Multiple sequence alignment - TraesCS7B01G165500

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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 TraesCS7B01G165500 chr7B 100.000 2818 0 0 1 2818 228683550 228680733 0.000000e+00 5204
1 TraesCS7B01G165500 chr7B 93.487 1259 73 5 646 1897 499717209 499715953 0.000000e+00 1862
2 TraesCS7B01G165500 chr6A 94.823 2434 68 20 1 2381 613365433 613367861 0.000000e+00 3744
3 TraesCS7B01G165500 chr6A 90.337 1956 131 32 1 1903 395871822 395869872 0.000000e+00 2512
4 TraesCS7B01G165500 chr6A 94.729 645 31 3 1 643 162276241 162275598 0.000000e+00 1000
5 TraesCS7B01G165500 chr4D 92.878 2415 128 24 1 2381 386931239 386933643 0.000000e+00 3467
6 TraesCS7B01G165500 chr6D 94.383 1709 86 5 683 2381 15118901 15120609 0.000000e+00 2615
7 TraesCS7B01G165500 chr6D 91.705 434 33 2 2384 2817 438452696 438452266 1.440000e-167 599
8 TraesCS7B01G165500 chr2B 93.779 1752 92 8 646 2381 77333428 77335178 0.000000e+00 2615
9 TraesCS7B01G165500 chr2B 95.504 645 25 2 1 643 77332738 77333380 0.000000e+00 1027
10 TraesCS7B01G165500 chr2B 91.724 435 33 2 2384 2818 160651765 160651334 4.020000e-168 601
11 TraesCS7B01G165500 chr2B 91.724 435 33 2 2384 2818 334953568 334953137 4.020000e-168 601
12 TraesCS7B01G165500 chr3A 94.430 1562 80 4 825 2381 55445528 55447087 0.000000e+00 2396
13 TraesCS7B01G165500 chr6B 91.419 1748 113 19 646 2381 171789191 171787469 0.000000e+00 2362
14 TraesCS7B01G165500 chr6B 94.720 644 33 1 1 643 171789882 171789239 0.000000e+00 1000
15 TraesCS7B01G165500 chr3B 92.946 1290 72 10 1112 2395 188482130 188483406 0.000000e+00 1860
16 TraesCS7B01G165500 chr3B 91.724 435 32 3 2384 2818 395225825 395225395 4.020000e-168 601
17 TraesCS7B01G165500 chr1A 92.723 797 56 1 1587 2381 8732460 8733256 0.000000e+00 1149
18 TraesCS7B01G165500 chr1A 93.151 730 48 1 1654 2381 565176546 565177275 0.000000e+00 1070
19 TraesCS7B01G165500 chr1A 95.039 645 29 2 1 643 565153961 565154604 0.000000e+00 1011
20 TraesCS7B01G165500 chr5A 95.956 643 25 1 1 643 225611251 225611892 0.000000e+00 1042
21 TraesCS7B01G165500 chr3D 95.179 643 31 0 1 643 61930489 61931131 0.000000e+00 1016
22 TraesCS7B01G165500 chr3D 91.954 435 32 3 2384 2818 390170575 390171006 8.630000e-170 606
23 TraesCS7B01G165500 chr3D 91.724 435 32 4 2384 2818 80209839 80210269 4.020000e-168 601
24 TraesCS7B01G165500 chr4B 92.396 434 30 2 2385 2818 563125059 563124629 1.430000e-172 616
25 TraesCS7B01G165500 chr4B 91.954 435 32 2 2384 2818 656027645 656028076 8.630000e-170 606
26 TraesCS7B01G165500 chr1B 91.724 435 32 4 2384 2818 53113318 53113748 4.020000e-168 601


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 TraesCS7B01G165500 chr7B 228680733 228683550 2817 True 5204 5204 100.0000 1 2818 1 chr7B.!!$R1 2817
1 TraesCS7B01G165500 chr7B 499715953 499717209 1256 True 1862 1862 93.4870 646 1897 1 chr7B.!!$R2 1251
2 TraesCS7B01G165500 chr6A 613365433 613367861 2428 False 3744 3744 94.8230 1 2381 1 chr6A.!!$F1 2380
3 TraesCS7B01G165500 chr6A 395869872 395871822 1950 True 2512 2512 90.3370 1 1903 1 chr6A.!!$R2 1902
4 TraesCS7B01G165500 chr6A 162275598 162276241 643 True 1000 1000 94.7290 1 643 1 chr6A.!!$R1 642
5 TraesCS7B01G165500 chr4D 386931239 386933643 2404 False 3467 3467 92.8780 1 2381 1 chr4D.!!$F1 2380
6 TraesCS7B01G165500 chr6D 15118901 15120609 1708 False 2615 2615 94.3830 683 2381 1 chr6D.!!$F1 1698
7 TraesCS7B01G165500 chr2B 77332738 77335178 2440 False 1821 2615 94.6415 1 2381 2 chr2B.!!$F1 2380
8 TraesCS7B01G165500 chr3A 55445528 55447087 1559 False 2396 2396 94.4300 825 2381 1 chr3A.!!$F1 1556
9 TraesCS7B01G165500 chr6B 171787469 171789882 2413 True 1681 2362 93.0695 1 2381 2 chr6B.!!$R1 2380
10 TraesCS7B01G165500 chr3B 188482130 188483406 1276 False 1860 1860 92.9460 1112 2395 1 chr3B.!!$F1 1283
11 TraesCS7B01G165500 chr1A 8732460 8733256 796 False 1149 1149 92.7230 1587 2381 1 chr1A.!!$F1 794
12 TraesCS7B01G165500 chr1A 565176546 565177275 729 False 1070 1070 93.1510 1654 2381 1 chr1A.!!$F3 727
13 TraesCS7B01G165500 chr1A 565153961 565154604 643 False 1011 1011 95.0390 1 643 1 chr1A.!!$F2 642
14 TraesCS7B01G165500 chr5A 225611251 225611892 641 False 1042 1042 95.9560 1 643 1 chr5A.!!$F1 642
15 TraesCS7B01G165500 chr3D 61930489 61931131 642 False 1016 1016 95.1790 1 643 1 chr3D.!!$F1 642

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
792 878 2.668279 GCTGCGGTGGTATTCTTTTGTG 60.668 50.0 0.00 0.0 0.00 3.33 F
1387 1485 0.524862 CAGGCTAACAAGGCAAGCAG 59.475 55.0 1.63 0.0 38.01 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1765 1864 0.815615 GGTAATGGGCAGCTCCTTCG 60.816 60.0 0.0 0.0 34.39 3.79 R
2468 2571 0.826062 CCCAACATGATCCCAAAGGC 59.174 55.0 0.0 0.0 0.00 4.35 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
101 103 7.066284 GGTACGACTCTTACTCTTGGTATGTAA 59.934 40.741 0.00 0.00 0.00 2.41
483 490 7.320443 TGCAGATTCGAATTATTAGTGCTTT 57.680 32.000 12.81 0.00 0.00 3.51
486 493 8.765219 GCAGATTCGAATTATTAGTGCTTTCTA 58.235 33.333 12.81 0.00 0.00 2.10
543 550 6.778834 TGTCATGGATGATTTGTTATTGCT 57.221 33.333 0.00 0.00 39.30 3.91
634 641 2.668457 GCAAGTCACTACTGAATGGTCG 59.332 50.000 0.00 0.00 35.62 4.79
643 650 6.208007 TCACTACTGAATGGTCGAACTTTAGA 59.792 38.462 0.33 0.00 0.00 2.10
644 651 6.866770 CACTACTGAATGGTCGAACTTTAGAA 59.133 38.462 0.33 0.00 0.00 2.10
675 727 7.232534 ACAAGAGATGGAATAGGATGAGAGTAC 59.767 40.741 0.00 0.00 0.00 2.73
792 878 2.668279 GCTGCGGTGGTATTCTTTTGTG 60.668 50.000 0.00 0.00 0.00 3.33
1387 1485 0.524862 CAGGCTAACAAGGCAAGCAG 59.475 55.000 1.63 0.00 38.01 4.24
1425 1523 6.635030 ACAAGACCAAAGTAATCAAGAACC 57.365 37.500 0.00 0.00 0.00 3.62
1433 1531 3.442076 AGTAATCAAGAACCGGGAGTCT 58.558 45.455 6.32 2.01 0.00 3.24
1450 1548 9.064706 CCGGGAGTCTATATGTATCGTATATTT 57.935 37.037 0.00 0.00 0.00 1.40
1491 1589 1.292223 GGTGCGAAGACAGGTGCTA 59.708 57.895 0.00 0.00 0.00 3.49
1658 1756 2.037511 TCCACTACCAAAGGTTACCACG 59.962 50.000 3.51 0.00 37.09 4.94
1753 1852 1.940613 GTTGGTACTCAATGATCGCCC 59.059 52.381 0.00 0.00 37.73 6.13
1765 1864 1.706287 GATCGCCCGTTTCAAGCTCC 61.706 60.000 0.00 0.00 0.00 4.70
1843 1942 5.431420 TCGATGCTTTTATGTGTTGTTGT 57.569 34.783 0.00 0.00 0.00 3.32
2246 2349 7.972277 CCAAACCAGATTCTGTATTGAAATCTG 59.028 37.037 21.25 14.43 34.81 2.90
2383 2486 3.067106 TGGAGACATTCAAACGAAGAGC 58.933 45.455 0.00 0.00 33.40 4.09
2387 2490 5.140747 AGACATTCAAACGAAGAGCTACT 57.859 39.130 0.00 0.00 0.00 2.57
2389 2492 4.632153 ACATTCAAACGAAGAGCTACTGT 58.368 39.130 0.00 0.00 0.00 3.55
2395 2498 5.353123 TCAAACGAAGAGCTACTGTTTTTGT 59.647 36.000 0.00 0.00 30.88 2.83
2396 2499 4.795970 ACGAAGAGCTACTGTTTTTGTG 57.204 40.909 0.00 0.00 0.00 3.33
2397 2500 4.189231 ACGAAGAGCTACTGTTTTTGTGT 58.811 39.130 0.00 0.00 0.00 3.72
2398 2501 4.034048 ACGAAGAGCTACTGTTTTTGTGTG 59.966 41.667 0.00 0.00 0.00 3.82
2399 2502 4.034048 CGAAGAGCTACTGTTTTTGTGTGT 59.966 41.667 0.00 0.00 0.00 3.72
2400 2503 5.447279 CGAAGAGCTACTGTTTTTGTGTGTT 60.447 40.000 0.00 0.00 0.00 3.32
2401 2504 5.485662 AGAGCTACTGTTTTTGTGTGTTC 57.514 39.130 0.00 0.00 0.00 3.18
2402 2505 4.941263 AGAGCTACTGTTTTTGTGTGTTCA 59.059 37.500 0.00 0.00 0.00 3.18
2403 2506 4.981794 AGCTACTGTTTTTGTGTGTTCAC 58.018 39.130 0.00 0.00 44.08 3.18
2418 2521 7.239166 GTGTGTTCACATGATTAGGATACTG 57.761 40.000 8.87 0.00 45.55 2.74
2419 2522 6.818644 GTGTGTTCACATGATTAGGATACTGT 59.181 38.462 8.87 0.00 45.55 3.55
2420 2523 7.979537 GTGTGTTCACATGATTAGGATACTGTA 59.020 37.037 8.87 0.00 45.55 2.74
2460 2563 8.810652 TTGTCTTTGTTTCAATATAAAGTGCC 57.189 30.769 0.00 0.00 33.19 5.01
2461 2564 7.946207 TGTCTTTGTTTCAATATAAAGTGCCA 58.054 30.769 0.00 0.00 33.19 4.92
2462 2565 8.417106 TGTCTTTGTTTCAATATAAAGTGCCAA 58.583 29.630 0.00 0.00 33.19 4.52
2463 2566 8.915654 GTCTTTGTTTCAATATAAAGTGCCAAG 58.084 33.333 0.00 0.00 33.19 3.61
2464 2567 8.637986 TCTTTGTTTCAATATAAAGTGCCAAGT 58.362 29.630 0.00 0.00 33.19 3.16
2465 2568 9.906660 CTTTGTTTCAATATAAAGTGCCAAGTA 57.093 29.630 0.00 0.00 0.00 2.24
2468 2571 9.906660 TGTTTCAATATAAAGTGCCAAGTAAAG 57.093 29.630 0.00 0.00 0.00 1.85
2469 2572 8.860128 GTTTCAATATAAAGTGCCAAGTAAAGC 58.140 33.333 0.00 0.00 0.00 3.51
2470 2573 7.095695 TCAATATAAAGTGCCAAGTAAAGCC 57.904 36.000 0.00 0.00 0.00 4.35
2471 2574 6.889722 TCAATATAAAGTGCCAAGTAAAGCCT 59.110 34.615 0.00 0.00 0.00 4.58
2472 2575 7.396055 TCAATATAAAGTGCCAAGTAAAGCCTT 59.604 33.333 0.00 0.00 0.00 4.35
2473 2576 7.718334 ATATAAAGTGCCAAGTAAAGCCTTT 57.282 32.000 0.00 0.00 35.30 3.11
2474 2577 3.733443 AAGTGCCAAGTAAAGCCTTTG 57.267 42.857 0.00 0.00 0.00 2.77
2475 2578 1.963515 AGTGCCAAGTAAAGCCTTTGG 59.036 47.619 0.00 0.00 43.31 3.28
2476 2579 1.000843 GTGCCAAGTAAAGCCTTTGGG 59.999 52.381 0.00 0.00 41.28 4.12
2477 2580 1.133325 TGCCAAGTAAAGCCTTTGGGA 60.133 47.619 0.00 0.00 41.28 4.37
2478 2581 2.179427 GCCAAGTAAAGCCTTTGGGAT 58.821 47.619 0.00 0.00 41.28 3.85
2479 2582 2.166459 GCCAAGTAAAGCCTTTGGGATC 59.834 50.000 0.00 0.00 41.28 3.36
2480 2583 3.430453 CCAAGTAAAGCCTTTGGGATCA 58.570 45.455 0.00 0.00 38.12 2.92
2481 2584 4.026052 CCAAGTAAAGCCTTTGGGATCAT 58.974 43.478 0.00 0.00 38.12 2.45
2482 2585 4.142093 CCAAGTAAAGCCTTTGGGATCATG 60.142 45.833 0.00 0.00 38.12 3.07
2483 2586 4.322057 AGTAAAGCCTTTGGGATCATGT 57.678 40.909 0.00 0.00 33.58 3.21
2484 2587 4.677182 AGTAAAGCCTTTGGGATCATGTT 58.323 39.130 0.00 0.00 33.58 2.71
2485 2588 3.967332 AAAGCCTTTGGGATCATGTTG 57.033 42.857 0.00 0.00 33.58 3.33
2486 2589 1.856629 AGCCTTTGGGATCATGTTGG 58.143 50.000 0.00 0.00 33.58 3.77
2487 2590 0.826062 GCCTTTGGGATCATGTTGGG 59.174 55.000 0.00 0.00 33.58 4.12
2488 2591 1.896755 GCCTTTGGGATCATGTTGGGT 60.897 52.381 0.00 0.00 33.58 4.51
2489 2592 1.826720 CCTTTGGGATCATGTTGGGTG 59.173 52.381 0.00 0.00 33.58 4.61
2490 2593 2.557229 CCTTTGGGATCATGTTGGGTGA 60.557 50.000 0.00 0.00 33.58 4.02
2491 2594 3.368248 CTTTGGGATCATGTTGGGTGAT 58.632 45.455 0.00 0.00 38.94 3.06
2492 2595 4.535781 CTTTGGGATCATGTTGGGTGATA 58.464 43.478 0.00 0.00 36.49 2.15
2493 2596 3.862877 TGGGATCATGTTGGGTGATAG 57.137 47.619 0.00 0.00 36.49 2.08
2494 2597 3.122480 TGGGATCATGTTGGGTGATAGT 58.878 45.455 0.00 0.00 36.49 2.12
2495 2598 3.527253 TGGGATCATGTTGGGTGATAGTT 59.473 43.478 0.00 0.00 36.49 2.24
2496 2599 3.885297 GGGATCATGTTGGGTGATAGTTG 59.115 47.826 0.00 0.00 36.49 3.16
2497 2600 4.385199 GGGATCATGTTGGGTGATAGTTGA 60.385 45.833 0.00 0.00 36.49 3.18
2498 2601 5.380043 GGATCATGTTGGGTGATAGTTGAT 58.620 41.667 0.00 0.00 36.49 2.57
2499 2602 5.829924 GGATCATGTTGGGTGATAGTTGATT 59.170 40.000 0.00 0.00 36.49 2.57
2500 2603 6.322201 GGATCATGTTGGGTGATAGTTGATTT 59.678 38.462 0.00 0.00 36.49 2.17
2501 2604 6.513806 TCATGTTGGGTGATAGTTGATTTG 57.486 37.500 0.00 0.00 0.00 2.32
2502 2605 6.244654 TCATGTTGGGTGATAGTTGATTTGA 58.755 36.000 0.00 0.00 0.00 2.69
2503 2606 6.891361 TCATGTTGGGTGATAGTTGATTTGAT 59.109 34.615 0.00 0.00 0.00 2.57
2504 2607 6.757897 TGTTGGGTGATAGTTGATTTGATC 57.242 37.500 0.00 0.00 0.00 2.92
2505 2608 6.484288 TGTTGGGTGATAGTTGATTTGATCT 58.516 36.000 0.00 0.00 0.00 2.75
2506 2609 6.947733 TGTTGGGTGATAGTTGATTTGATCTT 59.052 34.615 0.00 0.00 0.00 2.40
2507 2610 7.094248 TGTTGGGTGATAGTTGATTTGATCTTG 60.094 37.037 0.00 0.00 0.00 3.02
2508 2611 5.357878 TGGGTGATAGTTGATTTGATCTTGC 59.642 40.000 0.00 0.00 0.00 4.01
2509 2612 5.591877 GGGTGATAGTTGATTTGATCTTGCT 59.408 40.000 0.00 0.00 0.00 3.91
2510 2613 6.459298 GGGTGATAGTTGATTTGATCTTGCTG 60.459 42.308 0.00 0.00 0.00 4.41
2511 2614 6.317140 GGTGATAGTTGATTTGATCTTGCTGA 59.683 38.462 0.00 0.00 0.00 4.26
2512 2615 7.148188 GGTGATAGTTGATTTGATCTTGCTGAA 60.148 37.037 0.00 0.00 0.00 3.02
2513 2616 8.239314 GTGATAGTTGATTTGATCTTGCTGAAA 58.761 33.333 0.00 0.00 0.00 2.69
2514 2617 8.795513 TGATAGTTGATTTGATCTTGCTGAAAA 58.204 29.630 0.00 0.00 0.00 2.29
2515 2618 9.630098 GATAGTTGATTTGATCTTGCTGAAAAA 57.370 29.630 0.00 0.00 0.00 1.94
2516 2619 7.704789 AGTTGATTTGATCTTGCTGAAAAAC 57.295 32.000 0.00 0.00 0.00 2.43
2517 2620 6.418819 AGTTGATTTGATCTTGCTGAAAAACG 59.581 34.615 0.00 0.00 0.00 3.60
2518 2621 6.070897 TGATTTGATCTTGCTGAAAAACGA 57.929 33.333 0.00 0.00 0.00 3.85
2519 2622 6.502652 TGATTTGATCTTGCTGAAAAACGAA 58.497 32.000 0.00 0.00 0.00 3.85
2520 2623 6.977502 TGATTTGATCTTGCTGAAAAACGAAA 59.022 30.769 0.00 0.00 0.00 3.46
2521 2624 7.490725 TGATTTGATCTTGCTGAAAAACGAAAA 59.509 29.630 0.00 0.00 0.00 2.29
2522 2625 6.567769 TTGATCTTGCTGAAAAACGAAAAC 57.432 33.333 0.00 0.00 0.00 2.43
2523 2626 5.890334 TGATCTTGCTGAAAAACGAAAACT 58.110 33.333 0.00 0.00 0.00 2.66
2524 2627 6.329496 TGATCTTGCTGAAAAACGAAAACTT 58.671 32.000 0.00 0.00 0.00 2.66
2525 2628 6.811170 TGATCTTGCTGAAAAACGAAAACTTT 59.189 30.769 0.00 0.00 0.00 2.66
2526 2629 7.330700 TGATCTTGCTGAAAAACGAAAACTTTT 59.669 29.630 0.00 0.00 0.00 2.27
2527 2630 7.044589 TCTTGCTGAAAAACGAAAACTTTTC 57.955 32.000 4.39 4.39 40.43 2.29
2528 2631 5.771602 TGCTGAAAAACGAAAACTTTTCC 57.228 34.783 8.39 0.00 39.66 3.13
2529 2632 5.230942 TGCTGAAAAACGAAAACTTTTCCA 58.769 33.333 8.39 0.17 39.66 3.53
2530 2633 5.872070 TGCTGAAAAACGAAAACTTTTCCAT 59.128 32.000 8.39 0.00 39.66 3.41
2531 2634 6.370166 TGCTGAAAAACGAAAACTTTTCCATT 59.630 30.769 8.39 1.75 39.66 3.16
2532 2635 6.899771 GCTGAAAAACGAAAACTTTTCCATTC 59.100 34.615 8.39 8.15 39.66 2.67
2533 2636 7.412455 GCTGAAAAACGAAAACTTTTCCATTCA 60.412 33.333 8.39 11.20 39.66 2.57
2534 2637 7.734554 TGAAAAACGAAAACTTTTCCATTCAC 58.265 30.769 8.39 3.82 39.66 3.18
2535 2638 7.385205 TGAAAAACGAAAACTTTTCCATTCACA 59.615 29.630 8.39 5.66 39.66 3.58
2536 2639 7.659652 AAAACGAAAACTTTTCCATTCACAA 57.340 28.000 8.39 0.00 0.00 3.33
2537 2640 7.659652 AAACGAAAACTTTTCCATTCACAAA 57.340 28.000 8.39 0.00 0.00 2.83
2538 2641 7.659652 AACGAAAACTTTTCCATTCACAAAA 57.340 28.000 8.39 0.00 0.00 2.44
2539 2642 7.659652 ACGAAAACTTTTCCATTCACAAAAA 57.340 28.000 8.39 0.00 0.00 1.94
2540 2643 8.262715 ACGAAAACTTTTCCATTCACAAAAAT 57.737 26.923 8.39 0.00 0.00 1.82
2541 2644 9.372369 ACGAAAACTTTTCCATTCACAAAAATA 57.628 25.926 8.39 0.00 0.00 1.40
2575 2678 7.391148 TTTTTACAGAAGAGTGCTTTTGAGT 57.609 32.000 0.00 0.00 38.21 3.41
2576 2679 7.391148 TTTTACAGAAGAGTGCTTTTGAGTT 57.609 32.000 0.00 0.00 38.21 3.01
2577 2680 4.889832 ACAGAAGAGTGCTTTTGAGTTG 57.110 40.909 0.00 0.00 38.21 3.16
2578 2681 4.517285 ACAGAAGAGTGCTTTTGAGTTGA 58.483 39.130 0.00 0.00 38.21 3.18
2579 2682 5.128919 ACAGAAGAGTGCTTTTGAGTTGAT 58.871 37.500 0.00 0.00 38.21 2.57
2580 2683 5.591877 ACAGAAGAGTGCTTTTGAGTTGATT 59.408 36.000 0.00 0.00 38.21 2.57
2581 2684 6.767902 ACAGAAGAGTGCTTTTGAGTTGATTA 59.232 34.615 0.00 0.00 38.21 1.75
2582 2685 7.446625 ACAGAAGAGTGCTTTTGAGTTGATTAT 59.553 33.333 0.00 0.00 38.21 1.28
2583 2686 8.295288 CAGAAGAGTGCTTTTGAGTTGATTATT 58.705 33.333 0.00 0.00 38.21 1.40
2584 2687 8.854117 AGAAGAGTGCTTTTGAGTTGATTATTT 58.146 29.630 0.00 0.00 33.61 1.40
2585 2688 9.468532 GAAGAGTGCTTTTGAGTTGATTATTTT 57.531 29.630 0.00 0.00 33.61 1.82
2586 2689 9.822185 AAGAGTGCTTTTGAGTTGATTATTTTT 57.178 25.926 0.00 0.00 0.00 1.94
2587 2690 9.252962 AGAGTGCTTTTGAGTTGATTATTTTTG 57.747 29.630 0.00 0.00 0.00 2.44
2588 2691 7.854534 AGTGCTTTTGAGTTGATTATTTTTGC 58.145 30.769 0.00 0.00 0.00 3.68
2589 2692 7.495279 AGTGCTTTTGAGTTGATTATTTTTGCA 59.505 29.630 0.00 0.00 0.00 4.08
2590 2693 7.795272 GTGCTTTTGAGTTGATTATTTTTGCAG 59.205 33.333 0.00 0.00 0.00 4.41
2591 2694 7.710044 TGCTTTTGAGTTGATTATTTTTGCAGA 59.290 29.630 0.00 0.00 0.00 4.26
2592 2695 8.550376 GCTTTTGAGTTGATTATTTTTGCAGAA 58.450 29.630 0.00 0.00 0.00 3.02
2594 2697 9.814899 TTTTGAGTTGATTATTTTTGCAGAAGA 57.185 25.926 0.00 0.00 0.00 2.87
2595 2698 9.985730 TTTGAGTTGATTATTTTTGCAGAAGAT 57.014 25.926 0.00 0.00 0.00 2.40
2596 2699 9.985730 TTGAGTTGATTATTTTTGCAGAAGATT 57.014 25.926 0.00 0.00 0.00 2.40
2628 2731 9.485206 ACAAATTACTCACGTGTTACTAATTCT 57.515 29.630 16.51 6.99 0.00 2.40
2632 2735 9.701098 ATTACTCACGTGTTACTAATTCTTTCA 57.299 29.630 16.51 0.00 0.00 2.69
2633 2736 9.701098 TTACTCACGTGTTACTAATTCTTTCAT 57.299 29.630 16.51 0.00 0.00 2.57
2635 2738 9.701098 ACTCACGTGTTACTAATTCTTTCATAA 57.299 29.630 16.51 0.00 0.00 1.90
2651 2754 8.862325 TCTTTCATAATTTTTGGAGTAGCAGA 57.138 30.769 0.00 0.00 0.00 4.26
2652 2755 9.295825 TCTTTCATAATTTTTGGAGTAGCAGAA 57.704 29.630 0.00 0.00 0.00 3.02
2653 2756 9.565213 CTTTCATAATTTTTGGAGTAGCAGAAG 57.435 33.333 0.00 0.00 0.00 2.85
2654 2757 8.635765 TTCATAATTTTTGGAGTAGCAGAAGT 57.364 30.769 0.00 0.00 0.00 3.01
2655 2758 9.733556 TTCATAATTTTTGGAGTAGCAGAAGTA 57.266 29.630 0.00 0.00 0.00 2.24
2656 2759 9.905713 TCATAATTTTTGGAGTAGCAGAAGTAT 57.094 29.630 0.00 0.00 0.00 2.12
2657 2760 9.941664 CATAATTTTTGGAGTAGCAGAAGTATG 57.058 33.333 0.00 0.00 0.00 2.39
2658 2761 7.396540 AATTTTTGGAGTAGCAGAAGTATGG 57.603 36.000 0.00 0.00 0.00 2.74
2659 2762 5.499004 TTTTGGAGTAGCAGAAGTATGGT 57.501 39.130 0.00 0.00 34.71 3.55
2660 2763 5.499004 TTTGGAGTAGCAGAAGTATGGTT 57.501 39.130 0.00 0.00 32.19 3.67
2661 2764 5.499004 TTGGAGTAGCAGAAGTATGGTTT 57.501 39.130 0.00 0.00 32.19 3.27
2662 2765 4.832248 TGGAGTAGCAGAAGTATGGTTTG 58.168 43.478 0.00 0.00 32.19 2.93
2663 2766 4.530553 TGGAGTAGCAGAAGTATGGTTTGA 59.469 41.667 0.00 0.00 32.19 2.69
2664 2767 5.112686 GGAGTAGCAGAAGTATGGTTTGAG 58.887 45.833 0.00 0.00 32.19 3.02
2665 2768 5.337652 GGAGTAGCAGAAGTATGGTTTGAGT 60.338 44.000 0.00 0.00 32.19 3.41
2666 2769 6.127423 GGAGTAGCAGAAGTATGGTTTGAGTA 60.127 42.308 0.00 0.00 32.19 2.59
2667 2770 6.631962 AGTAGCAGAAGTATGGTTTGAGTAC 58.368 40.000 0.00 0.00 32.19 2.73
2668 2771 5.483685 AGCAGAAGTATGGTTTGAGTACA 57.516 39.130 0.00 0.00 0.00 2.90
2669 2772 5.482908 AGCAGAAGTATGGTTTGAGTACAG 58.517 41.667 0.00 0.00 0.00 2.74
2670 2773 5.246203 AGCAGAAGTATGGTTTGAGTACAGA 59.754 40.000 0.00 0.00 0.00 3.41
2671 2774 6.070538 AGCAGAAGTATGGTTTGAGTACAGAT 60.071 38.462 0.00 0.00 0.00 2.90
2672 2775 6.595716 GCAGAAGTATGGTTTGAGTACAGATT 59.404 38.462 0.00 0.00 0.00 2.40
2673 2776 7.764443 GCAGAAGTATGGTTTGAGTACAGATTA 59.236 37.037 0.00 0.00 0.00 1.75
2674 2777 9.088512 CAGAAGTATGGTTTGAGTACAGATTAC 57.911 37.037 0.00 0.00 0.00 1.89
2675 2778 9.036980 AGAAGTATGGTTTGAGTACAGATTACT 57.963 33.333 0.00 0.00 0.00 2.24
2713 2816 8.871862 TGTTTTTGACAGATTCTGTTTTCAATG 58.128 29.630 19.88 0.00 45.44 2.82
2714 2817 7.467557 TTTTGACAGATTCTGTTTTCAATGC 57.532 32.000 19.88 5.94 45.44 3.56
2715 2818 5.771153 TGACAGATTCTGTTTTCAATGCA 57.229 34.783 19.88 8.35 45.44 3.96
2716 2819 6.335471 TGACAGATTCTGTTTTCAATGCAT 57.665 33.333 19.88 0.00 45.44 3.96
2717 2820 7.451501 TGACAGATTCTGTTTTCAATGCATA 57.548 32.000 19.88 0.00 45.44 3.14
2718 2821 7.532571 TGACAGATTCTGTTTTCAATGCATAG 58.467 34.615 19.88 0.00 45.44 2.23
2719 2822 7.175467 TGACAGATTCTGTTTTCAATGCATAGT 59.825 33.333 19.88 0.00 45.44 2.12
2720 2823 7.889469 ACAGATTCTGTTTTCAATGCATAGTT 58.111 30.769 13.61 0.00 42.59 2.24
2721 2824 8.362639 ACAGATTCTGTTTTCAATGCATAGTTT 58.637 29.630 13.61 0.00 42.59 2.66
2722 2825 8.644619 CAGATTCTGTTTTCAATGCATAGTTTG 58.355 33.333 0.00 0.00 0.00 2.93
2743 2846 8.352942 AGTTTGCTTGTTTTCTAGTTTCTATGG 58.647 33.333 0.00 0.00 0.00 2.74
2744 2847 6.254281 TGCTTGTTTTCTAGTTTCTATGGC 57.746 37.500 0.00 0.00 0.00 4.40
2745 2848 6.003950 TGCTTGTTTTCTAGTTTCTATGGCT 58.996 36.000 0.00 0.00 0.00 4.75
2746 2849 6.490040 TGCTTGTTTTCTAGTTTCTATGGCTT 59.510 34.615 0.00 0.00 0.00 4.35
2747 2850 7.663905 TGCTTGTTTTCTAGTTTCTATGGCTTA 59.336 33.333 0.00 0.00 0.00 3.09
2748 2851 8.678199 GCTTGTTTTCTAGTTTCTATGGCTTAT 58.322 33.333 0.00 0.00 0.00 1.73
2755 2858 9.712305 TTCTAGTTTCTATGGCTTATATTGCTC 57.288 33.333 0.00 0.00 0.00 4.26
2756 2859 8.870116 TCTAGTTTCTATGGCTTATATTGCTCA 58.130 33.333 0.00 0.00 0.00 4.26
2757 2860 9.494271 CTAGTTTCTATGGCTTATATTGCTCAA 57.506 33.333 0.00 0.00 0.00 3.02
2758 2861 8.930846 AGTTTCTATGGCTTATATTGCTCAAT 57.069 30.769 0.49 0.49 34.93 2.57
2791 2894 9.541884 TGTATAAATGATATGCTACAGTAGGGA 57.458 33.333 9.74 0.00 0.00 4.20
2794 2897 9.896645 ATAAATGATATGCTACAGTAGGGATTG 57.103 33.333 9.74 0.00 0.00 2.67
2795 2898 6.942163 ATGATATGCTACAGTAGGGATTGT 57.058 37.500 9.74 0.00 0.00 2.71
2796 2899 6.747414 TGATATGCTACAGTAGGGATTGTT 57.253 37.500 9.74 0.00 0.00 2.83
2797 2900 7.136822 TGATATGCTACAGTAGGGATTGTTT 57.863 36.000 9.74 0.00 0.00 2.83
2798 2901 6.992123 TGATATGCTACAGTAGGGATTGTTTG 59.008 38.462 9.74 0.00 0.00 2.93
2799 2902 3.950397 TGCTACAGTAGGGATTGTTTGG 58.050 45.455 9.74 0.00 0.00 3.28
2800 2903 3.585289 TGCTACAGTAGGGATTGTTTGGA 59.415 43.478 9.74 0.00 0.00 3.53
2801 2904 4.042311 TGCTACAGTAGGGATTGTTTGGAA 59.958 41.667 9.74 0.00 0.00 3.53
2802 2905 5.007682 GCTACAGTAGGGATTGTTTGGAAA 58.992 41.667 9.74 0.00 0.00 3.13
2803 2906 5.475564 GCTACAGTAGGGATTGTTTGGAAAA 59.524 40.000 9.74 0.00 0.00 2.29
2804 2907 6.015772 GCTACAGTAGGGATTGTTTGGAAAAA 60.016 38.462 9.74 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
143 147 9.646522 ACCAGCATCAACTAAATAATATTTCCT 57.353 29.630 0.96 0.00 0.00 3.36
543 550 9.806203 CATTTGCTAATTCATTATCCACTTCAA 57.194 29.630 0.00 0.00 0.00 2.69
634 641 8.091449 TCCATCTCTTGTTCTCTTCTAAAGTTC 58.909 37.037 0.00 0.00 0.00 3.01
643 650 7.346698 TCATCCTATTCCATCTCTTGTTCTCTT 59.653 37.037 0.00 0.00 0.00 2.85
644 651 6.843333 TCATCCTATTCCATCTCTTGTTCTCT 59.157 38.462 0.00 0.00 0.00 3.10
675 727 2.088763 CCGCCGCAGCTACATATCG 61.089 63.158 0.00 0.00 36.60 2.92
792 878 2.540101 CACATTAGCCGCAACTAGCTAC 59.460 50.000 0.00 0.00 41.16 3.58
1450 1548 4.756642 CCTCGCCATTAGCATGATCTTTTA 59.243 41.667 0.00 0.00 44.04 1.52
1658 1756 1.268743 GCATCAAGTATTTCAGCGGGC 60.269 52.381 0.00 0.00 0.00 6.13
1703 1801 5.543507 AACATCGAAGCATATCTTCCTCT 57.456 39.130 0.00 0.00 46.60 3.69
1753 1852 1.071605 CTCCTTCGGAGCTTGAAACG 58.928 55.000 0.00 0.00 43.29 3.60
1765 1864 0.815615 GGTAATGGGCAGCTCCTTCG 60.816 60.000 0.00 0.00 34.39 3.79
2065 2164 5.698832 ACAAATGGTGATACAACGACAATG 58.301 37.500 0.00 0.00 0.00 2.82
2246 2349 2.496899 TGGCCCTTGAAATGTCTCTC 57.503 50.000 0.00 0.00 0.00 3.20
2328 2431 7.066766 GCTCTGTATTGAATTGGTCTGAATTCT 59.933 37.037 7.05 0.00 41.21 2.40
2371 2474 5.353123 ACAAAAACAGTAGCTCTTCGTTTGA 59.647 36.000 12.78 0.00 30.61 2.69
2381 2484 4.457603 TGTGAACACACAAAAACAGTAGCT 59.542 37.500 3.39 0.00 40.83 3.32
2383 2486 6.550843 TCATGTGAACACACAAAAACAGTAG 58.449 36.000 9.83 0.00 45.58 2.57
2387 2490 6.977502 CCTAATCATGTGAACACACAAAAACA 59.022 34.615 9.83 0.00 45.58 2.83
2389 2492 7.340122 TCCTAATCATGTGAACACACAAAAA 57.660 32.000 9.83 0.00 45.58 1.94
2395 2498 6.946340 ACAGTATCCTAATCATGTGAACACA 58.054 36.000 10.04 10.04 46.44 3.72
2396 2499 8.198109 ACTACAGTATCCTAATCATGTGAACAC 58.802 37.037 0.00 0.00 0.00 3.32
2397 2500 8.306313 ACTACAGTATCCTAATCATGTGAACA 57.694 34.615 0.00 0.00 0.00 3.18
2434 2537 9.423061 GGCACTTTATATTGAAACAAAGACAAT 57.577 29.630 0.00 0.00 37.82 2.71
2435 2538 8.417106 TGGCACTTTATATTGAAACAAAGACAA 58.583 29.630 0.00 0.00 33.29 3.18
2436 2539 7.946207 TGGCACTTTATATTGAAACAAAGACA 58.054 30.769 0.00 0.00 33.29 3.41
2437 2540 8.810652 TTGGCACTTTATATTGAAACAAAGAC 57.189 30.769 0.00 0.00 33.29 3.01
2438 2541 8.637986 ACTTGGCACTTTATATTGAAACAAAGA 58.362 29.630 0.00 0.00 33.29 2.52
2439 2542 8.816640 ACTTGGCACTTTATATTGAAACAAAG 57.183 30.769 0.00 0.00 34.80 2.77
2442 2545 9.906660 CTTTACTTGGCACTTTATATTGAAACA 57.093 29.630 0.00 0.00 0.00 2.83
2443 2546 8.860128 GCTTTACTTGGCACTTTATATTGAAAC 58.140 33.333 0.00 0.00 0.00 2.78
2444 2547 8.032451 GGCTTTACTTGGCACTTTATATTGAAA 58.968 33.333 0.00 0.00 0.00 2.69
2445 2548 7.396055 AGGCTTTACTTGGCACTTTATATTGAA 59.604 33.333 0.00 0.00 0.00 2.69
2446 2549 6.889722 AGGCTTTACTTGGCACTTTATATTGA 59.110 34.615 0.00 0.00 0.00 2.57
2447 2550 7.100458 AGGCTTTACTTGGCACTTTATATTG 57.900 36.000 0.00 0.00 0.00 1.90
2448 2551 7.718334 AAGGCTTTACTTGGCACTTTATATT 57.282 32.000 0.00 0.00 0.00 1.28
2449 2552 7.363793 CCAAAGGCTTTACTTGGCACTTTATAT 60.364 37.037 12.95 0.00 32.29 0.86
2450 2553 6.071616 CCAAAGGCTTTACTTGGCACTTTATA 60.072 38.462 12.95 0.00 32.29 0.98
2451 2554 5.279456 CCAAAGGCTTTACTTGGCACTTTAT 60.279 40.000 12.95 0.00 32.29 1.40
2452 2555 4.038642 CCAAAGGCTTTACTTGGCACTTTA 59.961 41.667 12.95 0.00 32.29 1.85
2453 2556 3.181466 CCAAAGGCTTTACTTGGCACTTT 60.181 43.478 12.95 0.00 33.06 2.66
2454 2557 2.365293 CCAAAGGCTTTACTTGGCACTT 59.635 45.455 12.95 0.00 0.00 3.16
2455 2558 1.963515 CCAAAGGCTTTACTTGGCACT 59.036 47.619 12.95 0.00 0.00 4.40
2456 2559 1.000843 CCCAAAGGCTTTACTTGGCAC 59.999 52.381 12.95 0.00 0.00 5.01
2457 2560 1.133325 TCCCAAAGGCTTTACTTGGCA 60.133 47.619 12.95 0.00 0.00 4.92
2458 2561 1.627864 TCCCAAAGGCTTTACTTGGC 58.372 50.000 12.95 0.00 0.00 4.52
2459 2562 3.430453 TGATCCCAAAGGCTTTACTTGG 58.570 45.455 12.95 10.39 0.00 3.61
2460 2563 4.463891 ACATGATCCCAAAGGCTTTACTTG 59.536 41.667 12.95 11.57 0.00 3.16
2461 2564 4.677182 ACATGATCCCAAAGGCTTTACTT 58.323 39.130 12.95 0.00 0.00 2.24
2462 2565 4.322057 ACATGATCCCAAAGGCTTTACT 57.678 40.909 12.95 0.00 0.00 2.24
2463 2566 4.381932 CCAACATGATCCCAAAGGCTTTAC 60.382 45.833 12.95 3.23 0.00 2.01
2464 2567 3.768757 CCAACATGATCCCAAAGGCTTTA 59.231 43.478 12.95 0.00 0.00 1.85
2465 2568 2.568509 CCAACATGATCCCAAAGGCTTT 59.431 45.455 6.68 6.68 0.00 3.51
2466 2569 2.181975 CCAACATGATCCCAAAGGCTT 58.818 47.619 0.00 0.00 0.00 4.35
2467 2570 1.620524 CCCAACATGATCCCAAAGGCT 60.621 52.381 0.00 0.00 0.00 4.58
2468 2571 0.826062 CCCAACATGATCCCAAAGGC 59.174 55.000 0.00 0.00 0.00 4.35
2469 2572 1.826720 CACCCAACATGATCCCAAAGG 59.173 52.381 0.00 0.00 0.00 3.11
2470 2573 2.806434 TCACCCAACATGATCCCAAAG 58.194 47.619 0.00 0.00 0.00 2.77
2471 2574 2.988636 TCACCCAACATGATCCCAAA 57.011 45.000 0.00 0.00 0.00 3.28
2472 2575 3.527253 ACTATCACCCAACATGATCCCAA 59.473 43.478 0.00 0.00 37.89 4.12
2473 2576 3.122480 ACTATCACCCAACATGATCCCA 58.878 45.455 0.00 0.00 37.89 4.37
2474 2577 3.864789 ACTATCACCCAACATGATCCC 57.135 47.619 0.00 0.00 37.89 3.85
2475 2578 4.780815 TCAACTATCACCCAACATGATCC 58.219 43.478 0.00 0.00 37.89 3.36
2476 2579 6.949352 AATCAACTATCACCCAACATGATC 57.051 37.500 0.00 0.00 37.89 2.92
2477 2580 6.891361 TCAAATCAACTATCACCCAACATGAT 59.109 34.615 0.00 0.00 40.02 2.45
2478 2581 6.244654 TCAAATCAACTATCACCCAACATGA 58.755 36.000 0.00 0.00 0.00 3.07
2479 2582 6.513806 TCAAATCAACTATCACCCAACATG 57.486 37.500 0.00 0.00 0.00 3.21
2480 2583 7.121382 AGATCAAATCAACTATCACCCAACAT 58.879 34.615 0.00 0.00 0.00 2.71
2481 2584 6.484288 AGATCAAATCAACTATCACCCAACA 58.516 36.000 0.00 0.00 0.00 3.33
2482 2585 7.253422 CAAGATCAAATCAACTATCACCCAAC 58.747 38.462 0.00 0.00 0.00 3.77
2483 2586 6.127647 GCAAGATCAAATCAACTATCACCCAA 60.128 38.462 0.00 0.00 0.00 4.12
2484 2587 5.357878 GCAAGATCAAATCAACTATCACCCA 59.642 40.000 0.00 0.00 0.00 4.51
2485 2588 5.591877 AGCAAGATCAAATCAACTATCACCC 59.408 40.000 0.00 0.00 0.00 4.61
2486 2589 6.317140 TCAGCAAGATCAAATCAACTATCACC 59.683 38.462 0.00 0.00 0.00 4.02
2487 2590 7.312657 TCAGCAAGATCAAATCAACTATCAC 57.687 36.000 0.00 0.00 0.00 3.06
2488 2591 7.926674 TTCAGCAAGATCAAATCAACTATCA 57.073 32.000 0.00 0.00 0.00 2.15
2489 2592 9.630098 TTTTTCAGCAAGATCAAATCAACTATC 57.370 29.630 0.00 0.00 0.00 2.08
2490 2593 9.415544 GTTTTTCAGCAAGATCAAATCAACTAT 57.584 29.630 0.00 0.00 0.00 2.12
2491 2594 7.591057 CGTTTTTCAGCAAGATCAAATCAACTA 59.409 33.333 0.00 0.00 0.00 2.24
2492 2595 6.418819 CGTTTTTCAGCAAGATCAAATCAACT 59.581 34.615 0.00 0.00 0.00 3.16
2493 2596 6.417635 TCGTTTTTCAGCAAGATCAAATCAAC 59.582 34.615 0.00 0.00 0.00 3.18
2494 2597 6.502652 TCGTTTTTCAGCAAGATCAAATCAA 58.497 32.000 0.00 0.00 0.00 2.57
2495 2598 6.070897 TCGTTTTTCAGCAAGATCAAATCA 57.929 33.333 0.00 0.00 0.00 2.57
2496 2599 6.991485 TTCGTTTTTCAGCAAGATCAAATC 57.009 33.333 0.00 0.00 0.00 2.17
2497 2600 7.492344 AGTTTTCGTTTTTCAGCAAGATCAAAT 59.508 29.630 0.00 0.00 0.00 2.32
2498 2601 6.811170 AGTTTTCGTTTTTCAGCAAGATCAAA 59.189 30.769 0.00 0.00 0.00 2.69
2499 2602 6.329496 AGTTTTCGTTTTTCAGCAAGATCAA 58.671 32.000 0.00 0.00 0.00 2.57
2500 2603 5.890334 AGTTTTCGTTTTTCAGCAAGATCA 58.110 33.333 0.00 0.00 0.00 2.92
2501 2604 6.812481 AAGTTTTCGTTTTTCAGCAAGATC 57.188 33.333 0.00 0.00 0.00 2.75
2502 2605 7.201522 GGAAAAGTTTTCGTTTTTCAGCAAGAT 60.202 33.333 19.48 0.00 42.33 2.40
2503 2606 6.090223 GGAAAAGTTTTCGTTTTTCAGCAAGA 59.910 34.615 19.48 0.00 42.33 3.02
2504 2607 6.128688 TGGAAAAGTTTTCGTTTTTCAGCAAG 60.129 34.615 19.48 0.00 42.33 4.01
2505 2608 5.696724 TGGAAAAGTTTTCGTTTTTCAGCAA 59.303 32.000 19.48 0.00 42.33 3.91
2506 2609 5.230942 TGGAAAAGTTTTCGTTTTTCAGCA 58.769 33.333 19.48 7.84 42.33 4.41
2507 2610 5.771602 TGGAAAAGTTTTCGTTTTTCAGC 57.228 34.783 19.48 5.62 42.33 4.26
2508 2611 7.897800 GTGAATGGAAAAGTTTTCGTTTTTCAG 59.102 33.333 19.48 0.00 42.33 3.02
2509 2612 7.385205 TGTGAATGGAAAAGTTTTCGTTTTTCA 59.615 29.630 19.48 19.31 42.33 2.69
2510 2613 7.734554 TGTGAATGGAAAAGTTTTCGTTTTTC 58.265 30.769 19.48 17.58 40.72 2.29
2511 2614 7.659652 TGTGAATGGAAAAGTTTTCGTTTTT 57.340 28.000 19.48 11.25 32.20 1.94
2512 2615 7.659652 TTGTGAATGGAAAAGTTTTCGTTTT 57.340 28.000 19.48 13.30 32.20 2.43
2513 2616 7.659652 TTTGTGAATGGAAAAGTTTTCGTTT 57.340 28.000 19.48 15.38 34.50 3.60
2514 2617 7.659652 TTTTGTGAATGGAAAAGTTTTCGTT 57.340 28.000 19.48 16.51 0.00 3.85
2515 2618 7.659652 TTTTTGTGAATGGAAAAGTTTTCGT 57.340 28.000 19.48 9.91 0.00 3.85
2551 2654 7.391148 ACTCAAAAGCACTCTTCTGTAAAAA 57.609 32.000 0.00 0.00 0.00 1.94
2552 2655 7.120579 TCAACTCAAAAGCACTCTTCTGTAAAA 59.879 33.333 0.00 0.00 0.00 1.52
2553 2656 6.597672 TCAACTCAAAAGCACTCTTCTGTAAA 59.402 34.615 0.00 0.00 0.00 2.01
2554 2657 6.112734 TCAACTCAAAAGCACTCTTCTGTAA 58.887 36.000 0.00 0.00 0.00 2.41
2555 2658 5.670485 TCAACTCAAAAGCACTCTTCTGTA 58.330 37.500 0.00 0.00 0.00 2.74
2556 2659 4.517285 TCAACTCAAAAGCACTCTTCTGT 58.483 39.130 0.00 0.00 0.00 3.41
2557 2660 5.686159 ATCAACTCAAAAGCACTCTTCTG 57.314 39.130 0.00 0.00 0.00 3.02
2558 2661 7.992754 ATAATCAACTCAAAAGCACTCTTCT 57.007 32.000 0.00 0.00 0.00 2.85
2559 2662 9.468532 AAAATAATCAACTCAAAAGCACTCTTC 57.531 29.630 0.00 0.00 0.00 2.87
2560 2663 9.822185 AAAAATAATCAACTCAAAAGCACTCTT 57.178 25.926 0.00 0.00 0.00 2.85
2561 2664 9.252962 CAAAAATAATCAACTCAAAAGCACTCT 57.747 29.630 0.00 0.00 0.00 3.24
2562 2665 8.006027 GCAAAAATAATCAACTCAAAAGCACTC 58.994 33.333 0.00 0.00 0.00 3.51
2563 2666 7.495279 TGCAAAAATAATCAACTCAAAAGCACT 59.505 29.630 0.00 0.00 0.00 4.40
2564 2667 7.629130 TGCAAAAATAATCAACTCAAAAGCAC 58.371 30.769 0.00 0.00 0.00 4.40
2565 2668 7.710044 TCTGCAAAAATAATCAACTCAAAAGCA 59.290 29.630 0.00 0.00 0.00 3.91
2566 2669 8.075593 TCTGCAAAAATAATCAACTCAAAAGC 57.924 30.769 0.00 0.00 0.00 3.51
2568 2671 9.814899 TCTTCTGCAAAAATAATCAACTCAAAA 57.185 25.926 0.00 0.00 0.00 2.44
2569 2672 9.985730 ATCTTCTGCAAAAATAATCAACTCAAA 57.014 25.926 0.00 0.00 0.00 2.69
2570 2673 9.985730 AATCTTCTGCAAAAATAATCAACTCAA 57.014 25.926 0.00 0.00 0.00 3.02
2625 2728 9.295825 TCTGCTACTCCAAAAATTATGAAAGAA 57.704 29.630 0.00 0.00 0.00 2.52
2626 2729 8.862325 TCTGCTACTCCAAAAATTATGAAAGA 57.138 30.769 0.00 0.00 0.00 2.52
2627 2730 9.565213 CTTCTGCTACTCCAAAAATTATGAAAG 57.435 33.333 0.00 0.00 0.00 2.62
2628 2731 9.077885 ACTTCTGCTACTCCAAAAATTATGAAA 57.922 29.630 0.00 0.00 0.00 2.69
2629 2732 8.635765 ACTTCTGCTACTCCAAAAATTATGAA 57.364 30.769 0.00 0.00 0.00 2.57
2630 2733 9.905713 ATACTTCTGCTACTCCAAAAATTATGA 57.094 29.630 0.00 0.00 0.00 2.15
2631 2734 9.941664 CATACTTCTGCTACTCCAAAAATTATG 57.058 33.333 0.00 0.00 0.00 1.90
2632 2735 9.125026 CCATACTTCTGCTACTCCAAAAATTAT 57.875 33.333 0.00 0.00 0.00 1.28
2633 2736 8.107095 ACCATACTTCTGCTACTCCAAAAATTA 58.893 33.333 0.00 0.00 0.00 1.40
2634 2737 6.948309 ACCATACTTCTGCTACTCCAAAAATT 59.052 34.615 0.00 0.00 0.00 1.82
2635 2738 6.485171 ACCATACTTCTGCTACTCCAAAAAT 58.515 36.000 0.00 0.00 0.00 1.82
2636 2739 5.876357 ACCATACTTCTGCTACTCCAAAAA 58.124 37.500 0.00 0.00 0.00 1.94
2637 2740 5.499004 ACCATACTTCTGCTACTCCAAAA 57.501 39.130 0.00 0.00 0.00 2.44
2638 2741 5.499004 AACCATACTTCTGCTACTCCAAA 57.501 39.130 0.00 0.00 0.00 3.28
2639 2742 5.012664 TCAAACCATACTTCTGCTACTCCAA 59.987 40.000 0.00 0.00 0.00 3.53
2640 2743 4.530553 TCAAACCATACTTCTGCTACTCCA 59.469 41.667 0.00 0.00 0.00 3.86
2641 2744 5.086104 TCAAACCATACTTCTGCTACTCC 57.914 43.478 0.00 0.00 0.00 3.85
2642 2745 5.725362 ACTCAAACCATACTTCTGCTACTC 58.275 41.667 0.00 0.00 0.00 2.59
2643 2746 5.746990 ACTCAAACCATACTTCTGCTACT 57.253 39.130 0.00 0.00 0.00 2.57
2644 2747 6.395629 TGTACTCAAACCATACTTCTGCTAC 58.604 40.000 0.00 0.00 0.00 3.58
2645 2748 6.436218 TCTGTACTCAAACCATACTTCTGCTA 59.564 38.462 0.00 0.00 0.00 3.49
2646 2749 5.246203 TCTGTACTCAAACCATACTTCTGCT 59.754 40.000 0.00 0.00 0.00 4.24
2647 2750 5.479306 TCTGTACTCAAACCATACTTCTGC 58.521 41.667 0.00 0.00 0.00 4.26
2648 2751 9.088512 GTAATCTGTACTCAAACCATACTTCTG 57.911 37.037 0.00 0.00 0.00 3.02
2649 2752 9.036980 AGTAATCTGTACTCAAACCATACTTCT 57.963 33.333 0.00 0.00 0.00 2.85
2687 2790 8.871862 CATTGAAAACAGAATCTGTCAAAAACA 58.128 29.630 17.02 8.55 44.62 2.83
2688 2791 7.847564 GCATTGAAAACAGAATCTGTCAAAAAC 59.152 33.333 17.02 6.99 44.62 2.43
2689 2792 7.548427 TGCATTGAAAACAGAATCTGTCAAAAA 59.452 29.630 17.02 9.69 44.62 1.94
2690 2793 7.040494 TGCATTGAAAACAGAATCTGTCAAAA 58.960 30.769 17.02 9.35 44.62 2.44
2691 2794 6.571605 TGCATTGAAAACAGAATCTGTCAAA 58.428 32.000 17.02 9.02 44.62 2.69
2692 2795 6.146601 TGCATTGAAAACAGAATCTGTCAA 57.853 33.333 17.02 15.99 44.62 3.18
2693 2796 5.771153 TGCATTGAAAACAGAATCTGTCA 57.229 34.783 17.02 7.74 44.62 3.58
2694 2797 7.533426 ACTATGCATTGAAAACAGAATCTGTC 58.467 34.615 17.02 5.01 44.62 3.51
2696 2799 8.644619 CAAACTATGCATTGAAAACAGAATCTG 58.355 33.333 15.23 8.98 37.52 2.90
2697 2800 8.752766 CAAACTATGCATTGAAAACAGAATCT 57.247 30.769 15.23 0.00 0.00 2.40
2717 2820 8.352942 CCATAGAAACTAGAAAACAAGCAAACT 58.647 33.333 0.00 0.00 0.00 2.66
2718 2821 7.114953 GCCATAGAAACTAGAAAACAAGCAAAC 59.885 37.037 0.00 0.00 0.00 2.93
2719 2822 7.014230 AGCCATAGAAACTAGAAAACAAGCAAA 59.986 33.333 0.00 0.00 0.00 3.68
2720 2823 6.490040 AGCCATAGAAACTAGAAAACAAGCAA 59.510 34.615 0.00 0.00 0.00 3.91
2721 2824 6.003950 AGCCATAGAAACTAGAAAACAAGCA 58.996 36.000 0.00 0.00 0.00 3.91
2722 2825 6.502136 AGCCATAGAAACTAGAAAACAAGC 57.498 37.500 0.00 0.00 0.00 4.01
2729 2832 9.712305 GAGCAATATAAGCCATAGAAACTAGAA 57.288 33.333 0.00 0.00 0.00 2.10
2730 2833 8.870116 TGAGCAATATAAGCCATAGAAACTAGA 58.130 33.333 0.00 0.00 0.00 2.43
2731 2834 9.494271 TTGAGCAATATAAGCCATAGAAACTAG 57.506 33.333 0.00 0.00 0.00 2.57
2733 2836 8.930846 ATTGAGCAATATAAGCCATAGAAACT 57.069 30.769 0.00 0.00 0.00 2.66
2765 2868 9.541884 TCCCTACTGTAGCATATCATTTATACA 57.458 33.333 9.35 0.00 0.00 2.29
2768 2871 9.896645 CAATCCCTACTGTAGCATATCATTTAT 57.103 33.333 9.35 0.00 0.00 1.40
2769 2872 8.880244 ACAATCCCTACTGTAGCATATCATTTA 58.120 33.333 9.35 0.00 0.00 1.40
2770 2873 7.749666 ACAATCCCTACTGTAGCATATCATTT 58.250 34.615 9.35 0.00 0.00 2.32
2771 2874 7.321717 ACAATCCCTACTGTAGCATATCATT 57.678 36.000 9.35 0.00 0.00 2.57
2772 2875 6.942163 ACAATCCCTACTGTAGCATATCAT 57.058 37.500 9.35 0.00 0.00 2.45
2773 2876 6.747414 AACAATCCCTACTGTAGCATATCA 57.253 37.500 9.35 0.00 0.00 2.15
2774 2877 6.428159 CCAAACAATCCCTACTGTAGCATATC 59.572 42.308 9.35 0.00 0.00 1.63
2775 2878 6.101150 TCCAAACAATCCCTACTGTAGCATAT 59.899 38.462 9.35 0.00 0.00 1.78
2776 2879 5.427157 TCCAAACAATCCCTACTGTAGCATA 59.573 40.000 9.35 0.00 0.00 3.14
2777 2880 4.227300 TCCAAACAATCCCTACTGTAGCAT 59.773 41.667 9.35 1.02 0.00 3.79
2778 2881 3.585289 TCCAAACAATCCCTACTGTAGCA 59.415 43.478 9.35 0.00 0.00 3.49
2779 2882 4.216411 TCCAAACAATCCCTACTGTAGC 57.784 45.455 9.35 0.00 0.00 3.58
2780 2883 7.519032 TTTTTCCAAACAATCCCTACTGTAG 57.481 36.000 7.87 7.87 0.00 2.74


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

AutoCloner maintained by Alex Coulton.