Multiple sequence alignment - TraesCS7A01G070200

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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 TraesCS7A01G070200 chr7A 100.000 2566 0 0 1 2566 36118354 36120919 0.000000e+00 4739
1 TraesCS7A01G070200 chr7A 97.441 547 13 1 2021 2566 164307338 164306792 0.000000e+00 931
2 TraesCS7A01G070200 chr7A 97.258 547 14 1 2021 2566 733393312 733393858 0.000000e+00 926
3 TraesCS7A01G070200 chr7A 96.422 559 17 3 2010 2565 68371208 68370650 0.000000e+00 918
4 TraesCS7A01G070200 chr7A 95.775 71 3 0 853 923 36119137 36119207 5.800000e-22 115
5 TraesCS7A01G070200 chr7A 95.775 71 3 0 784 854 36119206 36119276 5.800000e-22 115
6 TraesCS7A01G070200 chr4A 91.120 1036 80 10 866 1893 688423849 688424880 0.000000e+00 1393
7 TraesCS7A01G070200 chr4A 93.501 677 37 5 1894 2566 645712450 645713123 0.000000e+00 1000
8 TraesCS7A01G070200 chr4A 92.222 360 27 1 1 360 688420730 688421088 2.280000e-140 508
9 TraesCS7A01G070200 chr4A 89.078 293 31 1 494 785 688421395 688421687 1.880000e-96 363
10 TraesCS7A01G070200 chr4A 82.567 413 52 9 965 1363 688337612 688338018 1.890000e-91 346
11 TraesCS7A01G070200 chr5A 94.151 701 18 7 1887 2566 613769450 613770148 0.000000e+00 1046
12 TraesCS7A01G070200 chr5A 97.441 547 13 1 2021 2566 605221337 605220791 0.000000e+00 931
13 TraesCS7A01G070200 chr2A 93.944 677 36 5 1893 2566 98608662 98609336 0.000000e+00 1018
14 TraesCS7A01G070200 chr7B 93.037 675 39 6 1894 2564 653425939 653425269 0.000000e+00 979
15 TraesCS7A01G070200 chr7B 88.664 247 25 2 1894 2140 717324443 717324200 5.370000e-77 298
16 TraesCS7A01G070200 chr4B 92.274 686 32 9 1894 2566 659039846 659040523 0.000000e+00 953
17 TraesCS7A01G070200 chr6B 91.888 678 46 8 1895 2566 643517805 643517131 0.000000e+00 939
18 TraesCS7A01G070200 chr3B 86.880 686 72 12 1894 2566 595316948 595317628 0.000000e+00 752
19 TraesCS7A01G070200 chr3B 87.562 201 22 2 1894 2091 803221078 803221278 1.990000e-56 230
20 TraesCS7A01G070200 chr7D 87.214 524 53 10 1380 1893 35484624 35484105 3.680000e-163 584
21 TraesCS7A01G070200 chr7D 81.892 613 88 15 954 1548 35301850 35301243 1.770000e-136 496
22 TraesCS7A01G070200 chr7D 87.137 241 26 4 1 239 35320680 35320443 4.210000e-68 268
23 TraesCS7A01G070200 chr7D 84.959 246 34 3 1242 1484 35532820 35532575 1.970000e-61 246


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 TraesCS7A01G070200 chr7A 36118354 36120919 2565 False 1656.333333 4739 97.183333 1 2566 3 chr7A.!!$F2 2565
1 TraesCS7A01G070200 chr7A 164306792 164307338 546 True 931.000000 931 97.441000 2021 2566 1 chr7A.!!$R2 545
2 TraesCS7A01G070200 chr7A 733393312 733393858 546 False 926.000000 926 97.258000 2021 2566 1 chr7A.!!$F1 545
3 TraesCS7A01G070200 chr7A 68370650 68371208 558 True 918.000000 918 96.422000 2010 2565 1 chr7A.!!$R1 555
4 TraesCS7A01G070200 chr4A 645712450 645713123 673 False 1000.000000 1000 93.501000 1894 2566 1 chr4A.!!$F1 672
5 TraesCS7A01G070200 chr4A 688420730 688424880 4150 False 754.666667 1393 90.806667 1 1893 3 chr4A.!!$F3 1892
6 TraesCS7A01G070200 chr5A 613769450 613770148 698 False 1046.000000 1046 94.151000 1887 2566 1 chr5A.!!$F1 679
7 TraesCS7A01G070200 chr5A 605220791 605221337 546 True 931.000000 931 97.441000 2021 2566 1 chr5A.!!$R1 545
8 TraesCS7A01G070200 chr2A 98608662 98609336 674 False 1018.000000 1018 93.944000 1893 2566 1 chr2A.!!$F1 673
9 TraesCS7A01G070200 chr7B 653425269 653425939 670 True 979.000000 979 93.037000 1894 2564 1 chr7B.!!$R1 670
10 TraesCS7A01G070200 chr4B 659039846 659040523 677 False 953.000000 953 92.274000 1894 2566 1 chr4B.!!$F1 672
11 TraesCS7A01G070200 chr6B 643517131 643517805 674 True 939.000000 939 91.888000 1895 2566 1 chr6B.!!$R1 671
12 TraesCS7A01G070200 chr3B 595316948 595317628 680 False 752.000000 752 86.880000 1894 2566 1 chr3B.!!$F1 672
13 TraesCS7A01G070200 chr7D 35484105 35484624 519 True 584.000000 584 87.214000 1380 1893 1 chr7D.!!$R3 513
14 TraesCS7A01G070200 chr7D 35301243 35301850 607 True 496.000000 496 81.892000 954 1548 1 chr7D.!!$R1 594

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
673 848 0.031857 CTGATGGGTCAGCGCTAGAG 59.968 60.0 10.99 0.0 44.86 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1929 4213 1.125633 GAACCGGGACTAATGGGCTA 58.874 55.0 6.32 0.0 0.0 3.93 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
62 63 4.898829 TCTTGATGGTTGCATATTTCCG 57.101 40.909 0.00 0.00 0.00 4.30
124 125 5.392595 GCTTTTTCTGGTTACTGTGTCACAA 60.393 40.000 7.18 0.00 0.00 3.33
132 133 5.416013 TGGTTACTGTGTCACAAACAATCAA 59.584 36.000 17.96 0.27 40.31 2.57
135 136 5.581126 ACTGTGTCACAAACAATCAACAT 57.419 34.783 7.18 0.00 40.31 2.71
144 145 9.853555 GTCACAAACAATCAACATATTTCCATA 57.146 29.630 0.00 0.00 0.00 2.74
175 176 1.199789 TGAACAATTGGCACATCGCTC 59.800 47.619 10.83 0.00 39.30 5.03
213 214 2.269023 TGGACATGGGTGACTCAAGAT 58.731 47.619 0.00 0.00 0.00 2.40
217 218 5.665360 TGGACATGGGTGACTCAAGATATTA 59.335 40.000 0.00 0.00 0.00 0.98
221 222 9.950496 GACATGGGTGACTCAAGATATTATTAT 57.050 33.333 0.00 0.00 0.00 1.28
265 266 1.003118 TGATCTTACACGCAGCCCTTT 59.997 47.619 0.00 0.00 0.00 3.11
272 273 1.228552 ACGCAGCCCTTTTGGTGAT 60.229 52.632 0.00 0.00 38.10 3.06
279 280 1.896755 GCCCTTTTGGTGATCCCACAT 60.897 52.381 2.70 0.00 45.19 3.21
283 284 4.569653 CCCTTTTGGTGATCCCACATCTTA 60.570 45.833 2.70 0.00 45.19 2.10
346 347 1.001181 CCATGCAACCCTTTTGTGGAG 59.999 52.381 0.00 0.00 0.00 3.86
347 348 0.681175 ATGCAACCCTTTTGTGGAGC 59.319 50.000 0.00 0.00 0.00 4.70
356 357 2.029649 CCTTTTGTGGAGCAGATGGTTG 60.030 50.000 0.00 0.00 0.00 3.77
360 361 1.421268 TGTGGAGCAGATGGTTGTTCT 59.579 47.619 0.00 0.00 0.00 3.01
362 363 1.338105 TGGAGCAGATGGTTGTTCTCG 60.338 52.381 0.00 0.00 0.00 4.04
363 364 1.066858 GGAGCAGATGGTTGTTCTCGA 60.067 52.381 0.00 0.00 0.00 4.04
364 365 2.266554 GAGCAGATGGTTGTTCTCGAG 58.733 52.381 5.93 5.93 0.00 4.04
365 366 0.723981 GCAGATGGTTGTTCTCGAGC 59.276 55.000 7.81 0.00 0.00 5.03
366 367 0.994995 CAGATGGTTGTTCTCGAGCG 59.005 55.000 7.81 0.00 0.00 5.03
367 368 0.737715 AGATGGTTGTTCTCGAGCGC 60.738 55.000 7.81 0.00 0.00 5.92
368 369 1.005037 ATGGTTGTTCTCGAGCGCA 60.005 52.632 11.47 6.10 0.00 6.09
369 370 0.602638 ATGGTTGTTCTCGAGCGCAA 60.603 50.000 11.47 12.07 0.00 4.85
370 371 0.812014 TGGTTGTTCTCGAGCGCAAA 60.812 50.000 11.47 2.16 0.00 3.68
371 372 0.110644 GGTTGTTCTCGAGCGCAAAG 60.111 55.000 11.47 3.43 0.00 2.77
372 373 0.110644 GTTGTTCTCGAGCGCAAAGG 60.111 55.000 11.47 0.00 0.00 3.11
373 374 0.531974 TTGTTCTCGAGCGCAAAGGT 60.532 50.000 11.47 0.00 0.00 3.50
374 375 0.531974 TGTTCTCGAGCGCAAAGGTT 60.532 50.000 11.47 0.00 0.00 3.50
375 376 0.164002 GTTCTCGAGCGCAAAGGTTC 59.836 55.000 11.47 0.00 0.00 3.62
376 377 0.033504 TTCTCGAGCGCAAAGGTTCT 59.966 50.000 11.47 0.00 0.00 3.01
377 378 0.388649 TCTCGAGCGCAAAGGTTCTC 60.389 55.000 11.47 0.00 0.00 2.87
378 379 0.389166 CTCGAGCGCAAAGGTTCTCT 60.389 55.000 11.47 0.00 0.00 3.10
379 380 0.667487 TCGAGCGCAAAGGTTCTCTG 60.667 55.000 11.47 0.00 0.00 3.35
380 381 0.946221 CGAGCGCAAAGGTTCTCTGT 60.946 55.000 11.47 0.00 0.00 3.41
381 382 0.514691 GAGCGCAAAGGTTCTCTGTG 59.485 55.000 11.47 0.00 33.79 3.66
382 383 0.179045 AGCGCAAAGGTTCTCTGTGT 60.179 50.000 11.47 0.00 33.20 3.72
383 384 0.040958 GCGCAAAGGTTCTCTGTGTG 60.041 55.000 0.30 0.00 42.63 3.82
384 385 0.588252 CGCAAAGGTTCTCTGTGTGG 59.412 55.000 0.00 0.00 37.52 4.17
385 386 1.810031 CGCAAAGGTTCTCTGTGTGGA 60.810 52.381 0.00 0.00 37.52 4.02
386 387 1.876156 GCAAAGGTTCTCTGTGTGGAG 59.124 52.381 0.00 0.00 33.20 3.86
387 388 1.876156 CAAAGGTTCTCTGTGTGGAGC 59.124 52.381 0.00 0.00 33.70 4.70
388 389 1.131638 AAGGTTCTCTGTGTGGAGCA 58.868 50.000 0.00 0.00 33.70 4.26
389 390 0.683973 AGGTTCTCTGTGTGGAGCAG 59.316 55.000 0.00 0.00 33.70 4.24
390 391 0.681733 GGTTCTCTGTGTGGAGCAGA 59.318 55.000 0.00 0.00 40.28 4.26
391 392 1.277557 GGTTCTCTGTGTGGAGCAGAT 59.722 52.381 0.00 0.00 41.49 2.90
392 393 2.344950 GTTCTCTGTGTGGAGCAGATG 58.655 52.381 0.00 0.00 41.49 2.90
393 394 0.900421 TCTCTGTGTGGAGCAGATGG 59.100 55.000 0.00 0.00 41.49 3.51
394 395 0.612229 CTCTGTGTGGAGCAGATGGT 59.388 55.000 0.00 0.00 41.49 3.55
395 396 1.002888 CTCTGTGTGGAGCAGATGGTT 59.997 52.381 0.00 0.00 41.49 3.67
396 397 1.162698 CTGTGTGGAGCAGATGGTTG 58.837 55.000 0.00 0.00 36.12 3.77
397 398 0.473755 TGTGTGGAGCAGATGGTTGT 59.526 50.000 0.00 0.00 0.00 3.32
398 399 1.133823 TGTGTGGAGCAGATGGTTGTT 60.134 47.619 0.00 0.00 0.00 2.83
399 400 2.105649 TGTGTGGAGCAGATGGTTGTTA 59.894 45.455 0.00 0.00 0.00 2.41
400 401 3.146066 GTGTGGAGCAGATGGTTGTTAA 58.854 45.455 0.00 0.00 0.00 2.01
401 402 3.058224 GTGTGGAGCAGATGGTTGTTAAC 60.058 47.826 0.00 0.00 0.00 2.01
402 403 2.159627 GTGGAGCAGATGGTTGTTAACG 59.840 50.000 0.26 0.00 0.00 3.18
403 404 2.037902 TGGAGCAGATGGTTGTTAACGA 59.962 45.455 0.26 0.00 0.00 3.85
404 405 2.415512 GGAGCAGATGGTTGTTAACGAC 59.584 50.000 16.48 16.48 0.00 4.34
412 413 2.614779 GGTTGTTAACGACCTCTAGGC 58.385 52.381 30.47 8.65 45.15 3.93
413 414 2.233186 GGTTGTTAACGACCTCTAGGCT 59.767 50.000 30.47 0.00 45.15 4.58
414 415 3.306571 GGTTGTTAACGACCTCTAGGCTT 60.307 47.826 30.47 0.00 45.15 4.35
415 416 4.082026 GGTTGTTAACGACCTCTAGGCTTA 60.082 45.833 30.47 0.00 45.15 3.09
416 417 4.708726 TGTTAACGACCTCTAGGCTTAC 57.291 45.455 0.26 0.00 39.32 2.34
417 418 4.338879 TGTTAACGACCTCTAGGCTTACT 58.661 43.478 0.26 0.00 39.32 2.24
418 419 4.157289 TGTTAACGACCTCTAGGCTTACTG 59.843 45.833 0.26 0.00 39.32 2.74
419 420 2.510928 ACGACCTCTAGGCTTACTGT 57.489 50.000 0.00 0.00 39.32 3.55
420 421 2.093106 ACGACCTCTAGGCTTACTGTG 58.907 52.381 0.00 0.00 39.32 3.66
421 422 2.093106 CGACCTCTAGGCTTACTGTGT 58.907 52.381 0.00 0.00 39.32 3.72
422 423 2.159366 CGACCTCTAGGCTTACTGTGTG 60.159 54.545 0.00 0.00 39.32 3.82
423 424 2.166664 GACCTCTAGGCTTACTGTGTGG 59.833 54.545 0.00 0.00 39.32 4.17
424 425 2.225293 ACCTCTAGGCTTACTGTGTGGA 60.225 50.000 0.00 0.00 39.32 4.02
425 426 2.428890 CCTCTAGGCTTACTGTGTGGAG 59.571 54.545 0.00 0.00 0.00 3.86
426 427 1.825474 TCTAGGCTTACTGTGTGGAGC 59.175 52.381 0.00 0.00 0.00 4.70
427 428 1.550524 CTAGGCTTACTGTGTGGAGCA 59.449 52.381 0.00 0.00 36.87 4.26
428 429 0.322975 AGGCTTACTGTGTGGAGCAG 59.677 55.000 8.69 0.00 36.87 4.24
429 430 0.321671 GGCTTACTGTGTGGAGCAGA 59.678 55.000 0.00 0.00 36.87 4.26
430 431 1.065854 GGCTTACTGTGTGGAGCAGAT 60.066 52.381 0.00 0.00 36.87 2.90
431 432 2.005451 GCTTACTGTGTGGAGCAGATG 58.995 52.381 0.00 0.00 37.40 2.90
432 433 2.625737 CTTACTGTGTGGAGCAGATGG 58.374 52.381 0.00 0.00 37.40 3.51
433 434 1.644509 TACTGTGTGGAGCAGATGGT 58.355 50.000 0.00 0.00 37.40 3.55
434 435 0.767375 ACTGTGTGGAGCAGATGGTT 59.233 50.000 0.00 0.00 37.40 3.67
435 436 1.162698 CTGTGTGGAGCAGATGGTTG 58.837 55.000 0.00 0.00 36.12 3.77
436 437 0.473755 TGTGTGGAGCAGATGGTTGT 59.526 50.000 0.00 0.00 0.00 3.32
437 438 1.133823 TGTGTGGAGCAGATGGTTGTT 60.134 47.619 0.00 0.00 0.00 2.83
438 439 1.537202 GTGTGGAGCAGATGGTTGTTC 59.463 52.381 0.00 0.00 0.00 3.18
439 440 1.421268 TGTGGAGCAGATGGTTGTTCT 59.579 47.619 0.00 0.00 0.00 3.01
440 441 2.079925 GTGGAGCAGATGGTTGTTCTC 58.920 52.381 0.00 0.00 0.00 2.87
441 442 1.338105 TGGAGCAGATGGTTGTTCTCG 60.338 52.381 0.00 0.00 0.00 4.04
442 443 1.066858 GGAGCAGATGGTTGTTCTCGA 60.067 52.381 0.00 0.00 0.00 4.04
443 444 1.996191 GAGCAGATGGTTGTTCTCGAC 59.004 52.381 0.00 0.00 0.00 4.20
444 445 1.620819 AGCAGATGGTTGTTCTCGACT 59.379 47.619 0.00 0.00 0.00 4.18
445 446 1.728971 GCAGATGGTTGTTCTCGACTG 59.271 52.381 0.00 0.00 0.00 3.51
446 447 2.341257 CAGATGGTTGTTCTCGACTGG 58.659 52.381 0.00 0.00 0.00 4.00
447 448 2.029020 CAGATGGTTGTTCTCGACTGGA 60.029 50.000 0.00 0.00 0.00 3.86
448 449 2.632996 AGATGGTTGTTCTCGACTGGAA 59.367 45.455 0.00 0.00 0.00 3.53
449 450 2.992124 TGGTTGTTCTCGACTGGAAA 57.008 45.000 0.00 0.00 0.00 3.13
450 451 2.833794 TGGTTGTTCTCGACTGGAAAG 58.166 47.619 0.00 0.00 0.00 2.62
451 452 2.432874 TGGTTGTTCTCGACTGGAAAGA 59.567 45.455 0.00 0.00 0.00 2.52
452 453 3.071023 TGGTTGTTCTCGACTGGAAAGAT 59.929 43.478 0.00 0.00 0.00 2.40
453 454 4.065789 GGTTGTTCTCGACTGGAAAGATT 58.934 43.478 0.00 0.00 0.00 2.40
454 455 4.152580 GGTTGTTCTCGACTGGAAAGATTC 59.847 45.833 0.00 0.00 0.00 2.52
455 456 4.873746 TGTTCTCGACTGGAAAGATTCT 57.126 40.909 0.00 0.00 0.00 2.40
456 457 4.810790 TGTTCTCGACTGGAAAGATTCTC 58.189 43.478 0.00 0.00 0.00 2.87
457 458 4.177783 GTTCTCGACTGGAAAGATTCTCC 58.822 47.826 0.00 0.00 0.00 3.71
458 459 3.431415 TCTCGACTGGAAAGATTCTCCA 58.569 45.455 0.00 0.00 40.77 3.86
459 460 3.832490 TCTCGACTGGAAAGATTCTCCAA 59.168 43.478 0.00 0.00 42.43 3.53
460 461 3.926616 TCGACTGGAAAGATTCTCCAAC 58.073 45.455 0.00 0.00 42.43 3.77
461 462 3.323691 TCGACTGGAAAGATTCTCCAACA 59.676 43.478 0.00 0.00 42.43 3.33
462 463 3.433615 CGACTGGAAAGATTCTCCAACAC 59.566 47.826 0.00 0.00 42.43 3.32
463 464 3.403038 ACTGGAAAGATTCTCCAACACG 58.597 45.455 0.00 0.00 42.43 4.49
464 465 2.151202 TGGAAAGATTCTCCAACACGC 58.849 47.619 0.00 0.00 40.08 5.34
465 466 2.151202 GGAAAGATTCTCCAACACGCA 58.849 47.619 0.00 0.00 32.77 5.24
466 467 2.160417 GGAAAGATTCTCCAACACGCAG 59.840 50.000 0.00 0.00 32.77 5.18
467 468 1.160137 AAGATTCTCCAACACGCAGC 58.840 50.000 0.00 0.00 0.00 5.25
468 469 0.674895 AGATTCTCCAACACGCAGCC 60.675 55.000 0.00 0.00 0.00 4.85
469 470 1.648467 GATTCTCCAACACGCAGCCC 61.648 60.000 0.00 0.00 0.00 5.19
470 471 2.129555 ATTCTCCAACACGCAGCCCT 62.130 55.000 0.00 0.00 0.00 5.19
471 472 2.281761 CTCCAACACGCAGCCCTT 60.282 61.111 0.00 0.00 0.00 3.95
472 473 1.898574 CTCCAACACGCAGCCCTTT 60.899 57.895 0.00 0.00 0.00 3.11
473 474 1.454847 TCCAACACGCAGCCCTTTT 60.455 52.632 0.00 0.00 0.00 2.27
474 475 1.300080 CCAACACGCAGCCCTTTTG 60.300 57.895 0.00 0.00 0.00 2.44
475 476 1.300080 CAACACGCAGCCCTTTTGG 60.300 57.895 0.00 0.00 39.97 3.28
476 477 1.756561 AACACGCAGCCCTTTTGGT 60.757 52.632 0.00 0.00 38.10 3.67
477 478 2.015227 AACACGCAGCCCTTTTGGTG 62.015 55.000 0.00 0.00 38.10 4.17
478 479 2.192861 CACGCAGCCCTTTTGGTGA 61.193 57.895 0.00 0.00 38.10 4.02
479 480 1.228552 ACGCAGCCCTTTTGGTGAT 60.229 52.632 0.00 0.00 38.10 3.06
480 481 1.244019 ACGCAGCCCTTTTGGTGATC 61.244 55.000 0.00 0.00 38.10 2.92
481 482 1.893062 GCAGCCCTTTTGGTGATCC 59.107 57.895 0.00 0.00 38.10 3.36
482 483 0.613012 GCAGCCCTTTTGGTGATCCT 60.613 55.000 0.00 0.00 38.10 3.24
483 484 1.340991 GCAGCCCTTTTGGTGATCCTA 60.341 52.381 0.00 0.00 38.10 2.94
484 485 2.369394 CAGCCCTTTTGGTGATCCTAC 58.631 52.381 0.00 0.00 38.10 3.18
485 486 1.992557 AGCCCTTTTGGTGATCCTACA 59.007 47.619 0.00 0.00 38.10 2.74
501 675 8.119629 GTGATCCTACACCTTAATATGGCACAA 61.120 40.741 0.00 0.00 36.98 3.33
514 688 4.291047 CACAAGATGTGCGGCTCT 57.709 55.556 0.00 0.00 41.89 4.09
518 692 1.537202 ACAAGATGTGCGGCTCTTTTC 59.463 47.619 0.00 0.00 29.34 2.29
525 699 2.561373 CGGCTCTTTTCGCCCAAC 59.439 61.111 0.00 0.00 44.73 3.77
555 729 2.359169 CCGGGCTAGGCTGAAGACA 61.359 63.158 25.93 0.00 0.00 3.41
558 732 0.107945 GGGCTAGGCTGAAGACACAG 60.108 60.000 16.80 0.00 40.43 3.66
614 789 2.247311 AAACAATGCGCGAGACATTC 57.753 45.000 12.10 0.00 36.29 2.67
621 796 1.298859 GCGCGAGACATTCCAACCTT 61.299 55.000 12.10 0.00 0.00 3.50
622 797 0.721718 CGCGAGACATTCCAACCTTC 59.278 55.000 0.00 0.00 0.00 3.46
627 802 2.737252 GAGACATTCCAACCTTCGTGAC 59.263 50.000 0.00 0.00 0.00 3.67
628 803 1.459592 GACATTCCAACCTTCGTGACG 59.540 52.381 0.00 0.00 0.00 4.35
633 808 1.142474 CCAACCTTCGTGACGGTAAC 58.858 55.000 4.70 0.00 32.07 2.50
658 833 4.142182 CCAACACCAAATTATTCCGCTGAT 60.142 41.667 0.00 0.00 0.00 2.90
673 848 0.031857 CTGATGGGTCAGCGCTAGAG 59.968 60.000 10.99 0.00 44.86 2.43
684 859 2.654939 CGCTAGAGGACGCAAGAAC 58.345 57.895 0.00 0.00 43.62 3.01
688 863 1.546476 CTAGAGGACGCAAGAACCACT 59.454 52.381 0.00 0.00 39.81 4.00
690 865 1.149148 GAGGACGCAAGAACCACTTC 58.851 55.000 0.00 0.00 43.62 3.01
709 884 4.460382 ACTTCCATCGAATCAAGCACAATT 59.540 37.500 0.00 0.00 0.00 2.32
713 888 5.008911 TCCATCGAATCAAGCACAATTATGG 59.991 40.000 0.00 0.00 33.10 2.74
752 927 5.847304 TGAATGTAAGGAGGAGATCATTCG 58.153 41.667 0.00 0.00 41.91 3.34
785 960 1.564348 GGAGGTCATGGGTAATGGTGT 59.436 52.381 0.00 0.00 36.86 4.16
787 962 2.238646 GAGGTCATGGGTAATGGTGTCA 59.761 50.000 0.00 0.00 36.86 3.58
788 963 2.852449 AGGTCATGGGTAATGGTGTCAT 59.148 45.455 0.00 0.00 36.86 3.06
791 966 1.682854 CATGGGTAATGGTGTCATGGC 59.317 52.381 0.00 0.00 33.60 4.40
793 968 1.101049 GGGTAATGGTGTCATGGCGG 61.101 60.000 0.00 0.00 33.18 6.13
794 969 1.724582 GGTAATGGTGTCATGGCGGC 61.725 60.000 0.00 0.00 33.18 6.53
795 970 1.453015 TAATGGTGTCATGGCGGCC 60.453 57.895 13.32 13.32 33.18 6.13
797 972 3.582242 ATGGTGTCATGGCGGCCAA 62.582 57.895 27.70 7.71 36.95 4.52
823 998 2.828661 AAATTAGGAGGAGGTTGGCC 57.171 50.000 0.00 0.00 0.00 5.36
840 1015 4.148825 CTCGAGGCCCCCGACTTG 62.149 72.222 13.11 1.80 32.18 3.16
842 1017 4.148825 CGAGGCCCCCGACTTGAG 62.149 72.222 9.31 0.00 0.00 3.02
843 1018 3.003763 GAGGCCCCCGACTTGAGT 61.004 66.667 0.00 0.00 0.00 3.41
844 1019 1.684734 GAGGCCCCCGACTTGAGTA 60.685 63.158 0.00 0.00 0.00 2.59
845 1020 1.229400 AGGCCCCCGACTTGAGTAA 60.229 57.895 0.00 0.00 0.00 2.24
846 1021 1.078637 GGCCCCCGACTTGAGTAAC 60.079 63.158 0.00 0.00 0.00 2.50
847 1022 1.078637 GCCCCCGACTTGAGTAACC 60.079 63.158 0.00 0.00 0.00 2.85
851 3107 1.136500 CCCCGACTTGAGTAACCTAGC 59.864 57.143 0.00 0.00 0.00 3.42
854 3110 2.492484 CCGACTTGAGTAACCTAGCTGT 59.508 50.000 0.00 0.00 0.00 4.40
857 3113 4.142359 CGACTTGAGTAACCTAGCTGTCAT 60.142 45.833 0.00 0.00 0.00 3.06
860 3116 2.168521 TGAGTAACCTAGCTGTCATGGC 59.831 50.000 0.00 0.00 0.00 4.40
862 3118 0.179084 TAACCTAGCTGTCATGGCGC 60.179 55.000 0.00 0.00 34.52 6.53
864 3120 2.590007 CTAGCTGTCATGGCGCCC 60.590 66.667 26.77 9.02 34.52 6.13
914 3170 1.229400 AGGCCCCCGACTTGAGTAA 60.229 57.895 0.00 0.00 0.00 2.24
924 3180 3.381908 CCGACTTGAGTAACCTAGCTGAT 59.618 47.826 0.00 0.00 0.00 2.90
952 3208 0.107993 CATGGATGAGGTGTGCGAGT 60.108 55.000 0.00 0.00 0.00 4.18
982 3238 1.222567 ATAAAATCTCCACCCCGGCT 58.777 50.000 0.00 0.00 33.14 5.52
983 3239 0.254747 TAAAATCTCCACCCCGGCTG 59.745 55.000 0.00 0.00 33.14 4.85
990 3246 2.035626 CACCCCGGCTGTCCATTT 59.964 61.111 0.00 0.00 0.00 2.32
996 3252 2.703798 CGGCTGTCCATTTGGCCAG 61.704 63.158 5.11 3.28 43.62 4.85
1003 3259 0.609957 TCCATTTGGCCAGAGCACAG 60.610 55.000 5.11 0.00 42.56 3.66
1036 3295 5.420739 GGGAATTAGCACCCAATCTAACAAA 59.579 40.000 0.00 0.00 44.96 2.83
1078 3337 2.334653 GAGCAGCGGGAGAGATCG 59.665 66.667 0.00 0.00 0.00 3.69
1079 3338 2.124109 AGCAGCGGGAGAGATCGA 60.124 61.111 0.00 0.00 0.00 3.59
1090 3349 1.336755 GAGAGATCGAAGTCAGGGAGC 59.663 57.143 0.00 0.00 0.00 4.70
1108 3367 0.250234 GCTGTGTAGGTGCCTGATCA 59.750 55.000 0.12 0.00 0.00 2.92
1147 3410 1.280421 GCCATGGAGAGGTTCTTGACT 59.720 52.381 18.40 0.00 0.00 3.41
1148 3411 2.501723 GCCATGGAGAGGTTCTTGACTA 59.498 50.000 18.40 0.00 0.00 2.59
1188 3451 1.325355 CCCATCGACGGGTACAGTAT 58.675 55.000 8.85 0.00 41.83 2.12
1293 3556 2.838202 AGAAAAAGCAGGGATACTCCGA 59.162 45.455 0.00 0.00 37.43 4.55
1425 3690 6.784031 AGGACTTGGATCAGTTAGATTGTTT 58.216 36.000 0.00 0.00 37.00 2.83
1426 3691 7.234355 AGGACTTGGATCAGTTAGATTGTTTT 58.766 34.615 0.00 0.00 37.00 2.43
1437 3702 7.324375 TCAGTTAGATTGTTTTCACGTACGTAG 59.676 37.037 22.34 15.25 0.00 3.51
1481 3754 7.668469 TCTGATTGGACTGTTTCACTAGTAGTA 59.332 37.037 1.57 0.00 0.00 1.82
1623 3903 3.555547 TCGCACAGAAAACATATGGATCG 59.444 43.478 7.80 2.38 0.00 3.69
1628 3908 4.570772 ACAGAAAACATATGGATCGTTCCG 59.429 41.667 7.80 0.00 45.89 4.30
1650 3930 5.032863 CGTGACTCTATTTGGGTTACTACG 58.967 45.833 0.00 0.00 0.00 3.51
1673 3953 4.392619 TGTAAACTAAAACATGCGGTCG 57.607 40.909 0.00 0.00 0.00 4.79
1720 4000 6.972328 TCAAGTTTTGTTTCCAATTCGAAGAG 59.028 34.615 3.35 0.00 38.43 2.85
1728 4008 5.468540 TTCCAATTCGAAGAGAGTCTCAA 57.531 39.130 22.05 7.93 38.43 3.02
1769 4052 9.547279 AACCTCTATTTCAATTTGGTAGGAATT 57.453 29.630 0.00 0.00 0.00 2.17
1874 4158 5.105310 AGTGGACATGTATCACTTGGTAGTC 60.105 44.000 21.66 0.00 38.44 2.59
2087 4392 1.606313 CCCGGTTGGTGGCTTGAAT 60.606 57.895 0.00 0.00 0.00 2.57
2102 4407 0.035439 TGAATCGGGACCAAAGGCTC 60.035 55.000 0.00 0.00 0.00 4.70
2337 4652 7.838696 TCCAAGCTCCATTTTCCTCAATATTTA 59.161 33.333 0.00 0.00 0.00 1.40
2437 4753 0.951040 CGTGGTGAGCCTCTTGTTCC 60.951 60.000 0.00 0.00 35.27 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 6.816136 TCACCAAGATTATAGCGAGATTGAA 58.184 36.000 0.00 0.00 0.00 2.69
17 18 7.601886 AGATTCACCAAGATTATAGCGAGATTG 59.398 37.037 0.00 0.00 0.00 2.67
22 23 6.816136 TCAAGATTCACCAAGATTATAGCGA 58.184 36.000 0.00 0.00 0.00 4.93
62 63 8.466798 ACATTCAACATTAACTAATTAGGTGCC 58.533 33.333 13.50 0.00 0.00 5.01
144 145 9.669887 ATGTGCCAATTGTTCAAATAACATAAT 57.330 25.926 4.43 0.00 0.00 1.28
147 148 6.310956 CGATGTGCCAATTGTTCAAATAACAT 59.689 34.615 4.43 2.69 0.00 2.71
244 245 0.833287 AGGGCTGCGTGTAAGATCAT 59.167 50.000 0.00 0.00 0.00 2.45
246 247 1.739067 AAAGGGCTGCGTGTAAGATC 58.261 50.000 0.00 0.00 0.00 2.75
250 251 0.466555 ACCAAAAGGGCTGCGTGTAA 60.467 50.000 0.00 0.00 42.05 2.41
272 273 2.040947 TGTGCCATGTTAAGATGTGGGA 59.959 45.455 11.31 0.00 32.35 4.37
279 280 4.032960 ACCATCTTGTGCCATGTTAAGA 57.967 40.909 0.00 0.00 34.09 2.10
283 284 2.318908 ACAACCATCTTGTGCCATGTT 58.681 42.857 0.00 0.00 0.00 2.71
329 330 0.685785 TGCTCCACAAAAGGGTTGCA 60.686 50.000 0.00 0.00 35.14 4.08
330 331 0.032540 CTGCTCCACAAAAGGGTTGC 59.967 55.000 0.00 0.00 0.00 4.17
333 334 1.548582 CCATCTGCTCCACAAAAGGGT 60.549 52.381 0.00 0.00 0.00 4.34
346 347 0.723981 GCTCGAGAACAACCATCTGC 59.276 55.000 18.75 0.00 0.00 4.26
347 348 0.994995 CGCTCGAGAACAACCATCTG 59.005 55.000 18.75 0.00 0.00 2.90
356 357 0.164002 GAACCTTTGCGCTCGAGAAC 59.836 55.000 18.75 7.45 0.00 3.01
360 361 0.667487 CAGAGAACCTTTGCGCTCGA 60.667 55.000 9.73 0.00 32.80 4.04
362 363 0.514691 CACAGAGAACCTTTGCGCTC 59.485 55.000 9.73 0.00 0.00 5.03
363 364 0.179045 ACACAGAGAACCTTTGCGCT 60.179 50.000 9.73 0.00 0.00 5.92
364 365 0.040958 CACACAGAGAACCTTTGCGC 60.041 55.000 0.00 0.00 0.00 6.09
365 366 0.588252 CCACACAGAGAACCTTTGCG 59.412 55.000 0.00 0.00 0.00 4.85
366 367 1.876156 CTCCACACAGAGAACCTTTGC 59.124 52.381 0.00 0.00 35.82 3.68
367 368 1.876156 GCTCCACACAGAGAACCTTTG 59.124 52.381 0.00 0.00 35.82 2.77
368 369 1.490490 TGCTCCACACAGAGAACCTTT 59.510 47.619 0.00 0.00 35.82 3.11
369 370 1.071385 CTGCTCCACACAGAGAACCTT 59.929 52.381 0.00 0.00 37.32 3.50
370 371 0.683973 CTGCTCCACACAGAGAACCT 59.316 55.000 0.00 0.00 37.32 3.50
371 372 0.681733 TCTGCTCCACACAGAGAACC 59.318 55.000 0.00 0.00 39.21 3.62
372 373 2.344950 CATCTGCTCCACACAGAGAAC 58.655 52.381 0.00 0.00 46.71 3.01
373 374 1.277273 CCATCTGCTCCACACAGAGAA 59.723 52.381 0.00 0.00 46.71 2.87
374 375 0.900421 CCATCTGCTCCACACAGAGA 59.100 55.000 0.00 0.00 46.71 3.10
375 376 0.612229 ACCATCTGCTCCACACAGAG 59.388 55.000 0.00 0.00 46.71 3.35
377 378 1.162698 CAACCATCTGCTCCACACAG 58.837 55.000 0.00 0.00 36.44 3.66
378 379 0.473755 ACAACCATCTGCTCCACACA 59.526 50.000 0.00 0.00 0.00 3.72
379 380 1.609208 AACAACCATCTGCTCCACAC 58.391 50.000 0.00 0.00 0.00 3.82
380 381 3.146066 GTTAACAACCATCTGCTCCACA 58.854 45.455 0.00 0.00 0.00 4.17
381 382 2.159627 CGTTAACAACCATCTGCTCCAC 59.840 50.000 6.39 0.00 0.00 4.02
382 383 2.037902 TCGTTAACAACCATCTGCTCCA 59.962 45.455 6.39 0.00 0.00 3.86
383 384 2.415512 GTCGTTAACAACCATCTGCTCC 59.584 50.000 6.39 0.00 0.00 4.70
384 385 2.415512 GGTCGTTAACAACCATCTGCTC 59.584 50.000 10.97 0.00 35.53 4.26
385 386 2.038557 AGGTCGTTAACAACCATCTGCT 59.961 45.455 17.85 0.00 38.06 4.24
386 387 2.415512 GAGGTCGTTAACAACCATCTGC 59.584 50.000 17.85 0.00 38.06 4.26
387 388 3.926616 AGAGGTCGTTAACAACCATCTG 58.073 45.455 17.85 0.00 38.06 2.90
388 389 4.159879 CCTAGAGGTCGTTAACAACCATCT 59.840 45.833 17.85 17.17 38.06 2.90
389 390 4.430908 CCTAGAGGTCGTTAACAACCATC 58.569 47.826 17.85 11.62 38.06 3.51
390 391 3.369157 GCCTAGAGGTCGTTAACAACCAT 60.369 47.826 17.85 8.38 38.06 3.55
391 392 2.028748 GCCTAGAGGTCGTTAACAACCA 60.029 50.000 17.85 0.00 38.06 3.67
392 393 2.233186 AGCCTAGAGGTCGTTAACAACC 59.767 50.000 7.70 7.70 37.57 3.77
393 394 3.589495 AGCCTAGAGGTCGTTAACAAC 57.411 47.619 6.39 0.00 37.57 3.32
394 395 4.768968 AGTAAGCCTAGAGGTCGTTAACAA 59.231 41.667 6.39 0.00 37.57 2.83
395 396 4.157289 CAGTAAGCCTAGAGGTCGTTAACA 59.843 45.833 6.39 0.00 37.57 2.41
396 397 4.157472 ACAGTAAGCCTAGAGGTCGTTAAC 59.843 45.833 0.00 0.00 37.57 2.01
397 398 4.157289 CACAGTAAGCCTAGAGGTCGTTAA 59.843 45.833 0.00 0.00 37.57 2.01
398 399 3.693085 CACAGTAAGCCTAGAGGTCGTTA 59.307 47.826 0.00 0.00 37.57 3.18
399 400 2.492484 CACAGTAAGCCTAGAGGTCGTT 59.508 50.000 0.00 0.00 37.57 3.85
400 401 2.093106 CACAGTAAGCCTAGAGGTCGT 58.907 52.381 0.00 0.00 37.57 4.34
401 402 2.093106 ACACAGTAAGCCTAGAGGTCG 58.907 52.381 0.00 0.00 37.57 4.79
402 403 2.166664 CCACACAGTAAGCCTAGAGGTC 59.833 54.545 0.00 0.00 37.57 3.85
403 404 2.180276 CCACACAGTAAGCCTAGAGGT 58.820 52.381 0.00 0.00 37.57 3.85
404 405 2.428890 CTCCACACAGTAAGCCTAGAGG 59.571 54.545 0.00 0.00 38.53 3.69
405 406 2.159170 GCTCCACACAGTAAGCCTAGAG 60.159 54.545 0.00 0.00 0.00 2.43
406 407 1.825474 GCTCCACACAGTAAGCCTAGA 59.175 52.381 0.00 0.00 0.00 2.43
407 408 1.550524 TGCTCCACACAGTAAGCCTAG 59.449 52.381 0.00 0.00 33.79 3.02
408 409 1.550524 CTGCTCCACACAGTAAGCCTA 59.449 52.381 0.00 0.00 33.79 3.93
409 410 0.322975 CTGCTCCACACAGTAAGCCT 59.677 55.000 0.00 0.00 33.79 4.58
410 411 0.321671 TCTGCTCCACACAGTAAGCC 59.678 55.000 0.00 0.00 36.50 4.35
411 412 2.005451 CATCTGCTCCACACAGTAAGC 58.995 52.381 0.00 0.00 36.50 3.09
412 413 2.027745 ACCATCTGCTCCACACAGTAAG 60.028 50.000 0.00 0.00 36.50 2.34
413 414 1.977854 ACCATCTGCTCCACACAGTAA 59.022 47.619 0.00 0.00 36.50 2.24
414 415 1.644509 ACCATCTGCTCCACACAGTA 58.355 50.000 0.00 0.00 36.50 2.74
415 416 0.767375 AACCATCTGCTCCACACAGT 59.233 50.000 0.00 0.00 36.50 3.55
416 417 1.162698 CAACCATCTGCTCCACACAG 58.837 55.000 0.00 0.00 36.44 3.66
417 418 0.473755 ACAACCATCTGCTCCACACA 59.526 50.000 0.00 0.00 0.00 3.72
418 419 1.537202 GAACAACCATCTGCTCCACAC 59.463 52.381 0.00 0.00 0.00 3.82
419 420 1.421268 AGAACAACCATCTGCTCCACA 59.579 47.619 0.00 0.00 0.00 4.17
420 421 2.079925 GAGAACAACCATCTGCTCCAC 58.920 52.381 0.00 0.00 0.00 4.02
421 422 1.338105 CGAGAACAACCATCTGCTCCA 60.338 52.381 0.00 0.00 0.00 3.86
422 423 1.066858 TCGAGAACAACCATCTGCTCC 60.067 52.381 0.00 0.00 0.00 4.70
423 424 1.996191 GTCGAGAACAACCATCTGCTC 59.004 52.381 0.00 0.00 0.00 4.26
424 425 1.620819 AGTCGAGAACAACCATCTGCT 59.379 47.619 0.00 0.00 0.00 4.24
425 426 1.728971 CAGTCGAGAACAACCATCTGC 59.271 52.381 0.00 0.00 0.00 4.26
426 427 2.029020 TCCAGTCGAGAACAACCATCTG 60.029 50.000 0.00 0.00 0.00 2.90
427 428 2.248248 TCCAGTCGAGAACAACCATCT 58.752 47.619 0.00 0.00 0.00 2.90
428 429 2.743636 TCCAGTCGAGAACAACCATC 57.256 50.000 0.00 0.00 0.00 3.51
429 430 3.071023 TCTTTCCAGTCGAGAACAACCAT 59.929 43.478 0.00 0.00 0.00 3.55
430 431 2.432874 TCTTTCCAGTCGAGAACAACCA 59.567 45.455 0.00 0.00 0.00 3.67
431 432 3.107642 TCTTTCCAGTCGAGAACAACC 57.892 47.619 0.00 0.00 0.00 3.77
432 433 4.991687 AGAATCTTTCCAGTCGAGAACAAC 59.008 41.667 0.00 0.00 0.00 3.32
433 434 5.215252 AGAATCTTTCCAGTCGAGAACAA 57.785 39.130 0.00 0.00 0.00 2.83
434 435 4.322049 GGAGAATCTTTCCAGTCGAGAACA 60.322 45.833 0.00 0.00 34.74 3.18
435 436 4.177783 GGAGAATCTTTCCAGTCGAGAAC 58.822 47.826 0.00 0.00 34.74 3.01
436 437 3.832490 TGGAGAATCTTTCCAGTCGAGAA 59.168 43.478 0.00 0.00 39.74 2.87
437 438 3.431415 TGGAGAATCTTTCCAGTCGAGA 58.569 45.455 0.00 0.00 39.74 4.04
438 439 3.876274 TGGAGAATCTTTCCAGTCGAG 57.124 47.619 0.00 0.00 39.74 4.04
439 440 3.323691 TGTTGGAGAATCTTTCCAGTCGA 59.676 43.478 0.00 0.00 45.00 4.20
440 441 3.433615 GTGTTGGAGAATCTTTCCAGTCG 59.566 47.826 0.00 0.00 45.00 4.18
441 442 3.433615 CGTGTTGGAGAATCTTTCCAGTC 59.566 47.826 0.00 0.00 45.00 3.51
442 443 3.403038 CGTGTTGGAGAATCTTTCCAGT 58.597 45.455 0.00 0.00 45.00 4.00
443 444 2.160417 GCGTGTTGGAGAATCTTTCCAG 59.840 50.000 0.00 0.00 45.00 3.86
444 445 2.151202 GCGTGTTGGAGAATCTTTCCA 58.849 47.619 0.00 0.00 42.81 3.53
445 446 2.151202 TGCGTGTTGGAGAATCTTTCC 58.849 47.619 0.00 0.00 33.73 3.13
446 447 2.413371 GCTGCGTGTTGGAGAATCTTTC 60.413 50.000 0.00 0.00 38.54 2.62
447 448 1.537202 GCTGCGTGTTGGAGAATCTTT 59.463 47.619 0.00 0.00 38.54 2.52
448 449 1.160137 GCTGCGTGTTGGAGAATCTT 58.840 50.000 0.00 0.00 38.54 2.40
449 450 0.674895 GGCTGCGTGTTGGAGAATCT 60.675 55.000 0.00 0.00 38.54 2.40
450 451 1.648467 GGGCTGCGTGTTGGAGAATC 61.648 60.000 0.00 0.00 38.54 2.52
451 452 1.675641 GGGCTGCGTGTTGGAGAAT 60.676 57.895 0.00 0.00 38.54 2.40
452 453 2.281484 GGGCTGCGTGTTGGAGAA 60.281 61.111 0.00 0.00 38.54 2.87
453 454 2.337879 AAAGGGCTGCGTGTTGGAGA 62.338 55.000 0.00 0.00 38.54 3.71
454 455 1.455383 AAAAGGGCTGCGTGTTGGAG 61.455 55.000 0.00 0.00 39.42 3.86
455 456 1.454847 AAAAGGGCTGCGTGTTGGA 60.455 52.632 0.00 0.00 0.00 3.53
456 457 1.300080 CAAAAGGGCTGCGTGTTGG 60.300 57.895 0.00 0.00 0.00 3.77
457 458 1.300080 CCAAAAGGGCTGCGTGTTG 60.300 57.895 0.00 0.00 0.00 3.33
458 459 1.756561 ACCAAAAGGGCTGCGTGTT 60.757 52.632 0.00 0.00 42.05 3.32
459 460 2.123897 ACCAAAAGGGCTGCGTGT 60.124 55.556 0.00 0.00 42.05 4.49
460 461 1.526575 ATCACCAAAAGGGCTGCGTG 61.527 55.000 0.00 0.00 42.05 5.34
461 462 1.228552 ATCACCAAAAGGGCTGCGT 60.229 52.632 0.00 0.00 42.05 5.24
462 463 1.508088 GATCACCAAAAGGGCTGCG 59.492 57.895 0.00 0.00 42.05 5.18
463 464 0.613012 AGGATCACCAAAAGGGCTGC 60.613 55.000 0.00 0.00 42.05 5.25
464 465 2.290896 TGTAGGATCACCAAAAGGGCTG 60.291 50.000 0.00 0.00 42.05 4.85
465 466 1.992557 TGTAGGATCACCAAAAGGGCT 59.007 47.619 0.00 0.00 42.05 5.19
466 467 2.092323 GTGTAGGATCACCAAAAGGGC 58.908 52.381 0.00 0.00 42.05 5.19
475 476 5.701290 GTGCCATATTAAGGTGTAGGATCAC 59.299 44.000 0.00 0.00 37.57 3.06
476 477 5.368230 TGTGCCATATTAAGGTGTAGGATCA 59.632 40.000 0.00 0.00 0.00 2.92
477 478 5.865085 TGTGCCATATTAAGGTGTAGGATC 58.135 41.667 0.00 0.00 0.00 3.36
478 479 5.904984 TGTGCCATATTAAGGTGTAGGAT 57.095 39.130 0.00 0.00 0.00 3.24
479 480 5.427157 TCTTGTGCCATATTAAGGTGTAGGA 59.573 40.000 0.00 0.00 0.00 2.94
480 481 5.680619 TCTTGTGCCATATTAAGGTGTAGG 58.319 41.667 0.00 0.00 0.00 3.18
481 482 6.767902 ACATCTTGTGCCATATTAAGGTGTAG 59.232 38.462 0.00 0.00 41.31 2.74
482 483 6.542005 CACATCTTGTGCCATATTAAGGTGTA 59.458 38.462 0.00 0.00 41.21 2.90
483 484 5.357878 CACATCTTGTGCCATATTAAGGTGT 59.642 40.000 0.00 0.00 43.22 4.16
484 485 5.824429 CACATCTTGTGCCATATTAAGGTG 58.176 41.667 0.00 0.00 41.89 4.00
501 675 2.460330 CGAAAAGAGCCGCACATCT 58.540 52.632 0.00 0.00 0.00 2.90
525 699 1.461091 TAGCCCGGATAGCCAACTCG 61.461 60.000 0.73 0.00 0.00 4.18
535 709 1.075226 TCTTCAGCCTAGCCCGGAT 60.075 57.895 0.73 0.00 0.00 4.18
555 729 2.914097 GCAAAGCCCACAGCCTGT 60.914 61.111 0.00 0.00 45.47 4.00
566 740 2.563427 GCTCAAGGACCGCAAAGC 59.437 61.111 0.00 0.00 0.00 3.51
599 773 0.447801 GTTGGAATGTCTCGCGCATT 59.552 50.000 8.75 9.72 39.04 3.56
610 785 0.796312 CCGTCACGAAGGTTGGAATG 59.204 55.000 0.00 0.00 0.00 2.67
611 786 0.395312 ACCGTCACGAAGGTTGGAAT 59.605 50.000 0.00 0.00 40.26 3.01
614 789 1.142474 GTTACCGTCACGAAGGTTGG 58.858 55.000 9.96 0.00 40.26 3.77
627 802 0.594110 ATTTGGTGTTGGCGTTACCG 59.406 50.000 0.00 0.00 43.94 4.02
628 803 2.804697 AATTTGGTGTTGGCGTTACC 57.195 45.000 0.00 0.00 39.84 2.85
633 808 2.525055 CGGAATAATTTGGTGTTGGCG 58.475 47.619 0.00 0.00 0.00 5.69
658 833 2.052690 GTCCTCTAGCGCTGACCCA 61.053 63.158 22.90 0.00 0.00 4.51
673 848 0.534203 TGGAAGTGGTTCTTGCGTCC 60.534 55.000 0.00 0.00 45.47 4.79
682 857 2.749621 GCTTGATTCGATGGAAGTGGTT 59.250 45.455 0.00 0.00 35.19 3.67
684 859 2.096496 GTGCTTGATTCGATGGAAGTGG 59.904 50.000 0.00 0.00 35.19 4.00
688 863 6.459985 CCATAATTGTGCTTGATTCGATGGAA 60.460 38.462 0.00 0.00 33.43 3.53
690 865 5.008911 TCCATAATTGTGCTTGATTCGATGG 59.991 40.000 0.00 0.00 33.00 3.51
730 905 5.694006 CACGAATGATCTCCTCCTTACATTC 59.306 44.000 0.00 0.00 39.67 2.67
752 927 1.819288 TGACCTCCGAGAAGTGATCAC 59.181 52.381 18.47 18.47 0.00 3.06
787 962 2.472414 TTTAGGTCGTTGGCCGCCAT 62.472 55.000 14.30 0.00 35.87 4.40
788 963 2.472414 ATTTAGGTCGTTGGCCGCCA 62.472 55.000 8.43 8.43 35.87 5.69
791 966 1.937899 CCTAATTTAGGTCGTTGGCCG 59.062 52.381 13.48 0.00 41.18 6.13
793 968 3.118519 TCCTCCTAATTTAGGTCGTTGGC 60.119 47.826 19.60 0.00 46.32 4.52
794 969 4.443034 CCTCCTCCTAATTTAGGTCGTTGG 60.443 50.000 19.60 14.70 46.32 3.77
795 970 4.161754 ACCTCCTCCTAATTTAGGTCGTTG 59.838 45.833 19.60 10.84 46.32 4.10
797 972 3.991683 ACCTCCTCCTAATTTAGGTCGT 58.008 45.455 19.60 8.79 46.32 4.34
799 974 4.686396 GCCAACCTCCTCCTAATTTAGGTC 60.686 50.000 19.60 0.00 46.32 3.85
801 976 5.683429 AGGCCAACCTCCTCCTAATTTAGG 61.683 50.000 15.25 15.25 46.34 2.69
802 977 3.459969 AGGCCAACCTCCTCCTAATTTAG 59.540 47.826 5.01 0.00 46.34 1.85
803 978 3.470868 AGGCCAACCTCCTCCTAATTTA 58.529 45.455 5.01 0.00 46.34 1.40
806 981 3.761078 AGGCCAACCTCCTCCTAAT 57.239 52.632 5.01 0.00 46.34 1.73
823 998 4.148825 CAAGTCGGGGGCCTCGAG 62.149 72.222 32.27 14.77 37.31 4.04
824 999 4.689549 TCAAGTCGGGGGCCTCGA 62.690 66.667 27.67 27.67 0.00 4.04
825 1000 4.148825 CTCAAGTCGGGGGCCTCG 62.149 72.222 22.64 22.64 0.00 4.63
826 1001 1.262640 TTACTCAAGTCGGGGGCCTC 61.263 60.000 0.84 0.00 0.00 4.70
827 1002 1.229400 TTACTCAAGTCGGGGGCCT 60.229 57.895 0.84 0.00 0.00 5.19
829 1004 1.078637 GGTTACTCAAGTCGGGGGC 60.079 63.158 0.00 0.00 0.00 5.80
830 1005 1.755380 CTAGGTTACTCAAGTCGGGGG 59.245 57.143 0.00 0.00 0.00 5.40
831 1006 1.136500 GCTAGGTTACTCAAGTCGGGG 59.864 57.143 0.00 0.00 0.00 5.73
832 1007 2.100989 AGCTAGGTTACTCAAGTCGGG 58.899 52.381 0.00 0.00 0.00 5.14
833 1008 2.492484 ACAGCTAGGTTACTCAAGTCGG 59.508 50.000 0.00 0.00 0.00 4.79
834 1009 3.190744 TGACAGCTAGGTTACTCAAGTCG 59.809 47.826 0.00 0.00 0.00 4.18
835 1010 4.785511 TGACAGCTAGGTTACTCAAGTC 57.214 45.455 0.00 0.00 0.00 3.01
836 1011 4.081420 CCATGACAGCTAGGTTACTCAAGT 60.081 45.833 0.00 0.00 0.00 3.16
837 1012 4.437239 CCATGACAGCTAGGTTACTCAAG 58.563 47.826 0.00 0.00 0.00 3.02
838 1013 3.369471 GCCATGACAGCTAGGTTACTCAA 60.369 47.826 0.00 0.00 0.00 3.02
839 1014 2.168521 GCCATGACAGCTAGGTTACTCA 59.831 50.000 0.00 0.00 0.00 3.41
840 1015 2.799917 CGCCATGACAGCTAGGTTACTC 60.800 54.545 0.00 0.00 0.00 2.59
842 1017 1.571919 CGCCATGACAGCTAGGTTAC 58.428 55.000 0.00 0.00 0.00 2.50
843 1018 0.179084 GCGCCATGACAGCTAGGTTA 60.179 55.000 0.00 0.00 0.00 2.85
844 1019 1.450312 GCGCCATGACAGCTAGGTT 60.450 57.895 0.00 0.00 0.00 3.50
845 1020 2.187946 GCGCCATGACAGCTAGGT 59.812 61.111 0.00 0.00 0.00 3.08
846 1021 2.590007 GGCGCCATGACAGCTAGG 60.590 66.667 24.80 0.00 0.00 3.02
847 1022 2.590007 GGGCGCCATGACAGCTAG 60.590 66.667 30.85 0.00 0.00 3.42
851 3107 3.803082 CGTTGGGCGCCATGACAG 61.803 66.667 30.85 14.48 31.53 3.51
857 3113 2.472414 ATTTAGGTCGTTGGGCGCCA 62.472 55.000 30.85 12.04 41.07 5.69
860 3116 0.450184 CCAATTTAGGTCGTTGGGCG 59.550 55.000 0.00 0.00 38.93 6.13
864 3120 3.270877 CTCCTCCCAATTTAGGTCGTTG 58.729 50.000 0.00 0.00 34.30 4.10
877 3133 3.011517 GAGGCCAAGCTCCTCCCA 61.012 66.667 5.01 0.00 43.32 4.37
914 3170 4.226846 CCATGGATATTGGATCAGCTAGGT 59.773 45.833 5.56 0.00 36.26 3.08
924 3180 3.982730 ACACCTCATCCATGGATATTGGA 59.017 43.478 30.56 22.07 46.86 3.53
952 3208 3.385433 TGGAGATTTTATAGGTTCGCGGA 59.615 43.478 6.13 0.00 0.00 5.54
983 3239 0.895100 TGTGCTCTGGCCAAATGGAC 60.895 55.000 7.01 11.70 45.93 4.02
990 3246 1.824224 CTCTGTCTGTGCTCTGGCCA 61.824 60.000 4.71 4.71 37.74 5.36
996 3252 1.261480 TCCCTTCTCTGTCTGTGCTC 58.739 55.000 0.00 0.00 0.00 4.26
1003 3259 3.536570 GGTGCTAATTCCCTTCTCTGTC 58.463 50.000 0.00 0.00 0.00 3.51
1068 3327 1.036707 CCCTGACTTCGATCTCTCCC 58.963 60.000 0.00 0.00 0.00 4.30
1078 3337 1.205893 CCTACACAGCTCCCTGACTTC 59.794 57.143 0.00 0.00 41.77 3.01
1079 3338 1.270907 CCTACACAGCTCCCTGACTT 58.729 55.000 0.00 0.00 41.77 3.01
1090 3349 2.768253 TTGATCAGGCACCTACACAG 57.232 50.000 0.00 0.00 0.00 3.66
1108 3367 1.478288 GCCATGGATCCTGCTAGCTTT 60.478 52.381 18.40 0.00 0.00 3.51
1137 3400 5.121454 CAGAAGACAAGCATAGTCAAGAACC 59.879 44.000 6.08 0.00 38.46 3.62
1147 3410 1.740380 GCCTCGCAGAAGACAAGCATA 60.740 52.381 0.00 0.00 34.09 3.14
1148 3411 1.023513 GCCTCGCAGAAGACAAGCAT 61.024 55.000 0.00 0.00 34.09 3.79
1172 3435 2.617308 CAGACATACTGTACCCGTCGAT 59.383 50.000 0.00 0.00 41.30 3.59
1188 3451 0.602638 GCCGGTTGTCATCACAGACA 60.603 55.000 1.90 0.00 46.12 3.41
1250 3513 0.820482 TCGTCGTCCACCTTGTGAGA 60.820 55.000 0.00 0.00 35.23 3.27
1266 3529 1.056660 TCCCTGCTTTTTCTCCTCGT 58.943 50.000 0.00 0.00 0.00 4.18
1293 3556 2.665185 GCTGCAACGTCGACCCTT 60.665 61.111 10.58 0.00 0.00 3.95
1319 3582 0.902984 TCGAAGGCTAGCTGGAACCA 60.903 55.000 15.72 0.00 0.00 3.67
1425 3690 9.624697 AAAAATGATTACTACTACGTACGTGAA 57.375 29.630 30.25 11.03 0.00 3.18
1463 3729 8.188799 TGCATATGTACTACTAGTGAAACAGTC 58.811 37.037 5.39 0.00 41.43 3.51
1481 3754 9.687210 CATTTGTATTGAAGCTTATGCATATGT 57.313 29.630 17.98 2.67 42.74 2.29
1540 3819 3.134574 TGAGTTGTCATACACCCCAAC 57.865 47.619 0.00 0.00 37.93 3.77
1623 3903 3.329929 ACCCAAATAGAGTCACGGAAC 57.670 47.619 0.00 0.00 0.00 3.62
1628 3908 6.199937 TCGTAGTAACCCAAATAGAGTCAC 57.800 41.667 0.00 0.00 0.00 3.67
1650 3930 5.019498 CGACCGCATGTTTTAGTTTACATC 58.981 41.667 0.00 0.00 32.88 3.06
1673 3953 5.176223 TGAAGAAGATTCGAAACGTGTTACC 59.824 40.000 0.00 0.00 0.00 2.85
1720 4000 4.761739 TGTCCACATCCAAAATTGAGACTC 59.238 41.667 0.00 0.00 0.00 3.36
1728 4008 4.118168 AGAGGTTGTCCACATCCAAAAT 57.882 40.909 9.08 0.00 36.83 1.82
1769 4052 9.830975 TTGAAGCTTATGCACTAATCAAGTATA 57.169 29.630 0.00 0.00 42.74 1.47
1773 4056 9.443283 GTATTTGAAGCTTATGCACTAATCAAG 57.557 33.333 0.00 0.00 42.74 3.02
1839 4122 8.812972 GTGATACATGTCCACTATCCCTAATTA 58.187 37.037 18.62 0.00 0.00 1.40
1840 4123 7.514127 AGTGATACATGTCCACTATCCCTAATT 59.486 37.037 24.06 4.94 39.15 1.40
1851 4134 5.086104 ACTACCAAGTGATACATGTCCAC 57.914 43.478 18.37 18.37 33.57 4.02
1927 4211 1.129058 ACCGGGACTAATGGGCTAAG 58.871 55.000 6.32 0.00 0.00 2.18
1929 4213 1.125633 GAACCGGGACTAATGGGCTA 58.874 55.000 6.32 0.00 0.00 3.93
2102 4407 2.035155 GAACCGGGACCAAAGGGG 59.965 66.667 6.32 0.00 44.81 4.79
2271 4586 4.974399 AGAAAGCTTAAGTAGTGTGGCTT 58.026 39.130 0.00 0.00 40.97 4.35
2337 4652 1.680207 GACGGACCGCTAAACCTAGAT 59.320 52.381 15.39 0.00 0.00 1.98


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

AutoCloner maintained by Alex Coulton.