Multiple sequence alignment - TraesCS3B01G274900

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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 TraesCS3B01G274900 chr3B 100.000 2432 0 0 1 2432 443703584 443701153 0.000000e+00 4492.0
1 TraesCS3B01G274900 chr3B 94.884 215 9 2 268 482 614194117 614193905 3.870000e-88 335.0
2 TraesCS3B01G274900 chr3B 77.926 376 65 15 2069 2431 450208665 450208295 4.070000e-53 219.0
3 TraesCS3B01G274900 chr3B 90.184 163 13 3 107 266 101925114 101924952 2.450000e-50 209.0
4 TraesCS3B01G274900 chr3B 88.889 45 5 0 2015 2059 667119542 667119498 3.380000e-04 56.5
5 TraesCS3B01G274900 chr3D 90.844 1256 88 15 1136 2387 343711466 343710234 0.000000e+00 1657.0
6 TraesCS3B01G274900 chr3D 96.785 622 15 3 501 1122 343712225 343711609 0.000000e+00 1033.0
7 TraesCS3B01G274900 chr3D 92.115 279 11 5 1 268 343712560 343712282 1.360000e-102 383.0
8 TraesCS3B01G274900 chr3A 91.594 1035 61 7 512 1540 458921085 458922099 0.000000e+00 1406.0
9 TraesCS3B01G274900 chr3A 80.828 459 70 11 1881 2334 505841477 505841922 6.440000e-91 344.0
10 TraesCS3B01G274900 chr3A 85.512 283 20 7 1 268 458920744 458921020 2.380000e-70 276.0
11 TraesCS3B01G274900 chr3A 90.184 163 13 3 107 266 105556719 105556881 2.450000e-50 209.0
12 TraesCS3B01G274900 chr3A 76.589 299 51 13 1990 2284 652730377 652730094 1.950000e-31 147.0
13 TraesCS3B01G274900 chr2D 81.424 576 87 7 1870 2432 618060299 618059731 1.030000e-123 453.0
14 TraesCS3B01G274900 chr2D 94.619 223 11 1 262 484 526224537 526224758 6.440000e-91 344.0
15 TraesCS3B01G274900 chr5A 81.884 552 78 11 1883 2432 139688447 139687916 1.720000e-121 446.0
16 TraesCS3B01G274900 chr5A 81.792 346 44 13 1537 1873 643045282 643045617 3.080000e-69 272.0
17 TraesCS3B01G274900 chr5A 81.818 330 43 13 1549 1873 643037687 643038004 6.670000e-66 261.0
18 TraesCS3B01G274900 chr5D 81.216 559 80 15 1879 2432 109580131 109579593 6.210000e-116 427.0
19 TraesCS3B01G274900 chr5D 90.184 163 13 3 107 266 6253038 6253200 2.450000e-50 209.0
20 TraesCS3B01G274900 chr5D 90.184 163 13 3 107 266 299972270 299972432 2.450000e-50 209.0
21 TraesCS3B01G274900 chr5D 90.184 163 13 3 107 266 503313740 503313578 2.450000e-50 209.0
22 TraesCS3B01G274900 chr5B 79.793 579 89 19 1868 2432 605209407 605209971 1.750000e-106 396.0
23 TraesCS3B01G274900 chr5B 96.313 217 6 1 268 484 248779173 248778959 2.970000e-94 355.0
24 TraesCS3B01G274900 chr5B 95.434 219 8 1 268 484 355402863 355402645 4.980000e-92 348.0
25 TraesCS3B01G274900 chr5B 95.434 219 9 1 265 482 440262729 440262947 4.980000e-92 348.0
26 TraesCS3B01G274900 chr5B 82.067 329 47 11 1550 1874 447208367 447208687 1.110000e-68 270.0
27 TraesCS3B01G274900 chr5B 76.991 452 70 22 2004 2431 287475811 287475370 6.760000e-56 228.0
28 TraesCS3B01G274900 chr5B 73.458 535 82 39 1917 2431 312590875 312591369 1.950000e-31 147.0
29 TraesCS3B01G274900 chr5B 97.561 41 1 0 2391 2431 538291629 538291669 1.210000e-08 71.3
30 TraesCS3B01G274900 chr1A 95.814 215 9 0 268 482 530170190 530169976 4.980000e-92 348.0
31 TraesCS3B01G274900 chr1A 78.125 544 80 22 1877 2415 277564251 277564760 2.350000e-80 309.0
32 TraesCS3B01G274900 chr4B 95.814 215 8 1 268 482 373995704 373995917 1.790000e-91 346.0
33 TraesCS3B01G274900 chr6B 94.495 218 11 1 267 484 686178864 686179080 3.870000e-88 335.0
34 TraesCS3B01G274900 chr2B 94.470 217 11 1 266 482 517750678 517750893 1.390000e-87 333.0
35 TraesCS3B01G274900 chr7D 78.698 338 59 11 1544 1875 405882973 405883303 1.890000e-51 213.0
36 TraesCS3B01G274900 chr7D 75.765 392 76 15 1901 2284 472525909 472526289 1.920000e-41 180.0
37 TraesCS3B01G274900 chr7B 90.184 163 13 3 107 266 662754797 662754959 2.450000e-50 209.0
38 TraesCS3B01G274900 chr7B 86.486 74 10 0 2358 2431 149327926 149327853 5.570000e-12 82.4
39 TraesCS3B01G274900 chr4A 90.184 163 12 4 107 266 309446171 309446332 2.450000e-50 209.0
40 TraesCS3B01G274900 chr4A 77.778 342 65 10 1541 1876 142343357 142343021 1.470000e-47 200.0
41 TraesCS3B01G274900 chr1B 90.184 163 13 3 107 266 633717209 633717047 2.450000e-50 209.0
42 TraesCS3B01G274900 chrUn 76.437 348 58 16 1550 1885 103351520 103351185 1.500000e-37 167.0
43 TraesCS3B01G274900 chrUn 75.504 347 53 29 1546 1878 362728023 362728351 9.070000e-30 141.0
44 TraesCS3B01G274900 chr6D 75.988 329 68 10 1550 1875 438515756 438516076 2.500000e-35 159.0
45 TraesCS3B01G274900 chr6D 79.235 183 24 6 2018 2187 58542335 58542154 5.490000e-22 115.0
46 TraesCS3B01G274900 chr1D 85.714 126 18 0 2069 2194 364069139 364069014 1.520000e-27 134.0
47 TraesCS3B01G274900 chr7A 85.294 68 8 2 1990 2056 645108134 645108200 4.340000e-08 69.4


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 TraesCS3B01G274900 chr3B 443701153 443703584 2431 True 4492.000000 4492 100.000 1 2432 1 chr3B.!!$R2 2431
1 TraesCS3B01G274900 chr3D 343710234 343712560 2326 True 1024.333333 1657 93.248 1 2387 3 chr3D.!!$R1 2386
2 TraesCS3B01G274900 chr3A 458920744 458922099 1355 False 841.000000 1406 88.553 1 1540 2 chr3A.!!$F3 1539
3 TraesCS3B01G274900 chr2D 618059731 618060299 568 True 453.000000 453 81.424 1870 2432 1 chr2D.!!$R1 562
4 TraesCS3B01G274900 chr5A 139687916 139688447 531 True 446.000000 446 81.884 1883 2432 1 chr5A.!!$R1 549
5 TraesCS3B01G274900 chr5D 109579593 109580131 538 True 427.000000 427 81.216 1879 2432 1 chr5D.!!$R1 553
6 TraesCS3B01G274900 chr5B 605209407 605209971 564 False 396.000000 396 79.793 1868 2432 1 chr5B.!!$F5 564
7 TraesCS3B01G274900 chr1A 277564251 277564760 509 False 309.000000 309 78.125 1877 2415 1 chr1A.!!$F1 538

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
709 737 0.034059 ACAGACTTCCTCAACAGCCG 59.966 55.0 0.0 0.0 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2231 2413 0.611896 TGAGTGGCGAGATGAGGACA 60.612 55.0 0.0 0.0 0.0 4.02 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
157 172 5.163561 TGTGAATGACTCCCTTTGTTGAAAC 60.164 40.000 0.00 0.00 0.00 2.78
187 203 9.732130 TGTTCCCAAATTCATAAAATAAAAGGG 57.268 29.630 0.00 0.00 0.00 3.95
227 243 6.881570 TCCTAAACTAAGGACGGGAAATAAG 58.118 40.000 0.00 0.00 40.86 1.73
252 268 7.816995 AGAAGGCGAGCATATCTTCTAAATTAG 59.183 37.037 10.94 0.00 42.61 1.73
268 284 7.713750 TCTAAATTAGTCATACTCAACTCGGG 58.286 38.462 0.00 0.00 0.00 5.14
269 285 6.540438 AAATTAGTCATACTCAACTCGGGA 57.460 37.500 0.00 0.00 0.00 5.14
270 286 6.540438 AATTAGTCATACTCAACTCGGGAA 57.460 37.500 0.00 0.00 0.00 3.97
271 287 5.988310 TTAGTCATACTCAACTCGGGAAA 57.012 39.130 0.00 0.00 0.00 3.13
272 288 4.884668 AGTCATACTCAACTCGGGAAAA 57.115 40.909 0.00 0.00 0.00 2.29
273 289 5.223449 AGTCATACTCAACTCGGGAAAAA 57.777 39.130 0.00 0.00 0.00 1.94
305 321 5.543507 AGACCAGGTCTCATATAAAGCAG 57.456 43.478 17.31 0.00 38.71 4.24
306 322 4.346418 AGACCAGGTCTCATATAAAGCAGG 59.654 45.833 17.31 0.00 38.71 4.85
307 323 4.040755 ACCAGGTCTCATATAAAGCAGGT 58.959 43.478 0.00 0.00 0.00 4.00
308 324 4.141620 ACCAGGTCTCATATAAAGCAGGTG 60.142 45.833 0.00 0.00 30.37 4.00
309 325 4.101585 CCAGGTCTCATATAAAGCAGGTGA 59.898 45.833 0.00 0.00 0.00 4.02
310 326 5.295950 CAGGTCTCATATAAAGCAGGTGAG 58.704 45.833 0.00 0.00 38.07 3.51
311 327 5.069648 CAGGTCTCATATAAAGCAGGTGAGA 59.930 44.000 0.00 0.00 41.99 3.27
313 329 5.537300 TCTCATATAAAGCAGGTGAGACC 57.463 43.478 0.00 0.00 40.06 3.85
314 330 4.345257 TCTCATATAAAGCAGGTGAGACCC 59.655 45.833 0.00 0.00 40.06 4.46
315 331 3.069586 TCATATAAAGCAGGTGAGACCCG 59.930 47.826 0.00 0.00 39.75 5.28
316 332 0.107654 ATAAAGCAGGTGAGACCCGC 60.108 55.000 0.00 0.00 41.94 6.13
317 333 2.180159 TAAAGCAGGTGAGACCCGCC 62.180 60.000 0.00 0.00 42.60 6.13
320 336 4.087892 CAGGTGAGACCCGCCCTG 62.088 72.222 0.00 0.00 46.65 4.45
321 337 4.316823 AGGTGAGACCCGCCCTGA 62.317 66.667 0.00 0.00 46.65 3.86
322 338 3.083997 GGTGAGACCCGCCCTGAT 61.084 66.667 0.00 0.00 39.55 2.90
323 339 2.187946 GTGAGACCCGCCCTGATG 59.812 66.667 0.00 0.00 0.00 3.07
324 340 3.083349 TGAGACCCGCCCTGATGG 61.083 66.667 0.00 0.00 37.09 3.51
325 341 2.764128 GAGACCCGCCCTGATGGA 60.764 66.667 0.00 0.00 35.39 3.41
326 342 2.040464 AGACCCGCCCTGATGGAT 60.040 61.111 0.00 0.00 35.39 3.41
327 343 2.111878 GACCCGCCCTGATGGATG 59.888 66.667 0.00 0.00 35.39 3.51
328 344 2.366837 ACCCGCCCTGATGGATGA 60.367 61.111 0.00 0.00 35.39 2.92
329 345 2.111878 CCCGCCCTGATGGATGAC 59.888 66.667 0.00 0.00 35.39 3.06
330 346 2.745308 CCCGCCCTGATGGATGACA 61.745 63.158 0.00 0.00 35.39 3.58
331 347 1.524621 CCGCCCTGATGGATGACAC 60.525 63.158 0.00 0.00 35.39 3.67
332 348 1.884464 CGCCCTGATGGATGACACG 60.884 63.158 0.00 0.00 35.39 4.49
333 349 1.221840 GCCCTGATGGATGACACGT 59.778 57.895 0.00 0.00 35.39 4.49
334 350 1.091771 GCCCTGATGGATGACACGTG 61.092 60.000 15.48 15.48 35.39 4.49
335 351 0.462581 CCCTGATGGATGACACGTGG 60.463 60.000 21.57 1.66 35.39 4.94
336 352 1.091771 CCTGATGGATGACACGTGGC 61.092 60.000 21.57 19.24 34.57 5.01
337 353 0.391528 CTGATGGATGACACGTGGCA 60.392 55.000 29.28 29.28 37.54 4.92
339 355 1.339920 TGATGGATGACACGTGGCATT 60.340 47.619 36.07 22.11 45.42 3.56
340 356 1.331756 GATGGATGACACGTGGCATTC 59.668 52.381 36.07 34.16 45.42 2.67
341 357 0.036022 TGGATGACACGTGGCATTCA 59.964 50.000 36.64 36.64 46.54 2.57
342 358 0.447801 GGATGACACGTGGCATTCAC 59.552 55.000 36.07 24.74 45.42 3.18
343 359 1.155889 GATGACACGTGGCATTCACA 58.844 50.000 36.07 9.07 45.42 3.58
344 360 1.535028 GATGACACGTGGCATTCACAA 59.465 47.619 36.07 8.22 45.42 3.33
345 361 1.383523 TGACACGTGGCATTCACAAA 58.616 45.000 23.03 0.00 46.36 2.83
346 362 1.952990 TGACACGTGGCATTCACAAAT 59.047 42.857 23.03 0.00 46.36 2.32
347 363 2.031245 TGACACGTGGCATTCACAAATC 60.031 45.455 23.03 3.54 46.36 2.17
348 364 1.952990 ACACGTGGCATTCACAAATCA 59.047 42.857 21.57 0.00 46.36 2.57
349 365 2.287547 ACACGTGGCATTCACAAATCAC 60.288 45.455 21.57 0.00 46.36 3.06
350 366 1.952990 ACGTGGCATTCACAAATCACA 59.047 42.857 0.00 0.00 46.36 3.58
351 367 2.360483 ACGTGGCATTCACAAATCACAA 59.640 40.909 0.00 0.00 46.36 3.33
352 368 3.181482 ACGTGGCATTCACAAATCACAAA 60.181 39.130 0.00 0.00 46.36 2.83
353 369 3.426191 CGTGGCATTCACAAATCACAAAG 59.574 43.478 0.00 0.00 46.36 2.77
354 370 3.184986 GTGGCATTCACAAATCACAAAGC 59.815 43.478 0.00 0.00 45.39 3.51
355 371 3.181468 TGGCATTCACAAATCACAAAGCA 60.181 39.130 0.00 0.00 0.00 3.91
356 372 3.998341 GGCATTCACAAATCACAAAGCAT 59.002 39.130 0.00 0.00 0.00 3.79
357 373 4.092383 GGCATTCACAAATCACAAAGCATC 59.908 41.667 0.00 0.00 0.00 3.91
358 374 4.927425 GCATTCACAAATCACAAAGCATCT 59.073 37.500 0.00 0.00 0.00 2.90
359 375 6.094719 GCATTCACAAATCACAAAGCATCTA 58.905 36.000 0.00 0.00 0.00 1.98
360 376 6.587226 GCATTCACAAATCACAAAGCATCTAA 59.413 34.615 0.00 0.00 0.00 2.10
361 377 7.277098 GCATTCACAAATCACAAAGCATCTAAT 59.723 33.333 0.00 0.00 0.00 1.73
362 378 8.804743 CATTCACAAATCACAAAGCATCTAATC 58.195 33.333 0.00 0.00 0.00 1.75
363 379 7.692460 TCACAAATCACAAAGCATCTAATCT 57.308 32.000 0.00 0.00 0.00 2.40
364 380 7.755591 TCACAAATCACAAAGCATCTAATCTC 58.244 34.615 0.00 0.00 0.00 2.75
365 381 7.609146 TCACAAATCACAAAGCATCTAATCTCT 59.391 33.333 0.00 0.00 0.00 3.10
366 382 7.909121 CACAAATCACAAAGCATCTAATCTCTC 59.091 37.037 0.00 0.00 0.00 3.20
367 383 7.066766 ACAAATCACAAAGCATCTAATCTCTCC 59.933 37.037 0.00 0.00 0.00 3.71
368 384 5.028549 TCACAAAGCATCTAATCTCTCCC 57.971 43.478 0.00 0.00 0.00 4.30
369 385 4.133078 CACAAAGCATCTAATCTCTCCCC 58.867 47.826 0.00 0.00 0.00 4.81
370 386 3.137360 ACAAAGCATCTAATCTCTCCCCC 59.863 47.826 0.00 0.00 0.00 5.40
403 419 3.672503 GGGGTGGGGTGGATGCTT 61.673 66.667 0.00 0.00 0.00 3.91
404 420 2.445155 GGGTGGGGTGGATGCTTT 59.555 61.111 0.00 0.00 0.00 3.51
405 421 1.984026 GGGTGGGGTGGATGCTTTG 60.984 63.158 0.00 0.00 0.00 2.77
406 422 1.228862 GGTGGGGTGGATGCTTTGT 60.229 57.895 0.00 0.00 0.00 2.83
407 423 1.535204 GGTGGGGTGGATGCTTTGTG 61.535 60.000 0.00 0.00 0.00 3.33
408 424 0.539438 GTGGGGTGGATGCTTTGTGA 60.539 55.000 0.00 0.00 0.00 3.58
409 425 0.409092 TGGGGTGGATGCTTTGTGAT 59.591 50.000 0.00 0.00 0.00 3.06
410 426 1.203162 TGGGGTGGATGCTTTGTGATT 60.203 47.619 0.00 0.00 0.00 2.57
411 427 1.901833 GGGGTGGATGCTTTGTGATTT 59.098 47.619 0.00 0.00 0.00 2.17
412 428 2.354003 GGGGTGGATGCTTTGTGATTTG 60.354 50.000 0.00 0.00 0.00 2.32
413 429 2.299867 GGGTGGATGCTTTGTGATTTGT 59.700 45.455 0.00 0.00 0.00 2.83
414 430 3.319755 GGTGGATGCTTTGTGATTTGTG 58.680 45.455 0.00 0.00 0.00 3.33
415 431 3.319755 GTGGATGCTTTGTGATTTGTGG 58.680 45.455 0.00 0.00 0.00 4.17
416 432 3.005684 GTGGATGCTTTGTGATTTGTGGA 59.994 43.478 0.00 0.00 0.00 4.02
417 433 3.833650 TGGATGCTTTGTGATTTGTGGAT 59.166 39.130 0.00 0.00 0.00 3.41
418 434 4.178540 GGATGCTTTGTGATTTGTGGATG 58.821 43.478 0.00 0.00 0.00 3.51
419 435 3.029320 TGCTTTGTGATTTGTGGATGC 57.971 42.857 0.00 0.00 0.00 3.91
420 436 2.288948 TGCTTTGTGATTTGTGGATGCC 60.289 45.455 0.00 0.00 0.00 4.40
421 437 2.288948 GCTTTGTGATTTGTGGATGCCA 60.289 45.455 0.00 0.00 0.00 4.92
429 445 4.301505 GTGGATGCCACGTGTCAT 57.698 55.556 12.59 12.59 44.95 3.06
430 446 2.089854 GTGGATGCCACGTGTCATC 58.910 57.895 27.01 27.01 44.95 2.92
432 448 4.615901 GATGCCACGTGTCATCCA 57.384 55.556 25.20 9.83 34.52 3.41
433 449 3.085208 GATGCCACGTGTCATCCAT 57.915 52.632 25.20 13.68 34.52 3.41
434 450 0.940126 GATGCCACGTGTCATCCATC 59.060 55.000 25.20 17.45 34.52 3.51
435 451 0.252761 ATGCCACGTGTCATCCATCA 59.747 50.000 15.65 0.00 0.00 3.07
436 452 0.391528 TGCCACGTGTCATCCATCAG 60.392 55.000 15.65 0.00 0.00 2.90
437 453 1.091771 GCCACGTGTCATCCATCAGG 61.092 60.000 15.65 0.00 0.00 3.86
438 454 0.462581 CCACGTGTCATCCATCAGGG 60.463 60.000 15.65 0.00 34.83 4.45
439 455 1.091771 CACGTGTCATCCATCAGGGC 61.092 60.000 7.58 0.00 36.21 5.19
440 456 1.884464 CGTGTCATCCATCAGGGCG 60.884 63.158 0.00 0.00 36.21 6.13
441 457 1.524621 GTGTCATCCATCAGGGCGG 60.525 63.158 0.00 0.00 36.21 6.13
442 458 2.111878 GTCATCCATCAGGGCGGG 59.888 66.667 0.00 0.00 36.21 6.13
443 459 2.366837 TCATCCATCAGGGCGGGT 60.367 61.111 0.00 0.00 36.21 5.28
444 460 2.111878 CATCCATCAGGGCGGGTC 59.888 66.667 0.00 0.00 36.21 4.46
445 461 2.040464 ATCCATCAGGGCGGGTCT 60.040 61.111 0.00 0.00 36.21 3.85
446 462 2.143419 ATCCATCAGGGCGGGTCTC 61.143 63.158 0.00 0.00 36.21 3.36
447 463 2.896677 ATCCATCAGGGCGGGTCTCA 62.897 60.000 0.00 0.00 36.21 3.27
448 464 2.187946 CATCAGGGCGGGTCTCAC 59.812 66.667 0.00 0.00 0.00 3.51
449 465 3.083997 ATCAGGGCGGGTCTCACC 61.084 66.667 0.00 0.00 37.60 4.02
450 466 3.625632 ATCAGGGCGGGTCTCACCT 62.626 63.158 0.00 0.00 38.64 4.00
452 468 4.640690 AGGGCGGGTCTCACCTGT 62.641 66.667 3.45 0.00 46.46 4.00
453 469 3.637273 GGGCGGGTCTCACCTGTT 61.637 66.667 3.45 0.00 46.46 3.16
454 470 2.288025 GGGCGGGTCTCACCTGTTA 61.288 63.158 3.45 0.00 46.46 2.41
455 471 1.675219 GGCGGGTCTCACCTGTTAA 59.325 57.895 3.45 0.00 46.46 2.01
456 472 0.672711 GGCGGGTCTCACCTGTTAAC 60.673 60.000 0.00 0.00 46.46 2.01
457 473 0.672711 GCGGGTCTCACCTGTTAACC 60.673 60.000 2.48 0.00 46.46 2.85
458 474 0.036671 CGGGTCTCACCTGTTAACCC 60.037 60.000 2.48 0.00 45.10 4.11
459 475 0.036671 GGGTCTCACCTGTTAACCCG 60.037 60.000 2.48 0.00 40.19 5.28
460 476 0.683412 GGTCTCACCTGTTAACCCGT 59.317 55.000 2.48 0.00 34.73 5.28
461 477 1.607251 GGTCTCACCTGTTAACCCGTG 60.607 57.143 13.38 13.38 34.73 4.94
462 478 1.342174 GTCTCACCTGTTAACCCGTGA 59.658 52.381 18.55 18.55 34.26 4.35
463 479 2.080286 CTCACCTGTTAACCCGTGAG 57.920 55.000 25.55 25.55 44.38 3.51
464 480 1.707106 TCACCTGTTAACCCGTGAGA 58.293 50.000 16.69 1.68 31.80 3.27
465 481 1.342174 TCACCTGTTAACCCGTGAGAC 59.658 52.381 16.69 0.00 31.80 3.36
466 482 0.683412 ACCTGTTAACCCGTGAGACC 59.317 55.000 2.48 0.00 0.00 3.85
467 483 0.974383 CCTGTTAACCCGTGAGACCT 59.026 55.000 2.48 0.00 0.00 3.85
468 484 1.337823 CCTGTTAACCCGTGAGACCTG 60.338 57.143 2.48 0.00 0.00 4.00
469 485 0.682852 TGTTAACCCGTGAGACCTGG 59.317 55.000 2.48 0.00 0.00 4.45
470 486 0.683412 GTTAACCCGTGAGACCTGGT 59.317 55.000 0.00 0.00 0.00 4.00
471 487 0.971386 TTAACCCGTGAGACCTGGTC 59.029 55.000 19.20 19.20 0.00 4.02
472 488 0.113776 TAACCCGTGAGACCTGGTCT 59.886 55.000 28.70 28.70 46.42 3.85
484 500 5.867903 AGACCTGGTCTCATAGAATTCTG 57.132 43.478 23.49 3.21 38.71 3.02
485 501 4.100808 AGACCTGGTCTCATAGAATTCTGC 59.899 45.833 23.49 1.59 38.71 4.26
486 502 3.181471 ACCTGGTCTCATAGAATTCTGCG 60.181 47.826 18.47 8.75 0.00 5.18
507 523 8.375506 TCTGCGGATAAATAATTTCAGGAGTAT 58.624 33.333 0.00 0.00 0.00 2.12
509 525 9.349713 TGCGGATAAATAATTTCAGGAGTATTT 57.650 29.630 0.00 0.00 32.43 1.40
709 737 0.034059 ACAGACTTCCTCAACAGCCG 59.966 55.000 0.00 0.00 0.00 5.52
710 738 1.004440 AGACTTCCTCAACAGCCGC 60.004 57.895 0.00 0.00 0.00 6.53
711 739 2.032681 ACTTCCTCAACAGCCGCC 59.967 61.111 0.00 0.00 0.00 6.13
795 823 3.612860 AGCACGAGTAAGAAAATACAGCG 59.387 43.478 0.00 0.00 34.30 5.18
796 824 3.611113 GCACGAGTAAGAAAATACAGCGA 59.389 43.478 0.00 0.00 33.20 4.93
861 889 4.760047 CAAGTCCGGTCAGCGGGG 62.760 72.222 16.90 0.00 35.96 5.73
868 896 4.459089 GGTCAGCGGGGCAGACTC 62.459 72.222 11.94 0.91 43.09 3.36
940 968 1.877680 CGAGTGAGCCACCAAATCACA 60.878 52.381 7.25 0.00 44.59 3.58
951 979 2.872245 ACCAAATCACACAGTTCTGTCG 59.128 45.455 2.22 2.45 0.00 4.35
1129 1286 3.126514 CGGTGAGTATTCAGTCGTACACT 59.873 47.826 0.00 0.00 32.98 3.55
1145 1302 4.558697 CGTACACTGAGAACTGACCAATCA 60.559 45.833 0.00 0.00 0.00 2.57
1245 1402 0.179100 CCATGACGGCGAATCAGTCT 60.179 55.000 16.62 0.00 40.03 3.24
1265 1422 0.593128 GCACCACTGCAACTTTCGAT 59.407 50.000 0.00 0.00 43.62 3.59
1299 1456 1.386533 GGCATGTGAATGGACTCCAG 58.613 55.000 3.62 0.00 36.75 3.86
1301 1458 1.681166 GCATGTGAATGGACTCCAGCT 60.681 52.381 3.62 0.00 36.75 4.24
1337 1494 1.065709 GCTCCCGGAAATAACCTCACA 60.066 52.381 0.73 0.00 0.00 3.58
1343 1500 2.369394 GGAAATAACCTCACAGCTGGG 58.631 52.381 19.93 15.69 0.00 4.45
1349 1506 4.463879 CTCACAGCTGGGCCGGAG 62.464 72.222 18.84 10.30 0.00 4.63
1361 1518 2.203126 CCGGAGCCATCCTCTTGC 60.203 66.667 0.00 0.00 44.22 4.01
1362 1519 2.587194 CGGAGCCATCCTCTTGCG 60.587 66.667 0.00 0.00 44.22 4.85
1387 1544 1.333177 AGGGATAGTGCTCGATCACC 58.667 55.000 15.41 7.58 37.68 4.02
1410 1567 2.854805 GCTCGTGTTTTTGGTGCTCTTC 60.855 50.000 0.00 0.00 0.00 2.87
1422 1579 2.806244 GGTGCTCTTCGTTGTGTACATT 59.194 45.455 0.00 0.00 0.00 2.71
1460 1617 2.876079 GCAGTTCCAAATCTTCTCCGGT 60.876 50.000 0.00 0.00 0.00 5.28
1464 1621 5.648092 CAGTTCCAAATCTTCTCCGGTTTAT 59.352 40.000 0.00 0.00 0.00 1.40
1606 1772 8.746922 TTTCACAATGTAAGATGCATTTCTTC 57.253 30.769 5.84 0.55 37.20 2.87
1623 1789 8.084684 GCATTTCTTCTAACTCCTCAACATTTT 58.915 33.333 0.00 0.00 0.00 1.82
1638 1804 7.224753 CCTCAACATTTTATTTCTAGCGCTCTA 59.775 37.037 16.34 0.00 0.00 2.43
1658 1824 9.103861 CGCTCTAGAGAAAAGGAAAAATATCTT 57.896 33.333 24.24 0.00 0.00 2.40
1722 1888 2.900122 ATGTCTCGGTTTTGATTGCG 57.100 45.000 0.00 0.00 0.00 4.85
1741 1907 7.701078 TGATTGCGTGTATCTCTTACTACTTTC 59.299 37.037 0.00 0.00 0.00 2.62
1847 2013 4.097286 GGTCACCGTGCCAAAATTATACAT 59.903 41.667 7.01 0.00 0.00 2.29
1848 2014 5.270853 GTCACCGTGCCAAAATTATACATC 58.729 41.667 0.00 0.00 0.00 3.06
1909 2075 3.378112 CCAGCACATGTATCCATTTCGTT 59.622 43.478 0.00 0.00 0.00 3.85
1953 2119 1.515521 CGGACAAAAGTGCTGACCCC 61.516 60.000 0.00 0.00 0.00 4.95
1983 2149 3.831911 GACCCATTCCCAAAATGTCTTCA 59.168 43.478 0.00 0.00 0.00 3.02
1988 2154 5.010922 CCATTCCCAAAATGTCTTCACTTCA 59.989 40.000 0.00 0.00 0.00 3.02
1993 2159 4.035091 CCAAAATGTCTTCACTTCACGTCA 59.965 41.667 0.00 0.00 0.00 4.35
1999 2176 2.671357 TTCACTTCACGTCAGCGCGA 62.671 55.000 12.10 0.00 42.83 5.87
2008 2185 1.579429 GTCAGCGCGAACCCATTTT 59.421 52.632 12.10 0.00 0.00 1.82
2144 2323 1.875420 TTAATGACGACCGCCGACCA 61.875 55.000 0.00 1.34 41.76 4.02
2231 2413 4.394712 CCGCTTCCAGACGCCCTT 62.395 66.667 0.00 0.00 0.00 3.95
2416 2620 1.529010 CCAGGCAAAGTGGCACTGA 60.529 57.895 22.83 0.00 46.46 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.153034 TGGTCGGATCATGTGTCCTA 57.847 50.000 14.86 4.74 33.46 2.94
133 148 4.163441 TCAACAAAGGGAGTCATTCACA 57.837 40.909 0.00 0.00 0.00 3.58
139 154 4.640201 CAGAAGTTTCAACAAAGGGAGTCA 59.360 41.667 0.00 0.00 0.00 3.41
227 243 6.793492 AATTTAGAAGATATGCTCGCCTTC 57.207 37.500 0.00 0.00 36.26 3.46
283 299 4.346418 CCTGCTTTATATGAGACCTGGTCT 59.654 45.833 28.70 28.70 46.42 3.85
285 301 4.040755 ACCTGCTTTATATGAGACCTGGT 58.959 43.478 0.00 0.00 0.00 4.00
286 302 4.101585 TCACCTGCTTTATATGAGACCTGG 59.898 45.833 0.00 0.00 0.00 4.45
287 303 5.069648 TCTCACCTGCTTTATATGAGACCTG 59.930 44.000 0.00 0.00 40.59 4.00
288 304 5.211973 TCTCACCTGCTTTATATGAGACCT 58.788 41.667 0.00 0.00 40.59 3.85
289 305 5.537300 TCTCACCTGCTTTATATGAGACC 57.463 43.478 0.00 0.00 40.59 3.85
291 307 4.345257 GGGTCTCACCTGCTTTATATGAGA 59.655 45.833 0.00 0.00 42.63 3.27
292 308 4.636249 GGGTCTCACCTGCTTTATATGAG 58.364 47.826 0.00 0.00 38.64 2.90
293 309 3.069586 CGGGTCTCACCTGCTTTATATGA 59.930 47.826 0.00 0.00 37.90 2.15
294 310 3.393800 CGGGTCTCACCTGCTTTATATG 58.606 50.000 0.00 0.00 37.90 1.78
295 311 3.753294 CGGGTCTCACCTGCTTTATAT 57.247 47.619 0.00 0.00 37.90 0.86
304 320 3.625632 ATCAGGGCGGGTCTCACCT 62.626 63.158 0.00 0.00 38.64 4.00
305 321 3.083997 ATCAGGGCGGGTCTCACC 61.084 66.667 0.00 0.00 37.60 4.02
306 322 2.187946 CATCAGGGCGGGTCTCAC 59.812 66.667 0.00 0.00 0.00 3.51
307 323 2.896677 ATCCATCAGGGCGGGTCTCA 62.897 60.000 0.00 0.00 36.21 3.27
308 324 2.143419 ATCCATCAGGGCGGGTCTC 61.143 63.158 0.00 0.00 36.21 3.36
309 325 2.040464 ATCCATCAGGGCGGGTCT 60.040 61.111 0.00 0.00 36.21 3.85
310 326 2.111878 CATCCATCAGGGCGGGTC 59.888 66.667 0.00 0.00 36.21 4.46
311 327 2.366837 TCATCCATCAGGGCGGGT 60.367 61.111 0.00 0.00 36.21 5.28
312 328 2.111878 GTCATCCATCAGGGCGGG 59.888 66.667 0.00 0.00 36.21 6.13
313 329 1.524621 GTGTCATCCATCAGGGCGG 60.525 63.158 0.00 0.00 36.21 6.13
314 330 1.884464 CGTGTCATCCATCAGGGCG 60.884 63.158 0.00 0.00 36.21 6.13
315 331 1.091771 CACGTGTCATCCATCAGGGC 61.092 60.000 7.58 0.00 36.21 5.19
316 332 0.462581 CCACGTGTCATCCATCAGGG 60.463 60.000 15.65 0.00 34.83 4.45
317 333 1.091771 GCCACGTGTCATCCATCAGG 61.092 60.000 15.65 0.00 0.00 3.86
318 334 0.391528 TGCCACGTGTCATCCATCAG 60.392 55.000 15.65 0.00 0.00 2.90
319 335 0.252761 ATGCCACGTGTCATCCATCA 59.747 50.000 15.65 0.00 0.00 3.07
320 336 1.331756 GAATGCCACGTGTCATCCATC 59.668 52.381 13.12 3.25 0.00 3.51
321 337 1.339920 TGAATGCCACGTGTCATCCAT 60.340 47.619 13.12 0.00 0.00 3.41
322 338 0.036022 TGAATGCCACGTGTCATCCA 59.964 50.000 13.12 2.86 0.00 3.41
323 339 0.447801 GTGAATGCCACGTGTCATCC 59.552 55.000 13.12 0.00 35.86 3.51
324 340 3.975992 GTGAATGCCACGTGTCATC 57.024 52.632 13.12 7.23 35.86 2.92
332 348 3.184986 GCTTTGTGATTTGTGAATGCCAC 59.815 43.478 0.00 0.00 45.88 5.01
333 349 3.181468 TGCTTTGTGATTTGTGAATGCCA 60.181 39.130 0.00 0.00 0.00 4.92
334 350 3.391965 TGCTTTGTGATTTGTGAATGCC 58.608 40.909 0.00 0.00 0.00 4.40
335 351 4.927425 AGATGCTTTGTGATTTGTGAATGC 59.073 37.500 0.00 0.00 0.00 3.56
336 352 8.697846 ATTAGATGCTTTGTGATTTGTGAATG 57.302 30.769 0.00 0.00 0.00 2.67
337 353 8.746530 AGATTAGATGCTTTGTGATTTGTGAAT 58.253 29.630 0.00 0.00 0.00 2.57
338 354 8.114331 AGATTAGATGCTTTGTGATTTGTGAA 57.886 30.769 0.00 0.00 0.00 3.18
339 355 7.609146 AGAGATTAGATGCTTTGTGATTTGTGA 59.391 33.333 0.00 0.00 0.00 3.58
340 356 7.759465 AGAGATTAGATGCTTTGTGATTTGTG 58.241 34.615 0.00 0.00 0.00 3.33
341 357 7.066766 GGAGAGATTAGATGCTTTGTGATTTGT 59.933 37.037 0.00 0.00 0.00 2.83
342 358 7.416022 GGAGAGATTAGATGCTTTGTGATTTG 58.584 38.462 0.00 0.00 0.00 2.32
343 359 6.545298 GGGAGAGATTAGATGCTTTGTGATTT 59.455 38.462 0.00 0.00 0.00 2.17
344 360 6.060788 GGGAGAGATTAGATGCTTTGTGATT 58.939 40.000 0.00 0.00 0.00 2.57
345 361 5.455899 GGGGAGAGATTAGATGCTTTGTGAT 60.456 44.000 0.00 0.00 0.00 3.06
346 362 4.141620 GGGGAGAGATTAGATGCTTTGTGA 60.142 45.833 0.00 0.00 0.00 3.58
347 363 4.133078 GGGGAGAGATTAGATGCTTTGTG 58.867 47.826 0.00 0.00 0.00 3.33
348 364 3.137360 GGGGGAGAGATTAGATGCTTTGT 59.863 47.826 0.00 0.00 0.00 2.83
349 365 3.749226 GGGGGAGAGATTAGATGCTTTG 58.251 50.000 0.00 0.00 0.00 2.77
386 402 3.238197 AAAGCATCCACCCCACCCC 62.238 63.158 0.00 0.00 0.00 4.95
387 403 1.984026 CAAAGCATCCACCCCACCC 60.984 63.158 0.00 0.00 0.00 4.61
388 404 1.228862 ACAAAGCATCCACCCCACC 60.229 57.895 0.00 0.00 0.00 4.61
389 405 0.539438 TCACAAAGCATCCACCCCAC 60.539 55.000 0.00 0.00 0.00 4.61
390 406 0.409092 ATCACAAAGCATCCACCCCA 59.591 50.000 0.00 0.00 0.00 4.96
391 407 1.560505 AATCACAAAGCATCCACCCC 58.439 50.000 0.00 0.00 0.00 4.95
392 408 2.299867 ACAAATCACAAAGCATCCACCC 59.700 45.455 0.00 0.00 0.00 4.61
393 409 3.319755 CACAAATCACAAAGCATCCACC 58.680 45.455 0.00 0.00 0.00 4.61
394 410 3.005684 TCCACAAATCACAAAGCATCCAC 59.994 43.478 0.00 0.00 0.00 4.02
395 411 3.229293 TCCACAAATCACAAAGCATCCA 58.771 40.909 0.00 0.00 0.00 3.41
396 412 3.940209 TCCACAAATCACAAAGCATCC 57.060 42.857 0.00 0.00 0.00 3.51
397 413 3.615496 GCATCCACAAATCACAAAGCATC 59.385 43.478 0.00 0.00 0.00 3.91
398 414 3.592059 GCATCCACAAATCACAAAGCAT 58.408 40.909 0.00 0.00 0.00 3.79
399 415 2.288948 GGCATCCACAAATCACAAAGCA 60.289 45.455 0.00 0.00 0.00 3.91
400 416 2.288948 TGGCATCCACAAATCACAAAGC 60.289 45.455 0.00 0.00 0.00 3.51
401 417 3.663995 TGGCATCCACAAATCACAAAG 57.336 42.857 0.00 0.00 0.00 2.77
417 433 0.391528 CTGATGGATGACACGTGGCA 60.392 55.000 29.28 29.28 37.54 4.92
418 434 1.091771 CCTGATGGATGACACGTGGC 61.092 60.000 21.57 19.24 34.57 5.01
419 435 0.462581 CCCTGATGGATGACACGTGG 60.463 60.000 21.57 1.66 35.39 4.94
420 436 1.091771 GCCCTGATGGATGACACGTG 61.092 60.000 15.48 15.48 35.39 4.49
421 437 1.221840 GCCCTGATGGATGACACGT 59.778 57.895 0.00 0.00 35.39 4.49
422 438 1.884464 CGCCCTGATGGATGACACG 60.884 63.158 0.00 0.00 35.39 4.49
423 439 1.524621 CCGCCCTGATGGATGACAC 60.525 63.158 0.00 0.00 35.39 3.67
424 440 2.745308 CCCGCCCTGATGGATGACA 61.745 63.158 0.00 0.00 35.39 3.58
425 441 2.111878 CCCGCCCTGATGGATGAC 59.888 66.667 0.00 0.00 35.39 3.06
426 442 2.366837 ACCCGCCCTGATGGATGA 60.367 61.111 0.00 0.00 35.39 2.92
427 443 2.111878 GACCCGCCCTGATGGATG 59.888 66.667 0.00 0.00 35.39 3.51
428 444 2.040464 AGACCCGCCCTGATGGAT 60.040 61.111 0.00 0.00 35.39 3.41
429 445 2.764128 GAGACCCGCCCTGATGGA 60.764 66.667 0.00 0.00 35.39 3.41
430 446 3.083349 TGAGACCCGCCCTGATGG 61.083 66.667 0.00 0.00 37.09 3.51
431 447 2.187946 GTGAGACCCGCCCTGATG 59.812 66.667 0.00 0.00 0.00 3.07
432 448 3.083997 GGTGAGACCCGCCCTGAT 61.084 66.667 0.00 0.00 39.55 2.90
433 449 4.316823 AGGTGAGACCCGCCCTGA 62.317 66.667 0.00 0.00 46.65 3.86
434 450 4.087892 CAGGTGAGACCCGCCCTG 62.088 72.222 0.00 0.00 46.65 4.45
435 451 2.741878 TAACAGGTGAGACCCGCCCT 62.742 60.000 0.00 0.00 46.65 5.19
436 452 1.833787 TTAACAGGTGAGACCCGCCC 61.834 60.000 0.00 0.00 46.65 6.13
437 453 0.672711 GTTAACAGGTGAGACCCGCC 60.673 60.000 0.00 0.00 45.81 6.13
438 454 0.672711 GGTTAACAGGTGAGACCCGC 60.673 60.000 8.10 0.00 39.75 6.13
439 455 0.036671 GGGTTAACAGGTGAGACCCG 60.037 60.000 8.10 0.00 39.75 5.28
440 456 0.036671 CGGGTTAACAGGTGAGACCC 60.037 60.000 8.10 0.00 45.19 4.46
441 457 0.683412 ACGGGTTAACAGGTGAGACC 59.317 55.000 8.10 0.00 38.99 3.85
442 458 1.342174 TCACGGGTTAACAGGTGAGAC 59.658 52.381 20.54 0.00 34.71 3.36
443 459 1.707106 TCACGGGTTAACAGGTGAGA 58.293 50.000 20.54 6.32 34.71 3.27
445 461 1.342174 GTCTCACGGGTTAACAGGTGA 59.658 52.381 22.07 22.07 37.77 4.02
446 462 1.607251 GGTCTCACGGGTTAACAGGTG 60.607 57.143 17.47 17.47 0.00 4.00
447 463 0.683412 GGTCTCACGGGTTAACAGGT 59.317 55.000 8.10 1.33 0.00 4.00
448 464 0.974383 AGGTCTCACGGGTTAACAGG 59.026 55.000 8.10 0.65 0.00 4.00
449 465 1.337823 CCAGGTCTCACGGGTTAACAG 60.338 57.143 8.10 3.37 0.00 3.16
450 466 0.682852 CCAGGTCTCACGGGTTAACA 59.317 55.000 8.10 0.00 0.00 2.41
451 467 0.683412 ACCAGGTCTCACGGGTTAAC 59.317 55.000 0.00 0.00 0.00 2.01
452 468 0.971386 GACCAGGTCTCACGGGTTAA 59.029 55.000 12.94 0.00 32.77 2.01
453 469 0.113776 AGACCAGGTCTCACGGGTTA 59.886 55.000 17.31 0.00 38.71 2.85
454 470 1.152312 AGACCAGGTCTCACGGGTT 60.152 57.895 17.31 0.00 38.71 4.11
455 471 2.526628 AGACCAGGTCTCACGGGT 59.473 61.111 17.31 0.00 38.71 5.28
462 478 4.100808 GCAGAATTCTATGAGACCAGGTCT 59.899 45.833 23.18 23.18 46.42 3.85
463 479 4.376146 GCAGAATTCTATGAGACCAGGTC 58.624 47.826 12.25 12.25 0.00 3.85
464 480 3.181471 CGCAGAATTCTATGAGACCAGGT 60.181 47.826 7.86 0.00 0.00 4.00
465 481 3.388308 CGCAGAATTCTATGAGACCAGG 58.612 50.000 7.86 0.00 0.00 4.45
466 482 3.068732 TCCGCAGAATTCTATGAGACCAG 59.931 47.826 7.86 0.00 0.00 4.00
467 483 3.031013 TCCGCAGAATTCTATGAGACCA 58.969 45.455 7.86 0.00 0.00 4.02
468 484 3.735237 TCCGCAGAATTCTATGAGACC 57.265 47.619 7.86 0.00 0.00 3.85
469 485 7.897575 ATTTATCCGCAGAATTCTATGAGAC 57.102 36.000 7.86 0.00 0.00 3.36
476 492 8.571336 CCTGAAATTATTTATCCGCAGAATTCT 58.429 33.333 0.88 0.88 0.00 2.40
477 493 8.567948 TCCTGAAATTATTTATCCGCAGAATTC 58.432 33.333 0.00 0.00 0.00 2.17
478 494 8.463930 TCCTGAAATTATTTATCCGCAGAATT 57.536 30.769 5.31 0.00 0.00 2.17
479 495 7.721399 ACTCCTGAAATTATTTATCCGCAGAAT 59.279 33.333 5.31 0.00 0.00 2.40
480 496 7.054124 ACTCCTGAAATTATTTATCCGCAGAA 58.946 34.615 5.31 0.00 0.00 3.02
481 497 6.591935 ACTCCTGAAATTATTTATCCGCAGA 58.408 36.000 5.31 0.00 0.00 4.26
482 498 6.867662 ACTCCTGAAATTATTTATCCGCAG 57.132 37.500 0.00 0.00 0.00 5.18
483 499 8.918202 AATACTCCTGAAATTATTTATCCGCA 57.082 30.769 0.00 0.00 0.00 5.69
507 523 1.816224 GGTCAGCTCCCGCAAAATAAA 59.184 47.619 0.00 0.00 39.10 1.40
509 525 0.326595 TGGTCAGCTCCCGCAAAATA 59.673 50.000 0.00 0.00 39.10 1.40
710 738 4.918201 GATGAGCGGCGGGAAGGG 62.918 72.222 9.78 0.00 0.00 3.95
711 739 3.854669 AGATGAGCGGCGGGAAGG 61.855 66.667 9.78 0.00 0.00 3.46
739 767 1.380403 TATGGGCCGTTGGATTTGCG 61.380 55.000 2.17 0.00 0.00 4.85
795 823 3.047877 CGTGCGGTTCCTGGGTTC 61.048 66.667 0.00 0.00 0.00 3.62
796 824 4.636435 CCGTGCGGTTCCTGGGTT 62.636 66.667 1.93 0.00 0.00 4.11
861 889 0.599204 TTTTCGTGTCCGGAGTCTGC 60.599 55.000 3.06 0.00 33.95 4.26
868 896 0.378962 TGCTTTGTTTTCGTGTCCGG 59.621 50.000 0.00 0.00 33.95 5.14
870 898 1.202245 TGCTGCTTTGTTTTCGTGTCC 60.202 47.619 0.00 0.00 0.00 4.02
1145 1302 2.098770 GCTAGTCGATCGTACCCAAACT 59.901 50.000 15.94 11.48 0.00 2.66
1281 1438 0.737219 GCTGGAGTCCATTCACATGC 59.263 55.000 13.56 6.95 30.82 4.06
1282 1439 2.014857 CAGCTGGAGTCCATTCACATG 58.985 52.381 13.56 0.00 30.82 3.21
1288 1445 2.486472 CAGTTCAGCTGGAGTCCATT 57.514 50.000 13.56 0.89 41.42 3.16
1299 1456 0.877743 GCAAGGAGAACCAGTTCAGC 59.122 55.000 12.76 4.44 41.84 4.26
1301 1458 1.072331 GGAGCAAGGAGAACCAGTTCA 59.928 52.381 12.76 0.00 41.84 3.18
1349 1506 0.960364 TTGTTCCGCAAGAGGATGGC 60.960 55.000 0.00 0.00 40.48 4.40
1361 1518 1.802880 CGAGCACTATCCCTTGTTCCG 60.803 57.143 0.00 0.00 0.00 4.30
1362 1519 1.480954 TCGAGCACTATCCCTTGTTCC 59.519 52.381 0.00 0.00 0.00 3.62
1387 1544 0.381801 AGCACCAAAAACACGAGCAG 59.618 50.000 0.00 0.00 0.00 4.24
1410 1567 2.222213 TCAGCGGAAAATGTACACAACG 59.778 45.455 0.00 0.10 0.00 4.10
1422 1579 0.321210 TGCCTCGAAATCAGCGGAAA 60.321 50.000 0.00 0.00 0.00 3.13
1464 1621 8.860088 ACACAGCACATATAATACATCTGAGTA 58.140 33.333 0.00 0.00 0.00 2.59
1590 1756 7.766278 TGAGGAGTTAGAAGAAATGCATCTTAC 59.234 37.037 0.00 0.00 39.70 2.34
1595 1761 6.240894 TGTTGAGGAGTTAGAAGAAATGCAT 58.759 36.000 0.00 0.00 0.00 3.96
1628 1794 4.640789 TTCCTTTTCTCTAGAGCGCTAG 57.359 45.455 17.55 17.55 44.48 3.42
1658 1824 4.870636 AGAAATACATGCAATCAGGGGAA 58.129 39.130 0.00 0.00 0.00 3.97
1660 1826 4.467769 AGAGAAATACATGCAATCAGGGG 58.532 43.478 0.00 0.00 0.00 4.79
1703 1869 2.095768 CACGCAATCAAAACCGAGACAT 60.096 45.455 0.00 0.00 0.00 3.06
1714 1880 7.096884 AGTAGTAAGAGATACACGCAATCAA 57.903 36.000 0.00 0.00 36.94 2.57
1847 2013 6.954232 ACTCCGTCCATTCCTTTATTTAAGA 58.046 36.000 0.00 0.00 35.80 2.10
1848 2014 8.774586 CATACTCCGTCCATTCCTTTATTTAAG 58.225 37.037 0.00 0.00 0.00 1.85
1866 2032 4.113354 GGAGTTGCTCTTAACATACTCCG 58.887 47.826 0.00 0.00 41.39 4.63
1927 2093 2.358247 ACTTTTGTCCGCGGCGAT 60.358 55.556 25.92 0.00 0.00 4.58
1953 2119 3.499737 GGAATGGGTCAGCGCGTG 61.500 66.667 8.43 5.06 0.00 5.34
1988 2154 3.876589 AATGGGTTCGCGCTGACGT 62.877 57.895 5.56 0.00 42.83 4.34
1993 2159 2.867472 CGAAAATGGGTTCGCGCT 59.133 55.556 5.56 0.00 43.38 5.92
1999 2176 1.357137 ATTTGGGCCGAAAATGGGTT 58.643 45.000 17.39 0.00 0.00 4.11
2008 2185 4.062656 GCCGCAAATTTGGGCCGA 62.063 61.111 27.31 0.00 38.07 5.54
2231 2413 0.611896 TGAGTGGCGAGATGAGGACA 60.612 55.000 0.00 0.00 0.00 4.02
2300 2494 2.677228 CCCTTGCCCTTGTCGGAT 59.323 61.111 0.00 0.00 33.16 4.18
2344 2548 1.617947 GGGAAGATGCCGACAGAGGT 61.618 60.000 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.