Multiple sequence alignment - TraesCS4D01G212500

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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 TraesCS4D01G212500 chr4D 100.000 2676 0 0 1 2676 365505981 365508656 0.000000e+00 4942.0
1 TraesCS4D01G212500 chr4D 91.961 510 26 7 1972 2466 395485046 395485555 0.000000e+00 701.0
2 TraesCS4D01G212500 chr4D 89.691 485 44 4 1115 1593 365865003 365864519 4.900000e-172 614.0
3 TraesCS4D01G212500 chr4D 89.256 484 46 4 1115 1592 366219646 366219163 3.810000e-168 601.0
4 TraesCS4D01G212500 chr4D 86.373 477 56 6 1125 1592 365399483 365399007 1.840000e-141 512.0
5 TraesCS4D01G212500 chr4A 92.832 1967 90 25 1 1942 100103718 100101778 0.000000e+00 2804.0
6 TraesCS4D01G212500 chr4A 88.889 1026 63 27 969 1972 99914329 99913333 0.000000e+00 1216.0
7 TraesCS4D01G212500 chr4A 89.937 477 39 4 1125 1592 100551358 100550882 8.190000e-170 606.0
8 TraesCS4D01G212500 chr4A 89.189 481 46 3 1119 1593 99005041 99005521 1.770000e-166 595.0
9 TraesCS4D01G212500 chr4A 87.002 477 53 6 1125 1592 100187764 100188240 1.820000e-146 529.0
10 TraesCS4D01G212500 chr3D 94.095 525 24 5 1951 2469 87674659 87674136 0.000000e+00 791.0
11 TraesCS4D01G212500 chr2D 93.714 525 26 5 1951 2469 329897579 329897056 0.000000e+00 780.0
12 TraesCS4D01G212500 chr2D 89.668 542 34 14 1952 2475 632459612 632460149 0.000000e+00 671.0
13 TraesCS4D01G212500 chr6D 93.522 494 21 5 1991 2473 464139604 464139111 0.000000e+00 725.0
14 TraesCS4D01G212500 chr6D 91.602 512 25 9 1972 2468 201882070 201882578 0.000000e+00 691.0
15 TraesCS4D01G212500 chr6A 93.145 496 22 6 1991 2475 610528401 610527907 0.000000e+00 717.0
16 TraesCS4D01G212500 chr2A 91.747 521 27 8 1965 2470 738019599 738020118 0.000000e+00 710.0
17 TraesCS4D01G212500 chr2A 93.125 480 20 6 1988 2456 10743040 10743517 0.000000e+00 691.0
18 TraesCS4D01G212500 chr7D 91.650 515 19 10 1972 2472 168503439 168502935 0.000000e+00 691.0
19 TraesCS4D01G212500 chr1A 91.279 516 30 7 1967 2468 511161311 511161825 0.000000e+00 689.0
20 TraesCS4D01G212500 chr1A 93.182 44 1 2 2472 2513 496440106 496440063 2.220000e-06 63.9
21 TraesCS4D01G212500 chr4B 90.267 524 22 10 1960 2468 821242 820733 0.000000e+00 658.0
22 TraesCS4D01G212500 chr4B 90.437 481 40 3 1115 1592 450686359 450685882 1.750000e-176 628.0
23 TraesCS4D01G212500 chr4B 89.749 478 42 4 1115 1589 450105719 450106192 2.950000e-169 604.0
24 TraesCS4D01G212500 chr2B 88.930 542 38 14 1952 2475 775832797 775833334 0.000000e+00 649.0
25 TraesCS4D01G212500 chr5B 93.443 366 15 4 2119 2475 418818669 418818304 3.920000e-148 534.0
26 TraesCS4D01G212500 chr5D 96.970 33 1 0 2478 2510 353483065 353483033 3.720000e-04 56.5


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 TraesCS4D01G212500 chr4D 365505981 365508656 2675 False 4942 4942 100.000 1 2676 1 chr4D.!!$F1 2675
1 TraesCS4D01G212500 chr4D 395485046 395485555 509 False 701 701 91.961 1972 2466 1 chr4D.!!$F2 494
2 TraesCS4D01G212500 chr4A 100101778 100103718 1940 True 2804 2804 92.832 1 1942 1 chr4A.!!$R2 1941
3 TraesCS4D01G212500 chr4A 99913333 99914329 996 True 1216 1216 88.889 969 1972 1 chr4A.!!$R1 1003
4 TraesCS4D01G212500 chr3D 87674136 87674659 523 True 791 791 94.095 1951 2469 1 chr3D.!!$R1 518
5 TraesCS4D01G212500 chr2D 329897056 329897579 523 True 780 780 93.714 1951 2469 1 chr2D.!!$R1 518
6 TraesCS4D01G212500 chr2D 632459612 632460149 537 False 671 671 89.668 1952 2475 1 chr2D.!!$F1 523
7 TraesCS4D01G212500 chr6D 201882070 201882578 508 False 691 691 91.602 1972 2468 1 chr6D.!!$F1 496
8 TraesCS4D01G212500 chr2A 738019599 738020118 519 False 710 710 91.747 1965 2470 1 chr2A.!!$F2 505
9 TraesCS4D01G212500 chr7D 168502935 168503439 504 True 691 691 91.650 1972 2472 1 chr7D.!!$R1 500
10 TraesCS4D01G212500 chr1A 511161311 511161825 514 False 689 689 91.279 1967 2468 1 chr1A.!!$F1 501
11 TraesCS4D01G212500 chr4B 820733 821242 509 True 658 658 90.267 1960 2468 1 chr4B.!!$R1 508
12 TraesCS4D01G212500 chr2B 775832797 775833334 537 False 649 649 88.930 1952 2475 1 chr2B.!!$F1 523

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
748 759 0.393944 TACCTGGTCGCTCGTGATCT 60.394 55.0 0.63 0.0 0.0 2.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2651 2729 0.466543 ACACGCTACAACCAACTGGA 59.533 50.0 1.86 0.0 38.94 3.86 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
25 26 7.407729 CCCCTTTCTTACCCTCTAAACATTTA 58.592 38.462 0.00 0.00 0.00 1.40
67 69 8.868522 TGAAATTTATTCCTCATATGGCCTAG 57.131 34.615 3.32 0.00 0.00 3.02
183 185 3.556423 GGTTCACCGGAATGAGTTAGTGT 60.556 47.826 9.46 0.00 35.05 3.55
192 194 6.149474 CCGGAATGAGTTAGTGTGAATTCTTT 59.851 38.462 7.05 0.00 0.00 2.52
244 247 1.006832 CCCGAAATGAGTTAGTGCGG 58.993 55.000 0.00 0.00 37.20 5.69
248 251 3.242413 CCGAAATGAGTTAGTGCGGATTG 60.242 47.826 0.00 0.00 39.62 2.67
433 436 9.139174 GAGTTTGTCAACAAAATTTGAAAGAGA 57.861 29.630 13.19 3.12 46.08 3.10
437 441 5.985530 GTCAACAAAATTTGAAAGAGAGGGG 59.014 40.000 13.19 0.00 37.24 4.79
440 444 7.071071 TCAACAAAATTTGAAAGAGAGGGGATT 59.929 33.333 13.19 0.00 32.42 3.01
614 622 7.628769 AATGCAACACTTTTTCCTGAATTTT 57.371 28.000 0.00 0.00 0.00 1.82
744 755 1.278238 GATTTACCTGGTCGCTCGTG 58.722 55.000 0.63 0.00 0.00 4.35
745 756 0.892755 ATTTACCTGGTCGCTCGTGA 59.107 50.000 0.63 0.00 0.00 4.35
747 758 0.454600 TTACCTGGTCGCTCGTGATC 59.545 55.000 0.63 0.00 0.00 2.92
748 759 0.393944 TACCTGGTCGCTCGTGATCT 60.394 55.000 0.63 0.00 0.00 2.75
749 760 1.226802 CCTGGTCGCTCGTGATCTG 60.227 63.158 0.00 0.00 0.00 2.90
750 761 1.508545 CTGGTCGCTCGTGATCTGT 59.491 57.895 0.00 0.00 0.00 3.41
751 762 0.799917 CTGGTCGCTCGTGATCTGTG 60.800 60.000 0.00 0.00 0.00 3.66
752 763 2.161486 GGTCGCTCGTGATCTGTGC 61.161 63.158 0.00 0.00 0.00 4.57
772 791 0.671472 TGTGACAATCTGCCGCAGAG 60.671 55.000 26.35 16.88 44.08 3.35
792 811 1.933853 GAGCGTCAAATAGGAATGCGT 59.066 47.619 0.00 0.00 0.00 5.24
817 836 1.067212 CTATAGACGCGCCCAGAACTT 59.933 52.381 5.73 0.00 0.00 2.66
910 929 4.438336 CGATTCTTGCTTCTACCTGTACGA 60.438 45.833 0.00 0.00 0.00 3.43
921 940 1.068472 ACCTGTACGAGCTCGAACAAG 60.068 52.381 40.58 27.73 43.02 3.16
957 976 2.838736 ACCTCATATCCATTGCACGAC 58.161 47.619 0.00 0.00 0.00 4.34
979 998 1.798813 GCCCCGCTATAAATTCTCACG 59.201 52.381 0.00 0.00 0.00 4.35
1477 1496 2.685380 AGGTTCAGGCTCCCGGAG 60.685 66.667 10.41 10.41 0.00 4.63
1489 1508 2.809601 CCGGAGAACGTGAAGGCG 60.810 66.667 0.00 0.00 42.24 5.52
1625 1656 0.392729 GTGGCTGCTTCTGCTCAGAT 60.393 55.000 0.00 0.00 40.48 2.90
1721 1758 4.501058 GGTTTGAGTCTCGTCCTAGTGTTT 60.501 45.833 0.00 0.00 0.00 2.83
1746 1784 1.197721 CGAATGCTGTGGGTTCAGTTC 59.802 52.381 0.00 0.00 37.70 3.01
1750 1788 1.228657 GCTGTGGGTTCAGTTCGGTC 61.229 60.000 0.00 0.00 37.70 4.79
1751 1789 0.393077 CTGTGGGTTCAGTTCGGTCT 59.607 55.000 0.00 0.00 0.00 3.85
1752 1790 0.834612 TGTGGGTTCAGTTCGGTCTT 59.165 50.000 0.00 0.00 0.00 3.01
1753 1791 1.210967 TGTGGGTTCAGTTCGGTCTTT 59.789 47.619 0.00 0.00 0.00 2.52
1754 1792 1.602377 GTGGGTTCAGTTCGGTCTTTG 59.398 52.381 0.00 0.00 0.00 2.77
1755 1793 1.487142 TGGGTTCAGTTCGGTCTTTGA 59.513 47.619 0.00 0.00 0.00 2.69
1756 1794 2.143925 GGGTTCAGTTCGGTCTTTGAG 58.856 52.381 0.00 0.00 0.00 3.02
1800 1838 3.168237 GAGCCGTGCGCGCAATATT 62.168 57.895 38.24 21.92 44.76 1.28
1804 1842 0.303493 CCGTGCGCGCAATATTAGTT 59.697 50.000 38.24 0.00 36.67 2.24
1869 1910 5.620738 ATTTGAGCAGAGGAGCAGTATTA 57.379 39.130 0.00 0.00 36.85 0.98
1907 1957 9.099454 GTCTATTACTTTGTTCGATCATTTCCT 57.901 33.333 0.00 0.00 0.00 3.36
1914 1964 8.630037 ACTTTGTTCGATCATTTCCTTTTAAGT 58.370 29.630 0.00 0.00 0.00 2.24
1932 1988 7.840342 TTTAAGTTTTATACGTTGGCCGATA 57.160 32.000 0.00 0.00 40.70 2.92
1942 1998 3.633525 ACGTTGGCCGATATACTTCTACA 59.366 43.478 0.00 0.00 40.70 2.74
1965 2021 7.237982 ACATAGACTTCATGCTCTCTACCTAT 58.762 38.462 0.00 0.00 0.00 2.57
1966 2022 8.387039 ACATAGACTTCATGCTCTCTACCTATA 58.613 37.037 0.00 0.00 0.00 1.31
1990 2048 3.380479 AACTAGTATGTGTGCACGTGT 57.620 42.857 18.38 2.53 0.00 4.49
2060 2123 5.184892 AGACTTGCCAATAGATTCAAGGT 57.815 39.130 0.00 0.00 39.97 3.50
2161 2229 9.435688 CCCCCAATTTGTTAAGAAAGAAAATAG 57.564 33.333 3.99 0.00 32.27 1.73
2220 2289 7.789831 TGTGGGATGGAGAGAGTATAACTTTAT 59.210 37.037 0.00 0.00 0.00 1.40
2452 2530 5.564063 GCCCAATTCAAAACTGGTACACTAC 60.564 44.000 0.00 0.00 0.00 2.73
2497 2575 6.380079 ACTCCTCTGATCCAAAATAACTGT 57.620 37.500 0.00 0.00 0.00 3.55
2498 2576 6.410540 ACTCCTCTGATCCAAAATAACTGTC 58.589 40.000 0.00 0.00 0.00 3.51
2499 2577 5.419542 TCCTCTGATCCAAAATAACTGTCG 58.580 41.667 0.00 0.00 0.00 4.35
2500 2578 4.034510 CCTCTGATCCAAAATAACTGTCGC 59.965 45.833 0.00 0.00 0.00 5.19
2501 2579 4.574892 TCTGATCCAAAATAACTGTCGCA 58.425 39.130 0.00 0.00 0.00 5.10
2502 2580 4.631377 TCTGATCCAAAATAACTGTCGCAG 59.369 41.667 5.47 5.47 37.52 5.18
2514 2592 4.147219 ACTGTCGCAGTTTTGAATAAGC 57.853 40.909 6.67 0.00 42.59 3.09
2515 2593 3.155998 CTGTCGCAGTTTTGAATAAGCG 58.844 45.455 0.00 0.00 45.79 4.68
2516 2594 2.095969 TGTCGCAGTTTTGAATAAGCGG 60.096 45.455 0.00 0.00 44.67 5.52
2517 2595 1.135803 TCGCAGTTTTGAATAAGCGGC 60.136 47.619 0.00 0.00 44.67 6.53
2518 2596 1.400888 CGCAGTTTTGAATAAGCGGCA 60.401 47.619 1.45 0.00 41.30 5.69
2519 2597 1.985684 GCAGTTTTGAATAAGCGGCAC 59.014 47.619 1.45 0.00 0.00 5.01
2520 2598 2.351738 GCAGTTTTGAATAAGCGGCACT 60.352 45.455 1.45 0.00 0.00 4.40
2521 2599 3.857010 GCAGTTTTGAATAAGCGGCACTT 60.857 43.478 1.45 0.00 42.76 3.16
2522 2600 4.614993 GCAGTTTTGAATAAGCGGCACTTA 60.615 41.667 1.45 0.00 44.87 2.24
2533 2611 5.637006 AAGCGGCACTTATTATGTTTTGA 57.363 34.783 1.45 0.00 36.62 2.69
2534 2612 5.637006 AGCGGCACTTATTATGTTTTGAA 57.363 34.783 1.45 0.00 0.00 2.69
2535 2613 6.207691 AGCGGCACTTATTATGTTTTGAAT 57.792 33.333 1.45 0.00 0.00 2.57
2536 2614 7.328277 AGCGGCACTTATTATGTTTTGAATA 57.672 32.000 1.45 0.00 0.00 1.75
2537 2615 7.767261 AGCGGCACTTATTATGTTTTGAATAA 58.233 30.769 1.45 0.00 0.00 1.40
2538 2616 7.915397 AGCGGCACTTATTATGTTTTGAATAAG 59.085 33.333 1.45 11.13 45.23 1.73
2539 2617 7.305993 GCGGCACTTATTATGTTTTGAATAAGC 60.306 37.037 12.18 3.39 44.29 3.09
2540 2618 7.097047 CGGCACTTATTATGTTTTGAATAAGCG 60.097 37.037 12.18 6.28 44.29 4.68
2541 2619 7.913297 GGCACTTATTATGTTTTGAATAAGCGA 59.087 33.333 12.18 0.00 44.29 4.93
2542 2620 8.734030 GCACTTATTATGTTTTGAATAAGCGAC 58.266 33.333 12.18 2.12 44.29 5.19
2543 2621 9.767684 CACTTATTATGTTTTGAATAAGCGACA 57.232 29.630 12.18 0.00 44.29 4.35
2544 2622 9.769093 ACTTATTATGTTTTGAATAAGCGACAC 57.231 29.630 12.18 0.00 44.29 3.67
2545 2623 9.221775 CTTATTATGTTTTGAATAAGCGACACC 57.778 33.333 0.00 0.00 38.26 4.16
2546 2624 6.811253 TTATGTTTTGAATAAGCGACACCT 57.189 33.333 0.00 0.00 0.00 4.00
2547 2625 7.908827 TTATGTTTTGAATAAGCGACACCTA 57.091 32.000 0.00 0.00 0.00 3.08
2548 2626 8.500753 TTATGTTTTGAATAAGCGACACCTAT 57.499 30.769 0.00 0.00 0.00 2.57
2549 2627 6.811253 TGTTTTGAATAAGCGACACCTATT 57.189 33.333 0.00 0.00 0.00 1.73
2550 2628 7.908827 TGTTTTGAATAAGCGACACCTATTA 57.091 32.000 0.00 0.00 0.00 0.98
2551 2629 8.500753 TGTTTTGAATAAGCGACACCTATTAT 57.499 30.769 0.00 0.00 0.00 1.28
2552 2630 8.394877 TGTTTTGAATAAGCGACACCTATTATG 58.605 33.333 0.00 0.00 0.00 1.90
2553 2631 8.609176 GTTTTGAATAAGCGACACCTATTATGA 58.391 33.333 0.00 0.00 0.00 2.15
2554 2632 7.946655 TTGAATAAGCGACACCTATTATGAG 57.053 36.000 0.00 0.00 0.00 2.90
2555 2633 7.050970 TGAATAAGCGACACCTATTATGAGT 57.949 36.000 0.00 0.00 0.00 3.41
2556 2634 7.145985 TGAATAAGCGACACCTATTATGAGTC 58.854 38.462 0.00 0.00 0.00 3.36
2560 2638 4.148563 CGACACCTATTATGAGTCGGAG 57.851 50.000 9.78 0.00 45.81 4.63
2561 2639 3.058155 CGACACCTATTATGAGTCGGAGG 60.058 52.174 9.78 0.00 45.81 4.30
2562 2640 4.142790 GACACCTATTATGAGTCGGAGGA 58.857 47.826 0.00 0.00 0.00 3.71
2563 2641 4.742012 ACACCTATTATGAGTCGGAGGAT 58.258 43.478 0.00 0.00 0.00 3.24
2564 2642 4.524714 ACACCTATTATGAGTCGGAGGATG 59.475 45.833 0.00 0.00 0.00 3.51
2565 2643 4.524714 CACCTATTATGAGTCGGAGGATGT 59.475 45.833 0.00 0.00 0.00 3.06
2566 2644 5.710567 CACCTATTATGAGTCGGAGGATGTA 59.289 44.000 0.00 0.00 0.00 2.29
2567 2645 6.208797 CACCTATTATGAGTCGGAGGATGTAA 59.791 42.308 0.00 0.00 0.00 2.41
2568 2646 6.781014 ACCTATTATGAGTCGGAGGATGTAAA 59.219 38.462 0.00 0.00 0.00 2.01
2569 2647 7.455008 ACCTATTATGAGTCGGAGGATGTAAAT 59.545 37.037 0.00 0.00 0.00 1.40
2570 2648 7.761704 CCTATTATGAGTCGGAGGATGTAAATG 59.238 40.741 0.00 0.00 0.00 2.32
2571 2649 6.724893 TTATGAGTCGGAGGATGTAAATGA 57.275 37.500 0.00 0.00 0.00 2.57
2572 2650 5.815233 ATGAGTCGGAGGATGTAAATGAT 57.185 39.130 0.00 0.00 0.00 2.45
2573 2651 6.918067 ATGAGTCGGAGGATGTAAATGATA 57.082 37.500 0.00 0.00 0.00 2.15
2574 2652 6.918067 TGAGTCGGAGGATGTAAATGATAT 57.082 37.500 0.00 0.00 0.00 1.63
2575 2653 6.691508 TGAGTCGGAGGATGTAAATGATATG 58.308 40.000 0.00 0.00 0.00 1.78
2576 2654 6.267699 TGAGTCGGAGGATGTAAATGATATGT 59.732 38.462 0.00 0.00 0.00 2.29
2577 2655 7.450323 TGAGTCGGAGGATGTAAATGATATGTA 59.550 37.037 0.00 0.00 0.00 2.29
2578 2656 8.190326 AGTCGGAGGATGTAAATGATATGTAA 57.810 34.615 0.00 0.00 0.00 2.41
2579 2657 8.307483 AGTCGGAGGATGTAAATGATATGTAAG 58.693 37.037 0.00 0.00 0.00 2.34
2580 2658 7.063544 GTCGGAGGATGTAAATGATATGTAAGC 59.936 40.741 0.00 0.00 0.00 3.09
2581 2659 6.035005 CGGAGGATGTAAATGATATGTAAGCG 59.965 42.308 0.00 0.00 0.00 4.68
2582 2660 6.313905 GGAGGATGTAAATGATATGTAAGCGG 59.686 42.308 0.00 0.00 0.00 5.52
2583 2661 5.643777 AGGATGTAAATGATATGTAAGCGGC 59.356 40.000 0.00 0.00 0.00 6.53
2584 2662 5.411361 GGATGTAAATGATATGTAAGCGGCA 59.589 40.000 1.45 0.00 0.00 5.69
2585 2663 5.666969 TGTAAATGATATGTAAGCGGCAC 57.333 39.130 1.45 0.00 0.00 5.01
2586 2664 5.364778 TGTAAATGATATGTAAGCGGCACT 58.635 37.500 1.45 0.00 0.00 4.40
2587 2665 5.820423 TGTAAATGATATGTAAGCGGCACTT 59.180 36.000 1.45 0.00 42.76 3.16
2588 2666 6.987404 TGTAAATGATATGTAAGCGGCACTTA 59.013 34.615 1.45 0.00 39.97 2.24
2589 2667 7.659799 TGTAAATGATATGTAAGCGGCACTTAT 59.340 33.333 1.45 0.78 42.75 1.73
2590 2668 7.510549 AAATGATATGTAAGCGGCACTTATT 57.489 32.000 1.45 0.00 42.75 1.40
2591 2669 8.615878 AAATGATATGTAAGCGGCACTTATTA 57.384 30.769 1.45 0.00 42.75 0.98
2592 2670 8.792830 AATGATATGTAAGCGGCACTTATTAT 57.207 30.769 1.45 1.03 42.75 1.28
2593 2671 8.792830 ATGATATGTAAGCGGCACTTATTATT 57.207 30.769 1.45 0.00 42.75 1.40
2594 2672 9.884636 ATGATATGTAAGCGGCACTTATTATTA 57.115 29.630 1.45 0.00 42.75 0.98
2595 2673 9.884636 TGATATGTAAGCGGCACTTATTATTAT 57.115 29.630 1.45 0.00 42.75 1.28
2597 2675 6.795098 TGTAAGCGGCACTTATTATTATGG 57.205 37.500 1.45 0.00 42.75 2.74
2598 2676 6.526526 TGTAAGCGGCACTTATTATTATGGA 58.473 36.000 1.45 0.00 42.75 3.41
2599 2677 7.165485 TGTAAGCGGCACTTATTATTATGGAT 58.835 34.615 1.45 0.00 42.75 3.41
2600 2678 7.663905 TGTAAGCGGCACTTATTATTATGGATT 59.336 33.333 1.45 0.00 42.75 3.01
2601 2679 6.500684 AGCGGCACTTATTATTATGGATTG 57.499 37.500 1.45 0.00 0.00 2.67
2602 2680 6.237901 AGCGGCACTTATTATTATGGATTGA 58.762 36.000 1.45 0.00 0.00 2.57
2603 2681 6.372659 AGCGGCACTTATTATTATGGATTGAG 59.627 38.462 1.45 0.00 0.00 3.02
2604 2682 6.403636 GCGGCACTTATTATTATGGATTGAGG 60.404 42.308 0.00 0.00 0.00 3.86
2605 2683 6.094048 CGGCACTTATTATTATGGATTGAGGG 59.906 42.308 0.00 0.00 0.00 4.30
2606 2684 7.175104 GGCACTTATTATTATGGATTGAGGGA 58.825 38.462 0.00 0.00 0.00 4.20
2607 2685 7.337942 GGCACTTATTATTATGGATTGAGGGAG 59.662 40.741 0.00 0.00 0.00 4.30
2608 2686 7.885399 GCACTTATTATTATGGATTGAGGGAGT 59.115 37.037 0.00 0.00 0.00 3.85
2609 2687 9.224267 CACTTATTATTATGGATTGAGGGAGTG 57.776 37.037 0.00 0.00 0.00 3.51
2610 2688 9.170890 ACTTATTATTATGGATTGAGGGAGTGA 57.829 33.333 0.00 0.00 0.00 3.41
2613 2691 5.983333 ATTATGGATTGAGGGAGTGAAGT 57.017 39.130 0.00 0.00 0.00 3.01
2614 2692 5.779241 TTATGGATTGAGGGAGTGAAGTT 57.221 39.130 0.00 0.00 0.00 2.66
2615 2693 3.423539 TGGATTGAGGGAGTGAAGTTG 57.576 47.619 0.00 0.00 0.00 3.16
2616 2694 2.711009 TGGATTGAGGGAGTGAAGTTGT 59.289 45.455 0.00 0.00 0.00 3.32
2617 2695 3.907474 TGGATTGAGGGAGTGAAGTTGTA 59.093 43.478 0.00 0.00 0.00 2.41
2618 2696 4.536090 TGGATTGAGGGAGTGAAGTTGTAT 59.464 41.667 0.00 0.00 0.00 2.29
2619 2697 5.119694 GGATTGAGGGAGTGAAGTTGTATC 58.880 45.833 0.00 0.00 0.00 2.24
2620 2698 5.338381 GGATTGAGGGAGTGAAGTTGTATCA 60.338 44.000 0.00 0.00 0.00 2.15
2621 2699 5.560722 TTGAGGGAGTGAAGTTGTATCAA 57.439 39.130 0.00 0.00 0.00 2.57
2622 2700 5.560722 TGAGGGAGTGAAGTTGTATCAAA 57.439 39.130 0.00 0.00 0.00 2.69
2623 2701 5.551233 TGAGGGAGTGAAGTTGTATCAAAG 58.449 41.667 0.00 0.00 0.00 2.77
2624 2702 5.306937 TGAGGGAGTGAAGTTGTATCAAAGA 59.693 40.000 0.00 0.00 0.00 2.52
2625 2703 6.183361 TGAGGGAGTGAAGTTGTATCAAAGAA 60.183 38.462 0.00 0.00 0.00 2.52
2626 2704 6.234177 AGGGAGTGAAGTTGTATCAAAGAAG 58.766 40.000 0.00 0.00 0.00 2.85
2627 2705 5.998363 GGGAGTGAAGTTGTATCAAAGAAGT 59.002 40.000 0.00 0.00 0.00 3.01
2628 2706 6.486993 GGGAGTGAAGTTGTATCAAAGAAGTT 59.513 38.462 0.00 0.00 0.00 2.66
2629 2707 7.308049 GGGAGTGAAGTTGTATCAAAGAAGTTC 60.308 40.741 0.00 0.00 39.89 3.01
2630 2708 7.308049 GGAGTGAAGTTGTATCAAAGAAGTTCC 60.308 40.741 0.00 0.00 39.12 3.62
2631 2709 6.202954 AGTGAAGTTGTATCAAAGAAGTTCCG 59.797 38.462 0.00 0.00 39.12 4.30
2632 2710 6.018180 GTGAAGTTGTATCAAAGAAGTTCCGT 60.018 38.462 0.00 0.00 39.12 4.69
2633 2711 6.540914 TGAAGTTGTATCAAAGAAGTTCCGTT 59.459 34.615 0.00 0.00 39.12 4.44
2634 2712 6.541111 AGTTGTATCAAAGAAGTTCCGTTC 57.459 37.500 0.00 0.00 0.00 3.95
2635 2713 5.469084 AGTTGTATCAAAGAAGTTCCGTTCC 59.531 40.000 0.00 0.00 0.00 3.62
2636 2714 4.963373 TGTATCAAAGAAGTTCCGTTCCA 58.037 39.130 0.00 0.00 0.00 3.53
2637 2715 5.369833 TGTATCAAAGAAGTTCCGTTCCAA 58.630 37.500 0.00 0.00 0.00 3.53
2638 2716 5.823570 TGTATCAAAGAAGTTCCGTTCCAAA 59.176 36.000 0.00 0.00 0.00 3.28
2639 2717 4.625972 TCAAAGAAGTTCCGTTCCAAAC 57.374 40.909 0.00 0.00 0.00 2.93
2640 2718 4.011023 TCAAAGAAGTTCCGTTCCAAACA 58.989 39.130 0.00 0.00 0.00 2.83
2641 2719 4.459685 TCAAAGAAGTTCCGTTCCAAACAA 59.540 37.500 0.00 0.00 0.00 2.83
2642 2720 5.126384 TCAAAGAAGTTCCGTTCCAAACAAT 59.874 36.000 0.00 0.00 0.00 2.71
2643 2721 4.830826 AGAAGTTCCGTTCCAAACAATC 57.169 40.909 0.00 0.00 0.00 2.67
2644 2722 3.250040 AGAAGTTCCGTTCCAAACAATCG 59.750 43.478 0.00 0.00 0.00 3.34
2645 2723 2.567985 AGTTCCGTTCCAAACAATCGT 58.432 42.857 0.00 0.00 0.00 3.73
2646 2724 2.946990 AGTTCCGTTCCAAACAATCGTT 59.053 40.909 0.00 0.00 36.73 3.85
2647 2725 3.379057 AGTTCCGTTCCAAACAATCGTTT 59.621 39.130 0.00 0.00 46.38 3.60
2648 2726 4.106909 GTTCCGTTCCAAACAATCGTTTT 58.893 39.130 0.00 0.00 42.82 2.43
2649 2727 3.954999 TCCGTTCCAAACAATCGTTTTC 58.045 40.909 0.00 0.00 42.82 2.29
2650 2728 3.628487 TCCGTTCCAAACAATCGTTTTCT 59.372 39.130 0.00 0.00 42.82 2.52
2651 2729 4.096682 TCCGTTCCAAACAATCGTTTTCTT 59.903 37.500 0.00 0.00 42.82 2.52
2652 2730 4.439776 CCGTTCCAAACAATCGTTTTCTTC 59.560 41.667 0.00 0.00 42.82 2.87
2653 2731 4.439776 CGTTCCAAACAATCGTTTTCTTCC 59.560 41.667 0.00 0.00 42.82 3.46
2654 2732 5.344884 GTTCCAAACAATCGTTTTCTTCCA 58.655 37.500 0.00 0.00 42.82 3.53
2655 2733 5.181690 TCCAAACAATCGTTTTCTTCCAG 57.818 39.130 0.00 0.00 42.82 3.86
2656 2734 4.642885 TCCAAACAATCGTTTTCTTCCAGT 59.357 37.500 0.00 0.00 42.82 4.00
2657 2735 5.126384 TCCAAACAATCGTTTTCTTCCAGTT 59.874 36.000 0.00 0.00 42.82 3.16
2658 2736 5.231991 CCAAACAATCGTTTTCTTCCAGTTG 59.768 40.000 0.00 0.00 42.82 3.16
2659 2737 4.568152 ACAATCGTTTTCTTCCAGTTGG 57.432 40.909 0.00 0.00 0.00 3.77
2660 2738 3.951680 ACAATCGTTTTCTTCCAGTTGGT 59.048 39.130 0.00 0.00 36.34 3.67
2661 2739 4.401202 ACAATCGTTTTCTTCCAGTTGGTT 59.599 37.500 0.00 0.00 36.34 3.67
2662 2740 4.568152 ATCGTTTTCTTCCAGTTGGTTG 57.432 40.909 0.00 0.00 36.34 3.77
2663 2741 3.349022 TCGTTTTCTTCCAGTTGGTTGT 58.651 40.909 0.00 0.00 36.34 3.32
2664 2742 4.515361 TCGTTTTCTTCCAGTTGGTTGTA 58.485 39.130 0.00 0.00 36.34 2.41
2665 2743 4.573201 TCGTTTTCTTCCAGTTGGTTGTAG 59.427 41.667 0.00 0.00 36.34 2.74
2666 2744 4.607955 GTTTTCTTCCAGTTGGTTGTAGC 58.392 43.478 0.00 0.00 36.34 3.58
2667 2745 2.163818 TCTTCCAGTTGGTTGTAGCG 57.836 50.000 0.00 0.00 36.34 4.26
2668 2746 1.414919 TCTTCCAGTTGGTTGTAGCGT 59.585 47.619 0.00 0.00 36.34 5.07
2669 2747 1.531149 CTTCCAGTTGGTTGTAGCGTG 59.469 52.381 0.00 0.00 36.34 5.34
2670 2748 0.466543 TCCAGTTGGTTGTAGCGTGT 59.533 50.000 0.00 0.00 36.34 4.49
2671 2749 1.687660 TCCAGTTGGTTGTAGCGTGTA 59.312 47.619 0.00 0.00 36.34 2.90
2672 2750 2.066262 CCAGTTGGTTGTAGCGTGTAG 58.934 52.381 0.00 0.00 0.00 2.74
2673 2751 5.957716 TCCAGTTGGTTGTAGCGTGTAGC 62.958 52.174 0.00 0.00 40.62 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
119 121 6.756542 GTGTTTGCCTTGAGTTTGTATTTTCT 59.243 34.615 0.00 0.00 0.00 2.52
225 228 1.006832 CCGCACTAACTCATTTCGGG 58.993 55.000 0.00 0.00 32.55 5.14
303 306 9.979578 AAAAATGTGTGCACTTCTCAAAATATA 57.020 25.926 19.41 0.00 0.00 0.86
394 397 7.382110 TGTTGACAAACTCAGAAAAATTTGGA 58.618 30.769 0.00 0.00 36.55 3.53
402 405 8.824159 TCAAATTTTGTTGACAAACTCAGAAA 57.176 26.923 8.70 0.00 44.56 2.52
405 408 8.924691 TCTTTCAAATTTTGTTGACAAACTCAG 58.075 29.630 8.70 1.58 44.56 3.35
415 418 6.160576 TCCCCTCTCTTTCAAATTTTGTTG 57.839 37.500 8.89 1.82 0.00 3.33
491 495 5.549742 TCATGGCTTCAAAATTTGTTCCT 57.450 34.783 5.56 0.00 0.00 3.36
744 755 2.095532 GCAGATTGTCACAGCACAGATC 59.904 50.000 0.00 0.00 0.00 2.75
745 756 2.082231 GCAGATTGTCACAGCACAGAT 58.918 47.619 0.00 0.00 0.00 2.90
747 758 0.520404 GGCAGATTGTCACAGCACAG 59.480 55.000 0.00 0.00 0.00 3.66
748 759 1.229975 CGGCAGATTGTCACAGCACA 61.230 55.000 0.00 0.00 0.00 4.57
749 760 1.499056 CGGCAGATTGTCACAGCAC 59.501 57.895 0.00 0.00 0.00 4.40
750 761 2.327343 GCGGCAGATTGTCACAGCA 61.327 57.895 0.00 0.00 0.00 4.41
751 762 2.249557 CTGCGGCAGATTGTCACAGC 62.250 60.000 25.33 0.00 32.44 4.40
752 763 0.671472 TCTGCGGCAGATTGTCACAG 60.671 55.000 27.76 0.12 35.39 3.66
772 791 1.933853 ACGCATTCCTATTTGACGCTC 59.066 47.619 0.00 0.00 0.00 5.03
792 811 0.604511 TGGGCGCGTCTATAGATCGA 60.605 55.000 23.09 0.00 0.00 3.59
817 836 9.069082 GCTACTCAGGTCTATCATAAACTAGAA 57.931 37.037 0.00 0.00 0.00 2.10
852 871 1.474077 GAATGCTTCCACCATTCGCTT 59.526 47.619 0.00 0.00 39.18 4.68
884 903 2.349886 CAGGTAGAAGCAAGAATCGTGC 59.650 50.000 13.11 13.11 42.55 5.34
921 940 2.029828 TGAGGTTCTTGAGAGTTCTCGC 60.030 50.000 4.80 0.00 45.72 5.03
957 976 1.270625 TGAGAATTTATAGCGGGGCGG 60.271 52.381 0.00 0.00 0.00 6.13
964 983 2.224314 GCAGGCCGTGAGAATTTATAGC 59.776 50.000 0.00 0.00 0.00 2.97
1070 1089 8.062065 TGAATCTTTTGTTTACTGGTTGAGTT 57.938 30.769 0.00 0.00 35.96 3.01
1075 1094 7.147976 GCTGATGAATCTTTTGTTTACTGGTT 58.852 34.615 0.00 0.00 0.00 3.67
1216 1235 1.220749 GGTGCGTGGGAAGATGCTA 59.779 57.895 0.00 0.00 0.00 3.49
1477 1496 1.446272 CTCCTCCGCCTTCACGTTC 60.446 63.158 0.00 0.00 0.00 3.95
1489 1508 2.110006 GCCGCCTTGATCTCCTCC 59.890 66.667 0.00 0.00 0.00 4.30
1605 1632 1.302271 CTGAGCAGAAGCAGCCACA 60.302 57.895 0.00 0.00 45.49 4.17
1625 1656 5.047731 CACTATTATTCTCGCATCCTCCTCA 60.048 44.000 0.00 0.00 0.00 3.86
1666 1697 3.676291 TCCAAGCTTGTTTTATTGGGC 57.324 42.857 24.35 0.00 42.05 5.36
1721 1758 2.741985 CCCACAGCATTCGACGCA 60.742 61.111 8.60 0.00 0.00 5.24
1750 1788 4.181578 CCATCAACTACGGTACCTCAAAG 58.818 47.826 10.90 4.37 0.00 2.77
1751 1789 3.579586 ACCATCAACTACGGTACCTCAAA 59.420 43.478 10.90 0.00 0.00 2.69
1752 1790 3.167485 ACCATCAACTACGGTACCTCAA 58.833 45.455 10.90 0.00 0.00 3.02
1753 1791 2.811410 ACCATCAACTACGGTACCTCA 58.189 47.619 10.90 0.00 0.00 3.86
1754 1792 3.881937 AACCATCAACTACGGTACCTC 57.118 47.619 10.90 0.00 31.12 3.85
1755 1793 3.325716 ACAAACCATCAACTACGGTACCT 59.674 43.478 10.90 0.00 31.12 3.08
1756 1794 3.434299 CACAAACCATCAACTACGGTACC 59.566 47.826 0.16 0.16 31.12 3.34
1800 1838 1.069568 CCATGCGCAAACACGAAACTA 60.070 47.619 17.11 0.00 34.06 2.24
1804 1842 2.050533 GCCATGCGCAAACACGAA 60.051 55.556 17.11 0.00 37.47 3.85
1891 1933 9.810545 AAAACTTAAAAGGAAATGATCGAACAA 57.189 25.926 0.00 0.00 0.00 2.83
1907 1957 6.551385 TCGGCCAACGTATAAAACTTAAAA 57.449 33.333 2.24 0.00 44.69 1.52
1910 1960 8.359642 AGTATATCGGCCAACGTATAAAACTTA 58.640 33.333 2.24 0.00 44.69 2.24
1911 1961 7.212274 AGTATATCGGCCAACGTATAAAACTT 58.788 34.615 2.24 0.00 44.69 2.66
1912 1962 6.752168 AGTATATCGGCCAACGTATAAAACT 58.248 36.000 2.24 0.00 44.69 2.66
1913 1963 7.383300 AGAAGTATATCGGCCAACGTATAAAAC 59.617 37.037 2.24 0.00 44.69 2.43
1914 1964 7.436118 AGAAGTATATCGGCCAACGTATAAAA 58.564 34.615 2.24 0.00 44.69 1.52
1932 1988 8.704849 AGAGCATGAAGTCTATGTAGAAGTAT 57.295 34.615 0.00 0.00 33.47 2.12
1942 1998 9.815306 TTTATAGGTAGAGAGCATGAAGTCTAT 57.185 33.333 0.00 0.00 0.00 1.98
1965 2021 7.062488 CACACGTGCACACATACTAGTTATTTA 59.938 37.037 17.22 0.00 0.00 1.40
1966 2022 5.929992 ACACGTGCACACATACTAGTTATTT 59.070 36.000 17.22 0.00 0.00 1.40
1990 2048 7.965655 CACTCCATAATAATGTTAAAACGTGCA 59.034 33.333 0.00 0.00 0.00 4.57
2084 2148 8.347004 TGTAATGTATTTTCTTTCTGCATCCA 57.653 30.769 0.00 0.00 0.00 3.41
2161 2229 5.837586 TTTCGGCAAGCAATTTTATGAAC 57.162 34.783 0.00 0.00 0.00 3.18
2220 2289 9.793259 AAGTTGTTTCAGAGAGGAAATATACAA 57.207 29.630 0.00 0.00 38.86 2.41
2475 2553 5.521735 CGACAGTTATTTTGGATCAGAGGAG 59.478 44.000 0.00 0.00 0.00 3.69
2476 2554 5.419542 CGACAGTTATTTTGGATCAGAGGA 58.580 41.667 0.00 0.00 0.00 3.71
2477 2555 4.034510 GCGACAGTTATTTTGGATCAGAGG 59.965 45.833 0.00 0.00 0.00 3.69
2478 2556 4.631377 TGCGACAGTTATTTTGGATCAGAG 59.369 41.667 0.00 0.00 0.00 3.35
2479 2557 4.574892 TGCGACAGTTATTTTGGATCAGA 58.425 39.130 0.00 0.00 0.00 3.27
2480 2558 4.393062 ACTGCGACAGTTATTTTGGATCAG 59.607 41.667 6.67 0.00 42.59 2.90
2481 2559 4.323417 ACTGCGACAGTTATTTTGGATCA 58.677 39.130 6.67 0.00 42.59 2.92
2482 2560 4.946784 ACTGCGACAGTTATTTTGGATC 57.053 40.909 6.67 0.00 42.59 3.36
2494 2572 3.155998 CGCTTATTCAAAACTGCGACAG 58.844 45.455 0.00 5.47 45.15 3.51
2495 2573 2.095969 CCGCTTATTCAAAACTGCGACA 60.096 45.455 6.74 0.00 45.15 4.35
2496 2574 2.505866 CCGCTTATTCAAAACTGCGAC 58.494 47.619 6.74 0.00 45.15 5.19
2497 2575 1.135803 GCCGCTTATTCAAAACTGCGA 60.136 47.619 6.74 0.00 45.15 5.10
2498 2576 1.259316 GCCGCTTATTCAAAACTGCG 58.741 50.000 0.00 0.00 42.52 5.18
2499 2577 1.985684 GTGCCGCTTATTCAAAACTGC 59.014 47.619 0.00 0.00 0.00 4.40
2500 2578 3.559238 AGTGCCGCTTATTCAAAACTG 57.441 42.857 0.00 0.00 0.00 3.16
2501 2579 5.897377 ATAAGTGCCGCTTATTCAAAACT 57.103 34.783 4.69 0.00 45.40 2.66
2510 2588 6.745159 TCAAAACATAATAAGTGCCGCTTA 57.255 33.333 0.00 0.00 43.13 3.09
2511 2589 5.637006 TCAAAACATAATAAGTGCCGCTT 57.363 34.783 0.00 0.00 41.05 4.68
2512 2590 5.637006 TTCAAAACATAATAAGTGCCGCT 57.363 34.783 0.00 0.00 0.00 5.52
2513 2591 7.305993 GCTTATTCAAAACATAATAAGTGCCGC 60.306 37.037 13.44 0.00 43.17 6.53
2514 2592 7.097047 CGCTTATTCAAAACATAATAAGTGCCG 60.097 37.037 12.68 6.99 43.55 5.69
2515 2593 7.913297 TCGCTTATTCAAAACATAATAAGTGCC 59.087 33.333 17.37 3.66 46.25 5.01
2516 2594 8.734030 GTCGCTTATTCAAAACATAATAAGTGC 58.266 33.333 17.37 11.79 46.25 4.40
2518 2596 9.769093 GTGTCGCTTATTCAAAACATAATAAGT 57.231 29.630 13.44 0.00 43.17 2.24
2519 2597 9.221775 GGTGTCGCTTATTCAAAACATAATAAG 57.778 33.333 9.43 9.43 43.69 1.73
2520 2598 8.952278 AGGTGTCGCTTATTCAAAACATAATAA 58.048 29.630 0.00 0.00 0.00 1.40
2521 2599 8.500753 AGGTGTCGCTTATTCAAAACATAATA 57.499 30.769 0.00 0.00 0.00 0.98
2522 2600 7.391148 AGGTGTCGCTTATTCAAAACATAAT 57.609 32.000 0.00 0.00 0.00 1.28
2523 2601 6.811253 AGGTGTCGCTTATTCAAAACATAA 57.189 33.333 0.00 0.00 0.00 1.90
2524 2602 8.500753 AATAGGTGTCGCTTATTCAAAACATA 57.499 30.769 0.00 0.00 0.00 2.29
2525 2603 7.391148 AATAGGTGTCGCTTATTCAAAACAT 57.609 32.000 0.00 0.00 0.00 2.71
2526 2604 6.811253 AATAGGTGTCGCTTATTCAAAACA 57.189 33.333 0.00 0.00 0.00 2.83
2527 2605 8.609176 TCATAATAGGTGTCGCTTATTCAAAAC 58.391 33.333 4.20 0.00 32.57 2.43
2528 2606 8.725405 TCATAATAGGTGTCGCTTATTCAAAA 57.275 30.769 4.20 0.00 32.57 2.44
2529 2607 7.985184 ACTCATAATAGGTGTCGCTTATTCAAA 59.015 33.333 4.20 0.00 32.57 2.69
2530 2608 7.497595 ACTCATAATAGGTGTCGCTTATTCAA 58.502 34.615 4.20 0.00 32.57 2.69
2531 2609 7.050970 ACTCATAATAGGTGTCGCTTATTCA 57.949 36.000 4.20 0.00 32.57 2.57
2532 2610 6.305877 CGACTCATAATAGGTGTCGCTTATTC 59.694 42.308 14.71 0.00 42.63 1.75
2533 2611 6.150318 CGACTCATAATAGGTGTCGCTTATT 58.850 40.000 14.71 6.10 42.63 1.40
2534 2612 5.335740 CCGACTCATAATAGGTGTCGCTTAT 60.336 44.000 19.60 0.00 45.93 1.73
2535 2613 4.023450 CCGACTCATAATAGGTGTCGCTTA 60.023 45.833 19.60 0.00 45.93 3.09
2536 2614 3.243434 CCGACTCATAATAGGTGTCGCTT 60.243 47.826 19.60 0.00 45.93 4.68
2537 2615 2.293677 CCGACTCATAATAGGTGTCGCT 59.706 50.000 19.60 0.00 45.93 4.93
2538 2616 2.292569 TCCGACTCATAATAGGTGTCGC 59.707 50.000 19.60 0.00 45.93 5.19
2539 2617 3.058155 CCTCCGACTCATAATAGGTGTCG 60.058 52.174 18.52 18.52 46.55 4.35
2540 2618 4.142790 TCCTCCGACTCATAATAGGTGTC 58.857 47.826 0.00 0.00 0.00 3.67
2541 2619 4.180377 TCCTCCGACTCATAATAGGTGT 57.820 45.455 0.00 0.00 0.00 4.16
2542 2620 4.524714 ACATCCTCCGACTCATAATAGGTG 59.475 45.833 0.00 0.00 0.00 4.00
2543 2621 4.742012 ACATCCTCCGACTCATAATAGGT 58.258 43.478 0.00 0.00 0.00 3.08
2544 2622 6.835819 TTACATCCTCCGACTCATAATAGG 57.164 41.667 0.00 0.00 0.00 2.57
2545 2623 8.523658 TCATTTACATCCTCCGACTCATAATAG 58.476 37.037 0.00 0.00 0.00 1.73
2546 2624 8.417273 TCATTTACATCCTCCGACTCATAATA 57.583 34.615 0.00 0.00 0.00 0.98
2547 2625 7.303182 TCATTTACATCCTCCGACTCATAAT 57.697 36.000 0.00 0.00 0.00 1.28
2548 2626 6.724893 TCATTTACATCCTCCGACTCATAA 57.275 37.500 0.00 0.00 0.00 1.90
2549 2627 6.918067 ATCATTTACATCCTCCGACTCATA 57.082 37.500 0.00 0.00 0.00 2.15
2550 2628 5.815233 ATCATTTACATCCTCCGACTCAT 57.185 39.130 0.00 0.00 0.00 2.90
2551 2629 6.267699 ACATATCATTTACATCCTCCGACTCA 59.732 38.462 0.00 0.00 0.00 3.41
2552 2630 6.692486 ACATATCATTTACATCCTCCGACTC 58.308 40.000 0.00 0.00 0.00 3.36
2553 2631 6.672266 ACATATCATTTACATCCTCCGACT 57.328 37.500 0.00 0.00 0.00 4.18
2554 2632 7.063544 GCTTACATATCATTTACATCCTCCGAC 59.936 40.741 0.00 0.00 0.00 4.79
2555 2633 7.097192 GCTTACATATCATTTACATCCTCCGA 58.903 38.462 0.00 0.00 0.00 4.55
2556 2634 6.035005 CGCTTACATATCATTTACATCCTCCG 59.965 42.308 0.00 0.00 0.00 4.63
2557 2635 6.313905 CCGCTTACATATCATTTACATCCTCC 59.686 42.308 0.00 0.00 0.00 4.30
2558 2636 6.183360 GCCGCTTACATATCATTTACATCCTC 60.183 42.308 0.00 0.00 0.00 3.71
2559 2637 5.643777 GCCGCTTACATATCATTTACATCCT 59.356 40.000 0.00 0.00 0.00 3.24
2560 2638 5.411361 TGCCGCTTACATATCATTTACATCC 59.589 40.000 0.00 0.00 0.00 3.51
2561 2639 6.147821 AGTGCCGCTTACATATCATTTACATC 59.852 38.462 0.00 0.00 0.00 3.06
2562 2640 5.997746 AGTGCCGCTTACATATCATTTACAT 59.002 36.000 0.00 0.00 0.00 2.29
2563 2641 5.364778 AGTGCCGCTTACATATCATTTACA 58.635 37.500 0.00 0.00 0.00 2.41
2564 2642 5.924475 AGTGCCGCTTACATATCATTTAC 57.076 39.130 0.00 0.00 0.00 2.01
2565 2643 8.615878 AATAAGTGCCGCTTACATATCATTTA 57.384 30.769 0.00 0.00 41.93 1.40
2566 2644 7.510549 AATAAGTGCCGCTTACATATCATTT 57.489 32.000 0.00 0.00 41.93 2.32
2567 2645 8.792830 ATAATAAGTGCCGCTTACATATCATT 57.207 30.769 0.00 0.00 41.93 2.57
2568 2646 8.792830 AATAATAAGTGCCGCTTACATATCAT 57.207 30.769 0.00 0.00 41.93 2.45
2569 2647 9.884636 ATAATAATAAGTGCCGCTTACATATCA 57.115 29.630 0.00 0.00 41.93 2.15
2571 2649 9.109393 CCATAATAATAAGTGCCGCTTACATAT 57.891 33.333 0.00 0.34 41.93 1.78
2572 2650 8.315482 TCCATAATAATAAGTGCCGCTTACATA 58.685 33.333 0.00 0.00 41.93 2.29
2573 2651 7.165485 TCCATAATAATAAGTGCCGCTTACAT 58.835 34.615 0.00 0.00 41.93 2.29
2574 2652 6.526526 TCCATAATAATAAGTGCCGCTTACA 58.473 36.000 0.00 0.00 41.93 2.41
2575 2653 7.611213 ATCCATAATAATAAGTGCCGCTTAC 57.389 36.000 0.00 0.00 41.93 2.34
2576 2654 7.880713 TCAATCCATAATAATAAGTGCCGCTTA 59.119 33.333 0.00 0.00 43.13 3.09
2577 2655 6.714810 TCAATCCATAATAATAAGTGCCGCTT 59.285 34.615 0.00 0.00 41.05 4.68
2578 2656 6.237901 TCAATCCATAATAATAAGTGCCGCT 58.762 36.000 0.00 0.00 0.00 5.52
2579 2657 6.403636 CCTCAATCCATAATAATAAGTGCCGC 60.404 42.308 0.00 0.00 0.00 6.53
2580 2658 6.094048 CCCTCAATCCATAATAATAAGTGCCG 59.906 42.308 0.00 0.00 0.00 5.69
2581 2659 7.175104 TCCCTCAATCCATAATAATAAGTGCC 58.825 38.462 0.00 0.00 0.00 5.01
2582 2660 7.885399 ACTCCCTCAATCCATAATAATAAGTGC 59.115 37.037 0.00 0.00 0.00 4.40
2583 2661 9.224267 CACTCCCTCAATCCATAATAATAAGTG 57.776 37.037 0.00 0.00 0.00 3.16
2584 2662 9.170890 TCACTCCCTCAATCCATAATAATAAGT 57.829 33.333 0.00 0.00 0.00 2.24
2587 2665 9.170890 ACTTCACTCCCTCAATCCATAATAATA 57.829 33.333 0.00 0.00 0.00 0.98
2588 2666 8.050316 ACTTCACTCCCTCAATCCATAATAAT 57.950 34.615 0.00 0.00 0.00 1.28
2589 2667 7.451731 ACTTCACTCCCTCAATCCATAATAA 57.548 36.000 0.00 0.00 0.00 1.40
2590 2668 7.092444 ACAACTTCACTCCCTCAATCCATAATA 60.092 37.037 0.00 0.00 0.00 0.98
2591 2669 5.983333 ACTTCACTCCCTCAATCCATAAT 57.017 39.130 0.00 0.00 0.00 1.28
2592 2670 5.014123 ACAACTTCACTCCCTCAATCCATAA 59.986 40.000 0.00 0.00 0.00 1.90
2593 2671 4.536090 ACAACTTCACTCCCTCAATCCATA 59.464 41.667 0.00 0.00 0.00 2.74
2594 2672 3.331889 ACAACTTCACTCCCTCAATCCAT 59.668 43.478 0.00 0.00 0.00 3.41
2595 2673 2.711009 ACAACTTCACTCCCTCAATCCA 59.289 45.455 0.00 0.00 0.00 3.41
2596 2674 3.425162 ACAACTTCACTCCCTCAATCC 57.575 47.619 0.00 0.00 0.00 3.01
2597 2675 5.734720 TGATACAACTTCACTCCCTCAATC 58.265 41.667 0.00 0.00 0.00 2.67
2598 2676 5.762179 TGATACAACTTCACTCCCTCAAT 57.238 39.130 0.00 0.00 0.00 2.57
2599 2677 5.560722 TTGATACAACTTCACTCCCTCAA 57.439 39.130 0.00 0.00 0.00 3.02
2600 2678 5.306937 TCTTTGATACAACTTCACTCCCTCA 59.693 40.000 0.00 0.00 0.00 3.86
2601 2679 5.794894 TCTTTGATACAACTTCACTCCCTC 58.205 41.667 0.00 0.00 0.00 4.30
2602 2680 5.825593 TCTTTGATACAACTTCACTCCCT 57.174 39.130 0.00 0.00 0.00 4.20
2603 2681 5.998363 ACTTCTTTGATACAACTTCACTCCC 59.002 40.000 0.00 0.00 0.00 4.30
2604 2682 7.308049 GGAACTTCTTTGATACAACTTCACTCC 60.308 40.741 0.00 0.00 0.00 3.85
2605 2683 7.569591 CGGAACTTCTTTGATACAACTTCACTC 60.570 40.741 0.00 0.00 0.00 3.51
2606 2684 6.202954 CGGAACTTCTTTGATACAACTTCACT 59.797 38.462 0.00 0.00 0.00 3.41
2607 2685 6.018180 ACGGAACTTCTTTGATACAACTTCAC 60.018 38.462 0.00 0.00 0.00 3.18
2608 2686 6.053005 ACGGAACTTCTTTGATACAACTTCA 58.947 36.000 0.00 0.00 0.00 3.02
2609 2687 6.541111 ACGGAACTTCTTTGATACAACTTC 57.459 37.500 0.00 0.00 0.00 3.01
2610 2688 6.017357 GGAACGGAACTTCTTTGATACAACTT 60.017 38.462 0.00 0.00 0.00 2.66
2611 2689 5.469084 GGAACGGAACTTCTTTGATACAACT 59.531 40.000 0.00 0.00 0.00 3.16
2612 2690 5.237779 TGGAACGGAACTTCTTTGATACAAC 59.762 40.000 0.00 0.00 0.00 3.32
2613 2691 5.369833 TGGAACGGAACTTCTTTGATACAA 58.630 37.500 0.00 0.00 0.00 2.41
2614 2692 4.963373 TGGAACGGAACTTCTTTGATACA 58.037 39.130 0.00 0.00 0.00 2.29
2615 2693 5.934935 TTGGAACGGAACTTCTTTGATAC 57.065 39.130 0.00 0.00 0.00 2.24
2616 2694 5.823570 TGTTTGGAACGGAACTTCTTTGATA 59.176 36.000 0.00 0.00 0.00 2.15
2617 2695 4.642885 TGTTTGGAACGGAACTTCTTTGAT 59.357 37.500 0.00 0.00 0.00 2.57
2618 2696 4.011023 TGTTTGGAACGGAACTTCTTTGA 58.989 39.130 0.00 0.00 0.00 2.69
2619 2697 4.364415 TGTTTGGAACGGAACTTCTTTG 57.636 40.909 0.00 0.00 0.00 2.77
2620 2698 5.588240 GATTGTTTGGAACGGAACTTCTTT 58.412 37.500 0.00 0.00 0.00 2.52
2621 2699 4.261031 CGATTGTTTGGAACGGAACTTCTT 60.261 41.667 0.00 0.00 0.00 2.52
2622 2700 3.250040 CGATTGTTTGGAACGGAACTTCT 59.750 43.478 0.00 0.00 0.00 2.85
2623 2701 3.002965 ACGATTGTTTGGAACGGAACTTC 59.997 43.478 0.00 0.00 0.00 3.01
2624 2702 2.946990 ACGATTGTTTGGAACGGAACTT 59.053 40.909 0.00 0.00 0.00 2.66
2625 2703 2.567985 ACGATTGTTTGGAACGGAACT 58.432 42.857 0.00 0.00 0.00 3.01
2626 2704 3.343380 AACGATTGTTTGGAACGGAAC 57.657 42.857 0.00 0.00 33.53 3.62
2630 2708 9.940312 ACTGGAAGAAAACGATTGTTTGGAACG 62.940 40.741 11.89 0.00 42.16 3.95
2631 2709 6.899613 ACTGGAAGAAAACGATTGTTTGGAAC 60.900 38.462 11.89 5.04 42.16 3.62
2632 2710 5.126384 ACTGGAAGAAAACGATTGTTTGGAA 59.874 36.000 11.89 0.00 42.16 3.53
2633 2711 4.642885 ACTGGAAGAAAACGATTGTTTGGA 59.357 37.500 11.89 0.00 42.16 3.53
2634 2712 4.932146 ACTGGAAGAAAACGATTGTTTGG 58.068 39.130 11.89 0.74 42.16 3.28
2635 2713 5.231991 CCAACTGGAAGAAAACGATTGTTTG 59.768 40.000 11.89 0.60 42.16 2.93
2636 2714 5.105513 ACCAACTGGAAGAAAACGATTGTTT 60.106 36.000 5.16 5.16 43.86 2.83
2637 2715 4.401202 ACCAACTGGAAGAAAACGATTGTT 59.599 37.500 1.86 0.00 37.36 2.83
2638 2716 3.951680 ACCAACTGGAAGAAAACGATTGT 59.048 39.130 1.86 0.00 37.43 2.71
2639 2717 4.568152 ACCAACTGGAAGAAAACGATTG 57.432 40.909 1.86 0.00 37.43 2.67
2640 2718 4.401202 ACAACCAACTGGAAGAAAACGATT 59.599 37.500 1.86 0.00 37.43 3.34
2641 2719 3.951680 ACAACCAACTGGAAGAAAACGAT 59.048 39.130 1.86 0.00 37.43 3.73
2642 2720 3.349022 ACAACCAACTGGAAGAAAACGA 58.651 40.909 1.86 0.00 37.43 3.85
2643 2721 3.775661 ACAACCAACTGGAAGAAAACG 57.224 42.857 1.86 0.00 37.43 3.60
2644 2722 4.607955 GCTACAACCAACTGGAAGAAAAC 58.392 43.478 1.86 0.00 37.43 2.43
2645 2723 3.314080 CGCTACAACCAACTGGAAGAAAA 59.686 43.478 1.86 0.00 37.43 2.29
2646 2724 2.875933 CGCTACAACCAACTGGAAGAAA 59.124 45.455 1.86 0.00 37.43 2.52
2647 2725 2.158871 ACGCTACAACCAACTGGAAGAA 60.159 45.455 1.86 0.00 37.43 2.52
2648 2726 1.414919 ACGCTACAACCAACTGGAAGA 59.585 47.619 1.86 0.00 37.43 2.87
2649 2727 1.531149 CACGCTACAACCAACTGGAAG 59.469 52.381 1.86 0.00 42.29 3.46
2650 2728 1.134340 ACACGCTACAACCAACTGGAA 60.134 47.619 1.86 0.00 38.94 3.53
2651 2729 0.466543 ACACGCTACAACCAACTGGA 59.533 50.000 1.86 0.00 38.94 3.86
2652 2730 2.066262 CTACACGCTACAACCAACTGG 58.934 52.381 0.00 0.00 42.17 4.00
2653 2731 1.459592 GCTACACGCTACAACCAACTG 59.540 52.381 0.00 0.00 35.14 3.16
2654 2732 1.792006 GCTACACGCTACAACCAACT 58.208 50.000 0.00 0.00 35.14 3.16


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

AutoCloner maintained by Alex Coulton.