Multiple sequence alignment - TraesCS2D01G281200

Loading Multiple Alignment...

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 TraesCS2D01G281200 chr2D 100.000 3963 0 0 288 4250 354318961 354322923 0.000000e+00 7319.0
1 TraesCS2D01G281200 chr2D 88.090 487 45 7 290 766 113479098 113478615 2.220000e-157 566.0
2 TraesCS2D01G281200 chr2D 87.551 490 45 12 289 766 54123584 54123099 1.730000e-153 553.0
3 TraesCS2D01G281200 chr2D 100.000 51 0 0 1 51 354318674 354318724 1.260000e-15 95.3
4 TraesCS2D01G281200 chr2B 96.913 3466 70 15 800 4250 421082233 421085676 0.000000e+00 5773.0
5 TraesCS2D01G281200 chr2B 96.078 51 1 1 1 50 593636701 593636651 9.790000e-12 82.4
6 TraesCS2D01G281200 chr2B 97.872 47 0 1 5 50 73957350 73957304 3.520000e-11 80.5
7 TraesCS2D01G281200 chr2A 97.613 2514 39 2 811 3303 473407301 473409814 0.000000e+00 4290.0
8 TraesCS2D01G281200 chr2A 95.912 954 23 7 3302 4250 473410030 473410972 0.000000e+00 1531.0
9 TraesCS2D01G281200 chr5D 89.278 485 40 6 290 766 454030007 454029527 7.870000e-167 597.0
10 TraesCS2D01G281200 chr5D 88.272 486 43 6 293 766 544788305 544788788 1.710000e-158 569.0
11 TraesCS2D01G281200 chr4D 88.912 487 44 3 289 766 6757020 6757505 3.660000e-165 592.0
12 TraesCS2D01G281200 chr7D 87.910 488 47 5 289 766 397552529 397552044 7.980000e-157 564.0
13 TraesCS2D01G281200 chr7D 96.078 51 2 0 3769 3819 565183549 565183599 2.720000e-12 84.2
14 TraesCS2D01G281200 chr3D 87.755 490 47 6 290 766 548483803 548484292 1.030000e-155 560.0
15 TraesCS2D01G281200 chr6D 87.705 488 48 7 289 766 445703028 445702543 3.710000e-155 558.0
16 TraesCS2D01G281200 chr6D 87.551 490 45 9 289 766 59176519 59177004 1.730000e-153 553.0
17 TraesCS2D01G281200 chr6D 94.231 52 0 3 1 49 445703076 445703025 4.560000e-10 76.8
18 TraesCS2D01G281200 chr6D 92.308 52 4 0 3767 3818 94492468 94492519 1.640000e-09 75.0
19 TraesCS2D01G281200 chr4A 94.643 56 3 0 3767 3822 577380176 577380121 2.110000e-13 87.9
20 TraesCS2D01G281200 chr4A 96.000 50 1 1 1 49 735570299 735570348 3.520000e-11 80.5
21 TraesCS2D01G281200 chr5B 91.935 62 4 1 3759 3819 660859999 660860060 7.570000e-13 86.1
22 TraesCS2D01G281200 chr7B 96.078 51 2 0 3769 3819 615290496 615290546 2.720000e-12 84.2
23 TraesCS2D01G281200 chr7B 95.918 49 1 1 1 48 224067551 224067599 1.270000e-10 78.7
24 TraesCS2D01G281200 chr1D 94.231 52 3 0 3767 3818 300622006 300622057 3.520000e-11 80.5
25 TraesCS2D01G281200 chr1D 92.308 52 4 0 3768 3819 454458750 454458801 1.640000e-09 75.0
26 TraesCS2D01G281200 chr1D 95.238 42 2 0 3771 3812 423272004 423272045 2.740000e-07 67.6
27 TraesCS2D01G281200 chr4B 94.231 52 1 2 1 50 81366165 81366216 1.270000e-10 78.7
28 TraesCS2D01G281200 chr6B 94.118 51 1 2 1 49 476107990 476107940 4.560000e-10 76.8
29 TraesCS2D01G281200 chr6B 92.308 52 4 0 3767 3818 661670562 661670613 1.640000e-09 75.0
30 TraesCS2D01G281200 chr6B 92.308 52 4 0 3767 3818 661818612 661818663 1.640000e-09 75.0
31 TraesCS2D01G281200 chr6A 94.118 51 1 2 1 49 595031397 595031447 4.560000e-10 76.8
32 TraesCS2D01G281200 chr5A 94.118 51 2 1 3768 3818 227714175 227714224 4.560000e-10 76.8
33 TraesCS2D01G281200 chr1B 94.118 51 1 2 1 49 503594675 503594625 4.560000e-10 76.8
34 TraesCS2D01G281200 chr1B 92.308 52 4 0 3767 3818 517948997 517948946 1.640000e-09 75.0
35 TraesCS2D01G281200 chr1B 90.385 52 5 0 3767 3818 210333606 210333657 7.630000e-08 69.4
36 TraesCS2D01G281200 chr1A 92.308 52 4 0 3767 3818 85147781 85147832 1.640000e-09 75.0
37 TraesCS2D01G281200 chr1A 95.455 44 2 0 3769 3812 519273395 519273438 2.120000e-08 71.3
38 TraesCS2D01G281200 chr1A 90.385 52 4 1 3768 3819 584082704 584082754 2.740000e-07 67.6
39 TraesCS2D01G281200 chr1A 100.000 32 0 0 3788 3819 12370853 12370822 4.590000e-05 60.2


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 TraesCS2D01G281200 chr2D 354318674 354322923 4249 False 3707.15 7319 100.0000 1 4250 2 chr2D.!!$F1 4249
1 TraesCS2D01G281200 chr2B 421082233 421085676 3443 False 5773.00 5773 96.9130 800 4250 1 chr2B.!!$F1 3450
2 TraesCS2D01G281200 chr2A 473407301 473410972 3671 False 2910.50 4290 96.7625 811 4250 2 chr2A.!!$F1 3439
3 TraesCS2D01G281200 chr6D 445702543 445703076 533 True 317.40 558 90.9680 1 766 2 chr6D.!!$R1 765

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
593 601 0.039888 TGTTGACAATCTCGACGCGA 60.040 50.0 15.93 0.0 36.15 5.87 F
738 746 0.106918 ACTTGTCGCAAACAGGGGAA 60.107 50.0 3.83 0.0 39.21 3.97 F
739 747 1.247567 CTTGTCGCAAACAGGGGAAT 58.752 50.0 0.00 0.0 39.58 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1908 1932 1.134818 TCATCGTCCCTGATTGTTCCG 60.135 52.381 0.00 0.00 0.00 4.30 R
2679 2718 2.514803 GAAGCATAAGGTGGTGGTTGT 58.485 47.619 0.00 0.00 38.84 3.32 R
3269 3308 3.954258 ACCTTTCCCAGTGTTGAAAGAAG 59.046 43.478 23.72 15.08 46.62 2.85 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
324 326 2.484889 GAGAGTCACGGTTTTGCTTCT 58.515 47.619 0.00 0.00 0.00 2.85
352 354 0.235665 CACAGTTGTGCTTTCGCGAT 59.764 50.000 10.88 0.00 39.39 4.58
363 365 3.744749 TTCGCGATAGTCACGGCCG 62.745 63.158 26.86 26.86 39.35 6.13
436 438 2.940410 GAGAGTCACGGTTTTGTTTCCA 59.060 45.455 0.00 0.00 0.00 3.53
437 439 3.551846 AGAGTCACGGTTTTGTTTCCAT 58.448 40.909 0.00 0.00 0.00 3.41
516 522 1.598685 TGCTCCCGGTTCGGTTTTC 60.599 57.895 0.00 0.00 46.80 2.29
522 530 1.287041 CCGGTTCGGTTTTCTCGTCC 61.287 60.000 0.00 0.00 42.73 4.79
572 580 7.095060 CGTCAAAACCTATCAATATGGGATCTG 60.095 40.741 0.00 0.00 37.20 2.90
575 583 5.768980 ACCTATCAATATGGGATCTGGTG 57.231 43.478 11.24 0.00 37.20 4.17
578 586 5.942236 CCTATCAATATGGGATCTGGTGTTG 59.058 44.000 0.00 0.00 35.79 3.33
580 588 4.780815 TCAATATGGGATCTGGTGTTGAC 58.219 43.478 0.00 0.00 0.00 3.18
581 589 4.227073 TCAATATGGGATCTGGTGTTGACA 59.773 41.667 0.00 0.00 0.00 3.58
586 594 3.274288 GGGATCTGGTGTTGACAATCTC 58.726 50.000 0.00 0.00 0.00 2.75
587 595 2.932614 GGATCTGGTGTTGACAATCTCG 59.067 50.000 0.00 0.00 0.00 4.04
588 596 3.368427 GGATCTGGTGTTGACAATCTCGA 60.368 47.826 0.00 0.00 0.00 4.04
589 597 3.026630 TCTGGTGTTGACAATCTCGAC 57.973 47.619 0.00 0.00 34.12 4.20
590 598 1.721389 CTGGTGTTGACAATCTCGACG 59.279 52.381 0.00 0.00 36.15 5.12
591 599 0.438830 GGTGTTGACAATCTCGACGC 59.561 55.000 0.00 0.00 41.52 5.19
592 600 0.091344 GTGTTGACAATCTCGACGCG 59.909 55.000 3.53 3.53 36.15 6.01
593 601 0.039888 TGTTGACAATCTCGACGCGA 60.040 50.000 15.93 0.00 36.15 5.87
602 610 3.280211 TCGACGCGAGGAATCCAA 58.720 55.556 15.93 0.00 0.00 3.53
603 611 1.153901 TCGACGCGAGGAATCCAAC 60.154 57.895 15.93 0.00 0.00 3.77
604 612 2.505498 CGACGCGAGGAATCCAACG 61.505 63.158 15.93 12.84 0.00 4.10
605 613 2.125673 ACGCGAGGAATCCAACGG 60.126 61.111 15.93 11.24 0.00 4.44
606 614 2.125673 CGCGAGGAATCCAACGGT 60.126 61.111 17.17 0.00 0.00 4.83
607 615 2.452813 CGCGAGGAATCCAACGGTG 61.453 63.158 17.17 0.00 0.00 4.94
608 616 1.079405 GCGAGGAATCCAACGGTGA 60.079 57.895 17.17 0.00 0.00 4.02
609 617 0.672401 GCGAGGAATCCAACGGTGAA 60.672 55.000 17.17 0.00 0.00 3.18
610 618 1.803334 CGAGGAATCCAACGGTGAAA 58.197 50.000 0.00 0.00 0.00 2.69
611 619 1.732259 CGAGGAATCCAACGGTGAAAG 59.268 52.381 0.00 0.00 0.00 2.62
612 620 1.468914 GAGGAATCCAACGGTGAAAGC 59.531 52.381 0.00 0.00 0.00 3.51
621 629 4.667420 GGTGAAAGCGGTTCGAGA 57.333 55.556 0.00 0.00 39.30 4.04
622 630 3.139029 GGTGAAAGCGGTTCGAGAT 57.861 52.632 0.00 0.00 39.30 2.75
623 631 1.439679 GGTGAAAGCGGTTCGAGATT 58.560 50.000 0.00 0.00 39.30 2.40
624 632 1.804748 GGTGAAAGCGGTTCGAGATTT 59.195 47.619 0.00 0.00 39.30 2.17
625 633 2.412847 GGTGAAAGCGGTTCGAGATTTG 60.413 50.000 0.00 0.00 39.30 2.32
626 634 1.804151 TGAAAGCGGTTCGAGATTTGG 59.196 47.619 0.00 0.00 39.30 3.28
627 635 2.073816 GAAAGCGGTTCGAGATTTGGA 58.926 47.619 0.00 0.00 0.00 3.53
628 636 1.439679 AAGCGGTTCGAGATTTGGAC 58.560 50.000 0.00 0.00 0.00 4.02
629 637 0.736325 AGCGGTTCGAGATTTGGACG 60.736 55.000 0.00 0.00 0.00 4.79
630 638 1.708027 CGGTTCGAGATTTGGACGC 59.292 57.895 0.00 0.00 0.00 5.19
631 639 1.011968 CGGTTCGAGATTTGGACGCA 61.012 55.000 0.00 0.00 0.00 5.24
632 640 1.369625 GGTTCGAGATTTGGACGCAT 58.630 50.000 0.00 0.00 0.00 4.73
633 641 1.062587 GGTTCGAGATTTGGACGCATG 59.937 52.381 0.00 0.00 0.00 4.06
634 642 1.062587 GTTCGAGATTTGGACGCATGG 59.937 52.381 0.00 0.00 0.00 3.66
635 643 0.249120 TCGAGATTTGGACGCATGGT 59.751 50.000 0.00 0.00 0.00 3.55
636 644 1.086696 CGAGATTTGGACGCATGGTT 58.913 50.000 0.00 0.00 0.00 3.67
637 645 1.468520 CGAGATTTGGACGCATGGTTT 59.531 47.619 0.00 0.00 0.00 3.27
638 646 2.728846 CGAGATTTGGACGCATGGTTTG 60.729 50.000 0.00 0.00 0.00 2.93
639 647 2.487762 GAGATTTGGACGCATGGTTTGA 59.512 45.455 0.00 0.00 0.00 2.69
640 648 2.489329 AGATTTGGACGCATGGTTTGAG 59.511 45.455 0.00 0.00 0.00 3.02
641 649 1.974265 TTTGGACGCATGGTTTGAGA 58.026 45.000 0.00 0.00 0.00 3.27
642 650 1.522668 TTGGACGCATGGTTTGAGAG 58.477 50.000 0.00 0.00 0.00 3.20
643 651 0.684535 TGGACGCATGGTTTGAGAGA 59.315 50.000 0.00 0.00 0.00 3.10
644 652 1.278985 TGGACGCATGGTTTGAGAGAT 59.721 47.619 0.00 0.00 0.00 2.75
645 653 2.499693 TGGACGCATGGTTTGAGAGATA 59.500 45.455 0.00 0.00 0.00 1.98
646 654 3.055458 TGGACGCATGGTTTGAGAGATAA 60.055 43.478 0.00 0.00 0.00 1.75
647 655 3.938963 GGACGCATGGTTTGAGAGATAAA 59.061 43.478 0.00 0.00 0.00 1.40
648 656 4.394920 GGACGCATGGTTTGAGAGATAAAA 59.605 41.667 0.00 0.00 0.00 1.52
649 657 5.296813 ACGCATGGTTTGAGAGATAAAAC 57.703 39.130 0.00 0.00 0.00 2.43
650 658 4.759693 ACGCATGGTTTGAGAGATAAAACA 59.240 37.500 0.00 0.00 38.89 2.83
651 659 5.415701 ACGCATGGTTTGAGAGATAAAACAT 59.584 36.000 0.00 0.00 44.01 2.71
652 660 6.071952 ACGCATGGTTTGAGAGATAAAACATT 60.072 34.615 0.00 0.00 41.33 2.71
653 661 6.808212 CGCATGGTTTGAGAGATAAAACATTT 59.192 34.615 0.00 0.00 41.33 2.32
654 662 7.329226 CGCATGGTTTGAGAGATAAAACATTTT 59.671 33.333 0.00 0.00 41.33 1.82
655 663 9.638239 GCATGGTTTGAGAGATAAAACATTTTA 57.362 29.630 0.00 0.00 41.33 1.52
696 704 2.325583 AAAACTCTCAGGTTGCGACA 57.674 45.000 6.39 0.00 0.00 4.35
697 705 2.325583 AAACTCTCAGGTTGCGACAA 57.674 45.000 6.39 0.00 0.00 3.18
698 706 1.871080 AACTCTCAGGTTGCGACAAG 58.129 50.000 6.39 0.31 0.00 3.16
699 707 0.753262 ACTCTCAGGTTGCGACAAGT 59.247 50.000 6.39 0.00 0.00 3.16
700 708 1.143305 CTCTCAGGTTGCGACAAGTG 58.857 55.000 6.39 0.21 0.00 3.16
701 709 0.750249 TCTCAGGTTGCGACAAGTGA 59.250 50.000 6.39 4.78 0.00 3.41
702 710 0.861837 CTCAGGTTGCGACAAGTGAC 59.138 55.000 6.39 0.00 0.00 3.67
703 711 0.874175 TCAGGTTGCGACAAGTGACG 60.874 55.000 6.39 0.00 36.38 4.35
709 717 3.305623 CGACAAGTGACGCGTTGT 58.694 55.556 15.53 14.47 39.62 3.32
710 718 2.497804 CGACAAGTGACGCGTTGTA 58.502 52.632 15.53 0.00 37.02 2.41
711 719 1.057636 CGACAAGTGACGCGTTGTAT 58.942 50.000 15.53 0.00 37.02 2.29
712 720 1.201661 CGACAAGTGACGCGTTGTATG 60.202 52.381 15.53 13.56 37.02 2.39
713 721 1.790623 GACAAGTGACGCGTTGTATGT 59.209 47.619 15.53 16.84 37.02 2.29
714 722 1.525197 ACAAGTGACGCGTTGTATGTG 59.475 47.619 15.53 10.00 35.10 3.21
715 723 0.511221 AAGTGACGCGTTGTATGTGC 59.489 50.000 15.53 0.00 0.00 4.57
720 728 2.202298 GCGTTGTATGTGCGCCAC 60.202 61.111 4.18 3.72 44.67 5.01
721 729 2.677003 GCGTTGTATGTGCGCCACT 61.677 57.895 4.18 0.00 44.67 4.00
722 730 1.866237 CGTTGTATGTGCGCCACTT 59.134 52.632 4.18 4.32 35.11 3.16
723 731 0.452618 CGTTGTATGTGCGCCACTTG 60.453 55.000 4.18 0.00 35.11 3.16
724 732 0.591170 GTTGTATGTGCGCCACTTGT 59.409 50.000 4.18 0.00 35.11 3.16
725 733 0.871722 TTGTATGTGCGCCACTTGTC 59.128 50.000 4.18 1.50 35.11 3.18
726 734 1.288419 TGTATGTGCGCCACTTGTCG 61.288 55.000 4.18 0.00 35.11 4.35
732 740 2.712539 CGCCACTTGTCGCAAACA 59.287 55.556 0.00 0.00 35.59 2.83
733 741 1.369209 CGCCACTTGTCGCAAACAG 60.369 57.895 0.00 0.00 39.58 3.16
734 742 1.008538 GCCACTTGTCGCAAACAGG 60.009 57.895 0.00 0.00 39.58 4.00
735 743 1.654220 CCACTTGTCGCAAACAGGG 59.346 57.895 3.83 0.00 39.21 4.45
736 744 1.654220 CACTTGTCGCAAACAGGGG 59.346 57.895 3.83 0.00 39.21 4.79
737 745 0.817634 CACTTGTCGCAAACAGGGGA 60.818 55.000 3.83 0.00 40.75 4.81
738 746 0.106918 ACTTGTCGCAAACAGGGGAA 60.107 50.000 3.83 0.00 39.21 3.97
739 747 1.247567 CTTGTCGCAAACAGGGGAAT 58.752 50.000 0.00 0.00 39.58 3.01
740 748 1.613437 CTTGTCGCAAACAGGGGAATT 59.387 47.619 0.00 0.00 39.58 2.17
741 749 2.570415 TGTCGCAAACAGGGGAATTA 57.430 45.000 0.00 0.00 32.81 1.40
742 750 2.432444 TGTCGCAAACAGGGGAATTAG 58.568 47.619 0.00 0.00 32.81 1.73
743 751 2.039216 TGTCGCAAACAGGGGAATTAGA 59.961 45.455 0.00 0.00 32.81 2.10
744 752 2.678336 GTCGCAAACAGGGGAATTAGAG 59.322 50.000 0.00 0.00 0.00 2.43
745 753 2.304761 TCGCAAACAGGGGAATTAGAGT 59.695 45.455 0.00 0.00 0.00 3.24
746 754 2.420022 CGCAAACAGGGGAATTAGAGTG 59.580 50.000 0.00 0.00 0.00 3.51
747 755 3.686016 GCAAACAGGGGAATTAGAGTGA 58.314 45.455 0.00 0.00 0.00 3.41
748 756 4.273318 GCAAACAGGGGAATTAGAGTGAT 58.727 43.478 0.00 0.00 0.00 3.06
749 757 4.336713 GCAAACAGGGGAATTAGAGTGATC 59.663 45.833 0.00 0.00 0.00 2.92
750 758 5.749462 CAAACAGGGGAATTAGAGTGATCT 58.251 41.667 0.00 0.00 0.00 2.75
751 759 6.183347 CAAACAGGGGAATTAGAGTGATCTT 58.817 40.000 0.00 0.00 0.00 2.40
752 760 6.394345 AACAGGGGAATTAGAGTGATCTTT 57.606 37.500 0.00 0.00 0.00 2.52
753 761 5.749462 ACAGGGGAATTAGAGTGATCTTTG 58.251 41.667 0.00 0.00 0.00 2.77
754 762 4.578105 CAGGGGAATTAGAGTGATCTTTGC 59.422 45.833 0.00 0.00 0.00 3.68
755 763 4.228210 AGGGGAATTAGAGTGATCTTTGCA 59.772 41.667 0.00 0.00 0.00 4.08
756 764 4.949856 GGGGAATTAGAGTGATCTTTGCAA 59.050 41.667 0.00 0.00 0.00 4.08
757 765 5.163612 GGGGAATTAGAGTGATCTTTGCAAC 60.164 44.000 0.00 0.00 0.00 4.17
758 766 5.447818 GGGAATTAGAGTGATCTTTGCAACG 60.448 44.000 0.00 0.00 0.00 4.10
759 767 5.351465 GGAATTAGAGTGATCTTTGCAACGA 59.649 40.000 8.20 8.20 0.00 3.85
760 768 6.414408 AATTAGAGTGATCTTTGCAACGAG 57.586 37.500 11.57 1.70 0.00 4.18
761 769 3.393089 AGAGTGATCTTTGCAACGAGT 57.607 42.857 11.57 0.34 0.00 4.18
762 770 4.521130 AGAGTGATCTTTGCAACGAGTA 57.479 40.909 11.57 0.27 0.00 2.59
763 771 4.238514 AGAGTGATCTTTGCAACGAGTAC 58.761 43.478 11.57 11.75 0.00 2.73
764 772 4.021894 AGAGTGATCTTTGCAACGAGTACT 60.022 41.667 18.57 18.57 0.00 2.73
765 773 4.238514 AGTGATCTTTGCAACGAGTACTC 58.761 43.478 13.18 13.18 0.00 2.59
778 786 4.511457 CGAGTACTCGTAGTGATTTCGA 57.489 45.455 32.24 0.00 46.99 3.71
779 787 5.080642 CGAGTACTCGTAGTGATTTCGAT 57.919 43.478 32.24 0.00 46.99 3.59
780 788 6.207864 CGAGTACTCGTAGTGATTTCGATA 57.792 41.667 32.24 0.00 46.99 2.92
781 789 6.290643 CGAGTACTCGTAGTGATTTCGATAG 58.709 44.000 32.24 2.91 46.99 2.08
782 790 6.542574 AGTACTCGTAGTGATTTCGATAGG 57.457 41.667 0.00 0.00 33.26 2.57
783 791 4.226113 ACTCGTAGTGATTTCGATAGGC 57.774 45.455 0.00 0.00 33.26 3.93
784 792 3.004524 ACTCGTAGTGATTTCGATAGGCC 59.995 47.826 0.00 0.00 33.26 5.19
785 793 2.295349 TCGTAGTGATTTCGATAGGCCC 59.705 50.000 0.00 0.00 0.00 5.80
786 794 2.609737 CGTAGTGATTTCGATAGGCCCC 60.610 54.545 0.00 0.00 0.00 5.80
787 795 1.807814 AGTGATTTCGATAGGCCCCT 58.192 50.000 0.00 0.00 0.00 4.79
788 796 2.127708 AGTGATTTCGATAGGCCCCTT 58.872 47.619 0.00 0.00 0.00 3.95
789 797 2.104963 AGTGATTTCGATAGGCCCCTTC 59.895 50.000 0.00 0.00 0.00 3.46
790 798 2.104963 GTGATTTCGATAGGCCCCTTCT 59.895 50.000 0.00 0.00 0.00 2.85
791 799 2.777692 TGATTTCGATAGGCCCCTTCTT 59.222 45.455 0.00 0.00 0.00 2.52
792 800 3.181454 TGATTTCGATAGGCCCCTTCTTC 60.181 47.826 0.00 0.00 0.00 2.87
793 801 1.874129 TTCGATAGGCCCCTTCTTCA 58.126 50.000 0.00 0.00 0.00 3.02
794 802 1.874129 TCGATAGGCCCCTTCTTCAA 58.126 50.000 0.00 0.00 0.00 2.69
795 803 2.193127 TCGATAGGCCCCTTCTTCAAA 58.807 47.619 0.00 0.00 0.00 2.69
796 804 2.170607 TCGATAGGCCCCTTCTTCAAAG 59.829 50.000 0.00 0.00 0.00 2.77
797 805 2.170607 CGATAGGCCCCTTCTTCAAAGA 59.829 50.000 0.00 0.00 0.00 2.52
798 806 3.370527 CGATAGGCCCCTTCTTCAAAGAA 60.371 47.826 0.00 5.17 42.41 2.52
875 887 1.605753 GTGGTCCAGAGAAACCCAAC 58.394 55.000 0.00 0.00 34.47 3.77
951 963 3.306166 CGAGTCATAAAACCGAAATCGCT 59.694 43.478 0.00 0.00 38.18 4.93
1344 1368 2.415608 CCTCAACTCGCGCCTCCTA 61.416 63.158 0.00 0.00 0.00 2.94
1726 1750 1.814248 GCGTCAAGGAAGGGAAGTTGT 60.814 52.381 0.00 0.00 0.00 3.32
1770 1794 3.647113 CAGATCCCAGTGAGAATGAGGAT 59.353 47.826 0.00 0.00 36.83 3.24
1797 1821 1.740025 GTGCTTGTTGAGGCTGATACC 59.260 52.381 0.00 0.00 0.00 2.73
1908 1932 2.338785 GGAGCTTGCAGCCCTGAAC 61.339 63.158 0.00 0.00 43.77 3.18
2088 2112 4.202441 CATCTGGGAAGAAAATGGACGAT 58.798 43.478 0.00 0.00 0.00 3.73
2179 2203 2.473070 TGCTGGCTATAACAGGTGGTA 58.527 47.619 6.31 0.00 36.48 3.25
2364 2403 5.885449 TTTCACAATTTGGGGAGATTGTT 57.115 34.783 0.00 0.00 42.18 2.83
2679 2718 0.846427 ATGCTCCAGTTCCTTGGGGA 60.846 55.000 0.00 0.00 41.53 4.81
3114 3153 1.560923 CGGCTAGTGTTGATTCCTCG 58.439 55.000 0.00 0.00 0.00 4.63
3368 3624 9.790297 TTAGGCTCTAAGGAGGATAATATCAAT 57.210 33.333 2.41 0.00 39.80 2.57
3428 3684 9.158233 GTTATTTCTGCCCATATTACGCTATTA 57.842 33.333 0.00 0.00 0.00 0.98
3454 3710 2.681848 GTGAACTTGATCCCAGATGCTG 59.318 50.000 0.00 0.00 0.00 4.41
3485 3741 1.003464 TGAGTGCTTGCTCATGCCTTA 59.997 47.619 5.47 0.00 40.23 2.69
3512 3768 1.380524 ATCAGCTGCTTGCATGTCTC 58.619 50.000 9.47 0.00 45.94 3.36
3515 3771 1.676635 GCTGCTTGCATGTCTCCCA 60.677 57.895 1.14 0.00 42.31 4.37
3649 3905 9.932207 TTACATCAAAATTCTTGCATCATTTCT 57.068 25.926 0.00 0.00 0.00 2.52
3650 3906 8.251750 ACATCAAAATTCTTGCATCATTTCTG 57.748 30.769 0.00 0.00 0.00 3.02
3651 3907 8.092068 ACATCAAAATTCTTGCATCATTTCTGA 58.908 29.630 0.00 1.27 35.41 3.27
3652 3908 8.595533 CATCAAAATTCTTGCATCATTTCTGAG 58.404 33.333 0.00 0.00 34.12 3.35
3653 3909 7.094631 TCAAAATTCTTGCATCATTTCTGAGG 58.905 34.615 0.00 0.00 36.27 3.86
3662 3918 5.731599 CATCATTTCTGAGGCTGTACTTC 57.268 43.478 0.00 0.00 34.12 3.01
3663 3919 4.890158 TCATTTCTGAGGCTGTACTTCA 57.110 40.909 0.00 0.00 0.00 3.02
3714 3974 1.936547 GAGGCTGATCGGTTTCATGAC 59.063 52.381 2.89 0.00 0.00 3.06
4172 4434 6.282167 TCCGTTTTGTGTTACTCTTGTCATA 58.718 36.000 0.00 0.00 0.00 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
302 304 0.104304 AGCAAAACCGTGACTCTCGT 59.896 50.000 0.24 0.00 0.00 4.18
312 314 0.164647 CTCTCGCAGAAGCAAAACCG 59.835 55.000 0.00 0.00 42.27 4.44
363 365 0.601841 TTTCGTTTCCGAGGAGGCAC 60.602 55.000 0.00 0.00 45.24 5.01
407 409 0.536687 ACCGTGACTCTCGTGGAAGA 60.537 55.000 0.24 0.00 0.00 2.87
413 415 2.304751 AACAAAACCGTGACTCTCGT 57.695 45.000 0.24 0.00 0.00 4.18
436 438 0.615331 ATCACAACCGTGCCTCTCAT 59.385 50.000 0.00 0.00 43.28 2.90
437 439 0.396435 AATCACAACCGTGCCTCTCA 59.604 50.000 0.00 0.00 43.28 3.27
554 562 5.768980 ACACCAGATCCCATATTGATAGG 57.231 43.478 0.00 0.00 0.00 2.57
562 570 4.474651 AGATTGTCAACACCAGATCCCATA 59.525 41.667 0.00 0.00 0.00 2.74
572 580 0.438830 GCGTCGAGATTGTCAACACC 59.561 55.000 0.00 0.00 0.00 4.16
575 583 2.720688 TCGCGTCGAGATTGTCAAC 58.279 52.632 5.77 0.00 0.00 3.18
586 594 2.505498 CGTTGGATTCCTCGCGTCG 61.505 63.158 5.77 0.00 0.00 5.12
587 595 2.165301 CCGTTGGATTCCTCGCGTC 61.165 63.158 5.77 0.00 0.00 5.19
588 596 2.125673 CCGTTGGATTCCTCGCGT 60.126 61.111 5.77 0.00 0.00 6.01
589 597 2.125673 ACCGTTGGATTCCTCGCG 60.126 61.111 0.00 0.00 0.00 5.87
590 598 0.672401 TTCACCGTTGGATTCCTCGC 60.672 55.000 3.95 0.00 0.00 5.03
591 599 1.732259 CTTTCACCGTTGGATTCCTCG 59.268 52.381 3.95 8.76 0.00 4.63
592 600 1.468914 GCTTTCACCGTTGGATTCCTC 59.531 52.381 3.95 0.00 0.00 3.71
593 601 1.534729 GCTTTCACCGTTGGATTCCT 58.465 50.000 3.95 0.00 0.00 3.36
594 602 0.168128 CGCTTTCACCGTTGGATTCC 59.832 55.000 0.00 0.00 0.00 3.01
595 603 0.168128 CCGCTTTCACCGTTGGATTC 59.832 55.000 0.00 0.00 0.00 2.52
596 604 0.536460 ACCGCTTTCACCGTTGGATT 60.536 50.000 0.00 0.00 0.00 3.01
597 605 0.536460 AACCGCTTTCACCGTTGGAT 60.536 50.000 0.00 0.00 0.00 3.41
598 606 1.153127 AACCGCTTTCACCGTTGGA 60.153 52.632 0.00 0.00 0.00 3.53
599 607 1.281656 GAACCGCTTTCACCGTTGG 59.718 57.895 0.00 0.00 33.94 3.77
600 608 1.083015 CGAACCGCTTTCACCGTTG 60.083 57.895 0.00 0.00 33.24 4.10
601 609 1.219522 CTCGAACCGCTTTCACCGTT 61.220 55.000 0.00 0.00 33.24 4.44
602 610 1.663702 CTCGAACCGCTTTCACCGT 60.664 57.895 0.00 0.00 33.24 4.83
603 611 0.736325 ATCTCGAACCGCTTTCACCG 60.736 55.000 0.00 0.00 33.24 4.94
604 612 1.439679 AATCTCGAACCGCTTTCACC 58.560 50.000 0.00 0.00 33.24 4.02
605 613 2.412847 CCAAATCTCGAACCGCTTTCAC 60.413 50.000 0.00 0.00 33.24 3.18
606 614 1.804151 CCAAATCTCGAACCGCTTTCA 59.196 47.619 0.00 0.00 33.24 2.69
607 615 2.073816 TCCAAATCTCGAACCGCTTTC 58.926 47.619 0.00 0.00 0.00 2.62
608 616 1.804748 GTCCAAATCTCGAACCGCTTT 59.195 47.619 0.00 0.00 0.00 3.51
609 617 1.439679 GTCCAAATCTCGAACCGCTT 58.560 50.000 0.00 0.00 0.00 4.68
610 618 0.736325 CGTCCAAATCTCGAACCGCT 60.736 55.000 0.00 0.00 0.00 5.52
611 619 1.708027 CGTCCAAATCTCGAACCGC 59.292 57.895 0.00 0.00 0.00 5.68
612 620 1.011968 TGCGTCCAAATCTCGAACCG 61.012 55.000 0.00 0.00 0.00 4.44
613 621 1.062587 CATGCGTCCAAATCTCGAACC 59.937 52.381 0.00 0.00 0.00 3.62
614 622 1.062587 CCATGCGTCCAAATCTCGAAC 59.937 52.381 0.00 0.00 0.00 3.95
615 623 1.338674 ACCATGCGTCCAAATCTCGAA 60.339 47.619 0.00 0.00 0.00 3.71
616 624 0.249120 ACCATGCGTCCAAATCTCGA 59.751 50.000 0.00 0.00 0.00 4.04
617 625 1.086696 AACCATGCGTCCAAATCTCG 58.913 50.000 0.00 0.00 0.00 4.04
618 626 2.487762 TCAAACCATGCGTCCAAATCTC 59.512 45.455 0.00 0.00 0.00 2.75
619 627 2.489329 CTCAAACCATGCGTCCAAATCT 59.511 45.455 0.00 0.00 0.00 2.40
620 628 2.487762 TCTCAAACCATGCGTCCAAATC 59.512 45.455 0.00 0.00 0.00 2.17
621 629 2.489329 CTCTCAAACCATGCGTCCAAAT 59.511 45.455 0.00 0.00 0.00 2.32
622 630 1.879380 CTCTCAAACCATGCGTCCAAA 59.121 47.619 0.00 0.00 0.00 3.28
623 631 1.071542 TCTCTCAAACCATGCGTCCAA 59.928 47.619 0.00 0.00 0.00 3.53
624 632 0.684535 TCTCTCAAACCATGCGTCCA 59.315 50.000 0.00 0.00 0.00 4.02
625 633 2.029838 ATCTCTCAAACCATGCGTCC 57.970 50.000 0.00 0.00 0.00 4.79
626 634 5.106712 TGTTTTATCTCTCAAACCATGCGTC 60.107 40.000 0.00 0.00 32.76 5.19
627 635 4.759693 TGTTTTATCTCTCAAACCATGCGT 59.240 37.500 0.00 0.00 32.76 5.24
628 636 5.295431 TGTTTTATCTCTCAAACCATGCG 57.705 39.130 0.00 0.00 32.76 4.73
629 637 8.538409 AAAATGTTTTATCTCTCAAACCATGC 57.462 30.769 0.00 0.00 32.76 4.06
676 684 2.639065 TGTCGCAACCTGAGAGTTTTT 58.361 42.857 0.00 0.00 0.00 1.94
677 685 2.325583 TGTCGCAACCTGAGAGTTTT 57.674 45.000 0.00 0.00 0.00 2.43
678 686 2.213499 CTTGTCGCAACCTGAGAGTTT 58.787 47.619 0.00 0.00 0.00 2.66
679 687 1.139058 ACTTGTCGCAACCTGAGAGTT 59.861 47.619 0.00 0.00 0.00 3.01
680 688 0.753262 ACTTGTCGCAACCTGAGAGT 59.247 50.000 0.00 0.00 0.00 3.24
681 689 1.143305 CACTTGTCGCAACCTGAGAG 58.857 55.000 0.00 0.00 0.00 3.20
682 690 0.750249 TCACTTGTCGCAACCTGAGA 59.250 50.000 0.00 0.00 0.00 3.27
683 691 0.861837 GTCACTTGTCGCAACCTGAG 59.138 55.000 0.00 0.00 0.00 3.35
684 692 0.874175 CGTCACTTGTCGCAACCTGA 60.874 55.000 0.00 0.00 0.00 3.86
685 693 1.564622 CGTCACTTGTCGCAACCTG 59.435 57.895 0.00 0.00 0.00 4.00
686 694 4.027755 CGTCACTTGTCGCAACCT 57.972 55.556 0.00 0.00 0.00 3.50
691 699 1.542272 TACAACGCGTCACTTGTCGC 61.542 55.000 14.44 10.28 46.08 5.19
692 700 1.057636 ATACAACGCGTCACTTGTCG 58.942 50.000 14.44 0.00 32.77 4.35
693 701 1.790623 ACATACAACGCGTCACTTGTC 59.209 47.619 14.44 0.00 32.77 3.18
694 702 1.525197 CACATACAACGCGTCACTTGT 59.475 47.619 14.44 16.30 34.89 3.16
695 703 1.721489 GCACATACAACGCGTCACTTG 60.721 52.381 14.44 10.10 0.00 3.16
696 704 0.511221 GCACATACAACGCGTCACTT 59.489 50.000 14.44 0.00 0.00 3.16
697 705 1.614227 CGCACATACAACGCGTCACT 61.614 55.000 14.44 0.00 43.86 3.41
698 706 1.225368 CGCACATACAACGCGTCAC 60.225 57.895 14.44 0.00 43.86 3.67
699 707 3.151798 CGCACATACAACGCGTCA 58.848 55.556 14.44 0.38 43.86 4.35
704 712 0.452618 CAAGTGGCGCACATACAACG 60.453 55.000 10.83 0.00 36.74 4.10
705 713 0.591170 ACAAGTGGCGCACATACAAC 59.409 50.000 10.83 0.00 36.74 3.32
706 714 0.871722 GACAAGTGGCGCACATACAA 59.128 50.000 10.83 0.00 36.74 2.41
707 715 1.288419 CGACAAGTGGCGCACATACA 61.288 55.000 10.83 0.00 40.91 2.29
708 716 1.419922 CGACAAGTGGCGCACATAC 59.580 57.895 10.83 2.11 40.91 2.39
709 717 3.869187 CGACAAGTGGCGCACATA 58.131 55.556 10.83 0.00 40.91 2.29
716 724 1.008538 CCTGTTTGCGACAAGTGGC 60.009 57.895 0.00 0.00 37.93 5.01
717 725 1.654220 CCCTGTTTGCGACAAGTGG 59.346 57.895 0.00 0.00 37.93 4.00
718 726 0.817634 TCCCCTGTTTGCGACAAGTG 60.818 55.000 0.00 0.00 37.93 3.16
719 727 0.106918 TTCCCCTGTTTGCGACAAGT 60.107 50.000 0.00 0.00 37.93 3.16
720 728 1.247567 ATTCCCCTGTTTGCGACAAG 58.752 50.000 0.00 0.00 37.93 3.16
721 729 1.698506 AATTCCCCTGTTTGCGACAA 58.301 45.000 0.00 0.00 37.93 3.18
722 730 2.039216 TCTAATTCCCCTGTTTGCGACA 59.961 45.455 0.00 0.00 36.65 4.35
723 731 2.678336 CTCTAATTCCCCTGTTTGCGAC 59.322 50.000 0.00 0.00 0.00 5.19
724 732 2.304761 ACTCTAATTCCCCTGTTTGCGA 59.695 45.455 0.00 0.00 0.00 5.10
725 733 2.420022 CACTCTAATTCCCCTGTTTGCG 59.580 50.000 0.00 0.00 0.00 4.85
726 734 3.686016 TCACTCTAATTCCCCTGTTTGC 58.314 45.455 0.00 0.00 0.00 3.68
727 735 5.749462 AGATCACTCTAATTCCCCTGTTTG 58.251 41.667 0.00 0.00 0.00 2.93
728 736 6.394345 AAGATCACTCTAATTCCCCTGTTT 57.606 37.500 0.00 0.00 0.00 2.83
729 737 6.183347 CAAAGATCACTCTAATTCCCCTGTT 58.817 40.000 0.00 0.00 0.00 3.16
730 738 5.749462 CAAAGATCACTCTAATTCCCCTGT 58.251 41.667 0.00 0.00 0.00 4.00
731 739 4.578105 GCAAAGATCACTCTAATTCCCCTG 59.422 45.833 0.00 0.00 0.00 4.45
732 740 4.228210 TGCAAAGATCACTCTAATTCCCCT 59.772 41.667 0.00 0.00 0.00 4.79
733 741 4.526970 TGCAAAGATCACTCTAATTCCCC 58.473 43.478 0.00 0.00 0.00 4.81
734 742 5.447818 CGTTGCAAAGATCACTCTAATTCCC 60.448 44.000 6.52 0.00 0.00 3.97
735 743 5.351465 TCGTTGCAAAGATCACTCTAATTCC 59.649 40.000 11.22 0.00 0.00 3.01
736 744 6.091441 ACTCGTTGCAAAGATCACTCTAATTC 59.909 38.462 15.52 0.00 0.00 2.17
737 745 5.934625 ACTCGTTGCAAAGATCACTCTAATT 59.065 36.000 15.52 0.00 0.00 1.40
738 746 5.482908 ACTCGTTGCAAAGATCACTCTAAT 58.517 37.500 15.52 0.00 0.00 1.73
739 747 4.883083 ACTCGTTGCAAAGATCACTCTAA 58.117 39.130 15.52 0.00 0.00 2.10
740 748 4.521130 ACTCGTTGCAAAGATCACTCTA 57.479 40.909 15.52 0.00 0.00 2.43
741 749 3.393089 ACTCGTTGCAAAGATCACTCT 57.607 42.857 15.52 0.00 0.00 3.24
742 750 4.238514 AGTACTCGTTGCAAAGATCACTC 58.761 43.478 15.52 5.56 0.00 3.51
743 751 4.238514 GAGTACTCGTTGCAAAGATCACT 58.761 43.478 20.90 20.90 0.00 3.41
744 752 3.059570 CGAGTACTCGTTGCAAAGATCAC 59.940 47.826 32.24 14.91 46.99 3.06
745 753 3.242518 CGAGTACTCGTTGCAAAGATCA 58.757 45.455 32.24 3.95 46.99 2.92
746 754 3.890705 CGAGTACTCGTTGCAAAGATC 57.109 47.619 32.24 9.22 46.99 2.75
758 766 6.592166 CCTATCGAAATCACTACGAGTACTC 58.408 44.000 13.18 13.18 39.31 2.59
759 767 5.049543 GCCTATCGAAATCACTACGAGTACT 60.050 44.000 0.00 0.00 39.31 2.73
760 768 5.145759 GCCTATCGAAATCACTACGAGTAC 58.854 45.833 0.00 0.00 39.31 2.73
761 769 4.214971 GGCCTATCGAAATCACTACGAGTA 59.785 45.833 0.00 0.00 39.31 2.59
762 770 3.004524 GGCCTATCGAAATCACTACGAGT 59.995 47.826 0.00 0.00 39.31 4.18
763 771 3.566523 GGCCTATCGAAATCACTACGAG 58.433 50.000 0.00 0.00 39.31 4.18
764 772 2.295349 GGGCCTATCGAAATCACTACGA 59.705 50.000 0.84 0.00 40.18 3.43
765 773 2.609737 GGGGCCTATCGAAATCACTACG 60.610 54.545 0.84 0.00 0.00 3.51
766 774 2.633481 AGGGGCCTATCGAAATCACTAC 59.367 50.000 0.84 0.00 0.00 2.73
767 775 2.972348 AGGGGCCTATCGAAATCACTA 58.028 47.619 0.84 0.00 0.00 2.74
768 776 1.807814 AGGGGCCTATCGAAATCACT 58.192 50.000 0.84 0.00 0.00 3.41
769 777 2.104963 AGAAGGGGCCTATCGAAATCAC 59.895 50.000 0.84 0.00 0.00 3.06
770 778 2.408565 AGAAGGGGCCTATCGAAATCA 58.591 47.619 0.84 0.00 0.00 2.57
771 779 3.181454 TGAAGAAGGGGCCTATCGAAATC 60.181 47.826 0.84 2.62 0.00 2.17
772 780 2.777692 TGAAGAAGGGGCCTATCGAAAT 59.222 45.455 0.84 0.00 0.00 2.17
773 781 2.193127 TGAAGAAGGGGCCTATCGAAA 58.807 47.619 0.84 0.00 0.00 3.46
774 782 1.874129 TGAAGAAGGGGCCTATCGAA 58.126 50.000 0.84 0.00 0.00 3.71
775 783 1.874129 TTGAAGAAGGGGCCTATCGA 58.126 50.000 0.84 0.00 0.00 3.59
776 784 2.170607 TCTTTGAAGAAGGGGCCTATCG 59.829 50.000 0.84 0.00 30.73 2.92
777 785 3.933861 TCTTTGAAGAAGGGGCCTATC 57.066 47.619 0.84 1.77 30.73 2.08
787 795 3.157087 GTCATGGGCCTTCTTTGAAGAA 58.843 45.455 4.53 6.07 42.41 2.52
788 796 2.376518 AGTCATGGGCCTTCTTTGAAGA 59.623 45.455 4.53 0.00 0.00 2.87
789 797 2.800250 AGTCATGGGCCTTCTTTGAAG 58.200 47.619 4.53 0.70 0.00 3.02
790 798 2.892852 CAAGTCATGGGCCTTCTTTGAA 59.107 45.455 4.53 0.00 0.00 2.69
791 799 2.517959 CAAGTCATGGGCCTTCTTTGA 58.482 47.619 4.53 0.00 0.00 2.69
792 800 1.067354 GCAAGTCATGGGCCTTCTTTG 60.067 52.381 4.53 4.64 0.00 2.77
793 801 1.260544 GCAAGTCATGGGCCTTCTTT 58.739 50.000 4.53 0.00 0.00 2.52
794 802 0.613012 GGCAAGTCATGGGCCTTCTT 60.613 55.000 4.53 1.19 44.32 2.52
795 803 1.000396 GGCAAGTCATGGGCCTTCT 60.000 57.895 4.53 0.00 44.32 2.85
796 804 2.054453 GGGCAAGTCATGGGCCTTC 61.054 63.158 4.53 0.00 46.87 3.46
797 805 2.037847 GGGCAAGTCATGGGCCTT 59.962 61.111 4.53 0.00 46.87 4.35
833 845 0.598065 CTGGGCCGAAACAGGAAAAG 59.402 55.000 0.00 0.00 0.00 2.27
875 887 1.131693 GGAAAGGCGGTTTATGTTCGG 59.868 52.381 0.00 0.00 0.00 4.30
951 963 2.041620 AGCTGTGGGGAATTTGCTTCTA 59.958 45.455 0.00 0.00 34.08 2.10
1344 1368 1.812922 CAGCAGGCGCGAAATCTCT 60.813 57.895 12.10 0.00 45.49 3.10
1620 1644 3.763671 GGCCCAATAATGAGCCCG 58.236 61.111 0.00 0.00 39.60 6.13
1726 1750 2.811873 GCTTCAAGTCCCTCTTCTGCAA 60.812 50.000 0.00 0.00 33.63 4.08
1770 1794 1.881973 GCCTCAACAAGCACATGAAGA 59.118 47.619 0.00 0.00 0.00 2.87
1797 1821 1.302832 AGCCTCCAACGCTTCTTGG 60.303 57.895 0.00 0.00 42.04 3.61
1908 1932 1.134818 TCATCGTCCCTGATTGTTCCG 60.135 52.381 0.00 0.00 0.00 4.30
2088 2112 2.972713 AGCAAGGAAGTTCTGGTACTCA 59.027 45.455 2.25 0.00 0.00 3.41
2364 2403 5.472137 GCGATCCTTTATAACCTTTGCCATA 59.528 40.000 0.00 0.00 0.00 2.74
2679 2718 2.514803 GAAGCATAAGGTGGTGGTTGT 58.485 47.619 0.00 0.00 38.84 3.32
3269 3308 3.954258 ACCTTTCCCAGTGTTGAAAGAAG 59.046 43.478 23.72 15.08 46.62 2.85
3428 3684 5.533903 GCATCTGGGATCAAGTTCACATAAT 59.466 40.000 0.00 0.00 0.00 1.28
3454 3710 2.287248 GCAAGCACTCACCTTTCTTGAC 60.287 50.000 4.67 0.00 37.03 3.18
3485 3741 3.415212 TGCAAGCAGCTGATACTTTCTT 58.585 40.909 20.43 6.27 45.94 2.52
3515 3771 6.441274 CAAGTCTGTAGCACAAACATGAAAT 58.559 36.000 0.00 0.00 0.00 2.17
3624 3880 9.361315 CAGAAATGATGCAAGAATTTTGATGTA 57.639 29.630 0.00 0.00 0.00 2.29
3625 3881 8.092068 TCAGAAATGATGCAAGAATTTTGATGT 58.908 29.630 0.00 0.00 0.00 3.06
3647 3903 4.089361 TCATTCTGAAGTACAGCCTCAGA 58.911 43.478 10.97 10.97 45.38 3.27
3648 3904 4.159321 TCTCATTCTGAAGTACAGCCTCAG 59.841 45.833 0.00 2.00 45.38 3.35
3649 3905 4.081972 GTCTCATTCTGAAGTACAGCCTCA 60.082 45.833 0.00 0.00 45.38 3.86
3650 3906 4.429108 GTCTCATTCTGAAGTACAGCCTC 58.571 47.826 0.00 0.00 45.38 4.70
3651 3907 3.196685 GGTCTCATTCTGAAGTACAGCCT 59.803 47.826 0.00 0.00 45.38 4.58
3652 3908 3.196685 AGGTCTCATTCTGAAGTACAGCC 59.803 47.826 0.00 0.00 45.38 4.85
3653 3909 4.464069 AGGTCTCATTCTGAAGTACAGC 57.536 45.455 0.00 0.00 45.38 4.40
3654 3910 5.982516 GCATAGGTCTCATTCTGAAGTACAG 59.017 44.000 0.00 0.00 46.97 2.74
3655 3911 5.450550 CGCATAGGTCTCATTCTGAAGTACA 60.451 44.000 0.00 0.00 0.00 2.90
3656 3912 4.979197 CGCATAGGTCTCATTCTGAAGTAC 59.021 45.833 0.00 0.00 0.00 2.73
3657 3913 4.645136 ACGCATAGGTCTCATTCTGAAGTA 59.355 41.667 0.00 0.00 0.00 2.24
3658 3914 3.449018 ACGCATAGGTCTCATTCTGAAGT 59.551 43.478 0.00 0.00 0.00 3.01
3659 3915 4.052159 ACGCATAGGTCTCATTCTGAAG 57.948 45.455 0.00 0.00 0.00 3.02
3660 3916 4.471904 AACGCATAGGTCTCATTCTGAA 57.528 40.909 0.00 0.00 0.00 3.02
3661 3917 5.592104 TTAACGCATAGGTCTCATTCTGA 57.408 39.130 0.00 0.00 0.00 3.27
3662 3918 6.662414 TTTTAACGCATAGGTCTCATTCTG 57.338 37.500 0.00 0.00 0.00 3.02
3702 3962 6.285224 TCACTAAAAGAAGTCATGAAACCGA 58.715 36.000 0.00 0.00 0.00 4.69
3714 3974 8.624776 AGTTCATTCCAACTTCACTAAAAGAAG 58.375 33.333 0.00 0.00 46.08 2.85
4172 4434 9.248291 GTGACAACAAATATCAAATGTCAAGTT 57.752 29.630 7.86 0.00 45.92 2.66
4183 4445 9.013229 AGAGCATTAAAGTGACAACAAATATCA 57.987 29.630 0.00 0.00 0.00 2.15
4184 4446 9.282247 CAGAGCATTAAAGTGACAACAAATATC 57.718 33.333 0.00 0.00 0.00 1.63
4185 4447 8.796475 ACAGAGCATTAAAGTGACAACAAATAT 58.204 29.630 0.00 0.00 0.00 1.28
4186 4448 8.165239 ACAGAGCATTAAAGTGACAACAAATA 57.835 30.769 0.00 0.00 0.00 1.40
4187 4449 7.042797 ACAGAGCATTAAAGTGACAACAAAT 57.957 32.000 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.