Multiple sequence alignment - TraesCS3B01G344500
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 | TraesCS3B01G344500 | chr3B | 100.000 | 4643 | 0 | 0 | 1 | 4643 | 554098241 | 554093599 | 0.000000e+00 | 8575.0 |
1 | TraesCS3B01G344500 | chr3B | 100.000 | 108 | 0 | 0 | 491 | 598 | 732824767 | 732824874 | 2.830000e-47 | 200.0 |
2 | TraesCS3B01G344500 | chr3B | 94.355 | 124 | 6 | 1 | 491 | 613 | 623661393 | 623661270 | 6.130000e-44 | 189.0 |
3 | TraesCS3B01G344500 | chr3D | 95.474 | 4065 | 146 | 22 | 595 | 4643 | 424347792 | 424343750 | 0.000000e+00 | 6453.0 |
4 | TraesCS3B01G344500 | chr3D | 91.667 | 204 | 5 | 6 | 296 | 493 | 424347989 | 424347792 | 5.920000e-69 | 272.0 |
5 | TraesCS3B01G344500 | chr3A | 94.806 | 3947 | 156 | 19 | 725 | 4643 | 564446255 | 564450180 | 0.000000e+00 | 6107.0 |
6 | TraesCS3B01G344500 | chr3A | 92.135 | 356 | 18 | 6 | 144 | 493 | 564443538 | 564443889 | 1.160000e-135 | 494.0 |
7 | TraesCS3B01G344500 | chr3A | 90.000 | 210 | 16 | 4 | 749 | 957 | 564444284 | 564444489 | 2.750000e-67 | 267.0 |
8 | TraesCS3B01G344500 | chr3A | 93.197 | 147 | 8 | 1 | 1 | 147 | 564443353 | 564443497 | 1.010000e-51 | 215.0 |
9 | TraesCS3B01G344500 | chr3A | 84.768 | 151 | 5 | 4 | 597 | 747 | 564443888 | 564444020 | 8.100000e-28 | 135.0 |
10 | TraesCS3B01G344500 | chr5B | 100.000 | 110 | 0 | 0 | 491 | 600 | 145479146 | 145479255 | 2.190000e-48 | 204.0 |
11 | TraesCS3B01G344500 | chr5B | 98.276 | 116 | 2 | 0 | 491 | 606 | 583512143 | 583512258 | 2.190000e-48 | 204.0 |
12 | TraesCS3B01G344500 | chr5B | 97.414 | 116 | 2 | 1 | 492 | 606 | 512985321 | 512985206 | 3.660000e-46 | 196.0 |
13 | TraesCS3B01G344500 | chr5B | 97.391 | 115 | 3 | 0 | 484 | 598 | 623213000 | 623213114 | 3.660000e-46 | 196.0 |
14 | TraesCS3B01G344500 | chr5B | 97.391 | 115 | 3 | 0 | 484 | 598 | 623221927 | 623222041 | 3.660000e-46 | 196.0 |
15 | TraesCS3B01G344500 | chr5B | 97.391 | 115 | 3 | 0 | 484 | 598 | 626874380 | 626874494 | 3.660000e-46 | 196.0 |
16 | TraesCS3B01G344500 | chr2B | 99.091 | 110 | 1 | 0 | 489 | 598 | 99152091 | 99152200 | 1.020000e-46 | 198.0 |
17 | TraesCS3B01G344500 | chr2D | 100.000 | 32 | 0 | 0 | 4592 | 4623 | 24911712 | 24911681 | 5.020000e-05 | 60.2 |
18 | TraesCS3B01G344500 | chr2D | 97.222 | 36 | 0 | 1 | 4594 | 4629 | 24911741 | 24911775 | 5.020000e-05 | 60.2 |
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 | TraesCS3B01G344500 | chr3B | 554093599 | 554098241 | 4642 | True | 8575.0 | 8575 | 100.0000 | 1 | 4643 | 1 | chr3B.!!$R1 | 4642 |
1 | TraesCS3B01G344500 | chr3D | 424343750 | 424347989 | 4239 | True | 3362.5 | 6453 | 93.5705 | 296 | 4643 | 2 | chr3D.!!$R1 | 4347 |
2 | TraesCS3B01G344500 | chr3A | 564443353 | 564450180 | 6827 | False | 1443.6 | 6107 | 90.9812 | 1 | 4643 | 5 | chr3A.!!$F1 | 4642 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
507 | 562 | 0.115745 | ACCTACTCCCTCCGTTCCAA | 59.884 | 55.0 | 0.00 | 0.0 | 0.00 | 3.53 | F |
1200 | 3526 | 0.105593 | TCGCCAGAGAAGCATGGATC | 59.894 | 55.0 | 0.00 | 0.0 | 39.02 | 3.36 | F |
1881 | 4207 | 1.004277 | GAGTGCTTGTGACGACTCGG | 61.004 | 60.0 | 2.98 | 0.0 | 0.00 | 4.63 | F |
1911 | 4237 | 1.131638 | TGTCTGGCTCAGTTGAAGGT | 58.868 | 50.0 | 2.68 | 0.0 | 32.61 | 3.50 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1894 | 4220 | 0.250467 | GCACCTTCAACTGAGCCAGA | 60.250 | 55.000 | 8.91 | 0.0 | 35.18 | 3.86 | R |
2499 | 4825 | 1.075374 | ACACTTGGGCCTTTATCAGCA | 59.925 | 47.619 | 4.53 | 0.0 | 0.00 | 4.41 | R |
3571 | 5897 | 3.784202 | ACCCTTATAAAATCGTCCCCACT | 59.216 | 43.478 | 0.00 | 0.0 | 0.00 | 4.00 | R |
3859 | 6199 | 5.278266 | GCACCTTTCAGCTAAAATGTACACA | 60.278 | 40.000 | 0.00 | 0.0 | 0.00 | 3.72 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
52 | 53 | 9.121658 | TGATACACCTACACACAAAAATTACAA | 57.878 | 29.630 | 0.00 | 0.00 | 0.00 | 2.41 |
53 | 54 | 9.953697 | GATACACCTACACACAAAAATTACAAA | 57.046 | 29.630 | 0.00 | 0.00 | 0.00 | 2.83 |
79 | 80 | 4.500603 | TGAGAAGTACGTCAGGACTTTC | 57.499 | 45.455 | 11.47 | 4.35 | 36.04 | 2.62 |
80 | 81 | 4.142790 | TGAGAAGTACGTCAGGACTTTCT | 58.857 | 43.478 | 11.47 | 0.00 | 36.04 | 2.52 |
96 | 97 | 8.072567 | CAGGACTTTCTTTAACAGTGATGAAAG | 58.927 | 37.037 | 16.36 | 16.36 | 43.20 | 2.62 |
120 | 121 | 2.613691 | GCAGAGGCACCAAATTCATTG | 58.386 | 47.619 | 0.00 | 0.00 | 40.72 | 2.82 |
165 | 210 | 6.739008 | GCATGTATGGACTAAGGGAGTTACTC | 60.739 | 46.154 | 3.36 | 3.36 | 39.06 | 2.59 |
213 | 258 | 3.342377 | TTCATCCGTCCATTAGCAACA | 57.658 | 42.857 | 0.00 | 0.00 | 0.00 | 3.33 |
226 | 271 | 2.275380 | GCAACATTTGAGGCCCGGT | 61.275 | 57.895 | 0.00 | 0.00 | 0.00 | 5.28 |
227 | 272 | 1.883021 | CAACATTTGAGGCCCGGTC | 59.117 | 57.895 | 0.00 | 0.00 | 0.00 | 4.79 |
234 | 279 | 2.107141 | GAGGCCCGGTCGAAGATG | 59.893 | 66.667 | 0.00 | 0.00 | 40.67 | 2.90 |
245 | 290 | 2.094894 | GGTCGAAGATGACAATGCACAG | 59.905 | 50.000 | 0.00 | 0.00 | 40.67 | 3.66 |
274 | 319 | 4.153117 | GGCTCAATGTAGACACACTGAAAG | 59.847 | 45.833 | 0.00 | 0.00 | 40.17 | 2.62 |
493 | 548 | 2.033194 | GCACCGTTCTGCCACCTAC | 61.033 | 63.158 | 0.00 | 0.00 | 0.00 | 3.18 |
494 | 549 | 1.671742 | CACCGTTCTGCCACCTACT | 59.328 | 57.895 | 0.00 | 0.00 | 0.00 | 2.57 |
495 | 550 | 0.389948 | CACCGTTCTGCCACCTACTC | 60.390 | 60.000 | 0.00 | 0.00 | 0.00 | 2.59 |
496 | 551 | 1.218316 | CCGTTCTGCCACCTACTCC | 59.782 | 63.158 | 0.00 | 0.00 | 0.00 | 3.85 |
497 | 552 | 1.218316 | CGTTCTGCCACCTACTCCC | 59.782 | 63.158 | 0.00 | 0.00 | 0.00 | 4.30 |
498 | 553 | 1.258445 | CGTTCTGCCACCTACTCCCT | 61.258 | 60.000 | 0.00 | 0.00 | 0.00 | 4.20 |
499 | 554 | 0.537653 | GTTCTGCCACCTACTCCCTC | 59.462 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
500 | 555 | 0.617820 | TTCTGCCACCTACTCCCTCC | 60.618 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
501 | 556 | 2.363795 | TGCCACCTACTCCCTCCG | 60.364 | 66.667 | 0.00 | 0.00 | 0.00 | 4.63 |
502 | 557 | 2.363925 | GCCACCTACTCCCTCCGT | 60.364 | 66.667 | 0.00 | 0.00 | 0.00 | 4.69 |
503 | 558 | 1.988406 | GCCACCTACTCCCTCCGTT | 60.988 | 63.158 | 0.00 | 0.00 | 0.00 | 4.44 |
504 | 559 | 1.957765 | GCCACCTACTCCCTCCGTTC | 61.958 | 65.000 | 0.00 | 0.00 | 0.00 | 3.95 |
505 | 560 | 1.328430 | CCACCTACTCCCTCCGTTCC | 61.328 | 65.000 | 0.00 | 0.00 | 0.00 | 3.62 |
506 | 561 | 0.613853 | CACCTACTCCCTCCGTTCCA | 60.614 | 60.000 | 0.00 | 0.00 | 0.00 | 3.53 |
507 | 562 | 0.115745 | ACCTACTCCCTCCGTTCCAA | 59.884 | 55.000 | 0.00 | 0.00 | 0.00 | 3.53 |
508 | 563 | 1.272807 | CCTACTCCCTCCGTTCCAAA | 58.727 | 55.000 | 0.00 | 0.00 | 0.00 | 3.28 |
509 | 564 | 1.838077 | CCTACTCCCTCCGTTCCAAAT | 59.162 | 52.381 | 0.00 | 0.00 | 0.00 | 2.32 |
510 | 565 | 2.238898 | CCTACTCCCTCCGTTCCAAATT | 59.761 | 50.000 | 0.00 | 0.00 | 0.00 | 1.82 |
511 | 566 | 3.453353 | CCTACTCCCTCCGTTCCAAATTA | 59.547 | 47.826 | 0.00 | 0.00 | 0.00 | 1.40 |
512 | 567 | 3.345508 | ACTCCCTCCGTTCCAAATTAC | 57.654 | 47.619 | 0.00 | 0.00 | 0.00 | 1.89 |
513 | 568 | 2.910977 | ACTCCCTCCGTTCCAAATTACT | 59.089 | 45.455 | 0.00 | 0.00 | 0.00 | 2.24 |
514 | 569 | 3.055312 | ACTCCCTCCGTTCCAAATTACTC | 60.055 | 47.826 | 0.00 | 0.00 | 0.00 | 2.59 |
515 | 570 | 2.093869 | TCCCTCCGTTCCAAATTACTCG | 60.094 | 50.000 | 0.00 | 0.00 | 0.00 | 4.18 |
516 | 571 | 2.354403 | CCCTCCGTTCCAAATTACTCGT | 60.354 | 50.000 | 0.00 | 0.00 | 0.00 | 4.18 |
517 | 572 | 2.928116 | CCTCCGTTCCAAATTACTCGTC | 59.072 | 50.000 | 0.00 | 0.00 | 0.00 | 4.20 |
518 | 573 | 2.597305 | CTCCGTTCCAAATTACTCGTCG | 59.403 | 50.000 | 0.00 | 0.00 | 0.00 | 5.12 |
519 | 574 | 1.060122 | CCGTTCCAAATTACTCGTCGC | 59.940 | 52.381 | 0.00 | 0.00 | 0.00 | 5.19 |
520 | 575 | 1.990563 | CGTTCCAAATTACTCGTCGCT | 59.009 | 47.619 | 0.00 | 0.00 | 0.00 | 4.93 |
521 | 576 | 2.222508 | CGTTCCAAATTACTCGTCGCTG | 60.223 | 50.000 | 0.00 | 0.00 | 0.00 | 5.18 |
522 | 577 | 2.991190 | GTTCCAAATTACTCGTCGCTGA | 59.009 | 45.455 | 0.00 | 0.00 | 0.00 | 4.26 |
523 | 578 | 3.306917 | TCCAAATTACTCGTCGCTGAA | 57.693 | 42.857 | 0.00 | 0.00 | 0.00 | 3.02 |
524 | 579 | 3.655486 | TCCAAATTACTCGTCGCTGAAA | 58.345 | 40.909 | 0.00 | 0.00 | 0.00 | 2.69 |
525 | 580 | 4.250464 | TCCAAATTACTCGTCGCTGAAAT | 58.750 | 39.130 | 0.00 | 0.00 | 0.00 | 2.17 |
526 | 581 | 4.092821 | TCCAAATTACTCGTCGCTGAAATG | 59.907 | 41.667 | 0.00 | 0.00 | 0.00 | 2.32 |
527 | 582 | 4.334443 | CAAATTACTCGTCGCTGAAATGG | 58.666 | 43.478 | 0.00 | 0.00 | 0.00 | 3.16 |
528 | 583 | 3.520290 | ATTACTCGTCGCTGAAATGGA | 57.480 | 42.857 | 0.00 | 0.00 | 0.00 | 3.41 |
529 | 584 | 3.520290 | TTACTCGTCGCTGAAATGGAT | 57.480 | 42.857 | 0.00 | 0.00 | 0.00 | 3.41 |
530 | 585 | 1.645034 | ACTCGTCGCTGAAATGGATG | 58.355 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
531 | 586 | 1.066858 | ACTCGTCGCTGAAATGGATGT | 60.067 | 47.619 | 0.00 | 0.00 | 0.00 | 3.06 |
532 | 587 | 2.165641 | ACTCGTCGCTGAAATGGATGTA | 59.834 | 45.455 | 0.00 | 0.00 | 0.00 | 2.29 |
533 | 588 | 3.181475 | ACTCGTCGCTGAAATGGATGTAT | 60.181 | 43.478 | 0.00 | 0.00 | 0.00 | 2.29 |
534 | 589 | 3.381045 | TCGTCGCTGAAATGGATGTATC | 58.619 | 45.455 | 0.00 | 0.00 | 0.00 | 2.24 |
535 | 590 | 3.068165 | TCGTCGCTGAAATGGATGTATCT | 59.932 | 43.478 | 0.00 | 0.00 | 0.00 | 1.98 |
536 | 591 | 4.277423 | TCGTCGCTGAAATGGATGTATCTA | 59.723 | 41.667 | 0.00 | 0.00 | 0.00 | 1.98 |
537 | 592 | 4.618912 | CGTCGCTGAAATGGATGTATCTAG | 59.381 | 45.833 | 0.00 | 0.00 | 0.00 | 2.43 |
538 | 593 | 5.562890 | CGTCGCTGAAATGGATGTATCTAGA | 60.563 | 44.000 | 0.00 | 0.00 | 0.00 | 2.43 |
539 | 594 | 6.216569 | GTCGCTGAAATGGATGTATCTAGAA | 58.783 | 40.000 | 0.00 | 0.00 | 0.00 | 2.10 |
540 | 595 | 6.144724 | GTCGCTGAAATGGATGTATCTAGAAC | 59.855 | 42.308 | 0.00 | 0.00 | 0.00 | 3.01 |
541 | 596 | 6.040955 | TCGCTGAAATGGATGTATCTAGAACT | 59.959 | 38.462 | 0.00 | 0.00 | 0.00 | 3.01 |
542 | 597 | 7.230712 | TCGCTGAAATGGATGTATCTAGAACTA | 59.769 | 37.037 | 0.00 | 0.00 | 0.00 | 2.24 |
543 | 598 | 7.867909 | CGCTGAAATGGATGTATCTAGAACTAA | 59.132 | 37.037 | 0.00 | 0.00 | 0.00 | 2.24 |
544 | 599 | 9.547753 | GCTGAAATGGATGTATCTAGAACTAAA | 57.452 | 33.333 | 0.00 | 0.00 | 0.00 | 1.85 |
571 | 626 | 6.567959 | ACATCTAGATACATCCATATGTGCG | 58.432 | 40.000 | 4.54 | 0.00 | 45.99 | 5.34 |
572 | 627 | 6.378280 | ACATCTAGATACATCCATATGTGCGA | 59.622 | 38.462 | 4.54 | 0.00 | 45.99 | 5.10 |
573 | 628 | 6.196079 | TCTAGATACATCCATATGTGCGAC | 57.804 | 41.667 | 1.24 | 0.00 | 45.99 | 5.19 |
574 | 629 | 4.871933 | AGATACATCCATATGTGCGACA | 57.128 | 40.909 | 1.24 | 0.00 | 45.99 | 4.35 |
575 | 630 | 5.213891 | AGATACATCCATATGTGCGACAA | 57.786 | 39.130 | 1.24 | 0.00 | 45.99 | 3.18 |
576 | 631 | 5.233225 | AGATACATCCATATGTGCGACAAG | 58.767 | 41.667 | 1.24 | 0.00 | 45.99 | 3.16 |
577 | 632 | 3.266510 | ACATCCATATGTGCGACAAGT | 57.733 | 42.857 | 1.24 | 0.00 | 44.79 | 3.16 |
578 | 633 | 4.400529 | ACATCCATATGTGCGACAAGTA | 57.599 | 40.909 | 1.24 | 0.00 | 44.79 | 2.24 |
579 | 634 | 4.765273 | ACATCCATATGTGCGACAAGTAA | 58.235 | 39.130 | 1.24 | 0.00 | 44.79 | 2.24 |
580 | 635 | 5.368145 | ACATCCATATGTGCGACAAGTAAT | 58.632 | 37.500 | 1.24 | 0.00 | 44.79 | 1.89 |
581 | 636 | 5.822519 | ACATCCATATGTGCGACAAGTAATT | 59.177 | 36.000 | 1.24 | 0.00 | 44.79 | 1.40 |
582 | 637 | 5.984233 | TCCATATGTGCGACAAGTAATTC | 57.016 | 39.130 | 1.24 | 0.00 | 0.00 | 2.17 |
583 | 638 | 4.506288 | TCCATATGTGCGACAAGTAATTCG | 59.494 | 41.667 | 1.24 | 0.00 | 38.31 | 3.34 |
584 | 639 | 4.318760 | CCATATGTGCGACAAGTAATTCGG | 60.319 | 45.833 | 1.24 | 0.00 | 35.73 | 4.30 |
585 | 640 | 2.442212 | TGTGCGACAAGTAATTCGGA | 57.558 | 45.000 | 0.00 | 0.00 | 35.73 | 4.55 |
586 | 641 | 2.756829 | TGTGCGACAAGTAATTCGGAA | 58.243 | 42.857 | 0.00 | 0.00 | 37.32 | 4.30 |
587 | 642 | 2.477375 | TGTGCGACAAGTAATTCGGAAC | 59.523 | 45.455 | 0.00 | 0.00 | 37.32 | 3.62 |
617 | 672 | 6.869388 | GGAGTAGGTCTTAACTGAACTGAAAG | 59.131 | 42.308 | 0.00 | 0.00 | 35.38 | 2.62 |
620 | 675 | 6.742559 | AGGTCTTAACTGAACTGAAAGGTA | 57.257 | 37.500 | 0.00 | 0.00 | 39.30 | 3.08 |
657 | 712 | 4.821805 | AGGATGTGAAACTGTTTACTGTGG | 59.178 | 41.667 | 5.64 | 0.00 | 38.04 | 4.17 |
664 | 719 | 5.648526 | TGAAACTGTTTACTGTGGTTTGCTA | 59.351 | 36.000 | 5.64 | 0.00 | 31.51 | 3.49 |
672 | 727 | 8.347035 | TGTTTACTGTGGTTTGCTATTTTACTC | 58.653 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
679 | 734 | 8.999431 | TGTGGTTTGCTATTTTACTCTCTTTAG | 58.001 | 33.333 | 0.00 | 0.00 | 0.00 | 1.85 |
712 | 768 | 2.612285 | ATGGATCCTATCGAGCTCCA | 57.388 | 50.000 | 14.23 | 0.00 | 37.38 | 3.86 |
803 | 3116 | 2.423538 | GCTTCTGGGAAATTATGCACGT | 59.576 | 45.455 | 0.00 | 0.00 | 0.00 | 4.49 |
808 | 3121 | 4.520874 | TCTGGGAAATTATGCACGTTTGAA | 59.479 | 37.500 | 0.00 | 0.00 | 0.00 | 2.69 |
813 | 3126 | 3.848272 | ATTATGCACGTTTGAACAGGG | 57.152 | 42.857 | 0.00 | 0.00 | 0.00 | 4.45 |
818 | 3131 | 2.037902 | TGCACGTTTGAACAGGGATAGA | 59.962 | 45.455 | 0.00 | 0.00 | 0.00 | 1.98 |
834 | 3147 | 1.489481 | TAGATGACCCAGACTGCAGG | 58.511 | 55.000 | 19.93 | 2.50 | 0.00 | 4.85 |
872 | 3185 | 3.371917 | CCCAAGGATCTCAGTTTGGCATA | 60.372 | 47.826 | 0.00 | 0.00 | 38.96 | 3.14 |
875 | 3189 | 5.185635 | CCAAGGATCTCAGTTTGGCATAAAA | 59.814 | 40.000 | 0.00 | 0.00 | 34.28 | 1.52 |
876 | 3190 | 6.327934 | CAAGGATCTCAGTTTGGCATAAAAG | 58.672 | 40.000 | 0.00 | 0.00 | 0.00 | 2.27 |
877 | 3191 | 4.400567 | AGGATCTCAGTTTGGCATAAAAGC | 59.599 | 41.667 | 0.00 | 0.00 | 0.00 | 3.51 |
879 | 3193 | 3.407698 | TCTCAGTTTGGCATAAAAGCGA | 58.592 | 40.909 | 0.00 | 0.00 | 34.64 | 4.93 |
886 | 3200 | 5.988561 | AGTTTGGCATAAAAGCGATTGAAAA | 59.011 | 32.000 | 0.00 | 0.00 | 34.64 | 2.29 |
926 | 3240 | 1.303561 | GCACTGCCCATTGACCTCA | 60.304 | 57.895 | 0.00 | 0.00 | 0.00 | 3.86 |
929 | 3243 | 0.251341 | ACTGCCCATTGACCTCAACC | 60.251 | 55.000 | 0.00 | 0.00 | 38.86 | 3.77 |
936 | 3250 | 2.571653 | CCATTGACCTCAACCTCCTACA | 59.428 | 50.000 | 0.00 | 0.00 | 38.86 | 2.74 |
946 | 3260 | 5.770162 | CCTCAACCTCCTACAAGAAAATTGT | 59.230 | 40.000 | 0.00 | 0.00 | 36.49 | 2.71 |
947 | 3261 | 6.940298 | CCTCAACCTCCTACAAGAAAATTGTA | 59.060 | 38.462 | 0.97 | 0.97 | 34.11 | 2.41 |
948 | 3262 | 7.119846 | CCTCAACCTCCTACAAGAAAATTGTAG | 59.880 | 40.741 | 17.04 | 17.04 | 46.91 | 2.74 |
949 | 3263 | 6.430000 | TCAACCTCCTACAAGAAAATTGTAGC | 59.570 | 38.462 | 18.10 | 0.00 | 46.34 | 3.58 |
950 | 3264 | 5.876357 | ACCTCCTACAAGAAAATTGTAGCA | 58.124 | 37.500 | 18.10 | 6.71 | 46.34 | 3.49 |
951 | 3265 | 5.940470 | ACCTCCTACAAGAAAATTGTAGCAG | 59.060 | 40.000 | 18.10 | 14.31 | 46.34 | 4.24 |
952 | 3266 | 6.173339 | CCTCCTACAAGAAAATTGTAGCAGA | 58.827 | 40.000 | 16.60 | 11.22 | 46.34 | 4.26 |
953 | 3267 | 6.092807 | CCTCCTACAAGAAAATTGTAGCAGAC | 59.907 | 42.308 | 16.60 | 0.00 | 46.34 | 3.51 |
954 | 3268 | 5.637810 | TCCTACAAGAAAATTGTAGCAGACG | 59.362 | 40.000 | 18.10 | 7.92 | 46.34 | 4.18 |
956 | 3270 | 4.385825 | ACAAGAAAATTGTAGCAGACGGA | 58.614 | 39.130 | 0.00 | 0.00 | 0.00 | 4.69 |
957 | 3271 | 4.452455 | ACAAGAAAATTGTAGCAGACGGAG | 59.548 | 41.667 | 0.00 | 0.00 | 0.00 | 4.63 |
960 | 3274 | 2.770164 | AATTGTAGCAGACGGAGCTT | 57.230 | 45.000 | 3.90 | 0.00 | 43.25 | 3.74 |
1011 | 3337 | 1.322538 | GCATTTCCATGGCCGAACCT | 61.323 | 55.000 | 6.96 | 0.00 | 40.22 | 3.50 |
1034 | 3360 | 2.494471 | TGCTTGCTTCTTTGATCCATGG | 59.506 | 45.455 | 4.97 | 4.97 | 0.00 | 3.66 |
1177 | 3503 | 1.667151 | GTTTGCAGCATTGAGGGCA | 59.333 | 52.632 | 0.00 | 0.00 | 0.00 | 5.36 |
1200 | 3526 | 0.105593 | TCGCCAGAGAAGCATGGATC | 59.894 | 55.000 | 0.00 | 0.00 | 39.02 | 3.36 |
1260 | 3586 | 4.094684 | GACATCTTCGACGCCAGG | 57.905 | 61.111 | 0.00 | 0.00 | 0.00 | 4.45 |
1299 | 3625 | 4.040339 | TGTGTTCTTGGTAAGCTGAGATCA | 59.960 | 41.667 | 0.00 | 0.00 | 0.00 | 2.92 |
1395 | 3721 | 4.527509 | TGCAGTTGAAAGACCTAGAGAG | 57.472 | 45.455 | 0.00 | 0.00 | 0.00 | 3.20 |
1638 | 3964 | 1.154205 | AATGCTGCGCGTGGATCTAC | 61.154 | 55.000 | 8.43 | 0.00 | 0.00 | 2.59 |
1728 | 4054 | 2.757917 | GAGGCGAGCTCCCTCTGT | 60.758 | 66.667 | 29.65 | 10.71 | 44.40 | 3.41 |
1881 | 4207 | 1.004277 | GAGTGCTTGTGACGACTCGG | 61.004 | 60.000 | 2.98 | 0.00 | 0.00 | 4.63 |
1911 | 4237 | 1.131638 | TGTCTGGCTCAGTTGAAGGT | 58.868 | 50.000 | 2.68 | 0.00 | 32.61 | 3.50 |
1965 | 4291 | 3.511146 | TGCCATTTGAAGATTCCTGGAAC | 59.489 | 43.478 | 12.11 | 6.12 | 0.00 | 3.62 |
2138 | 4464 | 1.963515 | GTGGAAAAGTGTCCTGGCAAT | 59.036 | 47.619 | 0.00 | 0.00 | 38.62 | 3.56 |
2301 | 4627 | 6.828785 | AGAAATTAGTTCGGTTATGGATTGCT | 59.171 | 34.615 | 0.00 | 0.00 | 41.52 | 3.91 |
2332 | 4658 | 3.822735 | TGTGAAAGAAAAGGCTGATGAGG | 59.177 | 43.478 | 0.00 | 0.00 | 0.00 | 3.86 |
2387 | 4713 | 3.159472 | AGCTGATCAACAAAAGCATGGA | 58.841 | 40.909 | 0.00 | 0.00 | 38.14 | 3.41 |
2451 | 4777 | 3.940221 | GCAGAGTTCATGCTCTTCTTCAT | 59.060 | 43.478 | 0.50 | 0.00 | 42.69 | 2.57 |
2499 | 4825 | 9.649167 | GAAAATGAGAAATTTTCCATCATCTGT | 57.351 | 29.630 | 11.94 | 4.08 | 40.34 | 3.41 |
2607 | 4933 | 5.375417 | TGCGATCTGTTTTCATGTTCAAT | 57.625 | 34.783 | 0.00 | 0.00 | 0.00 | 2.57 |
2608 | 4934 | 5.155643 | TGCGATCTGTTTTCATGTTCAATG | 58.844 | 37.500 | 0.00 | 0.00 | 0.00 | 2.82 |
2672 | 4998 | 4.985538 | AGCTTTGGTCTGGTAAGAATTCA | 58.014 | 39.130 | 8.44 | 0.00 | 33.05 | 2.57 |
2787 | 5113 | 4.670765 | AGAAGCTCCCAAGAACAATGAAT | 58.329 | 39.130 | 0.00 | 0.00 | 0.00 | 2.57 |
2832 | 5158 | 7.014518 | ACTCTTGATATCAGGAAGACTCAGATG | 59.985 | 40.741 | 17.27 | 5.65 | 31.40 | 2.90 |
2912 | 5238 | 2.928334 | AGATGACCAATGCATCCAGAC | 58.072 | 47.619 | 0.00 | 0.00 | 42.36 | 3.51 |
3086 | 5412 | 6.655003 | TCTTCTGTGAACAATATGAAGGAACC | 59.345 | 38.462 | 9.15 | 0.00 | 33.77 | 3.62 |
3294 | 5620 | 2.844946 | TCAGTTCTTGTTCGATTGCCA | 58.155 | 42.857 | 0.00 | 0.00 | 0.00 | 4.92 |
3571 | 5897 | 5.256626 | TCCTTTCTTGGTAAATTGGGGGATA | 59.743 | 40.000 | 0.00 | 0.00 | 0.00 | 2.59 |
3576 | 5902 | 2.516277 | TGGTAAATTGGGGGATAGTGGG | 59.484 | 50.000 | 0.00 | 0.00 | 0.00 | 4.61 |
3579 | 5905 | 1.231963 | AATTGGGGGATAGTGGGGAC | 58.768 | 55.000 | 0.00 | 0.00 | 0.00 | 4.46 |
3596 | 5922 | 4.227754 | TGGGGACGATTTTATAAGGGTCAA | 59.772 | 41.667 | 0.00 | 0.00 | 0.00 | 3.18 |
3636 | 5962 | 4.081862 | CAGATCATTCAACAGTTTGGGCAT | 60.082 | 41.667 | 0.00 | 0.00 | 33.06 | 4.40 |
3659 | 5985 | 7.555087 | CATCCCTAAAATTGTCCTGCAAATAA | 58.445 | 34.615 | 0.00 | 0.00 | 40.91 | 1.40 |
3661 | 5987 | 6.951198 | TCCCTAAAATTGTCCTGCAAATAAGA | 59.049 | 34.615 | 0.00 | 0.00 | 40.91 | 2.10 |
3662 | 5988 | 7.035612 | CCCTAAAATTGTCCTGCAAATAAGAC | 58.964 | 38.462 | 0.00 | 0.00 | 40.91 | 3.01 |
3664 | 5990 | 8.306761 | CCTAAAATTGTCCTGCAAATAAGACTT | 58.693 | 33.333 | 0.00 | 0.00 | 40.91 | 3.01 |
3665 | 5991 | 7.951530 | AAAATTGTCCTGCAAATAAGACTTG | 57.048 | 32.000 | 0.00 | 0.00 | 40.91 | 3.16 |
3666 | 5992 | 6.899393 | AATTGTCCTGCAAATAAGACTTGA | 57.101 | 33.333 | 0.00 | 0.00 | 40.91 | 3.02 |
3668 | 5994 | 5.947228 | TGTCCTGCAAATAAGACTTGAAG | 57.053 | 39.130 | 0.00 | 0.00 | 0.00 | 3.02 |
3669 | 5995 | 5.620206 | TGTCCTGCAAATAAGACTTGAAGA | 58.380 | 37.500 | 0.00 | 0.00 | 31.86 | 2.87 |
3670 | 5996 | 6.240894 | TGTCCTGCAAATAAGACTTGAAGAT | 58.759 | 36.000 | 0.00 | 0.00 | 31.86 | 2.40 |
3671 | 5997 | 6.149973 | TGTCCTGCAAATAAGACTTGAAGATG | 59.850 | 38.462 | 0.00 | 0.00 | 31.86 | 2.90 |
3672 | 5998 | 6.372659 | GTCCTGCAAATAAGACTTGAAGATGA | 59.627 | 38.462 | 0.00 | 0.00 | 31.86 | 2.92 |
3673 | 5999 | 7.066766 | GTCCTGCAAATAAGACTTGAAGATGAT | 59.933 | 37.037 | 0.00 | 0.00 | 31.86 | 2.45 |
3674 | 6000 | 7.066645 | TCCTGCAAATAAGACTTGAAGATGATG | 59.933 | 37.037 | 0.00 | 0.00 | 31.86 | 3.07 |
3675 | 6001 | 7.066645 | CCTGCAAATAAGACTTGAAGATGATGA | 59.933 | 37.037 | 0.00 | 0.00 | 31.86 | 2.92 |
3676 | 6002 | 8.515695 | TGCAAATAAGACTTGAAGATGATGAT | 57.484 | 30.769 | 0.00 | 0.00 | 0.00 | 2.45 |
3677 | 6003 | 8.403236 | TGCAAATAAGACTTGAAGATGATGATG | 58.597 | 33.333 | 0.00 | 0.00 | 0.00 | 3.07 |
3678 | 6004 | 8.618677 | GCAAATAAGACTTGAAGATGATGATGA | 58.381 | 33.333 | 0.00 | 0.00 | 0.00 | 2.92 |
3778 | 6118 | 3.402110 | CATGACAGTGACAGCTTGGTTA | 58.598 | 45.455 | 0.00 | 0.00 | 0.00 | 2.85 |
3851 | 6191 | 1.041447 | GCTGCTCCCTCTACCGGTTA | 61.041 | 60.000 | 15.04 | 0.00 | 0.00 | 2.85 |
3852 | 6192 | 1.481871 | CTGCTCCCTCTACCGGTTAA | 58.518 | 55.000 | 15.04 | 0.00 | 0.00 | 2.01 |
3859 | 6199 | 5.396101 | GCTCCCTCTACCGGTTAAAAACTAT | 60.396 | 44.000 | 15.04 | 0.00 | 0.00 | 2.12 |
3904 | 6244 | 6.978659 | GGTGCCCTTATGTTTAATCTTTAAGC | 59.021 | 38.462 | 0.00 | 0.00 | 0.00 | 3.09 |
3921 | 6261 | 6.378848 | TCTTTAAGCCCCAATGTACCATAAAC | 59.621 | 38.462 | 0.00 | 0.00 | 0.00 | 2.01 |
3927 | 6267 | 4.466015 | CCCCAATGTACCATAAACAAGCTT | 59.534 | 41.667 | 0.00 | 0.00 | 0.00 | 3.74 |
3931 | 6271 | 7.029563 | CCAATGTACCATAAACAAGCTTCTTC | 58.970 | 38.462 | 0.00 | 0.00 | 0.00 | 2.87 |
3934 | 6274 | 5.992829 | TGTACCATAAACAAGCTTCTTCGAA | 59.007 | 36.000 | 0.00 | 0.00 | 0.00 | 3.71 |
3945 | 6285 | 6.371548 | ACAAGCTTCTTCGAATATGTTAGCAA | 59.628 | 34.615 | 0.00 | 0.00 | 0.00 | 3.91 |
3969 | 6309 | 9.630098 | CAATCAGTAGAATTGCTTGTTGTAAAT | 57.370 | 29.630 | 0.00 | 0.00 | 0.00 | 1.40 |
4069 | 6409 | 9.836864 | TGATATAGCATCAAGAAAAGTACATGT | 57.163 | 29.630 | 2.69 | 2.69 | 0.00 | 3.21 |
4118 | 6458 | 6.040209 | TGCATAACAAATGGCAGAGAATTT | 57.960 | 33.333 | 0.00 | 0.00 | 0.00 | 1.82 |
4136 | 6476 | 9.160496 | AGAGAATTTTATCTTCTGCAGTAGTTG | 57.840 | 33.333 | 18.55 | 4.45 | 33.18 | 3.16 |
4167 | 6507 | 4.810191 | AGTACCTCATGTTCCTCTTGAC | 57.190 | 45.455 | 0.00 | 0.00 | 0.00 | 3.18 |
4173 | 6513 | 4.380233 | CCTCATGTTCCTCTTGACAAATGC | 60.380 | 45.833 | 0.00 | 0.00 | 0.00 | 3.56 |
4178 | 6518 | 4.516698 | TGTTCCTCTTGACAAATGCTTCTC | 59.483 | 41.667 | 0.00 | 0.00 | 0.00 | 2.87 |
4180 | 6520 | 2.417933 | CCTCTTGACAAATGCTTCTCCG | 59.582 | 50.000 | 0.00 | 0.00 | 0.00 | 4.63 |
4237 | 6577 | 7.093322 | ACTCATCCAAAGCTGATCAATTAAC | 57.907 | 36.000 | 0.00 | 0.00 | 0.00 | 2.01 |
4259 | 6599 | 2.727298 | GCAGCAGAAGAGCAATTCGTTC | 60.727 | 50.000 | 0.00 | 0.00 | 36.85 | 3.95 |
4262 | 6602 | 2.224079 | GCAGAAGAGCAATTCGTTCACA | 59.776 | 45.455 | 0.00 | 0.00 | 34.27 | 3.58 |
4271 | 6611 | 6.313905 | AGAGCAATTCGTTCACAATTAGTAGG | 59.686 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
4466 | 6807 | 6.507023 | TCAGAAGTCAAATTTCAAAGCTTCC | 58.493 | 36.000 | 0.00 | 0.00 | 33.46 | 3.46 |
4467 | 6808 | 6.096705 | TCAGAAGTCAAATTTCAAAGCTTCCA | 59.903 | 34.615 | 0.00 | 0.00 | 33.46 | 3.53 |
4480 | 6822 | 8.729805 | TTCAAAGCTTCCAAAATAAAACACAT | 57.270 | 26.923 | 0.00 | 0.00 | 0.00 | 3.21 |
4558 | 6900 | 3.156293 | TGTTCATTTGTAGGCAGCACAT | 58.844 | 40.909 | 0.00 | 0.00 | 0.00 | 3.21 |
4588 | 6930 | 7.681939 | AAACAAACGTGTGGATCTATAACAT | 57.318 | 32.000 | 11.18 | 0.00 | 38.27 | 2.71 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
7 | 8 | 0.324614 | ATGTCCGTGGTTGCATCAGA | 59.675 | 50.000 | 0.00 | 0.00 | 0.00 | 3.27 |
12 | 13 | 1.002544 | TGTATCATGTCCGTGGTTGCA | 59.997 | 47.619 | 0.00 | 0.00 | 0.00 | 4.08 |
19 | 20 | 3.093814 | TGTGTAGGTGTATCATGTCCGT | 58.906 | 45.455 | 0.00 | 0.00 | 0.00 | 4.69 |
52 | 53 | 4.396790 | GTCCTGACGTACTTCTCATCTCTT | 59.603 | 45.833 | 0.68 | 0.00 | 0.00 | 2.85 |
53 | 54 | 3.942748 | GTCCTGACGTACTTCTCATCTCT | 59.057 | 47.826 | 0.68 | 0.00 | 0.00 | 3.10 |
79 | 80 | 4.213270 | TGCCGACTTTCATCACTGTTAAAG | 59.787 | 41.667 | 0.00 | 0.00 | 35.54 | 1.85 |
80 | 81 | 4.130857 | TGCCGACTTTCATCACTGTTAAA | 58.869 | 39.130 | 0.00 | 0.00 | 0.00 | 1.52 |
96 | 97 | 1.244019 | AATTTGGTGCCTCTGCCGAC | 61.244 | 55.000 | 0.00 | 0.00 | 36.33 | 4.79 |
97 | 98 | 0.960364 | GAATTTGGTGCCTCTGCCGA | 60.960 | 55.000 | 0.00 | 0.00 | 36.33 | 5.54 |
120 | 121 | 3.058016 | TGCTGCAAACTGTTATTGAGCTC | 60.058 | 43.478 | 6.82 | 6.82 | 34.71 | 4.09 |
184 | 229 | 6.428159 | GCTAATGGACGGATGAAAACTCATAT | 59.572 | 38.462 | 0.00 | 0.00 | 0.00 | 1.78 |
186 | 231 | 4.576463 | GCTAATGGACGGATGAAAACTCAT | 59.424 | 41.667 | 0.00 | 0.00 | 0.00 | 2.90 |
196 | 241 | 4.269183 | TCAAATGTTGCTAATGGACGGAT | 58.731 | 39.130 | 0.00 | 0.00 | 0.00 | 4.18 |
213 | 258 | 1.078426 | CTTCGACCGGGCCTCAAAT | 60.078 | 57.895 | 6.32 | 0.00 | 0.00 | 2.32 |
226 | 271 | 1.733912 | GCTGTGCATTGTCATCTTCGA | 59.266 | 47.619 | 0.00 | 0.00 | 0.00 | 3.71 |
227 | 272 | 1.736126 | AGCTGTGCATTGTCATCTTCG | 59.264 | 47.619 | 0.00 | 0.00 | 0.00 | 3.79 |
234 | 279 | 0.109412 | GCCTTGAGCTGTGCATTGTC | 60.109 | 55.000 | 0.00 | 0.00 | 38.99 | 3.18 |
245 | 290 | 2.675348 | GTGTCTACATTGAGCCTTGAGC | 59.325 | 50.000 | 0.00 | 0.00 | 44.25 | 4.26 |
274 | 319 | 2.436824 | GAGCCCGTCTTTGGAGCC | 60.437 | 66.667 | 0.00 | 0.00 | 0.00 | 4.70 |
493 | 548 | 3.532542 | GAGTAATTTGGAACGGAGGGAG | 58.467 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
494 | 549 | 2.093869 | CGAGTAATTTGGAACGGAGGGA | 60.094 | 50.000 | 0.00 | 0.00 | 0.00 | 4.20 |
495 | 550 | 2.277084 | CGAGTAATTTGGAACGGAGGG | 58.723 | 52.381 | 0.00 | 0.00 | 0.00 | 4.30 |
496 | 551 | 2.928116 | GACGAGTAATTTGGAACGGAGG | 59.072 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
497 | 552 | 2.597305 | CGACGAGTAATTTGGAACGGAG | 59.403 | 50.000 | 0.00 | 0.00 | 0.00 | 4.63 |
498 | 553 | 2.598589 | CGACGAGTAATTTGGAACGGA | 58.401 | 47.619 | 0.00 | 0.00 | 0.00 | 4.69 |
499 | 554 | 1.060122 | GCGACGAGTAATTTGGAACGG | 59.940 | 52.381 | 0.00 | 0.00 | 0.00 | 4.44 |
500 | 555 | 1.990563 | AGCGACGAGTAATTTGGAACG | 59.009 | 47.619 | 0.00 | 0.00 | 0.00 | 3.95 |
501 | 556 | 2.991190 | TCAGCGACGAGTAATTTGGAAC | 59.009 | 45.455 | 0.00 | 0.00 | 0.00 | 3.62 |
502 | 557 | 3.306917 | TCAGCGACGAGTAATTTGGAA | 57.693 | 42.857 | 0.00 | 0.00 | 0.00 | 3.53 |
503 | 558 | 3.306917 | TTCAGCGACGAGTAATTTGGA | 57.693 | 42.857 | 0.00 | 0.00 | 0.00 | 3.53 |
504 | 559 | 4.334443 | CATTTCAGCGACGAGTAATTTGG | 58.666 | 43.478 | 0.00 | 0.00 | 0.00 | 3.28 |
505 | 560 | 4.092821 | TCCATTTCAGCGACGAGTAATTTG | 59.907 | 41.667 | 0.00 | 0.00 | 0.00 | 2.32 |
506 | 561 | 4.250464 | TCCATTTCAGCGACGAGTAATTT | 58.750 | 39.130 | 0.00 | 0.00 | 0.00 | 1.82 |
507 | 562 | 3.857052 | TCCATTTCAGCGACGAGTAATT | 58.143 | 40.909 | 0.00 | 0.00 | 0.00 | 1.40 |
508 | 563 | 3.520290 | TCCATTTCAGCGACGAGTAAT | 57.480 | 42.857 | 0.00 | 0.00 | 0.00 | 1.89 |
509 | 564 | 3.186909 | CATCCATTTCAGCGACGAGTAA | 58.813 | 45.455 | 0.00 | 0.00 | 0.00 | 2.24 |
510 | 565 | 2.165641 | ACATCCATTTCAGCGACGAGTA | 59.834 | 45.455 | 0.00 | 0.00 | 0.00 | 2.59 |
511 | 566 | 1.066858 | ACATCCATTTCAGCGACGAGT | 60.067 | 47.619 | 0.00 | 0.00 | 0.00 | 4.18 |
512 | 567 | 1.645034 | ACATCCATTTCAGCGACGAG | 58.355 | 50.000 | 0.00 | 0.00 | 0.00 | 4.18 |
513 | 568 | 2.951457 | TACATCCATTTCAGCGACGA | 57.049 | 45.000 | 0.00 | 0.00 | 0.00 | 4.20 |
514 | 569 | 3.384668 | AGATACATCCATTTCAGCGACG | 58.615 | 45.455 | 0.00 | 0.00 | 0.00 | 5.12 |
515 | 570 | 5.773575 | TCTAGATACATCCATTTCAGCGAC | 58.226 | 41.667 | 0.00 | 0.00 | 0.00 | 5.19 |
516 | 571 | 6.040955 | AGTTCTAGATACATCCATTTCAGCGA | 59.959 | 38.462 | 0.00 | 0.00 | 0.00 | 4.93 |
517 | 572 | 6.219473 | AGTTCTAGATACATCCATTTCAGCG | 58.781 | 40.000 | 0.00 | 0.00 | 0.00 | 5.18 |
518 | 573 | 9.547753 | TTTAGTTCTAGATACATCCATTTCAGC | 57.452 | 33.333 | 0.00 | 0.00 | 0.00 | 4.26 |
545 | 600 | 8.355913 | CGCACATATGGATGTATCTAGATGTAT | 58.644 | 37.037 | 15.79 | 9.11 | 44.68 | 2.29 |
546 | 601 | 7.556275 | TCGCACATATGGATGTATCTAGATGTA | 59.444 | 37.037 | 15.79 | 4.44 | 44.68 | 2.29 |
547 | 602 | 6.378280 | TCGCACATATGGATGTATCTAGATGT | 59.622 | 38.462 | 15.79 | 11.23 | 46.49 | 3.06 |
548 | 603 | 6.694844 | GTCGCACATATGGATGTATCTAGATG | 59.305 | 42.308 | 15.79 | 10.16 | 44.82 | 2.90 |
549 | 604 | 6.378280 | TGTCGCACATATGGATGTATCTAGAT | 59.622 | 38.462 | 10.73 | 10.73 | 44.82 | 1.98 |
550 | 605 | 5.710099 | TGTCGCACATATGGATGTATCTAGA | 59.290 | 40.000 | 7.80 | 0.00 | 44.82 | 2.43 |
551 | 606 | 5.954335 | TGTCGCACATATGGATGTATCTAG | 58.046 | 41.667 | 7.80 | 0.00 | 44.82 | 2.43 |
552 | 607 | 5.975693 | TGTCGCACATATGGATGTATCTA | 57.024 | 39.130 | 7.80 | 0.00 | 44.82 | 1.98 |
553 | 608 | 4.871933 | TGTCGCACATATGGATGTATCT | 57.128 | 40.909 | 7.80 | 0.00 | 44.82 | 1.98 |
554 | 609 | 4.991056 | ACTTGTCGCACATATGGATGTATC | 59.009 | 41.667 | 7.80 | 0.00 | 44.82 | 2.24 |
555 | 610 | 4.960938 | ACTTGTCGCACATATGGATGTAT | 58.039 | 39.130 | 7.80 | 0.00 | 44.82 | 2.29 |
556 | 611 | 4.400529 | ACTTGTCGCACATATGGATGTA | 57.599 | 40.909 | 7.80 | 0.00 | 44.82 | 2.29 |
558 | 613 | 5.929697 | ATTACTTGTCGCACATATGGATG | 57.070 | 39.130 | 7.80 | 0.00 | 39.16 | 3.51 |
559 | 614 | 5.177511 | CGAATTACTTGTCGCACATATGGAT | 59.822 | 40.000 | 7.80 | 0.00 | 0.00 | 3.41 |
560 | 615 | 4.506288 | CGAATTACTTGTCGCACATATGGA | 59.494 | 41.667 | 7.80 | 0.00 | 0.00 | 3.41 |
561 | 616 | 4.318760 | CCGAATTACTTGTCGCACATATGG | 60.319 | 45.833 | 7.80 | 0.00 | 35.93 | 2.74 |
562 | 617 | 4.506288 | TCCGAATTACTTGTCGCACATATG | 59.494 | 41.667 | 0.00 | 0.00 | 35.93 | 1.78 |
563 | 618 | 4.689071 | TCCGAATTACTTGTCGCACATAT | 58.311 | 39.130 | 0.00 | 0.00 | 35.93 | 1.78 |
564 | 619 | 4.112716 | TCCGAATTACTTGTCGCACATA | 57.887 | 40.909 | 0.00 | 0.00 | 35.93 | 2.29 |
565 | 620 | 2.967362 | TCCGAATTACTTGTCGCACAT | 58.033 | 42.857 | 0.00 | 0.00 | 35.93 | 3.21 |
566 | 621 | 2.442212 | TCCGAATTACTTGTCGCACA | 57.558 | 45.000 | 0.00 | 0.00 | 35.93 | 4.57 |
567 | 622 | 2.471749 | CGTTCCGAATTACTTGTCGCAC | 60.472 | 50.000 | 0.00 | 0.00 | 35.93 | 5.34 |
568 | 623 | 1.722464 | CGTTCCGAATTACTTGTCGCA | 59.278 | 47.619 | 0.00 | 0.00 | 35.93 | 5.10 |
569 | 624 | 1.060122 | CCGTTCCGAATTACTTGTCGC | 59.940 | 52.381 | 0.00 | 0.00 | 35.93 | 5.19 |
570 | 625 | 2.597305 | CTCCGTTCCGAATTACTTGTCG | 59.403 | 50.000 | 0.00 | 0.00 | 37.01 | 4.35 |
571 | 626 | 2.928116 | CCTCCGTTCCGAATTACTTGTC | 59.072 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
572 | 627 | 2.354403 | CCCTCCGTTCCGAATTACTTGT | 60.354 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
573 | 628 | 2.093869 | TCCCTCCGTTCCGAATTACTTG | 60.094 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
574 | 629 | 2.167900 | CTCCCTCCGTTCCGAATTACTT | 59.832 | 50.000 | 0.00 | 0.00 | 0.00 | 2.24 |
575 | 630 | 1.755380 | CTCCCTCCGTTCCGAATTACT | 59.245 | 52.381 | 0.00 | 0.00 | 0.00 | 2.24 |
576 | 631 | 1.479730 | ACTCCCTCCGTTCCGAATTAC | 59.520 | 52.381 | 0.00 | 0.00 | 0.00 | 1.89 |
577 | 632 | 1.856629 | ACTCCCTCCGTTCCGAATTA | 58.143 | 50.000 | 0.00 | 0.00 | 0.00 | 1.40 |
578 | 633 | 1.755380 | CTACTCCCTCCGTTCCGAATT | 59.245 | 52.381 | 0.00 | 0.00 | 0.00 | 2.17 |
579 | 634 | 1.400737 | CTACTCCCTCCGTTCCGAAT | 58.599 | 55.000 | 0.00 | 0.00 | 0.00 | 3.34 |
580 | 635 | 0.682209 | CCTACTCCCTCCGTTCCGAA | 60.682 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
581 | 636 | 1.077212 | CCTACTCCCTCCGTTCCGA | 60.077 | 63.158 | 0.00 | 0.00 | 0.00 | 4.55 |
582 | 637 | 1.379576 | ACCTACTCCCTCCGTTCCG | 60.380 | 63.158 | 0.00 | 0.00 | 0.00 | 4.30 |
583 | 638 | 0.033306 | AGACCTACTCCCTCCGTTCC | 60.033 | 60.000 | 0.00 | 0.00 | 0.00 | 3.62 |
584 | 639 | 1.849977 | AAGACCTACTCCCTCCGTTC | 58.150 | 55.000 | 0.00 | 0.00 | 0.00 | 3.95 |
585 | 640 | 3.095332 | GTTAAGACCTACTCCCTCCGTT | 58.905 | 50.000 | 0.00 | 0.00 | 0.00 | 4.44 |
586 | 641 | 2.311243 | AGTTAAGACCTACTCCCTCCGT | 59.689 | 50.000 | 0.00 | 0.00 | 0.00 | 4.69 |
587 | 642 | 2.688958 | CAGTTAAGACCTACTCCCTCCG | 59.311 | 54.545 | 0.00 | 0.00 | 0.00 | 4.63 |
588 | 643 | 3.978610 | TCAGTTAAGACCTACTCCCTCC | 58.021 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
589 | 644 | 5.018149 | AGTTCAGTTAAGACCTACTCCCTC | 58.982 | 45.833 | 0.00 | 0.00 | 0.00 | 4.30 |
590 | 645 | 4.773149 | CAGTTCAGTTAAGACCTACTCCCT | 59.227 | 45.833 | 0.00 | 0.00 | 0.00 | 4.20 |
591 | 646 | 4.771054 | TCAGTTCAGTTAAGACCTACTCCC | 59.229 | 45.833 | 0.00 | 0.00 | 0.00 | 4.30 |
592 | 647 | 5.979288 | TCAGTTCAGTTAAGACCTACTCC | 57.021 | 43.478 | 0.00 | 0.00 | 0.00 | 3.85 |
593 | 648 | 6.869388 | CCTTTCAGTTCAGTTAAGACCTACTC | 59.131 | 42.308 | 0.00 | 0.00 | 0.00 | 2.59 |
594 | 649 | 6.326843 | ACCTTTCAGTTCAGTTAAGACCTACT | 59.673 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
617 | 672 | 5.065218 | CACATCCTTGCTACATGAAGTTACC | 59.935 | 44.000 | 0.00 | 0.00 | 0.00 | 2.85 |
620 | 675 | 4.910195 | TCACATCCTTGCTACATGAAGTT | 58.090 | 39.130 | 0.00 | 0.00 | 0.00 | 2.66 |
672 | 727 | 8.207350 | TCCATATGTTCCCTATTCCTAAAGAG | 57.793 | 38.462 | 1.24 | 0.00 | 0.00 | 2.85 |
679 | 734 | 7.472100 | CGATAGGATCCATATGTTCCCTATTCC | 60.472 | 44.444 | 15.82 | 11.86 | 37.18 | 3.01 |
778 | 3091 | 5.700832 | CGTGCATAATTTCCCAGAAGCTATA | 59.299 | 40.000 | 0.00 | 0.00 | 0.00 | 1.31 |
779 | 3092 | 4.516698 | CGTGCATAATTTCCCAGAAGCTAT | 59.483 | 41.667 | 0.00 | 0.00 | 0.00 | 2.97 |
803 | 3116 | 3.849574 | TGGGTCATCTATCCCTGTTCAAA | 59.150 | 43.478 | 0.00 | 0.00 | 43.74 | 2.69 |
808 | 3121 | 2.248686 | AGTCTGGGTCATCTATCCCTGT | 59.751 | 50.000 | 0.00 | 0.00 | 43.74 | 4.00 |
813 | 3126 | 2.036992 | CCTGCAGTCTGGGTCATCTATC | 59.963 | 54.545 | 13.81 | 0.00 | 0.00 | 2.08 |
818 | 3131 | 2.304056 | CCCCTGCAGTCTGGGTCAT | 61.304 | 63.158 | 16.29 | 0.00 | 46.73 | 3.06 |
875 | 3189 | 9.553064 | ACTGATTAGAAGATATTTTCAATCGCT | 57.447 | 29.630 | 8.56 | 3.29 | 32.91 | 4.93 |
876 | 3190 | 9.591404 | CACTGATTAGAAGATATTTTCAATCGC | 57.409 | 33.333 | 8.56 | 0.00 | 32.91 | 4.58 |
886 | 3200 | 7.288852 | AGTGCTGTACCACTGATTAGAAGATAT | 59.711 | 37.037 | 4.22 | 0.00 | 44.00 | 1.63 |
936 | 3250 | 3.437049 | GCTCCGTCTGCTACAATTTTCTT | 59.563 | 43.478 | 0.00 | 0.00 | 0.00 | 2.52 |
946 | 3260 | 1.038130 | GGAGGAAGCTCCGTCTGCTA | 61.038 | 60.000 | 0.00 | 0.00 | 42.75 | 3.49 |
947 | 3261 | 2.355193 | GGAGGAAGCTCCGTCTGCT | 61.355 | 63.158 | 0.00 | 0.00 | 42.75 | 4.24 |
948 | 3262 | 2.185608 | GGAGGAAGCTCCGTCTGC | 59.814 | 66.667 | 0.00 | 0.00 | 42.75 | 4.26 |
954 | 3268 | 2.039084 | TGTTGAAGAAGGAGGAAGCTCC | 59.961 | 50.000 | 0.00 | 0.00 | 43.65 | 4.70 |
956 | 3270 | 3.117888 | TGTTGTTGAAGAAGGAGGAAGCT | 60.118 | 43.478 | 0.00 | 0.00 | 0.00 | 3.74 |
957 | 3271 | 3.214328 | TGTTGTTGAAGAAGGAGGAAGC | 58.786 | 45.455 | 0.00 | 0.00 | 0.00 | 3.86 |
960 | 3274 | 4.771114 | TTCTGTTGTTGAAGAAGGAGGA | 57.229 | 40.909 | 0.00 | 0.00 | 0.00 | 3.71 |
970 | 3296 | 4.199310 | CTGGTCTTCCTTTCTGTTGTTGA | 58.801 | 43.478 | 0.00 | 0.00 | 34.23 | 3.18 |
1011 | 3337 | 2.585330 | TGGATCAAAGAAGCAAGCACA | 58.415 | 42.857 | 0.00 | 0.00 | 0.00 | 4.57 |
1093 | 3419 | 1.153647 | GCCATCCGACATCACGACA | 60.154 | 57.895 | 0.00 | 0.00 | 35.09 | 4.35 |
1116 | 3442 | 1.773054 | GCATGCTGTGGAGCTCATCG | 61.773 | 60.000 | 17.19 | 1.57 | 46.39 | 3.84 |
1177 | 3503 | 3.011635 | ATGCTTCTCTGGCGACGCT | 62.012 | 57.895 | 20.77 | 0.00 | 0.00 | 5.07 |
1200 | 3526 | 3.976339 | GATGTCCCTCATCTGGTCG | 57.024 | 57.895 | 0.00 | 0.00 | 46.64 | 4.79 |
1229 | 3555 | 2.016393 | GATGTCGATGGCGTCCTCCA | 62.016 | 60.000 | 0.14 | 0.00 | 40.97 | 3.86 |
1260 | 3586 | 0.239347 | CACAGCAGCCTTGTACTTGC | 59.761 | 55.000 | 0.00 | 0.00 | 36.83 | 4.01 |
1299 | 3625 | 2.124151 | GCCCCGACATCATGCCTT | 60.124 | 61.111 | 0.00 | 0.00 | 0.00 | 4.35 |
1308 | 3634 | 3.147595 | CTGATCCGAGCCCCGACA | 61.148 | 66.667 | 0.00 | 0.00 | 41.76 | 4.35 |
1395 | 3721 | 4.818546 | CCATGGATCCACTTATCACTTGAC | 59.181 | 45.833 | 18.99 | 0.00 | 0.00 | 3.18 |
1728 | 4054 | 3.079578 | CAATTCTTGGAGCTGCTTCTCA | 58.920 | 45.455 | 9.76 | 3.51 | 34.84 | 3.27 |
1881 | 4207 | 3.044059 | GCCAGACACAGCGGCATTC | 62.044 | 63.158 | 1.45 | 0.00 | 45.52 | 2.67 |
1894 | 4220 | 0.250467 | GCACCTTCAACTGAGCCAGA | 60.250 | 55.000 | 8.91 | 0.00 | 35.18 | 3.86 |
1911 | 4237 | 3.381189 | CTGCTGTACAGTGCTCTTTGCA | 61.381 | 50.000 | 23.44 | 11.91 | 43.14 | 4.08 |
1965 | 4291 | 5.488645 | AGAATGCCTTTTTGCAAAACAAG | 57.511 | 34.783 | 23.79 | 18.37 | 45.84 | 3.16 |
2138 | 4464 | 6.060136 | CCATTGCTTAGATCCTTCTGAATGA | 58.940 | 40.000 | 0.00 | 0.00 | 33.17 | 2.57 |
2217 | 4543 | 4.081309 | AGCAGCATAAAACATGGCTTCAAT | 60.081 | 37.500 | 0.00 | 0.00 | 33.60 | 2.57 |
2301 | 4627 | 4.382577 | GCCTTTTCTTTCACAAACCCTTCA | 60.383 | 41.667 | 0.00 | 0.00 | 0.00 | 3.02 |
2332 | 4658 | 5.049129 | ACTTCTCTGCAGTAATTTCAAGTGC | 60.049 | 40.000 | 14.67 | 0.37 | 42.47 | 4.40 |
2387 | 4713 | 2.032981 | CTTGCCGTTGCCACTTCTT | 58.967 | 52.632 | 0.00 | 0.00 | 36.33 | 2.52 |
2441 | 4767 | 6.266323 | CAAATGGCAAGATCATGAAGAAGAG | 58.734 | 40.000 | 0.00 | 0.00 | 0.00 | 2.85 |
2499 | 4825 | 1.075374 | ACACTTGGGCCTTTATCAGCA | 59.925 | 47.619 | 4.53 | 0.00 | 0.00 | 4.41 |
2672 | 4998 | 5.954150 | AGCATGTTACCATCTTCAAAATCCT | 59.046 | 36.000 | 0.00 | 0.00 | 0.00 | 3.24 |
2787 | 5113 | 6.042638 | AGAGTTTGCAAGTGATAGAGCTTA | 57.957 | 37.500 | 0.00 | 0.00 | 0.00 | 3.09 |
2832 | 5158 | 8.633408 | CATTTGATTTGAAACGTGATTCTCTTC | 58.367 | 33.333 | 0.00 | 0.00 | 0.00 | 2.87 |
2912 | 5238 | 4.559862 | AGCTGATTAAATCCTATCGGGG | 57.440 | 45.455 | 0.00 | 0.00 | 35.33 | 5.73 |
3034 | 5360 | 5.069501 | AGCTCTTTGGCATCTTCATTTTC | 57.930 | 39.130 | 0.00 | 0.00 | 34.17 | 2.29 |
3086 | 5412 | 6.183360 | GCTAGGGAAGATGGATAGGTATGATG | 60.183 | 46.154 | 0.00 | 0.00 | 0.00 | 3.07 |
3571 | 5897 | 3.784202 | ACCCTTATAAAATCGTCCCCACT | 59.216 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
3576 | 5902 | 6.746745 | TGTTTGACCCTTATAAAATCGTCC | 57.253 | 37.500 | 0.00 | 0.00 | 0.00 | 4.79 |
3579 | 5905 | 9.893305 | GGAATATGTTTGACCCTTATAAAATCG | 57.107 | 33.333 | 0.00 | 0.00 | 0.00 | 3.34 |
3596 | 5922 | 9.902684 | GAATGATCTGGATAGATGGAATATGTT | 57.097 | 33.333 | 0.00 | 0.00 | 43.63 | 2.71 |
3636 | 5962 | 6.951198 | TCTTATTTGCAGGACAATTTTAGGGA | 59.049 | 34.615 | 0.00 | 0.00 | 38.31 | 4.20 |
3673 | 5999 | 9.809096 | GTCTTGTCAACTCTTAAGATATCATCA | 57.191 | 33.333 | 5.44 | 0.00 | 32.44 | 3.07 |
3676 | 6002 | 9.645059 | CAAGTCTTGTCAACTCTTAAGATATCA | 57.355 | 33.333 | 5.44 | 0.00 | 32.44 | 2.15 |
3677 | 6003 | 9.862371 | TCAAGTCTTGTCAACTCTTAAGATATC | 57.138 | 33.333 | 12.30 | 0.00 | 32.44 | 1.63 |
3679 | 6005 | 9.698309 | CTTCAAGTCTTGTCAACTCTTAAGATA | 57.302 | 33.333 | 12.30 | 0.00 | 32.44 | 1.98 |
3680 | 6006 | 8.424918 | TCTTCAAGTCTTGTCAACTCTTAAGAT | 58.575 | 33.333 | 12.30 | 0.00 | 32.44 | 2.40 |
3681 | 6007 | 7.782049 | TCTTCAAGTCTTGTCAACTCTTAAGA | 58.218 | 34.615 | 12.30 | 4.81 | 0.00 | 2.10 |
3682 | 6008 | 8.494347 | CATCTTCAAGTCTTGTCAACTCTTAAG | 58.506 | 37.037 | 12.30 | 0.00 | 0.00 | 1.85 |
3683 | 6009 | 8.204160 | TCATCTTCAAGTCTTGTCAACTCTTAA | 58.796 | 33.333 | 12.30 | 0.00 | 0.00 | 1.85 |
3684 | 6010 | 7.726216 | TCATCTTCAAGTCTTGTCAACTCTTA | 58.274 | 34.615 | 12.30 | 0.00 | 0.00 | 2.10 |
3685 | 6011 | 6.586344 | TCATCTTCAAGTCTTGTCAACTCTT | 58.414 | 36.000 | 12.30 | 0.00 | 0.00 | 2.85 |
3686 | 6012 | 6.166984 | TCATCTTCAAGTCTTGTCAACTCT | 57.833 | 37.500 | 12.30 | 0.00 | 0.00 | 3.24 |
3690 | 6016 | 9.322773 | GATATCATCATCTTCAAGTCTTGTCAA | 57.677 | 33.333 | 12.30 | 0.00 | 0.00 | 3.18 |
3859 | 6199 | 5.278266 | GCACCTTTCAGCTAAAATGTACACA | 60.278 | 40.000 | 0.00 | 0.00 | 0.00 | 3.72 |
3921 | 6261 | 6.349973 | TGCTAACATATTCGAAGAAGCTTG | 57.650 | 37.500 | 2.10 | 3.23 | 45.90 | 4.01 |
3927 | 6267 | 8.630037 | TCTACTGATTGCTAACATATTCGAAGA | 58.370 | 33.333 | 3.35 | 0.00 | 0.00 | 2.87 |
3931 | 6271 | 9.803130 | CAATTCTACTGATTGCTAACATATTCG | 57.197 | 33.333 | 0.00 | 0.00 | 0.00 | 3.34 |
4067 | 6407 | 6.841443 | TTACACGAGTTTCGGAATAAAACA | 57.159 | 33.333 | 3.37 | 0.00 | 45.59 | 2.83 |
4118 | 6458 | 9.582431 | GTAATGTACAACTACTGCAGAAGATAA | 57.418 | 33.333 | 23.35 | 0.00 | 0.00 | 1.75 |
4136 | 6476 | 8.235359 | AGGAACATGAGGTACTAGTAATGTAC | 57.765 | 38.462 | 15.14 | 12.13 | 41.55 | 2.90 |
4167 | 6507 | 2.907910 | CTTCACCGGAGAAGCATTTG | 57.092 | 50.000 | 25.56 | 5.42 | 38.64 | 2.32 |
4173 | 6513 | 0.603707 | TTGCTGCTTCACCGGAGAAG | 60.604 | 55.000 | 30.50 | 30.50 | 46.06 | 2.85 |
4178 | 6518 | 1.453155 | ATACTTTGCTGCTTCACCGG | 58.547 | 50.000 | 0.00 | 0.00 | 0.00 | 5.28 |
4180 | 6520 | 3.375299 | CACCTATACTTTGCTGCTTCACC | 59.625 | 47.826 | 0.00 | 0.00 | 0.00 | 4.02 |
4203 | 6543 | 6.479990 | TCAGCTTTGGATGAGTATATCAAACG | 59.520 | 38.462 | 0.00 | 0.00 | 42.53 | 3.60 |
4237 | 6577 | 0.247576 | CGAATTGCTCTTCTGCTGCG | 60.248 | 55.000 | 0.00 | 0.00 | 0.00 | 5.18 |
4442 | 6783 | 6.096705 | TGGAAGCTTTGAAATTTGACTTCTGA | 59.903 | 34.615 | 0.00 | 0.00 | 34.06 | 3.27 |
4443 | 6784 | 6.275335 | TGGAAGCTTTGAAATTTGACTTCTG | 58.725 | 36.000 | 0.00 | 0.00 | 34.06 | 3.02 |
4527 | 6869 | 9.421806 | CTGCCTACAAATGAACATATTTTGAAA | 57.578 | 29.630 | 4.27 | 0.00 | 0.00 | 2.69 |
4548 | 6890 | 4.399004 | TTGTTTTGTTTATGTGCTGCCT | 57.601 | 36.364 | 0.00 | 0.00 | 0.00 | 4.75 |
4558 | 6900 | 6.197364 | AGATCCACACGTTTGTTTTGTTTA | 57.803 | 33.333 | 0.36 | 0.00 | 31.66 | 2.01 |
4588 | 6930 | 9.807921 | TGTGGATCTATATAGATGTACTGTCAA | 57.192 | 33.333 | 26.47 | 5.29 | 42.79 | 3.18 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.