Multiple sequence alignment - TraesCS5A01G128200

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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 TraesCS5A01G128200 chr5A 100.000 3800 0 0 1 3800 285400321 285396522 0.000000e+00 7018.0
1 TraesCS5A01G128200 chr5A 96.450 169 6 0 562 730 685871238 685871070 2.890000e-71 279.0
2 TraesCS5A01G128200 chr5A 93.194 191 8 5 565 753 669570311 669570124 3.740000e-70 276.0
3 TraesCS5A01G128200 chr5A 79.921 254 37 9 3409 3652 435697843 435698092 1.400000e-39 174.0
4 TraesCS5A01G128200 chr5B 97.431 2919 64 6 890 3800 232297552 232294637 0.000000e+00 4964.0
5 TraesCS5A01G128200 chr5B 85.663 558 56 15 20 567 232301072 232300529 1.980000e-157 566.0
6 TraesCS5A01G128200 chr5B 96.491 171 6 0 561 731 446576704 446576534 2.230000e-72 283.0
7 TraesCS5A01G128200 chr5B 79.293 198 30 8 3465 3655 660137996 660137803 1.110000e-25 128.0
8 TraesCS5A01G128200 chr5D 97.256 2915 69 6 890 3800 216157823 216154916 0.000000e+00 4929.0
9 TraesCS5A01G128200 chr6A 80.638 470 70 18 110 565 478015067 478014605 1.010000e-90 344.0
10 TraesCS5A01G128200 chr6A 94.505 182 9 1 557 738 1830024 1829844 2.890000e-71 279.0
11 TraesCS5A01G128200 chr6A 95.954 173 6 1 564 736 346594294 346594465 2.890000e-71 279.0
12 TraesCS5A01G128200 chr6A 100.000 29 0 0 3772 3800 22685354 22685326 2.000000e-03 54.7
13 TraesCS5A01G128200 chr4A 94.915 177 9 0 555 731 583980861 583980685 1.040000e-70 278.0
14 TraesCS5A01G128200 chr1A 94.972 179 6 1 552 730 294339513 294339688 1.040000e-70 278.0
15 TraesCS5A01G128200 chr3A 93.407 182 12 0 549 730 600929760 600929941 1.740000e-68 270.0
16 TraesCS5A01G128200 chr3A 84.000 200 27 5 367 565 41158446 41158641 1.800000e-43 187.0
17 TraesCS5A01G128200 chr3A 82.915 199 31 3 367 565 683444528 683444723 3.900000e-40 176.0
18 TraesCS5A01G128200 chr3D 85.130 269 32 7 102 362 29528948 29528680 6.260000e-68 268.0
19 TraesCS5A01G128200 chr3D 84.758 269 33 7 102 362 29494019 29493751 2.910000e-66 263.0
20 TraesCS5A01G128200 chr3D 84.871 271 29 10 102 362 29565888 29565620 2.910000e-66 263.0
21 TraesCS5A01G128200 chr3D 84.758 269 34 4 101 362 571044496 571044228 2.910000e-66 263.0
22 TraesCS5A01G128200 chr3D 83.813 278 36 5 90 359 354087467 354087743 4.870000e-64 255.0
23 TraesCS5A01G128200 chr2B 92.513 187 11 3 555 740 683720171 683719987 8.090000e-67 265.0
24 TraesCS5A01G128200 chr2B 85.427 199 22 4 367 565 119802883 119803074 2.310000e-47 200.0
25 TraesCS5A01G128200 chrUn 84.758 269 33 7 102 362 223002366 223002098 2.910000e-66 263.0
26 TraesCS5A01G128200 chr7D 83.451 284 33 9 90 362 290865647 290865367 6.300000e-63 252.0
27 TraesCS5A01G128200 chr7D 85.714 196 24 4 370 565 454676543 454676734 1.790000e-48 204.0
28 TraesCS5A01G128200 chr7B 85.106 188 27 1 367 554 368432043 368432229 1.390000e-44 191.0
29 TraesCS5A01G128200 chr7B 76.577 222 37 12 3444 3655 641684389 641684173 1.440000e-19 108.0
30 TraesCS5A01G128200 chr7A 84.422 199 26 4 367 565 729144105 729143912 1.390000e-44 191.0
31 TraesCS5A01G128200 chr7A 78.571 224 34 11 3435 3649 721109768 721109550 6.620000e-28 135.0
32 TraesCS5A01G128200 chr3B 83.871 186 26 4 380 565 810775127 810774946 1.400000e-39 174.0
33 TraesCS5A01G128200 chr2A 82.412 199 31 4 367 565 758703683 758703489 1.820000e-38 171.0
34 TraesCS5A01G128200 chr2D 76.834 259 43 12 3409 3656 627930459 627930711 3.080000e-26 130.0
35 TraesCS5A01G128200 chr2D 77.056 231 41 10 3435 3656 577686776 577687003 5.150000e-24 122.0
36 TraesCS5A01G128200 chr6D 79.275 193 28 9 3444 3626 306050888 306050698 1.430000e-24 124.0
37 TraesCS5A01G128200 chr6D 91.176 68 3 2 3735 3800 24220477 24220411 5.230000e-14 89.8


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 TraesCS5A01G128200 chr5A 285396522 285400321 3799 True 7018 7018 100.000 1 3800 1 chr5A.!!$R1 3799
1 TraesCS5A01G128200 chr5B 232294637 232301072 6435 True 2765 4964 91.547 20 3800 2 chr5B.!!$R3 3780
2 TraesCS5A01G128200 chr5D 216154916 216157823 2907 True 4929 4929 97.256 890 3800 1 chr5D.!!$R1 2910

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
880 3098 0.036294 CGAGAAACCCCCTTGAGGAC 60.036 60.0 0.00 0.0 38.24 3.85 F
883 3715 0.038310 GAAACCCCCTTGAGGACCAG 59.962 60.0 0.00 0.0 38.24 4.00 F
954 3786 0.462759 GACTGGGCAGCATCTGGTAC 60.463 60.0 0.00 0.0 31.21 3.34 F
1647 4484 0.528901 CCAATGCAATGGTGGATGCG 60.529 55.0 13.01 0.0 45.47 4.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2098 4935 0.332972 AAGTCCCTTTCAGGCATCCC 59.667 55.000 0.00 0.0 32.73 3.85 R
2175 5012 0.383949 TCCTTTTGAACACGGCAAGC 59.616 50.000 0.00 0.0 0.00 4.01 R
2402 5239 3.011595 TGGACCAATCCTGGATGACAAAT 59.988 43.478 10.54 0.0 46.92 2.32 R
3064 5904 2.097466 GCTGGCATATAACACACACACC 59.903 50.000 0.00 0.0 0.00 4.16 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 6.743575 CTACAATAAGTAGGCAAAGCACTT 57.256 37.500 0.00 0.00 45.28 3.16
34 35 7.308589 CTACAATAAGTAGGCAAAGCACTTTGT 60.309 37.037 20.88 7.92 44.32 2.83
73 76 4.155099 CACAATAAAGAACGGCCACATACA 59.845 41.667 2.24 0.00 0.00 2.29
74 77 4.947388 ACAATAAAGAACGGCCACATACAT 59.053 37.500 2.24 0.00 0.00 2.29
84 87 3.990469 CGGCCACATACATTACATCTCTC 59.010 47.826 2.24 0.00 0.00 3.20
86 89 4.993584 GGCCACATACATTACATCTCTCTG 59.006 45.833 0.00 0.00 0.00 3.35
88 91 5.694006 GCCACATACATTACATCTCTCTGTC 59.306 44.000 0.00 0.00 0.00 3.51
93 96 9.950496 ACATACATTACATCTCTCTGTCTTTTT 57.050 29.630 0.00 0.00 0.00 1.94
110 113 8.706492 TGTCTTTTTCTTACGAAACAACTCTA 57.294 30.769 0.00 0.00 38.77 2.43
115 118 9.977762 TTTTTCTTACGAAACAACTCTAACTTC 57.022 29.630 0.00 0.00 38.77 3.01
221 231 8.787852 ACAATGAAATCTCTTGTAAACTCCTTC 58.212 33.333 0.00 0.00 31.62 3.46
236 246 1.340248 TCCTTCGCGGTATCAATCTCC 59.660 52.381 6.13 0.00 0.00 3.71
241 251 1.721389 CGCGGTATCAATCTCCATTCG 59.279 52.381 0.00 0.00 0.00 3.34
252 262 8.600449 ATCAATCTCCATTCGAAGAAATACTC 57.400 34.615 3.35 0.00 45.90 2.59
288 298 7.236019 TGGTAAAGAGGTTGTAATTAGACTGGA 59.764 37.037 0.00 0.00 0.00 3.86
290 300 5.941555 AGAGGTTGTAATTAGACTGGAGG 57.058 43.478 0.00 0.00 0.00 4.30
306 316 2.104111 TGGAGGAACGATGTTGTCACTT 59.896 45.455 0.00 0.00 0.00 3.16
327 337 1.149987 TTCACCCGCACGAACATTAC 58.850 50.000 0.00 0.00 0.00 1.89
357 368 2.314561 TTTGAAAGCGCATTGAGTCG 57.685 45.000 11.47 0.00 0.00 4.18
378 389 6.321690 AGTCGCTCAATAATAGAAGTGTAGGT 59.678 38.462 0.00 0.00 0.00 3.08
407 418 9.208022 TCGAATCACTATATTTTCATCATGGTC 57.792 33.333 0.00 0.00 0.00 4.02
422 433 9.787532 TTCATCATGGTCTCGATTAAAAATTTC 57.212 29.630 0.00 0.00 0.00 2.17
423 434 8.955388 TCATCATGGTCTCGATTAAAAATTTCA 58.045 29.630 0.00 0.00 0.00 2.69
424 435 9.740239 CATCATGGTCTCGATTAAAAATTTCAT 57.260 29.630 0.00 0.00 0.00 2.57
425 436 9.956720 ATCATGGTCTCGATTAAAAATTTCATC 57.043 29.630 0.00 0.00 0.00 2.92
426 437 9.177608 TCATGGTCTCGATTAAAAATTTCATCT 57.822 29.630 0.00 0.00 0.00 2.90
427 438 9.443283 CATGGTCTCGATTAAAAATTTCATCTC 57.557 33.333 0.00 0.00 0.00 2.75
428 439 8.792830 TGGTCTCGATTAAAAATTTCATCTCT 57.207 30.769 0.00 0.00 0.00 3.10
429 440 9.884636 TGGTCTCGATTAAAAATTTCATCTCTA 57.115 29.630 0.00 0.00 0.00 2.43
519 530 3.259374 TCTGCGAGGACAGAAAATTCTCT 59.741 43.478 0.00 0.00 43.59 3.10
522 533 5.734720 TGCGAGGACAGAAAATTCTCTAAT 58.265 37.500 0.00 0.00 34.74 1.73
525 536 6.536941 GCGAGGACAGAAAATTCTCTAATCTT 59.463 38.462 0.00 0.00 34.74 2.40
529 540 9.844257 AGGACAGAAAATTCTCTAATCTTATGG 57.156 33.333 0.00 0.00 34.74 2.74
532 543 9.638176 ACAGAAAATTCTCTAATCTTATGGCAT 57.362 29.630 4.88 4.88 34.74 4.40
536 547 5.929697 TTCTCTAATCTTATGGCATTGCG 57.070 39.130 4.78 0.00 0.00 4.85
570 581 9.984190 ACGAGAGAAAAATTATATTCTACTCCC 57.016 33.333 0.00 0.00 36.08 4.30
574 585 9.425577 GAGAAAAATTATATTCTACTCCCTCCG 57.574 37.037 2.17 0.00 36.08 4.63
575 586 8.935741 AGAAAAATTATATTCTACTCCCTCCGT 58.064 33.333 0.60 0.00 34.24 4.69
576 587 9.557061 GAAAAATTATATTCTACTCCCTCCGTT 57.443 33.333 0.00 0.00 0.00 4.44
577 588 9.916360 AAAAATTATATTCTACTCCCTCCGTTT 57.084 29.630 0.00 0.00 0.00 3.60
578 589 9.557061 AAAATTATATTCTACTCCCTCCGTTTC 57.443 33.333 0.00 0.00 0.00 2.78
579 590 8.493787 AATTATATTCTACTCCCTCCGTTTCT 57.506 34.615 0.00 0.00 0.00 2.52
580 591 9.597681 AATTATATTCTACTCCCTCCGTTTCTA 57.402 33.333 0.00 0.00 0.00 2.10
581 592 9.597681 ATTATATTCTACTCCCTCCGTTTCTAA 57.402 33.333 0.00 0.00 0.00 2.10
582 593 7.909485 ATATTCTACTCCCTCCGTTTCTAAA 57.091 36.000 0.00 0.00 0.00 1.85
583 594 6.809976 ATTCTACTCCCTCCGTTTCTAAAT 57.190 37.500 0.00 0.00 0.00 1.40
584 595 7.909485 ATTCTACTCCCTCCGTTTCTAAATA 57.091 36.000 0.00 0.00 0.00 1.40
585 596 6.705863 TCTACTCCCTCCGTTTCTAAATAC 57.294 41.667 0.00 0.00 0.00 1.89
586 597 6.430007 TCTACTCCCTCCGTTTCTAAATACT 58.570 40.000 0.00 0.00 0.00 2.12
587 598 6.894103 TCTACTCCCTCCGTTTCTAAATACTT 59.106 38.462 0.00 0.00 0.00 2.24
588 599 5.731591 ACTCCCTCCGTTTCTAAATACTTG 58.268 41.667 0.00 0.00 0.00 3.16
589 600 5.247792 ACTCCCTCCGTTTCTAAATACTTGT 59.752 40.000 0.00 0.00 0.00 3.16
590 601 5.727434 TCCCTCCGTTTCTAAATACTTGTC 58.273 41.667 0.00 0.00 0.00 3.18
591 602 5.482878 TCCCTCCGTTTCTAAATACTTGTCT 59.517 40.000 0.00 0.00 0.00 3.41
592 603 6.013984 TCCCTCCGTTTCTAAATACTTGTCTT 60.014 38.462 0.00 0.00 0.00 3.01
593 604 6.653740 CCCTCCGTTTCTAAATACTTGTCTTT 59.346 38.462 0.00 0.00 0.00 2.52
594 605 7.148457 CCCTCCGTTTCTAAATACTTGTCTTTC 60.148 40.741 0.00 0.00 0.00 2.62
595 606 7.603024 CCTCCGTTTCTAAATACTTGTCTTTCT 59.397 37.037 0.00 0.00 0.00 2.52
596 607 9.635520 CTCCGTTTCTAAATACTTGTCTTTCTA 57.364 33.333 0.00 0.00 0.00 2.10
597 608 9.635520 TCCGTTTCTAAATACTTGTCTTTCTAG 57.364 33.333 0.00 0.00 0.00 2.43
598 609 9.420551 CCGTTTCTAAATACTTGTCTTTCTAGT 57.579 33.333 0.00 0.00 36.28 2.57
608 619 9.778741 ATACTTGTCTTTCTAGTCATTTCAACA 57.221 29.630 0.00 0.00 34.37 3.33
609 620 8.506168 ACTTGTCTTTCTAGTCATTTCAACAA 57.494 30.769 0.00 0.00 0.00 2.83
610 621 8.616076 ACTTGTCTTTCTAGTCATTTCAACAAG 58.384 33.333 0.00 0.00 43.26 3.16
611 622 8.506168 TTGTCTTTCTAGTCATTTCAACAAGT 57.494 30.769 0.00 0.00 0.00 3.16
612 623 7.919690 TGTCTTTCTAGTCATTTCAACAAGTG 58.080 34.615 0.00 0.00 0.00 3.16
613 624 7.768582 TGTCTTTCTAGTCATTTCAACAAGTGA 59.231 33.333 0.00 0.00 0.00 3.41
614 625 8.064814 GTCTTTCTAGTCATTTCAACAAGTGAC 58.935 37.037 2.95 2.95 45.33 3.67
623 634 8.177663 GTCATTTCAACAAGTGACTACATATGG 58.822 37.037 7.80 0.00 42.95 2.74
624 635 8.100164 TCATTTCAACAAGTGACTACATATGGA 58.900 33.333 7.80 0.00 35.39 3.41
625 636 7.905604 TTTCAACAAGTGACTACATATGGAG 57.094 36.000 13.77 13.77 35.39 3.86
626 637 5.419542 TCAACAAGTGACTACATATGGAGC 58.580 41.667 15.30 8.47 0.00 4.70
627 638 5.046663 TCAACAAGTGACTACATATGGAGCA 60.047 40.000 15.30 10.95 0.00 4.26
628 639 5.420725 ACAAGTGACTACATATGGAGCAA 57.579 39.130 15.30 0.16 0.00 3.91
629 640 5.804639 ACAAGTGACTACATATGGAGCAAA 58.195 37.500 15.30 0.00 0.00 3.68
630 641 6.237901 ACAAGTGACTACATATGGAGCAAAA 58.762 36.000 15.30 0.00 0.00 2.44
631 642 6.886459 ACAAGTGACTACATATGGAGCAAAAT 59.114 34.615 15.30 0.00 0.00 1.82
632 643 6.932356 AGTGACTACATATGGAGCAAAATG 57.068 37.500 15.30 0.00 0.00 2.32
633 644 6.653020 AGTGACTACATATGGAGCAAAATGA 58.347 36.000 15.30 0.00 0.00 2.57
634 645 6.765036 AGTGACTACATATGGAGCAAAATGAG 59.235 38.462 15.30 0.00 0.00 2.90
635 646 6.540189 GTGACTACATATGGAGCAAAATGAGT 59.460 38.462 15.30 0.00 0.00 3.41
636 647 6.539826 TGACTACATATGGAGCAAAATGAGTG 59.460 38.462 15.30 0.00 0.00 3.51
637 648 6.653020 ACTACATATGGAGCAAAATGAGTGA 58.347 36.000 15.30 0.00 0.00 3.41
638 649 7.112122 ACTACATATGGAGCAAAATGAGTGAA 58.888 34.615 15.30 0.00 0.00 3.18
639 650 7.776969 ACTACATATGGAGCAAAATGAGTGAAT 59.223 33.333 15.30 0.00 0.00 2.57
640 651 7.035840 ACATATGGAGCAAAATGAGTGAATC 57.964 36.000 7.80 0.00 0.00 2.52
641 652 6.832384 ACATATGGAGCAAAATGAGTGAATCT 59.168 34.615 7.80 0.00 0.00 2.40
642 653 7.994911 ACATATGGAGCAAAATGAGTGAATCTA 59.005 33.333 7.80 0.00 0.00 1.98
643 654 6.690194 ATGGAGCAAAATGAGTGAATCTAC 57.310 37.500 0.00 0.00 0.00 2.59
644 655 5.559770 TGGAGCAAAATGAGTGAATCTACA 58.440 37.500 0.00 0.00 0.00 2.74
645 656 5.412594 TGGAGCAAAATGAGTGAATCTACAC 59.587 40.000 0.00 0.00 40.60 2.90
688 699 7.342769 ACATCCGTATGTAGTAGTCATTTGA 57.657 36.000 0.00 0.00 44.66 2.69
689 700 7.778083 ACATCCGTATGTAGTAGTCATTTGAA 58.222 34.615 0.00 0.00 44.66 2.69
690 701 8.255206 ACATCCGTATGTAGTAGTCATTTGAAA 58.745 33.333 0.00 0.00 44.66 2.69
691 702 9.261180 CATCCGTATGTAGTAGTCATTTGAAAT 57.739 33.333 0.00 0.00 0.00 2.17
692 703 8.642908 TCCGTATGTAGTAGTCATTTGAAATG 57.357 34.615 11.54 11.54 0.00 2.32
693 704 8.255206 TCCGTATGTAGTAGTCATTTGAAATGT 58.745 33.333 16.62 2.38 0.00 2.71
694 705 8.540492 CCGTATGTAGTAGTCATTTGAAATGTC 58.460 37.037 16.62 11.74 0.00 3.06
695 706 9.302345 CGTATGTAGTAGTCATTTGAAATGTCT 57.698 33.333 18.62 18.62 0.00 3.41
719 730 9.595823 TCTAGAAAGACAAATATTTAGGAACGG 57.404 33.333 0.00 0.00 0.00 4.44
720 731 7.625828 AGAAAGACAAATATTTAGGAACGGG 57.374 36.000 0.00 0.00 0.00 5.28
721 732 7.399634 AGAAAGACAAATATTTAGGAACGGGA 58.600 34.615 0.00 0.00 0.00 5.14
722 733 7.553044 AGAAAGACAAATATTTAGGAACGGGAG 59.447 37.037 0.00 0.00 0.00 4.30
723 734 5.681639 AGACAAATATTTAGGAACGGGAGG 58.318 41.667 0.00 0.00 0.00 4.30
724 735 5.427481 AGACAAATATTTAGGAACGGGAGGA 59.573 40.000 0.00 0.00 0.00 3.71
725 736 5.681639 ACAAATATTTAGGAACGGGAGGAG 58.318 41.667 0.00 0.00 0.00 3.69
726 737 5.191124 ACAAATATTTAGGAACGGGAGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
727 738 6.384886 ACAAATATTTAGGAACGGGAGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
728 739 7.072076 ACAAATATTTAGGAACGGGAGGAGTAT 59.928 37.037 0.00 0.00 0.00 2.12
738 749 6.041296 GGAACGGGAGGAGTATAAAACTATGA 59.959 42.308 0.00 0.00 39.07 2.15
756 767 7.459795 ACTATGATGATCACTACATGTCGAT 57.540 36.000 0.00 3.08 0.00 3.59
774 785 8.510505 CATGTCGATGAAGAACATAGAGATCTA 58.489 37.037 0.00 0.00 40.51 1.98
777 788 8.946085 GTCGATGAAGAACATAGAGATCTAGAT 58.054 37.037 4.47 4.47 40.26 1.98
778 789 9.161629 TCGATGAAGAACATAGAGATCTAGATC 57.838 37.037 22.92 22.92 39.56 2.75
779 790 9.166173 CGATGAAGAACATAGAGATCTAGATCT 57.834 37.037 31.07 31.07 43.83 2.75
794 805 6.723298 TCTAGATCTTGAGATTTGAGGTCC 57.277 41.667 0.00 0.00 34.37 4.46
795 806 4.769345 AGATCTTGAGATTTGAGGTCCC 57.231 45.455 0.00 0.00 34.37 4.46
807 818 3.403558 GGTCCCCCACCTCTCAGC 61.404 72.222 0.00 0.00 42.84 4.26
836 3054 1.537202 CTGAAAGCGAGGGGACAAAAG 59.463 52.381 0.00 0.00 0.00 2.27
840 3058 0.765510 AGCGAGGGGACAAAAGTTCT 59.234 50.000 0.00 0.00 0.00 3.01
841 3059 1.143073 AGCGAGGGGACAAAAGTTCTT 59.857 47.619 0.00 0.00 0.00 2.52
845 3063 4.833390 CGAGGGGACAAAAGTTCTTAGAT 58.167 43.478 0.00 0.00 0.00 1.98
848 3066 5.561679 AGGGGACAAAAGTTCTTAGATGAC 58.438 41.667 0.00 0.00 0.00 3.06
849 3067 4.392138 GGGGACAAAAGTTCTTAGATGACG 59.608 45.833 0.00 0.00 0.00 4.35
850 3068 5.235516 GGGACAAAAGTTCTTAGATGACGA 58.764 41.667 0.00 0.00 0.00 4.20
851 3069 5.120363 GGGACAAAAGTTCTTAGATGACGAC 59.880 44.000 0.00 0.00 0.00 4.34
852 3070 5.164080 GGACAAAAGTTCTTAGATGACGACG 60.164 44.000 0.00 0.00 0.00 5.12
853 3071 5.526115 ACAAAAGTTCTTAGATGACGACGA 58.474 37.500 0.00 0.00 0.00 4.20
854 3072 5.401674 ACAAAAGTTCTTAGATGACGACGAC 59.598 40.000 0.00 0.00 0.00 4.34
855 3073 3.386613 AGTTCTTAGATGACGACGACG 57.613 47.619 5.58 5.58 45.75 5.12
858 3076 1.322637 TCTTAGATGACGACGACGACG 59.677 52.381 17.60 17.60 42.66 5.12
871 3089 0.455126 GACGACGTACGAGAAACCCC 60.455 60.000 24.41 0.00 45.77 4.95
872 3090 1.153958 CGACGTACGAGAAACCCCC 60.154 63.158 24.41 0.00 45.77 5.40
873 3091 1.589716 CGACGTACGAGAAACCCCCT 61.590 60.000 24.41 0.00 45.77 4.79
874 3092 0.605083 GACGTACGAGAAACCCCCTT 59.395 55.000 24.41 0.00 0.00 3.95
876 3094 0.604578 CGTACGAGAAACCCCCTTGA 59.395 55.000 10.44 0.00 0.00 3.02
877 3095 1.403780 CGTACGAGAAACCCCCTTGAG 60.404 57.143 10.44 0.00 0.00 3.02
878 3096 1.066358 GTACGAGAAACCCCCTTGAGG 60.066 57.143 0.00 0.00 0.00 3.86
879 3097 0.473117 ACGAGAAACCCCCTTGAGGA 60.473 55.000 0.00 0.00 38.24 3.71
880 3098 0.036294 CGAGAAACCCCCTTGAGGAC 60.036 60.000 0.00 0.00 38.24 3.85
883 3715 0.038310 GAAACCCCCTTGAGGACCAG 59.962 60.000 0.00 0.00 38.24 4.00
885 3717 2.204151 CCCCCTTGAGGACCAGGT 60.204 66.667 0.00 0.00 38.24 4.00
888 3720 1.380302 CCCTTGAGGACCAGGTTGG 59.620 63.158 0.00 0.00 45.02 3.77
923 3755 1.898574 CCCAAGTTTGTGCGAGCCT 60.899 57.895 0.00 0.00 0.00 4.58
954 3786 0.462759 GACTGGGCAGCATCTGGTAC 60.463 60.000 0.00 0.00 31.21 3.34
1067 3904 4.436998 GCGCACGGCTACTCCACT 62.437 66.667 0.30 0.00 39.11 4.00
1606 4443 2.993264 CCGTAGTGGTGTCGGGGT 60.993 66.667 0.00 0.00 40.49 4.95
1647 4484 0.528901 CCAATGCAATGGTGGATGCG 60.529 55.000 13.01 0.00 45.47 4.73
1847 4684 1.078918 CTGGGCACGAGCAGAATGA 60.079 57.895 7.26 0.00 44.61 2.57
1860 4697 2.224572 GCAGAATGATGAGGAGGATGCT 60.225 50.000 0.00 0.00 37.93 3.79
1989 4826 3.119352 GGAAGGAAGTGCATGGTTTCATC 60.119 47.826 0.00 0.00 0.00 2.92
2098 4935 3.916761 ACTGCCATGTTAATGTTTGCAG 58.083 40.909 11.64 11.64 45.06 4.41
2110 4947 0.968405 GTTTGCAGGGATGCCTGAAA 59.032 50.000 35.08 28.89 39.96 2.69
2175 5012 4.785453 GGCCAGGGGAAGCAGTCG 62.785 72.222 0.00 0.00 0.00 4.18
2402 5239 2.771089 AGCAAGCGAGTTCATCAAAGA 58.229 42.857 0.00 0.00 0.00 2.52
2445 5282 1.152290 TACAACTGGGTCGTGGGGA 60.152 57.895 0.00 0.00 0.00 4.81
3064 5904 2.079158 CACCACTAGCAACACATGGAG 58.921 52.381 0.00 0.00 34.38 3.86
3287 6127 1.024579 GGTGTTGCCTACATCGTGGG 61.025 60.000 0.00 0.00 39.39 4.61
3426 6266 2.764572 CCCGTGTTATCCTAGGAAGTGT 59.235 50.000 17.30 0.99 0.00 3.55
3521 6361 8.801299 TGATCTCTTAGCAACCATATCTCTAAG 58.199 37.037 0.00 0.00 38.20 2.18
3601 6442 7.208080 TCGTATTTTTATGGCCTTCTCTAGAC 58.792 38.462 3.32 0.00 0.00 2.59
3659 6500 8.932610 TCAACCATTATACATGCCCAAAATTAT 58.067 29.630 0.00 0.00 0.00 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 7.094805 CAAAGTGCTTTGCCTACTTATTGTAGA 60.095 37.037 11.12 0.00 44.69 2.59
8 9 6.743575 AAGTGCTTTGCCTACTTATTGTAG 57.256 37.500 0.00 0.00 46.15 2.74
9 10 6.908825 CAAAGTGCTTTGCCTACTTATTGTA 58.091 36.000 11.12 0.00 42.66 2.41
10 11 5.772521 CAAAGTGCTTTGCCTACTTATTGT 58.227 37.500 11.12 0.00 42.66 2.71
29 30 6.734137 TGTGACCTAACAATAAAGCACAAAG 58.266 36.000 0.00 0.00 32.74 2.77
31 32 6.701145 TTGTGACCTAACAATAAAGCACAA 57.299 33.333 0.00 0.00 41.13 3.33
43 44 4.142752 GGCCGTTCTTTATTGTGACCTAAC 60.143 45.833 0.00 0.00 0.00 2.34
44 45 4.004982 GGCCGTTCTTTATTGTGACCTAA 58.995 43.478 0.00 0.00 0.00 2.69
73 76 9.360093 CGTAAGAAAAAGACAGAGAGATGTAAT 57.640 33.333 0.00 0.00 43.02 1.89
74 77 8.744008 CGTAAGAAAAAGACAGAGAGATGTAA 57.256 34.615 0.00 0.00 43.02 2.41
94 97 8.761497 TCAATGAAGTTAGAGTTGTTTCGTAAG 58.239 33.333 0.00 0.00 0.00 2.34
95 98 8.651391 TCAATGAAGTTAGAGTTGTTTCGTAA 57.349 30.769 0.00 0.00 0.00 3.18
96 99 8.827177 ATCAATGAAGTTAGAGTTGTTTCGTA 57.173 30.769 0.00 0.00 0.00 3.43
97 100 7.730364 ATCAATGAAGTTAGAGTTGTTTCGT 57.270 32.000 0.00 0.00 0.00 3.85
98 101 8.926710 AGTATCAATGAAGTTAGAGTTGTTTCG 58.073 33.333 0.00 0.00 0.00 3.46
199 206 5.408604 GCGAAGGAGTTTACAAGAGATTTCA 59.591 40.000 0.00 0.00 0.00 2.69
204 211 2.352421 CCGCGAAGGAGTTTACAAGAGA 60.352 50.000 8.23 0.00 45.00 3.10
216 223 1.340248 GGAGATTGATACCGCGAAGGA 59.660 52.381 8.23 0.00 45.00 3.36
221 231 1.721389 CGAATGGAGATTGATACCGCG 59.279 52.381 0.00 0.00 0.00 6.46
236 246 7.602517 AGTCTTTGGAGTATTTCTTCGAATG 57.397 36.000 0.00 0.00 0.00 2.67
273 283 5.988310 TCGTTCCTCCAGTCTAATTACAA 57.012 39.130 0.00 0.00 0.00 2.41
275 285 5.903810 ACATCGTTCCTCCAGTCTAATTAC 58.096 41.667 0.00 0.00 0.00 1.89
288 298 4.638421 TGAAAAAGTGACAACATCGTTCCT 59.362 37.500 0.00 0.00 0.00 3.36
290 300 4.733405 GGTGAAAAAGTGACAACATCGTTC 59.267 41.667 0.00 0.00 0.00 3.95
306 316 1.025812 AATGTTCGTGCGGGTGAAAA 58.974 45.000 0.00 0.00 0.00 2.29
327 337 6.592798 ATGCGCTTTCAAAATCATTATTGG 57.407 33.333 9.73 0.00 0.00 3.16
357 368 6.505272 ACGACCTACACTTCTATTATTGAGC 58.495 40.000 0.00 0.00 0.00 4.26
359 370 6.539826 TCGACGACCTACACTTCTATTATTGA 59.460 38.462 0.00 0.00 0.00 2.57
360 371 6.722301 TCGACGACCTACACTTCTATTATTG 58.278 40.000 0.00 0.00 0.00 1.90
369 380 2.818432 AGTGATTCGACGACCTACACTT 59.182 45.455 14.94 5.19 34.21 3.16
378 389 8.915654 CATGATGAAAATATAGTGATTCGACGA 58.084 33.333 0.00 0.00 0.00 4.20
454 465 9.891828 TGATGAGTTTATATTGTTGTGTCAAAC 57.108 29.630 0.00 0.00 0.00 2.93
491 502 0.452184 TCTGTCCTCGCAGATTCGAC 59.548 55.000 0.00 0.00 40.23 4.20
494 505 4.633565 AGAATTTTCTGTCCTCGCAGATTC 59.366 41.667 0.00 0.00 43.99 2.52
499 510 3.685139 AGAGAATTTTCTGTCCTCGCA 57.315 42.857 0.00 0.00 37.73 5.10
555 566 9.597681 TTAGAAACGGAGGGAGTAGAATATAAT 57.402 33.333 0.00 0.00 0.00 1.28
560 571 6.809976 ATTTAGAAACGGAGGGAGTAGAAT 57.190 37.500 0.00 0.00 0.00 2.40
561 572 6.894103 AGTATTTAGAAACGGAGGGAGTAGAA 59.106 38.462 0.00 0.00 0.00 2.10
563 574 6.712179 AGTATTTAGAAACGGAGGGAGTAG 57.288 41.667 0.00 0.00 0.00 2.57
564 575 6.438425 ACAAGTATTTAGAAACGGAGGGAGTA 59.562 38.462 0.00 0.00 0.00 2.59
565 576 5.247792 ACAAGTATTTAGAAACGGAGGGAGT 59.752 40.000 0.00 0.00 0.00 3.85
566 577 5.731591 ACAAGTATTTAGAAACGGAGGGAG 58.268 41.667 0.00 0.00 0.00 4.30
567 578 5.482878 AGACAAGTATTTAGAAACGGAGGGA 59.517 40.000 0.00 0.00 0.00 4.20
568 579 5.731591 AGACAAGTATTTAGAAACGGAGGG 58.268 41.667 0.00 0.00 0.00 4.30
569 580 7.603024 AGAAAGACAAGTATTTAGAAACGGAGG 59.397 37.037 0.00 0.00 0.00 4.30
570 581 8.535690 AGAAAGACAAGTATTTAGAAACGGAG 57.464 34.615 0.00 0.00 0.00 4.63
571 582 9.635520 CTAGAAAGACAAGTATTTAGAAACGGA 57.364 33.333 0.00 0.00 0.00 4.69
572 583 9.420551 ACTAGAAAGACAAGTATTTAGAAACGG 57.579 33.333 0.00 0.00 0.00 4.44
582 593 9.778741 TGTTGAAATGACTAGAAAGACAAGTAT 57.221 29.630 0.00 0.00 31.23 2.12
583 594 9.607988 TTGTTGAAATGACTAGAAAGACAAGTA 57.392 29.630 0.00 0.00 31.23 2.24
584 595 8.506168 TTGTTGAAATGACTAGAAAGACAAGT 57.494 30.769 0.00 0.00 31.23 3.16
585 596 8.616076 ACTTGTTGAAATGACTAGAAAGACAAG 58.384 33.333 0.00 0.00 43.36 3.16
586 597 8.397906 CACTTGTTGAAATGACTAGAAAGACAA 58.602 33.333 0.00 0.00 31.23 3.18
587 598 7.768582 TCACTTGTTGAAATGACTAGAAAGACA 59.231 33.333 0.00 0.00 0.00 3.41
588 599 8.064814 GTCACTTGTTGAAATGACTAGAAAGAC 58.935 37.037 0.00 0.00 38.72 3.01
589 600 8.142994 GTCACTTGTTGAAATGACTAGAAAGA 57.857 34.615 0.00 0.00 38.72 2.52
597 608 8.177663 CCATATGTAGTCACTTGTTGAAATGAC 58.822 37.037 1.24 0.00 41.47 3.06
598 609 8.100164 TCCATATGTAGTCACTTGTTGAAATGA 58.900 33.333 1.24 0.00 35.39 2.57
599 610 8.267620 TCCATATGTAGTCACTTGTTGAAATG 57.732 34.615 1.24 0.00 35.39 2.32
600 611 7.066284 GCTCCATATGTAGTCACTTGTTGAAAT 59.934 37.037 1.24 0.00 35.39 2.17
601 612 6.371548 GCTCCATATGTAGTCACTTGTTGAAA 59.628 38.462 1.24 0.00 35.39 2.69
602 613 5.874810 GCTCCATATGTAGTCACTTGTTGAA 59.125 40.000 1.24 0.00 35.39 2.69
603 614 5.046663 TGCTCCATATGTAGTCACTTGTTGA 60.047 40.000 1.24 0.00 0.00 3.18
604 615 5.178061 TGCTCCATATGTAGTCACTTGTTG 58.822 41.667 1.24 0.00 0.00 3.33
605 616 5.420725 TGCTCCATATGTAGTCACTTGTT 57.579 39.130 1.24 0.00 0.00 2.83
606 617 5.420725 TTGCTCCATATGTAGTCACTTGT 57.579 39.130 1.24 0.00 0.00 3.16
607 618 6.741992 TTTTGCTCCATATGTAGTCACTTG 57.258 37.500 1.24 0.00 0.00 3.16
608 619 7.112122 TCATTTTGCTCCATATGTAGTCACTT 58.888 34.615 1.24 0.00 0.00 3.16
609 620 6.653020 TCATTTTGCTCCATATGTAGTCACT 58.347 36.000 1.24 0.00 0.00 3.41
610 621 6.540189 ACTCATTTTGCTCCATATGTAGTCAC 59.460 38.462 1.24 0.00 0.00 3.67
611 622 6.539826 CACTCATTTTGCTCCATATGTAGTCA 59.460 38.462 1.24 0.00 0.00 3.41
612 623 6.763135 TCACTCATTTTGCTCCATATGTAGTC 59.237 38.462 1.24 0.00 0.00 2.59
613 624 6.653020 TCACTCATTTTGCTCCATATGTAGT 58.347 36.000 1.24 0.00 0.00 2.73
614 625 7.558161 TTCACTCATTTTGCTCCATATGTAG 57.442 36.000 1.24 0.00 0.00 2.74
615 626 7.994911 AGATTCACTCATTTTGCTCCATATGTA 59.005 33.333 1.24 0.00 0.00 2.29
616 627 6.832384 AGATTCACTCATTTTGCTCCATATGT 59.168 34.615 1.24 0.00 0.00 2.29
617 628 7.273320 AGATTCACTCATTTTGCTCCATATG 57.727 36.000 0.00 0.00 0.00 1.78
618 629 7.994911 TGTAGATTCACTCATTTTGCTCCATAT 59.005 33.333 0.00 0.00 0.00 1.78
619 630 7.280876 GTGTAGATTCACTCATTTTGCTCCATA 59.719 37.037 0.00 0.00 35.68 2.74
620 631 6.094603 GTGTAGATTCACTCATTTTGCTCCAT 59.905 38.462 0.00 0.00 35.68 3.41
621 632 5.412594 GTGTAGATTCACTCATTTTGCTCCA 59.587 40.000 0.00 0.00 35.68 3.86
622 633 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
623 634 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
662 673 9.074576 TCAAATGACTACTACATACGGATGTAT 57.925 33.333 20.64 13.02 45.42 2.29
663 674 8.454570 TCAAATGACTACTACATACGGATGTA 57.545 34.615 19.32 19.32 44.77 2.29
665 676 8.642908 TTTCAAATGACTACTACATACGGATG 57.357 34.615 5.94 5.94 39.16 3.51
666 677 9.261180 CATTTCAAATGACTACTACATACGGAT 57.739 33.333 3.82 0.00 0.00 4.18
667 678 8.255206 ACATTTCAAATGACTACTACATACGGA 58.745 33.333 17.30 0.00 0.00 4.69
668 679 8.420374 ACATTTCAAATGACTACTACATACGG 57.580 34.615 17.30 0.00 0.00 4.02
669 680 9.302345 AGACATTTCAAATGACTACTACATACG 57.698 33.333 17.30 0.00 0.00 3.06
693 704 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
694 705 8.827677 CCCGTTCCTAAATATTTGTCTTTCTAG 58.172 37.037 11.05 0.00 0.00 2.43
695 706 8.542080 TCCCGTTCCTAAATATTTGTCTTTCTA 58.458 33.333 11.05 0.00 0.00 2.10
696 707 7.399634 TCCCGTTCCTAAATATTTGTCTTTCT 58.600 34.615 11.05 0.00 0.00 2.52
697 708 7.201705 CCTCCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
698 709 6.602009 CCTCCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
699 710 6.069847 TCCTCCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
700 711 5.427481 TCCTCCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
701 712 5.677567 TCCTCCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
702 713 5.191124 ACTCCTCCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
703 714 5.681639 ACTCCTCCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
704 715 5.970501 ACTCCTCCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
705 716 8.731591 TTATACTCCTCCCGTTCCTAAATATT 57.268 34.615 0.00 0.00 0.00 1.28
706 717 8.731591 TTTATACTCCTCCCGTTCCTAAATAT 57.268 34.615 0.00 0.00 0.00 1.28
707 718 8.424133 GTTTTATACTCCTCCCGTTCCTAAATA 58.576 37.037 0.00 0.00 0.00 1.40
708 719 7.126879 AGTTTTATACTCCTCCCGTTCCTAAAT 59.873 37.037 0.00 0.00 28.23 1.40
709 720 6.441604 AGTTTTATACTCCTCCCGTTCCTAAA 59.558 38.462 0.00 0.00 28.23 1.85
710 721 5.960202 AGTTTTATACTCCTCCCGTTCCTAA 59.040 40.000 0.00 0.00 28.23 2.69
711 722 5.522641 AGTTTTATACTCCTCCCGTTCCTA 58.477 41.667 0.00 0.00 28.23 2.94
712 723 4.359996 AGTTTTATACTCCTCCCGTTCCT 58.640 43.478 0.00 0.00 28.23 3.36
713 724 4.750021 AGTTTTATACTCCTCCCGTTCC 57.250 45.455 0.00 0.00 28.23 3.62
714 725 7.047460 TCATAGTTTTATACTCCTCCCGTTC 57.953 40.000 0.00 0.00 38.33 3.95
715 726 7.289317 TCATCATAGTTTTATACTCCTCCCGTT 59.711 37.037 0.00 0.00 38.33 4.44
716 727 6.781014 TCATCATAGTTTTATACTCCTCCCGT 59.219 38.462 0.00 0.00 38.33 5.28
717 728 7.228314 TCATCATAGTTTTATACTCCTCCCG 57.772 40.000 0.00 0.00 38.33 5.14
718 729 8.816894 TGATCATCATAGTTTTATACTCCTCCC 58.183 37.037 0.00 0.00 38.33 4.30
719 730 9.646427 GTGATCATCATAGTTTTATACTCCTCC 57.354 37.037 0.00 0.00 38.33 4.30
728 739 9.463443 CGACATGTAGTGATCATCATAGTTTTA 57.537 33.333 0.00 0.00 0.00 1.52
738 749 6.396829 TCTTCATCGACATGTAGTGATCAT 57.603 37.500 0.00 0.00 31.08 2.45
748 759 7.369607 AGATCTCTATGTTCTTCATCGACATG 58.630 38.462 0.00 0.00 37.91 3.21
751 762 8.317891 TCTAGATCTCTATGTTCTTCATCGAC 57.682 38.462 0.00 0.00 37.91 4.20
753 764 9.166173 AGATCTAGATCTCTATGTTCTTCATCG 57.834 37.037 26.53 0.00 44.37 3.84
756 767 9.859152 TCAAGATCTAGATCTCTATGTTCTTCA 57.141 33.333 30.77 9.78 46.75 3.02
774 785 4.769345 GGGACCTCAAATCTCAAGATCT 57.231 45.455 0.00 0.00 32.75 2.75
794 805 4.463879 CAGCGCTGAGAGGTGGGG 62.464 72.222 33.66 0.00 33.87 4.96
836 3054 3.089982 GTCGTCGTCGTCATCTAAGAAC 58.910 50.000 1.33 0.00 38.33 3.01
840 3058 3.863942 CGTCGTCGTCGTCATCTAA 57.136 52.632 3.67 0.00 38.33 2.10
851 3069 0.790866 GGGTTTCTCGTACGTCGTCG 60.791 60.000 16.05 6.02 40.80 5.12
852 3070 0.455126 GGGGTTTCTCGTACGTCGTC 60.455 60.000 16.05 3.72 40.80 4.20
853 3071 1.581447 GGGGTTTCTCGTACGTCGT 59.419 57.895 16.05 2.21 40.80 4.34
854 3072 1.153958 GGGGGTTTCTCGTACGTCG 60.154 63.158 16.05 8.02 41.41 5.12
855 3073 0.605083 AAGGGGGTTTCTCGTACGTC 59.395 55.000 16.05 2.35 0.00 4.34
858 3076 1.066358 CCTCAAGGGGGTTTCTCGTAC 60.066 57.143 0.00 0.00 0.00 3.67
859 3077 1.203212 TCCTCAAGGGGGTTTCTCGTA 60.203 52.381 0.00 0.00 35.41 3.43
860 3078 0.473117 TCCTCAAGGGGGTTTCTCGT 60.473 55.000 0.00 0.00 35.41 4.18
861 3079 0.036294 GTCCTCAAGGGGGTTTCTCG 60.036 60.000 0.00 0.00 35.41 4.04
863 3081 0.402861 TGGTCCTCAAGGGGGTTTCT 60.403 55.000 0.00 0.00 35.41 2.52
864 3082 0.038310 CTGGTCCTCAAGGGGGTTTC 59.962 60.000 0.00 0.00 35.41 2.78
866 3084 1.852626 CCTGGTCCTCAAGGGGGTT 60.853 63.158 0.00 0.00 35.41 4.11
867 3085 2.204151 CCTGGTCCTCAAGGGGGT 60.204 66.667 0.00 0.00 35.41 4.95
871 3089 0.036875 GTCCAACCTGGTCCTCAAGG 59.963 60.000 0.00 0.00 39.03 3.61
872 3090 0.320771 CGTCCAACCTGGTCCTCAAG 60.321 60.000 0.00 0.00 39.03 3.02
873 3091 1.752198 CGTCCAACCTGGTCCTCAA 59.248 57.895 0.00 0.00 39.03 3.02
874 3092 2.214216 CCGTCCAACCTGGTCCTCA 61.214 63.158 0.00 0.00 39.03 3.86
876 3094 1.350310 AAACCGTCCAACCTGGTCCT 61.350 55.000 0.00 0.00 39.03 3.85
877 3095 0.887836 GAAACCGTCCAACCTGGTCC 60.888 60.000 0.00 0.00 39.03 4.46
878 3096 0.179040 TGAAACCGTCCAACCTGGTC 60.179 55.000 0.00 0.00 39.03 4.02
879 3097 0.464916 GTGAAACCGTCCAACCTGGT 60.465 55.000 0.00 0.00 39.03 4.00
880 3098 0.179029 AGTGAAACCGTCCAACCTGG 60.179 55.000 0.00 0.00 37.80 4.45
883 3715 2.018515 TGAAAGTGAAACCGTCCAACC 58.981 47.619 0.00 0.00 37.80 3.77
885 3717 2.424246 GGTTGAAAGTGAAACCGTCCAA 59.576 45.455 0.00 0.00 37.80 3.53
888 3720 2.018515 TGGGTTGAAAGTGAAACCGTC 58.981 47.619 0.00 0.00 45.70 4.79
923 3755 2.429930 CCAGTCTTGGGCCACGAA 59.570 61.111 15.01 0.00 41.05 3.85
1052 3889 2.202623 CGAGTGGAGTAGCCGTGC 60.203 66.667 0.00 0.00 40.66 5.34
1054 3891 3.450115 GGCGAGTGGAGTAGCCGT 61.450 66.667 0.00 0.00 40.17 5.68
1590 4427 1.373748 CAACCCCGACACCACTACG 60.374 63.158 0.00 0.00 0.00 3.51
1606 4443 2.093181 CCATAATGACCGTCACCTCCAA 60.093 50.000 2.57 0.00 0.00 3.53
1647 4484 2.125106 CTCCCGGCCTTGCTGTAC 60.125 66.667 0.00 0.00 32.22 2.90
1847 4684 0.759959 CAGAGCAGCATCCTCCTCAT 59.240 55.000 0.00 0.00 0.00 2.90
1860 4697 2.872245 CTGTCGAAAAAGTTCCAGAGCA 59.128 45.455 0.00 0.00 29.28 4.26
2098 4935 0.332972 AAGTCCCTTTCAGGCATCCC 59.667 55.000 0.00 0.00 32.73 3.85
2110 4947 2.192263 GTTCCAGGAGATGAAGTCCCT 58.808 52.381 0.00 0.00 34.21 4.20
2175 5012 0.383949 TCCTTTTGAACACGGCAAGC 59.616 50.000 0.00 0.00 0.00 4.01
2181 5018 3.624326 TCAAGCATCCTTTTGAACACG 57.376 42.857 0.00 0.00 30.84 4.49
2402 5239 3.011595 TGGACCAATCCTGGATGACAAAT 59.988 43.478 10.54 0.00 46.92 2.32
3064 5904 2.097466 GCTGGCATATAACACACACACC 59.903 50.000 0.00 0.00 0.00 4.16
3287 6127 2.880890 ACTTGCACAGAGGAACAATGAC 59.119 45.455 0.00 0.00 0.00 3.06
3426 6266 6.100134 TCCACCTCATCATTTATCTCACATGA 59.900 38.462 0.00 0.00 0.00 3.07
3492 6332 7.675195 AGAGATATGGTTGCTAAGAGATCATCT 59.325 37.037 0.00 0.00 41.27 2.90
3588 6429 3.954904 TGTCATGTAGTCTAGAGAAGGCC 59.045 47.826 0.00 0.00 0.00 5.19
3659 6500 6.183360 GCGATCAAGATTCATCAAACAGAGAA 60.183 38.462 0.00 0.00 0.00 2.87
3678 6519 0.250234 CTCACCCTTCTTGGCGATCA 59.750 55.000 0.00 0.00 0.00 2.92
3754 6595 8.557029 GGCATATACTCGTTGTTAATAAGCTTT 58.443 33.333 3.20 0.00 0.00 3.51
3755 6596 7.713507 TGGCATATACTCGTTGTTAATAAGCTT 59.286 33.333 3.48 3.48 0.00 3.74
3756 6597 7.214381 TGGCATATACTCGTTGTTAATAAGCT 58.786 34.615 0.00 0.00 0.00 3.74


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

AutoCloner maintained by Alex Coulton.