Multiple sequence alignment - TraesCS5B01G277700

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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 TraesCS5B01G277700 chr5B 100.000 2267 0 0 1 2267 463913395 463911129 0.000000e+00 4187.0
1 TraesCS5B01G277700 chr5B 89.901 604 34 12 876 1458 463918826 463918229 0.000000e+00 752.0
2 TraesCS5B01G277700 chr5B 89.123 616 29 19 755 1340 463945354 463944747 0.000000e+00 732.0
3 TraesCS5B01G277700 chr5B 84.359 780 74 23 1450 2198 463918279 463917517 0.000000e+00 721.0
4 TraesCS5B01G277700 chr5B 82.413 688 76 21 1536 2198 463937376 463936709 1.970000e-155 558.0
5 TraesCS5B01G277700 chr5B 84.524 504 41 13 1474 1957 463944332 463943846 4.410000e-127 464.0
6 TraesCS5B01G277700 chr5B 95.570 158 7 0 310 467 123022132 123021975 1.040000e-63 254.0
7 TraesCS5B01G277700 chr5B 95.364 151 7 0 311 461 123014260 123014110 8.090000e-60 241.0
8 TraesCS5B01G277700 chr5B 80.449 312 17 10 3 289 463938350 463938058 4.940000e-47 198.0
9 TraesCS5B01G277700 chr5B 89.600 125 11 2 460 583 463970222 463970345 8.380000e-35 158.0
10 TraesCS5B01G277700 chr5B 82.090 134 14 5 758 883 463918979 463918848 3.080000e-19 106.0
11 TraesCS5B01G277700 chr5B 89.655 58 6 0 473 530 463919274 463919217 8.680000e-10 75.0
12 TraesCS5B01G277700 chr5A 83.210 1078 58 55 460 1451 487919241 487918201 0.000000e+00 874.0
13 TraesCS5B01G277700 chr5A 89.449 635 41 10 750 1370 487941098 487940476 0.000000e+00 778.0
14 TraesCS5B01G277700 chr5A 92.193 538 30 6 876 1413 487949090 487948565 0.000000e+00 750.0
15 TraesCS5B01G277700 chr5A 86.277 736 43 27 756 1458 487925178 487924468 0.000000e+00 747.0
16 TraesCS5B01G277700 chr5A 92.769 484 25 3 876 1351 487985040 487984559 0.000000e+00 691.0
17 TraesCS5B01G277700 chr5A 90.000 550 26 5 1474 2006 487918217 487917680 0.000000e+00 684.0
18 TraesCS5B01G277700 chr5A 81.965 804 78 28 1451 2198 487947593 487946801 8.900000e-174 619.0
19 TraesCS5B01G277700 chr5A 89.831 472 22 8 876 1340 488008987 488008535 1.170000e-162 582.0
20 TraesCS5B01G277700 chr5A 82.689 543 57 17 1477 2001 487940190 487939667 4.440000e-122 448.0
21 TraesCS5B01G277700 chr5A 90.132 304 11 7 4 307 487943384 487943100 5.910000e-101 377.0
22 TraesCS5B01G277700 chr5A 91.288 264 15 6 2011 2267 487917466 487917204 9.960000e-94 353.0
23 TraesCS5B01G277700 chr5A 84.457 341 26 14 1450 1775 487924518 487924190 6.080000e-81 311.0
24 TraesCS5B01G277700 chr5A 83.384 331 15 7 1 307 488016554 488016868 1.030000e-68 270.0
25 TraesCS5B01G277700 chr5A 84.151 265 12 8 36 289 487985520 487985275 1.750000e-56 230.0
26 TraesCS5B01G277700 chr5A 85.043 234 9 10 31 253 487926681 487926463 4.900000e-52 215.0
27 TraesCS5B01G277700 chr5A 80.579 242 33 10 463 693 488016867 488017105 8.320000e-40 174.0
28 TraesCS5B01G277700 chr5A 89.831 118 10 2 463 579 487943101 487942985 1.400000e-32 150.0
29 TraesCS5B01G277700 chr5A 78.261 276 21 11 44 310 487950149 487949904 8.440000e-30 141.0
30 TraesCS5B01G277700 chr5A 84.211 133 11 4 755 879 488009141 488009011 1.100000e-23 121.0
31 TraesCS5B01G277700 chr5A 82.178 101 15 3 2080 2179 446607628 446607530 1.440000e-12 84.2
32 TraesCS5B01G277700 chr5A 95.652 46 2 0 463 508 487985260 487985215 8.680000e-10 75.0
33 TraesCS5B01G277700 chr5A 100.000 38 0 0 668 705 487925288 487925251 1.120000e-08 71.3
34 TraesCS5B01G277700 chr5D 84.058 966 52 49 460 1351 385979117 385978180 0.000000e+00 837.0
35 TraesCS5B01G277700 chr5D 86.369 785 62 21 1474 2238 385978129 385977370 0.000000e+00 815.0
36 TraesCS5B01G277700 chr5D 88.065 620 33 17 755 1340 386067656 386067044 0.000000e+00 697.0
37 TraesCS5B01G277700 chr5D 87.400 627 33 19 756 1351 386036118 386035507 0.000000e+00 678.0
38 TraesCS5B01G277700 chr5D 82.698 734 75 21 1474 2177 386066647 386065936 2.490000e-169 604.0
39 TraesCS5B01G277700 chr5D 80.397 755 90 34 1475 2198 386057293 386056566 2.580000e-144 521.0
40 TraesCS5B01G277700 chr5D 83.932 529 63 12 1658 2179 386035215 386034702 9.410000e-134 486.0
41 TraesCS5B01G277700 chr5D 85.664 286 16 5 31 307 386100376 386100645 6.170000e-71 278.0
42 TraesCS5B01G277700 chr5D 84.899 298 15 6 3 289 386061055 386060777 7.980000e-70 274.0
43 TraesCS5B01G277700 chr5D 86.381 257 19 7 52 307 386046643 386046402 1.330000e-67 267.0
44 TraesCS5B01G277700 chr5D 84.589 292 18 11 31 307 386036717 386036438 4.800000e-67 265.0
45 TraesCS5B01G277700 chr5D 91.099 191 10 2 1474 1657 386035456 386035266 3.740000e-63 252.0
46 TraesCS5B01G277700 chr5D 84.651 215 11 4 2 194 385979564 385979350 6.390000e-46 195.0
47 TraesCS5B01G277700 chr5D 81.277 235 20 12 463 693 386100644 386100858 3.870000e-38 169.0
48 TraesCS5B01G277700 chr5D 92.373 118 7 2 463 579 386036439 386036323 1.390000e-37 167.0
49 TraesCS5B01G277700 chr5D 86.842 114 6 1 31 135 386046763 386046650 3.960000e-23 119.0
50 TraesCS5B01G277700 chr5D 100.000 29 0 0 676 704 386036238 386036210 1.000000e-03 54.7
51 TraesCS5B01G277700 chr3A 80.309 518 64 24 755 1244 452981364 452980857 7.700000e-95 357.0
52 TraesCS5B01G277700 chr4B 93.506 154 10 0 311 464 60033470 60033623 1.750000e-56 230.0
53 TraesCS5B01G277700 chr4B 94.040 151 9 0 311 461 60056263 60056413 1.750000e-56 230.0
54 TraesCS5B01G277700 chr2B 93.377 151 10 0 311 461 625920134 625919984 8.150000e-55 224.0
55 TraesCS5B01G277700 chr2B 92.357 157 12 0 311 467 625926657 625926501 8.150000e-55 224.0
56 TraesCS5B01G277700 chr2B 79.528 127 17 7 310 433 95494593 95494473 5.190000e-12 82.4
57 TraesCS5B01G277700 chr4A 80.000 195 32 6 2077 2267 24555069 24555260 1.090000e-28 137.0
58 TraesCS5B01G277700 chr4A 83.186 113 14 4 2077 2187 733451122 733451013 5.150000e-17 99.0
59 TraesCS5B01G277700 chr3D 78.431 204 27 14 463 662 334636957 334637147 1.420000e-22 117.0


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 TraesCS5B01G277700 chr5B 463911129 463913395 2266 True 4187.000000 4187 100.000000 1 2267 1 chr5B.!!$R3 2266
1 TraesCS5B01G277700 chr5B 463943846 463945354 1508 True 598.000000 732 86.823500 755 1957 2 chr5B.!!$R6 1202
2 TraesCS5B01G277700 chr5B 463917517 463919274 1757 True 413.500000 752 86.501250 473 2198 4 chr5B.!!$R4 1725
3 TraesCS5B01G277700 chr5B 463936709 463938350 1641 True 378.000000 558 81.431000 3 2198 2 chr5B.!!$R5 2195
4 TraesCS5B01G277700 chr5A 487917204 487919241 2037 True 637.000000 874 88.166000 460 2267 3 chr5A.!!$R2 1807
5 TraesCS5B01G277700 chr5A 487939667 487950149 10482 True 466.142857 778 86.360000 4 2198 7 chr5A.!!$R4 2194
6 TraesCS5B01G277700 chr5A 488008535 488009141 606 True 351.500000 582 87.021000 755 1340 2 chr5A.!!$R6 585
7 TraesCS5B01G277700 chr5A 487924190 487926681 2491 True 336.075000 747 88.944250 31 1775 4 chr5A.!!$R3 1744
8 TraesCS5B01G277700 chr5A 487984559 487985520 961 True 332.000000 691 90.857333 36 1351 3 chr5A.!!$R5 1315
9 TraesCS5B01G277700 chr5A 488016554 488017105 551 False 222.000000 270 81.981500 1 693 2 chr5A.!!$F1 692
10 TraesCS5B01G277700 chr5D 386065936 386067656 1720 True 650.500000 697 85.381500 755 2177 2 chr5D.!!$R5 1422
11 TraesCS5B01G277700 chr5D 385977370 385979564 2194 True 615.666667 837 85.026000 2 2238 3 chr5D.!!$R1 2236
12 TraesCS5B01G277700 chr5D 386056566 386061055 4489 True 397.500000 521 82.648000 3 2198 2 chr5D.!!$R4 2195
13 TraesCS5B01G277700 chr5D 386034702 386036717 2015 True 317.116667 678 89.898833 31 2179 6 chr5D.!!$R2 2148
14 TraesCS5B01G277700 chr3A 452980857 452981364 507 True 357.000000 357 80.309000 755 1244 1 chr3A.!!$R1 489

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
625 4163 0.027716 GACGCTAGCTGTTCGATCGA 59.972 55.0 15.15 15.15 0.0 3.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1804 7460 0.459489 GTCTGAGAGATCAAGCGCCT 59.541 55.0 2.29 0.0 0.0 5.52 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
33 56 0.181114 TGGATCCCAAATCTGCCTCG 59.819 55.000 9.90 0.00 0.00 4.63
144 198 0.186873 ATCCCAATCCTGATGTGCCC 59.813 55.000 0.00 0.00 0.00 5.36
196 255 3.782443 CACCCGCCACCCTAGGTC 61.782 72.222 8.29 0.00 31.02 3.85
199 258 4.798682 CCGCCACCCTAGGTCCCT 62.799 72.222 8.29 0.00 31.02 4.20
200 259 2.281091 CGCCACCCTAGGTCCCTA 59.719 66.667 8.29 0.00 31.02 3.53
201 260 1.833049 CGCCACCCTAGGTCCCTAG 60.833 68.421 12.61 12.61 44.07 3.02
202 261 2.141448 GCCACCCTAGGTCCCTAGC 61.141 68.421 13.90 0.94 43.35 3.42
203 262 1.627019 CCACCCTAGGTCCCTAGCT 59.373 63.158 13.90 0.00 43.35 3.32
204 263 0.858369 CCACCCTAGGTCCCTAGCTA 59.142 60.000 13.90 0.00 43.35 3.32
229 434 5.820947 GCTGGCCTATCTCTCTATCTAGTAC 59.179 48.000 3.32 0.00 0.00 2.73
290 499 0.813184 CGAATTTCTGCATGTGGCCT 59.187 50.000 3.32 0.00 43.89 5.19
297 506 1.002257 TGCATGTGGCCTTGATCGT 60.002 52.632 3.32 0.00 43.89 3.73
303 512 0.727398 GTGGCCTTGATCGTTACTGC 59.273 55.000 3.32 0.00 0.00 4.40
304 513 0.323302 TGGCCTTGATCGTTACTGCA 59.677 50.000 3.32 0.00 0.00 4.41
305 514 0.727398 GGCCTTGATCGTTACTGCAC 59.273 55.000 0.00 0.00 0.00 4.57
306 515 0.727398 GCCTTGATCGTTACTGCACC 59.273 55.000 0.00 0.00 0.00 5.01
307 516 1.369625 CCTTGATCGTTACTGCACCC 58.630 55.000 0.00 0.00 0.00 4.61
308 517 1.066143 CCTTGATCGTTACTGCACCCT 60.066 52.381 0.00 0.00 0.00 4.34
309 518 2.271800 CTTGATCGTTACTGCACCCTC 58.728 52.381 0.00 0.00 0.00 4.30
310 519 1.262417 TGATCGTTACTGCACCCTCA 58.738 50.000 0.00 0.00 0.00 3.86
311 520 1.204704 TGATCGTTACTGCACCCTCAG 59.795 52.381 0.00 0.00 39.86 3.35
313 522 1.913778 TCGTTACTGCACCCTCAGTA 58.086 50.000 0.00 0.00 44.77 2.74
314 523 1.816835 TCGTTACTGCACCCTCAGTAG 59.183 52.381 4.18 0.00 46.50 2.57
315 524 1.135083 CGTTACTGCACCCTCAGTAGG 60.135 57.143 4.18 0.00 46.50 3.18
333 542 8.774546 TCAGTAGGAGAATCAATTCACTATCT 57.225 34.615 5.59 5.30 39.23 1.98
334 543 8.855110 TCAGTAGGAGAATCAATTCACTATCTC 58.145 37.037 5.59 0.00 39.23 2.75
335 544 8.859090 CAGTAGGAGAATCAATTCACTATCTCT 58.141 37.037 5.59 0.26 39.23 3.10
363 572 9.625747 TTGATGATTATGTGTTACATACATGGT 57.374 29.630 0.00 0.00 40.47 3.55
378 587 6.940298 ACATACATGGTATTTATACACAGGGC 59.060 38.462 0.00 0.00 34.98 5.19
379 588 5.381184 ACATGGTATTTATACACAGGGCA 57.619 39.130 0.00 0.00 34.98 5.36
380 589 5.952387 ACATGGTATTTATACACAGGGCAT 58.048 37.500 0.00 0.00 34.98 4.40
381 590 6.372931 ACATGGTATTTATACACAGGGCATT 58.627 36.000 0.00 0.00 34.98 3.56
382 591 6.265196 ACATGGTATTTATACACAGGGCATTG 59.735 38.462 0.00 0.00 34.98 2.82
383 592 4.582656 TGGTATTTATACACAGGGCATTGC 59.417 41.667 0.00 0.00 34.98 3.56
384 593 4.022329 GGTATTTATACACAGGGCATTGCC 60.022 45.833 19.81 19.81 40.45 4.52
393 602 4.876701 GGCATTGCCCGAGTCATA 57.123 55.556 17.28 0.00 44.06 2.15
394 603 3.094386 GGCATTGCCCGAGTCATAA 57.906 52.632 17.28 0.00 44.06 1.90
395 604 0.947244 GGCATTGCCCGAGTCATAAG 59.053 55.000 17.28 0.00 44.06 1.73
396 605 0.947244 GCATTGCCCGAGTCATAAGG 59.053 55.000 0.00 0.00 0.00 2.69
397 606 0.947244 CATTGCCCGAGTCATAAGGC 59.053 55.000 4.04 4.04 45.96 4.35
399 608 4.126524 GCCCGAGTCATAAGGCAC 57.873 61.111 5.79 0.00 45.07 5.01
400 609 1.883084 GCCCGAGTCATAAGGCACG 60.883 63.158 5.79 0.00 45.07 5.34
401 610 1.883084 CCCGAGTCATAAGGCACGC 60.883 63.158 0.00 0.00 0.00 5.34
402 611 1.153647 CCGAGTCATAAGGCACGCA 60.154 57.895 0.00 0.00 0.00 5.24
403 612 1.148157 CCGAGTCATAAGGCACGCAG 61.148 60.000 0.00 0.00 0.00 5.18
404 613 1.148157 CGAGTCATAAGGCACGCAGG 61.148 60.000 0.00 0.00 0.00 4.85
405 614 1.432270 GAGTCATAAGGCACGCAGGC 61.432 60.000 0.00 0.00 44.61 4.85
414 623 4.899239 CACGCAGGCCCTCGATCC 62.899 72.222 19.44 0.00 0.00 3.36
416 625 2.912542 CGCAGGCCCTCGATCCTA 60.913 66.667 8.41 0.00 0.00 2.94
417 626 2.279069 CGCAGGCCCTCGATCCTAT 61.279 63.158 8.41 0.00 0.00 2.57
418 627 0.965866 CGCAGGCCCTCGATCCTATA 60.966 60.000 8.41 0.00 0.00 1.31
419 628 0.533032 GCAGGCCCTCGATCCTATAC 59.467 60.000 0.00 0.00 0.00 1.47
420 629 1.924731 CAGGCCCTCGATCCTATACA 58.075 55.000 0.00 0.00 0.00 2.29
421 630 1.546476 CAGGCCCTCGATCCTATACAC 59.454 57.143 0.00 0.00 0.00 2.90
422 631 0.526662 GGCCCTCGATCCTATACACG 59.473 60.000 0.00 0.00 0.00 4.49
423 632 1.245732 GCCCTCGATCCTATACACGT 58.754 55.000 0.00 0.00 0.00 4.49
424 633 1.068472 GCCCTCGATCCTATACACGTG 60.068 57.143 15.48 15.48 0.00 4.49
425 634 1.540267 CCCTCGATCCTATACACGTGG 59.460 57.143 21.57 0.70 38.53 4.94
426 635 1.540267 CCTCGATCCTATACACGTGGG 59.460 57.143 21.57 11.42 36.31 4.61
427 636 0.956633 TCGATCCTATACACGTGGGC 59.043 55.000 21.57 0.00 0.00 5.36
428 637 0.671796 CGATCCTATACACGTGGGCA 59.328 55.000 21.57 4.76 0.00 5.36
429 638 1.272490 CGATCCTATACACGTGGGCAT 59.728 52.381 21.57 12.17 0.00 4.40
430 639 2.688507 GATCCTATACACGTGGGCATG 58.311 52.381 21.57 5.42 0.00 4.06
431 640 0.105964 TCCTATACACGTGGGCATGC 59.894 55.000 21.57 9.90 0.00 4.06
432 641 0.179059 CCTATACACGTGGGCATGCA 60.179 55.000 21.36 0.00 0.00 3.96
433 642 1.543208 CCTATACACGTGGGCATGCAT 60.543 52.381 21.36 3.98 0.00 3.96
434 643 2.289382 CCTATACACGTGGGCATGCATA 60.289 50.000 21.36 4.29 0.00 3.14
435 644 2.340210 ATACACGTGGGCATGCATAA 57.660 45.000 21.36 0.38 0.00 1.90
436 645 1.374560 TACACGTGGGCATGCATAAC 58.625 50.000 21.36 12.87 0.00 1.89
437 646 0.607762 ACACGTGGGCATGCATAACA 60.608 50.000 21.36 9.70 0.00 2.41
438 647 0.525311 CACGTGGGCATGCATAACAA 59.475 50.000 21.36 0.00 0.00 2.83
439 648 0.525761 ACGTGGGCATGCATAACAAC 59.474 50.000 21.36 4.51 0.00 3.32
440 649 0.179140 CGTGGGCATGCATAACAACC 60.179 55.000 21.36 10.01 0.00 3.77
441 650 0.175531 GTGGGCATGCATAACAACCC 59.824 55.000 21.36 9.23 45.14 4.11
442 651 2.589494 GGGCATGCATAACAACCCA 58.411 52.632 21.36 0.00 44.58 4.51
443 652 1.122227 GGGCATGCATAACAACCCAT 58.878 50.000 21.36 0.00 44.58 4.00
444 653 1.485895 GGGCATGCATAACAACCCATT 59.514 47.619 21.36 0.00 44.58 3.16
445 654 2.697751 GGGCATGCATAACAACCCATTA 59.302 45.455 21.36 0.00 44.58 1.90
446 655 3.492482 GGGCATGCATAACAACCCATTAC 60.492 47.826 21.36 0.00 44.58 1.89
447 656 3.131933 GGCATGCATAACAACCCATTACA 59.868 43.478 21.36 0.00 0.00 2.41
448 657 4.382470 GGCATGCATAACAACCCATTACAA 60.382 41.667 21.36 0.00 0.00 2.41
449 658 4.566360 GCATGCATAACAACCCATTACAAC 59.434 41.667 14.21 0.00 0.00 3.32
450 659 5.718146 CATGCATAACAACCCATTACAACA 58.282 37.500 0.00 0.00 0.00 3.33
451 660 5.127693 TGCATAACAACCCATTACAACAC 57.872 39.130 0.00 0.00 0.00 3.32
452 661 4.584743 TGCATAACAACCCATTACAACACA 59.415 37.500 0.00 0.00 0.00 3.72
453 662 5.069119 TGCATAACAACCCATTACAACACAA 59.931 36.000 0.00 0.00 0.00 3.33
454 663 5.404066 GCATAACAACCCATTACAACACAAC 59.596 40.000 0.00 0.00 0.00 3.32
455 664 6.737346 GCATAACAACCCATTACAACACAACT 60.737 38.462 0.00 0.00 0.00 3.16
456 665 4.911514 ACAACCCATTACAACACAACTC 57.088 40.909 0.00 0.00 0.00 3.01
457 666 4.274147 ACAACCCATTACAACACAACTCA 58.726 39.130 0.00 0.00 0.00 3.41
458 667 4.707448 ACAACCCATTACAACACAACTCAA 59.293 37.500 0.00 0.00 0.00 3.02
504 717 1.979469 GCTTATCACGTCGATCGGATG 59.021 52.381 16.41 11.19 44.69 3.51
556 3114 0.604073 TACTCGTCGCCATGTTTCCA 59.396 50.000 0.00 0.00 0.00 3.53
557 3115 0.036388 ACTCGTCGCCATGTTTCCAT 60.036 50.000 0.00 0.00 0.00 3.41
559 3117 1.081556 TCGTCGCCATGTTTCCATCG 61.082 55.000 0.00 0.00 0.00 3.84
561 3119 2.112198 TCGCCATGTTTCCATCGGC 61.112 57.895 0.00 0.00 39.68 5.54
562 3120 2.114670 CGCCATGTTTCCATCGGCT 61.115 57.895 0.00 0.00 40.31 5.52
563 3121 1.434696 GCCATGTTTCCATCGGCTG 59.565 57.895 0.00 0.00 39.82 4.85
597 3160 2.618053 GTCGTTAGGAATGACTGGTGG 58.382 52.381 4.63 0.00 42.73 4.61
622 4160 0.101399 CCAGACGCTAGCTGTTCGAT 59.899 55.000 13.93 0.00 0.00 3.59
623 4161 1.471964 CAGACGCTAGCTGTTCGATC 58.528 55.000 13.93 0.84 0.00 3.69
624 4162 0.028242 AGACGCTAGCTGTTCGATCG 59.972 55.000 13.93 9.36 0.00 3.69
625 4163 0.027716 GACGCTAGCTGTTCGATCGA 59.972 55.000 15.15 15.15 0.00 3.59
626 4164 0.248134 ACGCTAGCTGTTCGATCGAC 60.248 55.000 19.26 13.49 0.00 4.20
627 4165 0.028242 CGCTAGCTGTTCGATCGACT 59.972 55.000 19.26 14.01 0.00 4.18
628 4166 1.532090 CGCTAGCTGTTCGATCGACTT 60.532 52.381 19.26 4.38 0.00 3.01
629 4167 2.531206 GCTAGCTGTTCGATCGACTTT 58.469 47.619 19.26 4.75 0.00 2.66
647 4185 9.651718 ATCGACTTTATTTTGAATCTTAATCGC 57.348 29.630 0.00 0.00 0.00 4.58
648 4186 8.661257 TCGACTTTATTTTGAATCTTAATCGCA 58.339 29.630 0.00 0.00 0.00 5.10
649 4187 9.272901 CGACTTTATTTTGAATCTTAATCGCAA 57.727 29.630 0.00 0.00 0.00 4.85
656 4194 9.683069 ATTTTGAATCTTAATCGCAATATGGTC 57.317 29.630 0.00 0.00 0.00 4.02
657 4195 6.801539 TGAATCTTAATCGCAATATGGTCC 57.198 37.500 0.00 0.00 0.00 4.46
658 4196 5.408299 TGAATCTTAATCGCAATATGGTCCG 59.592 40.000 0.00 0.00 0.00 4.79
659 4197 4.594123 TCTTAATCGCAATATGGTCCGA 57.406 40.909 0.00 0.00 0.00 4.55
660 4198 4.951254 TCTTAATCGCAATATGGTCCGAA 58.049 39.130 0.00 0.00 33.10 4.30
705 4309 4.388469 TGCTGCAAGTTCAAGAAAACAAAC 59.612 37.500 0.00 0.00 35.30 2.93
748 4376 6.494842 GTGTGGATCAACAAATTATGCGTAT 58.505 36.000 3.96 0.00 0.00 3.06
750 4378 5.845953 GTGGATCAACAAATTATGCGTATCG 59.154 40.000 0.00 0.00 0.00 2.92
847 4560 1.373570 CTTTCAATCCTCAGGCCGAC 58.626 55.000 0.00 0.00 0.00 4.79
864 4579 0.524816 GACATGGCAATCAAGCTGCG 60.525 55.000 0.00 0.00 40.88 5.18
973 4726 2.241160 AGCCATCAATCAGTGCAAACA 58.759 42.857 0.00 0.00 0.00 2.83
1244 5034 1.004394 GGTCCCTTTCCCCAACTACAG 59.996 57.143 0.00 0.00 0.00 2.74
1283 5080 7.348815 TGGAACTGATTCATCAATCAAGGTAT 58.651 34.615 0.00 0.00 46.35 2.73
1284 5081 8.493607 TGGAACTGATTCATCAATCAAGGTATA 58.506 33.333 0.00 0.00 46.35 1.47
1382 5194 9.710900 AGAGCTATATATAGTGATCGATCTCAG 57.289 37.037 25.02 13.77 32.96 3.35
1388 5200 5.781210 ATAGTGATCGATCTCAGCTCAAA 57.219 39.130 25.02 0.00 0.00 2.69
1435 6597 0.601311 GTGATCGACCATGCCCTAGC 60.601 60.000 0.00 0.00 40.48 3.42
1436 6598 1.004440 GATCGACCATGCCCTAGCC 60.004 63.158 0.00 0.00 38.69 3.93
1437 6599 1.460305 ATCGACCATGCCCTAGCCT 60.460 57.895 0.00 0.00 38.69 4.58
1438 6600 0.178932 ATCGACCATGCCCTAGCCTA 60.179 55.000 0.00 0.00 38.69 3.93
1439 6601 0.827925 TCGACCATGCCCTAGCCTAG 60.828 60.000 0.00 0.00 38.69 3.02
1440 6602 1.373059 GACCATGCCCTAGCCTAGC 59.627 63.158 0.00 0.00 38.69 3.42
1441 6603 1.384502 ACCATGCCCTAGCCTAGCA 60.385 57.895 0.00 0.00 41.50 3.49
1443 6605 0.035630 CCATGCCCTAGCCTAGCATC 60.036 60.000 0.00 0.00 45.16 3.91
1444 6606 0.982704 CATGCCCTAGCCTAGCATCT 59.017 55.000 0.00 0.00 45.16 2.90
1445 6607 2.182827 CATGCCCTAGCCTAGCATCTA 58.817 52.381 0.00 0.00 45.16 1.98
1446 6608 1.633774 TGCCCTAGCCTAGCATCTAC 58.366 55.000 0.00 0.00 38.69 2.59
1447 6609 1.133167 TGCCCTAGCCTAGCATCTACA 60.133 52.381 0.00 0.00 38.69 2.74
1448 6610 1.971357 GCCCTAGCCTAGCATCTACAA 59.029 52.381 0.00 0.00 0.00 2.41
1449 6611 2.368875 GCCCTAGCCTAGCATCTACAAA 59.631 50.000 0.00 0.00 0.00 2.83
1450 6612 3.181454 GCCCTAGCCTAGCATCTACAAAA 60.181 47.826 0.00 0.00 0.00 2.44
1451 6613 4.505742 GCCCTAGCCTAGCATCTACAAAAT 60.506 45.833 0.00 0.00 0.00 1.82
1452 6614 5.280011 GCCCTAGCCTAGCATCTACAAAATA 60.280 44.000 0.00 0.00 0.00 1.40
1453 6615 6.744339 GCCCTAGCCTAGCATCTACAAAATAA 60.744 42.308 0.00 0.00 0.00 1.40
1454 6616 7.398024 CCCTAGCCTAGCATCTACAAAATAAT 58.602 38.462 0.00 0.00 0.00 1.28
1455 6617 7.885399 CCCTAGCCTAGCATCTACAAAATAATT 59.115 37.037 0.00 0.00 0.00 1.40
1456 6618 9.944376 CCTAGCCTAGCATCTACAAAATAATTA 57.056 33.333 0.00 0.00 0.00 1.40
1472 6634 9.546909 CAAAATAATTATAGTGATCGACCATGC 57.453 33.333 0.00 0.00 0.00 4.06
1553 7110 1.472082 TGCAAATGTCAATGTAGCCCG 59.528 47.619 0.00 0.00 0.00 6.13
1569 7126 5.642063 TGTAGCCCGTTTCTAAATTTGAGAG 59.358 40.000 0.00 0.00 0.00 3.20
1582 7146 9.658799 TCTAAATTTGAGAGGTTGAGATAAGTG 57.341 33.333 0.00 0.00 0.00 3.16
1749 7382 2.645297 TGTGGGCACTTGGTTAGGAATA 59.355 45.455 0.00 0.00 0.00 1.75
1813 7469 1.909700 AGGAAATCAAAGGCGCTTGA 58.090 45.000 13.66 13.66 39.56 3.02
1868 7533 6.670464 TCTGTACAGTATTACTCATCCCCAAA 59.330 38.462 21.99 0.00 0.00 3.28
1900 7568 5.294552 GGAGTAAGCATCAGTGGTGTAAATC 59.705 44.000 5.06 0.00 35.94 2.17
1901 7569 5.804639 AGTAAGCATCAGTGGTGTAAATCA 58.195 37.500 5.06 0.00 35.94 2.57
1902 7570 6.418101 AGTAAGCATCAGTGGTGTAAATCAT 58.582 36.000 5.06 0.00 35.94 2.45
1957 7625 5.428253 TGTGCTTGGTAGAATATTCCTGTC 58.572 41.667 11.92 1.02 0.00 3.51
1958 7626 4.508124 GTGCTTGGTAGAATATTCCTGTCG 59.492 45.833 11.92 0.00 0.00 4.35
1985 7660 7.492669 TGTCTATCTTCAAGATTCGGATGTTTC 59.507 37.037 4.90 0.00 36.20 2.78
2032 7921 2.961526 CGATCCCTTCGGAGAAAGAA 57.038 50.000 0.00 0.00 45.90 2.52
2041 7930 5.646577 CTTCGGAGAAAGAAGGAGTAGAA 57.353 43.478 0.00 0.00 45.90 2.10
2044 7937 3.193691 CGGAGAAAGAAGGAGTAGAAGCA 59.806 47.826 0.00 0.00 0.00 3.91
2075 7970 3.752747 TGTGGCATCTGATAACTTGTGTG 59.247 43.478 0.00 0.00 0.00 3.82
2100 7995 6.347969 GCTCCCTTCGTTTTTATTTACTTCGT 60.348 38.462 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 56 0.890683 CAAGTTGGTGCCTGGAATCC 59.109 55.000 0.00 0.00 0.00 3.01
144 198 5.501736 CGATCGAGCCGAGAGAATAATCTAG 60.502 48.000 10.26 0.00 39.91 2.43
194 253 0.178958 TAGGCCAGCTAGCTAGGGAC 60.179 60.000 22.14 19.91 0.00 4.46
195 254 0.787084 ATAGGCCAGCTAGCTAGGGA 59.213 55.000 22.14 6.63 0.00 4.20
196 255 1.190643 GATAGGCCAGCTAGCTAGGG 58.809 60.000 25.21 20.93 0.00 3.53
197 256 2.099405 GAGATAGGCCAGCTAGCTAGG 58.901 57.143 18.86 20.81 0.00 3.02
198 257 3.016736 GAGAGATAGGCCAGCTAGCTAG 58.983 54.545 18.86 16.84 0.00 3.42
199 258 2.647299 AGAGAGATAGGCCAGCTAGCTA 59.353 50.000 18.86 0.83 0.00 3.32
200 259 1.428912 AGAGAGATAGGCCAGCTAGCT 59.571 52.381 12.68 12.68 0.00 3.32
201 260 1.923356 AGAGAGATAGGCCAGCTAGC 58.077 55.000 6.62 6.62 0.00 3.42
202 261 5.116084 AGATAGAGAGATAGGCCAGCTAG 57.884 47.826 5.01 0.00 0.00 3.42
203 262 5.729229 ACTAGATAGAGAGATAGGCCAGCTA 59.271 44.000 5.01 0.00 0.00 3.32
204 263 4.540099 ACTAGATAGAGAGATAGGCCAGCT 59.460 45.833 5.01 0.00 0.00 4.24
205 264 4.855340 ACTAGATAGAGAGATAGGCCAGC 58.145 47.826 5.01 0.00 0.00 4.85
229 434 4.878774 GCTATGGATCGAGCGAGG 57.121 61.111 0.00 0.00 0.00 4.63
257 466 3.253432 AGAAATTCGCCTTTCTTGTCCAC 59.747 43.478 6.31 0.00 41.55 4.02
258 467 3.253188 CAGAAATTCGCCTTTCTTGTCCA 59.747 43.478 8.71 0.00 41.55 4.02
259 468 3.826466 CAGAAATTCGCCTTTCTTGTCC 58.174 45.455 8.71 0.00 41.55 4.02
260 469 3.237628 GCAGAAATTCGCCTTTCTTGTC 58.762 45.455 8.71 0.86 41.55 3.18
290 499 1.621317 TGAGGGTGCAGTAACGATCAA 59.379 47.619 0.00 0.00 0.00 2.57
303 512 5.104776 TGAATTGATTCTCCTACTGAGGGTG 60.105 44.000 5.42 0.00 41.76 4.61
304 513 5.032846 TGAATTGATTCTCCTACTGAGGGT 58.967 41.667 5.42 0.00 41.76 4.34
305 514 5.130145 AGTGAATTGATTCTCCTACTGAGGG 59.870 44.000 5.42 0.00 41.76 4.30
306 515 6.232581 AGTGAATTGATTCTCCTACTGAGG 57.767 41.667 5.42 0.00 41.76 3.86
307 516 8.859090 AGATAGTGAATTGATTCTCCTACTGAG 58.141 37.037 5.42 0.00 42.90 3.35
308 517 8.774546 AGATAGTGAATTGATTCTCCTACTGA 57.225 34.615 5.42 0.00 37.67 3.41
309 518 8.859090 AGAGATAGTGAATTGATTCTCCTACTG 58.141 37.037 5.42 0.00 37.67 2.74
337 546 9.625747 ACCATGTATGTAACACATAATCATCAA 57.374 29.630 0.74 0.00 42.15 2.57
352 561 8.098286 GCCCTGTGTATAAATACCATGTATGTA 58.902 37.037 0.00 0.00 32.33 2.29
353 562 6.940298 GCCCTGTGTATAAATACCATGTATGT 59.060 38.462 0.00 0.00 32.33 2.29
354 563 6.939730 TGCCCTGTGTATAAATACCATGTATG 59.060 38.462 0.00 0.00 32.33 2.39
355 564 7.085476 TGCCCTGTGTATAAATACCATGTAT 57.915 36.000 0.00 0.00 32.33 2.29
356 565 6.502074 TGCCCTGTGTATAAATACCATGTA 57.498 37.500 0.00 0.00 32.33 2.29
357 566 5.381184 TGCCCTGTGTATAAATACCATGT 57.619 39.130 0.00 0.00 32.33 3.21
358 567 6.680810 CAATGCCCTGTGTATAAATACCATG 58.319 40.000 0.00 0.00 32.33 3.66
359 568 5.243730 GCAATGCCCTGTGTATAAATACCAT 59.756 40.000 0.00 0.00 32.33 3.55
360 569 4.582656 GCAATGCCCTGTGTATAAATACCA 59.417 41.667 0.00 0.00 32.33 3.25
361 570 4.022329 GGCAATGCCCTGTGTATAAATACC 60.022 45.833 14.47 0.00 44.06 2.73
362 571 5.121221 GGCAATGCCCTGTGTATAAATAC 57.879 43.478 14.47 0.00 44.06 1.89
377 586 0.947244 CCTTATGACTCGGGCAATGC 59.053 55.000 0.00 0.00 0.00 3.56
378 587 0.947244 GCCTTATGACTCGGGCAATG 59.053 55.000 0.00 0.00 43.59 2.82
379 588 3.403936 GCCTTATGACTCGGGCAAT 57.596 52.632 0.00 0.00 43.59 3.56
380 589 4.954933 GCCTTATGACTCGGGCAA 57.045 55.556 0.00 0.00 43.59 4.52
382 591 1.883084 CGTGCCTTATGACTCGGGC 60.883 63.158 0.00 0.00 44.31 6.13
383 592 1.883084 GCGTGCCTTATGACTCGGG 60.883 63.158 0.00 0.00 0.00 5.14
384 593 1.148157 CTGCGTGCCTTATGACTCGG 61.148 60.000 0.00 0.00 0.00 4.63
385 594 1.148157 CCTGCGTGCCTTATGACTCG 61.148 60.000 0.00 0.00 0.00 4.18
386 595 1.432270 GCCTGCGTGCCTTATGACTC 61.432 60.000 0.00 0.00 0.00 3.36
387 596 1.450312 GCCTGCGTGCCTTATGACT 60.450 57.895 0.00 0.00 0.00 3.41
388 597 3.102097 GCCTGCGTGCCTTATGAC 58.898 61.111 0.00 0.00 0.00 3.06
397 606 4.899239 GGATCGAGGGCCTGCGTG 62.899 72.222 12.95 0.00 0.00 5.34
398 607 3.622532 TATAGGATCGAGGGCCTGCGT 62.623 57.143 12.95 5.55 35.73 5.24
399 608 0.965866 TATAGGATCGAGGGCCTGCG 60.966 60.000 12.95 15.08 35.73 5.18
400 609 0.533032 GTATAGGATCGAGGGCCTGC 59.467 60.000 12.95 1.12 35.73 4.85
401 610 1.546476 GTGTATAGGATCGAGGGCCTG 59.454 57.143 12.95 3.26 35.73 4.85
402 611 1.887088 CGTGTATAGGATCGAGGGCCT 60.887 57.143 5.25 5.25 38.31 5.19
403 612 0.526662 CGTGTATAGGATCGAGGGCC 59.473 60.000 0.00 0.00 0.00 5.80
404 613 1.068472 CACGTGTATAGGATCGAGGGC 60.068 57.143 7.58 0.00 0.00 5.19
405 614 1.540267 CCACGTGTATAGGATCGAGGG 59.460 57.143 15.65 0.00 32.31 4.30
406 615 1.540267 CCCACGTGTATAGGATCGAGG 59.460 57.143 15.65 0.00 34.79 4.63
407 616 1.068472 GCCCACGTGTATAGGATCGAG 60.068 57.143 15.65 0.00 0.00 4.04
408 617 0.956633 GCCCACGTGTATAGGATCGA 59.043 55.000 15.65 0.00 0.00 3.59
409 618 0.671796 TGCCCACGTGTATAGGATCG 59.328 55.000 15.65 0.00 0.00 3.69
410 619 2.688507 CATGCCCACGTGTATAGGATC 58.311 52.381 15.65 0.00 0.00 3.36
411 620 1.270839 GCATGCCCACGTGTATAGGAT 60.271 52.381 15.65 4.15 35.09 3.24
412 621 0.105964 GCATGCCCACGTGTATAGGA 59.894 55.000 15.65 1.72 35.09 2.94
413 622 0.179059 TGCATGCCCACGTGTATAGG 60.179 55.000 16.68 9.53 35.09 2.57
414 623 1.882912 ATGCATGCCCACGTGTATAG 58.117 50.000 16.68 0.00 36.49 1.31
415 624 3.135225 GTTATGCATGCCCACGTGTATA 58.865 45.455 16.68 0.28 38.78 1.47
416 625 1.946768 GTTATGCATGCCCACGTGTAT 59.053 47.619 16.68 1.35 40.66 2.29
417 626 1.339151 TGTTATGCATGCCCACGTGTA 60.339 47.619 16.68 0.45 35.09 2.90
418 627 0.607762 TGTTATGCATGCCCACGTGT 60.608 50.000 16.68 0.00 35.09 4.49
419 628 0.525311 TTGTTATGCATGCCCACGTG 59.475 50.000 16.68 9.08 35.78 4.49
420 629 0.525761 GTTGTTATGCATGCCCACGT 59.474 50.000 16.68 0.00 0.00 4.49
421 630 0.179140 GGTTGTTATGCATGCCCACG 60.179 55.000 16.68 0.00 0.00 4.94
422 631 0.175531 GGGTTGTTATGCATGCCCAC 59.824 55.000 16.68 9.57 40.32 4.61
423 632 0.251967 TGGGTTGTTATGCATGCCCA 60.252 50.000 16.68 15.16 44.69 5.36
424 633 1.122227 ATGGGTTGTTATGCATGCCC 58.878 50.000 16.68 12.84 40.71 5.36
425 634 2.985957 AATGGGTTGTTATGCATGCC 57.014 45.000 16.68 0.00 0.00 4.40
426 635 4.383850 TGTAATGGGTTGTTATGCATGC 57.616 40.909 11.82 11.82 0.00 4.06
427 636 5.576384 GTGTTGTAATGGGTTGTTATGCATG 59.424 40.000 10.16 0.00 0.00 4.06
428 637 5.244851 TGTGTTGTAATGGGTTGTTATGCAT 59.755 36.000 3.79 3.79 0.00 3.96
429 638 4.584743 TGTGTTGTAATGGGTTGTTATGCA 59.415 37.500 0.00 0.00 0.00 3.96
430 639 5.127693 TGTGTTGTAATGGGTTGTTATGC 57.872 39.130 0.00 0.00 0.00 3.14
431 640 6.744112 AGTTGTGTTGTAATGGGTTGTTATG 58.256 36.000 0.00 0.00 0.00 1.90
432 641 6.547880 TGAGTTGTGTTGTAATGGGTTGTTAT 59.452 34.615 0.00 0.00 0.00 1.89
433 642 5.886474 TGAGTTGTGTTGTAATGGGTTGTTA 59.114 36.000 0.00 0.00 0.00 2.41
434 643 4.707448 TGAGTTGTGTTGTAATGGGTTGTT 59.293 37.500 0.00 0.00 0.00 2.83
435 644 4.274147 TGAGTTGTGTTGTAATGGGTTGT 58.726 39.130 0.00 0.00 0.00 3.32
436 645 4.909696 TGAGTTGTGTTGTAATGGGTTG 57.090 40.909 0.00 0.00 0.00 3.77
437 646 4.707448 TGTTGAGTTGTGTTGTAATGGGTT 59.293 37.500 0.00 0.00 0.00 4.11
438 647 4.097286 GTGTTGAGTTGTGTTGTAATGGGT 59.903 41.667 0.00 0.00 0.00 4.51
439 648 4.499019 GGTGTTGAGTTGTGTTGTAATGGG 60.499 45.833 0.00 0.00 0.00 4.00
440 649 4.499019 GGGTGTTGAGTTGTGTTGTAATGG 60.499 45.833 0.00 0.00 0.00 3.16
441 650 4.338118 AGGGTGTTGAGTTGTGTTGTAATG 59.662 41.667 0.00 0.00 0.00 1.90
442 651 4.532834 AGGGTGTTGAGTTGTGTTGTAAT 58.467 39.130 0.00 0.00 0.00 1.89
443 652 3.942748 GAGGGTGTTGAGTTGTGTTGTAA 59.057 43.478 0.00 0.00 0.00 2.41
444 653 3.537580 GAGGGTGTTGAGTTGTGTTGTA 58.462 45.455 0.00 0.00 0.00 2.41
445 654 2.365582 GAGGGTGTTGAGTTGTGTTGT 58.634 47.619 0.00 0.00 0.00 3.32
446 655 1.676006 GGAGGGTGTTGAGTTGTGTTG 59.324 52.381 0.00 0.00 0.00 3.33
447 656 1.283613 TGGAGGGTGTTGAGTTGTGTT 59.716 47.619 0.00 0.00 0.00 3.32
448 657 0.916086 TGGAGGGTGTTGAGTTGTGT 59.084 50.000 0.00 0.00 0.00 3.72
449 658 1.949525 CTTGGAGGGTGTTGAGTTGTG 59.050 52.381 0.00 0.00 0.00 3.33
450 659 1.843851 TCTTGGAGGGTGTTGAGTTGT 59.156 47.619 0.00 0.00 0.00 3.32
451 660 2.498167 CTCTTGGAGGGTGTTGAGTTG 58.502 52.381 0.00 0.00 0.00 3.16
452 661 1.421646 CCTCTTGGAGGGTGTTGAGTT 59.578 52.381 5.73 0.00 45.43 3.01
453 662 1.059913 CCTCTTGGAGGGTGTTGAGT 58.940 55.000 5.73 0.00 45.43 3.41
454 663 3.944476 CCTCTTGGAGGGTGTTGAG 57.056 57.895 5.73 0.00 45.43 3.02
516 3063 1.269621 GGTGACTACGTCTGCACACTT 60.270 52.381 14.03 0.00 33.15 3.16
537 3095 0.604073 TGGAAACATGGCGACGAGTA 59.396 50.000 0.00 0.00 33.40 2.59
579 3141 2.233922 ACTCCACCAGTCATTCCTAACG 59.766 50.000 0.00 0.00 0.00 3.18
582 3145 2.187958 CCACTCCACCAGTCATTCCTA 58.812 52.381 0.00 0.00 30.26 2.94
597 3160 2.202810 GCTAGCGTCTGGCCACTC 60.203 66.667 0.00 0.00 45.17 3.51
622 4160 8.661257 TGCGATTAAGATTCAAAATAAAGTCGA 58.339 29.630 0.00 0.00 0.00 4.20
623 4161 8.820628 TGCGATTAAGATTCAAAATAAAGTCG 57.179 30.769 0.00 0.00 0.00 4.18
654 4192 1.001293 AGGTTTCTACGGGTTTCGGAC 59.999 52.381 0.00 0.00 44.45 4.79
655 4193 1.001181 CAGGTTTCTACGGGTTTCGGA 59.999 52.381 0.00 0.00 44.45 4.55
656 4194 1.001181 TCAGGTTTCTACGGGTTTCGG 59.999 52.381 0.00 0.00 44.45 4.30
657 4195 2.064014 GTCAGGTTTCTACGGGTTTCG 58.936 52.381 0.00 0.00 45.88 3.46
658 4196 3.006644 AGAGTCAGGTTTCTACGGGTTTC 59.993 47.826 0.00 0.00 0.00 2.78
659 4197 2.970640 AGAGTCAGGTTTCTACGGGTTT 59.029 45.455 0.00 0.00 0.00 3.27
660 4198 2.606378 AGAGTCAGGTTTCTACGGGTT 58.394 47.619 0.00 0.00 0.00 4.11
750 4378 2.018582 GATTCTCGTGCTGCGACTGC 62.019 60.000 0.00 0.00 45.68 4.40
752 4380 1.095600 TAGATTCTCGTGCTGCGACT 58.904 50.000 0.00 0.09 45.68 4.18
753 4381 1.192793 GTAGATTCTCGTGCTGCGAC 58.807 55.000 0.00 0.00 45.68 5.19
847 4560 0.384309 ATCGCAGCTTGATTGCCATG 59.616 50.000 0.00 0.00 38.31 3.66
860 4575 1.124462 GCTTGTAGCTCGTATCGCAG 58.876 55.000 0.00 0.00 38.45 5.18
864 4579 0.030908 AGGCGCTTGTAGCTCGTATC 59.969 55.000 7.64 0.00 39.60 2.24
1283 5080 2.516906 GATCCGGTTGGGTTTTGGTTA 58.483 47.619 0.00 0.00 37.00 2.85
1284 5081 1.334160 GATCCGGTTGGGTTTTGGTT 58.666 50.000 0.00 0.00 37.00 3.67
1382 5194 7.834068 TGATAGTTATGAGAAGTGTTTGAGC 57.166 36.000 0.00 0.00 0.00 4.26
1413 6202 0.753262 AGGGCATGGTCGATCACTAC 59.247 55.000 0.00 0.00 0.00 2.73
1446 6608 9.546909 GCATGGTCGATCACTATAATTATTTTG 57.453 33.333 0.00 1.84 0.00 2.44
1447 6609 8.730680 GGCATGGTCGATCACTATAATTATTTT 58.269 33.333 0.00 0.00 0.00 1.82
1448 6610 7.336931 GGGCATGGTCGATCACTATAATTATTT 59.663 37.037 0.00 0.00 0.00 1.40
1449 6611 6.823689 GGGCATGGTCGATCACTATAATTATT 59.176 38.462 0.00 0.00 0.00 1.40
1450 6612 6.156949 AGGGCATGGTCGATCACTATAATTAT 59.843 38.462 0.00 2.97 0.00 1.28
1451 6613 5.483937 AGGGCATGGTCGATCACTATAATTA 59.516 40.000 0.00 0.00 0.00 1.40
1452 6614 4.287067 AGGGCATGGTCGATCACTATAATT 59.713 41.667 0.00 0.00 0.00 1.40
1453 6615 3.840666 AGGGCATGGTCGATCACTATAAT 59.159 43.478 0.00 0.00 0.00 1.28
1454 6616 3.239449 AGGGCATGGTCGATCACTATAA 58.761 45.455 0.00 0.00 0.00 0.98
1455 6617 2.889512 AGGGCATGGTCGATCACTATA 58.110 47.619 0.00 0.00 0.00 1.31
1456 6618 1.722034 AGGGCATGGTCGATCACTAT 58.278 50.000 0.00 0.00 0.00 2.12
1457 6619 2.239400 CTAGGGCATGGTCGATCACTA 58.761 52.381 0.00 0.00 0.00 2.74
1458 6620 1.043816 CTAGGGCATGGTCGATCACT 58.956 55.000 0.00 0.00 0.00 3.41
1459 6621 0.601311 GCTAGGGCATGGTCGATCAC 60.601 60.000 0.00 0.00 38.54 3.06
1460 6622 1.048160 TGCTAGGGCATGGTCGATCA 61.048 55.000 0.00 0.00 44.28 2.92
1461 6623 1.748403 TGCTAGGGCATGGTCGATC 59.252 57.895 0.00 0.00 44.28 3.69
1462 6624 3.970332 TGCTAGGGCATGGTCGAT 58.030 55.556 0.00 0.00 44.28 3.59
1471 6633 3.610911 AGTTTTGTGTAGATGCTAGGGC 58.389 45.455 0.00 0.00 39.26 5.19
1472 6634 5.992217 GGATAGTTTTGTGTAGATGCTAGGG 59.008 44.000 0.00 0.00 0.00 3.53
1569 7126 6.935208 ACCTTGTAAGTTCACTTATCTCAACC 59.065 38.462 2.77 0.00 40.20 3.77
1707 7339 9.653287 CCCACAATCTTCGTTATACATACATAT 57.347 33.333 0.00 0.00 0.00 1.78
1804 7460 0.459489 GTCTGAGAGATCAAGCGCCT 59.541 55.000 2.29 0.00 0.00 5.52
1813 7469 2.305928 ACATGCTAGCGTCTGAGAGAT 58.694 47.619 6.43 0.00 0.00 2.75
1868 7533 5.010012 CCACTGATGCTTACTCCAAAACTTT 59.990 40.000 0.00 0.00 0.00 2.66
1883 7548 3.316308 GGGATGATTTACACCACTGATGC 59.684 47.826 0.00 0.00 0.00 3.91
1900 7568 2.859165 ACACACAAGTACAGGGGATG 57.141 50.000 0.00 0.00 0.00 3.51
1901 7569 3.769844 CTCTACACACAAGTACAGGGGAT 59.230 47.826 0.00 0.00 0.00 3.85
1902 7570 3.162666 CTCTACACACAAGTACAGGGGA 58.837 50.000 0.00 0.00 0.00 4.81
1957 7625 4.921547 TCCGAATCTTGAAGATAGACACG 58.078 43.478 8.30 9.19 32.89 4.49
1958 7626 6.276847 ACATCCGAATCTTGAAGATAGACAC 58.723 40.000 8.30 0.00 32.89 3.67
1985 7660 5.704888 TGATAAATTGTAAAGTGCAACCGG 58.295 37.500 0.00 0.00 37.80 5.28
2032 7921 5.020132 ACAGTCATACTTGCTTCTACTCCT 58.980 41.667 0.00 0.00 0.00 3.69
2041 7930 2.238144 AGATGCCACAGTCATACTTGCT 59.762 45.455 0.00 0.00 0.00 3.91
2044 7937 4.767578 ATCAGATGCCACAGTCATACTT 57.232 40.909 0.00 0.00 0.00 2.24
2075 7970 6.019762 CGAAGTAAATAAAAACGAAGGGAGC 58.980 40.000 0.00 0.00 0.00 4.70


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

AutoCloner maintained by Alex Coulton.