Multiple sequence alignment - TraesCS5A01G324300

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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 TraesCS5A01G324300 chr5A 100.000 1970 0 0 1 1970 535652628 535654597 0.000000e+00 3639
1 TraesCS5A01G324300 chr5A 84.567 1121 83 31 679 1763 535674005 535675071 0.000000e+00 1029
2 TraesCS5A01G324300 chr5A 94.231 468 25 2 110 576 2093994 2094460 0.000000e+00 713
3 TraesCS5A01G324300 chr5A 100.000 282 0 0 2334 2615 535654961 535655242 2.980000e-144 521
4 TraesCS5A01G324300 chr5D 93.841 1299 31 13 575 1829 422419780 422421073 0.000000e+00 1910
5 TraesCS5A01G324300 chr5D 84.981 1072 117 32 903 1953 422436880 422437928 0.000000e+00 1048
6 TraesCS5A01G324300 chr5B 89.325 1452 61 34 596 1965 509171686 509173125 0.000000e+00 1736
7 TraesCS5A01G324300 chr5B 84.261 1150 92 40 700 1805 509190896 509192000 0.000000e+00 1038
8 TraesCS5A01G324300 chr5B 94.261 575 31 2 1 573 479636951 479637525 0.000000e+00 878
9 TraesCS5A01G324300 chr7A 96.510 573 18 2 1 572 14177675 14178246 0.000000e+00 946
10 TraesCS5A01G324300 chr7A 96.403 417 13 2 158 572 80533106 80533522 0.000000e+00 686
11 TraesCS5A01G324300 chr3A 95.113 573 26 2 1 572 163100388 163099817 0.000000e+00 902
12 TraesCS5A01G324300 chr4A 94.590 573 30 1 1 572 5739551 5740123 0.000000e+00 885
13 TraesCS5A01G324300 chr2A 94.261 575 27 3 1 572 735780522 735781093 0.000000e+00 874
14 TraesCS5A01G324300 chr6A 90.682 601 26 3 1 572 600250869 600251468 0.000000e+00 773
15 TraesCS5A01G324300 chr2B 88.966 580 50 9 1 571 212938473 212937899 0.000000e+00 704


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 TraesCS5A01G324300 chr5A 535652628 535655242 2614 False 2080 3639 100.000 1 2615 2 chr5A.!!$F3 2614
1 TraesCS5A01G324300 chr5A 535674005 535675071 1066 False 1029 1029 84.567 679 1763 1 chr5A.!!$F2 1084
2 TraesCS5A01G324300 chr5D 422419780 422421073 1293 False 1910 1910 93.841 575 1829 1 chr5D.!!$F1 1254
3 TraesCS5A01G324300 chr5D 422436880 422437928 1048 False 1048 1048 84.981 903 1953 1 chr5D.!!$F2 1050
4 TraesCS5A01G324300 chr5B 509171686 509173125 1439 False 1736 1736 89.325 596 1965 1 chr5B.!!$F2 1369
5 TraesCS5A01G324300 chr5B 509190896 509192000 1104 False 1038 1038 84.261 700 1805 1 chr5B.!!$F3 1105
6 TraesCS5A01G324300 chr5B 479636951 479637525 574 False 878 878 94.261 1 573 1 chr5B.!!$F1 572
7 TraesCS5A01G324300 chr7A 14177675 14178246 571 False 946 946 96.510 1 572 1 chr7A.!!$F1 571
8 TraesCS5A01G324300 chr3A 163099817 163100388 571 True 902 902 95.113 1 572 1 chr3A.!!$R1 571
9 TraesCS5A01G324300 chr4A 5739551 5740123 572 False 885 885 94.590 1 572 1 chr4A.!!$F1 571
10 TraesCS5A01G324300 chr2A 735780522 735781093 571 False 874 874 94.261 1 572 1 chr2A.!!$F1 571
11 TraesCS5A01G324300 chr6A 600250869 600251468 599 False 773 773 90.682 1 572 1 chr6A.!!$F1 571
12 TraesCS5A01G324300 chr2B 212937899 212938473 574 True 704 704 88.966 1 571 1 chr2B.!!$R1 570

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
446 485 0.523546 AAGCGCGTGATACGTCTGAG 60.524 55.0 8.43 0.0 44.73 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2376 2596 0.039074 GCCGGTGATGGTCTCTATCG 60.039 60.0 1.9 0.0 0.0 2.92 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
114 116 3.683340 CCAGTTTTTACTAGCCGAACCTC 59.317 47.826 0.00 0.00 0.00 3.85
408 447 1.903860 TCACTAACAATGGGCCGTAGT 59.096 47.619 0.00 0.00 0.00 2.73
446 485 0.523546 AAGCGCGTGATACGTCTGAG 60.524 55.000 8.43 0.00 44.73 3.35
573 612 6.222038 TGACTTCCAGTGATATTACCTCAC 57.778 41.667 0.00 0.00 42.68 3.51
593 632 6.659668 CCTCACTATATTATGAGACGAAGGGA 59.340 42.308 14.51 0.00 44.32 4.20
717 783 4.171754 GCAGAGAAGCATGTGGAAATTTC 58.828 43.478 9.83 9.83 0.00 2.17
1314 1429 1.006102 CTTCTTGGTGGTCGACGCT 60.006 57.895 9.92 0.00 0.00 5.07
1649 1772 3.063997 GCTTTCCTGTACATCAATCGGTG 59.936 47.826 0.00 0.00 0.00 4.94
1652 1775 2.569853 TCCTGTACATCAATCGGTGGTT 59.430 45.455 0.00 0.00 0.00 3.67
1656 1814 4.500127 TGTACATCAATCGGTGGTTGTAG 58.500 43.478 0.00 0.00 31.22 2.74
1657 1815 3.973206 ACATCAATCGGTGGTTGTAGA 57.027 42.857 0.00 0.00 0.00 2.59
1658 1816 3.596214 ACATCAATCGGTGGTTGTAGAC 58.404 45.455 0.00 0.00 0.00 2.59
1711 1888 0.813184 CTTTGAATCTGCCGGCATGT 59.187 50.000 32.87 19.15 0.00 3.21
1717 1894 0.740737 ATCTGCCGGCATGTTTAAGC 59.259 50.000 32.87 0.00 0.00 3.09
1723 1900 2.032178 GCCGGCATGTTTAAGCTAAGAG 59.968 50.000 24.80 0.00 0.00 2.85
1757 1934 3.390135 CGGTGAGCCATCGTGTAAATAT 58.610 45.455 0.31 0.00 32.87 1.28
1889 2078 8.408043 TGTTGATGATTTCCTAAGTTCAACAT 57.592 30.769 10.53 0.00 43.65 2.71
1920 2140 5.295787 TCATCGTTTGCTTTAAGTGTGTTCT 59.704 36.000 0.00 0.00 0.00 3.01
1931 2151 7.410407 GCTTTAAGTGTGTTCTTTGTGTTGAAC 60.410 37.037 0.00 0.00 41.87 3.18
1936 2156 6.430000 AGTGTGTTCTTTGTGTTGAACTTAGT 59.570 34.615 0.00 0.00 41.99 2.24
1941 2161 8.353684 TGTTCTTTGTGTTGAACTTAGTGAAAA 58.646 29.630 0.00 0.00 41.99 2.29
1947 2167 8.050778 TGTGTTGAACTTAGTGAAAACATCTT 57.949 30.769 9.77 0.00 30.96 2.40
1954 2174 8.614994 AACTTAGTGAAAACATCTTCAAAACG 57.385 30.769 0.00 0.00 37.08 3.60
1958 2178 7.316544 AGTGAAAACATCTTCAAAACGTAGT 57.683 32.000 0.00 0.00 38.91 2.73
1966 2186 9.577110 AACATCTTCAAAACGTAGTATAATCGA 57.423 29.630 0.00 0.00 45.00 3.59
1967 2187 9.745880 ACATCTTCAAAACGTAGTATAATCGAT 57.254 29.630 0.00 0.00 45.00 3.59
2351 2571 3.272042 CCCACCCCATCCCACCAA 61.272 66.667 0.00 0.00 0.00 3.67
2352 2572 2.037208 CCACCCCATCCCACCAAC 59.963 66.667 0.00 0.00 0.00 3.77
2353 2573 2.037208 CACCCCATCCCACCAACC 59.963 66.667 0.00 0.00 0.00 3.77
2354 2574 3.272847 ACCCCATCCCACCAACCC 61.273 66.667 0.00 0.00 0.00 4.11
2355 2575 3.272042 CCCCATCCCACCAACCCA 61.272 66.667 0.00 0.00 0.00 4.51
2356 2576 2.037208 CCCATCCCACCAACCCAC 59.963 66.667 0.00 0.00 0.00 4.61
2357 2577 2.850290 CCATCCCACCAACCCACA 59.150 61.111 0.00 0.00 0.00 4.17
2358 2578 1.606313 CCATCCCACCAACCCACAC 60.606 63.158 0.00 0.00 0.00 3.82
2359 2579 1.971167 CATCCCACCAACCCACACG 60.971 63.158 0.00 0.00 0.00 4.49
2360 2580 3.860930 ATCCCACCAACCCACACGC 62.861 63.158 0.00 0.00 0.00 5.34
2361 2581 4.885270 CCCACCAACCCACACGCA 62.885 66.667 0.00 0.00 0.00 5.24
2362 2582 2.830827 CCACCAACCCACACGCAA 60.831 61.111 0.00 0.00 0.00 4.85
2363 2583 2.411290 CACCAACCCACACGCAAC 59.589 61.111 0.00 0.00 0.00 4.17
2364 2584 3.206246 ACCAACCCACACGCAACG 61.206 61.111 0.00 0.00 0.00 4.10
2365 2585 2.897846 CCAACCCACACGCAACGA 60.898 61.111 0.00 0.00 0.00 3.85
2366 2586 2.326550 CAACCCACACGCAACGAC 59.673 61.111 0.00 0.00 0.00 4.34
2367 2587 3.266376 AACCCACACGCAACGACG 61.266 61.111 0.00 0.00 39.50 5.12
2368 2588 3.719883 AACCCACACGCAACGACGA 62.720 57.895 0.00 0.00 36.70 4.20
2369 2589 3.698463 CCCACACGCAACGACGAC 61.698 66.667 0.00 0.00 36.70 4.34
2370 2590 2.957489 CCACACGCAACGACGACA 60.957 61.111 0.00 0.00 36.70 4.35
2371 2591 2.518312 CCACACGCAACGACGACAA 61.518 57.895 0.00 0.00 36.70 3.18
2372 2592 1.345516 CACACGCAACGACGACAAA 59.654 52.632 0.00 0.00 36.70 2.83
2373 2593 0.247340 CACACGCAACGACGACAAAA 60.247 50.000 0.00 0.00 36.70 2.44
2374 2594 0.443088 ACACGCAACGACGACAAAAA 59.557 45.000 0.00 0.00 36.70 1.94
2375 2595 1.062880 ACACGCAACGACGACAAAAAT 59.937 42.857 0.00 0.00 36.70 1.82
2376 2596 1.701431 CACGCAACGACGACAAAAATC 59.299 47.619 0.00 0.00 36.70 2.17
2378 2598 1.396192 CGCAACGACGACAAAAATCGA 60.396 47.619 0.00 0.00 45.13 3.59
2379 2599 2.720590 CGCAACGACGACAAAAATCGAT 60.721 45.455 0.00 0.00 45.13 3.59
2380 2600 3.480665 CGCAACGACGACAAAAATCGATA 60.481 43.478 0.00 0.00 45.13 2.92
2381 2601 4.013397 GCAACGACGACAAAAATCGATAG 58.987 43.478 0.00 0.00 45.13 2.08
2382 2602 7.380153 CGCAACGACGACAAAAATCGATAGA 62.380 44.000 0.00 0.00 45.13 1.98
2394 2614 1.605753 TCGATAGAGACCATCACCGG 58.394 55.000 0.00 0.00 42.67 5.28
2395 2615 0.039074 CGATAGAGACCATCACCGGC 60.039 60.000 0.00 0.00 39.76 6.13
2396 2616 0.318762 GATAGAGACCATCACCGGCC 59.681 60.000 0.00 0.00 0.00 6.13
2397 2617 1.122019 ATAGAGACCATCACCGGCCC 61.122 60.000 0.00 0.00 0.00 5.80
2398 2618 2.238319 TAGAGACCATCACCGGCCCT 62.238 60.000 0.00 0.00 0.00 5.19
2399 2619 2.610859 AGACCATCACCGGCCCTT 60.611 61.111 0.00 0.00 0.00 3.95
2400 2620 2.124695 GACCATCACCGGCCCTTC 60.125 66.667 0.00 0.00 0.00 3.46
2401 2621 3.699134 GACCATCACCGGCCCTTCC 62.699 68.421 0.00 0.00 0.00 3.46
2402 2622 3.727258 CCATCACCGGCCCTTCCA 61.727 66.667 0.00 0.00 34.01 3.53
2403 2623 2.438434 CATCACCGGCCCTTCCAC 60.438 66.667 0.00 0.00 34.01 4.02
2404 2624 2.933287 ATCACCGGCCCTTCCACA 60.933 61.111 0.00 0.00 34.01 4.17
2405 2625 3.268103 ATCACCGGCCCTTCCACAC 62.268 63.158 0.00 0.00 34.01 3.82
2406 2626 4.263572 CACCGGCCCTTCCACACA 62.264 66.667 0.00 0.00 34.01 3.72
2407 2627 4.265056 ACCGGCCCTTCCACACAC 62.265 66.667 0.00 0.00 34.01 3.82
2408 2628 4.263572 CCGGCCCTTCCACACACA 62.264 66.667 0.00 0.00 34.01 3.72
2409 2629 2.034066 CGGCCCTTCCACACACAT 59.966 61.111 0.00 0.00 34.01 3.21
2410 2630 2.334946 CGGCCCTTCCACACACATG 61.335 63.158 0.00 0.00 34.01 3.21
2411 2631 2.639327 GGCCCTTCCACACACATGC 61.639 63.158 0.00 0.00 34.01 4.06
2412 2632 2.639327 GCCCTTCCACACACATGCC 61.639 63.158 0.00 0.00 0.00 4.40
2413 2633 1.228521 CCCTTCCACACACATGCCA 60.229 57.895 0.00 0.00 0.00 4.92
2414 2634 1.246056 CCCTTCCACACACATGCCAG 61.246 60.000 0.00 0.00 0.00 4.85
2415 2635 1.582968 CTTCCACACACATGCCAGC 59.417 57.895 0.00 0.00 0.00 4.85
2416 2636 1.870055 CTTCCACACACATGCCAGCC 61.870 60.000 0.00 0.00 0.00 4.85
2417 2637 2.598099 CCACACACATGCCAGCCA 60.598 61.111 0.00 0.00 0.00 4.75
2418 2638 1.980232 CCACACACATGCCAGCCAT 60.980 57.895 0.00 0.00 33.39 4.40
2419 2639 0.680601 CCACACACATGCCAGCCATA 60.681 55.000 0.00 0.00 31.47 2.74
2420 2640 1.395635 CACACACATGCCAGCCATAT 58.604 50.000 0.00 0.00 31.47 1.78
2421 2641 2.574450 CACACACATGCCAGCCATATA 58.426 47.619 0.00 0.00 31.47 0.86
2422 2642 2.291465 CACACACATGCCAGCCATATAC 59.709 50.000 0.00 0.00 31.47 1.47
2423 2643 2.092484 ACACACATGCCAGCCATATACA 60.092 45.455 0.00 0.00 31.47 2.29
2424 2644 2.291465 CACACATGCCAGCCATATACAC 59.709 50.000 0.00 0.00 31.47 2.90
2425 2645 2.092484 ACACATGCCAGCCATATACACA 60.092 45.455 0.00 0.00 31.47 3.72
2426 2646 3.151554 CACATGCCAGCCATATACACAT 58.848 45.455 0.00 0.00 31.47 3.21
2427 2647 3.057806 CACATGCCAGCCATATACACATG 60.058 47.826 0.00 0.00 39.38 3.21
2428 2648 1.608055 TGCCAGCCATATACACATGC 58.392 50.000 0.00 0.00 0.00 4.06
2429 2649 1.133853 TGCCAGCCATATACACATGCA 60.134 47.619 0.00 0.00 0.00 3.96
2430 2650 1.955778 GCCAGCCATATACACATGCAA 59.044 47.619 0.00 0.00 0.00 4.08
2431 2651 2.287788 GCCAGCCATATACACATGCAAC 60.288 50.000 0.00 0.00 0.00 4.17
2432 2652 3.216800 CCAGCCATATACACATGCAACT 58.783 45.455 0.00 0.00 0.00 3.16
2433 2653 3.251729 CCAGCCATATACACATGCAACTC 59.748 47.826 0.00 0.00 0.00 3.01
2434 2654 3.878699 CAGCCATATACACATGCAACTCA 59.121 43.478 0.00 0.00 0.00 3.41
2435 2655 3.879295 AGCCATATACACATGCAACTCAC 59.121 43.478 0.00 0.00 0.00 3.51
2436 2656 3.003689 GCCATATACACATGCAACTCACC 59.996 47.826 0.00 0.00 0.00 4.02
2437 2657 4.198530 CCATATACACATGCAACTCACCA 58.801 43.478 0.00 0.00 0.00 4.17
2438 2658 4.035558 CCATATACACATGCAACTCACCAC 59.964 45.833 0.00 0.00 0.00 4.16
2439 2659 2.629336 TACACATGCAACTCACCACA 57.371 45.000 0.00 0.00 0.00 4.17
2440 2660 1.985473 ACACATGCAACTCACCACAT 58.015 45.000 0.00 0.00 0.00 3.21
2441 2661 1.881973 ACACATGCAACTCACCACATC 59.118 47.619 0.00 0.00 0.00 3.06
2442 2662 1.200716 CACATGCAACTCACCACATCC 59.799 52.381 0.00 0.00 0.00 3.51
2443 2663 0.813184 CATGCAACTCACCACATCCC 59.187 55.000 0.00 0.00 0.00 3.85
2444 2664 0.405198 ATGCAACTCACCACATCCCA 59.595 50.000 0.00 0.00 0.00 4.37
2445 2665 0.184692 TGCAACTCACCACATCCCAA 59.815 50.000 0.00 0.00 0.00 4.12
2446 2666 0.598065 GCAACTCACCACATCCCAAC 59.402 55.000 0.00 0.00 0.00 3.77
2447 2667 1.979855 CAACTCACCACATCCCAACA 58.020 50.000 0.00 0.00 0.00 3.33
2448 2668 1.881973 CAACTCACCACATCCCAACAG 59.118 52.381 0.00 0.00 0.00 3.16
2449 2669 1.140312 ACTCACCACATCCCAACAGT 58.860 50.000 0.00 0.00 0.00 3.55
2450 2670 1.202806 ACTCACCACATCCCAACAGTG 60.203 52.381 0.00 0.00 0.00 3.66
2451 2671 0.537143 TCACCACATCCCAACAGTGC 60.537 55.000 0.00 0.00 32.09 4.40
2452 2672 0.822944 CACCACATCCCAACAGTGCA 60.823 55.000 0.00 0.00 32.09 4.57
2453 2673 0.823356 ACCACATCCCAACAGTGCAC 60.823 55.000 9.40 9.40 32.09 4.57
2454 2674 0.822944 CCACATCCCAACAGTGCACA 60.823 55.000 21.04 0.00 32.09 4.57
2455 2675 1.250328 CACATCCCAACAGTGCACAT 58.750 50.000 21.04 3.29 0.00 3.21
2456 2676 1.068125 CACATCCCAACAGTGCACATG 60.068 52.381 21.04 16.16 0.00 3.21
2457 2677 1.250328 CATCCCAACAGTGCACATGT 58.750 50.000 21.04 16.81 0.00 3.21
2458 2678 2.224744 ACATCCCAACAGTGCACATGTA 60.225 45.455 21.04 5.93 0.00 2.29
2459 2679 1.890876 TCCCAACAGTGCACATGTAC 58.109 50.000 21.04 0.00 0.00 2.90
2460 2680 1.419762 TCCCAACAGTGCACATGTACT 59.580 47.619 21.04 0.00 41.69 2.73
2461 2681 2.635427 TCCCAACAGTGCACATGTACTA 59.365 45.455 21.04 4.97 38.95 1.82
2462 2682 3.002791 CCCAACAGTGCACATGTACTAG 58.997 50.000 21.04 10.57 38.95 2.57
2463 2683 2.416547 CCAACAGTGCACATGTACTAGC 59.583 50.000 21.04 0.00 38.95 3.42
2464 2684 3.066380 CAACAGTGCACATGTACTAGCA 58.934 45.455 21.04 0.31 38.95 3.49
2467 2687 3.434258 TGCACATGTACTAGCACCG 57.566 52.632 0.00 0.00 31.05 4.94
2468 2688 0.108377 TGCACATGTACTAGCACCGG 60.108 55.000 0.00 0.00 31.05 5.28
2469 2689 1.429148 GCACATGTACTAGCACCGGC 61.429 60.000 0.00 0.00 41.61 6.13
2470 2690 0.108377 CACATGTACTAGCACCGGCA 60.108 55.000 0.00 0.00 44.61 5.69
2471 2691 0.108329 ACATGTACTAGCACCGGCAC 60.108 55.000 0.00 0.00 44.61 5.01
2484 2704 2.175811 GGCACGTAAGGCGCAAAG 59.824 61.111 10.83 0.00 46.11 2.77
2485 2705 2.322081 GGCACGTAAGGCGCAAAGA 61.322 57.895 10.83 0.00 46.11 2.52
2486 2706 1.572447 GCACGTAAGGCGCAAAGAA 59.428 52.632 10.83 0.00 46.11 2.52
2487 2707 0.724785 GCACGTAAGGCGCAAAGAAC 60.725 55.000 10.83 0.00 46.11 3.01
2488 2708 0.110373 CACGTAAGGCGCAAAGAACC 60.110 55.000 10.83 0.00 46.11 3.62
2489 2709 0.250166 ACGTAAGGCGCAAAGAACCT 60.250 50.000 10.83 0.00 46.11 3.50
2490 2710 0.872388 CGTAAGGCGCAAAGAACCTT 59.128 50.000 10.83 3.66 45.62 3.50
2491 2711 1.265905 CGTAAGGCGCAAAGAACCTTT 59.734 47.619 10.83 0.00 40.98 3.11
2492 2712 2.661594 GTAAGGCGCAAAGAACCTTTG 58.338 47.619 10.83 13.41 40.98 2.77
2493 2713 1.398692 AAGGCGCAAAGAACCTTTGA 58.601 45.000 19.92 0.00 40.98 2.69
2494 2714 0.668535 AGGCGCAAAGAACCTTTGAC 59.331 50.000 19.92 11.97 0.00 3.18
2495 2715 0.383949 GGCGCAAAGAACCTTTGACA 59.616 50.000 19.92 0.00 0.00 3.58
2496 2716 1.477105 GCGCAAAGAACCTTTGACAC 58.523 50.000 19.92 7.14 0.00 3.67
2497 2717 1.202245 GCGCAAAGAACCTTTGACACA 60.202 47.619 19.92 0.00 0.00 3.72
2498 2718 2.450160 CGCAAAGAACCTTTGACACAC 58.550 47.619 19.92 4.43 0.00 3.82
2499 2719 2.159448 CGCAAAGAACCTTTGACACACA 60.159 45.455 19.92 0.00 0.00 3.72
2500 2720 3.489059 CGCAAAGAACCTTTGACACACAT 60.489 43.478 19.92 0.00 0.00 3.21
2501 2721 3.798337 GCAAAGAACCTTTGACACACATG 59.202 43.478 19.92 0.00 0.00 3.21
2502 2722 3.715628 AAGAACCTTTGACACACATGC 57.284 42.857 0.00 0.00 0.00 4.06
2503 2723 2.936202 AGAACCTTTGACACACATGCT 58.064 42.857 0.00 0.00 0.00 3.79
2504 2724 2.620115 AGAACCTTTGACACACATGCTG 59.380 45.455 0.00 0.00 0.00 4.41
2505 2725 2.346766 ACCTTTGACACACATGCTGA 57.653 45.000 0.00 0.00 0.00 4.26
2506 2726 1.949525 ACCTTTGACACACATGCTGAC 59.050 47.619 0.00 0.00 0.00 3.51
2507 2727 1.267806 CCTTTGACACACATGCTGACC 59.732 52.381 0.00 0.00 0.00 4.02
2508 2728 1.948834 CTTTGACACACATGCTGACCA 59.051 47.619 0.00 0.00 0.00 4.02
2509 2729 2.275134 TTGACACACATGCTGACCAT 57.725 45.000 0.00 0.00 33.39 3.55
2518 2738 2.567985 CATGCTGACCATGCACATAGA 58.432 47.619 0.00 0.00 44.34 1.98
2519 2739 2.028420 TGCTGACCATGCACATAGAC 57.972 50.000 0.00 0.00 35.31 2.59
2520 2740 1.278699 TGCTGACCATGCACATAGACA 59.721 47.619 0.00 0.00 35.31 3.41
2521 2741 2.290197 TGCTGACCATGCACATAGACAA 60.290 45.455 0.00 0.00 35.31 3.18
2522 2742 2.096496 GCTGACCATGCACATAGACAAC 59.904 50.000 0.00 0.00 0.00 3.32
2523 2743 3.603532 CTGACCATGCACATAGACAACT 58.396 45.455 0.00 0.00 0.00 3.16
2524 2744 3.599343 TGACCATGCACATAGACAACTC 58.401 45.455 0.00 0.00 0.00 3.01
2525 2745 3.007831 TGACCATGCACATAGACAACTCA 59.992 43.478 0.00 0.00 0.00 3.41
2526 2746 4.194640 GACCATGCACATAGACAACTCAT 58.805 43.478 0.00 0.00 0.00 2.90
2527 2747 4.194640 ACCATGCACATAGACAACTCATC 58.805 43.478 0.00 0.00 0.00 2.92
2528 2748 4.193865 CCATGCACATAGACAACTCATCA 58.806 43.478 0.00 0.00 0.00 3.07
2529 2749 4.034858 CCATGCACATAGACAACTCATCAC 59.965 45.833 0.00 0.00 0.00 3.06
2530 2750 4.270245 TGCACATAGACAACTCATCACA 57.730 40.909 0.00 0.00 0.00 3.58
2531 2751 4.835678 TGCACATAGACAACTCATCACAT 58.164 39.130 0.00 0.00 0.00 3.21
2532 2752 4.872124 TGCACATAGACAACTCATCACATC 59.128 41.667 0.00 0.00 0.00 3.06
2533 2753 5.114780 GCACATAGACAACTCATCACATCT 58.885 41.667 0.00 0.00 0.00 2.90
2534 2754 5.233902 GCACATAGACAACTCATCACATCTC 59.766 44.000 0.00 0.00 0.00 2.75
2535 2755 5.458126 CACATAGACAACTCATCACATCTCG 59.542 44.000 0.00 0.00 0.00 4.04
2536 2756 3.516981 AGACAACTCATCACATCTCGG 57.483 47.619 0.00 0.00 0.00 4.63
2537 2757 1.929836 GACAACTCATCACATCTCGGC 59.070 52.381 0.00 0.00 0.00 5.54
2538 2758 1.276138 ACAACTCATCACATCTCGGCA 59.724 47.619 0.00 0.00 0.00 5.69
2539 2759 2.289631 ACAACTCATCACATCTCGGCAA 60.290 45.455 0.00 0.00 0.00 4.52
2540 2760 2.015736 ACTCATCACATCTCGGCAAC 57.984 50.000 0.00 0.00 0.00 4.17
2552 2772 2.899838 GGCAACGCACTCACACCA 60.900 61.111 0.00 0.00 0.00 4.17
2553 2773 2.633657 GCAACGCACTCACACCAG 59.366 61.111 0.00 0.00 0.00 4.00
2554 2774 2.180204 GCAACGCACTCACACCAGT 61.180 57.895 0.00 0.00 0.00 4.00
2555 2775 0.878523 GCAACGCACTCACACCAGTA 60.879 55.000 0.00 0.00 0.00 2.74
2556 2776 1.795768 CAACGCACTCACACCAGTAT 58.204 50.000 0.00 0.00 0.00 2.12
2557 2777 2.143122 CAACGCACTCACACCAGTATT 58.857 47.619 0.00 0.00 0.00 1.89
2558 2778 1.795768 ACGCACTCACACCAGTATTG 58.204 50.000 0.00 0.00 0.00 1.90
2570 2790 1.924524 CCAGTATTGGCACGTAAGACG 59.075 52.381 0.00 0.00 42.05 4.18
2571 2791 3.864199 CCAGTATTGGCACGTAAGACGC 61.864 54.545 0.00 0.00 40.80 5.19
2583 2803 3.784488 CGTAAGACGCAAAGAGTCAAAC 58.216 45.455 3.86 0.92 40.84 2.93
2584 2804 3.244345 CGTAAGACGCAAAGAGTCAAACA 59.756 43.478 3.86 0.00 40.84 2.83
2585 2805 3.675467 AAGACGCAAAGAGTCAAACAC 57.325 42.857 3.86 0.00 40.84 3.32
2586 2806 2.627945 AGACGCAAAGAGTCAAACACA 58.372 42.857 3.86 0.00 40.84 3.72
2587 2807 2.351726 AGACGCAAAGAGTCAAACACAC 59.648 45.455 3.86 0.00 40.84 3.82
2588 2808 1.062002 ACGCAAAGAGTCAAACACACG 59.938 47.619 0.00 0.00 0.00 4.49
2589 2809 1.466855 GCAAAGAGTCAAACACACGC 58.533 50.000 0.00 0.00 0.00 5.34
2590 2810 1.859998 GCAAAGAGTCAAACACACGCC 60.860 52.381 0.00 0.00 0.00 5.68
2591 2811 1.400142 CAAAGAGTCAAACACACGCCA 59.600 47.619 0.00 0.00 0.00 5.69
2592 2812 1.014352 AAGAGTCAAACACACGCCAC 58.986 50.000 0.00 0.00 0.00 5.01
2593 2813 0.107897 AGAGTCAAACACACGCCACA 60.108 50.000 0.00 0.00 0.00 4.17
2594 2814 0.027586 GAGTCAAACACACGCCACAC 59.972 55.000 0.00 0.00 0.00 3.82
2595 2815 0.675208 AGTCAAACACACGCCACACA 60.675 50.000 0.00 0.00 0.00 3.72
2596 2816 0.380378 GTCAAACACACGCCACACAT 59.620 50.000 0.00 0.00 0.00 3.21
2597 2817 1.600013 GTCAAACACACGCCACACATA 59.400 47.619 0.00 0.00 0.00 2.29
2598 2818 1.600013 TCAAACACACGCCACACATAC 59.400 47.619 0.00 0.00 0.00 2.39
2599 2819 1.601903 CAAACACACGCCACACATACT 59.398 47.619 0.00 0.00 0.00 2.12
2600 2820 1.961793 AACACACGCCACACATACTT 58.038 45.000 0.00 0.00 0.00 2.24
2601 2821 1.225855 ACACACGCCACACATACTTG 58.774 50.000 0.00 0.00 0.00 3.16
2602 2822 0.110238 CACACGCCACACATACTTGC 60.110 55.000 0.00 0.00 0.00 4.01
2603 2823 0.533978 ACACGCCACACATACTTGCA 60.534 50.000 0.00 0.00 0.00 4.08
2604 2824 0.590682 CACGCCACACATACTTGCAA 59.409 50.000 0.00 0.00 0.00 4.08
2605 2825 0.874390 ACGCCACACATACTTGCAAG 59.126 50.000 24.84 24.84 0.00 4.01
2606 2826 0.874390 CGCCACACATACTTGCAAGT 59.126 50.000 32.97 32.97 42.91 3.16
2607 2827 2.073056 CGCCACACATACTTGCAAGTA 58.927 47.619 34.82 34.82 44.84 2.24
2608 2828 2.094258 CGCCACACATACTTGCAAGTAG 59.906 50.000 35.23 28.60 44.06 2.57
2609 2829 2.420022 GCCACACATACTTGCAAGTAGG 59.580 50.000 36.76 36.76 45.82 3.18
2610 2830 2.420022 CCACACATACTTGCAAGTAGGC 59.580 50.000 37.76 0.00 44.64 3.93
2611 2831 3.073678 CACACATACTTGCAAGTAGGCA 58.926 45.455 37.76 22.91 44.64 4.75
2612 2832 3.074412 ACACATACTTGCAAGTAGGCAC 58.926 45.455 37.76 0.00 44.64 5.01
2613 2833 3.073678 CACATACTTGCAAGTAGGCACA 58.926 45.455 37.76 21.92 44.64 4.57
2614 2834 3.501828 CACATACTTGCAAGTAGGCACAA 59.498 43.478 37.76 21.28 44.64 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
114 116 7.591426 CAGTTCTTCCTAGATTTTGTTTTTCCG 59.409 37.037 0.00 0.00 0.00 4.30
378 417 3.188460 CCATTGTTAGTGACCGAAACAGG 59.812 47.826 0.00 0.00 34.80 4.00
446 485 5.672819 GCAAATACGGTCACTTTGGTCATAC 60.673 44.000 10.70 0.00 31.96 2.39
573 612 7.554835 AGCTACTCCCTTCGTCTCATAATATAG 59.445 40.741 0.00 0.00 0.00 1.31
580 619 2.445682 AGCTACTCCCTTCGTCTCAT 57.554 50.000 0.00 0.00 0.00 2.90
583 622 1.133730 CCCTAGCTACTCCCTTCGTCT 60.134 57.143 0.00 0.00 0.00 4.18
593 632 0.253207 ACCCTTTGGCCCTAGCTACT 60.253 55.000 0.00 0.00 39.73 2.57
622 661 1.113788 TAGGGCTGCAAATTCATGGC 58.886 50.000 0.50 0.00 0.00 4.40
627 666 5.278660 CCATATCAGTTAGGGCTGCAAATTC 60.279 44.000 0.50 0.00 36.49 2.17
1649 1772 2.101082 GCCACCTAGCTAGTCTACAACC 59.899 54.545 19.31 0.00 0.00 3.77
1652 1775 1.286849 TGGCCACCTAGCTAGTCTACA 59.713 52.381 19.31 8.78 0.00 2.74
1656 1814 0.394565 CCATGGCCACCTAGCTAGTC 59.605 60.000 19.31 5.65 0.00 2.59
1657 1815 0.326618 ACCATGGCCACCTAGCTAGT 60.327 55.000 19.31 5.12 0.00 2.57
1658 1816 0.394565 GACCATGGCCACCTAGCTAG 59.605 60.000 8.16 14.20 0.00 3.42
1711 1888 4.850386 AGTTTCCCTCCCTCTTAGCTTAAA 59.150 41.667 0.00 0.00 0.00 1.52
1717 1894 1.134670 CGCAGTTTCCCTCCCTCTTAG 60.135 57.143 0.00 0.00 0.00 2.18
1723 1900 2.359975 CACCGCAGTTTCCCTCCC 60.360 66.667 0.00 0.00 0.00 4.30
1747 1924 9.545611 GGCGGGTTATTTTTATATATTTACACG 57.454 33.333 0.00 0.00 33.42 4.49
1757 1934 5.838531 CCAGTTGGCGGGTTATTTTTATA 57.161 39.130 0.00 0.00 0.00 0.98
1782 1959 5.415701 TCATTCACATTGGAGCTAGAAAACC 59.584 40.000 0.00 0.00 0.00 3.27
1784 1961 7.114754 AGATCATTCACATTGGAGCTAGAAAA 58.885 34.615 0.00 0.00 0.00 2.29
1787 1965 5.883685 AGATCATTCACATTGGAGCTAGA 57.116 39.130 0.00 0.00 0.00 2.43
1889 2078 5.693104 ACTTAAAGCAAACGATGAACTACGA 59.307 36.000 0.00 0.00 0.00 3.43
1920 2140 8.519526 AGATGTTTTCACTAAGTTCAACACAAA 58.480 29.630 0.00 0.00 0.00 2.83
1931 2151 9.370126 CTACGTTTTGAAGATGTTTTCACTAAG 57.630 33.333 0.00 0.00 36.84 2.18
1941 2161 9.745880 ATCGATTATACTACGTTTTGAAGATGT 57.254 29.630 0.00 0.00 0.00 3.06
2334 2554 3.272042 TTGGTGGGATGGGGTGGG 61.272 66.667 0.00 0.00 0.00 4.61
2335 2555 2.037208 GTTGGTGGGATGGGGTGG 59.963 66.667 0.00 0.00 0.00 4.61
2336 2556 2.037208 GGTTGGTGGGATGGGGTG 59.963 66.667 0.00 0.00 0.00 4.61
2337 2557 3.272847 GGGTTGGTGGGATGGGGT 61.273 66.667 0.00 0.00 0.00 4.95
2338 2558 3.272042 TGGGTTGGTGGGATGGGG 61.272 66.667 0.00 0.00 0.00 4.96
2339 2559 2.037208 GTGGGTTGGTGGGATGGG 59.963 66.667 0.00 0.00 0.00 4.00
2340 2560 1.606313 GTGTGGGTTGGTGGGATGG 60.606 63.158 0.00 0.00 0.00 3.51
2341 2561 1.971167 CGTGTGGGTTGGTGGGATG 60.971 63.158 0.00 0.00 0.00 3.51
2342 2562 2.434331 CGTGTGGGTTGGTGGGAT 59.566 61.111 0.00 0.00 0.00 3.85
2343 2563 4.572571 GCGTGTGGGTTGGTGGGA 62.573 66.667 0.00 0.00 0.00 4.37
2344 2564 4.885270 TGCGTGTGGGTTGGTGGG 62.885 66.667 0.00 0.00 0.00 4.61
2345 2565 2.830827 TTGCGTGTGGGTTGGTGG 60.831 61.111 0.00 0.00 0.00 4.61
2346 2566 2.411290 GTTGCGTGTGGGTTGGTG 59.589 61.111 0.00 0.00 0.00 4.17
2347 2567 3.206246 CGTTGCGTGTGGGTTGGT 61.206 61.111 0.00 0.00 0.00 3.67
2348 2568 2.897846 TCGTTGCGTGTGGGTTGG 60.898 61.111 0.00 0.00 0.00 3.77
2349 2569 2.326550 GTCGTTGCGTGTGGGTTG 59.673 61.111 0.00 0.00 0.00 3.77
2350 2570 3.266376 CGTCGTTGCGTGTGGGTT 61.266 61.111 0.00 0.00 0.00 4.11
2351 2571 4.210093 TCGTCGTTGCGTGTGGGT 62.210 61.111 0.00 0.00 0.00 4.51
2352 2572 3.698463 GTCGTCGTTGCGTGTGGG 61.698 66.667 0.00 0.00 0.00 4.61
2353 2573 2.026493 TTTGTCGTCGTTGCGTGTGG 62.026 55.000 0.00 0.00 0.00 4.17
2354 2574 0.247340 TTTTGTCGTCGTTGCGTGTG 60.247 50.000 0.00 0.00 0.00 3.82
2355 2575 0.443088 TTTTTGTCGTCGTTGCGTGT 59.557 45.000 0.00 0.00 0.00 4.49
2356 2576 1.701431 GATTTTTGTCGTCGTTGCGTG 59.299 47.619 0.00 0.00 0.00 5.34
2357 2577 1.655325 CGATTTTTGTCGTCGTTGCGT 60.655 47.619 0.00 0.00 36.88 5.24
2358 2578 0.958099 CGATTTTTGTCGTCGTTGCG 59.042 50.000 0.00 0.00 36.88 4.85
2359 2579 2.288365 TCGATTTTTGTCGTCGTTGC 57.712 45.000 0.00 0.00 42.07 4.17
2360 2580 5.285370 TCTCTATCGATTTTTGTCGTCGTTG 59.715 40.000 1.71 0.00 42.07 4.10
2361 2581 5.285607 GTCTCTATCGATTTTTGTCGTCGTT 59.714 40.000 1.71 0.00 42.07 3.85
2362 2582 4.792189 GTCTCTATCGATTTTTGTCGTCGT 59.208 41.667 1.71 0.00 42.07 4.34
2363 2583 4.204573 GGTCTCTATCGATTTTTGTCGTCG 59.795 45.833 1.71 0.00 42.07 5.12
2364 2584 5.100259 TGGTCTCTATCGATTTTTGTCGTC 58.900 41.667 1.71 0.00 42.07 4.20
2365 2585 5.068234 TGGTCTCTATCGATTTTTGTCGT 57.932 39.130 1.71 0.00 42.07 4.34
2366 2586 5.748630 TGATGGTCTCTATCGATTTTTGTCG 59.251 40.000 1.71 0.00 42.74 4.35
2367 2587 6.018669 GGTGATGGTCTCTATCGATTTTTGTC 60.019 42.308 1.71 0.00 0.00 3.18
2368 2588 5.817816 GGTGATGGTCTCTATCGATTTTTGT 59.182 40.000 1.71 0.00 0.00 2.83
2369 2589 5.050769 CGGTGATGGTCTCTATCGATTTTTG 60.051 44.000 1.71 0.00 0.00 2.44
2370 2590 5.050490 CGGTGATGGTCTCTATCGATTTTT 58.950 41.667 1.71 0.00 0.00 1.94
2371 2591 4.501571 CCGGTGATGGTCTCTATCGATTTT 60.502 45.833 1.71 0.00 0.00 1.82
2372 2592 3.005897 CCGGTGATGGTCTCTATCGATTT 59.994 47.826 1.71 0.00 0.00 2.17
2373 2593 2.558795 CCGGTGATGGTCTCTATCGATT 59.441 50.000 1.71 0.00 0.00 3.34
2374 2594 2.163509 CCGGTGATGGTCTCTATCGAT 58.836 52.381 2.16 2.16 0.00 3.59
2375 2595 1.605753 CCGGTGATGGTCTCTATCGA 58.394 55.000 0.00 0.00 0.00 3.59
2376 2596 0.039074 GCCGGTGATGGTCTCTATCG 60.039 60.000 1.90 0.00 0.00 2.92
2377 2597 0.318762 GGCCGGTGATGGTCTCTATC 59.681 60.000 1.90 0.00 0.00 2.08
2378 2598 1.122019 GGGCCGGTGATGGTCTCTAT 61.122 60.000 1.90 0.00 32.87 1.98
2379 2599 1.760875 GGGCCGGTGATGGTCTCTA 60.761 63.158 1.90 0.00 32.87 2.43
2380 2600 3.083997 GGGCCGGTGATGGTCTCT 61.084 66.667 1.90 0.00 32.87 3.10
2381 2601 2.595009 GAAGGGCCGGTGATGGTCTC 62.595 65.000 1.90 0.00 32.87 3.36
2382 2602 2.610859 AAGGGCCGGTGATGGTCT 60.611 61.111 1.90 0.00 32.87 3.85
2383 2603 2.124695 GAAGGGCCGGTGATGGTC 60.125 66.667 1.90 0.00 0.00 4.02
2384 2604 3.728373 GGAAGGGCCGGTGATGGT 61.728 66.667 1.90 0.00 0.00 3.55
2385 2605 3.727258 TGGAAGGGCCGGTGATGG 61.727 66.667 1.90 0.00 40.66 3.51
2386 2606 2.438434 GTGGAAGGGCCGGTGATG 60.438 66.667 1.90 0.00 40.66 3.07
2387 2607 2.933287 TGTGGAAGGGCCGGTGAT 60.933 61.111 1.90 0.00 40.66 3.06
2388 2608 3.948719 GTGTGGAAGGGCCGGTGA 61.949 66.667 1.90 0.00 40.66 4.02
2389 2609 4.263572 TGTGTGGAAGGGCCGGTG 62.264 66.667 1.90 0.00 40.66 4.94
2390 2610 4.265056 GTGTGTGGAAGGGCCGGT 62.265 66.667 1.90 0.00 40.66 5.28
2391 2611 3.567579 ATGTGTGTGGAAGGGCCGG 62.568 63.158 0.00 0.00 40.66 6.13
2392 2612 2.034066 ATGTGTGTGGAAGGGCCG 59.966 61.111 0.00 0.00 40.66 6.13
2393 2613 2.639327 GCATGTGTGTGGAAGGGCC 61.639 63.158 0.00 0.00 37.10 5.80
2394 2614 2.639327 GGCATGTGTGTGGAAGGGC 61.639 63.158 0.00 0.00 0.00 5.19
2395 2615 1.228521 TGGCATGTGTGTGGAAGGG 60.229 57.895 0.00 0.00 0.00 3.95
2396 2616 1.870055 GCTGGCATGTGTGTGGAAGG 61.870 60.000 0.00 0.00 0.00 3.46
2397 2617 1.582968 GCTGGCATGTGTGTGGAAG 59.417 57.895 0.00 0.00 0.00 3.46
2398 2618 1.902918 GGCTGGCATGTGTGTGGAA 60.903 57.895 0.00 0.00 0.00 3.53
2399 2619 2.282391 GGCTGGCATGTGTGTGGA 60.282 61.111 0.00 0.00 0.00 4.02
2400 2620 0.680601 TATGGCTGGCATGTGTGTGG 60.681 55.000 25.02 0.00 0.00 4.17
2401 2621 1.395635 ATATGGCTGGCATGTGTGTG 58.604 50.000 25.02 0.00 0.00 3.82
2402 2622 2.092484 TGTATATGGCTGGCATGTGTGT 60.092 45.455 25.02 9.34 0.00 3.72
2403 2623 2.291465 GTGTATATGGCTGGCATGTGTG 59.709 50.000 25.02 0.00 0.00 3.82
2404 2624 2.092484 TGTGTATATGGCTGGCATGTGT 60.092 45.455 25.02 13.72 0.00 3.72
2405 2625 2.574450 TGTGTATATGGCTGGCATGTG 58.426 47.619 25.02 0.00 0.00 3.21
2406 2626 3.151554 CATGTGTATATGGCTGGCATGT 58.848 45.455 25.02 20.89 0.00 3.21
2407 2627 2.094906 GCATGTGTATATGGCTGGCATG 60.095 50.000 25.02 9.59 36.35 4.06
2408 2628 2.165167 GCATGTGTATATGGCTGGCAT 58.835 47.619 20.87 20.87 0.00 4.40
2409 2629 1.133853 TGCATGTGTATATGGCTGGCA 60.134 47.619 6.31 6.31 0.00 4.92
2410 2630 1.608055 TGCATGTGTATATGGCTGGC 58.392 50.000 0.00 0.00 0.00 4.85
2411 2631 3.216800 AGTTGCATGTGTATATGGCTGG 58.783 45.455 0.00 0.00 0.00 4.85
2412 2632 3.878699 TGAGTTGCATGTGTATATGGCTG 59.121 43.478 0.00 0.00 0.00 4.85
2413 2633 3.879295 GTGAGTTGCATGTGTATATGGCT 59.121 43.478 0.00 0.00 0.00 4.75
2414 2634 3.003689 GGTGAGTTGCATGTGTATATGGC 59.996 47.826 0.00 0.00 0.00 4.40
2415 2635 4.035558 GTGGTGAGTTGCATGTGTATATGG 59.964 45.833 0.00 0.00 0.00 2.74
2416 2636 4.635324 TGTGGTGAGTTGCATGTGTATATG 59.365 41.667 0.00 0.00 0.00 1.78
2417 2637 4.842574 TGTGGTGAGTTGCATGTGTATAT 58.157 39.130 0.00 0.00 0.00 0.86
2418 2638 4.278975 TGTGGTGAGTTGCATGTGTATA 57.721 40.909 0.00 0.00 0.00 1.47
2419 2639 3.138884 TGTGGTGAGTTGCATGTGTAT 57.861 42.857 0.00 0.00 0.00 2.29
2420 2640 2.629336 TGTGGTGAGTTGCATGTGTA 57.371 45.000 0.00 0.00 0.00 2.90
2421 2641 1.881973 GATGTGGTGAGTTGCATGTGT 59.118 47.619 0.00 0.00 0.00 3.72
2422 2642 1.200716 GGATGTGGTGAGTTGCATGTG 59.799 52.381 0.00 0.00 0.00 3.21
2423 2643 1.538047 GGATGTGGTGAGTTGCATGT 58.462 50.000 0.00 0.00 0.00 3.21
2424 2644 0.813184 GGGATGTGGTGAGTTGCATG 59.187 55.000 0.00 0.00 0.00 4.06
2425 2645 0.405198 TGGGATGTGGTGAGTTGCAT 59.595 50.000 0.00 0.00 0.00 3.96
2426 2646 0.184692 TTGGGATGTGGTGAGTTGCA 59.815 50.000 0.00 0.00 0.00 4.08
2427 2647 0.598065 GTTGGGATGTGGTGAGTTGC 59.402 55.000 0.00 0.00 0.00 4.17
2428 2648 1.881973 CTGTTGGGATGTGGTGAGTTG 59.118 52.381 0.00 0.00 0.00 3.16
2429 2649 1.494721 ACTGTTGGGATGTGGTGAGTT 59.505 47.619 0.00 0.00 0.00 3.01
2430 2650 1.140312 ACTGTTGGGATGTGGTGAGT 58.860 50.000 0.00 0.00 0.00 3.41
2431 2651 1.527034 CACTGTTGGGATGTGGTGAG 58.473 55.000 0.00 0.00 0.00 3.51
2432 2652 0.537143 GCACTGTTGGGATGTGGTGA 60.537 55.000 0.00 0.00 32.85 4.02
2433 2653 0.822944 TGCACTGTTGGGATGTGGTG 60.823 55.000 0.00 0.00 32.85 4.17
2434 2654 0.823356 GTGCACTGTTGGGATGTGGT 60.823 55.000 10.32 0.00 32.85 4.16
2435 2655 0.822944 TGTGCACTGTTGGGATGTGG 60.823 55.000 19.41 0.00 32.85 4.17
2436 2656 1.068125 CATGTGCACTGTTGGGATGTG 60.068 52.381 19.41 0.00 35.08 3.21
2437 2657 1.250328 CATGTGCACTGTTGGGATGT 58.750 50.000 19.41 0.00 0.00 3.06
2438 2658 1.250328 ACATGTGCACTGTTGGGATG 58.750 50.000 19.41 13.39 0.00 3.51
2439 2659 2.040278 AGTACATGTGCACTGTTGGGAT 59.960 45.455 19.41 0.00 0.00 3.85
2440 2660 1.419762 AGTACATGTGCACTGTTGGGA 59.580 47.619 19.41 2.39 0.00 4.37
2441 2661 1.896220 AGTACATGTGCACTGTTGGG 58.104 50.000 19.41 3.62 0.00 4.12
2442 2662 2.416547 GCTAGTACATGTGCACTGTTGG 59.583 50.000 19.41 8.76 0.00 3.77
2443 2663 3.066380 TGCTAGTACATGTGCACTGTTG 58.934 45.455 19.41 14.86 0.00 3.33
2444 2664 3.401033 TGCTAGTACATGTGCACTGTT 57.599 42.857 19.41 8.32 0.00 3.16
2449 2669 0.108377 CCGGTGCTAGTACATGTGCA 60.108 55.000 16.62 10.49 0.00 4.57
2450 2670 1.429148 GCCGGTGCTAGTACATGTGC 61.429 60.000 13.26 7.34 33.53 4.57
2451 2671 0.108377 TGCCGGTGCTAGTACATGTG 60.108 55.000 13.26 0.00 38.71 3.21
2452 2672 0.108329 GTGCCGGTGCTAGTACATGT 60.108 55.000 13.26 2.69 38.71 3.21
2453 2673 1.145759 CGTGCCGGTGCTAGTACATG 61.146 60.000 13.26 4.53 38.71 3.21
2454 2674 1.141019 CGTGCCGGTGCTAGTACAT 59.859 57.895 13.26 0.00 38.71 2.29
2455 2675 0.959867 TACGTGCCGGTGCTAGTACA 60.960 55.000 13.26 0.00 38.71 2.90
2456 2676 0.171007 TTACGTGCCGGTGCTAGTAC 59.829 55.000 1.90 1.77 38.71 2.73
2457 2677 0.452987 CTTACGTGCCGGTGCTAGTA 59.547 55.000 1.90 0.00 38.71 1.82
2458 2678 1.214589 CTTACGTGCCGGTGCTAGT 59.785 57.895 1.90 0.00 38.71 2.57
2459 2679 1.518572 CCTTACGTGCCGGTGCTAG 60.519 63.158 1.90 0.00 38.71 3.42
2460 2680 2.574929 CCTTACGTGCCGGTGCTA 59.425 61.111 1.90 0.00 38.71 3.49
2469 2689 0.110373 GGTTCTTTGCGCCTTACGTG 60.110 55.000 4.18 0.00 46.11 4.49
2470 2690 0.250166 AGGTTCTTTGCGCCTTACGT 60.250 50.000 4.18 0.00 46.11 3.57
2471 2691 0.872388 AAGGTTCTTTGCGCCTTACG 59.128 50.000 4.18 0.00 40.48 3.18
2472 2692 2.292292 TCAAAGGTTCTTTGCGCCTTAC 59.708 45.455 4.18 0.00 41.31 2.34
2473 2693 2.292292 GTCAAAGGTTCTTTGCGCCTTA 59.708 45.455 4.18 0.00 41.31 2.69
2474 2694 1.067060 GTCAAAGGTTCTTTGCGCCTT 59.933 47.619 4.18 0.00 43.75 4.35
2475 2695 0.668535 GTCAAAGGTTCTTTGCGCCT 59.331 50.000 4.18 0.00 0.00 5.52
2476 2696 0.383949 TGTCAAAGGTTCTTTGCGCC 59.616 50.000 4.18 6.57 0.00 6.53
2477 2697 1.202245 TGTGTCAAAGGTTCTTTGCGC 60.202 47.619 13.69 0.00 0.00 6.09
2478 2698 2.159448 TGTGTGTCAAAGGTTCTTTGCG 60.159 45.455 13.69 0.00 0.00 4.85
2479 2699 3.502191 TGTGTGTCAAAGGTTCTTTGC 57.498 42.857 13.69 10.19 0.00 3.68
2480 2700 3.798337 GCATGTGTGTCAAAGGTTCTTTG 59.202 43.478 12.63 12.63 0.00 2.77
2481 2701 3.701040 AGCATGTGTGTCAAAGGTTCTTT 59.299 39.130 0.00 0.00 0.00 2.52
2482 2702 3.067180 CAGCATGTGTGTCAAAGGTTCTT 59.933 43.478 0.00 0.00 0.00 2.52
2483 2703 2.620115 CAGCATGTGTGTCAAAGGTTCT 59.380 45.455 0.00 0.00 0.00 3.01
2484 2704 2.618241 TCAGCATGTGTGTCAAAGGTTC 59.382 45.455 0.00 0.00 37.40 3.62
2485 2705 2.358898 GTCAGCATGTGTGTCAAAGGTT 59.641 45.455 0.00 0.00 37.40 3.50
2486 2706 1.949525 GTCAGCATGTGTGTCAAAGGT 59.050 47.619 0.00 0.00 37.40 3.50
2487 2707 1.267806 GGTCAGCATGTGTGTCAAAGG 59.732 52.381 0.00 0.00 37.40 3.11
2488 2708 1.948834 TGGTCAGCATGTGTGTCAAAG 59.051 47.619 0.00 0.00 37.40 2.77
2489 2709 2.049888 TGGTCAGCATGTGTGTCAAA 57.950 45.000 0.00 0.00 37.40 2.69
2490 2710 1.881324 CATGGTCAGCATGTGTGTCAA 59.119 47.619 8.79 0.00 37.40 3.18
2491 2711 1.525941 CATGGTCAGCATGTGTGTCA 58.474 50.000 8.79 0.00 37.40 3.58
2492 2712 0.169672 GCATGGTCAGCATGTGTGTC 59.830 55.000 17.96 0.00 37.40 3.67
2493 2713 0.537828 TGCATGGTCAGCATGTGTGT 60.538 50.000 17.96 0.00 37.02 3.72
2494 2714 0.109458 GTGCATGGTCAGCATGTGTG 60.109 55.000 17.96 0.00 44.79 3.82
2495 2715 0.537828 TGTGCATGGTCAGCATGTGT 60.538 50.000 17.96 0.00 44.79 3.72
2496 2716 0.815095 ATGTGCATGGTCAGCATGTG 59.185 50.000 17.96 0.00 44.79 3.21
2497 2717 2.092807 TCTATGTGCATGGTCAGCATGT 60.093 45.455 17.96 0.94 44.79 3.21
2498 2718 2.289820 GTCTATGTGCATGGTCAGCATG 59.710 50.000 12.75 12.75 44.79 4.06
2499 2719 2.092807 TGTCTATGTGCATGGTCAGCAT 60.093 45.455 0.00 0.00 44.79 3.79
2500 2720 1.278699 TGTCTATGTGCATGGTCAGCA 59.721 47.619 0.00 0.00 40.19 4.41
2501 2721 2.028420 TGTCTATGTGCATGGTCAGC 57.972 50.000 0.00 0.00 0.00 4.26
2502 2722 3.603532 AGTTGTCTATGTGCATGGTCAG 58.396 45.455 0.00 0.00 0.00 3.51
2503 2723 3.007831 TGAGTTGTCTATGTGCATGGTCA 59.992 43.478 0.00 0.00 0.00 4.02
2504 2724 3.599343 TGAGTTGTCTATGTGCATGGTC 58.401 45.455 0.00 0.00 0.00 4.02
2505 2725 3.701205 TGAGTTGTCTATGTGCATGGT 57.299 42.857 0.00 0.00 0.00 3.55
2506 2726 4.034858 GTGATGAGTTGTCTATGTGCATGG 59.965 45.833 0.00 0.00 0.00 3.66
2507 2727 4.632688 TGTGATGAGTTGTCTATGTGCATG 59.367 41.667 0.00 0.00 0.00 4.06
2508 2728 4.835678 TGTGATGAGTTGTCTATGTGCAT 58.164 39.130 0.00 0.00 0.00 3.96
2509 2729 4.270245 TGTGATGAGTTGTCTATGTGCA 57.730 40.909 0.00 0.00 0.00 4.57
2510 2730 5.114780 AGATGTGATGAGTTGTCTATGTGC 58.885 41.667 0.00 0.00 0.00 4.57
2511 2731 5.458126 CGAGATGTGATGAGTTGTCTATGTG 59.542 44.000 0.00 0.00 0.00 3.21
2512 2732 5.451103 CCGAGATGTGATGAGTTGTCTATGT 60.451 44.000 0.00 0.00 0.00 2.29
2513 2733 4.981054 CCGAGATGTGATGAGTTGTCTATG 59.019 45.833 0.00 0.00 0.00 2.23
2514 2734 4.500545 GCCGAGATGTGATGAGTTGTCTAT 60.501 45.833 0.00 0.00 0.00 1.98
2515 2735 3.181486 GCCGAGATGTGATGAGTTGTCTA 60.181 47.826 0.00 0.00 0.00 2.59
2516 2736 2.417924 GCCGAGATGTGATGAGTTGTCT 60.418 50.000 0.00 0.00 0.00 3.41
2517 2737 1.929836 GCCGAGATGTGATGAGTTGTC 59.070 52.381 0.00 0.00 0.00 3.18
2518 2738 1.276138 TGCCGAGATGTGATGAGTTGT 59.724 47.619 0.00 0.00 0.00 3.32
2519 2739 2.014335 TGCCGAGATGTGATGAGTTG 57.986 50.000 0.00 0.00 0.00 3.16
2520 2740 2.350522 GTTGCCGAGATGTGATGAGTT 58.649 47.619 0.00 0.00 0.00 3.01
2521 2741 1.737029 CGTTGCCGAGATGTGATGAGT 60.737 52.381 0.00 0.00 35.63 3.41
2522 2742 0.926155 CGTTGCCGAGATGTGATGAG 59.074 55.000 0.00 0.00 35.63 2.90
2523 2743 1.083806 GCGTTGCCGAGATGTGATGA 61.084 55.000 0.00 0.00 35.63 2.92
2524 2744 1.349627 GCGTTGCCGAGATGTGATG 59.650 57.895 0.00 0.00 35.63 3.07
2525 2745 1.079197 TGCGTTGCCGAGATGTGAT 60.079 52.632 0.00 0.00 35.63 3.06
2526 2746 2.027073 GTGCGTTGCCGAGATGTGA 61.027 57.895 0.00 0.00 35.63 3.58
2527 2747 1.959899 GAGTGCGTTGCCGAGATGTG 61.960 60.000 0.00 0.00 35.63 3.21
2528 2748 1.738099 GAGTGCGTTGCCGAGATGT 60.738 57.895 0.00 0.00 35.63 3.06
2529 2749 1.737735 TGAGTGCGTTGCCGAGATG 60.738 57.895 0.00 0.00 35.63 2.90
2530 2750 1.738099 GTGAGTGCGTTGCCGAGAT 60.738 57.895 0.00 0.00 35.63 2.75
2531 2751 2.355837 GTGAGTGCGTTGCCGAGA 60.356 61.111 0.00 0.00 35.63 4.04
2532 2752 2.661537 TGTGAGTGCGTTGCCGAG 60.662 61.111 0.00 0.00 35.63 4.63
2533 2753 2.964925 GTGTGAGTGCGTTGCCGA 60.965 61.111 0.00 0.00 35.63 5.54
2534 2754 4.012895 GGTGTGAGTGCGTTGCCG 62.013 66.667 0.00 0.00 37.07 5.69
2535 2755 2.896801 CTGGTGTGAGTGCGTTGCC 61.897 63.158 0.00 0.00 0.00 4.52
2536 2756 0.878523 TACTGGTGTGAGTGCGTTGC 60.879 55.000 0.00 0.00 0.00 4.17
2537 2757 1.795768 ATACTGGTGTGAGTGCGTTG 58.204 50.000 0.00 0.00 0.00 4.10
2538 2758 2.143122 CAATACTGGTGTGAGTGCGTT 58.857 47.619 0.00 0.00 0.00 4.84
2539 2759 1.608025 CCAATACTGGTGTGAGTGCGT 60.608 52.381 0.00 0.00 38.00 5.24
2540 2760 1.078709 CCAATACTGGTGTGAGTGCG 58.921 55.000 0.00 0.00 38.00 5.34
2541 2761 0.804989 GCCAATACTGGTGTGAGTGC 59.195 55.000 0.00 0.00 45.53 4.40
2542 2762 1.806542 GTGCCAATACTGGTGTGAGTG 59.193 52.381 0.00 0.00 45.53 3.51
2543 2763 1.608025 CGTGCCAATACTGGTGTGAGT 60.608 52.381 0.00 0.00 45.53 3.41
2544 2764 1.078709 CGTGCCAATACTGGTGTGAG 58.921 55.000 0.00 0.00 45.53 3.51
2545 2765 0.394938 ACGTGCCAATACTGGTGTGA 59.605 50.000 0.00 0.00 45.53 3.58
2546 2766 2.087501 TACGTGCCAATACTGGTGTG 57.912 50.000 0.00 0.00 45.53 3.82
2547 2767 2.300723 TCTTACGTGCCAATACTGGTGT 59.699 45.455 0.00 0.00 45.53 4.16
2548 2768 2.671396 GTCTTACGTGCCAATACTGGTG 59.329 50.000 0.00 0.00 45.53 4.17
2549 2769 2.673043 CGTCTTACGTGCCAATACTGGT 60.673 50.000 0.00 0.00 39.89 4.00
2550 2770 1.924524 CGTCTTACGTGCCAATACTGG 59.075 52.381 0.00 0.00 40.36 4.00
2551 2771 1.323534 GCGTCTTACGTGCCAATACTG 59.676 52.381 0.00 0.00 44.73 2.74
2552 2772 1.067425 TGCGTCTTACGTGCCAATACT 60.067 47.619 0.00 0.00 44.73 2.12
2553 2773 1.352114 TGCGTCTTACGTGCCAATAC 58.648 50.000 0.00 0.00 44.73 1.89
2554 2774 2.081725 TTGCGTCTTACGTGCCAATA 57.918 45.000 0.00 0.00 44.73 1.90
2555 2775 1.196808 CTTTGCGTCTTACGTGCCAAT 59.803 47.619 0.00 0.00 44.73 3.16
2556 2776 0.584396 CTTTGCGTCTTACGTGCCAA 59.416 50.000 0.00 0.00 44.73 4.52
2557 2777 0.249531 TCTTTGCGTCTTACGTGCCA 60.250 50.000 0.00 0.00 44.73 4.92
2558 2778 0.438830 CTCTTTGCGTCTTACGTGCC 59.561 55.000 0.00 0.00 44.73 5.01
2559 2779 1.124477 GACTCTTTGCGTCTTACGTGC 59.876 52.381 0.00 0.00 44.73 5.34
2560 2780 2.390938 TGACTCTTTGCGTCTTACGTG 58.609 47.619 0.00 0.00 44.73 4.49
2561 2781 2.787601 TGACTCTTTGCGTCTTACGT 57.212 45.000 0.00 0.00 44.73 3.57
2562 2782 3.244345 TGTTTGACTCTTTGCGTCTTACG 59.756 43.478 0.00 0.00 45.88 3.18
2563 2783 4.033587 TGTGTTTGACTCTTTGCGTCTTAC 59.966 41.667 0.00 0.00 32.70 2.34
2564 2784 4.033587 GTGTGTTTGACTCTTTGCGTCTTA 59.966 41.667 0.00 0.00 32.70 2.10
2565 2785 3.006940 TGTGTTTGACTCTTTGCGTCTT 58.993 40.909 0.00 0.00 32.70 3.01
2566 2786 2.351726 GTGTGTTTGACTCTTTGCGTCT 59.648 45.455 0.00 0.00 32.70 4.18
2567 2787 2.705154 GTGTGTTTGACTCTTTGCGTC 58.295 47.619 0.00 0.00 0.00 5.19
2568 2788 1.062002 CGTGTGTTTGACTCTTTGCGT 59.938 47.619 0.00 0.00 0.00 5.24
2569 2789 1.730176 CGTGTGTTTGACTCTTTGCG 58.270 50.000 0.00 0.00 0.00 4.85
2570 2790 1.466855 GCGTGTGTTTGACTCTTTGC 58.533 50.000 0.00 0.00 0.00 3.68
2571 2791 1.400142 TGGCGTGTGTTTGACTCTTTG 59.600 47.619 0.00 0.00 0.00 2.77
2572 2792 1.400494 GTGGCGTGTGTTTGACTCTTT 59.600 47.619 0.00 0.00 0.00 2.52
2573 2793 1.014352 GTGGCGTGTGTTTGACTCTT 58.986 50.000 0.00 0.00 0.00 2.85
2574 2794 0.107897 TGTGGCGTGTGTTTGACTCT 60.108 50.000 0.00 0.00 0.00 3.24
2575 2795 0.027586 GTGTGGCGTGTGTTTGACTC 59.972 55.000 0.00 0.00 0.00 3.36
2576 2796 0.675208 TGTGTGGCGTGTGTTTGACT 60.675 50.000 0.00 0.00 0.00 3.41
2577 2797 0.380378 ATGTGTGGCGTGTGTTTGAC 59.620 50.000 0.00 0.00 0.00 3.18
2578 2798 1.600013 GTATGTGTGGCGTGTGTTTGA 59.400 47.619 0.00 0.00 0.00 2.69
2579 2799 1.601903 AGTATGTGTGGCGTGTGTTTG 59.398 47.619 0.00 0.00 0.00 2.93
2580 2800 1.961793 AGTATGTGTGGCGTGTGTTT 58.038 45.000 0.00 0.00 0.00 2.83
2581 2801 1.601903 CAAGTATGTGTGGCGTGTGTT 59.398 47.619 0.00 0.00 0.00 3.32
2582 2802 1.225855 CAAGTATGTGTGGCGTGTGT 58.774 50.000 0.00 0.00 0.00 3.72
2583 2803 0.110238 GCAAGTATGTGTGGCGTGTG 60.110 55.000 0.00 0.00 0.00 3.82
2584 2804 0.533978 TGCAAGTATGTGTGGCGTGT 60.534 50.000 0.00 0.00 0.00 4.49
2585 2805 0.590682 TTGCAAGTATGTGTGGCGTG 59.409 50.000 0.00 0.00 0.00 5.34
2586 2806 0.874390 CTTGCAAGTATGTGTGGCGT 59.126 50.000 18.65 0.00 0.00 5.68
2587 2807 0.874390 ACTTGCAAGTATGTGTGGCG 59.126 50.000 30.25 1.03 37.52 5.69
2588 2808 2.420022 CCTACTTGCAAGTATGTGTGGC 59.580 50.000 33.45 0.00 40.46 5.01
2589 2809 2.420022 GCCTACTTGCAAGTATGTGTGG 59.580 50.000 33.45 29.43 40.46 4.17
2590 2810 3.073678 TGCCTACTTGCAAGTATGTGTG 58.926 45.455 33.45 22.78 40.46 3.82
2591 2811 3.074412 GTGCCTACTTGCAAGTATGTGT 58.926 45.455 33.45 14.82 44.11 3.72
2592 2812 3.073678 TGTGCCTACTTGCAAGTATGTG 58.926 45.455 33.45 25.34 44.11 3.21
2593 2813 3.417069 TGTGCCTACTTGCAAGTATGT 57.583 42.857 33.45 15.87 44.11 2.29


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

AutoCloner maintained by Alex Coulton.