Multiple sequence alignment - TraesCS2B01G454400

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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 TraesCS2B01G454400 chr2B 100.000 3123 0 0 1 3123 648932409 648929287 0.000000e+00 5768.0
1 TraesCS2B01G454400 chr2B 91.471 1360 88 19 822 2170 649370753 649369411 0.000000e+00 1844.0
2 TraesCS2B01G454400 chr2B 88.654 661 69 3 1 656 481631587 481632246 0.000000e+00 800.0
3 TraesCS2B01G454400 chr2B 84.562 434 29 11 1877 2281 649192246 649191822 2.260000e-106 396.0
4 TraesCS2B01G454400 chr2B 92.810 153 11 0 2129 2281 649367782 649367630 4.050000e-54 222.0
5 TraesCS2B01G454400 chr2B 86.792 106 3 1 2242 2336 649369226 649369121 1.180000e-19 108.0
6 TraesCS2B01G454400 chr2A 90.956 1548 88 23 773 2281 686523799 686522265 0.000000e+00 2036.0
7 TraesCS2B01G454400 chr2A 90.744 1545 94 22 773 2281 686614672 686613141 0.000000e+00 2015.0
8 TraesCS2B01G454400 chr2A 90.476 1554 90 23 773 2281 686322792 686321252 0.000000e+00 1997.0
9 TraesCS2B01G454400 chr2A 90.277 1553 94 22 773 2281 686297209 686295670 0.000000e+00 1978.0
10 TraesCS2B01G454400 chr2D 90.550 1545 107 18 765 2286 543762100 543760572 0.000000e+00 2008.0
11 TraesCS2B01G454400 chr2D 91.278 1479 106 15 822 2286 543813744 543812275 0.000000e+00 1995.0
12 TraesCS2B01G454400 chr2D 90.314 1497 103 16 824 2290 543532118 543530634 0.000000e+00 1923.0
13 TraesCS2B01G454400 chr2D 87.106 1396 107 35 882 2229 543589155 543587785 0.000000e+00 1513.0
14 TraesCS2B01G454400 chr2D 82.095 296 34 18 2387 2669 430612519 430612230 5.210000e-58 235.0
15 TraesCS2B01G454400 chr7B 95.840 649 15 2 6 654 615712204 615712840 0.000000e+00 1038.0
16 TraesCS2B01G454400 chr7B 82.028 651 108 9 6 651 637502726 637503372 2.120000e-151 545.0
17 TraesCS2B01G454400 chr7B 86.286 175 22 2 2387 2561 434784237 434784065 4.110000e-44 189.0
18 TraesCS2B01G454400 chr7B 97.531 81 2 0 655 735 659874634 659874554 4.200000e-29 139.0
19 TraesCS2B01G454400 chr7B 94.253 87 5 0 649 735 493528925 493529011 1.950000e-27 134.0
20 TraesCS2B01G454400 chr1B 91.667 660 49 2 1 655 497305327 497304669 0.000000e+00 909.0
21 TraesCS2B01G454400 chr1B 89.894 376 34 2 2751 3123 54979711 54980085 6.060000e-132 481.0
22 TraesCS2B01G454400 chr1B 94.318 88 5 0 648 735 413494618 413494705 5.430000e-28 135.0
23 TraesCS2B01G454400 chrUn 88.462 650 66 5 12 653 255055015 255055663 0.000000e+00 776.0
24 TraesCS2B01G454400 chrUn 88.462 650 66 5 12 653 269232021 269232669 0.000000e+00 776.0
25 TraesCS2B01G454400 chrUn 83.862 378 46 15 2385 2757 217762825 217762458 2.310000e-91 346.0
26 TraesCS2B01G454400 chrUn 83.777 376 46 15 2387 2757 246304001 246303636 2.980000e-90 342.0
27 TraesCS2B01G454400 chrUn 83.333 378 48 15 2385 2757 327117718 327117351 4.990000e-88 335.0
28 TraesCS2B01G454400 chr5B 85.213 656 93 4 1 653 450505730 450505076 0.000000e+00 671.0
29 TraesCS2B01G454400 chr5B 89.362 376 33 3 2751 3123 137288170 137287799 1.700000e-127 466.0
30 TraesCS2B01G454400 chr5B 95.402 87 4 0 649 735 681084891 681084977 4.200000e-29 139.0
31 TraesCS2B01G454400 chr4A 82.161 768 95 32 2388 3123 733456393 733457150 3.420000e-174 621.0
32 TraesCS2B01G454400 chr4A 81.980 394 42 22 2385 2757 597976122 597975737 1.090000e-79 307.0
33 TraesCS2B01G454400 chr6B 92.287 376 26 1 2751 3123 45842466 45842841 5.930000e-147 531.0
34 TraesCS2B01G454400 chr6B 85.745 463 59 5 195 652 636744982 636744522 1.680000e-132 483.0
35 TraesCS2B01G454400 chr6B 83.862 378 46 15 2385 2757 4408288 4408655 2.310000e-91 346.0
36 TraesCS2B01G454400 chr6B 96.552 87 3 0 649 735 675614852 675614766 9.030000e-31 145.0
37 TraesCS2B01G454400 chr6B 95.402 87 4 0 649 735 47300527 47300613 4.200000e-29 139.0
38 TraesCS2B01G454400 chr6B 95.402 87 4 0 649 735 47330272 47330358 4.200000e-29 139.0
39 TraesCS2B01G454400 chr6B 95.402 87 4 0 649 735 47366738 47366824 4.200000e-29 139.0
40 TraesCS2B01G454400 chr3B 91.755 376 28 1 2751 3123 733608362 733608737 1.280000e-143 520.0
41 TraesCS2B01G454400 chr3B 93.407 91 6 0 649 739 637086140 637086230 5.430000e-28 135.0
42 TraesCS2B01G454400 chr7D 90.451 377 33 1 2750 3123 51411709 51412085 7.780000e-136 494.0
43 TraesCS2B01G454400 chr7D 89.153 378 33 5 2751 3123 569043496 569043870 6.100000e-127 464.0
44 TraesCS2B01G454400 chr7D 86.607 224 14 10 2533 2755 569043247 569043455 1.870000e-57 233.0
45 TraesCS2B01G454400 chr7D 83.333 240 18 11 2518 2755 65772353 65772572 5.280000e-48 202.0
46 TraesCS2B01G454400 chr1D 91.086 359 29 1 2768 3123 416854853 416855211 1.680000e-132 483.0
47 TraesCS2B01G454400 chr1D 84.636 371 29 14 2413 2757 252595523 252595155 8.290000e-91 344.0
48 TraesCS2B01G454400 chr4D 80.000 660 116 14 1 653 496869153 496869803 1.010000e-129 473.0
49 TraesCS2B01G454400 chr6D 89.362 376 37 3 2751 3123 10706142 10706517 1.310000e-128 470.0
50 TraesCS2B01G454400 chr4B 87.984 258 25 6 2504 2757 404457347 404457092 1.820000e-77 300.0
51 TraesCS2B01G454400 chr5A 92.453 53 4 0 2389 2441 308077385 308077333 3.340000e-10 76.8


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 TraesCS2B01G454400 chr2B 648929287 648932409 3122 True 5768.000000 5768 100.000000 1 3123 1 chr2B.!!$R1 3122
1 TraesCS2B01G454400 chr2B 481631587 481632246 659 False 800.000000 800 88.654000 1 656 1 chr2B.!!$F1 655
2 TraesCS2B01G454400 chr2B 649367630 649370753 3123 True 724.666667 1844 90.357667 822 2336 3 chr2B.!!$R3 1514
3 TraesCS2B01G454400 chr2A 686522265 686523799 1534 True 2036.000000 2036 90.956000 773 2281 1 chr2A.!!$R3 1508
4 TraesCS2B01G454400 chr2A 686613141 686614672 1531 True 2015.000000 2015 90.744000 773 2281 1 chr2A.!!$R4 1508
5 TraesCS2B01G454400 chr2A 686321252 686322792 1540 True 1997.000000 1997 90.476000 773 2281 1 chr2A.!!$R2 1508
6 TraesCS2B01G454400 chr2A 686295670 686297209 1539 True 1978.000000 1978 90.277000 773 2281 1 chr2A.!!$R1 1508
7 TraesCS2B01G454400 chr2D 543760572 543762100 1528 True 2008.000000 2008 90.550000 765 2286 1 chr2D.!!$R4 1521
8 TraesCS2B01G454400 chr2D 543812275 543813744 1469 True 1995.000000 1995 91.278000 822 2286 1 chr2D.!!$R5 1464
9 TraesCS2B01G454400 chr2D 543530634 543532118 1484 True 1923.000000 1923 90.314000 824 2290 1 chr2D.!!$R2 1466
10 TraesCS2B01G454400 chr2D 543587785 543589155 1370 True 1513.000000 1513 87.106000 882 2229 1 chr2D.!!$R3 1347
11 TraesCS2B01G454400 chr7B 615712204 615712840 636 False 1038.000000 1038 95.840000 6 654 1 chr7B.!!$F2 648
12 TraesCS2B01G454400 chr7B 637502726 637503372 646 False 545.000000 545 82.028000 6 651 1 chr7B.!!$F3 645
13 TraesCS2B01G454400 chr1B 497304669 497305327 658 True 909.000000 909 91.667000 1 655 1 chr1B.!!$R1 654
14 TraesCS2B01G454400 chrUn 255055015 255055663 648 False 776.000000 776 88.462000 12 653 1 chrUn.!!$F1 641
15 TraesCS2B01G454400 chrUn 269232021 269232669 648 False 776.000000 776 88.462000 12 653 1 chrUn.!!$F2 641
16 TraesCS2B01G454400 chr5B 450505076 450505730 654 True 671.000000 671 85.213000 1 653 1 chr5B.!!$R2 652
17 TraesCS2B01G454400 chr4A 733456393 733457150 757 False 621.000000 621 82.161000 2388 3123 1 chr4A.!!$F1 735
18 TraesCS2B01G454400 chr7D 569043247 569043870 623 False 348.500000 464 87.880000 2533 3123 2 chr7D.!!$F3 590
19 TraesCS2B01G454400 chr4D 496869153 496869803 650 False 473.000000 473 80.000000 1 653 1 chr4D.!!$F1 652

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
795 805 0.036164 ACCTATGCACGCAAAGGACA 59.964 50.0 0.0 0.0 33.16 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2295 4073 0.323629 TCCGTGGTGGAACTTCATCC 59.676 55.0 0.0 0.0 46.38 3.51 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
46 47 1.372582 CGCCTGCAAAGCTCAAGATA 58.627 50.000 6.80 0.00 0.00 1.98
138 139 1.921982 TATTTCTGCCAGCTTTGCCA 58.078 45.000 2.68 0.00 0.00 4.92
293 294 3.954904 GGACAGGTTCAGAGCTATGACTA 59.045 47.826 11.33 0.00 31.08 2.59
604 614 3.548745 ATCGATTTGTCATCTGCTCCA 57.451 42.857 0.00 0.00 0.00 3.86
613 623 3.118149 TGTCATCTGCTCCATGCTTATGT 60.118 43.478 0.00 0.00 43.37 2.29
614 624 3.881688 GTCATCTGCTCCATGCTTATGTT 59.118 43.478 0.00 0.00 43.37 2.71
615 625 4.024218 GTCATCTGCTCCATGCTTATGTTC 60.024 45.833 0.00 0.00 43.37 3.18
616 626 3.632643 TCTGCTCCATGCTTATGTTCA 57.367 42.857 0.00 0.00 43.37 3.18
617 627 3.954200 TCTGCTCCATGCTTATGTTCAA 58.046 40.909 0.00 0.00 43.37 2.69
618 628 4.529897 TCTGCTCCATGCTTATGTTCAAT 58.470 39.130 0.00 0.00 43.37 2.57
619 629 4.337274 TCTGCTCCATGCTTATGTTCAATG 59.663 41.667 0.00 0.00 43.37 2.82
620 630 4.271661 TGCTCCATGCTTATGTTCAATGA 58.728 39.130 0.00 0.00 43.37 2.57
621 631 4.705991 TGCTCCATGCTTATGTTCAATGAA 59.294 37.500 0.00 0.00 43.37 2.57
622 632 5.185442 TGCTCCATGCTTATGTTCAATGAAA 59.815 36.000 0.00 0.00 43.37 2.69
623 633 5.517770 GCTCCATGCTTATGTTCAATGAAAC 59.482 40.000 0.00 0.00 38.95 2.78
624 634 6.587206 TCCATGCTTATGTTCAATGAAACA 57.413 33.333 0.00 0.00 42.92 2.83
625 635 6.389091 TCCATGCTTATGTTCAATGAAACAC 58.611 36.000 0.00 0.00 41.65 3.32
626 636 5.577945 CCATGCTTATGTTCAATGAAACACC 59.422 40.000 0.00 0.00 41.65 4.16
627 637 5.781210 TGCTTATGTTCAATGAAACACCA 57.219 34.783 0.00 0.00 41.65 4.17
628 638 5.771469 TGCTTATGTTCAATGAAACACCAG 58.229 37.500 0.00 0.65 41.65 4.00
629 639 4.622740 GCTTATGTTCAATGAAACACCAGC 59.377 41.667 0.00 6.25 41.65 4.85
630 640 3.665745 ATGTTCAATGAAACACCAGCC 57.334 42.857 0.00 0.00 41.65 4.85
631 641 2.665165 TGTTCAATGAAACACCAGCCT 58.335 42.857 0.00 0.00 34.31 4.58
632 642 3.030291 TGTTCAATGAAACACCAGCCTT 58.970 40.909 0.00 0.00 34.31 4.35
633 643 3.181477 TGTTCAATGAAACACCAGCCTTG 60.181 43.478 0.00 0.00 34.31 3.61
643 653 2.437897 CAGCCTTGGCTGGTCCTT 59.562 61.111 28.58 0.00 34.47 3.36
644 654 1.228675 CAGCCTTGGCTGGTCCTTT 60.229 57.895 28.58 0.00 34.47 3.11
645 655 0.038166 CAGCCTTGGCTGGTCCTTTA 59.962 55.000 28.58 0.00 34.47 1.85
646 656 0.777446 AGCCTTGGCTGGTCCTTTAA 59.223 50.000 13.99 0.00 35.26 1.52
647 657 1.146982 AGCCTTGGCTGGTCCTTTAAA 59.853 47.619 13.99 0.00 35.26 1.52
648 658 1.967779 GCCTTGGCTGGTCCTTTAAAA 59.032 47.619 4.11 0.00 35.26 1.52
649 659 2.367241 GCCTTGGCTGGTCCTTTAAAAA 59.633 45.455 4.11 0.00 35.26 1.94
710 720 9.217278 ACATCTAGATGCATCTATTTCAATGAC 57.783 33.333 31.46 1.07 42.39 3.06
711 721 9.216117 CATCTAGATGCATCTATTTCAATGACA 57.784 33.333 31.46 11.31 38.60 3.58
712 722 9.788889 ATCTAGATGCATCTATTTCAATGACAA 57.211 29.630 31.46 11.12 38.60 3.18
713 723 9.269453 TCTAGATGCATCTATTTCAATGACAAG 57.731 33.333 31.46 19.04 38.60 3.16
714 724 7.876936 AGATGCATCTATTTCAATGACAAGT 57.123 32.000 27.73 0.00 34.85 3.16
715 725 8.969260 AGATGCATCTATTTCAATGACAAGTA 57.031 30.769 27.73 0.00 34.85 2.24
716 726 9.570468 AGATGCATCTATTTCAATGACAAGTAT 57.430 29.630 27.73 0.00 34.85 2.12
723 733 9.958180 TCTATTTCAATGACAAGTATTTCTGGA 57.042 29.630 0.00 0.00 0.00 3.86
724 734 9.994432 CTATTTCAATGACAAGTATTTCTGGAC 57.006 33.333 0.00 0.00 0.00 4.02
725 735 6.480524 TTCAATGACAAGTATTTCTGGACG 57.519 37.500 0.00 0.00 0.00 4.79
726 736 4.935205 TCAATGACAAGTATTTCTGGACGG 59.065 41.667 0.00 0.00 0.00 4.79
727 737 4.819105 ATGACAAGTATTTCTGGACGGA 57.181 40.909 0.00 0.00 0.00 4.69
728 738 4.188247 TGACAAGTATTTCTGGACGGAG 57.812 45.455 0.00 0.00 0.00 4.63
729 739 3.056107 TGACAAGTATTTCTGGACGGAGG 60.056 47.826 0.00 0.00 0.00 4.30
730 740 2.236395 ACAAGTATTTCTGGACGGAGGG 59.764 50.000 0.00 0.00 0.00 4.30
731 741 2.500098 CAAGTATTTCTGGACGGAGGGA 59.500 50.000 0.00 0.00 0.00 4.20
732 742 2.389715 AGTATTTCTGGACGGAGGGAG 58.610 52.381 0.00 0.00 0.00 4.30
733 743 2.108970 GTATTTCTGGACGGAGGGAGT 58.891 52.381 0.00 0.00 0.00 3.85
734 744 2.544844 ATTTCTGGACGGAGGGAGTA 57.455 50.000 0.00 0.00 0.00 2.59
735 745 2.314071 TTTCTGGACGGAGGGAGTAA 57.686 50.000 0.00 0.00 0.00 2.24
736 746 1.848652 TTCTGGACGGAGGGAGTAAG 58.151 55.000 0.00 0.00 0.00 2.34
737 747 0.997363 TCTGGACGGAGGGAGTAAGA 59.003 55.000 0.00 0.00 0.00 2.10
738 748 1.064611 TCTGGACGGAGGGAGTAAGAG 60.065 57.143 0.00 0.00 0.00 2.85
739 749 0.702902 TGGACGGAGGGAGTAAGAGT 59.297 55.000 0.00 0.00 0.00 3.24
740 750 1.918262 TGGACGGAGGGAGTAAGAGTA 59.082 52.381 0.00 0.00 0.00 2.59
741 751 2.512896 TGGACGGAGGGAGTAAGAGTAT 59.487 50.000 0.00 0.00 0.00 2.12
742 752 3.148412 GGACGGAGGGAGTAAGAGTATC 58.852 54.545 0.00 0.00 0.00 2.24
743 753 3.434739 GGACGGAGGGAGTAAGAGTATCA 60.435 52.174 0.00 0.00 37.82 2.15
744 754 3.816523 GACGGAGGGAGTAAGAGTATCAG 59.183 52.174 0.00 0.00 37.82 2.90
745 755 3.150767 CGGAGGGAGTAAGAGTATCAGG 58.849 54.545 0.00 0.00 37.82 3.86
746 756 2.894765 GGAGGGAGTAAGAGTATCAGGC 59.105 54.545 0.00 0.00 37.82 4.85
747 757 3.567397 GAGGGAGTAAGAGTATCAGGCA 58.433 50.000 0.00 0.00 37.82 4.75
748 758 3.961408 GAGGGAGTAAGAGTATCAGGCAA 59.039 47.826 0.00 0.00 37.82 4.52
749 759 3.707102 AGGGAGTAAGAGTATCAGGCAAC 59.293 47.826 0.00 0.00 37.82 4.17
763 773 2.813779 GGCAACTGACATAAAGCTCG 57.186 50.000 0.00 0.00 0.00 5.03
770 780 6.269315 CAACTGACATAAAGCTCGATCTACT 58.731 40.000 0.00 0.00 0.00 2.57
793 803 2.853159 CACCTATGCACGCAAAGGA 58.147 52.632 0.00 0.00 33.16 3.36
794 804 0.447801 CACCTATGCACGCAAAGGAC 59.552 55.000 0.00 0.00 33.16 3.85
795 805 0.036164 ACCTATGCACGCAAAGGACA 59.964 50.000 0.00 0.00 33.16 4.02
796 806 0.729116 CCTATGCACGCAAAGGACAG 59.271 55.000 0.00 0.00 0.00 3.51
844 864 2.350007 GGCGTTGACAAGCGACATTTAA 60.350 45.455 12.35 0.00 35.95 1.52
845 865 3.488489 GCGTTGACAAGCGACATTTAAT 58.512 40.909 12.35 0.00 0.00 1.40
846 866 3.911964 GCGTTGACAAGCGACATTTAATT 59.088 39.130 12.35 0.00 0.00 1.40
848 868 5.002189 GCGTTGACAAGCGACATTTAATTAC 59.998 40.000 12.35 0.00 0.00 1.89
853 873 6.205853 TGACAAGCGACATTTAATTACCAAGT 59.794 34.615 0.00 0.00 0.00 3.16
857 877 6.782150 AGCGACATTTAATTACCAAGTAAGC 58.218 36.000 0.00 0.00 31.29 3.09
858 878 6.598064 AGCGACATTTAATTACCAAGTAAGCT 59.402 34.615 0.00 0.00 31.29 3.74
859 879 7.767198 AGCGACATTTAATTACCAAGTAAGCTA 59.233 33.333 0.00 0.00 31.29 3.32
860 880 8.062448 GCGACATTTAATTACCAAGTAAGCTAG 58.938 37.037 0.00 0.00 31.29 3.42
861 881 9.309516 CGACATTTAATTACCAAGTAAGCTAGA 57.690 33.333 0.00 0.00 31.29 2.43
905 925 3.394674 TCGATCGGCCTATAAATTGCA 57.605 42.857 16.41 0.00 0.00 4.08
942 964 2.088950 AACGTACCCATTCAACTCGG 57.911 50.000 0.00 0.00 0.00 4.63
1038 1081 3.815396 GTGCTGGCTTTAGCGGCC 61.815 66.667 13.06 0.00 46.61 6.13
1090 1133 3.814268 CGCAATCCAAGCCACGGG 61.814 66.667 0.00 0.00 0.00 5.28
1154 1215 1.000827 CGTCAAGTGCAGTGAGAGTCT 60.001 52.381 0.00 0.00 0.00 3.24
1189 1250 1.980765 ACTGCTCCAACCAGAAGATGA 59.019 47.619 0.00 0.00 34.47 2.92
1197 1258 1.067295 ACCAGAAGATGAACTGCCCA 58.933 50.000 0.00 0.00 33.40 5.36
1202 1263 0.333993 AAGATGAACTGCCCAGCCAT 59.666 50.000 0.00 0.00 0.00 4.40
1223 1284 2.683933 CCCCCAGTCCTGCTACGT 60.684 66.667 0.00 0.00 0.00 3.57
1275 1346 3.182572 GTGAGCACTTCGTGTCTTAACTG 59.817 47.826 0.00 0.00 35.75 3.16
1294 1365 5.073311 ACTGTGCAGGTACAACTATAGTG 57.927 43.478 6.06 3.62 0.00 2.74
1920 1996 2.023882 GTACCGCTCCGACTACGC 59.976 66.667 0.00 0.00 38.29 4.42
2192 3958 2.226330 GCATGGTTGACAAGTACACCA 58.774 47.619 3.23 3.23 0.00 4.17
2207 3973 7.284489 ACAAGTACACCAAGAAATAAGCAAAGA 59.716 33.333 0.00 0.00 0.00 2.52
2215 3981 9.476202 ACCAAGAAATAAGCAAAGAACATAAAC 57.524 29.630 0.00 0.00 0.00 2.01
2223 3989 5.464168 AGCAAAGAACATAAACTGATGTGC 58.536 37.500 0.00 0.00 39.99 4.57
2292 4070 2.191908 TTGCACTGGCGTGGAACT 59.808 55.556 11.01 0.00 44.94 3.01
2293 4071 2.186160 TTGCACTGGCGTGGAACTG 61.186 57.895 11.01 0.00 44.94 3.16
2294 4072 2.591715 GCACTGGCGTGGAACTGT 60.592 61.111 10.56 0.00 41.51 3.55
2295 4073 2.896801 GCACTGGCGTGGAACTGTG 61.897 63.158 10.56 0.00 41.51 3.66
2296 4074 2.111043 ACTGGCGTGGAACTGTGG 59.889 61.111 0.00 0.00 31.75 4.17
2297 4075 2.425592 CTGGCGTGGAACTGTGGA 59.574 61.111 0.00 0.00 31.75 4.02
2298 4076 1.003355 CTGGCGTGGAACTGTGGAT 60.003 57.895 0.00 0.00 31.75 3.41
2299 4077 1.300971 CTGGCGTGGAACTGTGGATG 61.301 60.000 0.00 0.00 31.75 3.51
2300 4078 1.003839 GGCGTGGAACTGTGGATGA 60.004 57.895 0.00 0.00 31.75 2.92
2301 4079 0.605319 GGCGTGGAACTGTGGATGAA 60.605 55.000 0.00 0.00 31.75 2.57
2302 4080 0.798776 GCGTGGAACTGTGGATGAAG 59.201 55.000 0.00 0.00 31.75 3.02
2303 4081 1.878102 GCGTGGAACTGTGGATGAAGT 60.878 52.381 0.00 0.00 31.75 3.01
2304 4082 2.494059 CGTGGAACTGTGGATGAAGTT 58.506 47.619 0.00 0.00 39.31 2.66
2312 4090 3.623848 TGGATGAAGTTCCACCACG 57.376 52.632 12.21 0.00 40.90 4.94
2313 4091 0.036164 TGGATGAAGTTCCACCACGG 59.964 55.000 12.21 0.00 40.90 4.94
2314 4092 0.323629 GGATGAAGTTCCACCACGGA 59.676 55.000 0.00 0.00 44.40 4.69
2329 4107 3.475774 GGAGTGGTTACGCGCGTG 61.476 66.667 42.78 19.78 0.00 5.34
2330 4108 2.429571 GAGTGGTTACGCGCGTGA 60.430 61.111 42.78 34.14 0.00 4.35
2331 4109 2.017783 GAGTGGTTACGCGCGTGAA 61.018 57.895 42.78 28.33 0.00 3.18
2332 4110 1.349259 GAGTGGTTACGCGCGTGAAT 61.349 55.000 42.78 23.44 0.00 2.57
2333 4111 1.058284 GTGGTTACGCGCGTGAATC 59.942 57.895 42.78 29.92 0.00 2.52
2334 4112 2.315356 GGTTACGCGCGTGAATCG 59.685 61.111 42.78 14.48 43.12 3.34
2335 4113 2.315356 GTTACGCGCGTGAATCGG 59.685 61.111 42.78 9.64 40.26 4.18
2336 4114 2.126385 TTACGCGCGTGAATCGGT 60.126 55.556 42.78 18.17 40.26 4.69
2337 4115 1.133363 GTTACGCGCGTGAATCGGTA 61.133 55.000 42.78 19.98 40.26 4.02
2338 4116 0.455802 TTACGCGCGTGAATCGGTAA 60.456 50.000 42.78 24.70 40.26 2.85
2339 4117 0.862701 TACGCGCGTGAATCGGTAAG 60.863 55.000 42.78 7.16 40.26 2.34
2340 4118 2.856346 CGCGCGTGAATCGGTAAGG 61.856 63.158 24.19 0.00 40.26 2.69
2341 4119 3.003478 CGCGTGAATCGGTAAGGC 58.997 61.111 0.00 0.00 40.26 4.35
2342 4120 2.856346 CGCGTGAATCGGTAAGGCG 61.856 63.158 0.00 4.32 41.04 5.52
2343 4121 3.003478 CGTGAATCGGTAAGGCGC 58.997 61.111 0.00 0.00 35.71 6.53
2344 4122 2.522638 CGTGAATCGGTAAGGCGCC 61.523 63.158 21.89 21.89 35.71 6.53
2345 4123 1.448893 GTGAATCGGTAAGGCGCCA 60.449 57.895 31.54 5.56 0.00 5.69
2346 4124 1.153449 TGAATCGGTAAGGCGCCAG 60.153 57.895 31.54 14.14 0.00 4.85
2347 4125 1.153429 GAATCGGTAAGGCGCCAGT 60.153 57.895 31.54 18.99 0.00 4.00
2348 4126 1.152383 GAATCGGTAAGGCGCCAGTC 61.152 60.000 31.54 17.30 0.00 3.51
2349 4127 2.901051 AATCGGTAAGGCGCCAGTCG 62.901 60.000 31.54 24.64 42.12 4.18
2371 4149 3.303881 CAGCTACTGCACACTAGTTGA 57.696 47.619 0.00 0.00 42.74 3.18
2372 4150 3.249091 CAGCTACTGCACACTAGTTGAG 58.751 50.000 0.00 0.00 42.74 3.02
2373 4151 2.894126 AGCTACTGCACACTAGTTGAGT 59.106 45.455 0.00 4.57 42.74 3.41
2381 4159 1.671742 ACTAGTTGAGTGCCCGTGG 59.328 57.895 0.00 0.00 36.87 4.94
2399 4177 2.100631 GCAGTCCGTGCGTTGCTAT 61.101 57.895 5.97 0.00 43.99 2.97
2405 4183 2.398554 CGTGCGTTGCTATGGGCTT 61.399 57.895 0.00 0.00 42.39 4.35
2408 4186 1.470890 GTGCGTTGCTATGGGCTTTTA 59.529 47.619 0.00 0.00 42.39 1.52
2422 4200 9.213799 CTATGGGCTTTTAAAATAGTTTGCAAA 57.786 29.630 8.05 8.05 0.00 3.68
2455 4233 0.902531 CTTTCTAAGGTCTCGCCCCA 59.097 55.000 0.00 0.00 38.26 4.96
2457 4235 1.262640 TTCTAAGGTCTCGCCCCACC 61.263 60.000 0.00 0.00 38.26 4.61
2467 4245 2.727392 CGCCCCACCGTAGATCCAA 61.727 63.158 0.00 0.00 0.00 3.53
2471 4249 0.909623 CCCACCGTAGATCCAAACCT 59.090 55.000 0.00 0.00 0.00 3.50
2474 4252 0.822164 ACCGTAGATCCAAACCTCCG 59.178 55.000 0.00 0.00 0.00 4.63
2475 4253 0.529992 CCGTAGATCCAAACCTCCGC 60.530 60.000 0.00 0.00 0.00 5.54
2490 4268 2.438434 CGCCACTGATTCCACCCC 60.438 66.667 0.00 0.00 0.00 4.95
2492 4270 3.077907 CCACTGATTCCACCCCGT 58.922 61.111 0.00 0.00 0.00 5.28
2493 4271 1.078426 CCACTGATTCCACCCCGTC 60.078 63.158 0.00 0.00 0.00 4.79
2495 4273 1.191535 CACTGATTCCACCCCGTCTA 58.808 55.000 0.00 0.00 0.00 2.59
2638 4425 2.361357 CCTCTCTGGTCCGTCCGT 60.361 66.667 0.00 0.00 39.52 4.69
2757 4545 0.601841 GGCAAGTCCGGTTTCTTCGA 60.602 55.000 0.00 0.00 0.00 3.71
2758 4546 1.439679 GCAAGTCCGGTTTCTTCGAT 58.560 50.000 0.00 0.00 0.00 3.59
2765 4598 1.376812 GGTTTCTTCGATGCCGGGT 60.377 57.895 2.18 0.00 36.24 5.28
2869 4702 0.893447 AGACGGACCTAAACTTCCCG 59.107 55.000 0.00 0.00 45.09 5.14
2957 4790 3.183754 GCTAAGAAGGCGAAGAAGAGAC 58.816 50.000 0.00 0.00 0.00 3.36
3010 4848 1.851021 CGACGATGGCTTGGTTTGCA 61.851 55.000 0.00 0.00 0.00 4.08
3019 4857 0.040958 CTTGGTTTGCACGAGAGCAC 60.041 55.000 0.00 0.00 45.61 4.40
3033 4871 4.065281 GCACCCGCAGTACGTCCT 62.065 66.667 0.00 0.00 41.42 3.85
3043 4881 2.117156 GTACGTCCTGGCCGAGCTA 61.117 63.158 3.30 0.00 0.00 3.32
3050 4888 3.438017 CTGGCCGAGCTAGAGCACC 62.438 68.421 4.01 0.54 45.16 5.01
3065 4903 3.923864 ACCACTGGAAGCGCGACA 61.924 61.111 12.10 1.04 37.60 4.35
3066 4904 3.414700 CCACTGGAAGCGCGACAC 61.415 66.667 12.10 0.00 37.60 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 1.450312 GTGTAGCAGCCAGGCGAAT 60.450 57.895 5.55 0.00 39.27 3.34
138 139 0.389948 CGAGCTTTCTAGGTTGCGGT 60.390 55.000 0.00 0.00 30.79 5.68
604 614 6.343716 TGGTGTTTCATTGAACATAAGCAT 57.656 33.333 0.00 0.00 41.18 3.79
613 623 2.364970 CCAAGGCTGGTGTTTCATTGAA 59.635 45.455 0.00 0.00 38.00 2.69
614 624 1.962807 CCAAGGCTGGTGTTTCATTGA 59.037 47.619 0.00 0.00 38.00 2.57
615 625 1.606224 GCCAAGGCTGGTGTTTCATTG 60.606 52.381 3.29 0.00 45.53 2.82
616 626 0.681175 GCCAAGGCTGGTGTTTCATT 59.319 50.000 3.29 0.00 45.53 2.57
617 627 2.354902 GCCAAGGCTGGTGTTTCAT 58.645 52.632 3.29 0.00 45.53 2.57
618 628 3.854856 GCCAAGGCTGGTGTTTCA 58.145 55.556 3.29 0.00 45.53 2.69
628 638 1.627864 TTTAAAGGACCAGCCAAGGC 58.372 50.000 2.02 2.02 40.02 4.35
684 694 9.217278 GTCATTGAAATAGATGCATCTAGATGT 57.783 33.333 33.44 19.39 42.20 3.06
685 695 9.216117 TGTCATTGAAATAGATGCATCTAGATG 57.784 33.333 33.44 27.62 42.20 2.90
686 696 9.788889 TTGTCATTGAAATAGATGCATCTAGAT 57.211 29.630 33.44 26.00 42.20 1.98
687 697 9.269453 CTTGTCATTGAAATAGATGCATCTAGA 57.731 33.333 33.44 22.93 42.20 2.43
688 698 9.053840 ACTTGTCATTGAAATAGATGCATCTAG 57.946 33.333 33.44 22.10 42.20 2.43
689 699 8.969260 ACTTGTCATTGAAATAGATGCATCTA 57.031 30.769 32.86 32.86 43.00 1.98
690 700 7.876936 ACTTGTCATTGAAATAGATGCATCT 57.123 32.000 30.85 30.85 40.86 2.90
697 707 9.958180 TCCAGAAATACTTGTCATTGAAATAGA 57.042 29.630 0.00 0.00 0.00 1.98
698 708 9.994432 GTCCAGAAATACTTGTCATTGAAATAG 57.006 33.333 0.00 0.00 0.00 1.73
699 709 8.664798 CGTCCAGAAATACTTGTCATTGAAATA 58.335 33.333 0.00 0.00 0.00 1.40
700 710 7.362056 CCGTCCAGAAATACTTGTCATTGAAAT 60.362 37.037 0.00 0.00 0.00 2.17
701 711 6.072728 CCGTCCAGAAATACTTGTCATTGAAA 60.073 38.462 0.00 0.00 0.00 2.69
702 712 5.411361 CCGTCCAGAAATACTTGTCATTGAA 59.589 40.000 0.00 0.00 0.00 2.69
703 713 4.935205 CCGTCCAGAAATACTTGTCATTGA 59.065 41.667 0.00 0.00 0.00 2.57
704 714 4.935205 TCCGTCCAGAAATACTTGTCATTG 59.065 41.667 0.00 0.00 0.00 2.82
705 715 5.160607 TCCGTCCAGAAATACTTGTCATT 57.839 39.130 0.00 0.00 0.00 2.57
706 716 4.383118 CCTCCGTCCAGAAATACTTGTCAT 60.383 45.833 0.00 0.00 0.00 3.06
707 717 3.056107 CCTCCGTCCAGAAATACTTGTCA 60.056 47.826 0.00 0.00 0.00 3.58
708 718 3.522553 CCTCCGTCCAGAAATACTTGTC 58.477 50.000 0.00 0.00 0.00 3.18
709 719 2.236395 CCCTCCGTCCAGAAATACTTGT 59.764 50.000 0.00 0.00 0.00 3.16
710 720 2.500098 TCCCTCCGTCCAGAAATACTTG 59.500 50.000 0.00 0.00 0.00 3.16
711 721 2.766828 CTCCCTCCGTCCAGAAATACTT 59.233 50.000 0.00 0.00 0.00 2.24
712 722 2.292323 ACTCCCTCCGTCCAGAAATACT 60.292 50.000 0.00 0.00 0.00 2.12
713 723 2.108970 ACTCCCTCCGTCCAGAAATAC 58.891 52.381 0.00 0.00 0.00 1.89
714 724 2.544844 ACTCCCTCCGTCCAGAAATA 57.455 50.000 0.00 0.00 0.00 1.40
715 725 2.544844 TACTCCCTCCGTCCAGAAAT 57.455 50.000 0.00 0.00 0.00 2.17
716 726 2.176889 CTTACTCCCTCCGTCCAGAAA 58.823 52.381 0.00 0.00 0.00 2.52
717 727 1.356738 TCTTACTCCCTCCGTCCAGAA 59.643 52.381 0.00 0.00 0.00 3.02
718 728 0.997363 TCTTACTCCCTCCGTCCAGA 59.003 55.000 0.00 0.00 0.00 3.86
719 729 1.341187 ACTCTTACTCCCTCCGTCCAG 60.341 57.143 0.00 0.00 0.00 3.86
720 730 0.702902 ACTCTTACTCCCTCCGTCCA 59.297 55.000 0.00 0.00 0.00 4.02
721 731 2.725221 TACTCTTACTCCCTCCGTCC 57.275 55.000 0.00 0.00 0.00 4.79
722 732 3.816523 CTGATACTCTTACTCCCTCCGTC 59.183 52.174 0.00 0.00 0.00 4.79
723 733 3.435313 CCTGATACTCTTACTCCCTCCGT 60.435 52.174 0.00 0.00 0.00 4.69
724 734 3.150767 CCTGATACTCTTACTCCCTCCG 58.849 54.545 0.00 0.00 0.00 4.63
725 735 2.894765 GCCTGATACTCTTACTCCCTCC 59.105 54.545 0.00 0.00 0.00 4.30
726 736 3.567397 TGCCTGATACTCTTACTCCCTC 58.433 50.000 0.00 0.00 0.00 4.30
727 737 3.689872 TGCCTGATACTCTTACTCCCT 57.310 47.619 0.00 0.00 0.00 4.20
728 738 3.707102 AGTTGCCTGATACTCTTACTCCC 59.293 47.826 0.00 0.00 0.00 4.30
729 739 4.402793 TCAGTTGCCTGATACTCTTACTCC 59.597 45.833 0.00 0.00 42.80 3.85
730 740 5.584253 TCAGTTGCCTGATACTCTTACTC 57.416 43.478 0.00 0.00 42.80 2.59
741 751 3.338249 GAGCTTTATGTCAGTTGCCTGA 58.662 45.455 0.00 0.00 45.44 3.86
742 752 2.094894 CGAGCTTTATGTCAGTTGCCTG 59.905 50.000 0.00 0.00 40.25 4.85
743 753 2.028112 TCGAGCTTTATGTCAGTTGCCT 60.028 45.455 0.00 0.00 0.00 4.75
744 754 2.346803 TCGAGCTTTATGTCAGTTGCC 58.653 47.619 0.00 0.00 0.00 4.52
745 755 3.868077 AGATCGAGCTTTATGTCAGTTGC 59.132 43.478 0.00 0.00 0.00 4.17
746 756 6.269315 AGTAGATCGAGCTTTATGTCAGTTG 58.731 40.000 9.21 0.00 0.00 3.16
747 757 6.095580 TGAGTAGATCGAGCTTTATGTCAGTT 59.904 38.462 9.21 0.00 0.00 3.16
748 758 5.590663 TGAGTAGATCGAGCTTTATGTCAGT 59.409 40.000 9.21 0.00 0.00 3.41
749 759 6.066054 TGAGTAGATCGAGCTTTATGTCAG 57.934 41.667 9.21 0.00 0.00 3.51
750 760 6.442112 CATGAGTAGATCGAGCTTTATGTCA 58.558 40.000 9.21 5.59 0.00 3.58
751 761 5.344665 GCATGAGTAGATCGAGCTTTATGTC 59.655 44.000 9.21 0.00 0.00 3.06
752 762 5.221322 TGCATGAGTAGATCGAGCTTTATGT 60.221 40.000 9.21 0.00 33.02 2.29
753 763 5.118357 GTGCATGAGTAGATCGAGCTTTATG 59.882 44.000 9.21 5.62 33.02 1.90
754 764 5.226396 GTGCATGAGTAGATCGAGCTTTAT 58.774 41.667 9.21 0.00 33.02 1.40
755 765 4.499865 GGTGCATGAGTAGATCGAGCTTTA 60.500 45.833 9.21 0.00 33.02 1.85
756 766 3.452474 GTGCATGAGTAGATCGAGCTTT 58.548 45.455 9.21 0.00 33.02 3.51
757 767 2.223923 GGTGCATGAGTAGATCGAGCTT 60.224 50.000 9.21 0.00 33.02 3.74
758 768 1.339610 GGTGCATGAGTAGATCGAGCT 59.660 52.381 8.83 8.83 33.02 4.09
759 769 1.339610 AGGTGCATGAGTAGATCGAGC 59.660 52.381 0.00 0.00 0.00 5.03
760 770 4.731720 CATAGGTGCATGAGTAGATCGAG 58.268 47.826 0.00 0.00 0.00 4.04
761 771 4.773323 CATAGGTGCATGAGTAGATCGA 57.227 45.455 0.00 0.00 0.00 3.59
792 802 6.903883 TGAAGCGGAAAAGATTATACTGTC 57.096 37.500 0.00 0.00 0.00 3.51
793 803 6.183360 GCTTGAAGCGGAAAAGATTATACTGT 60.183 38.462 0.00 0.00 0.00 3.55
794 804 6.195165 GCTTGAAGCGGAAAAGATTATACTG 58.805 40.000 0.00 0.00 0.00 2.74
795 805 6.364945 GCTTGAAGCGGAAAAGATTATACT 57.635 37.500 0.00 0.00 0.00 2.12
848 868 8.972127 TGGCTTCTATATATCTAGCTTACTTGG 58.028 37.037 0.00 0.00 32.58 3.61
853 873 8.894731 CGAGTTGGCTTCTATATATCTAGCTTA 58.105 37.037 0.00 0.00 32.58 3.09
857 877 8.279800 CGATCGAGTTGGCTTCTATATATCTAG 58.720 40.741 10.26 0.00 0.00 2.43
858 878 7.985752 TCGATCGAGTTGGCTTCTATATATCTA 59.014 37.037 15.15 0.00 0.00 1.98
859 879 6.824196 TCGATCGAGTTGGCTTCTATATATCT 59.176 38.462 15.15 0.00 0.00 1.98
860 880 7.017498 TCGATCGAGTTGGCTTCTATATATC 57.983 40.000 15.15 0.00 0.00 1.63
861 881 7.575414 ATCGATCGAGTTGGCTTCTATATAT 57.425 36.000 23.84 0.00 0.00 0.86
862 882 7.017498 GATCGATCGAGTTGGCTTCTATATA 57.983 40.000 23.84 0.00 0.00 0.86
863 883 5.885881 GATCGATCGAGTTGGCTTCTATAT 58.114 41.667 23.84 0.47 0.00 0.86
892 912 6.624423 CATGGTTCCTATGCAATTTATAGGC 58.376 40.000 15.98 7.27 44.43 3.93
905 925 4.523083 ACGTTTGTATGCATGGTTCCTAT 58.477 39.130 10.16 0.00 0.00 2.57
942 964 5.750067 AGTGTTTTTGTTGCTGATGATTGAC 59.250 36.000 0.00 0.00 0.00 3.18
1116 1177 1.729881 GCTTATCGGCTTGGGCTTG 59.270 57.895 0.00 0.00 38.73 4.01
1189 1250 2.362120 GCAGATGGCTGGGCAGTT 60.362 61.111 2.90 0.00 42.53 3.16
1197 1258 3.415087 GACTGGGGGCAGATGGCT 61.415 66.667 6.34 0.00 44.01 4.75
1202 1263 3.252585 TAGCAGGACTGGGGGCAGA 62.253 63.158 1.01 0.00 0.00 4.26
1262 1323 1.411246 ACCTGCACAGTTAAGACACGA 59.589 47.619 0.00 0.00 0.00 4.35
1264 1335 3.724374 TGTACCTGCACAGTTAAGACAC 58.276 45.455 0.00 0.00 0.00 3.67
1275 1346 4.103357 CGTCACTATAGTTGTACCTGCAC 58.897 47.826 1.56 0.00 0.00 4.57
1294 1365 5.980715 ACCATTAACCAACAAAATCAACGTC 59.019 36.000 0.00 0.00 0.00 4.34
1504 1579 1.265454 GGATCCAGGTGAAGTCCCGT 61.265 60.000 6.95 0.00 0.00 5.28
1609 1685 1.006805 GCCGTCCAGGATGATCTCG 60.007 63.158 10.65 0.00 45.00 4.04
1633 1709 2.836360 TCGGCGGGGAGATACACC 60.836 66.667 7.21 0.00 39.03 4.16
1733 1809 0.974383 AACTTTCCGTCGAGGGTGAT 59.026 50.000 22.72 7.58 41.52 3.06
1784 1860 0.984230 TGCACCCTCGATTCTTCCTT 59.016 50.000 0.00 0.00 0.00 3.36
1920 1996 0.796312 CCTCACGTCGAAATGGTTGG 59.204 55.000 0.00 0.00 0.00 3.77
2044 2120 4.569023 TCAGATAGCACCGCGGCG 62.569 66.667 28.58 19.05 39.27 6.46
2207 3973 5.536161 AGTTCCAAGCACATCAGTTTATGTT 59.464 36.000 0.00 0.00 38.01 2.71
2215 3981 4.516698 AGTTACAAGTTCCAAGCACATCAG 59.483 41.667 0.00 0.00 0.00 2.90
2281 4059 1.302431 CATCCACAGTTCCACGCCA 60.302 57.895 0.00 0.00 0.00 5.69
2294 4072 2.381890 TCCGTGGTGGAACTTCATCCA 61.382 52.381 0.00 0.00 46.38 3.41
2295 4073 0.323629 TCCGTGGTGGAACTTCATCC 59.676 55.000 0.00 0.00 46.38 3.51
2296 4074 3.927555 TCCGTGGTGGAACTTCATC 57.072 52.632 0.00 0.00 46.38 2.92
2309 4087 3.475774 GCGCGTAACCACTCCGTG 61.476 66.667 8.43 0.00 35.36 4.94
2312 4090 3.475774 CACGCGCGTAACCACTCC 61.476 66.667 37.24 0.00 0.00 3.85
2313 4091 1.349259 ATTCACGCGCGTAACCACTC 61.349 55.000 37.24 0.00 0.00 3.51
2314 4092 1.349259 GATTCACGCGCGTAACCACT 61.349 55.000 37.24 16.75 0.00 4.00
2315 4093 1.058284 GATTCACGCGCGTAACCAC 59.942 57.895 37.24 20.98 0.00 4.16
2316 4094 2.438148 CGATTCACGCGCGTAACCA 61.438 57.895 37.24 19.55 34.51 3.67
2317 4095 2.315356 CGATTCACGCGCGTAACC 59.685 61.111 37.24 22.25 34.51 2.85
2318 4096 1.133363 TACCGATTCACGCGCGTAAC 61.133 55.000 37.24 23.46 41.07 2.50
2319 4097 0.455802 TTACCGATTCACGCGCGTAA 60.456 50.000 37.24 27.41 41.07 3.18
2320 4098 0.862701 CTTACCGATTCACGCGCGTA 60.863 55.000 37.24 22.76 41.07 4.42
2321 4099 2.126385 TTACCGATTCACGCGCGT 60.126 55.556 32.73 32.73 41.07 6.01
2322 4100 2.613486 CTTACCGATTCACGCGCG 59.387 61.111 30.96 30.96 41.07 6.86
2323 4101 3.003478 CCTTACCGATTCACGCGC 58.997 61.111 5.73 0.00 41.07 6.86
2324 4102 2.856346 CGCCTTACCGATTCACGCG 61.856 63.158 3.53 3.53 41.07 6.01
2325 4103 3.003478 CGCCTTACCGATTCACGC 58.997 61.111 0.00 0.00 41.07 5.34
2326 4104 2.522638 GGCGCCTTACCGATTCACG 61.523 63.158 22.15 0.00 42.18 4.35
2327 4105 1.429148 CTGGCGCCTTACCGATTCAC 61.429 60.000 29.70 0.00 0.00 3.18
2328 4106 1.153449 CTGGCGCCTTACCGATTCA 60.153 57.895 29.70 1.03 0.00 2.57
2329 4107 1.152383 GACTGGCGCCTTACCGATTC 61.152 60.000 29.70 5.86 0.00 2.52
2330 4108 1.153429 GACTGGCGCCTTACCGATT 60.153 57.895 29.70 0.00 0.00 3.34
2331 4109 2.499685 GACTGGCGCCTTACCGAT 59.500 61.111 29.70 4.58 0.00 4.18
2332 4110 4.124351 CGACTGGCGCCTTACCGA 62.124 66.667 29.70 4.55 0.00 4.69
2350 4128 6.871603 ACTCAACTAGTGTGCAGTAGCTGC 62.872 50.000 13.56 13.56 46.62 5.25
2351 4129 3.249091 CTCAACTAGTGTGCAGTAGCTG 58.751 50.000 12.51 11.11 42.74 4.24
2352 4130 2.894126 ACTCAACTAGTGTGCAGTAGCT 59.106 45.455 12.51 0.00 38.28 3.32
2353 4131 3.305398 ACTCAACTAGTGTGCAGTAGC 57.695 47.619 12.51 0.00 37.76 3.58
2363 4141 1.671742 CCACGGGCACTCAACTAGT 59.328 57.895 0.00 0.00 39.81 2.57
2364 4142 4.598257 CCACGGGCACTCAACTAG 57.402 61.111 0.00 0.00 0.00 2.57
2378 4156 4.012895 CAACGCACGGACTGCCAC 62.013 66.667 0.00 0.00 43.84 5.01
2381 4159 2.100631 ATAGCAACGCACGGACTGC 61.101 57.895 6.07 6.07 43.21 4.40
2382 4160 1.695893 CCATAGCAACGCACGGACTG 61.696 60.000 0.00 0.00 0.00 3.51
2383 4161 1.447838 CCATAGCAACGCACGGACT 60.448 57.895 0.00 0.00 0.00 3.85
2384 4162 2.461110 CCCATAGCAACGCACGGAC 61.461 63.158 0.00 0.00 0.00 4.79
2385 4163 2.125310 CCCATAGCAACGCACGGA 60.125 61.111 0.00 0.00 0.00 4.69
2386 4164 3.876198 GCCCATAGCAACGCACGG 61.876 66.667 0.00 0.00 42.97 4.94
2396 4174 8.770438 TTGCAAACTATTTTAAAAGCCCATAG 57.230 30.769 6.79 5.54 0.00 2.23
2397 4175 9.561069 TTTTGCAAACTATTTTAAAAGCCCATA 57.439 25.926 12.39 0.00 0.00 2.74
2399 4177 7.554476 ACTTTTGCAAACTATTTTAAAAGCCCA 59.446 29.630 12.39 0.00 37.54 5.36
2428 4206 6.335777 GGCGAGACCTTAGAAAGTTAACATA 58.664 40.000 8.61 0.00 34.51 2.29
2446 4224 1.826921 GATCTACGGTGGGGCGAGA 60.827 63.158 0.00 0.00 0.00 4.04
2455 4233 0.822164 CGGAGGTTTGGATCTACGGT 59.178 55.000 0.00 0.00 33.99 4.83
2457 4235 0.529992 GGCGGAGGTTTGGATCTACG 60.530 60.000 0.00 0.00 40.08 3.51
2467 4245 1.299976 GGAATCAGTGGCGGAGGTT 59.700 57.895 0.00 0.00 0.00 3.50
2471 4249 2.668632 GGTGGAATCAGTGGCGGA 59.331 61.111 0.00 0.00 0.00 5.54
2474 4252 2.438434 CGGGGTGGAATCAGTGGC 60.438 66.667 0.00 0.00 0.00 5.01
2475 4253 1.078426 GACGGGGTGGAATCAGTGG 60.078 63.158 0.00 0.00 0.00 4.00
2526 4304 4.214327 GAAGAGGAGGCGAGCGGG 62.214 72.222 0.00 0.00 0.00 6.13
2528 4306 4.560856 CCGAAGAGGAGGCGAGCG 62.561 72.222 0.00 0.00 45.00 5.03
2529 4307 4.882396 GCCGAAGAGGAGGCGAGC 62.882 72.222 0.00 0.00 44.22 5.03
2609 4396 3.213402 GAGAGGAGGCGGACGGAG 61.213 72.222 0.00 0.00 0.00 4.63
2610 4397 3.729489 AGAGAGGAGGCGGACGGA 61.729 66.667 0.00 0.00 0.00 4.69
2611 4398 3.522731 CAGAGAGGAGGCGGACGG 61.523 72.222 0.00 0.00 0.00 4.79
2612 4399 3.522731 CCAGAGAGGAGGCGGACG 61.523 72.222 0.00 0.00 41.22 4.79
2613 4400 2.363147 ACCAGAGAGGAGGCGGAC 60.363 66.667 0.00 0.00 41.22 4.79
2757 4545 3.712907 ACCAACGCTACCCGGCAT 61.713 61.111 0.00 0.00 42.52 4.40
2758 4546 4.690719 CACCAACGCTACCCGGCA 62.691 66.667 0.00 0.00 42.52 5.69
2765 4598 2.260434 GTCGAGCCACCAACGCTA 59.740 61.111 0.00 0.00 36.48 4.26
2811 4644 2.280552 ACCACCACGTCGTAGGCAT 61.281 57.895 12.07 0.00 0.00 4.40
2869 4702 3.462678 GCCTGGGACTCGACCTCC 61.463 72.222 0.00 0.00 0.00 4.30
2933 4766 0.892755 TTCTTCGCCTTCTTAGCCGA 59.107 50.000 0.00 0.00 0.00 5.54
2984 4822 3.296709 AAGCCATCGTCGCCTCGTT 62.297 57.895 0.00 0.00 0.00 3.85
2993 4831 1.659794 GTGCAAACCAAGCCATCGT 59.340 52.632 0.00 0.00 0.00 3.73
3010 4848 2.675423 TACTGCGGGTGCTCTCGT 60.675 61.111 10.10 0.00 43.34 4.18
3019 4857 4.814294 GCCAGGACGTACTGCGGG 62.814 72.222 23.04 10.41 46.52 6.13
3033 4871 3.461773 GGTGCTCTAGCTCGGCCA 61.462 66.667 2.24 0.00 42.66 5.36
3043 4881 2.345244 CGCTTCCAGTGGTGCTCT 59.655 61.111 21.13 0.00 0.00 4.09
3050 4888 3.414700 GGTGTCGCGCTTCCAGTG 61.415 66.667 5.56 0.00 0.00 3.66
3065 4903 0.605589 CCCTTCTTTTTCGCCTCGGT 60.606 55.000 0.00 0.00 0.00 4.69
3066 4904 0.321298 TCCCTTCTTTTTCGCCTCGG 60.321 55.000 0.00 0.00 0.00 4.63


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

AutoCloner maintained by Alex Coulton.