Multiple sequence alignment - TraesCS4D01G042600

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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 TraesCS4D01G042600 chr4D 100.000 2710 0 0 1 2710 19886829 19889538 0.000000e+00 5005
1 TraesCS4D01G042600 chr3A 97.160 1796 45 4 825 2615 105559774 105557980 0.000000e+00 3029
2 TraesCS4D01G042600 chr3A 96.392 582 20 1 1 582 105560367 105559787 0.000000e+00 957
3 TraesCS4D01G042600 chr1A 97.101 1794 45 5 825 2612 554479443 554481235 0.000000e+00 3018
4 TraesCS4D01G042600 chr1A 96.410 585 17 2 1 582 554478847 554479430 0.000000e+00 961
5 TraesCS4D01G042600 chr1A 97.030 101 3 0 2610 2710 554481276 554481376 1.290000e-38 171
6 TraesCS4D01G042600 chr1B 96.872 1790 51 5 825 2612 633714164 633715950 0.000000e+00 2990
7 TraesCS4D01G042600 chr1B 95.026 583 22 4 1 582 633713575 633714151 0.000000e+00 909
8 TraesCS4D01G042600 chr1B 98.571 140 2 0 825 964 482960843 482960704 5.790000e-62 248
9 TraesCS4D01G042600 chr1B 98.020 101 2 0 2610 2710 633715991 633716091 2.770000e-40 176
10 TraesCS4D01G042600 chr1D 95.817 1793 65 8 825 2615 51834764 51832980 0.000000e+00 2887
11 TraesCS4D01G042600 chr1D 97.010 1672 44 4 902 2568 254453900 254455570 0.000000e+00 2806
12 TraesCS4D01G042600 chr1D 93.372 1720 98 12 825 2538 243969673 243971382 0.000000e+00 2531
13 TraesCS4D01G042600 chr1D 93.643 582 32 3 1 582 51835353 51834777 0.000000e+00 865
14 TraesCS4D01G042600 chr1D 97.318 261 7 0 571 831 290507669 290507929 6.890000e-121 444
15 TraesCS4D01G042600 chr1D 96.935 261 8 0 571 831 254524276 254524536 3.200000e-119 438
16 TraesCS4D01G042600 chr1D 98.000 100 2 0 2611 2710 254458437 254458536 9.970000e-40 174
17 TraesCS4D01G042600 chr5D 96.727 1711 51 4 906 2612 503310773 503312482 0.000000e+00 2844
18 TraesCS4D01G042600 chr5D 96.944 1669 44 5 906 2568 481592229 481593896 0.000000e+00 2793
19 TraesCS4D01G042600 chr5D 97.217 1617 40 4 1000 2612 503336802 503338417 0.000000e+00 2732
20 TraesCS4D01G042600 chr5D 96.935 261 8 0 571 831 329121902 329121642 3.200000e-119 438
21 TraesCS4D01G042600 chr5D 96.935 261 8 0 571 831 419364494 419364754 3.200000e-119 438
22 TraesCS4D01G042600 chr5D 98.020 101 2 0 2610 2710 109049040 109049140 2.770000e-40 176
23 TraesCS4D01G042600 chr5D 98.020 101 2 0 2610 2710 299973487 299973387 2.770000e-40 176
24 TraesCS4D01G042600 chr5D 98.020 101 2 0 2610 2710 503338458 503338558 2.770000e-40 176
25 TraesCS4D01G042600 chr5D 98.000 100 2 0 2610 2709 329126893 329126794 9.970000e-40 174
26 TraesCS4D01G042600 chrUn 96.735 582 17 2 1 582 388893706 388894285 0.000000e+00 968
27 TraesCS4D01G042600 chrUn 96.048 582 19 2 1 582 53260931 53260354 0.000000e+00 944
28 TraesCS4D01G042600 chrUn 97.318 261 7 0 571 831 93411426 93411166 6.890000e-121 444
29 TraesCS4D01G042600 chrUn 97.318 261 7 0 571 831 453004097 453004357 6.890000e-121 444
30 TraesCS4D01G042600 chrUn 98.020 101 2 0 2610 2710 423338310 423338210 2.770000e-40 176
31 TraesCS4D01G042600 chr7A 96.410 585 17 2 1 582 537846994 537847577 0.000000e+00 961
32 TraesCS4D01G042600 chr7A 97.273 110 3 0 2506 2615 706286307 706286198 1.280000e-43 187
33 TraesCS4D01G042600 chr6B 95.876 582 22 2 1 582 18741677 18741098 0.000000e+00 941
34 TraesCS4D01G042600 chr7B 95.533 582 24 2 1 582 137683010 137683589 0.000000e+00 929
35 TraesCS4D01G042600 chr7B 94.330 194 10 1 825 1018 270062370 270062562 2.040000e-76 296
36 TraesCS4D01G042600 chr6D 97.318 261 7 0 571 831 168249745 168250005 6.890000e-121 444
37 TraesCS4D01G042600 chr2D 97.318 261 7 0 571 831 272795689 272795429 6.890000e-121 444
38 TraesCS4D01G042600 chr2A 97.318 261 7 0 571 831 726910830 726910570 6.890000e-121 444
39 TraesCS4D01G042600 chr7D 98.020 101 2 0 2610 2710 530709283 530709383 2.770000e-40 176


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 TraesCS4D01G042600 chr4D 19886829 19889538 2709 False 5005.000000 5005 100.000000 1 2710 1 chr4D.!!$F1 2709
1 TraesCS4D01G042600 chr3A 105557980 105560367 2387 True 1993.000000 3029 96.776000 1 2615 2 chr3A.!!$R1 2614
2 TraesCS4D01G042600 chr1A 554478847 554481376 2529 False 1383.333333 3018 96.847000 1 2710 3 chr1A.!!$F1 2709
3 TraesCS4D01G042600 chr1B 633713575 633716091 2516 False 1358.333333 2990 96.639333 1 2710 3 chr1B.!!$F1 2709
4 TraesCS4D01G042600 chr1D 243969673 243971382 1709 False 2531.000000 2531 93.372000 825 2538 1 chr1D.!!$F1 1713
5 TraesCS4D01G042600 chr1D 51832980 51835353 2373 True 1876.000000 2887 94.730000 1 2615 2 chr1D.!!$R1 2614
6 TraesCS4D01G042600 chr1D 254453900 254458536 4636 False 1490.000000 2806 97.505000 902 2710 2 chr1D.!!$F4 1808
7 TraesCS4D01G042600 chr5D 503310773 503312482 1709 False 2844.000000 2844 96.727000 906 2612 1 chr5D.!!$F4 1706
8 TraesCS4D01G042600 chr5D 481592229 481593896 1667 False 2793.000000 2793 96.944000 906 2568 1 chr5D.!!$F3 1662
9 TraesCS4D01G042600 chr5D 503336802 503338558 1756 False 1454.000000 2732 97.618500 1000 2710 2 chr5D.!!$F5 1710
10 TraesCS4D01G042600 chrUn 388893706 388894285 579 False 968.000000 968 96.735000 1 582 1 chrUn.!!$F1 581
11 TraesCS4D01G042600 chrUn 53260354 53260931 577 True 944.000000 944 96.048000 1 582 1 chrUn.!!$R1 581
12 TraesCS4D01G042600 chr7A 537846994 537847577 583 False 961.000000 961 96.410000 1 582 1 chr7A.!!$F1 581
13 TraesCS4D01G042600 chr6B 18741098 18741677 579 True 941.000000 941 95.876000 1 582 1 chr6B.!!$R1 581
14 TraesCS4D01G042600 chr7B 137683010 137683589 579 False 929.000000 929 95.533000 1 582 1 chr7B.!!$F1 581

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
721 736 0.172578 AACGCCATCGAATCTCGTCA 59.827 50.0 0.0 0.0 41.35 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2303 2335 1.534729 AAAAGAGCACCCGACCAATC 58.465 50.0 0.0 0.0 0.0 2.67 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
86 87 2.182030 GGAACGAGCAGGACGAGG 59.818 66.667 0.00 0.00 34.70 4.63
195 196 5.357257 AGTTTTCAAGAAACTGCTCGAGTA 58.643 37.500 15.13 8.96 38.88 2.59
202 203 5.269505 AGAAACTGCTCGAGTATTAGCAT 57.730 39.130 15.13 1.00 46.96 3.79
253 254 5.175127 GGTTGAAAGGCTTGAAAGAAAACA 58.825 37.500 0.00 0.00 0.00 2.83
295 297 2.356135 CTGTTGGTACCGGATTCCAAG 58.644 52.381 22.32 12.80 41.09 3.61
337 339 6.040391 CCCACAAGACAAGAACCTTTATTTCA 59.960 38.462 0.00 0.00 0.00 2.69
458 472 5.269554 TGAGACATAAGAACCCCCATTTT 57.730 39.130 0.00 0.00 0.00 1.82
549 564 9.797556 GTTAGAACACTAACAGGTCAAATTTTT 57.202 29.630 13.09 0.00 42.92 1.94
597 612 8.767944 ATATGTAAAATCGCTTTGTCGAAATC 57.232 30.769 0.00 0.00 42.15 2.17
598 613 5.387279 TGTAAAATCGCTTTGTCGAAATCC 58.613 37.500 0.00 0.00 42.15 3.01
599 614 3.487563 AAATCGCTTTGTCGAAATCCC 57.512 42.857 0.00 0.00 42.15 3.85
600 615 2.403252 ATCGCTTTGTCGAAATCCCT 57.597 45.000 0.00 0.00 42.15 4.20
601 616 3.536956 ATCGCTTTGTCGAAATCCCTA 57.463 42.857 0.00 0.00 42.15 3.53
602 617 3.536956 TCGCTTTGTCGAAATCCCTAT 57.463 42.857 0.00 0.00 35.31 2.57
603 618 4.659111 TCGCTTTGTCGAAATCCCTATA 57.341 40.909 0.00 0.00 35.31 1.31
604 619 5.013568 TCGCTTTGTCGAAATCCCTATAA 57.986 39.130 0.00 0.00 35.31 0.98
605 620 5.607477 TCGCTTTGTCGAAATCCCTATAAT 58.393 37.500 0.00 0.00 35.31 1.28
606 621 5.465390 TCGCTTTGTCGAAATCCCTATAATG 59.535 40.000 0.00 0.00 35.31 1.90
607 622 5.465390 CGCTTTGTCGAAATCCCTATAATGA 59.535 40.000 0.00 0.00 0.00 2.57
608 623 6.346919 CGCTTTGTCGAAATCCCTATAATGAG 60.347 42.308 0.00 0.00 0.00 2.90
609 624 6.483640 GCTTTGTCGAAATCCCTATAATGAGT 59.516 38.462 0.00 0.00 0.00 3.41
610 625 7.656137 GCTTTGTCGAAATCCCTATAATGAGTA 59.344 37.037 0.00 0.00 0.00 2.59
611 626 9.197694 CTTTGTCGAAATCCCTATAATGAGTAG 57.802 37.037 0.00 0.00 0.00 2.57
612 627 6.688578 TGTCGAAATCCCTATAATGAGTAGC 58.311 40.000 0.00 0.00 0.00 3.58
613 628 6.266786 TGTCGAAATCCCTATAATGAGTAGCA 59.733 38.462 0.00 0.00 0.00 3.49
614 629 7.039011 TGTCGAAATCCCTATAATGAGTAGCAT 60.039 37.037 0.00 0.00 39.43 3.79
616 631 8.375506 TCGAAATCCCTATAATGAGTAGCATTT 58.624 33.333 0.00 0.00 44.68 2.32
617 632 8.446273 CGAAATCCCTATAATGAGTAGCATTTG 58.554 37.037 0.00 0.00 44.68 2.32
618 633 7.693969 AATCCCTATAATGAGTAGCATTTGC 57.306 36.000 0.00 0.00 44.68 3.68
619 634 5.237815 TCCCTATAATGAGTAGCATTTGCG 58.762 41.667 0.00 0.00 44.68 4.85
620 635 4.393062 CCCTATAATGAGTAGCATTTGCGG 59.607 45.833 0.00 0.00 44.68 5.69
621 636 3.904136 ATAATGAGTAGCATTTGCGGC 57.096 42.857 0.00 0.00 44.68 6.53
622 637 1.755179 AATGAGTAGCATTTGCGGCT 58.245 45.000 0.00 0.00 44.68 5.52
623 638 1.402968 AATGAGTAGCATTTGCGGCTG 59.597 47.619 0.00 0.00 44.68 4.85
624 639 4.400283 AATGAGTAGCATTTGCGGCTGC 62.400 50.000 11.65 11.65 44.68 5.25
625 640 2.328339 GAGTAGCATTTGCGGCTGCC 62.328 60.000 16.57 9.11 43.85 4.85
637 652 3.713936 GGCTGCCGAATAAACCAAC 57.286 52.632 1.35 0.00 0.00 3.77
638 653 1.173913 GGCTGCCGAATAAACCAACT 58.826 50.000 1.35 0.00 0.00 3.16
639 654 1.544246 GGCTGCCGAATAAACCAACTT 59.456 47.619 1.35 0.00 0.00 2.66
640 655 2.029380 GGCTGCCGAATAAACCAACTTT 60.029 45.455 1.35 0.00 0.00 2.66
641 656 3.191791 GGCTGCCGAATAAACCAACTTTA 59.808 43.478 1.35 0.00 0.00 1.85
642 657 4.321378 GGCTGCCGAATAAACCAACTTTAA 60.321 41.667 1.35 0.00 0.00 1.52
643 658 4.857037 GCTGCCGAATAAACCAACTTTAAG 59.143 41.667 0.00 0.00 0.00 1.85
644 659 5.335348 GCTGCCGAATAAACCAACTTTAAGA 60.335 40.000 0.00 0.00 0.00 2.10
645 660 6.625081 GCTGCCGAATAAACCAACTTTAAGAT 60.625 38.462 0.00 0.00 0.00 2.40
646 661 6.616947 TGCCGAATAAACCAACTTTAAGATG 58.383 36.000 0.00 0.00 0.00 2.90
647 662 6.033966 GCCGAATAAACCAACTTTAAGATGG 58.966 40.000 17.90 17.90 43.10 3.51
648 663 6.560711 CCGAATAAACCAACTTTAAGATGGG 58.439 40.000 22.21 11.63 41.91 4.00
649 664 6.376018 CCGAATAAACCAACTTTAAGATGGGA 59.624 38.462 22.21 9.86 41.91 4.37
650 665 7.068226 CCGAATAAACCAACTTTAAGATGGGAT 59.932 37.037 22.21 13.89 41.91 3.85
651 666 9.116067 CGAATAAACCAACTTTAAGATGGGATA 57.884 33.333 22.21 15.30 41.91 2.59
656 671 8.525290 AACCAACTTTAAGATGGGATAAGATG 57.475 34.615 22.21 0.00 41.91 2.90
657 672 6.547510 ACCAACTTTAAGATGGGATAAGATGC 59.452 38.462 22.21 0.00 41.91 3.91
658 673 6.774656 CCAACTTTAAGATGGGATAAGATGCT 59.225 38.462 12.69 0.00 34.82 3.79
659 674 7.040823 CCAACTTTAAGATGGGATAAGATGCTC 60.041 40.741 12.69 0.00 34.82 4.26
660 675 6.226787 ACTTTAAGATGGGATAAGATGCTCG 58.773 40.000 0.00 0.00 0.00 5.03
661 676 6.042093 ACTTTAAGATGGGATAAGATGCTCGA 59.958 38.462 0.00 0.00 0.00 4.04
662 677 6.611613 TTAAGATGGGATAAGATGCTCGAT 57.388 37.500 0.00 0.00 0.00 3.59
663 678 7.718334 TTAAGATGGGATAAGATGCTCGATA 57.282 36.000 0.00 0.00 0.00 2.92
664 679 5.850557 AGATGGGATAAGATGCTCGATAG 57.149 43.478 0.00 0.00 0.00 2.08
665 680 4.648762 AGATGGGATAAGATGCTCGATAGG 59.351 45.833 0.00 0.00 0.00 2.57
666 681 3.099905 TGGGATAAGATGCTCGATAGGG 58.900 50.000 0.00 0.00 42.12 3.53
676 691 2.447244 CTCGATAGGGCATGAGGTTC 57.553 55.000 0.00 0.00 0.00 3.62
677 692 1.688735 CTCGATAGGGCATGAGGTTCA 59.311 52.381 0.00 0.00 0.00 3.18
678 693 1.688735 TCGATAGGGCATGAGGTTCAG 59.311 52.381 0.00 0.00 0.00 3.02
679 694 1.414181 CGATAGGGCATGAGGTTCAGT 59.586 52.381 0.00 0.00 0.00 3.41
680 695 2.628178 CGATAGGGCATGAGGTTCAGTA 59.372 50.000 0.00 0.00 0.00 2.74
681 696 3.259374 CGATAGGGCATGAGGTTCAGTAT 59.741 47.826 0.00 0.00 0.00 2.12
682 697 4.619394 CGATAGGGCATGAGGTTCAGTATC 60.619 50.000 0.00 0.00 0.00 2.24
683 698 2.481441 AGGGCATGAGGTTCAGTATCA 58.519 47.619 0.00 0.00 0.00 2.15
684 699 3.051581 AGGGCATGAGGTTCAGTATCAT 58.948 45.455 0.00 0.00 34.02 2.45
685 700 4.234550 AGGGCATGAGGTTCAGTATCATA 58.765 43.478 0.00 0.00 32.51 2.15
686 701 4.660303 AGGGCATGAGGTTCAGTATCATAA 59.340 41.667 0.00 0.00 32.51 1.90
687 702 4.757149 GGGCATGAGGTTCAGTATCATAAC 59.243 45.833 0.00 0.00 32.51 1.89
688 703 5.368145 GGCATGAGGTTCAGTATCATAACA 58.632 41.667 0.00 0.00 32.51 2.41
689 704 5.468072 GGCATGAGGTTCAGTATCATAACAG 59.532 44.000 0.00 0.00 32.51 3.16
690 705 6.051717 GCATGAGGTTCAGTATCATAACAGT 58.948 40.000 0.00 0.00 32.51 3.55
691 706 6.540189 GCATGAGGTTCAGTATCATAACAGTT 59.460 38.462 0.00 0.00 32.51 3.16
692 707 7.066284 GCATGAGGTTCAGTATCATAACAGTTT 59.934 37.037 0.00 0.00 32.51 2.66
693 708 8.607459 CATGAGGTTCAGTATCATAACAGTTTC 58.393 37.037 0.00 0.00 32.51 2.78
694 709 7.103641 TGAGGTTCAGTATCATAACAGTTTCC 58.896 38.462 0.00 0.00 0.00 3.13
695 710 7.038302 TGAGGTTCAGTATCATAACAGTTTCCT 60.038 37.037 0.00 0.00 0.00 3.36
696 711 7.331791 AGGTTCAGTATCATAACAGTTTCCTC 58.668 38.462 0.00 0.00 0.00 3.71
697 712 7.038302 AGGTTCAGTATCATAACAGTTTCCTCA 60.038 37.037 0.00 0.00 0.00 3.86
698 713 7.770897 GGTTCAGTATCATAACAGTTTCCTCAT 59.229 37.037 0.00 0.00 0.00 2.90
699 714 9.817809 GTTCAGTATCATAACAGTTTCCTCATA 57.182 33.333 0.00 0.00 0.00 2.15
701 716 9.201989 TCAGTATCATAACAGTTTCCTCATAGT 57.798 33.333 0.00 0.00 0.00 2.12
705 720 8.873215 ATCATAACAGTTTCCTCATAGTAACG 57.127 34.615 0.00 0.00 0.00 3.18
706 721 6.755141 TCATAACAGTTTCCTCATAGTAACGC 59.245 38.462 0.00 0.00 0.00 4.84
707 722 3.858247 ACAGTTTCCTCATAGTAACGCC 58.142 45.455 0.00 0.00 0.00 5.68
708 723 3.259876 ACAGTTTCCTCATAGTAACGCCA 59.740 43.478 0.00 0.00 0.00 5.69
709 724 4.081087 ACAGTTTCCTCATAGTAACGCCAT 60.081 41.667 0.00 0.00 0.00 4.40
710 725 4.508124 CAGTTTCCTCATAGTAACGCCATC 59.492 45.833 0.00 0.00 0.00 3.51
711 726 3.364889 TTCCTCATAGTAACGCCATCG 57.635 47.619 0.00 0.00 42.43 3.84
712 727 2.578786 TCCTCATAGTAACGCCATCGA 58.421 47.619 0.00 0.00 39.41 3.59
713 728 2.953648 TCCTCATAGTAACGCCATCGAA 59.046 45.455 0.00 0.00 39.41 3.71
714 729 3.572682 TCCTCATAGTAACGCCATCGAAT 59.427 43.478 0.00 0.00 39.41 3.34
715 730 3.921021 CCTCATAGTAACGCCATCGAATC 59.079 47.826 0.00 0.00 39.41 2.52
716 731 4.321304 CCTCATAGTAACGCCATCGAATCT 60.321 45.833 0.00 0.00 39.41 2.40
717 732 4.795268 TCATAGTAACGCCATCGAATCTC 58.205 43.478 0.00 0.00 39.41 2.75
718 733 2.121116 AGTAACGCCATCGAATCTCG 57.879 50.000 0.00 0.00 42.10 4.04
719 734 1.404391 AGTAACGCCATCGAATCTCGT 59.596 47.619 0.00 0.00 41.35 4.18
720 735 1.779724 GTAACGCCATCGAATCTCGTC 59.220 52.381 0.00 0.00 41.35 4.20
721 736 0.172578 AACGCCATCGAATCTCGTCA 59.827 50.000 0.00 0.00 41.35 4.35
722 737 0.172578 ACGCCATCGAATCTCGTCAA 59.827 50.000 0.00 0.00 41.35 3.18
723 738 0.848942 CGCCATCGAATCTCGTCAAG 59.151 55.000 0.00 0.00 41.35 3.02
724 739 1.533965 CGCCATCGAATCTCGTCAAGA 60.534 52.381 0.00 0.00 41.35 3.02
725 740 2.540515 GCCATCGAATCTCGTCAAGAA 58.459 47.619 0.00 0.00 41.35 2.52
726 741 2.282820 GCCATCGAATCTCGTCAAGAAC 59.717 50.000 0.00 0.00 41.35 3.01
727 742 3.775202 CCATCGAATCTCGTCAAGAACT 58.225 45.455 0.00 0.00 41.35 3.01
728 743 3.794028 CCATCGAATCTCGTCAAGAACTC 59.206 47.826 0.00 0.00 41.35 3.01
729 744 4.439426 CCATCGAATCTCGTCAAGAACTCT 60.439 45.833 0.00 0.00 41.35 3.24
730 745 4.768130 TCGAATCTCGTCAAGAACTCTT 57.232 40.909 0.00 0.00 41.35 2.85
731 746 5.122512 TCGAATCTCGTCAAGAACTCTTT 57.877 39.130 0.00 0.00 41.35 2.52
732 747 4.917998 TCGAATCTCGTCAAGAACTCTTTG 59.082 41.667 0.00 0.00 41.35 2.77
733 748 4.681942 CGAATCTCGTCAAGAACTCTTTGT 59.318 41.667 0.00 0.00 37.61 2.83
734 749 5.387855 CGAATCTCGTCAAGAACTCTTTGTG 60.388 44.000 0.00 0.00 37.61 3.33
735 750 3.123804 TCTCGTCAAGAACTCTTTGTGC 58.876 45.455 0.00 0.00 33.11 4.57
736 751 3.126831 CTCGTCAAGAACTCTTTGTGCT 58.873 45.455 0.00 0.00 35.65 4.40
737 752 3.531538 TCGTCAAGAACTCTTTGTGCTT 58.468 40.909 0.00 0.00 45.17 3.91
738 753 3.938963 TCGTCAAGAACTCTTTGTGCTTT 59.061 39.130 0.00 0.00 41.68 3.51
739 754 4.031028 CGTCAAGAACTCTTTGTGCTTTG 58.969 43.478 0.00 0.00 41.68 2.77
740 755 4.201812 CGTCAAGAACTCTTTGTGCTTTGA 60.202 41.667 0.00 0.00 41.68 2.69
741 756 5.640732 GTCAAGAACTCTTTGTGCTTTGAA 58.359 37.500 0.00 0.00 41.68 2.69
742 757 6.092748 GTCAAGAACTCTTTGTGCTTTGAAA 58.907 36.000 0.00 0.00 41.68 2.69
743 758 6.586082 GTCAAGAACTCTTTGTGCTTTGAAAA 59.414 34.615 0.00 0.00 41.68 2.29
744 759 6.586082 TCAAGAACTCTTTGTGCTTTGAAAAC 59.414 34.615 0.00 0.00 41.68 2.43
745 760 6.024552 AGAACTCTTTGTGCTTTGAAAACA 57.975 33.333 0.00 0.00 27.44 2.83
746 761 6.095377 AGAACTCTTTGTGCTTTGAAAACAG 58.905 36.000 0.00 0.00 27.44 3.16
747 762 5.643379 ACTCTTTGTGCTTTGAAAACAGA 57.357 34.783 0.00 0.00 0.00 3.41
748 763 5.402398 ACTCTTTGTGCTTTGAAAACAGAC 58.598 37.500 0.00 0.00 0.00 3.51
749 764 5.048083 ACTCTTTGTGCTTTGAAAACAGACA 60.048 36.000 0.00 0.00 0.00 3.41
750 765 5.964758 TCTTTGTGCTTTGAAAACAGACAT 58.035 33.333 0.00 0.00 0.00 3.06
751 766 7.094508 TCTTTGTGCTTTGAAAACAGACATA 57.905 32.000 0.00 0.00 0.00 2.29
752 767 7.195646 TCTTTGTGCTTTGAAAACAGACATAG 58.804 34.615 0.00 0.00 0.00 2.23
753 768 5.437289 TGTGCTTTGAAAACAGACATAGG 57.563 39.130 0.00 0.00 0.00 2.57
754 769 4.278170 TGTGCTTTGAAAACAGACATAGGG 59.722 41.667 0.00 0.00 0.00 3.53
755 770 4.518970 GTGCTTTGAAAACAGACATAGGGA 59.481 41.667 0.00 0.00 0.00 4.20
756 771 5.183904 GTGCTTTGAAAACAGACATAGGGAT 59.816 40.000 0.00 0.00 0.00 3.85
757 772 6.374333 GTGCTTTGAAAACAGACATAGGGATA 59.626 38.462 0.00 0.00 0.00 2.59
758 773 6.374333 TGCTTTGAAAACAGACATAGGGATAC 59.626 38.462 0.00 0.00 0.00 2.24
759 774 6.456988 GCTTTGAAAACAGACATAGGGATACG 60.457 42.308 0.00 0.00 37.60 3.06
760 775 5.670792 TGAAAACAGACATAGGGATACGT 57.329 39.130 0.00 0.00 38.83 3.57
761 776 6.045072 TGAAAACAGACATAGGGATACGTT 57.955 37.500 0.00 0.00 35.44 3.99
762 777 6.469410 TGAAAACAGACATAGGGATACGTTT 58.531 36.000 0.00 0.00 35.44 3.60
763 778 6.938030 TGAAAACAGACATAGGGATACGTTTT 59.062 34.615 0.00 0.00 37.85 2.43
764 779 7.446013 TGAAAACAGACATAGGGATACGTTTTT 59.554 33.333 0.00 0.00 35.95 1.94
765 780 6.737254 AACAGACATAGGGATACGTTTTTG 57.263 37.500 0.00 0.00 35.44 2.44
766 781 5.801380 ACAGACATAGGGATACGTTTTTGT 58.199 37.500 0.00 0.00 35.44 2.83
767 782 5.642063 ACAGACATAGGGATACGTTTTTGTG 59.358 40.000 0.00 0.00 35.44 3.33
768 783 4.634443 AGACATAGGGATACGTTTTTGTGC 59.366 41.667 0.00 0.00 35.44 4.57
769 784 4.585879 ACATAGGGATACGTTTTTGTGCT 58.414 39.130 0.00 0.00 35.44 4.40
770 785 5.007682 ACATAGGGATACGTTTTTGTGCTT 58.992 37.500 0.00 0.00 35.44 3.91
771 786 5.475564 ACATAGGGATACGTTTTTGTGCTTT 59.524 36.000 0.00 0.00 35.44 3.51
772 787 4.237349 AGGGATACGTTTTTGTGCTTTG 57.763 40.909 0.00 0.00 37.60 2.77
773 788 3.886505 AGGGATACGTTTTTGTGCTTTGA 59.113 39.130 0.00 0.00 37.60 2.69
774 789 4.339814 AGGGATACGTTTTTGTGCTTTGAA 59.660 37.500 0.00 0.00 37.60 2.69
775 790 5.044558 GGGATACGTTTTTGTGCTTTGAAA 58.955 37.500 0.00 0.00 37.60 2.69
776 791 5.520649 GGGATACGTTTTTGTGCTTTGAAAA 59.479 36.000 0.00 0.00 37.60 2.29
777 792 6.407623 GGATACGTTTTTGTGCTTTGAAAAC 58.592 36.000 0.00 0.00 38.96 2.43
778 793 6.254804 GGATACGTTTTTGTGCTTTGAAAACT 59.745 34.615 0.00 1.13 39.74 2.66
779 794 5.509605 ACGTTTTTGTGCTTTGAAAACTC 57.490 34.783 8.65 0.00 39.74 3.01
780 795 5.227152 ACGTTTTTGTGCTTTGAAAACTCT 58.773 33.333 8.65 0.00 39.74 3.24
781 796 5.344933 ACGTTTTTGTGCTTTGAAAACTCTC 59.655 36.000 8.65 0.00 39.74 3.20
782 797 5.572896 CGTTTTTGTGCTTTGAAAACTCTCT 59.427 36.000 8.65 0.00 39.74 3.10
783 798 6.237306 CGTTTTTGTGCTTTGAAAACTCTCTC 60.237 38.462 8.65 0.00 39.74 3.20
784 799 4.536364 TTGTGCTTTGAAAACTCTCTCG 57.464 40.909 0.00 0.00 0.00 4.04
785 800 3.531538 TGTGCTTTGAAAACTCTCTCGT 58.468 40.909 0.00 0.00 0.00 4.18
786 801 4.689071 TGTGCTTTGAAAACTCTCTCGTA 58.311 39.130 0.00 0.00 0.00 3.43
787 802 4.506654 TGTGCTTTGAAAACTCTCTCGTAC 59.493 41.667 0.00 0.00 0.00 3.67
788 803 4.745620 GTGCTTTGAAAACTCTCTCGTACT 59.254 41.667 0.00 0.00 0.00 2.73
789 804 5.234543 GTGCTTTGAAAACTCTCTCGTACTT 59.765 40.000 0.00 0.00 0.00 2.24
790 805 6.420008 GTGCTTTGAAAACTCTCTCGTACTTA 59.580 38.462 0.00 0.00 0.00 2.24
791 806 6.982141 TGCTTTGAAAACTCTCTCGTACTTAA 59.018 34.615 0.00 0.00 0.00 1.85
792 807 7.169308 TGCTTTGAAAACTCTCTCGTACTTAAG 59.831 37.037 0.00 0.00 0.00 1.85
793 808 7.169476 GCTTTGAAAACTCTCTCGTACTTAAGT 59.831 37.037 13.68 13.68 0.00 2.24
794 809 9.674824 CTTTGAAAACTCTCTCGTACTTAAGTA 57.325 33.333 11.38 11.38 0.00 2.24
795 810 9.674824 TTTGAAAACTCTCTCGTACTTAAGTAG 57.325 33.333 15.68 6.56 0.00 2.57
796 811 8.613060 TGAAAACTCTCTCGTACTTAAGTAGA 57.387 34.615 15.68 10.53 0.00 2.59
797 812 8.502387 TGAAAACTCTCTCGTACTTAAGTAGAC 58.498 37.037 15.68 7.00 0.00 2.59
798 813 6.645700 AACTCTCTCGTACTTAAGTAGACG 57.354 41.667 20.08 20.08 0.00 4.18
799 814 5.960113 ACTCTCTCGTACTTAAGTAGACGA 58.040 41.667 24.65 24.65 31.35 4.20
800 815 6.572519 ACTCTCTCGTACTTAAGTAGACGAT 58.427 40.000 25.80 13.43 31.64 3.73
801 816 6.697019 ACTCTCTCGTACTTAAGTAGACGATC 59.303 42.308 25.80 10.24 31.64 3.69
802 817 5.685068 TCTCTCGTACTTAAGTAGACGATCG 59.315 44.000 25.80 20.37 31.64 3.69
803 818 4.742167 TCTCGTACTTAAGTAGACGATCGG 59.258 45.833 25.80 17.70 31.64 4.18
804 819 4.433615 TCGTACTTAAGTAGACGATCGGT 58.566 43.478 23.24 8.82 28.46 4.69
805 820 4.870426 TCGTACTTAAGTAGACGATCGGTT 59.130 41.667 23.24 9.44 28.46 4.44
806 821 4.960354 CGTACTTAAGTAGACGATCGGTTG 59.040 45.833 21.09 1.61 0.00 3.77
807 822 4.367386 ACTTAAGTAGACGATCGGTTGG 57.633 45.455 20.98 2.23 0.00 3.77
808 823 4.012374 ACTTAAGTAGACGATCGGTTGGA 58.988 43.478 20.98 0.00 0.00 3.53
809 824 4.460382 ACTTAAGTAGACGATCGGTTGGAA 59.540 41.667 20.98 3.77 0.00 3.53
810 825 2.935481 AGTAGACGATCGGTTGGAAC 57.065 50.000 20.98 8.42 0.00 3.62
811 826 2.444421 AGTAGACGATCGGTTGGAACT 58.556 47.619 20.98 10.50 0.00 3.01
812 827 2.824341 AGTAGACGATCGGTTGGAACTT 59.176 45.455 20.98 0.00 0.00 2.66
813 828 2.833631 AGACGATCGGTTGGAACTTT 57.166 45.000 20.98 0.00 0.00 2.66
814 829 2.685100 AGACGATCGGTTGGAACTTTC 58.315 47.619 20.98 3.46 0.00 2.62
1082 1099 8.837099 TTTGGTCATGGTATTAAGAAATGGAT 57.163 30.769 0.00 0.00 0.00 3.41
1257 1275 6.409704 AGAGCAACAGATTTAGTAGCATCAA 58.590 36.000 0.00 0.00 0.00 2.57
1278 1296 1.131126 CTGCAATAAGGGCTCGTTGTG 59.869 52.381 0.00 0.00 0.00 3.33
1491 1510 2.621338 TGACGAGATTGCCAGACATTC 58.379 47.619 0.00 0.00 0.00 2.67
1547 1566 2.491693 TCTTCGGGAATGTGCCATTTTC 59.508 45.455 2.53 0.08 0.00 2.29
1695 1714 1.338655 GTGAGGGCCGTTCTCTCTATC 59.661 57.143 0.00 0.00 32.78 2.08
1705 1724 6.239064 GGCCGTTCTCTCTATCTAAGAAATCA 60.239 42.308 0.00 0.00 32.46 2.57
1882 1910 3.620488 TGATGTGCTTTCTTGGTATCCC 58.380 45.455 0.00 0.00 0.00 3.85
1922 1954 4.517285 TCAAGTTGCTGAGTTGAGAAAGT 58.483 39.130 0.00 0.00 41.60 2.66
1926 1958 5.128919 AGTTGCTGAGTTGAGAAAGTGATT 58.871 37.500 0.00 0.00 0.00 2.57
2051 2083 2.169769 TCGGGTGTAGAATTAGGCCAAG 59.830 50.000 5.01 0.00 0.00 3.61
2126 2158 8.909923 TCACTTCTTGGATCGTAATTACTATCA 58.090 33.333 23.87 12.39 32.00 2.15
2148 2180 5.187772 TCATGCTAGGTTCAGTTGTCATAGT 59.812 40.000 0.00 0.00 0.00 2.12
2154 2186 5.680619 AGGTTCAGTTGTCATAGTTGTTCA 58.319 37.500 0.00 0.00 0.00 3.18
2227 2259 7.545965 GTCCTTGAAATTATTCGAGACTTGAGA 59.454 37.037 7.27 0.00 46.17 3.27
2370 2402 1.752694 GGGAATTAGCAGCGCCCAA 60.753 57.895 2.29 0.00 38.68 4.12
2371 2403 1.319614 GGGAATTAGCAGCGCCCAAA 61.320 55.000 2.29 0.00 38.68 3.28
2388 2420 9.073475 AGCGCCCAAAAATGATATAAATACTAA 57.927 29.630 2.29 0.00 0.00 2.24
2568 2600 2.483014 TTCGGGAATATATTGGCGGG 57.517 50.000 1.78 0.00 0.00 6.13
2695 5551 7.869429 GTCATCATTGAATTGACTCTTTTTGGT 59.131 33.333 11.47 0.00 37.40 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
86 87 7.010552 CCCGATAATAGATCGATTCATCCAAAC 59.989 40.741 4.16 0.00 43.59 2.93
202 203 1.731424 GCGAACTCGTAGTGCAGCTTA 60.731 52.381 0.51 0.00 42.22 3.09
210 211 2.930040 CCAATCAATGCGAACTCGTAGT 59.070 45.455 0.51 0.00 42.22 2.73
218 219 3.860378 GCCTTTCAACCAATCAATGCGAA 60.860 43.478 0.00 0.00 0.00 4.70
295 297 1.543802 TGGGGAACGATGCACAAATTC 59.456 47.619 0.00 0.00 0.00 2.17
355 369 0.098905 TCTCTCATTTCCGACGCGAG 59.901 55.000 15.93 6.19 0.00 5.03
416 430 9.227490 TGTCTCATAAAAATTGTTTGTTACGTG 57.773 29.630 0.00 0.00 0.00 4.49
575 590 5.387279 GGATTTCGACAAAGCGATTTTACA 58.613 37.500 0.00 0.00 40.35 2.41
582 597 3.536956 ATAGGGATTTCGACAAAGCGA 57.463 42.857 0.00 0.00 38.72 4.93
583 598 5.465390 TCATTATAGGGATTTCGACAAAGCG 59.535 40.000 0.00 0.00 0.00 4.68
584 599 6.483640 ACTCATTATAGGGATTTCGACAAAGC 59.516 38.462 0.00 0.00 0.00 3.51
585 600 9.197694 CTACTCATTATAGGGATTTCGACAAAG 57.802 37.037 0.00 0.00 0.00 2.77
587 602 7.152645 GCTACTCATTATAGGGATTTCGACAA 58.847 38.462 0.00 0.00 0.00 3.18
588 603 6.266786 TGCTACTCATTATAGGGATTTCGACA 59.733 38.462 0.00 0.00 0.00 4.35
591 606 8.446273 CAAATGCTACTCATTATAGGGATTTCG 58.554 37.037 0.00 0.00 44.23 3.46
592 607 8.239998 GCAAATGCTACTCATTATAGGGATTTC 58.760 37.037 0.00 0.00 44.23 2.17
594 609 6.372659 CGCAAATGCTACTCATTATAGGGATT 59.627 38.462 3.63 0.00 44.23 3.01
595 610 5.877012 CGCAAATGCTACTCATTATAGGGAT 59.123 40.000 3.63 0.00 44.23 3.85
596 611 5.237815 CGCAAATGCTACTCATTATAGGGA 58.762 41.667 3.63 0.00 44.23 4.20
597 612 4.393062 CCGCAAATGCTACTCATTATAGGG 59.607 45.833 3.63 0.00 44.23 3.53
598 613 4.142816 GCCGCAAATGCTACTCATTATAGG 60.143 45.833 3.63 0.00 44.23 2.57
599 614 4.692625 AGCCGCAAATGCTACTCATTATAG 59.307 41.667 3.63 0.00 44.23 1.31
600 615 4.452114 CAGCCGCAAATGCTACTCATTATA 59.548 41.667 3.63 0.00 44.23 0.98
601 616 3.251729 CAGCCGCAAATGCTACTCATTAT 59.748 43.478 3.63 0.00 44.23 1.28
602 617 2.613595 CAGCCGCAAATGCTACTCATTA 59.386 45.455 3.63 0.00 44.23 1.90
603 618 1.402968 CAGCCGCAAATGCTACTCATT 59.597 47.619 3.63 0.00 46.82 2.57
604 619 1.019673 CAGCCGCAAATGCTACTCAT 58.980 50.000 3.63 0.00 36.81 2.90
605 620 1.647545 GCAGCCGCAAATGCTACTCA 61.648 55.000 3.63 0.00 39.38 3.41
606 621 1.063166 GCAGCCGCAAATGCTACTC 59.937 57.895 3.63 0.00 39.38 2.59
607 622 2.409870 GGCAGCCGCAAATGCTACT 61.410 57.895 0.00 0.00 42.19 2.57
608 623 2.102946 GGCAGCCGCAAATGCTAC 59.897 61.111 0.00 0.00 42.19 3.58
609 624 3.507924 CGGCAGCCGCAAATGCTA 61.508 61.111 23.64 0.00 41.17 3.49
618 633 7.550746 TTAAAGTTGGTTTATTCGGCAGCCG 62.551 44.000 29.05 29.05 38.17 5.52
619 634 1.173913 AGTTGGTTTATTCGGCAGCC 58.826 50.000 0.00 0.00 0.00 4.85
620 635 3.297830 AAAGTTGGTTTATTCGGCAGC 57.702 42.857 0.00 0.00 0.00 5.25
621 636 6.249035 TCTTAAAGTTGGTTTATTCGGCAG 57.751 37.500 0.00 0.00 30.46 4.85
622 637 6.349777 CCATCTTAAAGTTGGTTTATTCGGCA 60.350 38.462 0.00 0.00 31.87 5.69
623 638 6.033966 CCATCTTAAAGTTGGTTTATTCGGC 58.966 40.000 0.00 0.00 31.87 5.54
624 639 6.376018 TCCCATCTTAAAGTTGGTTTATTCGG 59.624 38.462 0.00 0.00 34.09 4.30
625 640 7.385778 TCCCATCTTAAAGTTGGTTTATTCG 57.614 36.000 0.00 0.00 34.09 3.34
630 645 8.971073 CATCTTATCCCATCTTAAAGTTGGTTT 58.029 33.333 0.00 0.00 34.09 3.27
631 646 7.068716 GCATCTTATCCCATCTTAAAGTTGGTT 59.931 37.037 0.00 0.00 34.09 3.67
632 647 6.547510 GCATCTTATCCCATCTTAAAGTTGGT 59.452 38.462 0.00 0.00 34.09 3.67
633 648 6.774656 AGCATCTTATCCCATCTTAAAGTTGG 59.225 38.462 0.00 0.00 35.37 3.77
634 649 7.307632 CGAGCATCTTATCCCATCTTAAAGTTG 60.308 40.741 0.00 0.00 0.00 3.16
635 650 6.708054 CGAGCATCTTATCCCATCTTAAAGTT 59.292 38.462 0.00 0.00 0.00 2.66
636 651 6.042093 TCGAGCATCTTATCCCATCTTAAAGT 59.958 38.462 0.00 0.00 0.00 2.66
637 652 6.459066 TCGAGCATCTTATCCCATCTTAAAG 58.541 40.000 0.00 0.00 0.00 1.85
638 653 6.419484 TCGAGCATCTTATCCCATCTTAAA 57.581 37.500 0.00 0.00 0.00 1.52
639 654 6.611613 ATCGAGCATCTTATCCCATCTTAA 57.388 37.500 0.00 0.00 0.00 1.85
640 655 6.322456 CCTATCGAGCATCTTATCCCATCTTA 59.678 42.308 0.00 0.00 0.00 2.10
641 656 5.128499 CCTATCGAGCATCTTATCCCATCTT 59.872 44.000 0.00 0.00 0.00 2.40
642 657 4.648762 CCTATCGAGCATCTTATCCCATCT 59.351 45.833 0.00 0.00 0.00 2.90
643 658 4.202202 CCCTATCGAGCATCTTATCCCATC 60.202 50.000 0.00 0.00 0.00 3.51
644 659 3.708631 CCCTATCGAGCATCTTATCCCAT 59.291 47.826 0.00 0.00 0.00 4.00
645 660 3.099905 CCCTATCGAGCATCTTATCCCA 58.900 50.000 0.00 0.00 0.00 4.37
646 661 2.159028 GCCCTATCGAGCATCTTATCCC 60.159 54.545 0.00 0.00 0.00 3.85
647 662 2.497675 TGCCCTATCGAGCATCTTATCC 59.502 50.000 0.00 0.00 33.08 2.59
648 663 3.876274 TGCCCTATCGAGCATCTTATC 57.124 47.619 0.00 0.00 33.08 1.75
649 664 3.771479 TCATGCCCTATCGAGCATCTTAT 59.229 43.478 6.88 0.00 46.58 1.73
650 665 3.165071 TCATGCCCTATCGAGCATCTTA 58.835 45.455 6.88 0.00 46.58 2.10
651 666 1.973515 TCATGCCCTATCGAGCATCTT 59.026 47.619 6.88 0.00 46.58 2.40
652 667 1.549620 CTCATGCCCTATCGAGCATCT 59.450 52.381 6.88 0.00 46.58 2.90
653 668 1.405256 CCTCATGCCCTATCGAGCATC 60.405 57.143 6.88 0.00 46.58 3.91
655 670 0.760567 ACCTCATGCCCTATCGAGCA 60.761 55.000 0.00 0.00 44.45 4.26
656 671 0.394565 AACCTCATGCCCTATCGAGC 59.605 55.000 0.00 0.00 0.00 5.03
657 672 1.688735 TGAACCTCATGCCCTATCGAG 59.311 52.381 0.00 0.00 0.00 4.04
658 673 1.688735 CTGAACCTCATGCCCTATCGA 59.311 52.381 0.00 0.00 0.00 3.59
659 674 1.414181 ACTGAACCTCATGCCCTATCG 59.586 52.381 0.00 0.00 0.00 2.92
660 675 4.284490 TGATACTGAACCTCATGCCCTATC 59.716 45.833 0.00 0.00 0.00 2.08
661 676 4.234550 TGATACTGAACCTCATGCCCTAT 58.765 43.478 0.00 0.00 0.00 2.57
662 677 3.653164 TGATACTGAACCTCATGCCCTA 58.347 45.455 0.00 0.00 0.00 3.53
663 678 2.481441 TGATACTGAACCTCATGCCCT 58.519 47.619 0.00 0.00 0.00 5.19
664 679 3.498774 ATGATACTGAACCTCATGCCC 57.501 47.619 0.00 0.00 0.00 5.36
665 680 5.368145 TGTTATGATACTGAACCTCATGCC 58.632 41.667 0.00 0.00 32.20 4.40
666 681 6.051717 ACTGTTATGATACTGAACCTCATGC 58.948 40.000 0.00 0.00 32.20 4.06
667 682 8.498054 AAACTGTTATGATACTGAACCTCATG 57.502 34.615 0.00 0.00 32.20 3.07
668 683 7.770897 GGAAACTGTTATGATACTGAACCTCAT 59.229 37.037 0.00 0.00 34.22 2.90
669 684 7.038302 AGGAAACTGTTATGATACTGAACCTCA 60.038 37.037 0.00 0.00 41.13 3.86
670 685 7.331791 AGGAAACTGTTATGATACTGAACCTC 58.668 38.462 0.00 0.00 41.13 3.85
671 686 7.038302 TGAGGAAACTGTTATGATACTGAACCT 60.038 37.037 0.00 0.00 44.43 3.50
672 687 7.103641 TGAGGAAACTGTTATGATACTGAACC 58.896 38.462 0.00 0.00 44.43 3.62
673 688 8.723942 ATGAGGAAACTGTTATGATACTGAAC 57.276 34.615 0.00 0.00 44.43 3.18
675 690 9.201989 ACTATGAGGAAACTGTTATGATACTGA 57.798 33.333 0.00 0.00 44.43 3.41
679 694 9.961265 CGTTACTATGAGGAAACTGTTATGATA 57.039 33.333 0.00 0.00 44.43 2.15
680 695 7.438459 GCGTTACTATGAGGAAACTGTTATGAT 59.562 37.037 0.00 0.00 44.43 2.45
681 696 6.755141 GCGTTACTATGAGGAAACTGTTATGA 59.245 38.462 0.00 0.00 44.43 2.15
682 697 6.018994 GGCGTTACTATGAGGAAACTGTTATG 60.019 42.308 0.00 0.00 44.43 1.90
683 698 6.047231 GGCGTTACTATGAGGAAACTGTTAT 58.953 40.000 0.00 0.00 44.43 1.89
684 699 5.047164 TGGCGTTACTATGAGGAAACTGTTA 60.047 40.000 0.00 0.00 44.43 2.41
685 700 4.251268 GGCGTTACTATGAGGAAACTGTT 58.749 43.478 0.00 0.00 44.43 3.16
686 701 3.259876 TGGCGTTACTATGAGGAAACTGT 59.740 43.478 0.00 0.00 44.43 3.55
687 702 3.857052 TGGCGTTACTATGAGGAAACTG 58.143 45.455 0.00 0.00 44.43 3.16
688 703 6.896819 TCGATGGCGTTACTATGAGGAAACT 61.897 44.000 0.00 0.00 40.90 2.66
689 704 3.489785 CGATGGCGTTACTATGAGGAAAC 59.510 47.826 0.00 0.00 0.00 2.78
690 705 3.382227 TCGATGGCGTTACTATGAGGAAA 59.618 43.478 0.00 0.00 38.98 3.13
691 706 2.953648 TCGATGGCGTTACTATGAGGAA 59.046 45.455 0.00 0.00 38.98 3.36
692 707 2.578786 TCGATGGCGTTACTATGAGGA 58.421 47.619 0.00 0.00 38.98 3.71
693 708 3.364889 TTCGATGGCGTTACTATGAGG 57.635 47.619 0.00 0.00 38.98 3.86
694 709 4.799678 AGATTCGATGGCGTTACTATGAG 58.200 43.478 0.00 0.00 38.98 2.90
695 710 4.612939 CGAGATTCGATGGCGTTACTATGA 60.613 45.833 0.00 0.00 43.74 2.15
696 711 3.604198 CGAGATTCGATGGCGTTACTATG 59.396 47.826 0.00 0.00 43.74 2.23
697 712 3.252701 ACGAGATTCGATGGCGTTACTAT 59.747 43.478 5.38 0.00 43.74 2.12
698 713 2.615447 ACGAGATTCGATGGCGTTACTA 59.385 45.455 5.38 0.00 43.74 1.82
699 714 1.404391 ACGAGATTCGATGGCGTTACT 59.596 47.619 5.38 0.00 43.74 2.24
700 715 1.779724 GACGAGATTCGATGGCGTTAC 59.220 52.381 5.38 0.00 43.74 2.50
701 716 1.402613 TGACGAGATTCGATGGCGTTA 59.597 47.619 5.38 0.00 43.74 3.18
702 717 0.172578 TGACGAGATTCGATGGCGTT 59.827 50.000 5.38 0.00 43.74 4.84
703 718 0.172578 TTGACGAGATTCGATGGCGT 59.827 50.000 5.38 0.00 43.74 5.68
704 719 0.848942 CTTGACGAGATTCGATGGCG 59.151 55.000 5.38 0.00 43.74 5.69
705 720 2.209838 TCTTGACGAGATTCGATGGC 57.790 50.000 5.38 0.00 43.74 4.40
706 721 3.775202 AGTTCTTGACGAGATTCGATGG 58.225 45.455 5.38 0.00 43.74 3.51
707 722 4.667262 AGAGTTCTTGACGAGATTCGATG 58.333 43.478 5.38 0.00 43.74 3.84
708 723 4.974368 AGAGTTCTTGACGAGATTCGAT 57.026 40.909 5.38 0.00 43.74 3.59
709 724 4.768130 AAGAGTTCTTGACGAGATTCGA 57.232 40.909 5.38 0.00 37.09 3.71
710 725 4.681942 ACAAAGAGTTCTTGACGAGATTCG 59.318 41.667 0.00 0.00 40.09 3.34
711 726 5.613577 GCACAAAGAGTTCTTGACGAGATTC 60.614 44.000 0.00 0.00 36.12 2.52
712 727 4.212214 GCACAAAGAGTTCTTGACGAGATT 59.788 41.667 0.00 0.00 36.12 2.40
713 728 3.743396 GCACAAAGAGTTCTTGACGAGAT 59.257 43.478 0.00 0.00 36.12 2.75
714 729 3.123804 GCACAAAGAGTTCTTGACGAGA 58.876 45.455 0.00 0.00 36.12 4.04
715 730 3.126831 AGCACAAAGAGTTCTTGACGAG 58.873 45.455 0.00 0.00 36.12 4.18
716 731 3.179443 AGCACAAAGAGTTCTTGACGA 57.821 42.857 0.00 0.00 36.12 4.20
717 732 3.951979 AAGCACAAAGAGTTCTTGACG 57.048 42.857 0.00 0.00 32.33 4.35
718 733 5.235305 TCAAAGCACAAAGAGTTCTTGAC 57.765 39.130 0.00 0.00 33.88 3.18
719 734 5.895636 TTCAAAGCACAAAGAGTTCTTGA 57.104 34.783 0.00 0.00 33.88 3.02
720 735 6.365789 TGTTTTCAAAGCACAAAGAGTTCTTG 59.634 34.615 0.00 0.00 33.88 3.02
721 736 6.454795 TGTTTTCAAAGCACAAAGAGTTCTT 58.545 32.000 0.00 0.00 35.12 2.52
722 737 6.024552 TGTTTTCAAAGCACAAAGAGTTCT 57.975 33.333 0.00 0.00 0.00 3.01
723 738 6.033937 GTCTGTTTTCAAAGCACAAAGAGTTC 59.966 38.462 0.00 0.00 0.00 3.01
724 739 5.863935 GTCTGTTTTCAAAGCACAAAGAGTT 59.136 36.000 0.00 0.00 0.00 3.01
725 740 5.048083 TGTCTGTTTTCAAAGCACAAAGAGT 60.048 36.000 0.00 0.00 0.00 3.24
726 741 5.401550 TGTCTGTTTTCAAAGCACAAAGAG 58.598 37.500 0.00 0.00 0.00 2.85
727 742 5.384063 TGTCTGTTTTCAAAGCACAAAGA 57.616 34.783 0.00 0.00 0.00 2.52
728 743 6.418819 CCTATGTCTGTTTTCAAAGCACAAAG 59.581 38.462 0.00 0.00 0.00 2.77
729 744 6.272318 CCTATGTCTGTTTTCAAAGCACAAA 58.728 36.000 0.00 0.00 0.00 2.83
730 745 5.221224 CCCTATGTCTGTTTTCAAAGCACAA 60.221 40.000 0.00 0.00 0.00 3.33
731 746 4.278170 CCCTATGTCTGTTTTCAAAGCACA 59.722 41.667 0.00 0.00 0.00 4.57
732 747 4.518970 TCCCTATGTCTGTTTTCAAAGCAC 59.481 41.667 0.00 0.00 0.00 4.40
733 748 4.724399 TCCCTATGTCTGTTTTCAAAGCA 58.276 39.130 0.00 0.00 0.00 3.91
734 749 5.904362 ATCCCTATGTCTGTTTTCAAAGC 57.096 39.130 0.00 0.00 0.00 3.51
735 750 6.594159 ACGTATCCCTATGTCTGTTTTCAAAG 59.406 38.462 0.00 0.00 0.00 2.77
736 751 6.469410 ACGTATCCCTATGTCTGTTTTCAAA 58.531 36.000 0.00 0.00 0.00 2.69
737 752 6.045072 ACGTATCCCTATGTCTGTTTTCAA 57.955 37.500 0.00 0.00 0.00 2.69
738 753 5.670792 ACGTATCCCTATGTCTGTTTTCA 57.329 39.130 0.00 0.00 0.00 2.69
739 754 6.980051 AAACGTATCCCTATGTCTGTTTTC 57.020 37.500 0.00 0.00 0.00 2.29
740 755 7.229907 ACAAAAACGTATCCCTATGTCTGTTTT 59.770 33.333 0.00 0.00 39.24 2.43
741 756 6.713450 ACAAAAACGTATCCCTATGTCTGTTT 59.287 34.615 0.00 0.00 0.00 2.83
742 757 6.148811 CACAAAAACGTATCCCTATGTCTGTT 59.851 38.462 0.00 0.00 0.00 3.16
743 758 5.642063 CACAAAAACGTATCCCTATGTCTGT 59.358 40.000 0.00 0.00 0.00 3.41
744 759 5.447279 GCACAAAAACGTATCCCTATGTCTG 60.447 44.000 0.00 0.00 0.00 3.51
745 760 4.634443 GCACAAAAACGTATCCCTATGTCT 59.366 41.667 0.00 0.00 0.00 3.41
746 761 4.634443 AGCACAAAAACGTATCCCTATGTC 59.366 41.667 0.00 0.00 0.00 3.06
747 762 4.585879 AGCACAAAAACGTATCCCTATGT 58.414 39.130 0.00 0.00 0.00 2.29
748 763 5.560966 AAGCACAAAAACGTATCCCTATG 57.439 39.130 0.00 0.00 0.00 2.23
749 764 5.708230 TCAAAGCACAAAAACGTATCCCTAT 59.292 36.000 0.00 0.00 0.00 2.57
750 765 5.064558 TCAAAGCACAAAAACGTATCCCTA 58.935 37.500 0.00 0.00 0.00 3.53
751 766 3.886505 TCAAAGCACAAAAACGTATCCCT 59.113 39.130 0.00 0.00 0.00 4.20
752 767 4.231718 TCAAAGCACAAAAACGTATCCC 57.768 40.909 0.00 0.00 0.00 3.85
753 768 6.254804 AGTTTTCAAAGCACAAAAACGTATCC 59.745 34.615 0.00 0.00 43.96 2.59
754 769 7.216920 AGTTTTCAAAGCACAAAAACGTATC 57.783 32.000 0.00 0.00 43.96 2.24
755 770 7.033185 AGAGTTTTCAAAGCACAAAAACGTAT 58.967 30.769 0.00 0.00 43.96 3.06
756 771 6.383415 AGAGTTTTCAAAGCACAAAAACGTA 58.617 32.000 0.00 0.00 43.96 3.57
757 772 5.227152 AGAGTTTTCAAAGCACAAAAACGT 58.773 33.333 9.56 0.00 43.96 3.99
758 773 5.572896 AGAGAGTTTTCAAAGCACAAAAACG 59.427 36.000 9.56 0.00 43.96 3.60
759 774 6.237306 CGAGAGAGTTTTCAAAGCACAAAAAC 60.237 38.462 8.03 8.03 41.14 2.43
760 775 5.799936 CGAGAGAGTTTTCAAAGCACAAAAA 59.200 36.000 0.00 0.00 0.00 1.94
761 776 5.106317 ACGAGAGAGTTTTCAAAGCACAAAA 60.106 36.000 0.00 0.00 0.00 2.44
762 777 4.394920 ACGAGAGAGTTTTCAAAGCACAAA 59.605 37.500 0.00 0.00 0.00 2.83
763 778 3.938963 ACGAGAGAGTTTTCAAAGCACAA 59.061 39.130 0.00 0.00 0.00 3.33
764 779 3.531538 ACGAGAGAGTTTTCAAAGCACA 58.468 40.909 0.00 0.00 0.00 4.57
765 780 4.745620 AGTACGAGAGAGTTTTCAAAGCAC 59.254 41.667 0.00 0.00 0.00 4.40
766 781 4.945246 AGTACGAGAGAGTTTTCAAAGCA 58.055 39.130 0.00 0.00 0.00 3.91
767 782 5.908916 AAGTACGAGAGAGTTTTCAAAGC 57.091 39.130 0.00 0.00 0.00 3.51
768 783 8.576936 ACTTAAGTACGAGAGAGTTTTCAAAG 57.423 34.615 6.26 0.00 0.00 2.77
769 784 9.674824 CTACTTAAGTACGAGAGAGTTTTCAAA 57.325 33.333 11.38 0.00 0.00 2.69
770 785 9.060347 TCTACTTAAGTACGAGAGAGTTTTCAA 57.940 33.333 11.38 0.00 0.00 2.69
771 786 8.502387 GTCTACTTAAGTACGAGAGAGTTTTCA 58.498 37.037 11.38 0.00 0.00 2.69
772 787 7.687757 CGTCTACTTAAGTACGAGAGAGTTTTC 59.312 40.741 21.09 3.43 0.00 2.29
773 788 7.386299 TCGTCTACTTAAGTACGAGAGAGTTTT 59.614 37.037 23.24 0.00 29.59 2.43
774 789 6.870965 TCGTCTACTTAAGTACGAGAGAGTTT 59.129 38.462 23.24 0.00 29.59 2.66
775 790 6.393990 TCGTCTACTTAAGTACGAGAGAGTT 58.606 40.000 23.24 0.00 29.59 3.01
776 791 5.960113 TCGTCTACTTAAGTACGAGAGAGT 58.040 41.667 23.24 0.00 29.59 3.24
777 792 6.129378 CGATCGTCTACTTAAGTACGAGAGAG 60.129 46.154 27.96 18.65 34.21 3.20
778 793 5.685068 CGATCGTCTACTTAAGTACGAGAGA 59.315 44.000 27.96 20.59 34.21 3.10
779 794 5.107913 CCGATCGTCTACTTAAGTACGAGAG 60.108 48.000 27.96 23.76 34.21 3.20
780 795 4.742167 CCGATCGTCTACTTAAGTACGAGA 59.258 45.833 27.96 17.41 34.21 4.04
781 796 4.505922 ACCGATCGTCTACTTAAGTACGAG 59.494 45.833 27.96 20.40 34.21 4.18
782 797 4.433615 ACCGATCGTCTACTTAAGTACGA 58.566 43.478 27.04 27.04 34.86 3.43
783 798 4.785669 ACCGATCGTCTACTTAAGTACG 57.214 45.455 20.08 20.08 0.00 3.67
784 799 5.065218 TCCAACCGATCGTCTACTTAAGTAC 59.935 44.000 15.09 4.91 0.00 2.73
785 800 5.185454 TCCAACCGATCGTCTACTTAAGTA 58.815 41.667 15.09 14.52 0.00 2.24
786 801 4.012374 TCCAACCGATCGTCTACTTAAGT 58.988 43.478 15.09 13.68 0.00 2.24
787 802 4.627611 TCCAACCGATCGTCTACTTAAG 57.372 45.455 15.09 0.00 0.00 1.85
788 803 4.460382 AGTTCCAACCGATCGTCTACTTAA 59.540 41.667 15.09 0.00 0.00 1.85
789 804 4.012374 AGTTCCAACCGATCGTCTACTTA 58.988 43.478 15.09 0.00 0.00 2.24
790 805 2.824341 AGTTCCAACCGATCGTCTACTT 59.176 45.455 15.09 0.00 0.00 2.24
791 806 2.444421 AGTTCCAACCGATCGTCTACT 58.556 47.619 15.09 5.66 0.00 2.57
792 807 2.935481 AGTTCCAACCGATCGTCTAC 57.065 50.000 15.09 3.46 0.00 2.59
793 808 3.367703 GGAAAGTTCCAACCGATCGTCTA 60.368 47.826 15.09 0.00 46.76 2.59
794 809 2.612221 GGAAAGTTCCAACCGATCGTCT 60.612 50.000 15.09 0.00 46.76 4.18
795 810 1.730612 GGAAAGTTCCAACCGATCGTC 59.269 52.381 15.09 0.31 46.76 4.20
796 811 1.804601 GGAAAGTTCCAACCGATCGT 58.195 50.000 15.09 0.00 46.76 3.73
807 822 3.963383 TGAAACTCGCAAGGAAAGTTC 57.037 42.857 0.00 0.00 31.58 3.01
808 823 4.918810 AATGAAACTCGCAAGGAAAGTT 57.081 36.364 0.00 0.00 33.87 2.66
809 824 5.048713 CCTTAATGAAACTCGCAAGGAAAGT 60.049 40.000 0.00 0.00 35.58 2.66
810 825 5.048713 ACCTTAATGAAACTCGCAAGGAAAG 60.049 40.000 5.23 0.00 36.78 2.62
811 826 4.825085 ACCTTAATGAAACTCGCAAGGAAA 59.175 37.500 5.23 0.00 36.78 3.13
812 827 4.215399 CACCTTAATGAAACTCGCAAGGAA 59.785 41.667 5.23 0.00 36.78 3.36
813 828 3.751175 CACCTTAATGAAACTCGCAAGGA 59.249 43.478 5.23 0.00 36.78 3.36
814 829 3.119849 CCACCTTAATGAAACTCGCAAGG 60.120 47.826 0.00 0.00 38.77 3.61
815 830 3.502211 ACCACCTTAATGAAACTCGCAAG 59.498 43.478 0.00 0.00 0.00 4.01
816 831 3.482436 ACCACCTTAATGAAACTCGCAA 58.518 40.909 0.00 0.00 0.00 4.85
817 832 3.134574 ACCACCTTAATGAAACTCGCA 57.865 42.857 0.00 0.00 0.00 5.10
818 833 5.123344 ACATAACCACCTTAATGAAACTCGC 59.877 40.000 0.00 0.00 0.00 5.03
819 834 6.737254 ACATAACCACCTTAATGAAACTCG 57.263 37.500 0.00 0.00 0.00 4.18
1041 1058 2.554032 ACCAAAATGAACTCCTGCTTCG 59.446 45.455 0.00 0.00 0.00 3.79
1082 1099 4.668138 ATGTAAGGGGCAACTTTAGGAA 57.332 40.909 0.00 0.00 32.02 3.36
1092 1109 4.329831 GCCGAAATGTAAGGGGCA 57.670 55.556 0.00 0.00 43.23 5.36
1164 1182 7.495279 TGCATCAAAAACTAAATCACAAGCTTT 59.505 29.630 0.00 0.00 0.00 3.51
1257 1275 1.271379 ACAACGAGCCCTTATTGCAGT 60.271 47.619 0.00 0.00 0.00 4.40
1547 1566 6.862090 CGACTAAAGAAATAGTAGGAATCCCG 59.138 42.308 0.00 0.00 36.28 5.14
1922 1954 9.835389 AAAGGAATTCTTTTGATTCAACAATCA 57.165 25.926 14.15 0.00 42.62 2.57
1952 1984 9.793259 ATTGTCCTCTGATAAAAACTGAACTTA 57.207 29.630 0.00 0.00 0.00 2.24
2000 2032 6.875195 TCGTATAACCCCTTGAGTGTTTTAAG 59.125 38.462 0.00 0.00 0.00 1.85
2051 2083 5.685728 ACCTCCTATTTGCCAATAGAAGTC 58.314 41.667 17.01 0.00 43.37 3.01
2111 2143 8.803235 TGAACCTAGCATGATAGTAATTACGAT 58.197 33.333 16.41 10.58 0.00 3.73
2126 2158 5.683876 ACTATGACAACTGAACCTAGCAT 57.316 39.130 0.00 0.00 0.00 3.79
2148 2180 4.280677 GGATGGTTTGTGGATTCTGAACAA 59.719 41.667 0.00 0.00 32.19 2.83
2154 2186 1.633432 TCGGGATGGTTTGTGGATTCT 59.367 47.619 0.00 0.00 0.00 2.40
2227 2259 8.964772 CCATATTCTTCTCCAATCTGAGTTTTT 58.035 33.333 0.00 0.00 33.93 1.94
2281 2313 9.862585 CAATCCGAAACAAAAATAAAAAGGAAG 57.137 29.630 0.00 0.00 0.00 3.46
2303 2335 1.534729 AAAAGAGCACCCGACCAATC 58.465 50.000 0.00 0.00 0.00 2.67
2388 2420 4.755123 ACGTGAGTAAAGCTAAAGCAACAT 59.245 37.500 4.54 0.00 46.88 2.71
2478 2510 9.589461 TGTTAATTGGTAAAAGGATTGGAGTTA 57.411 29.630 0.00 0.00 0.00 2.24
2568 2600 6.483687 ACAAGAACAACAACGACTAATTCAC 58.516 36.000 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.