Multiple sequence alignment - TraesCS2A01G233900

Loading Multiple Alignment...

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 TraesCS2A01G233900 chr2A 100.000 3034 0 0 1 3034 279137826 279140859 0.000000e+00 5603.0
1 TraesCS2A01G233900 chr1A 98.887 719 8 0 792 1510 425065439 425066157 0.000000e+00 1284.0
2 TraesCS2A01G233900 chr1A 95.896 731 17 8 1501 2230 425066966 425067684 0.000000e+00 1171.0
3 TraesCS2A01G233900 chr1A 98.966 387 4 0 1 387 425064806 425065192 0.000000e+00 693.0
4 TraesCS2A01G233900 chr1A 94.884 215 10 1 475 688 425065183 425065397 4.850000e-88 335.0
5 TraesCS2A01G233900 chr3A 94.859 817 36 4 2222 3034 590361468 590360654 0.000000e+00 1271.0
6 TraesCS2A01G233900 chr3A 86.667 180 8 7 2222 2386 268525946 268525768 5.170000e-43 185.0
7 TraesCS2A01G233900 chr3A 91.803 61 4 1 2180 2239 193548446 193548386 1.940000e-12 84.2
8 TraesCS2A01G233900 chr3A 92.593 54 4 0 2184 2237 488060241 488060294 9.020000e-11 78.7
9 TraesCS2A01G233900 chr7B 93.502 831 36 4 2222 3034 138608378 138609208 0.000000e+00 1219.0
10 TraesCS2A01G233900 chr7B 94.659 543 26 2 2495 3034 7206920 7207462 0.000000e+00 839.0
11 TraesCS2A01G233900 chr7B 87.500 184 7 3 2222 2390 7206028 7206210 6.630000e-47 198.0
12 TraesCS2A01G233900 chr7B 96.078 51 1 1 2183 2233 687412613 687412662 6.970000e-12 82.4
13 TraesCS2A01G233900 chrUn 91.817 831 46 5 2222 3034 56309479 56310305 0.000000e+00 1138.0
14 TraesCS2A01G233900 chrUn 85.000 220 28 3 867 1082 273622307 273622525 5.090000e-53 219.0
15 TraesCS2A01G233900 chr3B 94.308 650 29 5 2388 3034 328544987 328545631 0.000000e+00 989.0
16 TraesCS2A01G233900 chr3B 91.692 650 48 5 2388 3034 150099058 150098412 0.000000e+00 896.0
17 TraesCS2A01G233900 chr3B 85.000 220 28 3 867 1082 660145700 660145482 5.090000e-53 219.0
18 TraesCS2A01G233900 chr3B 85.000 220 28 3 867 1082 660166611 660166393 5.090000e-53 219.0
19 TraesCS2A01G233900 chr3B 86.559 186 8 3 2222 2392 328544262 328544445 3.990000e-44 189.0
20 TraesCS2A01G233900 chr3B 91.525 59 2 3 2186 2244 633132951 633133006 9.020000e-11 78.7
21 TraesCS2A01G233900 chr4D 93.894 606 34 2 2426 3028 79147989 79148594 0.000000e+00 911.0
22 TraesCS2A01G233900 chr4D 92.922 438 15 3 2222 2644 185821295 185820859 9.240000e-175 623.0
23 TraesCS2A01G233900 chr4D 94.684 395 14 5 2643 3034 185820765 185820375 9.300000e-170 606.0
24 TraesCS2A01G233900 chr4D 86.550 171 9 1 2234 2390 13600314 13600144 3.110000e-40 176.0
25 TraesCS2A01G233900 chr4D 85.326 184 12 2 2222 2390 178224762 178224945 3.110000e-40 176.0
26 TraesCS2A01G233900 chr2B 89.077 650 35 15 2388 3034 763435034 763434418 0.000000e+00 774.0
27 TraesCS2A01G233900 chr2B 95.057 263 13 0 2388 2650 738934435 738934697 6.050000e-112 414.0
28 TraesCS2A01G233900 chr2B 85.870 184 10 3 2222 2390 738933282 738933464 6.680000e-42 182.0
29 TraesCS2A01G233900 chr3D 85.326 184 12 9 2222 2390 606825147 606824964 3.110000e-40 176.0
30 TraesCS2A01G233900 chr3D 86.765 136 13 2 1285 1416 231975105 231975239 2.440000e-31 147.0
31 TraesCS2A01G233900 chr3D 92.857 56 2 2 2183 2237 553209817 553209763 2.510000e-11 80.5
32 TraesCS2A01G233900 chr2D 84.892 139 16 2 1285 1419 529772678 529772815 5.280000e-28 135.0
33 TraesCS2A01G233900 chr2D 91.667 60 3 2 2181 2239 99504017 99504075 6.970000e-12 82.4
34 TraesCS2A01G233900 chr2D 93.103 58 1 3 2183 2239 166172211 166172266 6.970000e-12 82.4
35 TraesCS2A01G233900 chr6A 90.769 65 6 0 391 455 572817515 572817451 1.500000e-13 87.9
36 TraesCS2A01G233900 chr6B 91.228 57 4 1 2184 2239 158996799 158996855 3.240000e-10 76.8


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2A01G233900 chr2A 279137826 279140859 3033 False 5603.00 5603 100.00000 1 3034 1 chr2A.!!$F1 3033
1 TraesCS2A01G233900 chr1A 425064806 425067684 2878 False 870.75 1284 97.15825 1 2230 4 chr1A.!!$F1 2229
2 TraesCS2A01G233900 chr3A 590360654 590361468 814 True 1271.00 1271 94.85900 2222 3034 1 chr3A.!!$R3 812
3 TraesCS2A01G233900 chr7B 138608378 138609208 830 False 1219.00 1219 93.50200 2222 3034 1 chr7B.!!$F1 812
4 TraesCS2A01G233900 chr7B 7206028 7207462 1434 False 518.50 839 91.07950 2222 3034 2 chr7B.!!$F3 812
5 TraesCS2A01G233900 chrUn 56309479 56310305 826 False 1138.00 1138 91.81700 2222 3034 1 chrUn.!!$F1 812
6 TraesCS2A01G233900 chr3B 150098412 150099058 646 True 896.00 896 91.69200 2388 3034 1 chr3B.!!$R1 646
7 TraesCS2A01G233900 chr3B 328544262 328545631 1369 False 589.00 989 90.43350 2222 3034 2 chr3B.!!$F2 812
8 TraesCS2A01G233900 chr4D 79147989 79148594 605 False 911.00 911 93.89400 2426 3028 1 chr4D.!!$F1 602
9 TraesCS2A01G233900 chr4D 185820375 185821295 920 True 614.50 623 93.80300 2222 3034 2 chr4D.!!$R2 812
10 TraesCS2A01G233900 chr2B 763434418 763435034 616 True 774.00 774 89.07700 2388 3034 1 chr2B.!!$R1 646
11 TraesCS2A01G233900 chr2B 738933282 738934697 1415 False 298.00 414 90.46350 2222 2650 2 chr2B.!!$F1 428

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
702 703 0.179032 AACAACATCTCGGTGGCACA 60.179 50.0 20.82 0.0 0.0 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2053 2873 0.949105 CGTGGTTTCAGTTCCCCTCG 60.949 60.0 0.0 0.0 0.0 4.63 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
251 252 1.070758 AGCCGGCGATCAAGTAATCAT 59.929 47.619 23.20 0.00 0.00 2.45
362 363 1.968493 AGAACTACAAGAAGACGCCCA 59.032 47.619 0.00 0.00 0.00 5.36
387 388 5.985530 TCAAGGATCGTTGTATAGCATCAAG 59.014 40.000 23.46 0.00 0.00 3.02
388 389 4.887748 AGGATCGTTGTATAGCATCAAGG 58.112 43.478 0.00 0.00 0.00 3.61
389 390 4.345257 AGGATCGTTGTATAGCATCAAGGT 59.655 41.667 0.00 0.00 33.20 3.50
390 391 5.538813 AGGATCGTTGTATAGCATCAAGGTA 59.461 40.000 0.00 0.00 33.20 3.08
391 392 6.041637 AGGATCGTTGTATAGCATCAAGGTAA 59.958 38.462 0.00 0.00 33.24 2.85
392 393 6.704493 GGATCGTTGTATAGCATCAAGGTAAA 59.296 38.462 0.00 0.00 33.24 2.01
393 394 7.095607 GGATCGTTGTATAGCATCAAGGTAAAG 60.096 40.741 0.00 0.00 33.24 1.85
394 395 6.636705 TCGTTGTATAGCATCAAGGTAAAGT 58.363 36.000 0.00 0.00 33.24 2.66
395 396 7.101054 TCGTTGTATAGCATCAAGGTAAAGTT 58.899 34.615 0.00 0.00 33.24 2.66
396 397 7.604927 TCGTTGTATAGCATCAAGGTAAAGTTT 59.395 33.333 0.00 0.00 33.24 2.66
397 398 7.903431 CGTTGTATAGCATCAAGGTAAAGTTTC 59.097 37.037 0.00 0.00 33.24 2.78
398 399 8.947115 GTTGTATAGCATCAAGGTAAAGTTTCT 58.053 33.333 0.00 0.00 33.24 2.52
399 400 8.718102 TGTATAGCATCAAGGTAAAGTTTCTC 57.282 34.615 0.00 0.00 33.24 2.87
400 401 8.540388 TGTATAGCATCAAGGTAAAGTTTCTCT 58.460 33.333 0.00 0.00 33.24 3.10
401 402 7.856145 ATAGCATCAAGGTAAAGTTTCTCTG 57.144 36.000 0.00 0.00 33.24 3.35
402 403 5.625150 AGCATCAAGGTAAAGTTTCTCTGT 58.375 37.500 0.00 0.00 0.00 3.41
403 404 6.769512 AGCATCAAGGTAAAGTTTCTCTGTA 58.230 36.000 0.00 0.00 0.00 2.74
404 405 6.876257 AGCATCAAGGTAAAGTTTCTCTGTAG 59.124 38.462 0.00 0.00 0.00 2.74
405 406 6.402658 GCATCAAGGTAAAGTTTCTCTGTAGC 60.403 42.308 0.00 0.00 35.30 3.58
406 407 6.420913 TCAAGGTAAAGTTTCTCTGTAGCT 57.579 37.500 0.00 0.00 43.94 3.32
407 408 6.456501 TCAAGGTAAAGTTTCTCTGTAGCTC 58.543 40.000 0.00 0.00 42.01 4.09
408 409 6.041637 TCAAGGTAAAGTTTCTCTGTAGCTCA 59.958 38.462 0.00 0.00 42.01 4.26
409 410 6.031751 AGGTAAAGTTTCTCTGTAGCTCAG 57.968 41.667 0.00 0.00 39.65 3.35
410 411 5.046950 AGGTAAAGTTTCTCTGTAGCTCAGG 60.047 44.000 11.63 5.01 39.65 3.86
411 412 4.965200 AAAGTTTCTCTGTAGCTCAGGT 57.035 40.909 11.63 0.00 43.76 4.00
412 413 4.965200 AAGTTTCTCTGTAGCTCAGGTT 57.035 40.909 11.63 0.00 43.76 3.50
413 414 6.420913 AAAGTTTCTCTGTAGCTCAGGTTA 57.579 37.500 11.63 0.00 43.76 2.85
414 415 5.394224 AGTTTCTCTGTAGCTCAGGTTAC 57.606 43.478 11.63 0.00 43.76 2.50
415 416 4.833380 AGTTTCTCTGTAGCTCAGGTTACA 59.167 41.667 11.63 0.00 43.76 2.41
416 417 5.482175 AGTTTCTCTGTAGCTCAGGTTACAT 59.518 40.000 11.63 0.00 43.76 2.29
417 418 4.991153 TCTCTGTAGCTCAGGTTACATG 57.009 45.455 11.63 0.00 43.76 3.21
418 419 3.701542 TCTCTGTAGCTCAGGTTACATGG 59.298 47.826 11.63 0.00 43.76 3.66
419 420 3.701542 CTCTGTAGCTCAGGTTACATGGA 59.298 47.826 11.63 0.00 43.76 3.41
420 421 4.093743 TCTGTAGCTCAGGTTACATGGAA 58.906 43.478 11.63 0.00 43.76 3.53
421 422 4.081642 TCTGTAGCTCAGGTTACATGGAAC 60.082 45.833 12.76 12.76 43.76 3.62
433 434 6.650120 GGTTACATGGAACCTCTTATCTTCA 58.350 40.000 29.65 0.00 44.75 3.02
434 435 7.283329 GGTTACATGGAACCTCTTATCTTCAT 58.717 38.462 29.65 0.00 44.75 2.57
435 436 7.442666 GGTTACATGGAACCTCTTATCTTCATC 59.557 40.741 29.65 0.64 44.75 2.92
436 437 5.934781 ACATGGAACCTCTTATCTTCATCC 58.065 41.667 0.00 0.00 0.00 3.51
437 438 5.163152 ACATGGAACCTCTTATCTTCATCCC 60.163 44.000 0.00 0.00 0.00 3.85
438 439 4.635473 TGGAACCTCTTATCTTCATCCCT 58.365 43.478 0.00 0.00 0.00 4.20
439 440 4.656112 TGGAACCTCTTATCTTCATCCCTC 59.344 45.833 0.00 0.00 0.00 4.30
440 441 4.041075 GGAACCTCTTATCTTCATCCCTCC 59.959 50.000 0.00 0.00 0.00 4.30
441 442 4.286813 ACCTCTTATCTTCATCCCTCCA 57.713 45.455 0.00 0.00 0.00 3.86
442 443 4.635473 ACCTCTTATCTTCATCCCTCCAA 58.365 43.478 0.00 0.00 0.00 3.53
443 444 4.410555 ACCTCTTATCTTCATCCCTCCAAC 59.589 45.833 0.00 0.00 0.00 3.77
444 445 4.410228 CCTCTTATCTTCATCCCTCCAACA 59.590 45.833 0.00 0.00 0.00 3.33
445 446 5.072872 CCTCTTATCTTCATCCCTCCAACAT 59.927 44.000 0.00 0.00 0.00 2.71
446 447 6.410157 CCTCTTATCTTCATCCCTCCAACATT 60.410 42.308 0.00 0.00 0.00 2.71
447 448 6.359804 TCTTATCTTCATCCCTCCAACATTG 58.640 40.000 0.00 0.00 0.00 2.82
448 449 2.726821 TCTTCATCCCTCCAACATTGC 58.273 47.619 0.00 0.00 0.00 3.56
449 450 2.309755 TCTTCATCCCTCCAACATTGCT 59.690 45.455 0.00 0.00 0.00 3.91
450 451 2.905415 TCATCCCTCCAACATTGCTT 57.095 45.000 0.00 0.00 0.00 3.91
451 452 3.173953 TCATCCCTCCAACATTGCTTT 57.826 42.857 0.00 0.00 0.00 3.51
452 453 2.827322 TCATCCCTCCAACATTGCTTTG 59.173 45.455 0.00 0.00 0.00 2.77
453 454 2.673775 TCCCTCCAACATTGCTTTGA 57.326 45.000 0.00 0.00 0.00 2.69
454 455 2.517959 TCCCTCCAACATTGCTTTGAG 58.482 47.619 0.00 0.00 0.00 3.02
455 456 1.067354 CCCTCCAACATTGCTTTGAGC 60.067 52.381 0.00 0.00 42.82 4.26
456 457 1.891150 CCTCCAACATTGCTTTGAGCT 59.109 47.619 1.29 0.00 42.97 4.09
457 458 3.084039 CCTCCAACATTGCTTTGAGCTA 58.916 45.455 1.29 0.00 42.97 3.32
458 459 3.119708 CCTCCAACATTGCTTTGAGCTAC 60.120 47.826 1.29 0.00 42.97 3.58
459 460 3.485394 TCCAACATTGCTTTGAGCTACA 58.515 40.909 1.29 0.00 42.97 2.74
460 461 3.253188 TCCAACATTGCTTTGAGCTACAC 59.747 43.478 1.29 0.00 42.97 2.90
461 462 3.004629 CCAACATTGCTTTGAGCTACACA 59.995 43.478 1.29 0.00 42.97 3.72
462 463 4.499526 CCAACATTGCTTTGAGCTACACAA 60.500 41.667 1.29 0.00 42.97 3.33
463 464 4.916983 ACATTGCTTTGAGCTACACAAA 57.083 36.364 1.29 0.00 42.97 2.83
464 465 5.261209 ACATTGCTTTGAGCTACACAAAA 57.739 34.783 1.29 0.00 42.97 2.44
465 466 5.043248 ACATTGCTTTGAGCTACACAAAAC 58.957 37.500 1.29 0.00 42.97 2.43
466 467 3.708563 TGCTTTGAGCTACACAAAACC 57.291 42.857 1.29 0.00 42.97 3.27
467 468 3.020274 TGCTTTGAGCTACACAAAACCA 58.980 40.909 1.29 0.00 42.97 3.67
468 469 3.181491 TGCTTTGAGCTACACAAAACCAC 60.181 43.478 1.29 0.00 42.97 4.16
469 470 3.181491 GCTTTGAGCTACACAAAACCACA 60.181 43.478 1.29 0.00 38.45 4.17
470 471 4.499696 GCTTTGAGCTACACAAAACCACAT 60.500 41.667 1.29 0.00 38.45 3.21
471 472 5.590530 TTTGAGCTACACAAAACCACATT 57.409 34.783 0.00 0.00 34.89 2.71
472 473 4.829064 TGAGCTACACAAAACCACATTC 57.171 40.909 0.00 0.00 0.00 2.67
473 474 3.568007 TGAGCTACACAAAACCACATTCC 59.432 43.478 0.00 0.00 0.00 3.01
474 475 3.561143 AGCTACACAAAACCACATTCCA 58.439 40.909 0.00 0.00 0.00 3.53
475 476 4.151883 AGCTACACAAAACCACATTCCAT 58.848 39.130 0.00 0.00 0.00 3.41
476 477 5.321102 AGCTACACAAAACCACATTCCATA 58.679 37.500 0.00 0.00 0.00 2.74
477 478 5.415701 AGCTACACAAAACCACATTCCATAG 59.584 40.000 0.00 0.00 0.00 2.23
478 479 4.519540 ACACAAAACCACATTCCATAGC 57.480 40.909 0.00 0.00 0.00 2.97
479 480 3.894427 ACACAAAACCACATTCCATAGCA 59.106 39.130 0.00 0.00 0.00 3.49
480 481 4.527816 ACACAAAACCACATTCCATAGCAT 59.472 37.500 0.00 0.00 0.00 3.79
481 482 5.104374 CACAAAACCACATTCCATAGCATC 58.896 41.667 0.00 0.00 0.00 3.91
482 483 4.771577 ACAAAACCACATTCCATAGCATCA 59.228 37.500 0.00 0.00 0.00 3.07
483 484 5.245751 ACAAAACCACATTCCATAGCATCAA 59.754 36.000 0.00 0.00 0.00 2.57
491 492 7.201848 CCACATTCCATAGCATCAACATTACTT 60.202 37.037 0.00 0.00 0.00 2.24
516 517 5.882557 CCAATATACTTTGTCAGAGCACCTT 59.117 40.000 0.00 0.00 0.00 3.50
549 550 3.177228 AGACCAACTCCAACTATGCTCT 58.823 45.455 0.00 0.00 0.00 4.09
550 551 3.055530 AGACCAACTCCAACTATGCTCTG 60.056 47.826 0.00 0.00 0.00 3.35
574 575 5.634859 GTGGCTTTGATAATGTTTGGTGAAG 59.365 40.000 0.00 0.00 0.00 3.02
604 605 1.083806 GCACATGCGAGGAATCGACA 61.084 55.000 1.17 0.00 34.64 4.35
619 620 1.067846 TCGACAGTTGTCCGATTGAGG 60.068 52.381 6.68 0.00 41.86 3.86
623 624 1.741770 GTTGTCCGATTGAGGCGCT 60.742 57.895 7.64 0.00 0.00 5.92
681 682 2.404566 TAGCCACGCAGCCCAGAAAA 62.405 55.000 0.00 0.00 0.00 2.29
699 700 2.793278 AAAAACAACATCTCGGTGGC 57.207 45.000 0.00 0.00 0.00 5.01
701 702 0.951558 AAACAACATCTCGGTGGCAC 59.048 50.000 9.70 9.70 0.00 5.01
702 703 0.179032 AACAACATCTCGGTGGCACA 60.179 50.000 20.82 0.00 0.00 4.57
704 705 1.277842 ACAACATCTCGGTGGCACATA 59.722 47.619 20.82 5.43 44.52 2.29
706 707 2.746904 CAACATCTCGGTGGCACATAAA 59.253 45.455 20.82 2.06 44.52 1.40
707 708 2.356135 ACATCTCGGTGGCACATAAAC 58.644 47.619 20.82 0.00 44.52 2.01
708 709 1.327460 CATCTCGGTGGCACATAAACG 59.673 52.381 20.82 13.19 44.52 3.60
710 711 1.153353 CTCGGTGGCACATAAACGTT 58.847 50.000 20.82 0.00 44.52 3.99
711 712 1.533731 CTCGGTGGCACATAAACGTTT 59.466 47.619 20.82 18.90 44.52 3.60
713 714 2.737783 TCGGTGGCACATAAACGTTTAG 59.262 45.455 23.78 17.65 44.52 1.85
715 716 3.075884 GGTGGCACATAAACGTTTAGGA 58.924 45.455 32.33 11.71 44.52 2.94
716 717 3.126343 GGTGGCACATAAACGTTTAGGAG 59.874 47.826 32.33 26.42 44.52 3.69
718 719 4.092968 GTGGCACATAAACGTTTAGGAGAG 59.907 45.833 32.33 22.62 44.52 3.20
719 720 3.621715 GGCACATAAACGTTTAGGAGAGG 59.378 47.826 32.33 20.47 0.00 3.69
720 721 3.621715 GCACATAAACGTTTAGGAGAGGG 59.378 47.826 32.33 18.03 0.00 4.30
721 722 4.622220 GCACATAAACGTTTAGGAGAGGGA 60.622 45.833 32.33 8.13 0.00 4.20
722 723 5.109903 CACATAAACGTTTAGGAGAGGGAG 58.890 45.833 32.33 13.01 0.00 4.30
723 724 2.764439 AAACGTTTAGGAGAGGGAGC 57.236 50.000 12.83 0.00 0.00 4.70
724 725 1.939980 AACGTTTAGGAGAGGGAGCT 58.060 50.000 0.00 0.00 0.00 4.09
726 727 1.550976 ACGTTTAGGAGAGGGAGCTTG 59.449 52.381 0.00 0.00 0.00 4.01
727 728 1.550976 CGTTTAGGAGAGGGAGCTTGT 59.449 52.381 0.00 0.00 0.00 3.16
728 729 2.675317 CGTTTAGGAGAGGGAGCTTGTG 60.675 54.545 0.00 0.00 0.00 3.33
729 730 1.573108 TTAGGAGAGGGAGCTTGTGG 58.427 55.000 0.00 0.00 0.00 4.17
730 731 0.710588 TAGGAGAGGGAGCTTGTGGA 59.289 55.000 0.00 0.00 0.00 4.02
731 732 0.907230 AGGAGAGGGAGCTTGTGGAC 60.907 60.000 0.00 0.00 0.00 4.02
732 733 1.194781 GGAGAGGGAGCTTGTGGACA 61.195 60.000 0.00 0.00 0.00 4.02
733 734 0.687354 GAGAGGGAGCTTGTGGACAA 59.313 55.000 0.00 0.00 0.00 3.18
743 744 2.969821 TTGTGGACAAGGCCTACAAT 57.030 45.000 5.16 0.00 29.91 2.71
745 746 4.584638 TTGTGGACAAGGCCTACAATAT 57.415 40.909 5.16 0.00 29.91 1.28
746 747 4.584638 TGTGGACAAGGCCTACAATATT 57.415 40.909 5.16 0.00 0.00 1.28
747 748 4.929479 TGTGGACAAGGCCTACAATATTT 58.071 39.130 5.16 0.00 0.00 1.40
748 749 5.329399 TGTGGACAAGGCCTACAATATTTT 58.671 37.500 5.16 0.00 0.00 1.82
749 750 5.777732 TGTGGACAAGGCCTACAATATTTTT 59.222 36.000 5.16 0.00 0.00 1.94
750 751 6.071616 TGTGGACAAGGCCTACAATATTTTTC 60.072 38.462 5.16 0.00 0.00 2.29
751 752 6.152831 GTGGACAAGGCCTACAATATTTTTCT 59.847 38.462 5.16 0.00 0.00 2.52
752 753 6.152661 TGGACAAGGCCTACAATATTTTTCTG 59.847 38.462 5.16 0.00 0.00 3.02
753 754 6.377146 GGACAAGGCCTACAATATTTTTCTGA 59.623 38.462 5.16 0.00 0.00 3.27
754 755 7.093945 GGACAAGGCCTACAATATTTTTCTGAA 60.094 37.037 5.16 0.00 0.00 3.02
755 756 8.366359 ACAAGGCCTACAATATTTTTCTGAAT 57.634 30.769 5.16 0.00 0.00 2.57
756 757 8.253113 ACAAGGCCTACAATATTTTTCTGAATG 58.747 33.333 5.16 0.00 0.00 2.67
757 758 8.469200 CAAGGCCTACAATATTTTTCTGAATGA 58.531 33.333 5.16 0.00 0.00 2.57
758 759 8.230472 AGGCCTACAATATTTTTCTGAATGAG 57.770 34.615 1.29 0.00 0.00 2.90
759 760 7.836183 AGGCCTACAATATTTTTCTGAATGAGT 59.164 33.333 1.29 0.00 0.00 3.41
760 761 9.120538 GGCCTACAATATTTTTCTGAATGAGTA 57.879 33.333 0.00 0.00 0.00 2.59
771 772 8.990163 TTTTCTGAATGAGTAAAAACTAGGGT 57.010 30.769 0.00 0.00 0.00 4.34
774 775 9.667107 TTCTGAATGAGTAAAAACTAGGGTATG 57.333 33.333 0.00 0.00 0.00 2.39
775 776 8.822805 TCTGAATGAGTAAAAACTAGGGTATGT 58.177 33.333 0.00 0.00 0.00 2.29
776 777 9.449719 CTGAATGAGTAAAAACTAGGGTATGTT 57.550 33.333 0.00 0.00 0.00 2.71
777 778 9.444600 TGAATGAGTAAAAACTAGGGTATGTTC 57.555 33.333 0.00 0.00 0.00 3.18
778 779 9.444600 GAATGAGTAAAAACTAGGGTATGTTCA 57.555 33.333 0.00 0.00 0.00 3.18
779 780 9.449719 AATGAGTAAAAACTAGGGTATGTTCAG 57.550 33.333 0.00 0.00 0.00 3.02
780 781 7.970102 TGAGTAAAAACTAGGGTATGTTCAGT 58.030 34.615 0.00 0.00 0.00 3.41
781 782 7.876068 TGAGTAAAAACTAGGGTATGTTCAGTG 59.124 37.037 0.00 0.00 0.00 3.66
782 783 7.970102 AGTAAAAACTAGGGTATGTTCAGTGA 58.030 34.615 0.00 0.00 0.00 3.41
783 784 8.434392 AGTAAAAACTAGGGTATGTTCAGTGAA 58.566 33.333 0.08 0.08 0.00 3.18
784 785 7.506328 AAAAACTAGGGTATGTTCAGTGAAC 57.494 36.000 25.99 25.99 42.26 3.18
1248 1249 2.032178 GGTCCGAGAAATACAAGCATGC 59.968 50.000 10.51 10.51 0.00 4.06
1268 1269 3.181497 TGCCATCGCTAAAGCTGATTTTC 60.181 43.478 0.00 0.00 39.32 2.29
1463 1464 1.558756 CAAGATGGGAGGCTTCAGAGT 59.441 52.381 0.00 0.00 0.00 3.24
1612 2432 6.417191 TGTATTTTGATTCAGTAGAACCGC 57.583 37.500 0.00 0.00 36.39 5.68
1688 2508 6.809196 TCGATGTTTAAACTGTTTTGCAAAGT 59.191 30.769 18.72 4.08 0.00 2.66
1853 2673 4.679197 TGCGTTTTCATATGTTTGTTGCTC 59.321 37.500 1.90 0.00 0.00 4.26
1870 2690 3.273434 TGCTCTCCAATATCTGTTGTGC 58.727 45.455 0.00 0.00 0.00 4.57
1874 2694 5.163581 GCTCTCCAATATCTGTTGTGCATTT 60.164 40.000 0.00 0.00 0.00 2.32
1875 2695 6.626623 GCTCTCCAATATCTGTTGTGCATTTT 60.627 38.462 0.00 0.00 0.00 1.82
1876 2696 7.415541 GCTCTCCAATATCTGTTGTGCATTTTA 60.416 37.037 0.00 0.00 0.00 1.52
1877 2697 8.523915 TCTCCAATATCTGTTGTGCATTTTAT 57.476 30.769 0.00 0.00 0.00 1.40
1878 2698 9.625747 TCTCCAATATCTGTTGTGCATTTTATA 57.374 29.630 0.00 0.00 0.00 0.98
2023 2843 6.014584 TCAGAGTCTGCTAAAATGTGGTCTTA 60.015 38.462 15.72 0.00 0.00 2.10
2026 2846 5.248477 AGTCTGCTAAAATGTGGTCTTAGGA 59.752 40.000 0.00 0.00 0.00 2.94
2063 2883 2.723273 CAAATTAAGCCGAGGGGAACT 58.277 47.619 0.00 0.00 34.06 3.01
2091 2911 1.135803 CGACCAAGGTTTAACATGCCG 60.136 52.381 0.00 0.00 0.00 5.69
2114 2934 4.611943 CCATTGTCACTATAGACCTGTCG 58.388 47.826 6.78 0.00 37.73 4.35
2123 2943 1.241165 TAGACCTGTCGAAAGCACGA 58.759 50.000 0.00 0.00 40.00 4.35
2202 3022 6.652481 AGCATATGTGATATTTTTCTCTCCCG 59.348 38.462 4.29 0.00 0.00 5.14
2249 3069 8.107095 TGCTAGTTTTTATTAACCATGGAGAGT 58.893 33.333 21.47 4.79 0.00 3.24
2602 5194 5.633830 ACAGTAGGAAAAATGTGCATCTG 57.366 39.130 0.00 0.00 0.00 2.90
2824 5511 7.010460 CAGATGAACAAACGACATGCTTATCTA 59.990 37.037 0.00 0.00 0.00 1.98
2858 5545 2.784682 ACTAGTACTAGAGGTCCCCTGG 59.215 54.545 31.93 6.40 36.97 4.45
2872 5563 4.351127 GTCCCCTGGAGACTACTTTCTTA 58.649 47.826 0.46 0.00 29.39 2.10
2961 5655 4.818005 CACAATGCCATCTATGCTGAACTA 59.182 41.667 0.00 0.00 0.00 2.24
3018 5712 9.941325 AGAAGAAGTAGATAGAAATATGCATGG 57.059 33.333 10.16 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
251 252 2.357034 GAGAACGCGAAGGCCACA 60.357 61.111 15.93 0.00 35.02 4.17
362 363 6.101650 TGATGCTATACAACGATCCTTGAT 57.898 37.500 10.87 3.94 0.00 2.57
399 400 4.184629 GTTCCATGTAACCTGAGCTACAG 58.815 47.826 6.28 6.28 45.36 2.74
400 401 3.055385 GGTTCCATGTAACCTGAGCTACA 60.055 47.826 12.70 0.00 44.67 2.74
401 402 3.532542 GGTTCCATGTAACCTGAGCTAC 58.467 50.000 12.70 0.00 44.67 3.58
402 403 3.906720 GGTTCCATGTAACCTGAGCTA 57.093 47.619 12.70 0.00 44.67 3.32
403 404 2.789409 GGTTCCATGTAACCTGAGCT 57.211 50.000 12.70 0.00 44.67 4.09
410 411 7.442666 GGATGAAGATAAGAGGTTCCATGTAAC 59.557 40.741 0.00 0.00 0.00 2.50
411 412 7.420214 GGGATGAAGATAAGAGGTTCCATGTAA 60.420 40.741 0.00 0.00 0.00 2.41
412 413 6.043243 GGGATGAAGATAAGAGGTTCCATGTA 59.957 42.308 0.00 0.00 0.00 2.29
413 414 5.163152 GGGATGAAGATAAGAGGTTCCATGT 60.163 44.000 0.00 0.00 0.00 3.21
414 415 5.072872 AGGGATGAAGATAAGAGGTTCCATG 59.927 44.000 0.00 0.00 0.00 3.66
415 416 5.230759 AGGGATGAAGATAAGAGGTTCCAT 58.769 41.667 0.00 0.00 0.00 3.41
416 417 4.635473 AGGGATGAAGATAAGAGGTTCCA 58.365 43.478 0.00 0.00 0.00 3.53
417 418 4.041075 GGAGGGATGAAGATAAGAGGTTCC 59.959 50.000 0.00 0.00 0.00 3.62
418 419 4.656112 TGGAGGGATGAAGATAAGAGGTTC 59.344 45.833 0.00 0.00 0.00 3.62
419 420 4.635473 TGGAGGGATGAAGATAAGAGGTT 58.365 43.478 0.00 0.00 0.00 3.50
420 421 4.286813 TGGAGGGATGAAGATAAGAGGT 57.713 45.455 0.00 0.00 0.00 3.85
421 422 4.410228 TGTTGGAGGGATGAAGATAAGAGG 59.590 45.833 0.00 0.00 0.00 3.69
422 423 5.620738 TGTTGGAGGGATGAAGATAAGAG 57.379 43.478 0.00 0.00 0.00 2.85
423 424 6.359804 CAATGTTGGAGGGATGAAGATAAGA 58.640 40.000 0.00 0.00 0.00 2.10
424 425 5.009410 GCAATGTTGGAGGGATGAAGATAAG 59.991 44.000 0.00 0.00 0.00 1.73
425 426 4.889409 GCAATGTTGGAGGGATGAAGATAA 59.111 41.667 0.00 0.00 0.00 1.75
426 427 4.166725 AGCAATGTTGGAGGGATGAAGATA 59.833 41.667 0.00 0.00 0.00 1.98
427 428 3.053095 AGCAATGTTGGAGGGATGAAGAT 60.053 43.478 0.00 0.00 0.00 2.40
428 429 2.309755 AGCAATGTTGGAGGGATGAAGA 59.690 45.455 0.00 0.00 0.00 2.87
429 430 2.731572 AGCAATGTTGGAGGGATGAAG 58.268 47.619 0.00 0.00 0.00 3.02
430 431 2.905415 AGCAATGTTGGAGGGATGAA 57.095 45.000 0.00 0.00 0.00 2.57
431 432 2.827322 CAAAGCAATGTTGGAGGGATGA 59.173 45.455 0.00 0.00 0.00 2.92
432 433 2.827322 TCAAAGCAATGTTGGAGGGATG 59.173 45.455 0.00 0.00 0.00 3.51
433 434 3.094572 CTCAAAGCAATGTTGGAGGGAT 58.905 45.455 0.00 0.00 0.00 3.85
434 435 2.517959 CTCAAAGCAATGTTGGAGGGA 58.482 47.619 0.00 0.00 0.00 4.20
435 436 1.067354 GCTCAAAGCAATGTTGGAGGG 60.067 52.381 0.00 0.00 41.89 4.30
436 437 1.891150 AGCTCAAAGCAATGTTGGAGG 59.109 47.619 1.29 0.00 45.56 4.30
437 438 3.503363 TGTAGCTCAAAGCAATGTTGGAG 59.497 43.478 0.00 0.00 45.56 3.86
438 439 3.253188 GTGTAGCTCAAAGCAATGTTGGA 59.747 43.478 0.00 0.00 45.56 3.53
439 440 3.004629 TGTGTAGCTCAAAGCAATGTTGG 59.995 43.478 0.00 0.00 45.56 3.77
440 441 4.227512 TGTGTAGCTCAAAGCAATGTTG 57.772 40.909 0.00 0.00 45.56 3.33
441 442 4.916983 TTGTGTAGCTCAAAGCAATGTT 57.083 36.364 0.00 0.00 45.56 2.71
442 443 4.916983 TTTGTGTAGCTCAAAGCAATGT 57.083 36.364 0.00 0.00 45.56 2.71
443 444 4.445385 GGTTTTGTGTAGCTCAAAGCAATG 59.555 41.667 12.91 0.00 45.56 2.82
444 445 4.099266 TGGTTTTGTGTAGCTCAAAGCAAT 59.901 37.500 12.91 0.00 45.56 3.56
445 446 3.445450 TGGTTTTGTGTAGCTCAAAGCAA 59.555 39.130 12.91 2.04 45.56 3.91
446 447 3.020274 TGGTTTTGTGTAGCTCAAAGCA 58.980 40.909 12.91 8.49 45.56 3.91
447 448 3.181491 TGTGGTTTTGTGTAGCTCAAAGC 60.181 43.478 0.00 0.00 42.84 3.51
448 449 4.630894 TGTGGTTTTGTGTAGCTCAAAG 57.369 40.909 0.00 0.00 36.40 2.77
449 450 5.451242 GGAATGTGGTTTTGTGTAGCTCAAA 60.451 40.000 0.00 0.00 33.76 2.69
450 451 4.037446 GGAATGTGGTTTTGTGTAGCTCAA 59.963 41.667 0.00 0.00 0.00 3.02
451 452 3.568007 GGAATGTGGTTTTGTGTAGCTCA 59.432 43.478 0.00 0.00 0.00 4.26
452 453 3.568007 TGGAATGTGGTTTTGTGTAGCTC 59.432 43.478 0.00 0.00 0.00 4.09
453 454 3.561143 TGGAATGTGGTTTTGTGTAGCT 58.439 40.909 0.00 0.00 0.00 3.32
454 455 4.519540 ATGGAATGTGGTTTTGTGTAGC 57.480 40.909 0.00 0.00 0.00 3.58
455 456 5.182950 TGCTATGGAATGTGGTTTTGTGTAG 59.817 40.000 0.00 0.00 0.00 2.74
456 457 5.073428 TGCTATGGAATGTGGTTTTGTGTA 58.927 37.500 0.00 0.00 0.00 2.90
457 458 3.894427 TGCTATGGAATGTGGTTTTGTGT 59.106 39.130 0.00 0.00 0.00 3.72
458 459 4.517952 TGCTATGGAATGTGGTTTTGTG 57.482 40.909 0.00 0.00 0.00 3.33
459 460 4.771577 TGATGCTATGGAATGTGGTTTTGT 59.228 37.500 0.00 0.00 0.00 2.83
460 461 5.327616 TGATGCTATGGAATGTGGTTTTG 57.672 39.130 0.00 0.00 0.00 2.44
461 462 5.245751 TGTTGATGCTATGGAATGTGGTTTT 59.754 36.000 0.00 0.00 0.00 2.43
462 463 4.771577 TGTTGATGCTATGGAATGTGGTTT 59.228 37.500 0.00 0.00 0.00 3.27
463 464 4.343231 TGTTGATGCTATGGAATGTGGTT 58.657 39.130 0.00 0.00 0.00 3.67
464 465 3.966979 TGTTGATGCTATGGAATGTGGT 58.033 40.909 0.00 0.00 0.00 4.16
465 466 5.524971 AATGTTGATGCTATGGAATGTGG 57.475 39.130 0.00 0.00 0.00 4.17
466 467 7.268199 AGTAATGTTGATGCTATGGAATGTG 57.732 36.000 0.00 0.00 0.00 3.21
467 468 7.013655 GGAAGTAATGTTGATGCTATGGAATGT 59.986 37.037 0.00 0.00 0.00 2.71
468 469 7.013559 TGGAAGTAATGTTGATGCTATGGAATG 59.986 37.037 0.00 0.00 0.00 2.67
469 470 7.062322 TGGAAGTAATGTTGATGCTATGGAAT 58.938 34.615 0.00 0.00 0.00 3.01
470 471 6.422333 TGGAAGTAATGTTGATGCTATGGAA 58.578 36.000 0.00 0.00 0.00 3.53
471 472 6.000246 TGGAAGTAATGTTGATGCTATGGA 58.000 37.500 0.00 0.00 0.00 3.41
472 473 6.698008 TTGGAAGTAATGTTGATGCTATGG 57.302 37.500 0.00 0.00 0.00 2.74
476 477 9.632638 AAGTATATTGGAAGTAATGTTGATGCT 57.367 29.630 0.00 0.00 0.00 3.79
491 492 5.189736 AGGTGCTCTGACAAAGTATATTGGA 59.810 40.000 0.00 0.00 34.56 3.53
516 517 3.432378 GAGTTGGTCTTCTAGGTGGAGA 58.568 50.000 0.00 0.00 0.00 3.71
549 550 4.586421 TCACCAAACATTATCAAAGCCACA 59.414 37.500 0.00 0.00 0.00 4.17
550 551 5.132897 TCACCAAACATTATCAAAGCCAC 57.867 39.130 0.00 0.00 0.00 5.01
574 575 2.541120 GCATGTGCCTCCTCGATGC 61.541 63.158 0.00 0.00 33.23 3.91
604 605 1.741770 GCGCCTCAATCGGACAACT 60.742 57.895 0.00 0.00 0.00 3.16
619 620 1.641677 CGTAGCCATTAACCAGCGC 59.358 57.895 0.00 0.00 0.00 5.92
623 624 0.460635 GCGACCGTAGCCATTAACCA 60.461 55.000 0.00 0.00 0.00 3.67
681 682 1.336755 GTGCCACCGAGATGTTGTTTT 59.663 47.619 0.00 0.00 0.00 2.43
684 685 0.036732 ATGTGCCACCGAGATGTTGT 59.963 50.000 0.00 0.00 0.00 3.32
685 686 2.022764 TATGTGCCACCGAGATGTTG 57.977 50.000 0.00 0.00 0.00 3.33
686 687 2.747446 GTTTATGTGCCACCGAGATGTT 59.253 45.455 0.00 0.00 0.00 2.71
688 689 1.327460 CGTTTATGTGCCACCGAGATG 59.673 52.381 0.00 0.00 0.00 2.90
690 691 0.319083 ACGTTTATGTGCCACCGAGA 59.681 50.000 0.00 0.00 0.00 4.04
691 692 1.153353 AACGTTTATGTGCCACCGAG 58.847 50.000 0.00 0.00 0.00 4.63
694 695 3.075884 TCCTAAACGTTTATGTGCCACC 58.924 45.455 20.39 0.00 0.00 4.61
695 696 3.998341 TCTCCTAAACGTTTATGTGCCAC 59.002 43.478 20.39 0.00 0.00 5.01
697 698 3.621715 CCTCTCCTAAACGTTTATGTGCC 59.378 47.826 20.39 0.00 0.00 5.01
699 700 5.080969 TCCCTCTCCTAAACGTTTATGTG 57.919 43.478 20.39 17.33 0.00 3.21
701 702 4.120589 GCTCCCTCTCCTAAACGTTTATG 58.879 47.826 20.39 17.41 0.00 1.90
702 703 4.031611 AGCTCCCTCTCCTAAACGTTTAT 58.968 43.478 20.39 0.00 0.00 1.40
704 705 2.258109 AGCTCCCTCTCCTAAACGTTT 58.742 47.619 18.90 18.90 0.00 3.60
706 707 1.550976 CAAGCTCCCTCTCCTAAACGT 59.449 52.381 0.00 0.00 0.00 3.99
707 708 1.550976 ACAAGCTCCCTCTCCTAAACG 59.449 52.381 0.00 0.00 0.00 3.60
708 709 2.355209 CCACAAGCTCCCTCTCCTAAAC 60.355 54.545 0.00 0.00 0.00 2.01
710 711 1.078823 TCCACAAGCTCCCTCTCCTAA 59.921 52.381 0.00 0.00 0.00 2.69
711 712 0.710588 TCCACAAGCTCCCTCTCCTA 59.289 55.000 0.00 0.00 0.00 2.94
713 714 1.194781 TGTCCACAAGCTCCCTCTCC 61.195 60.000 0.00 0.00 0.00 3.71
715 716 0.689623 CTTGTCCACAAGCTCCCTCT 59.310 55.000 6.52 0.00 45.59 3.69
716 717 3.239861 CTTGTCCACAAGCTCCCTC 57.760 57.895 6.52 0.00 45.59 4.30
724 725 2.969821 ATTGTAGGCCTTGTCCACAA 57.030 45.000 18.06 18.06 34.31 3.33
726 727 5.914898 AAAATATTGTAGGCCTTGTCCAC 57.085 39.130 12.58 2.24 0.00 4.02
727 728 6.152661 CAGAAAAATATTGTAGGCCTTGTCCA 59.847 38.462 12.58 0.00 0.00 4.02
728 729 6.377146 TCAGAAAAATATTGTAGGCCTTGTCC 59.623 38.462 12.58 0.00 0.00 4.02
729 730 7.391148 TCAGAAAAATATTGTAGGCCTTGTC 57.609 36.000 12.58 2.55 0.00 3.18
730 731 7.775053 TTCAGAAAAATATTGTAGGCCTTGT 57.225 32.000 12.58 0.00 0.00 3.16
731 732 8.469200 TCATTCAGAAAAATATTGTAGGCCTTG 58.531 33.333 12.58 0.00 0.00 3.61
732 733 8.593945 TCATTCAGAAAAATATTGTAGGCCTT 57.406 30.769 12.58 0.00 0.00 4.35
733 734 7.836183 ACTCATTCAGAAAAATATTGTAGGCCT 59.164 33.333 11.78 11.78 0.00 5.19
734 735 8.000780 ACTCATTCAGAAAAATATTGTAGGCC 57.999 34.615 0.00 0.00 0.00 5.19
745 746 9.416284 ACCCTAGTTTTTACTCATTCAGAAAAA 57.584 29.630 0.00 0.00 0.00 1.94
746 747 8.990163 ACCCTAGTTTTTACTCATTCAGAAAA 57.010 30.769 0.00 0.00 0.00 2.29
748 749 9.667107 CATACCCTAGTTTTTACTCATTCAGAA 57.333 33.333 0.00 0.00 0.00 3.02
749 750 8.822805 ACATACCCTAGTTTTTACTCATTCAGA 58.177 33.333 0.00 0.00 0.00 3.27
750 751 9.449719 AACATACCCTAGTTTTTACTCATTCAG 57.550 33.333 0.00 0.00 0.00 3.02
751 752 9.444600 GAACATACCCTAGTTTTTACTCATTCA 57.555 33.333 0.00 0.00 0.00 2.57
752 753 9.444600 TGAACATACCCTAGTTTTTACTCATTC 57.555 33.333 0.00 0.00 0.00 2.67
753 754 9.449719 CTGAACATACCCTAGTTTTTACTCATT 57.550 33.333 0.00 0.00 0.00 2.57
754 755 8.603304 ACTGAACATACCCTAGTTTTTACTCAT 58.397 33.333 0.00 0.00 0.00 2.90
755 756 7.876068 CACTGAACATACCCTAGTTTTTACTCA 59.124 37.037 0.00 0.00 0.00 3.41
756 757 8.092687 TCACTGAACATACCCTAGTTTTTACTC 58.907 37.037 0.00 0.00 0.00 2.59
757 758 7.970102 TCACTGAACATACCCTAGTTTTTACT 58.030 34.615 0.00 0.00 0.00 2.24
758 759 8.501580 GTTCACTGAACATACCCTAGTTTTTAC 58.498 37.037 15.77 0.00 41.62 2.01
759 760 8.212312 TGTTCACTGAACATACCCTAGTTTTTA 58.788 33.333 18.83 0.00 45.88 1.52
760 761 7.057894 TGTTCACTGAACATACCCTAGTTTTT 58.942 34.615 18.83 0.00 45.88 1.94
761 762 6.597562 TGTTCACTGAACATACCCTAGTTTT 58.402 36.000 18.83 0.00 45.88 2.43
762 763 6.182507 TGTTCACTGAACATACCCTAGTTT 57.817 37.500 18.83 0.00 45.88 2.66
763 764 5.818678 TGTTCACTGAACATACCCTAGTT 57.181 39.130 18.83 0.00 45.88 2.24
790 791 3.495331 TGCCAACTGGATGCTAGAAAAA 58.505 40.909 0.00 0.00 37.39 1.94
1268 1269 8.560576 ACATTGTTTTTCTTTCTTACATCGTG 57.439 30.769 0.00 0.00 0.00 4.35
1297 1298 4.041740 TCTTAGTCATGTATGCACCGTC 57.958 45.455 0.00 0.00 0.00 4.79
1300 1301 3.499918 GGCATCTTAGTCATGTATGCACC 59.500 47.826 7.77 0.00 43.67 5.01
1436 1437 1.198713 GCCTCCCATCTTGTCAGAGA 58.801 55.000 0.00 0.00 30.36 3.10
1440 1441 1.280133 CTGAAGCCTCCCATCTTGTCA 59.720 52.381 0.00 0.00 0.00 3.58
1441 1442 1.556911 TCTGAAGCCTCCCATCTTGTC 59.443 52.381 0.00 0.00 0.00 3.18
1463 1464 2.179427 ACAGAAGGATCATCACGGTCA 58.821 47.619 0.00 0.00 0.00 4.02
1649 2469 9.189723 GTTTAAACATCGACTATATGGAGGTAC 57.810 37.037 13.51 0.00 29.17 3.34
1688 2508 8.147058 ACTTTTCATGTAAATAACCATGCAACA 58.853 29.630 0.00 0.00 38.63 3.33
1874 2694 8.795513 CCACATCCATAGTTGCATGAAATATAA 58.204 33.333 0.00 0.00 0.00 0.98
1875 2695 7.944000 ACCACATCCATAGTTGCATGAAATATA 59.056 33.333 0.00 0.00 0.00 0.86
1876 2696 6.779049 ACCACATCCATAGTTGCATGAAATAT 59.221 34.615 0.00 0.00 0.00 1.28
1877 2697 6.128486 ACCACATCCATAGTTGCATGAAATA 58.872 36.000 0.00 0.00 0.00 1.40
1878 2698 4.957954 ACCACATCCATAGTTGCATGAAAT 59.042 37.500 0.00 0.00 0.00 2.17
1879 2699 4.343231 ACCACATCCATAGTTGCATGAAA 58.657 39.130 0.00 0.00 0.00 2.69
1880 2700 3.966979 ACCACATCCATAGTTGCATGAA 58.033 40.909 0.00 0.00 0.00 2.57
1881 2701 3.650281 ACCACATCCATAGTTGCATGA 57.350 42.857 0.00 0.00 0.00 3.07
1984 2804 6.893005 AGCAGACTCTGAGGTAGTAACTAATT 59.107 38.462 10.45 0.00 32.44 1.40
2006 2826 6.953101 TGTATCCTAAGACCACATTTTAGCA 58.047 36.000 0.00 0.00 0.00 3.49
2023 2843 7.961326 ATTTGCCTCAAACTTTATGTATCCT 57.039 32.000 0.00 0.00 36.13 3.24
2026 2846 9.586435 GCTTAATTTGCCTCAAACTTTATGTAT 57.414 29.630 0.00 0.00 36.13 2.29
2053 2873 0.949105 CGTGGTTTCAGTTCCCCTCG 60.949 60.000 0.00 0.00 0.00 4.63
2063 2883 3.886324 AACCTTGGTCGTGGTTTCA 57.114 47.368 0.00 0.00 43.27 2.69
2091 2911 4.372656 GACAGGTCTATAGTGACAATGGC 58.627 47.826 0.00 0.00 38.61 4.40
2114 2934 1.398578 GCGAACCTTTCTCGTGCTTTC 60.399 52.381 0.00 0.00 38.57 2.62
2202 3022 4.341502 ATGCCCGTGCGTTGCAAC 62.342 61.111 19.89 19.89 41.47 4.17
2232 3052 4.481368 ACGCACTCTCCATGGTTAATAA 57.519 40.909 12.58 0.00 0.00 1.40
2602 5194 2.704572 AGCTGATGGTCAGTTAAGCAC 58.295 47.619 8.58 0.00 45.94 4.40
2858 5545 8.967664 TCAGGTCTCTATAAGAAAGTAGTCTC 57.032 38.462 0.00 0.00 35.21 3.36
2872 5563 8.477419 TTTGTTTTGGAAAATCAGGTCTCTAT 57.523 30.769 0.00 0.00 0.00 1.98
2961 5655 9.802039 TTATTGTGTTACCTAGATTCCAAAACT 57.198 29.630 0.00 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.