Multiple sequence alignment - TraesCS7D01G411300

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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 TraesCS7D01G411300 chr7D 100.000 3706 0 0 1 3706 530107395 530111100 0.000000e+00 6844.0
1 TraesCS7D01G411300 chr7D 88.333 180 20 1 3500 3679 518768994 518769172 8.060000e-52 215.0
2 TraesCS7D01G411300 chr7D 89.130 92 7 3 414 504 530107603 530107692 1.090000e-20 111.0
3 TraesCS7D01G411300 chr7D 89.130 92 7 3 209 298 530107808 530107898 1.090000e-20 111.0
4 TraesCS7D01G411300 chr7D 83.036 112 12 2 3050 3154 500615660 500615549 1.100000e-15 95.3
5 TraesCS7D01G411300 chr7D 100.000 41 0 0 501 541 530107858 530107898 3.970000e-10 76.8
6 TraesCS7D01G411300 chr7D 100.000 41 0 0 464 504 530107895 530107935 3.970000e-10 76.8
7 TraesCS7D01G411300 chr7A 94.199 3241 120 23 501 3706 610438289 610441496 0.000000e+00 4881.0
8 TraesCS7D01G411300 chr7A 82.220 838 109 19 1736 2554 609565250 609566066 0.000000e+00 686.0
9 TraesCS7D01G411300 chr7A 92.840 419 28 2 1 418 610438031 610438448 1.140000e-169 606.0
10 TraesCS7D01G411300 chr7A 89.474 171 15 1 3512 3679 628645651 628645821 2.900000e-51 213.0
11 TraesCS7D01G411300 chr7A 81.746 252 31 11 3462 3699 628492253 628492003 2.920000e-46 196.0
12 TraesCS7D01G411300 chr7A 83.036 112 12 3 3050 3154 566528076 566527965 1.100000e-15 95.3
13 TraesCS7D01G411300 chr7B 93.547 3239 152 19 501 3706 568650504 568653718 0.000000e+00 4771.0
14 TraesCS7D01G411300 chr7B 92.673 505 25 2 1 504 568650051 568650544 0.000000e+00 717.0
15 TraesCS7D01G411300 chr7B 83.805 636 79 7 1563 2187 568491105 568491727 1.920000e-162 582.0
16 TraesCS7D01G411300 chr7B 82.621 351 47 8 2147 2486 568619161 568619508 7.780000e-77 298.0
17 TraesCS7D01G411300 chr7B 88.732 213 22 2 209 420 568650454 568650665 3.670000e-65 259.0
18 TraesCS7D01G411300 chr7B 86.979 192 20 3 3507 3693 589935075 589935266 1.040000e-50 211.0
19 TraesCS7D01G411300 chr7B 82.819 227 30 5 2331 2554 568491968 568492188 1.050000e-45 195.0
20 TraesCS7D01G411300 chr4B 91.126 462 33 4 2696 3150 447642143 447641683 1.460000e-173 619.0
21 TraesCS7D01G411300 chr6D 87.958 191 20 3 3512 3699 124609294 124609104 4.820000e-54 222.0
22 TraesCS7D01G411300 chr6D 86.458 192 21 5 3512 3699 122979679 122979869 4.850000e-49 206.0
23 TraesCS7D01G411300 chr6A 85.638 188 24 1 3512 3699 107264506 107264690 1.050000e-45 195.0


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 TraesCS7D01G411300 chr7D 530107395 530111100 3705 False 1443.920000 6844 95.652000 1 3706 5 chr7D.!!$F2 3705
1 TraesCS7D01G411300 chr7A 610438031 610441496 3465 False 2743.500000 4881 93.519500 1 3706 2 chr7A.!!$F3 3705
2 TraesCS7D01G411300 chr7A 609565250 609566066 816 False 686.000000 686 82.220000 1736 2554 1 chr7A.!!$F1 818
3 TraesCS7D01G411300 chr7B 568650051 568653718 3667 False 1915.666667 4771 91.650667 1 3706 3 chr7B.!!$F4 3705
4 TraesCS7D01G411300 chr7B 568491105 568492188 1083 False 388.500000 582 83.312000 1563 2554 2 chr7B.!!$F3 991

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
373 570 0.033504 ACGAGCTGTTACACCACCTG 59.966 55.0 0.0 0.0 0.0 4.00 F
1803 2011 0.176910 GGGCACTGAGAGGACTAAGC 59.823 60.0 0.0 0.0 0.0 3.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2116 2330 0.250295 CAAGAACTTGGAGGGTGCGA 60.250 55.0 6.66 0.0 36.95 5.1 R
2731 3096 0.250989 ACGAGGAAAAATGGCCGGAA 60.251 50.0 5.05 0.0 0.00 4.3 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
24 25 1.675483 TGGATTTGCGATGTACCATGC 59.325 47.619 0.00 0.00 0.00 4.06
26 27 2.287188 GGATTTGCGATGTACCATGCTG 60.287 50.000 0.00 0.00 0.00 4.41
163 164 1.242076 AACATGCTCTGTGTCCTTGC 58.758 50.000 0.00 0.00 38.39 4.01
182 183 3.489391 AGCATAGCAGCTGCAATCA 57.511 47.368 38.24 21.19 44.66 2.57
214 215 5.821470 ACTCATTATTGCTGGACATCTTCAG 59.179 40.000 0.00 0.00 0.00 3.02
253 254 5.730568 GCAAAGTACCAAAATCGCTCTATGG 60.731 44.000 0.00 0.00 37.19 2.74
259 260 4.949856 ACCAAAATCGCTCTATGGACATTT 59.050 37.500 0.00 0.00 35.16 2.32
308 505 1.771255 AGGTGCTCTTACATCCATCCC 59.229 52.381 0.00 0.00 0.00 3.85
334 531 2.508526 AGTTCAACATGACTTCCAGGC 58.491 47.619 0.00 0.00 0.00 4.85
343 540 1.425066 TGACTTCCAGGCAATTCCACT 59.575 47.619 0.00 0.00 37.29 4.00
366 563 3.257375 ACCAGAACATACGAGCTGTTACA 59.743 43.478 0.00 0.00 36.98 2.41
367 564 3.612860 CCAGAACATACGAGCTGTTACAC 59.387 47.826 0.00 0.00 36.98 2.90
368 565 3.612860 CAGAACATACGAGCTGTTACACC 59.387 47.826 0.00 0.00 36.98 4.16
369 566 3.257375 AGAACATACGAGCTGTTACACCA 59.743 43.478 0.00 0.00 36.98 4.17
370 567 2.955614 ACATACGAGCTGTTACACCAC 58.044 47.619 0.00 0.00 0.00 4.16
371 568 2.268298 CATACGAGCTGTTACACCACC 58.732 52.381 0.00 0.00 0.00 4.61
372 569 1.624336 TACGAGCTGTTACACCACCT 58.376 50.000 0.00 0.00 0.00 4.00
373 570 0.033504 ACGAGCTGTTACACCACCTG 59.966 55.000 0.00 0.00 0.00 4.00
374 571 0.317160 CGAGCTGTTACACCACCTGA 59.683 55.000 0.00 0.00 0.00 3.86
375 572 1.066858 CGAGCTGTTACACCACCTGAT 60.067 52.381 0.00 0.00 0.00 2.90
376 573 2.622436 GAGCTGTTACACCACCTGATC 58.378 52.381 0.00 0.00 0.00 2.92
377 574 1.977854 AGCTGTTACACCACCTGATCA 59.022 47.619 0.00 0.00 0.00 2.92
378 575 2.371841 AGCTGTTACACCACCTGATCAA 59.628 45.455 0.00 0.00 0.00 2.57
379 576 2.744202 GCTGTTACACCACCTGATCAAG 59.256 50.000 0.00 0.00 0.00 3.02
380 577 2.744202 CTGTTACACCACCTGATCAAGC 59.256 50.000 0.00 0.00 0.00 4.01
381 578 2.371841 TGTTACACCACCTGATCAAGCT 59.628 45.455 0.00 0.00 0.00 3.74
382 579 3.181445 TGTTACACCACCTGATCAAGCTT 60.181 43.478 0.00 0.00 0.00 3.74
383 580 1.901591 ACACCACCTGATCAAGCTTG 58.098 50.000 20.81 20.81 0.00 4.01
384 581 0.524862 CACCACCTGATCAAGCTTGC 59.475 55.000 21.99 9.31 0.00 4.01
385 582 0.610232 ACCACCTGATCAAGCTTGCC 60.610 55.000 21.99 15.41 0.00 4.52
386 583 0.323178 CCACCTGATCAAGCTTGCCT 60.323 55.000 21.99 11.19 0.00 4.75
387 584 1.542492 CACCTGATCAAGCTTGCCTT 58.458 50.000 21.99 8.75 0.00 4.35
388 585 2.618816 CCACCTGATCAAGCTTGCCTTA 60.619 50.000 21.99 4.68 31.00 2.69
389 586 3.285484 CACCTGATCAAGCTTGCCTTAT 58.715 45.455 21.99 9.83 31.00 1.73
390 587 3.698040 CACCTGATCAAGCTTGCCTTATT 59.302 43.478 21.99 1.70 31.00 1.40
391 588 3.698040 ACCTGATCAAGCTTGCCTTATTG 59.302 43.478 21.99 8.78 31.00 1.90
392 589 3.067742 CCTGATCAAGCTTGCCTTATTGG 59.932 47.826 21.99 12.20 39.35 3.16
403 600 2.536761 CCTTATTGGCATGGCAATGG 57.463 50.000 41.88 34.15 34.09 3.16
404 601 1.071071 CCTTATTGGCATGGCAATGGG 59.929 52.381 41.88 36.77 34.09 4.00
405 602 1.071071 CTTATTGGCATGGCAATGGGG 59.929 52.381 41.88 30.20 34.09 4.96
406 603 0.264062 TATTGGCATGGCAATGGGGA 59.736 50.000 41.88 27.39 34.09 4.81
407 604 0.620990 ATTGGCATGGCAATGGGGAA 60.621 50.000 37.92 17.23 34.09 3.97
408 605 0.839420 TTGGCATGGCAATGGGGAAA 60.839 50.000 29.00 6.25 34.09 3.13
409 606 0.839420 TGGCATGGCAATGGGGAAAA 60.839 50.000 21.13 0.00 34.09 2.29
410 607 0.547553 GGCATGGCAATGGGGAAAAT 59.452 50.000 15.47 0.00 34.09 1.82
411 608 1.064537 GGCATGGCAATGGGGAAAATT 60.065 47.619 15.47 0.00 34.09 1.82
412 609 2.018515 GCATGGCAATGGGGAAAATTG 58.981 47.619 2.54 0.00 37.94 2.32
413 610 2.618559 GCATGGCAATGGGGAAAATTGT 60.619 45.455 2.54 0.00 37.35 2.71
414 611 3.272581 CATGGCAATGGGGAAAATTGTC 58.727 45.455 0.00 0.00 39.54 3.18
415 612 2.618794 TGGCAATGGGGAAAATTGTCT 58.381 42.857 0.00 0.00 39.75 3.41
416 613 2.978278 TGGCAATGGGGAAAATTGTCTT 59.022 40.909 0.00 0.00 39.75 3.01
417 614 3.007831 TGGCAATGGGGAAAATTGTCTTC 59.992 43.478 0.00 0.00 39.75 2.87
418 615 3.007831 GGCAATGGGGAAAATTGTCTTCA 59.992 43.478 0.00 0.00 36.82 3.02
419 616 4.504689 GGCAATGGGGAAAATTGTCTTCAA 60.505 41.667 0.00 0.00 36.82 2.69
420 617 4.692155 GCAATGGGGAAAATTGTCTTCAAG 59.308 41.667 0.00 0.00 37.35 3.02
421 618 5.240121 CAATGGGGAAAATTGTCTTCAAGG 58.760 41.667 0.00 0.00 36.97 3.61
422 619 3.238597 TGGGGAAAATTGTCTTCAAGGG 58.761 45.455 0.00 0.00 36.97 3.95
423 620 3.116939 TGGGGAAAATTGTCTTCAAGGGA 60.117 43.478 0.00 0.00 36.97 4.20
424 621 3.901222 GGGGAAAATTGTCTTCAAGGGAA 59.099 43.478 0.00 0.00 36.97 3.97
435 632 1.549203 TCAAGGGAAGAGCCAAATGC 58.451 50.000 0.00 0.00 38.95 3.56
436 633 1.203038 TCAAGGGAAGAGCCAAATGCA 60.203 47.619 0.00 0.00 44.83 3.96
437 634 1.619827 CAAGGGAAGAGCCAAATGCAA 59.380 47.619 0.00 0.00 44.83 4.08
438 635 2.014010 AGGGAAGAGCCAAATGCAAA 57.986 45.000 0.00 0.00 44.83 3.68
439 636 1.897802 AGGGAAGAGCCAAATGCAAAG 59.102 47.619 0.00 0.00 44.83 2.77
440 637 1.620323 GGGAAGAGCCAAATGCAAAGT 59.380 47.619 0.00 0.00 44.83 2.66
441 638 2.825532 GGGAAGAGCCAAATGCAAAGTA 59.174 45.455 0.00 0.00 44.83 2.24
442 639 3.367395 GGGAAGAGCCAAATGCAAAGTAC 60.367 47.826 0.00 0.00 44.83 2.73
443 640 3.367395 GGAAGAGCCAAATGCAAAGTACC 60.367 47.826 0.00 0.00 44.83 3.34
444 641 2.875296 AGAGCCAAATGCAAAGTACCA 58.125 42.857 0.00 0.00 44.83 3.25
445 642 3.230134 AGAGCCAAATGCAAAGTACCAA 58.770 40.909 0.00 0.00 44.83 3.67
446 643 3.640967 AGAGCCAAATGCAAAGTACCAAA 59.359 39.130 0.00 0.00 44.83 3.28
447 644 4.100808 AGAGCCAAATGCAAAGTACCAAAA 59.899 37.500 0.00 0.00 44.83 2.44
448 645 4.971939 AGCCAAATGCAAAGTACCAAAAT 58.028 34.783 0.00 0.00 44.83 1.82
449 646 4.996758 AGCCAAATGCAAAGTACCAAAATC 59.003 37.500 0.00 0.00 44.83 2.17
450 647 4.143137 GCCAAATGCAAAGTACCAAAATCG 60.143 41.667 0.00 0.00 40.77 3.34
451 648 4.987912 CCAAATGCAAAGTACCAAAATCGT 59.012 37.500 0.00 0.00 0.00 3.73
452 649 5.118510 CCAAATGCAAAGTACCAAAATCGTC 59.881 40.000 0.00 0.00 0.00 4.20
453 650 5.705609 AATGCAAAGTACCAAAATCGTCT 57.294 34.783 0.00 0.00 0.00 4.18
454 651 4.742438 TGCAAAGTACCAAAATCGTCTC 57.258 40.909 0.00 0.00 0.00 3.36
455 652 4.130857 TGCAAAGTACCAAAATCGTCTCA 58.869 39.130 0.00 0.00 0.00 3.27
456 653 4.759693 TGCAAAGTACCAAAATCGTCTCAT 59.240 37.500 0.00 0.00 0.00 2.90
457 654 5.088739 GCAAAGTACCAAAATCGTCTCATG 58.911 41.667 0.00 0.00 0.00 3.07
458 655 4.946784 AAGTACCAAAATCGTCTCATGC 57.053 40.909 0.00 0.00 0.00 4.06
459 656 3.937814 AGTACCAAAATCGTCTCATGCA 58.062 40.909 0.00 0.00 0.00 3.96
460 657 3.684788 AGTACCAAAATCGTCTCATGCAC 59.315 43.478 0.00 0.00 0.00 4.57
461 658 2.503331 ACCAAAATCGTCTCATGCACA 58.497 42.857 0.00 0.00 0.00 4.57
462 659 3.084039 ACCAAAATCGTCTCATGCACAT 58.916 40.909 0.00 0.00 0.00 3.21
463 660 3.507233 ACCAAAATCGTCTCATGCACATT 59.493 39.130 0.00 0.00 0.00 2.71
464 661 4.100529 CCAAAATCGTCTCATGCACATTC 58.899 43.478 0.00 0.00 0.00 2.67
465 662 4.142534 CCAAAATCGTCTCATGCACATTCT 60.143 41.667 0.00 0.00 0.00 2.40
466 663 5.396484 CAAAATCGTCTCATGCACATTCTT 58.604 37.500 0.00 0.00 0.00 2.52
467 664 4.611310 AATCGTCTCATGCACATTCTTG 57.389 40.909 0.00 0.00 0.00 3.02
468 665 3.044235 TCGTCTCATGCACATTCTTGT 57.956 42.857 0.00 0.00 36.15 3.16
469 666 3.402110 TCGTCTCATGCACATTCTTGTT 58.598 40.909 0.00 0.00 32.34 2.83
470 667 3.814842 TCGTCTCATGCACATTCTTGTTT 59.185 39.130 0.00 0.00 32.34 2.83
471 668 3.910170 CGTCTCATGCACATTCTTGTTTG 59.090 43.478 0.00 0.00 32.34 2.93
472 669 3.671928 GTCTCATGCACATTCTTGTTTGC 59.328 43.478 0.00 0.00 32.34 3.68
473 670 3.318557 TCTCATGCACATTCTTGTTTGCA 59.681 39.130 0.00 0.00 38.61 4.08
474 671 3.382855 TCATGCACATTCTTGTTTGCAC 58.617 40.909 0.00 0.00 37.52 4.57
475 672 3.068448 TCATGCACATTCTTGTTTGCACT 59.932 39.130 0.00 0.00 37.52 4.40
476 673 3.523606 TGCACATTCTTGTTTGCACTT 57.476 38.095 0.00 0.00 31.83 3.16
477 674 3.859443 TGCACATTCTTGTTTGCACTTT 58.141 36.364 0.00 0.00 31.83 2.66
478 675 5.003692 TGCACATTCTTGTTTGCACTTTA 57.996 34.783 0.00 0.00 31.83 1.85
479 676 4.803088 TGCACATTCTTGTTTGCACTTTAC 59.197 37.500 0.00 0.00 31.83 2.01
480 677 4.803088 GCACATTCTTGTTTGCACTTTACA 59.197 37.500 0.00 0.00 32.34 2.41
481 678 5.290643 GCACATTCTTGTTTGCACTTTACAA 59.709 36.000 0.00 0.00 32.34 2.41
482 679 6.018832 GCACATTCTTGTTTGCACTTTACAAT 60.019 34.615 0.00 0.00 32.34 2.71
483 680 7.339207 CACATTCTTGTTTGCACTTTACAATG 58.661 34.615 0.00 0.00 32.34 2.82
484 681 5.964887 TTCTTGTTTGCACTTTACAATGC 57.035 34.783 0.00 0.00 42.40 3.56
494 691 6.768029 GCACTTTACAATGCAAAATTCAGA 57.232 33.333 0.00 0.00 41.65 3.27
495 692 6.814343 GCACTTTACAATGCAAAATTCAGAG 58.186 36.000 0.00 0.00 41.65 3.35
496 693 6.128742 GCACTTTACAATGCAAAATTCAGAGG 60.129 38.462 0.00 0.00 41.65 3.69
497 694 6.925165 CACTTTACAATGCAAAATTCAGAGGT 59.075 34.615 0.00 0.00 0.00 3.85
498 695 6.925165 ACTTTACAATGCAAAATTCAGAGGTG 59.075 34.615 0.00 0.00 0.00 4.00
499 696 6.647334 TTACAATGCAAAATTCAGAGGTGA 57.353 33.333 0.00 0.00 0.00 4.02
500 697 5.733620 ACAATGCAAAATTCAGAGGTGAT 57.266 34.783 0.00 0.00 30.85 3.06
501 698 5.717119 ACAATGCAAAATTCAGAGGTGATC 58.283 37.500 0.00 0.00 30.85 2.92
502 699 5.479375 ACAATGCAAAATTCAGAGGTGATCT 59.521 36.000 0.00 0.00 39.56 2.75
503 700 6.014840 ACAATGCAAAATTCAGAGGTGATCTT 60.015 34.615 0.00 0.00 35.47 2.40
504 701 5.381174 TGCAAAATTCAGAGGTGATCTTG 57.619 39.130 0.00 0.00 35.47 3.02
505 702 4.828939 TGCAAAATTCAGAGGTGATCTTGT 59.171 37.500 0.00 0.00 35.47 3.16
506 703 5.302568 TGCAAAATTCAGAGGTGATCTTGTT 59.697 36.000 0.00 0.00 35.47 2.83
507 704 6.183360 TGCAAAATTCAGAGGTGATCTTGTTT 60.183 34.615 0.00 0.00 35.47 2.83
508 705 6.145048 GCAAAATTCAGAGGTGATCTTGTTTG 59.855 38.462 0.00 0.00 35.47 2.93
509 706 5.382618 AATTCAGAGGTGATCTTGTTTGC 57.617 39.130 0.00 0.00 35.47 3.68
510 707 3.490439 TCAGAGGTGATCTTGTTTGCA 57.510 42.857 0.00 0.00 35.47 4.08
511 708 3.141398 TCAGAGGTGATCTTGTTTGCAC 58.859 45.455 0.00 0.00 35.47 4.57
512 709 3.144506 CAGAGGTGATCTTGTTTGCACT 58.855 45.455 0.00 0.00 35.47 4.40
513 710 3.567164 CAGAGGTGATCTTGTTTGCACTT 59.433 43.478 0.00 0.00 35.47 3.16
514 711 4.037208 CAGAGGTGATCTTGTTTGCACTTT 59.963 41.667 0.00 0.00 35.47 2.66
515 712 5.239306 CAGAGGTGATCTTGTTTGCACTTTA 59.761 40.000 0.00 0.00 35.47 1.85
516 713 5.239525 AGAGGTGATCTTGTTTGCACTTTAC 59.760 40.000 0.00 0.00 32.99 2.01
517 714 4.887071 AGGTGATCTTGTTTGCACTTTACA 59.113 37.500 0.00 0.00 0.00 2.41
518 715 5.359576 AGGTGATCTTGTTTGCACTTTACAA 59.640 36.000 0.00 0.00 0.00 2.41
519 716 6.040842 AGGTGATCTTGTTTGCACTTTACAAT 59.959 34.615 0.00 0.00 31.96 2.71
520 717 6.144402 GGTGATCTTGTTTGCACTTTACAATG 59.856 38.462 0.00 0.00 31.96 2.82
521 718 5.691305 TGATCTTGTTTGCACTTTACAATGC 59.309 36.000 0.00 0.00 42.40 3.56
531 728 6.768029 GCACTTTACAATGCAAAATTCAGA 57.232 33.333 0.00 0.00 41.65 3.27
532 729 6.814343 GCACTTTACAATGCAAAATTCAGAG 58.186 36.000 0.00 0.00 41.65 3.35
533 730 6.128742 GCACTTTACAATGCAAAATTCAGAGG 60.129 38.462 0.00 0.00 41.65 3.69
534 731 6.925165 CACTTTACAATGCAAAATTCAGAGGT 59.075 34.615 0.00 0.00 0.00 3.85
535 732 6.925165 ACTTTACAATGCAAAATTCAGAGGTG 59.075 34.615 0.00 0.00 0.00 4.00
536 733 6.647334 TTACAATGCAAAATTCAGAGGTGA 57.353 33.333 0.00 0.00 0.00 4.02
537 734 5.733620 ACAATGCAAAATTCAGAGGTGAT 57.266 34.783 0.00 0.00 30.85 3.06
538 735 5.717119 ACAATGCAAAATTCAGAGGTGATC 58.283 37.500 0.00 0.00 30.85 2.92
539 736 5.479375 ACAATGCAAAATTCAGAGGTGATCT 59.521 36.000 0.00 0.00 39.56 2.75
540 737 6.014840 ACAATGCAAAATTCAGAGGTGATCTT 60.015 34.615 0.00 0.00 35.47 2.40
541 738 7.177216 ACAATGCAAAATTCAGAGGTGATCTTA 59.823 33.333 0.00 0.00 35.47 2.10
542 739 6.500684 TGCAAAATTCAGAGGTGATCTTAC 57.499 37.500 0.00 0.00 35.47 2.34
543 740 6.003326 TGCAAAATTCAGAGGTGATCTTACA 58.997 36.000 0.00 0.00 35.47 2.41
544 741 6.660521 TGCAAAATTCAGAGGTGATCTTACAT 59.339 34.615 0.00 0.00 35.47 2.29
545 742 7.148188 TGCAAAATTCAGAGGTGATCTTACATC 60.148 37.037 0.00 0.00 35.47 3.06
546 743 7.680588 GCAAAATTCAGAGGTGATCTTACATCC 60.681 40.741 0.00 0.00 35.47 3.51
547 744 6.566079 AATTCAGAGGTGATCTTACATCCA 57.434 37.500 0.00 0.00 35.47 3.41
548 745 6.760440 ATTCAGAGGTGATCTTACATCCAT 57.240 37.500 0.00 0.00 35.47 3.41
549 746 5.798125 TCAGAGGTGATCTTACATCCATC 57.202 43.478 0.00 0.00 35.47 3.51
550 747 4.590647 TCAGAGGTGATCTTACATCCATCC 59.409 45.833 0.00 0.00 35.47 3.51
551 748 4.346127 CAGAGGTGATCTTACATCCATCCA 59.654 45.833 0.00 0.00 35.47 3.41
552 749 4.971282 AGAGGTGATCTTACATCCATCCAA 59.029 41.667 0.00 0.00 32.99 3.53
553 750 5.429762 AGAGGTGATCTTACATCCATCCAAA 59.570 40.000 0.00 0.00 32.99 3.28
554 751 6.069440 AGAGGTGATCTTACATCCATCCAAAA 60.069 38.462 0.00 0.00 32.99 2.44
555 752 6.493166 AGGTGATCTTACATCCATCCAAAAA 58.507 36.000 0.00 0.00 0.00 1.94
584 781 8.758829 AGTTTACCATAAATTCCAGGAAATTCC 58.241 33.333 5.81 3.29 36.58 3.01
585 782 8.536175 GTTTACCATAAATTCCAGGAAATTCCA 58.464 33.333 15.21 0.00 39.61 3.53
586 783 6.544928 ACCATAAATTCCAGGAAATTCCAC 57.455 37.500 15.21 0.00 39.61 4.02
587 784 5.425217 ACCATAAATTCCAGGAAATTCCACC 59.575 40.000 15.21 0.00 39.61 4.61
588 785 5.424895 CCATAAATTCCAGGAAATTCCACCA 59.575 40.000 15.21 0.00 39.61 4.17
589 786 4.890158 AAATTCCAGGAAATTCCACCAC 57.110 40.909 15.21 0.00 39.61 4.16
590 787 2.302587 TTCCAGGAAATTCCACCACC 57.697 50.000 15.21 0.00 39.61 4.61
591 788 1.153539 TCCAGGAAATTCCACCACCA 58.846 50.000 15.21 0.00 39.61 4.17
592 789 1.075374 TCCAGGAAATTCCACCACCAG 59.925 52.381 15.21 0.00 39.61 4.00
593 790 1.075374 CCAGGAAATTCCACCACCAGA 59.925 52.381 15.21 0.00 39.61 3.86
594 791 2.490718 CCAGGAAATTCCACCACCAGAA 60.491 50.000 15.21 0.00 39.61 3.02
595 792 2.558359 CAGGAAATTCCACCACCAGAAC 59.442 50.000 15.21 0.00 39.61 3.01
596 793 2.447047 AGGAAATTCCACCACCAGAACT 59.553 45.455 15.21 0.00 39.61 3.01
597 794 2.558359 GGAAATTCCACCACCAGAACTG 59.442 50.000 7.23 0.00 36.28 3.16
598 795 3.222603 GAAATTCCACCACCAGAACTGT 58.777 45.455 1.18 0.00 0.00 3.55
599 796 3.312736 AATTCCACCACCAGAACTGTT 57.687 42.857 0.00 0.00 0.00 3.16
600 797 4.447138 AATTCCACCACCAGAACTGTTA 57.553 40.909 0.00 0.00 0.00 2.41
601 798 2.922740 TCCACCACCAGAACTGTTAC 57.077 50.000 0.00 0.00 0.00 2.50
698 895 2.238084 ACTCTGGTGAGCTGGTCATA 57.762 50.000 13.18 4.88 43.85 2.15
713 910 5.392057 GCTGGTCATAGTTGCCTTTAGAAAC 60.392 44.000 0.00 0.00 0.00 2.78
786 985 2.812358 TTTCTAAGCTCGTCTGCACA 57.188 45.000 0.00 0.00 34.99 4.57
1126 1326 8.664798 TGATTCACTTGTCCTATTTTGTTATCG 58.335 33.333 0.00 0.00 0.00 2.92
1248 1448 5.715279 AGTCACAGTTACAGGATTAGCTACA 59.285 40.000 0.00 0.00 0.00 2.74
1311 1511 5.582665 CCTAACTCTCTTGATGTTGTTAGGC 59.417 44.000 14.20 0.00 45.18 3.93
1442 1642 1.694696 GATAGAAGAGGCAATCCCGGT 59.305 52.381 0.00 0.00 39.21 5.28
1454 1654 2.413310 ATCCCGGTAACACCATCAAC 57.587 50.000 0.00 0.00 38.47 3.18
1605 1805 4.457257 AGAGATGTGCTAACAAGGAAAAGC 59.543 41.667 0.00 0.00 40.46 3.51
1633 1833 7.779326 TCAATACCATGCTTTTCTCCATATCAA 59.221 33.333 0.00 0.00 0.00 2.57
1803 2011 0.176910 GGGCACTGAGAGGACTAAGC 59.823 60.000 0.00 0.00 0.00 3.09
2120 2334 1.396648 CGCCATGATGTAAGTTTCGCA 59.603 47.619 0.00 0.00 0.00 5.10
2126 2340 2.007608 GATGTAAGTTTCGCACCCTCC 58.992 52.381 0.00 0.00 0.00 4.30
2159 2374 0.670162 CAGGCAAACAACCACAGGAG 59.330 55.000 0.00 0.00 0.00 3.69
2308 2667 5.920273 ACTGAATAAAATGCTGTTTTCACCG 59.080 36.000 4.10 0.00 0.00 4.94
2555 2920 1.370064 GCTGTCCACCGGTTACAGT 59.630 57.895 32.34 1.67 42.10 3.55
2708 3073 1.034838 ACAGGCAGAGGAGCTAGTCG 61.035 60.000 0.00 0.00 34.17 4.18
2727 3092 2.279985 TTACGCCAACGCCGTCAA 60.280 55.556 0.00 0.00 45.53 3.18
2731 3096 1.371145 CGCCAACGCCGTCAAATTT 60.371 52.632 0.00 0.00 0.00 1.82
2806 3172 8.593945 AGAAATTGGTCCTAAATAATGCTTCA 57.406 30.769 0.00 0.00 0.00 3.02
2832 3198 6.947644 ATGTGCAATTATACATGCTTCTGA 57.052 33.333 9.61 0.00 42.97 3.27
2846 3216 6.369890 ACATGCTTCTGAACTGTACACAATAG 59.630 38.462 0.00 0.00 0.00 1.73
2856 3226 4.451096 ACTGTACACAATAGAAAAGCCACG 59.549 41.667 0.00 0.00 0.00 4.94
2858 3228 4.688879 TGTACACAATAGAAAAGCCACGAG 59.311 41.667 0.00 0.00 0.00 4.18
2874 3244 1.226888 GAGTACGGGCGCTTACAGG 60.227 63.158 17.79 0.00 0.00 4.00
2875 3245 1.660560 GAGTACGGGCGCTTACAGGA 61.661 60.000 17.79 0.00 0.00 3.86
2931 3308 1.947642 GAGGCCGTATAACACCGCG 60.948 63.158 0.00 0.00 32.78 6.46
2998 3381 1.672030 CACATGCTCCCAGCGAACA 60.672 57.895 0.00 0.00 46.26 3.18
3095 3478 4.514577 CTCGGAGTCGGCGCCATT 62.515 66.667 28.98 11.07 33.93 3.16
3236 3623 6.035005 GCTTTCGAGATTTTAATTTGGGCTTC 59.965 38.462 0.00 0.00 0.00 3.86
3338 3740 1.474330 GGCCCAACTCGGATTCAATT 58.526 50.000 0.00 0.00 36.56 2.32
3342 3744 2.024414 CCAACTCGGATTCAATTCCCC 58.976 52.381 0.00 0.00 36.56 4.81
3343 3745 2.024414 CAACTCGGATTCAATTCCCCC 58.976 52.381 0.00 0.00 31.61 5.40
3358 3760 2.031163 CCCCATCGAGAATCCGGC 59.969 66.667 0.00 0.00 0.00 6.13
3396 3801 1.901464 CCACCGGTTCCAACCCTTG 60.901 63.158 2.97 0.66 46.53 3.61
3463 3869 1.271127 TGCCCCAGAATCACGATCCA 61.271 55.000 0.00 0.00 0.00 3.41
3510 3916 2.048312 CTCGCGCTACGTCTGATCCA 62.048 60.000 5.56 0.00 44.19 3.41
3615 4021 1.006102 CCGACCTTCACTCGTGCTT 60.006 57.895 0.00 0.00 0.00 3.91
3680 4086 3.121030 CCAAGAGGCCGAAGCGTG 61.121 66.667 0.00 0.00 41.24 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 2.451490 TCTAGTCAGTTCCCTGCTCAG 58.549 52.381 0.00 0.00 38.66 3.35
26 27 3.368948 CCTTTCTAGTCAGTTCCCTGCTC 60.369 52.174 0.00 0.00 38.66 4.26
182 183 5.645497 GTCCAGCAATAATGAGTCAGAAAGT 59.355 40.000 0.00 0.00 0.00 2.66
214 215 2.037641 ACTTTGCATTTGGCTCTTTCCC 59.962 45.455 0.00 0.00 45.15 3.97
282 479 3.582647 TGGATGTAAGAGCACCTCTGAAA 59.417 43.478 0.00 0.00 40.28 2.69
318 515 3.367703 GGAATTGCCTGGAAGTCATGTTG 60.368 47.826 0.00 0.00 0.00 3.33
320 517 2.225091 TGGAATTGCCTGGAAGTCATGT 60.225 45.455 0.00 0.00 37.63 3.21
324 521 2.206576 AGTGGAATTGCCTGGAAGTC 57.793 50.000 0.00 0.00 37.63 3.01
334 531 5.416083 TCGTATGTTCTGGTAGTGGAATTG 58.584 41.667 0.00 0.00 0.00 2.32
343 540 4.460034 TGTAACAGCTCGTATGTTCTGGTA 59.540 41.667 6.05 5.83 41.08 3.25
366 563 0.610232 GGCAAGCTTGATCAGGTGGT 60.610 55.000 30.39 0.00 31.79 4.16
367 564 0.323178 AGGCAAGCTTGATCAGGTGG 60.323 55.000 30.39 0.00 31.79 4.61
368 565 1.542492 AAGGCAAGCTTGATCAGGTG 58.458 50.000 30.39 1.48 31.79 4.00
369 566 3.659183 ATAAGGCAAGCTTGATCAGGT 57.341 42.857 30.39 10.19 33.27 4.00
370 567 3.067742 CCAATAAGGCAAGCTTGATCAGG 59.932 47.826 30.39 16.09 0.00 3.86
371 568 4.303086 CCAATAAGGCAAGCTTGATCAG 57.697 45.455 30.39 11.37 0.00 2.90
384 581 1.071071 CCCATTGCCATGCCAATAAGG 59.929 52.381 0.91 2.71 41.84 2.69
385 582 1.071071 CCCCATTGCCATGCCAATAAG 59.929 52.381 0.91 0.00 33.86 1.73
386 583 1.129917 CCCCATTGCCATGCCAATAA 58.870 50.000 0.91 0.00 33.86 1.40
387 584 0.264062 TCCCCATTGCCATGCCAATA 59.736 50.000 0.91 0.00 33.86 1.90
388 585 0.620990 TTCCCCATTGCCATGCCAAT 60.621 50.000 0.00 0.00 35.90 3.16
389 586 0.839420 TTTCCCCATTGCCATGCCAA 60.839 50.000 0.00 0.00 0.00 4.52
390 587 0.839420 TTTTCCCCATTGCCATGCCA 60.839 50.000 0.00 0.00 0.00 4.92
391 588 0.547553 ATTTTCCCCATTGCCATGCC 59.452 50.000 0.00 0.00 0.00 4.40
392 589 2.018515 CAATTTTCCCCATTGCCATGC 58.981 47.619 0.00 0.00 0.00 4.06
393 590 3.054948 AGACAATTTTCCCCATTGCCATG 60.055 43.478 0.00 0.00 35.36 3.66
394 591 3.183801 AGACAATTTTCCCCATTGCCAT 58.816 40.909 0.00 0.00 35.36 4.40
395 592 2.618794 AGACAATTTTCCCCATTGCCA 58.381 42.857 0.00 0.00 35.36 4.92
396 593 3.007831 TGAAGACAATTTTCCCCATTGCC 59.992 43.478 0.00 0.00 35.36 4.52
397 594 4.270245 TGAAGACAATTTTCCCCATTGC 57.730 40.909 0.00 0.00 35.36 3.56
398 595 5.240121 CCTTGAAGACAATTTTCCCCATTG 58.760 41.667 0.00 0.00 37.60 2.82
399 596 4.286808 CCCTTGAAGACAATTTTCCCCATT 59.713 41.667 0.00 0.00 35.37 3.16
400 597 3.840078 CCCTTGAAGACAATTTTCCCCAT 59.160 43.478 0.00 0.00 35.37 4.00
401 598 3.116939 TCCCTTGAAGACAATTTTCCCCA 60.117 43.478 0.00 0.00 35.37 4.96
402 599 3.506398 TCCCTTGAAGACAATTTTCCCC 58.494 45.455 0.00 0.00 35.37 4.81
414 611 4.625816 TGCATTTGGCTCTTCCCTTGAAG 61.626 47.826 0.00 0.00 44.05 3.02
415 612 1.895131 GCATTTGGCTCTTCCCTTGAA 59.105 47.619 0.00 0.00 40.25 2.69
416 613 1.203038 TGCATTTGGCTCTTCCCTTGA 60.203 47.619 0.00 0.00 45.15 3.02
417 614 1.259609 TGCATTTGGCTCTTCCCTTG 58.740 50.000 0.00 0.00 45.15 3.61
418 615 2.014010 TTGCATTTGGCTCTTCCCTT 57.986 45.000 0.00 0.00 45.15 3.95
419 616 1.897802 CTTTGCATTTGGCTCTTCCCT 59.102 47.619 0.00 0.00 45.15 4.20
420 617 1.620323 ACTTTGCATTTGGCTCTTCCC 59.380 47.619 0.00 0.00 45.15 3.97
421 618 3.367395 GGTACTTTGCATTTGGCTCTTCC 60.367 47.826 0.00 0.00 45.15 3.46
422 619 3.255642 TGGTACTTTGCATTTGGCTCTTC 59.744 43.478 0.00 0.00 45.15 2.87
423 620 3.230134 TGGTACTTTGCATTTGGCTCTT 58.770 40.909 0.00 0.00 45.15 2.85
424 621 2.875296 TGGTACTTTGCATTTGGCTCT 58.125 42.857 0.00 0.00 45.15 4.09
425 622 3.658757 TTGGTACTTTGCATTTGGCTC 57.341 42.857 0.00 0.00 45.15 4.70
426 623 4.414337 TTTTGGTACTTTGCATTTGGCT 57.586 36.364 0.00 0.00 45.15 4.75
427 624 4.143137 CGATTTTGGTACTTTGCATTTGGC 60.143 41.667 0.00 0.00 45.13 4.52
428 625 4.987912 ACGATTTTGGTACTTTGCATTTGG 59.012 37.500 0.00 0.00 0.00 3.28
429 626 5.920273 AGACGATTTTGGTACTTTGCATTTG 59.080 36.000 0.00 0.00 0.00 2.32
430 627 6.084326 AGACGATTTTGGTACTTTGCATTT 57.916 33.333 0.00 0.00 0.00 2.32
431 628 5.240623 TGAGACGATTTTGGTACTTTGCATT 59.759 36.000 0.00 0.00 0.00 3.56
432 629 4.759693 TGAGACGATTTTGGTACTTTGCAT 59.240 37.500 0.00 0.00 0.00 3.96
433 630 4.130857 TGAGACGATTTTGGTACTTTGCA 58.869 39.130 0.00 0.00 0.00 4.08
434 631 4.742438 TGAGACGATTTTGGTACTTTGC 57.258 40.909 0.00 0.00 0.00 3.68
435 632 5.088739 GCATGAGACGATTTTGGTACTTTG 58.911 41.667 0.00 0.00 0.00 2.77
436 633 4.759693 TGCATGAGACGATTTTGGTACTTT 59.240 37.500 0.00 0.00 0.00 2.66
437 634 4.154195 GTGCATGAGACGATTTTGGTACTT 59.846 41.667 0.00 0.00 0.00 2.24
438 635 3.684788 GTGCATGAGACGATTTTGGTACT 59.315 43.478 0.00 0.00 0.00 2.73
439 636 3.435327 TGTGCATGAGACGATTTTGGTAC 59.565 43.478 0.00 0.00 0.00 3.34
440 637 3.669536 TGTGCATGAGACGATTTTGGTA 58.330 40.909 0.00 0.00 0.00 3.25
441 638 2.503331 TGTGCATGAGACGATTTTGGT 58.497 42.857 0.00 0.00 0.00 3.67
442 639 3.770263 ATGTGCATGAGACGATTTTGG 57.230 42.857 0.00 0.00 0.00 3.28
443 640 4.978186 AGAATGTGCATGAGACGATTTTG 58.022 39.130 0.00 0.00 0.00 2.44
444 641 5.048504 ACAAGAATGTGCATGAGACGATTTT 60.049 36.000 0.00 0.00 38.69 1.82
445 642 4.456911 ACAAGAATGTGCATGAGACGATTT 59.543 37.500 0.00 0.00 38.69 2.17
446 643 4.005650 ACAAGAATGTGCATGAGACGATT 58.994 39.130 0.00 0.00 38.69 3.34
447 644 3.603532 ACAAGAATGTGCATGAGACGAT 58.396 40.909 0.00 0.00 38.69 3.73
448 645 3.044235 ACAAGAATGTGCATGAGACGA 57.956 42.857 0.00 0.00 38.69 4.20
449 646 3.818961 AACAAGAATGTGCATGAGACG 57.181 42.857 0.00 0.00 40.46 4.18
450 647 3.671928 GCAAACAAGAATGTGCATGAGAC 59.328 43.478 0.00 0.00 40.46 3.36
451 648 3.318557 TGCAAACAAGAATGTGCATGAGA 59.681 39.130 0.00 0.00 40.46 3.27
452 649 3.427528 GTGCAAACAAGAATGTGCATGAG 59.572 43.478 0.00 0.00 39.67 2.90
453 650 3.068448 AGTGCAAACAAGAATGTGCATGA 59.932 39.130 0.00 0.00 39.67 3.07
454 651 3.386486 AGTGCAAACAAGAATGTGCATG 58.614 40.909 0.00 0.00 39.67 4.06
455 652 3.738830 AGTGCAAACAAGAATGTGCAT 57.261 38.095 0.00 0.00 39.67 3.96
456 653 3.523606 AAGTGCAAACAAGAATGTGCA 57.476 38.095 0.00 0.00 40.46 4.57
457 654 4.803088 TGTAAAGTGCAAACAAGAATGTGC 59.197 37.500 0.00 0.00 40.46 4.57
458 655 6.884096 TTGTAAAGTGCAAACAAGAATGTG 57.116 33.333 0.00 0.00 40.46 3.21
459 656 6.018832 GCATTGTAAAGTGCAAACAAGAATGT 60.019 34.615 9.94 0.00 40.34 2.71
460 657 6.357198 GCATTGTAAAGTGCAAACAAGAATG 58.643 36.000 9.94 8.00 40.94 2.67
461 658 6.529463 GCATTGTAAAGTGCAAACAAGAAT 57.471 33.333 9.94 0.00 40.94 2.40
462 659 5.964887 GCATTGTAAAGTGCAAACAAGAA 57.035 34.783 9.94 0.00 40.94 2.52
471 668 6.128742 CCTCTGAATTTTGCATTGTAAAGTGC 60.129 38.462 0.26 0.00 41.61 4.40
472 669 6.925165 ACCTCTGAATTTTGCATTGTAAAGTG 59.075 34.615 0.26 0.00 0.00 3.16
473 670 6.925165 CACCTCTGAATTTTGCATTGTAAAGT 59.075 34.615 0.26 0.00 0.00 2.66
474 671 7.147312 TCACCTCTGAATTTTGCATTGTAAAG 58.853 34.615 0.26 0.00 0.00 1.85
475 672 7.048629 TCACCTCTGAATTTTGCATTGTAAA 57.951 32.000 0.00 0.00 0.00 2.01
476 673 6.647334 TCACCTCTGAATTTTGCATTGTAA 57.353 33.333 0.00 0.00 0.00 2.41
477 674 6.660521 AGATCACCTCTGAATTTTGCATTGTA 59.339 34.615 0.00 0.00 31.12 2.41
478 675 5.479375 AGATCACCTCTGAATTTTGCATTGT 59.521 36.000 0.00 0.00 31.12 2.71
479 676 5.962433 AGATCACCTCTGAATTTTGCATTG 58.038 37.500 0.00 0.00 31.12 2.82
480 677 6.014840 ACAAGATCACCTCTGAATTTTGCATT 60.015 34.615 0.00 0.00 33.29 3.56
481 678 5.479375 ACAAGATCACCTCTGAATTTTGCAT 59.521 36.000 0.00 0.00 33.29 3.96
482 679 4.828939 ACAAGATCACCTCTGAATTTTGCA 59.171 37.500 0.00 0.00 33.29 4.08
483 680 5.382618 ACAAGATCACCTCTGAATTTTGC 57.617 39.130 0.00 0.00 33.29 3.68
484 681 6.145048 GCAAACAAGATCACCTCTGAATTTTG 59.855 38.462 0.00 0.00 33.29 2.44
485 682 6.183360 TGCAAACAAGATCACCTCTGAATTTT 60.183 34.615 0.00 0.00 33.29 1.82
486 683 5.302568 TGCAAACAAGATCACCTCTGAATTT 59.697 36.000 0.00 0.00 33.29 1.82
487 684 4.828939 TGCAAACAAGATCACCTCTGAATT 59.171 37.500 0.00 0.00 33.29 2.17
488 685 4.217118 GTGCAAACAAGATCACCTCTGAAT 59.783 41.667 0.00 0.00 33.29 2.57
489 686 3.565482 GTGCAAACAAGATCACCTCTGAA 59.435 43.478 0.00 0.00 33.29 3.02
490 687 3.141398 GTGCAAACAAGATCACCTCTGA 58.859 45.455 0.00 0.00 33.29 3.27
491 688 3.144506 AGTGCAAACAAGATCACCTCTG 58.855 45.455 0.00 0.00 33.29 3.35
492 689 3.498774 AGTGCAAACAAGATCACCTCT 57.501 42.857 0.00 0.00 34.96 3.69
493 690 4.574599 AAAGTGCAAACAAGATCACCTC 57.425 40.909 0.00 0.00 0.00 3.85
494 691 4.887071 TGTAAAGTGCAAACAAGATCACCT 59.113 37.500 0.00 0.00 0.00 4.00
495 692 5.181690 TGTAAAGTGCAAACAAGATCACC 57.818 39.130 0.00 0.00 0.00 4.02
496 693 6.346040 GCATTGTAAAGTGCAAACAAGATCAC 60.346 38.462 9.94 0.00 40.94 3.06
497 694 5.691305 GCATTGTAAAGTGCAAACAAGATCA 59.309 36.000 9.94 0.00 40.94 2.92
498 695 6.144577 GCATTGTAAAGTGCAAACAAGATC 57.855 37.500 9.94 0.00 40.94 2.75
508 705 6.128742 CCTCTGAATTTTGCATTGTAAAGTGC 60.129 38.462 0.26 0.00 41.61 4.40
509 706 6.925165 ACCTCTGAATTTTGCATTGTAAAGTG 59.075 34.615 0.26 0.00 0.00 3.16
510 707 6.925165 CACCTCTGAATTTTGCATTGTAAAGT 59.075 34.615 0.26 0.00 0.00 2.66
511 708 7.147312 TCACCTCTGAATTTTGCATTGTAAAG 58.853 34.615 0.26 0.00 0.00 1.85
512 709 7.048629 TCACCTCTGAATTTTGCATTGTAAA 57.951 32.000 0.00 0.00 0.00 2.01
513 710 6.647334 TCACCTCTGAATTTTGCATTGTAA 57.353 33.333 0.00 0.00 0.00 2.41
514 711 6.660521 AGATCACCTCTGAATTTTGCATTGTA 59.339 34.615 0.00 0.00 31.12 2.41
515 712 5.479375 AGATCACCTCTGAATTTTGCATTGT 59.521 36.000 0.00 0.00 31.12 2.71
516 713 5.962433 AGATCACCTCTGAATTTTGCATTG 58.038 37.500 0.00 0.00 31.12 2.82
517 714 6.600882 AAGATCACCTCTGAATTTTGCATT 57.399 33.333 0.00 0.00 33.29 3.56
518 715 6.660521 TGTAAGATCACCTCTGAATTTTGCAT 59.339 34.615 0.00 0.00 33.29 3.96
519 716 6.003326 TGTAAGATCACCTCTGAATTTTGCA 58.997 36.000 0.00 0.00 33.29 4.08
520 717 6.500684 TGTAAGATCACCTCTGAATTTTGC 57.499 37.500 0.00 0.00 33.29 3.68
521 718 7.337689 TGGATGTAAGATCACCTCTGAATTTTG 59.662 37.037 0.00 0.00 33.29 2.44
522 719 7.405292 TGGATGTAAGATCACCTCTGAATTTT 58.595 34.615 0.00 0.00 33.29 1.82
523 720 6.962182 TGGATGTAAGATCACCTCTGAATTT 58.038 36.000 0.00 0.00 33.29 1.82
524 721 6.566079 TGGATGTAAGATCACCTCTGAATT 57.434 37.500 0.00 0.00 33.29 2.17
525 722 6.239829 GGATGGATGTAAGATCACCTCTGAAT 60.240 42.308 0.00 0.00 33.29 2.57
526 723 5.070981 GGATGGATGTAAGATCACCTCTGAA 59.929 44.000 0.00 0.00 33.29 3.02
527 724 4.590647 GGATGGATGTAAGATCACCTCTGA 59.409 45.833 0.00 0.00 33.29 3.27
528 725 4.346127 TGGATGGATGTAAGATCACCTCTG 59.654 45.833 0.00 0.00 33.29 3.35
529 726 4.560739 TGGATGGATGTAAGATCACCTCT 58.439 43.478 0.00 0.00 34.96 3.69
530 727 4.963318 TGGATGGATGTAAGATCACCTC 57.037 45.455 0.00 0.00 0.00 3.85
531 728 5.715439 TTTGGATGGATGTAAGATCACCT 57.285 39.130 0.00 0.00 0.00 4.00
532 729 6.773976 TTTTTGGATGGATGTAAGATCACC 57.226 37.500 0.00 0.00 0.00 4.02
558 755 8.758829 GGAATTTCCTGGAATTTATGGTAAACT 58.241 33.333 10.45 0.00 32.53 2.66
559 756 8.536175 TGGAATTTCCTGGAATTTATGGTAAAC 58.464 33.333 16.25 0.00 37.46 2.01
560 757 8.536175 GTGGAATTTCCTGGAATTTATGGTAAA 58.464 33.333 16.25 0.00 37.46 2.01
561 758 7.125053 GGTGGAATTTCCTGGAATTTATGGTAA 59.875 37.037 16.25 0.00 37.46 2.85
562 759 6.609616 GGTGGAATTTCCTGGAATTTATGGTA 59.390 38.462 16.25 0.00 37.46 3.25
563 760 5.425217 GGTGGAATTTCCTGGAATTTATGGT 59.575 40.000 16.25 0.00 37.46 3.55
564 761 5.424895 TGGTGGAATTTCCTGGAATTTATGG 59.575 40.000 16.25 0.00 37.46 2.74
565 762 6.340522 GTGGTGGAATTTCCTGGAATTTATG 58.659 40.000 16.25 0.00 37.46 1.90
566 763 5.425217 GGTGGTGGAATTTCCTGGAATTTAT 59.575 40.000 16.25 0.00 37.46 1.40
567 764 4.775253 GGTGGTGGAATTTCCTGGAATTTA 59.225 41.667 16.25 0.00 37.46 1.40
568 765 3.582647 GGTGGTGGAATTTCCTGGAATTT 59.417 43.478 16.25 12.85 37.46 1.82
569 766 3.173151 GGTGGTGGAATTTCCTGGAATT 58.827 45.455 16.25 3.82 37.46 2.17
570 767 2.111613 TGGTGGTGGAATTTCCTGGAAT 59.888 45.455 16.25 0.00 37.46 3.01
571 768 1.501170 TGGTGGTGGAATTTCCTGGAA 59.499 47.619 16.25 4.68 37.46 3.53
572 769 1.075374 CTGGTGGTGGAATTTCCTGGA 59.925 52.381 16.25 0.00 37.46 3.86
573 770 1.075374 TCTGGTGGTGGAATTTCCTGG 59.925 52.381 16.25 0.00 37.46 4.45
574 771 2.558359 GTTCTGGTGGTGGAATTTCCTG 59.442 50.000 16.25 0.00 37.46 3.86
575 772 2.447047 AGTTCTGGTGGTGGAATTTCCT 59.553 45.455 16.25 0.00 37.46 3.36
576 773 2.558359 CAGTTCTGGTGGTGGAATTTCC 59.442 50.000 8.59 8.59 36.96 3.13
577 774 3.222603 ACAGTTCTGGTGGTGGAATTTC 58.777 45.455 4.82 0.00 0.00 2.17
578 775 3.312736 ACAGTTCTGGTGGTGGAATTT 57.687 42.857 4.82 0.00 0.00 1.82
579 776 3.312736 AACAGTTCTGGTGGTGGAATT 57.687 42.857 4.82 0.00 0.00 2.17
580 777 3.137544 TGTAACAGTTCTGGTGGTGGAAT 59.862 43.478 0.17 0.00 0.00 3.01
581 778 2.506231 TGTAACAGTTCTGGTGGTGGAA 59.494 45.455 0.17 0.00 0.00 3.53
582 779 2.120312 TGTAACAGTTCTGGTGGTGGA 58.880 47.619 0.17 0.00 0.00 4.02
583 780 2.218603 GTGTAACAGTTCTGGTGGTGG 58.781 52.381 0.17 0.00 36.32 4.61
584 781 2.218603 GGTGTAACAGTTCTGGTGGTG 58.781 52.381 0.17 0.00 39.98 4.17
585 782 1.841277 TGGTGTAACAGTTCTGGTGGT 59.159 47.619 0.17 0.00 39.98 4.16
586 783 2.218603 GTGGTGTAACAGTTCTGGTGG 58.781 52.381 0.17 0.00 39.98 4.61
587 784 2.158813 AGGTGGTGTAACAGTTCTGGTG 60.159 50.000 0.17 0.00 39.98 4.17
588 785 2.124411 AGGTGGTGTAACAGTTCTGGT 58.876 47.619 4.82 0.00 39.98 4.00
589 786 2.104111 TCAGGTGGTGTAACAGTTCTGG 59.896 50.000 4.82 0.00 39.98 3.86
590 787 3.469008 TCAGGTGGTGTAACAGTTCTG 57.531 47.619 0.00 0.00 39.98 3.02
591 788 3.646162 TGATCAGGTGGTGTAACAGTTCT 59.354 43.478 0.00 0.00 39.98 3.01
592 789 4.002906 TGATCAGGTGGTGTAACAGTTC 57.997 45.455 0.00 0.00 39.98 3.01
593 790 4.389374 CTTGATCAGGTGGTGTAACAGTT 58.611 43.478 0.00 0.00 39.98 3.16
594 791 3.244561 CCTTGATCAGGTGGTGTAACAGT 60.245 47.826 3.93 0.00 36.72 3.55
595 792 3.338249 CCTTGATCAGGTGGTGTAACAG 58.662 50.000 3.93 0.00 36.72 3.16
596 793 3.417069 CCTTGATCAGGTGGTGTAACA 57.583 47.619 3.93 0.00 36.72 2.41
713 910 3.004171 CCACCATTTGCCAATTGTCATG 58.996 45.455 4.43 0.00 0.00 3.07
786 985 0.462937 TTAATGCTATGCGTGCGGGT 60.463 50.000 0.00 0.00 0.00 5.28
833 1032 6.097412 GGTTTGAGATGCCTTCCATATTTTCT 59.903 38.462 0.00 0.00 33.29 2.52
1126 1326 3.568538 CAGCAAAGCCAAGTACATCAAC 58.431 45.455 0.00 0.00 0.00 3.18
1248 1448 7.646884 AGGTAGAAAGATCCTCCATTTTGATT 58.353 34.615 0.00 0.00 0.00 2.57
1311 1511 3.304928 GCAGGGAAACAAACATCTCACTG 60.305 47.826 0.00 0.00 0.00 3.66
1442 1642 7.270047 GCTAGTGGTATTAGTTGATGGTGTTA 58.730 38.462 0.00 0.00 0.00 2.41
1454 1654 5.221541 CCCTTCTTGAGGCTAGTGGTATTAG 60.222 48.000 0.00 0.00 44.85 1.73
1477 1677 2.294074 TCCTATGTATTTGCGGCAACC 58.706 47.619 16.15 7.07 0.00 3.77
1605 1805 5.840243 TGGAGAAAAGCATGGTATTGATG 57.160 39.130 0.00 0.00 0.00 3.07
1633 1833 4.963318 TGGTGAAAGAAGAGACAGTGAT 57.037 40.909 0.00 0.00 0.00 3.06
1803 2011 5.734720 TCTTCAGGTTTAGCTCTGGTTATG 58.265 41.667 0.00 0.00 0.00 1.90
2116 2330 0.250295 CAAGAACTTGGAGGGTGCGA 60.250 55.000 6.66 0.00 36.95 5.10
2120 2334 1.754201 GCCAACAAGAACTTGGAGGGT 60.754 52.381 20.38 1.04 44.45 4.34
2126 2340 0.746063 TGCCTGCCAACAAGAACTTG 59.254 50.000 12.22 12.22 45.58 3.16
2723 3088 4.083537 GGAAAAATGGCCGGAAAATTTGAC 60.084 41.667 5.05 5.54 0.00 3.18
2727 3092 3.616317 CGAGGAAAAATGGCCGGAAAATT 60.616 43.478 5.05 0.00 0.00 1.82
2731 3096 0.250989 ACGAGGAAAAATGGCCGGAA 60.251 50.000 5.05 0.00 0.00 4.30
2806 3172 7.716560 TCAGAAGCATGTATAATTGCACATACT 59.283 33.333 9.97 4.47 41.35 2.12
2822 3188 5.618056 ATTGTGTACAGTTCAGAAGCATG 57.382 39.130 0.00 0.00 0.00 4.06
2832 3198 5.049680 CGTGGCTTTTCTATTGTGTACAGTT 60.050 40.000 0.00 0.00 0.00 3.16
2846 3216 1.632948 GCCCGTACTCGTGGCTTTTC 61.633 60.000 10.90 0.00 44.14 2.29
2856 3226 1.226888 CCTGTAAGCGCCCGTACTC 60.227 63.158 2.29 0.00 0.00 2.59
2858 3228 0.874607 CATCCTGTAAGCGCCCGTAC 60.875 60.000 2.29 5.07 0.00 3.67
2874 3244 1.525442 CCCGGTAACCTCCACCATC 59.475 63.158 0.00 0.00 35.67 3.51
2875 3245 2.676265 GCCCGGTAACCTCCACCAT 61.676 63.158 0.00 0.00 35.67 3.55
2980 3357 1.642037 CTGTTCGCTGGGAGCATGTG 61.642 60.000 11.38 0.00 42.58 3.21
3058 3441 3.129502 CGAGGACTACGTGGGCGA 61.130 66.667 3.26 0.00 42.00 5.54
3093 3476 2.779981 CCCCCAGCCCCTGAAAAT 59.220 61.111 0.00 0.00 32.44 1.82
3129 3516 1.811266 CAACGCCGATGGTCCTGAG 60.811 63.158 0.00 0.00 0.00 3.35
3156 3543 4.853050 GCCGCAGCAGAGATGGCT 62.853 66.667 0.00 0.00 42.44 4.75
3202 3589 4.771356 CTCGAAAGCCCGTCGCGA 62.771 66.667 3.71 3.71 44.76 5.87
3236 3623 2.003301 GGCTAAGCTTCTCCAAACTCG 58.997 52.381 0.00 0.00 0.00 4.18
3342 3744 0.679505 TAAGCCGGATTCTCGATGGG 59.320 55.000 8.97 0.00 0.00 4.00
3343 3745 1.341531 AGTAAGCCGGATTCTCGATGG 59.658 52.381 8.97 0.00 0.00 3.51
3358 3760 0.605319 TGTGGCGGCAAAGGAGTAAG 60.605 55.000 15.50 0.00 0.00 2.34
3463 3869 1.985116 GGAGGGAGCAAGAGGACGT 60.985 63.158 0.00 0.00 0.00 4.34
3497 3903 3.637432 GAGAGCAATGGATCAGACGTAG 58.363 50.000 0.00 0.00 0.00 3.51
3499 3905 1.202348 CGAGAGCAATGGATCAGACGT 60.202 52.381 0.00 0.00 0.00 4.34
3680 4086 3.788766 GTCGTGCACGGACATGGC 61.789 66.667 36.41 15.30 40.29 4.40


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

AutoCloner maintained by Alex Coulton.