Multiple sequence alignment - TraesCS4D01G232100

Loading Multiple Alignment...

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 TraesCS4D01G232100 chr4D 100.000 3416 0 0 1 3416 392725527 392722112 0.000000e+00 6309.0
1 TraesCS4D01G232100 chr5D 98.575 2737 25 4 682 3416 422770368 422773092 0.000000e+00 4826.0
2 TraesCS4D01G232100 chr7D 98.210 2738 31 5 681 3416 634767842 634770563 0.000000e+00 4769.0
3 TraesCS4D01G232100 chr7D 97.921 2742 46 4 677 3416 538836046 538838778 0.000000e+00 4737.0
4 TraesCS4D01G232100 chr7D 97.846 2739 55 4 681 3416 112191310 112188573 0.000000e+00 4728.0
5 TraesCS4D01G232100 chr7D 97.554 2739 27 5 680 3416 426837238 426834538 0.000000e+00 4650.0
6 TraesCS4D01G232100 chr7D 97.604 1711 39 2 683 2391 445228926 445230636 0.000000e+00 2931.0
7 TraesCS4D01G232100 chr7D 94.218 588 32 2 2 587 21002321 21001734 0.000000e+00 896.0
8 TraesCS4D01G232100 chr7D 95.187 561 27 0 2 562 381004372 381003812 0.000000e+00 887.0
9 TraesCS4D01G232100 chr7D 93.986 582 33 2 2 581 164761689 164761108 0.000000e+00 880.0
10 TraesCS4D01G232100 chr7D 93.846 585 33 2 2 583 145919557 145918973 0.000000e+00 878.0
11 TraesCS4D01G232100 chr7D 93.243 592 36 3 3 590 616465416 616464825 0.000000e+00 869.0
12 TraesCS4D01G232100 chr3D 98.138 2739 29 7 681 3416 52842441 52845160 0.000000e+00 4756.0
13 TraesCS4D01G232100 chr3D 99.077 1084 9 1 2334 3416 534218112 534217029 0.000000e+00 1945.0
14 TraesCS4D01G232100 chr1A 96.314 2740 91 8 682 3415 20826471 20823736 0.000000e+00 4492.0
15 TraesCS4D01G232100 chr1A 96.069 2137 55 7 682 2812 13813934 13811821 0.000000e+00 3454.0
16 TraesCS4D01G232100 chr1A 95.886 2139 56 9 682 2812 34337446 34339560 0.000000e+00 3434.0
17 TraesCS4D01G232100 chr7A 95.956 2745 95 6 682 3416 731435151 731437889 0.000000e+00 4440.0
18 TraesCS4D01G232100 chr7A 93.804 581 35 1 2 582 676363001 676363580 0.000000e+00 872.0
19 TraesCS4D01G232100 chr2A 96.022 2137 56 7 682 2812 752883172 752881059 0.000000e+00 3448.0
20 TraesCS4D01G232100 chr2A 97.297 37 1 0 589 625 558530746 558530782 2.850000e-06 63.9
21 TraesCS4D01G232100 chr4A 95.788 2137 57 9 682 2812 628881991 628884100 0.000000e+00 3417.0
22 TraesCS4D01G232100 chr2D 94.966 596 28 2 2 595 276936256 276935661 0.000000e+00 933.0
23 TraesCS4D01G232100 chr2D 88.608 79 9 0 582 660 429087426 429087504 2.810000e-16 97.1
24 TraesCS4D01G232100 chr2D 100.000 31 0 0 595 625 429087236 429087266 1.320000e-04 58.4
25 TraesCS4D01G232100 chr6D 94.330 582 31 2 2 582 446133635 446133055 0.000000e+00 891.0
26 TraesCS4D01G232100 chr6D 93.997 583 33 2 2 583 464696559 464697140 0.000000e+00 881.0
27 TraesCS4D01G232100 chr2B 100.000 31 0 0 595 625 506206724 506206754 1.320000e-04 58.4


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 TraesCS4D01G232100 chr4D 392722112 392725527 3415 True 6309 6309 100.000 1 3416 1 chr4D.!!$R1 3415
1 TraesCS4D01G232100 chr5D 422770368 422773092 2724 False 4826 4826 98.575 682 3416 1 chr5D.!!$F1 2734
2 TraesCS4D01G232100 chr7D 634767842 634770563 2721 False 4769 4769 98.210 681 3416 1 chr7D.!!$F3 2735
3 TraesCS4D01G232100 chr7D 538836046 538838778 2732 False 4737 4737 97.921 677 3416 1 chr7D.!!$F2 2739
4 TraesCS4D01G232100 chr7D 112188573 112191310 2737 True 4728 4728 97.846 681 3416 1 chr7D.!!$R2 2735
5 TraesCS4D01G232100 chr7D 426834538 426837238 2700 True 4650 4650 97.554 680 3416 1 chr7D.!!$R6 2736
6 TraesCS4D01G232100 chr7D 445228926 445230636 1710 False 2931 2931 97.604 683 2391 1 chr7D.!!$F1 1708
7 TraesCS4D01G232100 chr7D 21001734 21002321 587 True 896 896 94.218 2 587 1 chr7D.!!$R1 585
8 TraesCS4D01G232100 chr7D 381003812 381004372 560 True 887 887 95.187 2 562 1 chr7D.!!$R5 560
9 TraesCS4D01G232100 chr7D 164761108 164761689 581 True 880 880 93.986 2 581 1 chr7D.!!$R4 579
10 TraesCS4D01G232100 chr7D 145918973 145919557 584 True 878 878 93.846 2 583 1 chr7D.!!$R3 581
11 TraesCS4D01G232100 chr7D 616464825 616465416 591 True 869 869 93.243 3 590 1 chr7D.!!$R7 587
12 TraesCS4D01G232100 chr3D 52842441 52845160 2719 False 4756 4756 98.138 681 3416 1 chr3D.!!$F1 2735
13 TraesCS4D01G232100 chr3D 534217029 534218112 1083 True 1945 1945 99.077 2334 3416 1 chr3D.!!$R1 1082
14 TraesCS4D01G232100 chr1A 20823736 20826471 2735 True 4492 4492 96.314 682 3415 1 chr1A.!!$R2 2733
15 TraesCS4D01G232100 chr1A 13811821 13813934 2113 True 3454 3454 96.069 682 2812 1 chr1A.!!$R1 2130
16 TraesCS4D01G232100 chr1A 34337446 34339560 2114 False 3434 3434 95.886 682 2812 1 chr1A.!!$F1 2130
17 TraesCS4D01G232100 chr7A 731435151 731437889 2738 False 4440 4440 95.956 682 3416 1 chr7A.!!$F2 2734
18 TraesCS4D01G232100 chr7A 676363001 676363580 579 False 872 872 93.804 2 582 1 chr7A.!!$F1 580
19 TraesCS4D01G232100 chr2A 752881059 752883172 2113 True 3448 3448 96.022 682 2812 1 chr2A.!!$R1 2130
20 TraesCS4D01G232100 chr4A 628881991 628884100 2109 False 3417 3417 95.788 682 2812 1 chr4A.!!$F1 2130
21 TraesCS4D01G232100 chr2D 276935661 276936256 595 True 933 933 94.966 2 595 1 chr2D.!!$R1 593
22 TraesCS4D01G232100 chr6D 446133055 446133635 580 True 891 891 94.330 2 582 1 chr6D.!!$R1 580
23 TraesCS4D01G232100 chr6D 464696559 464697140 581 False 881 881 93.997 2 583 1 chr6D.!!$F1 581

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
519 529 0.035036 TTCGTGCACCCATAAACGGA 59.965 50.0 12.15 0.0 36.70 4.69 F
1778 1822 0.034186 CCTTGGCCAGTAATCCTGCA 60.034 55.0 5.11 0.0 40.06 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2317 2385 1.849039 ACTCCTTCATTGCTAGGCCAT 59.151 47.619 5.01 0.0 0.0 4.40 R
3101 3205 1.496429 CCTATGGGCAATGAAGGAGGT 59.504 52.381 0.00 0.0 0.0 3.85 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
89 90 3.041940 GCAGTTGCCGTGTAGCGT 61.042 61.111 0.00 0.00 39.32 5.07
212 216 1.732259 GCAACTGACATGTTCGGGTAG 59.268 52.381 0.00 0.00 34.44 3.18
315 325 1.229209 GGGTGTGGGAGAGGAGACA 60.229 63.158 0.00 0.00 0.00 3.41
354 364 2.661574 AAATGCCCACACACCAGCCT 62.662 55.000 0.00 0.00 0.00 4.58
374 384 1.852942 TTGTGCGTGAGTGAGAACTC 58.147 50.000 0.00 0.00 37.27 3.01
425 435 3.399181 GGCCCCTCCGTGTGATGA 61.399 66.667 0.00 0.00 0.00 2.92
426 436 2.668632 GCCCCTCCGTGTGATGAA 59.331 61.111 0.00 0.00 0.00 2.57
427 437 1.002624 GCCCCTCCGTGTGATGAAA 60.003 57.895 0.00 0.00 0.00 2.69
428 438 1.305930 GCCCCTCCGTGTGATGAAAC 61.306 60.000 0.00 0.00 0.00 2.78
429 439 0.036164 CCCCTCCGTGTGATGAAACA 59.964 55.000 0.00 0.00 0.00 2.83
430 440 1.442769 CCCTCCGTGTGATGAAACAG 58.557 55.000 0.00 0.00 0.00 3.16
431 441 1.001974 CCCTCCGTGTGATGAAACAGA 59.998 52.381 0.00 0.00 0.00 3.41
432 442 2.069273 CCTCCGTGTGATGAAACAGAC 58.931 52.381 0.00 0.00 0.00 3.51
435 445 2.560284 CGTGTGATGAAACAGACGTG 57.440 50.000 0.00 0.00 46.91 4.49
436 446 1.858458 CGTGTGATGAAACAGACGTGT 59.142 47.619 0.00 0.00 46.91 4.49
437 447 2.347568 CGTGTGATGAAACAGACGTGTG 60.348 50.000 11.72 11.72 46.91 3.82
438 448 2.032894 GTGTGATGAAACAGACGTGTGG 60.033 50.000 17.83 0.00 36.84 4.17
439 449 1.531149 GTGATGAAACAGACGTGTGGG 59.469 52.381 17.83 0.00 36.84 4.61
440 450 0.517316 GATGAAACAGACGTGTGGGC 59.483 55.000 17.83 6.24 36.84 5.36
441 451 1.227999 ATGAAACAGACGTGTGGGCG 61.228 55.000 17.83 0.00 36.84 6.13
442 452 1.593209 GAAACAGACGTGTGGGCGA 60.593 57.895 17.83 0.00 36.84 5.54
443 453 1.828331 GAAACAGACGTGTGGGCGAC 61.828 60.000 17.83 0.00 36.84 5.19
462 472 3.747976 GGGTGAATGCCCGCACAC 61.748 66.667 0.00 0.00 39.17 3.82
463 473 3.747976 GGTGAATGCCCGCACACC 61.748 66.667 12.17 12.17 44.23 4.16
464 474 2.983030 GTGAATGCCCGCACACCA 60.983 61.111 0.00 0.00 35.19 4.17
465 475 2.672651 TGAATGCCCGCACACCAG 60.673 61.111 0.00 0.00 0.00 4.00
466 476 4.120331 GAATGCCCGCACACCAGC 62.120 66.667 0.00 0.00 0.00 4.85
474 484 3.958860 GCACACCAGCCCAGTCCT 61.959 66.667 0.00 0.00 0.00 3.85
475 485 2.592993 GCACACCAGCCCAGTCCTA 61.593 63.158 0.00 0.00 0.00 2.94
476 486 1.296715 CACACCAGCCCAGTCCTAC 59.703 63.158 0.00 0.00 0.00 3.18
477 487 1.152118 ACACCAGCCCAGTCCTACA 60.152 57.895 0.00 0.00 0.00 2.74
478 488 0.547712 ACACCAGCCCAGTCCTACAT 60.548 55.000 0.00 0.00 0.00 2.29
479 489 0.107508 CACCAGCCCAGTCCTACATG 60.108 60.000 0.00 0.00 0.00 3.21
480 490 1.274703 ACCAGCCCAGTCCTACATGG 61.275 60.000 0.00 0.00 36.27 3.66
481 491 1.153086 CAGCCCAGTCCTACATGGC 60.153 63.158 0.00 0.00 37.32 4.40
482 492 1.616327 AGCCCAGTCCTACATGGCA 60.616 57.895 11.02 0.00 38.85 4.92
483 493 1.452108 GCCCAGTCCTACATGGCAC 60.452 63.158 0.00 0.00 37.11 5.01
484 494 1.224592 CCCAGTCCTACATGGCACC 59.775 63.158 0.00 0.00 35.10 5.01
485 495 1.561769 CCCAGTCCTACATGGCACCA 61.562 60.000 0.00 0.00 35.10 4.17
486 496 0.392998 CCAGTCCTACATGGCACCAC 60.393 60.000 0.00 0.00 35.26 4.16
487 497 0.324614 CAGTCCTACATGGCACCACA 59.675 55.000 0.00 0.00 35.26 4.17
488 498 1.064003 AGTCCTACATGGCACCACAA 58.936 50.000 0.00 0.00 35.26 3.33
489 499 1.635487 AGTCCTACATGGCACCACAAT 59.365 47.619 0.00 0.00 35.26 2.71
490 500 2.017049 GTCCTACATGGCACCACAATC 58.983 52.381 0.00 0.00 35.26 2.67
491 501 1.632920 TCCTACATGGCACCACAATCA 59.367 47.619 0.00 0.00 35.26 2.57
492 502 2.241941 TCCTACATGGCACCACAATCAT 59.758 45.455 0.00 0.00 35.26 2.45
493 503 2.359848 CCTACATGGCACCACAATCATG 59.640 50.000 0.00 0.00 41.74 3.07
494 504 0.533491 ACATGGCACCACAATCATGC 59.467 50.000 0.00 0.00 40.22 4.06
498 508 3.429043 GCACCACAATCATGCCAAG 57.571 52.632 0.00 0.00 33.06 3.61
499 509 0.889994 GCACCACAATCATGCCAAGA 59.110 50.000 0.00 0.00 33.06 3.02
500 510 1.479323 GCACCACAATCATGCCAAGAT 59.521 47.619 0.00 0.00 33.06 2.40
501 511 2.093869 GCACCACAATCATGCCAAGATT 60.094 45.455 0.00 0.00 36.19 2.40
502 512 3.777478 CACCACAATCATGCCAAGATTC 58.223 45.455 0.00 0.00 33.64 2.52
503 513 2.424601 ACCACAATCATGCCAAGATTCG 59.575 45.455 0.00 0.00 33.64 3.34
504 514 2.424601 CCACAATCATGCCAAGATTCGT 59.575 45.455 0.00 0.00 33.64 3.85
505 515 3.431856 CACAATCATGCCAAGATTCGTG 58.568 45.455 9.26 9.26 33.64 4.35
506 516 2.159338 ACAATCATGCCAAGATTCGTGC 60.159 45.455 0.00 0.00 33.64 5.34
507 517 1.753930 ATCATGCCAAGATTCGTGCA 58.246 45.000 0.00 0.00 38.23 4.57
508 518 0.804364 TCATGCCAAGATTCGTGCAC 59.196 50.000 6.82 6.82 36.41 4.57
509 519 0.179156 CATGCCAAGATTCGTGCACC 60.179 55.000 12.15 0.00 36.41 5.01
510 520 1.315257 ATGCCAAGATTCGTGCACCC 61.315 55.000 12.15 0.00 36.41 4.61
511 521 1.971167 GCCAAGATTCGTGCACCCA 60.971 57.895 12.15 0.00 0.00 4.51
512 522 1.315257 GCCAAGATTCGTGCACCCAT 61.315 55.000 12.15 2.83 0.00 4.00
513 523 2.016604 GCCAAGATTCGTGCACCCATA 61.017 52.381 12.15 0.00 0.00 2.74
514 524 2.364632 CCAAGATTCGTGCACCCATAA 58.635 47.619 12.15 1.02 0.00 1.90
515 525 2.752354 CCAAGATTCGTGCACCCATAAA 59.248 45.455 12.15 0.00 0.00 1.40
516 526 3.427503 CCAAGATTCGTGCACCCATAAAC 60.428 47.826 12.15 0.00 0.00 2.01
517 527 2.006888 AGATTCGTGCACCCATAAACG 58.993 47.619 12.15 0.00 37.38 3.60
518 528 1.063469 GATTCGTGCACCCATAAACGG 59.937 52.381 12.15 0.00 36.70 4.44
519 529 0.035036 TTCGTGCACCCATAAACGGA 59.965 50.000 12.15 0.00 36.70 4.69
520 530 0.250793 TCGTGCACCCATAAACGGAT 59.749 50.000 12.15 0.00 36.70 4.18
521 531 0.376852 CGTGCACCCATAAACGGATG 59.623 55.000 12.15 0.00 32.55 3.51
522 532 0.100503 GTGCACCCATAAACGGATGC 59.899 55.000 5.22 0.00 0.00 3.91
523 533 1.355210 GCACCCATAAACGGATGCG 59.645 57.895 4.58 4.58 0.00 4.73
524 534 2.021722 CACCCATAAACGGATGCGG 58.978 57.895 12.44 0.00 0.00 5.69
525 535 0.462937 CACCCATAAACGGATGCGGA 60.463 55.000 12.44 0.00 0.00 5.54
526 536 0.472471 ACCCATAAACGGATGCGGAT 59.528 50.000 12.44 1.18 0.00 4.18
527 537 1.156736 CCCATAAACGGATGCGGATC 58.843 55.000 12.44 8.63 0.00 3.36
528 538 1.156736 CCATAAACGGATGCGGATCC 58.843 55.000 24.93 24.93 44.54 3.36
539 549 2.278596 CGGATCCACGCGTGTAGG 60.279 66.667 34.81 22.02 0.00 3.18
540 550 2.585247 GGATCCACGCGTGTAGGC 60.585 66.667 34.81 21.13 0.00 3.93
558 568 2.153039 CGAGATGCAAACGCTCACA 58.847 52.632 0.00 0.00 0.00 3.58
559 569 0.179240 CGAGATGCAAACGCTCACAC 60.179 55.000 0.00 0.00 0.00 3.82
560 570 0.179240 GAGATGCAAACGCTCACACG 60.179 55.000 0.00 0.00 39.50 4.49
570 580 2.587753 CTCACACGTGTGGGCGTT 60.588 61.111 39.88 7.83 45.65 4.84
571 581 1.300311 CTCACACGTGTGGGCGTTA 60.300 57.895 39.88 23.35 45.65 3.18
572 582 1.282248 CTCACACGTGTGGGCGTTAG 61.282 60.000 39.88 27.58 45.65 2.34
573 583 1.593209 CACACGTGTGGGCGTTAGT 60.593 57.895 35.65 1.12 43.83 2.24
574 584 0.318869 CACACGTGTGGGCGTTAGTA 60.319 55.000 35.65 0.00 43.83 1.82
575 585 0.604578 ACACGTGTGGGCGTTAGTAT 59.395 50.000 22.71 0.00 43.83 2.12
576 586 1.001181 ACACGTGTGGGCGTTAGTATT 59.999 47.619 22.71 0.00 43.83 1.89
577 587 2.070783 CACGTGTGGGCGTTAGTATTT 58.929 47.619 7.58 0.00 43.83 1.40
578 588 2.093152 CACGTGTGGGCGTTAGTATTTC 59.907 50.000 7.58 0.00 43.83 2.17
579 589 1.662122 CGTGTGGGCGTTAGTATTTCC 59.338 52.381 0.00 0.00 0.00 3.13
580 590 1.662122 GTGTGGGCGTTAGTATTTCCG 59.338 52.381 0.00 0.00 0.00 4.30
581 591 1.275856 TGTGGGCGTTAGTATTTCCGT 59.724 47.619 0.00 0.00 0.00 4.69
582 592 2.289569 TGTGGGCGTTAGTATTTCCGTT 60.290 45.455 0.00 0.00 0.00 4.44
583 593 2.349580 GTGGGCGTTAGTATTTCCGTTC 59.650 50.000 0.00 0.00 0.00 3.95
584 594 2.234414 TGGGCGTTAGTATTTCCGTTCT 59.766 45.455 0.00 0.00 0.00 3.01
585 595 3.264947 GGGCGTTAGTATTTCCGTTCTT 58.735 45.455 0.00 0.00 0.00 2.52
586 596 3.686241 GGGCGTTAGTATTTCCGTTCTTT 59.314 43.478 0.00 0.00 0.00 2.52
587 597 4.436451 GGGCGTTAGTATTTCCGTTCTTTG 60.436 45.833 0.00 0.00 0.00 2.77
588 598 4.389687 GGCGTTAGTATTTCCGTTCTTTGA 59.610 41.667 0.00 0.00 0.00 2.69
589 599 5.106987 GGCGTTAGTATTTCCGTTCTTTGAA 60.107 40.000 0.00 0.00 0.00 2.69
590 600 6.013689 GCGTTAGTATTTCCGTTCTTTGAAG 58.986 40.000 0.00 0.00 0.00 3.02
591 601 6.128742 GCGTTAGTATTTCCGTTCTTTGAAGA 60.129 38.462 0.00 0.00 0.00 2.87
592 602 7.412672 GCGTTAGTATTTCCGTTCTTTGAAGAT 60.413 37.037 0.00 0.00 34.49 2.40
593 603 7.898309 CGTTAGTATTTCCGTTCTTTGAAGATG 59.102 37.037 0.00 0.00 34.49 2.90
594 604 8.718734 GTTAGTATTTCCGTTCTTTGAAGATGT 58.281 33.333 0.00 0.00 34.49 3.06
595 605 7.745620 AGTATTTCCGTTCTTTGAAGATGTT 57.254 32.000 0.00 0.00 34.49 2.71
596 606 8.842358 AGTATTTCCGTTCTTTGAAGATGTTA 57.158 30.769 0.00 0.00 34.49 2.41
597 607 8.936864 AGTATTTCCGTTCTTTGAAGATGTTAG 58.063 33.333 0.00 0.00 34.49 2.34
598 608 7.745620 ATTTCCGTTCTTTGAAGATGTTAGT 57.254 32.000 0.00 0.00 34.49 2.24
599 609 6.780706 TTCCGTTCTTTGAAGATGTTAGTC 57.219 37.500 0.00 0.00 34.49 2.59
600 610 6.097915 TCCGTTCTTTGAAGATGTTAGTCT 57.902 37.500 0.00 0.00 34.49 3.24
601 611 5.926542 TCCGTTCTTTGAAGATGTTAGTCTG 59.073 40.000 0.00 0.00 34.49 3.51
602 612 5.696724 CCGTTCTTTGAAGATGTTAGTCTGT 59.303 40.000 0.00 0.00 34.49 3.41
603 613 6.202954 CCGTTCTTTGAAGATGTTAGTCTGTT 59.797 38.462 0.00 0.00 34.49 3.16
604 614 7.065894 CGTTCTTTGAAGATGTTAGTCTGTTG 58.934 38.462 0.00 0.00 34.49 3.33
605 615 7.355778 GTTCTTTGAAGATGTTAGTCTGTTGG 58.644 38.462 0.00 0.00 34.49 3.77
606 616 5.997746 TCTTTGAAGATGTTAGTCTGTTGGG 59.002 40.000 0.00 0.00 0.00 4.12
607 617 3.674997 TGAAGATGTTAGTCTGTTGGGC 58.325 45.455 0.00 0.00 0.00 5.36
608 618 3.072330 TGAAGATGTTAGTCTGTTGGGCA 59.928 43.478 0.00 0.00 0.00 5.36
609 619 3.059352 AGATGTTAGTCTGTTGGGCAC 57.941 47.619 0.00 0.00 0.00 5.01
610 620 2.639839 AGATGTTAGTCTGTTGGGCACT 59.360 45.455 0.00 0.00 0.00 4.40
611 621 3.073062 AGATGTTAGTCTGTTGGGCACTT 59.927 43.478 0.00 0.00 0.00 3.16
612 622 3.290948 TGTTAGTCTGTTGGGCACTTT 57.709 42.857 0.00 0.00 0.00 2.66
613 623 2.948979 TGTTAGTCTGTTGGGCACTTTG 59.051 45.455 0.00 0.00 0.00 2.77
614 624 2.270352 TAGTCTGTTGGGCACTTTGG 57.730 50.000 0.00 0.00 0.00 3.28
615 625 0.550914 AGTCTGTTGGGCACTTTGGA 59.449 50.000 0.00 0.00 0.00 3.53
616 626 1.064017 AGTCTGTTGGGCACTTTGGAA 60.064 47.619 0.00 0.00 0.00 3.53
617 627 1.963515 GTCTGTTGGGCACTTTGGAAT 59.036 47.619 0.00 0.00 0.00 3.01
618 628 1.962807 TCTGTTGGGCACTTTGGAATG 59.037 47.619 0.00 0.00 0.00 2.67
619 629 1.962807 CTGTTGGGCACTTTGGAATGA 59.037 47.619 0.00 0.00 0.00 2.57
620 630 1.962807 TGTTGGGCACTTTGGAATGAG 59.037 47.619 0.00 0.00 0.00 2.90
621 631 2.238521 GTTGGGCACTTTGGAATGAGA 58.761 47.619 0.00 0.00 0.00 3.27
622 632 2.205022 TGGGCACTTTGGAATGAGAG 57.795 50.000 0.00 0.00 0.00 3.20
623 633 1.272092 TGGGCACTTTGGAATGAGAGG 60.272 52.381 0.00 0.00 0.00 3.69
624 634 1.004745 GGGCACTTTGGAATGAGAGGA 59.995 52.381 0.00 0.00 0.00 3.71
625 635 2.357569 GGGCACTTTGGAATGAGAGGAT 60.358 50.000 0.00 0.00 0.00 3.24
626 636 2.948315 GGCACTTTGGAATGAGAGGATC 59.052 50.000 0.00 0.00 0.00 3.36
627 637 2.611292 GCACTTTGGAATGAGAGGATCG 59.389 50.000 0.00 0.00 42.67 3.69
628 638 2.611292 CACTTTGGAATGAGAGGATCGC 59.389 50.000 0.00 0.00 42.67 4.58
629 639 1.863454 CTTTGGAATGAGAGGATCGCG 59.137 52.381 0.00 0.00 42.67 5.87
630 640 1.111277 TTGGAATGAGAGGATCGCGA 58.889 50.000 13.09 13.09 42.67 5.87
631 641 0.670706 TGGAATGAGAGGATCGCGAG 59.329 55.000 16.66 0.00 42.67 5.03
647 657 2.285319 CGAGAGTGTTTCGCAACAAG 57.715 50.000 1.20 0.00 44.72 3.16
648 658 1.070577 CGAGAGTGTTTCGCAACAAGG 60.071 52.381 1.20 0.00 44.72 3.61
649 659 0.663153 AGAGTGTTTCGCAACAAGGC 59.337 50.000 1.20 0.00 44.72 4.35
650 660 0.317854 GAGTGTTTCGCAACAAGGCC 60.318 55.000 1.20 0.00 44.72 5.19
651 661 0.751643 AGTGTTTCGCAACAAGGCCT 60.752 50.000 0.00 0.00 44.72 5.19
652 662 0.317854 GTGTTTCGCAACAAGGCCTC 60.318 55.000 5.23 0.00 44.72 4.70
653 663 0.749818 TGTTTCGCAACAAGGCCTCA 60.750 50.000 5.23 0.00 40.10 3.86
654 664 0.598065 GTTTCGCAACAAGGCCTCAT 59.402 50.000 5.23 0.00 32.54 2.90
655 665 1.000274 GTTTCGCAACAAGGCCTCATT 60.000 47.619 5.23 0.00 32.54 2.57
656 666 2.192664 TTCGCAACAAGGCCTCATTA 57.807 45.000 5.23 0.00 0.00 1.90
657 667 1.448985 TCGCAACAAGGCCTCATTAC 58.551 50.000 5.23 0.00 0.00 1.89
658 668 0.451783 CGCAACAAGGCCTCATTACC 59.548 55.000 5.23 0.00 0.00 2.85
659 669 0.817654 GCAACAAGGCCTCATTACCC 59.182 55.000 5.23 0.00 0.00 3.69
660 670 1.616994 GCAACAAGGCCTCATTACCCT 60.617 52.381 5.23 0.00 0.00 4.34
661 671 2.807676 CAACAAGGCCTCATTACCCTT 58.192 47.619 5.23 0.00 39.46 3.95
662 672 3.876156 GCAACAAGGCCTCATTACCCTTA 60.876 47.826 5.23 0.00 36.86 2.69
663 673 3.646736 ACAAGGCCTCATTACCCTTAC 57.353 47.619 5.23 0.00 36.86 2.34
664 674 2.916934 ACAAGGCCTCATTACCCTTACA 59.083 45.455 5.23 0.00 36.86 2.41
665 675 3.527665 ACAAGGCCTCATTACCCTTACAT 59.472 43.478 5.23 0.00 36.86 2.29
666 676 3.864789 AGGCCTCATTACCCTTACATG 57.135 47.619 0.00 0.00 0.00 3.21
667 677 3.123273 AGGCCTCATTACCCTTACATGT 58.877 45.455 0.00 2.69 0.00 3.21
668 678 3.527665 AGGCCTCATTACCCTTACATGTT 59.472 43.478 2.30 0.00 0.00 2.71
669 679 4.724798 AGGCCTCATTACCCTTACATGTTA 59.275 41.667 2.30 0.00 0.00 2.41
670 680 5.372661 AGGCCTCATTACCCTTACATGTTAT 59.627 40.000 2.30 0.00 0.00 1.89
671 681 6.068670 GGCCTCATTACCCTTACATGTTATT 58.931 40.000 2.30 0.00 0.00 1.40
672 682 6.016276 GGCCTCATTACCCTTACATGTTATTG 60.016 42.308 2.30 0.00 0.00 1.90
673 683 6.515035 GCCTCATTACCCTTACATGTTATTGC 60.515 42.308 2.30 0.00 0.00 3.56
674 684 6.545666 CCTCATTACCCTTACATGTTATTGCA 59.454 38.462 2.30 0.00 0.00 4.08
675 685 7.231317 CCTCATTACCCTTACATGTTATTGCAT 59.769 37.037 2.30 0.00 0.00 3.96
1122 1136 4.703093 TGACGAGTACATGGATGAGTACAA 59.297 41.667 0.00 0.00 42.26 2.41
1775 1819 2.321720 CCCCTTGGCCAGTAATCCT 58.678 57.895 5.11 0.00 0.00 3.24
1776 1820 0.106519 CCCCTTGGCCAGTAATCCTG 60.107 60.000 5.11 0.00 41.15 3.86
1778 1822 0.034186 CCTTGGCCAGTAATCCTGCA 60.034 55.000 5.11 0.00 40.06 4.41
1780 1824 0.991146 TTGGCCAGTAATCCTGCAGA 59.009 50.000 17.39 1.21 40.06 4.26
1782 1826 0.179034 GGCCAGTAATCCTGCAGAGG 60.179 60.000 17.39 0.00 40.06 3.69
2513 2603 8.773033 AAGATGATGTTATCTTTAATGCCCTT 57.227 30.769 0.00 0.00 43.08 3.95
2568 2665 4.453478 TGCTGCAGTTTCTATCTGTCTTTG 59.547 41.667 16.64 0.00 35.60 2.77
3101 3205 4.193334 CAGCATCGCCGGAGTCGA 62.193 66.667 5.05 5.08 46.40 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
89 90 5.843673 TGTTTTGCCATGTCTCTTTGTAA 57.156 34.783 0.00 0.00 0.00 2.41
235 244 1.697432 TGCCCTAGTGTGCTTGTAAGT 59.303 47.619 0.00 0.00 0.00 2.24
271 280 0.249405 CCAGTTGCCATGCGTTTTGT 60.249 50.000 0.00 0.00 0.00 2.83
315 325 4.457496 CATCTCGCCCACACGCCT 62.457 66.667 0.00 0.00 0.00 5.52
354 364 2.309528 AGTTCTCACTCACGCACAAA 57.690 45.000 0.00 0.00 0.00 2.83
374 384 4.012895 GCAGTTCGCCCACACACG 62.013 66.667 0.00 0.00 32.94 4.49
417 427 2.032894 CCACACGTCTGTTTCATCACAC 60.033 50.000 0.00 0.00 0.00 3.82
418 428 2.209273 CCACACGTCTGTTTCATCACA 58.791 47.619 0.00 0.00 0.00 3.58
419 429 1.531149 CCCACACGTCTGTTTCATCAC 59.469 52.381 0.00 0.00 0.00 3.06
420 430 1.877637 CCCACACGTCTGTTTCATCA 58.122 50.000 0.00 0.00 0.00 3.07
421 431 0.517316 GCCCACACGTCTGTTTCATC 59.483 55.000 0.00 0.00 0.00 2.92
422 432 1.227999 CGCCCACACGTCTGTTTCAT 61.228 55.000 0.00 0.00 0.00 2.57
423 433 1.885388 CGCCCACACGTCTGTTTCA 60.885 57.895 0.00 0.00 0.00 2.69
424 434 1.593209 TCGCCCACACGTCTGTTTC 60.593 57.895 0.00 0.00 0.00 2.78
425 435 1.885850 GTCGCCCACACGTCTGTTT 60.886 57.895 0.00 0.00 0.00 2.83
426 436 2.279918 GTCGCCCACACGTCTGTT 60.280 61.111 0.00 0.00 0.00 3.16
427 437 4.295119 GGTCGCCCACACGTCTGT 62.295 66.667 0.00 0.00 0.00 3.41
435 445 4.404098 ATTCACCCGGTCGCCCAC 62.404 66.667 0.00 0.00 0.00 4.61
436 446 4.402528 CATTCACCCGGTCGCCCA 62.403 66.667 0.00 0.00 0.00 5.36
446 456 3.747976 GGTGTGCGGGCATTCACC 61.748 66.667 15.04 15.04 42.40 4.02
447 457 2.981560 CTGGTGTGCGGGCATTCAC 61.982 63.158 0.00 1.17 0.00 3.18
448 458 2.672651 CTGGTGTGCGGGCATTCA 60.673 61.111 0.00 0.00 0.00 2.57
449 459 4.120331 GCTGGTGTGCGGGCATTC 62.120 66.667 0.00 0.00 0.00 2.67
457 467 2.592993 TAGGACTGGGCTGGTGTGC 61.593 63.158 0.00 0.00 0.00 4.57
458 468 1.296715 GTAGGACTGGGCTGGTGTG 59.703 63.158 0.00 0.00 0.00 3.82
459 469 0.547712 ATGTAGGACTGGGCTGGTGT 60.548 55.000 0.00 0.00 0.00 4.16
460 470 0.107508 CATGTAGGACTGGGCTGGTG 60.108 60.000 0.00 0.00 0.00 4.17
461 471 1.274703 CCATGTAGGACTGGGCTGGT 61.275 60.000 0.00 0.00 41.22 4.00
462 472 1.528824 CCATGTAGGACTGGGCTGG 59.471 63.158 0.00 0.00 41.22 4.85
463 473 1.153086 GCCATGTAGGACTGGGCTG 60.153 63.158 0.00 0.00 41.39 4.85
464 474 1.616327 TGCCATGTAGGACTGGGCT 60.616 57.895 0.00 0.00 44.85 5.19
465 475 1.452108 GTGCCATGTAGGACTGGGC 60.452 63.158 0.00 0.00 44.82 5.36
466 476 1.224592 GGTGCCATGTAGGACTGGG 59.775 63.158 0.00 0.00 41.22 4.45
467 477 0.392998 GTGGTGCCATGTAGGACTGG 60.393 60.000 0.00 0.00 41.22 4.00
468 478 0.324614 TGTGGTGCCATGTAGGACTG 59.675 55.000 0.00 0.00 41.22 3.51
469 479 1.064003 TTGTGGTGCCATGTAGGACT 58.936 50.000 0.00 0.00 41.22 3.85
470 480 2.017049 GATTGTGGTGCCATGTAGGAC 58.983 52.381 0.00 0.00 41.22 3.85
471 481 1.632920 TGATTGTGGTGCCATGTAGGA 59.367 47.619 0.00 0.00 41.22 2.94
472 482 2.127271 TGATTGTGGTGCCATGTAGG 57.873 50.000 0.00 0.00 41.84 3.18
473 483 2.223641 GCATGATTGTGGTGCCATGTAG 60.224 50.000 0.00 0.00 38.78 2.74
474 484 1.750206 GCATGATTGTGGTGCCATGTA 59.250 47.619 0.00 0.00 38.78 2.29
475 485 0.533491 GCATGATTGTGGTGCCATGT 59.467 50.000 0.00 0.00 38.78 3.21
476 486 3.355816 GCATGATTGTGGTGCCATG 57.644 52.632 0.00 0.00 39.35 3.66
480 490 0.889994 TCTTGGCATGATTGTGGTGC 59.110 50.000 0.00 0.00 38.12 5.01
481 491 3.732774 CGAATCTTGGCATGATTGTGGTG 60.733 47.826 27.26 11.72 34.67 4.17
482 492 2.424601 CGAATCTTGGCATGATTGTGGT 59.575 45.455 27.26 8.46 34.67 4.16
483 493 2.424601 ACGAATCTTGGCATGATTGTGG 59.575 45.455 27.26 19.05 34.67 4.17
484 494 3.431856 CACGAATCTTGGCATGATTGTG 58.568 45.455 27.26 26.10 34.67 3.33
485 495 2.159338 GCACGAATCTTGGCATGATTGT 60.159 45.455 27.26 21.54 34.67 2.71
486 496 2.159352 TGCACGAATCTTGGCATGATTG 60.159 45.455 27.26 21.05 34.67 2.67
487 497 2.093890 TGCACGAATCTTGGCATGATT 58.906 42.857 23.78 23.78 36.91 2.57
488 498 1.402968 GTGCACGAATCTTGGCATGAT 59.597 47.619 9.87 9.87 38.68 2.45
489 499 0.804364 GTGCACGAATCTTGGCATGA 59.196 50.000 0.00 5.47 38.68 3.07
490 500 0.179156 GGTGCACGAATCTTGGCATG 60.179 55.000 11.45 0.00 38.68 4.06
491 501 1.315257 GGGTGCACGAATCTTGGCAT 61.315 55.000 11.45 0.00 38.68 4.40
492 502 1.971167 GGGTGCACGAATCTTGGCA 60.971 57.895 11.45 0.00 0.00 4.92
493 503 1.315257 ATGGGTGCACGAATCTTGGC 61.315 55.000 11.45 0.00 0.00 4.52
494 504 2.036958 TATGGGTGCACGAATCTTGG 57.963 50.000 11.45 0.00 0.00 3.61
495 505 3.727673 CGTTTATGGGTGCACGAATCTTG 60.728 47.826 11.45 0.00 34.49 3.02
496 506 2.418628 CGTTTATGGGTGCACGAATCTT 59.581 45.455 11.45 1.81 34.49 2.40
497 507 2.006888 CGTTTATGGGTGCACGAATCT 58.993 47.619 11.45 0.00 34.49 2.40
498 508 1.063469 CCGTTTATGGGTGCACGAATC 59.937 52.381 11.45 0.98 34.49 2.52
499 509 1.091537 CCGTTTATGGGTGCACGAAT 58.908 50.000 11.45 9.36 34.49 3.34
500 510 0.035036 TCCGTTTATGGGTGCACGAA 59.965 50.000 11.45 1.02 34.49 3.85
501 511 0.250793 ATCCGTTTATGGGTGCACGA 59.749 50.000 11.45 0.00 34.49 4.35
502 512 0.376852 CATCCGTTTATGGGTGCACG 59.623 55.000 11.45 0.00 32.34 5.34
506 516 0.462937 TCCGCATCCGTTTATGGGTG 60.463 55.000 0.00 0.00 43.37 4.61
507 517 0.472471 ATCCGCATCCGTTTATGGGT 59.528 50.000 0.00 0.00 37.94 4.51
508 518 1.156736 GATCCGCATCCGTTTATGGG 58.843 55.000 0.00 0.00 39.00 4.00
509 519 1.156736 GGATCCGCATCCGTTTATGG 58.843 55.000 0.00 0.00 39.52 2.74
522 532 2.278596 CCTACACGCGTGGATCCG 60.279 66.667 39.21 21.86 34.19 4.18
523 533 2.585247 GCCTACACGCGTGGATCC 60.585 66.667 39.21 22.68 34.19 3.36
531 541 1.358725 TTTGCATCTCGCCTACACGC 61.359 55.000 0.00 0.00 41.33 5.34
532 542 0.370273 GTTTGCATCTCGCCTACACG 59.630 55.000 0.00 0.00 41.33 4.49
533 543 0.370273 CGTTTGCATCTCGCCTACAC 59.630 55.000 0.00 0.00 41.33 2.90
534 544 1.358725 GCGTTTGCATCTCGCCTACA 61.359 55.000 16.09 0.00 43.41 2.74
535 545 1.348594 GCGTTTGCATCTCGCCTAC 59.651 57.895 16.09 0.00 43.41 3.18
536 546 3.794270 GCGTTTGCATCTCGCCTA 58.206 55.556 16.09 0.00 43.41 3.93
540 550 0.179240 GTGTGAGCGTTTGCATCTCG 60.179 55.000 0.00 0.00 46.23 4.04
541 551 0.179240 CGTGTGAGCGTTTGCATCTC 60.179 55.000 0.00 0.00 46.23 2.75
542 552 0.880278 ACGTGTGAGCGTTTGCATCT 60.880 50.000 0.00 0.00 46.23 2.90
543 553 0.722469 CACGTGTGAGCGTTTGCATC 60.722 55.000 7.58 0.00 46.23 3.91
544 554 1.279539 CACGTGTGAGCGTTTGCAT 59.720 52.632 7.58 0.00 46.23 3.96
545 555 2.103647 ACACGTGTGAGCGTTTGCA 61.104 52.632 22.71 0.00 46.23 4.08
546 556 2.707039 ACACGTGTGAGCGTTTGC 59.293 55.556 22.71 0.00 43.83 3.68
559 569 1.662122 GGAAATACTAACGCCCACACG 59.338 52.381 0.00 0.00 39.50 4.49
560 570 1.662122 CGGAAATACTAACGCCCACAC 59.338 52.381 0.00 0.00 0.00 3.82
561 571 1.275856 ACGGAAATACTAACGCCCACA 59.724 47.619 0.00 0.00 0.00 4.17
562 572 2.014335 ACGGAAATACTAACGCCCAC 57.986 50.000 0.00 0.00 0.00 4.61
563 573 2.234414 AGAACGGAAATACTAACGCCCA 59.766 45.455 0.00 0.00 0.00 5.36
564 574 2.897436 AGAACGGAAATACTAACGCCC 58.103 47.619 0.00 0.00 0.00 6.13
565 575 4.389687 TCAAAGAACGGAAATACTAACGCC 59.610 41.667 0.00 0.00 0.00 5.68
566 576 5.520022 TCAAAGAACGGAAATACTAACGC 57.480 39.130 0.00 0.00 0.00 4.84
567 577 7.342318 TCTTCAAAGAACGGAAATACTAACG 57.658 36.000 0.00 0.00 30.73 3.18
568 578 8.718734 ACATCTTCAAAGAACGGAAATACTAAC 58.281 33.333 0.00 0.00 38.77 2.34
569 579 8.842358 ACATCTTCAAAGAACGGAAATACTAA 57.158 30.769 0.00 0.00 38.77 2.24
570 580 8.842358 AACATCTTCAAAGAACGGAAATACTA 57.158 30.769 0.00 0.00 38.77 1.82
571 581 7.745620 AACATCTTCAAAGAACGGAAATACT 57.254 32.000 0.00 0.00 38.77 2.12
572 582 8.718734 ACTAACATCTTCAAAGAACGGAAATAC 58.281 33.333 0.00 0.00 38.77 1.89
573 583 8.842358 ACTAACATCTTCAAAGAACGGAAATA 57.158 30.769 0.00 0.00 38.77 1.40
574 584 7.661847 AGACTAACATCTTCAAAGAACGGAAAT 59.338 33.333 0.00 0.00 38.77 2.17
575 585 6.990349 AGACTAACATCTTCAAAGAACGGAAA 59.010 34.615 0.00 0.00 38.77 3.13
576 586 6.423905 CAGACTAACATCTTCAAAGAACGGAA 59.576 38.462 0.00 0.00 38.77 4.30
577 587 5.926542 CAGACTAACATCTTCAAAGAACGGA 59.073 40.000 0.00 0.00 38.77 4.69
578 588 5.696724 ACAGACTAACATCTTCAAAGAACGG 59.303 40.000 0.00 0.00 38.77 4.44
579 589 6.771188 ACAGACTAACATCTTCAAAGAACG 57.229 37.500 0.00 0.00 38.77 3.95
580 590 7.355778 CCAACAGACTAACATCTTCAAAGAAC 58.644 38.462 0.00 0.00 38.77 3.01
581 591 6.486657 CCCAACAGACTAACATCTTCAAAGAA 59.513 38.462 0.00 0.00 38.77 2.52
582 592 5.997746 CCCAACAGACTAACATCTTCAAAGA 59.002 40.000 0.00 0.00 39.78 2.52
583 593 5.335191 GCCCAACAGACTAACATCTTCAAAG 60.335 44.000 0.00 0.00 0.00 2.77
584 594 4.518970 GCCCAACAGACTAACATCTTCAAA 59.481 41.667 0.00 0.00 0.00 2.69
585 595 4.072131 GCCCAACAGACTAACATCTTCAA 58.928 43.478 0.00 0.00 0.00 2.69
586 596 3.072330 TGCCCAACAGACTAACATCTTCA 59.928 43.478 0.00 0.00 0.00 3.02
587 597 3.437049 GTGCCCAACAGACTAACATCTTC 59.563 47.826 0.00 0.00 0.00 2.87
588 598 3.073062 AGTGCCCAACAGACTAACATCTT 59.927 43.478 0.00 0.00 0.00 2.40
589 599 2.639839 AGTGCCCAACAGACTAACATCT 59.360 45.455 0.00 0.00 0.00 2.90
590 600 3.059352 AGTGCCCAACAGACTAACATC 57.941 47.619 0.00 0.00 0.00 3.06
591 601 3.508845 AAGTGCCCAACAGACTAACAT 57.491 42.857 0.00 0.00 0.00 2.71
592 602 2.948979 CAAAGTGCCCAACAGACTAACA 59.051 45.455 0.00 0.00 0.00 2.41
593 603 2.293399 CCAAAGTGCCCAACAGACTAAC 59.707 50.000 0.00 0.00 0.00 2.34
594 604 2.173782 TCCAAAGTGCCCAACAGACTAA 59.826 45.455 0.00 0.00 0.00 2.24
595 605 1.771854 TCCAAAGTGCCCAACAGACTA 59.228 47.619 0.00 0.00 0.00 2.59
596 606 0.550914 TCCAAAGTGCCCAACAGACT 59.449 50.000 0.00 0.00 0.00 3.24
597 607 1.398692 TTCCAAAGTGCCCAACAGAC 58.601 50.000 0.00 0.00 0.00 3.51
598 608 1.962807 CATTCCAAAGTGCCCAACAGA 59.037 47.619 0.00 0.00 0.00 3.41
599 609 1.962807 TCATTCCAAAGTGCCCAACAG 59.037 47.619 0.00 0.00 0.00 3.16
600 610 1.962807 CTCATTCCAAAGTGCCCAACA 59.037 47.619 0.00 0.00 0.00 3.33
601 611 2.229784 CTCTCATTCCAAAGTGCCCAAC 59.770 50.000 0.00 0.00 0.00 3.77
602 612 2.517959 CTCTCATTCCAAAGTGCCCAA 58.482 47.619 0.00 0.00 0.00 4.12
603 613 1.272092 CCTCTCATTCCAAAGTGCCCA 60.272 52.381 0.00 0.00 0.00 5.36
604 614 1.004745 TCCTCTCATTCCAAAGTGCCC 59.995 52.381 0.00 0.00 0.00 5.36
605 615 2.496899 TCCTCTCATTCCAAAGTGCC 57.503 50.000 0.00 0.00 0.00 5.01
606 616 2.611292 CGATCCTCTCATTCCAAAGTGC 59.389 50.000 0.00 0.00 0.00 4.40
607 617 2.611292 GCGATCCTCTCATTCCAAAGTG 59.389 50.000 0.00 0.00 0.00 3.16
608 618 2.739932 CGCGATCCTCTCATTCCAAAGT 60.740 50.000 0.00 0.00 0.00 2.66
609 619 1.863454 CGCGATCCTCTCATTCCAAAG 59.137 52.381 0.00 0.00 0.00 2.77
610 620 1.480545 TCGCGATCCTCTCATTCCAAA 59.519 47.619 3.71 0.00 0.00 3.28
611 621 1.067669 CTCGCGATCCTCTCATTCCAA 59.932 52.381 10.36 0.00 0.00 3.53
612 622 0.670706 CTCGCGATCCTCTCATTCCA 59.329 55.000 10.36 0.00 0.00 3.53
613 623 0.955178 TCTCGCGATCCTCTCATTCC 59.045 55.000 10.36 0.00 0.00 3.01
614 624 1.606668 ACTCTCGCGATCCTCTCATTC 59.393 52.381 10.36 0.00 0.00 2.67
615 625 1.336440 CACTCTCGCGATCCTCTCATT 59.664 52.381 10.36 0.00 0.00 2.57
616 626 0.950836 CACTCTCGCGATCCTCTCAT 59.049 55.000 10.36 0.00 0.00 2.90
617 627 0.393132 ACACTCTCGCGATCCTCTCA 60.393 55.000 10.36 0.00 0.00 3.27
618 628 0.736053 AACACTCTCGCGATCCTCTC 59.264 55.000 10.36 0.00 0.00 3.20
619 629 1.133407 GAAACACTCTCGCGATCCTCT 59.867 52.381 10.36 0.00 0.00 3.69
620 630 1.551145 GAAACACTCTCGCGATCCTC 58.449 55.000 10.36 0.00 0.00 3.71
621 631 0.179161 CGAAACACTCTCGCGATCCT 60.179 55.000 10.36 0.00 0.00 3.24
622 632 2.279469 CGAAACACTCTCGCGATCC 58.721 57.895 10.36 0.00 0.00 3.36
628 638 1.070577 CCTTGTTGCGAAACACTCTCG 60.071 52.381 8.96 0.00 39.33 4.04
629 639 1.334149 GCCTTGTTGCGAAACACTCTC 60.334 52.381 8.96 0.00 31.49 3.20
630 640 0.663153 GCCTTGTTGCGAAACACTCT 59.337 50.000 8.96 0.00 31.49 3.24
631 641 0.317854 GGCCTTGTTGCGAAACACTC 60.318 55.000 8.96 0.66 31.49 3.51
632 642 0.751643 AGGCCTTGTTGCGAAACACT 60.752 50.000 8.96 0.00 31.49 3.55
633 643 0.317854 GAGGCCTTGTTGCGAAACAC 60.318 55.000 8.96 0.00 31.49 3.32
634 644 0.749818 TGAGGCCTTGTTGCGAAACA 60.750 50.000 6.77 4.37 0.00 2.83
635 645 0.598065 ATGAGGCCTTGTTGCGAAAC 59.402 50.000 6.77 0.00 0.00 2.78
636 646 1.327303 AATGAGGCCTTGTTGCGAAA 58.673 45.000 6.77 0.00 0.00 3.46
637 647 1.810151 GTAATGAGGCCTTGTTGCGAA 59.190 47.619 6.77 0.00 0.00 4.70
638 648 1.448985 GTAATGAGGCCTTGTTGCGA 58.551 50.000 6.77 0.00 0.00 5.10
639 649 0.451783 GGTAATGAGGCCTTGTTGCG 59.548 55.000 6.77 0.00 0.00 4.85
640 650 0.817654 GGGTAATGAGGCCTTGTTGC 59.182 55.000 6.77 8.68 0.00 4.17
641 651 2.514458 AGGGTAATGAGGCCTTGTTG 57.486 50.000 6.77 0.00 0.00 3.33
642 652 3.332485 TGTAAGGGTAATGAGGCCTTGTT 59.668 43.478 6.77 7.83 0.00 2.83
643 653 2.916934 TGTAAGGGTAATGAGGCCTTGT 59.083 45.455 6.77 0.00 0.00 3.16
644 654 3.644966 TGTAAGGGTAATGAGGCCTTG 57.355 47.619 6.77 0.00 0.00 3.61
645 655 3.527665 ACATGTAAGGGTAATGAGGCCTT 59.472 43.478 6.77 0.00 0.00 4.35
646 656 3.123273 ACATGTAAGGGTAATGAGGCCT 58.877 45.455 3.86 3.86 0.00 5.19
647 657 3.577805 ACATGTAAGGGTAATGAGGCC 57.422 47.619 0.00 0.00 0.00 5.19
648 658 6.515035 GCAATAACATGTAAGGGTAATGAGGC 60.515 42.308 0.00 0.00 0.00 4.70
649 659 6.545666 TGCAATAACATGTAAGGGTAATGAGG 59.454 38.462 0.00 0.00 0.00 3.86
650 660 7.566760 TGCAATAACATGTAAGGGTAATGAG 57.433 36.000 0.00 0.00 0.00 2.90
651 661 7.041440 CGATGCAATAACATGTAAGGGTAATGA 60.041 37.037 0.00 0.00 0.00 2.57
652 662 7.041440 TCGATGCAATAACATGTAAGGGTAATG 60.041 37.037 0.00 0.00 0.00 1.90
653 663 6.995686 TCGATGCAATAACATGTAAGGGTAAT 59.004 34.615 0.00 0.00 0.00 1.89
654 664 6.350103 TCGATGCAATAACATGTAAGGGTAA 58.650 36.000 0.00 0.00 0.00 2.85
655 665 5.919755 TCGATGCAATAACATGTAAGGGTA 58.080 37.500 0.00 0.00 0.00 3.69
656 666 4.776349 TCGATGCAATAACATGTAAGGGT 58.224 39.130 0.00 0.00 0.00 4.34
657 667 5.389830 CGATCGATGCAATAACATGTAAGGG 60.390 44.000 10.26 0.00 0.00 3.95
658 668 5.405269 TCGATCGATGCAATAACATGTAAGG 59.595 40.000 15.15 0.00 0.00 2.69
659 669 6.144563 ACTCGATCGATGCAATAACATGTAAG 59.855 38.462 19.78 2.89 0.00 2.34
660 670 5.983118 ACTCGATCGATGCAATAACATGTAA 59.017 36.000 19.78 0.00 0.00 2.41
661 671 5.528870 ACTCGATCGATGCAATAACATGTA 58.471 37.500 19.78 0.00 0.00 2.29
662 672 4.371786 ACTCGATCGATGCAATAACATGT 58.628 39.130 19.78 5.33 0.00 3.21
663 673 4.979564 ACTCGATCGATGCAATAACATG 57.020 40.909 19.78 4.64 0.00 3.21
664 674 7.384932 TCAAATACTCGATCGATGCAATAACAT 59.615 33.333 19.78 0.00 0.00 2.71
665 675 6.699642 TCAAATACTCGATCGATGCAATAACA 59.300 34.615 19.78 0.00 0.00 2.41
666 676 7.004225 GTCAAATACTCGATCGATGCAATAAC 58.996 38.462 19.78 9.09 0.00 1.89
667 677 6.699642 TGTCAAATACTCGATCGATGCAATAA 59.300 34.615 19.78 0.00 0.00 1.40
668 678 6.212955 TGTCAAATACTCGATCGATGCAATA 58.787 36.000 19.78 6.92 0.00 1.90
669 679 5.049828 TGTCAAATACTCGATCGATGCAAT 58.950 37.500 19.78 7.01 0.00 3.56
670 680 4.429108 TGTCAAATACTCGATCGATGCAA 58.571 39.130 19.78 4.81 0.00 4.08
671 681 4.040445 TGTCAAATACTCGATCGATGCA 57.960 40.909 19.78 12.30 0.00 3.96
672 682 5.389642 TTTGTCAAATACTCGATCGATGC 57.610 39.130 19.78 10.03 0.00 3.91
1122 1136 5.172934 CAAAATACTCCATTTGCATGCTGT 58.827 37.500 20.33 8.49 36.93 4.40
1768 1812 4.395231 GGTTAAACACCTCTGCAGGATTAC 59.605 45.833 15.13 0.55 43.65 1.89
1771 1815 3.073274 GGTTAAACACCTCTGCAGGAT 57.927 47.619 15.13 0.00 43.65 3.24
1772 1816 2.561478 GGTTAAACACCTCTGCAGGA 57.439 50.000 15.13 0.00 43.65 3.86
1782 1826 2.303175 TCCCACAGCTTGGTTAAACAC 58.697 47.619 12.18 0.00 45.25 3.32
2317 2385 1.849039 ACTCCTTCATTGCTAGGCCAT 59.151 47.619 5.01 0.00 0.00 4.40
2568 2665 4.532521 AGGACCATATTGCAGGTAGGATAC 59.467 45.833 0.00 0.00 42.04 2.24
3101 3205 1.496429 CCTATGGGCAATGAAGGAGGT 59.504 52.381 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.