Multiple sequence alignment - TraesCS5D01G239300

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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 TraesCS5D01G239300 chr5D 100.000 2582 0 0 1 2582 347378359 347375778 0.000000e+00 4769
1 TraesCS5D01G239300 chr5D 93.780 1045 27 21 1 1043 347385782 347384774 0.000000e+00 1535
2 TraesCS5D01G239300 chr5D 96.189 551 21 0 1043 1593 353958077 353958627 0.000000e+00 902
3 TraesCS5D01G239300 chr5D 94.737 551 27 2 1043 1593 391995663 391996211 0.000000e+00 856
4 TraesCS5D01G239300 chr5D 99.010 202 2 0 2381 2582 453848220 453848421 1.890000e-96 363
5 TraesCS5D01G239300 chr3D 96.854 1049 24 7 1 1043 542097503 542098548 0.000000e+00 1746
6 TraesCS5D01G239300 chr3D 96.374 1048 32 6 1 1043 542104749 542105795 0.000000e+00 1720
7 TraesCS5D01G239300 chr3D 95.463 551 25 0 1043 1593 55164588 55165138 0.000000e+00 880
8 TraesCS5D01G239300 chr3D 95.281 551 25 1 1043 1593 124067935 124067386 0.000000e+00 872
9 TraesCS5D01G239300 chr3D 88.925 307 31 3 103 407 72463330 72463025 2.430000e-100 375
10 TraesCS5D01G239300 chr2A 94.730 759 24 9 1636 2380 297567867 297568623 0.000000e+00 1166
11 TraesCS5D01G239300 chr2A 93.298 761 33 10 1636 2380 297519891 297520649 0.000000e+00 1107
12 TraesCS5D01G239300 chr2A 86.585 164 14 3 887 1042 356518753 356518590 9.500000e-40 174
13 TraesCS5D01G239300 chr7A 93.783 756 32 11 1636 2380 726524409 726523658 0.000000e+00 1122
14 TraesCS5D01G239300 chr7A 94.918 551 28 0 1043 1593 25851303 25851853 0.000000e+00 863
15 TraesCS5D01G239300 chr7A 85.073 757 84 20 283 1022 186258488 186257744 0.000000e+00 745
16 TraesCS5D01G239300 chr6B 91.755 752 47 8 1637 2380 542972677 542971933 0.000000e+00 1031
17 TraesCS5D01G239300 chr6B 91.645 754 46 12 1637 2380 542989599 542988853 0.000000e+00 1027
18 TraesCS5D01G239300 chr6B 91.053 760 50 7 1637 2380 272645616 272644859 0.000000e+00 1011
19 TraesCS5D01G239300 chr6B 90.897 758 51 12 1637 2380 272683744 272682991 0.000000e+00 1002
20 TraesCS5D01G239300 chr2B 91.534 756 46 12 1637 2380 793681549 793680800 0.000000e+00 1026
21 TraesCS5D01G239300 chr2B 92.794 569 29 7 353 914 305753995 305753432 0.000000e+00 813
22 TraesCS5D01G239300 chr5B 91.368 753 50 8 1637 2380 18200281 18199535 0.000000e+00 1016
23 TraesCS5D01G239300 chr3A 94.737 551 28 1 1043 1593 145634720 145635269 0.000000e+00 856
24 TraesCS5D01G239300 chr3A 83.812 383 26 5 1 381 736417802 736418150 5.330000e-87 331
25 TraesCS5D01G239300 chr1D 94.881 547 28 0 1043 1589 209756618 209757164 0.000000e+00 856
26 TraesCS5D01G239300 chr1D 93.455 382 24 1 1 381 415873176 415873557 1.340000e-157 566
27 TraesCS5D01G239300 chr1D 92.308 377 21 4 1 377 415849083 415849451 1.760000e-146 529
28 TraesCS5D01G239300 chr1D 96.682 211 6 1 2373 2582 396204678 396204468 1.470000e-92 350
29 TraesCS5D01G239300 chr1D 93.865 163 8 2 886 1046 447047195 447047357 7.140000e-61 244
30 TraesCS5D01G239300 chr7D 94.718 549 29 0 1043 1591 131324860 131325408 0.000000e+00 854
31 TraesCS5D01G239300 chr7D 98.522 203 2 1 2380 2582 611303045 611303246 8.790000e-95 357
32 TraesCS5D01G239300 chr6D 94.555 551 30 0 1043 1593 56320306 56320856 0.000000e+00 852
33 TraesCS5D01G239300 chr4D 88.218 679 51 19 303 963 427530877 427531544 0.000000e+00 784
34 TraesCS5D01G239300 chr4D 89.151 636 44 17 345 963 427524954 427525581 0.000000e+00 769
35 TraesCS5D01G239300 chr4D 98.515 202 2 1 2381 2582 100802575 100802775 3.160000e-94 355
36 TraesCS5D01G239300 chr4D 98.515 202 2 1 2381 2582 504204732 504204932 3.160000e-94 355
37 TraesCS5D01G239300 chr4D 96.698 212 5 2 2372 2582 384251859 384252069 4.090000e-93 351
38 TraesCS5D01G239300 chr4D 96.262 214 4 3 2371 2582 88787164 88786953 5.290000e-92 348
39 TraesCS5D01G239300 chr6A 86.733 701 65 21 283 963 83791355 83790663 0.000000e+00 754
40 TraesCS5D01G239300 chr6A 95.392 217 10 0 1 217 503734571 503734355 1.900000e-91 346
41 TraesCS5D01G239300 chr6A 91.925 161 11 2 885 1043 186356886 186357046 9.300000e-55 224
42 TraesCS5D01G239300 chrUn 86.182 702 68 22 283 963 386180950 386180257 0.000000e+00 732
43 TraesCS5D01G239300 chr5A 83.505 388 58 5 1 385 14069123 14069507 8.790000e-95 357
44 TraesCS5D01G239300 chr5A 92.340 235 13 5 2348 2582 610477837 610478066 1.920000e-86 329
45 TraesCS5D01G239300 chr5A 88.571 210 24 0 2 211 233942735 233942944 3.300000e-64 255
46 TraesCS5D01G239300 chr2D 98.515 202 2 1 2381 2582 620395203 620395003 3.160000e-94 355
47 TraesCS5D01G239300 chr1A 88.929 280 28 3 121 397 76396003 76395724 2.460000e-90 342
48 TraesCS5D01G239300 chr4A 91.241 137 11 1 908 1043 405327226 405327362 4.390000e-43 185
49 TraesCS5D01G239300 chr4A 81.203 133 20 5 914 1043 377291745 377291875 4.550000e-18 102


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 TraesCS5D01G239300 chr5D 347375778 347378359 2581 True 4769 4769 100.000 1 2582 1 chr5D.!!$R1 2581
1 TraesCS5D01G239300 chr5D 347384774 347385782 1008 True 1535 1535 93.780 1 1043 1 chr5D.!!$R2 1042
2 TraesCS5D01G239300 chr5D 353958077 353958627 550 False 902 902 96.189 1043 1593 1 chr5D.!!$F1 550
3 TraesCS5D01G239300 chr5D 391995663 391996211 548 False 856 856 94.737 1043 1593 1 chr5D.!!$F2 550
4 TraesCS5D01G239300 chr3D 542097503 542098548 1045 False 1746 1746 96.854 1 1043 1 chr3D.!!$F2 1042
5 TraesCS5D01G239300 chr3D 542104749 542105795 1046 False 1720 1720 96.374 1 1043 1 chr3D.!!$F3 1042
6 TraesCS5D01G239300 chr3D 55164588 55165138 550 False 880 880 95.463 1043 1593 1 chr3D.!!$F1 550
7 TraesCS5D01G239300 chr3D 124067386 124067935 549 True 872 872 95.281 1043 1593 1 chr3D.!!$R2 550
8 TraesCS5D01G239300 chr2A 297567867 297568623 756 False 1166 1166 94.730 1636 2380 1 chr2A.!!$F2 744
9 TraesCS5D01G239300 chr2A 297519891 297520649 758 False 1107 1107 93.298 1636 2380 1 chr2A.!!$F1 744
10 TraesCS5D01G239300 chr7A 726523658 726524409 751 True 1122 1122 93.783 1636 2380 1 chr7A.!!$R2 744
11 TraesCS5D01G239300 chr7A 25851303 25851853 550 False 863 863 94.918 1043 1593 1 chr7A.!!$F1 550
12 TraesCS5D01G239300 chr7A 186257744 186258488 744 True 745 745 85.073 283 1022 1 chr7A.!!$R1 739
13 TraesCS5D01G239300 chr6B 542971933 542972677 744 True 1031 1031 91.755 1637 2380 1 chr6B.!!$R3 743
14 TraesCS5D01G239300 chr6B 542988853 542989599 746 True 1027 1027 91.645 1637 2380 1 chr6B.!!$R4 743
15 TraesCS5D01G239300 chr6B 272644859 272645616 757 True 1011 1011 91.053 1637 2380 1 chr6B.!!$R1 743
16 TraesCS5D01G239300 chr6B 272682991 272683744 753 True 1002 1002 90.897 1637 2380 1 chr6B.!!$R2 743
17 TraesCS5D01G239300 chr2B 793680800 793681549 749 True 1026 1026 91.534 1637 2380 1 chr2B.!!$R2 743
18 TraesCS5D01G239300 chr2B 305753432 305753995 563 True 813 813 92.794 353 914 1 chr2B.!!$R1 561
19 TraesCS5D01G239300 chr5B 18199535 18200281 746 True 1016 1016 91.368 1637 2380 1 chr5B.!!$R1 743
20 TraesCS5D01G239300 chr3A 145634720 145635269 549 False 856 856 94.737 1043 1593 1 chr3A.!!$F1 550
21 TraesCS5D01G239300 chr1D 209756618 209757164 546 False 856 856 94.881 1043 1589 1 chr1D.!!$F1 546
22 TraesCS5D01G239300 chr7D 131324860 131325408 548 False 854 854 94.718 1043 1591 1 chr7D.!!$F1 548
23 TraesCS5D01G239300 chr6D 56320306 56320856 550 False 852 852 94.555 1043 1593 1 chr6D.!!$F1 550
24 TraesCS5D01G239300 chr4D 427530877 427531544 667 False 784 784 88.218 303 963 1 chr4D.!!$F4 660
25 TraesCS5D01G239300 chr4D 427524954 427525581 627 False 769 769 89.151 345 963 1 chr4D.!!$F3 618
26 TraesCS5D01G239300 chr6A 83790663 83791355 692 True 754 754 86.733 283 963 1 chr6A.!!$R1 680
27 TraesCS5D01G239300 chrUn 386180257 386180950 693 True 732 732 86.182 283 963 1 chrUn.!!$R1 680

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
275 276 1.353804 GAACGCGTTGGCAAAGTGA 59.646 52.632 31.89 0.0 39.92 3.41 F
1095 1122 1.342174 CTTGACAACAAGGGCAAGCAT 59.658 47.619 0.00 0.0 46.67 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1462 1489 0.249911 AGGAGCTTGAACGTCACCAC 60.250 55.0 0.00 0.0 0.0 4.16 R
2408 2474 0.181824 TAAAGCGCCTATTCACCCCC 59.818 55.0 2.29 0.0 0.0 5.40 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
80 81 2.607750 AGAGGGGAAAGAGGCGCA 60.608 61.111 10.83 0.00 0.00 6.09
232 233 3.123157 GCACTGGTCAGAGCATATGAT 57.877 47.619 6.97 0.00 43.16 2.45
244 245 4.697828 AGAGCATATGATGTAGTCGACGAT 59.302 41.667 10.46 3.62 0.00 3.73
275 276 1.353804 GAACGCGTTGGCAAAGTGA 59.646 52.632 31.89 0.00 39.92 3.41
1095 1122 1.342174 CTTGACAACAAGGGCAAGCAT 59.658 47.619 0.00 0.00 46.67 3.79
1155 1182 1.664321 CCGTCGAGGAAGACCCGAAT 61.664 60.000 6.70 0.00 45.00 3.34
1224 1251 2.484062 GCGCTGCAACTATGGCCAT 61.484 57.895 24.45 24.45 0.00 4.40
1395 1422 2.350522 GTGACGGTCAAGCTGATGAAT 58.649 47.619 13.23 0.00 0.00 2.57
1462 1489 3.057946 TCATCAGATCAAGATCGGCTACG 60.058 47.826 5.48 0.00 42.48 3.51
1489 1516 0.980423 GTTCAAGCTCCTCACTCCCT 59.020 55.000 0.00 0.00 0.00 4.20
1576 1603 2.814238 GAAGCCTTCGCCGCTAAGC 61.814 63.158 0.00 0.00 34.84 3.09
1600 1627 4.947147 GCCGGGCCACTGTTGACA 62.947 66.667 8.12 0.00 0.00 3.58
1773 1815 9.130661 CAAACAAGATAACATATGGGATGGTTA 57.869 33.333 7.80 0.00 0.00 2.85
1900 1952 7.997107 AAAAAGATGTAGCATGCATGTATTG 57.003 32.000 26.79 4.04 43.13 1.90
1949 2001 6.249035 TCACTCGTTAAAATGAAATGACCC 57.751 37.500 0.00 0.00 0.00 4.46
2318 2375 6.168270 AGAGCTCTGGAAATAATGTACCTC 57.832 41.667 17.42 0.00 0.00 3.85
2380 2446 4.783764 TCACTCTGTATCAATGACGTGT 57.216 40.909 0.00 0.00 0.00 4.49
2381 2447 4.485163 TCACTCTGTATCAATGACGTGTG 58.515 43.478 0.00 0.00 0.00 3.82
2382 2448 4.217550 TCACTCTGTATCAATGACGTGTGA 59.782 41.667 0.00 0.00 0.00 3.58
2383 2449 4.923281 CACTCTGTATCAATGACGTGTGAA 59.077 41.667 0.00 0.00 0.00 3.18
2384 2450 5.405269 CACTCTGTATCAATGACGTGTGAAA 59.595 40.000 0.00 0.00 0.00 2.69
2385 2451 5.635280 ACTCTGTATCAATGACGTGTGAAAG 59.365 40.000 0.00 0.00 0.00 2.62
2386 2452 5.778862 TCTGTATCAATGACGTGTGAAAGA 58.221 37.500 0.00 0.00 0.00 2.52
2387 2453 6.398095 TCTGTATCAATGACGTGTGAAAGAT 58.602 36.000 0.00 0.00 0.00 2.40
2388 2454 6.531594 TCTGTATCAATGACGTGTGAAAGATC 59.468 38.462 0.00 0.00 0.00 2.75
2389 2455 4.847365 ATCAATGACGTGTGAAAGATCG 57.153 40.909 0.00 0.00 0.00 3.69
2390 2456 3.649073 TCAATGACGTGTGAAAGATCGT 58.351 40.909 0.00 0.00 39.21 3.73
2391 2457 3.428534 TCAATGACGTGTGAAAGATCGTG 59.571 43.478 0.00 0.00 36.67 4.35
2392 2458 1.778334 TGACGTGTGAAAGATCGTGG 58.222 50.000 0.00 0.00 36.67 4.94
2393 2459 1.338655 TGACGTGTGAAAGATCGTGGA 59.661 47.619 0.00 0.00 36.67 4.02
2394 2460 2.029380 TGACGTGTGAAAGATCGTGGAT 60.029 45.455 0.00 0.00 36.67 3.41
2395 2461 2.337583 ACGTGTGAAAGATCGTGGATG 58.662 47.619 0.00 0.00 35.24 3.51
2396 2462 2.288825 ACGTGTGAAAGATCGTGGATGT 60.289 45.455 0.00 0.00 35.24 3.06
2397 2463 2.345641 CGTGTGAAAGATCGTGGATGTC 59.654 50.000 0.00 0.00 0.00 3.06
2398 2464 2.345641 GTGTGAAAGATCGTGGATGTCG 59.654 50.000 0.00 0.00 0.00 4.35
2399 2465 1.324736 GTGAAAGATCGTGGATGTCGC 59.675 52.381 0.00 0.00 0.00 5.19
2400 2466 0.931005 GAAAGATCGTGGATGTCGCC 59.069 55.000 0.00 0.00 0.00 5.54
2401 2467 0.537188 AAAGATCGTGGATGTCGCCT 59.463 50.000 0.00 0.00 0.00 5.52
2402 2468 1.399714 AAGATCGTGGATGTCGCCTA 58.600 50.000 0.00 0.00 0.00 3.93
2403 2469 0.955178 AGATCGTGGATGTCGCCTAG 59.045 55.000 0.00 0.00 0.00 3.02
2404 2470 0.952280 GATCGTGGATGTCGCCTAGA 59.048 55.000 0.00 0.00 0.00 2.43
2405 2471 0.955178 ATCGTGGATGTCGCCTAGAG 59.045 55.000 0.00 0.00 0.00 2.43
2406 2472 1.101635 TCGTGGATGTCGCCTAGAGG 61.102 60.000 0.00 0.00 38.53 3.69
2407 2473 1.742768 GTGGATGTCGCCTAGAGGG 59.257 63.158 0.00 0.00 35.18 4.30
2409 2475 2.210711 GGATGTCGCCTAGAGGGGG 61.211 68.421 12.32 0.23 46.90 5.40
2425 2491 2.595655 GGGGGTGAATAGGCGCTT 59.404 61.111 7.64 0.52 0.00 4.68
2426 2492 1.076995 GGGGGTGAATAGGCGCTTT 60.077 57.895 7.64 0.00 0.00 3.51
2427 2493 0.181824 GGGGGTGAATAGGCGCTTTA 59.818 55.000 7.64 0.23 0.00 1.85
2428 2494 1.409101 GGGGGTGAATAGGCGCTTTAA 60.409 52.381 7.64 0.00 0.00 1.52
2429 2495 2.371306 GGGGTGAATAGGCGCTTTAAA 58.629 47.619 7.64 0.00 0.00 1.52
2430 2496 2.756207 GGGGTGAATAGGCGCTTTAAAA 59.244 45.455 7.64 0.00 0.00 1.52
2431 2497 3.383505 GGGGTGAATAGGCGCTTTAAAAT 59.616 43.478 7.64 0.00 0.00 1.82
2432 2498 4.581409 GGGGTGAATAGGCGCTTTAAAATA 59.419 41.667 7.64 0.00 0.00 1.40
2433 2499 5.068067 GGGGTGAATAGGCGCTTTAAAATAA 59.932 40.000 7.64 0.00 0.00 1.40
2434 2500 6.239204 GGGGTGAATAGGCGCTTTAAAATAAT 60.239 38.462 7.64 0.00 0.00 1.28
2435 2501 7.207383 GGGTGAATAGGCGCTTTAAAATAATT 58.793 34.615 7.64 0.00 0.00 1.40
2436 2502 8.354426 GGGTGAATAGGCGCTTTAAAATAATTA 58.646 33.333 7.64 0.00 0.00 1.40
2437 2503 9.177304 GGTGAATAGGCGCTTTAAAATAATTAC 57.823 33.333 7.64 0.00 0.00 1.89
2438 2504 8.889000 GTGAATAGGCGCTTTAAAATAATTACG 58.111 33.333 7.64 0.00 0.00 3.18
2439 2505 8.071368 TGAATAGGCGCTTTAAAATAATTACGG 58.929 33.333 7.64 0.00 0.00 4.02
2440 2506 5.823209 AGGCGCTTTAAAATAATTACGGT 57.177 34.783 7.64 0.00 0.00 4.83
2441 2507 6.198650 AGGCGCTTTAAAATAATTACGGTT 57.801 33.333 7.64 0.00 0.00 4.44
2442 2508 6.623486 AGGCGCTTTAAAATAATTACGGTTT 58.377 32.000 7.64 0.00 0.00 3.27
2443 2509 7.760437 AGGCGCTTTAAAATAATTACGGTTTA 58.240 30.769 7.64 0.00 0.00 2.01
2444 2510 7.911727 AGGCGCTTTAAAATAATTACGGTTTAG 59.088 33.333 7.64 0.00 0.00 1.85
2445 2511 7.166307 GGCGCTTTAAAATAATTACGGTTTAGG 59.834 37.037 7.64 0.00 0.00 2.69
2446 2512 7.305590 GCGCTTTAAAATAATTACGGTTTAGGC 60.306 37.037 0.00 2.57 0.00 3.93
2447 2513 7.911727 CGCTTTAAAATAATTACGGTTTAGGCT 59.088 33.333 0.00 0.00 0.00 4.58
2448 2514 9.577110 GCTTTAAAATAATTACGGTTTAGGCTT 57.423 29.630 0.00 0.00 0.00 4.35
2452 2518 8.975410 AAAATAATTACGGTTTAGGCTTGAAC 57.025 30.769 0.00 0.00 0.00 3.18
2453 2519 7.690952 AATAATTACGGTTTAGGCTTGAACA 57.309 32.000 5.84 0.00 0.00 3.18
2454 2520 7.690952 ATAATTACGGTTTAGGCTTGAACAA 57.309 32.000 5.84 0.00 0.00 2.83
2455 2521 6.394025 AATTACGGTTTAGGCTTGAACAAA 57.606 33.333 5.84 0.00 0.00 2.83
2456 2522 6.584185 ATTACGGTTTAGGCTTGAACAAAT 57.416 33.333 5.84 0.26 0.00 2.32
2457 2523 4.237349 ACGGTTTAGGCTTGAACAAATG 57.763 40.909 5.84 0.00 0.00 2.32
2458 2524 2.986479 CGGTTTAGGCTTGAACAAATGC 59.014 45.455 5.84 0.00 0.00 3.56
2459 2525 2.986479 GGTTTAGGCTTGAACAAATGCG 59.014 45.455 5.84 0.00 0.00 4.73
2460 2526 2.986479 GTTTAGGCTTGAACAAATGCGG 59.014 45.455 0.00 0.00 0.00 5.69
2461 2527 2.192664 TAGGCTTGAACAAATGCGGA 57.807 45.000 0.00 0.00 0.00 5.54
2462 2528 1.327303 AGGCTTGAACAAATGCGGAA 58.673 45.000 0.00 0.00 0.00 4.30
2463 2529 1.895131 AGGCTTGAACAAATGCGGAAT 59.105 42.857 0.00 0.00 0.00 3.01
2464 2530 3.088532 AGGCTTGAACAAATGCGGAATA 58.911 40.909 0.00 0.00 0.00 1.75
2465 2531 3.509575 AGGCTTGAACAAATGCGGAATAA 59.490 39.130 0.00 0.00 0.00 1.40
2466 2532 4.021544 AGGCTTGAACAAATGCGGAATAAA 60.022 37.500 0.00 0.00 0.00 1.40
2467 2533 4.091365 GGCTTGAACAAATGCGGAATAAAC 59.909 41.667 0.00 0.00 0.00 2.01
2468 2534 4.091365 GCTTGAACAAATGCGGAATAAACC 59.909 41.667 0.00 0.00 0.00 3.27
2469 2535 5.461032 TTGAACAAATGCGGAATAAACCT 57.539 34.783 0.00 0.00 0.00 3.50
2470 2536 6.576662 TTGAACAAATGCGGAATAAACCTA 57.423 33.333 0.00 0.00 0.00 3.08
2471 2537 6.189677 TGAACAAATGCGGAATAAACCTAG 57.810 37.500 0.00 0.00 0.00 3.02
2472 2538 4.632538 ACAAATGCGGAATAAACCTAGC 57.367 40.909 0.00 0.00 0.00 3.42
2473 2539 3.064820 ACAAATGCGGAATAAACCTAGCG 59.935 43.478 0.00 0.00 0.00 4.26
2474 2540 1.878953 ATGCGGAATAAACCTAGCGG 58.121 50.000 0.00 0.00 0.00 5.52
2488 2554 3.439129 ACCTAGCGGTTAATTTGTCAAGC 59.561 43.478 0.00 0.00 42.13 4.01
2489 2555 3.438781 CCTAGCGGTTAATTTGTCAAGCA 59.561 43.478 0.00 0.00 0.00 3.91
2490 2556 3.282831 AGCGGTTAATTTGTCAAGCAC 57.717 42.857 0.00 0.00 0.00 4.40
2491 2557 2.621055 AGCGGTTAATTTGTCAAGCACA 59.379 40.909 0.00 0.00 0.00 4.57
2492 2558 3.067461 AGCGGTTAATTTGTCAAGCACAA 59.933 39.130 0.00 0.00 43.68 3.33
2502 2568 5.590530 TTGTCAAGCACAAAACCTACAAT 57.409 34.783 0.00 0.00 42.35 2.71
2503 2569 6.701145 TTGTCAAGCACAAAACCTACAATA 57.299 33.333 0.00 0.00 42.35 1.90
2504 2570 6.701145 TGTCAAGCACAAAACCTACAATAA 57.299 33.333 0.00 0.00 29.30 1.40
2505 2571 6.500041 TGTCAAGCACAAAACCTACAATAAC 58.500 36.000 0.00 0.00 29.30 1.89
2506 2572 6.320164 TGTCAAGCACAAAACCTACAATAACT 59.680 34.615 0.00 0.00 29.30 2.24
2507 2573 7.499563 TGTCAAGCACAAAACCTACAATAACTA 59.500 33.333 0.00 0.00 29.30 2.24
2508 2574 8.015658 GTCAAGCACAAAACCTACAATAACTAG 58.984 37.037 0.00 0.00 0.00 2.57
2509 2575 7.174253 TCAAGCACAAAACCTACAATAACTAGG 59.826 37.037 0.00 0.00 37.40 3.02
2510 2576 5.414765 AGCACAAAACCTACAATAACTAGGC 59.585 40.000 0.00 0.00 35.04 3.93
2511 2577 5.414765 GCACAAAACCTACAATAACTAGGCT 59.585 40.000 0.00 0.00 35.04 4.58
2512 2578 6.403309 GCACAAAACCTACAATAACTAGGCTC 60.403 42.308 0.00 0.00 35.04 4.70
2513 2579 6.653320 CACAAAACCTACAATAACTAGGCTCA 59.347 38.462 0.00 0.00 35.04 4.26
2514 2580 6.653740 ACAAAACCTACAATAACTAGGCTCAC 59.346 38.462 0.00 0.00 35.04 3.51
2515 2581 5.354842 AACCTACAATAACTAGGCTCACC 57.645 43.478 0.00 0.00 35.04 4.02
2525 2591 4.225497 GGCTCACCTATGTGCACC 57.775 61.111 15.69 0.00 45.29 5.01
2526 2592 1.299648 GGCTCACCTATGTGCACCA 59.700 57.895 15.69 2.61 45.29 4.17
2527 2593 0.322456 GGCTCACCTATGTGCACCAA 60.322 55.000 15.69 0.65 45.29 3.67
2528 2594 0.804989 GCTCACCTATGTGCACCAAC 59.195 55.000 15.69 0.00 43.41 3.77
2529 2595 1.881925 GCTCACCTATGTGCACCAACA 60.882 52.381 15.69 0.00 43.41 3.33
2530 2596 2.503331 CTCACCTATGTGCACCAACAA 58.497 47.619 15.69 0.00 42.46 2.83
2531 2597 2.226330 TCACCTATGTGCACCAACAAC 58.774 47.619 15.69 0.00 42.46 3.32
2532 2598 2.158682 TCACCTATGTGCACCAACAACT 60.159 45.455 15.69 0.00 42.46 3.16
2533 2599 2.622942 CACCTATGTGCACCAACAACTT 59.377 45.455 15.69 0.00 35.31 2.66
2534 2600 3.818210 CACCTATGTGCACCAACAACTTA 59.182 43.478 15.69 0.00 35.31 2.24
2535 2601 4.458989 CACCTATGTGCACCAACAACTTAT 59.541 41.667 15.69 0.00 35.31 1.73
2536 2602 4.458989 ACCTATGTGCACCAACAACTTATG 59.541 41.667 15.69 0.00 32.81 1.90
2537 2603 2.791383 TGTGCACCAACAACTTATGC 57.209 45.000 15.69 0.00 36.81 3.14
2538 2604 2.305928 TGTGCACCAACAACTTATGCT 58.694 42.857 15.69 0.00 37.20 3.79
2539 2605 3.481453 TGTGCACCAACAACTTATGCTA 58.519 40.909 15.69 0.00 37.20 3.49
2540 2606 3.885901 TGTGCACCAACAACTTATGCTAA 59.114 39.130 15.69 0.00 37.20 3.09
2541 2607 4.023279 TGTGCACCAACAACTTATGCTAAG 60.023 41.667 15.69 2.55 37.20 2.18
2542 2608 3.057596 TGCACCAACAACTTATGCTAAGC 60.058 43.478 0.00 0.00 37.20 3.09
2543 2609 3.057596 GCACCAACAACTTATGCTAAGCA 60.058 43.478 0.00 0.00 44.86 3.91
2544 2610 4.558496 GCACCAACAACTTATGCTAAGCAA 60.558 41.667 0.00 0.00 43.62 3.91
2545 2611 5.156355 CACCAACAACTTATGCTAAGCAAG 58.844 41.667 0.00 0.00 43.62 4.01
2546 2612 5.048782 CACCAACAACTTATGCTAAGCAAGA 60.049 40.000 0.00 0.00 43.62 3.02
2547 2613 5.711976 ACCAACAACTTATGCTAAGCAAGAT 59.288 36.000 0.00 0.00 43.62 2.40
2548 2614 6.884295 ACCAACAACTTATGCTAAGCAAGATA 59.116 34.615 0.00 0.00 43.62 1.98
2549 2615 7.393234 ACCAACAACTTATGCTAAGCAAGATAA 59.607 33.333 0.00 0.00 43.62 1.75
2550 2616 8.243426 CCAACAACTTATGCTAAGCAAGATAAA 58.757 33.333 0.00 0.00 43.62 1.40
2551 2617 9.065871 CAACAACTTATGCTAAGCAAGATAAAC 57.934 33.333 0.00 0.00 43.62 2.01
2552 2618 8.335532 ACAACTTATGCTAAGCAAGATAAACA 57.664 30.769 0.00 0.00 43.62 2.83
2553 2619 8.792633 ACAACTTATGCTAAGCAAGATAAACAA 58.207 29.630 0.00 0.00 43.62 2.83
2554 2620 9.065871 CAACTTATGCTAAGCAAGATAAACAAC 57.934 33.333 0.00 0.00 43.62 3.32
2555 2621 8.567285 ACTTATGCTAAGCAAGATAAACAACT 57.433 30.769 0.00 0.00 43.62 3.16
2556 2622 9.667107 ACTTATGCTAAGCAAGATAAACAACTA 57.333 29.630 0.00 0.00 43.62 2.24
2558 2624 6.985188 TGCTAAGCAAGATAAACAACTAGG 57.015 37.500 0.00 0.00 34.76 3.02
2559 2625 6.472887 TGCTAAGCAAGATAAACAACTAGGT 58.527 36.000 0.00 0.00 34.76 3.08
2560 2626 6.371548 TGCTAAGCAAGATAAACAACTAGGTG 59.628 38.462 6.14 6.14 34.76 4.00
2561 2627 6.594159 GCTAAGCAAGATAAACAACTAGGTGA 59.406 38.462 16.48 0.00 0.00 4.02
2562 2628 7.281100 GCTAAGCAAGATAAACAACTAGGTGAT 59.719 37.037 16.48 0.00 0.00 3.06
2563 2629 9.817809 CTAAGCAAGATAAACAACTAGGTGATA 57.182 33.333 16.48 7.63 0.00 2.15
2564 2630 8.723942 AAGCAAGATAAACAACTAGGTGATAG 57.276 34.615 16.48 0.00 37.53 2.08
2565 2631 6.763610 AGCAAGATAAACAACTAGGTGATAGC 59.236 38.462 16.48 9.91 34.56 2.97
2566 2632 6.292381 GCAAGATAAACAACTAGGTGATAGCG 60.292 42.308 16.48 0.28 34.56 4.26
2567 2633 6.710597 AGATAAACAACTAGGTGATAGCGA 57.289 37.500 16.48 0.00 34.56 4.93
2568 2634 6.740110 AGATAAACAACTAGGTGATAGCGAG 58.260 40.000 16.48 0.00 34.56 5.03
2569 2635 6.546403 AGATAAACAACTAGGTGATAGCGAGA 59.454 38.462 16.48 0.00 34.56 4.04
2570 2636 5.599999 AAACAACTAGGTGATAGCGAGAT 57.400 39.130 16.48 0.00 34.56 2.75
2571 2637 6.710597 AAACAACTAGGTGATAGCGAGATA 57.289 37.500 16.48 0.00 34.56 1.98
2572 2638 6.902771 AACAACTAGGTGATAGCGAGATAT 57.097 37.500 16.48 0.00 34.56 1.63
2573 2639 7.997773 AACAACTAGGTGATAGCGAGATATA 57.002 36.000 16.48 0.00 34.56 0.86
2574 2640 8.582657 AACAACTAGGTGATAGCGAGATATAT 57.417 34.615 16.48 0.00 34.56 0.86
2575 2641 9.682465 AACAACTAGGTGATAGCGAGATATATA 57.318 33.333 16.48 0.00 34.56 0.86
2576 2642 9.682465 ACAACTAGGTGATAGCGAGATATATAA 57.318 33.333 16.48 0.00 34.56 0.98
2577 2643 9.938670 CAACTAGGTGATAGCGAGATATATAAC 57.061 37.037 0.00 0.00 34.56 1.89
2578 2644 9.682465 AACTAGGTGATAGCGAGATATATAACA 57.318 33.333 0.00 0.00 34.56 2.41
2579 2645 9.682465 ACTAGGTGATAGCGAGATATATAACAA 57.318 33.333 0.00 0.00 34.56 2.83
2581 2647 8.809468 AGGTGATAGCGAGATATATAACAAGA 57.191 34.615 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 81 2.365617 CCTATAGGACCAACGTGAGCAT 59.634 50.000 14.11 0.00 37.39 3.79
232 233 2.042259 ACCGCCATCGTCGACTACA 61.042 57.895 14.70 0.00 0.00 2.74
342 344 1.076339 CTCCCCTCTCCTCTCGCTT 60.076 63.158 0.00 0.00 0.00 4.68
495 499 4.955774 ACGACCGTGCCCGAACAC 62.956 66.667 0.00 0.00 37.19 3.32
610 630 5.923733 TGGAGGCTGTTAAAAGAAAACAA 57.076 34.783 0.00 0.00 36.46 2.83
788 812 7.608761 CCTAAGTACATTTACCAGTGGCTAAAA 59.391 37.037 9.78 8.20 0.00 1.52
1095 1122 1.856873 AGGCATTGGGTGAAGGGGA 60.857 57.895 0.00 0.00 0.00 4.81
1139 1166 1.019673 CGTATTCGGGTCTTCCTCGA 58.980 55.000 0.00 0.00 35.68 4.04
1462 1489 0.249911 AGGAGCTTGAACGTCACCAC 60.250 55.000 0.00 0.00 0.00 4.16
1572 1599 3.476419 GCCCGGCCCTACTGCTTA 61.476 66.667 0.00 0.00 0.00 3.09
1627 1654 9.806448 TGGGTCACATGCATATACTAAAATAAT 57.194 29.630 0.00 0.00 0.00 1.28
1628 1655 9.806448 ATGGGTCACATGCATATACTAAAATAA 57.194 29.630 0.00 0.00 38.70 1.40
1630 1657 9.806448 TTATGGGTCACATGCATATACTAAAAT 57.194 29.630 0.00 0.00 40.82 1.82
1631 1658 9.634021 TTTATGGGTCACATGCATATACTAAAA 57.366 29.630 0.00 0.00 40.82 1.52
1632 1659 9.634021 TTTTATGGGTCACATGCATATACTAAA 57.366 29.630 0.00 0.00 40.82 1.85
1633 1660 9.634021 TTTTTATGGGTCACATGCATATACTAA 57.366 29.630 0.00 0.00 40.82 2.24
1876 1928 7.774134 TCAATACATGCATGCTACATCTTTTT 58.226 30.769 26.53 4.97 0.00 1.94
1949 2001 4.270084 TGCGGCTATCTTAATCAACTTTCG 59.730 41.667 0.00 0.00 0.00 3.46
2225 2282 6.160459 ACCCCTGATTAAGAGTTCCAACATAT 59.840 38.462 0.00 0.00 0.00 1.78
2226 2283 5.491078 ACCCCTGATTAAGAGTTCCAACATA 59.509 40.000 0.00 0.00 0.00 2.29
2227 2284 4.292306 ACCCCTGATTAAGAGTTCCAACAT 59.708 41.667 0.00 0.00 0.00 2.71
2228 2285 3.655777 ACCCCTGATTAAGAGTTCCAACA 59.344 43.478 0.00 0.00 0.00 3.33
2236 2293 5.582665 CGAAGAGAAAACCCCTGATTAAGAG 59.417 44.000 0.00 0.00 0.00 2.85
2292 2349 8.268878 AGGTACATTATTTCCAGAGCTCTTAT 57.731 34.615 15.27 7.96 0.00 1.73
2380 2446 1.640428 GCGACATCCACGATCTTTCA 58.360 50.000 0.00 0.00 0.00 2.69
2381 2447 0.931005 GGCGACATCCACGATCTTTC 59.069 55.000 0.00 0.00 0.00 2.62
2382 2448 0.537188 AGGCGACATCCACGATCTTT 59.463 50.000 0.00 0.00 0.00 2.52
2383 2449 1.338337 CTAGGCGACATCCACGATCTT 59.662 52.381 0.00 0.00 0.00 2.40
2384 2450 0.955178 CTAGGCGACATCCACGATCT 59.045 55.000 0.00 0.00 0.00 2.75
2385 2451 0.952280 TCTAGGCGACATCCACGATC 59.048 55.000 0.00 0.00 0.00 3.69
2386 2452 0.955178 CTCTAGGCGACATCCACGAT 59.045 55.000 0.00 0.00 0.00 3.73
2387 2453 1.101635 CCTCTAGGCGACATCCACGA 61.102 60.000 0.00 0.00 0.00 4.35
2388 2454 1.360551 CCTCTAGGCGACATCCACG 59.639 63.158 0.00 0.00 0.00 4.94
2389 2455 1.742768 CCCTCTAGGCGACATCCAC 59.257 63.158 0.00 0.00 0.00 4.02
2390 2456 1.457643 CCCCTCTAGGCGACATCCA 60.458 63.158 0.00 0.00 0.00 3.41
2391 2457 2.210711 CCCCCTCTAGGCGACATCC 61.211 68.421 0.00 0.00 0.00 3.51
2392 2458 3.460995 CCCCCTCTAGGCGACATC 58.539 66.667 0.00 0.00 0.00 3.06
2408 2474 0.181824 TAAAGCGCCTATTCACCCCC 59.818 55.000 2.29 0.00 0.00 5.40
2409 2475 2.047002 TTAAAGCGCCTATTCACCCC 57.953 50.000 2.29 0.00 0.00 4.95
2410 2476 4.649088 ATTTTAAAGCGCCTATTCACCC 57.351 40.909 2.29 0.00 0.00 4.61
2411 2477 9.177304 GTAATTATTTTAAAGCGCCTATTCACC 57.823 33.333 2.29 0.00 0.00 4.02
2412 2478 8.889000 CGTAATTATTTTAAAGCGCCTATTCAC 58.111 33.333 2.29 0.00 0.00 3.18
2413 2479 8.071368 CCGTAATTATTTTAAAGCGCCTATTCA 58.929 33.333 2.29 0.00 0.00 2.57
2414 2480 8.071967 ACCGTAATTATTTTAAAGCGCCTATTC 58.928 33.333 2.29 0.00 0.00 1.75
2415 2481 7.933396 ACCGTAATTATTTTAAAGCGCCTATT 58.067 30.769 2.29 0.00 0.00 1.73
2416 2482 7.500720 ACCGTAATTATTTTAAAGCGCCTAT 57.499 32.000 2.29 0.00 0.00 2.57
2417 2483 6.923928 ACCGTAATTATTTTAAAGCGCCTA 57.076 33.333 2.29 0.00 0.00 3.93
2418 2484 5.823209 ACCGTAATTATTTTAAAGCGCCT 57.177 34.783 2.29 0.00 0.00 5.52
2419 2485 6.874297 AAACCGTAATTATTTTAAAGCGCC 57.126 33.333 2.29 0.00 0.00 6.53
2420 2486 7.305590 GCCTAAACCGTAATTATTTTAAAGCGC 60.306 37.037 0.00 0.00 0.00 5.92
2421 2487 7.911727 AGCCTAAACCGTAATTATTTTAAAGCG 59.088 33.333 0.00 0.00 0.00 4.68
2422 2488 9.577110 AAGCCTAAACCGTAATTATTTTAAAGC 57.423 29.630 0.00 1.19 0.00 3.51
2427 2493 8.578151 TGTTCAAGCCTAAACCGTAATTATTTT 58.422 29.630 0.00 0.00 0.00 1.82
2428 2494 8.113173 TGTTCAAGCCTAAACCGTAATTATTT 57.887 30.769 0.00 0.00 0.00 1.40
2429 2495 7.690952 TGTTCAAGCCTAAACCGTAATTATT 57.309 32.000 0.00 0.00 0.00 1.40
2430 2496 7.690952 TTGTTCAAGCCTAAACCGTAATTAT 57.309 32.000 0.00 0.00 0.00 1.28
2431 2497 7.507733 TTTGTTCAAGCCTAAACCGTAATTA 57.492 32.000 0.00 0.00 0.00 1.40
2432 2498 6.394025 TTTGTTCAAGCCTAAACCGTAATT 57.606 33.333 0.00 0.00 0.00 1.40
2433 2499 6.386654 CATTTGTTCAAGCCTAAACCGTAAT 58.613 36.000 0.00 0.00 0.00 1.89
2434 2500 5.764131 CATTTGTTCAAGCCTAAACCGTAA 58.236 37.500 0.00 0.00 0.00 3.18
2435 2501 4.320641 GCATTTGTTCAAGCCTAAACCGTA 60.321 41.667 0.00 0.00 0.00 4.02
2436 2502 3.552068 GCATTTGTTCAAGCCTAAACCGT 60.552 43.478 0.00 0.00 0.00 4.83
2437 2503 2.986479 GCATTTGTTCAAGCCTAAACCG 59.014 45.455 0.00 0.00 0.00 4.44
2438 2504 2.986479 CGCATTTGTTCAAGCCTAAACC 59.014 45.455 0.00 0.00 0.00 3.27
2439 2505 2.986479 CCGCATTTGTTCAAGCCTAAAC 59.014 45.455 0.00 0.00 0.00 2.01
2440 2506 2.887783 TCCGCATTTGTTCAAGCCTAAA 59.112 40.909 0.00 0.00 0.00 1.85
2441 2507 2.509569 TCCGCATTTGTTCAAGCCTAA 58.490 42.857 0.00 0.00 0.00 2.69
2442 2508 2.192664 TCCGCATTTGTTCAAGCCTA 57.807 45.000 0.00 0.00 0.00 3.93
2443 2509 1.327303 TTCCGCATTTGTTCAAGCCT 58.673 45.000 0.00 0.00 0.00 4.58
2444 2510 2.368655 ATTCCGCATTTGTTCAAGCC 57.631 45.000 0.00 0.00 0.00 4.35
2445 2511 4.091365 GGTTTATTCCGCATTTGTTCAAGC 59.909 41.667 0.00 0.00 0.00 4.01
2446 2512 5.469479 AGGTTTATTCCGCATTTGTTCAAG 58.531 37.500 0.00 0.00 0.00 3.02
2447 2513 5.461032 AGGTTTATTCCGCATTTGTTCAA 57.539 34.783 0.00 0.00 0.00 2.69
2448 2514 5.392595 GCTAGGTTTATTCCGCATTTGTTCA 60.393 40.000 0.00 0.00 0.00 3.18
2449 2515 5.034797 GCTAGGTTTATTCCGCATTTGTTC 58.965 41.667 0.00 0.00 0.00 3.18
2450 2516 4.438200 CGCTAGGTTTATTCCGCATTTGTT 60.438 41.667 0.00 0.00 0.00 2.83
2451 2517 3.064820 CGCTAGGTTTATTCCGCATTTGT 59.935 43.478 0.00 0.00 0.00 2.83
2452 2518 3.548014 CCGCTAGGTTTATTCCGCATTTG 60.548 47.826 0.00 0.00 0.00 2.32
2453 2519 2.616842 CCGCTAGGTTTATTCCGCATTT 59.383 45.455 0.00 0.00 0.00 2.32
2454 2520 2.218603 CCGCTAGGTTTATTCCGCATT 58.781 47.619 0.00 0.00 0.00 3.56
2455 2521 1.878953 CCGCTAGGTTTATTCCGCAT 58.121 50.000 0.00 0.00 0.00 4.73
2456 2522 3.372795 CCGCTAGGTTTATTCCGCA 57.627 52.632 0.00 0.00 0.00 5.69
2467 2533 3.438781 TGCTTGACAAATTAACCGCTAGG 59.561 43.478 0.00 0.00 45.13 3.02
2468 2534 4.083537 TGTGCTTGACAAATTAACCGCTAG 60.084 41.667 0.00 0.00 0.00 3.42
2469 2535 3.815962 TGTGCTTGACAAATTAACCGCTA 59.184 39.130 0.00 0.00 0.00 4.26
2470 2536 2.621055 TGTGCTTGACAAATTAACCGCT 59.379 40.909 0.00 0.00 0.00 5.52
2471 2537 3.006659 TGTGCTTGACAAATTAACCGC 57.993 42.857 0.00 0.00 0.00 5.68
2480 2546 5.590530 ATTGTAGGTTTTGTGCTTGACAA 57.409 34.783 0.00 0.00 43.11 3.18
2481 2547 6.320164 AGTTATTGTAGGTTTTGTGCTTGACA 59.680 34.615 0.00 0.00 0.00 3.58
2482 2548 6.735130 AGTTATTGTAGGTTTTGTGCTTGAC 58.265 36.000 0.00 0.00 0.00 3.18
2483 2549 6.952773 AGTTATTGTAGGTTTTGTGCTTGA 57.047 33.333 0.00 0.00 0.00 3.02
2484 2550 7.305474 CCTAGTTATTGTAGGTTTTGTGCTTG 58.695 38.462 0.00 0.00 33.51 4.01
2485 2551 6.072119 GCCTAGTTATTGTAGGTTTTGTGCTT 60.072 38.462 0.00 0.00 39.56 3.91
2486 2552 5.414765 GCCTAGTTATTGTAGGTTTTGTGCT 59.585 40.000 0.00 0.00 39.56 4.40
2487 2553 5.414765 AGCCTAGTTATTGTAGGTTTTGTGC 59.585 40.000 0.00 0.00 39.56 4.57
2488 2554 6.653320 TGAGCCTAGTTATTGTAGGTTTTGTG 59.347 38.462 0.00 0.00 39.56 3.33
2489 2555 6.653740 GTGAGCCTAGTTATTGTAGGTTTTGT 59.346 38.462 0.00 0.00 39.56 2.83
2490 2556 6.093633 GGTGAGCCTAGTTATTGTAGGTTTTG 59.906 42.308 0.00 0.00 39.56 2.44
2491 2557 6.012771 AGGTGAGCCTAGTTATTGTAGGTTTT 60.013 38.462 0.00 0.00 44.90 2.43
2492 2558 5.487845 AGGTGAGCCTAGTTATTGTAGGTTT 59.512 40.000 0.00 0.00 44.90 3.27
2493 2559 5.030820 AGGTGAGCCTAGTTATTGTAGGTT 58.969 41.667 0.00 0.00 44.90 3.50
2494 2560 4.621769 AGGTGAGCCTAGTTATTGTAGGT 58.378 43.478 0.00 0.00 44.90 3.08
2513 2579 2.656947 AGTTGTTGGTGCACATAGGT 57.343 45.000 20.43 0.00 0.00 3.08
2514 2580 4.675146 GCATAAGTTGTTGGTGCACATAGG 60.675 45.833 20.43 1.52 35.93 2.57
2515 2581 4.156556 AGCATAAGTTGTTGGTGCACATAG 59.843 41.667 20.43 0.00 38.23 2.23
2516 2582 4.078537 AGCATAAGTTGTTGGTGCACATA 58.921 39.130 20.43 3.77 38.23 2.29
2517 2583 2.892852 AGCATAAGTTGTTGGTGCACAT 59.107 40.909 20.43 0.00 38.23 3.21
2518 2584 2.305928 AGCATAAGTTGTTGGTGCACA 58.694 42.857 20.43 1.62 38.23 4.57
2519 2585 4.475944 CTTAGCATAAGTTGTTGGTGCAC 58.524 43.478 8.80 8.80 38.23 4.57
2520 2586 3.057596 GCTTAGCATAAGTTGTTGGTGCA 60.058 43.478 0.00 0.00 38.23 4.57
2521 2587 3.057596 TGCTTAGCATAAGTTGTTGGTGC 60.058 43.478 1.39 0.00 31.71 5.01
2522 2588 4.764679 TGCTTAGCATAAGTTGTTGGTG 57.235 40.909 1.39 0.00 31.71 4.17
2523 2589 5.070001 TCTTGCTTAGCATAAGTTGTTGGT 58.930 37.500 8.05 0.00 38.76 3.67
2524 2590 5.627499 TCTTGCTTAGCATAAGTTGTTGG 57.373 39.130 8.05 0.00 38.76 3.77
2525 2591 9.065871 GTTTATCTTGCTTAGCATAAGTTGTTG 57.934 33.333 8.05 0.00 38.76 3.33
2526 2592 8.792633 TGTTTATCTTGCTTAGCATAAGTTGTT 58.207 29.630 8.05 0.00 38.76 2.83
2527 2593 8.335532 TGTTTATCTTGCTTAGCATAAGTTGT 57.664 30.769 8.05 0.00 38.76 3.32
2528 2594 9.065871 GTTGTTTATCTTGCTTAGCATAAGTTG 57.934 33.333 8.05 0.00 38.76 3.16
2529 2595 9.014297 AGTTGTTTATCTTGCTTAGCATAAGTT 57.986 29.630 8.05 1.23 38.76 2.66
2530 2596 8.567285 AGTTGTTTATCTTGCTTAGCATAAGT 57.433 30.769 8.05 0.00 38.76 2.24
2532 2598 9.109393 CCTAGTTGTTTATCTTGCTTAGCATAA 57.891 33.333 8.05 0.81 38.76 1.90
2533 2599 8.265055 ACCTAGTTGTTTATCTTGCTTAGCATA 58.735 33.333 8.05 0.00 38.76 3.14
2534 2600 7.066284 CACCTAGTTGTTTATCTTGCTTAGCAT 59.934 37.037 8.05 0.00 38.76 3.79
2535 2601 6.371548 CACCTAGTTGTTTATCTTGCTTAGCA 59.628 38.462 1.39 1.39 36.47 3.49
2536 2602 6.594159 TCACCTAGTTGTTTATCTTGCTTAGC 59.406 38.462 0.00 0.00 0.00 3.09
2537 2603 8.723942 ATCACCTAGTTGTTTATCTTGCTTAG 57.276 34.615 0.00 0.00 0.00 2.18
2538 2604 9.817809 CTATCACCTAGTTGTTTATCTTGCTTA 57.182 33.333 0.00 0.00 0.00 3.09
2539 2605 7.281100 GCTATCACCTAGTTGTTTATCTTGCTT 59.719 37.037 0.00 0.00 0.00 3.91
2540 2606 6.763610 GCTATCACCTAGTTGTTTATCTTGCT 59.236 38.462 0.00 0.00 0.00 3.91
2541 2607 6.292381 CGCTATCACCTAGTTGTTTATCTTGC 60.292 42.308 0.00 0.00 0.00 4.01
2542 2608 6.978659 TCGCTATCACCTAGTTGTTTATCTTG 59.021 38.462 0.00 0.00 0.00 3.02
2543 2609 7.068348 TCTCGCTATCACCTAGTTGTTTATCTT 59.932 37.037 0.00 0.00 0.00 2.40
2544 2610 6.546403 TCTCGCTATCACCTAGTTGTTTATCT 59.454 38.462 0.00 0.00 0.00 1.98
2545 2611 6.736123 TCTCGCTATCACCTAGTTGTTTATC 58.264 40.000 0.00 0.00 0.00 1.75
2546 2612 6.710597 TCTCGCTATCACCTAGTTGTTTAT 57.289 37.500 0.00 0.00 0.00 1.40
2547 2613 6.710597 ATCTCGCTATCACCTAGTTGTTTA 57.289 37.500 0.00 0.00 0.00 2.01
2548 2614 5.599999 ATCTCGCTATCACCTAGTTGTTT 57.400 39.130 0.00 0.00 0.00 2.83
2549 2615 6.902771 ATATCTCGCTATCACCTAGTTGTT 57.097 37.500 0.00 0.00 0.00 2.83
2550 2616 9.682465 TTATATATCTCGCTATCACCTAGTTGT 57.318 33.333 0.00 0.00 0.00 3.32
2551 2617 9.938670 GTTATATATCTCGCTATCACCTAGTTG 57.061 37.037 0.00 0.00 0.00 3.16
2552 2618 9.682465 TGTTATATATCTCGCTATCACCTAGTT 57.318 33.333 0.00 0.00 0.00 2.24
2553 2619 9.682465 TTGTTATATATCTCGCTATCACCTAGT 57.318 33.333 0.00 0.00 0.00 2.57
2555 2621 9.901172 TCTTGTTATATATCTCGCTATCACCTA 57.099 33.333 0.00 0.00 0.00 3.08
2556 2622 8.809468 TCTTGTTATATATCTCGCTATCACCT 57.191 34.615 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.