Multiple sequence alignment - TraesCS5B01G144000

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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 TraesCS5B01G144000 chr5B 100.000 2687 0 0 1 2687 271180962 271183648 0.000000e+00 4963.0
1 TraesCS5B01G144000 chr5B 92.857 700 48 1 1990 2687 270010005 270009306 0.000000e+00 1014.0
2 TraesCS5B01G144000 chr5B 87.568 185 17 4 331 513 452135649 452135829 2.710000e-50 209.0
3 TraesCS5B01G144000 chr5B 86.486 185 21 2 331 513 19989229 19989411 1.630000e-47 200.0
4 TraesCS5B01G144000 chr5B 95.833 96 4 0 510 605 496138769 496138674 3.580000e-34 156.0
5 TraesCS5B01G144000 chr5B 100.000 38 0 0 596 633 51157891 51157854 1.330000e-08 71.3
6 TraesCS5B01G144000 chr5B 100.000 38 0 0 596 633 416029343 416029380 1.330000e-08 71.3
7 TraesCS5B01G144000 chr5B 97.500 40 0 1 596 634 621835253 621835214 1.730000e-07 67.6
8 TraesCS5B01G144000 chr5D 92.888 1406 50 14 635 1990 233689634 233688229 0.000000e+00 1997.0
9 TraesCS5B01G144000 chr5D 86.714 700 89 3 1990 2687 43206638 43205941 0.000000e+00 774.0
10 TraesCS5B01G144000 chr5D 90.032 311 18 6 1 308 233690032 233689732 9.020000e-105 390.0
11 TraesCS5B01G144000 chr5A 89.347 1408 64 21 635 1977 321051552 321052938 0.000000e+00 1690.0
12 TraesCS5B01G144000 chr5A 94.569 313 12 2 1 308 321051233 321051545 1.870000e-131 479.0
13 TraesCS5B01G144000 chr5A 92.593 108 8 0 512 619 674574367 674574260 3.580000e-34 156.0
14 TraesCS5B01G144000 chr3B 90.300 701 65 3 1990 2687 676917081 676917781 0.000000e+00 915.0
15 TraesCS5B01G144000 chr3B 88.830 188 18 2 332 516 798612979 798612792 7.480000e-56 228.0
16 TraesCS5B01G144000 chr3B 86.842 190 19 3 329 516 13122730 13122545 9.750000e-50 207.0
17 TraesCS5B01G144000 chr3B 86.243 189 19 4 331 516 560556107 560555923 5.870000e-47 198.0
18 TraesCS5B01G144000 chr4B 89.799 696 67 3 1995 2687 444285637 444286331 0.000000e+00 889.0
19 TraesCS5B01G144000 chr4B 78.078 593 73 29 1077 1639 147066781 147066216 3.340000e-84 322.0
20 TraesCS5B01G144000 chr4B 100.000 38 0 0 596 633 475020916 475020953 1.330000e-08 71.3
21 TraesCS5B01G144000 chr7D 89.143 700 71 4 1991 2687 515805369 515806066 0.000000e+00 867.0
22 TraesCS5B01G144000 chr7D 98.864 88 1 0 513 600 195280136 195280223 9.960000e-35 158.0
23 TraesCS5B01G144000 chr2B 87.714 700 83 2 1990 2687 190988361 190987663 0.000000e+00 813.0
24 TraesCS5B01G144000 chr2B 88.172 186 15 4 331 513 483548662 483548843 5.830000e-52 215.0
25 TraesCS5B01G144000 chr2B 86.772 189 18 4 331 516 38668875 38668691 1.260000e-48 204.0
26 TraesCS5B01G144000 chr1D 87.697 699 83 2 1991 2687 389609855 389609158 0.000000e+00 811.0
27 TraesCS5B01G144000 chr3D 86.714 700 87 5 1991 2687 498351440 498352136 0.000000e+00 773.0
28 TraesCS5B01G144000 chr7B 85.429 700 96 4 1991 2687 598442152 598442848 0.000000e+00 723.0
29 TraesCS5B01G144000 chr4D 78.583 593 70 30 1077 1639 102534320 102533755 3.310000e-89 339.0
30 TraesCS5B01G144000 chr2D 86.458 192 20 4 328 516 12723868 12723680 3.510000e-49 206.0
31 TraesCS5B01G144000 chr6B 85.567 194 19 7 325 513 295772158 295772347 7.590000e-46 195.0
32 TraesCS5B01G144000 chr6B 96.875 96 3 0 513 608 679569255 679569160 7.700000e-36 161.0
33 TraesCS5B01G144000 chr1B 98.864 88 1 0 513 600 343996024 343995937 9.960000e-35 158.0
34 TraesCS5B01G144000 chr1B 96.774 93 3 0 512 604 47517431 47517339 3.580000e-34 156.0
35 TraesCS5B01G144000 chr6D 95.876 97 2 2 513 607 27308697 27308601 3.580000e-34 156.0
36 TraesCS5B01G144000 chr6D 94.898 98 4 1 513 609 443958604 443958507 4.630000e-33 152.0
37 TraesCS5B01G144000 chr6A 90.435 115 5 4 512 622 47680660 47680548 2.160000e-31 147.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G144000 chr5B 271180962 271183648 2686 False 4963.0 4963 100.000 1 2687 1 chr5B.!!$F2 2686
1 TraesCS5B01G144000 chr5B 270009306 270010005 699 True 1014.0 1014 92.857 1990 2687 1 chr5B.!!$R2 697
2 TraesCS5B01G144000 chr5D 233688229 233690032 1803 True 1193.5 1997 91.460 1 1990 2 chr5D.!!$R2 1989
3 TraesCS5B01G144000 chr5D 43205941 43206638 697 True 774.0 774 86.714 1990 2687 1 chr5D.!!$R1 697
4 TraesCS5B01G144000 chr5A 321051233 321052938 1705 False 1084.5 1690 91.958 1 1977 2 chr5A.!!$F1 1976
5 TraesCS5B01G144000 chr3B 676917081 676917781 700 False 915.0 915 90.300 1990 2687 1 chr3B.!!$F1 697
6 TraesCS5B01G144000 chr4B 444285637 444286331 694 False 889.0 889 89.799 1995 2687 1 chr4B.!!$F1 692
7 TraesCS5B01G144000 chr4B 147066216 147066781 565 True 322.0 322 78.078 1077 1639 1 chr4B.!!$R1 562
8 TraesCS5B01G144000 chr7D 515805369 515806066 697 False 867.0 867 89.143 1991 2687 1 chr7D.!!$F2 696
9 TraesCS5B01G144000 chr2B 190987663 190988361 698 True 813.0 813 87.714 1990 2687 1 chr2B.!!$R2 697
10 TraesCS5B01G144000 chr1D 389609158 389609855 697 True 811.0 811 87.697 1991 2687 1 chr1D.!!$R1 696
11 TraesCS5B01G144000 chr3D 498351440 498352136 696 False 773.0 773 86.714 1991 2687 1 chr3D.!!$F1 696
12 TraesCS5B01G144000 chr7B 598442152 598442848 696 False 723.0 723 85.429 1991 2687 1 chr7B.!!$F1 696
13 TraesCS5B01G144000 chr4D 102533755 102534320 565 True 339.0 339 78.583 1077 1639 1 chr4D.!!$R1 562

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
516 524 0.034283 AGGACGGGTCTCACCTACTC 60.034 60.0 0.0 0.0 38.64 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2381 2496 0.474854 TTCAGAGGTAGCACCCCCAA 60.475 55.0 0.0 0.0 39.75 4.12 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
78 79 6.548251 TGGACCATATCACTACGACTTTATCA 59.452 38.462 0.00 0.00 0.00 2.15
223 230 4.521292 TGATTCCCGCATGCCCCC 62.521 66.667 13.15 0.00 0.00 5.40
271 278 3.731652 TGACAGCAACAAATGGGAAAG 57.268 42.857 0.00 0.00 0.00 2.62
290 298 7.045416 GGGAAAGATTAGAAAAGGAGAGAGAC 58.955 42.308 0.00 0.00 0.00 3.36
311 319 5.455056 ACTTGTCGTCTCTTTGATACAGT 57.545 39.130 0.00 0.00 0.00 3.55
312 320 6.570672 ACTTGTCGTCTCTTTGATACAGTA 57.429 37.500 0.00 0.00 0.00 2.74
313 321 6.613233 ACTTGTCGTCTCTTTGATACAGTAG 58.387 40.000 0.00 0.00 0.00 2.57
314 322 6.207025 ACTTGTCGTCTCTTTGATACAGTAGT 59.793 38.462 0.00 0.00 0.00 2.73
315 323 6.570672 TGTCGTCTCTTTGATACAGTAGTT 57.429 37.500 0.00 0.00 0.00 2.24
317 325 7.431249 TGTCGTCTCTTTGATACAGTAGTTTT 58.569 34.615 0.00 0.00 0.00 2.43
318 326 7.381408 TGTCGTCTCTTTGATACAGTAGTTTTG 59.619 37.037 0.00 0.00 0.00 2.44
319 327 7.381678 GTCGTCTCTTTGATACAGTAGTTTTGT 59.618 37.037 0.00 0.00 0.00 2.83
321 329 9.188588 CGTCTCTTTGATACAGTAGTTTTGTTA 57.811 33.333 0.00 0.00 0.00 2.41
357 365 4.939052 ATTCTATGAGACCAGGTAACGG 57.061 45.455 0.00 0.00 46.39 4.44
366 374 3.453559 CAGGTAACGGGTTAGCAGG 57.546 57.895 19.34 9.71 43.72 4.85
367 375 0.611714 CAGGTAACGGGTTAGCAGGT 59.388 55.000 19.34 0.59 43.72 4.00
368 376 0.611714 AGGTAACGGGTTAGCAGGTG 59.388 55.000 19.34 0.00 43.72 4.00
369 377 0.609662 GGTAACGGGTTAGCAGGTGA 59.390 55.000 14.07 0.00 41.65 4.02
373 381 1.218316 CGGGTTAGCAGGTGAGACC 59.782 63.158 0.00 0.00 38.99 3.85
388 396 6.166984 GGTGAGACCTATCTTGATGAATGA 57.833 41.667 0.00 0.00 34.34 2.57
389 397 5.988561 GGTGAGACCTATCTTGATGAATGAC 59.011 44.000 0.00 0.00 34.34 3.06
390 398 6.407412 GGTGAGACCTATCTTGATGAATGACA 60.407 42.308 0.00 0.00 34.34 3.58
391 399 6.478344 GTGAGACCTATCTTGATGAATGACAC 59.522 42.308 0.00 0.00 34.34 3.67
392 400 5.595885 AGACCTATCTTGATGAATGACACG 58.404 41.667 0.00 0.00 0.00 4.49
393 401 5.127845 AGACCTATCTTGATGAATGACACGT 59.872 40.000 0.00 0.00 0.00 4.49
394 402 5.111989 ACCTATCTTGATGAATGACACGTG 58.888 41.667 15.48 15.48 0.00 4.49
395 403 5.105351 ACCTATCTTGATGAATGACACGTGA 60.105 40.000 25.01 0.00 0.00 4.35
396 404 5.233050 CCTATCTTGATGAATGACACGTGAC 59.767 44.000 25.01 17.68 0.00 3.67
397 405 3.988819 TCTTGATGAATGACACGTGACA 58.011 40.909 25.01 23.44 0.00 3.58
398 406 4.568956 TCTTGATGAATGACACGTGACAT 58.431 39.130 24.49 24.49 32.16 3.06
399 407 4.996758 TCTTGATGAATGACACGTGACATT 59.003 37.500 35.00 35.00 41.60 2.71
417 425 8.112099 GTGACATTCACAAATCATAAAGCATC 57.888 34.615 1.34 0.00 46.22 3.91
418 426 7.972277 GTGACATTCACAAATCATAAAGCATCT 59.028 33.333 1.34 0.00 46.22 2.90
419 427 9.176460 TGACATTCACAAATCATAAAGCATCTA 57.824 29.630 0.00 0.00 0.00 1.98
420 428 9.443283 GACATTCACAAATCATAAAGCATCTAC 57.557 33.333 0.00 0.00 0.00 2.59
421 429 8.408601 ACATTCACAAATCATAAAGCATCTACC 58.591 33.333 0.00 0.00 0.00 3.18
422 430 6.942532 TCACAAATCATAAAGCATCTACCC 57.057 37.500 0.00 0.00 0.00 3.69
423 431 5.827797 TCACAAATCATAAAGCATCTACCCC 59.172 40.000 0.00 0.00 0.00 4.95
424 432 5.593909 CACAAATCATAAAGCATCTACCCCA 59.406 40.000 0.00 0.00 0.00 4.96
425 433 6.266103 CACAAATCATAAAGCATCTACCCCAT 59.734 38.462 0.00 0.00 0.00 4.00
426 434 6.491403 ACAAATCATAAAGCATCTACCCCATC 59.509 38.462 0.00 0.00 0.00 3.51
427 435 4.640771 TCATAAAGCATCTACCCCATCC 57.359 45.455 0.00 0.00 0.00 3.51
428 436 3.330701 TCATAAAGCATCTACCCCATCCC 59.669 47.826 0.00 0.00 0.00 3.85
429 437 0.853530 AAAGCATCTACCCCATCCCC 59.146 55.000 0.00 0.00 0.00 4.81
430 438 0.328450 AAGCATCTACCCCATCCCCA 60.328 55.000 0.00 0.00 0.00 4.96
431 439 1.062488 AGCATCTACCCCATCCCCAC 61.062 60.000 0.00 0.00 0.00 4.61
432 440 1.062488 GCATCTACCCCATCCCCACT 61.062 60.000 0.00 0.00 0.00 4.00
433 441 1.522900 CATCTACCCCATCCCCACTT 58.477 55.000 0.00 0.00 0.00 3.16
434 442 2.701551 CATCTACCCCATCCCCACTTA 58.298 52.381 0.00 0.00 0.00 2.24
435 443 2.974285 TCTACCCCATCCCCACTTAA 57.026 50.000 0.00 0.00 0.00 1.85
436 444 3.448277 TCTACCCCATCCCCACTTAAT 57.552 47.619 0.00 0.00 0.00 1.40
437 445 4.579850 TCTACCCCATCCCCACTTAATA 57.420 45.455 0.00 0.00 0.00 0.98
438 446 5.114743 TCTACCCCATCCCCACTTAATAT 57.885 43.478 0.00 0.00 0.00 1.28
439 447 5.098663 TCTACCCCATCCCCACTTAATATC 58.901 45.833 0.00 0.00 0.00 1.63
440 448 2.642807 ACCCCATCCCCACTTAATATCG 59.357 50.000 0.00 0.00 0.00 2.92
441 449 2.026262 CCCCATCCCCACTTAATATCGG 60.026 54.545 0.00 0.00 0.00 4.18
442 450 2.910319 CCCATCCCCACTTAATATCGGA 59.090 50.000 0.00 0.00 0.00 4.55
443 451 3.055094 CCCATCCCCACTTAATATCGGAG 60.055 52.174 0.00 0.00 0.00 4.63
444 452 3.055094 CCATCCCCACTTAATATCGGAGG 60.055 52.174 0.00 0.00 0.00 4.30
445 453 3.623466 TCCCCACTTAATATCGGAGGA 57.377 47.619 0.00 0.00 0.00 3.71
446 454 3.931317 TCCCCACTTAATATCGGAGGAA 58.069 45.455 0.00 0.00 0.00 3.36
447 455 3.901844 TCCCCACTTAATATCGGAGGAAG 59.098 47.826 0.00 0.00 0.00 3.46
448 456 3.008049 CCCCACTTAATATCGGAGGAAGG 59.992 52.174 0.00 0.00 0.00 3.46
449 457 3.008049 CCCACTTAATATCGGAGGAAGGG 59.992 52.174 0.00 0.00 0.00 3.95
450 458 3.008049 CCACTTAATATCGGAGGAAGGGG 59.992 52.174 0.00 0.00 34.50 4.79
451 459 3.008049 CACTTAATATCGGAGGAAGGGGG 59.992 52.174 0.00 0.00 0.00 5.40
469 477 4.391405 GGGGGAGATTAAATGCTTTGTG 57.609 45.455 0.00 0.00 0.00 3.33
470 478 4.023291 GGGGGAGATTAAATGCTTTGTGA 58.977 43.478 0.00 0.00 0.00 3.58
471 479 4.651045 GGGGGAGATTAAATGCTTTGTGAT 59.349 41.667 0.00 0.00 0.00 3.06
472 480 5.129320 GGGGGAGATTAAATGCTTTGTGATT 59.871 40.000 0.00 0.00 0.00 2.57
473 481 6.352137 GGGGGAGATTAAATGCTTTGTGATTT 60.352 38.462 0.00 0.00 0.00 2.17
474 482 6.536224 GGGGAGATTAAATGCTTTGTGATTTG 59.464 38.462 0.00 0.00 0.00 2.32
475 483 7.099120 GGGAGATTAAATGCTTTGTGATTTGT 58.901 34.615 0.00 0.00 0.00 2.83
476 484 8.250332 GGGAGATTAAATGCTTTGTGATTTGTA 58.750 33.333 0.00 0.00 0.00 2.41
477 485 9.638239 GGAGATTAAATGCTTTGTGATTTGTAA 57.362 29.630 0.00 0.00 0.00 2.41
483 491 8.659925 AAATGCTTTGTGATTTGTAAATGACA 57.340 26.923 5.68 5.68 40.02 3.58
484 492 7.642071 ATGCTTTGTGATTTGTAAATGACAC 57.358 32.000 8.75 5.89 41.14 3.67
485 493 5.685068 TGCTTTGTGATTTGTAAATGACACG 59.315 36.000 8.75 5.49 41.14 4.49
486 494 5.685511 GCTTTGTGATTTGTAAATGACACGT 59.314 36.000 8.75 0.00 41.14 4.49
487 495 6.344936 GCTTTGTGATTTGTAAATGACACGTG 60.345 38.462 15.48 15.48 41.14 4.49
488 496 5.743026 TGTGATTTGTAAATGACACGTGT 57.257 34.783 23.64 23.64 37.54 4.49
489 497 5.743467 TGTGATTTGTAAATGACACGTGTC 58.257 37.500 36.01 36.01 37.54 3.67
499 507 1.645034 GACACGTGTCATCCATCAGG 58.355 55.000 37.16 1.27 44.18 3.86
500 508 1.204704 GACACGTGTCATCCATCAGGA 59.795 52.381 37.16 0.00 44.18 3.86
501 509 2.991132 GACACGTGTCATCCATCAGGAC 60.991 54.545 37.16 11.22 44.18 3.85
508 516 4.356979 TCCATCAGGACGGGTCTC 57.643 61.111 0.00 0.00 39.61 3.36
509 517 1.386550 TCCATCAGGACGGGTCTCA 59.613 57.895 0.00 0.00 39.61 3.27
510 518 0.970937 TCCATCAGGACGGGTCTCAC 60.971 60.000 0.00 0.00 39.61 3.51
511 519 1.517832 CATCAGGACGGGTCTCACC 59.482 63.158 0.00 0.00 37.60 4.02
512 520 0.972983 CATCAGGACGGGTCTCACCT 60.973 60.000 0.00 0.00 38.64 4.00
513 521 0.629596 ATCAGGACGGGTCTCACCTA 59.370 55.000 0.00 0.00 38.64 3.08
514 522 0.323178 TCAGGACGGGTCTCACCTAC 60.323 60.000 0.00 0.00 38.64 3.18
515 523 0.323542 CAGGACGGGTCTCACCTACT 60.324 60.000 0.00 0.00 38.64 2.57
516 524 0.034283 AGGACGGGTCTCACCTACTC 60.034 60.000 0.00 0.00 38.64 2.59
517 525 1.036481 GGACGGGTCTCACCTACTCC 61.036 65.000 0.00 0.00 38.64 3.85
518 526 1.000107 ACGGGTCTCACCTACTCCC 60.000 63.158 0.00 0.00 38.64 4.30
519 527 1.306970 CGGGTCTCACCTACTCCCT 59.693 63.158 0.00 0.00 38.64 4.20
520 528 0.752376 CGGGTCTCACCTACTCCCTC 60.752 65.000 0.00 0.00 38.64 4.30
521 529 0.632294 GGGTCTCACCTACTCCCTCT 59.368 60.000 0.00 0.00 38.64 3.69
522 530 1.686741 GGGTCTCACCTACTCCCTCTG 60.687 61.905 0.00 0.00 38.64 3.35
523 531 1.006162 GGTCTCACCTACTCCCTCTGT 59.994 57.143 0.00 0.00 34.73 3.41
524 532 2.241685 GGTCTCACCTACTCCCTCTGTA 59.758 54.545 0.00 0.00 34.73 2.74
525 533 3.308976 GGTCTCACCTACTCCCTCTGTAA 60.309 52.174 0.00 0.00 34.73 2.41
526 534 4.342359 GTCTCACCTACTCCCTCTGTAAA 58.658 47.826 0.00 0.00 0.00 2.01
527 535 4.158209 GTCTCACCTACTCCCTCTGTAAAC 59.842 50.000 0.00 0.00 0.00 2.01
528 536 4.044317 TCTCACCTACTCCCTCTGTAAACT 59.956 45.833 0.00 0.00 0.00 2.66
529 537 5.252397 TCTCACCTACTCCCTCTGTAAACTA 59.748 44.000 0.00 0.00 0.00 2.24
530 538 5.895807 TCACCTACTCCCTCTGTAAACTAA 58.104 41.667 0.00 0.00 0.00 2.24
531 539 6.500336 TCACCTACTCCCTCTGTAAACTAAT 58.500 40.000 0.00 0.00 0.00 1.73
532 540 7.645942 TCACCTACTCCCTCTGTAAACTAATA 58.354 38.462 0.00 0.00 0.00 0.98
533 541 8.287350 TCACCTACTCCCTCTGTAAACTAATAT 58.713 37.037 0.00 0.00 0.00 1.28
534 542 9.584008 CACCTACTCCCTCTGTAAACTAATATA 57.416 37.037 0.00 0.00 0.00 0.86
539 547 9.833917 ACTCCCTCTGTAAACTAATATAAAAGC 57.166 33.333 0.00 0.00 0.00 3.51
540 548 8.882415 TCCCTCTGTAAACTAATATAAAAGCG 57.118 34.615 0.00 0.00 0.00 4.68
541 549 8.480501 TCCCTCTGTAAACTAATATAAAAGCGT 58.519 33.333 0.00 0.00 0.00 5.07
542 550 9.106070 CCCTCTGTAAACTAATATAAAAGCGTT 57.894 33.333 0.00 0.00 0.00 4.84
561 569 9.918630 AAAGCGTTTAGATTACTAAAGTAGTGA 57.081 29.630 0.00 0.00 45.42 3.41
563 571 9.733219 AGCGTTTAGATTACTAAAGTAGTGATC 57.267 33.333 10.62 10.62 46.38 2.92
571 579 9.733219 GATTACTAAAGTAGTGATCTAAACGCT 57.267 33.333 11.11 0.00 44.10 5.07
572 580 9.733219 ATTACTAAAGTAGTGATCTAAACGCTC 57.267 33.333 0.00 0.00 39.81 5.03
573 581 7.393841 ACTAAAGTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 37.69 4.09
574 582 7.828712 ACTAAAGTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 37.69 2.85
575 583 8.954350 ACTAAAGTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 37.69 2.10
576 584 9.953697 CTAAAGTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 0.00 1.73
590 598 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
597 605 9.289782 TCTTATATTAGTTTACGGAGGGAGTAC 57.710 37.037 0.00 0.00 0.00 2.73
598 606 9.294614 CTTATATTAGTTTACGGAGGGAGTACT 57.705 37.037 0.00 0.00 0.00 2.73
599 607 9.646522 TTATATTAGTTTACGGAGGGAGTACTT 57.353 33.333 0.00 0.00 0.00 2.24
600 608 6.864151 ATTAGTTTACGGAGGGAGTACTTT 57.136 37.500 0.00 0.00 0.00 2.66
601 609 7.961326 ATTAGTTTACGGAGGGAGTACTTTA 57.039 36.000 0.00 0.00 0.00 1.85
602 610 7.961326 TTAGTTTACGGAGGGAGTACTTTAT 57.039 36.000 0.00 0.00 0.00 1.40
603 611 9.646522 ATTAGTTTACGGAGGGAGTACTTTATA 57.353 33.333 0.00 0.00 0.00 0.98
604 612 9.646522 TTAGTTTACGGAGGGAGTACTTTATAT 57.353 33.333 0.00 0.00 0.00 0.86
605 613 7.949434 AGTTTACGGAGGGAGTACTTTATATG 58.051 38.462 0.00 0.00 0.00 1.78
606 614 7.781693 AGTTTACGGAGGGAGTACTTTATATGA 59.218 37.037 0.00 0.00 0.00 2.15
607 615 7.756395 TTACGGAGGGAGTACTTTATATGAG 57.244 40.000 0.00 0.00 0.00 2.90
608 616 5.950023 ACGGAGGGAGTACTTTATATGAGA 58.050 41.667 0.00 0.00 0.00 3.27
609 617 5.769162 ACGGAGGGAGTACTTTATATGAGAC 59.231 44.000 0.00 0.00 0.00 3.36
610 618 5.183522 CGGAGGGAGTACTTTATATGAGACC 59.816 48.000 0.00 0.00 0.00 3.85
611 619 6.316513 GGAGGGAGTACTTTATATGAGACCT 58.683 44.000 0.00 0.00 0.00 3.85
612 620 6.209788 GGAGGGAGTACTTTATATGAGACCTG 59.790 46.154 0.00 0.00 0.00 4.00
613 621 6.078664 AGGGAGTACTTTATATGAGACCTGG 58.921 44.000 0.00 0.00 0.00 4.45
614 622 5.839606 GGGAGTACTTTATATGAGACCTGGT 59.160 44.000 0.00 0.00 0.00 4.00
615 623 6.015265 GGGAGTACTTTATATGAGACCTGGTC 60.015 46.154 19.20 19.20 0.00 4.02
616 624 6.778559 GGAGTACTTTATATGAGACCTGGTCT 59.221 42.308 28.70 28.70 46.42 3.85
683 694 6.852853 CGAAATTCCTTATTTCCATGTCGATG 59.147 38.462 0.00 0.00 46.18 3.84
699 710 6.304356 TGTCGATGAATCAAGAATAATGCC 57.696 37.500 0.00 0.00 0.00 4.40
976 1039 4.821589 CCCTCTCCGCGAGCCAAC 62.822 72.222 8.23 0.00 38.49 3.77
1011 1080 0.463654 CTAGCGGCATGGCAAAGGTA 60.464 55.000 20.37 11.57 34.64 3.08
1251 1320 3.706373 GGGAAGCCGCTCCTCACA 61.706 66.667 0.00 0.00 35.63 3.58
1735 1837 2.922503 TGAAGCCGCTGACCTGGA 60.923 61.111 0.00 0.00 0.00 3.86
1914 2021 4.222145 GGATACATGCCTTAGGAATCGGTA 59.778 45.833 0.69 0.00 0.00 4.02
1915 2022 3.470645 ACATGCCTTAGGAATCGGTAC 57.529 47.619 0.69 0.00 0.00 3.34
1920 2029 4.220724 TGCCTTAGGAATCGGTACATACT 58.779 43.478 0.69 0.00 0.00 2.12
1926 2035 4.533815 AGGAATCGGTACATACTGTCAGA 58.466 43.478 6.91 0.00 34.25 3.27
1932 2041 3.487711 CGGTACATACTGTCAGACTCTGC 60.488 52.174 6.91 0.00 0.00 4.26
1943 2052 3.375299 GTCAGACTCTGCAACTTGTGTTT 59.625 43.478 0.62 0.00 33.52 2.83
1944 2053 4.009675 TCAGACTCTGCAACTTGTGTTTT 58.990 39.130 0.62 0.00 33.52 2.43
1948 2057 3.189285 CTCTGCAACTTGTGTTTTTGGG 58.811 45.455 0.00 0.00 33.52 4.12
2033 2145 5.969423 TGACGTACCATAACTTTAGAAGGG 58.031 41.667 0.00 0.00 0.00 3.95
2045 2157 1.961180 TAGAAGGGGAGAGCAAGCGC 61.961 60.000 0.00 0.00 38.99 5.92
2255 2370 2.105821 TGGTTGATCCGGTGAAAGACTT 59.894 45.455 0.00 0.00 39.52 3.01
2315 2430 1.206132 TGATGACCGTATCAAAGCCGT 59.794 47.619 0.00 0.00 41.93 5.68
2381 2496 1.344763 CAAGAAGAGTGTCCTCCGGTT 59.655 52.381 0.00 0.00 38.58 4.44
2538 2653 0.762461 AGTCCATGCCTAGCTCTCCC 60.762 60.000 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
78 79 8.375506 TGTTGTAATCTCCTCAAAGTGTAGATT 58.624 33.333 0.00 0.00 39.54 2.40
186 188 0.179067 GGATAAATCGTGGACGGGCA 60.179 55.000 0.00 0.00 40.29 5.36
246 253 2.613474 CCCATTTGTTGCTGTCATTGGG 60.613 50.000 0.00 0.00 34.58 4.12
271 278 6.750039 CGACAAGTCTCTCTCCTTTTCTAATC 59.250 42.308 0.00 0.00 0.00 1.75
290 298 6.613233 ACTACTGTATCAAAGAGACGACAAG 58.387 40.000 0.00 0.00 0.00 3.16
332 340 6.598064 CCGTTACCTGGTCTCATAGAATTTTT 59.402 38.462 0.63 0.00 0.00 1.94
333 341 6.113411 CCGTTACCTGGTCTCATAGAATTTT 58.887 40.000 0.63 0.00 0.00 1.82
334 342 5.396436 CCCGTTACCTGGTCTCATAGAATTT 60.396 44.000 0.63 0.00 0.00 1.82
335 343 4.101119 CCCGTTACCTGGTCTCATAGAATT 59.899 45.833 0.63 0.00 0.00 2.17
336 344 3.641906 CCCGTTACCTGGTCTCATAGAAT 59.358 47.826 0.63 0.00 0.00 2.40
337 345 3.028850 CCCGTTACCTGGTCTCATAGAA 58.971 50.000 0.63 0.00 0.00 2.10
338 346 2.024655 ACCCGTTACCTGGTCTCATAGA 60.025 50.000 0.63 0.00 0.00 1.98
339 347 2.385803 ACCCGTTACCTGGTCTCATAG 58.614 52.381 0.63 0.00 0.00 2.23
340 348 2.537633 ACCCGTTACCTGGTCTCATA 57.462 50.000 0.63 0.00 0.00 2.15
341 349 1.652947 AACCCGTTACCTGGTCTCAT 58.347 50.000 0.63 0.00 32.40 2.90
343 351 1.134877 GCTAACCCGTTACCTGGTCTC 60.135 57.143 0.63 0.00 32.40 3.36
345 353 0.609662 TGCTAACCCGTTACCTGGTC 59.390 55.000 0.63 0.00 32.40 4.02
347 355 0.107848 CCTGCTAACCCGTTACCTGG 60.108 60.000 0.00 0.00 0.00 4.45
348 356 0.611714 ACCTGCTAACCCGTTACCTG 59.388 55.000 0.00 0.00 0.00 4.00
349 357 0.611714 CACCTGCTAACCCGTTACCT 59.388 55.000 0.00 0.00 0.00 3.08
350 358 0.609662 TCACCTGCTAACCCGTTACC 59.390 55.000 0.00 0.00 0.00 2.85
351 359 1.547372 TCTCACCTGCTAACCCGTTAC 59.453 52.381 0.00 0.00 0.00 2.50
352 360 1.547372 GTCTCACCTGCTAACCCGTTA 59.453 52.381 0.00 0.00 0.00 3.18
353 361 0.320697 GTCTCACCTGCTAACCCGTT 59.679 55.000 0.00 0.00 0.00 4.44
354 362 1.542187 GGTCTCACCTGCTAACCCGT 61.542 60.000 0.00 0.00 34.73 5.28
355 363 1.218316 GGTCTCACCTGCTAACCCG 59.782 63.158 0.00 0.00 34.73 5.28
365 373 5.988561 GTCATTCATCAAGATAGGTCTCACC 59.011 44.000 0.00 0.00 38.99 4.02
366 374 6.478344 GTGTCATTCATCAAGATAGGTCTCAC 59.522 42.308 0.00 0.00 32.15 3.51
367 375 6.577103 GTGTCATTCATCAAGATAGGTCTCA 58.423 40.000 0.00 0.00 32.15 3.27
368 376 5.689514 CGTGTCATTCATCAAGATAGGTCTC 59.310 44.000 0.00 0.00 32.15 3.36
369 377 5.127845 ACGTGTCATTCATCAAGATAGGTCT 59.872 40.000 0.00 0.00 35.82 3.85
373 381 5.807011 TGTCACGTGTCATTCATCAAGATAG 59.193 40.000 16.51 0.00 0.00 2.08
374 382 5.719173 TGTCACGTGTCATTCATCAAGATA 58.281 37.500 16.51 0.00 0.00 1.98
376 384 3.988819 TGTCACGTGTCATTCATCAAGA 58.011 40.909 16.51 0.00 0.00 3.02
377 385 4.934075 ATGTCACGTGTCATTCATCAAG 57.066 40.909 20.34 0.00 0.00 3.02
379 387 4.926860 GAATGTCACGTGTCATTCATCA 57.073 40.909 39.38 19.88 44.32 3.07
393 401 8.058667 AGATGCTTTATGATTTGTGAATGTCA 57.941 30.769 0.00 0.00 0.00 3.58
394 402 9.443283 GTAGATGCTTTATGATTTGTGAATGTC 57.557 33.333 0.00 0.00 0.00 3.06
395 403 8.408601 GGTAGATGCTTTATGATTTGTGAATGT 58.591 33.333 0.00 0.00 0.00 2.71
396 404 7.864379 GGGTAGATGCTTTATGATTTGTGAATG 59.136 37.037 0.00 0.00 0.00 2.67
397 405 7.014615 GGGGTAGATGCTTTATGATTTGTGAAT 59.985 37.037 0.00 0.00 0.00 2.57
398 406 6.321181 GGGGTAGATGCTTTATGATTTGTGAA 59.679 38.462 0.00 0.00 0.00 3.18
399 407 5.827797 GGGGTAGATGCTTTATGATTTGTGA 59.172 40.000 0.00 0.00 0.00 3.58
400 408 5.593909 TGGGGTAGATGCTTTATGATTTGTG 59.406 40.000 0.00 0.00 0.00 3.33
401 409 5.765510 TGGGGTAGATGCTTTATGATTTGT 58.234 37.500 0.00 0.00 0.00 2.83
402 410 6.071728 GGATGGGGTAGATGCTTTATGATTTG 60.072 42.308 0.00 0.00 0.00 2.32
403 411 6.012745 GGATGGGGTAGATGCTTTATGATTT 58.987 40.000 0.00 0.00 0.00 2.17
404 412 5.517299 GGGATGGGGTAGATGCTTTATGATT 60.517 44.000 0.00 0.00 0.00 2.57
405 413 4.018050 GGGATGGGGTAGATGCTTTATGAT 60.018 45.833 0.00 0.00 0.00 2.45
406 414 3.330701 GGGATGGGGTAGATGCTTTATGA 59.669 47.826 0.00 0.00 0.00 2.15
407 415 3.562176 GGGGATGGGGTAGATGCTTTATG 60.562 52.174 0.00 0.00 0.00 1.90
408 416 2.649816 GGGGATGGGGTAGATGCTTTAT 59.350 50.000 0.00 0.00 0.00 1.40
409 417 2.062636 GGGGATGGGGTAGATGCTTTA 58.937 52.381 0.00 0.00 0.00 1.85
410 418 0.853530 GGGGATGGGGTAGATGCTTT 59.146 55.000 0.00 0.00 0.00 3.51
411 419 0.328450 TGGGGATGGGGTAGATGCTT 60.328 55.000 0.00 0.00 0.00 3.91
412 420 1.062488 GTGGGGATGGGGTAGATGCT 61.062 60.000 0.00 0.00 0.00 3.79
413 421 1.062488 AGTGGGGATGGGGTAGATGC 61.062 60.000 0.00 0.00 0.00 3.91
414 422 1.522900 AAGTGGGGATGGGGTAGATG 58.477 55.000 0.00 0.00 0.00 2.90
415 423 3.448277 TTAAGTGGGGATGGGGTAGAT 57.552 47.619 0.00 0.00 0.00 1.98
416 424 2.974285 TTAAGTGGGGATGGGGTAGA 57.026 50.000 0.00 0.00 0.00 2.59
417 425 4.081087 CGATATTAAGTGGGGATGGGGTAG 60.081 50.000 0.00 0.00 0.00 3.18
418 426 3.841845 CGATATTAAGTGGGGATGGGGTA 59.158 47.826 0.00 0.00 0.00 3.69
419 427 2.642807 CGATATTAAGTGGGGATGGGGT 59.357 50.000 0.00 0.00 0.00 4.95
420 428 2.026262 CCGATATTAAGTGGGGATGGGG 60.026 54.545 0.00 0.00 0.00 4.96
421 429 2.910319 TCCGATATTAAGTGGGGATGGG 59.090 50.000 0.00 0.00 0.00 4.00
422 430 3.055094 CCTCCGATATTAAGTGGGGATGG 60.055 52.174 0.00 0.00 0.00 3.51
423 431 3.838317 TCCTCCGATATTAAGTGGGGATG 59.162 47.826 0.00 0.00 0.00 3.51
424 432 4.141990 TCCTCCGATATTAAGTGGGGAT 57.858 45.455 0.00 0.00 0.00 3.85
425 433 3.623466 TCCTCCGATATTAAGTGGGGA 57.377 47.619 0.00 0.00 0.00 4.81
426 434 3.008049 CCTTCCTCCGATATTAAGTGGGG 59.992 52.174 0.00 0.00 0.00 4.96
427 435 3.008049 CCCTTCCTCCGATATTAAGTGGG 59.992 52.174 0.00 0.00 0.00 4.61
428 436 3.008049 CCCCTTCCTCCGATATTAAGTGG 59.992 52.174 0.00 0.00 0.00 4.00
429 437 3.008049 CCCCCTTCCTCCGATATTAAGTG 59.992 52.174 0.00 0.00 0.00 3.16
430 438 3.248888 CCCCCTTCCTCCGATATTAAGT 58.751 50.000 0.00 0.00 0.00 2.24
431 439 3.983044 CCCCCTTCCTCCGATATTAAG 57.017 52.381 0.00 0.00 0.00 1.85
448 456 4.023291 TCACAAAGCATTTAATCTCCCCC 58.977 43.478 0.00 0.00 35.03 5.40
449 457 5.859205 ATCACAAAGCATTTAATCTCCCC 57.141 39.130 0.00 0.00 35.03 4.81
450 458 7.099120 ACAAATCACAAAGCATTTAATCTCCC 58.901 34.615 0.00 0.00 35.03 4.30
451 459 9.638239 TTACAAATCACAAAGCATTTAATCTCC 57.362 29.630 0.00 0.00 35.03 3.71
457 465 9.755804 TGTCATTTACAAATCACAAAGCATTTA 57.244 25.926 0.00 0.00 32.97 1.40
458 466 8.550376 GTGTCATTTACAAATCACAAAGCATTT 58.450 29.630 0.00 0.00 40.63 2.32
459 467 7.096106 CGTGTCATTTACAAATCACAAAGCATT 60.096 33.333 0.00 0.00 40.63 3.56
460 468 6.363088 CGTGTCATTTACAAATCACAAAGCAT 59.637 34.615 0.00 0.00 40.63 3.79
461 469 5.685068 CGTGTCATTTACAAATCACAAAGCA 59.315 36.000 0.00 0.00 40.63 3.91
462 470 5.685511 ACGTGTCATTTACAAATCACAAAGC 59.314 36.000 0.00 0.00 40.63 3.51
463 471 6.690957 ACACGTGTCATTTACAAATCACAAAG 59.309 34.615 17.22 0.00 40.63 2.77
464 472 6.556212 ACACGTGTCATTTACAAATCACAAA 58.444 32.000 17.22 0.00 40.63 2.83
465 473 6.125327 ACACGTGTCATTTACAAATCACAA 57.875 33.333 17.22 0.00 40.63 3.33
466 474 5.743026 ACACGTGTCATTTACAAATCACA 57.257 34.783 17.22 0.00 40.63 3.58
480 488 1.204704 TCCTGATGGATGACACGTGTC 59.795 52.381 36.01 36.01 40.37 3.67
481 489 1.066858 GTCCTGATGGATGACACGTGT 60.067 52.381 23.64 23.64 45.29 4.49
482 490 1.645034 GTCCTGATGGATGACACGTG 58.355 55.000 15.48 15.48 45.29 4.49
489 497 0.390860 GAGACCCGTCCTGATGGATG 59.609 60.000 6.98 0.00 45.29 3.51
490 498 0.032117 TGAGACCCGTCCTGATGGAT 60.032 55.000 6.98 0.00 45.29 3.41
491 499 0.970937 GTGAGACCCGTCCTGATGGA 60.971 60.000 6.98 0.00 39.90 3.41
492 500 1.517832 GTGAGACCCGTCCTGATGG 59.482 63.158 0.00 0.00 37.23 3.51
493 501 0.972983 AGGTGAGACCCGTCCTGATG 60.973 60.000 0.00 0.00 39.75 3.07
494 502 0.629596 TAGGTGAGACCCGTCCTGAT 59.370 55.000 0.00 0.00 39.75 2.90
495 503 0.323178 GTAGGTGAGACCCGTCCTGA 60.323 60.000 0.00 0.00 39.75 3.86
496 504 0.323542 AGTAGGTGAGACCCGTCCTG 60.324 60.000 0.00 0.00 39.75 3.86
497 505 0.034283 GAGTAGGTGAGACCCGTCCT 60.034 60.000 0.00 0.00 39.75 3.85
498 506 1.036481 GGAGTAGGTGAGACCCGTCC 61.036 65.000 0.00 0.00 39.75 4.79
499 507 1.036481 GGGAGTAGGTGAGACCCGTC 61.036 65.000 0.00 0.00 39.75 4.79
500 508 1.000107 GGGAGTAGGTGAGACCCGT 60.000 63.158 0.00 0.00 39.75 5.28
501 509 0.752376 GAGGGAGTAGGTGAGACCCG 60.752 65.000 0.00 0.00 44.57 5.28
502 510 0.632294 AGAGGGAGTAGGTGAGACCC 59.368 60.000 0.00 0.00 39.75 4.46
503 511 1.006162 ACAGAGGGAGTAGGTGAGACC 59.994 57.143 0.00 0.00 38.99 3.85
504 512 2.517998 ACAGAGGGAGTAGGTGAGAC 57.482 55.000 0.00 0.00 0.00 3.36
505 513 4.044317 AGTTTACAGAGGGAGTAGGTGAGA 59.956 45.833 0.00 0.00 0.00 3.27
506 514 4.345854 AGTTTACAGAGGGAGTAGGTGAG 58.654 47.826 0.00 0.00 0.00 3.51
507 515 4.399483 AGTTTACAGAGGGAGTAGGTGA 57.601 45.455 0.00 0.00 0.00 4.02
508 516 6.793505 ATTAGTTTACAGAGGGAGTAGGTG 57.206 41.667 0.00 0.00 0.00 4.00
513 521 9.833917 GCTTTTATATTAGTTTACAGAGGGAGT 57.166 33.333 0.00 0.00 0.00 3.85
514 522 8.979574 CGCTTTTATATTAGTTTACAGAGGGAG 58.020 37.037 0.00 0.00 0.00 4.30
515 523 8.480501 ACGCTTTTATATTAGTTTACAGAGGGA 58.519 33.333 0.00 0.00 0.00 4.20
516 524 8.658499 ACGCTTTTATATTAGTTTACAGAGGG 57.342 34.615 0.00 0.00 0.00 4.30
535 543 9.918630 TCACTACTTTAGTAATCTAAACGCTTT 57.081 29.630 0.00 0.00 40.05 3.51
537 545 9.733219 GATCACTACTTTAGTAATCTAAACGCT 57.267 33.333 0.00 0.00 40.05 5.07
538 546 9.733219 AGATCACTACTTTAGTAATCTAAACGC 57.267 33.333 0.00 0.00 40.05 4.84
544 552 9.733219 GCGTTTAGATCACTACTTTAGTAATCT 57.267 33.333 4.72 4.72 37.23 2.40
545 553 9.733219 AGCGTTTAGATCACTACTTTAGTAATC 57.267 33.333 0.00 0.00 37.23 1.75
546 554 9.733219 GAGCGTTTAGATCACTACTTTAGTAAT 57.267 33.333 0.00 0.00 37.23 1.89
547 555 8.954350 AGAGCGTTTAGATCACTACTTTAGTAA 58.046 33.333 0.00 0.00 37.82 2.24
548 556 8.503458 AGAGCGTTTAGATCACTACTTTAGTA 57.497 34.615 0.00 0.00 37.82 1.82
549 557 7.393841 AGAGCGTTTAGATCACTACTTTAGT 57.606 36.000 0.00 0.00 37.82 2.24
550 558 9.953697 ATAAGAGCGTTTAGATCACTACTTTAG 57.046 33.333 0.00 0.00 37.82 1.85
562 570 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
563 571 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
564 572 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
565 573 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
566 574 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
567 575 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
568 576 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
569 577 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
570 578 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
571 579 9.289782 GTACTCCCTCCGTAAACTAATATAAGA 57.710 37.037 0.00 0.00 0.00 2.10
572 580 9.294614 AGTACTCCCTCCGTAAACTAATATAAG 57.705 37.037 0.00 0.00 0.00 1.73
573 581 9.646522 AAGTACTCCCTCCGTAAACTAATATAA 57.353 33.333 0.00 0.00 0.00 0.98
574 582 9.646522 AAAGTACTCCCTCCGTAAACTAATATA 57.353 33.333 0.00 0.00 0.00 0.86
575 583 8.544687 AAAGTACTCCCTCCGTAAACTAATAT 57.455 34.615 0.00 0.00 0.00 1.28
576 584 7.961326 AAAGTACTCCCTCCGTAAACTAATA 57.039 36.000 0.00 0.00 0.00 0.98
577 585 6.864151 AAAGTACTCCCTCCGTAAACTAAT 57.136 37.500 0.00 0.00 0.00 1.73
578 586 7.961326 ATAAAGTACTCCCTCCGTAAACTAA 57.039 36.000 0.00 0.00 0.00 2.24
579 587 9.071276 CATATAAAGTACTCCCTCCGTAAACTA 57.929 37.037 0.00 0.00 0.00 2.24
580 588 7.781693 TCATATAAAGTACTCCCTCCGTAAACT 59.218 37.037 0.00 0.00 0.00 2.66
581 589 7.945134 TCATATAAAGTACTCCCTCCGTAAAC 58.055 38.462 0.00 0.00 0.00 2.01
582 590 8.000709 TCTCATATAAAGTACTCCCTCCGTAAA 58.999 37.037 0.00 0.00 0.00 2.01
583 591 7.446625 GTCTCATATAAAGTACTCCCTCCGTAA 59.553 40.741 0.00 0.00 0.00 3.18
584 592 6.939163 GTCTCATATAAAGTACTCCCTCCGTA 59.061 42.308 0.00 0.00 0.00 4.02
590 598 5.839606 ACCAGGTCTCATATAAAGTACTCCC 59.160 44.000 0.00 0.00 0.00 4.30
626 634 6.437162 CAGAGGACATGGAAATAAGGGAAAAA 59.563 38.462 0.00 0.00 0.00 1.94
627 635 5.951747 CAGAGGACATGGAAATAAGGGAAAA 59.048 40.000 0.00 0.00 0.00 2.29
628 636 5.015178 ACAGAGGACATGGAAATAAGGGAAA 59.985 40.000 0.00 0.00 0.00 3.13
631 639 4.202441 CACAGAGGACATGGAAATAAGGG 58.798 47.826 0.00 0.00 0.00 3.95
633 641 6.615088 CAAACACAGAGGACATGGAAATAAG 58.385 40.000 0.00 0.00 0.00 1.73
683 694 4.500477 GCACGTTGGCATTATTCTTGATTC 59.500 41.667 0.00 0.00 0.00 2.52
699 710 2.243957 TCTCGGCAGTTGCACGTTG 61.244 57.895 6.43 5.73 44.36 4.10
771 807 6.963049 AGGCGTTACTACTTTCAGTTTATG 57.037 37.500 0.00 0.00 0.00 1.90
788 825 1.001974 TGCATGTCTTGTCTAGGCGTT 59.998 47.619 0.00 0.00 0.00 4.84
976 1039 3.371591 CCGCTAGCTCGTAGATAGTTAGG 59.628 52.174 13.93 0.00 36.62 2.69
1251 1320 2.358615 TTGATCTTGCGCCGCACT 60.359 55.556 13.21 0.00 38.71 4.40
1529 1622 3.382832 CCACCGACTCCTTCCGCT 61.383 66.667 0.00 0.00 0.00 5.52
1578 1674 4.467084 GCCGTTCCCAGGCGATGA 62.467 66.667 0.00 0.00 45.58 2.92
1666 1765 4.379243 CGCCGACCAGCTCCTGTT 62.379 66.667 0.00 0.00 0.00 3.16
1735 1837 2.958578 CTTGTTGCCGTGTGGGACCT 62.959 60.000 0.00 0.00 38.47 3.85
1889 1991 4.248859 CGATTCCTAAGGCATGTATCCAG 58.751 47.826 0.00 0.00 0.00 3.86
1892 1999 4.273148 ACCGATTCCTAAGGCATGTATC 57.727 45.455 0.00 0.00 0.00 2.24
1895 2002 2.769663 TGTACCGATTCCTAAGGCATGT 59.230 45.455 0.00 0.00 0.00 3.21
1915 2022 4.185467 AGTTGCAGAGTCTGACAGTATG 57.815 45.455 24.55 4.17 35.12 2.39
1920 2029 2.093500 ACACAAGTTGCAGAGTCTGACA 60.093 45.455 24.55 17.23 32.44 3.58
1926 2035 3.368323 CCCAAAAACACAAGTTGCAGAGT 60.368 43.478 1.81 0.00 38.17 3.24
1932 2041 3.309410 GCATCACCCAAAAACACAAGTTG 59.691 43.478 0.00 0.00 38.17 3.16
1943 2052 8.588290 ACATAGTATTTTTAGCATCACCCAAA 57.412 30.769 0.00 0.00 0.00 3.28
1944 2053 9.116067 GTACATAGTATTTTTAGCATCACCCAA 57.884 33.333 0.00 0.00 0.00 4.12
2012 2122 5.025453 TCCCCTTCTAAAGTTATGGTACGT 58.975 41.667 0.00 0.00 0.00 3.57
2045 2157 7.672983 TCTTTCCTGCAACTCTTGTAAATAG 57.327 36.000 0.00 0.00 0.00 1.73
2092 2206 2.158204 AGTTAGGTGTCCTAGGGTGTGT 60.158 50.000 9.46 0.00 37.42 3.72
2255 2370 0.814410 TGGAAGCAACGTAACGCCAA 60.814 50.000 0.00 0.00 0.00 4.52
2381 2496 0.474854 TTCAGAGGTAGCACCCCCAA 60.475 55.000 0.00 0.00 39.75 4.12
2538 2653 0.460284 CCGGATTTGGACCTCTGACG 60.460 60.000 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.