Multiple sequence alignment - TraesCS6D01G061400

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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 TraesCS6D01G061400 chr6D 100.000 2914 0 0 1 2914 28693166 28690253 0.000000e+00 5382.0
1 TraesCS6D01G061400 chr3D 99.076 1298 11 1 1 1298 50893357 50894653 0.000000e+00 2329.0
2 TraesCS6D01G061400 chr3D 98.766 1297 10 4 1297 2593 50896318 50897608 0.000000e+00 2302.0
3 TraesCS6D01G061400 chr7B 96.424 839 29 1 1297 2134 471225511 471224673 0.000000e+00 1382.0
4 TraesCS6D01G061400 chr7B 96.571 350 12 0 949 1298 471227524 471227175 5.410000e-162 580.0
5 TraesCS6D01G061400 chr6A 96.731 826 22 4 1297 2121 85352678 85353499 0.000000e+00 1371.0
6 TraesCS6D01G061400 chr6A 95.595 840 22 6 1297 2121 31024871 31025710 0.000000e+00 1332.0
7 TraesCS6D01G061400 chr6A 95.106 470 23 0 2126 2595 85353466 85353935 0.000000e+00 741.0
8 TraesCS6D01G061400 chr6A 94.926 473 23 1 2126 2597 31025677 31026149 0.000000e+00 739.0
9 TraesCS6D01G061400 chr6A 98.315 356 6 0 943 1298 31024096 31024451 2.470000e-175 625.0
10 TraesCS6D01G061400 chr6A 98.315 356 6 0 943 1298 85350673 85351028 2.470000e-175 625.0
11 TraesCS6D01G061400 chr6A 96.012 326 8 2 2593 2914 33961186 33961510 2.570000e-145 525.0
12 TraesCS6D01G061400 chr1A 95.175 829 29 6 1297 2124 516652782 516651964 0.000000e+00 1299.0
13 TraesCS6D01G061400 chr1A 96.280 457 16 1 2144 2599 516651982 516651526 0.000000e+00 749.0
14 TraesCS6D01G061400 chr1A 98.286 350 6 0 949 1298 516654579 516654230 5.340000e-172 614.0
15 TraesCS6D01G061400 chr5A 94.424 807 26 1 94 900 315179253 315178466 0.000000e+00 1223.0
16 TraesCS6D01G061400 chr5A 96.923 65 2 0 1 65 315179321 315179257 3.070000e-20 110.0
17 TraesCS6D01G061400 chr5A 100.000 42 0 0 906 947 315178486 315178445 8.660000e-11 78.7
18 TraesCS6D01G061400 chr4A 93.333 810 44 7 1297 2100 44782840 44783645 0.000000e+00 1188.0
19 TraesCS6D01G061400 chr4A 93.292 805 45 7 1297 2100 44645309 44644513 0.000000e+00 1179.0
20 TraesCS6D01G061400 chr4A 93.168 805 47 7 1297 2100 44651352 44652149 0.000000e+00 1175.0
21 TraesCS6D01G061400 chr4A 92.308 468 32 3 2129 2593 44644377 44643911 0.000000e+00 662.0
22 TraesCS6D01G061400 chr4A 91.702 470 35 3 2129 2595 44783781 44784249 0.000000e+00 649.0
23 TraesCS6D01G061400 chr4A 91.314 472 35 5 2128 2595 44652284 44652753 8.810000e-180 640.0
24 TraesCS6D01G061400 chr4A 95.763 354 15 0 945 1298 44649372 44649725 3.260000e-159 571.0
25 TraesCS6D01G061400 chr4A 90.000 350 11 2 92 441 691801014 691801339 5.770000e-117 431.0
26 TraesCS6D01G061400 chr4A 87.931 348 20 4 94 441 699721515 699721840 9.790000e-105 390.0
27 TraesCS6D01G061400 chr1D 88.112 1001 82 25 1297 2270 202978845 202979835 0.000000e+00 1155.0
28 TraesCS6D01G061400 chr1D 92.751 469 30 3 2129 2595 202979775 202980241 0.000000e+00 675.0
29 TraesCS6D01G061400 chr1D 98.039 357 6 1 943 1298 456809079 456809435 1.150000e-173 619.0
30 TraesCS6D01G061400 chr1D 94.583 240 8 4 1297 1535 456811095 456811330 1.650000e-97 366.0
31 TraesCS6D01G061400 chr3A 91.961 821 44 7 1297 2100 688612193 688611378 0.000000e+00 1131.0
32 TraesCS6D01G061400 chr3A 92.128 470 33 3 2129 2595 688611242 688610774 0.000000e+00 660.0
33 TraesCS6D01G061400 chr3A 95.480 354 16 0 945 1298 688614179 688613826 1.520000e-157 566.0
34 TraesCS6D01G061400 chr6B 95.480 354 16 0 945 1298 708190487 708190840 1.520000e-157 566.0
35 TraesCS6D01G061400 chr6B 88.986 345 16 1 97 441 632347606 632347284 9.720000e-110 407.0
36 TraesCS6D01G061400 chr6B 88.793 348 16 2 97 444 695379852 695380176 3.500000e-109 405.0
37 TraesCS6D01G061400 chr6B 95.210 167 7 1 278 444 695354791 695354956 2.230000e-66 263.0
38 TraesCS6D01G061400 chr5B 90.725 345 10 2 97 441 173008859 173008537 9.590000e-120 440.0
39 TraesCS6D01G061400 chr1B 89.368 348 15 6 94 441 254275526 254275851 4.490000e-113 418.0
40 TraesCS6D01G061400 chr3B 88.793 348 16 8 94 441 289898304 289898628 3.500000e-109 405.0


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 TraesCS6D01G061400 chr6D 28690253 28693166 2913 True 5382.000000 5382 100.000000 1 2914 1 chr6D.!!$R1 2913
1 TraesCS6D01G061400 chr3D 50893357 50897608 4251 False 2315.500000 2329 98.921000 1 2593 2 chr3D.!!$F1 2592
2 TraesCS6D01G061400 chr7B 471224673 471227524 2851 True 981.000000 1382 96.497500 949 2134 2 chr7B.!!$R1 1185
3 TraesCS6D01G061400 chr6A 85350673 85353935 3262 False 912.333333 1371 96.717333 943 2595 3 chr6A.!!$F3 1652
4 TraesCS6D01G061400 chr6A 31024096 31026149 2053 False 898.666667 1332 96.278667 943 2597 3 chr6A.!!$F2 1654
5 TraesCS6D01G061400 chr1A 516651526 516654579 3053 True 887.333333 1299 96.580333 949 2599 3 chr1A.!!$R1 1650
6 TraesCS6D01G061400 chr5A 315178445 315179321 876 True 470.566667 1223 97.115667 1 947 3 chr5A.!!$R1 946
7 TraesCS6D01G061400 chr4A 44643911 44645309 1398 True 920.500000 1179 92.800000 1297 2593 2 chr4A.!!$R1 1296
8 TraesCS6D01G061400 chr4A 44782840 44784249 1409 False 918.500000 1188 92.517500 1297 2595 2 chr4A.!!$F4 1298
9 TraesCS6D01G061400 chr4A 44649372 44652753 3381 False 795.333333 1175 93.415000 945 2595 3 chr4A.!!$F3 1650
10 TraesCS6D01G061400 chr1D 202978845 202980241 1396 False 915.000000 1155 90.431500 1297 2595 2 chr1D.!!$F1 1298
11 TraesCS6D01G061400 chr1D 456809079 456811330 2251 False 492.500000 619 96.311000 943 1535 2 chr1D.!!$F2 592
12 TraesCS6D01G061400 chr3A 688610774 688614179 3405 True 785.666667 1131 93.189667 945 2595 3 chr3A.!!$R1 1650

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
379 380 0.469070 CCTCTTCCTCCATGCCTCTG 59.531 60.0 0.0 0.0 0.0 3.35 F
445 446 1.209621 CCTTCTCCCCACCCGATTTA 58.790 55.0 0.0 0.0 0.0 1.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1446 3171 3.081061 ACACACACACACACACAAAGAT 58.919 40.909 0.0 0.0 0.0 2.4 R
2432 4298 3.701040 GGAAGGAGCAATGCCAAATCTTA 59.299 43.478 0.0 0.0 0.0 2.1 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
379 380 0.469070 CCTCTTCCTCCATGCCTCTG 59.531 60.000 0.00 0.00 0.00 3.35
445 446 1.209621 CCTTCTCCCCACCCGATTTA 58.790 55.000 0.00 0.00 0.00 1.40
596 597 5.956068 TTGTAAATACATCAGTGCAAGCA 57.044 34.783 0.00 0.00 35.89 3.91
1338 3062 6.258160 GGATTGGATCAATAACAAGTTGTCG 58.742 40.000 9.40 0.00 33.90 4.35
2432 4298 4.071961 TCTACACTATGCGCATCCAAAT 57.928 40.909 29.11 12.46 0.00 2.32
2596 4464 6.533723 TGTCTACATCCAAACATAGCGTAAAG 59.466 38.462 0.00 0.00 0.00 1.85
2597 4465 6.755141 GTCTACATCCAAACATAGCGTAAAGA 59.245 38.462 0.00 0.00 0.00 2.52
2598 4466 7.438459 GTCTACATCCAAACATAGCGTAAAGAT 59.562 37.037 0.00 0.00 0.00 2.40
2599 4467 6.604735 ACATCCAAACATAGCGTAAAGATC 57.395 37.500 0.00 0.00 0.00 2.75
2600 4468 6.112734 ACATCCAAACATAGCGTAAAGATCA 58.887 36.000 0.00 0.00 0.00 2.92
2601 4469 6.767902 ACATCCAAACATAGCGTAAAGATCAT 59.232 34.615 0.00 0.00 0.00 2.45
2602 4470 6.603237 TCCAAACATAGCGTAAAGATCATG 57.397 37.500 0.00 0.00 0.00 3.07
2603 4471 5.527214 TCCAAACATAGCGTAAAGATCATGG 59.473 40.000 0.00 0.00 0.00 3.66
2604 4472 5.296780 CCAAACATAGCGTAAAGATCATGGT 59.703 40.000 0.00 0.00 0.00 3.55
2605 4473 6.183360 CCAAACATAGCGTAAAGATCATGGTT 60.183 38.462 0.00 0.00 0.00 3.67
2606 4474 6.604735 AACATAGCGTAAAGATCATGGTTC 57.395 37.500 0.00 0.00 0.00 3.62
2607 4475 5.670485 ACATAGCGTAAAGATCATGGTTCA 58.330 37.500 0.00 0.00 0.00 3.18
2608 4476 6.112734 ACATAGCGTAAAGATCATGGTTCAA 58.887 36.000 0.00 0.00 0.00 2.69
2609 4477 4.946784 AGCGTAAAGATCATGGTTCAAC 57.053 40.909 0.00 0.00 0.00 3.18
2610 4478 4.579869 AGCGTAAAGATCATGGTTCAACT 58.420 39.130 0.00 0.00 0.00 3.16
2611 4479 5.730550 AGCGTAAAGATCATGGTTCAACTA 58.269 37.500 0.00 0.00 0.00 2.24
2612 4480 5.812642 AGCGTAAAGATCATGGTTCAACTAG 59.187 40.000 0.00 0.00 0.00 2.57
2613 4481 5.581085 GCGTAAAGATCATGGTTCAACTAGT 59.419 40.000 0.00 0.00 0.00 2.57
2614 4482 6.755141 GCGTAAAGATCATGGTTCAACTAGTA 59.245 38.462 0.00 0.00 0.00 1.82
2615 4483 7.254017 GCGTAAAGATCATGGTTCAACTAGTAC 60.254 40.741 0.00 0.00 0.00 2.73
2616 4484 7.758076 CGTAAAGATCATGGTTCAACTAGTACA 59.242 37.037 0.00 0.00 0.00 2.90
2617 4485 9.601217 GTAAAGATCATGGTTCAACTAGTACAT 57.399 33.333 0.00 0.00 0.00 2.29
2620 4488 9.823647 AAGATCATGGTTCAACTAGTACATTAG 57.176 33.333 0.00 0.00 0.00 1.73
2621 4489 9.201989 AGATCATGGTTCAACTAGTACATTAGA 57.798 33.333 0.00 0.00 0.00 2.10
2622 4490 9.988815 GATCATGGTTCAACTAGTACATTAGAT 57.011 33.333 0.00 0.00 0.00 1.98
2626 4494 9.765795 ATGGTTCAACTAGTACATTAGATAAGC 57.234 33.333 0.00 0.00 0.00 3.09
2627 4495 8.202137 TGGTTCAACTAGTACATTAGATAAGCC 58.798 37.037 0.00 0.00 0.00 4.35
2628 4496 7.381678 GGTTCAACTAGTACATTAGATAAGCCG 59.618 40.741 0.00 0.00 0.00 5.52
2629 4497 7.578310 TCAACTAGTACATTAGATAAGCCGT 57.422 36.000 0.00 0.00 0.00 5.68
2630 4498 8.681486 TCAACTAGTACATTAGATAAGCCGTA 57.319 34.615 0.00 0.00 0.00 4.02
2631 4499 9.123902 TCAACTAGTACATTAGATAAGCCGTAA 57.876 33.333 0.00 0.00 0.00 3.18
2632 4500 9.909644 CAACTAGTACATTAGATAAGCCGTAAT 57.090 33.333 0.00 0.00 0.00 1.89
2637 4505 8.958506 AGTACATTAGATAAGCCGTAATAGAGG 58.041 37.037 0.00 0.00 0.00 3.69
2638 4506 7.778185 ACATTAGATAAGCCGTAATAGAGGT 57.222 36.000 0.00 0.00 0.00 3.85
2639 4507 8.874744 ACATTAGATAAGCCGTAATAGAGGTA 57.125 34.615 0.00 0.00 0.00 3.08
2640 4508 8.738106 ACATTAGATAAGCCGTAATAGAGGTAC 58.262 37.037 0.00 0.00 0.00 3.34
2642 4510 8.930846 TTAGATAAGCCGTAATAGAGGTACTT 57.069 34.615 0.00 0.00 41.55 2.24
2644 4512 8.930846 AGATAAGCCGTAATAGAGGTACTTAA 57.069 34.615 0.00 0.00 41.55 1.85
2645 4513 8.791675 AGATAAGCCGTAATAGAGGTACTTAAC 58.208 37.037 0.00 0.00 41.55 2.01
2646 4514 6.780457 AAGCCGTAATAGAGGTACTTAACA 57.220 37.500 0.00 0.00 41.55 2.41
2647 4515 6.388435 AGCCGTAATAGAGGTACTTAACAG 57.612 41.667 0.00 0.00 41.55 3.16
2648 4516 5.301298 AGCCGTAATAGAGGTACTTAACAGG 59.699 44.000 0.00 0.00 41.55 4.00
2649 4517 5.508657 GCCGTAATAGAGGTACTTAACAGGG 60.509 48.000 0.00 0.00 41.55 4.45
2650 4518 5.508657 CCGTAATAGAGGTACTTAACAGGGC 60.509 48.000 0.00 0.00 41.55 5.19
2651 4519 5.068198 CGTAATAGAGGTACTTAACAGGGCA 59.932 44.000 0.00 0.00 41.55 5.36
2652 4520 6.239232 CGTAATAGAGGTACTTAACAGGGCAT 60.239 42.308 0.00 0.00 41.55 4.40
2653 4521 7.040201 CGTAATAGAGGTACTTAACAGGGCATA 60.040 40.741 0.00 0.00 41.55 3.14
2654 4522 6.667558 ATAGAGGTACTTAACAGGGCATAC 57.332 41.667 0.00 0.00 41.55 2.39
2655 4523 4.359105 AGAGGTACTTAACAGGGCATACA 58.641 43.478 0.00 0.00 41.55 2.29
2656 4524 4.406003 AGAGGTACTTAACAGGGCATACAG 59.594 45.833 0.00 0.00 41.55 2.74
2657 4525 4.359105 AGGTACTTAACAGGGCATACAGA 58.641 43.478 0.00 0.00 27.25 3.41
2658 4526 4.406003 AGGTACTTAACAGGGCATACAGAG 59.594 45.833 0.00 0.00 27.25 3.35
2659 4527 4.161754 GGTACTTAACAGGGCATACAGAGT 59.838 45.833 0.00 0.00 0.00 3.24
2660 4528 4.473477 ACTTAACAGGGCATACAGAGTC 57.527 45.455 0.00 0.00 0.00 3.36
2661 4529 3.838317 ACTTAACAGGGCATACAGAGTCA 59.162 43.478 0.00 0.00 0.00 3.41
2662 4530 4.286032 ACTTAACAGGGCATACAGAGTCAA 59.714 41.667 0.00 0.00 0.00 3.18
2663 4531 5.045578 ACTTAACAGGGCATACAGAGTCAAT 60.046 40.000 0.00 0.00 0.00 2.57
2664 4532 6.156256 ACTTAACAGGGCATACAGAGTCAATA 59.844 38.462 0.00 0.00 0.00 1.90
2665 4533 5.636903 AACAGGGCATACAGAGTCAATAT 57.363 39.130 0.00 0.00 0.00 1.28
2666 4534 4.965814 ACAGGGCATACAGAGTCAATATG 58.034 43.478 8.58 8.58 0.00 1.78
2667 4535 4.202398 ACAGGGCATACAGAGTCAATATGG 60.202 45.833 12.91 2.75 0.00 2.74
2668 4536 3.976654 AGGGCATACAGAGTCAATATGGT 59.023 43.478 12.91 0.00 0.00 3.55
2669 4537 5.012046 CAGGGCATACAGAGTCAATATGGTA 59.988 44.000 12.91 0.00 0.00 3.25
2670 4538 5.787494 AGGGCATACAGAGTCAATATGGTAT 59.213 40.000 12.91 0.00 0.00 2.73
2671 4539 6.959954 AGGGCATACAGAGTCAATATGGTATA 59.040 38.462 12.91 0.00 0.00 1.47
2672 4540 7.625280 AGGGCATACAGAGTCAATATGGTATAT 59.375 37.037 12.91 0.00 0.00 0.86
2673 4541 8.267894 GGGCATACAGAGTCAATATGGTATATT 58.732 37.037 12.91 0.00 0.00 1.28
2682 4550 9.092876 GAGTCAATATGGTATATTAGCTTCTGC 57.907 37.037 0.00 0.00 40.05 4.26
2683 4551 8.597167 AGTCAATATGGTATATTAGCTTCTGCA 58.403 33.333 0.00 0.00 42.74 4.41
2684 4552 8.660373 GTCAATATGGTATATTAGCTTCTGCAC 58.340 37.037 0.00 0.00 42.74 4.57
2685 4553 8.374743 TCAATATGGTATATTAGCTTCTGCACA 58.625 33.333 0.00 0.00 42.74 4.57
2686 4554 8.446273 CAATATGGTATATTAGCTTCTGCACAC 58.554 37.037 0.00 0.00 42.74 3.82
2687 4555 5.351948 TGGTATATTAGCTTCTGCACACA 57.648 39.130 0.00 0.00 42.74 3.72
2688 4556 5.359756 TGGTATATTAGCTTCTGCACACAG 58.640 41.667 0.00 0.00 45.95 3.66
2701 4569 3.982475 TGCACACAGAAACAAACAAACA 58.018 36.364 0.00 0.00 0.00 2.83
2702 4570 4.371786 TGCACACAGAAACAAACAAACAA 58.628 34.783 0.00 0.00 0.00 2.83
2703 4571 4.811024 TGCACACAGAAACAAACAAACAAA 59.189 33.333 0.00 0.00 0.00 2.83
2704 4572 5.136711 GCACACAGAAACAAACAAACAAAC 58.863 37.500 0.00 0.00 0.00 2.93
2705 4573 5.674989 CACACAGAAACAAACAAACAAACC 58.325 37.500 0.00 0.00 0.00 3.27
2706 4574 5.235186 CACACAGAAACAAACAAACAAACCA 59.765 36.000 0.00 0.00 0.00 3.67
2707 4575 5.817816 ACACAGAAACAAACAAACAAACCAA 59.182 32.000 0.00 0.00 0.00 3.67
2708 4576 6.132724 CACAGAAACAAACAAACAAACCAAC 58.867 36.000 0.00 0.00 0.00 3.77
2709 4577 5.817816 ACAGAAACAAACAAACAAACCAACA 59.182 32.000 0.00 0.00 0.00 3.33
2710 4578 6.132724 CAGAAACAAACAAACAAACCAACAC 58.867 36.000 0.00 0.00 0.00 3.32
2711 4579 5.237561 AGAAACAAACAAACAAACCAACACC 59.762 36.000 0.00 0.00 0.00 4.16
2712 4580 4.073293 ACAAACAAACAAACCAACACCA 57.927 36.364 0.00 0.00 0.00 4.17
2713 4581 4.451900 ACAAACAAACAAACCAACACCAA 58.548 34.783 0.00 0.00 0.00 3.67
2714 4582 4.881850 ACAAACAAACAAACCAACACCAAA 59.118 33.333 0.00 0.00 0.00 3.28
2715 4583 5.357032 ACAAACAAACAAACCAACACCAAAA 59.643 32.000 0.00 0.00 0.00 2.44
2716 4584 6.127730 ACAAACAAACAAACCAACACCAAAAA 60.128 30.769 0.00 0.00 0.00 1.94
2742 4610 9.499479 AAATGTAACATTGCATTTTAACCATGA 57.501 25.926 13.02 0.00 46.51 3.07
2743 4611 8.706492 ATGTAACATTGCATTTTAACCATGAG 57.294 30.769 0.00 0.00 28.76 2.90
2744 4612 7.095910 TGTAACATTGCATTTTAACCATGAGG 58.904 34.615 0.00 0.00 42.21 3.86
2762 4630 8.915057 CCATGAGGTGAAATCTTAACTGATAT 57.085 34.615 0.00 0.00 0.00 1.63
2763 4631 8.997323 CCATGAGGTGAAATCTTAACTGATATC 58.003 37.037 0.00 0.00 0.00 1.63
2764 4632 9.775854 CATGAGGTGAAATCTTAACTGATATCT 57.224 33.333 3.98 0.00 0.00 1.98
2766 4634 9.605275 TGAGGTGAAATCTTAACTGATATCTTG 57.395 33.333 3.98 0.00 0.00 3.02
2767 4635 9.823647 GAGGTGAAATCTTAACTGATATCTTGA 57.176 33.333 3.98 0.00 0.00 3.02
2768 4636 9.606631 AGGTGAAATCTTAACTGATATCTTGAC 57.393 33.333 3.98 0.00 0.00 3.18
2769 4637 9.383519 GGTGAAATCTTAACTGATATCTTGACA 57.616 33.333 3.98 0.00 0.00 3.58
2793 4661 4.419522 AAAAATGGCATACACAGTCGAC 57.580 40.909 7.70 7.70 0.00 4.20
2794 4662 2.760634 AATGGCATACACAGTCGACA 57.239 45.000 19.50 0.00 0.00 4.35
2795 4663 2.010145 ATGGCATACACAGTCGACAC 57.990 50.000 19.50 0.00 0.00 3.67
2796 4664 0.676736 TGGCATACACAGTCGACACA 59.323 50.000 19.50 0.00 0.00 3.72
2797 4665 1.275010 TGGCATACACAGTCGACACAT 59.725 47.619 19.50 2.53 0.00 3.21
2798 4666 1.660607 GGCATACACAGTCGACACATG 59.339 52.381 19.50 14.53 0.00 3.21
2799 4667 2.606108 GCATACACAGTCGACACATGA 58.394 47.619 19.50 0.00 0.00 3.07
2800 4668 3.190079 GCATACACAGTCGACACATGAT 58.810 45.455 19.50 2.36 0.00 2.45
2801 4669 3.000623 GCATACACAGTCGACACATGATG 59.999 47.826 19.50 15.31 0.00 3.07
2802 4670 4.423732 CATACACAGTCGACACATGATGA 58.576 43.478 19.50 4.65 0.00 2.92
2803 4671 3.599730 ACACAGTCGACACATGATGAT 57.400 42.857 19.50 0.00 0.00 2.45
2804 4672 4.718940 ACACAGTCGACACATGATGATA 57.281 40.909 19.50 0.00 0.00 2.15
2805 4673 5.268118 ACACAGTCGACACATGATGATAT 57.732 39.130 19.50 0.00 0.00 1.63
2806 4674 6.391227 ACACAGTCGACACATGATGATATA 57.609 37.500 19.50 0.00 0.00 0.86
2807 4675 6.805713 ACACAGTCGACACATGATGATATAA 58.194 36.000 19.50 0.00 0.00 0.98
2808 4676 6.920210 ACACAGTCGACACATGATGATATAAG 59.080 38.462 19.50 0.00 0.00 1.73
2809 4677 5.923114 ACAGTCGACACATGATGATATAAGC 59.077 40.000 19.50 0.00 0.00 3.09
2810 4678 5.922544 CAGTCGACACATGATGATATAAGCA 59.077 40.000 19.50 0.00 0.00 3.91
2811 4679 6.421801 CAGTCGACACATGATGATATAAGCAA 59.578 38.462 19.50 0.00 0.00 3.91
2812 4680 6.986231 AGTCGACACATGATGATATAAGCAAA 59.014 34.615 19.50 0.00 0.00 3.68
2813 4681 7.495606 AGTCGACACATGATGATATAAGCAAAA 59.504 33.333 19.50 0.00 0.00 2.44
2814 4682 8.122330 GTCGACACATGATGATATAAGCAAAAA 58.878 33.333 11.55 0.00 0.00 1.94
2815 4683 8.122330 TCGACACATGATGATATAAGCAAAAAC 58.878 33.333 0.00 0.00 0.00 2.43
2816 4684 7.909641 CGACACATGATGATATAAGCAAAAACA 59.090 33.333 0.00 0.00 0.00 2.83
2817 4685 8.915871 ACACATGATGATATAAGCAAAAACAC 57.084 30.769 0.00 0.00 0.00 3.32
2818 4686 8.522003 ACACATGATGATATAAGCAAAAACACA 58.478 29.630 0.00 0.00 0.00 3.72
2819 4687 9.356433 CACATGATGATATAAGCAAAAACACAA 57.644 29.630 0.00 0.00 0.00 3.33
2822 4690 8.929827 TGATGATATAAGCAAAAACACAATGG 57.070 30.769 0.00 0.00 0.00 3.16
2823 4691 8.747471 TGATGATATAAGCAAAAACACAATGGA 58.253 29.630 0.00 0.00 0.00 3.41
2824 4692 8.931385 ATGATATAAGCAAAAACACAATGGAC 57.069 30.769 0.00 0.00 0.00 4.02
2825 4693 7.890515 TGATATAAGCAAAAACACAATGGACA 58.109 30.769 0.00 0.00 0.00 4.02
2826 4694 8.363390 TGATATAAGCAAAAACACAATGGACAA 58.637 29.630 0.00 0.00 0.00 3.18
2827 4695 9.202273 GATATAAGCAAAAACACAATGGACAAA 57.798 29.630 0.00 0.00 0.00 2.83
2828 4696 5.544136 AAGCAAAAACACAATGGACAAAC 57.456 34.783 0.00 0.00 0.00 2.93
2829 4697 4.831107 AGCAAAAACACAATGGACAAACT 58.169 34.783 0.00 0.00 0.00 2.66
2830 4698 4.630940 AGCAAAAACACAATGGACAAACTG 59.369 37.500 0.00 0.00 0.00 3.16
2831 4699 4.201802 GCAAAAACACAATGGACAAACTGG 60.202 41.667 0.00 0.00 0.00 4.00
2832 4700 4.817318 AAAACACAATGGACAAACTGGT 57.183 36.364 0.00 0.00 0.00 4.00
2833 4701 5.923733 AAAACACAATGGACAAACTGGTA 57.076 34.783 0.00 0.00 0.00 3.25
2834 4702 5.923733 AAACACAATGGACAAACTGGTAA 57.076 34.783 0.00 0.00 0.00 2.85
2835 4703 6.478512 AAACACAATGGACAAACTGGTAAT 57.521 33.333 0.00 0.00 0.00 1.89
2836 4704 7.589958 AAACACAATGGACAAACTGGTAATA 57.410 32.000 0.00 0.00 0.00 0.98
2837 4705 6.817765 ACACAATGGACAAACTGGTAATAG 57.182 37.500 0.00 0.00 0.00 1.73
2838 4706 6.539173 ACACAATGGACAAACTGGTAATAGA 58.461 36.000 0.00 0.00 0.00 1.98
2839 4707 7.175104 ACACAATGGACAAACTGGTAATAGAT 58.825 34.615 0.00 0.00 0.00 1.98
2840 4708 7.669722 ACACAATGGACAAACTGGTAATAGATT 59.330 33.333 0.00 0.00 0.00 2.40
2841 4709 7.970061 CACAATGGACAAACTGGTAATAGATTG 59.030 37.037 0.00 0.00 36.76 2.67
2842 4710 7.888021 ACAATGGACAAACTGGTAATAGATTGA 59.112 33.333 0.00 0.00 35.00 2.57
2843 4711 8.906867 CAATGGACAAACTGGTAATAGATTGAT 58.093 33.333 0.00 0.00 35.00 2.57
2844 4712 9.479549 AATGGACAAACTGGTAATAGATTGATT 57.520 29.630 0.00 0.00 35.00 2.57
2845 4713 8.877864 TGGACAAACTGGTAATAGATTGATTT 57.122 30.769 0.00 0.00 35.00 2.17
2846 4714 9.308000 TGGACAAACTGGTAATAGATTGATTTT 57.692 29.630 0.00 0.00 35.00 1.82
2847 4715 9.788960 GGACAAACTGGTAATAGATTGATTTTC 57.211 33.333 0.00 0.00 35.00 2.29
2899 4767 8.515473 AGTCGACAATTTTGTAAAAATTAGGC 57.485 30.769 19.50 7.00 42.43 3.93
2900 4768 8.138712 AGTCGACAATTTTGTAAAAATTAGGCA 58.861 29.630 19.50 0.00 42.43 4.75
2901 4769 8.424731 GTCGACAATTTTGTAAAAATTAGGCAG 58.575 33.333 11.55 2.12 42.43 4.85
2902 4770 7.596995 TCGACAATTTTGTAAAAATTAGGCAGG 59.403 33.333 9.66 1.56 42.43 4.85
2903 4771 7.383843 CGACAATTTTGTAAAAATTAGGCAGGT 59.616 33.333 9.66 4.16 42.43 4.00
2904 4772 8.376889 ACAATTTTGTAAAAATTAGGCAGGTG 57.623 30.769 9.66 0.93 40.16 4.00
2905 4773 8.207545 ACAATTTTGTAAAAATTAGGCAGGTGA 58.792 29.630 9.66 0.00 40.16 4.02
2906 4774 8.711457 CAATTTTGTAAAAATTAGGCAGGTGAG 58.289 33.333 9.66 0.00 0.00 3.51
2907 4775 5.975693 TTGTAAAAATTAGGCAGGTGAGG 57.024 39.130 0.00 0.00 0.00 3.86
2908 4776 4.340617 TGTAAAAATTAGGCAGGTGAGGG 58.659 43.478 0.00 0.00 0.00 4.30
2909 4777 1.852633 AAAATTAGGCAGGTGAGGGC 58.147 50.000 0.00 0.00 0.00 5.19
2910 4778 0.394352 AAATTAGGCAGGTGAGGGCG 60.394 55.000 0.00 0.00 35.71 6.13
2911 4779 1.562672 AATTAGGCAGGTGAGGGCGT 61.563 55.000 0.00 0.00 35.71 5.68
2912 4780 1.562672 ATTAGGCAGGTGAGGGCGTT 61.563 55.000 0.00 0.00 35.71 4.84
2913 4781 2.180159 TTAGGCAGGTGAGGGCGTTC 62.180 60.000 0.00 0.00 35.71 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
322 323 2.428085 GGCGGAGAGGAAGGAGACC 61.428 68.421 0.00 0.00 0.00 3.85
379 380 1.292541 GTGAGAGGGACGGGTTCAC 59.707 63.158 0.00 0.00 0.00 3.18
445 446 4.400251 AGCGACCAGGTAGGGGCT 62.400 66.667 1.37 1.70 43.76 5.19
596 597 6.432607 TCTGAATACGTATCGAAGTTCAGT 57.567 37.500 23.53 2.45 40.22 3.41
1081 1082 5.008613 TCCCAAGAAGAAACGATTCAAAGTG 59.991 40.000 8.22 1.06 38.06 3.16
1338 3062 7.798596 AATCCACACATCTTCACTATCAATC 57.201 36.000 0.00 0.00 0.00 2.67
1446 3171 3.081061 ACACACACACACACACAAAGAT 58.919 40.909 0.00 0.00 0.00 2.40
2432 4298 3.701040 GGAAGGAGCAATGCCAAATCTTA 59.299 43.478 0.00 0.00 0.00 2.10
2596 4464 9.988815 ATCTAATGTACTAGTTGAACCATGATC 57.011 33.333 0.00 0.00 0.00 2.92
2600 4468 9.765795 GCTTATCTAATGTACTAGTTGAACCAT 57.234 33.333 0.00 0.00 0.00 3.55
2601 4469 8.202137 GGCTTATCTAATGTACTAGTTGAACCA 58.798 37.037 0.00 0.00 0.00 3.67
2602 4470 7.381678 CGGCTTATCTAATGTACTAGTTGAACC 59.618 40.741 0.00 0.00 0.00 3.62
2603 4471 7.919621 ACGGCTTATCTAATGTACTAGTTGAAC 59.080 37.037 0.00 0.00 0.00 3.18
2604 4472 8.004087 ACGGCTTATCTAATGTACTAGTTGAA 57.996 34.615 0.00 0.00 0.00 2.69
2605 4473 7.578310 ACGGCTTATCTAATGTACTAGTTGA 57.422 36.000 0.00 0.00 0.00 3.18
2606 4474 9.909644 ATTACGGCTTATCTAATGTACTAGTTG 57.090 33.333 0.00 0.00 0.00 3.16
2611 4479 8.958506 CCTCTATTACGGCTTATCTAATGTACT 58.041 37.037 0.00 0.00 0.00 2.73
2612 4480 8.738106 ACCTCTATTACGGCTTATCTAATGTAC 58.262 37.037 0.00 0.00 0.00 2.90
2613 4481 8.874744 ACCTCTATTACGGCTTATCTAATGTA 57.125 34.615 0.00 0.00 0.00 2.29
2614 4482 7.778185 ACCTCTATTACGGCTTATCTAATGT 57.222 36.000 0.00 0.00 0.00 2.71
2615 4483 8.958506 AGTACCTCTATTACGGCTTATCTAATG 58.041 37.037 0.00 0.00 0.00 1.90
2616 4484 9.531158 AAGTACCTCTATTACGGCTTATCTAAT 57.469 33.333 0.00 0.00 0.00 1.73
2617 4485 8.930846 AAGTACCTCTATTACGGCTTATCTAA 57.069 34.615 0.00 0.00 0.00 2.10
2619 4487 8.791675 GTTAAGTACCTCTATTACGGCTTATCT 58.208 37.037 0.00 0.00 0.00 1.98
2620 4488 8.571336 TGTTAAGTACCTCTATTACGGCTTATC 58.429 37.037 0.00 0.00 0.00 1.75
2621 4489 8.469309 TGTTAAGTACCTCTATTACGGCTTAT 57.531 34.615 0.00 0.00 0.00 1.73
2622 4490 7.013655 CCTGTTAAGTACCTCTATTACGGCTTA 59.986 40.741 0.00 0.00 0.00 3.09
2623 4491 6.183360 CCTGTTAAGTACCTCTATTACGGCTT 60.183 42.308 0.00 0.00 0.00 4.35
2624 4492 5.301298 CCTGTTAAGTACCTCTATTACGGCT 59.699 44.000 0.00 0.00 0.00 5.52
2625 4493 5.508657 CCCTGTTAAGTACCTCTATTACGGC 60.509 48.000 0.00 0.00 0.00 5.68
2626 4494 5.508657 GCCCTGTTAAGTACCTCTATTACGG 60.509 48.000 0.00 0.00 0.00 4.02
2627 4495 5.068198 TGCCCTGTTAAGTACCTCTATTACG 59.932 44.000 0.00 0.00 0.00 3.18
2628 4496 6.475596 TGCCCTGTTAAGTACCTCTATTAC 57.524 41.667 0.00 0.00 0.00 1.89
2629 4497 7.785985 TGTATGCCCTGTTAAGTACCTCTATTA 59.214 37.037 0.00 0.00 0.00 0.98
2630 4498 6.614087 TGTATGCCCTGTTAAGTACCTCTATT 59.386 38.462 0.00 0.00 0.00 1.73
2631 4499 6.141083 TGTATGCCCTGTTAAGTACCTCTAT 58.859 40.000 0.00 0.00 0.00 1.98
2632 4500 5.521696 TGTATGCCCTGTTAAGTACCTCTA 58.478 41.667 0.00 0.00 0.00 2.43
2633 4501 4.359105 TGTATGCCCTGTTAAGTACCTCT 58.641 43.478 0.00 0.00 0.00 3.69
2634 4502 4.404715 TCTGTATGCCCTGTTAAGTACCTC 59.595 45.833 0.00 0.00 0.00 3.85
2635 4503 4.359105 TCTGTATGCCCTGTTAAGTACCT 58.641 43.478 0.00 0.00 0.00 3.08
2636 4504 4.161754 ACTCTGTATGCCCTGTTAAGTACC 59.838 45.833 0.00 0.00 0.00 3.34
2637 4505 5.105473 TGACTCTGTATGCCCTGTTAAGTAC 60.105 44.000 0.00 0.00 0.00 2.73
2638 4506 5.020795 TGACTCTGTATGCCCTGTTAAGTA 58.979 41.667 0.00 0.00 0.00 2.24
2639 4507 3.838317 TGACTCTGTATGCCCTGTTAAGT 59.162 43.478 0.00 0.00 0.00 2.24
2640 4508 4.471904 TGACTCTGTATGCCCTGTTAAG 57.528 45.455 0.00 0.00 0.00 1.85
2641 4509 4.901197 TTGACTCTGTATGCCCTGTTAA 57.099 40.909 0.00 0.00 0.00 2.01
2642 4510 6.464322 CCATATTGACTCTGTATGCCCTGTTA 60.464 42.308 0.00 0.00 0.00 2.41
2643 4511 5.371526 CATATTGACTCTGTATGCCCTGTT 58.628 41.667 0.00 0.00 0.00 3.16
2644 4512 4.202398 CCATATTGACTCTGTATGCCCTGT 60.202 45.833 0.00 0.00 0.00 4.00
2645 4513 4.202398 ACCATATTGACTCTGTATGCCCTG 60.202 45.833 0.00 0.00 0.00 4.45
2646 4514 3.976654 ACCATATTGACTCTGTATGCCCT 59.023 43.478 0.00 0.00 0.00 5.19
2647 4515 4.357918 ACCATATTGACTCTGTATGCCC 57.642 45.455 0.00 0.00 0.00 5.36
2656 4524 9.092876 GCAGAAGCTAATATACCATATTGACTC 57.907 37.037 0.00 0.00 37.91 3.36
2657 4525 8.597167 TGCAGAAGCTAATATACCATATTGACT 58.403 33.333 0.00 0.00 42.74 3.41
2658 4526 8.660373 GTGCAGAAGCTAATATACCATATTGAC 58.340 37.037 0.00 0.00 42.74 3.18
2659 4527 8.374743 TGTGCAGAAGCTAATATACCATATTGA 58.625 33.333 0.00 0.00 42.74 2.57
2660 4528 8.446273 GTGTGCAGAAGCTAATATACCATATTG 58.554 37.037 0.00 0.00 42.74 1.90
2661 4529 8.156820 TGTGTGCAGAAGCTAATATACCATATT 58.843 33.333 0.00 0.00 42.74 1.28
2662 4530 7.679783 TGTGTGCAGAAGCTAATATACCATAT 58.320 34.615 0.00 0.00 42.74 1.78
2663 4531 7.061566 TGTGTGCAGAAGCTAATATACCATA 57.938 36.000 0.00 0.00 42.74 2.74
2664 4532 5.928976 TGTGTGCAGAAGCTAATATACCAT 58.071 37.500 0.00 0.00 42.74 3.55
2665 4533 5.351948 TGTGTGCAGAAGCTAATATACCA 57.648 39.130 0.00 0.00 42.74 3.25
2666 4534 5.914085 CTGTGTGCAGAAGCTAATATACC 57.086 43.478 0.00 0.00 45.28 2.73
2679 4547 3.986572 TGTTTGTTTGTTTCTGTGTGCAG 59.013 39.130 0.00 0.00 43.87 4.41
2680 4548 3.982475 TGTTTGTTTGTTTCTGTGTGCA 58.018 36.364 0.00 0.00 0.00 4.57
2681 4549 4.981389 TTGTTTGTTTGTTTCTGTGTGC 57.019 36.364 0.00 0.00 0.00 4.57
2682 4550 5.235186 TGGTTTGTTTGTTTGTTTCTGTGTG 59.765 36.000 0.00 0.00 0.00 3.82
2683 4551 5.360591 TGGTTTGTTTGTTTGTTTCTGTGT 58.639 33.333 0.00 0.00 0.00 3.72
2684 4552 5.914085 TGGTTTGTTTGTTTGTTTCTGTG 57.086 34.783 0.00 0.00 0.00 3.66
2685 4553 5.817816 TGTTGGTTTGTTTGTTTGTTTCTGT 59.182 32.000 0.00 0.00 0.00 3.41
2686 4554 6.132724 GTGTTGGTTTGTTTGTTTGTTTCTG 58.867 36.000 0.00 0.00 0.00 3.02
2687 4555 5.237561 GGTGTTGGTTTGTTTGTTTGTTTCT 59.762 36.000 0.00 0.00 0.00 2.52
2688 4556 5.007724 TGGTGTTGGTTTGTTTGTTTGTTTC 59.992 36.000 0.00 0.00 0.00 2.78
2689 4557 4.881850 TGGTGTTGGTTTGTTTGTTTGTTT 59.118 33.333 0.00 0.00 0.00 2.83
2690 4558 4.451900 TGGTGTTGGTTTGTTTGTTTGTT 58.548 34.783 0.00 0.00 0.00 2.83
2691 4559 4.073293 TGGTGTTGGTTTGTTTGTTTGT 57.927 36.364 0.00 0.00 0.00 2.83
2692 4560 5.424121 TTTGGTGTTGGTTTGTTTGTTTG 57.576 34.783 0.00 0.00 0.00 2.93
2693 4561 6.451064 TTTTTGGTGTTGGTTTGTTTGTTT 57.549 29.167 0.00 0.00 0.00 2.83
2716 4584 9.499479 TCATGGTTAAAATGCAATGTTACATTT 57.501 25.926 7.97 0.00 45.84 2.32
2717 4585 9.153721 CTCATGGTTAAAATGCAATGTTACATT 57.846 29.630 4.56 4.56 38.11 2.71
2718 4586 7.765360 CCTCATGGTTAAAATGCAATGTTACAT 59.235 33.333 0.00 0.00 0.00 2.29
2719 4587 7.095910 CCTCATGGTTAAAATGCAATGTTACA 58.904 34.615 0.00 0.00 0.00 2.41
2720 4588 7.063308 CACCTCATGGTTAAAATGCAATGTTAC 59.937 37.037 0.00 0.00 46.05 2.50
2721 4589 7.039434 TCACCTCATGGTTAAAATGCAATGTTA 60.039 33.333 0.00 0.00 46.05 2.41
2722 4590 5.933463 CACCTCATGGTTAAAATGCAATGTT 59.067 36.000 0.00 0.00 46.05 2.71
2723 4591 5.245751 TCACCTCATGGTTAAAATGCAATGT 59.754 36.000 0.00 0.00 46.05 2.71
2724 4592 5.722263 TCACCTCATGGTTAAAATGCAATG 58.278 37.500 0.00 0.00 46.05 2.82
2725 4593 5.999205 TCACCTCATGGTTAAAATGCAAT 57.001 34.783 0.00 0.00 46.05 3.56
2726 4594 5.798125 TTCACCTCATGGTTAAAATGCAA 57.202 34.783 0.00 0.00 46.05 4.08
2727 4595 5.798125 TTTCACCTCATGGTTAAAATGCA 57.202 34.783 0.00 0.00 46.05 3.96
2728 4596 6.633856 AGATTTCACCTCATGGTTAAAATGC 58.366 36.000 8.93 0.00 46.05 3.56
2731 4599 9.362151 AGTTAAGATTTCACCTCATGGTTAAAA 57.638 29.630 0.00 0.00 46.05 1.52
2732 4600 8.792633 CAGTTAAGATTTCACCTCATGGTTAAA 58.207 33.333 0.00 0.00 46.05 1.52
2733 4601 8.160765 TCAGTTAAGATTTCACCTCATGGTTAA 58.839 33.333 0.00 0.00 46.05 2.01
2734 4602 7.685481 TCAGTTAAGATTTCACCTCATGGTTA 58.315 34.615 0.00 0.00 46.05 2.85
2735 4603 6.542821 TCAGTTAAGATTTCACCTCATGGTT 58.457 36.000 0.00 0.00 46.05 3.67
2737 4605 8.915057 ATATCAGTTAAGATTTCACCTCATGG 57.085 34.615 0.00 0.00 39.83 3.66
2738 4606 9.775854 AGATATCAGTTAAGATTTCACCTCATG 57.224 33.333 5.32 0.00 31.10 3.07
2740 4608 9.605275 CAAGATATCAGTTAAGATTTCACCTCA 57.395 33.333 5.32 0.00 31.10 3.86
2741 4609 9.823647 TCAAGATATCAGTTAAGATTTCACCTC 57.176 33.333 5.32 0.00 31.10 3.85
2742 4610 9.606631 GTCAAGATATCAGTTAAGATTTCACCT 57.393 33.333 5.32 0.00 31.10 4.00
2743 4611 9.383519 TGTCAAGATATCAGTTAAGATTTCACC 57.616 33.333 5.32 0.00 31.10 4.02
2772 4640 3.818210 TGTCGACTGTGTATGCCATTTTT 59.182 39.130 17.92 0.00 0.00 1.94
2773 4641 3.188460 GTGTCGACTGTGTATGCCATTTT 59.812 43.478 17.92 0.00 0.00 1.82
2774 4642 2.742053 GTGTCGACTGTGTATGCCATTT 59.258 45.455 17.92 0.00 0.00 2.32
2775 4643 2.289382 TGTGTCGACTGTGTATGCCATT 60.289 45.455 17.92 0.00 0.00 3.16
2776 4644 1.275010 TGTGTCGACTGTGTATGCCAT 59.725 47.619 17.92 0.00 0.00 4.40
2777 4645 0.676736 TGTGTCGACTGTGTATGCCA 59.323 50.000 17.92 0.00 0.00 4.92
2778 4646 1.660607 CATGTGTCGACTGTGTATGCC 59.339 52.381 17.92 0.00 0.00 4.40
2779 4647 2.606108 TCATGTGTCGACTGTGTATGC 58.394 47.619 17.92 0.00 0.00 3.14
2780 4648 4.423732 TCATCATGTGTCGACTGTGTATG 58.576 43.478 17.92 14.19 0.00 2.39
2781 4649 4.718940 TCATCATGTGTCGACTGTGTAT 57.281 40.909 17.92 2.43 0.00 2.29
2782 4650 4.718940 ATCATCATGTGTCGACTGTGTA 57.281 40.909 17.92 0.00 0.00 2.90
2783 4651 3.599730 ATCATCATGTGTCGACTGTGT 57.400 42.857 17.92 0.00 0.00 3.72
2784 4652 6.128982 GCTTATATCATCATGTGTCGACTGTG 60.129 42.308 17.92 12.37 0.00 3.66
2785 4653 5.923114 GCTTATATCATCATGTGTCGACTGT 59.077 40.000 17.92 0.00 0.00 3.55
2786 4654 5.922544 TGCTTATATCATCATGTGTCGACTG 59.077 40.000 17.92 7.05 0.00 3.51
2787 4655 6.089249 TGCTTATATCATCATGTGTCGACT 57.911 37.500 17.92 0.00 0.00 4.18
2788 4656 6.769608 TTGCTTATATCATCATGTGTCGAC 57.230 37.500 9.11 9.11 0.00 4.20
2789 4657 7.784633 TTTTGCTTATATCATCATGTGTCGA 57.215 32.000 0.00 0.00 0.00 4.20
2790 4658 7.909641 TGTTTTTGCTTATATCATCATGTGTCG 59.090 33.333 0.00 0.00 0.00 4.35
2791 4659 9.013490 GTGTTTTTGCTTATATCATCATGTGTC 57.987 33.333 0.00 0.00 0.00 3.67
2792 4660 8.522003 TGTGTTTTTGCTTATATCATCATGTGT 58.478 29.630 0.00 0.00 0.00 3.72
2793 4661 8.914328 TGTGTTTTTGCTTATATCATCATGTG 57.086 30.769 0.00 0.00 0.00 3.21
2796 4664 9.537192 CCATTGTGTTTTTGCTTATATCATCAT 57.463 29.630 0.00 0.00 0.00 2.45
2797 4665 8.747471 TCCATTGTGTTTTTGCTTATATCATCA 58.253 29.630 0.00 0.00 0.00 3.07
2798 4666 9.023967 GTCCATTGTGTTTTTGCTTATATCATC 57.976 33.333 0.00 0.00 0.00 2.92
2799 4667 8.530311 TGTCCATTGTGTTTTTGCTTATATCAT 58.470 29.630 0.00 0.00 0.00 2.45
2800 4668 7.890515 TGTCCATTGTGTTTTTGCTTATATCA 58.109 30.769 0.00 0.00 0.00 2.15
2801 4669 8.755696 TTGTCCATTGTGTTTTTGCTTATATC 57.244 30.769 0.00 0.00 0.00 1.63
2802 4670 8.987890 GTTTGTCCATTGTGTTTTTGCTTATAT 58.012 29.630 0.00 0.00 0.00 0.86
2803 4671 8.200792 AGTTTGTCCATTGTGTTTTTGCTTATA 58.799 29.630 0.00 0.00 0.00 0.98
2804 4672 7.011295 CAGTTTGTCCATTGTGTTTTTGCTTAT 59.989 33.333 0.00 0.00 0.00 1.73
2805 4673 6.312426 CAGTTTGTCCATTGTGTTTTTGCTTA 59.688 34.615 0.00 0.00 0.00 3.09
2806 4674 5.122082 CAGTTTGTCCATTGTGTTTTTGCTT 59.878 36.000 0.00 0.00 0.00 3.91
2807 4675 4.630940 CAGTTTGTCCATTGTGTTTTTGCT 59.369 37.500 0.00 0.00 0.00 3.91
2808 4676 4.201802 CCAGTTTGTCCATTGTGTTTTTGC 60.202 41.667 0.00 0.00 0.00 3.68
2809 4677 4.934602 ACCAGTTTGTCCATTGTGTTTTTG 59.065 37.500 0.00 0.00 0.00 2.44
2810 4678 5.159273 ACCAGTTTGTCCATTGTGTTTTT 57.841 34.783 0.00 0.00 0.00 1.94
2811 4679 4.817318 ACCAGTTTGTCCATTGTGTTTT 57.183 36.364 0.00 0.00 0.00 2.43
2812 4680 5.923733 TTACCAGTTTGTCCATTGTGTTT 57.076 34.783 0.00 0.00 0.00 2.83
2813 4681 7.001674 TCTATTACCAGTTTGTCCATTGTGTT 58.998 34.615 0.00 0.00 0.00 3.32
2814 4682 6.539173 TCTATTACCAGTTTGTCCATTGTGT 58.461 36.000 0.00 0.00 0.00 3.72
2815 4683 7.630242 ATCTATTACCAGTTTGTCCATTGTG 57.370 36.000 0.00 0.00 0.00 3.33
2816 4684 7.888021 TCAATCTATTACCAGTTTGTCCATTGT 59.112 33.333 0.00 0.00 30.56 2.71
2817 4685 8.279970 TCAATCTATTACCAGTTTGTCCATTG 57.720 34.615 0.00 0.00 30.56 2.82
2818 4686 9.479549 AATCAATCTATTACCAGTTTGTCCATT 57.520 29.630 0.00 0.00 30.56 3.16
2819 4687 9.479549 AAATCAATCTATTACCAGTTTGTCCAT 57.520 29.630 0.00 0.00 30.56 3.41
2820 4688 8.877864 AAATCAATCTATTACCAGTTTGTCCA 57.122 30.769 0.00 0.00 30.56 4.02
2821 4689 9.788960 GAAAATCAATCTATTACCAGTTTGTCC 57.211 33.333 0.00 0.00 30.56 4.02
2873 4741 9.615295 GCCTAATTTTTACAAAATTGTCGACTA 57.385 29.630 17.92 10.03 42.35 2.59
2874 4742 8.138712 TGCCTAATTTTTACAAAATTGTCGACT 58.861 29.630 17.92 0.00 42.35 4.18
2875 4743 8.288217 TGCCTAATTTTTACAAAATTGTCGAC 57.712 30.769 9.11 9.11 42.35 4.20
2876 4744 7.596995 CCTGCCTAATTTTTACAAAATTGTCGA 59.403 33.333 14.67 0.00 42.35 4.20
2877 4745 7.383843 ACCTGCCTAATTTTTACAAAATTGTCG 59.616 33.333 14.67 5.70 42.35 4.35
2878 4746 8.495148 CACCTGCCTAATTTTTACAAAATTGTC 58.505 33.333 14.67 6.59 42.35 3.18
2879 4747 8.207545 TCACCTGCCTAATTTTTACAAAATTGT 58.792 29.630 14.67 4.01 44.86 2.71
2880 4748 8.600449 TCACCTGCCTAATTTTTACAAAATTG 57.400 30.769 14.67 7.07 32.64 2.32
2881 4749 7.877612 CCTCACCTGCCTAATTTTTACAAAATT 59.122 33.333 11.03 11.03 34.55 1.82
2882 4750 7.386059 CCTCACCTGCCTAATTTTTACAAAAT 58.614 34.615 0.00 0.00 0.00 1.82
2883 4751 6.239458 CCCTCACCTGCCTAATTTTTACAAAA 60.239 38.462 0.00 0.00 0.00 2.44
2884 4752 5.245075 CCCTCACCTGCCTAATTTTTACAAA 59.755 40.000 0.00 0.00 0.00 2.83
2885 4753 4.770010 CCCTCACCTGCCTAATTTTTACAA 59.230 41.667 0.00 0.00 0.00 2.41
2886 4754 4.340617 CCCTCACCTGCCTAATTTTTACA 58.659 43.478 0.00 0.00 0.00 2.41
2887 4755 3.130516 GCCCTCACCTGCCTAATTTTTAC 59.869 47.826 0.00 0.00 0.00 2.01
2888 4756 3.361786 GCCCTCACCTGCCTAATTTTTA 58.638 45.455 0.00 0.00 0.00 1.52
2889 4757 2.179427 GCCCTCACCTGCCTAATTTTT 58.821 47.619 0.00 0.00 0.00 1.94
2890 4758 1.852633 GCCCTCACCTGCCTAATTTT 58.147 50.000 0.00 0.00 0.00 1.82
2891 4759 0.394352 CGCCCTCACCTGCCTAATTT 60.394 55.000 0.00 0.00 0.00 1.82
2892 4760 1.224592 CGCCCTCACCTGCCTAATT 59.775 57.895 0.00 0.00 0.00 1.40
2893 4761 1.562672 AACGCCCTCACCTGCCTAAT 61.563 55.000 0.00 0.00 0.00 1.73
2894 4762 2.180159 GAACGCCCTCACCTGCCTAA 62.180 60.000 0.00 0.00 0.00 2.69
2895 4763 2.606519 AACGCCCTCACCTGCCTA 60.607 61.111 0.00 0.00 0.00 3.93
2896 4764 4.021925 GAACGCCCTCACCTGCCT 62.022 66.667 0.00 0.00 0.00 4.75


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

AutoCloner maintained by Alex Coulton.