Multiple sequence alignment - TraesCS6B01G179800

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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 TraesCS6B01G179800 chr6B 100.000 2445 0 0 1 2445 199960703 199963147 0.000000e+00 4516.0
1 TraesCS6B01G179800 chr6B 91.209 455 38 2 4 457 554790678 554790225 3.450000e-173 617.0
2 TraesCS6B01G179800 chr3B 95.508 2293 90 10 1 2285 691504497 691502210 0.000000e+00 3651.0
3 TraesCS6B01G179800 chr3B 93.814 97 6 0 2349 2445 691502004 691501908 1.960000e-31 147.0
4 TraesCS6B01G179800 chr3B 97.260 73 2 0 2276 2348 691502112 691502040 9.180000e-25 124.0
5 TraesCS6B01G179800 chr2D 96.440 1573 50 5 719 2285 285064755 285063183 0.000000e+00 2590.0
6 TraesCS6B01G179800 chr2D 97.902 429 9 0 3 431 285065179 285064751 0.000000e+00 743.0
7 TraesCS6B01G179800 chr2D 83.260 227 32 4 893 1114 37252159 37251934 1.150000e-48 204.0
8 TraesCS6B01G179800 chr2D 95.876 97 4 0 2349 2445 285062977 285062881 9.050000e-35 158.0
9 TraesCS6B01G179800 chr2D 97.260 73 2 0 2276 2348 285063085 285063013 9.180000e-25 124.0
10 TraesCS6B01G179800 chr2D 75.652 230 35 12 1193 1402 37251917 37251689 7.200000e-16 95.3
11 TraesCS6B01G179800 chr6D 93.436 716 39 2 716 1431 171915952 171916659 0.000000e+00 1055.0
12 TraesCS6B01G179800 chr6D 88.171 727 57 13 1488 2210 171918966 171919667 0.000000e+00 839.0
13 TraesCS6B01G179800 chr6D 92.009 463 34 3 1 460 368754161 368753699 0.000000e+00 647.0
14 TraesCS6B01G179800 chr6D 79.155 355 59 13 535 879 462183694 462184043 5.260000e-57 231.0
15 TraesCS6B01G179800 chr6D 92.784 97 6 1 2349 2445 171919881 171919976 3.280000e-29 139.0
16 TraesCS6B01G179800 chr1D 86.806 811 75 20 1495 2285 425969721 425970519 0.000000e+00 876.0
17 TraesCS6B01G179800 chr1D 93.333 195 13 0 4 198 425969348 425969542 3.080000e-74 289.0
18 TraesCS6B01G179800 chr6A 91.721 459 36 2 1 457 510251806 510251348 9.540000e-179 636.0
19 TraesCS6B01G179800 chr5A 87.115 520 41 14 1788 2285 534072731 534072216 1.270000e-157 566.0
20 TraesCS6B01G179800 chr5A 97.143 35 1 0 2349 2383 321721363 321721397 2.630000e-05 60.2
21 TraesCS6B01G179800 chr5A 100.000 32 0 0 2351 2382 670583450 670583419 2.630000e-05 60.2
22 TraesCS6B01G179800 chr4A 90.026 381 37 1 79 459 220029597 220029976 2.180000e-135 492.0
23 TraesCS6B01G179800 chr5B 88.860 386 34 7 85 463 405791703 405791320 1.320000e-127 466.0
24 TraesCS6B01G179800 chr7B 88.076 369 40 4 93 459 388567294 388566928 3.730000e-118 435.0
25 TraesCS6B01G179800 chr5D 85.070 355 43 7 535 882 352937701 352937350 1.080000e-93 353.0
26 TraesCS6B01G179800 chr5D 84.765 361 45 7 529 882 508976970 508976613 1.080000e-93 353.0
27 TraesCS6B01G179800 chr5D 78.022 364 58 20 533 882 412593066 412592711 2.460000e-50 209.0
28 TraesCS6B01G179800 chr1B 89.531 277 27 2 184 459 120488301 120488026 1.390000e-92 350.0
29 TraesCS6B01G179800 chr4D 81.176 340 51 11 537 867 471155183 471155518 6.710000e-66 261.0
30 TraesCS6B01G179800 chr4D 85.294 136 19 1 1693 1828 278292108 278291974 3.280000e-29 139.0
31 TraesCS6B01G179800 chr3A 90.811 185 14 2 1904 2087 276471830 276471648 6.750000e-61 244.0
32 TraesCS6B01G179800 chr7A 81.855 248 39 6 535 778 433054484 433054729 1.150000e-48 204.0
33 TraesCS6B01G179800 chr4B 77.810 347 65 10 545 882 593151040 593151383 1.150000e-48 204.0
34 TraesCS6B01G179800 chr3D 77.591 357 66 11 531 878 582875980 582875629 1.150000e-48 204.0
35 TraesCS6B01G179800 chr3D 100.000 30 0 0 2349 2378 595760611 595760640 3.400000e-04 56.5
36 TraesCS6B01G179800 chr2A 83.260 227 27 9 893 1111 42153270 42153047 5.330000e-47 198.0
37 TraesCS6B01G179800 chr2B 87.075 147 18 1 893 1039 64988602 64988457 5.410000e-37 165.0
38 TraesCS6B01G179800 chr2B 75.745 235 32 15 1193 1405 64988365 64988134 7.200000e-16 95.3
39 TraesCS6B01G179800 chrUn 100.000 30 0 0 2346 2375 235686921 235686892 3.400000e-04 56.5
40 TraesCS6B01G179800 chrUn 100.000 30 0 0 2346 2375 248747139 248747110 3.400000e-04 56.5
41 TraesCS6B01G179800 chr1A 100.000 30 0 0 2349 2378 558328700 558328729 3.400000e-04 56.5


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 TraesCS6B01G179800 chr6B 199960703 199963147 2444 False 4516.000000 4516 100.000000 1 2445 1 chr6B.!!$F1 2444
1 TraesCS6B01G179800 chr3B 691501908 691504497 2589 True 1307.333333 3651 95.527333 1 2445 3 chr3B.!!$R1 2444
2 TraesCS6B01G179800 chr2D 285062881 285065179 2298 True 903.750000 2590 96.869500 3 2445 4 chr2D.!!$R2 2442
3 TraesCS6B01G179800 chr6D 171915952 171919976 4024 False 677.666667 1055 91.463667 716 2445 3 chr6D.!!$F2 1729
4 TraesCS6B01G179800 chr1D 425969348 425970519 1171 False 582.500000 876 90.069500 4 2285 2 chr1D.!!$F1 2281
5 TraesCS6B01G179800 chr5A 534072216 534072731 515 True 566.000000 566 87.115000 1788 2285 1 chr5A.!!$R1 497

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
508 510 0.036105 ATGGCTTCAGATCGTGCACA 60.036 50.0 18.64 4.45 0.0 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1812 4369 1.383109 TGACCAGAGCCATCCGGAT 60.383 57.895 12.38 12.38 0.0 4.18 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
157 158 1.678627 AGTTCGCTATCATGCTCTCGT 59.321 47.619 0.00 0.00 0.00 4.18
281 282 0.469705 TTGGTGGCAGCATGAAACCT 60.470 50.000 21.29 0.00 41.90 3.50
426 428 2.297701 GGTTGCTTCACTCTTGGTTCA 58.702 47.619 0.00 0.00 0.00 3.18
427 429 2.291741 GGTTGCTTCACTCTTGGTTCAG 59.708 50.000 0.00 0.00 0.00 3.02
428 430 2.260844 TGCTTCACTCTTGGTTCAGG 57.739 50.000 0.00 0.00 0.00 3.86
429 431 1.202806 TGCTTCACTCTTGGTTCAGGG 60.203 52.381 0.00 0.00 0.00 4.45
430 432 1.072331 GCTTCACTCTTGGTTCAGGGA 59.928 52.381 0.00 0.00 0.00 4.20
431 433 2.290577 GCTTCACTCTTGGTTCAGGGAT 60.291 50.000 0.00 0.00 0.00 3.85
432 434 3.812167 GCTTCACTCTTGGTTCAGGGATT 60.812 47.826 0.00 0.00 0.00 3.01
433 435 3.703001 TCACTCTTGGTTCAGGGATTC 57.297 47.619 0.00 0.00 0.00 2.52
434 436 3.251484 TCACTCTTGGTTCAGGGATTCT 58.749 45.455 0.00 0.00 0.00 2.40
435 437 3.652869 TCACTCTTGGTTCAGGGATTCTT 59.347 43.478 0.00 0.00 0.00 2.52
436 438 3.755378 CACTCTTGGTTCAGGGATTCTTG 59.245 47.826 0.00 0.00 0.00 3.02
437 439 2.751806 CTCTTGGTTCAGGGATTCTTGC 59.248 50.000 0.00 0.00 0.00 4.01
438 440 2.108075 TCTTGGTTCAGGGATTCTTGCA 59.892 45.455 0.00 0.00 0.00 4.08
439 441 1.909700 TGGTTCAGGGATTCTTGCAC 58.090 50.000 0.00 0.00 0.00 4.57
440 442 1.144708 TGGTTCAGGGATTCTTGCACA 59.855 47.619 0.00 0.00 0.00 4.57
441 443 2.225091 TGGTTCAGGGATTCTTGCACAT 60.225 45.455 0.00 0.00 0.00 3.21
442 444 2.827921 GGTTCAGGGATTCTTGCACATT 59.172 45.455 0.00 0.00 0.00 2.71
443 445 3.119352 GGTTCAGGGATTCTTGCACATTC 60.119 47.826 0.00 0.00 0.00 2.67
444 446 2.726821 TCAGGGATTCTTGCACATTCC 58.273 47.619 0.00 0.00 0.00 3.01
445 447 1.753073 CAGGGATTCTTGCACATTCCC 59.247 52.381 13.69 13.69 45.39 3.97
446 448 1.851304 GGGATTCTTGCACATTCCCA 58.149 50.000 15.62 0.00 44.58 4.37
447 449 2.178580 GGGATTCTTGCACATTCCCAA 58.821 47.619 15.62 0.00 44.58 4.12
448 450 2.566724 GGGATTCTTGCACATTCCCAAA 59.433 45.455 15.62 0.00 44.58 3.28
449 451 3.368739 GGGATTCTTGCACATTCCCAAAG 60.369 47.826 15.62 0.00 44.58 2.77
450 452 3.259123 GGATTCTTGCACATTCCCAAAGT 59.741 43.478 0.00 0.00 0.00 2.66
451 453 4.462483 GGATTCTTGCACATTCCCAAAGTA 59.538 41.667 0.00 0.00 0.00 2.24
452 454 5.393461 GGATTCTTGCACATTCCCAAAGTAG 60.393 44.000 0.00 0.00 0.00 2.57
453 455 2.819608 TCTTGCACATTCCCAAAGTAGC 59.180 45.455 0.00 0.00 0.00 3.58
454 456 2.284754 TGCACATTCCCAAAGTAGCA 57.715 45.000 0.00 0.00 0.00 3.49
455 457 2.591923 TGCACATTCCCAAAGTAGCAA 58.408 42.857 0.00 0.00 0.00 3.91
456 458 2.295909 TGCACATTCCCAAAGTAGCAAC 59.704 45.455 0.00 0.00 0.00 4.17
457 459 2.558359 GCACATTCCCAAAGTAGCAACT 59.442 45.455 0.00 0.00 37.65 3.16
459 461 4.798574 CACATTCCCAAAGTAGCAACTTC 58.201 43.478 0.00 0.00 45.37 3.01
460 462 4.278170 CACATTCCCAAAGTAGCAACTTCA 59.722 41.667 0.00 0.00 45.37 3.02
461 463 4.892934 ACATTCCCAAAGTAGCAACTTCAA 59.107 37.500 0.00 0.00 45.37 2.69
462 464 5.010012 ACATTCCCAAAGTAGCAACTTCAAG 59.990 40.000 0.00 0.00 45.37 3.02
463 465 4.164843 TCCCAAAGTAGCAACTTCAAGT 57.835 40.909 0.00 0.00 45.37 3.16
464 466 4.532834 TCCCAAAGTAGCAACTTCAAGTT 58.467 39.130 0.00 0.00 45.37 2.66
465 467 5.686753 TCCCAAAGTAGCAACTTCAAGTTA 58.313 37.500 1.43 0.00 45.37 2.24
466 468 6.303839 TCCCAAAGTAGCAACTTCAAGTTAT 58.696 36.000 1.43 0.00 45.37 1.89
467 469 7.455058 TCCCAAAGTAGCAACTTCAAGTTATA 58.545 34.615 1.43 0.00 45.37 0.98
468 470 7.606456 TCCCAAAGTAGCAACTTCAAGTTATAG 59.394 37.037 1.43 0.00 45.37 1.31
469 471 7.148239 CCCAAAGTAGCAACTTCAAGTTATAGG 60.148 40.741 1.43 0.00 45.37 2.57
470 472 7.390718 CCAAAGTAGCAACTTCAAGTTATAGGT 59.609 37.037 1.43 0.00 45.37 3.08
471 473 9.431887 CAAAGTAGCAACTTCAAGTTATAGGTA 57.568 33.333 1.43 0.00 45.37 3.08
472 474 9.654663 AAAGTAGCAACTTCAAGTTATAGGTAG 57.345 33.333 1.43 0.00 45.37 3.18
473 475 7.783042 AGTAGCAACTTCAAGTTATAGGTAGG 58.217 38.462 1.43 0.00 36.03 3.18
474 476 6.869206 AGCAACTTCAAGTTATAGGTAGGA 57.131 37.500 1.43 0.00 36.03 2.94
475 477 6.879400 AGCAACTTCAAGTTATAGGTAGGAG 58.121 40.000 1.43 0.00 36.03 3.69
476 478 6.668283 AGCAACTTCAAGTTATAGGTAGGAGA 59.332 38.462 1.43 0.00 36.03 3.71
477 479 7.180408 AGCAACTTCAAGTTATAGGTAGGAGAA 59.820 37.037 1.43 0.00 36.03 2.87
478 480 7.822822 GCAACTTCAAGTTATAGGTAGGAGAAA 59.177 37.037 1.43 0.00 36.03 2.52
479 481 9.372369 CAACTTCAAGTTATAGGTAGGAGAAAG 57.628 37.037 1.43 0.00 36.03 2.62
480 482 8.667592 ACTTCAAGTTATAGGTAGGAGAAAGT 57.332 34.615 0.00 0.00 0.00 2.66
481 483 9.102453 ACTTCAAGTTATAGGTAGGAGAAAGTT 57.898 33.333 0.00 0.00 0.00 2.66
482 484 9.372369 CTTCAAGTTATAGGTAGGAGAAAGTTG 57.628 37.037 0.00 0.00 0.00 3.16
483 485 7.328737 TCAAGTTATAGGTAGGAGAAAGTTGC 58.671 38.462 0.00 0.00 30.82 4.17
484 486 6.869206 AGTTATAGGTAGGAGAAAGTTGCA 57.131 37.500 0.00 0.00 0.00 4.08
485 487 6.641474 AGTTATAGGTAGGAGAAAGTTGCAC 58.359 40.000 0.00 0.00 0.00 4.57
486 488 6.440965 AGTTATAGGTAGGAGAAAGTTGCACT 59.559 38.462 0.00 0.00 0.00 4.40
487 489 5.763876 ATAGGTAGGAGAAAGTTGCACTT 57.236 39.130 0.00 0.00 40.80 3.16
488 490 6.869206 ATAGGTAGGAGAAAGTTGCACTTA 57.131 37.500 0.00 0.00 37.47 2.24
489 491 5.562298 AGGTAGGAGAAAGTTGCACTTAA 57.438 39.130 0.00 0.00 37.47 1.85
490 492 6.128138 AGGTAGGAGAAAGTTGCACTTAAT 57.872 37.500 0.00 0.00 37.47 1.40
491 493 5.940470 AGGTAGGAGAAAGTTGCACTTAATG 59.060 40.000 0.00 0.00 37.47 1.90
492 494 5.123979 GGTAGGAGAAAGTTGCACTTAATGG 59.876 44.000 0.00 0.00 37.47 3.16
493 495 3.507622 AGGAGAAAGTTGCACTTAATGGC 59.492 43.478 0.00 0.00 37.47 4.40
494 496 3.507622 GGAGAAAGTTGCACTTAATGGCT 59.492 43.478 0.00 0.00 37.47 4.75
495 497 4.021981 GGAGAAAGTTGCACTTAATGGCTT 60.022 41.667 0.00 0.00 37.47 4.35
496 498 5.126396 AGAAAGTTGCACTTAATGGCTTC 57.874 39.130 0.00 0.00 37.47 3.86
497 499 4.584325 AGAAAGTTGCACTTAATGGCTTCA 59.416 37.500 0.00 0.00 37.47 3.02
498 500 4.510038 AAGTTGCACTTAATGGCTTCAG 57.490 40.909 0.00 0.00 36.52 3.02
499 501 3.754965 AGTTGCACTTAATGGCTTCAGA 58.245 40.909 0.00 0.00 0.00 3.27
500 502 4.338879 AGTTGCACTTAATGGCTTCAGAT 58.661 39.130 0.00 0.00 0.00 2.90
501 503 4.397417 AGTTGCACTTAATGGCTTCAGATC 59.603 41.667 0.00 0.00 0.00 2.75
502 504 2.938451 TGCACTTAATGGCTTCAGATCG 59.062 45.455 0.00 0.00 0.00 3.69
503 505 2.939103 GCACTTAATGGCTTCAGATCGT 59.061 45.455 0.00 0.00 0.00 3.73
504 506 3.242543 GCACTTAATGGCTTCAGATCGTG 60.243 47.826 0.00 0.00 0.00 4.35
505 507 2.939103 ACTTAATGGCTTCAGATCGTGC 59.061 45.455 0.00 0.00 0.00 5.34
506 508 2.689553 TAATGGCTTCAGATCGTGCA 57.310 45.000 0.00 0.00 0.00 4.57
507 509 1.089920 AATGGCTTCAGATCGTGCAC 58.910 50.000 6.82 6.82 0.00 4.57
508 510 0.036105 ATGGCTTCAGATCGTGCACA 60.036 50.000 18.64 4.45 0.00 4.57
509 511 0.036105 TGGCTTCAGATCGTGCACAT 60.036 50.000 18.64 9.52 0.00 3.21
510 512 1.089920 GGCTTCAGATCGTGCACATT 58.910 50.000 18.64 2.44 0.00 2.71
511 513 2.279741 GGCTTCAGATCGTGCACATTA 58.720 47.619 18.64 1.36 0.00 1.90
512 514 2.030946 GGCTTCAGATCGTGCACATTAC 59.969 50.000 18.64 4.98 0.00 1.89
513 515 2.672874 GCTTCAGATCGTGCACATTACA 59.327 45.455 18.64 0.00 0.00 2.41
514 516 3.310774 GCTTCAGATCGTGCACATTACAT 59.689 43.478 18.64 0.00 0.00 2.29
515 517 4.201851 GCTTCAGATCGTGCACATTACATT 60.202 41.667 18.64 0.00 0.00 2.71
516 518 5.674569 GCTTCAGATCGTGCACATTACATTT 60.675 40.000 18.64 0.00 0.00 2.32
517 519 5.878332 TCAGATCGTGCACATTACATTTT 57.122 34.783 18.64 0.00 0.00 1.82
518 520 6.252967 TCAGATCGTGCACATTACATTTTT 57.747 33.333 18.64 0.00 0.00 1.94
570 572 3.763097 CAAAGCTTGCGTATCATTCCA 57.237 42.857 0.00 0.00 0.00 3.53
571 573 4.297299 CAAAGCTTGCGTATCATTCCAT 57.703 40.909 0.00 0.00 0.00 3.41
572 574 4.675510 CAAAGCTTGCGTATCATTCCATT 58.324 39.130 0.00 0.00 0.00 3.16
573 575 5.820131 CAAAGCTTGCGTATCATTCCATTA 58.180 37.500 0.00 0.00 0.00 1.90
574 576 6.441274 CAAAGCTTGCGTATCATTCCATTAT 58.559 36.000 0.00 0.00 0.00 1.28
575 577 6.639632 AAGCTTGCGTATCATTCCATTATT 57.360 33.333 0.00 0.00 0.00 1.40
576 578 7.744087 AAGCTTGCGTATCATTCCATTATTA 57.256 32.000 0.00 0.00 0.00 0.98
577 579 7.369803 AGCTTGCGTATCATTCCATTATTAG 57.630 36.000 0.00 0.00 0.00 1.73
578 580 7.161404 AGCTTGCGTATCATTCCATTATTAGA 58.839 34.615 0.00 0.00 0.00 2.10
579 581 7.661437 AGCTTGCGTATCATTCCATTATTAGAA 59.339 33.333 0.00 0.00 0.00 2.10
580 582 8.289618 GCTTGCGTATCATTCCATTATTAGAAA 58.710 33.333 0.00 0.00 0.00 2.52
583 585 9.554395 TGCGTATCATTCCATTATTAGAAAAGA 57.446 29.630 0.00 0.00 0.00 2.52
601 603 7.936584 AGAAAAGAGAATGAGTATAGTCGAGG 58.063 38.462 3.15 0.00 0.00 4.63
602 604 6.642707 AAAGAGAATGAGTATAGTCGAGGG 57.357 41.667 3.15 0.00 0.00 4.30
603 605 5.313280 AGAGAATGAGTATAGTCGAGGGT 57.687 43.478 3.15 0.00 0.00 4.34
604 606 6.436738 AGAGAATGAGTATAGTCGAGGGTA 57.563 41.667 3.15 0.00 0.00 3.69
605 607 6.232692 AGAGAATGAGTATAGTCGAGGGTAC 58.767 44.000 3.15 0.00 0.00 3.34
606 608 5.938279 AGAATGAGTATAGTCGAGGGTACA 58.062 41.667 3.15 0.00 0.00 2.90
607 609 6.363065 AGAATGAGTATAGTCGAGGGTACAA 58.637 40.000 3.15 0.00 0.00 2.41
608 610 6.262720 AGAATGAGTATAGTCGAGGGTACAAC 59.737 42.308 3.15 0.00 0.00 3.32
609 611 4.847198 TGAGTATAGTCGAGGGTACAACA 58.153 43.478 3.15 0.00 0.00 3.33
610 612 4.637534 TGAGTATAGTCGAGGGTACAACAC 59.362 45.833 3.15 0.00 0.00 3.32
611 613 4.592942 AGTATAGTCGAGGGTACAACACA 58.407 43.478 0.00 0.00 0.00 3.72
612 614 5.198965 AGTATAGTCGAGGGTACAACACAT 58.801 41.667 0.00 0.00 0.00 3.21
613 615 2.743636 AGTCGAGGGTACAACACATG 57.256 50.000 0.00 0.00 0.00 3.21
614 616 2.244695 AGTCGAGGGTACAACACATGA 58.755 47.619 0.00 0.00 0.00 3.07
615 617 2.029290 AGTCGAGGGTACAACACATGAC 60.029 50.000 0.00 0.00 30.93 3.06
616 618 1.964933 TCGAGGGTACAACACATGACA 59.035 47.619 0.00 0.00 0.00 3.58
617 619 2.565391 TCGAGGGTACAACACATGACAT 59.435 45.455 0.00 0.00 0.00 3.06
618 620 2.672874 CGAGGGTACAACACATGACATG 59.327 50.000 14.02 14.02 0.00 3.21
619 621 3.616317 CGAGGGTACAACACATGACATGA 60.616 47.826 22.19 0.00 0.00 3.07
620 622 4.323417 GAGGGTACAACACATGACATGAA 58.677 43.478 22.19 0.00 0.00 2.57
621 623 4.072131 AGGGTACAACACATGACATGAAC 58.928 43.478 22.19 9.14 0.00 3.18
622 624 3.120338 GGGTACAACACATGACATGAACG 60.120 47.826 22.19 11.67 0.00 3.95
623 625 3.496884 GGTACAACACATGACATGAACGT 59.503 43.478 22.19 12.27 0.00 3.99
624 626 3.607422 ACAACACATGACATGAACGTG 57.393 42.857 22.19 11.74 0.00 4.49
625 627 2.286950 ACAACACATGACATGAACGTGC 60.287 45.455 22.19 0.00 0.00 5.34
626 628 1.592064 ACACATGACATGAACGTGCA 58.408 45.000 22.19 0.00 0.00 4.57
627 629 1.946081 ACACATGACATGAACGTGCAA 59.054 42.857 22.19 0.00 0.00 4.08
628 630 2.357323 ACACATGACATGAACGTGCAAA 59.643 40.909 22.19 0.00 0.00 3.68
629 631 2.975193 CACATGACATGAACGTGCAAAG 59.025 45.455 22.19 0.00 0.00 2.77
630 632 2.030893 ACATGACATGAACGTGCAAAGG 60.031 45.455 22.19 0.00 0.00 3.11
631 633 0.310543 TGACATGAACGTGCAAAGGC 59.689 50.000 0.00 0.00 41.68 4.35
643 645 2.798976 GCAAAGGCATGAACACTGAA 57.201 45.000 0.00 0.00 40.72 3.02
644 646 2.397549 GCAAAGGCATGAACACTGAAC 58.602 47.619 0.00 0.00 40.72 3.18
645 647 2.863704 GCAAAGGCATGAACACTGAACC 60.864 50.000 0.00 0.00 40.72 3.62
646 648 1.620822 AAGGCATGAACACTGAACCC 58.379 50.000 0.00 0.00 0.00 4.11
647 649 0.606401 AGGCATGAACACTGAACCCG 60.606 55.000 0.00 0.00 0.00 5.28
648 650 1.586154 GGCATGAACACTGAACCCGG 61.586 60.000 0.00 0.00 0.00 5.73
649 651 0.605319 GCATGAACACTGAACCCGGA 60.605 55.000 0.73 0.00 0.00 5.14
650 652 1.442769 CATGAACACTGAACCCGGAG 58.557 55.000 0.73 0.00 0.00 4.63
651 653 0.321653 ATGAACACTGAACCCGGAGC 60.322 55.000 0.73 0.00 0.00 4.70
652 654 1.070786 GAACACTGAACCCGGAGCA 59.929 57.895 0.73 0.00 0.00 4.26
653 655 0.951040 GAACACTGAACCCGGAGCAG 60.951 60.000 0.73 9.93 35.81 4.24
654 656 1.407656 AACACTGAACCCGGAGCAGA 61.408 55.000 20.23 0.00 33.94 4.26
655 657 1.079543 CACTGAACCCGGAGCAGAG 60.080 63.158 20.23 11.54 33.94 3.35
656 658 1.228894 ACTGAACCCGGAGCAGAGA 60.229 57.895 20.23 0.00 33.94 3.10
657 659 1.254284 ACTGAACCCGGAGCAGAGAG 61.254 60.000 20.23 3.44 33.94 3.20
658 660 0.967887 CTGAACCCGGAGCAGAGAGA 60.968 60.000 0.73 0.00 0.00 3.10
659 661 1.251527 TGAACCCGGAGCAGAGAGAC 61.252 60.000 0.73 0.00 0.00 3.36
660 662 1.228894 AACCCGGAGCAGAGAGACA 60.229 57.895 0.73 0.00 0.00 3.41
661 663 0.832135 AACCCGGAGCAGAGAGACAA 60.832 55.000 0.73 0.00 0.00 3.18
662 664 1.254284 ACCCGGAGCAGAGAGACAAG 61.254 60.000 0.73 0.00 0.00 3.16
663 665 1.515020 CCGGAGCAGAGAGACAAGG 59.485 63.158 0.00 0.00 0.00 3.61
664 666 1.515020 CGGAGCAGAGAGACAAGGG 59.485 63.158 0.00 0.00 0.00 3.95
665 667 0.967887 CGGAGCAGAGAGACAAGGGA 60.968 60.000 0.00 0.00 0.00 4.20
666 668 1.494960 GGAGCAGAGAGACAAGGGAT 58.505 55.000 0.00 0.00 0.00 3.85
667 669 1.138661 GGAGCAGAGAGACAAGGGATG 59.861 57.143 0.00 0.00 0.00 3.51
668 670 0.540923 AGCAGAGAGACAAGGGATGC 59.459 55.000 0.00 0.00 0.00 3.91
669 671 0.540923 GCAGAGAGACAAGGGATGCT 59.459 55.000 0.00 0.00 0.00 3.79
670 672 1.473080 GCAGAGAGACAAGGGATGCTC 60.473 57.143 0.00 0.00 34.42 4.26
671 673 1.829849 CAGAGAGACAAGGGATGCTCA 59.170 52.381 0.00 0.00 35.76 4.26
672 674 2.109774 AGAGAGACAAGGGATGCTCAG 58.890 52.381 0.00 0.00 35.76 3.35
673 675 0.540923 AGAGACAAGGGATGCTCAGC 59.459 55.000 0.00 0.00 35.76 4.26
674 676 0.463474 GAGACAAGGGATGCTCAGCC 60.463 60.000 0.00 0.00 34.39 4.85
680 682 4.421365 GGATGCTCAGCCCAAACA 57.579 55.556 0.00 0.00 0.00 2.83
681 683 2.892025 GGATGCTCAGCCCAAACAT 58.108 52.632 0.00 0.00 0.00 2.71
682 684 0.458669 GGATGCTCAGCCCAAACATG 59.541 55.000 0.00 0.00 0.00 3.21
683 685 0.458669 GATGCTCAGCCCAAACATGG 59.541 55.000 0.00 0.00 0.00 3.66
684 686 0.040058 ATGCTCAGCCCAAACATGGA 59.960 50.000 0.00 0.00 0.00 3.41
685 687 0.178967 TGCTCAGCCCAAACATGGAA 60.179 50.000 0.00 0.00 0.00 3.53
686 688 0.968405 GCTCAGCCCAAACATGGAAA 59.032 50.000 0.00 0.00 0.00 3.13
687 689 1.344114 GCTCAGCCCAAACATGGAAAA 59.656 47.619 0.00 0.00 0.00 2.29
688 690 2.611224 GCTCAGCCCAAACATGGAAAAG 60.611 50.000 0.00 0.00 0.00 2.27
689 691 2.892852 CTCAGCCCAAACATGGAAAAGA 59.107 45.455 0.00 0.00 0.00 2.52
690 692 2.627699 TCAGCCCAAACATGGAAAAGAC 59.372 45.455 0.00 0.00 0.00 3.01
691 693 2.364970 CAGCCCAAACATGGAAAAGACA 59.635 45.455 0.00 0.00 0.00 3.41
692 694 2.365293 AGCCCAAACATGGAAAAGACAC 59.635 45.455 0.00 0.00 0.00 3.67
693 695 2.102252 GCCCAAACATGGAAAAGACACA 59.898 45.455 0.00 0.00 0.00 3.72
694 696 3.431486 GCCCAAACATGGAAAAGACACAA 60.431 43.478 0.00 0.00 0.00 3.33
695 697 4.119136 CCCAAACATGGAAAAGACACAAC 58.881 43.478 0.00 0.00 0.00 3.32
696 698 4.141959 CCCAAACATGGAAAAGACACAACT 60.142 41.667 0.00 0.00 0.00 3.16
697 699 5.068460 CCCAAACATGGAAAAGACACAACTA 59.932 40.000 0.00 0.00 0.00 2.24
698 700 6.406400 CCCAAACATGGAAAAGACACAACTAA 60.406 38.462 0.00 0.00 0.00 2.24
699 701 7.038659 CCAAACATGGAAAAGACACAACTAAA 58.961 34.615 0.00 0.00 0.00 1.85
700 702 7.010091 CCAAACATGGAAAAGACACAACTAAAC 59.990 37.037 0.00 0.00 0.00 2.01
701 703 6.144078 ACATGGAAAAGACACAACTAAACC 57.856 37.500 0.00 0.00 0.00 3.27
702 704 5.068591 ACATGGAAAAGACACAACTAAACCC 59.931 40.000 0.00 0.00 0.00 4.11
703 705 4.601084 TGGAAAAGACACAACTAAACCCA 58.399 39.130 0.00 0.00 0.00 4.51
704 706 4.399934 TGGAAAAGACACAACTAAACCCAC 59.600 41.667 0.00 0.00 0.00 4.61
705 707 4.202080 GGAAAAGACACAACTAAACCCACC 60.202 45.833 0.00 0.00 0.00 4.61
706 708 3.655615 AAGACACAACTAAACCCACCA 57.344 42.857 0.00 0.00 0.00 4.17
707 709 3.655615 AGACACAACTAAACCCACCAA 57.344 42.857 0.00 0.00 0.00 3.67
708 710 4.178956 AGACACAACTAAACCCACCAAT 57.821 40.909 0.00 0.00 0.00 3.16
709 711 4.142038 AGACACAACTAAACCCACCAATC 58.858 43.478 0.00 0.00 0.00 2.67
710 712 3.227614 ACACAACTAAACCCACCAATCC 58.772 45.455 0.00 0.00 0.00 3.01
711 713 3.117284 ACACAACTAAACCCACCAATCCT 60.117 43.478 0.00 0.00 0.00 3.24
712 714 4.105057 ACACAACTAAACCCACCAATCCTA 59.895 41.667 0.00 0.00 0.00 2.94
713 715 4.700213 CACAACTAAACCCACCAATCCTAG 59.300 45.833 0.00 0.00 0.00 3.02
714 716 4.600111 ACAACTAAACCCACCAATCCTAGA 59.400 41.667 0.00 0.00 0.00 2.43
764 1059 3.137176 ACATCGGACATCTCCAAATCCAT 59.863 43.478 0.00 0.00 36.12 3.41
768 1063 3.217626 GGACATCTCCAAATCCATCACC 58.782 50.000 0.00 0.00 36.42 4.02
836 1131 3.130819 CGCAAAGCCGCCACCATA 61.131 61.111 0.00 0.00 0.00 2.74
1089 1387 4.816385 CAGAATGGTTCCTATAACGTGCAT 59.184 41.667 0.00 0.00 0.00 3.96
1271 1569 3.478509 GGGATAGCTTACTGTCGAGAGA 58.521 50.000 17.61 0.00 35.00 3.10
1423 1721 6.321848 TGCTATATTTCATTGTGCATCAGG 57.678 37.500 0.00 0.00 0.00 3.86
1640 4193 3.999663 AGTTACAGATTTGCTCAGCAGTC 59.000 43.478 0.00 2.44 40.61 3.51
1710 4265 7.281774 TGCCTCTTTTTCAGATAGCTAAAGATG 59.718 37.037 0.00 0.96 35.14 2.90
1735 4290 0.827507 GCTGGCCCCTTGTTTCTTGA 60.828 55.000 0.00 0.00 0.00 3.02
1812 4369 6.909550 TTTTAAGGGAAGCAAGCATCTTTA 57.090 33.333 0.00 0.00 0.00 1.85
1858 4415 7.133133 AGAGTTAAAACCAAAGTCCACTCTA 57.867 36.000 0.00 0.00 0.00 2.43
1878 4435 4.890581 TCTAAGTGCTTGGATCTCCTCTAC 59.109 45.833 0.00 0.00 36.82 2.59
1940 4497 5.763239 TCTTTTAGGGGTATCCTCTACCT 57.237 43.478 0.00 0.00 44.06 3.08
1956 4513 9.693739 ATCCTCTACCTCTATGTAATCATGTAG 57.306 37.037 0.00 0.00 35.70 2.74
1985 4542 2.484742 TTACTCCCCTTTTTCCTCGC 57.515 50.000 0.00 0.00 0.00 5.03
2005 4563 9.778741 TCCTCGCTCTATTAATGAAAATTACAT 57.221 29.630 0.00 0.00 0.00 2.29
2031 4589 0.611062 GGGTTCCCCTACTGTTTGCC 60.611 60.000 0.00 0.00 41.34 4.52
2032 4590 0.611062 GGTTCCCCTACTGTTTGCCC 60.611 60.000 0.00 0.00 0.00 5.36
2033 4591 0.111639 GTTCCCCTACTGTTTGCCCA 59.888 55.000 0.00 0.00 0.00 5.36
2034 4592 1.080638 TTCCCCTACTGTTTGCCCAT 58.919 50.000 0.00 0.00 0.00 4.00
2176 4759 1.768077 GGCAGTCATAGAGGGGGCT 60.768 63.158 0.00 0.00 0.00 5.19
2179 4762 1.799933 CAGTCATAGAGGGGGCTTCT 58.200 55.000 0.00 0.00 0.00 2.85
2383 5137 9.538508 TTCTTTACGAAGGGAGTAATTATTAGC 57.461 33.333 0.00 0.00 34.50 3.09
2397 5151 9.765795 AGTAATTATTAGCGCTCTCTTTGTATT 57.234 29.630 16.34 6.94 0.00 1.89
2404 5158 4.697352 AGCGCTCTCTTTGTATTCATTGTT 59.303 37.500 2.64 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 6.567050 CCACATTTATAAGAGTTGCTGCAAT 58.433 36.000 19.11 7.63 0.00 3.56
157 158 2.953648 CCCATACAGCTGAATGCAATGA 59.046 45.455 23.35 0.00 45.94 2.57
281 282 5.731957 TTTACCAGTATATCATGCGCCTA 57.268 39.130 4.18 0.00 0.00 3.93
426 428 2.149973 GGGAATGTGCAAGAATCCCT 57.850 50.000 16.84 0.00 45.21 4.20
428 430 3.259123 ACTTTGGGAATGTGCAAGAATCC 59.741 43.478 0.00 0.00 0.00 3.01
429 431 4.525912 ACTTTGGGAATGTGCAAGAATC 57.474 40.909 0.00 0.00 0.00 2.52
430 432 4.082026 GCTACTTTGGGAATGTGCAAGAAT 60.082 41.667 0.00 0.00 0.00 2.40
431 433 3.255642 GCTACTTTGGGAATGTGCAAGAA 59.744 43.478 0.00 0.00 0.00 2.52
432 434 2.819608 GCTACTTTGGGAATGTGCAAGA 59.180 45.455 0.00 0.00 0.00 3.02
433 435 2.557924 TGCTACTTTGGGAATGTGCAAG 59.442 45.455 0.00 0.00 0.00 4.01
434 436 2.591923 TGCTACTTTGGGAATGTGCAA 58.408 42.857 0.00 0.00 0.00 4.08
435 437 2.284754 TGCTACTTTGGGAATGTGCA 57.715 45.000 0.00 0.00 0.00 4.57
436 438 2.558359 AGTTGCTACTTTGGGAATGTGC 59.442 45.455 0.00 0.00 0.00 4.57
437 439 4.278170 TGAAGTTGCTACTTTGGGAATGTG 59.722 41.667 14.73 0.00 44.51 3.21
438 440 4.469657 TGAAGTTGCTACTTTGGGAATGT 58.530 39.130 14.73 0.00 44.51 2.71
439 441 5.010012 ACTTGAAGTTGCTACTTTGGGAATG 59.990 40.000 14.73 4.81 44.51 2.67
440 442 5.140454 ACTTGAAGTTGCTACTTTGGGAAT 58.860 37.500 14.73 0.00 44.51 3.01
441 443 4.532834 ACTTGAAGTTGCTACTTTGGGAA 58.467 39.130 14.73 5.56 44.51 3.97
442 444 4.164843 ACTTGAAGTTGCTACTTTGGGA 57.835 40.909 14.73 1.69 44.51 4.37
443 445 4.918810 AACTTGAAGTTGCTACTTTGGG 57.081 40.909 14.73 9.86 44.51 4.12
444 446 7.390718 ACCTATAACTTGAAGTTGCTACTTTGG 59.609 37.037 20.06 12.05 44.51 3.28
445 447 8.324163 ACCTATAACTTGAAGTTGCTACTTTG 57.676 34.615 20.06 10.51 44.51 2.77
446 448 9.654663 CTACCTATAACTTGAAGTTGCTACTTT 57.345 33.333 20.06 1.54 44.51 2.66
448 450 7.618512 TCCTACCTATAACTTGAAGTTGCTACT 59.381 37.037 20.06 0.00 39.11 2.57
449 451 7.779073 TCCTACCTATAACTTGAAGTTGCTAC 58.221 38.462 20.06 0.00 39.11 3.58
450 452 7.837689 TCTCCTACCTATAACTTGAAGTTGCTA 59.162 37.037 20.06 10.53 39.11 3.49
451 453 6.668283 TCTCCTACCTATAACTTGAAGTTGCT 59.332 38.462 20.06 9.97 39.11 3.91
452 454 6.875076 TCTCCTACCTATAACTTGAAGTTGC 58.125 40.000 20.06 0.00 39.11 4.17
453 455 9.372369 CTTTCTCCTACCTATAACTTGAAGTTG 57.628 37.037 20.06 6.24 39.11 3.16
454 456 9.102453 ACTTTCTCCTACCTATAACTTGAAGTT 57.898 33.333 15.57 15.57 41.97 2.66
455 457 8.667592 ACTTTCTCCTACCTATAACTTGAAGT 57.332 34.615 0.00 0.00 0.00 3.01
456 458 9.372369 CAACTTTCTCCTACCTATAACTTGAAG 57.628 37.037 0.00 0.00 0.00 3.02
457 459 7.822822 GCAACTTTCTCCTACCTATAACTTGAA 59.177 37.037 0.00 0.00 0.00 2.69
458 460 7.038587 TGCAACTTTCTCCTACCTATAACTTGA 60.039 37.037 0.00 0.00 0.00 3.02
459 461 7.064728 GTGCAACTTTCTCCTACCTATAACTTG 59.935 40.741 0.00 0.00 0.00 3.16
460 462 7.104290 GTGCAACTTTCTCCTACCTATAACTT 58.896 38.462 0.00 0.00 0.00 2.66
461 463 6.641474 GTGCAACTTTCTCCTACCTATAACT 58.359 40.000 0.00 0.00 0.00 2.24
462 464 6.905544 GTGCAACTTTCTCCTACCTATAAC 57.094 41.667 0.00 0.00 0.00 1.89
479 481 4.666237 GATCTGAAGCCATTAAGTGCAAC 58.334 43.478 0.00 0.00 0.00 4.17
480 482 3.374988 CGATCTGAAGCCATTAAGTGCAA 59.625 43.478 0.00 0.00 0.00 4.08
481 483 2.938451 CGATCTGAAGCCATTAAGTGCA 59.062 45.455 2.30 0.00 0.00 4.57
482 484 2.939103 ACGATCTGAAGCCATTAAGTGC 59.061 45.455 0.00 0.00 0.00 4.40
483 485 3.242543 GCACGATCTGAAGCCATTAAGTG 60.243 47.826 0.00 0.00 0.00 3.16
484 486 2.939103 GCACGATCTGAAGCCATTAAGT 59.061 45.455 0.00 0.00 0.00 2.24
485 487 2.938451 TGCACGATCTGAAGCCATTAAG 59.062 45.455 0.00 0.00 0.00 1.85
486 488 2.677836 GTGCACGATCTGAAGCCATTAA 59.322 45.455 0.00 0.00 0.00 1.40
487 489 2.279741 GTGCACGATCTGAAGCCATTA 58.720 47.619 0.00 0.00 0.00 1.90
488 490 1.089920 GTGCACGATCTGAAGCCATT 58.910 50.000 0.00 0.00 0.00 3.16
489 491 0.036105 TGTGCACGATCTGAAGCCAT 60.036 50.000 13.13 0.00 0.00 4.40
490 492 0.036105 ATGTGCACGATCTGAAGCCA 60.036 50.000 13.13 0.00 0.00 4.75
491 493 1.089920 AATGTGCACGATCTGAAGCC 58.910 50.000 13.13 0.00 0.00 4.35
492 494 2.672874 TGTAATGTGCACGATCTGAAGC 59.327 45.455 13.13 0.00 0.00 3.86
493 495 5.475273 AATGTAATGTGCACGATCTGAAG 57.525 39.130 13.13 0.00 0.00 3.02
494 496 5.878332 AAATGTAATGTGCACGATCTGAA 57.122 34.783 13.13 0.00 0.00 3.02
495 497 5.878332 AAAATGTAATGTGCACGATCTGA 57.122 34.783 13.13 0.00 0.00 3.27
550 552 3.763097 TGGAATGATACGCAAGCTTTG 57.237 42.857 0.00 0.00 45.62 2.77
551 553 4.989279 AATGGAATGATACGCAAGCTTT 57.011 36.364 0.00 0.00 45.62 3.51
552 554 6.639632 AATAATGGAATGATACGCAAGCTT 57.360 33.333 0.00 0.00 45.62 3.74
553 555 7.161404 TCTAATAATGGAATGATACGCAAGCT 58.839 34.615 0.00 0.00 45.62 3.74
554 556 7.364522 TCTAATAATGGAATGATACGCAAGC 57.635 36.000 0.00 0.00 45.62 4.01
557 559 9.554395 TCTTTTCTAATAATGGAATGATACGCA 57.446 29.630 0.00 0.00 0.00 5.24
575 577 9.058174 CCTCGACTATACTCATTCTCTTTTCTA 57.942 37.037 0.00 0.00 0.00 2.10
576 578 7.013846 CCCTCGACTATACTCATTCTCTTTTCT 59.986 40.741 0.00 0.00 0.00 2.52
577 579 7.142680 CCCTCGACTATACTCATTCTCTTTTC 58.857 42.308 0.00 0.00 0.00 2.29
578 580 6.608002 ACCCTCGACTATACTCATTCTCTTTT 59.392 38.462 0.00 0.00 0.00 2.27
579 581 6.130569 ACCCTCGACTATACTCATTCTCTTT 58.869 40.000 0.00 0.00 0.00 2.52
580 582 5.697067 ACCCTCGACTATACTCATTCTCTT 58.303 41.667 0.00 0.00 0.00 2.85
581 583 5.313280 ACCCTCGACTATACTCATTCTCT 57.687 43.478 0.00 0.00 0.00 3.10
582 584 5.996513 TGTACCCTCGACTATACTCATTCTC 59.003 44.000 0.00 0.00 0.00 2.87
583 585 5.938279 TGTACCCTCGACTATACTCATTCT 58.062 41.667 0.00 0.00 0.00 2.40
584 586 6.039047 TGTTGTACCCTCGACTATACTCATTC 59.961 42.308 0.00 0.00 0.00 2.67
585 587 5.889853 TGTTGTACCCTCGACTATACTCATT 59.110 40.000 0.00 0.00 0.00 2.57
586 588 5.298777 GTGTTGTACCCTCGACTATACTCAT 59.701 44.000 0.00 0.00 0.00 2.90
587 589 4.637534 GTGTTGTACCCTCGACTATACTCA 59.362 45.833 0.00 0.00 0.00 3.41
588 590 4.637534 TGTGTTGTACCCTCGACTATACTC 59.362 45.833 0.00 0.00 0.00 2.59
589 591 4.592942 TGTGTTGTACCCTCGACTATACT 58.407 43.478 0.00 0.00 0.00 2.12
590 592 4.970662 TGTGTTGTACCCTCGACTATAC 57.029 45.455 0.00 0.00 0.00 1.47
591 593 5.066893 GTCATGTGTTGTACCCTCGACTATA 59.933 44.000 0.00 0.00 0.00 1.31
592 594 4.021229 TCATGTGTTGTACCCTCGACTAT 58.979 43.478 0.00 0.00 0.00 2.12
593 595 3.192001 GTCATGTGTTGTACCCTCGACTA 59.808 47.826 0.00 0.00 0.00 2.59
594 596 2.029290 GTCATGTGTTGTACCCTCGACT 60.029 50.000 0.00 0.00 0.00 4.18
595 597 2.288579 TGTCATGTGTTGTACCCTCGAC 60.289 50.000 0.00 0.00 0.00 4.20
596 598 1.964933 TGTCATGTGTTGTACCCTCGA 59.035 47.619 0.00 0.00 0.00 4.04
597 599 2.448926 TGTCATGTGTTGTACCCTCG 57.551 50.000 0.00 0.00 0.00 4.63
598 600 3.937814 TCATGTCATGTGTTGTACCCTC 58.062 45.455 12.54 0.00 0.00 4.30
599 601 4.072131 GTTCATGTCATGTGTTGTACCCT 58.928 43.478 12.54 0.00 0.00 4.34
600 602 3.120338 CGTTCATGTCATGTGTTGTACCC 60.120 47.826 12.54 0.00 0.00 3.69
601 603 3.496884 ACGTTCATGTCATGTGTTGTACC 59.503 43.478 12.54 0.00 0.00 3.34
602 604 4.454231 CACGTTCATGTCATGTGTTGTAC 58.546 43.478 12.54 0.00 0.00 2.90
603 605 3.059257 GCACGTTCATGTCATGTGTTGTA 60.059 43.478 12.54 0.00 34.19 2.41
604 606 2.286950 GCACGTTCATGTCATGTGTTGT 60.287 45.455 12.54 5.11 34.19 3.32
605 607 2.286891 TGCACGTTCATGTCATGTGTTG 60.287 45.455 12.54 7.25 34.19 3.33
606 608 1.946081 TGCACGTTCATGTCATGTGTT 59.054 42.857 12.54 0.00 34.19 3.32
607 609 1.592064 TGCACGTTCATGTCATGTGT 58.408 45.000 12.54 7.36 34.19 3.72
608 610 2.684754 TTGCACGTTCATGTCATGTG 57.315 45.000 12.54 12.87 34.72 3.21
609 611 2.030893 CCTTTGCACGTTCATGTCATGT 60.031 45.455 12.54 0.00 0.00 3.21
610 612 2.587956 CCTTTGCACGTTCATGTCATG 58.412 47.619 6.47 6.47 0.00 3.07
611 613 1.068333 GCCTTTGCACGTTCATGTCAT 60.068 47.619 0.00 0.00 37.47 3.06
612 614 0.310543 GCCTTTGCACGTTCATGTCA 59.689 50.000 0.00 0.00 37.47 3.58
613 615 0.310543 TGCCTTTGCACGTTCATGTC 59.689 50.000 0.00 0.00 44.23 3.06
614 616 2.413677 TGCCTTTGCACGTTCATGT 58.586 47.368 0.00 0.00 44.23 3.21
624 626 2.397549 GTTCAGTGTTCATGCCTTTGC 58.602 47.619 0.00 0.00 38.26 3.68
625 627 2.288395 GGGTTCAGTGTTCATGCCTTTG 60.288 50.000 0.00 0.00 0.00 2.77
626 628 1.963515 GGGTTCAGTGTTCATGCCTTT 59.036 47.619 0.00 0.00 0.00 3.11
627 629 1.620822 GGGTTCAGTGTTCATGCCTT 58.379 50.000 0.00 0.00 0.00 4.35
628 630 0.606401 CGGGTTCAGTGTTCATGCCT 60.606 55.000 0.00 0.00 0.00 4.75
629 631 1.586154 CCGGGTTCAGTGTTCATGCC 61.586 60.000 0.00 0.00 0.00 4.40
630 632 0.605319 TCCGGGTTCAGTGTTCATGC 60.605 55.000 0.00 0.00 0.00 4.06
631 633 1.442769 CTCCGGGTTCAGTGTTCATG 58.557 55.000 0.00 0.00 0.00 3.07
632 634 0.321653 GCTCCGGGTTCAGTGTTCAT 60.322 55.000 0.00 0.00 0.00 2.57
633 635 1.070786 GCTCCGGGTTCAGTGTTCA 59.929 57.895 0.00 0.00 0.00 3.18
634 636 0.951040 CTGCTCCGGGTTCAGTGTTC 60.951 60.000 0.00 0.00 0.00 3.18
635 637 1.071471 CTGCTCCGGGTTCAGTGTT 59.929 57.895 0.00 0.00 0.00 3.32
636 638 1.821061 CTCTGCTCCGGGTTCAGTGT 61.821 60.000 0.00 0.00 0.00 3.55
637 639 1.079543 CTCTGCTCCGGGTTCAGTG 60.080 63.158 0.00 4.02 0.00 3.66
638 640 1.228894 TCTCTGCTCCGGGTTCAGT 60.229 57.895 0.00 0.00 0.00 3.41
639 641 0.967887 TCTCTCTGCTCCGGGTTCAG 60.968 60.000 0.00 6.90 0.00 3.02
640 642 1.076727 TCTCTCTGCTCCGGGTTCA 59.923 57.895 0.00 0.00 0.00 3.18
641 643 1.251527 TGTCTCTCTGCTCCGGGTTC 61.252 60.000 0.00 0.00 0.00 3.62
642 644 0.832135 TTGTCTCTCTGCTCCGGGTT 60.832 55.000 0.00 0.00 0.00 4.11
643 645 1.228894 TTGTCTCTCTGCTCCGGGT 60.229 57.895 0.00 0.00 0.00 5.28
644 646 1.515020 CTTGTCTCTCTGCTCCGGG 59.485 63.158 0.00 0.00 0.00 5.73
645 647 1.515020 CCTTGTCTCTCTGCTCCGG 59.485 63.158 0.00 0.00 0.00 5.14
646 648 0.967887 TCCCTTGTCTCTCTGCTCCG 60.968 60.000 0.00 0.00 0.00 4.63
647 649 1.138661 CATCCCTTGTCTCTCTGCTCC 59.861 57.143 0.00 0.00 0.00 4.70
648 650 1.473080 GCATCCCTTGTCTCTCTGCTC 60.473 57.143 0.00 0.00 0.00 4.26
649 651 0.540923 GCATCCCTTGTCTCTCTGCT 59.459 55.000 0.00 0.00 0.00 4.24
650 652 0.540923 AGCATCCCTTGTCTCTCTGC 59.459 55.000 0.00 0.00 0.00 4.26
651 653 1.829849 TGAGCATCCCTTGTCTCTCTG 59.170 52.381 0.00 0.00 32.80 3.35
652 654 2.109774 CTGAGCATCCCTTGTCTCTCT 58.890 52.381 0.00 0.00 32.80 3.10
653 655 1.473080 GCTGAGCATCCCTTGTCTCTC 60.473 57.143 0.00 0.00 32.80 3.20
654 656 0.540923 GCTGAGCATCCCTTGTCTCT 59.459 55.000 0.00 0.00 32.80 3.10
655 657 0.463474 GGCTGAGCATCCCTTGTCTC 60.463 60.000 6.82 0.00 0.00 3.36
656 658 1.606531 GGCTGAGCATCCCTTGTCT 59.393 57.895 6.82 0.00 0.00 3.41
657 659 1.452833 GGGCTGAGCATCCCTTGTC 60.453 63.158 6.82 0.00 39.46 3.18
658 660 1.792757 TTGGGCTGAGCATCCCTTGT 61.793 55.000 6.82 0.00 43.04 3.16
659 661 0.612732 TTTGGGCTGAGCATCCCTTG 60.613 55.000 6.82 0.00 43.04 3.61
660 662 0.613012 GTTTGGGCTGAGCATCCCTT 60.613 55.000 6.82 0.00 43.04 3.95
661 663 1.000396 GTTTGGGCTGAGCATCCCT 60.000 57.895 6.82 0.00 43.04 4.20
662 664 0.685458 ATGTTTGGGCTGAGCATCCC 60.685 55.000 6.82 2.45 42.93 3.85
663 665 0.458669 CATGTTTGGGCTGAGCATCC 59.541 55.000 6.82 0.00 0.00 3.51
664 666 0.458669 CCATGTTTGGGCTGAGCATC 59.541 55.000 6.82 0.00 39.56 3.91
665 667 0.040058 TCCATGTTTGGGCTGAGCAT 59.960 50.000 6.82 0.00 43.81 3.79
666 668 0.178967 TTCCATGTTTGGGCTGAGCA 60.179 50.000 6.82 0.00 43.81 4.26
667 669 0.968405 TTTCCATGTTTGGGCTGAGC 59.032 50.000 0.00 0.00 43.81 4.26
668 670 2.892852 TCTTTTCCATGTTTGGGCTGAG 59.107 45.455 0.00 0.00 43.81 3.35
669 671 2.627699 GTCTTTTCCATGTTTGGGCTGA 59.372 45.455 0.00 0.00 43.81 4.26
670 672 2.364970 TGTCTTTTCCATGTTTGGGCTG 59.635 45.455 0.00 0.00 43.81 4.85
671 673 2.365293 GTGTCTTTTCCATGTTTGGGCT 59.635 45.455 0.00 0.00 43.81 5.19
672 674 2.102252 TGTGTCTTTTCCATGTTTGGGC 59.898 45.455 0.00 0.00 43.81 5.36
673 675 4.119136 GTTGTGTCTTTTCCATGTTTGGG 58.881 43.478 0.00 0.00 43.81 4.12
674 676 5.009854 AGTTGTGTCTTTTCCATGTTTGG 57.990 39.130 0.00 0.00 45.15 3.28
675 677 7.010091 GGTTTAGTTGTGTCTTTTCCATGTTTG 59.990 37.037 0.00 0.00 0.00 2.93
676 678 7.039270 GGTTTAGTTGTGTCTTTTCCATGTTT 58.961 34.615 0.00 0.00 0.00 2.83
677 679 6.406512 GGGTTTAGTTGTGTCTTTTCCATGTT 60.407 38.462 0.00 0.00 0.00 2.71
678 680 5.068591 GGGTTTAGTTGTGTCTTTTCCATGT 59.931 40.000 0.00 0.00 0.00 3.21
679 681 5.068460 TGGGTTTAGTTGTGTCTTTTCCATG 59.932 40.000 0.00 0.00 0.00 3.66
680 682 5.068591 GTGGGTTTAGTTGTGTCTTTTCCAT 59.931 40.000 0.00 0.00 0.00 3.41
681 683 4.399934 GTGGGTTTAGTTGTGTCTTTTCCA 59.600 41.667 0.00 0.00 0.00 3.53
682 684 4.202080 GGTGGGTTTAGTTGTGTCTTTTCC 60.202 45.833 0.00 0.00 0.00 3.13
683 685 4.399934 TGGTGGGTTTAGTTGTGTCTTTTC 59.600 41.667 0.00 0.00 0.00 2.29
684 686 4.345854 TGGTGGGTTTAGTTGTGTCTTTT 58.654 39.130 0.00 0.00 0.00 2.27
685 687 3.970842 TGGTGGGTTTAGTTGTGTCTTT 58.029 40.909 0.00 0.00 0.00 2.52
686 688 3.655615 TGGTGGGTTTAGTTGTGTCTT 57.344 42.857 0.00 0.00 0.00 3.01
687 689 3.655615 TTGGTGGGTTTAGTTGTGTCT 57.344 42.857 0.00 0.00 0.00 3.41
688 690 3.254903 GGATTGGTGGGTTTAGTTGTGTC 59.745 47.826 0.00 0.00 0.00 3.67
689 691 3.117284 AGGATTGGTGGGTTTAGTTGTGT 60.117 43.478 0.00 0.00 0.00 3.72
690 692 3.496331 AGGATTGGTGGGTTTAGTTGTG 58.504 45.455 0.00 0.00 0.00 3.33
691 693 3.895704 AGGATTGGTGGGTTTAGTTGT 57.104 42.857 0.00 0.00 0.00 3.32
692 694 5.174037 TCTAGGATTGGTGGGTTTAGTTG 57.826 43.478 0.00 0.00 0.00 3.16
693 695 5.312443 AGTTCTAGGATTGGTGGGTTTAGTT 59.688 40.000 0.00 0.00 0.00 2.24
694 696 4.850386 AGTTCTAGGATTGGTGGGTTTAGT 59.150 41.667 0.00 0.00 0.00 2.24
695 697 5.437191 AGTTCTAGGATTGGTGGGTTTAG 57.563 43.478 0.00 0.00 0.00 1.85
696 698 5.427481 CCTAGTTCTAGGATTGGTGGGTTTA 59.573 44.000 18.10 0.00 39.60 2.01
697 699 4.227527 CCTAGTTCTAGGATTGGTGGGTTT 59.772 45.833 18.10 0.00 39.60 3.27
698 700 3.780850 CCTAGTTCTAGGATTGGTGGGTT 59.219 47.826 18.10 0.00 39.60 4.11
699 701 3.385115 CCTAGTTCTAGGATTGGTGGGT 58.615 50.000 18.10 0.00 39.60 4.51
700 702 2.706190 CCCTAGTTCTAGGATTGGTGGG 59.294 54.545 22.95 5.14 39.60 4.61
701 703 3.643792 CTCCCTAGTTCTAGGATTGGTGG 59.356 52.174 22.95 8.13 39.60 4.61
702 704 3.643792 CCTCCCTAGTTCTAGGATTGGTG 59.356 52.174 22.95 8.71 39.60 4.17
703 705 3.930035 CCTCCCTAGTTCTAGGATTGGT 58.070 50.000 22.95 0.00 39.60 3.67
704 706 2.635427 GCCTCCCTAGTTCTAGGATTGG 59.365 54.545 22.95 20.09 39.60 3.16
705 707 3.309296 TGCCTCCCTAGTTCTAGGATTG 58.691 50.000 22.95 13.08 39.60 2.67
706 708 3.207777 TCTGCCTCCCTAGTTCTAGGATT 59.792 47.826 22.95 0.00 39.60 3.01
707 709 2.792370 TCTGCCTCCCTAGTTCTAGGAT 59.208 50.000 22.95 0.00 39.60 3.24
708 710 2.091775 GTCTGCCTCCCTAGTTCTAGGA 60.092 54.545 22.95 10.98 39.60 2.94
709 711 2.312390 GTCTGCCTCCCTAGTTCTAGG 58.688 57.143 16.50 16.50 36.98 3.02
710 712 2.312390 GGTCTGCCTCCCTAGTTCTAG 58.688 57.143 0.31 0.31 0.00 2.43
711 713 1.644337 TGGTCTGCCTCCCTAGTTCTA 59.356 52.381 0.00 0.00 35.27 2.10
712 714 0.413832 TGGTCTGCCTCCCTAGTTCT 59.586 55.000 0.00 0.00 35.27 3.01
713 715 1.276622 TTGGTCTGCCTCCCTAGTTC 58.723 55.000 0.00 0.00 35.27 3.01
714 716 1.351350 GTTTGGTCTGCCTCCCTAGTT 59.649 52.381 0.00 0.00 35.27 2.24
836 1131 1.321074 GGTCCGGTTCTCCAGATCGT 61.321 60.000 0.00 0.00 0.00 3.73
1089 1387 6.183360 ACACATGCTAAAATTGTTGAACTGGA 60.183 34.615 0.00 0.00 0.00 3.86
1271 1569 5.587844 CAGGTAGATTCAGCTTAAGCATGTT 59.412 40.000 28.39 11.06 45.16 2.71
1423 1721 4.906065 TCAACTTAAGCATGATGCCATC 57.094 40.909 14.72 0.00 46.52 3.51
1640 4193 6.017934 CCAAGGAAATATCATACGTCACCAAG 60.018 42.308 0.00 0.00 0.00 3.61
1710 4265 1.695114 AACAAGGGGCCAGCAAAACC 61.695 55.000 4.39 0.00 0.00 3.27
1812 4369 1.383109 TGACCAGAGCCATCCGGAT 60.383 57.895 12.38 12.38 0.00 4.18
1858 4415 2.428890 CGTAGAGGAGATCCAAGCACTT 59.571 50.000 0.92 0.00 38.89 3.16
1878 4435 5.062809 GTCTAAGGATCAAAAGCTCAAGACG 59.937 44.000 0.00 0.00 0.00 4.18
1956 4513 5.977489 AAAAGGGGAGTAATGTACAAAGC 57.023 39.130 0.00 0.00 0.00 3.51
2043 4608 6.861065 AAGACTTTTCAGCGATGTTTCTTA 57.139 33.333 0.00 0.00 0.00 2.10
2383 5137 6.169419 TCAACAATGAATACAAAGAGAGCG 57.831 37.500 0.00 0.00 30.99 5.03


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

AutoCloner maintained by Alex Coulton.