Multiple sequence alignment - TraesCS6B01G126200

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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 TraesCS6B01G126200 chr6B 100.000 2507 0 0 1 2507 121530737 121528231 0.000000e+00 4630.0
1 TraesCS6B01G126200 chr6B 88.946 389 26 7 1665 2040 121717192 121716808 4.880000e-127 464.0
2 TraesCS6B01G126200 chr6B 86.753 385 26 12 1129 1507 121732663 121732298 3.000000e-109 405.0
3 TraesCS6B01G126200 chr6B 88.657 335 31 4 1155 1482 123724156 123724490 3.880000e-108 401.0
4 TraesCS6B01G126200 chr6B 82.188 320 39 13 788 1105 121733618 121733315 2.470000e-65 259.0
5 TraesCS6B01G126200 chr6B 90.588 85 7 1 1514 1597 121731898 121731814 7.330000e-21 111.0
6 TraesCS6B01G126200 chr6D 96.378 994 36 0 1514 2507 49856241 49857234 0.000000e+00 1637.0
7 TraesCS6B01G126200 chr6D 92.903 775 25 8 758 1507 49848584 49849353 0.000000e+00 1099.0
8 TraesCS6B01G126200 chr6D 93.023 774 18 4 758 1516 49854981 49855733 0.000000e+00 1098.0
9 TraesCS6B01G126200 chr6D 89.732 448 30 4 56 487 49848140 49848587 2.180000e-155 558.0
10 TraesCS6B01G126200 chr6D 89.141 396 28 9 1129 1516 49843067 49843455 1.740000e-131 479.0
11 TraesCS6B01G126200 chr6D 89.556 383 25 7 1139 1512 47810925 47810549 2.920000e-129 472.0
12 TraesCS6B01G126200 chr6D 88.773 383 41 2 1655 2037 49851726 49852106 3.780000e-128 468.0
13 TraesCS6B01G126200 chr6D 83.650 526 53 15 1514 2037 49843839 49844333 4.880000e-127 464.0
14 TraesCS6B01G126200 chr6D 90.230 174 16 1 56 228 49854576 49854749 2.510000e-55 226.0
15 TraesCS6B01G126200 chr6D 79.370 349 38 18 779 1116 47811215 47810890 5.430000e-52 215.0
16 TraesCS6B01G126200 chr6D 97.500 120 3 0 304 423 49854772 49854891 3.270000e-49 206.0
17 TraesCS6B01G126200 chr6D 86.667 135 11 5 280 412 47811908 47811779 2.600000e-30 143.0
18 TraesCS6B01G126200 chr6A 94.394 999 43 2 1512 2507 65072937 65071949 0.000000e+00 1522.0
19 TraesCS6B01G126200 chr6A 92.109 773 37 11 758 1516 65074085 65073323 0.000000e+00 1068.0
20 TraesCS6B01G126200 chr6A 91.451 772 41 7 758 1507 65134318 65133550 0.000000e+00 1037.0
21 TraesCS6B01G126200 chr6A 89.610 385 28 6 1129 1507 65140771 65140393 1.740000e-131 479.0
22 TraesCS6B01G126200 chr6A 91.250 320 25 2 1659 1976 65133045 65132727 1.380000e-117 433.0
23 TraesCS6B01G126200 chr6A 89.080 348 32 3 73 414 65134715 65134368 6.410000e-116 427.0
24 TraesCS6B01G126200 chr6A 89.375 320 27 4 1659 1976 65139885 65139571 1.810000e-106 396.0
25 TraesCS6B01G126200 chr6A 90.753 292 11 9 212 487 65074373 65074082 2.350000e-100 375.0
26 TraesCS6B01G126200 chr6A 89.286 84 9 0 1514 1597 65140004 65139921 3.410000e-19 106.0
27 TraesCS6B01G126200 chr6A 92.000 50 4 0 166 215 65078012 65077963 1.240000e-08 71.3
28 TraesCS6B01G126200 chr2B 97.834 277 5 1 484 760 211627316 211627591 6.270000e-131 477.0
29 TraesCS6B01G126200 chr2B 97.464 276 7 0 483 758 714072474 714072749 2.920000e-129 472.0
30 TraesCS6B01G126200 chr5A 97.473 277 7 0 484 760 470042708 470042984 8.120000e-130 473.0
31 TraesCS6B01G126200 chr5A 95.357 280 12 1 482 761 661246868 661246590 6.360000e-121 444.0
32 TraesCS6B01G126200 chr2A 97.112 277 8 0 486 762 97847140 97847416 3.780000e-128 468.0
33 TraesCS6B01G126200 chr1B 96.739 276 9 0 483 758 354582731 354583006 6.320000e-126 460.0
34 TraesCS6B01G126200 chr3A 96.403 278 9 1 484 761 57259185 57259461 8.170000e-125 457.0
35 TraesCS6B01G126200 chr7A 96.703 273 9 0 488 760 18892339 18892611 2.940000e-124 455.0
36 TraesCS6B01G126200 chr4A 95.238 273 13 0 486 758 11601902 11601630 1.380000e-117 433.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G126200 chr6B 121528231 121530737 2506 True 4630.000000 4630 100.000000 1 2507 1 chr6B.!!$R1 2506
1 TraesCS6B01G126200 chr6B 121731814 121733618 1804 True 258.333333 405 86.509667 788 1597 3 chr6B.!!$R3 809
2 TraesCS6B01G126200 chr6D 49843067 49857234 14167 False 692.777778 1637 91.258889 56 2507 9 chr6D.!!$F1 2451
3 TraesCS6B01G126200 chr6D 47810549 47811908 1359 True 276.666667 472 85.197667 280 1512 3 chr6D.!!$R1 1232
4 TraesCS6B01G126200 chr6A 65071949 65078012 6063 True 759.075000 1522 92.314000 166 2507 4 chr6A.!!$R1 2341
5 TraesCS6B01G126200 chr6A 65132727 65134715 1988 True 632.333333 1037 90.593667 73 1976 3 chr6A.!!$R2 1903
6 TraesCS6B01G126200 chr6A 65139571 65140771 1200 True 327.000000 479 89.423667 1129 1976 3 chr6A.!!$R3 847

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
942 16428 0.036732 TCCAAGACTCGCAAGCCAAT 59.963 50.0 0.0 0.0 37.18 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2311 19054 1.388547 TTGACCACAGAAACACCAGC 58.611 50.0 0.0 0.0 0.0 4.85 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
18 19 2.267045 AAGAAATTCACCGGCAGGC 58.733 52.632 0.00 0.00 42.76 4.85
19 20 1.250840 AAGAAATTCACCGGCAGGCC 61.251 55.000 0.00 0.00 42.76 5.19
20 21 1.976474 GAAATTCACCGGCAGGCCA 60.976 57.895 5.01 0.00 42.76 5.36
22 23 1.322538 AAATTCACCGGCAGGCCATC 61.323 55.000 5.01 0.00 42.76 3.51
24 25 2.898920 ATTCACCGGCAGGCCATCTG 62.899 60.000 5.01 0.00 46.03 2.90
27 28 4.864334 CCGGCAGGCCATCTGGAC 62.864 72.222 15.04 0.00 46.16 4.02
51 52 3.014085 GCGGAGGACGGGTTCATGA 62.014 63.158 0.00 0.00 44.51 3.07
54 55 1.810030 GAGGACGGGTTCATGACGC 60.810 63.158 0.00 0.00 37.81 5.19
56 57 2.388232 GGACGGGTTCATGACGCAC 61.388 63.158 0.00 0.00 41.00 5.34
57 58 1.666553 GACGGGTTCATGACGCACA 60.667 57.895 0.00 0.00 41.00 4.57
59 60 0.248012 ACGGGTTCATGACGCACATA 59.752 50.000 0.00 0.00 41.00 2.29
90 5109 6.937465 ACCTCCACTTTAGAGATCTCAAAAAC 59.063 38.462 24.39 0.00 32.86 2.43
109 5128 3.402058 ACGAGTCGAATAACTTCTCCG 57.598 47.619 21.50 0.00 0.00 4.63
153 5172 4.094887 ACATAGTTGGCGTGCAGATTAAAG 59.905 41.667 0.00 0.00 0.00 1.85
157 5176 1.804151 TGGCGTGCAGATTAAAGTGAC 59.196 47.619 0.00 0.00 0.00 3.67
161 5180 4.260375 GGCGTGCAGATTAAAGTGACATAG 60.260 45.833 0.00 0.00 0.00 2.23
164 5183 4.878397 GTGCAGATTAAAGTGACATAGCCT 59.122 41.667 0.00 0.00 0.00 4.58
177 5196 8.232913 AGTGACATAGCCTTTTCTTTTAACAA 57.767 30.769 0.00 0.00 0.00 2.83
206 5226 9.325198 GAATTTTTAACAATTGAAGAACCACCT 57.675 29.630 13.59 0.00 0.00 4.00
232 8845 2.499289 CTCAGGTCTGTGCCTATGTCTT 59.501 50.000 0.00 0.00 37.04 3.01
239 8852 1.350684 TGTGCCTATGTCTTTGCCTGA 59.649 47.619 0.00 0.00 0.00 3.86
336 8953 2.868583 CACCATCGATCATCACTTGTCC 59.131 50.000 0.00 0.00 0.00 4.02
338 8955 2.103771 CCATCGATCATCACTTGTCCCT 59.896 50.000 0.00 0.00 0.00 4.20
444 9079 2.208431 GCACAGCATTAGAGCTCGAAT 58.792 47.619 15.48 15.48 44.54 3.34
477 9579 5.503927 AGACTATGTTGTAGGTAAGACGGA 58.496 41.667 0.00 0.00 0.00 4.69
478 9580 5.589452 AGACTATGTTGTAGGTAAGACGGAG 59.411 44.000 0.00 0.00 0.00 4.63
483 9585 3.996921 TGTAGGTAAGACGGAGAGAGT 57.003 47.619 0.00 0.00 0.00 3.24
484 9586 4.298103 TGTAGGTAAGACGGAGAGAGTT 57.702 45.455 0.00 0.00 0.00 3.01
485 9587 5.426689 TGTAGGTAAGACGGAGAGAGTTA 57.573 43.478 0.00 0.00 0.00 2.24
486 9588 5.426504 TGTAGGTAAGACGGAGAGAGTTAG 58.573 45.833 0.00 0.00 0.00 2.34
487 9589 3.888583 AGGTAAGACGGAGAGAGTTAGG 58.111 50.000 0.00 0.00 0.00 2.69
488 9590 2.950975 GGTAAGACGGAGAGAGTTAGGG 59.049 54.545 0.00 0.00 0.00 3.53
489 9591 1.476477 AAGACGGAGAGAGTTAGGGC 58.524 55.000 0.00 0.00 0.00 5.19
490 9592 0.331954 AGACGGAGAGAGTTAGGGCA 59.668 55.000 0.00 0.00 0.00 5.36
491 9593 1.063567 AGACGGAGAGAGTTAGGGCAT 60.064 52.381 0.00 0.00 0.00 4.40
492 9594 1.067821 GACGGAGAGAGTTAGGGCATG 59.932 57.143 0.00 0.00 0.00 4.06
493 9595 1.115467 CGGAGAGAGTTAGGGCATGT 58.885 55.000 0.00 0.00 0.00 3.21
494 9596 2.307768 CGGAGAGAGTTAGGGCATGTA 58.692 52.381 0.00 0.00 0.00 2.29
495 9597 2.034812 CGGAGAGAGTTAGGGCATGTAC 59.965 54.545 0.00 0.00 0.00 2.90
496 9598 3.031736 GGAGAGAGTTAGGGCATGTACA 58.968 50.000 0.00 0.00 0.00 2.90
497 9599 3.451178 GGAGAGAGTTAGGGCATGTACAA 59.549 47.826 0.00 0.00 0.00 2.41
498 9600 4.101741 GGAGAGAGTTAGGGCATGTACAAT 59.898 45.833 0.00 0.00 0.00 2.71
499 9601 5.028549 AGAGAGTTAGGGCATGTACAATG 57.971 43.478 0.00 0.12 0.00 2.82
500 9602 4.716784 AGAGAGTTAGGGCATGTACAATGA 59.283 41.667 0.00 0.00 0.00 2.57
501 9603 5.367937 AGAGAGTTAGGGCATGTACAATGAT 59.632 40.000 0.00 0.00 0.00 2.45
502 9604 5.371526 AGAGTTAGGGCATGTACAATGATG 58.628 41.667 0.00 0.00 0.00 3.07
503 9605 3.885297 AGTTAGGGCATGTACAATGATGC 59.115 43.478 10.12 10.12 43.60 3.91
504 9606 2.742428 AGGGCATGTACAATGATGCT 57.258 45.000 16.47 0.00 43.77 3.79
505 9607 3.862877 AGGGCATGTACAATGATGCTA 57.137 42.857 16.47 0.00 43.77 3.49
506 9608 4.377762 AGGGCATGTACAATGATGCTAT 57.622 40.909 16.47 5.35 43.77 2.97
507 9609 4.330250 AGGGCATGTACAATGATGCTATC 58.670 43.478 16.47 8.57 43.77 2.08
508 9610 4.042560 AGGGCATGTACAATGATGCTATCT 59.957 41.667 16.47 10.22 43.77 1.98
509 9611 4.763793 GGGCATGTACAATGATGCTATCTT 59.236 41.667 16.47 0.00 43.77 2.40
510 9612 5.939883 GGGCATGTACAATGATGCTATCTTA 59.060 40.000 16.47 0.00 43.77 2.10
511 9613 6.430925 GGGCATGTACAATGATGCTATCTTAA 59.569 38.462 16.47 0.00 43.77 1.85
512 9614 7.040478 GGGCATGTACAATGATGCTATCTTAAA 60.040 37.037 16.47 0.00 43.77 1.52
513 9615 8.352201 GGCATGTACAATGATGCTATCTTAAAA 58.648 33.333 16.47 0.00 43.77 1.52
514 9616 9.390795 GCATGTACAATGATGCTATCTTAAAAG 57.609 33.333 11.12 0.00 41.52 2.27
517 9619 8.397906 TGTACAATGATGCTATCTTAAAAGTGC 58.602 33.333 0.00 0.00 0.00 4.40
518 9620 6.799512 ACAATGATGCTATCTTAAAAGTGCC 58.200 36.000 0.00 0.00 0.00 5.01
519 9621 6.377996 ACAATGATGCTATCTTAAAAGTGCCA 59.622 34.615 0.00 0.00 0.00 4.92
520 9622 7.069085 ACAATGATGCTATCTTAAAAGTGCCAT 59.931 33.333 0.00 0.00 0.00 4.40
521 9623 6.381481 TGATGCTATCTTAAAAGTGCCATG 57.619 37.500 0.00 0.00 0.00 3.66
522 9624 5.887598 TGATGCTATCTTAAAAGTGCCATGT 59.112 36.000 0.00 0.00 0.00 3.21
523 9625 7.053498 TGATGCTATCTTAAAAGTGCCATGTA 58.947 34.615 0.00 0.00 0.00 2.29
524 9626 6.925610 TGCTATCTTAAAAGTGCCATGTAG 57.074 37.500 0.00 0.00 0.00 2.74
525 9627 5.822519 TGCTATCTTAAAAGTGCCATGTAGG 59.177 40.000 0.00 0.00 41.84 3.18
526 9628 6.055588 GCTATCTTAAAAGTGCCATGTAGGA 58.944 40.000 0.00 0.00 41.22 2.94
527 9629 6.712547 GCTATCTTAAAAGTGCCATGTAGGAT 59.287 38.462 0.00 0.00 41.22 3.24
528 9630 7.878127 GCTATCTTAAAAGTGCCATGTAGGATA 59.122 37.037 0.00 0.00 41.22 2.59
529 9631 9.778741 CTATCTTAAAAGTGCCATGTAGGATAA 57.221 33.333 0.00 0.00 41.22 1.75
531 9633 9.646522 ATCTTAAAAGTGCCATGTAGGATAAAT 57.353 29.630 0.00 0.00 41.22 1.40
532 9634 8.902806 TCTTAAAAGTGCCATGTAGGATAAATG 58.097 33.333 0.00 0.00 41.22 2.32
533 9635 8.815565 TTAAAAGTGCCATGTAGGATAAATGA 57.184 30.769 0.00 0.00 38.63 2.57
534 9636 7.902920 AAAAGTGCCATGTAGGATAAATGAT 57.097 32.000 0.00 0.00 38.63 2.45
535 9637 6.889301 AAGTGCCATGTAGGATAAATGATG 57.111 37.500 0.00 0.00 38.63 3.07
536 9638 6.191657 AGTGCCATGTAGGATAAATGATGA 57.808 37.500 0.00 0.00 38.63 2.92
537 9639 6.236409 AGTGCCATGTAGGATAAATGATGAG 58.764 40.000 0.00 0.00 38.63 2.90
538 9640 5.413833 GTGCCATGTAGGATAAATGATGAGG 59.586 44.000 0.00 0.00 38.63 3.86
539 9641 5.073554 TGCCATGTAGGATAAATGATGAGGT 59.926 40.000 0.00 0.00 38.63 3.85
540 9642 5.413833 GCCATGTAGGATAAATGATGAGGTG 59.586 44.000 0.00 0.00 38.63 4.00
541 9643 5.942236 CCATGTAGGATAAATGATGAGGTGG 59.058 44.000 0.00 0.00 38.63 4.61
542 9644 6.239973 CCATGTAGGATAAATGATGAGGTGGA 60.240 42.308 0.00 0.00 38.63 4.02
543 9645 6.425210 TGTAGGATAAATGATGAGGTGGAG 57.575 41.667 0.00 0.00 0.00 3.86
544 9646 4.989875 AGGATAAATGATGAGGTGGAGG 57.010 45.455 0.00 0.00 0.00 4.30
545 9647 4.570926 AGGATAAATGATGAGGTGGAGGA 58.429 43.478 0.00 0.00 0.00 3.71
546 9648 4.596643 AGGATAAATGATGAGGTGGAGGAG 59.403 45.833 0.00 0.00 0.00 3.69
547 9649 4.594920 GGATAAATGATGAGGTGGAGGAGA 59.405 45.833 0.00 0.00 0.00 3.71
548 9650 5.279910 GGATAAATGATGAGGTGGAGGAGAG 60.280 48.000 0.00 0.00 0.00 3.20
549 9651 3.411454 AATGATGAGGTGGAGGAGAGA 57.589 47.619 0.00 0.00 0.00 3.10
550 9652 2.450867 TGATGAGGTGGAGGAGAGAG 57.549 55.000 0.00 0.00 0.00 3.20
551 9653 1.925959 TGATGAGGTGGAGGAGAGAGA 59.074 52.381 0.00 0.00 0.00 3.10
552 9654 2.313041 TGATGAGGTGGAGGAGAGAGAA 59.687 50.000 0.00 0.00 0.00 2.87
553 9655 2.223803 TGAGGTGGAGGAGAGAGAAC 57.776 55.000 0.00 0.00 0.00 3.01
554 9656 1.713647 TGAGGTGGAGGAGAGAGAACT 59.286 52.381 0.00 0.00 0.00 3.01
555 9657 2.291282 TGAGGTGGAGGAGAGAGAACTC 60.291 54.545 0.00 0.00 42.90 3.01
556 9658 1.713647 AGGTGGAGGAGAGAGAACTCA 59.286 52.381 4.64 0.00 44.79 3.41
557 9659 2.314549 AGGTGGAGGAGAGAGAACTCAT 59.685 50.000 4.64 0.00 44.79 2.90
558 9660 3.529734 AGGTGGAGGAGAGAGAACTCATA 59.470 47.826 4.64 0.00 44.79 2.15
559 9661 4.017037 AGGTGGAGGAGAGAGAACTCATAA 60.017 45.833 4.64 0.00 44.79 1.90
560 9662 4.340950 GGTGGAGGAGAGAGAACTCATAAG 59.659 50.000 4.64 0.00 44.79 1.73
561 9663 5.197451 GTGGAGGAGAGAGAACTCATAAGA 58.803 45.833 4.64 0.00 44.79 2.10
562 9664 5.654650 GTGGAGGAGAGAGAACTCATAAGAA 59.345 44.000 4.64 0.00 44.79 2.52
563 9665 6.153680 GTGGAGGAGAGAGAACTCATAAGAAA 59.846 42.308 4.64 0.00 44.79 2.52
564 9666 6.726299 TGGAGGAGAGAGAACTCATAAGAAAA 59.274 38.462 4.64 0.00 44.79 2.29
565 9667 7.093552 TGGAGGAGAGAGAACTCATAAGAAAAG 60.094 40.741 4.64 0.00 44.79 2.27
566 9668 7.181569 AGGAGAGAGAACTCATAAGAAAAGG 57.818 40.000 4.64 0.00 44.79 3.11
567 9669 5.815222 GGAGAGAGAACTCATAAGAAAAGGC 59.185 44.000 4.64 0.00 44.79 4.35
568 9670 6.351796 GGAGAGAGAACTCATAAGAAAAGGCT 60.352 42.308 4.64 0.00 44.79 4.58
569 9671 7.014988 AGAGAGAACTCATAAGAAAAGGCTT 57.985 36.000 0.00 0.00 44.79 4.35
570 9672 6.878389 AGAGAGAACTCATAAGAAAAGGCTTG 59.122 38.462 0.00 0.00 44.79 4.01
571 9673 6.538263 AGAGAACTCATAAGAAAAGGCTTGT 58.462 36.000 0.00 0.00 0.00 3.16
572 9674 6.652900 AGAGAACTCATAAGAAAAGGCTTGTC 59.347 38.462 9.51 9.51 0.00 3.18
573 9675 6.538263 AGAACTCATAAGAAAAGGCTTGTCT 58.462 36.000 14.33 14.33 0.00 3.41
574 9676 7.001073 AGAACTCATAAGAAAAGGCTTGTCTT 58.999 34.615 30.04 30.04 35.77 3.01
575 9677 6.809630 ACTCATAAGAAAAGGCTTGTCTTC 57.190 37.500 30.86 17.17 33.70 2.87
576 9678 6.538263 ACTCATAAGAAAAGGCTTGTCTTCT 58.462 36.000 30.86 21.01 33.70 2.85
577 9679 6.652900 ACTCATAAGAAAAGGCTTGTCTTCTC 59.347 38.462 30.86 8.39 33.70 2.87
578 9680 6.773638 TCATAAGAAAAGGCTTGTCTTCTCT 58.226 36.000 30.86 16.87 33.70 3.10
579 9681 7.227156 TCATAAGAAAAGGCTTGTCTTCTCTT 58.773 34.615 30.86 18.21 37.66 2.85
580 9682 8.375506 TCATAAGAAAAGGCTTGTCTTCTCTTA 58.624 33.333 30.86 16.85 39.30 2.10
581 9683 9.171877 CATAAGAAAAGGCTTGTCTTCTCTTAT 57.828 33.333 30.86 18.17 42.82 1.73
582 9684 9.746457 ATAAGAAAAGGCTTGTCTTCTCTTATT 57.254 29.630 30.86 11.70 40.94 1.40
583 9685 8.470657 AAGAAAAGGCTTGTCTTCTCTTATTT 57.529 30.769 23.96 2.07 33.68 1.40
584 9686 9.574516 AAGAAAAGGCTTGTCTTCTCTTATTTA 57.425 29.630 23.96 0.00 33.68 1.40
585 9687 9.574516 AGAAAAGGCTTGTCTTCTCTTATTTAA 57.425 29.630 14.33 0.00 0.00 1.52
586 9688 9.833182 GAAAAGGCTTGTCTTCTCTTATTTAAG 57.167 33.333 10.26 0.00 34.65 1.85
587 9689 9.574516 AAAAGGCTTGTCTTCTCTTATTTAAGA 57.425 29.630 0.00 0.44 39.82 2.10
588 9690 9.746457 AAAGGCTTGTCTTCTCTTATTTAAGAT 57.254 29.630 0.00 0.00 41.12 2.40
614 9716 7.594351 AGACAAGAGATGATATCTTAGCACA 57.406 36.000 1.54 0.00 40.38 4.57
615 9717 8.016301 AGACAAGAGATGATATCTTAGCACAA 57.984 34.615 1.54 0.00 40.38 3.33
616 9718 8.649591 AGACAAGAGATGATATCTTAGCACAAT 58.350 33.333 1.54 0.00 40.38 2.71
617 9719 9.920133 GACAAGAGATGATATCTTAGCACAATA 57.080 33.333 1.54 0.00 40.38 1.90
621 9723 9.872721 AGAGATGATATCTTAGCACAATATGTG 57.127 33.333 3.98 6.13 44.69 3.21
622 9724 9.650539 GAGATGATATCTTAGCACAATATGTGT 57.349 33.333 11.70 2.49 44.18 3.72
623 9725 9.650539 AGATGATATCTTAGCACAATATGTGTC 57.349 33.333 11.70 4.94 42.83 3.67
632 9734 4.481930 CACAATATGTGTCACCACGTTT 57.518 40.909 0.00 0.00 44.92 3.60
633 9735 4.854399 CACAATATGTGTCACCACGTTTT 58.146 39.130 0.00 0.00 44.92 2.43
634 9736 5.277825 CACAATATGTGTCACCACGTTTTT 58.722 37.500 0.00 0.00 44.92 1.94
635 9737 6.431278 CACAATATGTGTCACCACGTTTTTA 58.569 36.000 0.00 0.00 44.92 1.52
636 9738 6.577055 CACAATATGTGTCACCACGTTTTTAG 59.423 38.462 0.00 0.00 44.92 1.85
637 9739 6.483974 ACAATATGTGTCACCACGTTTTTAGA 59.516 34.615 0.00 0.00 44.92 2.10
638 9740 7.012515 ACAATATGTGTCACCACGTTTTTAGAA 59.987 33.333 0.00 0.00 44.92 2.10
639 9741 5.821516 ATGTGTCACCACGTTTTTAGAAA 57.178 34.783 0.00 0.00 44.92 2.52
640 9742 5.821516 TGTGTCACCACGTTTTTAGAAAT 57.178 34.783 0.00 0.00 44.92 2.17
641 9743 6.922247 TGTGTCACCACGTTTTTAGAAATA 57.078 33.333 0.00 0.00 44.92 1.40
642 9744 7.317842 TGTGTCACCACGTTTTTAGAAATAA 57.682 32.000 0.00 0.00 44.92 1.40
643 9745 7.188157 TGTGTCACCACGTTTTTAGAAATAAC 58.812 34.615 0.00 0.00 44.92 1.89
644 9746 7.066043 TGTGTCACCACGTTTTTAGAAATAACT 59.934 33.333 0.00 0.00 44.92 2.24
645 9747 8.550376 GTGTCACCACGTTTTTAGAAATAACTA 58.450 33.333 0.00 0.00 0.00 2.24
646 9748 8.767085 TGTCACCACGTTTTTAGAAATAACTAG 58.233 33.333 0.00 0.00 0.00 2.57
647 9749 8.768019 GTCACCACGTTTTTAGAAATAACTAGT 58.232 33.333 0.00 0.00 0.00 2.57
648 9750 9.328845 TCACCACGTTTTTAGAAATAACTAGTT 57.671 29.630 13.68 13.68 0.00 2.24
688 9790 7.781324 AAAAATGACCCATTGTAGACATCTT 57.219 32.000 0.00 0.00 34.04 2.40
689 9791 7.781324 AAAATGACCCATTGTAGACATCTTT 57.219 32.000 0.00 0.00 34.04 2.52
690 9792 7.781324 AAATGACCCATTGTAGACATCTTTT 57.219 32.000 0.00 0.00 34.04 2.27
691 9793 7.781324 AATGACCCATTGTAGACATCTTTTT 57.219 32.000 0.00 0.00 32.39 1.94
716 9818 9.844790 TTTTGTCATCTCTTAATTACATGCAAG 57.155 29.630 0.00 0.00 0.00 4.01
717 9819 8.791327 TTGTCATCTCTTAATTACATGCAAGA 57.209 30.769 0.00 0.00 0.00 3.02
718 9820 8.201554 TGTCATCTCTTAATTACATGCAAGAC 57.798 34.615 0.00 0.00 0.00 3.01
719 9821 8.043113 TGTCATCTCTTAATTACATGCAAGACT 58.957 33.333 0.00 0.00 0.00 3.24
720 9822 8.887717 GTCATCTCTTAATTACATGCAAGACTT 58.112 33.333 0.00 0.00 0.00 3.01
754 9856 9.801873 AACTATTTTATCAACCATTGTACATGC 57.198 29.630 0.00 0.00 0.00 4.06
755 9857 8.413229 ACTATTTTATCAACCATTGTACATGCC 58.587 33.333 0.00 0.00 0.00 4.40
756 9858 5.590530 TTTATCAACCATTGTACATGCCC 57.409 39.130 0.00 0.00 0.00 5.36
782 9884 1.299562 ATGCGTCGTGTCTCGTCTCT 61.300 55.000 0.00 0.00 40.80 3.10
868 9971 2.045926 GATGTTGCGCCCTGACCT 60.046 61.111 4.18 0.00 0.00 3.85
942 16428 0.036732 TCCAAGACTCGCAAGCCAAT 59.963 50.000 0.00 0.00 37.18 3.16
1263 17410 2.436824 GCCTTCTTCAGGGACGCC 60.437 66.667 0.00 0.00 44.16 5.68
1520 18243 1.419387 GGCCTGATCTCTGCCTTATGT 59.581 52.381 11.85 0.00 42.01 2.29
1588 18312 6.166279 TGCGACTTCATCAAGAAAAGACTAT 58.834 36.000 0.00 0.00 35.40 2.12
1593 18317 8.417780 ACTTCATCAAGAAAAGACTATCATCG 57.582 34.615 0.00 0.00 35.40 3.84
1599 18324 4.602995 AGAAAAGACTATCATCGTCTCGC 58.397 43.478 0.00 0.00 40.65 5.03
1644 18369 4.892345 AGAAAAGAGCTTTTTCTTGCCTCT 59.108 37.500 21.10 10.48 43.84 3.69
1751 18480 5.360999 AGGAATAGACAGTTCGATCATCACA 59.639 40.000 0.00 0.00 0.00 3.58
1785 18514 7.233389 AGAGTTGCTTGAGTTTGAGTAGATA 57.767 36.000 0.00 0.00 0.00 1.98
1802 18545 3.241156 AGATAGAGCTCACATGGATGCT 58.759 45.455 17.77 8.04 38.59 3.79
1803 18546 3.647113 AGATAGAGCTCACATGGATGCTT 59.353 43.478 17.77 0.00 35.76 3.91
1804 18547 2.039818 AGAGCTCACATGGATGCTTG 57.960 50.000 17.77 0.00 35.76 4.01
1805 18548 1.558294 AGAGCTCACATGGATGCTTGA 59.442 47.619 17.77 0.00 35.76 3.02
1806 18549 2.172930 AGAGCTCACATGGATGCTTGAT 59.827 45.455 17.77 0.00 35.76 2.57
1807 18550 2.290916 GAGCTCACATGGATGCTTGATG 59.709 50.000 9.40 2.51 35.76 3.07
1808 18551 2.092592 AGCTCACATGGATGCTTGATGA 60.093 45.455 7.12 6.25 30.96 2.92
1809 18552 2.885266 GCTCACATGGATGCTTGATGAT 59.115 45.455 7.12 0.00 0.00 2.45
1810 18553 3.304726 GCTCACATGGATGCTTGATGATG 60.305 47.826 7.12 0.00 0.00 3.07
1811 18554 3.883489 CTCACATGGATGCTTGATGATGT 59.117 43.478 7.12 0.00 0.00 3.06
1814 18557 2.812836 TGGATGCTTGATGATGTGGT 57.187 45.000 0.00 0.00 0.00 4.16
1863 18606 6.976934 TGTAGAAGCATCCTACATCATACA 57.023 37.500 8.25 0.00 40.87 2.29
1872 18615 3.949113 TCCTACATCATACACGCACTACA 59.051 43.478 0.00 0.00 0.00 2.74
1922 18665 8.289618 TCAAATTTTCACTAGAATCTTCAACCG 58.710 33.333 0.00 0.00 32.89 4.44
2017 18760 9.067986 AGTCGATTCATCATCATACACTAACTA 57.932 33.333 0.00 0.00 0.00 2.24
2094 18837 1.295423 GTAGTGGTCCACATGCGGT 59.705 57.895 24.02 4.62 36.74 5.68
2148 18891 2.171237 CCCCAGTGATCTCTGCATGTTA 59.829 50.000 17.52 0.00 34.47 2.41
2287 19030 1.918262 ACATGATCAGAAGGGGCAGAA 59.082 47.619 0.00 0.00 0.00 3.02
2311 19054 9.591404 GAAAAATATCAGAATATGAAGACGCAG 57.409 33.333 0.00 0.00 42.53 5.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.250840 GGCCTGCCGGTGAATTTCTT 61.251 55.000 1.90 0.00 0.00 2.52
1 2 1.678970 GGCCTGCCGGTGAATTTCT 60.679 57.895 1.90 0.00 0.00 2.52
2 3 1.322538 ATGGCCTGCCGGTGAATTTC 61.323 55.000 3.32 0.00 39.42 2.17
3 4 1.305213 ATGGCCTGCCGGTGAATTT 60.305 52.632 3.32 0.00 39.42 1.82
5 6 2.124151 GATGGCCTGCCGGTGAAT 60.124 61.111 3.32 0.00 39.42 2.57
6 7 3.329889 AGATGGCCTGCCGGTGAA 61.330 61.111 3.32 0.00 39.42 3.18
7 8 4.100084 CAGATGGCCTGCCGGTGA 62.100 66.667 3.32 0.00 39.42 4.02
10 11 4.864334 GTCCAGATGGCCTGCCGG 62.864 72.222 3.32 0.00 41.57 6.13
11 12 4.864334 GGTCCAGATGGCCTGCCG 62.864 72.222 3.32 0.00 41.57 5.69
32 33 4.143333 ATGAACCCGTCCTCCGCG 62.143 66.667 0.00 0.00 34.38 6.46
35 36 1.153628 CGTCATGAACCCGTCCTCC 60.154 63.158 0.00 0.00 0.00 4.30
36 37 1.810030 GCGTCATGAACCCGTCCTC 60.810 63.158 0.00 0.00 0.00 3.71
37 38 2.264794 GCGTCATGAACCCGTCCT 59.735 61.111 0.00 0.00 0.00 3.85
38 39 2.047655 TGCGTCATGAACCCGTCC 60.048 61.111 0.00 0.00 0.00 4.79
40 41 0.248012 TATGTGCGTCATGAACCCGT 59.752 50.000 0.00 0.00 37.91 5.28
42 43 1.299541 CCTATGTGCGTCATGAACCC 58.700 55.000 0.00 0.00 37.91 4.11
43 44 1.134521 TCCCTATGTGCGTCATGAACC 60.135 52.381 0.00 0.00 37.91 3.62
45 46 3.006940 GTTTCCCTATGTGCGTCATGAA 58.993 45.455 0.00 0.00 37.91 2.57
46 47 2.627945 GTTTCCCTATGTGCGTCATGA 58.372 47.619 0.00 0.00 37.91 3.07
47 48 1.670811 GGTTTCCCTATGTGCGTCATG 59.329 52.381 4.75 0.00 37.91 3.07
48 49 1.559682 AGGTTTCCCTATGTGCGTCAT 59.440 47.619 0.25 0.25 40.19 3.06
49 50 0.981183 AGGTTTCCCTATGTGCGTCA 59.019 50.000 0.00 0.00 40.19 4.35
51 52 0.252197 GGAGGTTTCCCTATGTGCGT 59.748 55.000 0.00 0.00 42.86 5.24
54 55 3.721087 AAGTGGAGGTTTCCCTATGTG 57.279 47.619 0.00 0.00 42.86 3.21
56 57 5.425539 TCTCTAAAGTGGAGGTTTCCCTATG 59.574 44.000 0.00 0.00 42.86 2.23
57 58 5.600749 TCTCTAAAGTGGAGGTTTCCCTAT 58.399 41.667 0.00 0.00 42.86 2.57
59 60 3.870559 TCTCTAAAGTGGAGGTTTCCCT 58.129 45.455 0.00 0.00 46.66 4.20
90 5109 3.402058 ACGGAGAAGTTATTCGACTCG 57.598 47.619 4.94 0.00 40.58 4.18
109 5128 6.131544 TGTTGGCTTTGAAGAGACTAAAAC 57.868 37.500 0.00 0.00 0.00 2.43
141 5160 4.878397 AGGCTATGTCACTTTAATCTGCAC 59.122 41.667 0.00 0.00 0.00 4.57
153 5172 9.476202 AATTGTTAAAAGAAAAGGCTATGTCAC 57.524 29.630 0.00 0.00 0.00 3.67
206 5226 1.990060 GGCACAGACCTGAGGGCTA 60.990 63.158 6.50 0.00 35.63 3.93
207 5227 2.461986 TAGGCACAGACCTGAGGGCT 62.462 60.000 0.00 0.00 41.34 5.19
232 8845 2.357637 CGAGAAACAAGGTTTCAGGCAA 59.642 45.455 20.22 0.00 0.00 4.52
239 8852 4.007659 ACTGTCAACGAGAAACAAGGTTT 58.992 39.130 0.00 0.00 0.00 3.27
336 8953 0.764271 ATTGTTTTGGGGGTGCAAGG 59.236 50.000 0.00 0.00 0.00 3.61
338 8955 0.761802 GGATTGTTTTGGGGGTGCAA 59.238 50.000 0.00 0.00 0.00 4.08
477 9579 4.716784 TCATTGTACATGCCCTAACTCTCT 59.283 41.667 0.00 0.00 0.00 3.10
478 9580 5.023533 TCATTGTACATGCCCTAACTCTC 57.976 43.478 0.00 0.00 0.00 3.20
483 9585 4.169059 AGCATCATTGTACATGCCCTAA 57.831 40.909 14.08 0.00 45.63 2.69
484 9586 3.862877 AGCATCATTGTACATGCCCTA 57.137 42.857 14.08 0.00 45.63 3.53
485 9587 2.742428 AGCATCATTGTACATGCCCT 57.258 45.000 14.08 0.00 45.63 5.19
486 9588 4.330250 AGATAGCATCATTGTACATGCCC 58.670 43.478 14.08 5.86 45.63 5.36
487 9589 5.954296 AAGATAGCATCATTGTACATGCC 57.046 39.130 14.08 1.71 45.63 4.40
488 9590 9.390795 CTTTTAAGATAGCATCATTGTACATGC 57.609 33.333 10.53 10.53 44.96 4.06
491 9593 8.397906 GCACTTTTAAGATAGCATCATTGTACA 58.602 33.333 0.00 0.00 0.00 2.90
492 9594 7.857885 GGCACTTTTAAGATAGCATCATTGTAC 59.142 37.037 0.00 0.00 0.00 2.90
493 9595 7.555914 TGGCACTTTTAAGATAGCATCATTGTA 59.444 33.333 0.00 0.00 0.00 2.41
494 9596 6.377996 TGGCACTTTTAAGATAGCATCATTGT 59.622 34.615 0.00 0.00 0.00 2.71
495 9597 6.798482 TGGCACTTTTAAGATAGCATCATTG 58.202 36.000 0.00 0.00 0.00 2.82
496 9598 7.069085 ACATGGCACTTTTAAGATAGCATCATT 59.931 33.333 0.00 0.00 0.00 2.57
497 9599 6.548622 ACATGGCACTTTTAAGATAGCATCAT 59.451 34.615 0.00 0.00 0.00 2.45
498 9600 5.887598 ACATGGCACTTTTAAGATAGCATCA 59.112 36.000 0.00 0.00 0.00 3.07
499 9601 6.382869 ACATGGCACTTTTAAGATAGCATC 57.617 37.500 0.00 0.00 0.00 3.91
500 9602 6.488006 CCTACATGGCACTTTTAAGATAGCAT 59.512 38.462 0.00 0.00 0.00 3.79
501 9603 5.822519 CCTACATGGCACTTTTAAGATAGCA 59.177 40.000 0.00 0.00 0.00 3.49
502 9604 6.055588 TCCTACATGGCACTTTTAAGATAGC 58.944 40.000 0.00 0.00 35.26 2.97
503 9605 9.778741 TTATCCTACATGGCACTTTTAAGATAG 57.221 33.333 0.00 0.00 35.26 2.08
505 9607 9.646522 ATTTATCCTACATGGCACTTTTAAGAT 57.353 29.630 0.00 0.00 35.26 2.40
506 9608 8.902806 CATTTATCCTACATGGCACTTTTAAGA 58.097 33.333 0.00 0.00 35.26 2.10
507 9609 8.902806 TCATTTATCCTACATGGCACTTTTAAG 58.097 33.333 0.00 0.00 35.26 1.85
508 9610 8.815565 TCATTTATCCTACATGGCACTTTTAA 57.184 30.769 0.00 0.00 35.26 1.52
509 9611 8.849168 CATCATTTATCCTACATGGCACTTTTA 58.151 33.333 0.00 0.00 35.26 1.52
510 9612 7.560991 TCATCATTTATCCTACATGGCACTTTT 59.439 33.333 0.00 0.00 35.26 2.27
511 9613 7.062322 TCATCATTTATCCTACATGGCACTTT 58.938 34.615 0.00 0.00 35.26 2.66
512 9614 6.604171 TCATCATTTATCCTACATGGCACTT 58.396 36.000 0.00 0.00 35.26 3.16
513 9615 6.191657 TCATCATTTATCCTACATGGCACT 57.808 37.500 0.00 0.00 35.26 4.40
514 9616 5.413833 CCTCATCATTTATCCTACATGGCAC 59.586 44.000 0.00 0.00 35.26 5.01
515 9617 5.073554 ACCTCATCATTTATCCTACATGGCA 59.926 40.000 0.00 0.00 35.26 4.92
516 9618 5.413833 CACCTCATCATTTATCCTACATGGC 59.586 44.000 0.00 0.00 35.26 4.40
517 9619 5.942236 CCACCTCATCATTTATCCTACATGG 59.058 44.000 0.00 0.00 37.10 3.66
518 9620 6.772605 TCCACCTCATCATTTATCCTACATG 58.227 40.000 0.00 0.00 0.00 3.21
519 9621 6.013032 CCTCCACCTCATCATTTATCCTACAT 60.013 42.308 0.00 0.00 0.00 2.29
520 9622 5.307976 CCTCCACCTCATCATTTATCCTACA 59.692 44.000 0.00 0.00 0.00 2.74
521 9623 5.544176 TCCTCCACCTCATCATTTATCCTAC 59.456 44.000 0.00 0.00 0.00 3.18
522 9624 5.726560 TCCTCCACCTCATCATTTATCCTA 58.273 41.667 0.00 0.00 0.00 2.94
523 9625 4.570926 TCCTCCACCTCATCATTTATCCT 58.429 43.478 0.00 0.00 0.00 3.24
524 9626 4.594920 TCTCCTCCACCTCATCATTTATCC 59.405 45.833 0.00 0.00 0.00 2.59
525 9627 5.541868 TCTCTCCTCCACCTCATCATTTATC 59.458 44.000 0.00 0.00 0.00 1.75
526 9628 5.471424 TCTCTCCTCCACCTCATCATTTAT 58.529 41.667 0.00 0.00 0.00 1.40
527 9629 4.883759 TCTCTCCTCCACCTCATCATTTA 58.116 43.478 0.00 0.00 0.00 1.40
528 9630 3.710677 CTCTCTCCTCCACCTCATCATTT 59.289 47.826 0.00 0.00 0.00 2.32
529 9631 3.052262 TCTCTCTCCTCCACCTCATCATT 60.052 47.826 0.00 0.00 0.00 2.57
530 9632 2.517553 TCTCTCTCCTCCACCTCATCAT 59.482 50.000 0.00 0.00 0.00 2.45
531 9633 1.925959 TCTCTCTCCTCCACCTCATCA 59.074 52.381 0.00 0.00 0.00 3.07
532 9634 2.693074 GTTCTCTCTCCTCCACCTCATC 59.307 54.545 0.00 0.00 0.00 2.92
533 9635 2.314549 AGTTCTCTCTCCTCCACCTCAT 59.685 50.000 0.00 0.00 0.00 2.90
534 9636 1.713647 AGTTCTCTCTCCTCCACCTCA 59.286 52.381 0.00 0.00 0.00 3.86
535 9637 2.291282 TGAGTTCTCTCTCCTCCACCTC 60.291 54.545 1.53 0.00 40.98 3.85
536 9638 1.713647 TGAGTTCTCTCTCCTCCACCT 59.286 52.381 1.53 0.00 40.98 4.00
537 9639 2.223803 TGAGTTCTCTCTCCTCCACC 57.776 55.000 1.53 0.00 40.98 4.61
538 9640 5.197451 TCTTATGAGTTCTCTCTCCTCCAC 58.803 45.833 1.53 0.00 40.98 4.02
539 9641 5.458451 TCTTATGAGTTCTCTCTCCTCCA 57.542 43.478 1.53 0.00 40.98 3.86
540 9642 6.783708 TTTCTTATGAGTTCTCTCTCCTCC 57.216 41.667 1.53 0.00 40.98 4.30
541 9643 7.264947 CCTTTTCTTATGAGTTCTCTCTCCTC 58.735 42.308 1.53 0.00 40.98 3.71
542 9644 6.351796 GCCTTTTCTTATGAGTTCTCTCTCCT 60.352 42.308 1.53 0.00 40.98 3.69
543 9645 5.815222 GCCTTTTCTTATGAGTTCTCTCTCC 59.185 44.000 1.53 0.00 40.98 3.71
544 9646 6.639563 AGCCTTTTCTTATGAGTTCTCTCTC 58.360 40.000 1.53 0.00 40.98 3.20
545 9647 6.619329 AGCCTTTTCTTATGAGTTCTCTCT 57.381 37.500 1.53 0.00 40.98 3.10
546 9648 6.652900 ACAAGCCTTTTCTTATGAGTTCTCTC 59.347 38.462 1.53 0.00 40.79 3.20
547 9649 6.538263 ACAAGCCTTTTCTTATGAGTTCTCT 58.462 36.000 1.53 0.00 0.00 3.10
548 9650 6.652900 AGACAAGCCTTTTCTTATGAGTTCTC 59.347 38.462 0.00 0.00 0.00 2.87
549 9651 6.538263 AGACAAGCCTTTTCTTATGAGTTCT 58.462 36.000 0.00 0.00 0.00 3.01
550 9652 6.809630 AGACAAGCCTTTTCTTATGAGTTC 57.190 37.500 0.00 0.00 0.00 3.01
551 9653 7.001073 AGAAGACAAGCCTTTTCTTATGAGTT 58.999 34.615 5.86 0.00 29.54 3.01
552 9654 6.538263 AGAAGACAAGCCTTTTCTTATGAGT 58.462 36.000 5.86 0.00 29.54 3.41
553 9655 6.878389 AGAGAAGACAAGCCTTTTCTTATGAG 59.122 38.462 5.29 0.00 35.01 2.90
554 9656 6.773638 AGAGAAGACAAGCCTTTTCTTATGA 58.226 36.000 5.29 0.00 35.01 2.15
555 9657 7.446001 AAGAGAAGACAAGCCTTTTCTTATG 57.554 36.000 5.29 0.00 42.29 1.90
557 9659 9.574516 AAATAAGAGAAGACAAGCCTTTTCTTA 57.425 29.630 5.86 14.67 45.53 2.10
558 9660 8.470657 AAATAAGAGAAGACAAGCCTTTTCTT 57.529 30.769 5.57 5.57 44.56 2.52
559 9661 9.574516 TTAAATAAGAGAAGACAAGCCTTTTCT 57.425 29.630 0.00 0.00 38.69 2.52
560 9662 9.833182 CTTAAATAAGAGAAGACAAGCCTTTTC 57.167 33.333 0.00 0.00 35.33 2.29
561 9663 9.574516 TCTTAAATAAGAGAAGACAAGCCTTTT 57.425 29.630 0.00 0.00 37.40 2.27
562 9664 9.746457 ATCTTAAATAAGAGAAGACAAGCCTTT 57.254 29.630 8.68 0.00 44.67 3.11
588 9690 9.136323 TGTGCTAAGATATCATCTCTTGTCTTA 57.864 33.333 5.32 0.00 39.08 2.10
589 9691 8.016301 TGTGCTAAGATATCATCTCTTGTCTT 57.984 34.615 5.32 0.00 39.08 3.01
590 9692 7.594351 TGTGCTAAGATATCATCTCTTGTCT 57.406 36.000 5.32 0.00 39.08 3.41
591 9693 8.830201 ATTGTGCTAAGATATCATCTCTTGTC 57.170 34.615 5.32 0.00 39.08 3.18
595 9697 9.872721 CACATATTGTGCTAAGATATCATCTCT 57.127 33.333 5.32 0.00 41.89 3.10
620 9722 7.556733 AGTTATTTCTAAAAACGTGGTGACA 57.443 32.000 0.00 0.00 38.70 3.58
621 9723 8.768019 ACTAGTTATTTCTAAAAACGTGGTGAC 58.232 33.333 0.00 0.00 0.00 3.67
622 9724 8.891671 ACTAGTTATTTCTAAAAACGTGGTGA 57.108 30.769 0.00 0.00 0.00 4.02
664 9766 7.781324 AAGATGTCTACAATGGGTCATTTTT 57.219 32.000 0.00 0.00 31.05 1.94
665 9767 7.781324 AAAGATGTCTACAATGGGTCATTTT 57.219 32.000 0.00 0.00 31.05 1.82
666 9768 7.781324 AAAAGATGTCTACAATGGGTCATTT 57.219 32.000 0.00 0.00 31.05 2.32
667 9769 7.781324 AAAAAGATGTCTACAATGGGTCATT 57.219 32.000 0.00 0.00 34.04 2.57
690 9792 9.844790 CTTGCATGTAATTAAGAGATGACAAAA 57.155 29.630 0.00 0.00 0.00 2.44
691 9793 9.230122 TCTTGCATGTAATTAAGAGATGACAAA 57.770 29.630 0.00 0.00 0.00 2.83
692 9794 8.668353 GTCTTGCATGTAATTAAGAGATGACAA 58.332 33.333 0.00 5.06 30.38 3.18
693 9795 8.043113 AGTCTTGCATGTAATTAAGAGATGACA 58.957 33.333 0.00 0.00 30.38 3.58
694 9796 8.430801 AGTCTTGCATGTAATTAAGAGATGAC 57.569 34.615 0.00 0.00 30.38 3.06
728 9830 9.801873 GCATGTACAATGGTTGATAAAATAGTT 57.198 29.630 0.00 0.00 0.00 2.24
729 9831 8.413229 GGCATGTACAATGGTTGATAAAATAGT 58.587 33.333 0.00 0.00 0.00 2.12
730 9832 7.867403 GGGCATGTACAATGGTTGATAAAATAG 59.133 37.037 0.00 0.00 0.00 1.73
731 9833 7.563188 AGGGCATGTACAATGGTTGATAAAATA 59.437 33.333 0.00 0.00 0.00 1.40
732 9834 6.383726 AGGGCATGTACAATGGTTGATAAAAT 59.616 34.615 0.00 0.00 0.00 1.82
733 9835 5.719085 AGGGCATGTACAATGGTTGATAAAA 59.281 36.000 0.00 0.00 0.00 1.52
734 9836 5.268387 AGGGCATGTACAATGGTTGATAAA 58.732 37.500 0.00 0.00 0.00 1.40
735 9837 4.865905 AGGGCATGTACAATGGTTGATAA 58.134 39.130 0.00 0.00 0.00 1.75
736 9838 4.518278 AGGGCATGTACAATGGTTGATA 57.482 40.909 0.00 0.00 0.00 2.15
737 9839 3.386932 AGGGCATGTACAATGGTTGAT 57.613 42.857 0.00 0.00 0.00 2.57
738 9840 2.897271 AGGGCATGTACAATGGTTGA 57.103 45.000 0.00 0.00 0.00 3.18
739 9841 4.269183 TCTAAGGGCATGTACAATGGTTG 58.731 43.478 0.00 0.00 0.00 3.77
740 9842 4.584638 TCTAAGGGCATGTACAATGGTT 57.415 40.909 0.00 0.00 0.00 3.67
741 9843 4.584638 TTCTAAGGGCATGTACAATGGT 57.415 40.909 0.00 0.00 0.00 3.55
742 9844 5.737063 GCATTTCTAAGGGCATGTACAATGG 60.737 44.000 0.00 0.00 0.00 3.16
743 9845 5.284079 GCATTTCTAAGGGCATGTACAATG 58.716 41.667 0.00 0.12 0.00 2.82
744 9846 4.036734 CGCATTTCTAAGGGCATGTACAAT 59.963 41.667 0.00 0.00 0.00 2.71
745 9847 3.376859 CGCATTTCTAAGGGCATGTACAA 59.623 43.478 0.00 0.00 0.00 2.41
746 9848 2.942376 CGCATTTCTAAGGGCATGTACA 59.058 45.455 0.00 0.00 0.00 2.90
747 9849 2.943033 ACGCATTTCTAAGGGCATGTAC 59.057 45.455 0.00 0.00 0.00 2.90
748 9850 3.202906 GACGCATTTCTAAGGGCATGTA 58.797 45.455 0.00 0.00 0.00 2.29
749 9851 2.017049 GACGCATTTCTAAGGGCATGT 58.983 47.619 0.00 0.00 0.00 3.21
750 9852 1.003545 CGACGCATTTCTAAGGGCATG 60.004 52.381 0.00 0.00 0.00 4.06
751 9853 1.299541 CGACGCATTTCTAAGGGCAT 58.700 50.000 0.00 0.00 0.00 4.40
752 9854 0.036765 ACGACGCATTTCTAAGGGCA 60.037 50.000 0.00 0.00 0.00 5.36
753 9855 0.373716 CACGACGCATTTCTAAGGGC 59.626 55.000 0.00 0.00 0.00 5.19
754 9856 1.659098 GACACGACGCATTTCTAAGGG 59.341 52.381 0.00 0.00 0.00 3.95
755 9857 2.599082 GAGACACGACGCATTTCTAAGG 59.401 50.000 0.00 0.00 0.00 2.69
756 9858 2.276540 CGAGACACGACGCATTTCTAAG 59.723 50.000 0.00 0.00 45.77 2.18
799 9901 2.551270 GTCTTGCGAGCAACACGG 59.449 61.111 6.39 0.00 0.00 4.94
868 9971 7.792364 TTTATAGTCAAGGTCTCAAGGAGAA 57.208 36.000 0.00 0.00 40.59 2.87
942 16428 5.728621 GCACGTACGTGTATGATTAGTGAGA 60.729 44.000 39.56 0.00 46.90 3.27
1081 16666 0.798771 GACGCGATGCTCTTCTTCGT 60.799 55.000 15.93 0.00 42.32 3.85
1520 18243 9.176460 TGAAAGACATAGATAATTGCATTGTCA 57.824 29.630 0.00 0.00 35.60 3.58
1588 18312 7.141100 TGATTATGTAATAGCGAGACGATGA 57.859 36.000 0.00 0.00 0.00 2.92
1593 18317 6.368791 TGCCAATGATTATGTAATAGCGAGAC 59.631 38.462 0.00 0.00 0.00 3.36
1627 18352 2.890442 CGAGAGGCAAGAAAAAGCTC 57.110 50.000 0.00 0.00 0.00 4.09
1644 18369 7.390996 CCTAGTTAAGCATCTTATCTACTCCGA 59.609 40.741 0.00 0.00 0.00 4.55
1751 18480 6.115448 ACTCAAGCAACTCTTTGTAGGTAT 57.885 37.500 0.00 0.00 34.90 2.73
1785 18514 1.558294 TCAAGCATCCATGTGAGCTCT 59.442 47.619 16.19 0.00 36.07 4.09
1802 18545 5.372363 AGGGGTAATATCACCACATCATCAA 59.628 40.000 0.00 0.00 45.15 2.57
1803 18546 4.913355 AGGGGTAATATCACCACATCATCA 59.087 41.667 0.00 0.00 45.15 3.07
1804 18547 5.249393 AGAGGGGTAATATCACCACATCATC 59.751 44.000 0.00 0.00 45.15 2.92
1805 18548 5.165652 AGAGGGGTAATATCACCACATCAT 58.834 41.667 0.00 0.00 45.15 2.45
1806 18549 4.566837 AGAGGGGTAATATCACCACATCA 58.433 43.478 0.00 0.00 45.15 3.07
1807 18550 5.071788 TGAAGAGGGGTAATATCACCACATC 59.928 44.000 0.00 0.00 45.15 3.06
1808 18551 4.975147 TGAAGAGGGGTAATATCACCACAT 59.025 41.667 0.00 0.00 45.15 3.21
1809 18552 4.367166 TGAAGAGGGGTAATATCACCACA 58.633 43.478 0.00 0.00 45.15 4.17
1810 18553 5.367945 TTGAAGAGGGGTAATATCACCAC 57.632 43.478 0.00 0.00 42.84 4.16
1811 18554 5.251932 TGTTTGAAGAGGGGTAATATCACCA 59.748 40.000 0.00 0.00 40.65 4.17
1814 18557 5.339695 GGGTGTTTGAAGAGGGGTAATATCA 60.340 44.000 0.00 0.00 0.00 2.15
1857 18600 2.356695 AGCGTATGTAGTGCGTGTATGA 59.643 45.455 0.00 0.00 38.27 2.15
1859 18602 4.556942 TTAGCGTATGTAGTGCGTGTAT 57.443 40.909 0.00 0.00 38.27 2.29
1922 18665 3.544615 GTCTTTTGACCAACACGGC 57.455 52.632 0.00 0.00 43.37 5.68
1991 18734 7.946207 AGTTAGTGTATGATGATGAATCGACT 58.054 34.615 0.00 0.00 38.22 4.18
2017 18760 1.700186 GTTCCTGAAGGTCTGTTCCCT 59.300 52.381 0.00 0.00 36.34 4.20
2094 18837 2.942376 AGCACACAATTTTGTCTCGTCA 59.058 40.909 0.00 0.00 39.91 4.35
2148 18891 3.119291 CGAATGCGTAGAGAGCTTCATT 58.881 45.455 0.00 0.00 35.28 2.57
2287 19030 7.443575 AGCTGCGTCTTCATATTCTGATATTTT 59.556 33.333 0.00 0.00 32.72 1.82
2311 19054 1.388547 TTGACCACAGAAACACCAGC 58.611 50.000 0.00 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.