Multiple sequence alignment - TraesCS7A01G163600

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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 TraesCS7A01G163600 chr7A 100.000 2513 0 0 1 2513 119817278 119814766 0.000000e+00 4641
1 TraesCS7A01G163600 chr7A 97.313 1712 43 3 528 2238 428628486 428626777 0.000000e+00 2904
2 TraesCS7A01G163600 chr7A 95.669 531 17 2 1 531 428629093 428628569 0.000000e+00 848
3 TraesCS7A01G163600 chr1A 96.208 1714 59 6 530 2241 495734937 495733228 0.000000e+00 2800
4 TraesCS7A01G163600 chr1A 95.934 1033 38 3 1211 2242 355422875 355423904 0.000000e+00 1672
5 TraesCS7A01G163600 chr1A 79.935 613 113 9 942 1551 2283574 2282969 2.290000e-120 442
6 TraesCS7A01G163600 chr2D 93.754 1729 87 13 528 2241 64954993 64953271 0.000000e+00 2575
7 TraesCS7A01G163600 chr2D 94.162 531 29 2 1 531 64955604 64955076 0.000000e+00 808
8 TraesCS7A01G163600 chr2B 96.466 1415 40 6 826 2238 38394658 38396064 0.000000e+00 2327
9 TraesCS7A01G163600 chr2B 91.052 1084 59 17 1170 2242 637899345 637900401 0.000000e+00 1430
10 TraesCS7A01G163600 chr2B 83.916 143 15 7 2037 2175 383564434 383564296 2.030000e-26 130
11 TraesCS7A01G163600 chr3A 96.505 1030 34 2 1211 2239 699356350 699355322 0.000000e+00 1701
12 TraesCS7A01G163600 chr7B 92.680 970 57 9 1283 2240 73430319 73429352 0.000000e+00 1386
13 TraesCS7A01G163600 chr7B 96.325 762 23 3 528 1285 73455355 73454595 0.000000e+00 1247
14 TraesCS7A01G163600 chr7B 92.033 841 53 9 1268 2097 218822431 218821594 0.000000e+00 1170
15 TraesCS7A01G163600 chr7B 95.292 531 23 2 1 531 73455966 73455438 0.000000e+00 841
16 TraesCS7A01G163600 chr4B 77.004 1048 193 38 537 1551 2711609 2710577 7.850000e-155 556
17 TraesCS7A01G163600 chr7D 90.964 166 15 0 2339 2504 115100094 115099929 9.050000e-55 224


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 TraesCS7A01G163600 chr7A 119814766 119817278 2512 True 4641.0 4641 100.0000 1 2513 1 chr7A.!!$R1 2512
1 TraesCS7A01G163600 chr7A 428626777 428629093 2316 True 1876.0 2904 96.4910 1 2238 2 chr7A.!!$R2 2237
2 TraesCS7A01G163600 chr1A 495733228 495734937 1709 True 2800.0 2800 96.2080 530 2241 1 chr1A.!!$R2 1711
3 TraesCS7A01G163600 chr1A 355422875 355423904 1029 False 1672.0 1672 95.9340 1211 2242 1 chr1A.!!$F1 1031
4 TraesCS7A01G163600 chr1A 2282969 2283574 605 True 442.0 442 79.9350 942 1551 1 chr1A.!!$R1 609
5 TraesCS7A01G163600 chr2D 64953271 64955604 2333 True 1691.5 2575 93.9580 1 2241 2 chr2D.!!$R1 2240
6 TraesCS7A01G163600 chr2B 38394658 38396064 1406 False 2327.0 2327 96.4660 826 2238 1 chr2B.!!$F1 1412
7 TraesCS7A01G163600 chr2B 637899345 637900401 1056 False 1430.0 1430 91.0520 1170 2242 1 chr2B.!!$F2 1072
8 TraesCS7A01G163600 chr3A 699355322 699356350 1028 True 1701.0 1701 96.5050 1211 2239 1 chr3A.!!$R1 1028
9 TraesCS7A01G163600 chr7B 73429352 73430319 967 True 1386.0 1386 92.6800 1283 2240 1 chr7B.!!$R1 957
10 TraesCS7A01G163600 chr7B 218821594 218822431 837 True 1170.0 1170 92.0330 1268 2097 1 chr7B.!!$R2 829
11 TraesCS7A01G163600 chr7B 73454595 73455966 1371 True 1044.0 1247 95.8085 1 1285 2 chr7B.!!$R3 1284
12 TraesCS7A01G163600 chr4B 2710577 2711609 1032 True 556.0 556 77.0040 537 1551 1 chr4B.!!$R1 1014

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
36 37 0.318699 GAAAGGGCTTTTGGTGCGTC 60.319 55.0 0.0 0.0 32.11 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1789 1919 2.061773 ACGACATCTTCTCGCAAACAG 58.938 47.619 0.0 0.0 34.34 3.16 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 0.318699 GAAAGGGCTTTTGGTGCGTC 60.319 55.000 0.00 0.00 32.11 5.19
166 167 4.352298 GGTGAGGATGAATATTTCCCTCCT 59.648 45.833 19.96 14.55 41.96 3.69
305 306 2.850631 GCGGCACACATTTGATGTATCG 60.851 50.000 0.00 0.00 42.70 2.92
482 483 7.650834 AGCGTTGCAATGTTATAACAAAATT 57.349 28.000 21.57 9.46 43.03 1.82
533 620 8.096621 TGAATATGTTACTAATTCCTGGACCA 57.903 34.615 0.00 0.00 0.00 4.02
1246 1367 7.400339 AGAGGAAGAGGACATTTGTTATGACTA 59.600 37.037 0.00 0.00 0.00 2.59
1341 1462 2.569853 TCATACCGAAACACACCCTGAT 59.430 45.455 0.00 0.00 0.00 2.90
1412 1533 6.260936 CGGTTGGCTGTTTTAGATTATCTGAT 59.739 38.462 4.78 0.00 0.00 2.90
1517 1638 5.709164 AGAATCCTGATCTTGTTTGAGTTGG 59.291 40.000 0.00 0.00 0.00 3.77
1789 1919 8.080083 AGCAATTTTCACATGTTCATTCTTTC 57.920 30.769 0.00 0.00 0.00 2.62
2051 2187 4.745351 TCACCATCTCAGATACAGCCTAT 58.255 43.478 0.00 0.00 0.00 2.57
2062 2198 7.847096 TCAGATACAGCCTATCAAACAAAGTA 58.153 34.615 2.66 0.00 0.00 2.24
2069 2205 6.543831 CAGCCTATCAAACAAAGTATAAGCCT 59.456 38.462 0.00 0.00 0.00 4.58
2074 2210 7.938140 ATCAAACAAAGTATAAGCCTAGCAA 57.062 32.000 0.00 0.00 0.00 3.91
2242 2378 3.308188 GGCTACCAAACACATCCTAAGGT 60.308 47.826 0.00 0.00 0.00 3.50
2243 2379 4.332828 GCTACCAAACACATCCTAAGGTT 58.667 43.478 0.00 0.00 0.00 3.50
2244 2380 4.395231 GCTACCAAACACATCCTAAGGTTC 59.605 45.833 0.00 0.00 0.00 3.62
2245 2381 4.724279 ACCAAACACATCCTAAGGTTCT 57.276 40.909 0.00 0.00 0.00 3.01
2246 2382 5.061721 ACCAAACACATCCTAAGGTTCTT 57.938 39.130 0.00 0.00 0.00 2.52
2247 2383 5.070685 ACCAAACACATCCTAAGGTTCTTC 58.929 41.667 0.00 0.00 0.00 2.87
2248 2384 4.459337 CCAAACACATCCTAAGGTTCTTCC 59.541 45.833 0.00 0.00 0.00 3.46
2249 2385 4.302559 AACACATCCTAAGGTTCTTCCC 57.697 45.455 0.00 0.00 36.75 3.97
2250 2386 3.532102 ACACATCCTAAGGTTCTTCCCT 58.468 45.455 0.00 0.00 36.75 4.20
2251 2387 3.916989 ACACATCCTAAGGTTCTTCCCTT 59.083 43.478 0.00 0.00 46.54 3.95
2252 2388 4.354087 ACACATCCTAAGGTTCTTCCCTTT 59.646 41.667 0.00 0.00 42.24 3.11
2253 2389 5.162980 ACACATCCTAAGGTTCTTCCCTTTT 60.163 40.000 0.00 0.00 42.24 2.27
2254 2390 5.775195 CACATCCTAAGGTTCTTCCCTTTTT 59.225 40.000 0.00 0.00 42.24 1.94
2272 2408 3.586470 TTTTGGCTCTAAGGTTCACCA 57.414 42.857 0.00 0.00 38.89 4.17
2273 2409 2.561478 TTGGCTCTAAGGTTCACCAC 57.439 50.000 0.00 0.00 38.89 4.16
2274 2410 1.729586 TGGCTCTAAGGTTCACCACT 58.270 50.000 0.00 0.00 38.89 4.00
2275 2411 1.623811 TGGCTCTAAGGTTCACCACTC 59.376 52.381 0.00 0.00 38.89 3.51
2276 2412 1.404315 GGCTCTAAGGTTCACCACTCG 60.404 57.143 0.00 0.00 38.89 4.18
2277 2413 1.272769 GCTCTAAGGTTCACCACTCGT 59.727 52.381 0.00 0.00 38.89 4.18
2278 2414 2.671632 GCTCTAAGGTTCACCACTCGTC 60.672 54.545 0.00 0.00 38.89 4.20
2279 2415 2.820787 CTCTAAGGTTCACCACTCGTCT 59.179 50.000 0.00 0.00 38.89 4.18
2280 2416 2.557056 TCTAAGGTTCACCACTCGTCTG 59.443 50.000 0.00 0.00 38.89 3.51
2281 2417 1.410004 AAGGTTCACCACTCGTCTGA 58.590 50.000 0.00 0.00 38.89 3.27
2282 2418 1.410004 AGGTTCACCACTCGTCTGAA 58.590 50.000 0.00 0.00 38.89 3.02
2283 2419 1.971357 AGGTTCACCACTCGTCTGAAT 59.029 47.619 0.00 0.00 38.89 2.57
2284 2420 2.368875 AGGTTCACCACTCGTCTGAATT 59.631 45.455 0.00 0.00 38.89 2.17
2285 2421 2.737252 GGTTCACCACTCGTCTGAATTC 59.263 50.000 0.00 0.00 35.64 2.17
2286 2422 3.390135 GTTCACCACTCGTCTGAATTCA 58.610 45.455 8.12 8.12 0.00 2.57
2287 2423 3.961480 TCACCACTCGTCTGAATTCAT 57.039 42.857 8.96 0.00 0.00 2.57
2288 2424 3.588955 TCACCACTCGTCTGAATTCATG 58.411 45.455 8.96 3.03 0.00 3.07
2289 2425 3.258123 TCACCACTCGTCTGAATTCATGA 59.742 43.478 8.96 6.08 0.00 3.07
2290 2426 4.081476 TCACCACTCGTCTGAATTCATGAT 60.081 41.667 8.96 0.00 0.00 2.45
2291 2427 5.127031 TCACCACTCGTCTGAATTCATGATA 59.873 40.000 8.96 1.80 0.00 2.15
2292 2428 5.812127 CACCACTCGTCTGAATTCATGATAA 59.188 40.000 8.96 1.53 0.00 1.75
2293 2429 5.812642 ACCACTCGTCTGAATTCATGATAAC 59.187 40.000 8.96 2.36 0.00 1.89
2294 2430 6.045318 CCACTCGTCTGAATTCATGATAACT 58.955 40.000 8.96 0.00 0.00 2.24
2295 2431 6.019237 CCACTCGTCTGAATTCATGATAACTG 60.019 42.308 8.96 0.00 0.00 3.16
2296 2432 6.753744 CACTCGTCTGAATTCATGATAACTGA 59.246 38.462 8.96 0.00 0.00 3.41
2297 2433 7.276438 CACTCGTCTGAATTCATGATAACTGAA 59.724 37.037 8.96 0.00 37.06 3.02
2298 2434 7.490725 ACTCGTCTGAATTCATGATAACTGAAG 59.509 37.037 8.96 2.95 36.16 3.02
2299 2435 7.547227 TCGTCTGAATTCATGATAACTGAAGA 58.453 34.615 8.96 5.25 36.16 2.87
2300 2436 7.704047 TCGTCTGAATTCATGATAACTGAAGAG 59.296 37.037 8.96 0.00 36.16 2.85
2301 2437 7.704047 CGTCTGAATTCATGATAACTGAAGAGA 59.296 37.037 8.96 0.00 36.16 3.10
2302 2438 9.545105 GTCTGAATTCATGATAACTGAAGAGAT 57.455 33.333 8.96 0.00 36.16 2.75
2307 2443 9.842775 AATTCATGATAACTGAAGAGATAAGCA 57.157 29.630 0.00 0.00 36.16 3.91
2308 2444 8.654230 TTCATGATAACTGAAGAGATAAGCAC 57.346 34.615 0.00 0.00 0.00 4.40
2309 2445 6.920210 TCATGATAACTGAAGAGATAAGCACG 59.080 38.462 0.00 0.00 0.00 5.34
2310 2446 5.592054 TGATAACTGAAGAGATAAGCACGG 58.408 41.667 0.00 0.00 0.00 4.94
2311 2447 3.963428 AACTGAAGAGATAAGCACGGT 57.037 42.857 0.00 0.00 0.00 4.83
2312 2448 3.963428 ACTGAAGAGATAAGCACGGTT 57.037 42.857 0.00 0.00 0.00 4.44
2313 2449 3.589988 ACTGAAGAGATAAGCACGGTTG 58.410 45.455 0.00 0.00 0.00 3.77
2323 2459 2.048316 CACGGTTGCAATTGCCCC 60.048 61.111 26.94 23.44 41.18 5.80
2324 2460 3.310307 ACGGTTGCAATTGCCCCC 61.310 61.111 26.94 23.10 41.18 5.40
2325 2461 3.309506 CGGTTGCAATTGCCCCCA 61.310 61.111 26.94 6.00 41.18 4.96
2326 2462 2.876945 CGGTTGCAATTGCCCCCAA 61.877 57.895 26.94 12.14 41.18 4.12
2327 2463 1.453669 GGTTGCAATTGCCCCCAAA 59.546 52.632 26.94 11.76 41.18 3.28
2328 2464 0.179006 GGTTGCAATTGCCCCCAAAA 60.179 50.000 26.94 11.03 41.18 2.44
2329 2465 1.685148 GTTGCAATTGCCCCCAAAAA 58.315 45.000 26.94 10.29 41.18 1.94
2330 2466 2.237643 GTTGCAATTGCCCCCAAAAAT 58.762 42.857 26.94 0.00 41.18 1.82
2331 2467 2.197283 TGCAATTGCCCCCAAAAATC 57.803 45.000 26.94 0.00 41.18 2.17
2332 2468 1.704070 TGCAATTGCCCCCAAAAATCT 59.296 42.857 26.94 0.00 41.18 2.40
2333 2469 2.909006 TGCAATTGCCCCCAAAAATCTA 59.091 40.909 26.94 0.87 41.18 1.98
2334 2470 3.522750 TGCAATTGCCCCCAAAAATCTAT 59.477 39.130 26.94 0.00 41.18 1.98
2335 2471 3.878699 GCAATTGCCCCCAAAAATCTATG 59.121 43.478 20.06 0.00 34.05 2.23
2336 2472 3.843893 ATTGCCCCCAAAAATCTATGC 57.156 42.857 0.00 0.00 34.05 3.14
2337 2473 1.110442 TGCCCCCAAAAATCTATGCG 58.890 50.000 0.00 0.00 0.00 4.73
2338 2474 1.341482 TGCCCCCAAAAATCTATGCGA 60.341 47.619 0.00 0.00 0.00 5.10
2339 2475 1.754226 GCCCCCAAAAATCTATGCGAA 59.246 47.619 0.00 0.00 0.00 4.70
2340 2476 2.167487 GCCCCCAAAAATCTATGCGAAA 59.833 45.455 0.00 0.00 0.00 3.46
2341 2477 3.368948 GCCCCCAAAAATCTATGCGAAAA 60.369 43.478 0.00 0.00 0.00 2.29
2342 2478 4.826556 CCCCCAAAAATCTATGCGAAAAA 58.173 39.130 0.00 0.00 0.00 1.94
2343 2479 5.427378 CCCCCAAAAATCTATGCGAAAAAT 58.573 37.500 0.00 0.00 0.00 1.82
2344 2480 5.879777 CCCCCAAAAATCTATGCGAAAAATT 59.120 36.000 0.00 0.00 0.00 1.82
2345 2481 6.183360 CCCCCAAAAATCTATGCGAAAAATTG 60.183 38.462 0.00 0.00 0.00 2.32
2346 2482 6.183360 CCCCAAAAATCTATGCGAAAAATTGG 60.183 38.462 0.00 0.00 34.73 3.16
2347 2483 6.593382 CCCAAAAATCTATGCGAAAAATTGGA 59.407 34.615 0.00 0.00 36.55 3.53
2348 2484 7.201548 CCCAAAAATCTATGCGAAAAATTGGAG 60.202 37.037 0.00 0.00 36.55 3.86
2349 2485 7.331687 CCAAAAATCTATGCGAAAAATTGGAGT 59.668 33.333 0.00 0.00 36.55 3.85
2350 2486 8.711457 CAAAAATCTATGCGAAAAATTGGAGTT 58.289 29.630 0.00 0.00 0.00 3.01
2351 2487 8.831715 AAAATCTATGCGAAAAATTGGAGTTT 57.168 26.923 0.00 0.00 0.00 2.66
2352 2488 9.921637 AAAATCTATGCGAAAAATTGGAGTTTA 57.078 25.926 0.00 0.00 0.00 2.01
2359 2495 8.696410 TGCGAAAAATTGGAGTTTATTTATCC 57.304 30.769 0.00 0.00 0.00 2.59
2360 2496 8.307483 TGCGAAAAATTGGAGTTTATTTATCCA 58.693 29.630 0.00 0.00 41.33 3.41
2361 2497 8.592155 GCGAAAAATTGGAGTTTATTTATCCAC 58.408 33.333 0.00 0.00 42.72 4.02
2362 2498 9.632807 CGAAAAATTGGAGTTTATTTATCCACA 57.367 29.630 0.00 0.00 42.72 4.17
2367 2503 9.927668 AATTGGAGTTTATTTATCCACAAGTTG 57.072 29.630 0.00 0.00 42.72 3.16
2368 2504 8.698973 TTGGAGTTTATTTATCCACAAGTTGA 57.301 30.769 10.54 0.00 42.72 3.18
2369 2505 8.106247 TGGAGTTTATTTATCCACAAGTTGAC 57.894 34.615 10.54 0.00 38.19 3.18
2370 2506 7.942341 TGGAGTTTATTTATCCACAAGTTGACT 59.058 33.333 10.54 0.00 38.19 3.41
2371 2507 9.444600 GGAGTTTATTTATCCACAAGTTGACTA 57.555 33.333 10.54 0.00 33.08 2.59
2373 2509 9.449719 AGTTTATTTATCCACAAGTTGACTAGG 57.550 33.333 10.54 6.02 0.00 3.02
2374 2510 7.859325 TTATTTATCCACAAGTTGACTAGGC 57.141 36.000 10.54 0.00 0.00 3.93
2375 2511 5.499004 TTTATCCACAAGTTGACTAGGCT 57.501 39.130 10.54 0.00 0.00 4.58
2376 2512 2.839486 TCCACAAGTTGACTAGGCTG 57.161 50.000 10.54 0.00 0.00 4.85
2377 2513 2.047061 TCCACAAGTTGACTAGGCTGT 58.953 47.619 10.54 0.00 0.00 4.40
2378 2514 2.146342 CCACAAGTTGACTAGGCTGTG 58.854 52.381 10.54 8.40 0.00 3.66
2379 2515 2.224281 CCACAAGTTGACTAGGCTGTGA 60.224 50.000 15.44 0.00 0.00 3.58
2380 2516 3.557898 CCACAAGTTGACTAGGCTGTGAT 60.558 47.826 15.44 0.00 0.00 3.06
2381 2517 4.067896 CACAAGTTGACTAGGCTGTGATT 58.932 43.478 10.54 0.00 0.00 2.57
2382 2518 5.237815 CACAAGTTGACTAGGCTGTGATTA 58.762 41.667 10.54 0.00 0.00 1.75
2383 2519 5.877012 CACAAGTTGACTAGGCTGTGATTAT 59.123 40.000 10.54 0.00 0.00 1.28
2384 2520 5.877012 ACAAGTTGACTAGGCTGTGATTATG 59.123 40.000 10.54 0.00 0.00 1.90
2385 2521 5.683876 AGTTGACTAGGCTGTGATTATGT 57.316 39.130 0.00 0.00 0.00 2.29
2386 2522 6.791867 AGTTGACTAGGCTGTGATTATGTA 57.208 37.500 0.00 0.00 0.00 2.29
2387 2523 7.366847 AGTTGACTAGGCTGTGATTATGTAT 57.633 36.000 0.00 0.00 0.00 2.29
2388 2524 7.437748 AGTTGACTAGGCTGTGATTATGTATC 58.562 38.462 0.00 0.00 0.00 2.24
2389 2525 7.288852 AGTTGACTAGGCTGTGATTATGTATCT 59.711 37.037 0.00 0.00 34.17 1.98
2390 2526 6.986250 TGACTAGGCTGTGATTATGTATCTG 58.014 40.000 0.00 0.00 34.17 2.90
2391 2527 6.015095 TGACTAGGCTGTGATTATGTATCTGG 60.015 42.308 0.00 0.00 34.17 3.86
2392 2528 6.077993 ACTAGGCTGTGATTATGTATCTGGA 58.922 40.000 0.00 0.00 34.17 3.86
2393 2529 5.220710 AGGCTGTGATTATGTATCTGGAC 57.779 43.478 0.00 0.00 34.17 4.02
2394 2530 4.904251 AGGCTGTGATTATGTATCTGGACT 59.096 41.667 0.00 0.00 34.17 3.85
2395 2531 5.367937 AGGCTGTGATTATGTATCTGGACTT 59.632 40.000 0.00 0.00 34.17 3.01
2396 2532 5.698545 GGCTGTGATTATGTATCTGGACTTC 59.301 44.000 0.00 0.00 34.17 3.01
2397 2533 6.463614 GGCTGTGATTATGTATCTGGACTTCT 60.464 42.308 0.00 0.00 34.17 2.85
2398 2534 6.423302 GCTGTGATTATGTATCTGGACTTCTG 59.577 42.308 0.00 0.00 34.17 3.02
2399 2535 6.820335 TGTGATTATGTATCTGGACTTCTGG 58.180 40.000 0.00 0.00 34.17 3.86
2400 2536 6.384015 TGTGATTATGTATCTGGACTTCTGGT 59.616 38.462 0.00 0.00 34.17 4.00
2401 2537 7.092891 TGTGATTATGTATCTGGACTTCTGGTT 60.093 37.037 0.00 0.00 34.17 3.67
2402 2538 7.439655 GTGATTATGTATCTGGACTTCTGGTTC 59.560 40.741 0.00 0.00 34.17 3.62
2403 2539 7.345653 TGATTATGTATCTGGACTTCTGGTTCT 59.654 37.037 0.00 0.00 34.17 3.01
2404 2540 5.606348 ATGTATCTGGACTTCTGGTTCTC 57.394 43.478 0.00 0.00 0.00 2.87
2405 2541 4.416516 TGTATCTGGACTTCTGGTTCTCA 58.583 43.478 0.00 0.00 0.00 3.27
2406 2542 4.838423 TGTATCTGGACTTCTGGTTCTCAA 59.162 41.667 0.00 0.00 0.00 3.02
2407 2543 5.485353 TGTATCTGGACTTCTGGTTCTCAAT 59.515 40.000 0.00 0.00 0.00 2.57
2408 2544 4.982241 TCTGGACTTCTGGTTCTCAATT 57.018 40.909 0.00 0.00 0.00 2.32
2409 2545 4.645535 TCTGGACTTCTGGTTCTCAATTG 58.354 43.478 0.00 0.00 0.00 2.32
2410 2546 4.347876 TCTGGACTTCTGGTTCTCAATTGA 59.652 41.667 8.12 8.12 0.00 2.57
2411 2547 5.013495 TCTGGACTTCTGGTTCTCAATTGAT 59.987 40.000 8.96 0.00 0.00 2.57
2412 2548 5.634118 TGGACTTCTGGTTCTCAATTGATT 58.366 37.500 8.96 0.00 0.00 2.57
2413 2549 6.778821 TGGACTTCTGGTTCTCAATTGATTA 58.221 36.000 8.96 0.00 0.00 1.75
2414 2550 7.230747 TGGACTTCTGGTTCTCAATTGATTAA 58.769 34.615 8.96 3.99 0.00 1.40
2415 2551 7.723616 TGGACTTCTGGTTCTCAATTGATTAAA 59.276 33.333 8.96 1.45 0.00 1.52
2416 2552 8.023706 GGACTTCTGGTTCTCAATTGATTAAAC 58.976 37.037 8.96 12.96 0.00 2.01
2417 2553 8.463930 ACTTCTGGTTCTCAATTGATTAAACA 57.536 30.769 20.80 18.72 0.00 2.83
2418 2554 8.352942 ACTTCTGGTTCTCAATTGATTAAACAC 58.647 33.333 20.80 14.33 0.00 3.32
2419 2555 8.463930 TTCTGGTTCTCAATTGATTAAACACT 57.536 30.769 20.80 0.00 0.00 3.55
2420 2556 8.099364 TCTGGTTCTCAATTGATTAAACACTC 57.901 34.615 20.80 10.71 0.00 3.51
2421 2557 7.719193 TCTGGTTCTCAATTGATTAAACACTCA 59.281 33.333 20.80 13.25 0.00 3.41
2422 2558 8.231692 TGGTTCTCAATTGATTAAACACTCAA 57.768 30.769 20.80 0.00 35.95 3.02
2423 2559 8.859090 TGGTTCTCAATTGATTAAACACTCAAT 58.141 29.630 20.80 0.00 42.41 2.57
2436 2572 8.958175 TTAAACACTCAATAAGTATTTTGGCG 57.042 30.769 0.00 0.00 36.11 5.69
2437 2573 4.981794 ACACTCAATAAGTATTTTGGCGC 58.018 39.130 0.00 0.00 36.07 6.53
2438 2574 4.457603 ACACTCAATAAGTATTTTGGCGCA 59.542 37.500 10.83 0.00 36.07 6.09
2439 2575 5.048364 ACACTCAATAAGTATTTTGGCGCAA 60.048 36.000 10.83 0.00 36.07 4.85
2440 2576 5.861251 CACTCAATAAGTATTTTGGCGCAAA 59.139 36.000 10.83 0.00 36.07 3.68
2441 2577 6.531240 CACTCAATAAGTATTTTGGCGCAAAT 59.469 34.615 10.83 10.43 36.07 2.32
2442 2578 6.531240 ACTCAATAAGTATTTTGGCGCAAATG 59.469 34.615 10.83 0.00 36.07 2.32
2443 2579 5.290643 TCAATAAGTATTTTGGCGCAAATGC 59.709 36.000 10.83 11.34 33.19 3.56
2444 2580 2.739885 AGTATTTTGGCGCAAATGCA 57.260 40.000 18.65 2.06 42.21 3.96
2445 2581 3.037431 AGTATTTTGGCGCAAATGCAA 57.963 38.095 18.65 7.77 42.21 4.08
2446 2582 3.397482 AGTATTTTGGCGCAAATGCAAA 58.603 36.364 18.65 12.62 42.21 3.68
2447 2583 3.812053 AGTATTTTGGCGCAAATGCAAAA 59.188 34.783 19.11 19.11 42.21 2.44
2448 2584 3.919223 ATTTTGGCGCAAATGCAAAAT 57.081 33.333 21.16 21.16 37.60 1.82
2449 2585 5.641209 AGTATTTTGGCGCAAATGCAAAATA 59.359 32.000 24.85 24.85 37.60 1.40
2450 2586 4.818534 TTTTGGCGCAAATGCAAAATAA 57.181 31.818 10.83 0.00 37.60 1.40
2451 2587 5.368256 TTTTGGCGCAAATGCAAAATAAT 57.632 30.435 10.83 0.00 37.60 1.28
2452 2588 6.486253 TTTTGGCGCAAATGCAAAATAATA 57.514 29.167 10.83 0.00 37.60 0.98
2453 2589 5.462034 TTGGCGCAAATGCAAAATAATAC 57.538 34.783 10.83 0.00 42.21 1.89
2454 2590 4.753233 TGGCGCAAATGCAAAATAATACT 58.247 34.783 10.83 0.00 42.21 2.12
2455 2591 4.803088 TGGCGCAAATGCAAAATAATACTC 59.197 37.500 10.83 0.00 42.21 2.59
2456 2592 4.803088 GGCGCAAATGCAAAATAATACTCA 59.197 37.500 10.83 0.00 42.21 3.41
2457 2593 5.051508 GGCGCAAATGCAAAATAATACTCAG 60.052 40.000 10.83 0.00 42.21 3.35
2458 2594 5.555069 GCGCAAATGCAAAATAATACTCAGC 60.555 40.000 0.30 0.00 42.21 4.26
2459 2595 5.051508 CGCAAATGCAAAATAATACTCAGCC 60.052 40.000 6.18 0.00 42.21 4.85
2460 2596 6.044682 GCAAATGCAAAATAATACTCAGCCT 58.955 36.000 0.00 0.00 41.59 4.58
2461 2597 6.199719 GCAAATGCAAAATAATACTCAGCCTC 59.800 38.462 0.00 0.00 41.59 4.70
2462 2598 7.259882 CAAATGCAAAATAATACTCAGCCTCA 58.740 34.615 0.00 0.00 0.00 3.86
2463 2599 6.630444 ATGCAAAATAATACTCAGCCTCAG 57.370 37.500 0.00 0.00 0.00 3.35
2464 2600 4.336433 TGCAAAATAATACTCAGCCTCAGC 59.664 41.667 0.00 0.00 40.32 4.26
2465 2601 4.261363 GCAAAATAATACTCAGCCTCAGCC 60.261 45.833 0.00 0.00 41.25 4.85
2466 2602 3.393089 AATAATACTCAGCCTCAGCCG 57.607 47.619 0.00 0.00 41.25 5.52
2467 2603 1.776662 TAATACTCAGCCTCAGCCGT 58.223 50.000 0.00 0.00 41.25 5.68
2468 2604 0.176680 AATACTCAGCCTCAGCCGTG 59.823 55.000 0.00 0.00 41.25 4.94
2469 2605 0.684479 ATACTCAGCCTCAGCCGTGA 60.684 55.000 0.00 0.00 41.25 4.35
2476 2612 4.291047 CTCAGCCGTGAGCAATGT 57.709 55.556 0.00 0.00 43.89 2.71
2477 2613 2.548178 CTCAGCCGTGAGCAATGTT 58.452 52.632 0.00 0.00 43.89 2.71
2478 2614 1.725641 CTCAGCCGTGAGCAATGTTA 58.274 50.000 0.00 0.00 43.89 2.41
2479 2615 2.283298 CTCAGCCGTGAGCAATGTTAT 58.717 47.619 0.00 0.00 43.89 1.89
2480 2616 2.679837 CTCAGCCGTGAGCAATGTTATT 59.320 45.455 0.00 0.00 43.89 1.40
2481 2617 3.486375 CTCAGCCGTGAGCAATGTTATTG 60.486 47.826 0.00 0.00 43.89 1.90
2482 2618 1.548986 GCCGTGAGCAATGTTATTGC 58.451 50.000 16.48 16.48 45.22 3.56
2490 2626 2.533266 GCAATGTTATTGCTGCTGTCC 58.467 47.619 16.83 0.00 41.87 4.02
2491 2627 2.736400 GCAATGTTATTGCTGCTGTCCC 60.736 50.000 16.83 0.00 41.87 4.46
2492 2628 2.492881 CAATGTTATTGCTGCTGTCCCA 59.507 45.455 0.00 0.00 0.00 4.37
2493 2629 1.825090 TGTTATTGCTGCTGTCCCAG 58.175 50.000 0.00 0.00 35.93 4.45
2502 2638 2.357517 CTGTCCCAGCGACACCAC 60.358 66.667 0.00 0.00 46.80 4.16
2503 2639 3.883744 CTGTCCCAGCGACACCACC 62.884 68.421 0.00 0.00 46.80 4.61
2504 2640 4.699522 GTCCCAGCGACACCACCC 62.700 72.222 0.00 0.00 41.54 4.61
2507 2643 4.248842 CCAGCGACACCACCCACA 62.249 66.667 0.00 0.00 0.00 4.17
2508 2644 2.032528 CAGCGACACCACCCACAT 59.967 61.111 0.00 0.00 0.00 3.21
2509 2645 1.600636 CAGCGACACCACCCACATT 60.601 57.895 0.00 0.00 0.00 2.71
2510 2646 1.302511 AGCGACACCACCCACATTC 60.303 57.895 0.00 0.00 0.00 2.67
2511 2647 1.302511 GCGACACCACCCACATTCT 60.303 57.895 0.00 0.00 0.00 2.40
2512 2648 0.889186 GCGACACCACCCACATTCTT 60.889 55.000 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 4.053469 ACAAACTTCCACCGATTTTTGG 57.947 40.909 0.00 0.00 29.97 3.28
166 167 0.109723 CCGGGTTCCAAGTTTCCTCA 59.890 55.000 0.00 0.00 0.00 3.86
305 306 7.875971 AGGATTACAAGATCAAGTTTCAACAC 58.124 34.615 0.00 0.00 0.00 3.32
350 351 9.699410 TCAATTCAAATAGAGGGATTACAACAT 57.301 29.630 0.00 0.00 0.00 2.71
434 435 9.533253 GCTACAATATAAACATTCCAGCAATTT 57.467 29.630 0.00 0.00 0.00 1.82
533 620 2.630098 ACATGATAGCAGACATAGGCGT 59.370 45.455 0.00 0.00 34.54 5.68
1246 1367 6.601332 TGTTAACCTGGATTGAGTCTTCTTT 58.399 36.000 0.00 0.00 0.00 2.52
1341 1462 4.076394 GGTCCATTACAGCCTTGTACAAA 58.924 43.478 10.03 0.00 39.44 2.83
1412 1533 8.950007 ATTAAGGTCTTTTCCCTTATGTTCAA 57.050 30.769 0.00 0.00 42.58 2.69
1517 1638 5.181690 TCTCAAAATGCACCAACTAACAC 57.818 39.130 0.00 0.00 0.00 3.32
1765 1895 8.007716 CAGAAAGAATGAACATGTGAAAATTGC 58.992 33.333 0.00 0.00 0.00 3.56
1789 1919 2.061773 ACGACATCTTCTCGCAAACAG 58.938 47.619 0.00 0.00 34.34 3.16
2051 2187 7.393234 ACATTGCTAGGCTTATACTTTGTTTGA 59.607 33.333 0.00 0.00 0.00 2.69
2062 2198 3.455910 TGTCAGGACATTGCTAGGCTTAT 59.544 43.478 0.00 0.00 36.21 1.73
2069 2205 5.604565 CATGTATCTGTCAGGACATTGCTA 58.395 41.667 14.96 0.00 41.01 3.49
2074 2210 4.039730 GGTAGCATGTATCTGTCAGGACAT 59.960 45.833 12.84 12.84 41.01 3.06
2251 2387 3.634910 GTGGTGAACCTTAGAGCCAAAAA 59.365 43.478 0.37 0.00 36.82 1.94
2252 2388 3.117663 AGTGGTGAACCTTAGAGCCAAAA 60.118 43.478 0.37 0.00 36.82 2.44
2253 2389 2.441750 AGTGGTGAACCTTAGAGCCAAA 59.558 45.455 0.37 0.00 36.82 3.28
2254 2390 2.038557 GAGTGGTGAACCTTAGAGCCAA 59.961 50.000 0.37 0.00 36.82 4.52
2255 2391 1.623811 GAGTGGTGAACCTTAGAGCCA 59.376 52.381 0.37 0.00 36.82 4.75
2256 2392 1.404315 CGAGTGGTGAACCTTAGAGCC 60.404 57.143 0.37 0.00 36.82 4.70
2257 2393 1.272769 ACGAGTGGTGAACCTTAGAGC 59.727 52.381 0.37 0.00 36.82 4.09
2258 2394 2.820787 AGACGAGTGGTGAACCTTAGAG 59.179 50.000 0.37 0.00 36.82 2.43
2259 2395 2.557056 CAGACGAGTGGTGAACCTTAGA 59.443 50.000 0.37 0.00 36.82 2.10
2260 2396 2.557056 TCAGACGAGTGGTGAACCTTAG 59.443 50.000 0.37 0.00 36.82 2.18
2261 2397 2.589720 TCAGACGAGTGGTGAACCTTA 58.410 47.619 0.37 0.00 36.82 2.69
2262 2398 1.410004 TCAGACGAGTGGTGAACCTT 58.590 50.000 0.37 0.00 36.82 3.50
2263 2399 1.410004 TTCAGACGAGTGGTGAACCT 58.590 50.000 0.37 0.00 36.82 3.50
2264 2400 2.457366 ATTCAGACGAGTGGTGAACC 57.543 50.000 0.00 0.00 33.16 3.62
2265 2401 3.390135 TGAATTCAGACGAGTGGTGAAC 58.610 45.455 3.38 0.00 33.16 3.18
2266 2402 3.744238 TGAATTCAGACGAGTGGTGAA 57.256 42.857 3.38 1.54 34.79 3.18
2267 2403 3.258123 TCATGAATTCAGACGAGTGGTGA 59.742 43.478 14.54 6.41 0.00 4.02
2268 2404 3.588955 TCATGAATTCAGACGAGTGGTG 58.411 45.455 14.54 4.07 0.00 4.17
2269 2405 3.961480 TCATGAATTCAGACGAGTGGT 57.039 42.857 14.54 0.00 0.00 4.16
2270 2406 6.019237 CAGTTATCATGAATTCAGACGAGTGG 60.019 42.308 14.54 0.00 0.00 4.00
2271 2407 6.753744 TCAGTTATCATGAATTCAGACGAGTG 59.246 38.462 14.54 13.95 0.00 3.51
2272 2408 6.867550 TCAGTTATCATGAATTCAGACGAGT 58.132 36.000 14.54 4.69 0.00 4.18
2273 2409 7.704047 TCTTCAGTTATCATGAATTCAGACGAG 59.296 37.037 14.54 1.80 36.16 4.18
2274 2410 7.547227 TCTTCAGTTATCATGAATTCAGACGA 58.453 34.615 14.54 10.42 36.16 4.20
2275 2411 7.704047 TCTCTTCAGTTATCATGAATTCAGACG 59.296 37.037 14.54 5.22 36.16 4.18
2276 2412 8.939201 TCTCTTCAGTTATCATGAATTCAGAC 57.061 34.615 14.54 7.30 36.16 3.51
2281 2417 9.842775 TGCTTATCTCTTCAGTTATCATGAATT 57.157 29.630 0.00 0.00 36.16 2.17
2282 2418 9.270640 GTGCTTATCTCTTCAGTTATCATGAAT 57.729 33.333 0.00 0.00 36.16 2.57
2283 2419 7.436376 CGTGCTTATCTCTTCAGTTATCATGAA 59.564 37.037 0.00 0.00 35.45 2.57
2284 2420 6.920210 CGTGCTTATCTCTTCAGTTATCATGA 59.080 38.462 0.00 0.00 0.00 3.07
2285 2421 6.145209 CCGTGCTTATCTCTTCAGTTATCATG 59.855 42.308 0.00 0.00 0.00 3.07
2286 2422 6.183360 ACCGTGCTTATCTCTTCAGTTATCAT 60.183 38.462 0.00 0.00 0.00 2.45
2287 2423 5.127194 ACCGTGCTTATCTCTTCAGTTATCA 59.873 40.000 0.00 0.00 0.00 2.15
2288 2424 5.593010 ACCGTGCTTATCTCTTCAGTTATC 58.407 41.667 0.00 0.00 0.00 1.75
2289 2425 5.599999 ACCGTGCTTATCTCTTCAGTTAT 57.400 39.130 0.00 0.00 0.00 1.89
2290 2426 5.168569 CAACCGTGCTTATCTCTTCAGTTA 58.831 41.667 0.00 0.00 0.00 2.24
2291 2427 3.963428 ACCGTGCTTATCTCTTCAGTT 57.037 42.857 0.00 0.00 0.00 3.16
2292 2428 3.589988 CAACCGTGCTTATCTCTTCAGT 58.410 45.455 0.00 0.00 0.00 3.41
2306 2442 2.048316 GGGGCAATTGCAACCGTG 60.048 61.111 30.32 1.32 44.36 4.94
2307 2443 3.310307 GGGGGCAATTGCAACCGT 61.310 61.111 30.32 0.00 44.36 4.83
2308 2444 2.388890 TTTGGGGGCAATTGCAACCG 62.389 55.000 30.32 0.00 44.36 4.44
2309 2445 0.179006 TTTTGGGGGCAATTGCAACC 60.179 50.000 30.32 28.29 44.36 3.77
2310 2446 1.685148 TTTTTGGGGGCAATTGCAAC 58.315 45.000 30.32 21.69 44.36 4.17
2311 2447 2.107901 AGATTTTTGGGGGCAATTGCAA 59.892 40.909 30.32 15.21 44.36 4.08
2312 2448 1.704070 AGATTTTTGGGGGCAATTGCA 59.296 42.857 30.32 8.47 44.36 4.08
2313 2449 2.495155 AGATTTTTGGGGGCAATTGC 57.505 45.000 22.47 22.47 41.14 3.56
2314 2450 3.878699 GCATAGATTTTTGGGGGCAATTG 59.121 43.478 0.00 0.00 0.00 2.32
2315 2451 3.432046 CGCATAGATTTTTGGGGGCAATT 60.432 43.478 0.00 0.00 0.00 2.32
2316 2452 2.102925 CGCATAGATTTTTGGGGGCAAT 59.897 45.455 0.00 0.00 0.00 3.56
2317 2453 1.480137 CGCATAGATTTTTGGGGGCAA 59.520 47.619 0.00 0.00 0.00 4.52
2318 2454 1.110442 CGCATAGATTTTTGGGGGCA 58.890 50.000 0.00 0.00 0.00 5.36
2319 2455 1.398692 TCGCATAGATTTTTGGGGGC 58.601 50.000 0.00 0.00 0.00 5.80
2320 2456 4.464069 TTTTCGCATAGATTTTTGGGGG 57.536 40.909 0.00 0.00 0.00 5.40
2321 2457 6.183360 CCAATTTTTCGCATAGATTTTTGGGG 60.183 38.462 0.00 0.00 0.00 4.96
2322 2458 6.593382 TCCAATTTTTCGCATAGATTTTTGGG 59.407 34.615 0.00 0.00 32.65 4.12
2323 2459 7.331687 ACTCCAATTTTTCGCATAGATTTTTGG 59.668 33.333 0.00 0.00 32.98 3.28
2324 2460 8.243289 ACTCCAATTTTTCGCATAGATTTTTG 57.757 30.769 0.00 0.00 0.00 2.44
2325 2461 8.831715 AACTCCAATTTTTCGCATAGATTTTT 57.168 26.923 0.00 0.00 0.00 1.94
2326 2462 8.831715 AAACTCCAATTTTTCGCATAGATTTT 57.168 26.923 0.00 0.00 0.00 1.82
2333 2469 9.313118 GGATAAATAAACTCCAATTTTTCGCAT 57.687 29.630 0.00 0.00 29.22 4.73
2334 2470 8.307483 TGGATAAATAAACTCCAATTTTTCGCA 58.693 29.630 0.00 0.00 36.15 5.10
2335 2471 8.592155 GTGGATAAATAAACTCCAATTTTTCGC 58.408 33.333 0.00 0.00 40.61 4.70
2336 2472 9.632807 TGTGGATAAATAAACTCCAATTTTTCG 57.367 29.630 0.00 0.00 40.61 3.46
2341 2477 9.927668 CAACTTGTGGATAAATAAACTCCAATT 57.072 29.630 0.00 0.00 40.61 2.32
2342 2478 9.308000 TCAACTTGTGGATAAATAAACTCCAAT 57.692 29.630 0.00 0.00 40.61 3.16
2343 2479 8.573035 GTCAACTTGTGGATAAATAAACTCCAA 58.427 33.333 0.00 0.00 40.61 3.53
2344 2480 7.942341 AGTCAACTTGTGGATAAATAAACTCCA 59.058 33.333 0.00 0.00 36.73 3.86
2345 2481 8.336801 AGTCAACTTGTGGATAAATAAACTCC 57.663 34.615 0.00 0.00 0.00 3.85
2347 2483 9.449719 CCTAGTCAACTTGTGGATAAATAAACT 57.550 33.333 0.00 0.00 0.00 2.66
2348 2484 8.182227 GCCTAGTCAACTTGTGGATAAATAAAC 58.818 37.037 0.00 0.00 0.00 2.01
2349 2485 8.107095 AGCCTAGTCAACTTGTGGATAAATAAA 58.893 33.333 0.00 0.00 0.00 1.40
2350 2486 7.552687 CAGCCTAGTCAACTTGTGGATAAATAA 59.447 37.037 0.00 0.00 0.00 1.40
2351 2487 7.047891 CAGCCTAGTCAACTTGTGGATAAATA 58.952 38.462 0.00 0.00 0.00 1.40
2352 2488 5.882557 CAGCCTAGTCAACTTGTGGATAAAT 59.117 40.000 0.00 0.00 0.00 1.40
2353 2489 5.221843 ACAGCCTAGTCAACTTGTGGATAAA 60.222 40.000 0.00 0.00 0.00 1.40
2354 2490 4.286032 ACAGCCTAGTCAACTTGTGGATAA 59.714 41.667 0.00 0.00 0.00 1.75
2355 2491 3.838317 ACAGCCTAGTCAACTTGTGGATA 59.162 43.478 0.00 0.00 0.00 2.59
2356 2492 2.639839 ACAGCCTAGTCAACTTGTGGAT 59.360 45.455 0.00 0.00 0.00 3.41
2357 2493 2.047061 ACAGCCTAGTCAACTTGTGGA 58.953 47.619 0.00 0.00 0.00 4.02
2358 2494 2.146342 CACAGCCTAGTCAACTTGTGG 58.854 52.381 5.25 0.43 0.00 4.17
2359 2495 3.111853 TCACAGCCTAGTCAACTTGTG 57.888 47.619 6.42 6.42 0.00 3.33
2360 2496 4.357918 AATCACAGCCTAGTCAACTTGT 57.642 40.909 0.00 0.00 0.00 3.16
2361 2497 5.877012 ACATAATCACAGCCTAGTCAACTTG 59.123 40.000 0.00 0.00 0.00 3.16
2362 2498 6.054860 ACATAATCACAGCCTAGTCAACTT 57.945 37.500 0.00 0.00 0.00 2.66
2363 2499 5.683876 ACATAATCACAGCCTAGTCAACT 57.316 39.130 0.00 0.00 0.00 3.16
2364 2500 7.383572 CAGATACATAATCACAGCCTAGTCAAC 59.616 40.741 0.00 0.00 37.03 3.18
2365 2501 7.436933 CAGATACATAATCACAGCCTAGTCAA 58.563 38.462 0.00 0.00 37.03 3.18
2366 2502 6.015095 CCAGATACATAATCACAGCCTAGTCA 60.015 42.308 0.00 0.00 37.03 3.41
2367 2503 6.209589 TCCAGATACATAATCACAGCCTAGTC 59.790 42.308 0.00 0.00 37.03 2.59
2368 2504 6.015010 GTCCAGATACATAATCACAGCCTAGT 60.015 42.308 0.00 0.00 37.03 2.57
2369 2505 6.210385 AGTCCAGATACATAATCACAGCCTAG 59.790 42.308 0.00 0.00 37.03 3.02
2370 2506 6.077993 AGTCCAGATACATAATCACAGCCTA 58.922 40.000 0.00 0.00 37.03 3.93
2371 2507 4.904251 AGTCCAGATACATAATCACAGCCT 59.096 41.667 0.00 0.00 37.03 4.58
2372 2508 5.220710 AGTCCAGATACATAATCACAGCC 57.779 43.478 0.00 0.00 37.03 4.85
2373 2509 6.423302 CAGAAGTCCAGATACATAATCACAGC 59.577 42.308 0.00 0.00 37.03 4.40
2374 2510 6.927936 CCAGAAGTCCAGATACATAATCACAG 59.072 42.308 0.00 0.00 37.03 3.66
2375 2511 6.384015 ACCAGAAGTCCAGATACATAATCACA 59.616 38.462 0.00 0.00 37.03 3.58
2376 2512 6.821388 ACCAGAAGTCCAGATACATAATCAC 58.179 40.000 0.00 0.00 37.03 3.06
2377 2513 7.345653 AGAACCAGAAGTCCAGATACATAATCA 59.654 37.037 0.00 0.00 37.03 2.57
2378 2514 7.731054 AGAACCAGAAGTCCAGATACATAATC 58.269 38.462 0.00 0.00 34.52 1.75
2379 2515 7.345653 TGAGAACCAGAAGTCCAGATACATAAT 59.654 37.037 0.00 0.00 0.00 1.28
2380 2516 6.667848 TGAGAACCAGAAGTCCAGATACATAA 59.332 38.462 0.00 0.00 0.00 1.90
2381 2517 6.194967 TGAGAACCAGAAGTCCAGATACATA 58.805 40.000 0.00 0.00 0.00 2.29
2382 2518 5.026121 TGAGAACCAGAAGTCCAGATACAT 58.974 41.667 0.00 0.00 0.00 2.29
2383 2519 4.416516 TGAGAACCAGAAGTCCAGATACA 58.583 43.478 0.00 0.00 0.00 2.29
2384 2520 5.407407 TTGAGAACCAGAAGTCCAGATAC 57.593 43.478 0.00 0.00 0.00 2.24
2385 2521 6.213397 TCAATTGAGAACCAGAAGTCCAGATA 59.787 38.462 3.38 0.00 0.00 1.98
2386 2522 5.013495 TCAATTGAGAACCAGAAGTCCAGAT 59.987 40.000 3.38 0.00 0.00 2.90
2387 2523 4.347876 TCAATTGAGAACCAGAAGTCCAGA 59.652 41.667 3.38 0.00 0.00 3.86
2388 2524 4.645535 TCAATTGAGAACCAGAAGTCCAG 58.354 43.478 3.38 0.00 0.00 3.86
2389 2525 4.705110 TCAATTGAGAACCAGAAGTCCA 57.295 40.909 3.38 0.00 0.00 4.02
2390 2526 7.687941 TTAATCAATTGAGAACCAGAAGTCC 57.312 36.000 14.54 0.00 0.00 3.85
2391 2527 8.567948 TGTTTAATCAATTGAGAACCAGAAGTC 58.432 33.333 14.54 0.00 0.00 3.01
2392 2528 8.352942 GTGTTTAATCAATTGAGAACCAGAAGT 58.647 33.333 14.54 0.00 0.00 3.01
2393 2529 8.571336 AGTGTTTAATCAATTGAGAACCAGAAG 58.429 33.333 14.54 0.00 0.00 2.85
2394 2530 8.463930 AGTGTTTAATCAATTGAGAACCAGAA 57.536 30.769 14.54 1.22 0.00 3.02
2395 2531 7.719193 TGAGTGTTTAATCAATTGAGAACCAGA 59.281 33.333 14.54 1.53 0.00 3.86
2396 2532 7.874940 TGAGTGTTTAATCAATTGAGAACCAG 58.125 34.615 14.54 0.00 0.00 4.00
2397 2533 7.815840 TGAGTGTTTAATCAATTGAGAACCA 57.184 32.000 14.54 6.65 0.00 3.67
2410 2546 9.567848 CGCCAAAATACTTATTGAGTGTTTAAT 57.432 29.630 4.20 0.00 45.45 1.40
2411 2547 7.539366 GCGCCAAAATACTTATTGAGTGTTTAA 59.461 33.333 0.00 0.00 45.45 1.52
2412 2548 7.024768 GCGCCAAAATACTTATTGAGTGTTTA 58.975 34.615 0.00 0.00 45.45 2.01
2414 2550 5.048364 TGCGCCAAAATACTTATTGAGTGTT 60.048 36.000 4.18 0.00 40.91 3.32
2415 2551 4.457603 TGCGCCAAAATACTTATTGAGTGT 59.542 37.500 4.18 0.00 39.48 3.55
2416 2552 4.980590 TGCGCCAAAATACTTATTGAGTG 58.019 39.130 4.18 0.00 39.48 3.51
2417 2553 5.637006 TTGCGCCAAAATACTTATTGAGT 57.363 34.783 4.18 0.00 42.55 3.41
2418 2554 6.508404 GCATTTGCGCCAAAATACTTATTGAG 60.508 38.462 4.18 0.00 36.90 3.02
2419 2555 5.290643 GCATTTGCGCCAAAATACTTATTGA 59.709 36.000 4.18 0.00 36.90 2.57
2420 2556 5.063186 TGCATTTGCGCCAAAATACTTATTG 59.937 36.000 4.18 0.09 45.83 1.90
2421 2557 5.174395 TGCATTTGCGCCAAAATACTTATT 58.826 33.333 4.18 0.00 45.83 1.40
2422 2558 4.753233 TGCATTTGCGCCAAAATACTTAT 58.247 34.783 4.18 0.00 45.83 1.73
2423 2559 4.179926 TGCATTTGCGCCAAAATACTTA 57.820 36.364 4.18 0.00 45.83 2.24
2424 2560 3.037431 TGCATTTGCGCCAAAATACTT 57.963 38.095 4.18 0.00 45.83 2.24
2425 2561 2.739885 TGCATTTGCGCCAAAATACT 57.260 40.000 4.18 0.00 45.83 2.12
2426 2562 3.802722 TTTGCATTTGCGCCAAAATAC 57.197 38.095 4.18 0.31 45.83 1.89
2427 2563 6.486253 TTATTTTGCATTTGCGCCAAAATA 57.514 29.167 24.85 24.85 45.83 1.40
2428 2564 3.919223 ATTTTGCATTTGCGCCAAAAT 57.081 33.333 21.16 21.16 45.83 1.82
2429 2565 4.818534 TTATTTTGCATTTGCGCCAAAA 57.181 31.818 19.11 19.11 45.83 2.44
2430 2566 5.641209 AGTATTATTTTGCATTTGCGCCAAA 59.359 32.000 4.18 4.63 45.83 3.28
2431 2567 5.174395 AGTATTATTTTGCATTTGCGCCAA 58.826 33.333 4.18 0.00 45.83 4.52
2432 2568 4.753233 AGTATTATTTTGCATTTGCGCCA 58.247 34.783 4.18 0.00 45.83 5.69
2433 2569 4.803088 TGAGTATTATTTTGCATTTGCGCC 59.197 37.500 4.18 0.00 45.83 6.53
2434 2570 5.555069 GCTGAGTATTATTTTGCATTTGCGC 60.555 40.000 0.00 0.00 45.83 6.09
2435 2571 5.051508 GGCTGAGTATTATTTTGCATTTGCG 60.052 40.000 0.00 0.00 45.83 4.85
2436 2572 6.044682 AGGCTGAGTATTATTTTGCATTTGC 58.955 36.000 0.00 0.00 42.50 3.68
2437 2573 7.259882 TGAGGCTGAGTATTATTTTGCATTTG 58.740 34.615 0.00 0.00 0.00 2.32
2438 2574 7.408756 TGAGGCTGAGTATTATTTTGCATTT 57.591 32.000 0.00 0.00 0.00 2.32
2439 2575 6.460676 GCTGAGGCTGAGTATTATTTTGCATT 60.461 38.462 2.20 0.00 35.22 3.56
2440 2576 5.009410 GCTGAGGCTGAGTATTATTTTGCAT 59.991 40.000 2.20 0.00 35.22 3.96
2441 2577 4.336433 GCTGAGGCTGAGTATTATTTTGCA 59.664 41.667 2.20 0.00 35.22 4.08
2442 2578 4.261363 GGCTGAGGCTGAGTATTATTTTGC 60.261 45.833 2.20 0.00 38.73 3.68
2443 2579 5.429957 GGCTGAGGCTGAGTATTATTTTG 57.570 43.478 2.20 0.00 38.73 2.44
2456 2592 2.964310 ATTGCTCACGGCTGAGGCT 61.964 57.895 4.02 0.00 43.90 4.58
2457 2593 2.437359 ATTGCTCACGGCTGAGGC 60.437 61.111 0.00 0.00 43.90 4.70
2458 2594 0.957395 AACATTGCTCACGGCTGAGG 60.957 55.000 0.00 0.00 43.90 3.86
2459 2595 1.725641 TAACATTGCTCACGGCTGAG 58.274 50.000 0.00 0.00 46.17 3.35
2460 2596 2.401583 ATAACATTGCTCACGGCTGA 57.598 45.000 0.00 0.00 42.39 4.26
2461 2597 2.789208 CAATAACATTGCTCACGGCTG 58.211 47.619 0.00 0.00 42.39 4.85
2462 2598 1.133025 GCAATAACATTGCTCACGGCT 59.867 47.619 14.95 0.00 41.87 5.52
2463 2599 1.548986 GCAATAACATTGCTCACGGC 58.451 50.000 14.95 0.00 41.87 5.68
2470 2606 2.533266 GGACAGCAGCAATAACATTGC 58.467 47.619 14.52 14.52 45.22 3.56
2471 2607 2.492881 TGGGACAGCAGCAATAACATTG 59.507 45.455 0.00 0.00 0.00 2.82
2472 2608 2.806434 TGGGACAGCAGCAATAACATT 58.194 42.857 0.00 0.00 0.00 2.71
2473 2609 2.512692 TGGGACAGCAGCAATAACAT 57.487 45.000 0.00 0.00 0.00 2.71
2487 2623 4.699522 GGGTGGTGTCGCTGGGAC 62.700 72.222 16.98 16.98 46.27 4.46
2490 2626 3.551496 ATGTGGGTGGTGTCGCTGG 62.551 63.158 0.00 0.00 0.00 4.85
2491 2627 1.577328 GAATGTGGGTGGTGTCGCTG 61.577 60.000 0.00 0.00 0.00 5.18
2492 2628 1.302511 GAATGTGGGTGGTGTCGCT 60.303 57.895 0.00 0.00 0.00 4.93
2493 2629 0.889186 AAGAATGTGGGTGGTGTCGC 60.889 55.000 0.00 0.00 0.00 5.19
2494 2630 3.322514 AAGAATGTGGGTGGTGTCG 57.677 52.632 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.