Multiple sequence alignment - TraesCS1D01G386800

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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 TraesCS1D01G386800 chr1D 100.000 2816 0 0 1 2816 459815537 459818352 0.000000e+00 5201.0
1 TraesCS1D01G386800 chr1D 85.947 861 111 9 1963 2816 462358078 462358935 0.000000e+00 911.0
2 TraesCS1D01G386800 chr1D 85.280 856 109 9 1963 2816 410496649 410495809 0.000000e+00 867.0
3 TraesCS1D01G386800 chr1D 81.319 728 111 14 1971 2689 410497911 410497200 4.070000e-158 568.0
4 TraesCS1D01G386800 chr1D 86.822 516 58 5 1963 2477 462312472 462312978 4.070000e-158 568.0
5 TraesCS1D01G386800 chr1D 82.210 534 63 12 1 529 482526591 482527097 5.570000e-117 431.0
6 TraesCS1D01G386800 chr1B 93.352 1053 50 10 766 1817 631827169 631826136 0.000000e+00 1539.0
7 TraesCS1D01G386800 chr1B 90.799 826 72 1 1991 2816 631825932 631825111 0.000000e+00 1101.0
8 TraesCS1D01G386800 chr1B 89.357 855 85 3 1963 2816 637477466 637478315 0.000000e+00 1070.0
9 TraesCS1D01G386800 chr1B 91.763 777 51 1 1040 1816 641684285 641683522 0.000000e+00 1068.0
10 TraesCS1D01G386800 chr1B 88.187 855 95 3 1963 2816 637387626 637388475 0.000000e+00 1014.0
11 TraesCS1D01G386800 chr1B 85.463 853 109 7 1964 2814 553139595 553138756 0.000000e+00 874.0
12 TraesCS1D01G386800 chr1B 91.371 197 16 1 275 470 60266321 60266125 4.620000e-68 268.0
13 TraesCS1D01G386800 chr5A 91.390 813 67 1 1022 1831 663618205 663617393 0.000000e+00 1110.0
14 TraesCS1D01G386800 chr1A 86.518 853 102 8 1963 2814 506542223 506541383 0.000000e+00 926.0
15 TraesCS1D01G386800 chr4D 89.847 522 49 2 1313 1831 483530810 483530290 0.000000e+00 667.0
16 TraesCS1D01G386800 chr4D 88.931 524 50 5 1313 1831 483560682 483560162 8.510000e-180 640.0
17 TraesCS1D01G386800 chr4D 87.879 528 57 3 984 1510 483586941 483586420 5.160000e-172 614.0
18 TraesCS1D01G386800 chr3A 80.134 745 121 21 1074 1806 19521816 19521087 5.340000e-147 531.0
19 TraesCS1D01G386800 chr3A 78.638 749 150 9 2073 2816 16890392 16889649 3.260000e-134 488.0
20 TraesCS1D01G386800 chr3A 86.076 79 8 3 467 542 724260709 724260631 6.470000e-12 82.4
21 TraesCS1D01G386800 chr4A 82.042 529 58 18 13 530 701390494 701389992 1.560000e-112 416.0
22 TraesCS1D01G386800 chr4A 81.574 521 60 18 12 521 701502521 701503016 5.650000e-107 398.0
23 TraesCS1D01G386800 chr3D 82.081 519 55 15 15 523 545023011 545023501 2.610000e-110 409.0
24 TraesCS1D01G386800 chr6A 80.812 542 58 16 2 534 530135712 530135208 1.580000e-102 383.0
25 TraesCS1D01G386800 chr6A 81.592 402 31 19 11 411 596739298 596738939 2.740000e-75 292.0
26 TraesCS1D01G386800 chr7D 79.928 553 62 19 1 529 529038208 529038735 7.420000e-96 361.0
27 TraesCS1D01G386800 chr7D 78.114 562 63 35 1 532 125879153 125878622 4.560000e-78 302.0
28 TraesCS1D01G386800 chr7D 78.114 562 63 35 1 532 125886060 125885529 4.560000e-78 302.0
29 TraesCS1D01G386800 chr5B 88.803 259 20 4 275 524 107373906 107373648 2.720000e-80 309.0
30 TraesCS1D01G386800 chr5B 78.085 543 62 33 1 522 571845825 571845319 9.870000e-75 291.0
31 TraesCS1D01G386800 chr5B 77.306 542 64 25 21 532 286077603 286077091 5.980000e-67 265.0
32 TraesCS1D01G386800 chr7A 87.547 265 24 4 277 532 429433676 429433412 5.900000e-77 298.0
33 TraesCS1D01G386800 chr7A 85.930 199 25 2 53 248 608678763 608678961 2.840000e-50 209.0
34 TraesCS1D01G386800 chr2A 88.123 261 18 9 275 524 766183672 766183414 5.900000e-77 298.0
35 TraesCS1D01G386800 chr2D 80.549 401 46 14 32 431 563284498 563284867 2.140000e-71 279.0
36 TraesCS1D01G386800 chr2D 75.665 526 64 39 1 523 332685572 332686036 1.320000e-48 204.0
37 TraesCS1D01G386800 chr2D 84.746 118 8 5 420 529 563284815 563284930 2.970000e-20 110.0


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 TraesCS1D01G386800 chr1D 459815537 459818352 2815 False 5201.0 5201 100.0000 1 2816 1 chr1D.!!$F1 2815
1 TraesCS1D01G386800 chr1D 462358078 462358935 857 False 911.0 911 85.9470 1963 2816 1 chr1D.!!$F3 853
2 TraesCS1D01G386800 chr1D 410495809 410497911 2102 True 717.5 867 83.2995 1963 2816 2 chr1D.!!$R1 853
3 TraesCS1D01G386800 chr1D 462312472 462312978 506 False 568.0 568 86.8220 1963 2477 1 chr1D.!!$F2 514
4 TraesCS1D01G386800 chr1D 482526591 482527097 506 False 431.0 431 82.2100 1 529 1 chr1D.!!$F4 528
5 TraesCS1D01G386800 chr1B 631825111 631827169 2058 True 1320.0 1539 92.0755 766 2816 2 chr1B.!!$R4 2050
6 TraesCS1D01G386800 chr1B 637477466 637478315 849 False 1070.0 1070 89.3570 1963 2816 1 chr1B.!!$F2 853
7 TraesCS1D01G386800 chr1B 641683522 641684285 763 True 1068.0 1068 91.7630 1040 1816 1 chr1B.!!$R3 776
8 TraesCS1D01G386800 chr1B 637387626 637388475 849 False 1014.0 1014 88.1870 1963 2816 1 chr1B.!!$F1 853
9 TraesCS1D01G386800 chr1B 553138756 553139595 839 True 874.0 874 85.4630 1964 2814 1 chr1B.!!$R2 850
10 TraesCS1D01G386800 chr5A 663617393 663618205 812 True 1110.0 1110 91.3900 1022 1831 1 chr5A.!!$R1 809
11 TraesCS1D01G386800 chr1A 506541383 506542223 840 True 926.0 926 86.5180 1963 2814 1 chr1A.!!$R1 851
12 TraesCS1D01G386800 chr4D 483530290 483530810 520 True 667.0 667 89.8470 1313 1831 1 chr4D.!!$R1 518
13 TraesCS1D01G386800 chr4D 483560162 483560682 520 True 640.0 640 88.9310 1313 1831 1 chr4D.!!$R2 518
14 TraesCS1D01G386800 chr4D 483586420 483586941 521 True 614.0 614 87.8790 984 1510 1 chr4D.!!$R3 526
15 TraesCS1D01G386800 chr3A 19521087 19521816 729 True 531.0 531 80.1340 1074 1806 1 chr3A.!!$R2 732
16 TraesCS1D01G386800 chr3A 16889649 16890392 743 True 488.0 488 78.6380 2073 2816 1 chr3A.!!$R1 743
17 TraesCS1D01G386800 chr4A 701389992 701390494 502 True 416.0 416 82.0420 13 530 1 chr4A.!!$R1 517
18 TraesCS1D01G386800 chr6A 530135208 530135712 504 True 383.0 383 80.8120 2 534 1 chr6A.!!$R1 532
19 TraesCS1D01G386800 chr7D 529038208 529038735 527 False 361.0 361 79.9280 1 529 1 chr7D.!!$F1 528
20 TraesCS1D01G386800 chr7D 125878622 125879153 531 True 302.0 302 78.1140 1 532 1 chr7D.!!$R1 531
21 TraesCS1D01G386800 chr7D 125885529 125886060 531 True 302.0 302 78.1140 1 532 1 chr7D.!!$R2 531
22 TraesCS1D01G386800 chr5B 571845319 571845825 506 True 291.0 291 78.0850 1 522 1 chr5B.!!$R3 521
23 TraesCS1D01G386800 chr5B 286077091 286077603 512 True 265.0 265 77.3060 21 532 1 chr5B.!!$R2 511

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
562 613 0.108945 CGAGTTACGGGACCTGAACC 60.109 60.0 7.51 1.82 38.46 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2081 3038 0.250338 AAGGAGCTGACCGGTGAAAC 60.25 55.0 14.63 0.0 34.73 2.78 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
118 131 0.254178 ATGTAGGGGCTGCAGAAGTG 59.746 55.000 20.43 0.00 28.38 3.16
160 183 2.550180 GAGAAAACTGTGTCCCTCTTGC 59.450 50.000 0.00 0.00 0.00 4.01
175 198 4.520492 CCCTCTTGCTTGTCTTGTAATTGT 59.480 41.667 0.00 0.00 0.00 2.71
176 200 5.455392 CCTCTTGCTTGTCTTGTAATTGTG 58.545 41.667 0.00 0.00 0.00 3.33
265 299 9.646522 AAATGGACACTATATAGAGCCATTTTT 57.353 29.630 29.54 21.07 41.56 1.94
444 481 7.565323 TGCTGAAATGTTGTGTATATATGCA 57.435 32.000 0.00 0.00 0.00 3.96
539 590 2.309528 CCGATCGGGAACAGATTGAA 57.690 50.000 26.95 0.00 38.47 2.69
540 591 2.627945 CCGATCGGGAACAGATTGAAA 58.372 47.619 26.95 0.00 38.47 2.69
541 592 2.351726 CCGATCGGGAACAGATTGAAAC 59.648 50.000 26.95 0.00 38.47 2.78
542 593 2.029244 CGATCGGGAACAGATTGAAACG 59.971 50.000 7.38 0.00 32.55 3.60
543 594 1.153353 TCGGGAACAGATTGAAACGC 58.847 50.000 0.00 0.00 0.00 4.84
544 595 0.179225 CGGGAACAGATTGAAACGCG 60.179 55.000 3.53 3.53 0.00 6.01
545 596 1.153353 GGGAACAGATTGAAACGCGA 58.847 50.000 15.93 0.00 0.00 5.87
546 597 1.128692 GGGAACAGATTGAAACGCGAG 59.871 52.381 15.93 0.00 0.00 5.03
559 610 3.281240 GCGAGTTACGGGACCTGA 58.719 61.111 7.51 0.00 42.83 3.86
560 611 1.588082 GCGAGTTACGGGACCTGAA 59.412 57.895 7.51 0.00 42.83 3.02
561 612 0.735287 GCGAGTTACGGGACCTGAAC 60.735 60.000 7.51 7.36 42.83 3.18
562 613 0.108945 CGAGTTACGGGACCTGAACC 60.109 60.000 7.51 1.82 38.46 3.62
563 614 0.248565 GAGTTACGGGACCTGAACCC 59.751 60.000 7.51 0.00 43.57 4.11
602 653 2.356313 CGCGATAGGCCGAGCATT 60.356 61.111 0.00 0.00 38.94 3.56
603 654 2.375766 CGCGATAGGCCGAGCATTC 61.376 63.158 0.00 0.00 38.94 2.67
604 655 2.375766 GCGATAGGCCGAGCATTCG 61.376 63.158 1.05 1.93 46.29 3.34
615 666 4.465512 GCATTCGGCTGGCGTGTG 62.466 66.667 23.07 21.20 40.25 3.82
616 667 3.803082 CATTCGGCTGGCGTGTGG 61.803 66.667 23.07 8.04 0.00 4.17
617 668 4.015406 ATTCGGCTGGCGTGTGGA 62.015 61.111 23.07 0.13 0.00 4.02
618 669 3.329542 ATTCGGCTGGCGTGTGGAT 62.330 57.895 23.07 8.14 0.00 3.41
619 670 2.819984 ATTCGGCTGGCGTGTGGATT 62.820 55.000 23.07 0.00 0.00 3.01
620 671 3.803082 CGGCTGGCGTGTGGATTG 61.803 66.667 16.07 0.00 0.00 2.67
621 672 2.672996 GGCTGGCGTGTGGATTGT 60.673 61.111 0.00 0.00 0.00 2.71
622 673 2.562912 GCTGGCGTGTGGATTGTG 59.437 61.111 0.00 0.00 0.00 3.33
623 674 1.965930 GCTGGCGTGTGGATTGTGA 60.966 57.895 0.00 0.00 0.00 3.58
624 675 1.514678 GCTGGCGTGTGGATTGTGAA 61.515 55.000 0.00 0.00 0.00 3.18
625 676 0.238289 CTGGCGTGTGGATTGTGAAC 59.762 55.000 0.00 0.00 0.00 3.18
626 677 1.206578 GGCGTGTGGATTGTGAACG 59.793 57.895 0.00 0.00 37.32 3.95
627 678 1.503818 GGCGTGTGGATTGTGAACGT 61.504 55.000 0.00 0.00 36.65 3.99
628 679 0.306533 GCGTGTGGATTGTGAACGTT 59.693 50.000 0.00 0.00 36.65 3.99
629 680 1.268335 GCGTGTGGATTGTGAACGTTT 60.268 47.619 0.46 0.00 36.65 3.60
630 681 2.793237 GCGTGTGGATTGTGAACGTTTT 60.793 45.455 0.46 0.00 36.65 2.43
631 682 3.033185 CGTGTGGATTGTGAACGTTTTC 58.967 45.455 0.46 0.00 0.00 2.29
632 683 3.368495 GTGTGGATTGTGAACGTTTTCC 58.632 45.455 0.46 5.35 0.00 3.13
633 684 3.066203 GTGTGGATTGTGAACGTTTTCCT 59.934 43.478 0.46 0.00 0.00 3.36
634 685 3.697045 TGTGGATTGTGAACGTTTTCCTT 59.303 39.130 0.46 0.00 0.00 3.36
635 686 4.041723 GTGGATTGTGAACGTTTTCCTTG 58.958 43.478 0.46 0.00 0.00 3.61
636 687 3.948473 TGGATTGTGAACGTTTTCCTTGA 59.052 39.130 0.46 0.00 0.00 3.02
637 688 4.399618 TGGATTGTGAACGTTTTCCTTGAA 59.600 37.500 0.46 0.00 0.00 2.69
638 689 5.068460 TGGATTGTGAACGTTTTCCTTGAAT 59.932 36.000 0.46 0.00 0.00 2.57
639 690 5.629435 GGATTGTGAACGTTTTCCTTGAATC 59.371 40.000 0.46 4.29 0.00 2.52
640 691 5.568685 TTGTGAACGTTTTCCTTGAATCA 57.431 34.783 0.46 0.00 0.00 2.57
641 692 5.168526 TGTGAACGTTTTCCTTGAATCAG 57.831 39.130 0.46 0.00 0.00 2.90
642 693 4.878971 TGTGAACGTTTTCCTTGAATCAGA 59.121 37.500 0.46 0.00 0.00 3.27
643 694 5.007626 TGTGAACGTTTTCCTTGAATCAGAG 59.992 40.000 0.46 0.00 0.00 3.35
644 695 5.007724 GTGAACGTTTTCCTTGAATCAGAGT 59.992 40.000 0.46 0.00 0.00 3.24
645 696 5.007626 TGAACGTTTTCCTTGAATCAGAGTG 59.992 40.000 0.46 0.00 0.00 3.51
646 697 4.451900 ACGTTTTCCTTGAATCAGAGTGT 58.548 39.130 0.00 0.00 0.00 3.55
647 698 5.607477 ACGTTTTCCTTGAATCAGAGTGTA 58.393 37.500 0.00 0.00 0.00 2.90
648 699 5.465724 ACGTTTTCCTTGAATCAGAGTGTAC 59.534 40.000 0.00 0.00 0.00 2.90
649 700 5.465390 CGTTTTCCTTGAATCAGAGTGTACA 59.535 40.000 0.00 0.00 0.00 2.90
650 701 6.147821 CGTTTTCCTTGAATCAGAGTGTACAT 59.852 38.462 0.00 0.00 0.00 2.29
651 702 7.301054 GTTTTCCTTGAATCAGAGTGTACATG 58.699 38.462 0.00 0.00 0.00 3.21
652 703 6.358974 TTCCTTGAATCAGAGTGTACATGA 57.641 37.500 0.00 0.00 0.00 3.07
653 704 6.358974 TCCTTGAATCAGAGTGTACATGAA 57.641 37.500 0.00 0.00 0.00 2.57
654 705 6.768483 TCCTTGAATCAGAGTGTACATGAAA 58.232 36.000 0.00 0.00 0.00 2.69
655 706 6.875726 TCCTTGAATCAGAGTGTACATGAAAG 59.124 38.462 0.00 0.40 0.00 2.62
656 707 6.093219 CCTTGAATCAGAGTGTACATGAAAGG 59.907 42.308 0.00 5.77 0.00 3.11
657 708 6.114187 TGAATCAGAGTGTACATGAAAGGT 57.886 37.500 0.00 0.00 32.53 3.50
658 709 6.533730 TGAATCAGAGTGTACATGAAAGGTT 58.466 36.000 0.00 0.00 28.09 3.50
659 710 6.998074 TGAATCAGAGTGTACATGAAAGGTTT 59.002 34.615 0.00 0.00 28.09 3.27
660 711 8.154203 TGAATCAGAGTGTACATGAAAGGTTTA 58.846 33.333 0.00 0.00 28.09 2.01
661 712 7.907214 ATCAGAGTGTACATGAAAGGTTTAC 57.093 36.000 0.00 0.00 28.09 2.01
662 713 7.062749 TCAGAGTGTACATGAAAGGTTTACT 57.937 36.000 0.00 0.00 30.31 2.24
663 714 7.506114 TCAGAGTGTACATGAAAGGTTTACTT 58.494 34.615 0.00 0.00 42.52 2.24
664 715 7.656137 TCAGAGTGTACATGAAAGGTTTACTTC 59.344 37.037 0.00 0.00 38.85 3.01
665 716 6.645415 AGAGTGTACATGAAAGGTTTACTTCG 59.355 38.462 0.00 0.00 38.85 3.79
666 717 6.285990 AGTGTACATGAAAGGTTTACTTCGT 58.714 36.000 0.00 0.00 38.85 3.85
667 718 6.202188 AGTGTACATGAAAGGTTTACTTCGTG 59.798 38.462 0.00 3.15 38.85 4.35
668 719 4.483476 ACATGAAAGGTTTACTTCGTGC 57.517 40.909 0.00 0.00 38.85 5.34
669 720 3.880490 ACATGAAAGGTTTACTTCGTGCA 59.120 39.130 0.00 0.00 38.85 4.57
670 721 4.336993 ACATGAAAGGTTTACTTCGTGCAA 59.663 37.500 0.00 0.00 38.85 4.08
671 722 4.966965 TGAAAGGTTTACTTCGTGCAAA 57.033 36.364 0.00 0.00 38.85 3.68
672 723 4.664188 TGAAAGGTTTACTTCGTGCAAAC 58.336 39.130 0.00 0.00 38.85 2.93
673 724 3.328237 AAGGTTTACTTCGTGCAAACG 57.672 42.857 0.00 0.00 32.85 3.60
674 725 1.600485 AGGTTTACTTCGTGCAAACGG 59.400 47.619 0.00 0.00 33.78 4.44
675 726 1.598601 GGTTTACTTCGTGCAAACGGA 59.401 47.619 0.00 0.00 33.78 4.69
676 727 2.349155 GGTTTACTTCGTGCAAACGGAG 60.349 50.000 5.04 5.04 43.90 4.63
677 728 1.504359 TTACTTCGTGCAAACGGAGG 58.496 50.000 11.02 0.00 42.69 4.30
678 729 0.947180 TACTTCGTGCAAACGGAGGC 60.947 55.000 11.02 0.00 42.69 4.70
679 730 1.961277 CTTCGTGCAAACGGAGGCT 60.961 57.895 0.00 0.00 35.22 4.58
680 731 1.901650 CTTCGTGCAAACGGAGGCTC 61.902 60.000 5.78 5.78 35.22 4.70
681 732 2.652382 TTCGTGCAAACGGAGGCTCA 62.652 55.000 17.69 0.00 0.00 4.26
682 733 2.250939 CGTGCAAACGGAGGCTCAA 61.251 57.895 17.69 0.00 0.00 3.02
683 734 1.282875 GTGCAAACGGAGGCTCAAC 59.717 57.895 17.69 0.00 0.00 3.18
684 735 1.148273 TGCAAACGGAGGCTCAACT 59.852 52.632 17.69 0.00 0.00 3.16
685 736 0.394938 TGCAAACGGAGGCTCAACTA 59.605 50.000 17.69 0.00 0.00 2.24
686 737 1.003118 TGCAAACGGAGGCTCAACTAT 59.997 47.619 17.69 0.00 0.00 2.12
687 738 1.666189 GCAAACGGAGGCTCAACTATC 59.334 52.381 17.69 0.00 0.00 2.08
688 739 2.678190 GCAAACGGAGGCTCAACTATCT 60.678 50.000 17.69 0.00 0.00 1.98
689 740 3.600388 CAAACGGAGGCTCAACTATCTT 58.400 45.455 17.69 0.00 0.00 2.40
690 741 4.755411 CAAACGGAGGCTCAACTATCTTA 58.245 43.478 17.69 0.00 0.00 2.10
691 742 4.657436 AACGGAGGCTCAACTATCTTAG 57.343 45.455 17.69 0.00 0.00 2.18
692 743 2.959707 ACGGAGGCTCAACTATCTTAGG 59.040 50.000 17.69 0.00 0.00 2.69
693 744 3.223435 CGGAGGCTCAACTATCTTAGGA 58.777 50.000 17.69 0.00 0.00 2.94
694 745 3.254657 CGGAGGCTCAACTATCTTAGGAG 59.745 52.174 17.69 0.00 0.00 3.69
695 746 4.475345 GGAGGCTCAACTATCTTAGGAGA 58.525 47.826 17.69 0.00 36.09 3.71
696 747 4.896482 GGAGGCTCAACTATCTTAGGAGAA 59.104 45.833 17.69 0.00 35.07 2.87
697 748 5.010617 GGAGGCTCAACTATCTTAGGAGAAG 59.989 48.000 17.69 0.00 35.07 2.85
698 749 5.524535 AGGCTCAACTATCTTAGGAGAAGT 58.475 41.667 0.00 0.00 35.07 3.01
699 750 6.674573 AGGCTCAACTATCTTAGGAGAAGTA 58.325 40.000 0.00 0.00 35.07 2.24
700 751 7.126733 AGGCTCAACTATCTTAGGAGAAGTAA 58.873 38.462 0.00 0.00 35.07 2.24
701 752 7.068962 AGGCTCAACTATCTTAGGAGAAGTAAC 59.931 40.741 0.00 0.00 35.07 2.50
702 753 7.147880 GGCTCAACTATCTTAGGAGAAGTAACA 60.148 40.741 0.00 0.00 35.07 2.41
703 754 8.251721 GCTCAACTATCTTAGGAGAAGTAACAA 58.748 37.037 0.00 0.00 35.07 2.83
704 755 9.796120 CTCAACTATCTTAGGAGAAGTAACAAG 57.204 37.037 0.00 0.00 35.07 3.16
705 756 9.310449 TCAACTATCTTAGGAGAAGTAACAAGT 57.690 33.333 0.00 0.00 35.07 3.16
706 757 9.360093 CAACTATCTTAGGAGAAGTAACAAGTG 57.640 37.037 0.00 0.00 35.07 3.16
707 758 8.653036 ACTATCTTAGGAGAAGTAACAAGTGT 57.347 34.615 0.00 0.00 35.07 3.55
708 759 9.750783 ACTATCTTAGGAGAAGTAACAAGTGTA 57.249 33.333 0.00 0.00 35.07 2.90
710 761 6.921914 TCTTAGGAGAAGTAACAAGTGTAGC 58.078 40.000 0.00 0.00 0.00 3.58
711 762 4.538746 AGGAGAAGTAACAAGTGTAGCC 57.461 45.455 0.00 0.00 0.00 3.93
712 763 4.161102 AGGAGAAGTAACAAGTGTAGCCT 58.839 43.478 0.00 0.00 0.00 4.58
713 764 4.593634 AGGAGAAGTAACAAGTGTAGCCTT 59.406 41.667 0.00 0.00 0.00 4.35
714 765 5.071923 AGGAGAAGTAACAAGTGTAGCCTTT 59.928 40.000 0.00 0.00 0.00 3.11
715 766 5.408909 GGAGAAGTAACAAGTGTAGCCTTTC 59.591 44.000 0.00 0.00 0.00 2.62
716 767 5.925509 AGAAGTAACAAGTGTAGCCTTTCA 58.074 37.500 0.00 0.00 0.00 2.69
717 768 5.992217 AGAAGTAACAAGTGTAGCCTTTCAG 59.008 40.000 0.00 0.00 0.00 3.02
718 769 5.546621 AGTAACAAGTGTAGCCTTTCAGA 57.453 39.130 0.00 0.00 0.00 3.27
719 770 5.542779 AGTAACAAGTGTAGCCTTTCAGAG 58.457 41.667 0.00 0.00 0.00 3.35
720 771 4.423625 AACAAGTGTAGCCTTTCAGAGT 57.576 40.909 0.00 0.00 0.00 3.24
721 772 3.996480 ACAAGTGTAGCCTTTCAGAGTC 58.004 45.455 0.00 0.00 0.00 3.36
722 773 2.989840 CAAGTGTAGCCTTTCAGAGTCG 59.010 50.000 0.00 0.00 0.00 4.18
723 774 2.515854 AGTGTAGCCTTTCAGAGTCGA 58.484 47.619 0.00 0.00 0.00 4.20
724 775 2.490115 AGTGTAGCCTTTCAGAGTCGAG 59.510 50.000 0.00 0.00 0.00 4.04
725 776 2.488545 GTGTAGCCTTTCAGAGTCGAGA 59.511 50.000 0.00 0.00 0.00 4.04
726 777 2.488545 TGTAGCCTTTCAGAGTCGAGAC 59.511 50.000 0.00 0.00 0.00 3.36
727 778 1.917872 AGCCTTTCAGAGTCGAGACT 58.082 50.000 5.31 5.31 45.84 3.24
728 779 1.543802 AGCCTTTCAGAGTCGAGACTG 59.456 52.381 10.82 11.19 42.66 3.51
729 780 1.271102 GCCTTTCAGAGTCGAGACTGT 59.729 52.381 10.82 3.55 42.66 3.55
730 781 2.488545 GCCTTTCAGAGTCGAGACTGTA 59.511 50.000 10.82 6.40 42.66 2.74
731 782 3.129638 GCCTTTCAGAGTCGAGACTGTAT 59.870 47.826 10.82 0.00 42.66 2.29
732 783 4.381079 GCCTTTCAGAGTCGAGACTGTATT 60.381 45.833 10.82 0.00 42.66 1.89
733 784 5.715070 CCTTTCAGAGTCGAGACTGTATTT 58.285 41.667 10.82 0.00 42.66 1.40
734 785 5.802956 CCTTTCAGAGTCGAGACTGTATTTC 59.197 44.000 10.82 0.00 42.66 2.17
735 786 5.959618 TTCAGAGTCGAGACTGTATTTCA 57.040 39.130 10.82 0.00 42.66 2.69
746 797 3.729526 CTGTATTTCAGTTGTCGCCAG 57.270 47.619 0.00 0.00 39.17 4.85
747 798 2.416547 CTGTATTTCAGTTGTCGCCAGG 59.583 50.000 0.00 0.00 39.17 4.45
748 799 1.737793 GTATTTCAGTTGTCGCCAGGG 59.262 52.381 0.00 0.00 0.00 4.45
749 800 0.400213 ATTTCAGTTGTCGCCAGGGA 59.600 50.000 0.00 0.00 0.00 4.20
750 801 0.181587 TTTCAGTTGTCGCCAGGGAA 59.818 50.000 0.00 0.00 0.00 3.97
751 802 0.250295 TTCAGTTGTCGCCAGGGAAG 60.250 55.000 0.00 0.00 0.00 3.46
752 803 1.071471 CAGTTGTCGCCAGGGAAGT 59.929 57.895 0.00 0.00 0.00 3.01
753 804 0.535102 CAGTTGTCGCCAGGGAAGTT 60.535 55.000 0.00 0.00 0.00 2.66
754 805 0.535102 AGTTGTCGCCAGGGAAGTTG 60.535 55.000 0.00 0.00 0.00 3.16
755 806 1.896660 TTGTCGCCAGGGAAGTTGC 60.897 57.895 0.00 0.00 0.00 4.17
756 807 3.056328 GTCGCCAGGGAAGTTGCC 61.056 66.667 5.03 5.03 0.00 4.52
757 808 3.565214 TCGCCAGGGAAGTTGCCA 61.565 61.111 16.56 0.00 0.00 4.92
758 809 2.597217 CGCCAGGGAAGTTGCCAA 60.597 61.111 16.56 0.00 0.00 4.52
759 810 2.199652 CGCCAGGGAAGTTGCCAAA 61.200 57.895 16.56 0.00 0.00 3.28
760 811 1.535204 CGCCAGGGAAGTTGCCAAAT 61.535 55.000 16.56 0.00 0.00 2.32
761 812 1.555967 GCCAGGGAAGTTGCCAAATA 58.444 50.000 16.56 0.00 0.00 1.40
762 813 1.899142 GCCAGGGAAGTTGCCAAATAA 59.101 47.619 16.56 0.00 0.00 1.40
763 814 2.301583 GCCAGGGAAGTTGCCAAATAAA 59.698 45.455 16.56 0.00 0.00 1.40
764 815 3.055167 GCCAGGGAAGTTGCCAAATAAAT 60.055 43.478 16.56 0.00 0.00 1.40
788 839 3.418047 TCATCACGAGAGTTCCACACTA 58.582 45.455 0.00 0.00 46.40 2.74
807 863 3.771299 GCAACGCAATGCATGGTC 58.229 55.556 5.91 0.00 45.70 4.02
808 864 1.080637 GCAACGCAATGCATGGTCA 60.081 52.632 5.91 0.00 45.70 4.02
809 865 1.346378 GCAACGCAATGCATGGTCAC 61.346 55.000 5.91 0.00 45.70 3.67
810 866 0.733566 CAACGCAATGCATGGTCACC 60.734 55.000 5.91 0.00 0.00 4.02
811 867 1.876497 AACGCAATGCATGGTCACCC 61.876 55.000 5.91 0.00 0.00 4.61
812 868 2.894919 GCAATGCATGGTCACCCC 59.105 61.111 0.00 0.00 0.00 4.95
857 913 3.766691 CCATGGCTGGGCTGCAAC 61.767 66.667 0.00 0.00 39.04 4.17
858 914 3.766691 CATGGCTGGGCTGCAACC 61.767 66.667 0.50 0.00 34.04 3.77
862 918 3.677648 GCTGGGCTGCAACCACAG 61.678 66.667 16.10 16.10 40.80 3.66
866 922 1.302949 GGGCTGCAACCACAGGATA 59.697 57.895 8.71 0.00 38.16 2.59
884 940 4.159321 AGGATACATGGATAGATGCAGACG 59.841 45.833 0.00 0.00 41.41 4.18
886 942 3.377346 ACATGGATAGATGCAGACGTC 57.623 47.619 7.70 7.70 0.00 4.34
895 951 3.771491 GCAGACGTCGTGCAGCTG 61.771 66.667 25.27 10.11 40.86 4.24
898 954 2.354656 GACGTCGTGCAGCTGACA 60.355 61.111 20.43 12.49 34.78 3.58
899 955 2.355126 ACGTCGTGCAGCTGACAG 60.355 61.111 20.43 7.18 34.78 3.51
979 1035 0.591488 TAGATAACGCACGCGCTGAG 60.591 55.000 12.02 8.49 44.19 3.35
997 1053 0.674895 AGCGCAAGACACCAAGATCC 60.675 55.000 11.47 0.00 43.02 3.36
998 1054 0.955428 GCGCAAGACACCAAGATCCA 60.955 55.000 0.30 0.00 43.02 3.41
1779 1836 4.778143 GCCGCCGAGTGGGTCAAT 62.778 66.667 5.77 0.00 38.44 2.57
1785 1842 1.303236 CGAGTGGGTCAATGGGCAA 60.303 57.895 0.00 0.00 0.00 4.52
1817 1874 1.031571 AACGGCGGGTACGTCTGATA 61.032 55.000 13.24 0.00 44.83 2.15
1818 1875 1.031571 ACGGCGGGTACGTCTGATAA 61.032 55.000 13.24 0.00 43.91 1.75
1832 1896 1.600957 CTGATAATCTGTTGGCTGGCG 59.399 52.381 0.00 0.00 0.00 5.69
1867 1952 0.806868 AATGCGTCTGGATGTTGCAG 59.193 50.000 0.00 0.00 39.17 4.41
1874 1959 3.607775 CGTCTGGATGTTGCAGAAAACTG 60.608 47.826 0.02 0.00 46.30 3.16
1881 1966 5.754890 GGATGTTGCAGAAAACTGAACAAAT 59.245 36.000 0.20 0.00 32.58 2.32
1888 1973 9.598517 TTGCAGAAAACTGAACAAATAAATCTT 57.401 25.926 0.00 0.00 0.00 2.40
1893 1978 8.661352 AAAACTGAACAAATAAATCTTGTGGG 57.339 30.769 0.00 0.00 37.10 4.61
1901 1986 8.606040 ACAAATAAATCTTGTGGGAATTTGTG 57.394 30.769 9.10 0.00 41.78 3.33
1903 1988 4.961438 AAATCTTGTGGGAATTTGTGCT 57.039 36.364 0.00 0.00 0.00 4.40
1904 1989 4.961438 AATCTTGTGGGAATTTGTGCTT 57.039 36.364 0.00 0.00 0.00 3.91
1905 1990 6.418057 AAATCTTGTGGGAATTTGTGCTTA 57.582 33.333 0.00 0.00 0.00 3.09
1906 1991 5.649782 ATCTTGTGGGAATTTGTGCTTAG 57.350 39.130 0.00 0.00 0.00 2.18
1907 1992 3.255642 TCTTGTGGGAATTTGTGCTTAGC 59.744 43.478 0.00 0.00 0.00 3.09
1908 1993 2.591923 TGTGGGAATTTGTGCTTAGCA 58.408 42.857 1.39 1.39 35.60 3.49
1928 2055 3.503748 GCATAAGAGCAAGAAACCACACT 59.496 43.478 0.00 0.00 0.00 3.55
1942 2069 8.017418 AGAAACCACACTAAAAATGGATCAAA 57.983 30.769 0.00 0.00 36.94 2.69
1943 2070 8.650490 AGAAACCACACTAAAAATGGATCAAAT 58.350 29.630 0.00 0.00 36.94 2.32
1948 2075 5.047377 ACACTAAAAATGGATCAAATGCCGT 60.047 36.000 0.00 0.00 0.00 5.68
1949 2076 5.868801 CACTAAAAATGGATCAAATGCCGTT 59.131 36.000 0.00 0.00 34.96 4.44
1950 2077 5.868801 ACTAAAAATGGATCAAATGCCGTTG 59.131 36.000 0.00 0.00 33.82 4.10
1951 2078 3.959535 AAATGGATCAAATGCCGTTGT 57.040 38.095 0.00 0.00 33.82 3.32
1952 2079 5.398603 AAAATGGATCAAATGCCGTTGTA 57.601 34.783 0.00 0.00 33.82 2.41
1953 2080 4.637483 AATGGATCAAATGCCGTTGTAG 57.363 40.909 0.00 0.00 32.36 2.74
1954 2081 3.342377 TGGATCAAATGCCGTTGTAGA 57.658 42.857 0.00 0.00 0.00 2.59
1955 2082 3.884895 TGGATCAAATGCCGTTGTAGAT 58.115 40.909 0.00 0.00 0.00 1.98
1957 2084 4.096231 TGGATCAAATGCCGTTGTAGATTG 59.904 41.667 0.00 0.00 0.00 2.67
1958 2085 4.096382 GGATCAAATGCCGTTGTAGATTGT 59.904 41.667 0.00 0.00 0.00 2.71
1961 2088 4.998033 TCAAATGCCGTTGTAGATTGTGTA 59.002 37.500 0.00 0.00 0.00 2.90
1974 2919 7.728148 TGTAGATTGTGTACACAGGAAAACTA 58.272 34.615 26.52 17.22 42.94 2.24
1981 2926 4.814234 TGTACACAGGAAAACTACTGCTTG 59.186 41.667 0.00 0.00 38.25 4.01
2002 2955 5.268118 TGCTTATCTCACACCTCATACAG 57.732 43.478 0.00 0.00 0.00 2.74
2011 2964 4.772100 TCACACCTCATACAGACTCATTCA 59.228 41.667 0.00 0.00 0.00 2.57
2013 2970 6.607198 TCACACCTCATACAGACTCATTCATA 59.393 38.462 0.00 0.00 0.00 2.15
2080 3037 0.320421 ACGCCGTTGTAGATTGTGCT 60.320 50.000 0.00 0.00 0.00 4.40
2081 3038 0.095245 CGCCGTTGTAGATTGTGCTG 59.905 55.000 0.00 0.00 0.00 4.41
2145 3102 3.869272 CACCGATGCTTGAGCGCC 61.869 66.667 2.29 0.00 45.83 6.53
2295 3252 0.613012 AGCTTTCTGGTTGGCATCCC 60.613 55.000 11.95 4.51 0.00 3.85
2397 3354 1.257750 CCGTGTCTGACCTCCCATGA 61.258 60.000 5.17 0.00 0.00 3.07
2463 3420 0.247460 CCCAAGAGTCGACATGCTCA 59.753 55.000 19.50 0.00 34.39 4.26
2487 3444 1.043116 AATCCGTGCATCCGAGGAGA 61.043 55.000 0.00 0.00 36.08 3.71
2532 3489 3.379880 CCGACGGGGTTGGAGTAA 58.620 61.111 5.81 0.00 39.36 2.24
2657 3614 0.039978 CCGAGACGATTCATCCTCCG 60.040 60.000 0.00 0.00 0.00 4.63
2659 3616 1.598183 CGAGACGATTCATCCTCCGTG 60.598 57.143 0.00 0.00 35.22 4.94
2742 3699 1.442769 GGACATGCTTGATGACGTGT 58.557 50.000 6.60 0.00 38.70 4.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 8.113062 CACAAAACAAGATCAACGCATTTAAAA 58.887 29.630 0.00 0.00 0.00 1.52
146 169 1.071385 AGACAAGCAAGAGGGACACAG 59.929 52.381 0.00 0.00 0.00 3.66
263 297 3.706594 TGCCACTAAACATCCCACAAAAA 59.293 39.130 0.00 0.00 0.00 1.94
264 298 3.300388 TGCCACTAAACATCCCACAAAA 58.700 40.909 0.00 0.00 0.00 2.44
265 299 2.950781 TGCCACTAAACATCCCACAAA 58.049 42.857 0.00 0.00 0.00 2.83
266 300 2.666272 TGCCACTAAACATCCCACAA 57.334 45.000 0.00 0.00 0.00 3.33
267 301 2.308570 AGATGCCACTAAACATCCCACA 59.691 45.455 0.00 0.00 43.01 4.17
268 302 3.004752 AGATGCCACTAAACATCCCAC 57.995 47.619 0.00 0.00 43.01 4.61
269 303 5.387113 AATAGATGCCACTAAACATCCCA 57.613 39.130 0.00 0.00 43.01 4.37
270 304 5.049405 CGAAATAGATGCCACTAAACATCCC 60.049 44.000 0.00 0.00 43.01 3.85
271 305 5.527582 ACGAAATAGATGCCACTAAACATCC 59.472 40.000 0.00 0.00 43.01 3.51
272 306 6.422223 CACGAAATAGATGCCACTAAACATC 58.578 40.000 0.00 0.00 42.45 3.06
273 307 5.220854 GCACGAAATAGATGCCACTAAACAT 60.221 40.000 0.00 0.00 33.06 2.71
398 435 5.287752 GCATGCATACTTCAACATTTCAGTG 59.712 40.000 14.21 0.00 0.00 3.66
534 585 1.073177 CCCGTAACTCGCGTTTCAAT 58.927 50.000 5.77 0.00 38.35 2.57
535 586 0.031857 TCCCGTAACTCGCGTTTCAA 59.968 50.000 5.77 0.00 38.35 2.69
536 587 0.664166 GTCCCGTAACTCGCGTTTCA 60.664 55.000 5.77 0.00 38.35 2.69
537 588 1.347097 GGTCCCGTAACTCGCGTTTC 61.347 60.000 5.77 0.00 38.35 2.78
538 589 1.373371 GGTCCCGTAACTCGCGTTT 60.373 57.895 5.77 3.21 38.35 3.60
539 590 2.259511 GGTCCCGTAACTCGCGTT 59.740 61.111 5.77 0.00 38.35 4.84
540 591 2.674380 AGGTCCCGTAACTCGCGT 60.674 61.111 5.77 0.00 38.35 6.01
541 592 2.202570 CAGGTCCCGTAACTCGCG 60.203 66.667 0.00 0.00 38.35 5.87
542 593 0.735287 GTTCAGGTCCCGTAACTCGC 60.735 60.000 0.00 0.00 38.35 5.03
543 594 0.108945 GGTTCAGGTCCCGTAACTCG 60.109 60.000 0.00 0.00 39.52 4.18
544 595 0.248565 GGGTTCAGGTCCCGTAACTC 59.751 60.000 0.00 0.00 35.27 3.01
545 596 2.369654 GGGTTCAGGTCCCGTAACT 58.630 57.895 0.00 0.00 35.27 2.24
574 625 4.923710 TATCGCGCGCGTCAGCAT 62.924 61.111 46.54 35.00 45.49 3.79
585 636 2.356313 AATGCTCGGCCTATCGCG 60.356 61.111 0.00 0.00 38.94 5.87
586 637 2.375766 CGAATGCTCGGCCTATCGC 61.376 63.158 0.00 0.00 41.57 4.58
587 638 3.848142 CGAATGCTCGGCCTATCG 58.152 61.111 0.00 0.00 41.57 2.92
598 649 4.465512 CACACGCCAGCCGAATGC 62.466 66.667 0.00 0.00 41.02 3.56
599 650 3.803082 CCACACGCCAGCCGAATG 61.803 66.667 0.00 0.00 41.02 2.67
600 651 2.819984 AATCCACACGCCAGCCGAAT 62.820 55.000 0.00 0.00 41.02 3.34
601 652 3.545124 AATCCACACGCCAGCCGAA 62.545 57.895 0.00 0.00 41.02 4.30
602 653 4.015406 AATCCACACGCCAGCCGA 62.015 61.111 0.00 0.00 41.02 5.54
603 654 3.803082 CAATCCACACGCCAGCCG 61.803 66.667 0.00 0.00 44.21 5.52
604 655 2.672996 ACAATCCACACGCCAGCC 60.673 61.111 0.00 0.00 0.00 4.85
605 656 1.514678 TTCACAATCCACACGCCAGC 61.515 55.000 0.00 0.00 0.00 4.85
606 657 0.238289 GTTCACAATCCACACGCCAG 59.762 55.000 0.00 0.00 0.00 4.85
607 658 1.502990 CGTTCACAATCCACACGCCA 61.503 55.000 0.00 0.00 0.00 5.69
608 659 1.206578 CGTTCACAATCCACACGCC 59.793 57.895 0.00 0.00 0.00 5.68
609 660 0.306533 AACGTTCACAATCCACACGC 59.693 50.000 0.00 0.00 34.14 5.34
610 661 2.748461 AAACGTTCACAATCCACACG 57.252 45.000 0.00 0.00 36.91 4.49
611 662 3.066203 AGGAAAACGTTCACAATCCACAC 59.934 43.478 0.00 0.00 35.25 3.82
612 663 3.283751 AGGAAAACGTTCACAATCCACA 58.716 40.909 0.00 0.00 35.25 4.17
613 664 3.982576 AGGAAAACGTTCACAATCCAC 57.017 42.857 0.00 0.00 35.25 4.02
614 665 3.948473 TCAAGGAAAACGTTCACAATCCA 59.052 39.130 0.00 0.00 35.25 3.41
615 666 4.561735 TCAAGGAAAACGTTCACAATCC 57.438 40.909 0.00 5.17 35.25 3.01
616 667 6.205784 TGATTCAAGGAAAACGTTCACAATC 58.794 36.000 0.00 4.06 35.25 2.67
617 668 6.039270 TCTGATTCAAGGAAAACGTTCACAAT 59.961 34.615 0.00 0.00 35.25 2.71
618 669 5.355630 TCTGATTCAAGGAAAACGTTCACAA 59.644 36.000 0.00 0.00 35.25 3.33
619 670 4.878971 TCTGATTCAAGGAAAACGTTCACA 59.121 37.500 0.00 0.00 35.25 3.58
620 671 5.007724 ACTCTGATTCAAGGAAAACGTTCAC 59.992 40.000 0.00 0.00 35.25 3.18
621 672 5.007626 CACTCTGATTCAAGGAAAACGTTCA 59.992 40.000 0.00 0.00 35.25 3.18
622 673 5.007724 ACACTCTGATTCAAGGAAAACGTTC 59.992 40.000 0.00 0.00 0.00 3.95
623 674 4.881850 ACACTCTGATTCAAGGAAAACGTT 59.118 37.500 0.00 0.00 0.00 3.99
624 675 4.451900 ACACTCTGATTCAAGGAAAACGT 58.548 39.130 0.00 0.00 0.00 3.99
625 676 5.465390 TGTACACTCTGATTCAAGGAAAACG 59.535 40.000 0.00 0.00 0.00 3.60
626 677 6.861065 TGTACACTCTGATTCAAGGAAAAC 57.139 37.500 0.00 0.00 0.00 2.43
627 678 7.223584 TCATGTACACTCTGATTCAAGGAAAA 58.776 34.615 0.00 0.00 0.00 2.29
628 679 6.768483 TCATGTACACTCTGATTCAAGGAAA 58.232 36.000 0.00 0.00 0.00 3.13
629 680 6.358974 TCATGTACACTCTGATTCAAGGAA 57.641 37.500 0.00 0.00 0.00 3.36
630 681 6.358974 TTCATGTACACTCTGATTCAAGGA 57.641 37.500 0.00 0.00 0.00 3.36
631 682 6.093219 CCTTTCATGTACACTCTGATTCAAGG 59.907 42.308 0.00 5.24 0.00 3.61
632 683 6.652481 ACCTTTCATGTACACTCTGATTCAAG 59.348 38.462 0.00 0.00 0.00 3.02
633 684 6.533730 ACCTTTCATGTACACTCTGATTCAA 58.466 36.000 0.00 0.00 0.00 2.69
634 685 6.114187 ACCTTTCATGTACACTCTGATTCA 57.886 37.500 0.00 0.00 0.00 2.57
635 686 7.440523 AAACCTTTCATGTACACTCTGATTC 57.559 36.000 0.00 0.00 0.00 2.52
636 687 8.157476 AGTAAACCTTTCATGTACACTCTGATT 58.843 33.333 0.00 0.00 0.00 2.57
637 688 7.680730 AGTAAACCTTTCATGTACACTCTGAT 58.319 34.615 0.00 0.00 0.00 2.90
638 689 7.062749 AGTAAACCTTTCATGTACACTCTGA 57.937 36.000 0.00 0.00 0.00 3.27
639 690 7.359264 CGAAGTAAACCTTTCATGTACACTCTG 60.359 40.741 0.00 0.00 32.03 3.35
640 691 6.645415 CGAAGTAAACCTTTCATGTACACTCT 59.355 38.462 0.00 0.00 32.03 3.24
641 692 6.423001 ACGAAGTAAACCTTTCATGTACACTC 59.577 38.462 0.00 0.00 41.94 3.51
642 693 6.202188 CACGAAGTAAACCTTTCATGTACACT 59.798 38.462 0.00 0.00 41.61 3.55
643 694 6.360329 CACGAAGTAAACCTTTCATGTACAC 58.640 40.000 0.00 0.00 41.61 2.90
644 695 5.049954 GCACGAAGTAAACCTTTCATGTACA 60.050 40.000 0.00 0.00 41.61 2.90
645 696 5.049954 TGCACGAAGTAAACCTTTCATGTAC 60.050 40.000 0.00 0.00 41.61 2.90
646 697 5.057819 TGCACGAAGTAAACCTTTCATGTA 58.942 37.500 0.00 0.00 41.61 2.29
647 698 3.880490 TGCACGAAGTAAACCTTTCATGT 59.120 39.130 0.00 0.00 41.61 3.21
648 699 4.481930 TGCACGAAGTAAACCTTTCATG 57.518 40.909 0.00 0.00 41.61 3.07
649 700 5.278604 GTTTGCACGAAGTAAACCTTTCAT 58.721 37.500 12.45 0.00 44.13 2.57
650 701 4.664188 GTTTGCACGAAGTAAACCTTTCA 58.336 39.130 12.45 0.00 44.13 2.69
664 715 2.250939 TTGAGCCTCCGTTTGCACG 61.251 57.895 0.00 0.00 46.71 5.34
665 716 1.166531 AGTTGAGCCTCCGTTTGCAC 61.167 55.000 0.00 0.00 0.00 4.57
666 717 0.394938 TAGTTGAGCCTCCGTTTGCA 59.605 50.000 0.00 0.00 0.00 4.08
667 718 1.666189 GATAGTTGAGCCTCCGTTTGC 59.334 52.381 0.00 0.00 0.00 3.68
668 719 3.252974 AGATAGTTGAGCCTCCGTTTG 57.747 47.619 0.00 0.00 0.00 2.93
669 720 3.983044 AAGATAGTTGAGCCTCCGTTT 57.017 42.857 0.00 0.00 0.00 3.60
670 721 3.385111 CCTAAGATAGTTGAGCCTCCGTT 59.615 47.826 0.00 0.00 0.00 4.44
671 722 2.959707 CCTAAGATAGTTGAGCCTCCGT 59.040 50.000 0.00 0.00 0.00 4.69
672 723 3.223435 TCCTAAGATAGTTGAGCCTCCG 58.777 50.000 0.00 0.00 0.00 4.63
673 724 4.475345 TCTCCTAAGATAGTTGAGCCTCC 58.525 47.826 0.00 0.00 0.00 4.30
674 725 5.596772 ACTTCTCCTAAGATAGTTGAGCCTC 59.403 44.000 0.00 0.00 0.00 4.70
675 726 5.524535 ACTTCTCCTAAGATAGTTGAGCCT 58.475 41.667 0.00 0.00 0.00 4.58
676 727 5.862678 ACTTCTCCTAAGATAGTTGAGCC 57.137 43.478 0.00 0.00 0.00 4.70
677 728 7.773149 TGTTACTTCTCCTAAGATAGTTGAGC 58.227 38.462 0.00 0.00 30.56 4.26
678 729 9.796120 CTTGTTACTTCTCCTAAGATAGTTGAG 57.204 37.037 0.00 0.00 30.56 3.02
679 730 9.310449 ACTTGTTACTTCTCCTAAGATAGTTGA 57.690 33.333 0.00 0.00 30.56 3.18
680 731 9.360093 CACTTGTTACTTCTCCTAAGATAGTTG 57.640 37.037 0.00 0.00 30.56 3.16
681 732 9.091220 ACACTTGTTACTTCTCCTAAGATAGTT 57.909 33.333 0.00 0.00 30.56 2.24
682 733 8.653036 ACACTTGTTACTTCTCCTAAGATAGT 57.347 34.615 0.00 0.00 31.86 2.12
684 735 8.684520 GCTACACTTGTTACTTCTCCTAAGATA 58.315 37.037 0.00 0.00 0.00 1.98
685 736 7.363968 GGCTACACTTGTTACTTCTCCTAAGAT 60.364 40.741 0.00 0.00 0.00 2.40
686 737 6.071503 GGCTACACTTGTTACTTCTCCTAAGA 60.072 42.308 0.00 0.00 0.00 2.10
687 738 6.071278 AGGCTACACTTGTTACTTCTCCTAAG 60.071 42.308 0.00 0.00 0.00 2.18
688 739 5.778750 AGGCTACACTTGTTACTTCTCCTAA 59.221 40.000 0.00 0.00 0.00 2.69
689 740 5.331069 AGGCTACACTTGTTACTTCTCCTA 58.669 41.667 0.00 0.00 0.00 2.94
690 741 4.161102 AGGCTACACTTGTTACTTCTCCT 58.839 43.478 0.00 0.00 0.00 3.69
691 742 4.538746 AGGCTACACTTGTTACTTCTCC 57.461 45.455 0.00 0.00 0.00 3.71
692 743 5.989777 TGAAAGGCTACACTTGTTACTTCTC 59.010 40.000 0.00 0.00 0.00 2.87
693 744 5.925509 TGAAAGGCTACACTTGTTACTTCT 58.074 37.500 0.00 0.00 0.00 2.85
694 745 5.989777 TCTGAAAGGCTACACTTGTTACTTC 59.010 40.000 0.00 0.00 0.00 3.01
695 746 5.925509 TCTGAAAGGCTACACTTGTTACTT 58.074 37.500 0.00 0.00 0.00 2.24
696 747 5.070580 ACTCTGAAAGGCTACACTTGTTACT 59.929 40.000 0.00 0.00 0.00 2.24
697 748 5.298347 ACTCTGAAAGGCTACACTTGTTAC 58.702 41.667 0.00 0.00 0.00 2.50
698 749 5.539048 GACTCTGAAAGGCTACACTTGTTA 58.461 41.667 0.00 0.00 0.00 2.41
699 750 4.381411 GACTCTGAAAGGCTACACTTGTT 58.619 43.478 0.00 0.00 0.00 2.83
700 751 3.553096 CGACTCTGAAAGGCTACACTTGT 60.553 47.826 0.00 0.00 0.00 3.16
701 752 2.989840 CGACTCTGAAAGGCTACACTTG 59.010 50.000 0.00 0.00 0.00 3.16
702 753 2.891580 TCGACTCTGAAAGGCTACACTT 59.108 45.455 0.00 0.00 0.00 3.16
703 754 2.490115 CTCGACTCTGAAAGGCTACACT 59.510 50.000 0.00 0.00 0.00 3.55
704 755 2.488545 TCTCGACTCTGAAAGGCTACAC 59.511 50.000 0.00 0.00 0.00 2.90
705 756 2.488545 GTCTCGACTCTGAAAGGCTACA 59.511 50.000 0.00 0.00 0.00 2.74
706 757 2.750712 AGTCTCGACTCTGAAAGGCTAC 59.249 50.000 0.00 0.00 36.92 3.58
707 758 2.750166 CAGTCTCGACTCTGAAAGGCTA 59.250 50.000 6.31 0.00 40.20 3.93
708 759 1.543802 CAGTCTCGACTCTGAAAGGCT 59.456 52.381 6.31 0.00 40.20 4.58
709 760 1.271102 ACAGTCTCGACTCTGAAAGGC 59.729 52.381 15.96 0.00 40.20 4.35
710 761 4.974368 ATACAGTCTCGACTCTGAAAGG 57.026 45.455 15.96 0.00 40.20 3.11
711 762 6.382608 TGAAATACAGTCTCGACTCTGAAAG 58.617 40.000 15.96 0.00 40.20 2.62
712 763 6.327279 TGAAATACAGTCTCGACTCTGAAA 57.673 37.500 15.96 6.70 40.20 2.69
713 764 5.944013 CTGAAATACAGTCTCGACTCTGAA 58.056 41.667 15.96 0.00 40.20 3.02
714 765 5.553290 CTGAAATACAGTCTCGACTCTGA 57.447 43.478 15.96 0.00 40.20 3.27
726 777 2.416547 CCTGGCGACAACTGAAATACAG 59.583 50.000 0.00 0.00 43.64 2.74
727 778 2.422597 CCTGGCGACAACTGAAATACA 58.577 47.619 0.00 0.00 42.06 2.29
728 779 1.737793 CCCTGGCGACAACTGAAATAC 59.262 52.381 0.00 0.00 42.06 1.89
729 780 1.626321 TCCCTGGCGACAACTGAAATA 59.374 47.619 0.00 0.00 42.06 1.40
730 781 0.400213 TCCCTGGCGACAACTGAAAT 59.600 50.000 0.00 0.00 42.06 2.17
731 782 0.181587 TTCCCTGGCGACAACTGAAA 59.818 50.000 0.00 0.00 42.06 2.69
732 783 0.250295 CTTCCCTGGCGACAACTGAA 60.250 55.000 0.00 0.00 42.06 3.02
733 784 1.371183 CTTCCCTGGCGACAACTGA 59.629 57.895 0.00 0.00 42.06 3.41
734 785 0.535102 AACTTCCCTGGCGACAACTG 60.535 55.000 0.00 0.00 42.06 3.16
735 786 0.535102 CAACTTCCCTGGCGACAACT 60.535 55.000 0.00 0.00 42.06 3.16
736 787 1.949257 CAACTTCCCTGGCGACAAC 59.051 57.895 0.00 0.00 42.06 3.32
737 788 1.896660 GCAACTTCCCTGGCGACAA 60.897 57.895 0.00 0.00 42.06 3.18
738 789 2.281484 GCAACTTCCCTGGCGACA 60.281 61.111 0.00 0.00 39.59 4.35
739 790 3.056328 GGCAACTTCCCTGGCGAC 61.056 66.667 0.00 0.00 0.00 5.19
740 791 2.632602 TTTGGCAACTTCCCTGGCGA 62.633 55.000 0.00 0.00 42.05 5.54
741 792 1.535204 ATTTGGCAACTTCCCTGGCG 61.535 55.000 0.00 0.00 42.05 5.69
742 793 1.555967 TATTTGGCAACTTCCCTGGC 58.444 50.000 0.00 0.00 39.69 4.85
743 794 4.824479 ATTTATTTGGCAACTTCCCTGG 57.176 40.909 0.00 0.00 37.61 4.45
744 795 7.555087 TGATTATTTATTTGGCAACTTCCCTG 58.445 34.615 0.00 0.00 37.61 4.45
745 796 7.732222 TGATTATTTATTTGGCAACTTCCCT 57.268 32.000 0.00 0.00 37.61 4.20
746 797 8.203485 TGATGATTATTTATTTGGCAACTTCCC 58.797 33.333 0.00 0.00 37.61 3.97
747 798 9.034544 GTGATGATTATTTATTTGGCAACTTCC 57.965 33.333 0.00 0.00 37.61 3.46
748 799 8.745837 CGTGATGATTATTTATTTGGCAACTTC 58.254 33.333 0.00 0.00 37.61 3.01
749 800 8.465999 TCGTGATGATTATTTATTTGGCAACTT 58.534 29.630 0.00 0.00 37.61 2.66
750 801 7.995289 TCGTGATGATTATTTATTTGGCAACT 58.005 30.769 0.00 0.00 37.61 3.16
751 802 8.128582 TCTCGTGATGATTATTTATTTGGCAAC 58.871 33.333 0.00 0.00 0.00 4.17
752 803 8.219546 TCTCGTGATGATTATTTATTTGGCAA 57.780 30.769 0.00 0.00 0.00 4.52
753 804 7.498900 ACTCTCGTGATGATTATTTATTTGGCA 59.501 33.333 0.00 0.00 0.00 4.92
754 805 7.865707 ACTCTCGTGATGATTATTTATTTGGC 58.134 34.615 0.00 0.00 0.00 4.52
755 806 9.869844 GAACTCTCGTGATGATTATTTATTTGG 57.130 33.333 0.00 0.00 0.00 3.28
756 807 9.869844 GGAACTCTCGTGATGATTATTTATTTG 57.130 33.333 0.00 0.00 0.00 2.32
757 808 9.613428 TGGAACTCTCGTGATGATTATTTATTT 57.387 29.630 0.00 0.00 0.00 1.40
758 809 9.046296 GTGGAACTCTCGTGATGATTATTTATT 57.954 33.333 0.00 0.00 0.00 1.40
759 810 8.204160 TGTGGAACTCTCGTGATGATTATTTAT 58.796 33.333 0.00 0.00 38.04 1.40
760 811 7.491372 GTGTGGAACTCTCGTGATGATTATTTA 59.509 37.037 0.00 0.00 38.04 1.40
761 812 6.313905 GTGTGGAACTCTCGTGATGATTATTT 59.686 38.462 0.00 0.00 38.04 1.40
762 813 5.812642 GTGTGGAACTCTCGTGATGATTATT 59.187 40.000 0.00 0.00 38.04 1.40
763 814 5.127845 AGTGTGGAACTCTCGTGATGATTAT 59.872 40.000 0.00 0.00 35.42 1.28
764 815 4.462834 AGTGTGGAACTCTCGTGATGATTA 59.537 41.667 0.00 0.00 35.42 1.75
805 861 1.373371 GTGGTAACGACGGGGTGAC 60.373 63.158 0.00 0.00 42.51 3.67
806 862 1.526575 GAGTGGTAACGACGGGGTGA 61.527 60.000 0.00 0.00 42.51 4.02
807 863 1.080298 GAGTGGTAACGACGGGGTG 60.080 63.158 0.00 0.00 42.51 4.61
808 864 2.629656 CGAGTGGTAACGACGGGGT 61.630 63.158 0.00 0.00 42.51 4.95
809 865 2.180017 CGAGTGGTAACGACGGGG 59.820 66.667 0.00 0.00 42.51 5.73
810 866 1.443194 CACGAGTGGTAACGACGGG 60.443 63.158 0.00 0.00 42.51 5.28
811 867 2.084681 GCACGAGTGGTAACGACGG 61.085 63.158 5.32 0.00 42.51 4.79
812 868 1.063951 GAGCACGAGTGGTAACGACG 61.064 60.000 7.98 0.00 41.93 5.12
847 903 1.496444 TATCCTGTGGTTGCAGCCCA 61.496 55.000 17.83 13.11 35.28 5.36
848 904 1.032114 GTATCCTGTGGTTGCAGCCC 61.032 60.000 17.83 9.01 35.28 5.19
849 905 0.322456 TGTATCCTGTGGTTGCAGCC 60.322 55.000 13.50 13.50 35.28 4.85
850 906 1.402968 CATGTATCCTGTGGTTGCAGC 59.597 52.381 0.00 0.00 35.28 5.25
851 907 2.019249 CCATGTATCCTGTGGTTGCAG 58.981 52.381 0.00 0.00 36.31 4.41
852 908 1.632920 TCCATGTATCCTGTGGTTGCA 59.367 47.619 0.00 0.00 34.61 4.08
853 909 2.418368 TCCATGTATCCTGTGGTTGC 57.582 50.000 0.00 0.00 34.61 4.17
854 910 5.551305 TCTATCCATGTATCCTGTGGTTG 57.449 43.478 0.00 0.00 34.61 3.77
855 911 5.513788 GCATCTATCCATGTATCCTGTGGTT 60.514 44.000 0.00 0.00 34.61 3.67
856 912 4.019860 GCATCTATCCATGTATCCTGTGGT 60.020 45.833 0.00 0.00 34.61 4.16
857 913 4.019950 TGCATCTATCCATGTATCCTGTGG 60.020 45.833 0.00 0.00 0.00 4.17
858 914 5.046807 TCTGCATCTATCCATGTATCCTGTG 60.047 44.000 0.00 0.00 0.00 3.66
862 918 4.081972 ACGTCTGCATCTATCCATGTATCC 60.082 45.833 0.00 0.00 0.00 2.59
866 922 2.287849 CGACGTCTGCATCTATCCATGT 60.288 50.000 14.70 0.00 0.00 3.21
884 940 3.771491 CGCTGTCAGCTGCACGAC 61.771 66.667 22.13 13.41 39.60 4.34
886 942 3.476646 CTCGCTGTCAGCTGCACG 61.477 66.667 22.13 15.24 39.60 5.34
895 951 1.606350 CCACGTCGTTTCTCGCTGTC 61.606 60.000 0.00 0.00 39.67 3.51
898 954 1.081376 CTCCACGTCGTTTCTCGCT 60.081 57.895 0.00 0.00 39.67 4.93
899 955 2.717809 GCTCCACGTCGTTTCTCGC 61.718 63.158 0.00 0.00 39.67 5.03
979 1035 0.955428 TGGATCTTGGTGTCTTGCGC 60.955 55.000 0.00 0.00 0.00 6.09
1779 1836 2.933287 ACCCGGATGACTTGCCCA 60.933 61.111 0.73 0.00 0.00 5.36
1817 1874 2.629656 GCACGCCAGCCAACAGATT 61.630 57.895 0.00 0.00 0.00 2.40
1818 1875 3.058160 GCACGCCAGCCAACAGAT 61.058 61.111 0.00 0.00 0.00 2.90
1832 1896 1.142314 ATTTCGCATGGCATGGCAC 59.858 52.632 25.84 12.03 0.00 5.01
1845 1910 1.791555 GCAACATCCAGACGCATTTCG 60.792 52.381 0.00 0.00 45.38 3.46
1847 1912 1.200716 CTGCAACATCCAGACGCATTT 59.799 47.619 0.00 0.00 32.03 2.32
1859 1944 8.715191 TTTATTTGTTCAGTTTTCTGCAACAT 57.285 26.923 0.00 4.52 46.59 2.71
1867 1952 8.764287 CCCACAAGATTTATTTGTTCAGTTTTC 58.236 33.333 0.00 0.00 36.67 2.29
1874 1959 9.271828 ACAAATTCCCACAAGATTTATTTGTTC 57.728 29.630 0.00 0.00 40.05 3.18
1881 1966 6.418057 AAGCACAAATTCCCACAAGATTTA 57.582 33.333 0.00 0.00 0.00 1.40
1888 1973 2.591923 TGCTAAGCACAAATTCCCACA 58.408 42.857 0.00 0.00 31.71 4.17
1893 1978 5.883661 TGCTCTTATGCTAAGCACAAATTC 58.116 37.500 0.00 0.00 43.04 2.17
1901 1986 4.396166 TGGTTTCTTGCTCTTATGCTAAGC 59.604 41.667 0.00 0.00 36.56 3.09
1903 1988 5.181245 GTGTGGTTTCTTGCTCTTATGCTAA 59.819 40.000 0.00 0.00 0.00 3.09
1904 1989 4.695455 GTGTGGTTTCTTGCTCTTATGCTA 59.305 41.667 0.00 0.00 0.00 3.49
1905 1990 3.503748 GTGTGGTTTCTTGCTCTTATGCT 59.496 43.478 0.00 0.00 0.00 3.79
1906 1991 3.503748 AGTGTGGTTTCTTGCTCTTATGC 59.496 43.478 0.00 0.00 0.00 3.14
1907 1992 6.801539 TTAGTGTGGTTTCTTGCTCTTATG 57.198 37.500 0.00 0.00 0.00 1.90
1908 1993 7.817418 TTTTAGTGTGGTTTCTTGCTCTTAT 57.183 32.000 0.00 0.00 0.00 1.73
1928 2055 5.788450 ACAACGGCATTTGATCCATTTTTA 58.212 33.333 3.69 0.00 0.00 1.52
1942 2069 3.682858 GTGTACACAATCTACAACGGCAT 59.317 43.478 21.14 0.00 0.00 4.40
1943 2070 3.061322 GTGTACACAATCTACAACGGCA 58.939 45.455 21.14 0.00 0.00 5.69
1948 2075 7.051623 AGTTTTCCTGTGTACACAATCTACAA 58.948 34.615 27.66 13.71 41.33 2.41
1949 2076 6.588204 AGTTTTCCTGTGTACACAATCTACA 58.412 36.000 27.66 9.32 41.33 2.74
1950 2077 7.871463 AGTAGTTTTCCTGTGTACACAATCTAC 59.129 37.037 27.66 25.29 41.33 2.59
1951 2078 7.870954 CAGTAGTTTTCCTGTGTACACAATCTA 59.129 37.037 27.66 17.65 41.33 1.98
1952 2079 6.706270 CAGTAGTTTTCCTGTGTACACAATCT 59.294 38.462 27.66 18.53 41.33 2.40
1953 2080 6.565999 GCAGTAGTTTTCCTGTGTACACAATC 60.566 42.308 27.66 12.97 41.33 2.67
1954 2081 5.238650 GCAGTAGTTTTCCTGTGTACACAAT 59.761 40.000 27.66 8.39 41.33 2.71
1955 2082 4.573201 GCAGTAGTTTTCCTGTGTACACAA 59.427 41.667 27.66 12.95 41.33 3.33
1957 2084 4.377897 AGCAGTAGTTTTCCTGTGTACAC 58.622 43.478 19.36 19.36 0.00 2.90
1958 2085 4.682778 AGCAGTAGTTTTCCTGTGTACA 57.317 40.909 0.00 0.00 0.00 2.90
1961 2088 2.618709 GCAAGCAGTAGTTTTCCTGTGT 59.381 45.455 0.00 0.00 0.00 3.72
1974 2919 2.304180 AGGTGTGAGATAAGCAAGCAGT 59.696 45.455 0.00 0.00 0.00 4.40
1981 2926 5.068460 AGTCTGTATGAGGTGTGAGATAAGC 59.932 44.000 0.00 0.00 0.00 3.09
2080 3037 1.070786 GGAGCTGACCGGTGAAACA 59.929 57.895 14.63 1.70 39.98 2.83
2081 3038 0.250338 AAGGAGCTGACCGGTGAAAC 60.250 55.000 14.63 0.00 34.73 2.78
2151 3108 2.650116 GGAGAAGAGGCTCACGGCA 61.650 63.158 18.26 0.00 44.01 5.69
2397 3354 3.615709 GCCGGCAAGCACCCTTTT 61.616 61.111 24.80 0.00 0.00 2.27
2463 3420 2.354103 CCTCGGATGCACGGATTATGAT 60.354 50.000 0.00 0.00 0.00 2.45
2733 3690 2.600731 CCAACTCTCAGACACGTCATC 58.399 52.381 0.00 0.00 0.00 2.92
2742 3699 1.059584 TTGTGGGGCCAACTCTCAGA 61.060 55.000 13.35 0.00 0.00 3.27


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

AutoCloner maintained by Alex Coulton.