Multiple sequence alignment - TraesCS7D01G195800

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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 TraesCS7D01G195800 chr7D 100.000 3106 0 0 1 3106 152099990 152096885 0.000000e+00 5736.0
1 TraesCS7D01G195800 chr7D 95.212 1671 66 10 610 2274 151857013 151855351 0.000000e+00 2630.0
2 TraesCS7D01G195800 chr7D 95.821 1005 27 4 601 1600 151941044 151940050 0.000000e+00 1609.0
3 TraesCS7D01G195800 chr7D 93.260 638 36 4 1643 2274 151940040 151939404 0.000000e+00 933.0
4 TraesCS7D01G195800 chr7D 85.260 597 82 6 1 594 561094742 561095335 7.360000e-171 610.0
5 TraesCS7D01G195800 chr7D 87.583 451 49 4 1699 2148 152121128 152121572 1.650000e-142 516.0
6 TraesCS7D01G195800 chr7D 81.962 632 75 25 969 1588 152120440 152121044 1.660000e-137 499.0
7 TraesCS7D01G195800 chr7D 92.913 127 9 0 2314 2440 570160620 570160746 5.290000e-43 185.0
8 TraesCS7D01G195800 chr7D 77.778 162 32 3 1406 1566 538895309 538895151 2.550000e-16 97.1
9 TraesCS7D01G195800 chr7D 81.132 106 18 2 2764 2868 15073508 15073404 1.980000e-12 84.2
10 TraesCS7D01G195800 chr7D 81.553 103 17 2 2764 2865 117218409 117218510 1.980000e-12 84.2
11 TraesCS7D01G195800 chr7D 80.583 103 18 2 2764 2865 53514198 53514299 9.230000e-11 78.7
12 TraesCS7D01G195800 chr7B 91.440 1028 48 16 601 1607 113770107 113771115 0.000000e+00 1375.0
13 TraesCS7D01G195800 chr7B 92.182 614 37 4 1668 2274 113771140 113771749 0.000000e+00 857.0
14 TraesCS7D01G195800 chr7B 78.970 913 124 41 735 1612 114178288 114179167 7.520000e-156 560.0
15 TraesCS7D01G195800 chr7B 87.859 453 46 4 1699 2148 114179216 114179662 9.870000e-145 523.0
16 TraesCS7D01G195800 chr7B 86.269 335 31 12 1907 2227 113772649 113772982 1.770000e-92 350.0
17 TraesCS7D01G195800 chr7B 77.160 162 33 3 1406 1566 581395682 581395524 1.190000e-14 91.6
18 TraesCS7D01G195800 chr3A 87.646 599 69 5 5 600 607066025 607065429 0.000000e+00 691.0
19 TraesCS7D01G195800 chr3A 90.076 131 13 0 2311 2441 57101244 57101374 1.480000e-38 171.0
20 TraesCS7D01G195800 chr5B 88.185 584 60 8 5 583 510405042 510405621 0.000000e+00 688.0
21 TraesCS7D01G195800 chrUn 88.203 551 57 6 4 547 287246874 287247423 0.000000e+00 651.0
22 TraesCS7D01G195800 chrUn 88.203 551 57 6 4 547 287259187 287259736 0.000000e+00 651.0
23 TraesCS7D01G195800 chrUn 88.203 551 57 6 4 547 318625135 318624586 0.000000e+00 651.0
24 TraesCS7D01G195800 chrUn 88.203 551 57 6 4 547 318963789 318964338 0.000000e+00 651.0
25 TraesCS7D01G195800 chrUn 88.203 551 57 6 4 547 323161551 323162100 0.000000e+00 651.0
26 TraesCS7D01G195800 chrUn 81.778 686 61 29 2439 3106 85641046 85640407 1.650000e-142 516.0
27 TraesCS7D01G195800 chrUn 87.297 370 24 6 601 951 85641522 85641157 4.820000e-108 401.0
28 TraesCS7D01G195800 chrUn 88.073 109 10 3 2206 2314 85641149 85641044 3.250000e-25 126.0
29 TraesCS7D01G195800 chrUn 81.132 106 18 2 2764 2868 103116211 103116107 1.980000e-12 84.2
30 TraesCS7D01G195800 chr6A 85.479 606 83 5 1 603 199138264 199138867 7.310000e-176 627.0
31 TraesCS7D01G195800 chr6A 91.406 128 11 0 2313 2440 185134822 185134695 3.180000e-40 176.0
32 TraesCS7D01G195800 chr7A 88.069 461 44 8 1699 2156 152541041 152541493 1.270000e-148 536.0
33 TraesCS7D01G195800 chr7A 82.290 655 77 25 969 1612 152540367 152540993 5.900000e-147 531.0
34 TraesCS7D01G195800 chr7A 77.778 162 32 3 1406 1566 620412451 620412293 2.550000e-16 97.1
35 TraesCS7D01G195800 chr6B 81.982 444 65 9 2439 2868 245721104 245720662 2.280000e-96 363.0
36 TraesCS7D01G195800 chr4D 93.233 133 8 1 2309 2440 506203514 506203646 8.790000e-46 195.0
37 TraesCS7D01G195800 chr3D 93.750 128 8 0 2313 2440 123898836 123898963 3.160000e-45 193.0
38 TraesCS7D01G195800 chr3D 91.379 116 10 0 2325 2440 26441457 26441572 3.210000e-35 159.0
39 TraesCS7D01G195800 chr2A 92.188 128 10 0 2313 2440 30873389 30873516 6.840000e-42 182.0
40 TraesCS7D01G195800 chr5A 90.441 136 12 1 2311 2445 536275201 536275336 8.850000e-41 178.0
41 TraesCS7D01G195800 chr5A 83.206 131 20 2 2314 2443 644439279 644439150 5.440000e-23 119.0
42 TraesCS7D01G195800 chr5D 81.553 103 17 2 2764 2865 2614164 2614265 1.980000e-12 84.2
43 TraesCS7D01G195800 chr5D 81.132 106 18 2 2764 2868 297996195 297996091 1.980000e-12 84.2
44 TraesCS7D01G195800 chr6D 87.302 63 8 0 2773 2835 7561283 7561221 4.300000e-09 73.1


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 TraesCS7D01G195800 chr7D 152096885 152099990 3105 True 5736.000000 5736 100.000000 1 3106 1 chr7D.!!$R3 3105
1 TraesCS7D01G195800 chr7D 151855351 151857013 1662 True 2630.000000 2630 95.212000 610 2274 1 chr7D.!!$R2 1664
2 TraesCS7D01G195800 chr7D 151939404 151941044 1640 True 1271.000000 1609 94.540500 601 2274 2 chr7D.!!$R5 1673
3 TraesCS7D01G195800 chr7D 561094742 561095335 593 False 610.000000 610 85.260000 1 594 1 chr7D.!!$F3 593
4 TraesCS7D01G195800 chr7D 152120440 152121572 1132 False 507.500000 516 84.772500 969 2148 2 chr7D.!!$F5 1179
5 TraesCS7D01G195800 chr7B 113770107 113772982 2875 False 860.666667 1375 89.963667 601 2274 3 chr7B.!!$F1 1673
6 TraesCS7D01G195800 chr7B 114178288 114179662 1374 False 541.500000 560 83.414500 735 2148 2 chr7B.!!$F2 1413
7 TraesCS7D01G195800 chr3A 607065429 607066025 596 True 691.000000 691 87.646000 5 600 1 chr3A.!!$R1 595
8 TraesCS7D01G195800 chr5B 510405042 510405621 579 False 688.000000 688 88.185000 5 583 1 chr5B.!!$F1 578
9 TraesCS7D01G195800 chrUn 287246874 287247423 549 False 651.000000 651 88.203000 4 547 1 chrUn.!!$F1 543
10 TraesCS7D01G195800 chrUn 287259187 287259736 549 False 651.000000 651 88.203000 4 547 1 chrUn.!!$F2 543
11 TraesCS7D01G195800 chrUn 318624586 318625135 549 True 651.000000 651 88.203000 4 547 1 chrUn.!!$R2 543
12 TraesCS7D01G195800 chrUn 318963789 318964338 549 False 651.000000 651 88.203000 4 547 1 chrUn.!!$F3 543
13 TraesCS7D01G195800 chrUn 323161551 323162100 549 False 651.000000 651 88.203000 4 547 1 chrUn.!!$F4 543
14 TraesCS7D01G195800 chrUn 85640407 85641522 1115 True 347.666667 516 85.716000 601 3106 3 chrUn.!!$R3 2505
15 TraesCS7D01G195800 chr6A 199138264 199138867 603 False 627.000000 627 85.479000 1 603 1 chr6A.!!$F1 602
16 TraesCS7D01G195800 chr7A 152540367 152541493 1126 False 533.500000 536 85.179500 969 2156 2 chr7A.!!$F1 1187

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
786 822 0.253327 GACCCCAAGCGGAAGAAGAT 59.747 55.0 0.0 0.0 0.0 2.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2685 2854 0.386113 GTCTATCTGACGAGGCCACC 59.614 60.0 5.01 0.0 35.81 4.61 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
168 171 2.685017 ATCGCTGCTCCCTGTCCA 60.685 61.111 0.00 0.00 0.00 4.02
786 822 0.253327 GACCCCAAGCGGAAGAAGAT 59.747 55.000 0.00 0.00 0.00 2.40
879 923 1.262950 CGATTGAGTTTTGCGTGGTGA 59.737 47.619 0.00 0.00 0.00 4.02
984 1045 1.080501 CGGCGTCACACACATCTCT 60.081 57.895 0.00 0.00 0.00 3.10
1321 1390 2.775911 TGCTTGCTGCTCATACTTCT 57.224 45.000 0.00 0.00 43.37 2.85
1375 1446 0.516877 GTTTGACGTGCATGCAGCTA 59.483 50.000 23.41 7.88 45.94 3.32
1671 1806 3.890756 TCCAGAGTTTGAATGTGCAATGT 59.109 39.130 0.00 0.00 0.00 2.71
1687 1822 5.177327 GTGCAATGTTTGATTTGAAATCCGT 59.823 36.000 14.73 0.00 0.00 4.69
1748 1891 1.255667 TACGGGTGCTGAGGAACCTC 61.256 60.000 6.45 13.32 41.02 3.85
2045 2188 1.730501 TGTACTACGACTACTGCGCT 58.269 50.000 9.73 0.00 0.00 5.92
2181 2334 1.526917 GCACGGGAGGCAAGCATAT 60.527 57.895 0.00 0.00 0.00 1.78
2239 2395 9.734620 CACCGAATAATATTTGCATAATATGGG 57.265 33.333 12.09 11.02 0.00 4.00
2262 2418 3.823873 TGTGTGGCCGTCTATTTGAATTT 59.176 39.130 0.00 0.00 0.00 1.82
2265 2421 4.155826 TGTGGCCGTCTATTTGAATTTCAG 59.844 41.667 0.00 0.00 0.00 3.02
2284 2440 4.342352 CAGGCCGACTGTTATTTTTCTC 57.658 45.455 0.00 0.00 42.42 2.87
2285 2441 3.751175 CAGGCCGACTGTTATTTTTCTCA 59.249 43.478 0.00 0.00 42.42 3.27
2287 2443 5.010282 AGGCCGACTGTTATTTTTCTCAAT 58.990 37.500 0.00 0.00 0.00 2.57
2289 2445 5.332707 GCCGACTGTTATTTTTCTCAATCC 58.667 41.667 0.00 0.00 0.00 3.01
2293 2449 5.321927 ACTGTTATTTTTCTCAATCCGGGT 58.678 37.500 0.00 0.00 0.00 5.28
2297 2453 8.356000 TGTTATTTTTCTCAATCCGGGTAAAT 57.644 30.769 0.00 0.00 0.00 1.40
2307 2463 2.096248 TCCGGGTAAATGATTTGCCAC 58.904 47.619 23.26 13.26 45.89 5.01
2308 2464 1.821753 CCGGGTAAATGATTTGCCACA 59.178 47.619 23.26 0.00 45.89 4.17
2314 2470 7.338196 CCGGGTAAATGATTTGCCACATATATA 59.662 37.037 23.26 0.00 45.89 0.86
2315 2471 8.181573 CGGGTAAATGATTTGCCACATATATAC 58.818 37.037 23.26 5.08 45.89 1.47
2316 2472 9.243105 GGGTAAATGATTTGCCACATATATACT 57.757 33.333 23.26 0.00 45.89 2.12
2319 2475 7.944729 AATGATTTGCCACATATATACTCCC 57.055 36.000 0.00 0.00 0.00 4.30
2320 2476 6.702449 TGATTTGCCACATATATACTCCCT 57.298 37.500 0.00 0.00 0.00 4.20
2321 2477 6.711277 TGATTTGCCACATATATACTCCCTC 58.289 40.000 0.00 0.00 0.00 4.30
2322 2478 5.499004 TTTGCCACATATATACTCCCTCC 57.501 43.478 0.00 0.00 0.00 4.30
2323 2479 4.140575 TGCCACATATATACTCCCTCCA 57.859 45.455 0.00 0.00 0.00 3.86
2324 2480 4.698895 TGCCACATATATACTCCCTCCAT 58.301 43.478 0.00 0.00 0.00 3.41
2325 2481 5.100811 TGCCACATATATACTCCCTCCATT 58.899 41.667 0.00 0.00 0.00 3.16
2326 2482 5.189736 TGCCACATATATACTCCCTCCATTC 59.810 44.000 0.00 0.00 0.00 2.67
2327 2483 5.396884 GCCACATATATACTCCCTCCATTCC 60.397 48.000 0.00 0.00 0.00 3.01
2328 2484 5.726308 CCACATATATACTCCCTCCATTCCA 59.274 44.000 0.00 0.00 0.00 3.53
2329 2485 6.215431 CCACATATATACTCCCTCCATTCCAA 59.785 42.308 0.00 0.00 0.00 3.53
2330 2486 7.257016 CCACATATATACTCCCTCCATTCCAAA 60.257 40.741 0.00 0.00 0.00 3.28
2331 2487 8.331740 CACATATATACTCCCTCCATTCCAAAT 58.668 37.037 0.00 0.00 0.00 2.32
2332 2488 8.904963 ACATATATACTCCCTCCATTCCAAATT 58.095 33.333 0.00 0.00 0.00 1.82
2335 2491 6.848562 ATACTCCCTCCATTCCAAATTAGT 57.151 37.500 0.00 0.00 0.00 2.24
2336 2492 5.536497 ACTCCCTCCATTCCAAATTAGTT 57.464 39.130 0.00 0.00 0.00 2.24
2337 2493 5.264395 ACTCCCTCCATTCCAAATTAGTTG 58.736 41.667 0.00 0.00 36.94 3.16
2338 2494 5.015178 ACTCCCTCCATTCCAAATTAGTTGA 59.985 40.000 0.00 0.00 39.87 3.18
2339 2495 6.091076 TCCCTCCATTCCAAATTAGTTGAT 57.909 37.500 0.00 0.00 39.87 2.57
2340 2496 6.502138 TCCCTCCATTCCAAATTAGTTGATT 58.498 36.000 0.00 0.00 39.87 2.57
2341 2497 6.959366 TCCCTCCATTCCAAATTAGTTGATTT 59.041 34.615 0.00 0.00 39.87 2.17
2342 2498 7.043565 CCCTCCATTCCAAATTAGTTGATTTG 58.956 38.462 0.00 3.91 43.39 2.32
2343 2499 7.093377 CCCTCCATTCCAAATTAGTTGATTTGA 60.093 37.037 10.89 0.00 45.47 2.69
2344 2500 8.313292 CCTCCATTCCAAATTAGTTGATTTGAA 58.687 33.333 10.89 5.33 45.47 2.69
2345 2501 9.880157 CTCCATTCCAAATTAGTTGATTTGAAT 57.120 29.630 10.89 6.91 45.47 2.57
2387 2543 9.470399 TGTATCTATACTTGTTTAGTGTCCAGA 57.530 33.333 2.07 0.00 37.73 3.86
2391 2547 9.470399 TCTATACTTGTTTAGTGTCCAGATACA 57.530 33.333 0.00 0.00 37.73 2.29
2394 2550 7.907214 ACTTGTTTAGTGTCCAGATACATTC 57.093 36.000 0.00 0.00 35.19 2.67
2395 2551 7.450074 ACTTGTTTAGTGTCCAGATACATTCA 58.550 34.615 0.00 0.00 35.19 2.57
2396 2552 8.103305 ACTTGTTTAGTGTCCAGATACATTCAT 58.897 33.333 0.00 0.00 35.19 2.57
2397 2553 7.848223 TGTTTAGTGTCCAGATACATTCATG 57.152 36.000 0.00 0.00 0.00 3.07
2398 2554 7.394016 TGTTTAGTGTCCAGATACATTCATGT 58.606 34.615 0.00 0.00 44.48 3.21
2399 2555 7.549134 TGTTTAGTGTCCAGATACATTCATGTC 59.451 37.037 0.00 0.00 41.97 3.06
2400 2556 5.946942 AGTGTCCAGATACATTCATGTCT 57.053 39.130 0.00 0.00 41.97 3.41
2401 2557 8.533569 TTAGTGTCCAGATACATTCATGTCTA 57.466 34.615 0.00 0.00 41.97 2.59
2402 2558 7.048629 AGTGTCCAGATACATTCATGTCTAG 57.951 40.000 0.00 0.00 41.97 2.43
2403 2559 6.836007 AGTGTCCAGATACATTCATGTCTAGA 59.164 38.462 0.00 0.00 41.97 2.43
2404 2560 7.508636 AGTGTCCAGATACATTCATGTCTAGAT 59.491 37.037 0.00 0.00 41.97 1.98
2405 2561 8.797438 GTGTCCAGATACATTCATGTCTAGATA 58.203 37.037 0.00 0.00 41.97 1.98
2406 2562 9.367160 TGTCCAGATACATTCATGTCTAGATAA 57.633 33.333 0.00 0.00 41.97 1.75
2434 2590 7.429636 TGAGTTAAGTAATTTGAAACGGAGG 57.570 36.000 0.00 0.00 0.00 4.30
2435 2591 6.428771 TGAGTTAAGTAATTTGAAACGGAGGG 59.571 38.462 0.00 0.00 0.00 4.30
2436 2592 6.536447 AGTTAAGTAATTTGAAACGGAGGGA 58.464 36.000 0.00 0.00 0.00 4.20
2437 2593 6.653740 AGTTAAGTAATTTGAAACGGAGGGAG 59.346 38.462 0.00 0.00 0.00 4.30
2438 2594 4.635699 AGTAATTTGAAACGGAGGGAGT 57.364 40.909 0.00 0.00 0.00 3.85
2439 2595 5.750352 AGTAATTTGAAACGGAGGGAGTA 57.250 39.130 0.00 0.00 0.00 2.59
2440 2596 6.309389 AGTAATTTGAAACGGAGGGAGTAT 57.691 37.500 0.00 0.00 0.00 2.12
2441 2597 6.718294 AGTAATTTGAAACGGAGGGAGTATT 58.282 36.000 0.00 0.00 0.00 1.89
2442 2598 7.854337 AGTAATTTGAAACGGAGGGAGTATTA 58.146 34.615 0.00 0.00 0.00 0.98
2470 2626 4.113354 GAGGGACATGAGTTCGAACATAC 58.887 47.826 28.78 19.03 0.00 2.39
2472 2628 4.113354 GGGACATGAGTTCGAACATACTC 58.887 47.826 28.78 18.07 40.89 2.59
2531 2688 3.551485 GCGACATAATGAAACCCAATTGC 59.449 43.478 0.00 0.00 0.00 3.56
2541 2698 3.693471 CCAATTGCTTGGCGCCCA 61.693 61.111 26.77 13.22 45.28 5.36
2542 2699 2.343018 CAATTGCTTGGCGCCCAA 59.657 55.556 26.77 21.29 41.69 4.12
2559 2716 3.385749 AAGGACACCCATAGCGCCG 62.386 63.158 2.29 0.00 33.88 6.46
2576 2733 1.026718 CCGCCTCCACCTTGATGTTC 61.027 60.000 0.00 0.00 0.00 3.18
2589 2749 4.141937 CCTTGATGTTCTGGAGGATCGTAA 60.142 45.833 0.00 0.00 34.37 3.18
2618 2778 2.044135 CTCTTTTGCCGAAAAACTCGC 58.956 47.619 0.00 0.00 46.71 5.03
2620 2780 0.099082 TTTTGCCGAAAAACTCGCGT 59.901 45.000 5.77 0.00 46.71 6.01
2621 2781 0.099082 TTTGCCGAAAAACTCGCGTT 59.901 45.000 5.77 0.00 46.71 4.84
2623 2783 0.316360 TGCCGAAAAACTCGCGTTTC 60.316 50.000 5.77 7.95 46.71 2.78
2628 2788 2.217847 CGAAAAACTCGCGTTTCTCTCA 59.782 45.455 5.77 0.00 42.28 3.27
2629 2789 3.120991 CGAAAAACTCGCGTTTCTCTCAT 60.121 43.478 5.77 0.00 42.28 2.90
2638 2807 4.932799 TCGCGTTTCTCTCATTCCAAATTA 59.067 37.500 5.77 0.00 0.00 1.40
2640 2809 5.904080 CGCGTTTCTCTCATTCCAAATTATC 59.096 40.000 0.00 0.00 0.00 1.75
2641 2810 6.202226 GCGTTTCTCTCATTCCAAATTATCC 58.798 40.000 0.00 0.00 0.00 2.59
2648 2817 8.209584 TCTCTCATTCCAAATTATCCAAGAGAG 58.790 37.037 14.05 14.05 43.98 3.20
2660 2829 3.181329 TCCAAGAGAGGAGCATGGTTAA 58.819 45.455 0.00 0.00 32.77 2.01
2661 2830 3.055094 TCCAAGAGAGGAGCATGGTTAAC 60.055 47.826 0.00 0.00 32.77 2.01
2663 2832 2.457598 AGAGAGGAGCATGGTTAACGA 58.542 47.619 0.00 0.00 0.00 3.85
2664 2833 2.428890 AGAGAGGAGCATGGTTAACGAG 59.571 50.000 0.00 0.00 0.00 4.18
2666 2835 0.107654 AGGAGCATGGTTAACGAGGC 60.108 55.000 17.94 17.94 0.00 4.70
2667 2836 1.095807 GGAGCATGGTTAACGAGGCC 61.096 60.000 21.18 13.47 31.80 5.19
2671 2840 3.494850 ATGGTTAACGAGGCCATGG 57.505 52.632 7.63 7.63 41.05 3.66
2672 2841 0.106719 ATGGTTAACGAGGCCATGGG 60.107 55.000 15.13 0.00 41.05 4.00
2682 2851 4.813235 GCCATGGGCTTGCGGGTA 62.813 66.667 15.13 0.00 46.69 3.69
2683 2852 2.516930 CCATGGGCTTGCGGGTAG 60.517 66.667 2.85 0.00 0.00 3.18
2684 2853 2.516930 CATGGGCTTGCGGGTAGG 60.517 66.667 0.00 0.00 0.00 3.18
2685 2854 3.809013 ATGGGCTTGCGGGTAGGG 61.809 66.667 0.00 0.00 0.00 3.53
2688 2857 4.796495 GGCTTGCGGGTAGGGGTG 62.796 72.222 0.00 0.00 0.00 4.61
2689 2858 4.796495 GCTTGCGGGTAGGGGTGG 62.796 72.222 0.00 0.00 0.00 4.61
2690 2859 4.796495 CTTGCGGGTAGGGGTGGC 62.796 72.222 0.00 0.00 0.00 5.01
2706 2875 1.101635 TGGCCTCGTCAGATAGACCG 61.102 60.000 3.32 0.00 44.66 4.79
2712 2881 3.078097 CTCGTCAGATAGACCGATCCAT 58.922 50.000 0.00 0.00 44.66 3.41
2728 2897 2.543578 CATCACACCTTGGTGGACG 58.456 57.895 21.98 11.18 39.27 4.79
2729 2898 0.034756 CATCACACCTTGGTGGACGA 59.965 55.000 21.98 15.43 39.27 4.20
2730 2899 0.984230 ATCACACCTTGGTGGACGAT 59.016 50.000 21.98 16.73 39.27 3.73
2743 2918 0.734889 GGACGATTGCCATGTGGAAG 59.265 55.000 2.55 0.00 37.39 3.46
2750 2925 4.096231 CGATTGCCATGTGGAAGTATCAAA 59.904 41.667 2.55 0.00 37.39 2.69
2759 2934 5.491070 TGTGGAAGTATCAAAGTGATCCAG 58.509 41.667 0.00 0.00 38.26 3.86
2782 2957 4.201783 GCTGAAGCCAAATTTTGATCATGC 60.202 41.667 10.72 5.14 34.31 4.06
2814 2989 0.111089 GCGTGAAGCGACACTTGAAG 60.111 55.000 12.73 0.00 44.77 3.02
2815 2990 1.487482 CGTGAAGCGACACTTGAAGA 58.513 50.000 0.00 0.00 44.77 2.87
2816 2991 1.858458 CGTGAAGCGACACTTGAAGAA 59.142 47.619 0.00 0.00 44.77 2.52
2817 2992 2.097202 CGTGAAGCGACACTTGAAGAAG 60.097 50.000 0.00 0.00 44.77 2.85
2818 2993 3.123804 GTGAAGCGACACTTGAAGAAGA 58.876 45.455 0.00 0.00 39.29 2.87
2819 2994 3.183373 GTGAAGCGACACTTGAAGAAGAG 59.817 47.826 0.00 0.00 39.29 2.85
2820 2995 3.068165 TGAAGCGACACTTGAAGAAGAGA 59.932 43.478 0.00 0.00 39.29 3.10
2821 2996 3.951775 AGCGACACTTGAAGAAGAGAT 57.048 42.857 0.00 0.00 32.98 2.75
2822 2997 3.583806 AGCGACACTTGAAGAAGAGATG 58.416 45.455 0.00 0.00 32.98 2.90
2823 2998 3.256879 AGCGACACTTGAAGAAGAGATGA 59.743 43.478 0.00 0.00 32.98 2.92
2824 2999 4.081752 AGCGACACTTGAAGAAGAGATGAT 60.082 41.667 0.00 0.00 32.98 2.45
2825 3000 4.267452 GCGACACTTGAAGAAGAGATGATC 59.733 45.833 0.00 0.00 32.98 2.92
2826 3001 4.803088 CGACACTTGAAGAAGAGATGATCC 59.197 45.833 0.00 0.00 32.98 3.36
2827 3002 5.623141 CGACACTTGAAGAAGAGATGATCCA 60.623 44.000 0.00 0.00 32.98 3.41
2828 3003 5.486526 ACACTTGAAGAAGAGATGATCCAC 58.513 41.667 0.00 0.00 32.98 4.02
2829 3004 4.874966 CACTTGAAGAAGAGATGATCCACC 59.125 45.833 0.00 0.00 32.98 4.61
2830 3005 3.808466 TGAAGAAGAGATGATCCACCG 57.192 47.619 0.00 0.00 0.00 4.94
2831 3006 3.365472 TGAAGAAGAGATGATCCACCGA 58.635 45.455 0.00 0.00 0.00 4.69
2832 3007 3.963374 TGAAGAAGAGATGATCCACCGAT 59.037 43.478 0.00 0.00 0.00 4.18
2833 3008 4.406972 TGAAGAAGAGATGATCCACCGATT 59.593 41.667 0.00 0.00 0.00 3.34
2834 3009 4.599047 AGAAGAGATGATCCACCGATTC 57.401 45.455 0.00 0.00 0.00 2.52
2835 3010 4.222336 AGAAGAGATGATCCACCGATTCT 58.778 43.478 0.00 0.00 0.00 2.40
2836 3011 4.653341 AGAAGAGATGATCCACCGATTCTT 59.347 41.667 0.00 0.00 28.74 2.52
2840 3015 4.446371 AGATGATCCACCGATTCTTGAAC 58.554 43.478 0.00 0.00 0.00 3.18
2842 3017 4.286297 TGATCCACCGATTCTTGAACTT 57.714 40.909 0.00 0.00 0.00 2.66
2844 3019 2.151202 TCCACCGATTCTTGAACTTGC 58.849 47.619 0.00 0.00 0.00 4.01
2845 3020 2.154462 CCACCGATTCTTGAACTTGCT 58.846 47.619 0.00 0.00 0.00 3.91
2849 3024 2.030893 CCGATTCTTGAACTTGCTTGCA 60.031 45.455 0.00 0.00 0.00 4.08
2850 3025 2.975851 CGATTCTTGAACTTGCTTGCAC 59.024 45.455 0.00 0.00 0.00 4.57
2852 3027 3.865011 TTCTTGAACTTGCTTGCACAA 57.135 38.095 0.00 0.00 0.00 3.33
2853 3028 3.865011 TCTTGAACTTGCTTGCACAAA 57.135 38.095 0.00 0.00 0.00 2.83
2857 3032 0.179076 AACTTGCTTGCACAAAGGGC 60.179 50.000 0.00 0.00 36.30 5.19
2866 3041 0.811281 GCACAAAGGGCATAGACCAC 59.189 55.000 0.00 0.00 29.21 4.16
2873 3069 1.003580 AGGGCATAGACCACACAACTG 59.996 52.381 0.00 0.00 29.21 3.16
2910 3106 3.109847 GAAACACCCAGGTTCTGCA 57.890 52.632 0.00 0.00 40.89 4.41
2915 3111 2.214216 ACCCAGGTTCTGCACGCTA 61.214 57.895 0.00 0.00 0.00 4.26
2951 3147 1.223763 GGGCTAGCCAGGTTGGTAC 59.776 63.158 34.09 10.54 40.46 3.34
2964 3160 2.289819 GGTTGGTACGGAATCCTCACAA 60.290 50.000 0.00 0.00 0.00 3.33
3067 4157 3.056322 TCAAAGGAAGCCGAGGTAGTTAC 60.056 47.826 0.00 0.00 0.00 2.50
3070 4160 0.813821 GAAGCCGAGGTAGTTACGGT 59.186 55.000 0.00 0.00 46.95 4.83
3072 4162 0.610232 AGCCGAGGTAGTTACGGTGT 60.610 55.000 0.00 0.00 46.95 4.16
3073 4163 0.179153 GCCGAGGTAGTTACGGTGTC 60.179 60.000 0.00 0.00 46.95 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
110 112 1.518572 CGCGACGGTGGAGCTTTAT 60.519 57.895 0.00 0.00 0.00 1.40
151 154 2.249413 CTTGGACAGGGAGCAGCGAT 62.249 60.000 0.00 0.00 0.00 4.58
168 171 4.035102 GAAGTGGAGGGGCGGCTT 62.035 66.667 9.56 0.00 0.00 4.35
219 222 0.941963 ATCTGGGTCCTAGTGGGCTA 59.058 55.000 1.65 0.00 38.23 3.93
220 223 0.692419 CATCTGGGTCCTAGTGGGCT 60.692 60.000 1.65 0.00 38.23 5.19
277 280 4.570663 GTGCGCTCGATAGCCGGT 62.571 66.667 9.73 0.00 46.68 5.28
283 286 4.221422 GGCCTGGTGCGCTCGATA 62.221 66.667 9.73 0.00 42.61 2.92
309 313 4.626081 GGTGGTGCAGCCTCGTGT 62.626 66.667 14.36 0.00 38.35 4.49
520 531 2.060383 CCACCGCATCCTCTCCTCA 61.060 63.158 0.00 0.00 0.00 3.86
579 590 2.123382 CCTCTCCCTACCCCGACC 60.123 72.222 0.00 0.00 0.00 4.79
586 597 0.179234 GCTTTGCTCCCTCTCCCTAC 59.821 60.000 0.00 0.00 0.00 3.18
587 598 0.252696 TGCTTTGCTCCCTCTCCCTA 60.253 55.000 0.00 0.00 0.00 3.53
1258 1323 2.436087 AAAGCTGTGACGACTCCGGG 62.436 60.000 0.00 0.00 40.78 5.73
1321 1390 6.929049 ACATCACAGATTTTAACGAGAAGTCA 59.071 34.615 0.00 0.00 0.00 3.41
1375 1446 2.234908 GCTCTGAGGTGGTACTGACATT 59.765 50.000 6.83 0.00 0.00 2.71
1534 1609 5.564048 AGTATCTTGTACTCGTGGAAGTC 57.436 43.478 0.00 0.00 0.00 3.01
1535 1610 5.564048 GAGTATCTTGTACTCGTGGAAGT 57.436 43.478 0.00 0.00 35.23 3.01
1633 1737 9.268268 CAAACTCTGGATTAAAGTGTGTACTAA 57.732 33.333 0.00 0.00 35.69 2.24
1634 1738 8.644216 TCAAACTCTGGATTAAAGTGTGTACTA 58.356 33.333 0.00 0.00 35.69 1.82
1635 1739 7.506114 TCAAACTCTGGATTAAAGTGTGTACT 58.494 34.615 0.00 0.00 39.32 2.73
1636 1740 7.724305 TCAAACTCTGGATTAAAGTGTGTAC 57.276 36.000 0.00 0.00 31.47 2.90
1637 1741 8.783093 CATTCAAACTCTGGATTAAAGTGTGTA 58.217 33.333 0.00 0.00 31.47 2.90
1638 1742 7.285401 ACATTCAAACTCTGGATTAAAGTGTGT 59.715 33.333 0.00 0.00 31.47 3.72
1647 1782 5.011329 ACATTGCACATTCAAACTCTGGATT 59.989 36.000 0.00 0.00 0.00 3.01
1653 1788 6.774354 ATCAAACATTGCACATTCAAACTC 57.226 33.333 0.00 0.00 0.00 3.01
1671 1806 6.751425 GCACATGATACGGATTTCAAATCAAA 59.249 34.615 12.27 0.00 30.90 2.69
2045 2188 4.272504 GTGTTCTTGAACCGATCTTTGTCA 59.727 41.667 10.51 0.00 0.00 3.58
2146 2297 6.702329 TCCCGTGCATAAATAAACCATTTTT 58.298 32.000 0.00 0.00 37.93 1.94
2181 2334 7.015098 ACACATTTGTTGAGGACATCCATTAAA 59.985 33.333 0.00 0.00 38.26 1.52
2204 2357 6.427150 CAAATATTATTCGGTGCCACTACAC 58.573 40.000 0.00 0.00 39.94 2.90
2239 2395 1.803334 TCAAATAGACGGCCACACAC 58.197 50.000 2.24 0.00 0.00 3.82
2262 2418 4.000988 GAGAAAAATAACAGTCGGCCTGA 58.999 43.478 0.00 0.00 44.49 3.86
2265 2421 4.759516 TTGAGAAAAATAACAGTCGGCC 57.240 40.909 0.00 0.00 0.00 6.13
2276 2432 7.660030 ATCATTTACCCGGATTGAGAAAAAT 57.340 32.000 0.73 0.00 0.00 1.82
2282 2438 4.499696 GGCAAATCATTTACCCGGATTGAG 60.500 45.833 0.73 0.00 31.98 3.02
2283 2439 3.383185 GGCAAATCATTTACCCGGATTGA 59.617 43.478 0.73 0.00 31.98 2.57
2284 2440 3.131933 TGGCAAATCATTTACCCGGATTG 59.868 43.478 0.73 0.00 31.98 2.67
2285 2441 3.132111 GTGGCAAATCATTTACCCGGATT 59.868 43.478 0.73 0.00 32.90 3.01
2287 2443 2.096248 GTGGCAAATCATTTACCCGGA 58.904 47.619 0.73 0.00 0.00 5.14
2289 2445 3.799281 ATGTGGCAAATCATTTACCCG 57.201 42.857 0.00 0.00 0.00 5.28
2293 2449 9.461312 GGGAGTATATATGTGGCAAATCATTTA 57.539 33.333 0.00 0.00 0.00 1.40
2297 2453 6.296432 GGAGGGAGTATATATGTGGCAAATCA 60.296 42.308 0.00 0.00 0.00 2.57
2314 2470 5.015178 TCAACTAATTTGGAATGGAGGGAGT 59.985 40.000 0.00 0.00 35.69 3.85
2315 2471 5.509498 TCAACTAATTTGGAATGGAGGGAG 58.491 41.667 0.00 0.00 35.69 4.30
2316 2472 5.528600 TCAACTAATTTGGAATGGAGGGA 57.471 39.130 0.00 0.00 35.69 4.20
2317 2473 6.796785 AATCAACTAATTTGGAATGGAGGG 57.203 37.500 0.00 0.00 35.69 4.30
2318 2474 7.839907 TCAAATCAACTAATTTGGAATGGAGG 58.160 34.615 8.91 0.00 43.64 4.30
2319 2475 9.880157 ATTCAAATCAACTAATTTGGAATGGAG 57.120 29.630 8.91 0.00 43.64 3.86
2361 2517 9.470399 TCTGGACACTAAACAAGTATAGATACA 57.530 33.333 2.66 0.00 35.76 2.29
2365 2521 9.470399 TGTATCTGGACACTAAACAAGTATAGA 57.530 33.333 0.00 0.00 35.76 1.98
2368 2524 9.601217 GAATGTATCTGGACACTAAACAAGTAT 57.399 33.333 0.00 0.00 35.76 2.12
2369 2525 8.590204 TGAATGTATCTGGACACTAAACAAGTA 58.410 33.333 0.00 0.00 35.76 2.24
2370 2526 7.450074 TGAATGTATCTGGACACTAAACAAGT 58.550 34.615 0.00 0.00 39.81 3.16
2371 2527 7.905604 TGAATGTATCTGGACACTAAACAAG 57.094 36.000 0.00 0.00 30.52 3.16
2372 2528 7.882791 ACATGAATGTATCTGGACACTAAACAA 59.117 33.333 0.00 0.00 39.68 2.83
2373 2529 7.394016 ACATGAATGTATCTGGACACTAAACA 58.606 34.615 0.00 0.00 39.68 2.83
2374 2530 7.766278 AGACATGAATGTATCTGGACACTAAAC 59.234 37.037 0.00 0.00 41.95 2.01
2375 2531 7.851228 AGACATGAATGTATCTGGACACTAAA 58.149 34.615 0.00 0.00 41.95 1.85
2376 2532 7.423844 AGACATGAATGTATCTGGACACTAA 57.576 36.000 0.00 0.00 41.95 2.24
2377 2533 7.998964 TCTAGACATGAATGTATCTGGACACTA 59.001 37.037 0.00 0.00 41.95 2.74
2378 2534 5.946942 AGACATGAATGTATCTGGACACT 57.053 39.130 0.00 0.00 41.95 3.55
2379 2535 7.043961 TCTAGACATGAATGTATCTGGACAC 57.956 40.000 0.00 0.00 41.95 3.67
2380 2536 7.846101 ATCTAGACATGAATGTATCTGGACA 57.154 36.000 0.00 0.00 41.95 4.02
2408 2564 9.158233 CCTCCGTTTCAAATTACTTAACTCATA 57.842 33.333 0.00 0.00 0.00 2.15
2409 2565 7.120726 CCCTCCGTTTCAAATTACTTAACTCAT 59.879 37.037 0.00 0.00 0.00 2.90
2410 2566 6.428771 CCCTCCGTTTCAAATTACTTAACTCA 59.571 38.462 0.00 0.00 0.00 3.41
2411 2567 6.652062 TCCCTCCGTTTCAAATTACTTAACTC 59.348 38.462 0.00 0.00 0.00 3.01
2412 2568 6.536447 TCCCTCCGTTTCAAATTACTTAACT 58.464 36.000 0.00 0.00 0.00 2.24
2413 2569 6.429078 ACTCCCTCCGTTTCAAATTACTTAAC 59.571 38.462 0.00 0.00 0.00 2.01
2414 2570 6.536447 ACTCCCTCCGTTTCAAATTACTTAA 58.464 36.000 0.00 0.00 0.00 1.85
2415 2571 6.117975 ACTCCCTCCGTTTCAAATTACTTA 57.882 37.500 0.00 0.00 0.00 2.24
2416 2572 4.981812 ACTCCCTCCGTTTCAAATTACTT 58.018 39.130 0.00 0.00 0.00 2.24
2417 2573 4.635699 ACTCCCTCCGTTTCAAATTACT 57.364 40.909 0.00 0.00 0.00 2.24
2418 2574 6.997239 AATACTCCCTCCGTTTCAAATTAC 57.003 37.500 0.00 0.00 0.00 1.89
2419 2575 9.689501 AATTAATACTCCCTCCGTTTCAAATTA 57.310 29.630 0.00 0.00 0.00 1.40
2420 2576 8.589701 AATTAATACTCCCTCCGTTTCAAATT 57.410 30.769 0.00 0.00 0.00 1.82
2421 2577 9.689501 TTAATTAATACTCCCTCCGTTTCAAAT 57.310 29.630 0.00 0.00 0.00 2.32
2422 2578 9.169592 CTTAATTAATACTCCCTCCGTTTCAAA 57.830 33.333 0.00 0.00 0.00 2.69
2423 2579 8.542080 TCTTAATTAATACTCCCTCCGTTTCAA 58.458 33.333 0.00 0.00 0.00 2.69
2424 2580 8.081517 TCTTAATTAATACTCCCTCCGTTTCA 57.918 34.615 0.00 0.00 0.00 2.69
2425 2581 7.656542 CCTCTTAATTAATACTCCCTCCGTTTC 59.343 40.741 0.00 0.00 0.00 2.78
2426 2582 7.419865 CCCTCTTAATTAATACTCCCTCCGTTT 60.420 40.741 0.00 0.00 0.00 3.60
2427 2583 6.042897 CCCTCTTAATTAATACTCCCTCCGTT 59.957 42.308 0.00 0.00 0.00 4.44
2428 2584 5.543020 CCCTCTTAATTAATACTCCCTCCGT 59.457 44.000 0.00 0.00 0.00 4.69
2429 2585 5.778750 TCCCTCTTAATTAATACTCCCTCCG 59.221 44.000 0.00 0.00 0.00 4.63
2430 2586 6.557633 TGTCCCTCTTAATTAATACTCCCTCC 59.442 42.308 0.00 0.00 0.00 4.30
2431 2587 7.613551 TGTCCCTCTTAATTAATACTCCCTC 57.386 40.000 0.00 0.00 0.00 4.30
2432 2588 7.794683 TCATGTCCCTCTTAATTAATACTCCCT 59.205 37.037 0.00 0.00 0.00 4.20
2433 2589 7.974504 TCATGTCCCTCTTAATTAATACTCCC 58.025 38.462 0.00 0.00 0.00 4.30
2434 2590 8.652290 ACTCATGTCCCTCTTAATTAATACTCC 58.348 37.037 0.00 0.00 0.00 3.85
2437 2593 8.979574 CGAACTCATGTCCCTCTTAATTAATAC 58.020 37.037 0.00 0.00 0.00 1.89
2438 2594 8.920174 TCGAACTCATGTCCCTCTTAATTAATA 58.080 33.333 0.00 0.00 0.00 0.98
2439 2595 7.792032 TCGAACTCATGTCCCTCTTAATTAAT 58.208 34.615 0.00 0.00 0.00 1.40
2440 2596 7.177832 TCGAACTCATGTCCCTCTTAATTAA 57.822 36.000 0.00 0.00 0.00 1.40
2441 2597 6.785337 TCGAACTCATGTCCCTCTTAATTA 57.215 37.500 0.00 0.00 0.00 1.40
2442 2598 5.677319 TCGAACTCATGTCCCTCTTAATT 57.323 39.130 0.00 0.00 0.00 1.40
2470 2626 5.529430 TGTTGTAAGGGTGTGTTGTAATGAG 59.471 40.000 0.00 0.00 0.00 2.90
2472 2628 5.759506 TGTTGTAAGGGTGTGTTGTAATG 57.240 39.130 0.00 0.00 0.00 1.90
2473 2629 5.300792 CCTTGTTGTAAGGGTGTGTTGTAAT 59.699 40.000 0.00 0.00 33.79 1.89
2536 2693 1.153168 CTATGGGTGTCCTTGGGCG 60.153 63.158 0.00 0.00 0.00 6.13
2541 2698 2.590092 GGCGCTATGGGTGTCCTT 59.410 61.111 7.64 0.00 0.00 3.36
2542 2699 3.849951 CGGCGCTATGGGTGTCCT 61.850 66.667 7.64 0.00 0.00 3.85
2559 2716 1.457346 CAGAACATCAAGGTGGAGGC 58.543 55.000 0.00 0.00 0.00 4.70
2570 2727 4.261825 CCTCTTACGATCCTCCAGAACATC 60.262 50.000 0.00 0.00 0.00 3.06
2571 2728 3.639094 CCTCTTACGATCCTCCAGAACAT 59.361 47.826 0.00 0.00 0.00 2.71
2576 2733 2.621055 CACTCCTCTTACGATCCTCCAG 59.379 54.545 0.00 0.00 0.00 3.86
2618 2778 7.320443 TGGATAATTTGGAATGAGAGAAACG 57.680 36.000 0.00 0.00 0.00 3.60
2620 2780 9.182214 CTCTTGGATAATTTGGAATGAGAGAAA 57.818 33.333 0.00 0.00 31.05 2.52
2621 2781 8.551440 TCTCTTGGATAATTTGGAATGAGAGAA 58.449 33.333 0.00 0.00 34.63 2.87
2623 2783 7.444792 CCTCTCTTGGATAATTTGGAATGAGAG 59.555 40.741 0.00 0.00 41.72 3.20
2628 2788 6.067350 GCTCCTCTCTTGGATAATTTGGAAT 58.933 40.000 0.00 0.00 35.30 3.01
2629 2789 5.044919 TGCTCCTCTCTTGGATAATTTGGAA 60.045 40.000 0.00 0.00 35.30 3.53
2638 2807 1.890552 ACCATGCTCCTCTCTTGGAT 58.109 50.000 0.00 0.00 35.30 3.41
2640 2809 3.274288 GTTAACCATGCTCCTCTCTTGG 58.726 50.000 0.00 0.00 35.56 3.61
2641 2810 2.932614 CGTTAACCATGCTCCTCTCTTG 59.067 50.000 0.00 0.00 0.00 3.02
2648 2817 1.095807 GGCCTCGTTAACCATGCTCC 61.096 60.000 0.00 0.00 0.00 4.70
2666 2835 2.516930 CTACCCGCAAGCCCATGG 60.517 66.667 4.14 4.14 0.00 3.66
2667 2836 2.516930 CCTACCCGCAAGCCCATG 60.517 66.667 0.00 0.00 0.00 3.66
2671 2840 4.796495 CACCCCTACCCGCAAGCC 62.796 72.222 0.00 0.00 0.00 4.35
2672 2841 4.796495 CCACCCCTACCCGCAAGC 62.796 72.222 0.00 0.00 0.00 4.01
2673 2842 4.796495 GCCACCCCTACCCGCAAG 62.796 72.222 0.00 0.00 0.00 4.01
2679 2848 3.468140 GACGAGGCCACCCCTACC 61.468 72.222 5.01 0.00 46.60 3.18
2680 2849 2.682494 TGACGAGGCCACCCCTAC 60.682 66.667 5.01 0.00 46.60 3.18
2681 2850 2.238319 ATCTGACGAGGCCACCCCTA 62.238 60.000 5.01 0.00 46.60 3.53
2683 2852 1.749334 CTATCTGACGAGGCCACCCC 61.749 65.000 5.01 0.00 0.00 4.95
2684 2853 0.755698 TCTATCTGACGAGGCCACCC 60.756 60.000 5.01 0.00 0.00 4.61
2685 2854 0.386113 GTCTATCTGACGAGGCCACC 59.614 60.000 5.01 0.00 35.81 4.61
2686 2855 0.386113 GGTCTATCTGACGAGGCCAC 59.614 60.000 5.01 0.00 46.24 5.01
2687 2856 1.101635 CGGTCTATCTGACGAGGCCA 61.102 60.000 5.01 0.00 46.24 5.36
2688 2857 0.818445 TCGGTCTATCTGACGAGGCC 60.818 60.000 0.00 0.00 46.24 5.19
2689 2858 1.198178 GATCGGTCTATCTGACGAGGC 59.802 57.143 0.00 0.00 46.24 4.70
2690 2859 1.807742 GGATCGGTCTATCTGACGAGG 59.192 57.143 0.00 0.00 46.24 4.63
2691 2860 2.495084 TGGATCGGTCTATCTGACGAG 58.505 52.381 0.00 0.00 46.24 4.18
2692 2861 2.632987 TGGATCGGTCTATCTGACGA 57.367 50.000 0.00 0.00 46.24 4.20
2693 2862 2.814336 TGATGGATCGGTCTATCTGACG 59.186 50.000 20.98 0.00 46.24 4.35
2706 2875 1.281867 TCCACCAAGGTGTGATGGATC 59.718 52.381 17.36 0.00 44.02 3.36
2712 2881 0.762418 AATCGTCCACCAAGGTGTGA 59.238 50.000 17.36 12.23 44.02 3.58
2727 2896 3.205338 TGATACTTCCACATGGCAATCG 58.795 45.455 0.00 0.00 34.44 3.34
2728 2897 5.126061 ACTTTGATACTTCCACATGGCAATC 59.874 40.000 0.00 0.00 34.44 2.67
2729 2898 5.018809 ACTTTGATACTTCCACATGGCAAT 58.981 37.500 0.00 0.00 34.44 3.56
2730 2899 4.218200 CACTTTGATACTTCCACATGGCAA 59.782 41.667 0.00 0.00 34.44 4.52
2743 2918 4.034975 GCTTCAGCTGGATCACTTTGATAC 59.965 45.833 15.13 0.00 38.21 2.24
2750 2925 0.694771 TTGGCTTCAGCTGGATCACT 59.305 50.000 15.13 0.00 41.70 3.41
2759 2934 4.201783 GCATGATCAAAATTTGGCTTCAGC 60.202 41.667 5.83 8.53 41.14 4.26
2782 2957 2.017049 CTTCACGCTAAGGATTTGGGG 58.983 52.381 0.00 0.00 38.02 4.96
2814 2989 4.599047 AGAATCGGTGGATCATCTCTTC 57.401 45.455 0.00 0.00 30.81 2.87
2815 2990 4.406972 TCAAGAATCGGTGGATCATCTCTT 59.593 41.667 0.00 0.00 30.01 2.85
2816 2991 3.963374 TCAAGAATCGGTGGATCATCTCT 59.037 43.478 0.00 0.00 30.81 3.10
2817 2992 4.327982 TCAAGAATCGGTGGATCATCTC 57.672 45.455 0.00 0.00 30.81 2.75
2818 2993 4.163078 AGTTCAAGAATCGGTGGATCATCT 59.837 41.667 0.00 0.00 30.81 2.90
2819 2994 4.446371 AGTTCAAGAATCGGTGGATCATC 58.554 43.478 0.00 0.00 30.81 2.92
2820 2995 4.494091 AGTTCAAGAATCGGTGGATCAT 57.506 40.909 0.00 0.00 30.81 2.45
2821 2996 3.981071 AGTTCAAGAATCGGTGGATCA 57.019 42.857 0.00 0.00 30.81 2.92
2822 2997 3.181506 GCAAGTTCAAGAATCGGTGGATC 60.182 47.826 0.00 0.00 30.81 3.36
2823 2998 2.749621 GCAAGTTCAAGAATCGGTGGAT 59.250 45.455 0.00 0.00 0.00 3.41
2824 2999 2.151202 GCAAGTTCAAGAATCGGTGGA 58.849 47.619 0.00 0.00 0.00 4.02
2825 3000 2.154462 AGCAAGTTCAAGAATCGGTGG 58.846 47.619 0.00 0.00 0.00 4.61
2826 3001 3.558505 CAAGCAAGTTCAAGAATCGGTG 58.441 45.455 0.00 0.00 0.00 4.94
2827 3002 2.030805 GCAAGCAAGTTCAAGAATCGGT 60.031 45.455 0.00 0.00 0.00 4.69
2828 3003 2.030893 TGCAAGCAAGTTCAAGAATCGG 60.031 45.455 0.00 0.00 0.00 4.18
2829 3004 2.975851 GTGCAAGCAAGTTCAAGAATCG 59.024 45.455 0.00 0.00 0.00 3.34
2830 3005 3.968649 TGTGCAAGCAAGTTCAAGAATC 58.031 40.909 0.00 0.00 0.00 2.52
2831 3006 4.389890 TTGTGCAAGCAAGTTCAAGAAT 57.610 36.364 0.00 0.00 0.00 2.40
2832 3007 3.865011 TTGTGCAAGCAAGTTCAAGAA 57.135 38.095 0.00 0.00 0.00 2.52
2833 3008 3.429272 CCTTTGTGCAAGCAAGTTCAAGA 60.429 43.478 0.00 0.00 0.00 3.02
2834 3009 2.861935 CCTTTGTGCAAGCAAGTTCAAG 59.138 45.455 0.00 0.00 0.00 3.02
2835 3010 2.418471 CCCTTTGTGCAAGCAAGTTCAA 60.418 45.455 0.00 0.00 0.00 2.69
2836 3011 1.136695 CCCTTTGTGCAAGCAAGTTCA 59.863 47.619 0.00 0.00 0.00 3.18
2840 3015 0.034337 ATGCCCTTTGTGCAAGCAAG 59.966 50.000 0.00 0.00 42.92 4.01
2842 3017 0.889994 CTATGCCCTTTGTGCAAGCA 59.110 50.000 0.00 0.00 42.92 3.91
2844 3019 1.474077 GGTCTATGCCCTTTGTGCAAG 59.526 52.381 0.00 0.00 42.92 4.01
2845 3020 1.202989 TGGTCTATGCCCTTTGTGCAA 60.203 47.619 0.00 0.00 42.92 4.08
2849 3024 1.423541 TGTGTGGTCTATGCCCTTTGT 59.576 47.619 0.00 0.00 0.00 2.83
2850 3025 2.198827 TGTGTGGTCTATGCCCTTTG 57.801 50.000 0.00 0.00 0.00 2.77
2852 3027 1.705186 AGTTGTGTGGTCTATGCCCTT 59.295 47.619 0.00 0.00 0.00 3.95
2853 3028 1.003580 CAGTTGTGTGGTCTATGCCCT 59.996 52.381 0.00 0.00 0.00 5.19
2857 3032 7.848223 TCATAAATCAGTTGTGTGGTCTATG 57.152 36.000 0.00 0.00 30.70 2.23
2890 3086 0.954452 GCAGAACCTGGGTGTTTCTG 59.046 55.000 16.40 16.40 31.21 3.02
2900 3096 1.400242 GCTTTTAGCGTGCAGAACCTG 60.400 52.381 0.00 0.00 34.12 4.00
2910 3106 0.251165 ACCCATGGTGCTTTTAGCGT 60.251 50.000 11.73 0.00 46.26 5.07
2951 3147 3.855689 AAAGCAATTGTGAGGATTCCG 57.144 42.857 7.40 0.00 0.00 4.30
3043 3515 2.093447 ACTACCTCGGCTTCCTTTGATG 60.093 50.000 0.00 0.00 0.00 3.07
3067 4157 9.476202 TGATTAATCTCATTAACTATGACACCG 57.524 33.333 16.24 0.00 38.35 4.94


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

AutoCloner maintained by Alex Coulton.