Multiple sequence alignment - TraesCS2D01G547900

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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 TraesCS2D01G547900 chr2D 100.000 3649 0 0 1 3649 624092763 624096411 0.000000e+00 6739
1 TraesCS2D01G547900 chr2A 91.178 2811 176 33 867 3647 755363007 755365775 0.000000e+00 3751
2 TraesCS2D01G547900 chr2A 85.139 794 84 17 2510 3293 755046388 755045619 0.000000e+00 782
3 TraesCS2D01G547900 chr2A 87.868 544 35 8 1 539 63590033 63589516 8.660000e-171 610
4 TraesCS2D01G547900 chr2A 84.416 308 46 2 2211 2517 755048129 755047823 5.920000e-78 302
5 TraesCS2D01G547900 chr7D 89.807 2649 188 44 1022 3647 534333434 534336023 0.000000e+00 3321
6 TraesCS2D01G547900 chr7D 88.123 522 30 14 1 518 146983299 146983792 3.140000e-165 592
7 TraesCS2D01G547900 chr7D 81.328 482 37 24 561 1000 534327557 534328027 3.490000e-90 342
8 TraesCS2D01G547900 chr2B 91.312 2233 134 28 1455 3647 765919691 765921903 0.000000e+00 2994
9 TraesCS2D01G547900 chr2B 83.931 697 52 28 691 1340 765918819 765919502 2.410000e-171 612
10 TraesCS2D01G547900 chr1A 92.196 551 26 13 1 539 561218043 561218588 0.000000e+00 763
11 TraesCS2D01G547900 chr1A 87.392 579 33 9 1 563 540361256 540360702 2.390000e-176 628
12 TraesCS2D01G547900 chr3A 91.620 537 29 11 1 526 670585321 670585852 0.000000e+00 728
13 TraesCS2D01G547900 chr4D 88.944 606 23 12 1 565 22557234 22556632 0.000000e+00 708
14 TraesCS2D01G547900 chr1D 90.108 556 34 9 1 539 231456685 231456134 0.000000e+00 702
15 TraesCS2D01G547900 chr1D 89.474 570 26 8 1 539 419461663 419462229 0.000000e+00 689
16 TraesCS2D01G547900 chr1D 89.444 540 37 13 1 523 485410965 485410429 0.000000e+00 664
17 TraesCS2D01G547900 chr7A 90.054 553 35 13 1 536 533034673 533035222 0.000000e+00 699
18 TraesCS2D01G547900 chr7A 88.007 592 42 15 2 568 533002212 533002799 0.000000e+00 673
19 TraesCS2D01G547900 chr5A 88.969 553 42 8 1 537 690316197 690315648 0.000000e+00 665
20 TraesCS2D01G547900 chr5A 87.910 579 48 9 1 564 394569112 394569683 0.000000e+00 662
21 TraesCS2D01G547900 chr5A 86.581 544 39 9 1 539 677831436 677830922 1.470000e-158 569
22 TraesCS2D01G547900 chr5A 86.456 539 43 13 1 534 636968319 636967806 6.840000e-157 564
23 TraesCS2D01G547900 chr7B 93.873 408 21 4 1 407 1263357 1263761 2.410000e-171 612
24 TraesCS2D01G547900 chr4A 86.332 578 35 19 1 563 225305250 225304702 1.130000e-164 590
25 TraesCS2D01G547900 chrUn 87.085 542 38 13 1 536 404063096 404063611 5.250000e-163 584
26 TraesCS2D01G547900 chrUn 86.538 156 20 1 3460 3614 256117728 256117883 1.740000e-38 171
27 TraesCS2D01G547900 chrUn 86.928 153 19 1 3463 3614 342150713 342150561 1.740000e-38 171
28 TraesCS2D01G547900 chr4B 90.449 178 15 2 3471 3647 378002410 378002234 2.190000e-57 233
29 TraesCS2D01G547900 chr4B 88.360 189 20 2 3460 3647 14569240 14569427 3.670000e-55 226
30 TraesCS2D01G547900 chr5B 87.582 153 18 1 3463 3614 660923224 660923072 3.740000e-40 176
31 TraesCS2D01G547900 chr5B 86.928 153 19 1 3463 3614 660877275 660877123 1.740000e-38 171


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 TraesCS2D01G547900 chr2D 624092763 624096411 3648 False 6739 6739 100.0000 1 3649 1 chr2D.!!$F1 3648
1 TraesCS2D01G547900 chr2A 755363007 755365775 2768 False 3751 3751 91.1780 867 3647 1 chr2A.!!$F1 2780
2 TraesCS2D01G547900 chr2A 63589516 63590033 517 True 610 610 87.8680 1 539 1 chr2A.!!$R1 538
3 TraesCS2D01G547900 chr2A 755045619 755048129 2510 True 542 782 84.7775 2211 3293 2 chr2A.!!$R2 1082
4 TraesCS2D01G547900 chr7D 534333434 534336023 2589 False 3321 3321 89.8070 1022 3647 1 chr7D.!!$F3 2625
5 TraesCS2D01G547900 chr2B 765918819 765921903 3084 False 1803 2994 87.6215 691 3647 2 chr2B.!!$F1 2956
6 TraesCS2D01G547900 chr1A 561218043 561218588 545 False 763 763 92.1960 1 539 1 chr1A.!!$F1 538
7 TraesCS2D01G547900 chr1A 540360702 540361256 554 True 628 628 87.3920 1 563 1 chr1A.!!$R1 562
8 TraesCS2D01G547900 chr3A 670585321 670585852 531 False 728 728 91.6200 1 526 1 chr3A.!!$F1 525
9 TraesCS2D01G547900 chr4D 22556632 22557234 602 True 708 708 88.9440 1 565 1 chr4D.!!$R1 564
10 TraesCS2D01G547900 chr1D 231456134 231456685 551 True 702 702 90.1080 1 539 1 chr1D.!!$R1 538
11 TraesCS2D01G547900 chr1D 419461663 419462229 566 False 689 689 89.4740 1 539 1 chr1D.!!$F1 538
12 TraesCS2D01G547900 chr1D 485410429 485410965 536 True 664 664 89.4440 1 523 1 chr1D.!!$R2 522
13 TraesCS2D01G547900 chr7A 533034673 533035222 549 False 699 699 90.0540 1 536 1 chr7A.!!$F2 535
14 TraesCS2D01G547900 chr7A 533002212 533002799 587 False 673 673 88.0070 2 568 1 chr7A.!!$F1 566
15 TraesCS2D01G547900 chr5A 690315648 690316197 549 True 665 665 88.9690 1 537 1 chr5A.!!$R3 536
16 TraesCS2D01G547900 chr5A 394569112 394569683 571 False 662 662 87.9100 1 564 1 chr5A.!!$F1 563
17 TraesCS2D01G547900 chr5A 677830922 677831436 514 True 569 569 86.5810 1 539 1 chr5A.!!$R2 538
18 TraesCS2D01G547900 chr5A 636967806 636968319 513 True 564 564 86.4560 1 534 1 chr5A.!!$R1 533
19 TraesCS2D01G547900 chr4A 225304702 225305250 548 True 590 590 86.3320 1 563 1 chr4A.!!$R1 562
20 TraesCS2D01G547900 chrUn 404063096 404063611 515 False 584 584 87.0850 1 536 1 chrUn.!!$F2 535

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
663 784 0.107508 CATCCTTGACCGGTGATGCT 60.108 55.0 14.63 0.0 0.00 3.79 F
664 785 0.107508 ATCCTTGACCGGTGATGCTG 60.108 55.0 14.63 0.0 0.00 4.41 F
680 801 0.109226 GCTGTAGACTGACGGTGGTC 60.109 60.0 0.00 0.0 43.71 4.02 F
2143 2435 0.179100 CCTTGTCGATGATGAGCGGT 60.179 55.0 0.00 0.0 0.00 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1813 2101 0.319211 CGAAGAACCGTGCACTGGTA 60.319 55.000 26.21 0.0 39.29 3.25 R
1843 2131 0.675083 TTACGCAGTTCAGGAACGGA 59.325 50.000 14.97 0.0 37.78 4.69 R
2216 2508 0.689623 AGCAGGTGGAGAAACTCAGG 59.310 55.000 0.00 0.0 31.08 3.86 R
3416 5182 1.270839 ACCCCAAGTTCATGTCGTCTG 60.271 52.381 0.00 0.0 0.00 3.51 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
19 20 2.972505 CGCTGGCTGGACACGTTT 60.973 61.111 0.00 0.00 0.00 3.60
219 222 2.186903 GCGGATCGACATGGTGGT 59.813 61.111 0.00 0.00 0.00 4.16
243 246 4.577246 GCGGCGAGGCTAGTGAGG 62.577 72.222 12.98 0.00 0.00 3.86
356 419 2.281761 CTGGAGCGCCAAACCAGT 60.282 61.111 23.17 0.00 45.41 4.00
526 647 1.064357 GACCAAACGGACAAAAAGCGA 59.936 47.619 0.00 0.00 0.00 4.93
543 664 1.642753 GAACAAAAACGCCGGTCGA 59.357 52.632 22.10 0.00 41.67 4.20
544 665 0.655337 GAACAAAAACGCCGGTCGAC 60.655 55.000 22.10 7.13 41.67 4.20
545 666 2.050639 AACAAAAACGCCGGTCGACC 62.051 55.000 25.28 25.28 41.67 4.79
546 667 2.974148 AAAAACGCCGGTCGACCC 60.974 61.111 28.52 14.63 41.67 4.46
555 676 2.739132 GGTCGACCCGTTGGAGTT 59.261 61.111 24.75 0.00 34.81 3.01
556 677 1.666872 GGTCGACCCGTTGGAGTTG 60.667 63.158 24.75 0.00 34.81 3.16
557 678 2.029964 TCGACCCGTTGGAGTTGC 59.970 61.111 0.00 0.00 34.81 4.17
558 679 2.030562 CGACCCGTTGGAGTTGCT 59.969 61.111 0.00 0.00 34.81 3.91
559 680 2.027625 CGACCCGTTGGAGTTGCTC 61.028 63.158 0.00 0.00 34.81 4.26
560 681 1.371558 GACCCGTTGGAGTTGCTCT 59.628 57.895 0.00 0.00 34.81 4.09
561 682 0.250338 GACCCGTTGGAGTTGCTCTT 60.250 55.000 0.00 0.00 34.81 2.85
562 683 1.001633 GACCCGTTGGAGTTGCTCTTA 59.998 52.381 0.00 0.00 34.81 2.10
563 684 1.002087 ACCCGTTGGAGTTGCTCTTAG 59.998 52.381 0.00 0.00 34.81 2.18
564 685 1.676014 CCCGTTGGAGTTGCTCTTAGG 60.676 57.143 0.00 0.00 0.00 2.69
565 686 1.002087 CCGTTGGAGTTGCTCTTAGGT 59.998 52.381 0.00 0.00 0.00 3.08
566 687 2.069273 CGTTGGAGTTGCTCTTAGGTG 58.931 52.381 0.00 0.00 0.00 4.00
567 688 2.427506 GTTGGAGTTGCTCTTAGGTGG 58.572 52.381 0.00 0.00 0.00 4.61
568 689 1.729586 TGGAGTTGCTCTTAGGTGGT 58.270 50.000 0.00 0.00 0.00 4.16
569 690 1.623811 TGGAGTTGCTCTTAGGTGGTC 59.376 52.381 0.00 0.00 0.00 4.02
570 691 1.066071 GGAGTTGCTCTTAGGTGGTCC 60.066 57.143 0.00 0.00 0.00 4.46
571 692 1.623811 GAGTTGCTCTTAGGTGGTCCA 59.376 52.381 0.00 0.00 35.89 4.02
572 693 1.348036 AGTTGCTCTTAGGTGGTCCAC 59.652 52.381 14.13 14.13 35.89 4.02
573 694 1.071699 GTTGCTCTTAGGTGGTCCACA 59.928 52.381 23.48 0.66 35.86 4.17
574 695 1.429930 TGCTCTTAGGTGGTCCACAA 58.570 50.000 23.48 9.28 35.86 3.33
575 696 1.771854 TGCTCTTAGGTGGTCCACAAA 59.228 47.619 23.48 15.11 35.86 2.83
576 697 2.224523 TGCTCTTAGGTGGTCCACAAAG 60.225 50.000 23.48 22.58 35.86 2.77
577 698 2.427506 CTCTTAGGTGGTCCACAAAGC 58.572 52.381 23.48 6.12 35.86 3.51
578 699 1.073284 TCTTAGGTGGTCCACAAAGCC 59.927 52.381 23.48 5.84 35.86 4.35
579 700 0.250553 TTAGGTGGTCCACAAAGCCG 60.251 55.000 23.48 0.00 35.86 5.52
580 701 2.119484 TAGGTGGTCCACAAAGCCGG 62.119 60.000 23.48 0.00 35.86 6.13
581 702 2.203294 GTGGTCCACAAAGCCGGT 60.203 61.111 17.59 0.00 34.08 5.28
582 703 1.826487 GTGGTCCACAAAGCCGGTT 60.826 57.895 17.59 0.00 34.08 4.44
583 704 0.535553 GTGGTCCACAAAGCCGGTTA 60.536 55.000 17.59 0.00 34.08 2.85
584 705 0.402504 TGGTCCACAAAGCCGGTTAT 59.597 50.000 1.90 0.00 0.00 1.89
585 706 1.202952 TGGTCCACAAAGCCGGTTATT 60.203 47.619 1.90 0.00 0.00 1.40
586 707 2.040012 TGGTCCACAAAGCCGGTTATTA 59.960 45.455 1.90 0.00 0.00 0.98
587 708 3.284617 GGTCCACAAAGCCGGTTATTAT 58.715 45.455 1.90 0.00 0.00 1.28
588 709 3.697542 GGTCCACAAAGCCGGTTATTATT 59.302 43.478 1.90 0.00 0.00 1.40
589 710 4.883006 GGTCCACAAAGCCGGTTATTATTA 59.117 41.667 1.90 0.00 0.00 0.98
590 711 5.008316 GGTCCACAAAGCCGGTTATTATTAG 59.992 44.000 1.90 0.00 0.00 1.73
591 712 5.818857 GTCCACAAAGCCGGTTATTATTAGA 59.181 40.000 1.90 0.00 0.00 2.10
592 713 6.485648 GTCCACAAAGCCGGTTATTATTAGAT 59.514 38.462 1.90 0.00 0.00 1.98
593 714 6.708949 TCCACAAAGCCGGTTATTATTAGATC 59.291 38.462 1.90 0.00 0.00 2.75
594 715 6.347402 CCACAAAGCCGGTTATTATTAGATCG 60.347 42.308 1.90 0.00 0.00 3.69
595 716 5.699458 ACAAAGCCGGTTATTATTAGATCGG 59.301 40.000 1.90 0.00 39.07 4.18
596 717 5.733620 AAGCCGGTTATTATTAGATCGGA 57.266 39.130 1.90 0.00 38.42 4.55
597 718 5.733620 AGCCGGTTATTATTAGATCGGAA 57.266 39.130 1.90 0.00 38.42 4.30
598 719 5.476614 AGCCGGTTATTATTAGATCGGAAC 58.523 41.667 1.90 0.00 38.42 3.62
599 720 5.245526 AGCCGGTTATTATTAGATCGGAACT 59.754 40.000 1.90 0.00 38.42 3.01
600 721 5.930569 GCCGGTTATTATTAGATCGGAACTT 59.069 40.000 1.90 0.00 38.42 2.66
601 722 6.426025 GCCGGTTATTATTAGATCGGAACTTT 59.574 38.462 1.90 0.00 38.42 2.66
602 723 7.570691 GCCGGTTATTATTAGATCGGAACTTTG 60.571 40.741 1.90 0.00 38.42 2.77
603 724 7.095355 CCGGTTATTATTAGATCGGAACTTTGG 60.095 40.741 0.00 0.00 38.42 3.28
604 725 7.654520 CGGTTATTATTAGATCGGAACTTTGGA 59.345 37.037 0.00 0.00 0.00 3.53
605 726 9.333724 GGTTATTATTAGATCGGAACTTTGGAA 57.666 33.333 0.00 0.00 0.00 3.53
610 731 9.760077 TTATTAGATCGGAACTTTGGAAGTATC 57.240 33.333 0.00 0.00 41.91 2.24
611 732 5.941555 AGATCGGAACTTTGGAAGTATCT 57.058 39.130 0.00 0.00 41.91 1.98
612 733 5.908341 AGATCGGAACTTTGGAAGTATCTC 58.092 41.667 0.00 0.00 41.91 2.75
613 734 5.659079 AGATCGGAACTTTGGAAGTATCTCT 59.341 40.000 0.00 0.00 41.91 3.10
614 735 5.326200 TCGGAACTTTGGAAGTATCTCTC 57.674 43.478 0.00 0.00 41.91 3.20
615 736 5.017490 TCGGAACTTTGGAAGTATCTCTCT 58.983 41.667 0.00 0.00 41.91 3.10
616 737 5.105716 TCGGAACTTTGGAAGTATCTCTCTG 60.106 44.000 0.00 0.00 41.91 3.35
617 738 5.423886 GGAACTTTGGAAGTATCTCTCTGG 58.576 45.833 0.00 0.00 41.91 3.86
618 739 5.187967 GGAACTTTGGAAGTATCTCTCTGGA 59.812 44.000 0.00 0.00 41.91 3.86
619 740 6.295916 GGAACTTTGGAAGTATCTCTCTGGAA 60.296 42.308 0.00 0.00 41.91 3.53
620 741 6.882768 ACTTTGGAAGTATCTCTCTGGAAT 57.117 37.500 0.00 0.00 40.69 3.01
621 742 6.648192 ACTTTGGAAGTATCTCTCTGGAATG 58.352 40.000 0.00 0.00 40.69 2.67
622 743 6.441924 ACTTTGGAAGTATCTCTCTGGAATGA 59.558 38.462 0.00 0.00 40.69 2.57
623 744 6.874278 TTGGAAGTATCTCTCTGGAATGAA 57.126 37.500 0.00 0.00 0.00 2.57
624 745 6.874278 TGGAAGTATCTCTCTGGAATGAAA 57.126 37.500 0.00 0.00 0.00 2.69
625 746 7.443302 TGGAAGTATCTCTCTGGAATGAAAT 57.557 36.000 0.00 0.00 0.00 2.17
626 747 8.553085 TGGAAGTATCTCTCTGGAATGAAATA 57.447 34.615 0.00 0.00 0.00 1.40
627 748 8.992349 TGGAAGTATCTCTCTGGAATGAAATAA 58.008 33.333 0.00 0.00 0.00 1.40
628 749 9.838339 GGAAGTATCTCTCTGGAATGAAATAAA 57.162 33.333 0.00 0.00 0.00 1.40
657 778 1.905637 GGAAAACATCCTTGACCGGT 58.094 50.000 6.92 6.92 45.56 5.28
658 779 1.539827 GGAAAACATCCTTGACCGGTG 59.460 52.381 14.63 0.00 45.56 4.94
659 780 2.500229 GAAAACATCCTTGACCGGTGA 58.500 47.619 14.63 0.00 0.00 4.02
660 781 2.879103 AAACATCCTTGACCGGTGAT 57.121 45.000 14.63 5.37 0.00 3.06
661 782 2.113860 AACATCCTTGACCGGTGATG 57.886 50.000 23.91 23.91 40.28 3.07
662 783 0.392998 ACATCCTTGACCGGTGATGC 60.393 55.000 24.93 8.13 38.49 3.91
663 784 0.107508 CATCCTTGACCGGTGATGCT 60.108 55.000 14.63 0.00 0.00 3.79
664 785 0.107508 ATCCTTGACCGGTGATGCTG 60.108 55.000 14.63 0.00 0.00 4.41
665 786 1.003355 CCTTGACCGGTGATGCTGT 60.003 57.895 14.63 0.00 0.00 4.40
666 787 0.249120 CCTTGACCGGTGATGCTGTA 59.751 55.000 14.63 0.00 0.00 2.74
667 788 1.645034 CTTGACCGGTGATGCTGTAG 58.355 55.000 14.63 0.00 0.00 2.74
668 789 1.204704 CTTGACCGGTGATGCTGTAGA 59.795 52.381 14.63 0.00 0.00 2.59
669 790 0.530744 TGACCGGTGATGCTGTAGAC 59.469 55.000 14.63 0.00 0.00 2.59
670 791 0.818296 GACCGGTGATGCTGTAGACT 59.182 55.000 14.63 0.00 0.00 3.24
671 792 0.532573 ACCGGTGATGCTGTAGACTG 59.467 55.000 6.12 0.00 0.00 3.51
672 793 0.817654 CCGGTGATGCTGTAGACTGA 59.182 55.000 0.00 0.00 0.00 3.41
673 794 1.469940 CCGGTGATGCTGTAGACTGAC 60.470 57.143 0.00 0.00 0.00 3.51
674 795 1.795525 CGGTGATGCTGTAGACTGACG 60.796 57.143 0.00 0.00 0.00 4.35
675 796 1.469940 GGTGATGCTGTAGACTGACGG 60.470 57.143 0.00 0.00 0.00 4.79
676 797 1.202582 GTGATGCTGTAGACTGACGGT 59.797 52.381 0.00 0.00 0.00 4.83
677 798 1.202348 TGATGCTGTAGACTGACGGTG 59.798 52.381 0.00 0.00 0.00 4.94
678 799 0.532573 ATGCTGTAGACTGACGGTGG 59.467 55.000 0.00 0.00 0.00 4.61
679 800 0.826256 TGCTGTAGACTGACGGTGGT 60.826 55.000 0.00 0.00 0.00 4.16
680 801 0.109226 GCTGTAGACTGACGGTGGTC 60.109 60.000 0.00 0.00 43.71 4.02
681 802 0.526662 CTGTAGACTGACGGTGGTCC 59.473 60.000 0.00 0.00 42.73 4.46
700 821 2.187163 GCAAGCCTAGGGACGGTC 59.813 66.667 11.72 0.00 0.00 4.79
745 866 1.188871 TACCATCGGCACTGTCCACA 61.189 55.000 0.00 0.00 0.00 4.17
747 868 1.091771 CCATCGGCACTGTCCACATC 61.092 60.000 0.00 0.00 0.00 3.06
779 900 4.077184 CGCCCGCCTACTGACCAA 62.077 66.667 0.00 0.00 0.00 3.67
782 903 1.602237 CCCGCCTACTGACCAATGT 59.398 57.895 0.00 0.00 0.00 2.71
811 936 1.153369 GCTGCCGCTAGATTCACCA 60.153 57.895 0.00 0.00 0.00 4.17
813 938 1.153369 TGCCGCTAGATTCACCAGC 60.153 57.895 0.00 0.00 0.00 4.85
860 990 4.025401 GCGTCCAACCAACCGCTG 62.025 66.667 0.00 0.00 42.66 5.18
861 991 2.590575 CGTCCAACCAACCGCTGT 60.591 61.111 0.00 0.00 0.00 4.40
862 992 2.184167 CGTCCAACCAACCGCTGTT 61.184 57.895 0.00 0.00 34.14 3.16
865 995 2.561037 CCAACCAACCGCTGTTCCC 61.561 63.158 0.00 0.00 30.42 3.97
934 1086 2.824041 CCCGACAAATCCGCCTGG 60.824 66.667 0.00 0.00 0.00 4.45
970 1122 3.371063 GTCGCGTCCCTGTCTCCA 61.371 66.667 5.77 0.00 0.00 3.86
971 1123 3.371063 TCGCGTCCCTGTCTCCAC 61.371 66.667 5.77 0.00 0.00 4.02
972 1124 3.374402 CGCGTCCCTGTCTCCACT 61.374 66.667 0.00 0.00 0.00 4.00
993 1156 1.678635 CCAGCGCCCATTTCCTTCA 60.679 57.895 2.29 0.00 0.00 3.02
1340 1521 6.696411 ACGTACTACTAGTAACTCACTGACT 58.304 40.000 3.76 0.00 38.24 3.41
1343 1524 7.043458 CGTACTACTAGTAACTCACTGACTAGC 60.043 44.444 3.76 0.00 44.30 3.42
1358 1539 5.478679 ACTGACTAGCTGTGATCTGTTTACT 59.521 40.000 0.00 0.00 0.00 2.24
1360 1541 7.089770 TGACTAGCTGTGATCTGTTTACTAG 57.910 40.000 0.00 0.00 33.68 2.57
1533 1796 5.186992 TGCCACTGCTCTAAACTAATGACTA 59.813 40.000 0.00 0.00 38.71 2.59
1546 1809 6.857777 ACTAATGACTAAATCTCAGCATGC 57.142 37.500 10.51 10.51 34.76 4.06
1597 1862 5.460091 TCGATTGATCAGACACGAATTGATC 59.540 40.000 11.13 13.19 44.64 2.92
1612 1883 6.696148 ACGAATTGATCAATAACTACCTCGTC 59.304 38.462 25.29 14.28 32.35 4.20
1635 1909 1.821136 GCTCCTTGCTTGGTTGCTAAT 59.179 47.619 0.00 0.00 38.95 1.73
1746 2023 3.835395 CTCTTCAGGTACTCCTCCAACTT 59.165 47.826 0.00 0.00 43.07 2.66
1747 2024 3.833070 TCTTCAGGTACTCCTCCAACTTC 59.167 47.826 0.00 0.00 43.07 3.01
1748 2025 3.544698 TCAGGTACTCCTCCAACTTCT 57.455 47.619 0.00 0.00 43.07 2.85
1784 2071 6.045318 TGCTTGCATCAGTAGAGATCTTAAC 58.955 40.000 0.00 0.00 0.00 2.01
1790 2077 8.791675 TGCATCAGTAGAGATCTTAACATAGAG 58.208 37.037 0.00 0.00 0.00 2.43
1813 2101 2.363038 TGCTCTGTTTTGCAGCAATTCT 59.637 40.909 9.12 0.00 44.66 2.40
1817 2105 3.888323 TCTGTTTTGCAGCAATTCTACCA 59.112 39.130 9.12 0.00 44.66 3.25
1834 2122 2.108157 AGTGCACGGTTCTTCGCA 59.892 55.556 12.01 0.00 0.00 5.10
1843 2131 0.669625 GGTTCTTCGCAGCGGTAGTT 60.670 55.000 16.42 0.00 0.00 2.24
1861 2149 0.675083 TTCCGTTCCTGAACTGCGTA 59.325 50.000 8.28 0.00 39.08 4.42
2143 2435 0.179100 CCTTGTCGATGATGAGCGGT 60.179 55.000 0.00 0.00 0.00 5.68
2146 2438 1.141881 GTCGATGATGAGCGGTGGT 59.858 57.895 0.00 0.00 0.00 4.16
2164 2456 2.037511 TGGTGACGGTAAGACGGAAATT 59.962 45.455 0.00 0.00 38.39 1.82
2174 2466 2.433436 AGACGGAAATTGGTTACAGGC 58.567 47.619 0.00 0.00 0.00 4.85
2180 2472 3.562609 GGAAATTGGTTACAGGCCCTGTA 60.563 47.826 19.72 19.72 43.46 2.74
2227 2519 3.875134 TGTTCGTTTTCCCTGAGTTTCTC 59.125 43.478 0.00 0.00 0.00 2.87
2240 2533 3.181440 TGAGTTTCTCCACCTGCTTGATT 60.181 43.478 0.00 0.00 0.00 2.57
2290 2583 1.517475 GAGAAGGTTCGGCTCGCTC 60.517 63.158 0.00 0.00 0.00 5.03
2308 2601 2.925306 GCTCAAGCTGCCATTCAACAAG 60.925 50.000 0.00 0.00 38.21 3.16
2386 2679 3.192230 TATGGTTCTTGCGGCGCG 61.192 61.111 28.09 14.27 0.00 6.86
2402 2696 1.741770 GCGCTCCCGTTGTCTTGAT 60.742 57.895 0.00 0.00 36.67 2.57
2414 2708 5.390461 CCGTTGTCTTGATAGAATTTCGCAA 60.390 40.000 0.00 0.00 30.65 4.85
2415 2709 5.729883 CGTTGTCTTGATAGAATTTCGCAAG 59.270 40.000 16.63 16.63 37.79 4.01
2508 2806 4.166888 TCAGCTGGGATCAGGCGC 62.167 66.667 15.13 0.00 41.19 6.53
2685 4425 0.898320 TTGAGCTCCTCCTGTACTGC 59.102 55.000 12.15 0.00 0.00 4.40
2708 4449 3.768757 CACCAGAAGTTCTCTCATCTCCT 59.231 47.826 1.26 0.00 29.07 3.69
2730 4471 5.593909 CCTTTTTCCCCTTTGAAGCAAAAAT 59.406 36.000 0.00 0.00 32.75 1.82
2814 4567 1.068588 TCAATCCGTATCCAGCCTTCG 59.931 52.381 0.00 0.00 0.00 3.79
2869 4624 2.424246 ACAAACAAACCCCGTACAACAG 59.576 45.455 0.00 0.00 0.00 3.16
2925 4689 8.635765 AATAGTGCAAAAAGGATGAAGAAGTA 57.364 30.769 0.00 0.00 0.00 2.24
2967 4731 3.525609 TCATATTTGCAACTACCAGGGGA 59.474 43.478 0.00 0.00 0.00 4.81
3014 4779 6.605146 AGCTGAGCTTTTCGTTGAGGATCA 62.605 45.833 0.00 0.00 38.90 2.92
3086 4852 0.036952 CTTCAGGCTTCCGCTTCTCA 60.037 55.000 0.00 0.00 36.09 3.27
3137 4903 6.072286 GCAACTTCTGATGAATCTTCTTCCAA 60.072 38.462 0.00 0.00 32.21 3.53
3189 4955 3.007398 AGAGACCTTGCTACTTTGGTGAG 59.993 47.826 0.00 0.00 32.30 3.51
3440 5206 1.534729 GACATGAACTTGGGGTGTCC 58.465 55.000 0.00 0.00 34.58 4.02
3461 5227 0.034337 CAGCTGGGTGCAAGCAAAAT 59.966 50.000 5.57 0.00 45.94 1.82
3542 5308 1.629861 TCCATGACAACATCAGGCTCA 59.370 47.619 0.00 0.00 41.91 4.26
3598 5365 5.184287 CCAAACCACCCTGAAATAAATACGT 59.816 40.000 0.00 0.00 0.00 3.57
3600 5367 5.168647 ACCACCCTGAAATAAATACGTGA 57.831 39.130 0.00 0.00 0.00 4.35
3604 5371 7.830201 ACCACCCTGAAATAAATACGTGAATTA 59.170 33.333 0.00 0.00 0.00 1.40
3621 5388 8.262227 ACGTGAATTAATCAGATAGGTGGTTTA 58.738 33.333 0.00 0.00 39.19 2.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 6.530181 GGGATATGAATTTTTCAAACGTGTCC 59.470 38.462 0.00 0.00 43.95 4.02
19 20 4.814234 CCTCGTCGGGATATGAATTTTTCA 59.186 41.667 0.00 0.00 45.01 2.69
362 425 2.995547 GGGAGGAAAGCGGCCTAA 59.004 61.111 0.00 0.00 35.44 2.69
526 647 1.352753 GTCGACCGGCGTTTTTGTT 59.647 52.632 16.00 0.00 41.80 2.83
539 660 2.315386 GCAACTCCAACGGGTCGAC 61.315 63.158 7.13 7.13 34.93 4.20
540 661 2.029964 GCAACTCCAACGGGTCGA 59.970 61.111 0.00 0.00 34.93 4.20
543 664 1.002087 CTAAGAGCAACTCCAACGGGT 59.998 52.381 0.00 0.00 34.93 5.28
544 665 1.676014 CCTAAGAGCAACTCCAACGGG 60.676 57.143 0.00 0.00 0.00 5.28
545 666 1.002087 ACCTAAGAGCAACTCCAACGG 59.998 52.381 0.00 0.00 0.00 4.44
546 667 2.069273 CACCTAAGAGCAACTCCAACG 58.931 52.381 0.00 0.00 0.00 4.10
547 668 2.224548 ACCACCTAAGAGCAACTCCAAC 60.225 50.000 0.00 0.00 0.00 3.77
548 669 2.038557 GACCACCTAAGAGCAACTCCAA 59.961 50.000 0.00 0.00 0.00 3.53
549 670 1.623811 GACCACCTAAGAGCAACTCCA 59.376 52.381 0.00 0.00 0.00 3.86
550 671 1.066071 GGACCACCTAAGAGCAACTCC 60.066 57.143 0.00 0.00 0.00 3.85
551 672 1.623811 TGGACCACCTAAGAGCAACTC 59.376 52.381 0.00 0.00 37.04 3.01
552 673 1.348036 GTGGACCACCTAAGAGCAACT 59.652 52.381 14.16 0.00 37.04 3.16
553 674 1.071699 TGTGGACCACCTAAGAGCAAC 59.928 52.381 22.00 0.00 37.04 4.17
554 675 1.429930 TGTGGACCACCTAAGAGCAA 58.570 50.000 22.00 0.00 37.04 3.91
555 676 1.429930 TTGTGGACCACCTAAGAGCA 58.570 50.000 22.00 0.00 37.04 4.26
556 677 2.427506 CTTTGTGGACCACCTAAGAGC 58.572 52.381 22.00 0.00 37.04 4.09
557 678 2.427506 GCTTTGTGGACCACCTAAGAG 58.572 52.381 27.90 17.45 37.04 2.85
558 679 1.073284 GGCTTTGTGGACCACCTAAGA 59.927 52.381 27.90 8.70 37.04 2.10
559 680 1.534729 GGCTTTGTGGACCACCTAAG 58.465 55.000 22.00 22.55 37.04 2.18
560 681 0.250553 CGGCTTTGTGGACCACCTAA 60.251 55.000 22.00 14.35 37.04 2.69
561 682 1.373435 CGGCTTTGTGGACCACCTA 59.627 57.895 22.00 7.29 37.04 3.08
562 683 2.113139 CGGCTTTGTGGACCACCT 59.887 61.111 22.00 0.00 37.04 4.00
563 684 2.983592 CCGGCTTTGTGGACCACC 60.984 66.667 22.00 5.05 32.73 4.61
564 685 0.535553 TAACCGGCTTTGTGGACCAC 60.536 55.000 18.28 18.28 34.56 4.16
565 686 0.402504 ATAACCGGCTTTGTGGACCA 59.597 50.000 0.00 0.00 0.00 4.02
566 687 1.541379 AATAACCGGCTTTGTGGACC 58.459 50.000 0.00 0.00 0.00 4.46
567 688 4.976224 AATAATAACCGGCTTTGTGGAC 57.024 40.909 0.00 0.00 0.00 4.02
568 689 5.991861 TCTAATAATAACCGGCTTTGTGGA 58.008 37.500 0.00 0.00 0.00 4.02
569 690 6.347402 CGATCTAATAATAACCGGCTTTGTGG 60.347 42.308 0.00 0.00 0.00 4.17
570 691 6.347402 CCGATCTAATAATAACCGGCTTTGTG 60.347 42.308 0.00 0.00 0.00 3.33
571 692 5.699458 CCGATCTAATAATAACCGGCTTTGT 59.301 40.000 0.00 0.00 0.00 2.83
572 693 5.929992 TCCGATCTAATAATAACCGGCTTTG 59.070 40.000 0.00 0.00 35.86 2.77
573 694 6.105397 TCCGATCTAATAATAACCGGCTTT 57.895 37.500 0.00 0.00 35.86 3.51
574 695 5.733620 TCCGATCTAATAATAACCGGCTT 57.266 39.130 0.00 0.00 35.86 4.35
575 696 5.245526 AGTTCCGATCTAATAATAACCGGCT 59.754 40.000 0.00 0.00 35.86 5.52
576 697 5.476614 AGTTCCGATCTAATAATAACCGGC 58.523 41.667 0.00 0.00 35.86 6.13
577 698 7.095355 CCAAAGTTCCGATCTAATAATAACCGG 60.095 40.741 0.00 0.00 37.08 5.28
578 699 7.654520 TCCAAAGTTCCGATCTAATAATAACCG 59.345 37.037 0.00 0.00 0.00 4.44
579 700 8.897872 TCCAAAGTTCCGATCTAATAATAACC 57.102 34.615 0.00 0.00 0.00 2.85
584 705 9.760077 GATACTTCCAAAGTTCCGATCTAATAA 57.240 33.333 0.00 0.00 42.81 1.40
585 706 9.144298 AGATACTTCCAAAGTTCCGATCTAATA 57.856 33.333 0.00 0.00 42.81 0.98
586 707 8.024145 AGATACTTCCAAAGTTCCGATCTAAT 57.976 34.615 0.00 0.00 42.81 1.73
587 708 7.342284 AGAGATACTTCCAAAGTTCCGATCTAA 59.658 37.037 0.00 0.00 42.81 2.10
588 709 6.834451 AGAGATACTTCCAAAGTTCCGATCTA 59.166 38.462 0.00 0.00 42.81 1.98
589 710 5.659079 AGAGATACTTCCAAAGTTCCGATCT 59.341 40.000 0.00 0.83 42.81 2.75
590 711 5.908341 AGAGATACTTCCAAAGTTCCGATC 58.092 41.667 0.00 0.00 42.81 3.69
591 712 5.659079 AGAGAGATACTTCCAAAGTTCCGAT 59.341 40.000 0.00 0.00 42.81 4.18
592 713 5.017490 AGAGAGATACTTCCAAAGTTCCGA 58.983 41.667 0.00 0.00 42.81 4.55
593 714 5.105752 CAGAGAGATACTTCCAAAGTTCCG 58.894 45.833 0.00 0.00 42.81 4.30
594 715 5.187967 TCCAGAGAGATACTTCCAAAGTTCC 59.812 44.000 0.00 0.00 42.81 3.62
595 716 6.287589 TCCAGAGAGATACTTCCAAAGTTC 57.712 41.667 0.00 0.00 42.81 3.01
596 717 6.688073 TTCCAGAGAGATACTTCCAAAGTT 57.312 37.500 0.00 0.00 42.81 2.66
597 718 6.441924 TCATTCCAGAGAGATACTTCCAAAGT 59.558 38.462 0.00 0.00 45.40 2.66
598 719 6.882656 TCATTCCAGAGAGATACTTCCAAAG 58.117 40.000 0.00 0.00 0.00 2.77
599 720 6.874278 TCATTCCAGAGAGATACTTCCAAA 57.126 37.500 0.00 0.00 0.00 3.28
600 721 6.874278 TTCATTCCAGAGAGATACTTCCAA 57.126 37.500 0.00 0.00 0.00 3.53
601 722 6.874278 TTTCATTCCAGAGAGATACTTCCA 57.126 37.500 0.00 0.00 0.00 3.53
602 723 9.838339 TTTATTTCATTCCAGAGAGATACTTCC 57.162 33.333 0.00 0.00 0.00 3.46
628 749 8.758829 GGTCAAGGATGTTTTCCCTTTATTTAT 58.241 33.333 0.00 0.00 46.81 1.40
629 750 7.094118 CGGTCAAGGATGTTTTCCCTTTATTTA 60.094 37.037 0.00 0.00 46.81 1.40
630 751 6.295067 CGGTCAAGGATGTTTTCCCTTTATTT 60.295 38.462 0.00 0.00 46.81 1.40
631 752 5.185056 CGGTCAAGGATGTTTTCCCTTTATT 59.815 40.000 0.00 0.00 46.81 1.40
632 753 4.705023 CGGTCAAGGATGTTTTCCCTTTAT 59.295 41.667 0.00 0.00 46.81 1.40
633 754 4.076394 CGGTCAAGGATGTTTTCCCTTTA 58.924 43.478 0.00 0.00 46.81 1.85
634 755 2.890945 CGGTCAAGGATGTTTTCCCTTT 59.109 45.455 0.00 0.00 46.81 3.11
635 756 2.514803 CGGTCAAGGATGTTTTCCCTT 58.485 47.619 0.00 0.00 46.81 3.95
636 757 1.271926 CCGGTCAAGGATGTTTTCCCT 60.272 52.381 0.00 0.00 46.81 4.20
637 758 1.173913 CCGGTCAAGGATGTTTTCCC 58.826 55.000 0.00 0.00 46.81 3.97
638 759 1.539827 CACCGGTCAAGGATGTTTTCC 59.460 52.381 2.59 0.00 45.85 3.13
639 760 2.500229 TCACCGGTCAAGGATGTTTTC 58.500 47.619 2.59 0.00 34.73 2.29
640 761 2.649531 TCACCGGTCAAGGATGTTTT 57.350 45.000 2.59 0.00 34.73 2.43
641 762 2.436417 CATCACCGGTCAAGGATGTTT 58.564 47.619 19.55 0.00 34.02 2.83
642 763 1.950484 GCATCACCGGTCAAGGATGTT 60.950 52.381 25.21 0.16 39.39 2.71
643 764 0.392998 GCATCACCGGTCAAGGATGT 60.393 55.000 25.21 0.00 39.39 3.06
644 765 0.107508 AGCATCACCGGTCAAGGATG 60.108 55.000 22.21 22.21 40.00 3.51
645 766 0.107508 CAGCATCACCGGTCAAGGAT 60.108 55.000 2.59 0.62 34.73 3.24
646 767 1.296392 CAGCATCACCGGTCAAGGA 59.704 57.895 2.59 0.00 34.73 3.36
647 768 0.249120 TACAGCATCACCGGTCAAGG 59.751 55.000 2.59 0.00 37.30 3.61
648 769 1.204704 TCTACAGCATCACCGGTCAAG 59.795 52.381 2.59 0.00 0.00 3.02
649 770 1.067142 GTCTACAGCATCACCGGTCAA 60.067 52.381 2.59 0.00 0.00 3.18
650 771 0.530744 GTCTACAGCATCACCGGTCA 59.469 55.000 2.59 0.00 0.00 4.02
651 772 0.818296 AGTCTACAGCATCACCGGTC 59.182 55.000 2.59 0.00 0.00 4.79
652 773 0.532573 CAGTCTACAGCATCACCGGT 59.467 55.000 0.00 0.00 0.00 5.28
653 774 0.817654 TCAGTCTACAGCATCACCGG 59.182 55.000 0.00 0.00 0.00 5.28
654 775 1.795525 CGTCAGTCTACAGCATCACCG 60.796 57.143 0.00 0.00 0.00 4.94
655 776 1.469940 CCGTCAGTCTACAGCATCACC 60.470 57.143 0.00 0.00 0.00 4.02
656 777 1.202582 ACCGTCAGTCTACAGCATCAC 59.797 52.381 0.00 0.00 0.00 3.06
657 778 1.202348 CACCGTCAGTCTACAGCATCA 59.798 52.381 0.00 0.00 0.00 3.07
658 779 1.469940 CCACCGTCAGTCTACAGCATC 60.470 57.143 0.00 0.00 0.00 3.91
659 780 0.532573 CCACCGTCAGTCTACAGCAT 59.467 55.000 0.00 0.00 0.00 3.79
660 781 0.826256 ACCACCGTCAGTCTACAGCA 60.826 55.000 0.00 0.00 0.00 4.41
661 782 0.109226 GACCACCGTCAGTCTACAGC 60.109 60.000 0.00 0.00 38.99 4.40
662 783 0.526662 GGACCACCGTCAGTCTACAG 59.473 60.000 0.00 0.00 41.13 2.74
663 784 2.649831 GGACCACCGTCAGTCTACA 58.350 57.895 0.00 0.00 41.13 2.74
674 795 3.682292 CTAGGCTTGCCGGACCACC 62.682 68.421 5.05 0.00 0.00 4.61
675 796 2.125106 CTAGGCTTGCCGGACCAC 60.125 66.667 5.05 0.00 0.00 4.16
676 797 3.399181 CCTAGGCTTGCCGGACCA 61.399 66.667 5.05 0.00 0.00 4.02
677 798 4.176752 CCCTAGGCTTGCCGGACC 62.177 72.222 5.05 0.00 0.00 4.46
678 799 3.081409 TCCCTAGGCTTGCCGGAC 61.081 66.667 5.05 0.00 0.00 4.79
679 800 3.081409 GTCCCTAGGCTTGCCGGA 61.081 66.667 5.05 4.43 0.00 5.14
680 801 4.530857 CGTCCCTAGGCTTGCCGG 62.531 72.222 2.05 0.00 0.00 6.13
681 802 4.530857 CCGTCCCTAGGCTTGCCG 62.531 72.222 2.05 0.09 0.00 5.69
682 803 3.387225 GACCGTCCCTAGGCTTGCC 62.387 68.421 2.05 2.97 0.00 4.52
683 804 2.187163 GACCGTCCCTAGGCTTGC 59.813 66.667 2.05 0.00 0.00 4.01
684 805 2.050350 TCGACCGTCCCTAGGCTTG 61.050 63.158 2.05 0.00 0.00 4.01
685 806 2.050934 GTCGACCGTCCCTAGGCTT 61.051 63.158 3.51 0.00 0.00 4.35
686 807 2.439883 GTCGACCGTCCCTAGGCT 60.440 66.667 3.51 0.00 0.00 4.58
687 808 2.753043 TGTCGACCGTCCCTAGGC 60.753 66.667 14.12 0.00 0.00 3.93
688 809 2.772691 GCTGTCGACCGTCCCTAGG 61.773 68.421 14.12 0.06 0.00 3.02
689 810 2.799371 GCTGTCGACCGTCCCTAG 59.201 66.667 14.12 2.57 0.00 3.02
719 840 1.451387 GTGCCGATGGTACCCCAAG 60.451 63.158 10.07 0.00 46.04 3.61
725 846 0.739813 GTGGACAGTGCCGATGGTAC 60.740 60.000 0.00 0.00 38.59 3.34
726 847 1.188871 TGTGGACAGTGCCGATGGTA 61.189 55.000 0.00 0.00 0.00 3.25
736 857 0.537188 GATGGACCGATGTGGACAGT 59.463 55.000 0.00 0.00 42.00 3.55
766 887 1.369091 GCCACATTGGTCAGTAGGCG 61.369 60.000 0.00 0.00 40.46 5.52
970 1122 1.078143 GAAATGGGCGCTGGAGAGT 60.078 57.895 7.64 0.00 0.00 3.24
971 1123 1.821332 GGAAATGGGCGCTGGAGAG 60.821 63.158 7.64 0.00 0.00 3.20
972 1124 1.852157 AAGGAAATGGGCGCTGGAGA 61.852 55.000 7.64 0.00 0.00 3.71
1221 1402 4.570663 GCGCGCACGAGGGAGTAT 62.571 66.667 29.10 0.00 43.93 2.12
1340 1521 8.344446 TGTTACTAGTAAACAGATCACAGCTA 57.656 34.615 16.82 0.00 0.00 3.32
1343 1524 8.297426 TCACTGTTACTAGTAAACAGATCACAG 58.703 37.037 30.70 25.34 33.06 3.66
1358 1539 9.123902 TGTTACTAGTTGAGTTCACTGTTACTA 57.876 33.333 0.00 0.00 39.81 1.82
1360 1541 8.813643 ATGTTACTAGTTGAGTTCACTGTTAC 57.186 34.615 0.00 0.00 39.81 2.50
1533 1796 5.710513 TTTTACTGTGCATGCTGAGATTT 57.289 34.783 20.33 1.78 0.00 2.17
1559 1822 5.991606 TGATCAATCGAAATAACTAGGCCAG 59.008 40.000 5.01 2.64 0.00 4.85
1563 1826 7.096436 CGTGTCTGATCAATCGAAATAACTAGG 60.096 40.741 0.00 0.00 0.00 3.02
1597 1862 3.491104 GGAGCCAGACGAGGTAGTTATTG 60.491 52.174 0.00 0.00 0.00 1.90
1746 2023 4.787260 TGCAAGCATTTTGAGCATAAGA 57.213 36.364 0.00 0.00 0.00 2.10
1747 2024 5.106442 TGATGCAAGCATTTTGAGCATAAG 58.894 37.500 9.16 0.00 45.08 1.73
1748 2025 5.074584 TGATGCAAGCATTTTGAGCATAA 57.925 34.783 9.16 0.00 45.08 1.90
1813 2101 0.319211 CGAAGAACCGTGCACTGGTA 60.319 55.000 26.21 0.00 39.29 3.25
1817 2105 1.956170 CTGCGAAGAACCGTGCACT 60.956 57.895 16.19 0.00 33.12 4.40
1843 2131 0.675083 TTACGCAGTTCAGGAACGGA 59.325 50.000 14.97 0.00 37.78 4.69
2143 2435 1.039068 TTTCCGTCTTACCGTCACCA 58.961 50.000 0.00 0.00 0.00 4.17
2146 2438 2.037511 ACCAATTTCCGTCTTACCGTCA 59.962 45.455 0.00 0.00 0.00 4.35
2174 2466 2.160813 GTGTAATGCGGTGTTTACAGGG 59.839 50.000 0.00 0.00 38.58 4.45
2180 2472 2.032377 CGTCAAGTGTAATGCGGTGTTT 60.032 45.455 0.00 0.00 0.00 2.83
2216 2508 0.689623 AGCAGGTGGAGAAACTCAGG 59.310 55.000 0.00 0.00 31.08 3.86
2227 2519 0.971386 AGCCAAAATCAAGCAGGTGG 59.029 50.000 0.00 0.00 0.00 4.61
2290 2583 3.005050 TCTTCTTGTTGAATGGCAGCTTG 59.995 43.478 0.00 0.00 33.71 4.01
2308 2601 1.219393 CCCGACCCAGCTCTTCTTC 59.781 63.158 0.00 0.00 0.00 2.87
2386 2679 2.961526 TCTATCAAGACAACGGGAGC 57.038 50.000 0.00 0.00 0.00 4.70
2414 2708 2.169352 AGAGAATACATCAGCAACGCCT 59.831 45.455 0.00 0.00 0.00 5.52
2415 2709 2.541762 GAGAGAATACATCAGCAACGCC 59.458 50.000 0.00 0.00 0.00 5.68
2508 2806 3.303791 GCAACGAGAACCAGTTTACCAAG 60.304 47.826 0.00 0.00 0.00 3.61
2685 4425 3.118811 GGAGATGAGAGAACTTCTGGTGG 60.119 52.174 0.00 0.00 35.87 4.61
2708 4449 9.500785 CTATATTTTTGCTTCAAAGGGGAAAAA 57.499 29.630 7.34 7.34 43.09 1.94
2730 4471 2.487746 TGGGTGTCCTGATGCCTATA 57.512 50.000 0.00 0.00 0.00 1.31
2814 4567 5.844301 ATTGTCCATTTGAAACGAATTGC 57.156 34.783 0.00 0.00 0.00 3.56
2925 4689 3.452264 TGAGCATGTAACTGTAGGCAGAT 59.548 43.478 1.30 0.00 45.28 2.90
3014 4779 2.948979 CTGACCATCTCTCTTAGTCGCT 59.051 50.000 0.00 0.00 0.00 4.93
3137 4903 3.511362 TGGTGCTGTGAACCACATT 57.489 47.368 0.00 0.00 43.71 2.71
3189 4955 6.955963 CAGCATATCTTTGAGTACGAAAACAC 59.044 38.462 0.00 0.00 0.00 3.32
3406 5172 1.805943 CATGTCGTCTGTTTGATGCCA 59.194 47.619 0.00 0.00 0.00 4.92
3407 5173 2.076100 TCATGTCGTCTGTTTGATGCC 58.924 47.619 0.00 0.00 0.00 4.40
3416 5182 1.270839 ACCCCAAGTTCATGTCGTCTG 60.271 52.381 0.00 0.00 0.00 3.51
3542 5308 4.657814 ACTGTGGGACTTGATGGTTAAT 57.342 40.909 0.00 0.00 0.00 1.40
3614 5381 8.983724 TGCTTGCAAAATACTAATTTAAACCAC 58.016 29.630 0.00 0.00 34.12 4.16


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

AutoCloner maintained by Alex Coulton.