Multiple sequence alignment - TraesCS5D01G384300

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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 TraesCS5D01G384300 chr5D 100.000 3476 0 0 1 3476 453827598 453824123 0.000000e+00 6420.0
1 TraesCS5D01G384300 chr5D 93.322 614 40 1 2863 3476 534089918 534089306 0.000000e+00 905.0
2 TraesCS5D01G384300 chr5D 80.065 306 58 3 77 381 304351792 304351489 1.260000e-54 224.0
3 TraesCS5D01G384300 chr5D 79.290 169 27 6 393 560 169970097 169970258 1.020000e-20 111.0
4 TraesCS5D01G384300 chr5D 74.857 175 38 5 393 566 329643965 329643796 1.340000e-09 75.0
5 TraesCS5D01G384300 chr5D 90.196 51 4 1 2706 2756 421164950 421164999 8.050000e-07 65.8
6 TraesCS5D01G384300 chr5B 94.535 2141 84 13 458 2589 554524725 554522609 0.000000e+00 3275.0
7 TraesCS5D01G384300 chr5B 94.463 614 34 0 2863 3476 7071474 7072087 0.000000e+00 946.0
8 TraesCS5D01G384300 chr5B 92.126 381 29 1 1 381 554525244 554524865 1.420000e-148 536.0
9 TraesCS5D01G384300 chr5B 78.068 383 71 8 2 376 349064971 349064594 2.700000e-56 230.0
10 TraesCS5D01G384300 chr5B 81.452 124 19 3 393 515 516271245 516271125 7.940000e-17 99.0
11 TraesCS5D01G384300 chr5B 100.000 29 0 0 2718 2746 677153545 677153517 2.000000e-03 54.7
12 TraesCS5D01G384300 chr5A 93.465 2020 57 15 691 2688 572865754 572863788 0.000000e+00 2929.0
13 TraesCS5D01G384300 chr5A 86.687 323 23 6 58 378 572867255 572866951 1.190000e-89 340.0
14 TraesCS5D01G384300 chr2D 94.959 615 30 1 2863 3476 186640899 186640285 0.000000e+00 963.0
15 TraesCS5D01G384300 chr2D 94.472 615 31 3 2863 3476 218780547 218779935 0.000000e+00 944.0
16 TraesCS5D01G384300 chr2D 94.127 613 35 1 2864 3476 589994969 589994358 0.000000e+00 931.0
17 TraesCS5D01G384300 chr2D 93.160 614 41 1 2863 3476 617901684 617901072 0.000000e+00 900.0
18 TraesCS5D01G384300 chr2D 82.058 379 60 5 2 373 638381341 638380964 2.010000e-82 316.0
19 TraesCS5D01G384300 chr2D 84.800 125 13 3 399 521 539215581 539215701 1.690000e-23 121.0
20 TraesCS5D01G384300 chr2D 88.235 51 5 1 2706 2756 561316194 561316145 3.750000e-05 60.2
21 TraesCS5D01G384300 chr3D 94.788 614 32 0 2863 3476 11283574 11282961 0.000000e+00 957.0
22 TraesCS5D01G384300 chr3D 82.058 379 65 3 2 378 571920823 571920446 1.560000e-83 320.0
23 TraesCS5D01G384300 chr3D 92.683 41 3 0 2706 2746 463808948 463808988 3.750000e-05 60.2
24 TraesCS5D01G384300 chr1D 94.309 615 34 1 2862 3476 54939625 54940238 0.000000e+00 941.0
25 TraesCS5D01G384300 chr1D 83.221 149 19 5 393 539 33601425 33601281 7.830000e-27 132.0
26 TraesCS5D01G384300 chr7A 93.312 613 37 4 2864 3476 474324195 474324803 0.000000e+00 902.0
27 TraesCS5D01G384300 chr7D 81.675 382 63 4 2 378 424112376 424111997 9.370000e-81 311.0
28 TraesCS5D01G384300 chr7D 78.107 169 30 6 400 567 503628038 503627876 2.210000e-17 100.0
29 TraesCS5D01G384300 chr2A 82.313 294 51 1 81 373 763519452 763519745 1.600000e-63 254.0
30 TraesCS5D01G384300 chr4A 83.810 210 32 2 169 378 229494212 229494419 7.610000e-47 198.0
31 TraesCS5D01G384300 chr4A 85.965 57 7 1 2706 2762 113861568 113861513 3.750000e-05 60.2
32 TraesCS5D01G384300 chr2B 79.273 275 39 2 107 381 797358736 797358480 3.570000e-40 176.0
33 TraesCS5D01G384300 chr3B 79.191 173 24 9 393 564 403361164 403361003 3.670000e-20 110.0
34 TraesCS5D01G384300 chr7B 77.844 167 30 6 402 567 532016334 532016174 2.860000e-16 97.1
35 TraesCS5D01G384300 chr7B 96.970 33 1 0 2714 2746 443507186 443507154 4.850000e-04 56.5
36 TraesCS5D01G384300 chr3A 90.196 51 4 1 2706 2756 49978669 49978718 8.050000e-07 65.8
37 TraesCS5D01G384300 chr1B 95.000 40 2 0 2706 2745 417468073 417468112 2.900000e-06 63.9
38 TraesCS5D01G384300 chr6B 85.965 57 7 1 2706 2762 500227457 500227402 3.750000e-05 60.2


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 TraesCS5D01G384300 chr5D 453824123 453827598 3475 True 6420.0 6420 100.0000 1 3476 1 chr5D.!!$R3 3475
1 TraesCS5D01G384300 chr5D 534089306 534089918 612 True 905.0 905 93.3220 2863 3476 1 chr5D.!!$R4 613
2 TraesCS5D01G384300 chr5B 554522609 554525244 2635 True 1905.5 3275 93.3305 1 2589 2 chr5B.!!$R4 2588
3 TraesCS5D01G384300 chr5B 7071474 7072087 613 False 946.0 946 94.4630 2863 3476 1 chr5B.!!$F1 613
4 TraesCS5D01G384300 chr5A 572863788 572867255 3467 True 1634.5 2929 90.0760 58 2688 2 chr5A.!!$R1 2630
5 TraesCS5D01G384300 chr2D 186640285 186640899 614 True 963.0 963 94.9590 2863 3476 1 chr2D.!!$R1 613
6 TraesCS5D01G384300 chr2D 218779935 218780547 612 True 944.0 944 94.4720 2863 3476 1 chr2D.!!$R2 613
7 TraesCS5D01G384300 chr2D 589994358 589994969 611 True 931.0 931 94.1270 2864 3476 1 chr2D.!!$R4 612
8 TraesCS5D01G384300 chr2D 617901072 617901684 612 True 900.0 900 93.1600 2863 3476 1 chr2D.!!$R5 613
9 TraesCS5D01G384300 chr3D 11282961 11283574 613 True 957.0 957 94.7880 2863 3476 1 chr3D.!!$R1 613
10 TraesCS5D01G384300 chr1D 54939625 54940238 613 False 941.0 941 94.3090 2862 3476 1 chr1D.!!$F1 614
11 TraesCS5D01G384300 chr7A 474324195 474324803 608 False 902.0 902 93.3120 2864 3476 1 chr7A.!!$F1 612

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
381 382 0.315886 ACGTGCATGTCGTAGGTCAA 59.684 50.0 5.51 0.0 39.78 3.18 F
1491 2465 0.252197 GGATACCGGCAACCTTGACT 59.748 55.0 0.00 0.0 32.73 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1677 2651 0.031585 TGCTACGTGTCAGTGTCACC 59.968 55.0 13.76 2.08 32.86 4.02 R
3394 4373 0.034767 ATCCTACGTGTGGTCTCCGA 60.035 55.0 0.00 0.00 0.00 4.55 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
28 29 7.114811 ACAAGTTTTTCGAAATCATCAATTCCG 59.885 33.333 12.12 0.00 0.00 4.30
33 34 7.969387 TTTCGAAATCATCAATTCCGAATTC 57.031 32.000 6.47 0.00 0.00 2.17
48 49 3.982058 CCGAATTCAACGATACTAGAGCC 59.018 47.826 6.22 0.00 0.00 4.70
84 85 4.721776 TCTCATATAAACTGCCCCTTGAGT 59.278 41.667 0.00 0.00 33.00 3.41
155 156 0.330604 ATCATGACAGGGCTTGCAGT 59.669 50.000 0.00 0.00 0.00 4.40
178 179 9.131416 CAGTCTATACAACGTGTACAATAACAA 57.869 33.333 0.00 0.00 35.42 2.83
303 304 9.081997 GTAAATCACAACACAAAACTTCATGAA 57.918 29.630 8.12 8.12 0.00 2.57
378 379 0.530744 ATGACGTGCATGTCGTAGGT 59.469 50.000 28.32 12.14 41.87 3.08
381 382 0.315886 ACGTGCATGTCGTAGGTCAA 59.684 50.000 5.51 0.00 39.78 3.18
382 383 0.713883 CGTGCATGTCGTAGGTCAAC 59.286 55.000 0.00 0.00 0.00 3.18
384 385 2.346803 GTGCATGTCGTAGGTCAACAT 58.653 47.619 0.00 0.00 34.03 2.71
388 531 5.064707 GTGCATGTCGTAGGTCAACATAAAT 59.935 40.000 0.00 0.00 32.54 1.40
397 540 3.756434 AGGTCAACATAAATGGTCAACCG 59.244 43.478 4.29 0.00 36.15 4.44
422 565 2.754472 TCACACAACAACTCATCCTCG 58.246 47.619 0.00 0.00 0.00 4.63
428 571 2.932614 CAACAACTCATCCTCGATCACC 59.067 50.000 0.00 0.00 0.00 4.02
438 581 4.873129 CGATCACCGAGTGCCCCG 62.873 72.222 0.00 0.00 41.76 5.73
445 588 2.357517 CGAGTGCCCCGCCATATC 60.358 66.667 0.00 0.00 0.00 1.63
447 590 3.161450 AGTGCCCCGCCATATCGT 61.161 61.111 0.00 0.00 0.00 3.73
465 608 7.225538 CCATATCGTGCTTCTCTAGAAAACAAT 59.774 37.037 0.00 0.00 33.07 2.71
501 644 4.877378 AAGAAAGCTCAATGGCATTTGA 57.123 36.364 10.65 10.55 34.55 2.69
503 646 5.416271 AGAAAGCTCAATGGCATTTGATT 57.584 34.783 10.65 8.67 35.20 2.57
515 658 3.996363 GGCATTTGATTGAAAACCTGTCC 59.004 43.478 0.00 0.00 0.00 4.02
525 668 4.250305 ACCTGTCCGGTGTGGTGC 62.250 66.667 12.65 0.00 46.80 5.01
576 719 2.551644 GGTACCTGGTTGCGAAAGG 58.448 57.895 3.84 2.86 37.11 3.11
590 733 3.648067 TGCGAAAGGATTCCTAGATGGAT 59.352 43.478 5.43 0.00 45.68 3.41
612 1568 2.423577 ACAACATAGTTCAAGACGGGC 58.576 47.619 0.00 0.00 0.00 6.13
651 1607 3.697439 GAATGGCTAGGCGGTGGCA 62.697 63.158 12.19 6.22 42.47 4.92
685 1641 1.050767 GCGGCATCGTCGTTATAGAC 58.949 55.000 0.00 0.00 38.89 2.59
950 1912 4.322080 TGCGGTGACCTATTCTATTCTG 57.678 45.455 0.00 0.00 0.00 3.02
951 1913 3.069586 TGCGGTGACCTATTCTATTCTGG 59.930 47.826 0.00 0.00 0.00 3.86
952 1914 3.321111 GCGGTGACCTATTCTATTCTGGA 59.679 47.826 0.00 0.00 0.00 3.86
953 1915 4.559704 GCGGTGACCTATTCTATTCTGGAG 60.560 50.000 0.00 0.00 0.00 3.86
954 1916 4.559704 CGGTGACCTATTCTATTCTGGAGC 60.560 50.000 0.00 0.00 0.00 4.70
1011 1973 4.379499 CGTACTTGGAAAATGGCTTCTTCC 60.379 45.833 0.00 0.00 39.31 3.46
1017 1985 3.127721 GGAAAATGGCTTCTTCCTCTTCG 59.872 47.826 0.00 0.00 36.48 3.79
1491 2465 0.252197 GGATACCGGCAACCTTGACT 59.748 55.000 0.00 0.00 32.73 3.41
1657 2631 1.127397 GTGCGCCCTTAACTTCGTTAC 59.873 52.381 4.18 0.00 0.00 2.50
1677 2651 1.552226 GAATGTGCATGCCGTGATTG 58.448 50.000 16.68 0.00 0.00 2.67
1698 2672 1.721389 GTGACACTGACACGTAGCATG 59.279 52.381 0.00 0.00 0.00 4.06
1701 2675 1.613925 ACACTGACACGTAGCATGAGT 59.386 47.619 0.00 0.00 0.00 3.41
1706 2680 4.024893 ACTGACACGTAGCATGAGTTTTTG 60.025 41.667 0.00 0.00 0.00 2.44
1707 2681 4.123506 TGACACGTAGCATGAGTTTTTGA 58.876 39.130 0.00 0.00 0.00 2.69
1755 2729 2.524394 GGAGGGATGGCGAGCCTA 60.524 66.667 15.75 2.30 36.94 3.93
2539 3513 0.533491 TTACCGGGTCCAACGAGATG 59.467 55.000 6.32 0.00 0.00 2.90
2573 3547 4.451096 TGTTCTCTTGCAGTTTTATCCGAC 59.549 41.667 0.00 0.00 0.00 4.79
2597 3571 3.380004 GGATGAACGTATCCAAAATGCCA 59.620 43.478 11.74 0.00 44.90 4.92
2638 3612 1.123077 TAGGCACATCCTACAGCAGG 58.877 55.000 0.00 0.00 45.41 4.85
2665 3639 7.433425 GTGCCAATATTTGAGCACTTCTAAATC 59.567 37.037 20.20 0.34 45.74 2.17
2668 3642 9.512435 CCAATATTTGAGCACTTCTAAATCTTG 57.488 33.333 0.00 0.00 31.72 3.02
2670 3644 4.668576 TTGAGCACTTCTAAATCTTGCG 57.331 40.909 0.00 0.00 38.26 4.85
2690 3667 5.583495 TGCGTTTTAGCAACTTTAACATGT 58.417 33.333 0.00 0.00 45.06 3.21
2691 3668 6.726230 TGCGTTTTAGCAACTTTAACATGTA 58.274 32.000 0.00 0.00 45.06 2.29
2692 3669 6.633634 TGCGTTTTAGCAACTTTAACATGTAC 59.366 34.615 0.00 0.00 45.06 2.90
2693 3670 6.633634 GCGTTTTAGCAACTTTAACATGTACA 59.366 34.615 0.00 0.00 37.05 2.90
2694 3671 7.356962 GCGTTTTAGCAACTTTAACATGTACAC 60.357 37.037 0.00 0.00 37.05 2.90
2695 3672 7.112426 CGTTTTAGCAACTTTAACATGTACACC 59.888 37.037 0.00 0.00 0.00 4.16
2696 3673 7.569639 TTTAGCAACTTTAACATGTACACCA 57.430 32.000 0.00 0.00 0.00 4.17
2697 3674 7.569639 TTAGCAACTTTAACATGTACACCAA 57.430 32.000 0.00 0.00 0.00 3.67
2698 3675 5.827666 AGCAACTTTAACATGTACACCAAC 58.172 37.500 0.00 0.00 0.00 3.77
2699 3676 5.592688 AGCAACTTTAACATGTACACCAACT 59.407 36.000 0.00 0.00 0.00 3.16
2700 3677 5.685511 GCAACTTTAACATGTACACCAACTG 59.314 40.000 0.00 0.00 0.00 3.16
2701 3678 6.679392 GCAACTTTAACATGTACACCAACTGT 60.679 38.462 0.00 0.00 36.82 3.55
2702 3679 7.254852 CAACTTTAACATGTACACCAACTGTT 58.745 34.615 14.37 14.37 33.91 3.16
2703 3680 7.023197 ACTTTAACATGTACACCAACTGTTC 57.977 36.000 13.57 0.00 33.91 3.18
2704 3681 6.826741 ACTTTAACATGTACACCAACTGTTCT 59.173 34.615 13.57 0.00 33.91 3.01
2705 3682 7.338449 ACTTTAACATGTACACCAACTGTTCTT 59.662 33.333 13.57 0.00 33.91 2.52
2706 3683 5.751243 AACATGTACACCAACTGTTCTTC 57.249 39.130 0.00 0.00 33.91 2.87
2707 3684 4.134563 ACATGTACACCAACTGTTCTTCC 58.865 43.478 0.00 0.00 33.91 3.46
2708 3685 3.202829 TGTACACCAACTGTTCTTCCC 57.797 47.619 0.00 0.00 33.91 3.97
2709 3686 2.775384 TGTACACCAACTGTTCTTCCCT 59.225 45.455 0.00 0.00 33.91 4.20
2710 3687 3.201266 TGTACACCAACTGTTCTTCCCTT 59.799 43.478 0.00 0.00 33.91 3.95
2711 3688 3.382083 ACACCAACTGTTCTTCCCTTT 57.618 42.857 0.00 0.00 0.00 3.11
2712 3689 3.023832 ACACCAACTGTTCTTCCCTTTG 58.976 45.455 0.00 0.00 0.00 2.77
2713 3690 3.023832 CACCAACTGTTCTTCCCTTTGT 58.976 45.455 0.00 0.00 0.00 2.83
2714 3691 3.066760 CACCAACTGTTCTTCCCTTTGTC 59.933 47.826 0.00 0.00 0.00 3.18
2715 3692 2.623416 CCAACTGTTCTTCCCTTTGTCC 59.377 50.000 0.00 0.00 0.00 4.02
2716 3693 2.623416 CAACTGTTCTTCCCTTTGTCCC 59.377 50.000 0.00 0.00 0.00 4.46
2717 3694 1.202770 ACTGTTCTTCCCTTTGTCCCG 60.203 52.381 0.00 0.00 0.00 5.14
2718 3695 1.071699 CTGTTCTTCCCTTTGTCCCGA 59.928 52.381 0.00 0.00 0.00 5.14
2719 3696 1.491332 TGTTCTTCCCTTTGTCCCGAA 59.509 47.619 0.00 0.00 0.00 4.30
2720 3697 2.107552 TGTTCTTCCCTTTGTCCCGAAT 59.892 45.455 0.00 0.00 0.00 3.34
2721 3698 3.154710 GTTCTTCCCTTTGTCCCGAATT 58.845 45.455 0.00 0.00 0.00 2.17
2722 3699 4.202482 TGTTCTTCCCTTTGTCCCGAATTA 60.202 41.667 0.00 0.00 0.00 1.40
2723 3700 3.946606 TCTTCCCTTTGTCCCGAATTAC 58.053 45.455 0.00 0.00 0.00 1.89
2724 3701 3.585732 TCTTCCCTTTGTCCCGAATTACT 59.414 43.478 0.00 0.00 0.00 2.24
2725 3702 4.042435 TCTTCCCTTTGTCCCGAATTACTT 59.958 41.667 0.00 0.00 0.00 2.24
2726 3703 3.681593 TCCCTTTGTCCCGAATTACTTG 58.318 45.455 0.00 0.00 0.00 3.16
2727 3704 3.073356 TCCCTTTGTCCCGAATTACTTGT 59.927 43.478 0.00 0.00 0.00 3.16
2728 3705 3.824443 CCCTTTGTCCCGAATTACTTGTT 59.176 43.478 0.00 0.00 0.00 2.83
2729 3706 4.320935 CCCTTTGTCCCGAATTACTTGTTG 60.321 45.833 0.00 0.00 0.00 3.33
2730 3707 3.907894 TTGTCCCGAATTACTTGTTGC 57.092 42.857 0.00 0.00 0.00 4.17
2731 3708 2.852449 TGTCCCGAATTACTTGTTGCA 58.148 42.857 0.00 0.00 0.00 4.08
2732 3709 2.811431 TGTCCCGAATTACTTGTTGCAG 59.189 45.455 0.00 0.00 0.00 4.41
2733 3710 3.071479 GTCCCGAATTACTTGTTGCAGA 58.929 45.455 0.00 0.00 0.00 4.26
2734 3711 3.500680 GTCCCGAATTACTTGTTGCAGAA 59.499 43.478 0.00 0.00 0.00 3.02
2735 3712 4.023536 GTCCCGAATTACTTGTTGCAGAAA 60.024 41.667 0.00 0.00 0.00 2.52
2736 3713 4.764823 TCCCGAATTACTTGTTGCAGAAAT 59.235 37.500 0.00 0.00 0.00 2.17
2737 3714 4.858692 CCCGAATTACTTGTTGCAGAAATG 59.141 41.667 0.00 0.00 0.00 2.32
2738 3715 4.858692 CCGAATTACTTGTTGCAGAAATGG 59.141 41.667 0.00 0.00 0.00 3.16
2739 3716 5.335583 CCGAATTACTTGTTGCAGAAATGGA 60.336 40.000 0.00 0.00 0.00 3.41
2740 3717 6.324819 CGAATTACTTGTTGCAGAAATGGAT 58.675 36.000 0.00 0.00 0.00 3.41
2741 3718 7.415095 CCGAATTACTTGTTGCAGAAATGGATA 60.415 37.037 0.00 0.00 0.00 2.59
2742 3719 7.967854 CGAATTACTTGTTGCAGAAATGGATAA 59.032 33.333 0.00 0.00 0.00 1.75
2743 3720 9.638239 GAATTACTTGTTGCAGAAATGGATAAA 57.362 29.630 0.00 0.00 0.00 1.40
2744 3721 9.995003 AATTACTTGTTGCAGAAATGGATAAAA 57.005 25.926 0.00 0.00 0.00 1.52
2745 3722 9.995003 ATTACTTGTTGCAGAAATGGATAAAAA 57.005 25.926 0.00 0.00 0.00 1.94
2780 3757 8.514330 TGTAAAAATTGGAGTTCACAAGTAGT 57.486 30.769 0.00 0.00 0.00 2.73
2781 3758 9.616156 TGTAAAAATTGGAGTTCACAAGTAGTA 57.384 29.630 0.00 0.00 0.00 1.82
2784 3761 7.687941 AAATTGGAGTTCACAAGTAGTATGG 57.312 36.000 0.00 0.00 0.00 2.74
2785 3762 4.819105 TGGAGTTCACAAGTAGTATGGG 57.181 45.455 0.00 0.00 0.00 4.00
2786 3763 4.422057 TGGAGTTCACAAGTAGTATGGGA 58.578 43.478 0.00 0.00 0.00 4.37
2787 3764 4.222145 TGGAGTTCACAAGTAGTATGGGAC 59.778 45.833 0.00 0.00 27.80 4.46
2788 3765 4.421948 GAGTTCACAAGTAGTATGGGACG 58.578 47.826 0.00 0.00 27.80 4.79
2789 3766 3.194968 AGTTCACAAGTAGTATGGGACGG 59.805 47.826 0.00 0.00 27.80 4.79
2790 3767 3.090210 TCACAAGTAGTATGGGACGGA 57.910 47.619 0.00 0.00 0.00 4.69
2791 3768 3.433343 TCACAAGTAGTATGGGACGGAA 58.567 45.455 0.00 0.00 0.00 4.30
2792 3769 3.446161 TCACAAGTAGTATGGGACGGAAG 59.554 47.826 0.00 0.00 0.00 3.46
2793 3770 2.764572 ACAAGTAGTATGGGACGGAAGG 59.235 50.000 0.00 0.00 0.00 3.46
2794 3771 2.083628 AGTAGTATGGGACGGAAGGG 57.916 55.000 0.00 0.00 0.00 3.95
2795 3772 1.046204 GTAGTATGGGACGGAAGGGG 58.954 60.000 0.00 0.00 0.00 4.79
2796 3773 0.638292 TAGTATGGGACGGAAGGGGT 59.362 55.000 0.00 0.00 0.00 4.95
2797 3774 0.638292 AGTATGGGACGGAAGGGGTA 59.362 55.000 0.00 0.00 0.00 3.69
2798 3775 1.222298 AGTATGGGACGGAAGGGGTAT 59.778 52.381 0.00 0.00 0.00 2.73
2799 3776 2.452047 AGTATGGGACGGAAGGGGTATA 59.548 50.000 0.00 0.00 0.00 1.47
2800 3777 1.725803 ATGGGACGGAAGGGGTATAC 58.274 55.000 0.00 0.00 0.00 1.47
2801 3778 0.339162 TGGGACGGAAGGGGTATACA 59.661 55.000 5.01 0.00 0.00 2.29
2802 3779 1.046204 GGGACGGAAGGGGTATACAG 58.954 60.000 5.01 0.00 0.00 2.74
2803 3780 1.690527 GGGACGGAAGGGGTATACAGT 60.691 57.143 5.01 0.00 0.00 3.55
2804 3781 2.424812 GGGACGGAAGGGGTATACAGTA 60.425 54.545 5.01 0.00 0.00 2.74
2805 3782 3.299503 GGACGGAAGGGGTATACAGTAA 58.700 50.000 5.01 0.00 0.00 2.24
2806 3783 3.706086 GGACGGAAGGGGTATACAGTAAA 59.294 47.826 5.01 0.00 0.00 2.01
2807 3784 4.162131 GGACGGAAGGGGTATACAGTAAAA 59.838 45.833 5.01 0.00 0.00 1.52
2808 3785 5.163269 GGACGGAAGGGGTATACAGTAAAAT 60.163 44.000 5.01 0.00 0.00 1.82
2809 3786 6.041979 GGACGGAAGGGGTATACAGTAAAATA 59.958 42.308 5.01 0.00 0.00 1.40
2810 3787 7.418942 GGACGGAAGGGGTATACAGTAAAATAA 60.419 40.741 5.01 0.00 0.00 1.40
2811 3788 7.860584 ACGGAAGGGGTATACAGTAAAATAAA 58.139 34.615 5.01 0.00 0.00 1.40
2812 3789 8.328014 ACGGAAGGGGTATACAGTAAAATAAAA 58.672 33.333 5.01 0.00 0.00 1.52
2813 3790 9.346005 CGGAAGGGGTATACAGTAAAATAAAAT 57.654 33.333 5.01 0.00 0.00 1.82
2818 3795 9.240159 GGGGTATACAGTAAAATAAAATTTGCG 57.760 33.333 5.01 0.00 31.24 4.85
2819 3796 9.791820 GGGTATACAGTAAAATAAAATTTGCGT 57.208 29.630 5.01 0.00 31.24 5.24
2824 3801 8.635877 ACAGTAAAATAAAATTTGCGTTGACA 57.364 26.923 0.00 0.00 31.24 3.58
2825 3802 9.255304 ACAGTAAAATAAAATTTGCGTTGACAT 57.745 25.926 0.00 0.00 31.24 3.06
2826 3803 9.726034 CAGTAAAATAAAATTTGCGTTGACATC 57.274 29.630 0.00 0.00 31.24 3.06
2827 3804 8.921670 AGTAAAATAAAATTTGCGTTGACATCC 58.078 29.630 0.00 0.00 31.24 3.51
2828 3805 6.720012 AAATAAAATTTGCGTTGACATCCC 57.280 33.333 0.00 0.00 0.00 3.85
2829 3806 3.742433 AAAATTTGCGTTGACATCCCA 57.258 38.095 0.00 0.00 0.00 4.37
2830 3807 3.959535 AAATTTGCGTTGACATCCCAT 57.040 38.095 0.00 0.00 0.00 4.00
2831 3808 2.945447 ATTTGCGTTGACATCCCATG 57.055 45.000 0.00 0.00 0.00 3.66
2832 3809 0.243365 TTTGCGTTGACATCCCATGC 59.757 50.000 0.00 0.00 0.00 4.06
2833 3810 1.594194 TTGCGTTGACATCCCATGCC 61.594 55.000 0.00 0.00 0.00 4.40
2834 3811 3.101209 CGTTGACATCCCATGCCG 58.899 61.111 0.00 0.00 0.00 5.69
2835 3812 2.800736 GTTGACATCCCATGCCGC 59.199 61.111 0.00 0.00 0.00 6.53
2836 3813 2.440065 TTGACATCCCATGCCGCC 60.440 61.111 0.00 0.00 0.00 6.13
2837 3814 3.279504 TTGACATCCCATGCCGCCA 62.280 57.895 0.00 0.00 0.00 5.69
2838 3815 3.211963 GACATCCCATGCCGCCAC 61.212 66.667 0.00 0.00 0.00 5.01
2839 3816 3.993614 GACATCCCATGCCGCCACA 62.994 63.158 0.00 0.00 0.00 4.17
2840 3817 3.520862 CATCCCATGCCGCCACAC 61.521 66.667 0.00 0.00 0.00 3.82
2841 3818 4.820744 ATCCCATGCCGCCACACC 62.821 66.667 0.00 0.00 0.00 4.16
2844 3821 2.124362 CCATGCCGCCACACCATA 60.124 61.111 0.00 0.00 0.00 2.74
2845 3822 2.188829 CCATGCCGCCACACCATAG 61.189 63.158 0.00 0.00 0.00 2.23
2846 3823 2.188829 CATGCCGCCACACCATAGG 61.189 63.158 0.00 0.00 0.00 2.57
2847 3824 3.420206 ATGCCGCCACACCATAGGG 62.420 63.158 0.00 0.00 41.29 3.53
2848 3825 4.875713 GCCGCCACACCATAGGGG 62.876 72.222 0.00 0.00 44.81 4.79
2939 3916 4.166337 AGTGGTCATAGTGCTAGGAGAGTA 59.834 45.833 0.00 0.00 0.00 2.59
2994 3971 4.579753 CCTTAACAACTTGACCCCGTTTAA 59.420 41.667 0.00 0.00 0.00 1.52
3419 4398 1.362717 CCACACGTAGGATAGCCGG 59.637 63.158 0.00 0.00 39.96 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 6.075936 CGTTGAATTCGGAATTGATGATTTCG 60.076 38.462 19.96 9.32 46.12 3.46
13 14 6.966632 TCGTTGAATTCGGAATTGATGATTTC 59.033 34.615 19.96 5.27 0.00 2.17
18 19 6.948353 AGTATCGTTGAATTCGGAATTGATG 58.052 36.000 19.96 13.07 0.00 3.07
28 29 3.982058 CGGGCTCTAGTATCGTTGAATTC 59.018 47.826 0.00 0.00 0.00 2.17
33 34 1.674441 TGTCGGGCTCTAGTATCGTTG 59.326 52.381 0.00 0.00 0.00 4.10
66 67 6.831868 GGATAAAACTCAAGGGGCAGTTTATA 59.168 38.462 0.96 0.00 41.09 0.98
84 85 8.171164 TCACACACATACATTGTTGGATAAAA 57.829 30.769 0.00 0.00 36.00 1.52
155 156 9.857957 TCATTGTTATTGTACACGTTGTATAGA 57.142 29.630 0.00 0.00 35.05 1.98
178 179 9.685276 TGTTGGTTAATTCATCTATTCACTCAT 57.315 29.630 0.00 0.00 0.00 2.90
303 304 1.279271 GGTACACCATCTGCAACTCCT 59.721 52.381 0.00 0.00 35.64 3.69
326 327 2.526077 TGTGAAGTCGCTAACGCATAG 58.474 47.619 0.00 0.00 39.84 2.23
327 328 2.640346 TGTGAAGTCGCTAACGCATA 57.360 45.000 0.00 0.00 39.84 3.14
378 379 2.160615 CGCGGTTGACCATTTATGTTGA 59.839 45.455 0.00 0.00 35.14 3.18
381 382 0.450184 GCGCGGTTGACCATTTATGT 59.550 50.000 8.83 0.00 35.14 2.29
382 383 0.449786 TGCGCGGTTGACCATTTATG 59.550 50.000 8.83 0.00 35.14 1.90
384 385 0.730265 GATGCGCGGTTGACCATTTA 59.270 50.000 8.83 0.00 35.14 1.40
388 531 3.047280 GTGATGCGCGGTTGACCA 61.047 61.111 8.83 0.00 35.14 4.02
397 540 0.307453 TGAGTTGTTGTGTGATGCGC 59.693 50.000 0.00 0.00 0.00 6.09
428 571 2.357517 GATATGGCGGGGCACTCG 60.358 66.667 0.00 0.00 0.00 4.18
433 576 4.626081 AGCACGATATGGCGGGGC 62.626 66.667 0.00 0.00 34.68 5.80
438 581 3.924918 TCTAGAGAAGCACGATATGGC 57.075 47.619 0.00 0.00 0.00 4.40
439 582 6.042777 TGTTTTCTAGAGAAGCACGATATGG 58.957 40.000 0.00 0.00 35.21 2.74
445 588 9.107367 CTTTTTATTGTTTTCTAGAGAAGCACG 57.893 33.333 0.00 0.00 35.21 5.34
465 608 9.921637 TTGAGCTTTCTTTTCTTGAACTTTTTA 57.078 25.926 0.00 0.00 0.00 1.52
474 617 4.624015 TGCCATTGAGCTTTCTTTTCTTG 58.376 39.130 0.00 0.00 0.00 3.02
477 620 5.697633 TCAAATGCCATTGAGCTTTCTTTTC 59.302 36.000 0.00 0.00 34.50 2.29
482 625 5.172934 TCAATCAAATGCCATTGAGCTTTC 58.827 37.500 7.27 0.00 42.21 2.62
483 626 5.155278 TCAATCAAATGCCATTGAGCTTT 57.845 34.783 7.27 0.00 42.21 3.51
484 627 4.811969 TCAATCAAATGCCATTGAGCTT 57.188 36.364 7.27 0.00 42.21 3.74
485 628 4.811969 TTCAATCAAATGCCATTGAGCT 57.188 36.364 7.27 0.00 42.21 4.09
486 629 5.391203 GGTTTTCAATCAAATGCCATTGAGC 60.391 40.000 7.27 0.00 42.21 4.26
529 672 0.460109 CTTGCCGATGTCGTCCATGA 60.460 55.000 0.00 0.00 37.74 3.07
553 696 1.740296 CGCAACCAGGTACCCTTCG 60.740 63.158 8.74 0.22 0.00 3.79
555 698 0.475044 TTTCGCAACCAGGTACCCTT 59.525 50.000 8.74 0.00 0.00 3.95
590 733 3.998341 GCCCGTCTTGAACTATGTTGTTA 59.002 43.478 0.00 0.00 0.00 2.41
685 1641 0.790207 AAACATAGTCAGTGCACGCG 59.210 50.000 12.01 3.53 0.00 6.01
934 1896 5.840693 TGATGCTCCAGAATAGAATAGGTCA 59.159 40.000 0.00 0.00 0.00 4.02
950 1912 4.630111 CAAAGGAGATAGACTGATGCTCC 58.370 47.826 0.00 0.00 44.24 4.70
951 1913 4.057432 GCAAAGGAGATAGACTGATGCTC 58.943 47.826 0.00 0.00 31.49 4.26
952 1914 3.453717 TGCAAAGGAGATAGACTGATGCT 59.546 43.478 0.00 0.00 33.82 3.79
953 1915 3.559242 GTGCAAAGGAGATAGACTGATGC 59.441 47.826 0.00 0.00 33.49 3.91
954 1916 5.021033 AGTGCAAAGGAGATAGACTGATG 57.979 43.478 0.00 0.00 0.00 3.07
1406 2380 1.301716 GAGGCGTTGGTGAAGAGCA 60.302 57.895 0.00 0.00 0.00 4.26
1491 2465 1.699634 ACTTGCAGGCTCTTCAGGTTA 59.300 47.619 0.00 0.00 0.00 2.85
1657 2631 0.099259 AATCACGGCATGCACATTCG 59.901 50.000 21.36 15.60 0.00 3.34
1677 2651 0.031585 TGCTACGTGTCAGTGTCACC 59.968 55.000 13.76 2.08 32.86 4.02
1698 2672 1.395805 GCGCGCCGAATCAAAAACTC 61.396 55.000 23.24 0.00 0.00 3.01
1701 2675 2.500795 CGCGCGCCGAATCAAAAA 60.501 55.556 27.72 0.00 40.02 1.94
1735 2709 2.203126 GCTCGCCATCCCTCCAAG 60.203 66.667 0.00 0.00 0.00 3.61
2421 3395 2.203294 ACCAACCCAACGACTGGC 60.203 61.111 0.00 0.00 44.90 4.85
2539 3513 2.344741 GCAAGAGAACACGTAACGATCC 59.655 50.000 0.00 0.00 0.00 3.36
2585 3559 0.899720 CAGGTGCTGGCATTTTGGAT 59.100 50.000 0.00 0.00 0.00 3.41
2606 3580 5.105752 GGATGTGCCTATAAAGCTATCGAG 58.894 45.833 0.00 0.00 0.00 4.04
2668 3642 6.633634 TGTACATGTTAAAGTTGCTAAAACGC 59.366 34.615 2.30 0.00 0.00 4.84
2670 3644 7.916450 TGGTGTACATGTTAAAGTTGCTAAAAC 59.084 33.333 2.30 0.00 0.00 2.43
2679 3656 6.826741 AGAACAGTTGGTGTACATGTTAAAGT 59.173 34.615 2.30 0.00 39.03 2.66
2684 3661 4.578928 GGAAGAACAGTTGGTGTACATGTT 59.421 41.667 2.30 10.73 39.03 2.71
2686 3663 3.502211 GGGAAGAACAGTTGGTGTACATG 59.498 47.826 0.00 0.00 39.03 3.21
2687 3664 3.394606 AGGGAAGAACAGTTGGTGTACAT 59.605 43.478 0.00 0.00 39.03 2.29
2688 3665 2.775384 AGGGAAGAACAGTTGGTGTACA 59.225 45.455 0.00 0.00 39.03 2.90
2689 3666 3.487120 AGGGAAGAACAGTTGGTGTAC 57.513 47.619 0.00 0.00 39.03 2.90
2690 3667 4.204012 CAAAGGGAAGAACAGTTGGTGTA 58.796 43.478 0.00 0.00 39.03 2.90
2691 3668 3.023832 CAAAGGGAAGAACAGTTGGTGT 58.976 45.455 0.00 0.00 43.24 4.16
2692 3669 3.023832 ACAAAGGGAAGAACAGTTGGTG 58.976 45.455 0.00 0.00 0.00 4.17
2693 3670 3.288092 GACAAAGGGAAGAACAGTTGGT 58.712 45.455 0.00 0.00 0.00 3.67
2694 3671 2.623416 GGACAAAGGGAAGAACAGTTGG 59.377 50.000 0.00 0.00 0.00 3.77
2695 3672 2.623416 GGGACAAAGGGAAGAACAGTTG 59.377 50.000 0.00 0.00 0.00 3.16
2696 3673 2.748465 CGGGACAAAGGGAAGAACAGTT 60.748 50.000 0.00 0.00 0.00 3.16
2697 3674 1.202770 CGGGACAAAGGGAAGAACAGT 60.203 52.381 0.00 0.00 0.00 3.55
2698 3675 1.071699 TCGGGACAAAGGGAAGAACAG 59.928 52.381 0.00 0.00 0.00 3.16
2699 3676 1.133363 TCGGGACAAAGGGAAGAACA 58.867 50.000 0.00 0.00 0.00 3.18
2700 3677 2.265589 TTCGGGACAAAGGGAAGAAC 57.734 50.000 0.00 0.00 0.00 3.01
2701 3678 3.518992 AATTCGGGACAAAGGGAAGAA 57.481 42.857 0.00 0.00 0.00 2.52
2702 3679 3.585732 AGTAATTCGGGACAAAGGGAAGA 59.414 43.478 0.00 0.00 0.00 2.87
2703 3680 3.951663 AGTAATTCGGGACAAAGGGAAG 58.048 45.455 0.00 0.00 0.00 3.46
2704 3681 4.076394 CAAGTAATTCGGGACAAAGGGAA 58.924 43.478 0.00 0.00 0.00 3.97
2705 3682 3.073356 ACAAGTAATTCGGGACAAAGGGA 59.927 43.478 0.00 0.00 0.00 4.20
2706 3683 3.418047 ACAAGTAATTCGGGACAAAGGG 58.582 45.455 0.00 0.00 0.00 3.95
2707 3684 4.794169 CAACAAGTAATTCGGGACAAAGG 58.206 43.478 0.00 0.00 0.00 3.11
2708 3685 4.226761 GCAACAAGTAATTCGGGACAAAG 58.773 43.478 0.00 0.00 0.00 2.77
2709 3686 3.632604 TGCAACAAGTAATTCGGGACAAA 59.367 39.130 0.00 0.00 0.00 2.83
2710 3687 3.215151 TGCAACAAGTAATTCGGGACAA 58.785 40.909 0.00 0.00 0.00 3.18
2711 3688 2.811431 CTGCAACAAGTAATTCGGGACA 59.189 45.455 0.00 0.00 0.00 4.02
2712 3689 3.071479 TCTGCAACAAGTAATTCGGGAC 58.929 45.455 0.00 0.00 0.00 4.46
2713 3690 3.410631 TCTGCAACAAGTAATTCGGGA 57.589 42.857 0.00 0.00 0.00 5.14
2714 3691 4.497473 TTTCTGCAACAAGTAATTCGGG 57.503 40.909 0.00 0.00 0.00 5.14
2715 3692 4.858692 CCATTTCTGCAACAAGTAATTCGG 59.141 41.667 0.00 0.00 0.00 4.30
2716 3693 5.698832 TCCATTTCTGCAACAAGTAATTCG 58.301 37.500 0.00 0.00 0.00 3.34
2717 3694 9.638239 TTTATCCATTTCTGCAACAAGTAATTC 57.362 29.630 0.00 0.00 0.00 2.17
2718 3695 9.995003 TTTTATCCATTTCTGCAACAAGTAATT 57.005 25.926 0.00 0.00 0.00 1.40
2719 3696 9.995003 TTTTTATCCATTTCTGCAACAAGTAAT 57.005 25.926 0.00 0.00 0.00 1.89
2754 3731 9.131791 ACTACTTGTGAACTCCAATTTTTACAT 57.868 29.630 0.00 0.00 0.00 2.29
2755 3732 8.514330 ACTACTTGTGAACTCCAATTTTTACA 57.486 30.769 0.00 0.00 0.00 2.41
2758 3735 8.576442 CCATACTACTTGTGAACTCCAATTTTT 58.424 33.333 0.00 0.00 0.00 1.94
2759 3736 7.176690 CCCATACTACTTGTGAACTCCAATTTT 59.823 37.037 0.00 0.00 0.00 1.82
2760 3737 6.659242 CCCATACTACTTGTGAACTCCAATTT 59.341 38.462 0.00 0.00 0.00 1.82
2761 3738 6.012858 TCCCATACTACTTGTGAACTCCAATT 60.013 38.462 0.00 0.00 0.00 2.32
2762 3739 5.487488 TCCCATACTACTTGTGAACTCCAAT 59.513 40.000 0.00 0.00 0.00 3.16
2763 3740 4.841813 TCCCATACTACTTGTGAACTCCAA 59.158 41.667 0.00 0.00 0.00 3.53
2764 3741 4.222145 GTCCCATACTACTTGTGAACTCCA 59.778 45.833 0.00 0.00 0.00 3.86
2765 3742 4.677250 CGTCCCATACTACTTGTGAACTCC 60.677 50.000 0.00 0.00 0.00 3.85
2766 3743 4.421948 CGTCCCATACTACTTGTGAACTC 58.578 47.826 0.00 0.00 0.00 3.01
2767 3744 3.194968 CCGTCCCATACTACTTGTGAACT 59.805 47.826 0.00 0.00 0.00 3.01
2768 3745 3.194116 TCCGTCCCATACTACTTGTGAAC 59.806 47.826 0.00 0.00 0.00 3.18
2769 3746 3.433343 TCCGTCCCATACTACTTGTGAA 58.567 45.455 0.00 0.00 0.00 3.18
2770 3747 3.090210 TCCGTCCCATACTACTTGTGA 57.910 47.619 0.00 0.00 0.00 3.58
2771 3748 3.430374 CCTTCCGTCCCATACTACTTGTG 60.430 52.174 0.00 0.00 0.00 3.33
2772 3749 2.764572 CCTTCCGTCCCATACTACTTGT 59.235 50.000 0.00 0.00 0.00 3.16
2773 3750 2.102588 CCCTTCCGTCCCATACTACTTG 59.897 54.545 0.00 0.00 0.00 3.16
2774 3751 2.395619 CCCTTCCGTCCCATACTACTT 58.604 52.381 0.00 0.00 0.00 2.24
2775 3752 1.412649 CCCCTTCCGTCCCATACTACT 60.413 57.143 0.00 0.00 0.00 2.57
2776 3753 1.046204 CCCCTTCCGTCCCATACTAC 58.954 60.000 0.00 0.00 0.00 2.73
2777 3754 0.638292 ACCCCTTCCGTCCCATACTA 59.362 55.000 0.00 0.00 0.00 1.82
2778 3755 0.638292 TACCCCTTCCGTCCCATACT 59.362 55.000 0.00 0.00 0.00 2.12
2779 3756 1.725803 ATACCCCTTCCGTCCCATAC 58.274 55.000 0.00 0.00 0.00 2.39
2780 3757 2.179645 TGTATACCCCTTCCGTCCCATA 59.820 50.000 0.00 0.00 0.00 2.74
2781 3758 1.061967 TGTATACCCCTTCCGTCCCAT 60.062 52.381 0.00 0.00 0.00 4.00
2782 3759 0.339162 TGTATACCCCTTCCGTCCCA 59.661 55.000 0.00 0.00 0.00 4.37
2783 3760 1.046204 CTGTATACCCCTTCCGTCCC 58.954 60.000 0.00 0.00 0.00 4.46
2784 3761 1.785647 ACTGTATACCCCTTCCGTCC 58.214 55.000 0.00 0.00 0.00 4.79
2785 3762 5.343307 TTTTACTGTATACCCCTTCCGTC 57.657 43.478 0.00 0.00 0.00 4.79
2786 3763 5.963214 ATTTTACTGTATACCCCTTCCGT 57.037 39.130 0.00 0.00 0.00 4.69
2787 3764 8.735692 TTTTATTTTACTGTATACCCCTTCCG 57.264 34.615 0.00 0.00 0.00 4.30
2792 3769 9.240159 CGCAAATTTTATTTTACTGTATACCCC 57.760 33.333 0.00 0.00 0.00 4.95
2793 3770 9.791820 ACGCAAATTTTATTTTACTGTATACCC 57.208 29.630 0.00 0.00 0.00 3.69
2798 3775 9.731819 TGTCAACGCAAATTTTATTTTACTGTA 57.268 25.926 0.00 0.00 0.00 2.74
2799 3776 8.635877 TGTCAACGCAAATTTTATTTTACTGT 57.364 26.923 0.00 0.00 0.00 3.55
2800 3777 9.726034 GATGTCAACGCAAATTTTATTTTACTG 57.274 29.630 0.00 0.00 0.00 2.74
2801 3778 8.921670 GGATGTCAACGCAAATTTTATTTTACT 58.078 29.630 0.00 0.00 0.00 2.24
2802 3779 8.166066 GGGATGTCAACGCAAATTTTATTTTAC 58.834 33.333 0.00 0.00 0.00 2.01
2803 3780 7.872993 TGGGATGTCAACGCAAATTTTATTTTA 59.127 29.630 0.00 0.00 0.00 1.52
2804 3781 6.708054 TGGGATGTCAACGCAAATTTTATTTT 59.292 30.769 0.00 0.00 0.00 1.82
2805 3782 6.226787 TGGGATGTCAACGCAAATTTTATTT 58.773 32.000 0.00 0.00 0.00 1.40
2806 3783 5.788450 TGGGATGTCAACGCAAATTTTATT 58.212 33.333 0.00 0.00 0.00 1.40
2807 3784 5.398603 TGGGATGTCAACGCAAATTTTAT 57.601 34.783 0.00 0.00 0.00 1.40
2808 3785 4.855715 TGGGATGTCAACGCAAATTTTA 57.144 36.364 0.00 0.00 0.00 1.52
2809 3786 3.742433 TGGGATGTCAACGCAAATTTT 57.258 38.095 0.00 0.00 0.00 1.82
2810 3787 3.587923 CATGGGATGTCAACGCAAATTT 58.412 40.909 3.96 0.00 34.22 1.82
2811 3788 2.674747 GCATGGGATGTCAACGCAAATT 60.675 45.455 3.96 0.00 34.22 1.82
2812 3789 1.135024 GCATGGGATGTCAACGCAAAT 60.135 47.619 3.96 0.00 34.22 2.32
2813 3790 0.243365 GCATGGGATGTCAACGCAAA 59.757 50.000 3.96 0.00 34.22 3.68
2814 3791 1.594194 GGCATGGGATGTCAACGCAA 61.594 55.000 3.96 0.00 34.33 4.85
2815 3792 2.045708 GGCATGGGATGTCAACGCA 61.046 57.895 2.30 2.30 34.33 5.24
2816 3793 2.800736 GGCATGGGATGTCAACGC 59.199 61.111 0.00 0.00 34.33 4.84
2817 3794 3.101209 CGGCATGGGATGTCAACG 58.899 61.111 0.00 0.00 33.60 4.10
2818 3795 2.774799 GGCGGCATGGGATGTCAAC 61.775 63.158 3.07 0.00 33.60 3.18
2819 3796 2.440065 GGCGGCATGGGATGTCAA 60.440 61.111 3.07 0.00 33.60 3.18
2820 3797 3.726144 TGGCGGCATGGGATGTCA 61.726 61.111 7.97 0.00 33.60 3.58
2821 3798 3.211963 GTGGCGGCATGGGATGTC 61.212 66.667 17.19 0.00 0.00 3.06
2822 3799 4.045781 TGTGGCGGCATGGGATGT 62.046 61.111 17.19 0.00 0.00 3.06
2823 3800 3.520862 GTGTGGCGGCATGGGATG 61.521 66.667 17.19 0.00 0.00 3.51
2824 3801 4.820744 GGTGTGGCGGCATGGGAT 62.821 66.667 17.19 0.00 0.00 3.85
2826 3803 3.712771 TATGGTGTGGCGGCATGGG 62.713 63.158 17.19 0.00 0.00 4.00
2827 3804 2.124362 TATGGTGTGGCGGCATGG 60.124 61.111 17.19 0.00 0.00 3.66
2828 3805 2.188829 CCTATGGTGTGGCGGCATG 61.189 63.158 17.19 0.00 0.00 4.06
2829 3806 2.192979 CCTATGGTGTGGCGGCAT 59.807 61.111 17.19 0.00 0.00 4.40
2830 3807 4.108299 CCCTATGGTGTGGCGGCA 62.108 66.667 7.97 7.97 0.00 5.69
2831 3808 4.875713 CCCCTATGGTGTGGCGGC 62.876 72.222 0.00 0.00 0.00 6.53
2832 3809 4.189580 CCCCCTATGGTGTGGCGG 62.190 72.222 0.00 0.00 0.00 6.13
2870 3847 1.345112 ACTCCTCCCCCGGTGATTATT 60.345 52.381 0.00 0.00 0.00 1.40
2872 3849 0.398098 GACTCCTCCCCCGGTGATTA 60.398 60.000 0.00 0.00 0.00 1.75
2901 3878 9.632638 ACTATGACCACTTTGAGCAATATATTT 57.367 29.630 0.00 0.00 0.00 1.40
2926 3903 5.346181 AAACTGGATTACTCTCCTAGCAC 57.654 43.478 0.00 0.00 36.20 4.40
2994 3971 2.249844 TTTCGGCTCGGTTTTTCTCT 57.750 45.000 0.00 0.00 0.00 3.10
3081 4059 3.008049 CCTGGTCCTGTTAGTTTGCTAGT 59.992 47.826 0.00 0.00 0.00 2.57
3220 4199 2.127003 GCGTTAAGCGTTGGCACC 60.127 61.111 0.00 0.00 43.41 5.01
3236 4215 0.037790 AGCTCTCAGTCAAGGTTCGC 60.038 55.000 0.00 0.00 0.00 4.70
3394 4373 0.034767 ATCCTACGTGTGGTCTCCGA 60.035 55.000 0.00 0.00 0.00 4.55
3419 4398 5.235401 GTGTTCTTCTTCAGGTGTTTCTCTC 59.765 44.000 0.00 0.00 0.00 3.20


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

AutoCloner maintained by Alex Coulton.