Multiple sequence alignment - TraesCS7B01G257200

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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 TraesCS7B01G257200 chr7B 100.000 3455 0 0 1 3455 476795871 476792417 0.000000e+00 6381
1 TraesCS7B01G257200 chr7B 99.056 2437 23 0 720 3156 122624256 122626692 0.000000e+00 4373
2 TraesCS7B01G257200 chr7B 100.000 303 0 0 3153 3455 122629071 122629373 8.370000e-156 560
3 TraesCS7B01G257200 chr5B 99.343 2437 16 0 720 3156 339081373 339083809 0.000000e+00 4412
4 TraesCS7B01G257200 chr5B 99.670 303 1 0 3153 3455 339086195 339086497 3.900000e-154 555
5 TraesCS7B01G257200 chr3A 99.343 2437 16 0 720 3156 57277797 57275361 0.000000e+00 4412
6 TraesCS7B01G257200 chr3A 98.413 2458 18 2 720 3156 23447067 23449524 0.000000e+00 4303
7 TraesCS7B01G257200 chr3A 99.340 303 2 0 3153 3455 57273044 57272742 1.810000e-152 549
8 TraesCS7B01G257200 chr2B 99.262 2439 14 1 717 3155 165276626 165279060 0.000000e+00 4401
9 TraesCS7B01G257200 chr2B 96.841 1583 31 8 1589 3156 178741887 178743465 0.000000e+00 2628
10 TraesCS7B01G257200 chr2B 93.204 721 47 2 1 719 419559136 419558416 0.000000e+00 1059
11 TraesCS7B01G257200 chr2B 96.471 340 12 0 2817 3156 36419875 36419536 2.330000e-156 562
12 TraesCS7B01G257200 chr4A 98.654 2452 18 1 720 3156 644772685 644770234 0.000000e+00 4331
13 TraesCS7B01G257200 chr4A 99.010 303 3 0 3153 3455 612044779 612045081 8.430000e-151 544
14 TraesCS7B01G257200 chr5A 98.379 2467 23 3 707 3156 69232563 69230097 0.000000e+00 4318
15 TraesCS7B01G257200 chr5A 99.010 303 3 0 3153 3455 637097837 637097535 8.430000e-151 544
16 TraesCS7B01G257200 chr1A 98.096 2468 16 2 719 3156 521287690 521285224 0.000000e+00 4268
17 TraesCS7B01G257200 chr1A 97.850 2465 21 3 723 3156 500074427 500071964 0.000000e+00 4229
18 TraesCS7B01G257200 chr1A 99.670 303 1 0 3153 3455 500069577 500069275 3.900000e-154 555
19 TraesCS7B01G257200 chr1A 99.010 303 3 0 3153 3455 582538450 582538148 8.430000e-151 544
20 TraesCS7B01G257200 chr6A 98.328 2392 25 1 720 3096 97398564 97396173 0.000000e+00 4181
21 TraesCS7B01G257200 chr3B 97.591 2449 25 3 720 3156 344147567 344145141 0.000000e+00 4165
22 TraesCS7B01G257200 chr3B 93.463 719 45 2 2 719 394924226 394923509 0.000000e+00 1066
23 TraesCS7B01G257200 chr3B 95.429 350 14 2 2817 3164 809208582 809208233 1.080000e-154 556
24 TraesCS7B01G257200 chr4B 93.472 720 45 2 1 719 583487048 583486330 0.000000e+00 1068
25 TraesCS7B01G257200 chr4B 93.343 721 45 2 1 720 460177679 460178397 0.000000e+00 1062
26 TraesCS7B01G257200 chr4B 93.166 717 47 2 1 716 167979268 167979983 0.000000e+00 1051
27 TraesCS7B01G257200 chr4B 100.000 303 0 0 3153 3455 451446875 451446573 8.370000e-156 560
28 TraesCS7B01G257200 chr5D 93.122 727 47 3 1 726 81180935 81180211 0.000000e+00 1062
29 TraesCS7B01G257200 chr6B 93.333 720 45 2 1 719 60690999 60690282 0.000000e+00 1061
30 TraesCS7B01G257200 chr6B 99.010 303 3 0 3153 3455 707594376 707594678 8.430000e-151 544
31 TraesCS7B01G257200 chr1D 92.847 727 49 3 1 726 439765703 439766427 0.000000e+00 1051
32 TraesCS7B01G257200 chr1D 92.857 728 47 5 1 726 448750021 448750745 0.000000e+00 1051


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 TraesCS7B01G257200 chr7B 476792417 476795871 3454 True 6381.0 6381 100.0000 1 3455 1 chr7B.!!$R1 3454
1 TraesCS7B01G257200 chr7B 122624256 122629373 5117 False 2466.5 4373 99.5280 720 3455 2 chr7B.!!$F1 2735
2 TraesCS7B01G257200 chr5B 339081373 339086497 5124 False 2483.5 4412 99.5065 720 3455 2 chr5B.!!$F1 2735
3 TraesCS7B01G257200 chr3A 23447067 23449524 2457 False 4303.0 4303 98.4130 720 3156 1 chr3A.!!$F1 2436
4 TraesCS7B01G257200 chr3A 57272742 57277797 5055 True 2480.5 4412 99.3415 720 3455 2 chr3A.!!$R1 2735
5 TraesCS7B01G257200 chr2B 165276626 165279060 2434 False 4401.0 4401 99.2620 717 3155 1 chr2B.!!$F1 2438
6 TraesCS7B01G257200 chr2B 178741887 178743465 1578 False 2628.0 2628 96.8410 1589 3156 1 chr2B.!!$F2 1567
7 TraesCS7B01G257200 chr2B 419558416 419559136 720 True 1059.0 1059 93.2040 1 719 1 chr2B.!!$R2 718
8 TraesCS7B01G257200 chr4A 644770234 644772685 2451 True 4331.0 4331 98.6540 720 3156 1 chr4A.!!$R1 2436
9 TraesCS7B01G257200 chr5A 69230097 69232563 2466 True 4318.0 4318 98.3790 707 3156 1 chr5A.!!$R1 2449
10 TraesCS7B01G257200 chr1A 521285224 521287690 2466 True 4268.0 4268 98.0960 719 3156 1 chr1A.!!$R1 2437
11 TraesCS7B01G257200 chr1A 500069275 500074427 5152 True 2392.0 4229 98.7600 723 3455 2 chr1A.!!$R3 2732
12 TraesCS7B01G257200 chr6A 97396173 97398564 2391 True 4181.0 4181 98.3280 720 3096 1 chr6A.!!$R1 2376
13 TraesCS7B01G257200 chr3B 344145141 344147567 2426 True 4165.0 4165 97.5910 720 3156 1 chr3B.!!$R1 2436
14 TraesCS7B01G257200 chr3B 394923509 394924226 717 True 1066.0 1066 93.4630 2 719 1 chr3B.!!$R2 717
15 TraesCS7B01G257200 chr4B 583486330 583487048 718 True 1068.0 1068 93.4720 1 719 1 chr4B.!!$R2 718
16 TraesCS7B01G257200 chr4B 460177679 460178397 718 False 1062.0 1062 93.3430 1 720 1 chr4B.!!$F2 719
17 TraesCS7B01G257200 chr4B 167979268 167979983 715 False 1051.0 1051 93.1660 1 716 1 chr4B.!!$F1 715
18 TraesCS7B01G257200 chr5D 81180211 81180935 724 True 1062.0 1062 93.1220 1 726 1 chr5D.!!$R1 725
19 TraesCS7B01G257200 chr6B 60690282 60690999 717 True 1061.0 1061 93.3330 1 719 1 chr6B.!!$R1 718
20 TraesCS7B01G257200 chr1D 439765703 439766427 724 False 1051.0 1051 92.8470 1 726 1 chr1D.!!$F1 725
21 TraesCS7B01G257200 chr1D 448750021 448750745 724 False 1051.0 1051 92.8570 1 726 1 chr1D.!!$F2 725

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
635 637 1.668826 AAGTTCCCTAGCCATGGACA 58.331 50.0 18.4 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
3046 3294 5.428457 TGATGAAGTATGGAGGCTTAAAGGA 59.572 40.0 0.0 0.0 0.0 3.36 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
31 32 5.943349 TCTCGGTTATGGAGGTGATAAAA 57.057 39.130 0.00 0.00 32.34 1.52
79 80 2.343101 CAAGCTTTTACACCGATCCGA 58.657 47.619 0.00 0.00 0.00 4.55
129 130 6.891908 ACATATTGAAAGTGGGAGCAATTAGT 59.108 34.615 0.00 0.00 33.45 2.24
216 218 2.538512 ACAGACCCGTTGACTAAACC 57.461 50.000 0.00 0.00 35.13 3.27
238 240 4.320057 CCTCTCTCACAAGCAAAACATGAC 60.320 45.833 0.00 0.00 0.00 3.06
296 298 7.619965 TGGTGATGTGAACTAGATTATTGACA 58.380 34.615 0.00 0.00 0.00 3.58
312 314 9.444600 GATTATTGACACTAGTAAACCCTTTGA 57.555 33.333 0.00 0.00 0.00 2.69
313 315 8.842358 TTATTGACACTAGTAAACCCTTTGAG 57.158 34.615 0.00 0.00 0.00 3.02
332 334 2.880822 GTGTTGGTCACATGTCGATG 57.119 50.000 0.00 0.00 45.51 3.84
388 390 9.988350 GTGAACTATTAGTGTTAAATCACATGG 57.012 33.333 14.75 0.00 40.37 3.66
389 391 8.673711 TGAACTATTAGTGTTAAATCACATGGC 58.326 33.333 0.00 0.00 40.37 4.40
390 392 8.807948 AACTATTAGTGTTAAATCACATGGCT 57.192 30.769 0.00 0.00 40.37 4.75
391 393 9.899661 AACTATTAGTGTTAAATCACATGGCTA 57.100 29.630 0.00 0.00 40.37 3.93
397 399 8.978874 AGTGTTAAATCACATGGCTATATGAA 57.021 30.769 0.00 0.00 40.37 2.57
398 400 8.840321 AGTGTTAAATCACATGGCTATATGAAC 58.160 33.333 0.00 0.00 40.37 3.18
399 401 8.840321 GTGTTAAATCACATGGCTATATGAACT 58.160 33.333 0.00 0.00 38.12 3.01
423 425 8.572828 CTAGATTATTGAGTCTAGTGCAAGTG 57.427 38.462 0.00 0.00 39.24 3.16
424 426 7.175347 AGATTATTGAGTCTAGTGCAAGTGA 57.825 36.000 0.00 0.00 0.00 3.41
425 427 7.264221 AGATTATTGAGTCTAGTGCAAGTGAG 58.736 38.462 0.00 0.00 0.00 3.51
426 428 6.590234 TTATTGAGTCTAGTGCAAGTGAGA 57.410 37.500 0.00 0.00 0.00 3.27
427 429 4.511617 TTGAGTCTAGTGCAAGTGAGAG 57.488 45.455 0.00 0.00 0.00 3.20
428 430 3.756117 TGAGTCTAGTGCAAGTGAGAGA 58.244 45.455 0.00 0.00 0.00 3.10
429 431 3.504134 TGAGTCTAGTGCAAGTGAGAGAC 59.496 47.826 0.00 0.00 34.77 3.36
430 432 3.756434 GAGTCTAGTGCAAGTGAGAGACT 59.244 47.826 11.14 11.14 44.76 3.24
431 433 3.505680 AGTCTAGTGCAAGTGAGAGACTG 59.494 47.826 10.74 0.00 41.51 3.51
432 434 3.504134 GTCTAGTGCAAGTGAGAGACTGA 59.496 47.826 0.00 0.00 34.02 3.41
433 435 4.022762 GTCTAGTGCAAGTGAGAGACTGAA 60.023 45.833 0.00 0.00 34.02 3.02
434 436 3.383620 AGTGCAAGTGAGAGACTGAAG 57.616 47.619 0.00 0.00 34.02 3.02
435 437 2.036992 AGTGCAAGTGAGAGACTGAAGG 59.963 50.000 0.00 0.00 34.02 3.46
436 438 2.036475 GTGCAAGTGAGAGACTGAAGGA 59.964 50.000 0.00 0.00 34.02 3.36
437 439 2.700371 TGCAAGTGAGAGACTGAAGGAA 59.300 45.455 0.00 0.00 34.02 3.36
438 440 3.134623 TGCAAGTGAGAGACTGAAGGAAA 59.865 43.478 0.00 0.00 34.02 3.13
439 441 4.202398 TGCAAGTGAGAGACTGAAGGAAAT 60.202 41.667 0.00 0.00 34.02 2.17
440 442 5.012046 TGCAAGTGAGAGACTGAAGGAAATA 59.988 40.000 0.00 0.00 34.02 1.40
441 443 6.112058 GCAAGTGAGAGACTGAAGGAAATAT 58.888 40.000 0.00 0.00 34.02 1.28
442 444 6.036953 GCAAGTGAGAGACTGAAGGAAATATG 59.963 42.308 0.00 0.00 34.02 1.78
443 445 5.669477 AGTGAGAGACTGAAGGAAATATGC 58.331 41.667 0.00 0.00 31.75 3.14
444 446 4.813697 GTGAGAGACTGAAGGAAATATGCC 59.186 45.833 0.00 0.00 0.00 4.40
445 447 4.141620 TGAGAGACTGAAGGAAATATGCCC 60.142 45.833 0.00 0.00 0.00 5.36
446 448 4.043596 AGAGACTGAAGGAAATATGCCCT 58.956 43.478 0.00 0.00 0.00 5.19
447 449 5.219739 AGAGACTGAAGGAAATATGCCCTA 58.780 41.667 0.00 0.00 31.36 3.53
448 450 5.306678 AGAGACTGAAGGAAATATGCCCTAG 59.693 44.000 0.00 0.00 31.36 3.02
449 451 5.219739 AGACTGAAGGAAATATGCCCTAGA 58.780 41.667 0.00 0.00 31.36 2.43
450 452 5.306678 AGACTGAAGGAAATATGCCCTAGAG 59.693 44.000 0.00 0.46 31.36 2.43
451 453 4.349342 ACTGAAGGAAATATGCCCTAGAGG 59.651 45.833 0.00 0.00 39.47 3.69
467 469 7.881775 CCCTAGAGGCAATAATAAAGTTGTT 57.118 36.000 0.00 0.00 0.00 2.83
468 470 8.974060 CCCTAGAGGCAATAATAAAGTTGTTA 57.026 34.615 0.00 0.00 0.00 2.41
469 471 9.574516 CCCTAGAGGCAATAATAAAGTTGTTAT 57.425 33.333 0.00 0.00 0.00 1.89
530 532 9.851686 ATTCATGCTAGAATTGTATTAACCAGA 57.148 29.630 0.00 0.00 34.70 3.86
531 533 9.679661 TTCATGCTAGAATTGTATTAACCAGAA 57.320 29.630 0.00 0.00 0.00 3.02
532 534 9.679661 TCATGCTAGAATTGTATTAACCAGAAA 57.320 29.630 0.00 0.00 0.00 2.52
533 535 9.722056 CATGCTAGAATTGTATTAACCAGAAAC 57.278 33.333 0.00 0.00 0.00 2.78
534 536 9.686683 ATGCTAGAATTGTATTAACCAGAAACT 57.313 29.630 0.00 0.00 0.00 2.66
535 537 9.515226 TGCTAGAATTGTATTAACCAGAAACTT 57.485 29.630 0.00 0.00 0.00 2.66
536 538 9.774742 GCTAGAATTGTATTAACCAGAAACTTG 57.225 33.333 0.00 0.00 0.00 3.16
548 550 9.952030 TTAACCAGAAACTTGATATATGTGTGA 57.048 29.630 0.00 0.00 0.00 3.58
549 551 8.862325 AACCAGAAACTTGATATATGTGTGAA 57.138 30.769 0.00 0.00 0.00 3.18
550 552 9.466497 AACCAGAAACTTGATATATGTGTGAAT 57.534 29.630 0.00 0.00 0.00 2.57
566 568 8.621532 ATGTGTGAATACATAGACAAAACACT 57.378 30.769 0.00 0.00 39.40 3.55
567 569 7.860613 TGTGTGAATACATAGACAAAACACTG 58.139 34.615 0.00 0.00 39.39 3.66
568 570 7.497579 TGTGTGAATACATAGACAAAACACTGT 59.502 33.333 0.00 0.00 39.39 3.55
569 571 7.798516 GTGTGAATACATAGACAAAACACTGTG 59.201 37.037 6.19 6.19 39.39 3.66
570 572 7.497579 TGTGAATACATAGACAAAACACTGTGT 59.502 33.333 7.80 7.80 40.44 3.72
571 573 8.009974 GTGAATACATAGACAAAACACTGTGTC 58.990 37.037 14.68 0.98 43.70 3.67
572 574 7.172532 TGAATACATAGACAAAACACTGTGTCC 59.827 37.037 14.68 2.03 44.30 4.02
573 575 4.134563 ACATAGACAAAACACTGTGTCCC 58.865 43.478 14.68 2.36 44.30 4.46
574 576 4.141482 ACATAGACAAAACACTGTGTCCCT 60.141 41.667 14.68 9.25 44.30 4.20
575 577 5.071250 ACATAGACAAAACACTGTGTCCCTA 59.929 40.000 14.68 10.93 44.30 3.53
576 578 4.073293 AGACAAAACACTGTGTCCCTAG 57.927 45.455 14.68 5.70 44.30 3.02
577 579 3.454812 AGACAAAACACTGTGTCCCTAGT 59.545 43.478 14.68 8.75 44.30 2.57
578 580 4.652421 AGACAAAACACTGTGTCCCTAGTA 59.348 41.667 14.68 0.00 44.30 1.82
579 581 5.307196 AGACAAAACACTGTGTCCCTAGTAT 59.693 40.000 14.68 3.94 44.30 2.12
580 582 5.305585 ACAAAACACTGTGTCCCTAGTATG 58.694 41.667 14.68 7.16 0.00 2.39
581 583 3.611766 AACACTGTGTCCCTAGTATGC 57.388 47.619 14.68 0.00 0.00 3.14
582 584 1.831736 ACACTGTGTCCCTAGTATGCC 59.168 52.381 7.80 0.00 0.00 4.40
583 585 2.111384 CACTGTGTCCCTAGTATGCCT 58.889 52.381 0.00 0.00 0.00 4.75
584 586 2.101582 CACTGTGTCCCTAGTATGCCTC 59.898 54.545 0.00 0.00 0.00 4.70
585 587 2.023888 ACTGTGTCCCTAGTATGCCTCT 60.024 50.000 0.00 0.00 0.00 3.69
586 588 3.204606 ACTGTGTCCCTAGTATGCCTCTA 59.795 47.826 0.00 0.00 0.00 2.43
587 589 3.563223 TGTGTCCCTAGTATGCCTCTAC 58.437 50.000 0.00 0.00 0.00 2.59
588 590 3.204606 TGTGTCCCTAGTATGCCTCTACT 59.795 47.826 0.00 0.00 36.04 2.57
589 591 4.216708 GTGTCCCTAGTATGCCTCTACTT 58.783 47.826 0.00 0.00 33.96 2.24
590 592 4.038162 GTGTCCCTAGTATGCCTCTACTTG 59.962 50.000 0.00 0.00 33.96 3.16
591 593 4.079385 TGTCCCTAGTATGCCTCTACTTGA 60.079 45.833 0.00 0.00 33.96 3.02
592 594 4.278919 GTCCCTAGTATGCCTCTACTTGAC 59.721 50.000 0.00 0.00 33.96 3.18
593 595 4.168283 TCCCTAGTATGCCTCTACTTGACT 59.832 45.833 0.00 0.00 33.96 3.41
594 596 5.371769 TCCCTAGTATGCCTCTACTTGACTA 59.628 44.000 0.00 0.00 33.96 2.59
595 597 5.708230 CCCTAGTATGCCTCTACTTGACTAG 59.292 48.000 0.00 0.00 36.32 2.57
596 598 5.182380 CCTAGTATGCCTCTACTTGACTAGC 59.818 48.000 0.00 0.00 35.60 3.42
597 599 4.798882 AGTATGCCTCTACTTGACTAGCT 58.201 43.478 0.00 0.00 0.00 3.32
598 600 4.825085 AGTATGCCTCTACTTGACTAGCTC 59.175 45.833 0.00 0.00 0.00 4.09
599 601 2.017782 TGCCTCTACTTGACTAGCTCG 58.982 52.381 0.00 0.00 0.00 5.03
600 602 2.018515 GCCTCTACTTGACTAGCTCGT 58.981 52.381 0.00 0.00 0.00 4.18
601 603 2.424246 GCCTCTACTTGACTAGCTCGTT 59.576 50.000 0.00 0.00 0.00 3.85
602 604 3.732471 GCCTCTACTTGACTAGCTCGTTG 60.732 52.174 0.00 0.00 0.00 4.10
603 605 3.690139 CCTCTACTTGACTAGCTCGTTGA 59.310 47.826 0.00 0.00 0.00 3.18
604 606 4.336993 CCTCTACTTGACTAGCTCGTTGAT 59.663 45.833 0.00 0.00 0.00 2.57
605 607 5.487153 TCTACTTGACTAGCTCGTTGATC 57.513 43.478 0.00 0.00 0.00 2.92
606 608 4.941873 TCTACTTGACTAGCTCGTTGATCA 59.058 41.667 0.00 0.00 0.00 2.92
607 609 4.521130 ACTTGACTAGCTCGTTGATCAA 57.479 40.909 3.38 3.38 0.00 2.57
608 610 4.883083 ACTTGACTAGCTCGTTGATCAAA 58.117 39.130 10.35 0.00 0.00 2.69
609 611 4.926238 ACTTGACTAGCTCGTTGATCAAAG 59.074 41.667 10.35 12.64 0.00 2.77
610 612 4.783764 TGACTAGCTCGTTGATCAAAGA 57.216 40.909 20.62 20.62 0.00 2.52
611 613 5.330455 TGACTAGCTCGTTGATCAAAGAT 57.670 39.130 21.83 12.82 0.00 2.40
612 614 5.105063 TGACTAGCTCGTTGATCAAAGATG 58.895 41.667 21.83 16.63 0.00 2.90
613 615 4.437239 ACTAGCTCGTTGATCAAAGATGG 58.563 43.478 21.83 14.18 0.00 3.51
614 616 3.340814 AGCTCGTTGATCAAAGATGGT 57.659 42.857 21.83 17.63 0.00 3.55
615 617 3.679389 AGCTCGTTGATCAAAGATGGTT 58.321 40.909 21.83 8.86 0.00 3.67
616 618 4.832248 AGCTCGTTGATCAAAGATGGTTA 58.168 39.130 21.83 1.90 0.00 2.85
617 619 5.245531 AGCTCGTTGATCAAAGATGGTTAA 58.754 37.500 21.83 1.24 0.00 2.01
618 620 5.352569 AGCTCGTTGATCAAAGATGGTTAAG 59.647 40.000 21.83 11.16 0.00 1.85
619 621 5.122396 GCTCGTTGATCAAAGATGGTTAAGT 59.878 40.000 21.83 0.00 0.00 2.24
620 622 6.348540 GCTCGTTGATCAAAGATGGTTAAGTT 60.349 38.462 21.83 0.00 0.00 2.66
621 623 7.129109 TCGTTGATCAAAGATGGTTAAGTTC 57.871 36.000 18.50 0.00 0.00 3.01
622 624 6.148811 TCGTTGATCAAAGATGGTTAAGTTCC 59.851 38.462 18.50 0.00 0.00 3.62
623 625 6.621613 GTTGATCAAAGATGGTTAAGTTCCC 58.378 40.000 10.35 0.00 0.00 3.97
624 626 6.139679 TGATCAAAGATGGTTAAGTTCCCT 57.860 37.500 0.00 0.00 0.00 4.20
625 627 7.265599 TGATCAAAGATGGTTAAGTTCCCTA 57.734 36.000 0.00 0.00 0.00 3.53
626 628 7.338710 TGATCAAAGATGGTTAAGTTCCCTAG 58.661 38.462 0.00 0.00 0.00 3.02
627 629 5.497474 TCAAAGATGGTTAAGTTCCCTAGC 58.503 41.667 0.00 0.00 0.00 3.42
628 630 4.505324 AAGATGGTTAAGTTCCCTAGCC 57.495 45.455 0.00 0.00 0.00 3.93
629 631 3.460825 AGATGGTTAAGTTCCCTAGCCA 58.539 45.455 0.00 0.00 0.00 4.75
630 632 4.047883 AGATGGTTAAGTTCCCTAGCCAT 58.952 43.478 0.00 0.00 37.88 4.40
631 633 3.644966 TGGTTAAGTTCCCTAGCCATG 57.355 47.619 0.00 0.00 0.00 3.66
632 634 2.241176 TGGTTAAGTTCCCTAGCCATGG 59.759 50.000 7.63 7.63 0.00 3.66
633 635 2.508300 GGTTAAGTTCCCTAGCCATGGA 59.492 50.000 18.40 0.00 0.00 3.41
634 636 3.542648 GTTAAGTTCCCTAGCCATGGAC 58.457 50.000 18.40 7.03 0.00 4.02
635 637 1.668826 AAGTTCCCTAGCCATGGACA 58.331 50.000 18.40 0.00 0.00 4.02
636 638 1.898863 AGTTCCCTAGCCATGGACAT 58.101 50.000 18.40 2.45 0.00 3.06
637 639 3.060479 AGTTCCCTAGCCATGGACATA 57.940 47.619 18.40 3.66 0.00 2.29
638 640 3.393687 AGTTCCCTAGCCATGGACATAA 58.606 45.455 18.40 0.00 0.00 1.90
639 641 3.392616 AGTTCCCTAGCCATGGACATAAG 59.607 47.826 18.40 4.12 0.00 1.73
640 642 3.060479 TCCCTAGCCATGGACATAAGT 57.940 47.619 18.40 0.00 0.00 2.24
641 643 3.393687 TCCCTAGCCATGGACATAAGTT 58.606 45.455 18.40 0.00 0.00 2.66
642 644 3.136443 TCCCTAGCCATGGACATAAGTTG 59.864 47.826 18.40 0.00 0.00 3.16
643 645 3.117888 CCCTAGCCATGGACATAAGTTGT 60.118 47.826 18.40 0.00 42.79 3.32
658 660 8.821686 ACATAAGTTGTCATTTGATAATGGGA 57.178 30.769 0.00 0.00 41.23 4.37
659 661 9.425248 ACATAAGTTGTCATTTGATAATGGGAT 57.575 29.630 0.00 0.00 41.23 3.85
660 662 9.903682 CATAAGTTGTCATTTGATAATGGGATC 57.096 33.333 0.00 0.00 41.23 3.36
661 663 7.959658 AAGTTGTCATTTGATAATGGGATCA 57.040 32.000 0.00 0.00 41.23 2.92
662 664 7.338800 AGTTGTCATTTGATAATGGGATCAC 57.661 36.000 0.00 0.00 41.23 3.06
663 665 6.891361 AGTTGTCATTTGATAATGGGATCACA 59.109 34.615 0.00 0.00 41.23 3.58
664 666 7.562454 AGTTGTCATTTGATAATGGGATCACAT 59.438 33.333 4.06 4.06 41.23 3.21
665 667 7.514784 TGTCATTTGATAATGGGATCACATC 57.485 36.000 11.76 0.00 41.23 3.06
666 668 7.061688 TGTCATTTGATAATGGGATCACATCA 58.938 34.615 11.76 2.91 41.23 3.07
667 669 7.726738 TGTCATTTGATAATGGGATCACATCAT 59.273 33.333 11.76 0.88 41.23 2.45
668 670 8.582437 GTCATTTGATAATGGGATCACATCATT 58.418 33.333 11.76 9.08 41.23 2.57
669 671 9.810870 TCATTTGATAATGGGATCACATCATTA 57.189 29.630 11.76 10.83 41.23 1.90
671 673 9.818270 ATTTGATAATGGGATCACATCATTAGT 57.182 29.630 11.76 0.00 36.97 2.24
673 675 9.948964 TTGATAATGGGATCACATCATTAGTAG 57.051 33.333 11.76 0.00 36.97 2.57
674 676 9.325248 TGATAATGGGATCACATCATTAGTAGA 57.675 33.333 11.76 0.00 36.97 2.59
677 679 8.859236 AATGGGATCACATCATTAGTAGAATG 57.141 34.615 11.76 0.00 30.35 2.67
678 680 7.616528 TGGGATCACATCATTAGTAGAATGA 57.383 36.000 0.00 2.66 40.50 2.57
679 681 8.211030 TGGGATCACATCATTAGTAGAATGAT 57.789 34.615 0.00 6.90 45.40 2.45
689 691 8.021898 TCATTAGTAGAATGATGTGATGGACA 57.978 34.615 0.00 0.00 39.53 4.02
690 692 8.485392 TCATTAGTAGAATGATGTGATGGACAA 58.515 33.333 0.00 0.00 38.36 3.18
691 693 8.771766 CATTAGTAGAATGATGTGATGGACAAG 58.228 37.037 0.00 0.00 38.36 3.16
692 694 6.550938 AGTAGAATGATGTGATGGACAAGA 57.449 37.500 0.00 0.00 38.36 3.02
693 695 6.344500 AGTAGAATGATGTGATGGACAAGAC 58.656 40.000 0.00 0.00 38.36 3.01
694 696 4.521146 AGAATGATGTGATGGACAAGACC 58.479 43.478 0.00 0.00 38.36 3.85
695 697 2.787473 TGATGTGATGGACAAGACCC 57.213 50.000 0.00 0.00 38.36 4.46
696 698 1.984424 TGATGTGATGGACAAGACCCA 59.016 47.619 0.00 0.00 38.36 4.51
697 699 2.577563 TGATGTGATGGACAAGACCCAT 59.422 45.455 0.00 0.00 46.40 4.00
705 707 4.689612 TGGACAAGACCCATCTATTAGC 57.310 45.455 0.00 0.00 33.57 3.09
706 708 4.298626 TGGACAAGACCCATCTATTAGCT 58.701 43.478 0.00 0.00 33.57 3.32
707 709 4.721776 TGGACAAGACCCATCTATTAGCTT 59.278 41.667 0.00 0.00 33.57 3.74
708 710 5.903010 TGGACAAGACCCATCTATTAGCTTA 59.097 40.000 0.00 0.00 33.57 3.09
709 711 6.042093 TGGACAAGACCCATCTATTAGCTTAG 59.958 42.308 0.00 0.00 33.57 2.18
710 712 5.859495 ACAAGACCCATCTATTAGCTTAGC 58.141 41.667 0.00 0.00 33.57 3.09
711 713 5.366768 ACAAGACCCATCTATTAGCTTAGCA 59.633 40.000 7.07 0.00 33.57 3.49
712 714 6.043706 ACAAGACCCATCTATTAGCTTAGCAT 59.956 38.462 7.07 0.00 33.57 3.79
713 715 7.235606 ACAAGACCCATCTATTAGCTTAGCATA 59.764 37.037 7.07 0.00 33.57 3.14
714 716 7.798710 AGACCCATCTATTAGCTTAGCATAA 57.201 36.000 7.07 2.93 31.46 1.90
715 717 8.386012 AGACCCATCTATTAGCTTAGCATAAT 57.614 34.615 7.07 9.96 31.46 1.28
716 718 9.494055 AGACCCATCTATTAGCTTAGCATAATA 57.506 33.333 7.07 10.52 31.46 0.98
1034 1037 1.153823 CGCTCGTTTCCTCCATCGT 60.154 57.895 0.00 0.00 0.00 3.73
1555 1564 7.069085 TGGTTAGAGTAGCGTATTTAGGTCAAT 59.931 37.037 0.00 0.00 0.00 2.57
1662 1671 8.462016 GTGGTCTGATGCTAAATTTAGACATTT 58.538 33.333 26.00 11.02 37.01 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
196 198 2.436911 AGGTTTAGTCAACGGGTCTGTT 59.563 45.455 0.00 0.00 36.05 3.16
216 218 4.320057 GGTCATGTTTTGCTTGTGAGAGAG 60.320 45.833 0.00 0.00 0.00 3.20
238 240 3.326880 ACCCAAAGAGTACTAAGGTGTGG 59.673 47.826 0.00 0.00 0.00 4.17
272 274 7.766278 AGTGTCAATAATCTAGTTCACATCACC 59.234 37.037 0.00 0.00 0.00 4.02
296 298 5.104235 ACCAACACTCAAAGGGTTTACTAGT 60.104 40.000 0.00 0.00 39.11 2.57
327 329 3.973206 AACACCCATAGTTCACATCGA 57.027 42.857 0.00 0.00 0.00 3.59
362 364 9.988350 CCATGTGATTTAACACTAATAGTTCAC 57.012 33.333 11.62 11.62 40.87 3.18
363 365 8.673711 GCCATGTGATTTAACACTAATAGTTCA 58.326 33.333 0.00 0.00 40.87 3.18
364 366 8.893727 AGCCATGTGATTTAACACTAATAGTTC 58.106 33.333 0.00 0.00 40.87 3.01
365 367 8.807948 AGCCATGTGATTTAACACTAATAGTT 57.192 30.769 0.00 0.00 40.87 2.24
372 374 8.840321 GTTCATATAGCCATGTGATTTAACACT 58.160 33.333 0.00 0.00 40.87 3.55
373 375 8.840321 AGTTCATATAGCCATGTGATTTAACAC 58.160 33.333 0.00 0.00 40.68 3.32
374 376 8.978874 AGTTCATATAGCCATGTGATTTAACA 57.021 30.769 0.00 0.00 32.94 2.41
398 400 8.409371 TCACTTGCACTAGACTCAATAATCTAG 58.591 37.037 0.00 6.72 46.67 2.43
399 401 8.293699 TCACTTGCACTAGACTCAATAATCTA 57.706 34.615 0.00 0.00 0.00 1.98
400 402 7.123397 TCTCACTTGCACTAGACTCAATAATCT 59.877 37.037 0.00 0.00 0.00 2.40
401 403 7.261325 TCTCACTTGCACTAGACTCAATAATC 58.739 38.462 0.00 0.00 0.00 1.75
402 404 7.123397 TCTCTCACTTGCACTAGACTCAATAAT 59.877 37.037 0.00 0.00 0.00 1.28
403 405 6.434340 TCTCTCACTTGCACTAGACTCAATAA 59.566 38.462 0.00 0.00 0.00 1.40
404 406 5.946377 TCTCTCACTTGCACTAGACTCAATA 59.054 40.000 0.00 0.00 0.00 1.90
405 407 4.769488 TCTCTCACTTGCACTAGACTCAAT 59.231 41.667 0.00 0.00 0.00 2.57
406 408 4.022762 GTCTCTCACTTGCACTAGACTCAA 60.023 45.833 0.00 0.00 32.51 3.02
407 409 3.504134 GTCTCTCACTTGCACTAGACTCA 59.496 47.826 0.00 0.00 32.51 3.41
408 410 3.756434 AGTCTCTCACTTGCACTAGACTC 59.244 47.826 0.00 0.00 39.48 3.36
409 411 3.505680 CAGTCTCTCACTTGCACTAGACT 59.494 47.826 0.00 0.00 43.26 3.24
410 412 3.504134 TCAGTCTCTCACTTGCACTAGAC 59.496 47.826 0.00 0.00 30.26 2.59
411 413 3.756117 TCAGTCTCTCACTTGCACTAGA 58.244 45.455 0.00 0.00 30.26 2.43
412 414 4.484236 CTTCAGTCTCTCACTTGCACTAG 58.516 47.826 0.00 0.00 30.26 2.57
413 415 3.256879 CCTTCAGTCTCTCACTTGCACTA 59.743 47.826 0.00 0.00 30.26 2.74
414 416 2.036992 CCTTCAGTCTCTCACTTGCACT 59.963 50.000 0.00 0.00 30.26 4.40
415 417 2.036475 TCCTTCAGTCTCTCACTTGCAC 59.964 50.000 0.00 0.00 30.26 4.57
416 418 2.319844 TCCTTCAGTCTCTCACTTGCA 58.680 47.619 0.00 0.00 30.26 4.08
417 419 3.393089 TTCCTTCAGTCTCTCACTTGC 57.607 47.619 0.00 0.00 30.26 4.01
418 420 6.036953 GCATATTTCCTTCAGTCTCTCACTTG 59.963 42.308 0.00 0.00 30.26 3.16
419 421 6.112058 GCATATTTCCTTCAGTCTCTCACTT 58.888 40.000 0.00 0.00 30.26 3.16
420 422 5.396213 GGCATATTTCCTTCAGTCTCTCACT 60.396 44.000 0.00 0.00 34.67 3.41
421 423 4.813697 GGCATATTTCCTTCAGTCTCTCAC 59.186 45.833 0.00 0.00 0.00 3.51
422 424 4.141620 GGGCATATTTCCTTCAGTCTCTCA 60.142 45.833 0.00 0.00 0.00 3.27
423 425 4.102367 AGGGCATATTTCCTTCAGTCTCTC 59.898 45.833 0.00 0.00 0.00 3.20
424 426 4.043596 AGGGCATATTTCCTTCAGTCTCT 58.956 43.478 0.00 0.00 0.00 3.10
425 427 4.429854 AGGGCATATTTCCTTCAGTCTC 57.570 45.455 0.00 0.00 0.00 3.36
426 428 5.219739 TCTAGGGCATATTTCCTTCAGTCT 58.780 41.667 0.00 0.00 34.75 3.24
427 429 5.512232 CCTCTAGGGCATATTTCCTTCAGTC 60.512 48.000 0.00 0.00 34.75 3.51
428 430 4.349342 CCTCTAGGGCATATTTCCTTCAGT 59.651 45.833 0.00 0.00 34.75 3.41
429 431 4.904241 CCTCTAGGGCATATTTCCTTCAG 58.096 47.826 0.00 0.00 34.75 3.02
430 432 4.982241 CCTCTAGGGCATATTTCCTTCA 57.018 45.455 0.00 0.00 34.75 3.02
443 445 7.881775 AACAACTTTATTATTGCCTCTAGGG 57.118 36.000 0.00 0.00 35.18 3.53
504 506 9.851686 TCTGGTTAATACAATTCTAGCATGAAT 57.148 29.630 0.00 0.00 38.19 2.57
505 507 9.679661 TTCTGGTTAATACAATTCTAGCATGAA 57.320 29.630 0.00 0.00 0.00 2.57
506 508 9.679661 TTTCTGGTTAATACAATTCTAGCATGA 57.320 29.630 0.00 0.00 0.00 3.07
507 509 9.722056 GTTTCTGGTTAATACAATTCTAGCATG 57.278 33.333 0.00 0.00 0.00 4.06
508 510 9.686683 AGTTTCTGGTTAATACAATTCTAGCAT 57.313 29.630 0.00 0.00 0.00 3.79
509 511 9.515226 AAGTTTCTGGTTAATACAATTCTAGCA 57.485 29.630 0.00 0.00 0.00 3.49
510 512 9.774742 CAAGTTTCTGGTTAATACAATTCTAGC 57.225 33.333 0.00 0.00 0.00 3.42
522 524 9.952030 TCACACATATATCAAGTTTCTGGTTAA 57.048 29.630 0.00 0.00 0.00 2.01
523 525 9.952030 TTCACACATATATCAAGTTTCTGGTTA 57.048 29.630 0.00 0.00 0.00 2.85
524 526 8.862325 TTCACACATATATCAAGTTTCTGGTT 57.138 30.769 0.00 0.00 0.00 3.67
540 542 9.719355 AGTGTTTTGTCTATGTATTCACACATA 57.281 29.630 0.00 0.00 39.77 2.29
541 543 8.506437 CAGTGTTTTGTCTATGTATTCACACAT 58.494 33.333 0.00 0.00 41.88 3.21
542 544 7.497579 ACAGTGTTTTGTCTATGTATTCACACA 59.502 33.333 0.00 0.00 37.54 3.72
543 545 7.798516 CACAGTGTTTTGTCTATGTATTCACAC 59.201 37.037 0.00 0.00 37.54 3.82
544 546 7.497579 ACACAGTGTTTTGTCTATGTATTCACA 59.502 33.333 0.00 0.00 39.52 3.58
545 547 7.861630 ACACAGTGTTTTGTCTATGTATTCAC 58.138 34.615 0.00 0.00 0.00 3.18
546 548 7.172532 GGACACAGTGTTTTGTCTATGTATTCA 59.827 37.037 7.86 0.00 41.65 2.57
547 549 7.360946 GGGACACAGTGTTTTGTCTATGTATTC 60.361 40.741 7.86 0.00 41.65 1.75
548 550 6.430000 GGGACACAGTGTTTTGTCTATGTATT 59.570 38.462 7.86 0.00 41.65 1.89
549 551 5.938125 GGGACACAGTGTTTTGTCTATGTAT 59.062 40.000 7.86 0.00 41.65 2.29
550 552 5.071250 AGGGACACAGTGTTTTGTCTATGTA 59.929 40.000 7.86 0.00 41.65 2.29
551 553 4.134563 GGGACACAGTGTTTTGTCTATGT 58.865 43.478 7.86 0.00 41.65 2.29
552 554 4.389374 AGGGACACAGTGTTTTGTCTATG 58.611 43.478 7.86 0.00 41.65 2.23
553 555 4.706842 AGGGACACAGTGTTTTGTCTAT 57.293 40.909 7.86 0.20 41.65 1.98
554 556 4.652421 ACTAGGGACACAGTGTTTTGTCTA 59.348 41.667 7.86 5.24 41.65 2.59
555 557 3.454812 ACTAGGGACACAGTGTTTTGTCT 59.545 43.478 7.86 4.38 41.65 3.41
556 558 3.805207 ACTAGGGACACAGTGTTTTGTC 58.195 45.455 7.86 0.00 41.28 3.18
557 559 3.926058 ACTAGGGACACAGTGTTTTGT 57.074 42.857 7.86 1.83 0.00 2.83
558 560 4.154195 GCATACTAGGGACACAGTGTTTTG 59.846 45.833 7.86 1.23 0.00 2.44
559 561 4.324267 GCATACTAGGGACACAGTGTTTT 58.676 43.478 7.86 0.00 0.00 2.43
560 562 3.307480 GGCATACTAGGGACACAGTGTTT 60.307 47.826 7.86 0.00 0.00 2.83
561 563 2.236395 GGCATACTAGGGACACAGTGTT 59.764 50.000 7.86 0.00 0.00 3.32
562 564 1.831736 GGCATACTAGGGACACAGTGT 59.168 52.381 5.68 5.68 0.00 3.55
563 565 2.101582 GAGGCATACTAGGGACACAGTG 59.898 54.545 0.00 0.00 0.00 3.66
564 566 2.023888 AGAGGCATACTAGGGACACAGT 60.024 50.000 0.00 0.00 0.00 3.55
565 567 2.672098 AGAGGCATACTAGGGACACAG 58.328 52.381 0.00 0.00 0.00 3.66
566 568 2.848678 AGAGGCATACTAGGGACACA 57.151 50.000 0.00 0.00 0.00 3.72
567 569 3.834938 AGTAGAGGCATACTAGGGACAC 58.165 50.000 0.00 0.00 34.21 3.67
568 570 4.079385 TCAAGTAGAGGCATACTAGGGACA 60.079 45.833 3.23 0.00 34.90 4.02
569 571 4.278919 GTCAAGTAGAGGCATACTAGGGAC 59.721 50.000 3.23 7.70 34.90 4.46
570 572 4.168283 AGTCAAGTAGAGGCATACTAGGGA 59.832 45.833 3.23 0.66 34.90 4.20
571 573 4.475345 AGTCAAGTAGAGGCATACTAGGG 58.525 47.826 3.23 0.00 34.90 3.53
572 574 5.182380 GCTAGTCAAGTAGAGGCATACTAGG 59.818 48.000 0.00 0.67 36.85 3.02
573 575 6.001460 AGCTAGTCAAGTAGAGGCATACTAG 58.999 44.000 0.00 0.00 38.50 2.57
574 576 5.942961 AGCTAGTCAAGTAGAGGCATACTA 58.057 41.667 3.23 0.00 34.90 1.82
575 577 4.798882 AGCTAGTCAAGTAGAGGCATACT 58.201 43.478 0.00 0.00 37.61 2.12
576 578 4.319911 CGAGCTAGTCAAGTAGAGGCATAC 60.320 50.000 0.00 0.00 0.00 2.39
577 579 3.815962 CGAGCTAGTCAAGTAGAGGCATA 59.184 47.826 0.00 0.00 0.00 3.14
578 580 2.621055 CGAGCTAGTCAAGTAGAGGCAT 59.379 50.000 0.00 0.00 0.00 4.40
579 581 2.017782 CGAGCTAGTCAAGTAGAGGCA 58.982 52.381 0.00 0.00 0.00 4.75
580 582 2.018515 ACGAGCTAGTCAAGTAGAGGC 58.981 52.381 0.00 0.00 0.00 4.70
581 583 3.690139 TCAACGAGCTAGTCAAGTAGAGG 59.310 47.826 0.00 0.00 0.00 3.69
582 584 4.948608 TCAACGAGCTAGTCAAGTAGAG 57.051 45.455 0.00 0.00 0.00 2.43
583 585 4.941873 TGATCAACGAGCTAGTCAAGTAGA 59.058 41.667 0.00 0.00 0.00 2.59
584 586 5.236655 TGATCAACGAGCTAGTCAAGTAG 57.763 43.478 0.00 0.00 0.00 2.57
585 587 5.638596 TTGATCAACGAGCTAGTCAAGTA 57.361 39.130 3.38 0.00 0.00 2.24
586 588 4.521130 TTGATCAACGAGCTAGTCAAGT 57.479 40.909 3.38 0.00 0.00 3.16
587 589 5.164233 TCTTTGATCAACGAGCTAGTCAAG 58.836 41.667 7.89 0.00 0.00 3.02
588 590 5.134202 TCTTTGATCAACGAGCTAGTCAA 57.866 39.130 7.89 0.00 0.00 3.18
589 591 4.783764 TCTTTGATCAACGAGCTAGTCA 57.216 40.909 7.89 0.00 0.00 3.41
590 592 4.505922 CCATCTTTGATCAACGAGCTAGTC 59.494 45.833 18.24 0.00 0.00 2.59
591 593 4.081420 ACCATCTTTGATCAACGAGCTAGT 60.081 41.667 18.24 10.56 0.00 2.57
592 594 4.437239 ACCATCTTTGATCAACGAGCTAG 58.563 43.478 18.24 8.24 0.00 3.42
593 595 4.471904 ACCATCTTTGATCAACGAGCTA 57.528 40.909 18.24 0.00 0.00 3.32
594 596 3.340814 ACCATCTTTGATCAACGAGCT 57.659 42.857 18.24 2.03 0.00 4.09
595 597 5.122396 ACTTAACCATCTTTGATCAACGAGC 59.878 40.000 18.24 0.00 0.00 5.03
596 598 6.727824 ACTTAACCATCTTTGATCAACGAG 57.272 37.500 18.24 10.23 0.00 4.18
597 599 6.148811 GGAACTTAACCATCTTTGATCAACGA 59.851 38.462 16.08 16.08 0.00 3.85
598 600 6.314784 GGAACTTAACCATCTTTGATCAACG 58.685 40.000 7.89 6.62 0.00 4.10
599 601 6.434340 AGGGAACTTAACCATCTTTGATCAAC 59.566 38.462 7.89 0.00 37.44 3.18
600 602 6.552008 AGGGAACTTAACCATCTTTGATCAA 58.448 36.000 3.38 3.38 37.44 2.57
601 603 6.139679 AGGGAACTTAACCATCTTTGATCA 57.860 37.500 0.00 0.00 37.44 2.92
602 604 6.261158 GCTAGGGAACTTAACCATCTTTGATC 59.739 42.308 0.00 0.00 43.67 2.92
603 605 6.122964 GCTAGGGAACTTAACCATCTTTGAT 58.877 40.000 0.00 0.00 43.67 2.57
604 606 5.497474 GCTAGGGAACTTAACCATCTTTGA 58.503 41.667 0.00 0.00 43.67 2.69
605 607 4.640647 GGCTAGGGAACTTAACCATCTTTG 59.359 45.833 0.00 0.00 43.67 2.77
606 608 4.291249 TGGCTAGGGAACTTAACCATCTTT 59.709 41.667 0.00 0.00 43.67 2.52
607 609 3.850173 TGGCTAGGGAACTTAACCATCTT 59.150 43.478 0.00 0.00 43.67 2.40
608 610 3.460825 TGGCTAGGGAACTTAACCATCT 58.539 45.455 0.00 0.00 43.67 2.90
609 611 3.926058 TGGCTAGGGAACTTAACCATC 57.074 47.619 0.00 0.00 43.67 3.51
610 612 3.117512 CCATGGCTAGGGAACTTAACCAT 60.118 47.826 0.00 0.00 43.13 3.55
611 613 2.241176 CCATGGCTAGGGAACTTAACCA 59.759 50.000 0.00 0.00 43.67 3.67
612 614 2.508300 TCCATGGCTAGGGAACTTAACC 59.492 50.000 6.96 0.00 43.67 2.85
613 615 3.054655 TGTCCATGGCTAGGGAACTTAAC 60.055 47.826 4.55 0.00 38.72 2.01
614 616 3.186283 TGTCCATGGCTAGGGAACTTAA 58.814 45.455 4.55 0.00 38.72 1.85
615 617 2.840511 TGTCCATGGCTAGGGAACTTA 58.159 47.619 4.55 0.00 38.72 2.24
616 618 1.668826 TGTCCATGGCTAGGGAACTT 58.331 50.000 4.55 0.00 38.72 2.66
617 619 1.898863 ATGTCCATGGCTAGGGAACT 58.101 50.000 4.55 0.00 38.72 3.01
618 620 3.136626 ACTTATGTCCATGGCTAGGGAAC 59.863 47.826 4.55 0.62 38.72 3.62
619 621 3.393687 ACTTATGTCCATGGCTAGGGAA 58.606 45.455 4.55 0.00 38.72 3.97
620 622 3.060479 ACTTATGTCCATGGCTAGGGA 57.940 47.619 6.96 0.00 33.63 4.20
621 623 3.117888 ACAACTTATGTCCATGGCTAGGG 60.118 47.826 6.96 0.00 37.96 3.53
622 624 4.156455 ACAACTTATGTCCATGGCTAGG 57.844 45.455 6.96 1.82 37.96 3.02
633 635 8.821686 TCCCATTATCAAATGACAACTTATGT 57.178 30.769 0.00 0.00 44.50 2.29
634 636 9.903682 GATCCCATTATCAAATGACAACTTATG 57.096 33.333 0.00 0.00 44.50 1.90
635 637 9.645128 TGATCCCATTATCAAATGACAACTTAT 57.355 29.630 0.00 0.00 44.50 1.73
636 638 8.902806 GTGATCCCATTATCAAATGACAACTTA 58.097 33.333 0.00 0.00 44.50 2.24
637 639 7.396907 TGTGATCCCATTATCAAATGACAACTT 59.603 33.333 0.00 0.00 44.50 2.66
638 640 6.891361 TGTGATCCCATTATCAAATGACAACT 59.109 34.615 0.00 0.00 44.50 3.16
639 641 7.099266 TGTGATCCCATTATCAAATGACAAC 57.901 36.000 0.00 0.00 44.50 3.32
640 642 7.560626 TGATGTGATCCCATTATCAAATGACAA 59.439 33.333 0.00 0.00 44.50 3.18
641 643 7.061688 TGATGTGATCCCATTATCAAATGACA 58.938 34.615 0.00 0.00 44.50 3.58
642 644 7.514784 TGATGTGATCCCATTATCAAATGAC 57.485 36.000 0.00 0.00 44.50 3.06
643 645 8.715190 AATGATGTGATCCCATTATCAAATGA 57.285 30.769 0.00 0.00 44.50 2.57
645 647 9.818270 ACTAATGATGTGATCCCATTATCAAAT 57.182 29.630 0.00 0.00 36.67 2.32
647 649 9.948964 CTACTAATGATGTGATCCCATTATCAA 57.051 33.333 0.00 0.00 37.61 2.57
648 650 9.325248 TCTACTAATGATGTGATCCCATTATCA 57.675 33.333 0.00 0.00 33.79 2.15
651 653 9.948964 CATTCTACTAATGATGTGATCCCATTA 57.051 33.333 0.00 0.00 33.21 1.90
652 654 8.663167 TCATTCTACTAATGATGTGATCCCATT 58.337 33.333 0.00 0.00 32.21 3.16
653 655 8.211030 TCATTCTACTAATGATGTGATCCCAT 57.789 34.615 0.00 0.00 32.21 4.00
654 656 7.616528 TCATTCTACTAATGATGTGATCCCA 57.383 36.000 0.00 0.00 32.21 4.37
663 665 8.654094 TGTCCATCACATCATTCTACTAATGAT 58.346 33.333 7.28 7.28 45.40 2.45
664 666 8.021898 TGTCCATCACATCATTCTACTAATGA 57.978 34.615 3.13 3.13 40.50 2.57
665 667 8.667076 TTGTCCATCACATCATTCTACTAATG 57.333 34.615 0.00 0.00 33.90 1.90
666 668 8.708378 TCTTGTCCATCACATCATTCTACTAAT 58.292 33.333 0.00 0.00 33.90 1.73
667 669 7.981789 GTCTTGTCCATCACATCATTCTACTAA 59.018 37.037 0.00 0.00 33.90 2.24
668 670 7.417911 GGTCTTGTCCATCACATCATTCTACTA 60.418 40.741 0.00 0.00 33.90 1.82
669 671 6.344500 GTCTTGTCCATCACATCATTCTACT 58.656 40.000 0.00 0.00 33.90 2.57
670 672 5.525378 GGTCTTGTCCATCACATCATTCTAC 59.475 44.000 0.00 0.00 33.90 2.59
671 673 5.396772 GGGTCTTGTCCATCACATCATTCTA 60.397 44.000 0.00 0.00 33.90 2.10
672 674 4.521146 GGTCTTGTCCATCACATCATTCT 58.479 43.478 0.00 0.00 33.90 2.40
673 675 3.629398 GGGTCTTGTCCATCACATCATTC 59.371 47.826 0.00 0.00 33.90 2.67
674 676 3.010472 TGGGTCTTGTCCATCACATCATT 59.990 43.478 0.00 0.00 33.90 2.57
675 677 2.577563 TGGGTCTTGTCCATCACATCAT 59.422 45.455 0.00 0.00 33.90 2.45
676 678 1.984424 TGGGTCTTGTCCATCACATCA 59.016 47.619 0.00 0.00 33.90 3.07
677 679 2.787473 TGGGTCTTGTCCATCACATC 57.213 50.000 0.00 0.00 33.90 3.06
683 685 4.910304 AGCTAATAGATGGGTCTTGTCCAT 59.090 41.667 0.00 0.00 46.73 3.41
684 686 4.298626 AGCTAATAGATGGGTCTTGTCCA 58.701 43.478 0.00 0.00 38.82 4.02
685 687 4.965200 AGCTAATAGATGGGTCTTGTCC 57.035 45.455 0.00 0.00 35.87 4.02
686 688 5.929415 GCTAAGCTAATAGATGGGTCTTGTC 59.071 44.000 0.00 0.00 35.87 3.18
687 689 5.366768 TGCTAAGCTAATAGATGGGTCTTGT 59.633 40.000 0.00 0.00 35.87 3.16
688 690 5.858381 TGCTAAGCTAATAGATGGGTCTTG 58.142 41.667 0.00 0.00 35.87 3.02
689 691 6.694445 ATGCTAAGCTAATAGATGGGTCTT 57.306 37.500 0.00 0.00 35.87 3.01
690 692 7.798710 TTATGCTAAGCTAATAGATGGGTCT 57.201 36.000 0.00 0.00 38.52 3.85
704 706 9.897744 TGCAATTAACTCATTATTATGCTAAGC 57.102 29.630 0.00 0.00 0.00 3.09
708 710 9.123902 TCTGTGCAATTAACTCATTATTATGCT 57.876 29.630 0.00 0.00 0.00 3.79
709 711 9.734620 TTCTGTGCAATTAACTCATTATTATGC 57.265 29.630 0.00 0.00 0.00 3.14
714 716 8.893727 GGTACTTCTGTGCAATTAACTCATTAT 58.106 33.333 0.00 0.00 0.00 1.28
715 717 7.880713 TGGTACTTCTGTGCAATTAACTCATTA 59.119 33.333 0.00 0.00 0.00 1.90
716 718 6.714810 TGGTACTTCTGTGCAATTAACTCATT 59.285 34.615 0.00 0.00 0.00 2.57
717 719 6.149474 GTGGTACTTCTGTGCAATTAACTCAT 59.851 38.462 0.00 0.00 0.00 2.90
3046 3294 5.428457 TGATGAAGTATGGAGGCTTAAAGGA 59.572 40.000 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.