Multiple sequence alignment - TraesCS2D01G510800

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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 TraesCS2D01G510800 chr2D 100.000 2303 0 0 1 2303 602637087 602634785 0.000000e+00 4253.0
1 TraesCS2D01G510800 chr2B 88.421 760 52 16 781 1525 732840032 732839294 0.000000e+00 883.0
2 TraesCS2D01G510800 chr2B 87.313 670 57 14 1 646 732840812 732840147 0.000000e+00 741.0
3 TraesCS2D01G510800 chr2B 96.032 126 4 1 642 767 26591442 26591566 1.080000e-48 204.0
4 TraesCS2D01G510800 chr5A 89.550 689 63 5 1620 2303 325200385 325201069 0.000000e+00 865.0
5 TraesCS2D01G510800 chr1D 89.870 691 42 14 1632 2303 404763726 404763045 0.000000e+00 863.0
6 TraesCS2D01G510800 chr1D 92.424 132 8 2 629 759 12243839 12243709 1.090000e-43 187.0
7 TraesCS2D01G510800 chr4B 88.047 686 54 9 1623 2303 81009752 81010414 0.000000e+00 787.0
8 TraesCS2D01G510800 chr4B 93.798 129 7 1 636 763 626735592 626735720 2.330000e-45 193.0
9 TraesCS2D01G510800 chr2A 91.681 565 43 2 781 1344 735090638 735090077 0.000000e+00 780.0
10 TraesCS2D01G510800 chr2A 85.097 671 73 9 1634 2302 741738429 741739074 0.000000e+00 660.0
11 TraesCS2D01G510800 chr2A 85.366 451 47 6 1855 2303 353507252 353507685 1.250000e-122 449.0
12 TraesCS2D01G510800 chr4A 85.714 700 71 17 1611 2303 645238935 645238258 0.000000e+00 712.0
13 TraesCS2D01G510800 chr4A 86.222 675 66 14 1634 2303 645291355 645290703 0.000000e+00 706.0
14 TraesCS2D01G510800 chr4A 83.650 685 74 18 1620 2302 493827998 493828646 5.440000e-171 610.0
15 TraesCS2D01G510800 chr4A 93.023 129 9 0 640 768 687422551 687422423 3.020000e-44 189.0
16 TraesCS2D01G510800 chr3D 85.153 687 73 8 1620 2303 399860076 399860736 0.000000e+00 676.0
17 TraesCS2D01G510800 chr3D 85.075 67 6 3 1538 1602 399860016 399860080 5.310000e-07 65.8
18 TraesCS2D01G510800 chr3D 96.970 33 1 0 1535 1567 587378051 587378019 3.200000e-04 56.5
19 TraesCS2D01G510800 chr7A 85.081 677 75 9 1628 2302 242090953 242090301 0.000000e+00 667.0
20 TraesCS2D01G510800 chr7A 87.143 70 7 2 1536 1604 654249686 654249618 6.820000e-11 78.7
21 TraesCS2D01G510800 chr7A 90.698 43 3 1 1527 1569 729393292 729393333 3.200000e-04 56.5
22 TraesCS2D01G510800 chr6B 85.812 585 54 11 1611 2188 62005875 62006437 5.480000e-166 593.0
23 TraesCS2D01G510800 chr6B 93.023 129 9 0 642 770 179700417 179700545 3.020000e-44 189.0
24 TraesCS2D01G510800 chr6B 81.176 85 11 4 1523 1604 644044847 644044765 1.910000e-06 63.9
25 TraesCS2D01G510800 chr3A 87.112 419 46 7 1890 2303 726011239 726011654 3.460000e-128 468.0
26 TraesCS2D01G510800 chr3A 94.488 127 7 0 636 762 686185449 686185575 1.810000e-46 196.0
27 TraesCS2D01G510800 chr3A 87.059 170 21 1 2135 2303 721511182 721511013 8.400000e-45 191.0
28 TraesCS2D01G510800 chr3B 80.763 629 71 16 1628 2253 132518164 132517583 1.620000e-121 446.0
29 TraesCS2D01G510800 chr5B 88.563 341 29 8 1620 1957 477467064 477467397 2.760000e-109 405.0
30 TraesCS2D01G510800 chr5B 85.928 334 32 7 1624 1953 644840950 644840628 2.190000e-90 342.0
31 TraesCS2D01G510800 chr5B 91.304 69 2 2 1538 1604 477467004 477467070 8.760000e-15 91.6
32 TraesCS2D01G510800 chr5B 97.059 34 0 1 1537 1569 523190376 523190343 3.200000e-04 56.5
33 TraesCS2D01G510800 chr5B 100.000 29 0 0 1536 1564 686538182 686538210 1.000000e-03 54.7
34 TraesCS2D01G510800 chr1B 86.982 338 33 6 1620 1953 417007282 417007612 1.010000e-98 370.0
35 TraesCS2D01G510800 chr5D 79.482 502 54 30 1626 2117 364230677 364230215 6.180000e-81 311.0
36 TraesCS2D01G510800 chr5D 93.077 130 8 1 637 765 384339723 384339594 3.020000e-44 189.0
37 TraesCS2D01G510800 chr1A 76.048 501 77 23 1623 2111 393396288 393396757 1.070000e-53 220.0
38 TraesCS2D01G510800 chr1A 100.000 28 0 0 1537 1564 449503733 449503760 4.000000e-03 52.8
39 TraesCS2D01G510800 chr6D 98.305 118 2 0 643 760 4510921 4511038 8.340000e-50 207.0
40 TraesCS2D01G510800 chr4D 98.305 118 2 0 642 759 389210233 389210116 8.340000e-50 207.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G510800 chr2D 602634785 602637087 2302 True 4253.0 4253 100.000 1 2303 1 chr2D.!!$R1 2302
1 TraesCS2D01G510800 chr2B 732839294 732840812 1518 True 812.0 883 87.867 1 1525 2 chr2B.!!$R1 1524
2 TraesCS2D01G510800 chr5A 325200385 325201069 684 False 865.0 865 89.550 1620 2303 1 chr5A.!!$F1 683
3 TraesCS2D01G510800 chr1D 404763045 404763726 681 True 863.0 863 89.870 1632 2303 1 chr1D.!!$R2 671
4 TraesCS2D01G510800 chr4B 81009752 81010414 662 False 787.0 787 88.047 1623 2303 1 chr4B.!!$F1 680
5 TraesCS2D01G510800 chr2A 735090077 735090638 561 True 780.0 780 91.681 781 1344 1 chr2A.!!$R1 563
6 TraesCS2D01G510800 chr2A 741738429 741739074 645 False 660.0 660 85.097 1634 2302 1 chr2A.!!$F2 668
7 TraesCS2D01G510800 chr4A 645238258 645238935 677 True 712.0 712 85.714 1611 2303 1 chr4A.!!$R1 692
8 TraesCS2D01G510800 chr4A 645290703 645291355 652 True 706.0 706 86.222 1634 2303 1 chr4A.!!$R2 669
9 TraesCS2D01G510800 chr4A 493827998 493828646 648 False 610.0 610 83.650 1620 2302 1 chr4A.!!$F1 682
10 TraesCS2D01G510800 chr3D 399860016 399860736 720 False 370.9 676 85.114 1538 2303 2 chr3D.!!$F1 765
11 TraesCS2D01G510800 chr7A 242090301 242090953 652 True 667.0 667 85.081 1628 2302 1 chr7A.!!$R1 674
12 TraesCS2D01G510800 chr6B 62005875 62006437 562 False 593.0 593 85.812 1611 2188 1 chr6B.!!$F1 577
13 TraesCS2D01G510800 chr3B 132517583 132518164 581 True 446.0 446 80.763 1628 2253 1 chr3B.!!$R1 625

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
661 686 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.0 5.23 0.0 44.66 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2180 2359 0.883833 ACCTCGCTCTTTTGCAATGG 59.116 50.0 0.0 0.0 0.0 3.16 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
90 95 5.904362 AACTGAATGAGGAAAACTATGGC 57.096 39.130 0.00 0.00 0.00 4.40
105 111 0.398696 ATGGCTGTGGGTGTTACGAA 59.601 50.000 0.00 0.00 0.00 3.85
108 114 0.953960 GCTGTGGGTGTTACGAAGGG 60.954 60.000 0.00 0.00 0.00 3.95
134 141 9.331282 GCTACTTGAGATTTAGACATACCAAAT 57.669 33.333 0.00 0.00 0.00 2.32
214 223 6.198650 TGACAAAGATGCATCATTACCAAG 57.801 37.500 27.81 12.45 0.00 3.61
222 231 4.558178 TGCATCATTACCAAGTGCTTTTG 58.442 39.130 0.00 0.00 36.78 2.44
227 236 6.900568 TCATTACCAAGTGCTTTTGTTTTG 57.099 33.333 0.00 0.00 0.00 2.44
251 260 2.735134 GAGTGTAACACTAGGCAAACCG 59.265 50.000 0.00 0.00 45.44 4.44
256 265 1.080093 CACTAGGCAAACCGCGAGA 60.080 57.895 8.23 0.00 43.84 4.04
267 276 0.945813 ACCGCGAGACTATCTAGTGC 59.054 55.000 8.23 0.00 36.50 4.40
275 284 5.050702 GCGAGACTATCTAGTGCCATTTTTC 60.051 44.000 0.00 0.00 36.50 2.29
281 290 2.487762 TCTAGTGCCATTTTTCGCCAAG 59.512 45.455 0.00 0.00 0.00 3.61
310 319 2.548057 TCAAAAGCACTCGACAATGACC 59.452 45.455 0.00 0.00 0.00 4.02
319 328 1.539388 TCGACAATGACCATGTTTGCC 59.461 47.619 0.00 0.00 0.00 4.52
327 336 1.184322 ACCATGTTTGCCGAATGCCA 61.184 50.000 0.00 0.00 40.16 4.92
368 377 2.045524 TGGCAAAGAAGCATTTTCCCA 58.954 42.857 0.00 0.00 35.83 4.37
371 380 4.081531 TGGCAAAGAAGCATTTTCCCATAG 60.082 41.667 0.00 0.00 35.83 2.23
373 382 4.866486 GCAAAGAAGCATTTTCCCATAGTG 59.134 41.667 0.00 0.00 0.00 2.74
411 420 8.773645 CAATACGTATCTTGCATTTTCCATCTA 58.226 33.333 8.86 0.00 0.00 1.98
426 435 3.533907 TCCATCTACCCCTCTCTTTCTCT 59.466 47.826 0.00 0.00 0.00 3.10
437 446 6.369629 CCCTCTCTTTCTCTCAATCTAGGTA 58.630 44.000 0.00 0.00 0.00 3.08
438 447 7.010160 CCCTCTCTTTCTCTCAATCTAGGTAT 58.990 42.308 0.00 0.00 0.00 2.73
451 460 9.250624 CTCAATCTAGGTATTCCTAAAAGAACG 57.749 37.037 0.00 0.00 44.63 3.95
452 461 8.974238 TCAATCTAGGTATTCCTAAAAGAACGA 58.026 33.333 0.00 0.00 44.63 3.85
453 462 9.250624 CAATCTAGGTATTCCTAAAAGAACGAG 57.749 37.037 0.00 0.00 44.63 4.18
471 480 6.929606 AGAACGAGGTAGAAACATATAATGCC 59.070 38.462 0.00 0.00 0.00 4.40
496 506 0.706433 AAAGGATGCCCATGTGGACT 59.294 50.000 0.00 0.00 37.39 3.85
498 508 0.257039 AGGATGCCCATGTGGACTTC 59.743 55.000 0.00 0.00 37.39 3.01
499 509 0.034186 GGATGCCCATGTGGACTTCA 60.034 55.000 0.00 0.00 37.39 3.02
505 515 1.352352 CCCATGTGGACTTCAAGGTCT 59.648 52.381 0.00 0.00 37.39 3.85
517 527 5.990668 ACTTCAAGGTCTTGTCTTTGTACT 58.009 37.500 10.10 0.00 41.16 2.73
522 532 3.808174 AGGTCTTGTCTTTGTACTTTCGC 59.192 43.478 0.00 0.00 0.00 4.70
527 537 5.583061 TCTTGTCTTTGTACTTTCGCTGAAA 59.417 36.000 0.00 4.19 0.00 2.69
531 541 6.910433 TGTCTTTGTACTTTCGCTGAAATTTC 59.090 34.615 11.41 11.41 30.85 2.17
580 590 5.059404 AGAAAATTGTAGCCAACCAATCG 57.941 39.130 0.00 0.00 32.26 3.34
586 596 7.633193 AATTGTAGCCAACCAATCGTAATTA 57.367 32.000 0.00 0.00 32.26 1.40
617 642 8.162878 ACTAGTCATCAATCTAATTTGGCATG 57.837 34.615 0.00 0.00 0.00 4.06
638 663 6.040842 GCATGGTATAATGTCAGGGTCAAAAT 59.959 38.462 0.00 0.00 0.00 1.82
643 668 7.558444 GGTATAATGTCAGGGTCAAAATTGGTA 59.442 37.037 0.00 0.00 0.00 3.25
644 669 5.722021 AATGTCAGGGTCAAAATTGGTAC 57.278 39.130 0.00 0.00 0.00 3.34
645 670 4.447138 TGTCAGGGTCAAAATTGGTACT 57.553 40.909 0.00 0.00 0.00 2.73
646 671 4.394729 TGTCAGGGTCAAAATTGGTACTC 58.605 43.478 0.00 0.00 0.00 2.59
647 672 3.756963 GTCAGGGTCAAAATTGGTACTCC 59.243 47.826 0.00 0.00 0.00 3.85
648 673 3.089284 CAGGGTCAAAATTGGTACTCCC 58.911 50.000 0.00 0.00 0.00 4.30
649 674 2.993863 AGGGTCAAAATTGGTACTCCCT 59.006 45.455 0.00 0.00 39.11 4.20
650 675 3.010250 AGGGTCAAAATTGGTACTCCCTC 59.990 47.826 0.00 0.00 39.68 4.30
651 676 3.353557 GGTCAAAATTGGTACTCCCTCC 58.646 50.000 0.00 0.00 0.00 4.30
652 677 3.007635 GTCAAAATTGGTACTCCCTCCG 58.992 50.000 0.00 0.00 0.00 4.63
653 678 2.640826 TCAAAATTGGTACTCCCTCCGT 59.359 45.455 0.00 0.00 0.00 4.69
654 679 3.007635 CAAAATTGGTACTCCCTCCGTC 58.992 50.000 0.00 0.00 0.00 4.79
655 680 1.201424 AATTGGTACTCCCTCCGTCC 58.799 55.000 0.00 0.00 0.00 4.79
656 681 1.041447 ATTGGTACTCCCTCCGTCCG 61.041 60.000 0.00 0.00 0.00 4.79
657 682 2.832201 GGTACTCCCTCCGTCCGG 60.832 72.222 0.00 0.00 0.00 5.14
658 683 2.273449 GTACTCCCTCCGTCCGGA 59.727 66.667 0.00 0.00 42.90 5.14
659 684 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
660 685 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
661 686 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
662 687 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
663 688 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
664 689 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
665 690 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
666 691 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
667 692 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
668 693 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
669 694 1.135315 TCCGTCCGGAAATACTTGTCG 60.135 52.381 5.23 1.25 42.05 4.35
670 695 1.274596 CGTCCGGAAATACTTGTCGG 58.725 55.000 5.23 0.00 41.80 4.79
671 696 1.135315 CGTCCGGAAATACTTGTCGGA 60.135 52.381 5.23 0.00 46.06 4.55
673 698 3.681593 TCCGGAAATACTTGTCGGAAA 57.318 42.857 0.00 0.00 45.40 3.13
674 699 4.005487 TCCGGAAATACTTGTCGGAAAA 57.995 40.909 0.00 0.00 45.40 2.29
675 700 4.387598 TCCGGAAATACTTGTCGGAAAAA 58.612 39.130 0.00 0.00 45.40 1.94
676 701 5.005094 TCCGGAAATACTTGTCGGAAAAAT 58.995 37.500 0.00 0.00 45.40 1.82
677 702 5.092781 CCGGAAATACTTGTCGGAAAAATG 58.907 41.667 0.00 0.00 42.94 2.32
678 703 5.092781 CGGAAATACTTGTCGGAAAAATGG 58.907 41.667 0.00 0.00 0.00 3.16
679 704 5.106475 CGGAAATACTTGTCGGAAAAATGGA 60.106 40.000 0.00 0.00 0.00 3.41
680 705 6.404293 CGGAAATACTTGTCGGAAAAATGGAT 60.404 38.462 0.00 0.00 0.00 3.41
681 706 7.201661 CGGAAATACTTGTCGGAAAAATGGATA 60.202 37.037 0.00 0.00 0.00 2.59
682 707 8.463607 GGAAATACTTGTCGGAAAAATGGATAA 58.536 33.333 0.00 0.00 0.00 1.75
683 708 9.849166 GAAATACTTGTCGGAAAAATGGATAAA 57.151 29.630 0.00 0.00 0.00 1.40
687 712 8.532977 ACTTGTCGGAAAAATGGATAAAAATG 57.467 30.769 0.00 0.00 0.00 2.32
688 713 8.364142 ACTTGTCGGAAAAATGGATAAAAATGA 58.636 29.630 0.00 0.00 0.00 2.57
689 714 9.202273 CTTGTCGGAAAAATGGATAAAAATGAA 57.798 29.630 0.00 0.00 0.00 2.57
690 715 9.717942 TTGTCGGAAAAATGGATAAAAATGAAT 57.282 25.926 0.00 0.00 0.00 2.57
691 716 9.149225 TGTCGGAAAAATGGATAAAAATGAATG 57.851 29.630 0.00 0.00 0.00 2.67
692 717 9.150348 GTCGGAAAAATGGATAAAAATGAATGT 57.850 29.630 0.00 0.00 0.00 2.71
723 748 9.591792 AAAACTAAAATACGTCTAGATACACCC 57.408 33.333 0.00 0.00 0.00 4.61
724 749 7.886629 ACTAAAATACGTCTAGATACACCCA 57.113 36.000 0.00 0.00 0.00 4.51
725 750 8.474710 ACTAAAATACGTCTAGATACACCCAT 57.525 34.615 0.00 0.00 0.00 4.00
726 751 8.921205 ACTAAAATACGTCTAGATACACCCATT 58.079 33.333 0.00 0.00 0.00 3.16
727 752 9.408069 CTAAAATACGTCTAGATACACCCATTC 57.592 37.037 0.00 0.00 0.00 2.67
728 753 5.979288 ATACGTCTAGATACACCCATTCC 57.021 43.478 0.00 0.00 0.00 3.01
729 754 3.912248 ACGTCTAGATACACCCATTCCT 58.088 45.455 0.00 0.00 0.00 3.36
730 755 3.890147 ACGTCTAGATACACCCATTCCTC 59.110 47.826 0.00 0.00 0.00 3.71
731 756 3.256136 CGTCTAGATACACCCATTCCTCC 59.744 52.174 0.00 0.00 0.00 4.30
732 757 3.256136 GTCTAGATACACCCATTCCTCCG 59.744 52.174 0.00 0.00 0.00 4.63
733 758 2.471815 AGATACACCCATTCCTCCGA 57.528 50.000 0.00 0.00 0.00 4.55
734 759 2.040178 AGATACACCCATTCCTCCGAC 58.960 52.381 0.00 0.00 0.00 4.79
735 760 1.760613 GATACACCCATTCCTCCGACA 59.239 52.381 0.00 0.00 0.00 4.35
736 761 1.646912 TACACCCATTCCTCCGACAA 58.353 50.000 0.00 0.00 0.00 3.18
737 762 0.324943 ACACCCATTCCTCCGACAAG 59.675 55.000 0.00 0.00 0.00 3.16
738 763 0.324943 CACCCATTCCTCCGACAAGT 59.675 55.000 0.00 0.00 0.00 3.16
739 764 1.553248 CACCCATTCCTCCGACAAGTA 59.447 52.381 0.00 0.00 0.00 2.24
740 765 2.170607 CACCCATTCCTCCGACAAGTAT 59.829 50.000 0.00 0.00 0.00 2.12
741 766 2.844348 ACCCATTCCTCCGACAAGTATT 59.156 45.455 0.00 0.00 0.00 1.89
742 767 3.265995 ACCCATTCCTCCGACAAGTATTT 59.734 43.478 0.00 0.00 0.00 1.40
743 768 4.263771 ACCCATTCCTCCGACAAGTATTTT 60.264 41.667 0.00 0.00 0.00 1.82
744 769 4.335594 CCCATTCCTCCGACAAGTATTTTC 59.664 45.833 0.00 0.00 0.00 2.29
745 770 4.034048 CCATTCCTCCGACAAGTATTTTCG 59.966 45.833 0.00 0.00 0.00 3.46
751 776 2.598589 CGACAAGTATTTTCGGACGGA 58.401 47.619 0.00 0.00 0.00 4.69
752 777 2.597305 CGACAAGTATTTTCGGACGGAG 59.403 50.000 0.00 0.00 0.00 4.63
753 778 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
754 779 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
755 780 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
756 781 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
757 782 1.479730 GTATTTTCGGACGGAGGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
765 790 3.328931 TCGGACGGAGGGAGTACTATATT 59.671 47.826 0.00 0.00 0.00 1.28
767 792 4.874966 CGGACGGAGGGAGTACTATATTAG 59.125 50.000 0.00 0.00 0.00 1.73
776 801 9.917887 GAGGGAGTACTATATTAGTAGCCAATA 57.082 37.037 0.00 0.00 41.59 1.90
904 1025 3.830192 GCAAATGCCTCGGCCCTG 61.830 66.667 5.33 1.41 41.09 4.45
986 1109 3.402628 TGTGTTTAGAGAGGAGTTGCC 57.597 47.619 0.00 0.00 0.00 4.52
989 1112 2.367567 TGTTTAGAGAGGAGTTGCCGTT 59.632 45.455 0.00 0.00 43.43 4.44
992 1115 0.759346 AGAGAGGAGTTGCCGTTGTT 59.241 50.000 0.00 0.00 43.43 2.83
999 1122 4.142038 AGGAGTTGCCGTTGTTAAAGATT 58.858 39.130 0.00 0.00 43.43 2.40
1012 1135 7.065324 CGTTGTTAAAGATTATGGCTAGGACAA 59.935 37.037 0.00 0.00 0.00 3.18
1013 1136 7.859325 TGTTAAAGATTATGGCTAGGACAAC 57.141 36.000 0.00 0.00 0.00 3.32
1022 1145 1.445582 CTAGGACAACGGCGGTGTC 60.446 63.158 41.57 41.57 0.00 3.67
1043 1166 2.897350 GTGGGCGCTGGTCATAGC 60.897 66.667 7.64 0.00 40.29 2.97
1115 1238 3.766545 AGCTTTTACCTTGCAATCCAGA 58.233 40.909 0.00 0.00 0.00 3.86
1123 1246 2.089980 CTTGCAATCCAGAGGTCAAGG 58.910 52.381 0.00 0.00 0.00 3.61
1127 1250 2.943199 GCAATCCAGAGGTCAAGGAAGG 60.943 54.545 0.00 0.00 34.62 3.46
1130 1253 3.269592 TCCAGAGGTCAAGGAAGGTAA 57.730 47.619 0.00 0.00 0.00 2.85
1131 1254 3.173965 TCCAGAGGTCAAGGAAGGTAAG 58.826 50.000 0.00 0.00 0.00 2.34
1132 1255 2.237392 CCAGAGGTCAAGGAAGGTAAGG 59.763 54.545 0.00 0.00 0.00 2.69
1209 1332 0.457853 TGTACTTGCACGATCCGAGC 60.458 55.000 0.00 2.04 43.12 5.03
1270 1393 3.016971 CCTCCTGTGGCATCCCCA 61.017 66.667 0.00 0.00 42.79 4.96
1381 1504 2.608623 ACATGCCCCTAGTTTGCTTTT 58.391 42.857 0.00 0.00 0.00 2.27
1382 1505 2.972021 ACATGCCCCTAGTTTGCTTTTT 59.028 40.909 0.00 0.00 0.00 1.94
1442 1577 9.840427 ATGTAAATCTACACAAAGGATTTTTCG 57.160 29.630 0.00 0.00 40.84 3.46
1447 1582 7.647907 TCTACACAAAGGATTTTTCGTCTAC 57.352 36.000 0.00 0.00 35.03 2.59
1476 1611 5.144100 TCATCTATTTTGTGGTTTGTGGGT 58.856 37.500 0.00 0.00 0.00 4.51
1499 1634 3.194755 ACCCTTTTCCTTTGTGTTGACAC 59.805 43.478 7.31 7.31 46.59 3.67
1513 1648 4.331717 GTGTTGACACGGATTTGGTATAGG 59.668 45.833 0.00 0.00 37.10 2.57
1517 1652 6.297080 TGACACGGATTTGGTATAGGTTTA 57.703 37.500 0.00 0.00 0.00 2.01
1525 1660 9.940166 CGGATTTGGTATAGGTTTATGTTTTAC 57.060 33.333 0.00 0.00 0.00 2.01
1555 1690 5.753438 ACATTTACTAGCACATATGTCCGTG 59.247 40.000 5.07 0.00 36.18 4.94
1564 1699 2.097954 ACATATGTCCGTGCATTGCAAG 59.902 45.455 13.94 15.33 41.47 4.01
1597 1732 7.959689 TTAATGTTTTGTGCAAGCATAATGT 57.040 28.000 5.08 0.00 0.00 2.71
1598 1733 6.470557 AATGTTTTGTGCAAGCATAATGTC 57.529 33.333 5.08 1.02 0.00 3.06
1599 1734 5.199024 TGTTTTGTGCAAGCATAATGTCT 57.801 34.783 5.08 0.00 0.00 3.41
1600 1735 5.221880 TGTTTTGTGCAAGCATAATGTCTC 58.778 37.500 5.08 0.00 0.00 3.36
1601 1736 5.221204 TGTTTTGTGCAAGCATAATGTCTCA 60.221 36.000 5.08 0.00 0.00 3.27
1602 1737 5.648178 TTTGTGCAAGCATAATGTCTCAT 57.352 34.783 5.08 0.00 0.00 2.90
1603 1738 6.756299 TTTGTGCAAGCATAATGTCTCATA 57.244 33.333 5.08 0.00 0.00 2.15
1604 1739 5.739752 TGTGCAAGCATAATGTCTCATAC 57.260 39.130 0.00 0.00 0.00 2.39
1605 1740 5.430886 TGTGCAAGCATAATGTCTCATACT 58.569 37.500 0.00 0.00 0.00 2.12
1606 1741 6.581712 TGTGCAAGCATAATGTCTCATACTA 58.418 36.000 0.00 0.00 0.00 1.82
1607 1742 7.219322 TGTGCAAGCATAATGTCTCATACTAT 58.781 34.615 0.00 0.00 0.00 2.12
1608 1743 7.386025 TGTGCAAGCATAATGTCTCATACTATC 59.614 37.037 0.00 0.00 0.00 2.08
1609 1744 7.601886 GTGCAAGCATAATGTCTCATACTATCT 59.398 37.037 0.00 0.00 0.00 1.98
1610 1745 7.816513 TGCAAGCATAATGTCTCATACTATCTC 59.183 37.037 0.00 0.00 0.00 2.75
1611 1746 7.816513 GCAAGCATAATGTCTCATACTATCTCA 59.183 37.037 0.00 0.00 0.00 3.27
1612 1747 9.702494 CAAGCATAATGTCTCATACTATCTCAA 57.298 33.333 0.00 0.00 0.00 3.02
1614 1749 9.703892 AGCATAATGTCTCATACTATCTCAAAC 57.296 33.333 0.00 0.00 0.00 2.93
1615 1750 9.481340 GCATAATGTCTCATACTATCTCAAACA 57.519 33.333 0.00 0.00 0.00 2.83
1714 1849 3.171911 GCAATTTGGCCGCGTTCG 61.172 61.111 4.92 0.00 0.00 3.95
1739 1876 1.131638 TCTCTGCCGGGCATAATCTT 58.868 50.000 24.10 0.00 38.13 2.40
1745 1882 1.597742 CCGGGCATAATCTTCCACTG 58.402 55.000 0.00 0.00 0.00 3.66
1817 1958 2.431954 TAGTCGGGAATCTCCTTCGT 57.568 50.000 0.00 0.00 36.57 3.85
1820 1961 2.302157 AGTCGGGAATCTCCTTCGTTTT 59.698 45.455 0.00 0.00 36.57 2.43
1821 1962 2.671888 GTCGGGAATCTCCTTCGTTTTC 59.328 50.000 0.00 0.00 36.57 2.29
1840 1983 7.010091 TCGTTTTCTTTTTGAAAGCAAATCCTC 59.990 33.333 2.55 0.00 44.40 3.71
2180 2359 6.355638 CGCTCAAATATTTACTGATCGGAAC 58.644 40.000 9.00 0.00 0.00 3.62
2207 2386 3.343617 CAAAAGAGCGAGGTGGGATTAA 58.656 45.455 0.00 0.00 0.00 1.40
2225 2404 6.912591 GGGATTAATAAACGTGAAAGATGCAG 59.087 38.462 0.00 0.00 0.00 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 40 7.933577 TGTTAATCAAGCTAGGATTATCCAGTG 59.066 37.037 14.30 4.13 39.61 3.66
36 41 8.034313 TGTTAATCAAGCTAGGATTATCCAGT 57.966 34.615 14.30 0.00 39.61 4.00
67 72 6.012745 AGCCATAGTTTTCCTCATTCAGTTT 58.987 36.000 0.00 0.00 0.00 2.66
70 75 4.946157 ACAGCCATAGTTTTCCTCATTCAG 59.054 41.667 0.00 0.00 0.00 3.02
77 82 1.710809 ACCCACAGCCATAGTTTTCCT 59.289 47.619 0.00 0.00 0.00 3.36
84 89 1.206132 TCGTAACACCCACAGCCATAG 59.794 52.381 0.00 0.00 0.00 2.23
85 90 1.268066 TCGTAACACCCACAGCCATA 58.732 50.000 0.00 0.00 0.00 2.74
86 91 0.398696 TTCGTAACACCCACAGCCAT 59.601 50.000 0.00 0.00 0.00 4.40
87 92 0.250124 CTTCGTAACACCCACAGCCA 60.250 55.000 0.00 0.00 0.00 4.75
88 93 0.953960 CCTTCGTAACACCCACAGCC 60.954 60.000 0.00 0.00 0.00 4.85
90 95 0.953960 GCCCTTCGTAACACCCACAG 60.954 60.000 0.00 0.00 0.00 3.66
105 111 6.042208 GGTATGTCTAAATCTCAAGTAGCCCT 59.958 42.308 0.00 0.00 0.00 5.19
108 114 8.718102 TTTGGTATGTCTAAATCTCAAGTAGC 57.282 34.615 0.00 0.00 0.00 3.58
184 193 3.503363 TGATGCATCTTTGTCAAGTGTCC 59.497 43.478 26.32 0.00 0.00 4.02
191 200 5.711506 ACTTGGTAATGATGCATCTTTGTCA 59.288 36.000 28.77 23.41 0.00 3.58
214 223 1.587946 CACTCGGCAAAACAAAAGCAC 59.412 47.619 0.00 0.00 0.00 4.40
222 231 3.185797 CCTAGTGTTACACTCGGCAAAAC 59.814 47.826 22.05 0.00 41.21 2.43
251 260 3.651803 AATGGCACTAGATAGTCTCGC 57.348 47.619 0.00 0.00 33.46 5.03
256 265 3.877508 GGCGAAAAATGGCACTAGATAGT 59.122 43.478 0.00 0.00 36.90 2.12
267 276 5.694006 TGAAAATACACTTGGCGAAAAATGG 59.306 36.000 0.00 0.00 0.00 3.16
275 284 4.047822 TGCTTTTGAAAATACACTTGGCG 58.952 39.130 0.00 0.00 0.00 5.69
281 290 5.507077 TGTCGAGTGCTTTTGAAAATACAC 58.493 37.500 13.10 13.10 0.00 2.90
319 328 0.321564 TGTCTTCCCACTGGCATTCG 60.322 55.000 0.00 0.00 0.00 3.34
327 336 2.045926 GCCGCATGTCTTCCCACT 60.046 61.111 0.00 0.00 0.00 4.00
392 401 5.134339 AGGGGTAGATGGAAAATGCAAGATA 59.866 40.000 0.00 0.00 0.00 1.98
411 420 4.073425 AGATTGAGAGAAAGAGAGGGGT 57.927 45.455 0.00 0.00 0.00 4.95
437 446 7.447594 TGTTTCTACCTCGTTCTTTTAGGAAT 58.552 34.615 0.00 0.00 34.34 3.01
438 447 6.819284 TGTTTCTACCTCGTTCTTTTAGGAA 58.181 36.000 0.00 0.00 34.34 3.36
480 490 0.034186 TGAAGTCCACATGGGCATCC 60.034 55.000 5.11 0.00 43.78 3.51
481 491 1.747355 CTTGAAGTCCACATGGGCATC 59.253 52.381 5.11 2.80 43.78 3.91
482 492 1.617804 CCTTGAAGTCCACATGGGCAT 60.618 52.381 5.11 0.00 43.78 4.40
486 496 2.816087 CAAGACCTTGAAGTCCACATGG 59.184 50.000 3.79 0.00 42.93 3.66
492 502 4.200092 ACAAAGACAAGACCTTGAAGTCC 58.800 43.478 15.84 1.28 42.93 3.85
493 503 6.049790 AGTACAAAGACAAGACCTTGAAGTC 58.950 40.000 15.84 4.16 42.93 3.01
496 506 6.036735 CGAAAGTACAAAGACAAGACCTTGAA 59.963 38.462 15.84 0.00 42.93 2.69
498 508 5.738370 CGAAAGTACAAAGACAAGACCTTG 58.262 41.667 8.11 8.11 45.58 3.61
499 509 4.272748 GCGAAAGTACAAAGACAAGACCTT 59.727 41.667 0.00 0.00 0.00 3.50
505 515 5.804692 TTTCAGCGAAAGTACAAAGACAA 57.195 34.783 0.00 0.00 0.00 3.18
566 576 6.932960 ACCTATAATTACGATTGGTTGGCTAC 59.067 38.462 0.00 0.00 29.47 3.58
570 580 9.635520 CTAGTACCTATAATTACGATTGGTTGG 57.364 37.037 0.00 0.00 34.74 3.77
617 642 6.379988 ACCAATTTTGACCCTGACATTATACC 59.620 38.462 0.00 0.00 0.00 2.73
625 650 3.756963 GGAGTACCAATTTTGACCCTGAC 59.243 47.826 0.00 0.00 35.97 3.51
638 663 1.679977 CGGACGGAGGGAGTACCAA 60.680 63.158 0.00 0.00 43.89 3.67
643 668 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
644 669 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
645 670 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
646 671 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
647 672 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
648 673 2.537401 GACAAGTATTTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
649 674 1.135315 CGACAAGTATTTCCGGACGGA 60.135 52.381 1.83 9.76 43.52 4.69
650 675 1.274596 CGACAAGTATTTCCGGACGG 58.725 55.000 1.83 3.96 0.00 4.79
651 676 1.135315 TCCGACAAGTATTTCCGGACG 60.135 52.381 1.83 0.00 43.47 4.79
652 677 2.660189 TCCGACAAGTATTTCCGGAC 57.340 50.000 1.83 0.00 43.47 4.79
653 678 3.681593 TTTCCGACAAGTATTTCCGGA 57.318 42.857 0.00 0.00 46.18 5.14
654 679 4.752661 TTTTTCCGACAAGTATTTCCGG 57.247 40.909 0.00 0.00 41.36 5.14
655 680 5.092781 CCATTTTTCCGACAAGTATTTCCG 58.907 41.667 0.00 0.00 0.00 4.30
656 681 6.262193 TCCATTTTTCCGACAAGTATTTCC 57.738 37.500 0.00 0.00 0.00 3.13
657 682 9.849166 TTTATCCATTTTTCCGACAAGTATTTC 57.151 29.630 0.00 0.00 0.00 2.17
661 686 9.632807 CATTTTTATCCATTTTTCCGACAAGTA 57.367 29.630 0.00 0.00 0.00 2.24
662 687 8.364142 TCATTTTTATCCATTTTTCCGACAAGT 58.636 29.630 0.00 0.00 0.00 3.16
663 688 8.755696 TCATTTTTATCCATTTTTCCGACAAG 57.244 30.769 0.00 0.00 0.00 3.16
664 689 9.717942 ATTCATTTTTATCCATTTTTCCGACAA 57.282 25.926 0.00 0.00 0.00 3.18
665 690 9.149225 CATTCATTTTTATCCATTTTTCCGACA 57.851 29.630 0.00 0.00 0.00 4.35
666 691 9.150348 ACATTCATTTTTATCCATTTTTCCGAC 57.850 29.630 0.00 0.00 0.00 4.79
697 722 9.591792 GGGTGTATCTAGACGTATTTTAGTTTT 57.408 33.333 0.00 0.00 0.00 2.43
698 723 8.752187 TGGGTGTATCTAGACGTATTTTAGTTT 58.248 33.333 0.00 0.00 0.00 2.66
699 724 8.297470 TGGGTGTATCTAGACGTATTTTAGTT 57.703 34.615 0.00 0.00 0.00 2.24
700 725 7.886629 TGGGTGTATCTAGACGTATTTTAGT 57.113 36.000 0.00 0.00 0.00 2.24
701 726 9.408069 GAATGGGTGTATCTAGACGTATTTTAG 57.592 37.037 0.00 0.00 0.00 1.85
702 727 8.362639 GGAATGGGTGTATCTAGACGTATTTTA 58.637 37.037 0.00 0.00 0.00 1.52
703 728 7.070821 AGGAATGGGTGTATCTAGACGTATTTT 59.929 37.037 0.00 0.00 0.00 1.82
704 729 6.553852 AGGAATGGGTGTATCTAGACGTATTT 59.446 38.462 0.00 0.00 0.00 1.40
705 730 6.075984 AGGAATGGGTGTATCTAGACGTATT 58.924 40.000 0.00 0.00 0.00 1.89
706 731 5.642165 AGGAATGGGTGTATCTAGACGTAT 58.358 41.667 0.00 0.00 0.00 3.06
707 732 5.057843 AGGAATGGGTGTATCTAGACGTA 57.942 43.478 0.00 0.00 0.00 3.57
708 733 3.890147 GAGGAATGGGTGTATCTAGACGT 59.110 47.826 0.00 0.00 0.00 4.34
709 734 3.256136 GGAGGAATGGGTGTATCTAGACG 59.744 52.174 0.00 0.00 0.00 4.18
710 735 3.256136 CGGAGGAATGGGTGTATCTAGAC 59.744 52.174 0.00 0.00 0.00 2.59
711 736 3.139584 TCGGAGGAATGGGTGTATCTAGA 59.860 47.826 0.00 0.00 0.00 2.43
712 737 3.256136 GTCGGAGGAATGGGTGTATCTAG 59.744 52.174 0.00 0.00 0.00 2.43
713 738 3.228453 GTCGGAGGAATGGGTGTATCTA 58.772 50.000 0.00 0.00 0.00 1.98
714 739 2.040178 GTCGGAGGAATGGGTGTATCT 58.960 52.381 0.00 0.00 0.00 1.98
715 740 1.760613 TGTCGGAGGAATGGGTGTATC 59.239 52.381 0.00 0.00 0.00 2.24
716 741 1.874129 TGTCGGAGGAATGGGTGTAT 58.126 50.000 0.00 0.00 0.00 2.29
717 742 1.553248 CTTGTCGGAGGAATGGGTGTA 59.447 52.381 0.00 0.00 0.00 2.90
718 743 0.324943 CTTGTCGGAGGAATGGGTGT 59.675 55.000 0.00 0.00 0.00 4.16
719 744 0.324943 ACTTGTCGGAGGAATGGGTG 59.675 55.000 0.00 0.00 0.00 4.61
720 745 1.946984 TACTTGTCGGAGGAATGGGT 58.053 50.000 0.00 0.00 0.00 4.51
721 746 3.560636 AATACTTGTCGGAGGAATGGG 57.439 47.619 0.00 0.00 0.00 4.00
722 747 4.034048 CGAAAATACTTGTCGGAGGAATGG 59.966 45.833 0.00 0.00 0.00 3.16
723 748 5.143916 CGAAAATACTTGTCGGAGGAATG 57.856 43.478 0.00 0.00 0.00 2.67
731 756 2.597305 CTCCGTCCGAAAATACTTGTCG 59.403 50.000 0.00 0.00 34.58 4.35
732 757 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
733 758 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
734 759 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
735 760 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
736 761 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
737 762 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
738 763 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
739 764 1.479730 GTACTCCCTCCGTCCGAAAAT 59.520 52.381 0.00 0.00 0.00 1.82
740 765 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
741 766 0.038744 AGTACTCCCTCCGTCCGAAA 59.961 55.000 0.00 0.00 0.00 3.46
742 767 0.911769 TAGTACTCCCTCCGTCCGAA 59.088 55.000 0.00 0.00 0.00 4.30
743 768 1.135094 ATAGTACTCCCTCCGTCCGA 58.865 55.000 0.00 0.00 0.00 4.55
744 769 2.847327 TATAGTACTCCCTCCGTCCG 57.153 55.000 0.00 0.00 0.00 4.79
745 770 5.814481 ACTAATATAGTACTCCCTCCGTCC 58.186 45.833 0.00 0.00 37.23 4.79
746 771 6.538381 GCTACTAATATAGTACTCCCTCCGTC 59.462 46.154 0.00 0.00 40.14 4.79
747 772 6.413892 GCTACTAATATAGTACTCCCTCCGT 58.586 44.000 0.00 0.00 40.14 4.69
748 773 5.821995 GGCTACTAATATAGTACTCCCTCCG 59.178 48.000 0.00 0.00 40.14 4.63
749 774 6.729428 TGGCTACTAATATAGTACTCCCTCC 58.271 44.000 0.00 0.00 40.14 4.30
750 775 8.826293 ATTGGCTACTAATATAGTACTCCCTC 57.174 38.462 0.00 0.00 40.14 4.30
852 972 5.308825 ACTCCTTCACCAAAAGATACAGTG 58.691 41.667 0.00 0.00 0.00 3.66
860 980 5.733373 GCAGTGTTTACTCCTTCACCAAAAG 60.733 44.000 0.00 0.00 34.07 2.27
904 1025 2.652642 CGCGTCGCTCAGATTTATAGTC 59.347 50.000 16.36 0.00 0.00 2.59
986 1109 6.537301 TGTCCTAGCCATAATCTTTAACAACG 59.463 38.462 0.00 0.00 0.00 4.10
989 1112 6.537301 CGTTGTCCTAGCCATAATCTTTAACA 59.463 38.462 0.00 0.00 0.00 2.41
992 1115 5.607477 CCGTTGTCCTAGCCATAATCTTTA 58.393 41.667 0.00 0.00 0.00 1.85
999 1122 1.440060 CGCCGTTGTCCTAGCCATA 59.560 57.895 0.00 0.00 0.00 2.74
1115 1238 2.113777 TCCTCCTTACCTTCCTTGACCT 59.886 50.000 0.00 0.00 0.00 3.85
1123 1246 1.124780 GAGGGCTCCTCCTTACCTTC 58.875 60.000 9.46 0.00 44.36 3.46
1209 1332 1.065928 CCCGAAGTAGCGCTGGTAG 59.934 63.158 22.90 7.46 0.00 3.18
1236 1359 1.303317 GGTGATTGTCTTGCGGGGT 60.303 57.895 0.00 0.00 0.00 4.95
1237 1360 1.002134 AGGTGATTGTCTTGCGGGG 60.002 57.895 0.00 0.00 0.00 5.73
1240 1363 1.081892 CAGGAGGTGATTGTCTTGCG 58.918 55.000 0.00 0.00 0.00 4.85
1382 1505 9.344772 TGCCTATTTAAAAGACAACAGACTAAA 57.655 29.630 0.00 0.00 0.00 1.85
1420 1552 8.166422 AGACGAAAAATCCTTTGTGTAGATTT 57.834 30.769 0.00 0.00 40.92 2.17
1427 1559 7.138736 ACAATGTAGACGAAAAATCCTTTGTG 58.861 34.615 0.00 0.00 0.00 3.33
1432 1567 7.607991 AGATGAACAATGTAGACGAAAAATCCT 59.392 33.333 0.00 0.00 0.00 3.24
1439 1574 9.214957 ACAAAATAGATGAACAATGTAGACGAA 57.785 29.630 0.00 0.00 0.00 3.85
1442 1577 8.730680 ACCACAAAATAGATGAACAATGTAGAC 58.269 33.333 0.00 0.00 0.00 2.59
1447 1582 8.489559 CACAAACCACAAAATAGATGAACAATG 58.510 33.333 0.00 0.00 0.00 2.82
1476 1611 4.399934 GTGTCAACACAAAGGAAAAGGGTA 59.600 41.667 8.37 0.00 45.75 3.69
1484 1619 2.631160 ATCCGTGTCAACACAAAGGA 57.369 45.000 13.30 11.37 46.75 3.36
1499 1634 9.940166 GTAAAACATAAACCTATACCAAATCCG 57.060 33.333 0.00 0.00 0.00 4.18
1526 1661 9.542462 GGACATATGTGCTAGTAAATGTCTAAA 57.458 33.333 19.13 0.00 41.72 1.85
1527 1662 7.865889 CGGACATATGTGCTAGTAAATGTCTAA 59.134 37.037 22.88 0.00 41.72 2.10
1528 1663 7.013942 ACGGACATATGTGCTAGTAAATGTCTA 59.986 37.037 22.88 0.00 41.72 2.59
1529 1664 6.183360 ACGGACATATGTGCTAGTAAATGTCT 60.183 38.462 22.88 8.76 41.72 3.41
1530 1665 5.983720 ACGGACATATGTGCTAGTAAATGTC 59.016 40.000 22.88 16.96 41.44 3.06
1531 1666 5.753438 CACGGACATATGTGCTAGTAAATGT 59.247 40.000 22.88 9.56 33.97 2.71
1532 1667 6.215477 CACGGACATATGTGCTAGTAAATG 57.785 41.667 22.88 8.98 33.97 2.32
1570 1705 9.661187 CATTATGCTTGCACAAAACATTAAAAA 57.339 25.926 0.00 0.00 0.00 1.94
1571 1706 8.834465 ACATTATGCTTGCACAAAACATTAAAA 58.166 25.926 0.00 0.00 0.00 1.52
1603 1738 8.887717 GTGCTATGAGATTTTGTTTGAGATAGT 58.112 33.333 0.00 0.00 0.00 2.12
1604 1739 8.341173 GGTGCTATGAGATTTTGTTTGAGATAG 58.659 37.037 0.00 0.00 0.00 2.08
1605 1740 7.011389 CGGTGCTATGAGATTTTGTTTGAGATA 59.989 37.037 0.00 0.00 0.00 1.98
1606 1741 6.183360 CGGTGCTATGAGATTTTGTTTGAGAT 60.183 38.462 0.00 0.00 0.00 2.75
1607 1742 5.122239 CGGTGCTATGAGATTTTGTTTGAGA 59.878 40.000 0.00 0.00 0.00 3.27
1608 1743 5.327091 CGGTGCTATGAGATTTTGTTTGAG 58.673 41.667 0.00 0.00 0.00 3.02
1609 1744 4.155826 CCGGTGCTATGAGATTTTGTTTGA 59.844 41.667 0.00 0.00 0.00 2.69
1610 1745 4.155826 TCCGGTGCTATGAGATTTTGTTTG 59.844 41.667 0.00 0.00 0.00 2.93
1611 1746 4.331968 TCCGGTGCTATGAGATTTTGTTT 58.668 39.130 0.00 0.00 0.00 2.83
1612 1747 3.950397 TCCGGTGCTATGAGATTTTGTT 58.050 40.909 0.00 0.00 0.00 2.83
1613 1748 3.627395 TCCGGTGCTATGAGATTTTGT 57.373 42.857 0.00 0.00 0.00 2.83
1614 1749 4.576053 TGAATCCGGTGCTATGAGATTTTG 59.424 41.667 0.00 0.00 0.00 2.44
1615 1750 4.576463 GTGAATCCGGTGCTATGAGATTTT 59.424 41.667 0.00 0.00 0.00 1.82
1616 1751 4.130118 GTGAATCCGGTGCTATGAGATTT 58.870 43.478 0.00 0.00 0.00 2.17
1617 1752 3.389329 AGTGAATCCGGTGCTATGAGATT 59.611 43.478 0.00 0.00 0.00 2.40
1618 1753 2.968574 AGTGAATCCGGTGCTATGAGAT 59.031 45.455 0.00 0.00 0.00 2.75
1714 1849 1.680338 ATGCCCGGCAGAGAAAATAC 58.320 50.000 18.96 0.00 43.65 1.89
1739 1876 9.793259 GGATTATACTTAAATGGAATCAGTGGA 57.207 33.333 0.00 0.00 0.00 4.02
1768 1905 6.317893 GGTGAGGACGTCATGGTAATTAATTT 59.682 38.462 18.91 0.00 37.56 1.82
1769 1906 5.820947 GGTGAGGACGTCATGGTAATTAATT 59.179 40.000 18.91 5.89 37.56 1.40
1817 1958 6.542005 GGGAGGATTTGCTTTCAAAAAGAAAA 59.458 34.615 7.79 7.79 45.11 2.29
1820 1961 4.901250 AGGGAGGATTTGCTTTCAAAAAGA 59.099 37.500 3.68 0.00 44.44 2.52
1821 1962 5.219343 AGGGAGGATTTGCTTTCAAAAAG 57.781 39.130 0.00 0.00 44.44 2.27
1840 1983 4.207955 GGGGCTACTAAATCAGAAAAGGG 58.792 47.826 0.00 0.00 0.00 3.95
2049 2201 6.834168 TTAAAGAAAGGATTGTGGGCTTAG 57.166 37.500 0.00 0.00 0.00 2.18
2180 2359 0.883833 ACCTCGCTCTTTTGCAATGG 59.116 50.000 0.00 0.00 0.00 3.16
2207 2386 4.256920 AGCTCTGCATCTTTCACGTTTAT 58.743 39.130 0.00 0.00 0.00 1.40
2225 2404 1.454653 GACGTAACAACCAACGAGCTC 59.545 52.381 2.73 2.73 41.55 4.09


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

AutoCloner maintained by Alex Coulton.