Multiple sequence alignment - TraesCS1D01G384300

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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 TraesCS1D01G384300 chr1D 100.000 2435 0 0 1 2435 458232980 458235414 0.000000e+00 4497.0
1 TraesCS1D01G384300 chr1D 83.547 936 128 15 1501 2435 458201098 458202008 0.000000e+00 852.0
2 TraesCS1D01G384300 chr1D 84.569 836 94 26 722 1536 458164324 458165145 0.000000e+00 797.0
3 TraesCS1D01G384300 chr1D 84.010 813 92 22 956 1745 458280419 458281216 0.000000e+00 747.0
4 TraesCS1D01G384300 chr1D 83.016 630 71 25 862 1474 458200392 458201002 2.750000e-149 538.0
5 TraesCS1D01G384300 chr1D 90.698 387 33 3 31 416 458265735 458266119 1.670000e-141 512.0
6 TraesCS1D01G384300 chr1D 85.681 433 35 7 1 411 458163897 458164324 4.810000e-117 431.0
7 TraesCS1D01G384300 chr1D 79.333 600 80 27 1360 1946 458273546 458274114 4.910000e-102 381.0
8 TraesCS1D01G384300 chr1D 84.890 364 47 7 1 358 458271624 458271985 6.400000e-96 361.0
9 TraesCS1D01G384300 chr1A 84.843 1689 161 48 722 2371 550820855 550822487 0.000000e+00 1613.0
10 TraesCS1D01G384300 chr1A 84.365 985 115 24 956 1917 550700595 550701563 0.000000e+00 929.0
11 TraesCS1D01G384300 chr1A 84.615 858 93 22 722 1553 550649488 550650332 0.000000e+00 817.0
12 TraesCS1D01G384300 chr1A 80.525 1104 141 43 1360 2435 550655939 550656996 0.000000e+00 780.0
13 TraesCS1D01G384300 chr1A 84.474 818 94 25 956 1745 550829812 550830624 0.000000e+00 776.0
14 TraesCS1D01G384300 chr1A 88.426 648 48 7 1788 2435 550689923 550690543 0.000000e+00 756.0
15 TraesCS1D01G384300 chr1A 84.337 747 84 21 722 1437 550788131 550788875 0.000000e+00 701.0
16 TraesCS1D01G384300 chr1A 88.571 595 41 12 1788 2382 550651099 550651666 0.000000e+00 697.0
17 TraesCS1D01G384300 chr1A 86.860 586 67 6 754 1329 550783732 550784317 0.000000e+00 647.0
18 TraesCS1D01G384300 chr1A 88.425 527 59 2 723 1248 550664094 550664619 3.420000e-178 634.0
19 TraesCS1D01G384300 chr1A 84.219 659 94 8 1778 2435 550708211 550708860 1.230000e-177 632.0
20 TraesCS1D01G384300 chr1A 90.889 461 37 4 16 472 550687230 550687689 4.450000e-172 614.0
21 TraesCS1D01G384300 chr1A 89.805 461 42 4 16 472 550649045 550649504 9.700000e-164 586.0
22 TraesCS1D01G384300 chr1A 89.655 464 43 4 13 472 550677445 550677907 9.700000e-164 586.0
23 TraesCS1D01G384300 chr1A 88.937 461 44 6 16 472 550663651 550664108 1.630000e-156 562.0
24 TraesCS1D01G384300 chr1A 86.946 429 51 4 1 426 550781760 550782186 6.090000e-131 477.0
25 TraesCS1D01G384300 chr1A 88.024 334 37 3 83 416 550787606 550787936 2.270000e-105 392.0
26 TraesCS1D01G384300 chr1A 82.381 420 47 12 1 417 550808315 550808710 8.340000e-90 340.0
27 TraesCS1D01G384300 chr1A 82.667 300 35 9 1262 1553 550664679 550664969 1.450000e-62 250.0
28 TraesCS1D01G384300 chr1A 97.674 43 0 1 430 471 550788104 550788146 3.360000e-09 73.1
29 TraesCS1D01G384300 chr1A 95.349 43 1 1 430 471 550820828 550820870 1.560000e-07 67.6
30 TraesCS1D01G384300 chr1B 92.097 658 48 2 1780 2435 629058388 629059043 0.000000e+00 924.0
31 TraesCS1D01G384300 chr1B 85.057 957 83 20 805 1731 629064328 629065254 0.000000e+00 920.0
32 TraesCS1D01G384300 chr1B 91.793 658 50 2 1780 2435 628922676 628923331 0.000000e+00 913.0
33 TraesCS1D01G384300 chr1B 91.515 660 48 5 1780 2435 628998996 628999651 0.000000e+00 902.0
34 TraesCS1D01G384300 chr1B 83.700 681 100 9 1758 2435 629097581 629098253 1.230000e-177 632.0
35 TraesCS1D01G384300 chr1B 83.981 618 78 13 956 1556 629096679 629097292 7.550000e-160 573.0
36 TraesCS1D01G384300 chr1B 85.149 505 67 5 1932 2435 628918865 628919362 6.010000e-141 510.0
37 TraesCS1D01G384300 chr1B 82.479 605 80 17 1538 2135 629057510 629058095 7.770000e-140 507.0
38 TraesCS1D01G384300 chr1B 84.585 506 70 7 1932 2435 629054556 629055055 1.680000e-136 496.0
39 TraesCS1D01G384300 chr1B 82.946 387 48 9 1538 1917 628921825 628922200 1.400000e-87 333.0
40 TraesCS1D01G384300 chr1B 82.687 387 48 10 1538 1917 628998147 628998521 2.330000e-85 326.0
41 TraesCS1D01G384300 chr1B 81.223 229 24 11 742 959 628811342 628811562 1.500000e-37 167.0
42 TraesCS1D01G384300 chr1B 81.250 224 26 9 744 959 628874821 628875036 1.500000e-37 167.0
43 TraesCS1D01G384300 chr1B 80.870 230 23 12 742 959 628899198 628899418 6.970000e-36 161.0
44 TraesCS1D01G384300 chr1B 80.357 224 28 9 744 959 628940426 628940641 3.240000e-34 156.0
45 TraesCS1D01G384300 chr1B 86.897 145 12 4 742 879 628975416 628975560 3.240000e-34 156.0
46 TraesCS1D01G384300 chr7D 93.130 262 17 1 467 728 45518459 45518719 1.370000e-102 383.0
47 TraesCS1D01G384300 chr7D 92.996 257 18 0 472 728 598726712 598726968 2.290000e-100 375.0
48 TraesCS1D01G384300 chr7B 92.636 258 19 0 473 730 743678417 743678160 2.960000e-99 372.0
49 TraesCS1D01G384300 chr7B 92.157 255 20 0 473 727 740313598 740313852 6.400000e-96 361.0
50 TraesCS1D01G384300 chr5D 92.636 258 19 0 471 728 7038593 7038336 2.960000e-99 372.0
51 TraesCS1D01G384300 chr2D 92.218 257 20 0 472 728 43970606 43970862 4.950000e-97 364.0
52 TraesCS1D01G384300 chr2B 92.188 256 20 0 472 727 5810138 5809883 1.780000e-96 363.0
53 TraesCS1D01G384300 chr4A 91.829 257 19 2 473 729 657953211 657952957 8.280000e-95 357.0
54 TraesCS1D01G384300 chr3D 91.797 256 21 0 473 728 600514403 600514148 8.280000e-95 357.0


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 TraesCS1D01G384300 chr1D 458232980 458235414 2434 False 4497.000000 4497 100.000000 1 2435 1 chr1D.!!$F1 2434
1 TraesCS1D01G384300 chr1D 458280419 458281216 797 False 747.000000 747 84.010000 956 1745 1 chr1D.!!$F3 789
2 TraesCS1D01G384300 chr1D 458200392 458202008 1616 False 695.000000 852 83.281500 862 2435 2 chr1D.!!$F5 1573
3 TraesCS1D01G384300 chr1D 458163897 458165145 1248 False 614.000000 797 85.125000 1 1536 2 chr1D.!!$F4 1535
4 TraesCS1D01G384300 chr1D 458271624 458274114 2490 False 371.000000 381 82.111500 1 1946 2 chr1D.!!$F6 1945
5 TraesCS1D01G384300 chr1A 550700595 550701563 968 False 929.000000 929 84.365000 956 1917 1 chr1A.!!$F3 961
6 TraesCS1D01G384300 chr1A 550820828 550822487 1659 False 840.300000 1613 90.096000 430 2371 2 chr1A.!!$F11 1941
7 TraesCS1D01G384300 chr1A 550655939 550656996 1057 False 780.000000 780 80.525000 1360 2435 1 chr1A.!!$F1 1075
8 TraesCS1D01G384300 chr1A 550829812 550830624 812 False 776.000000 776 84.474000 956 1745 1 chr1A.!!$F6 789
9 TraesCS1D01G384300 chr1A 550649045 550651666 2621 False 700.000000 817 87.663667 16 2382 3 chr1A.!!$F7 2366
10 TraesCS1D01G384300 chr1A 550687230 550690543 3313 False 685.000000 756 89.657500 16 2435 2 chr1A.!!$F9 2419
11 TraesCS1D01G384300 chr1A 550708211 550708860 649 False 632.000000 632 84.219000 1778 2435 1 chr1A.!!$F4 657
12 TraesCS1D01G384300 chr1A 550663651 550664969 1318 False 482.000000 634 86.676333 16 1553 3 chr1A.!!$F8 1537
13 TraesCS1D01G384300 chr1A 550781760 550788875 7115 False 458.020000 701 88.768200 1 1437 5 chr1A.!!$F10 1436
14 TraesCS1D01G384300 chr1B 629064328 629065254 926 False 920.000000 920 85.057000 805 1731 1 chr1B.!!$F6 926
15 TraesCS1D01G384300 chr1B 629054556 629059043 4487 False 642.333333 924 86.387000 1538 2435 3 chr1B.!!$F9 897
16 TraesCS1D01G384300 chr1B 628998147 628999651 1504 False 614.000000 902 87.101000 1538 2435 2 chr1B.!!$F8 897
17 TraesCS1D01G384300 chr1B 629096679 629098253 1574 False 602.500000 632 83.840500 956 2435 2 chr1B.!!$F10 1479
18 TraesCS1D01G384300 chr1B 628918865 628923331 4466 False 585.333333 913 86.629333 1538 2435 3 chr1B.!!$F7 897

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
879 7311 0.038744 CTGAGGAGCCCCATTTGTGT 59.961 55.0 0.0 0.0 33.88 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2410 10555 1.240641 CCGCTGTGGTGGCAATGTTA 61.241 55.0 0.0 0.0 36.23 2.41 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
116 123 3.259902 GGACACCGTATCCTGAAACTTC 58.740 50.000 0.00 0.00 33.03 3.01
117 124 2.921754 GACACCGTATCCTGAAACTTCG 59.078 50.000 0.00 0.00 0.00 3.79
120 127 2.756760 ACCGTATCCTGAAACTTCGCTA 59.243 45.455 0.00 0.00 0.00 4.26
122 129 4.142004 ACCGTATCCTGAAACTTCGCTAAT 60.142 41.667 0.00 0.00 0.00 1.73
123 130 4.809426 CCGTATCCTGAAACTTCGCTAATT 59.191 41.667 0.00 0.00 0.00 1.40
174 181 4.610400 GTGTAAAGCGTCACGATATAGC 57.390 45.455 0.00 0.00 0.00 2.97
284 295 2.478894 GTCACTAAACACGACCACATGG 59.521 50.000 0.00 0.00 42.17 3.66
388 6187 1.718280 GGGGATATCCGAACCTGAGT 58.282 55.000 15.69 0.00 36.71 3.41
472 6519 2.496871 TGTGATTTTGCCATGGCCTAAG 59.503 45.455 33.44 0.00 41.09 2.18
473 6520 2.760092 GTGATTTTGCCATGGCCTAAGA 59.240 45.455 33.44 17.55 41.09 2.10
474 6521 3.025978 TGATTTTGCCATGGCCTAAGAG 58.974 45.455 33.44 0.00 41.09 2.85
475 6522 2.897271 TTTTGCCATGGCCTAAGAGA 57.103 45.000 33.44 10.68 41.09 3.10
476 6523 2.425143 TTTGCCATGGCCTAAGAGAG 57.575 50.000 33.44 0.00 41.09 3.20
477 6524 1.583556 TTGCCATGGCCTAAGAGAGA 58.416 50.000 33.44 9.03 41.09 3.10
478 6525 0.833287 TGCCATGGCCTAAGAGAGAC 59.167 55.000 33.44 2.26 41.09 3.36
479 6526 0.249657 GCCATGGCCTAAGAGAGACG 60.250 60.000 27.24 0.00 34.56 4.18
480 6527 1.115467 CCATGGCCTAAGAGAGACGT 58.885 55.000 3.32 0.00 0.00 4.34
481 6528 1.202463 CCATGGCCTAAGAGAGACGTG 60.202 57.143 3.32 0.00 0.00 4.49
482 6529 1.751351 CATGGCCTAAGAGAGACGTGA 59.249 52.381 3.32 0.00 0.00 4.35
483 6530 2.145397 TGGCCTAAGAGAGACGTGAT 57.855 50.000 3.32 0.00 0.00 3.06
484 6531 2.457598 TGGCCTAAGAGAGACGTGATT 58.542 47.619 3.32 0.00 0.00 2.57
485 6532 2.427453 TGGCCTAAGAGAGACGTGATTC 59.573 50.000 3.32 0.00 0.00 2.52
486 6533 2.427453 GGCCTAAGAGAGACGTGATTCA 59.573 50.000 0.00 0.00 0.00 2.57
487 6534 3.068873 GGCCTAAGAGAGACGTGATTCAT 59.931 47.826 0.00 0.00 0.00 2.57
488 6535 4.047822 GCCTAAGAGAGACGTGATTCATG 58.952 47.826 0.00 4.29 0.00 3.07
489 6536 4.202060 GCCTAAGAGAGACGTGATTCATGA 60.202 45.833 12.78 0.00 0.00 3.07
490 6537 5.277825 CCTAAGAGAGACGTGATTCATGAC 58.722 45.833 12.78 6.56 0.00 3.06
491 6538 3.791973 AGAGAGACGTGATTCATGACC 57.208 47.619 12.78 4.30 0.00 4.02
492 6539 3.360867 AGAGAGACGTGATTCATGACCT 58.639 45.455 12.78 8.65 0.00 3.85
493 6540 3.766591 AGAGAGACGTGATTCATGACCTT 59.233 43.478 12.78 0.00 0.00 3.50
494 6541 3.854666 AGAGACGTGATTCATGACCTTG 58.145 45.455 12.78 0.00 0.00 3.61
495 6542 2.932614 GAGACGTGATTCATGACCTTGG 59.067 50.000 12.78 0.00 0.00 3.61
496 6543 2.303022 AGACGTGATTCATGACCTTGGT 59.697 45.455 12.78 0.00 0.00 3.67
497 6544 3.074412 GACGTGATTCATGACCTTGGTT 58.926 45.455 12.78 0.00 0.00 3.67
498 6545 3.074412 ACGTGATTCATGACCTTGGTTC 58.926 45.455 12.78 0.00 0.00 3.62
499 6546 3.073678 CGTGATTCATGACCTTGGTTCA 58.926 45.455 0.00 0.00 0.00 3.18
500 6547 3.125829 CGTGATTCATGACCTTGGTTCAG 59.874 47.826 0.00 0.00 0.00 3.02
501 6548 3.084039 TGATTCATGACCTTGGTTCAGC 58.916 45.455 0.00 0.00 0.00 4.26
502 6549 1.909700 TTCATGACCTTGGTTCAGCC 58.090 50.000 0.00 0.00 37.90 4.85
503 6550 0.321564 TCATGACCTTGGTTCAGCCG 60.322 55.000 0.00 0.00 41.21 5.52
504 6551 0.321564 CATGACCTTGGTTCAGCCGA 60.322 55.000 0.00 0.00 41.21 5.54
505 6552 0.400213 ATGACCTTGGTTCAGCCGAA 59.600 50.000 0.00 0.00 41.21 4.30
506 6553 0.400213 TGACCTTGGTTCAGCCGAAT 59.600 50.000 0.00 0.00 41.21 3.34
507 6554 1.087501 GACCTTGGTTCAGCCGAATC 58.912 55.000 0.00 0.00 41.21 2.52
508 6555 0.693049 ACCTTGGTTCAGCCGAATCT 59.307 50.000 0.00 0.00 41.21 2.40
509 6556 1.906574 ACCTTGGTTCAGCCGAATCTA 59.093 47.619 0.00 0.00 41.21 1.98
510 6557 2.505819 ACCTTGGTTCAGCCGAATCTAT 59.494 45.455 0.00 0.00 41.21 1.98
511 6558 2.874701 CCTTGGTTCAGCCGAATCTATG 59.125 50.000 0.00 0.00 41.21 2.23
512 6559 2.620251 TGGTTCAGCCGAATCTATGG 57.380 50.000 0.00 0.00 41.21 2.74
513 6560 1.837439 TGGTTCAGCCGAATCTATGGT 59.163 47.619 0.00 0.00 41.21 3.55
514 6561 2.158957 TGGTTCAGCCGAATCTATGGTC 60.159 50.000 0.00 0.00 41.21 4.02
515 6562 2.103263 GGTTCAGCCGAATCTATGGTCT 59.897 50.000 0.00 0.00 32.61 3.85
516 6563 3.321111 GGTTCAGCCGAATCTATGGTCTA 59.679 47.826 0.00 0.00 32.61 2.59
517 6564 4.021016 GGTTCAGCCGAATCTATGGTCTAT 60.021 45.833 0.00 0.00 32.61 1.98
518 6565 4.790765 TCAGCCGAATCTATGGTCTATG 57.209 45.455 0.00 0.00 0.00 2.23
519 6566 3.056536 TCAGCCGAATCTATGGTCTATGC 60.057 47.826 0.00 0.00 0.00 3.14
520 6567 2.234908 AGCCGAATCTATGGTCTATGCC 59.765 50.000 0.00 0.00 0.00 4.40
521 6568 2.881074 CCGAATCTATGGTCTATGCCG 58.119 52.381 0.00 0.00 0.00 5.69
522 6569 2.231478 CCGAATCTATGGTCTATGCCGT 59.769 50.000 0.00 0.00 0.00 5.68
523 6570 3.442625 CCGAATCTATGGTCTATGCCGTA 59.557 47.826 0.00 0.00 0.00 4.02
524 6571 4.413087 CGAATCTATGGTCTATGCCGTAC 58.587 47.826 0.00 0.00 0.00 3.67
525 6572 4.413087 GAATCTATGGTCTATGCCGTACG 58.587 47.826 8.69 8.69 0.00 3.67
526 6573 3.130280 TCTATGGTCTATGCCGTACGA 57.870 47.619 18.76 0.00 0.00 3.43
527 6574 3.682696 TCTATGGTCTATGCCGTACGAT 58.317 45.455 18.76 5.70 0.00 3.73
528 6575 4.077108 TCTATGGTCTATGCCGTACGATT 58.923 43.478 18.76 3.24 0.00 3.34
529 6576 3.746045 ATGGTCTATGCCGTACGATTT 57.254 42.857 18.76 2.85 0.00 2.17
530 6577 4.859304 ATGGTCTATGCCGTACGATTTA 57.141 40.909 18.76 3.95 0.00 1.40
531 6578 4.652421 TGGTCTATGCCGTACGATTTAA 57.348 40.909 18.76 0.00 0.00 1.52
532 6579 4.362279 TGGTCTATGCCGTACGATTTAAC 58.638 43.478 18.76 7.41 0.00 2.01
533 6580 4.142204 TGGTCTATGCCGTACGATTTAACA 60.142 41.667 18.76 5.25 0.00 2.41
534 6581 4.986659 GGTCTATGCCGTACGATTTAACAT 59.013 41.667 18.76 11.95 0.00 2.71
535 6582 5.118203 GGTCTATGCCGTACGATTTAACATC 59.882 44.000 18.76 0.00 0.00 3.06
536 6583 5.919141 GTCTATGCCGTACGATTTAACATCT 59.081 40.000 18.76 0.00 0.00 2.90
537 6584 6.420008 GTCTATGCCGTACGATTTAACATCTT 59.580 38.462 18.76 0.00 0.00 2.40
538 6585 7.592533 GTCTATGCCGTACGATTTAACATCTTA 59.407 37.037 18.76 0.00 0.00 2.10
539 6586 5.954434 TGCCGTACGATTTAACATCTTAC 57.046 39.130 18.76 0.00 0.00 2.34
540 6587 5.653507 TGCCGTACGATTTAACATCTTACT 58.346 37.500 18.76 0.00 0.00 2.24
541 6588 6.794374 TGCCGTACGATTTAACATCTTACTA 58.206 36.000 18.76 0.00 0.00 1.82
542 6589 6.692681 TGCCGTACGATTTAACATCTTACTAC 59.307 38.462 18.76 5.54 0.00 2.73
543 6590 6.692681 GCCGTACGATTTAACATCTTACTACA 59.307 38.462 18.76 0.00 0.00 2.74
544 6591 7.380602 GCCGTACGATTTAACATCTTACTACAT 59.619 37.037 18.76 0.00 0.00 2.29
545 6592 8.688184 CCGTACGATTTAACATCTTACTACATG 58.312 37.037 18.76 0.00 0.00 3.21
546 6593 9.229784 CGTACGATTTAACATCTTACTACATGT 57.770 33.333 10.44 2.69 34.58 3.21
548 6595 8.420374 ACGATTTAACATCTTACTACATGTGG 57.580 34.615 9.11 8.41 33.38 4.17
549 6596 8.255206 ACGATTTAACATCTTACTACATGTGGA 58.745 33.333 16.98 3.30 33.38 4.02
550 6597 9.261180 CGATTTAACATCTTACTACATGTGGAT 57.739 33.333 16.98 3.03 33.38 3.41
565 6612 5.578776 CATGTGGATATATGACATGCATGC 58.421 41.667 26.53 18.59 40.27 4.06
566 6613 4.011698 TGTGGATATATGACATGCATGCC 58.988 43.478 26.53 16.86 37.87 4.40
567 6614 4.011698 GTGGATATATGACATGCATGCCA 58.988 43.478 26.53 22.51 37.87 4.92
568 6615 4.460034 GTGGATATATGACATGCATGCCAA 59.540 41.667 26.53 12.51 37.87 4.52
569 6616 5.126545 GTGGATATATGACATGCATGCCAAT 59.873 40.000 26.53 18.34 37.87 3.16
570 6617 5.717654 TGGATATATGACATGCATGCCAATT 59.282 36.000 26.53 15.11 37.87 2.32
571 6618 6.040247 GGATATATGACATGCATGCCAATTG 58.960 40.000 26.53 10.12 37.87 2.32
572 6619 4.948341 ATATGACATGCATGCCAATTGT 57.052 36.364 26.53 13.32 37.87 2.71
573 6620 7.148035 GGATATATGACATGCATGCCAATTGTA 60.148 37.037 26.53 11.22 37.87 2.41
574 6621 4.948341 ATGACATGCATGCCAATTGTAT 57.052 36.364 26.53 2.45 35.42 2.29
575 6622 4.739587 TGACATGCATGCCAATTGTATT 57.260 36.364 26.53 2.47 0.00 1.89
576 6623 5.087391 TGACATGCATGCCAATTGTATTT 57.913 34.783 26.53 1.90 0.00 1.40
577 6624 5.489249 TGACATGCATGCCAATTGTATTTT 58.511 33.333 26.53 1.67 0.00 1.82
578 6625 5.938710 TGACATGCATGCCAATTGTATTTTT 59.061 32.000 26.53 1.19 0.00 1.94
609 6656 5.819825 CATGCATGGATCCTCATGAATAG 57.180 43.478 24.98 10.24 45.30 1.73
610 6657 5.497474 CATGCATGGATCCTCATGAATAGA 58.503 41.667 24.98 0.00 45.30 1.98
611 6658 4.903054 TGCATGGATCCTCATGAATAGAC 58.097 43.478 14.23 0.00 45.30 2.59
612 6659 4.348754 TGCATGGATCCTCATGAATAGACA 59.651 41.667 14.23 0.00 45.30 3.41
613 6660 5.013808 TGCATGGATCCTCATGAATAGACAT 59.986 40.000 14.23 0.00 45.30 3.06
614 6661 5.354513 GCATGGATCCTCATGAATAGACATG 59.645 44.000 14.23 17.94 45.30 3.21
615 6662 4.903054 TGGATCCTCATGAATAGACATGC 58.097 43.478 14.23 0.00 44.79 4.06
616 6663 4.348754 TGGATCCTCATGAATAGACATGCA 59.651 41.667 14.23 0.00 44.79 3.96
617 6664 5.013808 TGGATCCTCATGAATAGACATGCAT 59.986 40.000 14.23 0.00 44.79 3.96
618 6665 5.354513 GGATCCTCATGAATAGACATGCATG 59.645 44.000 25.09 25.09 46.18 4.06
619 6666 5.300411 TCCTCATGAATAGACATGCATGT 57.700 39.130 31.82 31.82 45.35 3.21
627 6674 4.077844 ACATGCATGTCAACCGCA 57.922 50.000 26.61 0.00 35.87 5.69
628 6675 2.570365 ACATGCATGTCAACCGCAT 58.430 47.368 26.61 0.21 46.98 4.73
629 6676 0.889994 ACATGCATGTCAACCGCATT 59.110 45.000 26.61 0.00 43.67 3.56
630 6677 1.273048 ACATGCATGTCAACCGCATTT 59.727 42.857 26.61 0.00 43.67 2.32
631 6678 2.288948 ACATGCATGTCAACCGCATTTT 60.289 40.909 26.61 0.00 43.67 1.82
632 6679 2.522836 TGCATGTCAACCGCATTTTT 57.477 40.000 0.00 0.00 0.00 1.94
665 6712 7.845066 CATGTATGGATCCTCATGAATAGTG 57.155 40.000 26.01 10.30 39.68 2.74
666 6713 5.798132 TGTATGGATCCTCATGAATAGTGC 58.202 41.667 14.23 0.00 0.00 4.40
667 6714 5.545335 TGTATGGATCCTCATGAATAGTGCT 59.455 40.000 14.23 0.00 0.00 4.40
668 6715 5.579753 ATGGATCCTCATGAATAGTGCTT 57.420 39.130 14.23 0.00 0.00 3.91
669 6716 6.692849 ATGGATCCTCATGAATAGTGCTTA 57.307 37.500 14.23 0.00 0.00 3.09
670 6717 6.106648 TGGATCCTCATGAATAGTGCTTAG 57.893 41.667 14.23 0.00 0.00 2.18
671 6718 5.840693 TGGATCCTCATGAATAGTGCTTAGA 59.159 40.000 14.23 0.00 0.00 2.10
672 6719 6.327365 TGGATCCTCATGAATAGTGCTTAGAA 59.673 38.462 14.23 0.00 0.00 2.10
673 6720 7.147497 TGGATCCTCATGAATAGTGCTTAGAAA 60.147 37.037 14.23 0.00 0.00 2.52
674 6721 7.882271 GGATCCTCATGAATAGTGCTTAGAAAT 59.118 37.037 3.84 0.00 0.00 2.17
675 6722 8.845413 ATCCTCATGAATAGTGCTTAGAAATC 57.155 34.615 0.00 0.00 0.00 2.17
676 6723 7.795047 TCCTCATGAATAGTGCTTAGAAATCA 58.205 34.615 0.00 0.00 0.00 2.57
677 6724 8.267183 TCCTCATGAATAGTGCTTAGAAATCAA 58.733 33.333 0.00 0.00 0.00 2.57
678 6725 9.064706 CCTCATGAATAGTGCTTAGAAATCAAT 57.935 33.333 0.00 0.00 0.00 2.57
679 6726 9.880064 CTCATGAATAGTGCTTAGAAATCAATG 57.120 33.333 0.00 0.00 0.00 2.82
680 6727 8.843262 TCATGAATAGTGCTTAGAAATCAATGG 58.157 33.333 0.00 0.00 0.00 3.16
681 6728 8.627403 CATGAATAGTGCTTAGAAATCAATGGT 58.373 33.333 0.00 0.00 0.00 3.55
682 6729 7.988737 TGAATAGTGCTTAGAAATCAATGGTG 58.011 34.615 0.00 0.00 0.00 4.17
683 6730 7.611467 TGAATAGTGCTTAGAAATCAATGGTGT 59.389 33.333 0.00 0.00 0.00 4.16
684 6731 5.886960 AGTGCTTAGAAATCAATGGTGTC 57.113 39.130 0.00 0.00 0.00 3.67
685 6732 4.393062 AGTGCTTAGAAATCAATGGTGTCG 59.607 41.667 0.00 0.00 0.00 4.35
686 6733 4.391830 GTGCTTAGAAATCAATGGTGTCGA 59.608 41.667 0.00 0.00 0.00 4.20
687 6734 4.631377 TGCTTAGAAATCAATGGTGTCGAG 59.369 41.667 0.00 0.00 0.00 4.04
688 6735 4.494855 GCTTAGAAATCAATGGTGTCGAGC 60.495 45.833 0.65 0.65 0.00 5.03
689 6736 2.002586 AGAAATCAATGGTGTCGAGCG 58.997 47.619 0.00 0.00 0.00 5.03
690 6737 1.732259 GAAATCAATGGTGTCGAGCGT 59.268 47.619 0.00 0.00 0.00 5.07
691 6738 2.665649 AATCAATGGTGTCGAGCGTA 57.334 45.000 0.00 0.00 0.00 4.42
692 6739 2.209838 ATCAATGGTGTCGAGCGTAG 57.790 50.000 0.00 0.00 0.00 3.51
693 6740 0.172578 TCAATGGTGTCGAGCGTAGG 59.827 55.000 0.00 0.00 0.00 3.18
694 6741 0.108804 CAATGGTGTCGAGCGTAGGT 60.109 55.000 0.00 0.00 46.54 3.08
695 6742 0.606604 AATGGTGTCGAGCGTAGGTT 59.393 50.000 0.00 0.00 39.88 3.50
696 6743 0.172803 ATGGTGTCGAGCGTAGGTTC 59.827 55.000 0.00 0.00 39.88 3.62
697 6744 1.513586 GGTGTCGAGCGTAGGTTCG 60.514 63.158 14.47 14.47 46.64 3.95
698 6745 1.513586 GTGTCGAGCGTAGGTTCGG 60.514 63.158 19.24 3.89 45.52 4.30
699 6746 2.578981 GTCGAGCGTAGGTTCGGC 60.579 66.667 19.24 15.13 45.52 5.54
700 6747 2.749044 TCGAGCGTAGGTTCGGCT 60.749 61.111 19.24 0.00 45.52 5.52
701 6748 1.450134 TCGAGCGTAGGTTCGGCTA 60.450 57.895 19.24 0.27 45.52 3.93
702 6749 1.026182 TCGAGCGTAGGTTCGGCTAA 61.026 55.000 19.24 0.00 45.52 3.09
703 6750 0.179156 CGAGCGTAGGTTCGGCTAAA 60.179 55.000 13.05 0.00 42.33 1.85
704 6751 1.275505 GAGCGTAGGTTCGGCTAAAC 58.724 55.000 0.00 0.00 39.88 2.01
710 6757 3.259592 GGTTCGGCTAAACCATGGT 57.740 52.632 13.00 13.00 46.62 3.55
711 6758 1.541379 GGTTCGGCTAAACCATGGTT 58.459 50.000 24.86 24.86 46.62 3.67
712 6759 1.471287 GGTTCGGCTAAACCATGGTTC 59.529 52.381 29.91 17.44 46.62 3.62
713 6760 2.433436 GTTCGGCTAAACCATGGTTCT 58.567 47.619 29.91 20.74 39.03 3.01
714 6761 2.107950 TCGGCTAAACCATGGTTCTG 57.892 50.000 29.91 23.86 39.03 3.02
715 6762 1.349688 TCGGCTAAACCATGGTTCTGT 59.650 47.619 29.91 17.30 39.03 3.41
716 6763 2.568062 TCGGCTAAACCATGGTTCTGTA 59.432 45.455 29.91 17.50 39.03 2.74
717 6764 3.008157 TCGGCTAAACCATGGTTCTGTAA 59.992 43.478 29.91 11.82 39.03 2.41
718 6765 3.754323 CGGCTAAACCATGGTTCTGTAAA 59.246 43.478 29.91 10.76 39.03 2.01
719 6766 4.216687 CGGCTAAACCATGGTTCTGTAAAA 59.783 41.667 29.91 9.15 39.03 1.52
720 6767 5.466819 GGCTAAACCATGGTTCTGTAAAAC 58.533 41.667 29.91 13.19 37.35 2.43
721 6768 5.010213 GGCTAAACCATGGTTCTGTAAAACA 59.990 40.000 29.91 6.62 37.35 2.83
722 6769 6.295067 GGCTAAACCATGGTTCTGTAAAACAT 60.295 38.462 29.91 12.92 37.35 2.71
723 6770 7.151976 GCTAAACCATGGTTCTGTAAAACATT 58.848 34.615 29.91 12.41 37.35 2.71
724 6771 7.655732 GCTAAACCATGGTTCTGTAAAACATTT 59.344 33.333 29.91 12.21 37.35 2.32
725 6772 9.541143 CTAAACCATGGTTCTGTAAAACATTTT 57.459 29.630 29.91 11.78 37.35 1.82
726 6773 8.432110 AAACCATGGTTCTGTAAAACATTTTC 57.568 30.769 29.91 0.00 37.35 2.29
727 6774 6.212955 ACCATGGTTCTGTAAAACATTTTCG 58.787 36.000 13.00 0.00 0.00 3.46
728 6775 6.039941 ACCATGGTTCTGTAAAACATTTTCGA 59.960 34.615 13.00 0.00 0.00 3.71
729 6776 7.090173 CCATGGTTCTGTAAAACATTTTCGAT 58.910 34.615 2.57 0.00 0.00 3.59
730 6777 7.062138 CCATGGTTCTGTAAAACATTTTCGATG 59.938 37.037 2.57 0.00 0.00 3.84
731 6778 6.442952 TGGTTCTGTAAAACATTTTCGATGG 58.557 36.000 0.00 0.00 0.00 3.51
732 6779 5.344933 GGTTCTGTAAAACATTTTCGATGGC 59.655 40.000 0.00 0.00 0.00 4.40
733 6780 5.054390 TCTGTAAAACATTTTCGATGGCC 57.946 39.130 0.00 0.00 0.00 5.36
734 6781 4.764823 TCTGTAAAACATTTTCGATGGCCT 59.235 37.500 3.32 0.00 0.00 5.19
735 6782 5.941058 TCTGTAAAACATTTTCGATGGCCTA 59.059 36.000 3.32 0.00 0.00 3.93
736 6783 6.431543 TCTGTAAAACATTTTCGATGGCCTAA 59.568 34.615 3.32 0.00 0.00 2.69
737 6784 7.122055 TCTGTAAAACATTTTCGATGGCCTAAT 59.878 33.333 3.32 0.00 0.00 1.73
738 6785 8.282455 TGTAAAACATTTTCGATGGCCTAATA 57.718 30.769 3.32 0.00 0.00 0.98
782 6837 1.639108 TCCCCTAGTCAGCAGTGAGTA 59.361 52.381 0.00 0.00 37.53 2.59
790 6847 3.479269 GCAGTGAGTACGCGTGGC 61.479 66.667 24.59 14.84 0.00 5.01
879 7311 0.038744 CTGAGGAGCCCCATTTGTGT 59.961 55.000 0.00 0.00 33.88 3.72
1132 8166 1.835927 GAGGCAGCTGTTCTGGAGGT 61.836 60.000 16.64 0.00 43.06 3.85
1276 8354 2.909662 CCAGGGTCCTCTTCTTCTTCTT 59.090 50.000 0.00 0.00 0.00 2.52
1277 8355 4.097418 CCAGGGTCCTCTTCTTCTTCTTA 58.903 47.826 0.00 0.00 0.00 2.10
1278 8356 4.532521 CCAGGGTCCTCTTCTTCTTCTTAA 59.467 45.833 0.00 0.00 0.00 1.85
1344 8437 4.359434 TGAAGCATGGTTACCTTGTACA 57.641 40.909 10.70 11.97 32.20 2.90
1366 8459 4.060900 AGCACAGAGTTTGATGTGTACTG 58.939 43.478 7.12 0.00 46.75 2.74
1438 8580 6.770303 TCTGAAACTACCAATGAAATGACACA 59.230 34.615 0.00 0.00 0.00 3.72
1439 8581 6.734137 TGAAACTACCAATGAAATGACACAC 58.266 36.000 0.00 0.00 0.00 3.82
1440 8582 6.319911 TGAAACTACCAATGAAATGACACACA 59.680 34.615 0.00 0.00 0.00 3.72
1441 8583 5.689383 ACTACCAATGAAATGACACACAC 57.311 39.130 0.00 0.00 0.00 3.82
1468 8617 9.823647 AGTGTATCTAATGTGTTTCCTTCTATG 57.176 33.333 0.00 0.00 0.00 2.23
1469 8618 9.601217 GTGTATCTAATGTGTTTCCTTCTATGT 57.399 33.333 0.00 0.00 0.00 2.29
1475 8624 7.907214 AATGTGTTTCCTTCTATGTAGTCAC 57.093 36.000 0.00 0.00 0.00 3.67
1477 8626 6.455647 TGTGTTTCCTTCTATGTAGTCACAG 58.544 40.000 0.00 0.00 38.30 3.66
1483 8632 5.958380 TCCTTCTATGTAGTCACAGTGGAAT 59.042 40.000 0.00 0.00 38.30 3.01
1485 8639 7.285629 TCCTTCTATGTAGTCACAGTGGAATAG 59.714 40.741 0.00 2.43 38.30 1.73
1487 8641 9.121658 CTTCTATGTAGTCACAGTGGAATAGTA 57.878 37.037 0.00 0.00 38.30 1.82
1517 8671 6.715344 AAACTATTTCTGTTTATGTCGCGA 57.285 33.333 3.71 3.71 36.07 5.87
1536 8690 2.288186 CGAGCGCTAGAATACACTCTCA 59.712 50.000 11.50 0.00 0.00 3.27
1543 8697 1.825474 AGAATACACTCTCACACCGGG 59.175 52.381 6.32 0.00 0.00 5.73
1556 8716 2.833582 CCGGGGCTTCTCTCGCTA 60.834 66.667 0.00 0.00 0.00 4.26
1560 8720 1.546476 CGGGGCTTCTCTCGCTATATT 59.454 52.381 0.00 0.00 0.00 1.28
1669 8849 9.710900 GGATTTTCAATGTTAATTTTCAGGAGT 57.289 29.630 0.00 0.00 0.00 3.85
1678 8858 8.634335 TGTTAATTTTCAGGAGTCATGATTCA 57.366 30.769 18.70 0.00 0.00 2.57
1733 9222 5.791336 TGTAGATCAGCGGTGAGATTAAT 57.209 39.130 23.06 4.52 35.66 1.40
1793 9284 6.373186 AATGTACTCGACGTGATCAGAATA 57.627 37.500 3.58 0.00 0.00 1.75
1806 9297 2.775418 TCAGAATATTCAGGCCCCTCA 58.225 47.619 17.56 0.00 0.00 3.86
1872 10009 3.782046 TCCTTACTAGAAGCATCAACGC 58.218 45.455 0.00 0.00 0.00 4.84
1923 10060 1.959042 AGTTATGCTCGCCTCATTGG 58.041 50.000 0.00 0.00 39.35 3.16
1926 10063 0.106708 TATGCTCGCCTCATTGGACC 59.893 55.000 0.00 0.00 38.35 4.46
1927 10064 1.913951 ATGCTCGCCTCATTGGACCA 61.914 55.000 0.00 0.00 38.35 4.02
2107 10247 6.735678 ATTGAACAACTGAAACAAAAACCC 57.264 33.333 0.00 0.00 0.00 4.11
2125 10265 3.620488 ACCCTTAGCACATACAACCATG 58.380 45.455 0.00 0.00 0.00 3.66
2131 10271 2.751259 AGCACATACAACCATGCTTCAG 59.249 45.455 0.00 0.00 46.06 3.02
2155 10295 3.334054 AAGCAGCCTGGGTCCTCC 61.334 66.667 0.00 0.00 0.00 4.30
2321 10466 3.995705 GCTGCTCTCTCATATCATTCCAC 59.004 47.826 0.00 0.00 0.00 4.02
2410 10555 3.617263 GGTGCGAATAGTTCTCAAACGAT 59.383 43.478 0.00 0.00 40.48 3.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 8.754080 ACTTCTGTACAGACTTATAGCTTTCAT 58.246 33.333 25.13 0.24 37.14 2.57
12 13 9.915629 ACTTTCAACTTCTGTACAGACTTATAG 57.084 33.333 25.13 20.18 37.14 1.31
95 98 3.259902 GAAGTTTCAGGATACGGTGTCC 58.740 50.000 15.39 15.39 46.39 4.02
116 123 9.673454 TGTGCCGTATATATCTATTAATTAGCG 57.327 33.333 0.00 0.00 0.00 4.26
120 127 9.031360 CGCTTGTGCCGTATATATCTATTAATT 57.969 33.333 0.00 0.00 35.36 1.40
122 129 7.541162 ACGCTTGTGCCGTATATATCTATTAA 58.459 34.615 0.00 0.00 35.36 1.40
123 130 7.092137 ACGCTTGTGCCGTATATATCTATTA 57.908 36.000 0.00 0.00 35.36 0.98
170 177 5.606348 AGAAGAAGAAAGACGATGGCTAT 57.394 39.130 0.00 0.00 0.00 2.97
174 181 5.126384 AGGAGTAGAAGAAGAAAGACGATGG 59.874 44.000 0.00 0.00 0.00 3.51
363 6162 1.420430 GTTCGGATATCCCCCACTGA 58.580 55.000 16.36 3.48 0.00 3.41
388 6187 4.787135 TGAGGCATACATCCCATGTTTA 57.213 40.909 0.00 0.00 41.63 2.01
472 6519 3.791973 AGGTCATGAATCACGTCTCTC 57.208 47.619 0.00 0.00 0.00 3.20
473 6520 3.368843 CCAAGGTCATGAATCACGTCTCT 60.369 47.826 0.00 0.00 0.00 3.10
474 6521 2.932614 CCAAGGTCATGAATCACGTCTC 59.067 50.000 0.00 0.00 0.00 3.36
475 6522 2.303022 ACCAAGGTCATGAATCACGTCT 59.697 45.455 0.00 0.00 0.00 4.18
476 6523 2.699954 ACCAAGGTCATGAATCACGTC 58.300 47.619 0.00 0.00 0.00 4.34
477 6524 2.859165 ACCAAGGTCATGAATCACGT 57.141 45.000 0.00 0.00 0.00 4.49
478 6525 3.073678 TGAACCAAGGTCATGAATCACG 58.926 45.455 0.00 0.00 0.00 4.35
479 6526 3.119708 GCTGAACCAAGGTCATGAATCAC 60.120 47.826 0.00 0.00 0.00 3.06
480 6527 3.084039 GCTGAACCAAGGTCATGAATCA 58.916 45.455 0.00 0.00 0.00 2.57
481 6528 2.424956 GGCTGAACCAAGGTCATGAATC 59.575 50.000 0.00 0.00 38.86 2.52
482 6529 2.450476 GGCTGAACCAAGGTCATGAAT 58.550 47.619 0.00 0.00 38.86 2.57
483 6530 1.881925 CGGCTGAACCAAGGTCATGAA 60.882 52.381 0.00 0.00 39.03 2.57
484 6531 0.321564 CGGCTGAACCAAGGTCATGA 60.322 55.000 0.00 0.00 39.03 3.07
485 6532 0.321564 TCGGCTGAACCAAGGTCATG 60.322 55.000 0.00 0.00 39.03 3.07
486 6533 0.400213 TTCGGCTGAACCAAGGTCAT 59.600 50.000 3.13 0.00 39.03 3.06
487 6534 0.400213 ATTCGGCTGAACCAAGGTCA 59.600 50.000 10.90 0.00 39.03 4.02
488 6535 1.087501 GATTCGGCTGAACCAAGGTC 58.912 55.000 10.90 0.00 39.03 3.85
489 6536 0.693049 AGATTCGGCTGAACCAAGGT 59.307 50.000 10.90 0.00 39.03 3.50
490 6537 2.691409 TAGATTCGGCTGAACCAAGG 57.309 50.000 10.90 0.00 39.03 3.61
491 6538 2.874701 CCATAGATTCGGCTGAACCAAG 59.125 50.000 10.90 0.00 39.03 3.61
492 6539 2.238646 ACCATAGATTCGGCTGAACCAA 59.761 45.455 10.90 0.00 39.03 3.67
493 6540 1.837439 ACCATAGATTCGGCTGAACCA 59.163 47.619 10.90 0.00 39.03 3.67
494 6541 2.103263 AGACCATAGATTCGGCTGAACC 59.897 50.000 10.90 0.00 36.81 3.62
495 6542 3.460857 AGACCATAGATTCGGCTGAAC 57.539 47.619 10.90 4.98 36.81 3.18
496 6543 4.561530 GCATAGACCATAGATTCGGCTGAA 60.562 45.833 11.11 11.11 38.76 3.02
497 6544 3.056536 GCATAGACCATAGATTCGGCTGA 60.057 47.826 0.00 0.00 0.00 4.26
498 6545 3.257393 GCATAGACCATAGATTCGGCTG 58.743 50.000 0.00 0.00 0.00 4.85
499 6546 2.234908 GGCATAGACCATAGATTCGGCT 59.765 50.000 0.00 0.00 0.00 5.52
500 6547 2.622436 GGCATAGACCATAGATTCGGC 58.378 52.381 0.00 0.00 0.00 5.54
501 6548 2.231478 ACGGCATAGACCATAGATTCGG 59.769 50.000 0.00 0.00 0.00 4.30
502 6549 3.577649 ACGGCATAGACCATAGATTCG 57.422 47.619 0.00 0.00 0.00 3.34
503 6550 4.155462 TCGTACGGCATAGACCATAGATTC 59.845 45.833 16.52 0.00 0.00 2.52
504 6551 4.077108 TCGTACGGCATAGACCATAGATT 58.923 43.478 16.52 0.00 0.00 2.40
505 6552 3.682696 TCGTACGGCATAGACCATAGAT 58.317 45.455 16.52 0.00 0.00 1.98
506 6553 3.130280 TCGTACGGCATAGACCATAGA 57.870 47.619 16.52 0.00 0.00 1.98
507 6554 4.436242 AATCGTACGGCATAGACCATAG 57.564 45.455 16.52 0.00 0.00 2.23
508 6555 4.859304 AAATCGTACGGCATAGACCATA 57.141 40.909 16.52 0.00 0.00 2.74
509 6556 3.746045 AAATCGTACGGCATAGACCAT 57.254 42.857 16.52 0.00 0.00 3.55
510 6557 4.142204 TGTTAAATCGTACGGCATAGACCA 60.142 41.667 16.52 0.68 0.00 4.02
511 6558 4.362279 TGTTAAATCGTACGGCATAGACC 58.638 43.478 16.52 0.00 0.00 3.85
512 6559 5.919141 AGATGTTAAATCGTACGGCATAGAC 59.081 40.000 16.52 8.30 0.00 2.59
513 6560 6.080648 AGATGTTAAATCGTACGGCATAGA 57.919 37.500 16.52 0.00 0.00 1.98
514 6561 6.764877 AAGATGTTAAATCGTACGGCATAG 57.235 37.500 16.52 0.00 0.00 2.23
515 6562 7.428020 AGTAAGATGTTAAATCGTACGGCATA 58.572 34.615 16.52 3.15 37.81 3.14
516 6563 6.278363 AGTAAGATGTTAAATCGTACGGCAT 58.722 36.000 16.52 10.10 37.81 4.40
517 6564 5.653507 AGTAAGATGTTAAATCGTACGGCA 58.346 37.500 16.52 0.00 37.81 5.69
518 6565 6.692681 TGTAGTAAGATGTTAAATCGTACGGC 59.307 38.462 16.52 0.16 37.81 5.68
519 6566 8.688184 CATGTAGTAAGATGTTAAATCGTACGG 58.312 37.037 16.52 0.00 37.81 4.02
520 6567 9.229784 ACATGTAGTAAGATGTTAAATCGTACG 57.770 33.333 9.53 9.53 36.23 3.67
522 6569 9.524106 CCACATGTAGTAAGATGTTAAATCGTA 57.476 33.333 0.00 0.00 37.50 3.43
523 6570 8.255206 TCCACATGTAGTAAGATGTTAAATCGT 58.745 33.333 0.00 0.00 37.50 3.73
524 6571 8.642908 TCCACATGTAGTAAGATGTTAAATCG 57.357 34.615 0.00 0.00 37.50 3.34
535 6582 9.091784 GCATGTCATATATCCACATGTAGTAAG 57.908 37.037 23.47 7.89 46.17 2.34
536 6583 8.592809 TGCATGTCATATATCCACATGTAGTAA 58.407 33.333 23.47 10.72 46.17 2.24
537 6584 8.133024 TGCATGTCATATATCCACATGTAGTA 57.867 34.615 23.47 12.63 46.17 1.82
538 6585 7.008021 TGCATGTCATATATCCACATGTAGT 57.992 36.000 23.47 0.00 46.17 2.73
539 6586 7.466860 GCATGCATGTCATATATCCACATGTAG 60.467 40.741 26.79 17.65 46.17 2.74
540 6587 6.316890 GCATGCATGTCATATATCCACATGTA 59.683 38.462 26.79 21.43 46.17 2.29
541 6588 5.124936 GCATGCATGTCATATATCCACATGT 59.875 40.000 26.79 0.00 46.17 3.21
542 6589 5.449999 GGCATGCATGTCATATATCCACATG 60.450 44.000 26.04 20.81 46.86 3.21
543 6590 4.643334 GGCATGCATGTCATATATCCACAT 59.357 41.667 26.04 2.19 33.19 3.21
544 6591 4.011698 GGCATGCATGTCATATATCCACA 58.988 43.478 26.04 0.00 33.19 4.17
545 6592 4.011698 TGGCATGCATGTCATATATCCAC 58.988 43.478 29.45 6.92 37.51 4.02
546 6593 4.304048 TGGCATGCATGTCATATATCCA 57.696 40.909 29.45 20.06 37.51 3.41
547 6594 5.847111 ATTGGCATGCATGTCATATATCC 57.153 39.130 32.86 19.61 42.67 2.59
548 6595 6.627243 ACAATTGGCATGCATGTCATATATC 58.373 36.000 32.86 11.16 42.67 1.63
549 6596 6.599356 ACAATTGGCATGCATGTCATATAT 57.401 33.333 32.86 21.18 42.67 0.86
550 6597 7.706100 ATACAATTGGCATGCATGTCATATA 57.294 32.000 32.86 19.85 42.67 0.86
551 6598 4.948341 ACAATTGGCATGCATGTCATAT 57.052 36.364 32.86 23.98 42.67 1.78
552 6599 6.408107 AATACAATTGGCATGCATGTCATA 57.592 33.333 32.86 22.29 42.67 2.15
553 6600 4.948341 ATACAATTGGCATGCATGTCAT 57.052 36.364 32.86 20.88 42.67 3.06
554 6601 4.739587 AATACAATTGGCATGCATGTCA 57.260 36.364 29.45 29.45 41.25 3.58
555 6602 6.425577 AAAAATACAATTGGCATGCATGTC 57.574 33.333 24.40 24.40 0.00 3.06
587 6634 5.354513 GTCTATTCATGAGGATCCATGCATG 59.645 44.000 24.86 24.86 42.63 4.06
588 6635 5.013808 TGTCTATTCATGAGGATCCATGCAT 59.986 40.000 15.82 11.45 42.63 3.96
589 6636 4.348754 TGTCTATTCATGAGGATCCATGCA 59.651 41.667 15.82 9.47 42.63 3.96
590 6637 4.903054 TGTCTATTCATGAGGATCCATGC 58.097 43.478 15.82 3.29 42.63 4.06
591 6638 5.354513 GCATGTCTATTCATGAGGATCCATG 59.645 44.000 15.82 10.15 45.41 3.66
592 6639 5.013808 TGCATGTCTATTCATGAGGATCCAT 59.986 40.000 15.82 0.00 45.41 3.41
593 6640 4.348754 TGCATGTCTATTCATGAGGATCCA 59.651 41.667 15.82 0.00 45.41 3.41
594 6641 4.903054 TGCATGTCTATTCATGAGGATCC 58.097 43.478 2.48 2.48 45.41 3.36
595 6642 5.938710 ACATGCATGTCTATTCATGAGGATC 59.061 40.000 26.61 0.00 45.41 3.36
596 6643 5.877491 ACATGCATGTCTATTCATGAGGAT 58.123 37.500 26.61 0.00 45.41 3.24
597 6644 5.300411 ACATGCATGTCTATTCATGAGGA 57.700 39.130 26.61 0.00 45.41 3.71
610 6657 2.570365 ATGCGGTTGACATGCATGT 58.430 47.368 31.82 31.82 46.82 3.21
613 6660 2.522836 AAAAATGCGGTTGACATGCA 57.477 40.000 0.00 0.00 43.67 3.96
641 6688 6.315642 GCACTATTCATGAGGATCCATACATG 59.684 42.308 26.36 26.36 40.65 3.21
642 6689 6.215023 AGCACTATTCATGAGGATCCATACAT 59.785 38.462 15.82 13.20 0.00 2.29
643 6690 5.545335 AGCACTATTCATGAGGATCCATACA 59.455 40.000 15.82 11.40 0.00 2.29
644 6691 6.047511 AGCACTATTCATGAGGATCCATAC 57.952 41.667 15.82 5.60 0.00 2.39
645 6692 6.692849 AAGCACTATTCATGAGGATCCATA 57.307 37.500 15.82 1.97 0.00 2.74
646 6693 5.579753 AAGCACTATTCATGAGGATCCAT 57.420 39.130 15.82 0.00 0.00 3.41
647 6694 5.840693 TCTAAGCACTATTCATGAGGATCCA 59.159 40.000 15.82 0.00 0.00 3.41
648 6695 6.352016 TCTAAGCACTATTCATGAGGATCC 57.648 41.667 2.48 2.48 0.00 3.36
649 6696 8.845413 ATTTCTAAGCACTATTCATGAGGATC 57.155 34.615 0.00 0.00 0.00 3.36
650 6697 8.435187 TGATTTCTAAGCACTATTCATGAGGAT 58.565 33.333 0.00 0.00 0.00 3.24
651 6698 7.795047 TGATTTCTAAGCACTATTCATGAGGA 58.205 34.615 0.00 0.00 0.00 3.71
652 6699 8.442632 TTGATTTCTAAGCACTATTCATGAGG 57.557 34.615 0.00 0.00 0.00 3.86
653 6700 9.880064 CATTGATTTCTAAGCACTATTCATGAG 57.120 33.333 0.00 0.00 0.00 2.90
654 6701 8.843262 CCATTGATTTCTAAGCACTATTCATGA 58.157 33.333 0.00 0.00 0.00 3.07
655 6702 8.627403 ACCATTGATTTCTAAGCACTATTCATG 58.373 33.333 0.00 0.00 0.00 3.07
656 6703 8.627403 CACCATTGATTTCTAAGCACTATTCAT 58.373 33.333 0.00 0.00 0.00 2.57
657 6704 7.611467 ACACCATTGATTTCTAAGCACTATTCA 59.389 33.333 0.00 0.00 0.00 2.57
658 6705 7.989826 ACACCATTGATTTCTAAGCACTATTC 58.010 34.615 0.00 0.00 0.00 1.75
659 6706 7.201644 CGACACCATTGATTTCTAAGCACTATT 60.202 37.037 0.00 0.00 0.00 1.73
660 6707 6.258727 CGACACCATTGATTTCTAAGCACTAT 59.741 38.462 0.00 0.00 0.00 2.12
661 6708 5.580691 CGACACCATTGATTTCTAAGCACTA 59.419 40.000 0.00 0.00 0.00 2.74
662 6709 4.393062 CGACACCATTGATTTCTAAGCACT 59.607 41.667 0.00 0.00 0.00 4.40
663 6710 4.391830 TCGACACCATTGATTTCTAAGCAC 59.608 41.667 0.00 0.00 0.00 4.40
664 6711 4.574892 TCGACACCATTGATTTCTAAGCA 58.425 39.130 0.00 0.00 0.00 3.91
665 6712 4.494855 GCTCGACACCATTGATTTCTAAGC 60.495 45.833 0.00 0.00 0.00 3.09
666 6713 4.259970 CGCTCGACACCATTGATTTCTAAG 60.260 45.833 0.00 0.00 0.00 2.18
667 6714 3.616821 CGCTCGACACCATTGATTTCTAA 59.383 43.478 0.00 0.00 0.00 2.10
668 6715 3.186909 CGCTCGACACCATTGATTTCTA 58.813 45.455 0.00 0.00 0.00 2.10
669 6716 2.002586 CGCTCGACACCATTGATTTCT 58.997 47.619 0.00 0.00 0.00 2.52
670 6717 1.732259 ACGCTCGACACCATTGATTTC 59.268 47.619 0.00 0.00 0.00 2.17
671 6718 1.808411 ACGCTCGACACCATTGATTT 58.192 45.000 0.00 0.00 0.00 2.17
672 6719 2.540515 CTACGCTCGACACCATTGATT 58.459 47.619 0.00 0.00 0.00 2.57
673 6720 1.202417 CCTACGCTCGACACCATTGAT 60.202 52.381 0.00 0.00 0.00 2.57
674 6721 0.172578 CCTACGCTCGACACCATTGA 59.827 55.000 0.00 0.00 0.00 2.57
675 6722 0.108804 ACCTACGCTCGACACCATTG 60.109 55.000 0.00 0.00 0.00 2.82
676 6723 0.606604 AACCTACGCTCGACACCATT 59.393 50.000 0.00 0.00 0.00 3.16
677 6724 0.172803 GAACCTACGCTCGACACCAT 59.827 55.000 0.00 0.00 0.00 3.55
678 6725 1.582968 GAACCTACGCTCGACACCA 59.417 57.895 0.00 0.00 0.00 4.17
679 6726 1.513586 CGAACCTACGCTCGACACC 60.514 63.158 0.00 0.00 37.23 4.16
680 6727 1.513586 CCGAACCTACGCTCGACAC 60.514 63.158 0.00 0.00 37.23 3.67
681 6728 2.872557 CCGAACCTACGCTCGACA 59.127 61.111 0.00 0.00 37.23 4.35
682 6729 1.709147 TAGCCGAACCTACGCTCGAC 61.709 60.000 0.00 0.00 37.23 4.20
683 6730 1.026182 TTAGCCGAACCTACGCTCGA 61.026 55.000 0.00 0.00 37.23 4.04
684 6731 0.179156 TTTAGCCGAACCTACGCTCG 60.179 55.000 0.00 0.00 34.83 5.03
685 6732 1.275505 GTTTAGCCGAACCTACGCTC 58.724 55.000 0.00 0.00 0.00 5.03
686 6733 0.108472 GGTTTAGCCGAACCTACGCT 60.108 55.000 10.71 0.00 44.55 5.07
687 6734 2.377004 GGTTTAGCCGAACCTACGC 58.623 57.895 10.71 0.00 44.55 4.42
693 6740 2.161609 CAGAACCATGGTTTAGCCGAAC 59.838 50.000 30.33 15.14 41.21 3.95
694 6741 2.224670 ACAGAACCATGGTTTAGCCGAA 60.225 45.455 30.33 0.00 41.21 4.30
695 6742 1.349688 ACAGAACCATGGTTTAGCCGA 59.650 47.619 30.33 0.00 41.21 5.54
696 6743 1.821216 ACAGAACCATGGTTTAGCCG 58.179 50.000 30.33 18.34 41.21 5.52
697 6744 5.010213 TGTTTTACAGAACCATGGTTTAGCC 59.990 40.000 30.33 17.65 38.60 3.93
698 6745 6.079424 TGTTTTACAGAACCATGGTTTAGC 57.921 37.500 30.33 18.01 38.60 3.09
699 6746 9.541143 AAAATGTTTTACAGAACCATGGTTTAG 57.459 29.630 30.33 25.41 38.60 1.85
700 6747 9.535878 GAAAATGTTTTACAGAACCATGGTTTA 57.464 29.630 30.33 16.59 38.60 2.01
701 6748 7.223777 CGAAAATGTTTTACAGAACCATGGTTT 59.776 33.333 30.33 17.64 38.60 3.27
702 6749 6.699642 CGAAAATGTTTTACAGAACCATGGTT 59.300 34.615 30.23 30.23 41.54 3.67
703 6750 6.039941 TCGAAAATGTTTTACAGAACCATGGT 59.960 34.615 13.00 13.00 0.00 3.55
704 6751 6.442952 TCGAAAATGTTTTACAGAACCATGG 58.557 36.000 11.19 11.19 0.00 3.66
705 6752 7.062138 CCATCGAAAATGTTTTACAGAACCATG 59.938 37.037 0.00 0.00 0.00 3.66
706 6753 7.090173 CCATCGAAAATGTTTTACAGAACCAT 58.910 34.615 0.00 0.00 0.00 3.55
707 6754 6.442952 CCATCGAAAATGTTTTACAGAACCA 58.557 36.000 0.00 0.00 0.00 3.67
708 6755 5.344933 GCCATCGAAAATGTTTTACAGAACC 59.655 40.000 0.00 0.00 0.00 3.62
709 6756 5.344933 GGCCATCGAAAATGTTTTACAGAAC 59.655 40.000 0.00 0.00 0.00 3.01
710 6757 5.242838 AGGCCATCGAAAATGTTTTACAGAA 59.757 36.000 5.01 0.00 0.00 3.02
711 6758 4.764823 AGGCCATCGAAAATGTTTTACAGA 59.235 37.500 5.01 0.00 0.00 3.41
712 6759 5.059404 AGGCCATCGAAAATGTTTTACAG 57.941 39.130 5.01 0.00 0.00 2.74
713 6760 6.576662 TTAGGCCATCGAAAATGTTTTACA 57.423 33.333 5.01 0.00 0.00 2.41
714 6761 8.617809 TCTATTAGGCCATCGAAAATGTTTTAC 58.382 33.333 5.01 0.00 0.00 2.01
715 6762 8.740123 TCTATTAGGCCATCGAAAATGTTTTA 57.260 30.769 5.01 0.00 0.00 1.52
716 6763 7.639113 TCTATTAGGCCATCGAAAATGTTTT 57.361 32.000 5.01 0.00 0.00 2.43
717 6764 7.823745 ATCTATTAGGCCATCGAAAATGTTT 57.176 32.000 5.01 0.00 0.00 2.83
718 6765 8.918202 TTATCTATTAGGCCATCGAAAATGTT 57.082 30.769 5.01 0.00 0.00 2.71
719 6766 9.167311 GATTATCTATTAGGCCATCGAAAATGT 57.833 33.333 5.01 0.00 0.00 2.71
720 6767 8.331022 CGATTATCTATTAGGCCATCGAAAATG 58.669 37.037 5.01 0.00 35.21 2.32
721 6768 8.041323 ACGATTATCTATTAGGCCATCGAAAAT 58.959 33.333 19.43 4.12 36.43 1.82
722 6769 7.383687 ACGATTATCTATTAGGCCATCGAAAA 58.616 34.615 19.43 0.00 36.43 2.29
723 6770 6.931838 ACGATTATCTATTAGGCCATCGAAA 58.068 36.000 19.43 0.89 36.43 3.46
724 6771 6.525578 ACGATTATCTATTAGGCCATCGAA 57.474 37.500 19.43 3.01 36.43 3.71
725 6772 6.071560 ACAACGATTATCTATTAGGCCATCGA 60.072 38.462 19.43 2.03 36.43 3.59
726 6773 6.035005 CACAACGATTATCTATTAGGCCATCG 59.965 42.308 5.01 10.23 38.37 3.84
727 6774 6.874134 ACACAACGATTATCTATTAGGCCATC 59.126 38.462 5.01 0.00 0.00 3.51
728 6775 6.769512 ACACAACGATTATCTATTAGGCCAT 58.230 36.000 5.01 0.00 0.00 4.40
729 6776 6.169557 ACACAACGATTATCTATTAGGCCA 57.830 37.500 5.01 0.00 0.00 5.36
730 6777 8.597662 TTTACACAACGATTATCTATTAGGCC 57.402 34.615 0.00 0.00 0.00 5.19
731 6778 9.257651 ACTTTACACAACGATTATCTATTAGGC 57.742 33.333 0.00 0.00 0.00 3.93
735 6782 9.832445 ATCCACTTTACACAACGATTATCTATT 57.168 29.630 0.00 0.00 0.00 1.73
736 6783 9.832445 AATCCACTTTACACAACGATTATCTAT 57.168 29.630 0.00 0.00 0.00 1.98
737 6784 9.309516 GAATCCACTTTACACAACGATTATCTA 57.690 33.333 0.00 0.00 0.00 1.98
738 6785 7.280205 GGAATCCACTTTACACAACGATTATCT 59.720 37.037 0.00 0.00 0.00 1.98
811 6868 4.508128 GGCTCCGACGCCGATGAA 62.508 66.667 0.00 0.00 40.79 2.57
1158 8192 4.903010 AAACTCACGGCGCGGTGT 62.903 61.111 36.82 22.65 39.00 4.16
1187 8226 2.896039 AGTTCTGGGAGTAGCTCTTGT 58.104 47.619 0.00 0.00 0.00 3.16
1263 8337 7.253817 CGGCGAGTAAATTAAGAAGAAGAAGAG 60.254 40.741 0.00 0.00 0.00 2.85
1276 8354 1.227321 CCGGGCGGCGAGTAAATTA 60.227 57.895 12.98 0.00 0.00 1.40
1277 8355 2.512974 CCGGGCGGCGAGTAAATT 60.513 61.111 12.98 0.00 0.00 1.82
1310 8403 0.250901 TGCTTCAAACTCTCCAGCCC 60.251 55.000 0.00 0.00 0.00 5.19
1344 8437 4.060900 CAGTACACATCAAACTCTGTGCT 58.939 43.478 0.00 0.00 45.22 4.40
1388 8530 5.637006 TTCAACACTAAGCAACTTGTGTT 57.363 34.783 15.89 15.89 41.43 3.32
1439 8581 7.604164 AGAAGGAAACACATTAGATACACTGTG 59.396 37.037 6.19 6.19 43.54 3.66
1440 8582 7.680730 AGAAGGAAACACATTAGATACACTGT 58.319 34.615 0.00 0.00 0.00 3.55
1441 8583 9.823647 ATAGAAGGAAACACATTAGATACACTG 57.176 33.333 0.00 0.00 0.00 3.66
1458 8607 5.330233 TCCACTGTGACTACATAGAAGGAA 58.670 41.667 9.86 0.00 38.60 3.36
1468 8617 6.773685 AGATCCTACTATTCCACTGTGACTAC 59.226 42.308 9.86 0.00 0.00 2.73
1469 8618 6.912426 AGATCCTACTATTCCACTGTGACTA 58.088 40.000 9.86 0.00 0.00 2.59
1473 8622 8.012957 AGTTTAGATCCTACTATTCCACTGTG 57.987 38.462 0.00 0.00 0.00 3.66
1517 8671 3.017442 TGTGAGAGTGTATTCTAGCGCT 58.983 45.455 17.26 17.26 0.00 5.92
1536 8690 3.382832 CGAGAGAAGCCCCGGTGT 61.383 66.667 0.00 0.00 0.00 4.16
1543 8697 4.815269 ACATCAATATAGCGAGAGAAGCC 58.185 43.478 0.00 0.00 34.64 4.35
1560 8720 7.608308 TCATGTCGTGAATAAAATGACATCA 57.392 32.000 8.02 0.00 46.46 3.07
1640 8820 9.270640 CCTGAAAATTAACATTGAAAATCCACA 57.729 29.630 0.00 0.00 0.00 4.17
1669 8849 5.715439 ATAAGGGTGGTTCTGAATCATGA 57.285 39.130 6.63 0.00 0.00 3.07
1678 8858 8.999905 TTGTAAACTTTTATAAGGGTGGTTCT 57.000 30.769 0.00 0.00 35.61 3.01
1776 9267 4.914504 CCTGAATATTCTGATCACGTCGAG 59.085 45.833 20.46 4.46 0.00 4.04
1779 9270 3.743396 GGCCTGAATATTCTGATCACGTC 59.257 47.826 20.46 4.62 0.00 4.34
1793 9284 1.272704 GGAGTTTTGAGGGGCCTGAAT 60.273 52.381 0.84 0.00 0.00 2.57
1806 9297 7.678171 ACCAATTATCTACCAAATGGGAGTTTT 59.322 33.333 11.44 1.49 46.57 2.43
1923 10060 6.433766 GCTATTTGCTAAATCTCATGTGGTC 58.566 40.000 0.00 0.00 38.95 4.02
1984 10124 8.675705 TGTAGAACATGTCAGATTTTCTTTCA 57.324 30.769 0.00 0.00 0.00 2.69
2002 10142 9.463443 AACAATCAAGCAACTAAATTGTAGAAC 57.537 29.630 0.00 0.00 39.07 3.01
2011 10151 6.208599 CCCCTCTTAACAATCAAGCAACTAAA 59.791 38.462 0.00 0.00 0.00 1.85
2102 10242 4.107127 TGGTTGTATGTGCTAAGGGTTT 57.893 40.909 0.00 0.00 0.00 3.27
2107 10247 4.395854 TGAAGCATGGTTGTATGTGCTAAG 59.604 41.667 16.18 0.00 46.37 2.18
2125 10265 1.285023 CTGCTTGTGTGCCTGAAGC 59.715 57.895 0.00 0.00 42.07 3.86
2131 10271 3.677648 CCAGGCTGCTTGTGTGCC 61.678 66.667 9.56 0.00 46.42 5.01
2173 10313 7.540400 CGTCATTGGCATGTCAAAATAGTTTAA 59.460 33.333 18.05 0.00 0.00 1.52
2410 10555 1.240641 CCGCTGTGGTGGCAATGTTA 61.241 55.000 0.00 0.00 36.23 2.41


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

AutoCloner maintained by Alex Coulton.