Multiple sequence alignment - TraesCS2A01G392000

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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 TraesCS2A01G392000 chr2A 100.000 3434 0 0 1 3434 642221129 642224562 0.000000e+00 6342.0
1 TraesCS2A01G392000 chr2A 97.211 2044 55 2 696 2738 729061298 729063340 0.000000e+00 3458.0
2 TraesCS2A01G392000 chr5A 97.129 2055 46 5 696 2738 552946937 552944884 0.000000e+00 3456.0
3 TraesCS2A01G392000 chr5A 82.686 2033 321 23 722 2737 480821829 480823847 0.000000e+00 1775.0
4 TraesCS2A01G392000 chr3A 96.692 907 23 3 1835 2741 573347662 573346763 0.000000e+00 1502.0
5 TraesCS2A01G392000 chr3A 90.056 1066 102 4 1674 2738 742794778 742795840 0.000000e+00 1378.0
6 TraesCS2A01G392000 chr3A 88.504 1096 108 13 1674 2757 606528490 606529579 0.000000e+00 1310.0
7 TraesCS2A01G392000 chr3A 87.725 945 110 3 729 1670 606527494 606528435 0.000000e+00 1098.0
8 TraesCS2A01G392000 chr3A 75.000 340 71 8 3 334 241766414 241766081 9.930000e-31 145.0
9 TraesCS2A01G392000 chr7D 91.080 1065 92 2 1674 2738 169443007 169441946 0.000000e+00 1437.0
10 TraesCS2A01G392000 chr7D 89.581 979 95 5 697 1669 109601213 109600236 0.000000e+00 1236.0
11 TraesCS2A01G392000 chr7D 89.560 977 97 3 696 1669 169444037 169443063 0.000000e+00 1234.0
12 TraesCS2A01G392000 chr2D 90.347 1067 91 6 1674 2738 16490811 16489755 0.000000e+00 1389.0
13 TraesCS2A01G392000 chr2D 88.650 978 105 4 696 1669 16491842 16490867 0.000000e+00 1186.0
14 TraesCS2A01G392000 chr2D 87.635 647 73 3 3 649 497921415 497922054 0.000000e+00 745.0
15 TraesCS2A01G392000 chr2D 96.814 408 10 2 3029 3434 497922367 497922773 0.000000e+00 678.0
16 TraesCS2A01G392000 chr2D 84.615 598 83 5 6 601 153050829 153050239 1.370000e-163 586.0
17 TraesCS2A01G392000 chr2D 86.257 342 24 5 2740 3077 497922045 497922367 1.960000e-92 350.0
18 TraesCS2A01G392000 chr4B 90.047 1065 103 1 1674 2738 495131404 495132465 0.000000e+00 1376.0
19 TraesCS2A01G392000 chr2B 89.568 1064 107 3 1674 2737 709858362 709857303 0.000000e+00 1347.0
20 TraesCS2A01G392000 chr2B 88.560 979 103 7 696 1669 709859392 709858418 0.000000e+00 1179.0
21 TraesCS2A01G392000 chr2B 91.931 694 50 4 2739 3430 583787672 583788361 0.000000e+00 966.0
22 TraesCS2A01G392000 chr2B 87.944 647 72 4 3 649 583787042 583787682 0.000000e+00 758.0
23 TraesCS2A01G392000 chr2B 85.231 650 87 5 3 650 211013626 211012984 0.000000e+00 660.0
24 TraesCS2A01G392000 chrUn 89.247 1023 100 5 1674 2690 170190602 170189584 0.000000e+00 1271.0
25 TraesCS2A01G392000 chr1D 89.360 968 96 5 709 1669 464289290 464290257 0.000000e+00 1210.0
26 TraesCS2A01G392000 chr1D 83.362 583 86 8 1 582 256549801 256550373 2.350000e-146 529.0
27 TraesCS2A01G392000 chr3B 88.666 997 90 12 696 1669 64791802 64790806 0.000000e+00 1194.0
28 TraesCS2A01G392000 chr4D 83.282 652 96 8 3 649 245114726 245114083 3.820000e-164 588.0
29 TraesCS2A01G392000 chr5D 82.090 670 90 14 3 649 44413556 44412894 2.330000e-151 545.0
30 TraesCS2A01G392000 chr1A 83.507 576 82 10 1 573 329524495 329525060 3.040000e-145 525.0
31 TraesCS2A01G392000 chr1B 84.472 483 66 6 48 530 34319707 34319234 5.190000e-128 468.0
32 TraesCS2A01G392000 chr1B 76.282 156 37 0 62 217 623917310 623917465 2.200000e-12 84.2


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 TraesCS2A01G392000 chr2A 642221129 642224562 3433 False 6342.0 6342 100.000000 1 3434 1 chr2A.!!$F1 3433
1 TraesCS2A01G392000 chr2A 729061298 729063340 2042 False 3458.0 3458 97.211000 696 2738 1 chr2A.!!$F2 2042
2 TraesCS2A01G392000 chr5A 552944884 552946937 2053 True 3456.0 3456 97.129000 696 2738 1 chr5A.!!$R1 2042
3 TraesCS2A01G392000 chr5A 480821829 480823847 2018 False 1775.0 1775 82.686000 722 2737 1 chr5A.!!$F1 2015
4 TraesCS2A01G392000 chr3A 573346763 573347662 899 True 1502.0 1502 96.692000 1835 2741 1 chr3A.!!$R2 906
5 TraesCS2A01G392000 chr3A 742794778 742795840 1062 False 1378.0 1378 90.056000 1674 2738 1 chr3A.!!$F1 1064
6 TraesCS2A01G392000 chr3A 606527494 606529579 2085 False 1204.0 1310 88.114500 729 2757 2 chr3A.!!$F2 2028
7 TraesCS2A01G392000 chr7D 169441946 169444037 2091 True 1335.5 1437 90.320000 696 2738 2 chr7D.!!$R2 2042
8 TraesCS2A01G392000 chr7D 109600236 109601213 977 True 1236.0 1236 89.581000 697 1669 1 chr7D.!!$R1 972
9 TraesCS2A01G392000 chr2D 16489755 16491842 2087 True 1287.5 1389 89.498500 696 2738 2 chr2D.!!$R2 2042
10 TraesCS2A01G392000 chr2D 497921415 497922773 1358 False 591.0 745 90.235333 3 3434 3 chr2D.!!$F1 3431
11 TraesCS2A01G392000 chr2D 153050239 153050829 590 True 586.0 586 84.615000 6 601 1 chr2D.!!$R1 595
12 TraesCS2A01G392000 chr4B 495131404 495132465 1061 False 1376.0 1376 90.047000 1674 2738 1 chr4B.!!$F1 1064
13 TraesCS2A01G392000 chr2B 709857303 709859392 2089 True 1263.0 1347 89.064000 696 2737 2 chr2B.!!$R2 2041
14 TraesCS2A01G392000 chr2B 583787042 583788361 1319 False 862.0 966 89.937500 3 3430 2 chr2B.!!$F1 3427
15 TraesCS2A01G392000 chr2B 211012984 211013626 642 True 660.0 660 85.231000 3 650 1 chr2B.!!$R1 647
16 TraesCS2A01G392000 chrUn 170189584 170190602 1018 True 1271.0 1271 89.247000 1674 2690 1 chrUn.!!$R1 1016
17 TraesCS2A01G392000 chr1D 464289290 464290257 967 False 1210.0 1210 89.360000 709 1669 1 chr1D.!!$F2 960
18 TraesCS2A01G392000 chr1D 256549801 256550373 572 False 529.0 529 83.362000 1 582 1 chr1D.!!$F1 581
19 TraesCS2A01G392000 chr3B 64790806 64791802 996 True 1194.0 1194 88.666000 696 1669 1 chr3B.!!$R1 973
20 TraesCS2A01G392000 chr4D 245114083 245114726 643 True 588.0 588 83.282000 3 649 1 chr4D.!!$R1 646
21 TraesCS2A01G392000 chr5D 44412894 44413556 662 True 545.0 545 82.090000 3 649 1 chr5D.!!$R1 646
22 TraesCS2A01G392000 chr1A 329524495 329525060 565 False 525.0 525 83.507000 1 573 1 chr1A.!!$F1 572

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
592 594 0.099436 GCTGCCCGTCATTTGATCAC 59.901 55.0 0.0 0.0 0.0 3.06 F
594 596 0.321210 TGCCCGTCATTTGATCACGT 60.321 50.0 0.0 0.0 0.0 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2068 2167 0.100503 GGCACGCCAATATCACCAAC 59.899 55.0 2.36 0.0 35.81 3.77 R
2573 2737 0.895530 CGGACTAGCACTCAAGGGAA 59.104 55.0 0.00 0.0 0.00 3.97 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
85 86 2.744243 GGGATGCCAGCAGAGCTCT 61.744 63.158 11.45 11.45 36.40 4.09
130 131 3.285215 TCTATCGCCGGTCGCTCC 61.285 66.667 12.56 0.00 38.27 4.70
185 186 0.465460 AAGAACACAAAGGCGCTCCA 60.465 50.000 7.64 0.00 33.74 3.86
304 305 0.465705 GATGAAGGGGCTGATCGTCA 59.534 55.000 0.00 0.00 0.00 4.35
364 365 1.155390 AACTCCACCTCCTCCGACA 59.845 57.895 0.00 0.00 0.00 4.35
426 427 2.106683 CGGTGATCGGAAGGGCAAC 61.107 63.158 0.00 0.00 34.75 4.17
532 534 5.635280 GTGACGAACTCAGATGATCTTTTGA 59.365 40.000 0.00 2.41 0.00 2.69
534 536 6.875726 TGACGAACTCAGATGATCTTTTGAAT 59.124 34.615 0.00 0.00 0.00 2.57
538 540 7.851472 CGAACTCAGATGATCTTTTGAATGATG 59.149 37.037 0.00 0.00 0.00 3.07
540 542 7.986562 ACTCAGATGATCTTTTGAATGATGTG 58.013 34.615 0.00 0.00 0.00 3.21
547 549 6.431852 TGATCTTTTGAATGATGTGAAGCTCA 59.568 34.615 0.00 0.00 0.00 4.26
552 554 9.582431 CTTTTGAATGATGTGAAGCTCATTTAT 57.418 29.630 0.00 0.00 41.07 1.40
556 558 9.006839 TGAATGATGTGAAGCTCATTTATATCC 57.993 33.333 0.00 0.00 41.07 2.59
557 559 8.929260 AATGATGTGAAGCTCATTTATATCCA 57.071 30.769 0.00 0.00 38.60 3.41
558 560 9.529823 AATGATGTGAAGCTCATTTATATCCAT 57.470 29.630 0.00 0.00 38.60 3.41
559 561 8.929260 TGATGTGAAGCTCATTTATATCCATT 57.071 30.769 0.00 0.00 27.76 3.16
560 562 9.358406 TGATGTGAAGCTCATTTATATCCATTT 57.642 29.630 0.00 0.00 27.76 2.32
561 563 9.622004 GATGTGAAGCTCATTTATATCCATTTG 57.378 33.333 0.00 0.00 0.00 2.32
562 564 7.428020 TGTGAAGCTCATTTATATCCATTTGC 58.572 34.615 0.00 0.00 0.00 3.68
563 565 7.068470 TGTGAAGCTCATTTATATCCATTTGCA 59.932 33.333 0.00 0.00 0.00 4.08
564 566 7.594015 GTGAAGCTCATTTATATCCATTTGCAG 59.406 37.037 0.00 0.00 0.00 4.41
565 567 6.022163 AGCTCATTTATATCCATTTGCAGC 57.978 37.500 0.00 0.00 0.00 5.25
566 568 5.047519 AGCTCATTTATATCCATTTGCAGCC 60.048 40.000 0.00 0.00 0.00 4.85
567 569 5.375417 TCATTTATATCCATTTGCAGCCG 57.625 39.130 0.00 0.00 0.00 5.52
568 570 5.069318 TCATTTATATCCATTTGCAGCCGA 58.931 37.500 0.00 0.00 0.00 5.54
569 571 5.711506 TCATTTATATCCATTTGCAGCCGAT 59.288 36.000 0.00 0.00 0.00 4.18
570 572 6.209192 TCATTTATATCCATTTGCAGCCGATT 59.791 34.615 0.00 0.00 0.00 3.34
571 573 6.403866 TTTATATCCATTTGCAGCCGATTT 57.596 33.333 0.00 0.00 0.00 2.17
572 574 4.942761 ATATCCATTTGCAGCCGATTTT 57.057 36.364 0.00 0.00 0.00 1.82
573 575 2.367030 TCCATTTGCAGCCGATTTTG 57.633 45.000 0.00 0.00 0.00 2.44
574 576 0.722848 CCATTTGCAGCCGATTTTGC 59.277 50.000 0.00 0.00 40.67 3.68
575 577 1.673626 CCATTTGCAGCCGATTTTGCT 60.674 47.619 0.00 0.00 40.87 3.91
580 582 3.443045 AGCCGATTTTGCTGCCCG 61.443 61.111 0.00 0.00 37.76 6.13
581 583 3.747976 GCCGATTTTGCTGCCCGT 61.748 61.111 0.00 0.00 0.00 5.28
582 584 2.485122 CCGATTTTGCTGCCCGTC 59.515 61.111 0.00 0.00 0.00 4.79
583 585 2.331893 CCGATTTTGCTGCCCGTCA 61.332 57.895 0.00 0.00 0.00 4.35
584 586 1.656818 CCGATTTTGCTGCCCGTCAT 61.657 55.000 0.00 0.00 0.00 3.06
585 587 0.171007 CGATTTTGCTGCCCGTCATT 59.829 50.000 0.00 0.00 0.00 2.57
586 588 1.402720 CGATTTTGCTGCCCGTCATTT 60.403 47.619 0.00 0.00 0.00 2.32
587 589 1.994779 GATTTTGCTGCCCGTCATTTG 59.005 47.619 0.00 0.00 0.00 2.32
588 590 1.035923 TTTTGCTGCCCGTCATTTGA 58.964 45.000 0.00 0.00 0.00 2.69
589 591 1.255882 TTTGCTGCCCGTCATTTGAT 58.744 45.000 0.00 0.00 0.00 2.57
590 592 0.810648 TTGCTGCCCGTCATTTGATC 59.189 50.000 0.00 0.00 0.00 2.92
591 593 0.322366 TGCTGCCCGTCATTTGATCA 60.322 50.000 0.00 0.00 0.00 2.92
592 594 0.099436 GCTGCCCGTCATTTGATCAC 59.901 55.000 0.00 0.00 0.00 3.06
593 595 0.374758 CTGCCCGTCATTTGATCACG 59.625 55.000 0.00 0.00 0.00 4.35
594 596 0.321210 TGCCCGTCATTTGATCACGT 60.321 50.000 0.00 0.00 0.00 4.49
595 597 1.066787 TGCCCGTCATTTGATCACGTA 60.067 47.619 0.00 0.00 0.00 3.57
596 598 1.593006 GCCCGTCATTTGATCACGTAG 59.407 52.381 0.00 0.00 0.00 3.51
597 599 2.737359 GCCCGTCATTTGATCACGTAGA 60.737 50.000 0.00 0.00 0.00 2.59
598 600 3.116300 CCCGTCATTTGATCACGTAGAG 58.884 50.000 0.00 0.00 0.00 2.43
599 601 3.428999 CCCGTCATTTGATCACGTAGAGT 60.429 47.826 0.00 0.00 0.00 3.24
600 602 4.201980 CCCGTCATTTGATCACGTAGAGTA 60.202 45.833 0.00 0.00 0.00 2.59
601 603 4.970611 CCGTCATTTGATCACGTAGAGTAG 59.029 45.833 0.00 0.00 0.00 2.57
602 604 4.438145 CGTCATTTGATCACGTAGAGTAGC 59.562 45.833 0.00 0.00 0.00 3.58
603 605 5.583495 GTCATTTGATCACGTAGAGTAGCT 58.417 41.667 0.00 0.00 0.00 3.32
604 606 5.683743 GTCATTTGATCACGTAGAGTAGCTC 59.316 44.000 0.00 0.00 0.00 4.09
605 607 5.357032 TCATTTGATCACGTAGAGTAGCTCA 59.643 40.000 0.00 0.00 32.06 4.26
606 608 5.836821 TTTGATCACGTAGAGTAGCTCAT 57.163 39.130 0.00 0.00 32.06 2.90
607 609 4.820284 TGATCACGTAGAGTAGCTCATG 57.180 45.455 0.00 0.00 32.06 3.07
608 610 4.200092 TGATCACGTAGAGTAGCTCATGT 58.800 43.478 0.00 0.00 32.06 3.21
609 611 4.640647 TGATCACGTAGAGTAGCTCATGTT 59.359 41.667 0.00 0.00 32.06 2.71
610 612 4.357018 TCACGTAGAGTAGCTCATGTTG 57.643 45.455 0.00 0.00 32.06 3.33
611 613 2.854777 CACGTAGAGTAGCTCATGTTGC 59.145 50.000 0.00 5.54 32.06 4.17
612 614 2.492088 ACGTAGAGTAGCTCATGTTGCA 59.508 45.455 13.86 0.00 32.06 4.08
613 615 3.131223 ACGTAGAGTAGCTCATGTTGCAT 59.869 43.478 13.86 2.28 32.06 3.96
614 616 3.488678 CGTAGAGTAGCTCATGTTGCATG 59.511 47.826 13.86 2.93 32.06 4.06
615 617 3.623906 AGAGTAGCTCATGTTGCATGT 57.376 42.857 13.86 0.56 32.06 3.21
616 618 4.743057 AGAGTAGCTCATGTTGCATGTA 57.257 40.909 13.86 0.00 32.06 2.29
617 619 5.287674 AGAGTAGCTCATGTTGCATGTAT 57.712 39.130 13.86 0.57 32.06 2.29
618 620 6.410942 AGAGTAGCTCATGTTGCATGTATA 57.589 37.500 13.86 0.00 32.06 1.47
619 621 7.002250 AGAGTAGCTCATGTTGCATGTATAT 57.998 36.000 13.86 0.00 32.06 0.86
620 622 7.448420 AGAGTAGCTCATGTTGCATGTATATT 58.552 34.615 13.86 0.00 32.06 1.28
621 623 8.588472 AGAGTAGCTCATGTTGCATGTATATTA 58.412 33.333 13.86 0.00 32.06 0.98
622 624 9.376075 GAGTAGCTCATGTTGCATGTATATTAT 57.624 33.333 13.86 0.00 0.00 1.28
623 625 9.159364 AGTAGCTCATGTTGCATGTATATTATG 57.841 33.333 13.86 0.00 0.00 1.90
624 626 9.154847 GTAGCTCATGTTGCATGTATATTATGA 57.845 33.333 13.86 0.00 0.00 2.15
625 627 8.625786 AGCTCATGTTGCATGTATATTATGAA 57.374 30.769 13.86 0.00 0.00 2.57
626 628 9.239551 AGCTCATGTTGCATGTATATTATGAAT 57.760 29.630 13.86 0.00 0.00 2.57
639 641 9.703677 TGTATATTATGAATATAGGGTGTCGGA 57.296 33.333 0.21 0.00 37.09 4.55
644 646 8.832458 TTATGAATATAGGGTGTCGGATATGA 57.168 34.615 0.00 0.00 0.00 2.15
645 647 6.775594 TGAATATAGGGTGTCGGATATGAG 57.224 41.667 0.00 0.00 0.00 2.90
646 648 6.490492 TGAATATAGGGTGTCGGATATGAGA 58.510 40.000 0.00 0.00 0.00 3.27
647 649 7.126061 TGAATATAGGGTGTCGGATATGAGAT 58.874 38.462 0.00 0.00 0.00 2.75
648 650 8.279361 TGAATATAGGGTGTCGGATATGAGATA 58.721 37.037 0.00 0.00 0.00 1.98
649 651 9.303116 GAATATAGGGTGTCGGATATGAGATAT 57.697 37.037 0.00 0.00 0.00 1.63
650 652 6.968263 ATAGGGTGTCGGATATGAGATATG 57.032 41.667 0.00 0.00 0.00 1.78
651 653 4.935578 AGGGTGTCGGATATGAGATATGA 58.064 43.478 0.00 0.00 0.00 2.15
652 654 4.707448 AGGGTGTCGGATATGAGATATGAC 59.293 45.833 0.00 0.00 0.00 3.06
653 655 4.707448 GGGTGTCGGATATGAGATATGACT 59.293 45.833 0.00 0.00 0.00 3.41
654 656 5.186021 GGGTGTCGGATATGAGATATGACTT 59.814 44.000 0.00 0.00 0.00 3.01
655 657 6.295349 GGGTGTCGGATATGAGATATGACTTT 60.295 42.308 0.00 0.00 0.00 2.66
656 658 7.155328 GGTGTCGGATATGAGATATGACTTTT 58.845 38.462 0.00 0.00 0.00 2.27
657 659 7.657761 GGTGTCGGATATGAGATATGACTTTTT 59.342 37.037 0.00 0.00 0.00 1.94
687 689 7.117285 AGATTTATCTGGCAGGGAAAAATTC 57.883 36.000 15.73 9.60 35.42 2.17
688 690 6.098838 AGATTTATCTGGCAGGGAAAAATTCC 59.901 38.462 15.73 0.34 41.55 3.01
689 691 8.245487 AGATTTATCTGGCAGGGAAAAATTCCA 61.245 37.037 15.73 0.00 42.94 3.53
917 951 1.381872 AGGATGGAGACGGGGACTG 60.382 63.158 0.00 0.00 42.99 3.51
950 984 2.523016 GGATTGCCCTGGGATCCC 59.477 66.667 25.22 25.22 0.00 3.85
1016 1051 0.541392 TTCATGCCGCTGGTAGTGAT 59.459 50.000 0.00 0.00 0.00 3.06
1217 1255 2.847234 TCGTGGGCCTGTCACCTT 60.847 61.111 4.53 0.00 0.00 3.50
1646 1690 1.304464 TCTCGAGCCTCTTGGAGCA 60.304 57.895 7.81 0.00 34.57 4.26
1762 1857 2.047655 CACCGGCGCCTCTTGTTA 60.048 61.111 26.68 0.00 0.00 2.41
2137 2236 2.255252 GTTTCAGTTGCGCGGCAT 59.745 55.556 8.83 0.00 38.76 4.40
2160 2259 1.545706 GGTCCTTGCTCGAGGAACCT 61.546 60.000 16.06 0.00 45.96 3.50
2573 2737 0.393944 TGTATCTGGCTCGGACGACT 60.394 55.000 0.00 0.00 0.00 4.18
2669 2843 5.187621 TGGGTCCAGTTTCCCTTATTAAG 57.812 43.478 0.00 0.00 43.74 1.85
2739 2913 2.607631 ACGAGGTTCCGTCAAAAAGA 57.392 45.000 0.00 0.00 38.56 2.52
2740 2914 3.121738 ACGAGGTTCCGTCAAAAAGAT 57.878 42.857 0.00 0.00 38.56 2.40
2744 2918 4.868171 CGAGGTTCCGTCAAAAAGATATGA 59.132 41.667 0.00 0.00 0.00 2.15
2745 2919 5.005779 CGAGGTTCCGTCAAAAAGATATGAG 59.994 44.000 0.00 0.00 0.00 2.90
2746 2920 6.049955 AGGTTCCGTCAAAAAGATATGAGA 57.950 37.500 0.00 0.00 0.00 3.27
2747 2921 6.653989 AGGTTCCGTCAAAAAGATATGAGAT 58.346 36.000 0.00 0.00 0.00 2.75
2748 2922 7.792032 AGGTTCCGTCAAAAAGATATGAGATA 58.208 34.615 0.00 0.00 0.00 1.98
2749 2923 8.432805 AGGTTCCGTCAAAAAGATATGAGATAT 58.567 33.333 0.00 0.00 0.00 1.63
2751 2925 9.261180 GTTCCGTCAAAAAGATATGAGATATGA 57.739 33.333 0.00 0.00 0.00 2.15
2753 2927 8.090831 TCCGTCAAAAAGATATGAGATATGAGG 58.909 37.037 0.00 0.00 0.00 3.86
2754 2928 8.090831 CCGTCAAAAAGATATGAGATATGAGGA 58.909 37.037 0.00 0.00 0.00 3.71
2755 2929 9.650539 CGTCAAAAAGATATGAGATATGAGGAT 57.349 33.333 0.00 0.00 0.00 3.24
2759 2933 9.736414 AAAAAGATATGAGATATGAGGATGTGG 57.264 33.333 0.00 0.00 0.00 4.17
2760 2934 8.676397 AAAGATATGAGATATGAGGATGTGGA 57.324 34.615 0.00 0.00 0.00 4.02
2761 2935 7.901283 AGATATGAGATATGAGGATGTGGAG 57.099 40.000 0.00 0.00 0.00 3.86
2762 2936 7.650660 AGATATGAGATATGAGGATGTGGAGA 58.349 38.462 0.00 0.00 0.00 3.71
2763 2937 7.781219 AGATATGAGATATGAGGATGTGGAGAG 59.219 40.741 0.00 0.00 0.00 3.20
2764 2938 4.414677 TGAGATATGAGGATGTGGAGAGG 58.585 47.826 0.00 0.00 0.00 3.69
2765 2939 3.768757 GAGATATGAGGATGTGGAGAGGG 59.231 52.174 0.00 0.00 0.00 4.30
2766 2940 3.404081 AGATATGAGGATGTGGAGAGGGA 59.596 47.826 0.00 0.00 0.00 4.20
2767 2941 2.575921 ATGAGGATGTGGAGAGGGAA 57.424 50.000 0.00 0.00 0.00 3.97
2768 2942 2.342406 TGAGGATGTGGAGAGGGAAA 57.658 50.000 0.00 0.00 0.00 3.13
2769 2943 2.850833 TGAGGATGTGGAGAGGGAAAT 58.149 47.619 0.00 0.00 0.00 2.17
2770 2944 4.007581 TGAGGATGTGGAGAGGGAAATA 57.992 45.455 0.00 0.00 0.00 1.40
2771 2945 4.570926 TGAGGATGTGGAGAGGGAAATAT 58.429 43.478 0.00 0.00 0.00 1.28
2772 2946 4.349048 TGAGGATGTGGAGAGGGAAATATG 59.651 45.833 0.00 0.00 0.00 1.78
2773 2947 4.570926 AGGATGTGGAGAGGGAAATATGA 58.429 43.478 0.00 0.00 0.00 2.15
2774 2948 4.596643 AGGATGTGGAGAGGGAAATATGAG 59.403 45.833 0.00 0.00 0.00 2.90
2775 2949 4.263243 GGATGTGGAGAGGGAAATATGAGG 60.263 50.000 0.00 0.00 0.00 3.86
2776 2950 3.736094 TGTGGAGAGGGAAATATGAGGT 58.264 45.455 0.00 0.00 0.00 3.85
2777 2951 3.455910 TGTGGAGAGGGAAATATGAGGTG 59.544 47.826 0.00 0.00 0.00 4.00
2778 2952 3.456277 GTGGAGAGGGAAATATGAGGTGT 59.544 47.826 0.00 0.00 0.00 4.16
2779 2953 3.455910 TGGAGAGGGAAATATGAGGTGTG 59.544 47.826 0.00 0.00 0.00 3.82
2780 2954 3.456277 GGAGAGGGAAATATGAGGTGTGT 59.544 47.826 0.00 0.00 0.00 3.72
2781 2955 4.080299 GGAGAGGGAAATATGAGGTGTGTT 60.080 45.833 0.00 0.00 0.00 3.32
2782 2956 5.501156 GAGAGGGAAATATGAGGTGTGTTT 58.499 41.667 0.00 0.00 0.00 2.83
2783 2957 5.501156 AGAGGGAAATATGAGGTGTGTTTC 58.499 41.667 0.00 0.00 0.00 2.78
2784 2958 4.261801 AGGGAAATATGAGGTGTGTTTCG 58.738 43.478 0.00 0.00 31.36 3.46
2785 2959 4.007659 GGGAAATATGAGGTGTGTTTCGT 58.992 43.478 0.00 0.00 31.36 3.85
2786 2960 4.094442 GGGAAATATGAGGTGTGTTTCGTC 59.906 45.833 0.00 0.00 31.36 4.20
2787 2961 4.693566 GGAAATATGAGGTGTGTTTCGTCA 59.306 41.667 0.00 0.00 34.91 4.35
2788 2962 5.180492 GGAAATATGAGGTGTGTTTCGTCAA 59.820 40.000 0.00 0.00 34.29 3.18
2789 2963 6.128007 GGAAATATGAGGTGTGTTTCGTCAAT 60.128 38.462 0.00 0.00 34.29 2.57
2790 2964 5.801350 ATATGAGGTGTGTTTCGTCAATG 57.199 39.130 0.00 0.00 34.29 2.82
2791 2965 1.601903 TGAGGTGTGTTTCGTCAATGC 59.398 47.619 0.00 0.00 0.00 3.56
2792 2966 1.873591 GAGGTGTGTTTCGTCAATGCT 59.126 47.619 0.00 0.00 0.00 3.79
2793 2967 1.873591 AGGTGTGTTTCGTCAATGCTC 59.126 47.619 0.00 0.00 0.00 4.26
2794 2968 1.398451 GGTGTGTTTCGTCAATGCTCG 60.398 52.381 0.00 0.00 0.00 5.03
2795 2969 0.234625 TGTGTTTCGTCAATGCTCGC 59.765 50.000 0.00 0.00 0.00 5.03
2796 2970 0.785708 GTGTTTCGTCAATGCTCGCG 60.786 55.000 0.00 0.00 0.00 5.87
2797 2971 1.225745 GTTTCGTCAATGCTCGCGG 60.226 57.895 6.13 0.00 0.00 6.46
2798 2972 1.373622 TTTCGTCAATGCTCGCGGA 60.374 52.632 6.13 0.00 0.00 5.54
2799 2973 1.623081 TTTCGTCAATGCTCGCGGAC 61.623 55.000 6.13 3.26 0.00 4.79
2800 2974 2.757155 TTCGTCAATGCTCGCGGACA 62.757 55.000 6.13 5.16 0.00 4.02
2801 2975 2.167219 CGTCAATGCTCGCGGACAT 61.167 57.895 6.13 7.70 0.00 3.06
2802 2976 1.349627 GTCAATGCTCGCGGACATG 59.650 57.895 6.13 5.92 0.00 3.21
2803 2977 1.079197 TCAATGCTCGCGGACATGT 60.079 52.632 6.13 0.00 0.00 3.21
2804 2978 0.673333 TCAATGCTCGCGGACATGTT 60.673 50.000 6.13 0.00 0.00 2.71
2805 2979 0.168788 CAATGCTCGCGGACATGTTT 59.831 50.000 6.13 0.00 0.00 2.83
2806 2980 0.168788 AATGCTCGCGGACATGTTTG 59.831 50.000 6.13 0.00 0.00 2.93
2807 2981 0.673333 ATGCTCGCGGACATGTTTGA 60.673 50.000 6.13 0.00 0.00 2.69
2808 2982 1.291184 TGCTCGCGGACATGTTTGAG 61.291 55.000 6.13 6.52 0.00 3.02
2809 2983 1.014044 GCTCGCGGACATGTTTGAGA 61.014 55.000 6.13 11.30 0.00 3.27
2810 2984 0.994995 CTCGCGGACATGTTTGAGAG 59.005 55.000 6.13 14.33 0.00 3.20
2811 2985 0.389817 TCGCGGACATGTTTGAGAGG 60.390 55.000 6.13 0.00 0.00 3.69
2812 2986 1.796796 GCGGACATGTTTGAGAGGC 59.203 57.895 0.00 0.00 0.00 4.70
2813 2987 1.648467 GCGGACATGTTTGAGAGGCC 61.648 60.000 0.00 0.00 0.00 5.19
2814 2988 1.361668 CGGACATGTTTGAGAGGCCG 61.362 60.000 0.00 1.38 0.00 6.13
2815 2989 0.036388 GGACATGTTTGAGAGGCCGA 60.036 55.000 0.00 0.00 0.00 5.54
2816 2990 1.610624 GGACATGTTTGAGAGGCCGAA 60.611 52.381 0.00 0.00 0.00 4.30
2817 2991 2.359900 GACATGTTTGAGAGGCCGAAT 58.640 47.619 0.00 0.00 0.00 3.34
2818 2992 2.749621 GACATGTTTGAGAGGCCGAATT 59.250 45.455 0.00 0.00 0.00 2.17
2819 2993 3.938963 GACATGTTTGAGAGGCCGAATTA 59.061 43.478 0.00 0.00 0.00 1.40
2820 2994 3.941483 ACATGTTTGAGAGGCCGAATTAG 59.059 43.478 0.00 0.00 0.00 1.73
2821 2995 2.356135 TGTTTGAGAGGCCGAATTAGC 58.644 47.619 0.00 0.00 0.00 3.09
2824 2998 0.178068 TGAGAGGCCGAATTAGCACC 59.822 55.000 0.00 0.00 0.00 5.01
2883 3057 7.384932 CGATGCACAACAGGATATTATAACTCA 59.615 37.037 0.00 0.00 0.00 3.41
2997 3171 5.152193 TGCTTCTACCATACCCAGCTAATA 58.848 41.667 0.00 0.00 0.00 0.98
2998 3172 5.011738 TGCTTCTACCATACCCAGCTAATAC 59.988 44.000 0.00 0.00 0.00 1.89
3027 3204 1.807142 TGTGCGTTTCGGCAAATATCA 59.193 42.857 0.00 0.00 45.93 2.15
3151 3376 4.457496 ACCATGCGGCAGTCCTCG 62.457 66.667 9.25 0.00 34.57 4.63
3246 3473 3.427528 ACACGTACGCAAATAAGACACAG 59.572 43.478 16.72 0.00 0.00 3.66
3281 3508 2.559668 CAGAGAAGCCAATTTTGCCAGA 59.440 45.455 0.00 0.00 0.00 3.86
3322 3549 3.810386 TCCACAATAGATCTCTCGAGACG 59.190 47.826 12.08 8.24 40.75 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
85 86 3.200593 GAGCCGCTCGTCCTCGTA 61.201 66.667 4.23 0.00 38.33 3.43
130 131 4.477975 GTCCGTCTCCGCCGTCAG 62.478 72.222 0.00 0.00 0.00 3.51
185 186 2.158740 TCCGACTGCTCTATGACTAGCT 60.159 50.000 0.00 0.00 39.53 3.32
238 239 4.379243 CAGCTTGGCGGGTCGAGT 62.379 66.667 0.00 0.00 0.00 4.18
304 305 1.454111 CGGAGTCGGAGGAGGACAT 60.454 63.158 0.00 0.00 36.87 3.06
364 365 1.697432 TGGTGGAGAATCTTGGTCGTT 59.303 47.619 0.00 0.00 33.73 3.85
500 502 0.460722 TGAGTTCGTCACCGGACAAA 59.539 50.000 9.46 0.00 45.43 2.83
532 534 8.929260 TGGATATAAATGAGCTTCACATCATT 57.071 30.769 0.00 0.00 45.67 2.57
534 536 8.929260 AATGGATATAAATGAGCTTCACATCA 57.071 30.769 0.00 0.00 0.00 3.07
538 540 7.428020 TGCAAATGGATATAAATGAGCTTCAC 58.572 34.615 0.00 0.00 0.00 3.18
540 542 6.585322 GCTGCAAATGGATATAAATGAGCTTC 59.415 38.462 0.00 0.00 0.00 3.86
547 549 6.594788 AATCGGCTGCAAATGGATATAAAT 57.405 33.333 0.50 0.00 0.00 1.40
552 554 3.737663 GCAAAATCGGCTGCAAATGGATA 60.738 43.478 0.50 0.00 38.48 2.59
553 555 2.896168 CAAAATCGGCTGCAAATGGAT 58.104 42.857 0.50 0.00 0.00 3.41
554 556 1.672441 GCAAAATCGGCTGCAAATGGA 60.672 47.619 0.50 0.00 38.48 3.41
555 557 0.722848 GCAAAATCGGCTGCAAATGG 59.277 50.000 0.50 0.00 38.48 3.16
556 558 1.717194 AGCAAAATCGGCTGCAAATG 58.283 45.000 0.50 0.00 40.80 2.32
563 565 3.443045 CGGGCAGCAAAATCGGCT 61.443 61.111 0.00 0.00 43.77 5.52
564 566 3.683587 GACGGGCAGCAAAATCGGC 62.684 63.158 0.00 0.00 0.00 5.54
565 567 1.656818 ATGACGGGCAGCAAAATCGG 61.657 55.000 0.00 0.00 0.00 4.18
566 568 0.171007 AATGACGGGCAGCAAAATCG 59.829 50.000 0.00 0.00 0.00 3.34
567 569 1.994779 CAAATGACGGGCAGCAAAATC 59.005 47.619 0.00 0.00 0.00 2.17
568 570 1.617850 TCAAATGACGGGCAGCAAAAT 59.382 42.857 0.00 0.00 0.00 1.82
569 571 1.035923 TCAAATGACGGGCAGCAAAA 58.964 45.000 0.00 0.00 0.00 2.44
570 572 1.202114 GATCAAATGACGGGCAGCAAA 59.798 47.619 0.00 0.00 0.00 3.68
571 573 0.810648 GATCAAATGACGGGCAGCAA 59.189 50.000 0.00 0.00 0.00 3.91
572 574 0.322366 TGATCAAATGACGGGCAGCA 60.322 50.000 0.00 0.00 0.00 4.41
573 575 0.099436 GTGATCAAATGACGGGCAGC 59.901 55.000 0.00 0.00 0.00 5.25
574 576 0.374758 CGTGATCAAATGACGGGCAG 59.625 55.000 0.00 0.00 0.00 4.85
575 577 0.321210 ACGTGATCAAATGACGGGCA 60.321 50.000 0.00 0.00 37.42 5.36
576 578 1.593006 CTACGTGATCAAATGACGGGC 59.407 52.381 0.00 0.00 37.42 6.13
577 579 3.116300 CTCTACGTGATCAAATGACGGG 58.884 50.000 0.00 0.00 37.42 5.28
578 580 3.770666 ACTCTACGTGATCAAATGACGG 58.229 45.455 0.00 0.00 37.42 4.79
579 581 4.438145 GCTACTCTACGTGATCAAATGACG 59.562 45.833 0.00 0.00 39.03 4.35
580 582 5.583495 AGCTACTCTACGTGATCAAATGAC 58.417 41.667 0.00 0.00 0.00 3.06
581 583 5.357032 TGAGCTACTCTACGTGATCAAATGA 59.643 40.000 0.00 0.00 0.00 2.57
582 584 5.582550 TGAGCTACTCTACGTGATCAAATG 58.417 41.667 0.00 0.00 0.00 2.32
583 585 5.836821 TGAGCTACTCTACGTGATCAAAT 57.163 39.130 0.00 0.00 0.00 2.32
584 586 5.125578 ACATGAGCTACTCTACGTGATCAAA 59.874 40.000 0.00 0.00 0.00 2.69
585 587 4.640647 ACATGAGCTACTCTACGTGATCAA 59.359 41.667 0.00 0.00 0.00 2.57
586 588 4.200092 ACATGAGCTACTCTACGTGATCA 58.800 43.478 0.00 0.00 0.00 2.92
587 589 4.822036 ACATGAGCTACTCTACGTGATC 57.178 45.455 0.00 0.00 0.00 2.92
588 590 4.734989 GCAACATGAGCTACTCTACGTGAT 60.735 45.833 0.00 0.00 0.00 3.06
589 591 3.427638 GCAACATGAGCTACTCTACGTGA 60.428 47.826 0.00 0.00 0.00 4.35
590 592 2.854777 GCAACATGAGCTACTCTACGTG 59.145 50.000 0.00 0.00 0.00 4.49
591 593 2.492088 TGCAACATGAGCTACTCTACGT 59.508 45.455 14.16 0.00 0.00 3.57
592 594 3.150848 TGCAACATGAGCTACTCTACG 57.849 47.619 14.16 0.00 0.00 3.51
593 595 4.437239 ACATGCAACATGAGCTACTCTAC 58.563 43.478 14.17 0.00 0.00 2.59
594 596 4.743057 ACATGCAACATGAGCTACTCTA 57.257 40.909 14.17 0.00 0.00 2.43
595 597 3.623906 ACATGCAACATGAGCTACTCT 57.376 42.857 14.17 0.00 0.00 3.24
596 598 7.664082 AATATACATGCAACATGAGCTACTC 57.336 36.000 14.17 0.00 0.00 2.59
597 599 9.159364 CATAATATACATGCAACATGAGCTACT 57.841 33.333 14.17 0.00 0.00 2.57
598 600 9.154847 TCATAATATACATGCAACATGAGCTAC 57.845 33.333 14.17 0.00 0.00 3.58
599 601 9.723601 TTCATAATATACATGCAACATGAGCTA 57.276 29.630 14.17 3.52 0.00 3.32
600 602 8.625786 TTCATAATATACATGCAACATGAGCT 57.374 30.769 14.17 0.00 0.00 4.09
613 615 9.703677 TCCGACACCCTATATTCATAATATACA 57.296 33.333 0.00 0.00 35.72 2.29
618 620 9.434275 TCATATCCGACACCCTATATTCATAAT 57.566 33.333 0.00 0.00 0.00 1.28
619 621 8.832458 TCATATCCGACACCCTATATTCATAA 57.168 34.615 0.00 0.00 0.00 1.90
620 622 8.279361 TCTCATATCCGACACCCTATATTCATA 58.721 37.037 0.00 0.00 0.00 2.15
621 623 7.126061 TCTCATATCCGACACCCTATATTCAT 58.874 38.462 0.00 0.00 0.00 2.57
622 624 6.490492 TCTCATATCCGACACCCTATATTCA 58.510 40.000 0.00 0.00 0.00 2.57
623 625 7.589958 ATCTCATATCCGACACCCTATATTC 57.410 40.000 0.00 0.00 0.00 1.75
624 626 9.083422 CATATCTCATATCCGACACCCTATATT 57.917 37.037 0.00 0.00 0.00 1.28
625 627 8.448816 TCATATCTCATATCCGACACCCTATAT 58.551 37.037 0.00 0.00 0.00 0.86
626 628 7.720074 GTCATATCTCATATCCGACACCCTATA 59.280 40.741 0.00 0.00 0.00 1.31
627 629 6.547880 GTCATATCTCATATCCGACACCCTAT 59.452 42.308 0.00 0.00 0.00 2.57
628 630 5.886474 GTCATATCTCATATCCGACACCCTA 59.114 44.000 0.00 0.00 0.00 3.53
629 631 4.707448 GTCATATCTCATATCCGACACCCT 59.293 45.833 0.00 0.00 0.00 4.34
630 632 4.707448 AGTCATATCTCATATCCGACACCC 59.293 45.833 0.00 0.00 0.00 4.61
631 633 5.906113 AGTCATATCTCATATCCGACACC 57.094 43.478 0.00 0.00 0.00 4.16
632 634 8.594881 AAAAAGTCATATCTCATATCCGACAC 57.405 34.615 0.00 0.00 0.00 3.67
662 664 7.899747 GGAATTTTTCCCTGCCAGATAAATCTG 60.900 40.741 12.19 12.19 46.79 2.90
663 665 6.098838 GGAATTTTTCCCTGCCAGATAAATCT 59.901 38.462 0.00 0.00 44.30 2.40
664 666 6.283694 GGAATTTTTCCCTGCCAGATAAATC 58.716 40.000 0.00 0.00 44.30 2.17
665 667 6.239217 GGAATTTTTCCCTGCCAGATAAAT 57.761 37.500 0.00 0.00 44.30 1.40
666 668 5.675684 GGAATTTTTCCCTGCCAGATAAA 57.324 39.130 0.00 0.00 44.30 1.40
1646 1690 0.543749 GCCACTGATAGCCTCCAACT 59.456 55.000 0.00 0.00 0.00 3.16
2068 2167 0.100503 GGCACGCCAATATCACCAAC 59.899 55.000 2.36 0.00 35.81 3.77
2137 2236 4.116328 CTCGAGCAAGGACCGCGA 62.116 66.667 8.23 0.00 33.67 5.87
2160 2259 4.209538 CCCCTTCAATCTGCACATGAATA 58.790 43.478 0.00 0.00 33.03 1.75
2573 2737 0.895530 CGGACTAGCACTCAAGGGAA 59.104 55.000 0.00 0.00 0.00 3.97
2669 2843 1.273886 AGAAGAAGAGAGTTGGTCCGC 59.726 52.381 0.00 0.00 0.00 5.54
2738 2912 7.014518 CCTCTCCACATCCTCATATCTCATATC 59.985 44.444 0.00 0.00 0.00 1.63
2739 2913 6.840181 CCTCTCCACATCCTCATATCTCATAT 59.160 42.308 0.00 0.00 0.00 1.78
2740 2914 6.193504 CCTCTCCACATCCTCATATCTCATA 58.806 44.000 0.00 0.00 0.00 2.15
2744 2918 3.404081 TCCCTCTCCACATCCTCATATCT 59.596 47.826 0.00 0.00 0.00 1.98
2745 2919 3.784178 TCCCTCTCCACATCCTCATATC 58.216 50.000 0.00 0.00 0.00 1.63
2746 2920 3.931241 TCCCTCTCCACATCCTCATAT 57.069 47.619 0.00 0.00 0.00 1.78
2747 2921 3.706389 TTCCCTCTCCACATCCTCATA 57.294 47.619 0.00 0.00 0.00 2.15
2748 2922 2.575921 TTCCCTCTCCACATCCTCAT 57.424 50.000 0.00 0.00 0.00 2.90
2749 2923 2.342406 TTTCCCTCTCCACATCCTCA 57.658 50.000 0.00 0.00 0.00 3.86
2751 2925 4.570926 TCATATTTCCCTCTCCACATCCT 58.429 43.478 0.00 0.00 0.00 3.24
2753 2927 4.349342 ACCTCATATTTCCCTCTCCACATC 59.651 45.833 0.00 0.00 0.00 3.06
2754 2928 4.103785 CACCTCATATTTCCCTCTCCACAT 59.896 45.833 0.00 0.00 0.00 3.21
2755 2929 3.455910 CACCTCATATTTCCCTCTCCACA 59.544 47.826 0.00 0.00 0.00 4.17
2756 2930 3.456277 ACACCTCATATTTCCCTCTCCAC 59.544 47.826 0.00 0.00 0.00 4.02
2757 2931 3.455910 CACACCTCATATTTCCCTCTCCA 59.544 47.826 0.00 0.00 0.00 3.86
2758 2932 3.456277 ACACACCTCATATTTCCCTCTCC 59.544 47.826 0.00 0.00 0.00 3.71
2759 2933 4.762289 ACACACCTCATATTTCCCTCTC 57.238 45.455 0.00 0.00 0.00 3.20
2760 2934 5.501156 GAAACACACCTCATATTTCCCTCT 58.499 41.667 0.00 0.00 0.00 3.69
2761 2935 4.332819 CGAAACACACCTCATATTTCCCTC 59.667 45.833 0.00 0.00 0.00 4.30
2762 2936 4.261801 CGAAACACACCTCATATTTCCCT 58.738 43.478 0.00 0.00 0.00 4.20
2763 2937 4.007659 ACGAAACACACCTCATATTTCCC 58.992 43.478 0.00 0.00 0.00 3.97
2764 2938 4.693566 TGACGAAACACACCTCATATTTCC 59.306 41.667 0.00 0.00 0.00 3.13
2765 2939 5.856126 TGACGAAACACACCTCATATTTC 57.144 39.130 0.00 0.00 0.00 2.17
2766 2940 6.611381 CATTGACGAAACACACCTCATATTT 58.389 36.000 0.00 0.00 0.00 1.40
2767 2941 5.391950 GCATTGACGAAACACACCTCATATT 60.392 40.000 0.00 0.00 0.00 1.28
2768 2942 4.094887 GCATTGACGAAACACACCTCATAT 59.905 41.667 0.00 0.00 0.00 1.78
2769 2943 3.435327 GCATTGACGAAACACACCTCATA 59.565 43.478 0.00 0.00 0.00 2.15
2770 2944 2.226437 GCATTGACGAAACACACCTCAT 59.774 45.455 0.00 0.00 0.00 2.90
2771 2945 1.601903 GCATTGACGAAACACACCTCA 59.398 47.619 0.00 0.00 0.00 3.86
2772 2946 1.873591 AGCATTGACGAAACACACCTC 59.126 47.619 0.00 0.00 0.00 3.85
2773 2947 1.873591 GAGCATTGACGAAACACACCT 59.126 47.619 0.00 0.00 0.00 4.00
2774 2948 1.398451 CGAGCATTGACGAAACACACC 60.398 52.381 0.00 0.00 0.00 4.16
2775 2949 1.937359 CGAGCATTGACGAAACACAC 58.063 50.000 0.00 0.00 0.00 3.82
2776 2950 0.234625 GCGAGCATTGACGAAACACA 59.765 50.000 7.62 0.00 0.00 3.72
2777 2951 0.785708 CGCGAGCATTGACGAAACAC 60.786 55.000 0.00 0.00 0.00 3.32
2778 2952 1.491127 CGCGAGCATTGACGAAACA 59.509 52.632 0.00 0.00 0.00 2.83
2779 2953 1.225745 CCGCGAGCATTGACGAAAC 60.226 57.895 8.23 0.00 0.00 2.78
2780 2954 1.373622 TCCGCGAGCATTGACGAAA 60.374 52.632 8.23 0.00 0.00 3.46
2781 2955 2.092291 GTCCGCGAGCATTGACGAA 61.092 57.895 8.23 0.00 0.00 3.85
2782 2956 2.506217 GTCCGCGAGCATTGACGA 60.506 61.111 8.23 0.00 0.00 4.20
2783 2957 2.167219 ATGTCCGCGAGCATTGACG 61.167 57.895 8.23 0.00 0.00 4.35
2784 2958 1.349627 CATGTCCGCGAGCATTGAC 59.650 57.895 8.23 5.74 0.00 3.18
2785 2959 0.673333 AACATGTCCGCGAGCATTGA 60.673 50.000 8.23 0.00 0.00 2.57
2786 2960 0.168788 AAACATGTCCGCGAGCATTG 59.831 50.000 8.23 8.82 0.00 2.82
2787 2961 0.168788 CAAACATGTCCGCGAGCATT 59.831 50.000 8.23 0.00 0.00 3.56
2788 2962 0.673333 TCAAACATGTCCGCGAGCAT 60.673 50.000 8.23 8.77 0.00 3.79
2789 2963 1.291184 CTCAAACATGTCCGCGAGCA 61.291 55.000 8.23 6.32 0.00 4.26
2790 2964 1.014044 TCTCAAACATGTCCGCGAGC 61.014 55.000 8.23 0.00 0.00 5.03
2791 2965 0.994995 CTCTCAAACATGTCCGCGAG 59.005 55.000 8.23 3.20 0.00 5.03
2792 2966 0.389817 CCTCTCAAACATGTCCGCGA 60.390 55.000 8.23 0.00 0.00 5.87
2793 2967 1.970917 GCCTCTCAAACATGTCCGCG 61.971 60.000 0.00 0.00 0.00 6.46
2794 2968 1.648467 GGCCTCTCAAACATGTCCGC 61.648 60.000 0.00 0.00 0.00 5.54
2795 2969 1.361668 CGGCCTCTCAAACATGTCCG 61.362 60.000 0.00 0.75 0.00 4.79
2796 2970 0.036388 TCGGCCTCTCAAACATGTCC 60.036 55.000 0.00 0.00 0.00 4.02
2797 2971 1.808411 TTCGGCCTCTCAAACATGTC 58.192 50.000 0.00 0.00 0.00 3.06
2798 2972 2.496899 ATTCGGCCTCTCAAACATGT 57.503 45.000 0.00 0.00 0.00 3.21
2799 2973 3.242870 GCTAATTCGGCCTCTCAAACATG 60.243 47.826 0.00 0.00 0.00 3.21
2800 2974 2.945668 GCTAATTCGGCCTCTCAAACAT 59.054 45.455 0.00 0.00 0.00 2.71
2801 2975 2.290008 TGCTAATTCGGCCTCTCAAACA 60.290 45.455 0.00 0.00 0.00 2.83
2802 2976 2.096013 GTGCTAATTCGGCCTCTCAAAC 59.904 50.000 0.00 0.00 0.00 2.93
2803 2977 2.356135 GTGCTAATTCGGCCTCTCAAA 58.644 47.619 0.00 0.00 0.00 2.69
2804 2978 1.406887 GGTGCTAATTCGGCCTCTCAA 60.407 52.381 0.00 0.00 0.00 3.02
2805 2979 0.178068 GGTGCTAATTCGGCCTCTCA 59.822 55.000 0.00 0.00 0.00 3.27
2806 2980 0.466124 AGGTGCTAATTCGGCCTCTC 59.534 55.000 0.00 0.00 0.00 3.20
2807 2981 0.466124 GAGGTGCTAATTCGGCCTCT 59.534 55.000 0.00 4.21 41.68 3.69
2808 2982 0.876342 CGAGGTGCTAATTCGGCCTC 60.876 60.000 0.00 0.00 41.55 4.70
2809 2983 1.144057 CGAGGTGCTAATTCGGCCT 59.856 57.895 0.00 0.00 0.00 5.19
2810 2984 2.534903 GCGAGGTGCTAATTCGGCC 61.535 63.158 0.00 0.00 41.73 6.13
2811 2985 2.871427 CGCGAGGTGCTAATTCGGC 61.871 63.158 0.00 0.00 43.27 5.54
2812 2986 1.226859 TCGCGAGGTGCTAATTCGG 60.227 57.895 3.71 0.00 43.27 4.30
2813 2987 0.525668 AGTCGCGAGGTGCTAATTCG 60.526 55.000 10.24 0.00 43.27 3.34
2814 2988 0.924090 CAGTCGCGAGGTGCTAATTC 59.076 55.000 10.24 0.00 43.27 2.17
2815 2989 0.246635 ACAGTCGCGAGGTGCTAATT 59.753 50.000 10.24 0.00 43.27 1.40
2816 2990 1.065701 CTACAGTCGCGAGGTGCTAAT 59.934 52.381 20.20 5.00 43.27 1.73
2817 2991 0.450583 CTACAGTCGCGAGGTGCTAA 59.549 55.000 20.20 6.19 43.27 3.09
2818 2992 0.392060 TCTACAGTCGCGAGGTGCTA 60.392 55.000 20.20 10.45 43.27 3.49
2819 2993 1.032657 ATCTACAGTCGCGAGGTGCT 61.033 55.000 20.20 7.33 43.27 4.40
2820 2994 0.867753 CATCTACAGTCGCGAGGTGC 60.868 60.000 20.20 5.04 41.47 5.01
2821 2995 0.867753 GCATCTACAGTCGCGAGGTG 60.868 60.000 20.20 17.76 0.00 4.00
2824 2998 3.156401 GAGCATCTACAGTCGCGAG 57.844 57.895 10.24 0.00 0.00 5.03
2920 3094 7.424001 AGACTAGTCACCGTTATTATTACTGC 58.576 38.462 24.44 0.00 0.00 4.40
2933 3107 6.446781 TTGGTTTAGATAGACTAGTCACCG 57.553 41.667 24.44 0.00 33.68 4.94
2997 3171 1.608822 GAAACGCACACAAAACACGT 58.391 45.000 0.00 0.00 38.88 4.49
2998 3172 0.559342 CGAAACGCACACAAAACACG 59.441 50.000 0.00 0.00 0.00 4.49
3027 3204 0.958091 CTCCTTCTGATCGATCGGCT 59.042 55.000 26.42 2.70 33.18 5.52
3151 3376 2.262915 CGTGTGGAGAGGCTGTCC 59.737 66.667 23.11 23.11 34.31 4.02
3159 3384 0.318699 CGTGAAGAAGCGTGTGGAGA 60.319 55.000 0.00 0.00 0.00 3.71
3246 3473 5.163405 TGGCTTCTCTGAACCTGTATATGTC 60.163 44.000 0.00 0.00 0.00 3.06
3322 3549 2.092681 CACGTGTGATGTGATGTACTGC 59.907 50.000 7.58 0.00 37.29 4.40


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

AutoCloner maintained by Alex Coulton.