Multiple sequence alignment - TraesCS1D01G422300

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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 TraesCS1D01G422300 chr1D 100.000 2579 0 0 1 2579 477758415 477760993 0.000000e+00 4763
1 TraesCS1D01G422300 chr1A 93.919 1628 60 13 801 2405 574251518 574253129 0.000000e+00 2422
2 TraesCS1D01G422300 chr1B 94.161 1490 45 11 801 2252 665130492 665131977 0.000000e+00 2231
3 TraesCS1D01G422300 chr1B 94.604 556 30 0 1 556 539944446 539945001 0.000000e+00 861
4 TraesCS1D01G422300 chr1B 93.072 332 20 3 2247 2576 665136952 665137282 1.390000e-132 483
5 TraesCS1D01G422300 chr1B 85.019 267 24 11 1963 2223 424436219 424436475 9.160000e-65 257
6 TraesCS1D01G422300 chr2D 91.950 559 45 0 1 559 604336817 604337375 0.000000e+00 784
7 TraesCS1D01G422300 chr2D 86.074 596 76 5 1968 2557 144414086 144413492 3.620000e-178 634
8 TraesCS1D01G422300 chr2D 83.866 595 76 9 1968 2556 143991201 143990621 1.350000e-152 549
9 TraesCS1D01G422300 chr2A 90.698 559 47 3 1 559 768453974 768454527 0.000000e+00 739
10 TraesCS1D01G422300 chr2A 87.838 222 27 0 337 558 178595295 178595516 7.080000e-66 261
11 TraesCS1D01G422300 chr7D 85.691 601 75 9 1963 2556 622280557 622281153 7.840000e-175 623
12 TraesCS1D01G422300 chr7D 90.029 341 34 0 1 341 38997999 38998339 2.360000e-120 442
13 TraesCS1D01G422300 chr6B 89.810 422 41 2 138 559 279286631 279287050 8.120000e-150 540
14 TraesCS1D01G422300 chr2B 83.417 597 77 12 1968 2556 202269607 202269025 3.780000e-148 534
15 TraesCS1D01G422300 chr5B 86.143 433 59 1 2125 2556 586623466 586623898 1.400000e-127 466
16 TraesCS1D01G422300 chr5B 88.288 222 26 0 337 558 648749330 648749109 1.520000e-67 267
17 TraesCS1D01G422300 chr7B 87.139 381 41 6 2168 2546 26873600 26873974 2.370000e-115 425
18 TraesCS1D01G422300 chr3A 89.150 341 36 1 1 341 475468969 475468630 8.530000e-115 424
19 TraesCS1D01G422300 chr3A 89.244 344 30 6 1 341 652218629 652218290 8.530000e-115 424
20 TraesCS1D01G422300 chr4D 89.181 342 32 3 1 341 418395691 418395354 3.070000e-114 422
21 TraesCS1D01G422300 chr4D 86.996 223 27 2 337 558 456264634 456264855 1.530000e-62 250
22 TraesCS1D01G422300 chr5A 88.596 342 38 1 1 341 672753837 672754178 5.130000e-112 414
23 TraesCS1D01G422300 chrUn 82.989 435 70 4 2126 2556 75930938 75931372 8.650000e-105 390
24 TraesCS1D01G422300 chr7A 88.789 223 25 0 337 559 465382267 465382489 9.090000e-70 274
25 TraesCS1D01G422300 chr7A 86.207 232 30 2 337 568 465464412 465464183 1.530000e-62 250


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 TraesCS1D01G422300 chr1D 477758415 477760993 2578 False 4763 4763 100.000 1 2579 1 chr1D.!!$F1 2578
1 TraesCS1D01G422300 chr1A 574251518 574253129 1611 False 2422 2422 93.919 801 2405 1 chr1A.!!$F1 1604
2 TraesCS1D01G422300 chr1B 665130492 665131977 1485 False 2231 2231 94.161 801 2252 1 chr1B.!!$F3 1451
3 TraesCS1D01G422300 chr1B 539944446 539945001 555 False 861 861 94.604 1 556 1 chr1B.!!$F2 555
4 TraesCS1D01G422300 chr2D 604336817 604337375 558 False 784 784 91.950 1 559 1 chr2D.!!$F1 558
5 TraesCS1D01G422300 chr2D 144413492 144414086 594 True 634 634 86.074 1968 2557 1 chr2D.!!$R2 589
6 TraesCS1D01G422300 chr2D 143990621 143991201 580 True 549 549 83.866 1968 2556 1 chr2D.!!$R1 588
7 TraesCS1D01G422300 chr2A 768453974 768454527 553 False 739 739 90.698 1 559 1 chr2A.!!$F2 558
8 TraesCS1D01G422300 chr7D 622280557 622281153 596 False 623 623 85.691 1963 2556 1 chr7D.!!$F2 593
9 TraesCS1D01G422300 chr2B 202269025 202269607 582 True 534 534 83.417 1968 2556 1 chr2B.!!$R1 588

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
321 322 0.032912 TACTATGACCACCGAGGCCA 60.033 55.0 5.01 0.0 43.14 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1597 1636 0.962489 AGCAACACAGCGAGACTACT 59.038 50.0 0.0 0.0 40.15 2.57 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 0.324943 CCCAGTGACTCCCGTGAAAT 59.675 55.000 0.00 0.00 0.00 2.17
123 124 6.763610 CCAACTAAGGTTTCATGGTCTATCTC 59.236 42.308 0.00 0.00 32.73 2.75
167 168 8.988064 ACAAGATGACACGGACATATATAATC 57.012 34.615 0.00 0.00 0.00 1.75
182 183 7.720957 ACATATATAATCTGCAGTGCTTTTCCA 59.279 33.333 17.60 0.00 0.00 3.53
321 322 0.032912 TACTATGACCACCGAGGCCA 60.033 55.000 5.01 0.00 43.14 5.36
334 335 0.955919 GAGGCCAAGGACGACAAAGG 60.956 60.000 5.01 0.00 0.00 3.11
399 400 0.375803 ACAAGCGAAAACACGTGTCC 59.624 50.000 23.61 13.10 35.59 4.02
469 470 7.750229 AGTCATGCTTATTATGTTATGGGTG 57.250 36.000 0.00 0.00 0.00 4.61
534 535 0.822121 GGGCTGTTTTCTCCCGTTGT 60.822 55.000 0.00 0.00 0.00 3.32
565 566 4.351874 GCATATTTGCTAGTACTCCCCA 57.648 45.455 0.00 0.00 45.77 4.96
566 567 4.714632 GCATATTTGCTAGTACTCCCCAA 58.285 43.478 0.00 0.00 45.77 4.12
567 568 5.130350 GCATATTTGCTAGTACTCCCCAAA 58.870 41.667 0.00 8.20 45.77 3.28
568 569 5.239525 GCATATTTGCTAGTACTCCCCAAAG 59.760 44.000 15.91 3.54 45.77 2.77
569 570 4.929146 ATTTGCTAGTACTCCCCAAAGT 57.071 40.909 15.91 6.72 0.00 2.66
570 571 3.695830 TTGCTAGTACTCCCCAAAGTG 57.304 47.619 0.00 0.00 0.00 3.16
571 572 1.906574 TGCTAGTACTCCCCAAAGTGG 59.093 52.381 0.00 0.00 37.25 4.00
572 573 1.407025 GCTAGTACTCCCCAAAGTGGC 60.407 57.143 0.00 0.00 35.79 5.01
573 574 2.188817 CTAGTACTCCCCAAAGTGGCT 58.811 52.381 0.00 0.00 35.79 4.75
574 575 1.446016 AGTACTCCCCAAAGTGGCTT 58.554 50.000 0.00 0.00 35.79 4.35
575 576 1.351350 AGTACTCCCCAAAGTGGCTTC 59.649 52.381 0.00 0.00 35.79 3.86
576 577 0.323629 TACTCCCCAAAGTGGCTTCG 59.676 55.000 0.00 0.00 35.79 3.79
577 578 1.073199 CTCCCCAAAGTGGCTTCGT 59.927 57.895 0.00 0.00 35.79 3.85
578 579 0.955919 CTCCCCAAAGTGGCTTCGTC 60.956 60.000 0.00 0.00 35.79 4.20
579 580 2.325082 CCCCAAAGTGGCTTCGTCG 61.325 63.158 0.00 0.00 35.79 5.12
580 581 2.325082 CCCAAAGTGGCTTCGTCGG 61.325 63.158 0.00 0.00 35.79 4.79
581 582 2.325082 CCAAAGTGGCTTCGTCGGG 61.325 63.158 0.00 0.00 0.00 5.14
582 583 1.597027 CAAAGTGGCTTCGTCGGGT 60.597 57.895 0.00 0.00 0.00 5.28
583 584 1.597027 AAAGTGGCTTCGTCGGGTG 60.597 57.895 0.00 0.00 0.00 4.61
584 585 2.319890 AAAGTGGCTTCGTCGGGTGT 62.320 55.000 0.00 0.00 0.00 4.16
585 586 2.989055 AAGTGGCTTCGTCGGGTGTG 62.989 60.000 0.00 0.00 0.00 3.82
586 587 4.980805 TGGCTTCGTCGGGTGTGC 62.981 66.667 0.00 0.00 0.00 4.57
589 590 2.805353 CTTCGTCGGGTGTGCGAG 60.805 66.667 0.00 0.00 36.00 5.03
590 591 4.351938 TTCGTCGGGTGTGCGAGG 62.352 66.667 0.00 0.00 36.00 4.63
593 594 3.771160 GTCGGGTGTGCGAGGGAT 61.771 66.667 0.00 0.00 0.00 3.85
594 595 2.043752 TCGGGTGTGCGAGGGATA 60.044 61.111 0.00 0.00 0.00 2.59
595 596 1.456892 TCGGGTGTGCGAGGGATAT 60.457 57.895 0.00 0.00 0.00 1.63
596 597 0.178984 TCGGGTGTGCGAGGGATATA 60.179 55.000 0.00 0.00 0.00 0.86
597 598 0.677288 CGGGTGTGCGAGGGATATAA 59.323 55.000 0.00 0.00 0.00 0.98
598 599 1.069513 CGGGTGTGCGAGGGATATAAA 59.930 52.381 0.00 0.00 0.00 1.40
599 600 2.484065 CGGGTGTGCGAGGGATATAAAA 60.484 50.000 0.00 0.00 0.00 1.52
600 601 3.547746 GGGTGTGCGAGGGATATAAAAA 58.452 45.455 0.00 0.00 0.00 1.94
601 602 3.564225 GGGTGTGCGAGGGATATAAAAAG 59.436 47.826 0.00 0.00 0.00 2.27
602 603 3.003378 GGTGTGCGAGGGATATAAAAAGC 59.997 47.826 0.00 0.00 0.00 3.51
603 604 3.877508 GTGTGCGAGGGATATAAAAAGCT 59.122 43.478 0.00 0.00 0.00 3.74
604 605 5.054477 GTGTGCGAGGGATATAAAAAGCTA 58.946 41.667 0.00 0.00 0.00 3.32
605 606 5.050295 GTGTGCGAGGGATATAAAAAGCTAC 60.050 44.000 0.00 0.00 0.00 3.58
606 607 5.054477 GTGCGAGGGATATAAAAAGCTACA 58.946 41.667 0.00 0.00 0.00 2.74
607 608 5.701290 GTGCGAGGGATATAAAAAGCTACAT 59.299 40.000 0.00 0.00 0.00 2.29
608 609 5.700832 TGCGAGGGATATAAAAAGCTACATG 59.299 40.000 0.00 0.00 0.00 3.21
609 610 5.701290 GCGAGGGATATAAAAAGCTACATGT 59.299 40.000 2.69 2.69 0.00 3.21
610 611 6.347725 GCGAGGGATATAAAAAGCTACATGTG 60.348 42.308 9.11 0.00 0.00 3.21
611 612 6.347725 CGAGGGATATAAAAAGCTACATGTGC 60.348 42.308 9.11 10.27 0.00 4.57
612 613 6.605119 AGGGATATAAAAAGCTACATGTGCT 58.395 36.000 9.11 12.48 43.32 4.40
613 614 6.712547 AGGGATATAAAAAGCTACATGTGCTC 59.287 38.462 18.81 4.86 40.22 4.26
614 615 6.347725 GGGATATAAAAAGCTACATGTGCTCG 60.348 42.308 18.81 3.33 40.22 5.03
615 616 6.423905 GGATATAAAAAGCTACATGTGCTCGA 59.576 38.462 18.81 8.58 40.22 4.04
616 617 3.813529 AAAAAGCTACATGTGCTCGAC 57.186 42.857 18.81 0.00 40.22 4.20
617 618 1.726853 AAAGCTACATGTGCTCGACC 58.273 50.000 18.81 0.00 40.22 4.79
618 619 0.898320 AAGCTACATGTGCTCGACCT 59.102 50.000 18.81 4.96 40.22 3.85
619 620 0.457851 AGCTACATGTGCTCGACCTC 59.542 55.000 9.11 0.00 35.67 3.85
620 621 0.528684 GCTACATGTGCTCGACCTCC 60.529 60.000 9.11 0.00 0.00 4.30
621 622 0.817654 CTACATGTGCTCGACCTCCA 59.182 55.000 9.11 0.00 0.00 3.86
622 623 1.204704 CTACATGTGCTCGACCTCCAA 59.795 52.381 9.11 0.00 0.00 3.53
623 624 0.396435 ACATGTGCTCGACCTCCAAA 59.604 50.000 0.00 0.00 0.00 3.28
624 625 1.202758 ACATGTGCTCGACCTCCAAAA 60.203 47.619 0.00 0.00 0.00 2.44
625 626 1.197721 CATGTGCTCGACCTCCAAAAC 59.802 52.381 0.00 0.00 0.00 2.43
626 627 0.878523 TGTGCTCGACCTCCAAAACG 60.879 55.000 0.00 0.00 0.00 3.60
627 628 0.878961 GTGCTCGACCTCCAAAACGT 60.879 55.000 0.00 0.00 0.00 3.99
628 629 0.179067 TGCTCGACCTCCAAAACGTT 60.179 50.000 0.00 0.00 0.00 3.99
629 630 0.942252 GCTCGACCTCCAAAACGTTT 59.058 50.000 7.96 7.96 0.00 3.60
630 631 1.332686 GCTCGACCTCCAAAACGTTTT 59.667 47.619 20.26 20.26 0.00 2.43
631 632 2.223409 GCTCGACCTCCAAAACGTTTTT 60.223 45.455 23.14 9.04 0.00 1.94
651 652 6.885952 TTTTTCGTCCAGATATCCAAAACA 57.114 33.333 0.00 0.00 0.00 2.83
652 653 6.885952 TTTTCGTCCAGATATCCAAAACAA 57.114 33.333 0.00 0.00 0.00 2.83
653 654 6.885952 TTTCGTCCAGATATCCAAAACAAA 57.114 33.333 0.00 0.00 0.00 2.83
654 655 7.461182 TTTCGTCCAGATATCCAAAACAAAT 57.539 32.000 0.00 0.00 0.00 2.32
655 656 6.677781 TCGTCCAGATATCCAAAACAAATC 57.322 37.500 0.00 0.00 0.00 2.17
656 657 5.588648 TCGTCCAGATATCCAAAACAAATCC 59.411 40.000 0.00 0.00 0.00 3.01
657 658 5.221048 CGTCCAGATATCCAAAACAAATCCC 60.221 44.000 0.00 0.00 0.00 3.85
658 659 5.656416 GTCCAGATATCCAAAACAAATCCCA 59.344 40.000 0.00 0.00 0.00 4.37
659 660 6.154363 GTCCAGATATCCAAAACAAATCCCAA 59.846 38.462 0.00 0.00 0.00 4.12
660 661 6.902416 TCCAGATATCCAAAACAAATCCCAAT 59.098 34.615 0.00 0.00 0.00 3.16
661 662 8.064389 TCCAGATATCCAAAACAAATCCCAATA 58.936 33.333 0.00 0.00 0.00 1.90
662 663 8.873144 CCAGATATCCAAAACAAATCCCAATAT 58.127 33.333 0.00 0.00 0.00 1.28
667 668 7.446001 TCCAAAACAAATCCCAATATTTTGC 57.554 32.000 0.00 0.00 36.28 3.68
668 669 6.432472 TCCAAAACAAATCCCAATATTTTGCC 59.568 34.615 0.00 0.00 36.28 4.52
669 670 6.208204 CCAAAACAAATCCCAATATTTTGCCA 59.792 34.615 0.00 0.00 36.28 4.92
670 671 6.816134 AAACAAATCCCAATATTTTGCCAC 57.184 33.333 0.00 0.00 34.47 5.01
671 672 4.502962 ACAAATCCCAATATTTTGCCACG 58.497 39.130 0.00 0.00 34.47 4.94
672 673 4.020662 ACAAATCCCAATATTTTGCCACGT 60.021 37.500 0.00 0.00 34.47 4.49
673 674 4.385358 AATCCCAATATTTTGCCACGTC 57.615 40.909 0.00 0.00 0.00 4.34
674 675 2.796557 TCCCAATATTTTGCCACGTCA 58.203 42.857 0.00 0.00 0.00 4.35
675 676 2.490115 TCCCAATATTTTGCCACGTCAC 59.510 45.455 0.00 0.00 0.00 3.67
676 677 2.416701 CCCAATATTTTGCCACGTCACC 60.417 50.000 0.00 0.00 0.00 4.02
677 678 2.416701 CCAATATTTTGCCACGTCACCC 60.417 50.000 0.00 0.00 0.00 4.61
678 679 1.470051 ATATTTTGCCACGTCACCCC 58.530 50.000 0.00 0.00 0.00 4.95
679 680 0.402504 TATTTTGCCACGTCACCCCT 59.597 50.000 0.00 0.00 0.00 4.79
680 681 1.178534 ATTTTGCCACGTCACCCCTG 61.179 55.000 0.00 0.00 0.00 4.45
681 682 4.947147 TTGCCACGTCACCCCTGC 62.947 66.667 0.00 0.00 0.00 4.85
684 685 3.625897 CCACGTCACCCCTGCAGA 61.626 66.667 17.39 0.00 0.00 4.26
685 686 2.047844 CACGTCACCCCTGCAGAG 60.048 66.667 17.39 8.86 0.00 3.35
686 687 2.203640 ACGTCACCCCTGCAGAGA 60.204 61.111 17.39 4.61 0.00 3.10
687 688 1.610673 ACGTCACCCCTGCAGAGAT 60.611 57.895 17.39 0.00 0.00 2.75
688 689 1.153489 CGTCACCCCTGCAGAGATG 60.153 63.158 17.39 9.95 0.00 2.90
689 690 1.222936 GTCACCCCTGCAGAGATGG 59.777 63.158 17.39 12.32 0.00 3.51
690 691 2.124403 CACCCCTGCAGAGATGGC 60.124 66.667 17.39 0.00 0.00 4.40
691 692 2.611800 ACCCCTGCAGAGATGGCA 60.612 61.111 17.39 0.00 39.32 4.92
692 693 2.124403 CCCCTGCAGAGATGGCAC 60.124 66.667 17.39 0.00 36.11 5.01
693 694 2.513204 CCCTGCAGAGATGGCACG 60.513 66.667 17.39 0.00 36.11 5.34
694 695 2.267006 CCTGCAGAGATGGCACGT 59.733 61.111 17.39 0.00 36.11 4.49
695 696 1.812922 CCTGCAGAGATGGCACGTC 60.813 63.158 17.39 0.00 36.11 4.34
696 697 1.079612 CTGCAGAGATGGCACGTCA 60.080 57.895 8.42 0.00 36.11 4.35
697 698 0.671472 CTGCAGAGATGGCACGTCAA 60.671 55.000 8.42 0.00 36.11 3.18
698 699 0.950555 TGCAGAGATGGCACGTCAAC 60.951 55.000 0.00 0.00 36.11 3.18
699 700 1.639298 GCAGAGATGGCACGTCAACC 61.639 60.000 0.00 0.00 0.00 3.77
700 701 0.320683 CAGAGATGGCACGTCAACCA 60.321 55.000 4.09 4.09 41.06 3.67
701 702 0.036952 AGAGATGGCACGTCAACCAG 60.037 55.000 7.48 0.00 39.88 4.00
702 703 0.037326 GAGATGGCACGTCAACCAGA 60.037 55.000 7.48 0.00 39.88 3.86
703 704 0.320771 AGATGGCACGTCAACCAGAC 60.321 55.000 7.48 4.75 44.02 3.51
715 716 5.035784 GTCAACCAGACAGAAAATAGCAC 57.964 43.478 0.00 0.00 46.77 4.40
716 717 4.515191 GTCAACCAGACAGAAAATAGCACA 59.485 41.667 0.00 0.00 46.77 4.57
717 718 4.515191 TCAACCAGACAGAAAATAGCACAC 59.485 41.667 0.00 0.00 0.00 3.82
718 719 3.067106 ACCAGACAGAAAATAGCACACG 58.933 45.455 0.00 0.00 0.00 4.49
719 720 2.159653 CCAGACAGAAAATAGCACACGC 60.160 50.000 0.00 0.00 38.99 5.34
735 736 4.895854 GCTTTTGCGTCCATGCAT 57.104 50.000 0.00 0.00 45.78 3.96
736 737 2.365823 GCTTTTGCGTCCATGCATG 58.634 52.632 20.19 20.19 45.78 4.06
737 738 1.689352 GCTTTTGCGTCCATGCATGC 61.689 55.000 21.69 11.82 45.78 4.06
738 739 0.388778 CTTTTGCGTCCATGCATGCA 60.389 50.000 25.04 25.04 45.78 3.96
739 740 0.246910 TTTTGCGTCCATGCATGCAT 59.753 45.000 27.46 27.46 45.78 3.96
764 765 6.166982 GGATGGATCCTAAGACTATTTTCCG 58.833 44.000 14.23 0.00 43.73 4.30
765 766 6.014499 GGATGGATCCTAAGACTATTTTCCGA 60.014 42.308 14.23 0.00 43.73 4.55
766 767 6.801718 TGGATCCTAAGACTATTTTCCGAA 57.198 37.500 14.23 0.00 0.00 4.30
767 768 6.817184 TGGATCCTAAGACTATTTTCCGAAG 58.183 40.000 14.23 0.00 0.00 3.79
768 769 6.610020 TGGATCCTAAGACTATTTTCCGAAGA 59.390 38.462 14.23 0.00 0.00 2.87
769 770 7.125204 TGGATCCTAAGACTATTTTCCGAAGAA 59.875 37.037 14.23 0.00 0.00 2.52
770 771 7.654116 GGATCCTAAGACTATTTTCCGAAGAAG 59.346 40.741 3.84 0.00 32.35 2.85
771 772 7.713734 TCCTAAGACTATTTTCCGAAGAAGA 57.286 36.000 0.00 0.00 32.35 2.87
772 773 8.307582 TCCTAAGACTATTTTCCGAAGAAGAT 57.692 34.615 0.00 0.00 32.35 2.40
773 774 8.198109 TCCTAAGACTATTTTCCGAAGAAGATG 58.802 37.037 0.00 0.00 32.35 2.90
774 775 8.198109 CCTAAGACTATTTTCCGAAGAAGATGA 58.802 37.037 0.00 0.00 32.35 2.92
775 776 9.587772 CTAAGACTATTTTCCGAAGAAGATGAA 57.412 33.333 0.00 0.00 32.35 2.57
776 777 7.835634 AGACTATTTTCCGAAGAAGATGAAC 57.164 36.000 0.00 0.00 32.35 3.18
777 778 7.616313 AGACTATTTTCCGAAGAAGATGAACT 58.384 34.615 0.00 0.00 32.35 3.01
778 779 7.547370 AGACTATTTTCCGAAGAAGATGAACTG 59.453 37.037 0.00 0.00 32.35 3.16
779 780 7.386851 ACTATTTTCCGAAGAAGATGAACTGA 58.613 34.615 0.00 0.00 32.35 3.41
780 781 7.878127 ACTATTTTCCGAAGAAGATGAACTGAA 59.122 33.333 0.00 0.00 32.35 3.02
781 782 5.924475 TTTCCGAAGAAGATGAACTGAAC 57.076 39.130 0.00 0.00 32.35 3.18
782 783 4.873746 TCCGAAGAAGATGAACTGAACT 57.126 40.909 0.00 0.00 0.00 3.01
783 784 5.215252 TCCGAAGAAGATGAACTGAACTT 57.785 39.130 0.00 0.00 0.00 2.66
784 785 5.611374 TCCGAAGAAGATGAACTGAACTTT 58.389 37.500 0.00 0.00 0.00 2.66
785 786 6.055588 TCCGAAGAAGATGAACTGAACTTTT 58.944 36.000 0.00 0.00 0.00 2.27
786 787 6.542370 TCCGAAGAAGATGAACTGAACTTTTT 59.458 34.615 0.00 0.00 0.00 1.94
959 972 4.172232 CCCGATCCCTCCCTCCCA 62.172 72.222 0.00 0.00 0.00 4.37
978 1002 2.425592 CCCGCTTGTGACTGACCA 59.574 61.111 0.00 0.00 0.00 4.02
1392 1430 3.036429 GCTGACCAAGAGCCCCGAT 62.036 63.158 0.00 0.00 0.00 4.18
1393 1431 1.144936 CTGACCAAGAGCCCCGATC 59.855 63.158 0.00 0.00 0.00 3.69
1582 1620 1.131303 ACCCGAGAACCCATGAACCA 61.131 55.000 0.00 0.00 0.00 3.67
1596 1635 4.509663 CCATGAACCACATCCCATCCATAT 60.510 45.833 0.00 0.00 37.07 1.78
1597 1636 5.281141 CCATGAACCACATCCCATCCATATA 60.281 44.000 0.00 0.00 37.07 0.86
1609 1648 4.097135 CCCATCCATATAGTAGTCTCGCTG 59.903 50.000 0.00 0.00 0.00 5.18
1655 1700 2.881513 TCATCTCATGACTCTCCTACGC 59.118 50.000 0.00 0.00 33.59 4.42
1656 1701 1.681538 TCTCATGACTCTCCTACGCC 58.318 55.000 0.00 0.00 0.00 5.68
1941 1986 4.721776 TGGAGGTGATTCAGCCTTTATAGT 59.278 41.667 12.07 0.00 34.81 2.12
1951 1996 9.601217 GATTCAGCCTTTATAGTCTTTCTAACA 57.399 33.333 0.00 0.00 31.94 2.41
2199 2248 2.415512 GCGCCTCGTTCAATAAAGTCTT 59.584 45.455 0.00 0.00 0.00 3.01
2236 2285 0.803768 CTCGGCGGTGACATTGAGAG 60.804 60.000 7.21 0.00 0.00 3.20
2318 2370 1.471119 AGGAGCTTCATCGACGGTTA 58.529 50.000 0.00 0.00 0.00 2.85
2321 2373 2.452105 GAGCTTCATCGACGGTTACTC 58.548 52.381 0.00 0.00 0.00 2.59
2335 2387 2.824341 GGTTACTCCTTCTTCGTCTCCA 59.176 50.000 0.00 0.00 0.00 3.86
2336 2388 3.257624 GGTTACTCCTTCTTCGTCTCCAA 59.742 47.826 0.00 0.00 0.00 3.53
2349 2401 1.746615 CTCCAAGGCGGATGTGGTG 60.747 63.158 0.00 0.00 45.19 4.17
2398 2450 1.269448 CGCAACCAACAATGTTAGGCT 59.731 47.619 12.33 0.00 0.00 4.58
2490 2542 8.160521 TCTCAAGGATTTCGTTGTAATTTTCA 57.839 30.769 11.48 0.00 41.12 2.69
2493 2545 9.405587 TCAAGGATTTCGTTGTAATTTTCATTC 57.594 29.630 11.48 0.00 41.12 2.67
2519 2571 5.105554 TGTTGAGGTGCTTTGTATTGTTTGT 60.106 36.000 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 2.408704 ACGCGACAGAGAAAAAGATTCG 59.591 45.455 15.93 0.00 0.00 3.34
85 86 3.307691 CCTTAGTTGGACTCCTCATGCAA 60.308 47.826 0.00 0.00 0.00 4.08
123 124 9.385902 CATCTTGTAAATTGAGTAGTTTGTGTG 57.614 33.333 0.00 0.00 0.00 3.82
222 223 1.895798 TGTCCAGCGAAGATCAAGAGT 59.104 47.619 0.00 0.00 0.00 3.24
321 322 0.179067 TTGTCGCCTTTGTCGTCCTT 60.179 50.000 0.00 0.00 0.00 3.36
334 335 2.064014 GGTTGTAGTACCAGTTGTCGC 58.936 52.381 0.00 0.00 38.12 5.19
399 400 8.289618 CACATCCTCCATTTTAATATAACACCG 58.710 37.037 0.00 0.00 0.00 4.94
428 429 6.956435 AGCATGACTAATACCTCATCCTCATA 59.044 38.462 0.00 0.00 0.00 2.15
429 430 5.784390 AGCATGACTAATACCTCATCCTCAT 59.216 40.000 0.00 0.00 0.00 2.90
468 469 1.276421 GCTAAAGACCTCAGCCTCACA 59.724 52.381 0.00 0.00 0.00 3.58
469 470 2.017138 GCTAAAGACCTCAGCCTCAC 57.983 55.000 0.00 0.00 0.00 3.51
559 560 0.955919 GACGAAGCCACTTTGGGGAG 60.956 60.000 0.00 0.00 38.19 4.30
560 561 1.072505 GACGAAGCCACTTTGGGGA 59.927 57.895 0.00 0.00 38.19 4.81
561 562 2.325082 CGACGAAGCCACTTTGGGG 61.325 63.158 0.00 0.00 38.19 4.96
562 563 2.325082 CCGACGAAGCCACTTTGGG 61.325 63.158 0.00 0.00 38.19 4.12
563 564 2.325082 CCCGACGAAGCCACTTTGG 61.325 63.158 0.00 0.00 41.55 3.28
564 565 1.597027 ACCCGACGAAGCCACTTTG 60.597 57.895 0.00 0.00 0.00 2.77
565 566 1.597027 CACCCGACGAAGCCACTTT 60.597 57.895 0.00 0.00 0.00 2.66
566 567 2.030562 CACCCGACGAAGCCACTT 59.969 61.111 0.00 0.00 0.00 3.16
567 568 3.231736 ACACCCGACGAAGCCACT 61.232 61.111 0.00 0.00 0.00 4.00
568 569 3.041940 CACACCCGACGAAGCCAC 61.042 66.667 0.00 0.00 0.00 5.01
569 570 4.980805 GCACACCCGACGAAGCCA 62.981 66.667 0.00 0.00 0.00 4.75
572 573 2.805353 CTCGCACACCCGACGAAG 60.805 66.667 0.00 0.00 35.07 3.79
573 574 4.351938 CCTCGCACACCCGACGAA 62.352 66.667 0.00 0.00 35.07 3.85
576 577 1.745320 ATATCCCTCGCACACCCGAC 61.745 60.000 0.00 0.00 33.12 4.79
577 578 0.178984 TATATCCCTCGCACACCCGA 60.179 55.000 0.00 0.00 35.68 5.14
578 579 0.677288 TTATATCCCTCGCACACCCG 59.323 55.000 0.00 0.00 0.00 5.28
579 580 2.922740 TTTATATCCCTCGCACACCC 57.077 50.000 0.00 0.00 0.00 4.61
580 581 3.003378 GCTTTTTATATCCCTCGCACACC 59.997 47.826 0.00 0.00 0.00 4.16
581 582 3.877508 AGCTTTTTATATCCCTCGCACAC 59.122 43.478 0.00 0.00 0.00 3.82
582 583 4.150897 AGCTTTTTATATCCCTCGCACA 57.849 40.909 0.00 0.00 0.00 4.57
583 584 5.054477 TGTAGCTTTTTATATCCCTCGCAC 58.946 41.667 0.00 0.00 0.00 5.34
584 585 5.284861 TGTAGCTTTTTATATCCCTCGCA 57.715 39.130 0.00 0.00 0.00 5.10
585 586 5.701290 ACATGTAGCTTTTTATATCCCTCGC 59.299 40.000 0.00 0.00 0.00 5.03
586 587 6.347725 GCACATGTAGCTTTTTATATCCCTCG 60.348 42.308 0.00 0.00 0.00 4.63
587 588 6.712547 AGCACATGTAGCTTTTTATATCCCTC 59.287 38.462 14.55 0.00 39.87 4.30
588 589 6.605119 AGCACATGTAGCTTTTTATATCCCT 58.395 36.000 14.55 0.00 39.87 4.20
589 590 6.347725 CGAGCACATGTAGCTTTTTATATCCC 60.348 42.308 19.31 6.35 43.58 3.85
590 591 6.423905 TCGAGCACATGTAGCTTTTTATATCC 59.576 38.462 19.31 6.88 43.58 2.59
591 592 7.284351 GTCGAGCACATGTAGCTTTTTATATC 58.716 38.462 19.31 7.58 43.58 1.63
592 593 6.202954 GGTCGAGCACATGTAGCTTTTTATAT 59.797 38.462 19.31 0.83 43.58 0.86
593 594 5.522460 GGTCGAGCACATGTAGCTTTTTATA 59.478 40.000 19.31 4.64 43.58 0.98
594 595 4.332819 GGTCGAGCACATGTAGCTTTTTAT 59.667 41.667 19.31 2.00 43.58 1.40
595 596 3.682858 GGTCGAGCACATGTAGCTTTTTA 59.317 43.478 19.31 7.19 43.58 1.52
596 597 2.484264 GGTCGAGCACATGTAGCTTTTT 59.516 45.455 19.31 2.88 43.58 1.94
597 598 2.076863 GGTCGAGCACATGTAGCTTTT 58.923 47.619 19.31 3.18 43.58 2.27
598 599 1.276421 AGGTCGAGCACATGTAGCTTT 59.724 47.619 18.15 3.76 43.58 3.51
599 600 0.898320 AGGTCGAGCACATGTAGCTT 59.102 50.000 18.15 7.66 43.58 3.74
600 601 0.457851 GAGGTCGAGCACATGTAGCT 59.542 55.000 18.15 18.66 46.82 3.32
601 602 0.528684 GGAGGTCGAGCACATGTAGC 60.529 60.000 18.15 5.03 0.00 3.58
602 603 0.817654 TGGAGGTCGAGCACATGTAG 59.182 55.000 18.15 0.00 0.00 2.74
603 604 1.262417 TTGGAGGTCGAGCACATGTA 58.738 50.000 18.15 0.00 0.00 2.29
604 605 0.396435 TTTGGAGGTCGAGCACATGT 59.604 50.000 18.15 0.00 0.00 3.21
605 606 1.197721 GTTTTGGAGGTCGAGCACATG 59.802 52.381 18.15 0.00 0.00 3.21
606 607 1.523758 GTTTTGGAGGTCGAGCACAT 58.476 50.000 18.15 0.00 0.00 3.21
607 608 0.878523 CGTTTTGGAGGTCGAGCACA 60.879 55.000 18.15 12.45 0.00 4.57
608 609 0.878961 ACGTTTTGGAGGTCGAGCAC 60.879 55.000 18.15 10.73 0.00 4.40
609 610 0.179067 AACGTTTTGGAGGTCGAGCA 60.179 50.000 18.15 0.00 0.00 4.26
610 611 0.942252 AAACGTTTTGGAGGTCGAGC 59.058 50.000 7.96 6.48 0.00 5.03
611 612 3.685836 AAAAACGTTTTGGAGGTCGAG 57.314 42.857 25.83 0.00 0.00 4.04
628 629 6.885952 TGTTTTGGATATCTGGACGAAAAA 57.114 33.333 2.05 0.00 0.00 1.94
629 630 6.885952 TTGTTTTGGATATCTGGACGAAAA 57.114 33.333 2.05 0.00 0.00 2.29
630 631 6.885952 TTTGTTTTGGATATCTGGACGAAA 57.114 33.333 2.05 0.00 0.00 3.46
631 632 6.094881 GGATTTGTTTTGGATATCTGGACGAA 59.905 38.462 2.05 4.00 0.00 3.85
632 633 5.588648 GGATTTGTTTTGGATATCTGGACGA 59.411 40.000 2.05 0.00 0.00 4.20
633 634 5.221048 GGGATTTGTTTTGGATATCTGGACG 60.221 44.000 2.05 0.00 0.00 4.79
634 635 5.656416 TGGGATTTGTTTTGGATATCTGGAC 59.344 40.000 2.05 0.00 0.00 4.02
635 636 5.836705 TGGGATTTGTTTTGGATATCTGGA 58.163 37.500 2.05 0.00 0.00 3.86
636 637 6.543430 TTGGGATTTGTTTTGGATATCTGG 57.457 37.500 2.05 0.00 0.00 3.86
641 642 9.171877 GCAAAATATTGGGATTTGTTTTGGATA 57.828 29.630 9.53 0.00 37.16 2.59
642 643 7.122501 GGCAAAATATTGGGATTTGTTTTGGAT 59.877 33.333 9.53 0.00 37.16 3.41
643 644 6.432472 GGCAAAATATTGGGATTTGTTTTGGA 59.568 34.615 9.53 0.00 37.16 3.53
644 645 6.208204 TGGCAAAATATTGGGATTTGTTTTGG 59.792 34.615 9.53 0.00 37.16 3.28
645 646 7.083230 GTGGCAAAATATTGGGATTTGTTTTG 58.917 34.615 0.00 0.00 38.74 2.44
646 647 6.072783 CGTGGCAAAATATTGGGATTTGTTTT 60.073 34.615 0.00 0.00 36.63 2.43
647 648 5.411053 CGTGGCAAAATATTGGGATTTGTTT 59.589 36.000 0.00 0.00 36.63 2.83
648 649 4.934602 CGTGGCAAAATATTGGGATTTGTT 59.065 37.500 0.00 0.00 36.63 2.83
649 650 4.020662 ACGTGGCAAAATATTGGGATTTGT 60.021 37.500 0.00 0.00 36.63 2.83
650 651 4.502962 ACGTGGCAAAATATTGGGATTTG 58.497 39.130 0.00 0.00 37.02 2.32
651 652 4.221703 TGACGTGGCAAAATATTGGGATTT 59.778 37.500 0.00 0.00 37.02 2.17
652 653 3.766591 TGACGTGGCAAAATATTGGGATT 59.233 39.130 0.00 0.00 37.02 3.01
653 654 3.130340 GTGACGTGGCAAAATATTGGGAT 59.870 43.478 0.00 0.00 37.02 3.85
654 655 2.490115 GTGACGTGGCAAAATATTGGGA 59.510 45.455 0.00 0.00 37.02 4.37
655 656 2.416701 GGTGACGTGGCAAAATATTGGG 60.417 50.000 0.00 0.00 37.02 4.12
656 657 2.416701 GGGTGACGTGGCAAAATATTGG 60.417 50.000 0.00 0.00 37.02 3.16
657 658 2.416701 GGGGTGACGTGGCAAAATATTG 60.417 50.000 0.00 0.00 39.65 1.90
658 659 1.822371 GGGGTGACGTGGCAAAATATT 59.178 47.619 0.00 0.00 0.00 1.28
659 660 1.005450 AGGGGTGACGTGGCAAAATAT 59.995 47.619 0.00 0.00 0.00 1.28
660 661 0.402504 AGGGGTGACGTGGCAAAATA 59.597 50.000 0.00 0.00 0.00 1.40
661 662 1.152830 AGGGGTGACGTGGCAAAAT 59.847 52.632 0.00 0.00 0.00 1.82
662 663 1.826054 CAGGGGTGACGTGGCAAAA 60.826 57.895 0.00 0.00 0.00 2.44
663 664 2.203280 CAGGGGTGACGTGGCAAA 60.203 61.111 0.00 0.00 0.00 3.68
664 665 4.947147 GCAGGGGTGACGTGGCAA 62.947 66.667 0.00 0.00 35.55 4.52
667 668 3.596066 CTCTGCAGGGGTGACGTGG 62.596 68.421 15.13 0.00 35.55 4.94
668 669 1.892819 ATCTCTGCAGGGGTGACGTG 61.893 60.000 15.13 0.00 37.99 4.49
669 670 1.610673 ATCTCTGCAGGGGTGACGT 60.611 57.895 15.13 0.00 0.00 4.34
670 671 1.153489 CATCTCTGCAGGGGTGACG 60.153 63.158 23.17 0.00 0.00 4.35
671 672 1.222936 CCATCTCTGCAGGGGTGAC 59.777 63.158 28.95 0.00 0.00 3.67
672 673 2.673200 GCCATCTCTGCAGGGGTGA 61.673 63.158 28.95 14.27 0.00 4.02
673 674 2.124403 GCCATCTCTGCAGGGGTG 60.124 66.667 20.67 20.67 0.00 4.61
674 675 2.611800 TGCCATCTCTGCAGGGGT 60.612 61.111 15.13 2.42 34.05 4.95
675 676 2.124403 GTGCCATCTCTGCAGGGG 60.124 66.667 15.13 11.63 39.87 4.79
676 677 2.513204 CGTGCCATCTCTGCAGGG 60.513 66.667 15.13 11.57 39.87 4.45
677 678 1.812922 GACGTGCCATCTCTGCAGG 60.813 63.158 15.13 4.77 46.86 4.85
678 679 0.671472 TTGACGTGCCATCTCTGCAG 60.671 55.000 7.63 7.63 39.87 4.41
679 680 0.950555 GTTGACGTGCCATCTCTGCA 60.951 55.000 0.00 0.00 36.12 4.41
680 681 1.639298 GGTTGACGTGCCATCTCTGC 61.639 60.000 0.00 0.00 0.00 4.26
681 682 0.320683 TGGTTGACGTGCCATCTCTG 60.321 55.000 0.00 0.00 0.00 3.35
682 683 0.036952 CTGGTTGACGTGCCATCTCT 60.037 55.000 0.00 0.00 33.84 3.10
683 684 0.037326 TCTGGTTGACGTGCCATCTC 60.037 55.000 0.00 0.00 33.84 2.75
684 685 0.320771 GTCTGGTTGACGTGCCATCT 60.321 55.000 0.00 0.00 35.81 2.90
685 686 2.162716 GTCTGGTTGACGTGCCATC 58.837 57.895 0.00 0.00 35.81 3.51
686 687 4.379174 GTCTGGTTGACGTGCCAT 57.621 55.556 0.00 0.00 35.81 4.40
693 694 4.515191 TGTGCTATTTTCTGTCTGGTTGAC 59.485 41.667 0.00 0.00 45.54 3.18
694 695 4.515191 GTGTGCTATTTTCTGTCTGGTTGA 59.485 41.667 0.00 0.00 0.00 3.18
695 696 4.611355 CGTGTGCTATTTTCTGTCTGGTTG 60.611 45.833 0.00 0.00 0.00 3.77
696 697 3.498397 CGTGTGCTATTTTCTGTCTGGTT 59.502 43.478 0.00 0.00 0.00 3.67
697 698 3.067106 CGTGTGCTATTTTCTGTCTGGT 58.933 45.455 0.00 0.00 0.00 4.00
698 699 2.159653 GCGTGTGCTATTTTCTGTCTGG 60.160 50.000 0.00 0.00 38.39 3.86
699 700 3.109230 GCGTGTGCTATTTTCTGTCTG 57.891 47.619 0.00 0.00 38.39 3.51
712 713 2.725815 GGACGCAAAAGCGTGTGC 60.726 61.111 20.72 4.51 46.81 4.57
713 714 0.998226 CATGGACGCAAAAGCGTGTG 60.998 55.000 20.72 11.79 46.81 3.82
714 715 1.282570 CATGGACGCAAAAGCGTGT 59.717 52.632 20.72 3.45 46.81 4.49
715 716 2.082366 GCATGGACGCAAAAGCGTG 61.082 57.895 20.72 7.02 46.81 5.34
716 717 1.865788 ATGCATGGACGCAAAAGCGT 61.866 50.000 15.81 15.81 46.87 5.07
717 718 1.153978 ATGCATGGACGCAAAAGCG 60.154 52.632 8.45 8.45 46.87 4.68
718 719 1.689352 GCATGCATGGACGCAAAAGC 61.689 55.000 27.34 5.70 46.87 3.51
719 720 0.388778 TGCATGCATGGACGCAAAAG 60.389 50.000 27.34 0.00 46.87 2.27
720 721 0.246910 ATGCATGCATGGACGCAAAA 59.753 45.000 31.74 0.00 46.87 2.44
721 722 0.458716 CATGCATGCATGGACGCAAA 60.459 50.000 40.90 10.93 46.87 3.68
722 723 1.139947 CATGCATGCATGGACGCAA 59.860 52.632 40.90 11.68 46.87 4.85
730 731 1.557099 GGATCCATCCATGCATGCAT 58.443 50.000 27.46 27.46 46.38 3.96
731 732 3.045518 GGATCCATCCATGCATGCA 57.954 52.632 25.04 25.04 46.38 3.96
741 742 6.994221 TCGGAAAATAGTCTTAGGATCCATC 58.006 40.000 15.82 0.00 0.00 3.51
742 743 6.996180 TCGGAAAATAGTCTTAGGATCCAT 57.004 37.500 15.82 1.47 0.00 3.41
743 744 6.610020 TCTTCGGAAAATAGTCTTAGGATCCA 59.390 38.462 15.82 0.00 0.00 3.41
744 745 7.052142 TCTTCGGAAAATAGTCTTAGGATCC 57.948 40.000 2.48 2.48 0.00 3.36
745 746 8.414778 TCTTCTTCGGAAAATAGTCTTAGGATC 58.585 37.037 0.00 0.00 33.12 3.36
746 747 8.307582 TCTTCTTCGGAAAATAGTCTTAGGAT 57.692 34.615 0.00 0.00 33.12 3.24
747 748 7.713734 TCTTCTTCGGAAAATAGTCTTAGGA 57.286 36.000 0.00 0.00 33.12 2.94
748 749 8.198109 TCATCTTCTTCGGAAAATAGTCTTAGG 58.802 37.037 0.00 0.00 33.12 2.69
749 750 9.587772 TTCATCTTCTTCGGAAAATAGTCTTAG 57.412 33.333 0.00 0.00 33.12 2.18
750 751 9.367444 GTTCATCTTCTTCGGAAAATAGTCTTA 57.633 33.333 0.00 0.00 33.12 2.10
751 752 8.097662 AGTTCATCTTCTTCGGAAAATAGTCTT 58.902 33.333 0.00 0.00 33.12 3.01
752 753 7.547370 CAGTTCATCTTCTTCGGAAAATAGTCT 59.453 37.037 0.00 0.00 33.12 3.24
753 754 7.545965 TCAGTTCATCTTCTTCGGAAAATAGTC 59.454 37.037 0.00 0.00 33.12 2.59
754 755 7.386851 TCAGTTCATCTTCTTCGGAAAATAGT 58.613 34.615 0.00 0.00 33.12 2.12
755 756 7.834068 TCAGTTCATCTTCTTCGGAAAATAG 57.166 36.000 0.00 0.00 33.12 1.73
756 757 7.878127 AGTTCAGTTCATCTTCTTCGGAAAATA 59.122 33.333 0.00 0.00 33.12 1.40
757 758 6.712547 AGTTCAGTTCATCTTCTTCGGAAAAT 59.287 34.615 0.00 0.00 33.12 1.82
758 759 6.055588 AGTTCAGTTCATCTTCTTCGGAAAA 58.944 36.000 0.00 0.00 33.12 2.29
759 760 5.611374 AGTTCAGTTCATCTTCTTCGGAAA 58.389 37.500 0.00 0.00 33.12 3.13
760 761 5.215252 AGTTCAGTTCATCTTCTTCGGAA 57.785 39.130 0.00 0.00 0.00 4.30
761 762 4.873746 AGTTCAGTTCATCTTCTTCGGA 57.126 40.909 0.00 0.00 0.00 4.55
762 763 5.931441 AAAGTTCAGTTCATCTTCTTCGG 57.069 39.130 0.00 0.00 0.00 4.30
799 800 5.105473 AGCCCATCAAATTTCAGTTCATCTG 60.105 40.000 0.00 0.00 44.85 2.90
959 972 2.031163 GTCAGTCACAAGCGGGCT 59.969 61.111 0.00 0.00 0.00 5.19
978 1002 1.317431 TGTCGGTCAATCGATCGGGT 61.317 55.000 16.41 1.25 46.11 5.28
1026 1050 3.066190 GCCAGCAGCAGCATGGAA 61.066 61.111 18.95 0.00 45.49 3.53
1030 1054 4.816984 GAGGGCCAGCAGCAGCAT 62.817 66.667 6.18 0.00 46.50 3.79
1582 1620 5.888724 CGAGACTACTATATGGATGGGATGT 59.111 44.000 0.00 0.00 0.00 3.06
1596 1635 2.160205 AGCAACACAGCGAGACTACTA 58.840 47.619 0.00 0.00 40.15 1.82
1597 1636 0.962489 AGCAACACAGCGAGACTACT 59.038 50.000 0.00 0.00 40.15 2.57
1609 1648 3.018856 TGATGATGATGGGAAGCAACAC 58.981 45.455 0.00 0.00 0.00 3.32
1779 1824 4.270084 ACTGCACGCATACATTGTACATAC 59.730 41.667 0.00 0.00 0.00 2.39
1990 2037 2.000447 CGATGGTTTTTCCTCCTCGTC 59.000 52.381 0.00 0.00 37.07 4.20
2024 2071 4.329545 GGACCAGCGGCTTCACCA 62.330 66.667 0.00 0.00 39.03 4.17
2102 2150 3.181465 CGATGCCAATCCTAACTACCTGT 60.181 47.826 0.00 0.00 0.00 4.00
2199 2248 2.285368 ATGGGACTGAAGCCGGGA 60.285 61.111 2.18 0.00 0.00 5.14
2236 2285 1.898574 CACACCACTCCCACAAGCC 60.899 63.158 0.00 0.00 0.00 4.35
2318 2370 1.896465 CCTTGGAGACGAAGAAGGAGT 59.104 52.381 0.00 0.00 37.74 3.85
2321 2373 0.737715 CGCCTTGGAGACGAAGAAGG 60.738 60.000 0.00 0.00 38.43 3.46
2335 2387 2.159382 CTAAAACACCACATCCGCCTT 58.841 47.619 0.00 0.00 0.00 4.35
2336 2388 1.349688 TCTAAAACACCACATCCGCCT 59.650 47.619 0.00 0.00 0.00 5.52
2349 2401 0.667184 TCGCCGAACGGGTCTAAAAC 60.667 55.000 15.01 0.00 43.89 2.43
2428 2480 2.214181 CTCCAGACCTTGTCGACGGG 62.214 65.000 20.96 20.96 37.67 5.28
2438 2490 0.969894 CGTCTTCAACCTCCAGACCT 59.030 55.000 0.00 0.00 34.55 3.85
2490 2542 6.040842 ACAATACAAAGCACCTCAACAAGAAT 59.959 34.615 0.00 0.00 0.00 2.40
2493 2545 5.186996 ACAATACAAAGCACCTCAACAAG 57.813 39.130 0.00 0.00 0.00 3.16
2519 2571 8.950007 AAGGACCCTGATATTAAAAGAAACAA 57.050 30.769 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.