Multiple sequence alignment - TraesCS3A01G534600

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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 TraesCS3A01G534600 chr3A 100.000 3296 0 0 1 3296 746356434 746353139 0.000000e+00 6087.0
1 TraesCS3A01G534600 chr3D 95.010 2425 72 16 896 3296 611564488 611566887 0.000000e+00 3762.0
2 TraesCS3A01G534600 chr3D 87.868 272 20 7 628 896 611564191 611564452 1.150000e-79 307.0
3 TraesCS3A01G534600 chr3D 87.821 156 18 1 353 507 611564037 611564192 7.270000e-42 182.0
4 TraesCS3A01G534600 chr3D 91.026 78 4 1 552 629 582778792 582778866 5.820000e-18 102.0
5 TraesCS3A01G534600 chr3B 95.260 1772 64 6 629 2393 829284961 829286719 0.000000e+00 2789.0
6 TraesCS3A01G534600 chr3B 95.645 597 25 1 2454 3049 829286720 829287316 0.000000e+00 957.0
7 TraesCS3A01G534600 chr3B 85.968 506 42 13 1 505 829284482 829284959 6.310000e-142 514.0
8 TraesCS3A01G534600 chr4A 90.254 1498 127 9 910 2396 13758631 13757142 0.000000e+00 1940.0
9 TraesCS3A01G534600 chr4A 81.203 266 39 6 74 336 13759409 13759152 1.550000e-48 204.0
10 TraesCS3A01G534600 chr4A 89.655 87 3 5 544 629 618462177 618462258 4.500000e-19 106.0
11 TraesCS3A01G534600 chr4A 100.000 38 0 0 506 543 365648764 365648801 1.640000e-08 71.3
12 TraesCS3A01G534600 chr4D 91.495 1411 107 4 910 2310 453319788 453321195 0.000000e+00 1929.0
13 TraesCS3A01G534600 chr4D 79.688 128 21 3 2456 2583 453321381 453321503 1.630000e-13 87.9
14 TraesCS3A01G534600 chr4B 88.523 1577 155 17 959 2523 566979203 566980765 0.000000e+00 1886.0
15 TraesCS3A01G534600 chr4B 88.394 1482 148 16 1052 2523 566981810 566983277 0.000000e+00 1762.0
16 TraesCS3A01G534600 chr4B 78.788 462 54 22 74 506 566978115 566978561 1.510000e-68 270.0
17 TraesCS3A01G534600 chr4B 100.000 38 0 0 506 543 22844121 22844084 1.640000e-08 71.3
18 TraesCS3A01G534600 chr5A 84.222 450 62 4 1185 1626 367617426 367616978 2.350000e-116 429.0
19 TraesCS3A01G534600 chr5A 88.421 95 4 6 544 636 427829081 427829170 1.250000e-19 108.0
20 TraesCS3A01G534600 chr5B 90.909 88 2 5 545 631 27817302 27817220 2.690000e-21 113.0
21 TraesCS3A01G534600 chr5B 89.535 86 4 2 544 629 582158217 582158137 1.620000e-18 104.0
22 TraesCS3A01G534600 chr7A 90.000 90 3 3 544 632 33885891 33885807 9.670000e-21 111.0
23 TraesCS3A01G534600 chr7A 100.000 39 0 0 506 544 33885894 33885856 4.560000e-09 73.1
24 TraesCS3A01G534600 chr1A 89.655 87 3 3 544 629 498666541 498666622 4.500000e-19 106.0
25 TraesCS3A01G534600 chr1A 100.000 38 0 0 506 543 45583295 45583258 1.640000e-08 71.3
26 TraesCS3A01G534600 chr6A 88.506 87 4 3 544 629 356112327 356112246 2.090000e-17 100.0
27 TraesCS3A01G534600 chr7B 88.506 87 3 5 544 629 113163335 113163415 7.530000e-17 99.0
28 TraesCS3A01G534600 chr7B 97.561 41 1 0 503 543 684403220 684403260 1.640000e-08 71.3
29 TraesCS3A01G534600 chr5D 97.674 43 0 1 503 544 188826531 188826573 4.560000e-09 73.1
30 TraesCS3A01G534600 chr5D 100.000 38 0 0 506 543 535136260 535136223 1.640000e-08 71.3
31 TraesCS3A01G534600 chr6D 100.000 38 0 0 506 543 57176682 57176719 1.640000e-08 71.3
32 TraesCS3A01G534600 chr1D 100.000 38 0 0 506 543 403516046 403516083 1.640000e-08 71.3


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 TraesCS3A01G534600 chr3A 746353139 746356434 3295 True 6087.00 6087 100.0000 1 3296 1 chr3A.!!$R1 3295
1 TraesCS3A01G534600 chr3D 611564037 611566887 2850 False 1417.00 3762 90.2330 353 3296 3 chr3D.!!$F2 2943
2 TraesCS3A01G534600 chr3B 829284482 829287316 2834 False 1420.00 2789 92.2910 1 3049 3 chr3B.!!$F1 3048
3 TraesCS3A01G534600 chr4A 13757142 13759409 2267 True 1072.00 1940 85.7285 74 2396 2 chr4A.!!$R1 2322
4 TraesCS3A01G534600 chr4D 453319788 453321503 1715 False 1008.45 1929 85.5915 910 2583 2 chr4D.!!$F1 1673
5 TraesCS3A01G534600 chr4B 566978115 566983277 5162 False 1306.00 1886 85.2350 74 2523 3 chr4B.!!$F1 2449

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
548 602 0.031585 GACGTTTTTGCAAGTCCCCC 59.968 55.0 0.0 0.0 0.0 5.40 F
627 681 0.042131 TATTGTGGGACGGAGGGAGT 59.958 55.0 0.0 0.0 0.0 3.85 F
856 946 0.320508 GTTGACTGACCCGTTCCCTC 60.321 60.0 0.0 0.0 0.0 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1597 2003 0.178932 AGCATATCTGGAGCCCGGTA 60.179 55.000 0.00 0.00 0.00 4.02 R
2226 2632 1.068895 CCTGCAATTGCTGACCACAAA 59.931 47.619 31.75 9.61 41.71 2.83 R
2609 3102 1.831580 AGTGAAATCTTCTGCTGCCC 58.168 50.000 0.00 0.00 0.00 5.36 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
23 24 5.526506 AAACAGCTTTGCTTGAGAATTCT 57.473 34.783 7.95 7.95 36.40 2.40
29 30 5.709164 AGCTTTGCTTGAGAATTCTGTATGT 59.291 36.000 14.00 0.00 33.89 2.29
31 32 6.963805 GCTTTGCTTGAGAATTCTGTATGTAC 59.036 38.462 14.00 0.00 0.00 2.90
55 56 6.322201 ACATTGAATTAGGGTTATTGCTCTGG 59.678 38.462 0.00 0.00 0.00 3.86
102 103 6.151663 TCAAACATATGATCTTGCAATGGG 57.848 37.500 10.38 0.00 0.00 4.00
109 110 0.041535 ATCTTGCAATGGGCCAAGGA 59.958 50.000 11.89 4.57 43.89 3.36
110 111 0.041535 TCTTGCAATGGGCCAAGGAT 59.958 50.000 11.89 0.00 43.89 3.24
111 112 0.906775 CTTGCAATGGGCCAAGGATT 59.093 50.000 11.89 0.00 43.89 3.01
112 113 1.279846 CTTGCAATGGGCCAAGGATTT 59.720 47.619 11.89 0.00 43.89 2.17
154 155 4.370776 TGATTATCTTCCAAGGGTGAGGA 58.629 43.478 0.00 0.00 0.00 3.71
221 244 1.407258 CCGGCTGTTTTTGGAGTTCAA 59.593 47.619 0.00 0.00 0.00 2.69
222 245 2.543653 CCGGCTGTTTTTGGAGTTCAAG 60.544 50.000 0.00 0.00 36.62 3.02
223 246 2.099098 CGGCTGTTTTTGGAGTTCAAGT 59.901 45.455 0.00 0.00 36.62 3.16
224 247 3.428862 CGGCTGTTTTTGGAGTTCAAGTT 60.429 43.478 0.00 0.00 36.62 2.66
225 248 4.503910 GGCTGTTTTTGGAGTTCAAGTTT 58.496 39.130 0.00 0.00 36.62 2.66
226 249 5.656480 GGCTGTTTTTGGAGTTCAAGTTTA 58.344 37.500 0.00 0.00 36.62 2.01
227 250 5.748630 GGCTGTTTTTGGAGTTCAAGTTTAG 59.251 40.000 0.00 0.00 36.62 1.85
228 251 5.748630 GCTGTTTTTGGAGTTCAAGTTTAGG 59.251 40.000 0.00 0.00 36.62 2.69
229 252 6.627287 GCTGTTTTTGGAGTTCAAGTTTAGGT 60.627 38.462 0.00 0.00 36.62 3.08
230 253 7.234661 TGTTTTTGGAGTTCAAGTTTAGGTT 57.765 32.000 0.00 0.00 36.62 3.50
231 254 8.350852 TGTTTTTGGAGTTCAAGTTTAGGTTA 57.649 30.769 0.00 0.00 36.62 2.85
232 255 8.804204 TGTTTTTGGAGTTCAAGTTTAGGTTAA 58.196 29.630 0.00 0.00 36.62 2.01
233 256 9.079833 GTTTTTGGAGTTCAAGTTTAGGTTAAC 57.920 33.333 0.00 0.00 36.62 2.01
234 257 6.947644 TTGGAGTTCAAGTTTAGGTTAACC 57.052 37.500 17.41 17.41 0.00 2.85
235 258 5.058490 TGGAGTTCAAGTTTAGGTTAACCG 58.942 41.667 18.91 3.12 42.08 4.44
236 259 5.059161 GGAGTTCAAGTTTAGGTTAACCGT 58.941 41.667 18.91 10.00 42.08 4.83
237 260 5.049886 GGAGTTCAAGTTTAGGTTAACCGTG 60.050 44.000 18.91 11.03 42.08 4.94
238 261 4.818005 AGTTCAAGTTTAGGTTAACCGTGG 59.182 41.667 18.91 6.14 42.08 4.94
239 262 4.686191 TCAAGTTTAGGTTAACCGTGGA 57.314 40.909 18.91 8.24 42.08 4.02
259 282 3.053917 GGAGGTGGCTGGTCCTTTATTTA 60.054 47.826 0.00 0.00 33.83 1.40
260 283 4.569015 GGAGGTGGCTGGTCCTTTATTTAA 60.569 45.833 0.00 0.00 33.83 1.52
261 284 5.201243 GAGGTGGCTGGTCCTTTATTTAAT 58.799 41.667 0.00 0.00 33.83 1.40
390 443 0.463295 ATGGTCTTCTGCGCATGGAG 60.463 55.000 12.24 9.78 34.33 3.86
506 560 3.118592 CCAAAGCCAAAACCAACCTGTTA 60.119 43.478 0.00 0.00 0.00 2.41
507 561 3.812156 AAGCCAAAACCAACCTGTTAC 57.188 42.857 0.00 0.00 0.00 2.50
508 562 3.026707 AGCCAAAACCAACCTGTTACT 57.973 42.857 0.00 0.00 0.00 2.24
509 563 2.956333 AGCCAAAACCAACCTGTTACTC 59.044 45.455 0.00 0.00 0.00 2.59
510 564 2.035449 GCCAAAACCAACCTGTTACTCC 59.965 50.000 0.00 0.00 0.00 3.85
511 565 2.626266 CCAAAACCAACCTGTTACTCCC 59.374 50.000 0.00 0.00 0.00 4.30
512 566 3.562182 CAAAACCAACCTGTTACTCCCT 58.438 45.455 0.00 0.00 0.00 4.20
513 567 3.503800 AAACCAACCTGTTACTCCCTC 57.496 47.619 0.00 0.00 0.00 4.30
514 568 1.359168 ACCAACCTGTTACTCCCTCC 58.641 55.000 0.00 0.00 0.00 4.30
515 569 0.249398 CCAACCTGTTACTCCCTCCG 59.751 60.000 0.00 0.00 0.00 4.63
516 570 0.974383 CAACCTGTTACTCCCTCCGT 59.026 55.000 0.00 0.00 0.00 4.69
517 571 1.067071 CAACCTGTTACTCCCTCCGTC 60.067 57.143 0.00 0.00 0.00 4.79
518 572 0.614134 ACCTGTTACTCCCTCCGTCC 60.614 60.000 0.00 0.00 0.00 4.79
519 573 1.328430 CCTGTTACTCCCTCCGTCCC 61.328 65.000 0.00 0.00 0.00 4.46
520 574 0.613853 CTGTTACTCCCTCCGTCCCA 60.614 60.000 0.00 0.00 0.00 4.37
521 575 0.901580 TGTTACTCCCTCCGTCCCAC 60.902 60.000 0.00 0.00 0.00 4.61
522 576 0.901580 GTTACTCCCTCCGTCCCACA 60.902 60.000 0.00 0.00 0.00 4.17
523 577 0.178926 TTACTCCCTCCGTCCCACAA 60.179 55.000 0.00 0.00 0.00 3.33
524 578 0.042131 TACTCCCTCCGTCCCACAAT 59.958 55.000 0.00 0.00 0.00 2.71
525 579 0.042131 ACTCCCTCCGTCCCACAATA 59.958 55.000 0.00 0.00 0.00 1.90
526 580 1.344087 ACTCCCTCCGTCCCACAATAT 60.344 52.381 0.00 0.00 0.00 1.28
527 581 2.090943 ACTCCCTCCGTCCCACAATATA 60.091 50.000 0.00 0.00 0.00 0.86
528 582 2.969950 CTCCCTCCGTCCCACAATATAA 59.030 50.000 0.00 0.00 0.00 0.98
529 583 2.969950 TCCCTCCGTCCCACAATATAAG 59.030 50.000 0.00 0.00 0.00 1.73
530 584 2.969950 CCCTCCGTCCCACAATATAAGA 59.030 50.000 0.00 0.00 0.00 2.10
531 585 3.244112 CCCTCCGTCCCACAATATAAGAC 60.244 52.174 0.00 0.00 0.00 3.01
533 587 3.025978 TCCGTCCCACAATATAAGACGT 58.974 45.455 9.63 0.00 46.62 4.34
534 588 3.448301 TCCGTCCCACAATATAAGACGTT 59.552 43.478 9.63 0.00 46.62 3.99
535 589 4.081531 TCCGTCCCACAATATAAGACGTTT 60.082 41.667 9.63 0.00 46.62 3.60
536 590 4.632688 CCGTCCCACAATATAAGACGTTTT 59.367 41.667 9.63 0.00 46.62 2.43
537 591 5.122711 CCGTCCCACAATATAAGACGTTTTT 59.877 40.000 9.63 0.00 46.62 1.94
538 592 6.019152 CGTCCCACAATATAAGACGTTTTTG 58.981 40.000 0.00 0.00 43.89 2.44
539 593 5.798434 GTCCCACAATATAAGACGTTTTTGC 59.202 40.000 0.00 0.00 0.00 3.68
540 594 5.473846 TCCCACAATATAAGACGTTTTTGCA 59.526 36.000 0.00 0.00 0.00 4.08
541 595 6.016192 TCCCACAATATAAGACGTTTTTGCAA 60.016 34.615 0.00 0.00 0.00 4.08
542 596 6.307800 CCCACAATATAAGACGTTTTTGCAAG 59.692 38.462 0.00 0.00 0.00 4.01
543 597 6.861055 CCACAATATAAGACGTTTTTGCAAGT 59.139 34.615 0.00 0.00 0.00 3.16
544 598 7.060633 CCACAATATAAGACGTTTTTGCAAGTC 59.939 37.037 8.16 8.16 0.00 3.01
545 599 7.060633 CACAATATAAGACGTTTTTGCAAGTCC 59.939 37.037 11.69 0.00 34.41 3.85
546 600 2.863401 AAGACGTTTTTGCAAGTCCC 57.137 45.000 11.69 0.00 34.41 4.46
547 601 1.029681 AGACGTTTTTGCAAGTCCCC 58.970 50.000 11.69 0.00 34.41 4.81
548 602 0.031585 GACGTTTTTGCAAGTCCCCC 59.968 55.000 0.00 0.00 0.00 5.40
549 603 1.007849 CGTTTTTGCAAGTCCCCCG 60.008 57.895 0.00 0.00 0.00 5.73
550 604 1.730451 CGTTTTTGCAAGTCCCCCGT 61.730 55.000 0.00 0.00 0.00 5.28
551 605 0.031585 GTTTTTGCAAGTCCCCCGTC 59.968 55.000 0.00 0.00 0.00 4.79
552 606 1.110518 TTTTTGCAAGTCCCCCGTCC 61.111 55.000 0.00 0.00 0.00 4.79
553 607 2.987355 TTTTGCAAGTCCCCCGTCCC 62.987 60.000 0.00 0.00 0.00 4.46
555 609 4.717313 GCAAGTCCCCCGTCCCAC 62.717 72.222 0.00 0.00 0.00 4.61
556 610 3.246112 CAAGTCCCCCGTCCCACA 61.246 66.667 0.00 0.00 0.00 4.17
557 611 2.448931 AAGTCCCCCGTCCCACAA 60.449 61.111 0.00 0.00 0.00 3.33
558 612 1.850755 AAGTCCCCCGTCCCACAAT 60.851 57.895 0.00 0.00 0.00 2.71
559 613 0.548197 AAGTCCCCCGTCCCACAATA 60.548 55.000 0.00 0.00 0.00 1.90
560 614 0.327191 AGTCCCCCGTCCCACAATAT 60.327 55.000 0.00 0.00 0.00 1.28
561 615 1.061967 AGTCCCCCGTCCCACAATATA 60.062 52.381 0.00 0.00 0.00 0.86
562 616 1.770061 GTCCCCCGTCCCACAATATAA 59.230 52.381 0.00 0.00 0.00 0.98
563 617 2.051692 TCCCCCGTCCCACAATATAAG 58.948 52.381 0.00 0.00 0.00 1.73
564 618 2.051692 CCCCCGTCCCACAATATAAGA 58.948 52.381 0.00 0.00 0.00 2.10
565 619 2.224450 CCCCCGTCCCACAATATAAGAC 60.224 54.545 0.00 0.00 0.00 3.01
566 620 2.436542 CCCCGTCCCACAATATAAGACA 59.563 50.000 0.00 0.00 0.00 3.41
567 621 3.072476 CCCCGTCCCACAATATAAGACAT 59.928 47.826 0.00 0.00 0.00 3.06
568 622 4.445735 CCCCGTCCCACAATATAAGACATT 60.446 45.833 0.00 0.00 0.00 2.71
569 623 5.130350 CCCGTCCCACAATATAAGACATTT 58.870 41.667 0.00 0.00 0.00 2.32
570 624 5.592688 CCCGTCCCACAATATAAGACATTTT 59.407 40.000 0.00 0.00 0.00 1.82
571 625 6.096282 CCCGTCCCACAATATAAGACATTTTT 59.904 38.462 0.00 0.00 0.00 1.94
572 626 6.972328 CCGTCCCACAATATAAGACATTTTTG 59.028 38.462 0.00 0.00 0.00 2.44
573 627 6.472163 CGTCCCACAATATAAGACATTTTTGC 59.528 38.462 0.00 0.00 0.00 3.68
574 628 7.319646 GTCCCACAATATAAGACATTTTTGCA 58.680 34.615 0.00 0.00 0.00 4.08
575 629 7.981225 GTCCCACAATATAAGACATTTTTGCAT 59.019 33.333 0.00 0.00 0.00 3.96
576 630 8.538701 TCCCACAATATAAGACATTTTTGCATT 58.461 29.630 0.00 0.00 0.00 3.56
577 631 8.605746 CCCACAATATAAGACATTTTTGCATTG 58.394 33.333 0.00 0.00 0.00 2.82
578 632 8.117988 CCACAATATAAGACATTTTTGCATTGC 58.882 33.333 0.46 0.46 0.00 3.56
579 633 8.657729 CACAATATAAGACATTTTTGCATTGCA 58.342 29.630 7.38 7.38 36.47 4.08
589 643 2.598686 TTGCATTGCAAGCTGTTTCA 57.401 40.000 19.77 0.00 43.99 2.69
590 644 2.143008 TGCATTGCAAGCTGTTTCAG 57.857 45.000 9.33 0.00 34.76 3.02
591 645 1.870580 TGCATTGCAAGCTGTTTCAGC 60.871 47.619 9.33 13.00 45.18 4.26
604 658 5.074430 CTGTTTCAGCTTGCAAAAACATC 57.926 39.130 21.33 3.73 39.92 3.06
605 659 4.757594 TGTTTCAGCTTGCAAAAACATCT 58.242 34.783 18.58 0.60 36.86 2.90
606 660 5.177326 TGTTTCAGCTTGCAAAAACATCTT 58.823 33.333 18.58 0.00 36.86 2.40
607 661 6.336566 TGTTTCAGCTTGCAAAAACATCTTA 58.663 32.000 18.58 1.66 36.86 2.10
608 662 6.985645 TGTTTCAGCTTGCAAAAACATCTTAT 59.014 30.769 18.58 0.00 36.86 1.73
609 663 8.140628 TGTTTCAGCTTGCAAAAACATCTTATA 58.859 29.630 18.58 0.51 36.86 0.98
610 664 9.143631 GTTTCAGCTTGCAAAAACATCTTATAT 57.856 29.630 16.06 0.00 33.03 0.86
611 665 9.709495 TTTCAGCTTGCAAAAACATCTTATATT 57.291 25.926 0.00 0.00 0.00 1.28
612 666 8.692110 TCAGCTTGCAAAAACATCTTATATTG 57.308 30.769 0.00 0.00 0.00 1.90
613 667 8.306038 TCAGCTTGCAAAAACATCTTATATTGT 58.694 29.630 0.00 0.00 0.00 2.71
614 668 8.377681 CAGCTTGCAAAAACATCTTATATTGTG 58.622 33.333 0.00 0.00 0.00 3.33
615 669 7.546667 AGCTTGCAAAAACATCTTATATTGTGG 59.453 33.333 0.00 0.00 0.00 4.17
616 670 7.201548 GCTTGCAAAAACATCTTATATTGTGGG 60.202 37.037 0.00 0.00 0.00 4.61
617 671 7.473735 TGCAAAAACATCTTATATTGTGGGA 57.526 32.000 0.00 0.00 0.00 4.37
618 672 7.319646 TGCAAAAACATCTTATATTGTGGGAC 58.680 34.615 0.00 0.00 0.00 4.46
619 673 6.472163 GCAAAAACATCTTATATTGTGGGACG 59.528 38.462 0.00 0.00 0.00 4.79
620 674 6.693315 AAAACATCTTATATTGTGGGACGG 57.307 37.500 0.00 0.00 0.00 4.79
621 675 5.623956 AACATCTTATATTGTGGGACGGA 57.376 39.130 0.00 0.00 0.00 4.69
622 676 5.215252 ACATCTTATATTGTGGGACGGAG 57.785 43.478 0.00 0.00 0.00 4.63
623 677 4.040461 ACATCTTATATTGTGGGACGGAGG 59.960 45.833 0.00 0.00 0.00 4.30
624 678 2.969950 TCTTATATTGTGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
625 679 2.779429 TATATTGTGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
626 680 1.424638 ATATTGTGGGACGGAGGGAG 58.575 55.000 0.00 0.00 0.00 4.30
627 681 0.042131 TATTGTGGGACGGAGGGAGT 59.958 55.000 0.00 0.00 0.00 3.85
648 721 9.121658 GGGAGTATAACTTTAGCTGCTAAATTT 57.878 33.333 28.72 28.72 35.72 1.82
797 885 5.187772 AGTCACAGCCACTTGATCTTACATA 59.812 40.000 0.00 0.00 0.00 2.29
798 886 5.521735 GTCACAGCCACTTGATCTTACATAG 59.478 44.000 0.00 0.00 0.00 2.23
799 887 5.187772 TCACAGCCACTTGATCTTACATAGT 59.812 40.000 0.00 0.00 0.00 2.12
800 888 5.877012 CACAGCCACTTGATCTTACATAGTT 59.123 40.000 0.00 0.00 0.00 2.24
801 889 7.041721 CACAGCCACTTGATCTTACATAGTTA 58.958 38.462 0.00 0.00 0.00 2.24
802 890 7.010552 CACAGCCACTTGATCTTACATAGTTAC 59.989 40.741 0.00 0.00 0.00 2.50
803 891 7.041721 CAGCCACTTGATCTTACATAGTTACA 58.958 38.462 0.00 0.00 0.00 2.41
804 892 7.712639 CAGCCACTTGATCTTACATAGTTACAT 59.287 37.037 0.00 0.00 0.00 2.29
856 946 0.320508 GTTGACTGACCCGTTCCCTC 60.321 60.000 0.00 0.00 0.00 4.30
869 959 5.548056 ACCCGTTCCCTCTTTCATATGATAT 59.452 40.000 6.17 0.00 0.00 1.63
1266 1672 1.153549 GATGCGGGTTTCTCGAGCT 60.154 57.895 7.81 0.00 0.00 4.09
1283 1689 2.169352 GAGCTGAGCACCCTAATCTTCA 59.831 50.000 7.39 0.00 0.00 3.02
1284 1690 2.093235 AGCTGAGCACCCTAATCTTCAC 60.093 50.000 7.39 0.00 0.00 3.18
1287 1693 3.937706 CTGAGCACCCTAATCTTCACTTG 59.062 47.826 0.00 0.00 0.00 3.16
1295 1701 5.187967 ACCCTAATCTTCACTTGGTCTGTAG 59.812 44.000 0.00 0.00 0.00 2.74
1349 1755 6.662414 TTATTACTCACTGCGGAAGAAATG 57.338 37.500 0.00 0.00 0.00 2.32
1358 1764 1.462616 CGGAAGAAATGTGGCATGGA 58.537 50.000 0.00 0.00 0.00 3.41
1597 2003 3.764237 ATACTCGGACAAACAAGTGGT 57.236 42.857 0.00 0.00 0.00 4.16
1818 2224 5.603170 ATGATGGCAAATGGTTCCTAAAG 57.397 39.130 0.00 0.00 0.00 1.85
2223 2629 0.403271 AGCACAGGTCTTTGATGGCT 59.597 50.000 0.00 0.00 0.00 4.75
2226 2632 3.019564 GCACAGGTCTTTGATGGCTAAT 58.980 45.455 0.00 0.00 0.00 1.73
2337 2743 5.925969 GGGGAAACATGTTCAAATGTACTTG 59.074 40.000 12.39 5.06 39.89 3.16
2338 2744 6.462347 GGGGAAACATGTTCAAATGTACTTGT 60.462 38.462 12.39 6.07 39.89 3.16
2371 2778 3.119352 GCGGGAAAGATGCTCAGATTTTT 60.119 43.478 0.00 0.00 0.00 1.94
2609 3102 3.646976 CCGATGCTGCTGGCGATG 61.647 66.667 0.00 0.00 45.43 3.84
2807 3331 0.835941 TTTGGGCACAAACCAATGCT 59.164 45.000 10.84 0.00 46.55 3.79
2890 3425 2.079158 CGCATCTGACAAGTGGATGTT 58.921 47.619 11.63 0.00 39.04 2.71
2893 3428 4.154015 CGCATCTGACAAGTGGATGTTTAA 59.846 41.667 11.63 0.00 39.04 1.52
2928 3463 6.952935 AAGATTATCCGAGATATTTCGTGC 57.047 37.500 13.89 0.00 38.88 5.34
2931 3466 0.596600 TCCGAGATATTTCGTGCGGC 60.597 55.000 13.89 0.00 38.88 6.53
2932 3467 1.482955 CGAGATATTTCGTGCGGCG 59.517 57.895 0.51 0.51 43.01 6.46
3193 4014 7.954248 CGCTGATAGCATTTTCTATGTTGATAC 59.046 37.037 1.45 0.00 42.58 2.24
3195 4016 9.276590 CTGATAGCATTTTCTATGTTGATACCA 57.723 33.333 0.00 0.00 29.93 3.25
3196 4017 9.276590 TGATAGCATTTTCTATGTTGATACCAG 57.723 33.333 0.00 0.00 29.93 4.00
3197 4018 9.277783 GATAGCATTTTCTATGTTGATACCAGT 57.722 33.333 0.00 0.00 29.93 4.00
3198 4019 7.325660 AGCATTTTCTATGTTGATACCAGTG 57.674 36.000 0.00 0.00 0.00 3.66
3201 4022 3.838244 TCTATGTTGATACCAGTGGGC 57.162 47.619 15.21 2.93 37.90 5.36
3202 4023 3.111484 TCTATGTTGATACCAGTGGGCA 58.889 45.455 15.21 5.81 37.90 5.36
3203 4024 3.716353 TCTATGTTGATACCAGTGGGCAT 59.284 43.478 15.21 6.15 37.90 4.40
3211 4032 4.223700 TGATACCAGTGGGCATATCTGATC 59.776 45.833 15.21 2.86 37.90 2.92
3226 4047 7.308229 GCATATCTGATCTTCCATTTGTACACC 60.308 40.741 0.00 0.00 0.00 4.16
3227 4048 4.843728 TCTGATCTTCCATTTGTACACCC 58.156 43.478 0.00 0.00 0.00 4.61
3228 4049 3.947834 CTGATCTTCCATTTGTACACCCC 59.052 47.826 0.00 0.00 0.00 4.95
3229 4050 2.891191 TCTTCCATTTGTACACCCCC 57.109 50.000 0.00 0.00 0.00 5.40
3230 4051 2.354328 TCTTCCATTTGTACACCCCCT 58.646 47.619 0.00 0.00 0.00 4.79
3231 4052 2.041081 TCTTCCATTTGTACACCCCCTG 59.959 50.000 0.00 0.00 0.00 4.45
3232 4053 0.039035 TCCATTTGTACACCCCCTGC 59.961 55.000 0.00 0.00 0.00 4.85
3233 4054 0.970427 CCATTTGTACACCCCCTGCC 60.970 60.000 0.00 0.00 0.00 4.85
3234 4055 0.039618 CATTTGTACACCCCCTGCCT 59.960 55.000 0.00 0.00 0.00 4.75
3236 4057 1.357272 TTTGTACACCCCCTGCCTGT 61.357 55.000 0.00 0.00 0.00 4.00
3255 4443 0.681733 TCCTGTGGTCAAGAGCAGAC 59.318 55.000 1.67 0.00 39.74 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 7.502226 CCAGAGCAATAACCCTAATTCAATGTA 59.498 37.037 0.00 0.00 0.00 2.29
31 32 6.547141 TCCAGAGCAATAACCCTAATTCAATG 59.453 38.462 0.00 0.00 0.00 2.82
42 43 1.207329 ACCGACTCCAGAGCAATAACC 59.793 52.381 0.00 0.00 0.00 2.85
43 44 2.271800 CACCGACTCCAGAGCAATAAC 58.728 52.381 0.00 0.00 0.00 1.89
133 134 4.164221 TGTCCTCACCCTTGGAAGATAATC 59.836 45.833 0.00 0.00 33.72 1.75
186 187 2.190578 CGGAAGCACCCAGATCCC 59.809 66.667 0.00 0.00 34.64 3.85
221 244 2.974794 ACCTCCACGGTTAACCTAAACT 59.025 45.455 22.12 0.00 46.37 2.66
222 245 3.069289 CACCTCCACGGTTAACCTAAAC 58.931 50.000 22.12 0.00 46.37 2.01
223 246 2.038820 CCACCTCCACGGTTAACCTAAA 59.961 50.000 22.12 4.62 46.37 1.85
224 247 1.624813 CCACCTCCACGGTTAACCTAA 59.375 52.381 22.12 4.29 46.37 2.69
225 248 1.269012 CCACCTCCACGGTTAACCTA 58.731 55.000 22.12 4.61 46.37 3.08
226 249 2.063774 CCACCTCCACGGTTAACCT 58.936 57.895 22.12 6.91 46.37 3.50
227 250 1.673337 GCCACCTCCACGGTTAACC 60.673 63.158 15.13 15.13 46.37 2.85
228 251 0.953960 CAGCCACCTCCACGGTTAAC 60.954 60.000 0.00 0.00 46.37 2.01
229 252 1.373435 CAGCCACCTCCACGGTTAA 59.627 57.895 0.00 0.00 46.37 2.01
230 253 2.589157 CCAGCCACCTCCACGGTTA 61.589 63.158 0.00 0.00 46.37 2.85
231 254 3.953775 CCAGCCACCTCCACGGTT 61.954 66.667 0.00 0.00 46.37 4.44
233 256 4.394712 GACCAGCCACCTCCACGG 62.395 72.222 0.00 0.00 39.35 4.94
234 257 4.394712 GGACCAGCCACCTCCACG 62.395 72.222 0.00 0.00 36.34 4.94
235 258 2.069165 AAAGGACCAGCCACCTCCAC 62.069 60.000 0.00 0.00 40.02 4.02
236 259 0.474854 TAAAGGACCAGCCACCTCCA 60.475 55.000 0.00 0.00 40.02 3.86
237 260 0.919710 ATAAAGGACCAGCCACCTCC 59.080 55.000 0.00 0.00 40.02 4.30
238 261 2.808906 AATAAAGGACCAGCCACCTC 57.191 50.000 0.00 0.00 40.02 3.85
239 262 4.668138 TTAAATAAAGGACCAGCCACCT 57.332 40.909 0.00 0.00 40.02 4.00
270 293 7.510549 AAGCAACACTAACATGTCACTAAAT 57.489 32.000 0.00 0.00 30.55 1.40
311 334 7.974504 TCTAACCAAAGAAGTACCTCTTGAAT 58.025 34.615 7.50 0.00 35.79 2.57
313 336 6.989155 TCTAACCAAAGAAGTACCTCTTGA 57.011 37.500 7.50 0.00 35.79 3.02
358 406 3.837146 AGAAGACCATGCAGAGAAGAGAA 59.163 43.478 0.00 0.00 0.00 2.87
365 413 1.703438 GCGCAGAAGACCATGCAGAG 61.703 60.000 0.30 0.00 42.68 3.35
390 443 8.439993 TCAGATGATCCTCGCTATATAACTAC 57.560 38.462 0.00 0.00 0.00 2.73
506 560 0.042131 TATTGTGGGACGGAGGGAGT 59.958 55.000 0.00 0.00 0.00 3.85
507 561 1.424638 ATATTGTGGGACGGAGGGAG 58.575 55.000 0.00 0.00 0.00 4.30
508 562 2.779429 TATATTGTGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
509 563 2.969950 TCTTATATTGTGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
510 564 3.552273 CGTCTTATATTGTGGGACGGAGG 60.552 52.174 0.00 0.00 43.69 4.30
511 565 3.639538 CGTCTTATATTGTGGGACGGAG 58.360 50.000 0.00 0.00 43.69 4.63
512 566 3.720949 CGTCTTATATTGTGGGACGGA 57.279 47.619 0.00 0.00 43.69 4.69
515 569 5.798434 GCAAAAACGTCTTATATTGTGGGAC 59.202 40.000 0.00 0.00 0.00 4.46
516 570 5.473846 TGCAAAAACGTCTTATATTGTGGGA 59.526 36.000 0.00 0.00 0.00 4.37
517 571 5.704888 TGCAAAAACGTCTTATATTGTGGG 58.295 37.500 0.00 0.00 0.00 4.61
518 572 6.861055 ACTTGCAAAAACGTCTTATATTGTGG 59.139 34.615 0.00 0.00 0.00 4.17
519 573 7.060633 GGACTTGCAAAAACGTCTTATATTGTG 59.939 37.037 14.12 0.00 0.00 3.33
520 574 7.081976 GGACTTGCAAAAACGTCTTATATTGT 58.918 34.615 14.12 0.00 0.00 2.71
521 575 6.526674 GGGACTTGCAAAAACGTCTTATATTG 59.473 38.462 14.12 0.00 0.00 1.90
522 576 6.349860 GGGGACTTGCAAAAACGTCTTATATT 60.350 38.462 14.12 0.00 0.00 1.28
523 577 5.124936 GGGGACTTGCAAAAACGTCTTATAT 59.875 40.000 14.12 0.00 0.00 0.86
524 578 4.456566 GGGGACTTGCAAAAACGTCTTATA 59.543 41.667 14.12 0.00 0.00 0.98
525 579 3.254903 GGGGACTTGCAAAAACGTCTTAT 59.745 43.478 14.12 0.00 0.00 1.73
526 580 2.619646 GGGGACTTGCAAAAACGTCTTA 59.380 45.455 14.12 0.00 0.00 2.10
527 581 1.407618 GGGGACTTGCAAAAACGTCTT 59.592 47.619 14.12 0.00 0.00 3.01
528 582 1.029681 GGGGACTTGCAAAAACGTCT 58.970 50.000 14.12 0.00 0.00 4.18
529 583 0.031585 GGGGGACTTGCAAAAACGTC 59.968 55.000 0.00 4.22 0.00 4.34
530 584 1.730451 CGGGGGACTTGCAAAAACGT 61.730 55.000 0.00 0.00 0.00 3.99
531 585 1.007849 CGGGGGACTTGCAAAAACG 60.008 57.895 0.00 0.00 0.00 3.60
532 586 0.031585 GACGGGGGACTTGCAAAAAC 59.968 55.000 0.00 0.00 0.00 2.43
533 587 1.110518 GGACGGGGGACTTGCAAAAA 61.111 55.000 0.00 0.00 0.00 1.94
534 588 1.529713 GGACGGGGGACTTGCAAAA 60.530 57.895 0.00 0.00 0.00 2.44
535 589 2.114411 GGACGGGGGACTTGCAAA 59.886 61.111 0.00 0.00 0.00 3.68
536 590 3.961414 GGGACGGGGGACTTGCAA 61.961 66.667 0.00 0.00 0.00 4.08
538 592 4.717313 GTGGGACGGGGGACTTGC 62.717 72.222 0.00 0.00 0.00 4.01
539 593 2.137177 ATTGTGGGACGGGGGACTTG 62.137 60.000 0.00 0.00 0.00 3.16
540 594 0.548197 TATTGTGGGACGGGGGACTT 60.548 55.000 0.00 0.00 0.00 3.01
541 595 0.327191 ATATTGTGGGACGGGGGACT 60.327 55.000 0.00 0.00 0.00 3.85
542 596 1.426751 TATATTGTGGGACGGGGGAC 58.573 55.000 0.00 0.00 0.00 4.46
543 597 2.051692 CTTATATTGTGGGACGGGGGA 58.948 52.381 0.00 0.00 0.00 4.81
544 598 2.051692 TCTTATATTGTGGGACGGGGG 58.948 52.381 0.00 0.00 0.00 5.40
545 599 2.436542 TGTCTTATATTGTGGGACGGGG 59.563 50.000 0.00 0.00 0.00 5.73
546 600 3.830744 TGTCTTATATTGTGGGACGGG 57.169 47.619 0.00 0.00 0.00 5.28
547 601 6.693315 AAAATGTCTTATATTGTGGGACGG 57.307 37.500 0.00 0.00 0.00 4.79
548 602 6.472163 GCAAAAATGTCTTATATTGTGGGACG 59.528 38.462 0.00 0.00 0.00 4.79
549 603 7.319646 TGCAAAAATGTCTTATATTGTGGGAC 58.680 34.615 0.00 0.00 0.00 4.46
550 604 7.473735 TGCAAAAATGTCTTATATTGTGGGA 57.526 32.000 0.00 0.00 0.00 4.37
551 605 8.605746 CAATGCAAAAATGTCTTATATTGTGGG 58.394 33.333 0.00 0.00 0.00 4.61
552 606 8.117988 GCAATGCAAAAATGTCTTATATTGTGG 58.882 33.333 0.00 0.00 0.00 4.17
553 607 8.657729 TGCAATGCAAAAATGTCTTATATTGTG 58.342 29.630 5.01 0.00 34.76 3.33
554 608 8.774890 TGCAATGCAAAAATGTCTTATATTGT 57.225 26.923 5.01 0.00 34.76 2.71
570 624 2.475818 CTGAAACAGCTTGCAATGCAA 58.524 42.857 20.22 20.22 46.80 4.08
571 625 2.143008 CTGAAACAGCTTGCAATGCA 57.857 45.000 18.74 2.72 39.85 3.96
582 636 4.807304 AGATGTTTTTGCAAGCTGAAACAG 59.193 37.500 23.84 0.00 42.93 3.16
583 637 4.757594 AGATGTTTTTGCAAGCTGAAACA 58.242 34.783 22.61 22.61 43.56 2.83
584 638 5.723492 AAGATGTTTTTGCAAGCTGAAAC 57.277 34.783 14.68 14.68 33.72 2.78
585 639 9.709495 AATATAAGATGTTTTTGCAAGCTGAAA 57.291 25.926 0.00 0.00 0.00 2.69
586 640 9.142515 CAATATAAGATGTTTTTGCAAGCTGAA 57.857 29.630 0.00 0.00 0.00 3.02
587 641 8.306038 ACAATATAAGATGTTTTTGCAAGCTGA 58.694 29.630 0.00 0.00 0.00 4.26
588 642 8.377681 CACAATATAAGATGTTTTTGCAAGCTG 58.622 33.333 0.00 0.00 0.00 4.24
589 643 7.546667 CCACAATATAAGATGTTTTTGCAAGCT 59.453 33.333 0.00 0.00 0.00 3.74
590 644 7.201548 CCCACAATATAAGATGTTTTTGCAAGC 60.202 37.037 0.00 0.00 0.00 4.01
591 645 8.034215 TCCCACAATATAAGATGTTTTTGCAAG 58.966 33.333 0.00 0.00 0.00 4.01
592 646 7.816995 GTCCCACAATATAAGATGTTTTTGCAA 59.183 33.333 0.00 0.00 0.00 4.08
593 647 7.319646 GTCCCACAATATAAGATGTTTTTGCA 58.680 34.615 0.00 0.00 0.00 4.08
594 648 6.472163 CGTCCCACAATATAAGATGTTTTTGC 59.528 38.462 0.00 0.00 0.00 3.68
595 649 6.972328 CCGTCCCACAATATAAGATGTTTTTG 59.028 38.462 0.00 0.00 0.00 2.44
596 650 6.887545 TCCGTCCCACAATATAAGATGTTTTT 59.112 34.615 0.00 0.00 0.00 1.94
597 651 6.419791 TCCGTCCCACAATATAAGATGTTTT 58.580 36.000 0.00 0.00 0.00 2.43
598 652 5.996644 TCCGTCCCACAATATAAGATGTTT 58.003 37.500 0.00 0.00 0.00 2.83
599 653 5.454755 CCTCCGTCCCACAATATAAGATGTT 60.455 44.000 0.00 0.00 0.00 2.71
600 654 4.040461 CCTCCGTCCCACAATATAAGATGT 59.960 45.833 0.00 0.00 0.00 3.06
601 655 4.563580 CCCTCCGTCCCACAATATAAGATG 60.564 50.000 0.00 0.00 0.00 2.90
602 656 3.583086 CCCTCCGTCCCACAATATAAGAT 59.417 47.826 0.00 0.00 0.00 2.40
603 657 2.969950 CCCTCCGTCCCACAATATAAGA 59.030 50.000 0.00 0.00 0.00 2.10
604 658 2.969950 TCCCTCCGTCCCACAATATAAG 59.030 50.000 0.00 0.00 0.00 1.73
605 659 2.969950 CTCCCTCCGTCCCACAATATAA 59.030 50.000 0.00 0.00 0.00 0.98
606 660 2.090943 ACTCCCTCCGTCCCACAATATA 60.091 50.000 0.00 0.00 0.00 0.86
607 661 1.344087 ACTCCCTCCGTCCCACAATAT 60.344 52.381 0.00 0.00 0.00 1.28
608 662 0.042131 ACTCCCTCCGTCCCACAATA 59.958 55.000 0.00 0.00 0.00 1.90
609 663 0.042131 TACTCCCTCCGTCCCACAAT 59.958 55.000 0.00 0.00 0.00 2.71
610 664 0.042131 ATACTCCCTCCGTCCCACAA 59.958 55.000 0.00 0.00 0.00 3.33
611 665 0.928505 TATACTCCCTCCGTCCCACA 59.071 55.000 0.00 0.00 0.00 4.17
612 666 1.685517 GTTATACTCCCTCCGTCCCAC 59.314 57.143 0.00 0.00 0.00 4.61
613 667 1.572415 AGTTATACTCCCTCCGTCCCA 59.428 52.381 0.00 0.00 0.00 4.37
614 668 2.378378 AGTTATACTCCCTCCGTCCC 57.622 55.000 0.00 0.00 0.00 4.46
615 669 4.261952 GCTAAAGTTATACTCCCTCCGTCC 60.262 50.000 0.00 0.00 0.00 4.79
616 670 4.583907 AGCTAAAGTTATACTCCCTCCGTC 59.416 45.833 0.00 0.00 0.00 4.79
617 671 4.341520 CAGCTAAAGTTATACTCCCTCCGT 59.658 45.833 0.00 0.00 0.00 4.69
618 672 4.796618 GCAGCTAAAGTTATACTCCCTCCG 60.797 50.000 0.00 0.00 0.00 4.63
619 673 4.345547 AGCAGCTAAAGTTATACTCCCTCC 59.654 45.833 0.00 0.00 0.00 4.30
620 674 5.538849 AGCAGCTAAAGTTATACTCCCTC 57.461 43.478 0.00 0.00 0.00 4.30
621 675 7.433537 TTTAGCAGCTAAAGTTATACTCCCT 57.566 36.000 21.60 0.00 31.94 4.20
622 676 8.678593 AATTTAGCAGCTAAAGTTATACTCCC 57.321 34.615 27.45 0.00 38.97 4.30
667 740 9.722184 GATGGTAGAAAAAGGAACTACTACTTT 57.278 33.333 0.00 0.00 38.49 2.66
846 934 3.838244 TCATATGAAAGAGGGAACGGG 57.162 47.619 1.98 0.00 0.00 5.28
869 959 7.172361 TGTTCGAACTCATCATCAATTGTTGTA 59.828 33.333 27.32 0.00 0.00 2.41
879 969 6.952743 AGCAAATATGTTCGAACTCATCATC 58.047 36.000 27.32 12.66 0.00 2.92
1266 1672 3.307691 CCAAGTGAAGATTAGGGTGCTCA 60.308 47.826 0.00 0.00 0.00 4.26
1283 1689 4.327680 GCTCCATTTTCTACAGACCAAGT 58.672 43.478 0.00 0.00 0.00 3.16
1284 1690 3.691609 GGCTCCATTTTCTACAGACCAAG 59.308 47.826 0.00 0.00 0.00 3.61
1287 1693 2.093658 TCGGCTCCATTTTCTACAGACC 60.094 50.000 0.00 0.00 0.00 3.85
1295 1701 5.449177 CCAGATAAAAGTCGGCTCCATTTTC 60.449 44.000 0.00 0.00 0.00 2.29
1349 1755 1.753073 CCCATTCTTCTTCCATGCCAC 59.247 52.381 0.00 0.00 0.00 5.01
1358 1764 5.617252 TGAAGACGTAAACCCATTCTTCTT 58.383 37.500 10.18 0.00 41.78 2.52
1597 2003 0.178932 AGCATATCTGGAGCCCGGTA 60.179 55.000 0.00 0.00 0.00 4.02
1736 2142 4.397481 TCAGTGATGCAAGACCATCTAG 57.603 45.455 0.00 0.00 41.65 2.43
1881 2287 1.453155 CCAGTGCATTACCAGTGGTC 58.547 55.000 20.72 4.74 46.55 4.02
2223 2629 4.558178 CTGCAATTGCTGACCACAAATTA 58.442 39.130 29.37 5.11 41.71 1.40
2226 2632 1.068895 CCTGCAATTGCTGACCACAAA 59.931 47.619 31.75 9.61 41.71 2.83
2314 2720 6.512297 ACAAGTACATTTGAACATGTTTCCC 58.488 36.000 13.36 0.30 38.40 3.97
2371 2778 2.498885 GTTCTAGCCGAGGGGTTCTTTA 59.501 50.000 0.00 0.00 34.28 1.85
2609 3102 1.831580 AGTGAAATCTTCTGCTGCCC 58.168 50.000 0.00 0.00 0.00 5.36
2702 3195 8.128322 ACATTTCTTACATGAGTCTAGTCTGT 57.872 34.615 0.00 0.00 0.00 3.41
2890 3425 7.612244 TCGGATAATCTTTTTCACCCACATTAA 59.388 33.333 0.00 0.00 0.00 1.40
2893 3428 5.505780 TCGGATAATCTTTTTCACCCACAT 58.494 37.500 0.00 0.00 0.00 3.21
2928 3463 1.939785 GCAGATCACTACGACGCCG 60.940 63.158 0.00 0.00 42.50 6.46
2931 3466 0.926174 GCGAGCAGATCACTACGACG 60.926 60.000 0.00 0.00 0.00 5.12
2932 3467 0.378962 AGCGAGCAGATCACTACGAC 59.621 55.000 0.00 0.00 0.00 4.34
3193 4014 3.558746 GGAAGATCAGATATGCCCACTGG 60.559 52.174 0.00 0.00 33.19 4.00
3195 4016 3.321039 TGGAAGATCAGATATGCCCACT 58.679 45.455 0.00 0.00 0.00 4.00
3196 4017 3.777106 TGGAAGATCAGATATGCCCAC 57.223 47.619 0.00 0.00 0.00 4.61
3197 4018 5.074804 CAAATGGAAGATCAGATATGCCCA 58.925 41.667 0.00 1.18 0.00 5.36
3198 4019 5.075493 ACAAATGGAAGATCAGATATGCCC 58.925 41.667 0.00 0.00 0.00 5.36
3201 4022 7.173907 GGGTGTACAAATGGAAGATCAGATATG 59.826 40.741 0.00 0.00 0.00 1.78
3202 4023 7.227156 GGGTGTACAAATGGAAGATCAGATAT 58.773 38.462 0.00 0.00 0.00 1.63
3203 4024 6.409234 GGGGTGTACAAATGGAAGATCAGATA 60.409 42.308 0.00 0.00 0.00 1.98
3211 4032 2.446435 CAGGGGGTGTACAAATGGAAG 58.554 52.381 0.00 0.00 0.00 3.46
3226 4047 4.039092 CCACAGGACAGGCAGGGG 62.039 72.222 0.00 0.00 0.00 4.79
3227 4048 3.252284 ACCACAGGACAGGCAGGG 61.252 66.667 0.00 0.00 0.00 4.45
3228 4049 2.055689 TTGACCACAGGACAGGCAGG 62.056 60.000 0.00 0.00 0.00 4.85
3229 4050 0.604780 CTTGACCACAGGACAGGCAG 60.605 60.000 0.00 0.00 0.00 4.85
3230 4051 1.053835 TCTTGACCACAGGACAGGCA 61.054 55.000 0.00 0.00 0.00 4.75
3231 4052 0.321122 CTCTTGACCACAGGACAGGC 60.321 60.000 0.00 0.00 0.00 4.85
3232 4053 0.321122 GCTCTTGACCACAGGACAGG 60.321 60.000 0.00 0.00 0.00 4.00
3233 4054 0.394192 TGCTCTTGACCACAGGACAG 59.606 55.000 0.00 0.00 0.00 3.51
3234 4055 0.394192 CTGCTCTTGACCACAGGACA 59.606 55.000 0.00 0.00 0.00 4.02
3236 4057 0.681733 GTCTGCTCTTGACCACAGGA 59.318 55.000 0.00 0.00 0.00 3.86
3255 4443 1.134007 TCAAGTCATGCCCTGCTATGG 60.134 52.381 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.