60.038 60.000 0.00 0.00 0.00 4.85
2109 2177 0.170561 TCGAGTCAAGCTAGCGGAAC 59.829 55.000 9.55 8.59 0.00 3.62
2113 2181 0.389426 GTCAAGCTAGCGGAACCGAA 60.389 55.000 17.63 3.19 42.83 4.30
2137 2213 2.768527 ACTTATTAGCAGAGCAGGCAGA 59.231 45.455 0.00 0.00 0.00 4.26
2138 2214 2.898729 TATTAGCAGAGCAGGCAGAC 57.101 50.000 0.00 0.00 0.00 3.51
2139 2215 0.907486 ATTAGCAGAGCAGGCAGACA 59.093 50.000 0.00 0.00 0.00 3.41
2140 2216 0.907486 TTAGCAGAGCAGGCAGACAT 59.093 50.000 0.00 0.00 0.00 3.06
2141 2217 0.463204 TAGCAGAGCAGGCAGACATC 59.537 55.000 0.00 0.00 0.00 3.06
2218 2316 2.807967 TCTGCGTTGTCTTGAAATGGAG 59.192 45.455 0.00 0.00 34.37 3.86
2245 2343 3.668757 CGCTTGTCATGTTCATCAGTTGG 60.669 47.826 0.00 0.00 0.00 3.77
2261 2359 4.126437 CAGTTGGTGTGTGTATGTTCTGA 58.874 43.478 0.00 0.00 0.00 3.27
2292 2391 2.484264 GCCTTCAGCGTAGTGTGATTTT 59.516 45.455 0.00 0.00 0.00 1.82
2296 2395 2.729360 TCAGCGTAGTGTGATTTTGACG 59.271 45.455 0.00 0.00 0.00 4.35
2302 2401 2.146342 AGTGTGATTTTGACGGCTCTG 58.854 47.619 0.00 0.00 0.00 3.35
2307 2406 1.131315 GATTTTGACGGCTCTGCTTCC 59.869 52.381 0.00 0.00 0.00 3.46
2308 2407 0.108585 TTTTGACGGCTCTGCTTCCT 59.891 50.000 0.00 0.00 0.00 3.36
2309 2408 0.320771 TTTGACGGCTCTGCTTCCTC 60.321 55.000 0.00 0.00 0.00 3.71
2310 2409 1.188219 TTGACGGCTCTGCTTCCTCT 61.188 55.000 0.00 0.00 0.00 3.69
2311 2410 1.188219 TGACGGCTCTGCTTCCTCTT 61.188 55.000 0.00 0.00 0.00 2.85
2312 2411 0.036858 GACGGCTCTGCTTCCTCTTT 60.037 55.000 0.00 0.00 0.00 2.52
2313 2412 0.036858 ACGGCTCTGCTTCCTCTTTC 60.037 55.000 0.00 0.00 0.00 2.62
2314 2413 0.248843 CGGCTCTGCTTCCTCTTTCT 59.751 55.000 0.00 0.00 0.00 2.52
2315 2414 1.338579 CGGCTCTGCTTCCTCTTTCTT 60.339 52.381 0.00 0.00 0.00 2.52
2316 2415 2.789213 GGCTCTGCTTCCTCTTTCTTT 58.211 47.619 0.00 0.00 0.00 2.52
2317 2416 3.153130 GGCTCTGCTTCCTCTTTCTTTT 58.847 45.455 0.00 0.00 0.00 2.27
2318 2417 3.571828 GGCTCTGCTTCCTCTTTCTTTTT 59.428 43.478 0.00 0.00 0.00 1.94
2338 2437 8.770828 TCTTTTTCTTTCAGTATCCAAGTTACG 58.229 33.333 0.00 0.00 0.00 3.18
2339 2438 7.429636 TTTTCTTTCAGTATCCAAGTTACGG 57.570 36.000 0.00 0.00 0.00 4.02
2340 2439 5.080969 TCTTTCAGTATCCAAGTTACGGG 57.919 43.478 0.00 0.00 0.00 5.28
2341 2440 2.973694 TCAGTATCCAAGTTACGGGC 57.026 50.000 0.00 0.00 0.00 6.13
2342 2441 1.483415 TCAGTATCCAAGTTACGGGCC 59.517 52.381 0.00 0.00 0.00 5.80
2343 2442 1.485066 CAGTATCCAAGTTACGGGCCT 59.515 52.381 0.84 0.00 0.00 5.19
2344 2443 1.761198 AGTATCCAAGTTACGGGCCTC 59.239 52.381 0.84 0.00 0.00 4.70
2345 2444 1.761198 GTATCCAAGTTACGGGCCTCT 59.239 52.381 0.84 0.00 0.00 3.69
2346 2445 1.286248 ATCCAAGTTACGGGCCTCTT 58.714 50.000 0.84 0.00 0.00 2.85
2347 2446 1.061546 TCCAAGTTACGGGCCTCTTT 58.938 50.000 0.84 0.00 0.00 2.52
2348 2447 1.165270 CCAAGTTACGGGCCTCTTTG 58.835 55.000 0.84 0.00 0.00 2.77
2349 2448 1.271163 CCAAGTTACGGGCCTCTTTGA 60.271 52.381 0.84 0.00 0.00 2.69
2350 2449 2.618045 CCAAGTTACGGGCCTCTTTGAT 60.618 50.000 0.84 0.00 0.00 2.57
2351 2450 3.081804 CAAGTTACGGGCCTCTTTGATT 58.918 45.455 0.84 0.00 0.00 2.57
2352 2451 2.987232 AGTTACGGGCCTCTTTGATTC 58.013 47.619 0.84 0.00 0.00 2.52
2353 2452 1.664151 GTTACGGGCCTCTTTGATTCG 59.336 52.381 0.84 0.00 0.00 3.34
2354 2453 1.187974 TACGGGCCTCTTTGATTCGA 58.812 50.000 0.84 0.00 0.00 3.71
2355 2454 0.323629 ACGGGCCTCTTTGATTCGAA 59.676 50.000 0.84 0.00 0.00 3.71
2356 2455 1.271163 ACGGGCCTCTTTGATTCGAAA 60.271 47.619 0.00 0.00 0.00 3.46
2357 2456 1.810151 CGGGCCTCTTTGATTCGAAAA 59.190 47.619 0.00 0.00 0.00 2.29
2358 2457 2.414161 CGGGCCTCTTTGATTCGAAAAC 60.414 50.000 0.00 0.00 0.00 2.43
2359 2458 2.414161 GGGCCTCTTTGATTCGAAAACG 60.414 50.000 0.00 0.00 0.00 3.60
2360 2459 2.225727 GGCCTCTTTGATTCGAAAACGT 59.774 45.455 0.00 0.00 0.00 3.99
2361 2460 3.434299 GGCCTCTTTGATTCGAAAACGTA 59.566 43.478 0.00 0.00 0.00 3.57
2362 2461 4.435651 GGCCTCTTTGATTCGAAAACGTAG 60.436 45.833 0.00 1.89 0.00 3.51
2363 2462 4.435651 GCCTCTTTGATTCGAAAACGTAGG 60.436 45.833 0.00 6.69 0.00 3.18
2364 2463 4.927425 CCTCTTTGATTCGAAAACGTAGGA 59.073 41.667 0.00 0.00 0.00 2.94
2365 2464 5.407387 CCTCTTTGATTCGAAAACGTAGGAA 59.593 40.000 0.00 0.00 0.00 3.36
2366 2465 6.092259 CCTCTTTGATTCGAAAACGTAGGAAT 59.908 38.462 0.00 0.00 32.15 3.01
2367 2466 7.277098 CCTCTTTGATTCGAAAACGTAGGAATA 59.723 37.037 0.00 0.00 29.79 1.75
2368 2467 8.181487 TCTTTGATTCGAAAACGTAGGAATAG 57.819 34.615 0.00 0.00 29.79 1.73
2369 2468 8.030692 TCTTTGATTCGAAAACGTAGGAATAGA 58.969 33.333 0.00 0.00 29.79 1.98
2370 2469 8.537049 TTTGATTCGAAAACGTAGGAATAGAA 57.463 30.769 0.00 0.00 29.79 2.10
2371 2470 8.537049 TTGATTCGAAAACGTAGGAATAGAAA 57.463 30.769 0.00 0.00 29.79 2.52
2372 2471 8.537049 TGATTCGAAAACGTAGGAATAGAAAA 57.463 30.769 0.00 0.00 29.79 2.29
2373 2472 8.991026 TGATTCGAAAACGTAGGAATAGAAAAA 58.009 29.630 0.00 0.00 29.79 1.94
2374 2473 9.474249 GATTCGAAAACGTAGGAATAGAAAAAG 57.526 33.333 0.00 0.00 29.79 2.27
2375 2474 7.951530 TCGAAAACGTAGGAATAGAAAAAGT 57.048 32.000 0.00 0.00 0.00 2.66
2376 2475 7.790000 TCGAAAACGTAGGAATAGAAAAAGTG 58.210 34.615 0.00 0.00 0.00 3.16
2377 2476 7.439056 TCGAAAACGTAGGAATAGAAAAAGTGT 59.561 33.333 0.00 0.00 0.00 3.55
2378 2477 8.702438 CGAAAACGTAGGAATAGAAAAAGTGTA 58.298 33.333 0.00 0.00 0.00 2.90
2380 2479 8.543862 AAACGTAGGAATAGAAAAAGTGTAGG 57.456 34.615 0.00 0.00 0.00 3.18
2381 2480 6.637657 ACGTAGGAATAGAAAAAGTGTAGGG 58.362 40.000 0.00 0.00 0.00 3.53
2382 2481 6.212187 ACGTAGGAATAGAAAAAGTGTAGGGT 59.788 38.462 0.00 0.00 0.00 4.34
2383 2482 7.101700 CGTAGGAATAGAAAAAGTGTAGGGTT 58.898 38.462 0.00 0.00 0.00 4.11
2384 2483 7.064253 CGTAGGAATAGAAAAAGTGTAGGGTTG 59.936 40.741 0.00 0.00 0.00 3.77
2385 2484 7.086685 AGGAATAGAAAAAGTGTAGGGTTGA 57.913 36.000 0.00 0.00 0.00 3.18
2386 2485 7.523415 AGGAATAGAAAAAGTGTAGGGTTGAA 58.477 34.615 0.00 0.00 0.00 2.69
2387 2486 7.665974 AGGAATAGAAAAAGTGTAGGGTTGAAG 59.334 37.037 0.00 0.00 0.00 3.02
2388 2487 7.447545 GGAATAGAAAAAGTGTAGGGTTGAAGT 59.552 37.037 0.00 0.00 0.00 3.01
2389 2488 7.745620 ATAGAAAAAGTGTAGGGTTGAAGTG 57.254 36.000 0.00 0.00 0.00 3.16
2390 2489 4.887655 AGAAAAAGTGTAGGGTTGAAGTGG 59.112 41.667 0.00 0.00 0.00 4.00
2391 2490 2.271944 AAGTGTAGGGTTGAAGTGGC 57.728 50.000 0.00 0.00 0.00 5.01
2392 2491 1.136828 AGTGTAGGGTTGAAGTGGCA 58.863 50.000 0.00 0.00 0.00 4.92
2393 2492 1.705186 AGTGTAGGGTTGAAGTGGCAT 59.295 47.619 0.00 0.00 0.00 4.40
2394 2493 1.812571 GTGTAGGGTTGAAGTGGCATG 59.187 52.381 0.00 0.00 0.00 4.06
2395 2494 0.811281 GTAGGGTTGAAGTGGCATGC 59.189 55.000 9.90 9.90 0.00 4.06
2396 2495 0.323360 TAGGGTTGAAGTGGCATGCC 60.323 55.000 30.54 30.54 0.00 4.40
2397 2496 1.607467 GGGTTGAAGTGGCATGCCT 60.607 57.895 35.53 17.85 36.94 4.75
2398 2497 0.323360 GGGTTGAAGTGGCATGCCTA 60.323 55.000 35.53 20.20 36.94 3.93
2399 2498 1.686115 GGGTTGAAGTGGCATGCCTAT 60.686 52.381 35.53 21.94 36.94 2.57
2400 2499 2.102578 GGTTGAAGTGGCATGCCTATT 58.897 47.619 35.53 28.25 36.94 1.73
2401 2500 2.497273 GGTTGAAGTGGCATGCCTATTT 59.503 45.455 35.53 25.38 36.94 1.40
2402 2501 3.429410 GGTTGAAGTGGCATGCCTATTTC 60.429 47.826 35.53 30.45 36.94 2.17
2403 2502 3.084536 TGAAGTGGCATGCCTATTTCA 57.915 42.857 35.53 32.23 36.94 2.69
2404 2503 3.429492 TGAAGTGGCATGCCTATTTCAA 58.571 40.909 35.53 20.82 36.94 2.69
2405 2504 4.025360 TGAAGTGGCATGCCTATTTCAAT 58.975 39.130 35.53 12.52 36.94 2.57
2406 2505 4.098349 TGAAGTGGCATGCCTATTTCAATC 59.902 41.667 35.53 20.92 36.94 2.67
2407 2506 2.961062 AGTGGCATGCCTATTTCAATCC 59.039 45.455 35.53 6.75 36.94 3.01
2408 2507 2.961062 GTGGCATGCCTATTTCAATCCT 59.039 45.455 35.53 0.00 36.94 3.24
2409 2508 4.141181 AGTGGCATGCCTATTTCAATCCTA 60.141 41.667 35.53 9.43 36.94 2.94
2410 2509 4.768968 GTGGCATGCCTATTTCAATCCTAT 59.231 41.667 35.53 0.00 36.94 2.57
2411 2510 5.945784 GTGGCATGCCTATTTCAATCCTATA 59.054 40.000 35.53 8.25 36.94 1.31
2412 2511 6.434028 GTGGCATGCCTATTTCAATCCTATAA 59.566 38.462 35.53 7.83 36.94 0.98
2413 2512 7.009550 TGGCATGCCTATTTCAATCCTATAAA 58.990 34.615 35.53 7.46 36.94 1.40
2414 2513 7.508636 TGGCATGCCTATTTCAATCCTATAAAA 59.491 33.333 35.53 7.11 36.94 1.52
2415 2514 8.534496 GGCATGCCTATTTCAATCCTATAAAAT 58.466 33.333 29.98 0.00 0.00 1.82
2416 2515 9.933723 GCATGCCTATTTCAATCCTATAAAATT 57.066 29.630 6.36 0.00 0.00 1.82
2436 2535 6.913873 AATTAGCAATGATTGTTTGATGCC 57.086 33.333 7.05 0.00 34.44 4.40
2437 2536 3.965379 AGCAATGATTGTTTGATGCCA 57.035 38.095 7.05 0.00 34.44 4.92
2438 2537 3.592059 AGCAATGATTGTTTGATGCCAC 58.408 40.909 7.05 0.00 34.44 5.01
2439 2538 2.346244 GCAATGATTGTTTGATGCCACG 59.654 45.455 7.05 0.00 0.00 4.94
2440 2539 2.924926 CAATGATTGTTTGATGCCACGG 59.075 45.455 0.00 0.00 0.00 4.94
2441 2540 1.902938 TGATTGTTTGATGCCACGGA 58.097 45.000 0.00 0.00 0.00 4.69
2442 2541 2.234143 TGATTGTTTGATGCCACGGAA 58.766 42.857 0.00 0.00 0.00 4.30
2443 2542 2.625314 TGATTGTTTGATGCCACGGAAA 59.375 40.909 0.00 0.00 0.00 3.13
2444 2543 3.068732 TGATTGTTTGATGCCACGGAAAA 59.931 39.130 0.00 0.00 0.00 2.29
2445 2544 3.526931 TTGTTTGATGCCACGGAAAAA 57.473 38.095 0.00 0.00 0.00 1.94
2490 2589 8.934023 TGGTTAGAGTGGATGTTAAATTTTCT 57.066 30.769 0.00 0.00 0.00 2.52
2559 2658 9.517868 AGATCCAATCTTATGAATCAAAGGATC 57.482 33.333 0.00 0.00 44.98 3.36
2560 2659 9.293404 GATCCAATCTTATGAATCAAAGGATCA 57.707 33.333 0.00 0.00 44.38 2.92
2561 2660 9.650714 ATCCAATCTTATGAATCAAAGGATCAA 57.349 29.630 0.00 0.00 31.88 2.57
2562 2661 9.650714 TCCAATCTTATGAATCAAAGGATCAAT 57.349 29.630 0.00 0.00 31.88 2.57
2607 2706 9.799106 GATTTCAATCCTCCAGAAATCCTATAA 57.201 33.333 13.38 0.00 45.88 0.98
2609 2708 9.989296 TTTCAATCCTCCAGAAATCCTATAAAA 57.011 29.630 0.00 0.00 0.00 1.52
2633 2732 9.875691 AAATTCTTTGAATCAAATAAGCCCTAC 57.124 29.630 9.02 0.00 32.70 3.18
2634 2733 8.593945 ATTCTTTGAATCAAATAAGCCCTACA 57.406 30.769 9.02 0.00 32.70 2.74
2635 2734 8.593945 TTCTTTGAATCAAATAAGCCCTACAT 57.406 30.769 9.02 0.00 32.70 2.29
2636 2735 9.693739 TTCTTTGAATCAAATAAGCCCTACATA 57.306 29.630 9.02 0.00 32.70 2.29
2702 2801 0.723414 CGAAGTGGCGACTACTCGTA 59.277 55.000 13.02 0.00 42.33 3.43
2703 2802 1.528603 CGAAGTGGCGACTACTCGTAC 60.529 57.143 13.02 0.00 42.33 3.67
2704 2803 1.736681 GAAGTGGCGACTACTCGTACT 59.263 52.381 0.30 0.00 42.33 2.73
2705 2804 1.367659 AGTGGCGACTACTCGTACTC 58.632 55.000 0.00 0.00 42.33 2.59
2706 2805 0.026027 GTGGCGACTACTCGTACTCG 59.974 60.000 0.00 0.00 42.33 4.18
2707 2806 0.390340 TGGCGACTACTCGTACTCGT 60.390 55.000 0.00 0.00 42.33 4.18
2713 2812 2.275318 ACTACTCGTACTCGTACTGGC 58.725 52.381 5.76 0.00 38.33 4.85
2773 2872 1.881591 TGCCCTTGCAATTCTTTTGC 58.118 45.000 0.00 3.44 46.66 3.68
2791 2898 1.202359 TGCTTGTTTTTCCTGGCGTTC 60.202 47.619 0.00 0.00 0.00 3.95
2817 2924 4.544689 CCGACCTCGCTCTGCTCG 62.545 72.222 0.00 0.00 38.18 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 1.705873 TTCTCTCTTCTATCCGGCCC 58.294 55.000 0.00 0.00 0.00 5.80
30 31 5.303333 GGGATCTGGTTTGGTCAACTTTTTA 59.697 40.000 0.00 0.00 35.46 1.52
31 32 4.100963 GGGATCTGGTTTGGTCAACTTTTT 59.899 41.667 0.00 0.00 35.46 1.94
43 44 1.713078 AGGCTTTGAGGGATCTGGTTT 59.287 47.619 0.00 0.00 0.00 3.27
48 49 1.978361 AAGGAGGCTTTGAGGGATCT 58.022 50.000 0.00 0.00 0.00 2.75
51 52 3.333680 ACATTTAAGGAGGCTTTGAGGGA 59.666 43.478 0.00 0.00 0.00 4.20
131 132 1.072331 GGACACAAGACCACTCACCAT 59.928 52.381 0.00 0.00 0.00 3.55
136 137 1.668151 GGCGGACACAAGACCACTC 60.668 63.158 0.00 0.00 0.00 3.51
197 200 7.287927 TGACTAGTGAAGAAGGAGAGAGAAAAA 59.712 37.037 0.00 0.00 0.00 1.94
198 201 6.778069 TGACTAGTGAAGAAGGAGAGAGAAAA 59.222 38.462 0.00 0.00 0.00 2.29
199 202 6.207810 GTGACTAGTGAAGAAGGAGAGAGAAA 59.792 42.308 0.00 0.00 0.00 2.52
200 203 5.708230 GTGACTAGTGAAGAAGGAGAGAGAA 59.292 44.000 0.00 0.00 0.00 2.87
201 204 5.221945 TGTGACTAGTGAAGAAGGAGAGAGA 60.222 44.000 0.00 0.00 0.00 3.10
202 205 5.007034 TGTGACTAGTGAAGAAGGAGAGAG 58.993 45.833 0.00 0.00 0.00 3.20
203 206 4.986783 TGTGACTAGTGAAGAAGGAGAGA 58.013 43.478 0.00 0.00 0.00 3.10
233 236 7.439381 TGACTTATTTTCCTATACATCCGGTC 58.561 38.462 0.00 0.00 0.00 4.79
247 250 4.096984 CAGCCATGTCCCTGACTTATTTTC 59.903 45.833 0.00 0.00 33.15 2.29
288 292 1.259770 GGTCGTGTTCGTTTTGACTCC 59.740 52.381 0.00 0.00 38.33 3.85
306 310 2.660802 GTCCGACCAATGTCCGGT 59.339 61.111 0.00 0.00 38.32 5.28
314 318 1.536940 TCATAGACACGTCCGACCAA 58.463 50.000 0.00 0.00 0.00 3.67
330 349 2.649531 TTGACCCCTCAAACGTTCAT 57.350 45.000 0.00 0.00 33.20 2.57
360 379 2.939103 GTGCTTGTTAGGGCATCTACAG 59.061 50.000 0.00 0.00 40.66 2.74
379 398 7.226325 TGAAATCCAAATTTGCTAGGTTTTGTG 59.774 33.333 12.92 0.00 35.21 3.33
434 453 4.363999 CGGGAATACAGCTGTTCTAGAAG 58.636 47.826 27.06 7.97 0.00 2.85
445 464 2.544267 GTGAGTATTGCGGGAATACAGC 59.456 50.000 27.05 20.16 46.31 4.40
454 473 0.589729 GCATTGCGTGAGTATTGCGG 60.590 55.000 0.00 0.00 41.63 5.69
459 478 4.970662 AAAGATTGCATTGCGTGAGTAT 57.029 36.364 3.84 0.00 0.00 2.12
498 518 2.202851 AGCGAATCTGCCAGCTCG 60.203 61.111 10.55 10.55 34.48 5.03
530 551 5.279657 GGAAGGTCAGCAAATTTCCATTTCT 60.280 40.000 0.00 0.00 37.75 2.52
569 590 2.032550 CGCTGGAGATTATTTGCAGTGG 59.967 50.000 9.34 0.00 39.77 4.00
571 592 2.991250 ACGCTGGAGATTATTTGCAGT 58.009 42.857 6.18 0.00 36.50 4.40
582 604 3.660501 ATTCGCAATATACGCTGGAGA 57.339 42.857 0.00 0.00 0.00 3.71
612 634 7.121168 CCAAAATGCGATATACACTGGGATTAT 59.879 37.037 0.00 0.00 0.00 1.28
630 652 4.982295 GGGATTTATTACTCGCCAAAATGC 59.018 41.667 0.00 0.00 0.00 3.56
675 697 3.326747 GGCTATACGCGATTTGGATTCT 58.673 45.455 15.93 0.00 40.44 2.40
697 719 1.440938 CTCTCTCTACCGCGTCCAGG 61.441 65.000 4.92 0.00 0.00 4.45
854 895 2.356667 CTCCACCCCTTTCCTGGC 59.643 66.667 0.00 0.00 0.00 4.85
960 1001 3.792047 CACGCGCACACAGGGATG 61.792 66.667 5.73 0.00 0.00 3.51
1122 1168 1.351017 TCTAACCAAACCCTCAGCCAG 59.649 52.381 0.00 0.00 0.00 4.85
1170 1224 1.002274 ACCTCCAGCCCCTACAGAG 59.998 63.158 0.00 0.00 0.00 3.35
1172 1226 2.370445 CCACCTCCAGCCCCTACAG 61.370 68.421 0.00 0.00 0.00 2.74
1845 1911 0.475906 AATCTACCAGCTCCATGGCC 59.524 55.000 6.96 0.00 44.80 5.36
1877 1943 1.402456 GGCGACGCTAATCACGGATAT 60.402 52.381 20.77 0.00 34.00 1.63
1896 1962 4.110493 GGATGAAGAAGCCGACGG 57.890 61.111 10.29 10.29 0.00 4.79
1905 1971 3.659786 ACACGAAAATCACGGATGAAGA 58.340 40.909 0.00 0.00 38.69 2.87
1972 2039 0.888619 GCTGCTCTTAAACCCCCAAC 59.111 55.000 0.00 0.00 0.00 3.77
1973 2040 0.251608 GGCTGCTCTTAAACCCCCAA 60.252 55.000 0.00 0.00 0.00 4.12
1974 2041 1.382629 GGCTGCTCTTAAACCCCCA 59.617 57.895 0.00 0.00 0.00 4.96
1975 2042 0.681243 CTGGCTGCTCTTAAACCCCC 60.681 60.000 0.00 0.00 0.00 5.40
2047 2114 2.125350 CCGGAAGAGGCTGACTGC 60.125 66.667 0.00 0.00 41.94 4.40
2109 2177 5.447818 CCTGCTCTGCTAATAAGTTTTTCGG 60.448 44.000 0.00 0.00 0.00 4.30
2113 2181 4.335416 TGCCTGCTCTGCTAATAAGTTTT 58.665 39.130 0.00 0.00 0.00 2.43
2137 2213 0.181114 CACGGGATGGTGATGGATGT 59.819 55.000 0.00 0.00 40.38 3.06
2138 2214 1.168407 GCACGGGATGGTGATGGATG 61.168 60.000 0.00 0.00 40.38 3.51
2139 2215 1.149174 GCACGGGATGGTGATGGAT 59.851 57.895 0.00 0.00 40.38 3.41
2140 2216 1.846712 TTGCACGGGATGGTGATGGA 61.847 55.000 0.00 0.00 40.38 3.41
2141 2217 1.378382 TTGCACGGGATGGTGATGG 60.378 57.895 0.00 0.00 40.38 3.51
2204 2302 2.416747 CGAGTGCTCCATTTCAAGACA 58.583 47.619 0.00 0.00 0.00 3.41
2218 2316 0.867746 TGAACATGACAAGCGAGTGC 59.132 50.000 0.00 0.00 43.24 4.40
2245 2343 4.991056 ACAGACATCAGAACATACACACAC 59.009 41.667 0.00 0.00 0.00 3.82
2261 2359 0.877071 CGCTGAAGGCAAACAGACAT 59.123 50.000 9.14 0.00 41.91 3.06
2284 2383 0.874390 GCAGAGCCGTCAAAATCACA 59.126 50.000 0.00 0.00 0.00 3.58
2285 2384 1.160137 AGCAGAGCCGTCAAAATCAC 58.840 50.000 0.00 0.00 0.00 3.06
2292 2391 1.188219 AAGAGGAAGCAGAGCCGTCA 61.188 55.000 0.00 0.00 0.00 4.35
2296 2395 2.488204 AAGAAAGAGGAAGCAGAGCC 57.512 50.000 0.00 0.00 0.00 4.70
2302 2401 6.800543 ACTGAAAGAAAAAGAAAGAGGAAGC 58.199 36.000 0.00 0.00 37.43 3.86
2307 2406 9.890352 CTTGGATACTGAAAGAAAAAGAAAGAG 57.110 33.333 0.00 0.00 37.43 2.85
2308 2407 9.408648 ACTTGGATACTGAAAGAAAAAGAAAGA 57.591 29.630 0.00 0.00 37.43 2.52
2312 2411 8.770828 CGTAACTTGGATACTGAAAGAAAAAGA 58.229 33.333 0.00 0.00 37.43 2.52
2313 2412 8.015658 CCGTAACTTGGATACTGAAAGAAAAAG 58.984 37.037 0.00 0.00 37.43 2.27
2314 2413 7.040961 CCCGTAACTTGGATACTGAAAGAAAAA 60.041 37.037 0.00 0.00 37.43 1.94
2315 2414 6.428771 CCCGTAACTTGGATACTGAAAGAAAA 59.571 38.462 0.00 0.00 37.43 2.29
2316 2415 5.935789 CCCGTAACTTGGATACTGAAAGAAA 59.064 40.000 0.00 0.00 37.43 2.52
2317 2416 5.484715 CCCGTAACTTGGATACTGAAAGAA 58.515 41.667 0.00 0.00 37.43 2.52
2318 2417 4.622220 GCCCGTAACTTGGATACTGAAAGA 60.622 45.833 0.00 0.00 37.43 2.52
2338 2437 3.217599 GTTTTCGAATCAAAGAGGCCC 57.782 47.619 0.00 0.00 0.00 5.80
2354 2453 8.996271 CCTACACTTTTTCTATTCCTACGTTTT 58.004 33.333 0.00 0.00 0.00 2.43
2355 2454 7.605309 CCCTACACTTTTTCTATTCCTACGTTT 59.395 37.037 0.00 0.00 0.00 3.60
2356 2455 7.101700 CCCTACACTTTTTCTATTCCTACGTT 58.898 38.462 0.00 0.00 0.00 3.99
2357 2456 6.212187 ACCCTACACTTTTTCTATTCCTACGT 59.788 38.462 0.00 0.00 0.00 3.57
2358 2457 6.637657 ACCCTACACTTTTTCTATTCCTACG 58.362 40.000 0.00 0.00 0.00 3.51
2359 2458 8.098912 TCAACCCTACACTTTTTCTATTCCTAC 58.901 37.037 0.00 0.00 0.00 3.18
2360 2459 8.209802 TCAACCCTACACTTTTTCTATTCCTA 57.790 34.615 0.00 0.00 0.00 2.94
2361 2460 7.086685 TCAACCCTACACTTTTTCTATTCCT 57.913 36.000 0.00 0.00 0.00 3.36
2362 2461 7.447545 ACTTCAACCCTACACTTTTTCTATTCC 59.552 37.037 0.00 0.00 0.00 3.01
2363 2462 8.290325 CACTTCAACCCTACACTTTTTCTATTC 58.710 37.037 0.00 0.00 0.00 1.75
2364 2463 7.230712 CCACTTCAACCCTACACTTTTTCTATT 59.769 37.037 0.00 0.00 0.00 1.73
2365 2464 6.715264 CCACTTCAACCCTACACTTTTTCTAT 59.285 38.462 0.00 0.00 0.00 1.98
2366 2465 6.059484 CCACTTCAACCCTACACTTTTTCTA 58.941 40.000 0.00 0.00 0.00 2.10
2367 2466 4.887655 CCACTTCAACCCTACACTTTTTCT 59.112 41.667 0.00 0.00 0.00 2.52
2368 2467 4.499188 GCCACTTCAACCCTACACTTTTTC 60.499 45.833 0.00 0.00 0.00 2.29
2369 2468 3.383505 GCCACTTCAACCCTACACTTTTT 59.616 43.478 0.00 0.00 0.00 1.94
2370 2469 2.956333 GCCACTTCAACCCTACACTTTT 59.044 45.455 0.00 0.00 0.00 2.27
2371 2470 2.092103 TGCCACTTCAACCCTACACTTT 60.092 45.455 0.00 0.00 0.00 2.66
2372 2471 1.493022 TGCCACTTCAACCCTACACTT 59.507 47.619 0.00 0.00 0.00 3.16
2373 2472 1.136828 TGCCACTTCAACCCTACACT 58.863 50.000 0.00 0.00 0.00 3.55
2374 2473 1.812571 CATGCCACTTCAACCCTACAC 59.187 52.381 0.00 0.00 0.00 2.90
2375 2474 1.886222 GCATGCCACTTCAACCCTACA 60.886 52.381 6.36 0.00 0.00 2.74
2376 2475 0.811281 GCATGCCACTTCAACCCTAC 59.189 55.000 6.36 0.00 0.00 3.18
2377 2476 0.323360 GGCATGCCACTTCAACCCTA 60.323 55.000 32.08 0.00 35.81 3.53
2378 2477 1.607467 GGCATGCCACTTCAACCCT 60.607 57.895 32.08 0.00 35.81 4.34
2379 2478 0.323360 TAGGCATGCCACTTCAACCC 60.323 55.000 37.18 7.34 38.92 4.11
2380 2479 1.767759 ATAGGCATGCCACTTCAACC 58.232 50.000 37.18 8.13 38.92 3.77
2381 2480 3.193267 TGAAATAGGCATGCCACTTCAAC 59.807 43.478 37.18 20.95 38.92 3.18
2382 2481 3.429492 TGAAATAGGCATGCCACTTCAA 58.571 40.909 37.18 20.76 38.92 2.69
2383 2482 3.084536 TGAAATAGGCATGCCACTTCA 57.915 42.857 37.18 32.64 38.92 3.02
2384 2483 4.500375 GGATTGAAATAGGCATGCCACTTC 60.500 45.833 37.18 30.79 38.92 3.01
2385 2484 3.385755 GGATTGAAATAGGCATGCCACTT 59.614 43.478 37.18 25.76 38.92 3.16
2386 2485 2.961062 GGATTGAAATAGGCATGCCACT 59.039 45.455 37.18 21.14 38.92 4.00
2387 2486 2.961062 AGGATTGAAATAGGCATGCCAC 59.039 45.455 37.18 21.59 38.92 5.01
2388 2487 3.317455 AGGATTGAAATAGGCATGCCA 57.683 42.857 37.18 23.40 38.92 4.92
2389 2488 7.466746 TTTATAGGATTGAAATAGGCATGCC 57.533 36.000 30.12 30.12 0.00 4.40
2390 2489 9.933723 AATTTTATAGGATTGAAATAGGCATGC 57.066 29.630 9.90 9.90 0.00 4.06
2410 2509 8.881743 GGCATCAAACAATCATTGCTAATTTTA 58.118 29.630 0.00 0.00 0.00 1.52
2411 2510 7.390996 TGGCATCAAACAATCATTGCTAATTTT 59.609 29.630 0.00 0.00 0.00 1.82
2412 2511 6.879993 TGGCATCAAACAATCATTGCTAATTT 59.120 30.769 0.00 0.00 0.00 1.82
2413 2512 6.314400 GTGGCATCAAACAATCATTGCTAATT 59.686 34.615 0.00 0.00 0.00 1.40
2414 2513 5.813672 GTGGCATCAAACAATCATTGCTAAT 59.186 36.000 0.00 0.00 0.00 1.73
2415 2514 5.170021 GTGGCATCAAACAATCATTGCTAA 58.830 37.500 0.00 0.00 0.00 3.09
2416 2515 4.674885 CGTGGCATCAAACAATCATTGCTA 60.675 41.667 0.00 0.00 0.00 3.49
2417 2516 3.592059 GTGGCATCAAACAATCATTGCT 58.408 40.909 0.00 0.00 0.00 3.91
2418 2517 2.346244 CGTGGCATCAAACAATCATTGC 59.654 45.455 0.00 0.00 0.00 3.56
2419 2518 2.924926 CCGTGGCATCAAACAATCATTG 59.075 45.455 0.00 0.00 0.00 2.82
2420 2519 2.824936 TCCGTGGCATCAAACAATCATT 59.175 40.909 0.00 0.00 0.00 2.57
2421 2520 2.445427 TCCGTGGCATCAAACAATCAT 58.555 42.857 0.00 0.00 0.00 2.45
2422 2521 1.902938 TCCGTGGCATCAAACAATCA 58.097 45.000 0.00 0.00 0.00 2.57
2423 2522 3.296322 TTTCCGTGGCATCAAACAATC 57.704 42.857 0.00 0.00 0.00 2.67
2424 2523 3.742433 TTTTCCGTGGCATCAAACAAT 57.258 38.095 0.00 0.00 0.00 2.71
2425 2524 3.526931 TTTTTCCGTGGCATCAAACAA 57.473 38.095 0.00 0.00 0.00 2.83
2464 2563 9.533831 AGAAAATTTAACATCCACTCTAACCAT 57.466 29.630 0.00 0.00 0.00 3.55
2465 2564 8.934023 AGAAAATTTAACATCCACTCTAACCA 57.066 30.769 0.00 0.00 0.00 3.67
2533 2632 9.517868 GATCCTTTGATTCATAAGATTGGATCT 57.482 33.333 0.00 0.00 41.50 2.75
2534 2633 9.293404 TGATCCTTTGATTCATAAGATTGGATC 57.707 33.333 0.00 0.00 43.63 3.36
2535 2634 9.650714 TTGATCCTTTGATTCATAAGATTGGAT 57.349 29.630 0.00 0.00 33.84 3.41
2536 2635 9.650714 ATTGATCCTTTGATTCATAAGATTGGA 57.349 29.630 9.00 0.00 0.00 3.53
2583 2682 9.989296 TTTTATAGGATTTCTGGAGGATTGAAA 57.011 29.630 0.00 0.00 34.75 2.69
2607 2706 9.875691 GTAGGGCTTATTTGATTCAAAGAATTT 57.124 29.630 16.97 4.05 40.26 1.82
2608 2707 9.034800 TGTAGGGCTTATTTGATTCAAAGAATT 57.965 29.630 16.97 4.37 34.74 2.17
2609 2708 8.593945 TGTAGGGCTTATTTGATTCAAAGAAT 57.406 30.769 16.97 7.38 34.74 2.40
2610 2709 8.593945 ATGTAGGGCTTATTTGATTCAAAGAA 57.406 30.769 16.05 16.05 36.76 2.52
2611 2710 9.866655 ATATGTAGGGCTTATTTGATTCAAAGA 57.133 29.630 16.34 9.88 36.76 2.52
2617 2716 8.960591 GCATGTATATGTAGGGCTTATTTGATT 58.039 33.333 1.14 0.00 36.65 2.57
2618 2717 7.557719 GGCATGTATATGTAGGGCTTATTTGAT 59.442 37.037 1.14 0.00 36.65 2.57
2619 2718 6.884295 GGCATGTATATGTAGGGCTTATTTGA 59.116 38.462 1.14 0.00 36.65 2.69
2620 2719 6.886459 AGGCATGTATATGTAGGGCTTATTTG 59.114 38.462 1.14 0.00 36.65 2.32
2621 2720 6.886459 CAGGCATGTATATGTAGGGCTTATTT 59.114 38.462 1.14 0.00 36.65 1.40
2622 2721 6.418101 CAGGCATGTATATGTAGGGCTTATT 58.582 40.000 1.14 0.00 36.65 1.40
2623 2722 5.630069 GCAGGCATGTATATGTAGGGCTTAT 60.630 44.000 0.00 0.00 36.65 1.73
2624 2723 4.323485 GCAGGCATGTATATGTAGGGCTTA 60.323 45.833 0.00 0.00 36.65 3.09
2625 2724 3.560025 GCAGGCATGTATATGTAGGGCTT 60.560 47.826 0.00 0.00 36.65 4.35
2626 2725 2.026822 GCAGGCATGTATATGTAGGGCT 60.027 50.000 0.00 0.00 36.65 5.19
2627 2726 2.290260 TGCAGGCATGTATATGTAGGGC 60.290 50.000 0.00 1.88 36.65 5.19
2628 2727 3.603532 CTGCAGGCATGTATATGTAGGG 58.396 50.000 5.57 0.00 36.65 3.53
2629 2728 3.603532 CCTGCAGGCATGTATATGTAGG 58.396 50.000 22.33 9.82 38.83 3.18
2630 2729 4.248859 GACCTGCAGGCATGTATATGTAG 58.751 47.826 33.06 3.88 39.32 2.74
2631 2730 3.007940 GGACCTGCAGGCATGTATATGTA 59.992 47.826 33.06 0.00 39.32 2.29
2632 2731 2.224621 GGACCTGCAGGCATGTATATGT 60.225 50.000 33.06 8.96 39.32 2.29
2633 2732 2.430465 GGACCTGCAGGCATGTATATG 58.570 52.381 33.06 5.14 39.32 1.78
2634 2733 1.002430 CGGACCTGCAGGCATGTATAT 59.998 52.381 33.06 10.64 39.32 0.86
2635 2734 0.392706 CGGACCTGCAGGCATGTATA 59.607 55.000 33.06 0.00 39.32 1.47
2636 2735 1.146930 CGGACCTGCAGGCATGTAT 59.853 57.895 33.06 12.34 39.32 2.29
2660 2759 3.813724 CTCCTCCCCCACATGGCC 61.814 72.222 0.00 0.00 0.00 5.36
2661 2760 0.768221 TATCTCCTCCCCCACATGGC 60.768 60.000 0.00 0.00 0.00 4.40
2702 2801 4.436998 GCGGCTGCCAGTACGAGT 62.437 66.667 20.29 0.00 33.98 4.18
2707 2806 4.735132 GACACGCGGCTGCCAGTA 62.735 66.667 20.29 0.00 38.08 2.74
2773 2872 1.332375 TCGAACGCCAGGAAAAACAAG 59.668 47.619 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.