Multiple sequence alignment - TraesCS1B01G216000

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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 TraesCS1B01G216000 chr1B 100.000 2316 0 0 432 2747 391962429 391960114 0.000000e+00 4277.0
1 TraesCS1B01G216000 chr1B 85.185 108 12 4 1474 1579 533748202 533748307 1.040000e-19 108.0
2 TraesCS1B01G216000 chr1B 100.000 41 0 0 1 41 391962860 391962820 2.930000e-10 76.8
3 TraesCS1B01G216000 chr1D 96.540 1532 22 10 627 2148 290706575 290705065 0.000000e+00 2507.0
4 TraesCS1B01G216000 chr1D 92.462 597 40 4 2152 2747 290704413 290703821 0.000000e+00 848.0
5 TraesCS1B01G216000 chr1D 83.929 168 20 5 2380 2544 351733821 351733984 1.320000e-33 154.0
6 TraesCS1B01G216000 chr1D 83.333 108 14 4 1474 1579 398246673 398246778 2.250000e-16 97.1
7 TraesCS1B01G216000 chr1A 95.483 1572 37 14 622 2177 363007585 363006032 0.000000e+00 2479.0
8 TraesCS1B01G216000 chr1A 85.185 108 12 4 1474 1579 495306913 495307018 1.040000e-19 108.0
9 TraesCS1B01G216000 chr1A 88.235 85 8 2 2664 2747 390105234 390105317 1.740000e-17 100.0
10 TraesCS1B01G216000 chr7B 90.104 192 16 2 432 621 673580604 673580414 2.110000e-61 246.0
11 TraesCS1B01G216000 chr7B 88.021 192 21 1 432 621 726751099 726750908 2.750000e-55 226.0
12 TraesCS1B01G216000 chr7B 87.293 181 20 2 432 610 475653332 475653511 1.290000e-48 204.0
13 TraesCS1B01G216000 chr7B 89.157 83 8 1 2665 2747 646617917 646617836 4.840000e-18 102.0
14 TraesCS1B01G216000 chr7B 97.561 41 1 0 1 41 673580673 673580633 1.360000e-08 71.3
15 TraesCS1B01G216000 chr6B 88.021 192 21 1 432 621 707152899 707152708 2.750000e-55 226.0
16 TraesCS1B01G216000 chr6B 90.000 80 6 2 2664 2742 38875789 38875711 4.840000e-18 102.0
17 TraesCS1B01G216000 chr2B 87.368 190 21 2 434 621 717630502 717630690 5.960000e-52 215.0
18 TraesCS1B01G216000 chr2B 86.458 192 23 2 432 621 768552871 768553061 9.970000e-50 207.0
19 TraesCS1B01G216000 chr4B 88.235 170 18 1 432 599 605845746 605845915 4.640000e-48 202.0
20 TraesCS1B01G216000 chr4D 85.492 193 25 2 432 622 148420607 148420416 6.000000e-47 198.0
21 TraesCS1B01G216000 chr4D 89.873 79 7 1 2670 2747 414683027 414682949 1.740000e-17 100.0
22 TraesCS1B01G216000 chr3D 83.333 204 29 5 432 631 83932630 83932832 1.680000e-42 183.0
23 TraesCS1B01G216000 chr7A 94.366 71 4 0 2677 2747 426580861 426580791 2.890000e-20 110.0
24 TraesCS1B01G216000 chr2D 89.412 85 8 1 2664 2747 355103372 355103456 3.740000e-19 106.0
25 TraesCS1B01G216000 chr2D 88.608 79 9 0 2669 2747 588657004 588656926 2.250000e-16 97.1
26 TraesCS1B01G216000 chr2A 88.235 85 8 2 2664 2747 173352027 173352110 1.740000e-17 100.0


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 TraesCS1B01G216000 chr1B 391960114 391962860 2746 True 2176.9 4277 100.000 1 2747 2 chr1B.!!$R1 2746
1 TraesCS1B01G216000 chr1D 290703821 290706575 2754 True 1677.5 2507 94.501 627 2747 2 chr1D.!!$R1 2120
2 TraesCS1B01G216000 chr1A 363006032 363007585 1553 True 2479.0 2479 95.483 622 2177 1 chr1A.!!$R1 1555

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
22 23 0.034896 TTGGAGCGACTGGTTTCCTC 59.965 55.0 0.0 0.00 0.0 3.71 F
469 470 0.107017 CACCTGATAAGTGGGCCCTG 60.107 60.0 25.7 4.39 0.0 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1275 1279 3.116174 TGTAGTACCATGGTTATGCCCA 58.884 45.455 25.38 9.92 39.27 5.36 R
2250 2915 1.798813 GCCACTACTCCACAACTTTCG 59.201 52.381 0.00 0.00 0.00 3.46 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
17 18 2.030562 CGGTTGGAGCGACTGGTT 59.969 61.111 0.00 0.00 42.41 3.67
18 19 1.597027 CGGTTGGAGCGACTGGTTT 60.597 57.895 0.00 0.00 42.41 3.27
19 20 1.566018 CGGTTGGAGCGACTGGTTTC 61.566 60.000 0.00 0.00 42.41 2.78
20 21 1.235281 GGTTGGAGCGACTGGTTTCC 61.235 60.000 0.00 0.00 0.00 3.13
21 22 0.250338 GTTGGAGCGACTGGTTTCCT 60.250 55.000 0.00 0.00 0.00 3.36
22 23 0.034896 TTGGAGCGACTGGTTTCCTC 59.965 55.000 0.00 0.00 0.00 3.71
23 24 1.079057 GGAGCGACTGGTTTCCTCC 60.079 63.158 0.00 0.00 35.75 4.30
24 25 1.079057 GAGCGACTGGTTTCCTCCC 60.079 63.158 0.00 0.00 0.00 4.30
25 26 2.046217 GCGACTGGTTTCCTCCCC 60.046 66.667 0.00 0.00 0.00 4.81
26 27 2.593956 GCGACTGGTTTCCTCCCCT 61.594 63.158 0.00 0.00 0.00 4.79
27 28 1.296715 CGACTGGTTTCCTCCCCTG 59.703 63.158 0.00 0.00 0.00 4.45
28 29 1.002011 GACTGGTTTCCTCCCCTGC 60.002 63.158 0.00 0.00 0.00 4.85
29 30 1.464198 ACTGGTTTCCTCCCCTGCT 60.464 57.895 0.00 0.00 0.00 4.24
30 31 1.068352 ACTGGTTTCCTCCCCTGCTT 61.068 55.000 0.00 0.00 0.00 3.91
31 32 0.322906 CTGGTTTCCTCCCCTGCTTC 60.323 60.000 0.00 0.00 0.00 3.86
32 33 0.772124 TGGTTTCCTCCCCTGCTTCT 60.772 55.000 0.00 0.00 0.00 2.85
33 34 0.322906 GGTTTCCTCCCCTGCTTCTG 60.323 60.000 0.00 0.00 0.00 3.02
34 35 0.962855 GTTTCCTCCCCTGCTTCTGC 60.963 60.000 0.00 0.00 40.20 4.26
35 36 1.136329 TTTCCTCCCCTGCTTCTGCT 61.136 55.000 0.00 0.00 40.48 4.24
36 37 1.845627 TTCCTCCCCTGCTTCTGCTG 61.846 60.000 0.00 0.00 40.48 4.41
458 459 2.889617 CCACGTCGGCACCTGATA 59.110 61.111 0.00 0.00 0.00 2.15
459 460 1.216977 CCACGTCGGCACCTGATAA 59.783 57.895 0.00 0.00 0.00 1.75
460 461 0.806102 CCACGTCGGCACCTGATAAG 60.806 60.000 0.00 0.00 0.00 1.73
461 462 0.108804 CACGTCGGCACCTGATAAGT 60.109 55.000 0.00 0.00 0.00 2.24
462 463 0.108804 ACGTCGGCACCTGATAAGTG 60.109 55.000 0.00 0.00 38.30 3.16
463 464 0.806102 CGTCGGCACCTGATAAGTGG 60.806 60.000 0.00 0.00 35.71 4.00
464 465 0.462047 GTCGGCACCTGATAAGTGGG 60.462 60.000 0.00 0.00 35.71 4.61
465 466 1.819632 CGGCACCTGATAAGTGGGC 60.820 63.158 0.00 0.00 35.71 5.36
466 467 1.453928 GGCACCTGATAAGTGGGCC 60.454 63.158 0.00 0.00 35.71 5.80
467 468 1.453928 GCACCTGATAAGTGGGCCC 60.454 63.158 17.59 17.59 35.71 5.80
468 469 1.926426 GCACCTGATAAGTGGGCCCT 61.926 60.000 25.70 5.02 35.71 5.19
469 470 0.107017 CACCTGATAAGTGGGCCCTG 60.107 60.000 25.70 4.39 0.00 4.45
470 471 1.152881 CCTGATAAGTGGGCCCTGC 60.153 63.158 25.70 16.20 0.00 4.85
480 481 3.161450 GGCCCTGCCGGTCAGATA 61.161 66.667 22.49 0.00 45.72 1.98
481 482 2.109181 GCCCTGCCGGTCAGATAC 59.891 66.667 22.49 10.65 45.72 2.24
482 483 2.731571 GCCCTGCCGGTCAGATACA 61.732 63.158 22.49 1.81 45.72 2.29
483 484 1.144057 CCCTGCCGGTCAGATACAC 59.856 63.158 22.49 0.00 45.72 2.90
484 485 1.144057 CCTGCCGGTCAGATACACC 59.856 63.158 22.49 0.00 45.72 4.16
493 494 4.380841 GGTCAGATACACCGTCAATACA 57.619 45.455 0.00 0.00 0.00 2.29
494 495 4.945246 GGTCAGATACACCGTCAATACAT 58.055 43.478 0.00 0.00 0.00 2.29
495 496 4.745125 GGTCAGATACACCGTCAATACATG 59.255 45.833 0.00 0.00 0.00 3.21
496 497 5.348986 GTCAGATACACCGTCAATACATGT 58.651 41.667 2.69 2.69 0.00 3.21
497 498 5.810587 GTCAGATACACCGTCAATACATGTT 59.189 40.000 2.30 0.00 0.00 2.71
498 499 6.312918 GTCAGATACACCGTCAATACATGTTT 59.687 38.462 2.30 0.00 0.00 2.83
499 500 7.490079 GTCAGATACACCGTCAATACATGTTTA 59.510 37.037 2.30 0.00 0.00 2.01
500 501 8.201464 TCAGATACACCGTCAATACATGTTTAT 58.799 33.333 2.30 0.00 0.00 1.40
501 502 9.471084 CAGATACACCGTCAATACATGTTTATA 57.529 33.333 2.30 0.00 0.00 0.98
502 503 9.472361 AGATACACCGTCAATACATGTTTATAC 57.528 33.333 2.30 0.00 0.00 1.47
503 504 6.578020 ACACCGTCAATACATGTTTATACG 57.422 37.500 2.30 9.85 0.00 3.06
504 505 5.005971 ACACCGTCAATACATGTTTATACGC 59.994 40.000 2.30 0.00 0.00 4.42
505 506 4.207635 ACCGTCAATACATGTTTATACGCG 59.792 41.667 2.30 3.53 0.00 6.01
506 507 4.441744 CCGTCAATACATGTTTATACGCGA 59.558 41.667 15.93 0.00 0.00 5.87
507 508 5.118050 CCGTCAATACATGTTTATACGCGAT 59.882 40.000 15.93 4.50 0.00 4.58
508 509 6.346279 CCGTCAATACATGTTTATACGCGATT 60.346 38.462 15.93 1.06 0.00 3.34
509 510 7.061027 CGTCAATACATGTTTATACGCGATTT 58.939 34.615 15.93 0.00 0.00 2.17
510 511 8.209214 CGTCAATACATGTTTATACGCGATTTA 58.791 33.333 15.93 0.00 0.00 1.40
511 512 9.512287 GTCAATACATGTTTATACGCGATTTAG 57.488 33.333 15.93 0.00 0.00 1.85
512 513 9.465985 TCAATACATGTTTATACGCGATTTAGA 57.534 29.630 15.93 0.00 0.00 2.10
513 514 9.512287 CAATACATGTTTATACGCGATTTAGAC 57.488 33.333 15.93 7.24 0.00 2.59
514 515 6.520792 ACATGTTTATACGCGATTTAGACC 57.479 37.500 15.93 0.00 0.00 3.85
515 516 6.278363 ACATGTTTATACGCGATTTAGACCT 58.722 36.000 15.93 0.00 0.00 3.85
516 517 6.759827 ACATGTTTATACGCGATTTAGACCTT 59.240 34.615 15.93 0.00 0.00 3.50
517 518 7.279313 ACATGTTTATACGCGATTTAGACCTTT 59.721 33.333 15.93 0.00 0.00 3.11
518 519 7.599630 TGTTTATACGCGATTTAGACCTTTT 57.400 32.000 15.93 0.00 0.00 2.27
519 520 8.031848 TGTTTATACGCGATTTAGACCTTTTT 57.968 30.769 15.93 0.00 0.00 1.94
520 521 9.149225 TGTTTATACGCGATTTAGACCTTTTTA 57.851 29.630 15.93 0.00 0.00 1.52
523 524 9.531942 TTATACGCGATTTAGACCTTTTTATGA 57.468 29.630 15.93 0.00 0.00 2.15
524 525 6.103222 ACGCGATTTAGACCTTTTTATGAC 57.897 37.500 15.93 0.00 0.00 3.06
525 526 5.188194 CGCGATTTAGACCTTTTTATGACG 58.812 41.667 0.00 0.00 0.00 4.35
526 527 5.499047 GCGATTTAGACCTTTTTATGACGG 58.501 41.667 0.00 0.00 0.00 4.79
527 528 5.499047 CGATTTAGACCTTTTTATGACGGC 58.501 41.667 0.00 0.00 0.00 5.68
528 529 5.293569 CGATTTAGACCTTTTTATGACGGCT 59.706 40.000 0.00 0.00 0.00 5.52
529 530 6.477688 CGATTTAGACCTTTTTATGACGGCTA 59.522 38.462 0.00 0.00 0.00 3.93
530 531 7.306632 CGATTTAGACCTTTTTATGACGGCTAG 60.307 40.741 0.00 0.00 0.00 3.42
531 532 3.532542 AGACCTTTTTATGACGGCTAGC 58.467 45.455 6.04 6.04 0.00 3.42
532 533 2.612672 GACCTTTTTATGACGGCTAGCC 59.387 50.000 24.75 24.75 0.00 3.93
533 534 1.947456 CCTTTTTATGACGGCTAGCCC 59.053 52.381 28.09 15.42 0.00 5.19
534 535 2.421529 CCTTTTTATGACGGCTAGCCCT 60.422 50.000 28.09 17.08 0.00 5.19
535 536 3.181458 CCTTTTTATGACGGCTAGCCCTA 60.181 47.826 28.09 14.52 0.00 3.53
536 537 3.746045 TTTTATGACGGCTAGCCCTAG 57.254 47.619 28.09 16.49 36.29 3.02
537 538 2.670019 TTATGACGGCTAGCCCTAGA 57.330 50.000 28.09 9.93 35.21 2.43
538 539 1.906990 TATGACGGCTAGCCCTAGAC 58.093 55.000 28.09 14.53 37.83 2.59
542 543 4.916358 GGCTAGCCCTAGACGGTA 57.084 61.111 24.19 0.00 35.21 4.02
543 544 2.339403 GGCTAGCCCTAGACGGTAC 58.661 63.158 24.19 0.00 35.21 3.34
544 545 0.178995 GGCTAGCCCTAGACGGTACT 60.179 60.000 24.19 0.00 35.21 2.73
545 546 0.953003 GCTAGCCCTAGACGGTACTG 59.047 60.000 2.29 0.00 35.21 2.74
546 547 1.476471 GCTAGCCCTAGACGGTACTGA 60.476 57.143 9.17 0.00 35.21 3.41
547 548 2.220313 CTAGCCCTAGACGGTACTGAC 58.780 57.143 9.17 1.66 35.21 3.51
548 549 0.395448 AGCCCTAGACGGTACTGACC 60.395 60.000 9.17 0.00 43.03 4.02
549 550 1.390383 GCCCTAGACGGTACTGACCC 61.390 65.000 9.17 0.00 43.64 4.46
560 561 5.454736 CGGTACTGACCCGTAAAAATTAC 57.545 43.478 0.00 0.00 43.64 1.89
561 562 4.329801 CGGTACTGACCCGTAAAAATTACC 59.670 45.833 0.00 0.00 43.64 2.85
562 563 5.244755 GGTACTGACCCGTAAAAATTACCA 58.755 41.667 0.00 0.00 40.23 3.25
563 564 5.704978 GGTACTGACCCGTAAAAATTACCAA 59.295 40.000 0.00 0.00 40.23 3.67
564 565 6.206438 GGTACTGACCCGTAAAAATTACCAAA 59.794 38.462 0.00 0.00 40.23 3.28
565 566 6.075762 ACTGACCCGTAAAAATTACCAAAC 57.924 37.500 0.00 0.00 0.00 2.93
566 567 5.829391 ACTGACCCGTAAAAATTACCAAACT 59.171 36.000 0.00 0.00 0.00 2.66
567 568 6.321945 ACTGACCCGTAAAAATTACCAAACTT 59.678 34.615 0.00 0.00 0.00 2.66
568 569 6.505272 TGACCCGTAAAAATTACCAAACTTG 58.495 36.000 0.00 0.00 0.00 3.16
569 570 6.320672 TGACCCGTAAAAATTACCAAACTTGA 59.679 34.615 0.00 0.00 0.00 3.02
570 571 7.014422 TGACCCGTAAAAATTACCAAACTTGAT 59.986 33.333 0.00 0.00 0.00 2.57
571 572 8.406730 ACCCGTAAAAATTACCAAACTTGATA 57.593 30.769 0.00 0.00 0.00 2.15
572 573 9.027202 ACCCGTAAAAATTACCAAACTTGATAT 57.973 29.630 0.00 0.00 0.00 1.63
573 574 9.511144 CCCGTAAAAATTACCAAACTTGATATC 57.489 33.333 0.00 0.00 0.00 1.63
584 585 8.286191 ACCAAACTTGATATCAATCTTCTTCC 57.714 34.615 18.26 0.00 35.02 3.46
585 586 7.890127 ACCAAACTTGATATCAATCTTCTTCCA 59.110 33.333 18.26 0.00 35.02 3.53
586 587 8.742777 CCAAACTTGATATCAATCTTCTTCCAA 58.257 33.333 18.26 0.00 35.02 3.53
589 590 7.938715 ACTTGATATCAATCTTCTTCCAATGC 58.061 34.615 18.26 0.00 35.02 3.56
590 591 6.889301 TGATATCAATCTTCTTCCAATGCC 57.111 37.500 1.98 0.00 32.93 4.40
591 592 5.771666 TGATATCAATCTTCTTCCAATGCCC 59.228 40.000 1.98 0.00 32.93 5.36
592 593 2.738743 TCAATCTTCTTCCAATGCCCC 58.261 47.619 0.00 0.00 0.00 5.80
593 594 2.042842 TCAATCTTCTTCCAATGCCCCA 59.957 45.455 0.00 0.00 0.00 4.96
594 595 2.833338 CAATCTTCTTCCAATGCCCCAA 59.167 45.455 0.00 0.00 0.00 4.12
595 596 2.925966 TCTTCTTCCAATGCCCCAAT 57.074 45.000 0.00 0.00 0.00 3.16
596 597 3.188880 TCTTCTTCCAATGCCCCAATT 57.811 42.857 0.00 0.00 0.00 2.32
597 598 2.833338 TCTTCTTCCAATGCCCCAATTG 59.167 45.455 0.00 0.00 37.30 2.32
598 599 2.323999 TCTTCCAATGCCCCAATTGT 57.676 45.000 4.43 0.00 36.06 2.71
599 600 3.464720 TCTTCCAATGCCCCAATTGTA 57.535 42.857 4.43 0.00 36.06 2.41
600 601 3.784178 TCTTCCAATGCCCCAATTGTAA 58.216 40.909 4.43 0.00 36.06 2.41
601 602 4.360889 TCTTCCAATGCCCCAATTGTAAT 58.639 39.130 4.43 0.00 36.06 1.89
602 603 5.523588 TCTTCCAATGCCCCAATTGTAATA 58.476 37.500 4.43 0.00 36.06 0.98
603 604 5.598005 TCTTCCAATGCCCCAATTGTAATAG 59.402 40.000 4.43 0.00 36.06 1.73
604 605 4.877773 TCCAATGCCCCAATTGTAATAGT 58.122 39.130 4.43 0.00 36.06 2.12
605 606 5.276440 TCCAATGCCCCAATTGTAATAGTT 58.724 37.500 4.43 0.00 36.06 2.24
606 607 5.362430 TCCAATGCCCCAATTGTAATAGTTC 59.638 40.000 4.43 0.00 36.06 3.01
607 608 5.363580 CCAATGCCCCAATTGTAATAGTTCT 59.636 40.000 4.43 0.00 36.06 3.01
608 609 6.275335 CAATGCCCCAATTGTAATAGTTCTG 58.725 40.000 4.43 0.00 33.65 3.02
609 610 4.929479 TGCCCCAATTGTAATAGTTCTGT 58.071 39.130 4.43 0.00 0.00 3.41
610 611 6.068461 TGCCCCAATTGTAATAGTTCTGTA 57.932 37.500 4.43 0.00 0.00 2.74
611 612 5.883673 TGCCCCAATTGTAATAGTTCTGTAC 59.116 40.000 4.43 0.00 0.00 2.90
612 613 5.883673 GCCCCAATTGTAATAGTTCTGTACA 59.116 40.000 4.43 0.00 0.00 2.90
613 614 6.376018 GCCCCAATTGTAATAGTTCTGTACAA 59.624 38.462 4.43 10.85 40.83 2.41
614 615 7.068226 GCCCCAATTGTAATAGTTCTGTACAAT 59.932 37.037 4.43 13.20 45.73 2.71
709 710 4.051237 GTTTCTGAATCTGCACCCAAAAC 58.949 43.478 0.00 0.00 0.00 2.43
715 716 4.344679 TGAATCTGCACCCAAAACAAATCT 59.655 37.500 0.00 0.00 0.00 2.40
721 722 7.957002 TCTGCACCCAAAACAAATCTTTAATA 58.043 30.769 0.00 0.00 0.00 0.98
729 730 9.807649 CCAAAACAAATCTTTAATATCTCCCAG 57.192 33.333 0.00 0.00 0.00 4.45
905 906 0.968405 AACAATCGCAACCTGCCAAT 59.032 45.000 0.00 0.00 41.12 3.16
2142 2158 2.304761 TGGTGTGGAGAAATAGGTGGAC 59.695 50.000 0.00 0.00 0.00 4.02
2148 2164 3.000727 GGAGAAATAGGTGGACGTTGTG 58.999 50.000 0.00 0.00 0.00 3.33
2149 2165 3.306502 GGAGAAATAGGTGGACGTTGTGA 60.307 47.826 0.00 0.00 0.00 3.58
2150 2166 4.312443 GAGAAATAGGTGGACGTTGTGAA 58.688 43.478 0.00 0.00 0.00 3.18
2223 2887 4.012374 AGAAGTCGACAATGGCATGAAAT 58.988 39.130 19.50 0.00 0.00 2.17
2250 2915 3.381908 TCTCGTTGGAGAGAGAAATAGGC 59.618 47.826 0.00 0.00 44.28 3.93
2272 2937 2.550830 AAGTTGTGGAGTAGTGGCAG 57.449 50.000 0.00 0.00 0.00 4.85
2297 2962 8.993424 AGGTATGAATATCAAACTTCTGGTACT 58.007 33.333 0.00 0.00 0.00 2.73
2314 2979 7.506114 TCTGGTACTGAAAAACATGTAGAAGT 58.494 34.615 0.00 1.94 32.07 3.01
2315 2980 7.990886 TCTGGTACTGAAAAACATGTAGAAGTT 59.009 33.333 0.00 0.00 32.07 2.66
2323 2988 7.434897 TGAAAAACATGTAGAAGTTGACAATGC 59.565 33.333 0.00 0.00 0.00 3.56
2324 2989 6.389830 AAACATGTAGAAGTTGACAATGCA 57.610 33.333 0.00 0.00 0.00 3.96
2330 2995 6.671190 TGTAGAAGTTGACAATGCAATGAAG 58.329 36.000 9.20 0.00 0.00 3.02
2347 3012 6.514947 CAATGAAGATCTTTTTGGTGTGGAA 58.485 36.000 9.87 0.00 0.00 3.53
2405 3070 3.465403 CGGAGCTACAGCAGGGCT 61.465 66.667 3.70 0.00 45.16 5.19
2461 3126 6.036083 CGTTTGCTTGTATATAACAGTCAGCT 59.964 38.462 2.98 0.00 39.30 4.24
2471 3136 2.611800 AGTCAGCTCATGGGCCCA 60.612 61.111 30.92 30.92 0.00 5.36
2509 3174 2.093553 AGCATTTGTTTTGCAGTGTGGT 60.094 40.909 0.00 0.00 42.62 4.16
2511 3176 3.784338 CATTTGTTTTGCAGTGTGGTCT 58.216 40.909 0.00 0.00 0.00 3.85
2572 3237 7.504403 ACAGGTATGAAATATCAGACTTCTGG 58.496 38.462 6.40 0.00 45.12 3.86
2585 3250 4.932200 CAGACTTCTGGTATGGAGAAACAC 59.068 45.833 0.00 0.00 40.20 3.32
2612 3277 2.688364 GCTACAAAGGCACTCACAAC 57.312 50.000 0.00 0.00 38.49 3.32
2658 3323 3.184581 GGAATACTCGGATCATTTGTCGC 59.815 47.826 0.00 0.00 0.00 5.19
2667 3332 0.035820 TCATTTGTCGCTACACCCCC 60.036 55.000 0.00 0.00 34.61 5.40
2668 3333 0.035439 CATTTGTCGCTACACCCCCT 60.035 55.000 0.00 0.00 34.61 4.79
2669 3334 1.208535 CATTTGTCGCTACACCCCCTA 59.791 52.381 0.00 0.00 34.61 3.53
2673 3338 0.900421 GTCGCTACACCCCCTACTTT 59.100 55.000 0.00 0.00 0.00 2.66
2674 3339 1.134877 GTCGCTACACCCCCTACTTTC 60.135 57.143 0.00 0.00 0.00 2.62
2675 3340 1.192428 CGCTACACCCCCTACTTTCT 58.808 55.000 0.00 0.00 0.00 2.52
2688 3353 5.425539 CCCCTACTTTCTCTTGTGGATCTTA 59.574 44.000 0.00 0.00 0.00 2.10
2740 3405 3.798758 AGGTCACCTCAGAGCCAC 58.201 61.111 0.00 0.00 36.71 5.01
2742 3407 1.190833 AGGTCACCTCAGAGCCACAG 61.191 60.000 0.00 0.00 36.71 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.566018 GAAACCAGTCGCTCCAACCG 61.566 60.000 0.00 0.00 0.00 4.44
1 2 1.235281 GGAAACCAGTCGCTCCAACC 61.235 60.000 0.00 0.00 0.00 3.77
2 3 0.250338 AGGAAACCAGTCGCTCCAAC 60.250 55.000 0.00 0.00 0.00 3.77
3 4 0.034896 GAGGAAACCAGTCGCTCCAA 59.965 55.000 0.00 0.00 0.00 3.53
4 5 1.671742 GAGGAAACCAGTCGCTCCA 59.328 57.895 0.00 0.00 0.00 3.86
5 6 1.079057 GGAGGAAACCAGTCGCTCC 60.079 63.158 0.00 0.00 31.83 4.70
6 7 1.079057 GGGAGGAAACCAGTCGCTC 60.079 63.158 0.00 0.00 0.00 5.03
7 8 2.593956 GGGGAGGAAACCAGTCGCT 61.594 63.158 0.00 0.00 0.00 4.93
8 9 2.046217 GGGGAGGAAACCAGTCGC 60.046 66.667 0.00 0.00 0.00 5.19
9 10 1.296715 CAGGGGAGGAAACCAGTCG 59.703 63.158 0.00 0.00 0.00 4.18
10 11 1.002011 GCAGGGGAGGAAACCAGTC 60.002 63.158 0.00 0.00 0.00 3.51
11 12 1.068352 AAGCAGGGGAGGAAACCAGT 61.068 55.000 0.00 0.00 0.00 4.00
12 13 0.322906 GAAGCAGGGGAGGAAACCAG 60.323 60.000 0.00 0.00 0.00 4.00
13 14 0.772124 AGAAGCAGGGGAGGAAACCA 60.772 55.000 0.00 0.00 0.00 3.67
14 15 0.322906 CAGAAGCAGGGGAGGAAACC 60.323 60.000 0.00 0.00 0.00 3.27
15 16 0.962855 GCAGAAGCAGGGGAGGAAAC 60.963 60.000 0.00 0.00 41.58 2.78
16 17 1.136329 AGCAGAAGCAGGGGAGGAAA 61.136 55.000 0.00 0.00 45.49 3.13
17 18 1.539869 AGCAGAAGCAGGGGAGGAA 60.540 57.895 0.00 0.00 45.49 3.36
18 19 2.123632 AGCAGAAGCAGGGGAGGA 59.876 61.111 0.00 0.00 45.49 3.71
19 20 2.271497 CAGCAGAAGCAGGGGAGG 59.729 66.667 0.00 0.00 45.49 4.30
20 21 2.271497 CCAGCAGAAGCAGGGGAG 59.729 66.667 0.00 0.00 43.20 4.30
441 442 0.806102 CTTATCAGGTGCCGACGTGG 60.806 60.000 0.00 0.00 38.32 4.94
442 443 0.108804 ACTTATCAGGTGCCGACGTG 60.109 55.000 0.00 0.00 38.99 4.49
443 444 0.108804 CACTTATCAGGTGCCGACGT 60.109 55.000 0.00 0.00 0.00 4.34
444 445 0.806102 CCACTTATCAGGTGCCGACG 60.806 60.000 0.00 0.00 33.78 5.12
445 446 0.462047 CCCACTTATCAGGTGCCGAC 60.462 60.000 0.00 0.00 33.78 4.79
446 447 1.904771 CCCACTTATCAGGTGCCGA 59.095 57.895 0.00 0.00 33.78 5.54
447 448 1.819632 GCCCACTTATCAGGTGCCG 60.820 63.158 0.00 0.00 33.78 5.69
448 449 1.453928 GGCCCACTTATCAGGTGCC 60.454 63.158 0.00 0.00 35.23 5.01
449 450 1.453928 GGGCCCACTTATCAGGTGC 60.454 63.158 19.95 0.00 33.78 5.01
450 451 0.107017 CAGGGCCCACTTATCAGGTG 60.107 60.000 27.56 5.06 34.78 4.00
451 452 1.926426 GCAGGGCCCACTTATCAGGT 61.926 60.000 27.56 0.00 0.00 4.00
452 453 1.152881 GCAGGGCCCACTTATCAGG 60.153 63.158 27.56 2.27 0.00 3.86
453 454 1.152881 GGCAGGGCCCACTTATCAG 60.153 63.158 27.56 3.83 44.06 2.90
454 455 3.006677 GGCAGGGCCCACTTATCA 58.993 61.111 27.56 0.00 44.06 2.15
465 466 1.144057 GTGTATCTGACCGGCAGGG 59.856 63.158 20.90 0.00 44.98 4.45
466 467 1.144057 GGTGTATCTGACCGGCAGG 59.856 63.158 20.90 0.00 44.98 4.85
467 468 4.835927 GGTGTATCTGACCGGCAG 57.164 61.111 16.84 16.84 46.31 4.85
472 473 4.380841 TGTATTGACGGTGTATCTGACC 57.619 45.455 0.00 0.00 0.00 4.02
473 474 5.348986 ACATGTATTGACGGTGTATCTGAC 58.651 41.667 0.00 0.00 0.00 3.51
474 475 5.592104 ACATGTATTGACGGTGTATCTGA 57.408 39.130 0.00 0.00 0.00 3.27
475 476 6.662414 AAACATGTATTGACGGTGTATCTG 57.338 37.500 0.00 0.00 0.00 2.90
476 477 9.472361 GTATAAACATGTATTGACGGTGTATCT 57.528 33.333 0.00 0.00 0.00 1.98
477 478 8.422457 CGTATAAACATGTATTGACGGTGTATC 58.578 37.037 0.00 0.00 0.00 2.24
478 479 7.095940 GCGTATAAACATGTATTGACGGTGTAT 60.096 37.037 18.85 0.00 0.00 2.29
479 480 6.198778 GCGTATAAACATGTATTGACGGTGTA 59.801 38.462 18.85 0.00 0.00 2.90
480 481 5.005971 GCGTATAAACATGTATTGACGGTGT 59.994 40.000 18.85 0.00 0.00 4.16
481 482 5.428770 GCGTATAAACATGTATTGACGGTG 58.571 41.667 18.85 0.37 0.00 4.94
482 483 4.207635 CGCGTATAAACATGTATTGACGGT 59.792 41.667 18.85 0.00 0.00 4.83
483 484 4.441744 TCGCGTATAAACATGTATTGACGG 59.558 41.667 18.85 12.05 0.00 4.79
484 485 5.549207 TCGCGTATAAACATGTATTGACG 57.451 39.130 5.77 15.15 0.00 4.35
485 486 9.512287 CTAAATCGCGTATAAACATGTATTGAC 57.488 33.333 5.77 0.00 0.00 3.18
486 487 9.465985 TCTAAATCGCGTATAAACATGTATTGA 57.534 29.630 5.77 0.00 0.00 2.57
487 488 9.512287 GTCTAAATCGCGTATAAACATGTATTG 57.488 33.333 5.77 0.00 0.00 1.90
488 489 8.706035 GGTCTAAATCGCGTATAAACATGTATT 58.294 33.333 5.77 0.00 0.00 1.89
489 490 8.086522 AGGTCTAAATCGCGTATAAACATGTAT 58.913 33.333 5.77 0.00 0.00 2.29
490 491 7.428020 AGGTCTAAATCGCGTATAAACATGTA 58.572 34.615 5.77 0.00 0.00 2.29
491 492 6.278363 AGGTCTAAATCGCGTATAAACATGT 58.722 36.000 5.77 0.00 0.00 3.21
492 493 6.764877 AGGTCTAAATCGCGTATAAACATG 57.235 37.500 5.77 0.00 0.00 3.21
493 494 7.781548 AAAGGTCTAAATCGCGTATAAACAT 57.218 32.000 5.77 0.00 0.00 2.71
494 495 7.599630 AAAAGGTCTAAATCGCGTATAAACA 57.400 32.000 5.77 0.00 0.00 2.83
497 498 9.531942 TCATAAAAAGGTCTAAATCGCGTATAA 57.468 29.630 5.77 0.00 0.00 0.98
498 499 8.971321 GTCATAAAAAGGTCTAAATCGCGTATA 58.029 33.333 5.77 0.00 0.00 1.47
499 500 7.306399 CGTCATAAAAAGGTCTAAATCGCGTAT 60.306 37.037 5.77 0.00 0.00 3.06
500 501 6.020440 CGTCATAAAAAGGTCTAAATCGCGTA 60.020 38.462 5.77 0.00 0.00 4.42
501 502 5.220340 CGTCATAAAAAGGTCTAAATCGCGT 60.220 40.000 5.77 0.00 0.00 6.01
502 503 5.188194 CGTCATAAAAAGGTCTAAATCGCG 58.812 41.667 0.00 0.00 0.00 5.87
503 504 5.499047 CCGTCATAAAAAGGTCTAAATCGC 58.501 41.667 0.00 0.00 0.00 4.58
504 505 5.293569 AGCCGTCATAAAAAGGTCTAAATCG 59.706 40.000 0.00 0.00 0.00 3.34
505 506 6.679327 AGCCGTCATAAAAAGGTCTAAATC 57.321 37.500 0.00 0.00 0.00 2.17
506 507 6.260271 GCTAGCCGTCATAAAAAGGTCTAAAT 59.740 38.462 2.29 0.00 0.00 1.40
507 508 5.583457 GCTAGCCGTCATAAAAAGGTCTAAA 59.417 40.000 2.29 0.00 0.00 1.85
508 509 5.114081 GCTAGCCGTCATAAAAAGGTCTAA 58.886 41.667 2.29 0.00 0.00 2.10
509 510 4.442472 GGCTAGCCGTCATAAAAAGGTCTA 60.442 45.833 20.16 0.00 0.00 2.59
510 511 3.532542 GCTAGCCGTCATAAAAAGGTCT 58.467 45.455 2.29 0.00 0.00 3.85
511 512 2.612672 GGCTAGCCGTCATAAAAAGGTC 59.387 50.000 20.16 0.00 0.00 3.85
512 513 2.640184 GGCTAGCCGTCATAAAAAGGT 58.360 47.619 20.16 0.00 0.00 3.50
513 514 1.947456 GGGCTAGCCGTCATAAAAAGG 59.053 52.381 27.24 0.00 36.85 3.11
514 515 2.919228 AGGGCTAGCCGTCATAAAAAG 58.081 47.619 27.24 0.00 36.85 2.27
515 516 3.707611 TCTAGGGCTAGCCGTCATAAAAA 59.292 43.478 31.22 12.07 36.85 1.94
516 517 3.069158 GTCTAGGGCTAGCCGTCATAAAA 59.931 47.826 31.22 12.79 36.85 1.52
517 518 2.626743 GTCTAGGGCTAGCCGTCATAAA 59.373 50.000 31.22 13.52 36.85 1.40
518 519 2.236766 GTCTAGGGCTAGCCGTCATAA 58.763 52.381 31.22 13.90 36.85 1.90
519 520 1.881072 CGTCTAGGGCTAGCCGTCATA 60.881 57.143 31.22 17.26 36.85 2.15
520 521 1.173444 CGTCTAGGGCTAGCCGTCAT 61.173 60.000 31.22 17.06 36.85 3.06
521 522 1.822613 CGTCTAGGGCTAGCCGTCA 60.823 63.158 31.22 17.02 36.85 4.35
522 523 2.553727 CCGTCTAGGGCTAGCCGTC 61.554 68.421 31.22 16.81 33.26 4.79
523 524 1.987807 TACCGTCTAGGGCTAGCCGT 61.988 60.000 30.24 30.24 46.96 5.68
524 525 1.228063 TACCGTCTAGGGCTAGCCG 60.228 63.158 27.24 14.07 46.96 5.52
525 526 0.178995 AGTACCGTCTAGGGCTAGCC 60.179 60.000 26.55 26.55 46.96 3.93
526 527 0.953003 CAGTACCGTCTAGGGCTAGC 59.047 60.000 6.04 6.04 46.96 3.42
527 528 2.220313 GTCAGTACCGTCTAGGGCTAG 58.780 57.143 0.00 0.00 46.96 3.42
528 529 1.133976 GGTCAGTACCGTCTAGGGCTA 60.134 57.143 0.00 0.00 46.96 3.93
529 530 0.395448 GGTCAGTACCGTCTAGGGCT 60.395 60.000 0.00 0.00 46.96 5.19
530 531 2.113767 GGTCAGTACCGTCTAGGGC 58.886 63.158 0.00 0.00 46.96 5.19
539 540 5.244755 TGGTAATTTTTACGGGTCAGTACC 58.755 41.667 0.00 0.00 45.97 3.34
540 541 6.799926 TTGGTAATTTTTACGGGTCAGTAC 57.200 37.500 0.00 0.00 0.00 2.73
541 542 6.997476 AGTTTGGTAATTTTTACGGGTCAGTA 59.003 34.615 0.00 0.00 0.00 2.74
542 543 5.829391 AGTTTGGTAATTTTTACGGGTCAGT 59.171 36.000 0.00 0.00 0.00 3.41
543 544 6.321848 AGTTTGGTAATTTTTACGGGTCAG 57.678 37.500 0.00 0.00 0.00 3.51
544 545 6.320672 TCAAGTTTGGTAATTTTTACGGGTCA 59.679 34.615 0.00 0.00 0.00 4.02
545 546 6.737118 TCAAGTTTGGTAATTTTTACGGGTC 58.263 36.000 0.00 0.00 0.00 4.46
546 547 6.712179 TCAAGTTTGGTAATTTTTACGGGT 57.288 33.333 0.00 0.00 0.00 5.28
547 548 9.511144 GATATCAAGTTTGGTAATTTTTACGGG 57.489 33.333 0.00 0.00 0.00 5.28
558 559 9.396022 GGAAGAAGATTGATATCAAGTTTGGTA 57.604 33.333 21.97 0.00 39.47 3.25
559 560 7.890127 TGGAAGAAGATTGATATCAAGTTTGGT 59.110 33.333 21.97 5.56 39.47 3.67
560 561 8.284945 TGGAAGAAGATTGATATCAAGTTTGG 57.715 34.615 21.97 0.00 39.47 3.28
563 564 8.411683 GCATTGGAAGAAGATTGATATCAAGTT 58.588 33.333 21.97 17.24 39.47 2.66
564 565 7.014038 GGCATTGGAAGAAGATTGATATCAAGT 59.986 37.037 21.97 10.25 39.47 3.16
565 566 7.368833 GGCATTGGAAGAAGATTGATATCAAG 58.631 38.462 21.97 6.27 39.47 3.02
566 567 6.266103 GGGCATTGGAAGAAGATTGATATCAA 59.734 38.462 20.07 20.07 40.51 2.57
567 568 5.771666 GGGCATTGGAAGAAGATTGATATCA 59.228 40.000 0.00 0.00 32.95 2.15
568 569 5.184671 GGGGCATTGGAAGAAGATTGATATC 59.815 44.000 0.00 0.00 0.00 1.63
569 570 5.082425 GGGGCATTGGAAGAAGATTGATAT 58.918 41.667 0.00 0.00 0.00 1.63
570 571 4.079269 TGGGGCATTGGAAGAAGATTGATA 60.079 41.667 0.00 0.00 0.00 2.15
571 572 3.303049 GGGGCATTGGAAGAAGATTGAT 58.697 45.455 0.00 0.00 0.00 2.57
572 573 2.042842 TGGGGCATTGGAAGAAGATTGA 59.957 45.455 0.00 0.00 0.00 2.57
573 574 2.459644 TGGGGCATTGGAAGAAGATTG 58.540 47.619 0.00 0.00 0.00 2.67
574 575 2.925966 TGGGGCATTGGAAGAAGATT 57.074 45.000 0.00 0.00 0.00 2.40
575 576 2.925966 TTGGGGCATTGGAAGAAGAT 57.074 45.000 0.00 0.00 0.00 2.40
576 577 2.833338 CAATTGGGGCATTGGAAGAAGA 59.167 45.455 0.00 0.00 0.00 2.87
577 578 2.568509 ACAATTGGGGCATTGGAAGAAG 59.431 45.455 10.83 0.00 32.40 2.85
578 579 2.618794 ACAATTGGGGCATTGGAAGAA 58.381 42.857 10.83 0.00 32.40 2.52
579 580 2.323999 ACAATTGGGGCATTGGAAGA 57.676 45.000 10.83 0.00 32.40 2.87
580 581 4.758773 ATTACAATTGGGGCATTGGAAG 57.241 40.909 10.83 0.00 34.47 3.46
581 582 5.276440 ACTATTACAATTGGGGCATTGGAA 58.724 37.500 10.83 0.00 35.34 3.53
582 583 4.877773 ACTATTACAATTGGGGCATTGGA 58.122 39.130 10.83 0.00 32.40 3.53
583 584 5.363580 AGAACTATTACAATTGGGGCATTGG 59.636 40.000 10.83 0.00 32.40 3.16
584 585 6.127366 ACAGAACTATTACAATTGGGGCATTG 60.127 38.462 10.83 0.25 0.00 2.82
585 586 5.957774 ACAGAACTATTACAATTGGGGCATT 59.042 36.000 10.83 0.00 0.00 3.56
586 587 5.518865 ACAGAACTATTACAATTGGGGCAT 58.481 37.500 10.83 0.00 0.00 4.40
587 588 4.929479 ACAGAACTATTACAATTGGGGCA 58.071 39.130 10.83 0.00 0.00 5.36
588 589 5.883673 TGTACAGAACTATTACAATTGGGGC 59.116 40.000 10.83 0.00 0.00 5.80
589 590 7.931578 TTGTACAGAACTATTACAATTGGGG 57.068 36.000 10.83 0.00 32.13 4.96
601 602 9.256228 AGATGGAGAGTTAATTGTACAGAACTA 57.744 33.333 15.75 5.47 32.37 2.24
602 603 8.140112 AGATGGAGAGTTAATTGTACAGAACT 57.860 34.615 15.72 15.72 34.88 3.01
603 604 9.303537 GTAGATGGAGAGTTAATTGTACAGAAC 57.696 37.037 0.00 2.65 0.00 3.01
604 605 8.475639 GGTAGATGGAGAGTTAATTGTACAGAA 58.524 37.037 0.00 0.00 0.00 3.02
605 606 7.069578 GGGTAGATGGAGAGTTAATTGTACAGA 59.930 40.741 0.00 0.00 0.00 3.41
606 607 7.070074 AGGGTAGATGGAGAGTTAATTGTACAG 59.930 40.741 0.00 0.00 0.00 2.74
607 608 6.901300 AGGGTAGATGGAGAGTTAATTGTACA 59.099 38.462 0.00 0.00 0.00 2.90
608 609 7.362802 AGGGTAGATGGAGAGTTAATTGTAC 57.637 40.000 0.00 0.00 0.00 2.90
609 610 8.287350 AGTAGGGTAGATGGAGAGTTAATTGTA 58.713 37.037 0.00 0.00 0.00 2.41
610 611 7.133483 AGTAGGGTAGATGGAGAGTTAATTGT 58.867 38.462 0.00 0.00 0.00 2.71
611 612 7.256012 GGAGTAGGGTAGATGGAGAGTTAATTG 60.256 44.444 0.00 0.00 0.00 2.32
612 613 6.783482 GGAGTAGGGTAGATGGAGAGTTAATT 59.217 42.308 0.00 0.00 0.00 1.40
613 614 6.125860 TGGAGTAGGGTAGATGGAGAGTTAAT 60.126 42.308 0.00 0.00 0.00 1.40
614 615 5.195146 TGGAGTAGGGTAGATGGAGAGTTAA 59.805 44.000 0.00 0.00 0.00 2.01
615 616 4.730392 TGGAGTAGGGTAGATGGAGAGTTA 59.270 45.833 0.00 0.00 0.00 2.24
616 617 3.532232 TGGAGTAGGGTAGATGGAGAGTT 59.468 47.826 0.00 0.00 0.00 3.01
617 618 3.132056 TGGAGTAGGGTAGATGGAGAGT 58.868 50.000 0.00 0.00 0.00 3.24
618 619 3.885976 TGGAGTAGGGTAGATGGAGAG 57.114 52.381 0.00 0.00 0.00 3.20
619 620 3.076182 GGATGGAGTAGGGTAGATGGAGA 59.924 52.174 0.00 0.00 0.00 3.71
620 621 3.181417 TGGATGGAGTAGGGTAGATGGAG 60.181 52.174 0.00 0.00 0.00 3.86
721 722 8.765517 AGATTTTGCATTTTATTTCTGGGAGAT 58.234 29.630 0.00 0.00 0.00 2.75
779 780 1.347378 GCTGGAAAATCCCAAAAGGCA 59.653 47.619 0.00 0.00 35.03 4.75
905 906 2.897762 GCGAAAGGGGGTGGTGGTA 61.898 63.158 0.00 0.00 0.00 3.25
1275 1279 3.116174 TGTAGTACCATGGTTATGCCCA 58.884 45.455 25.38 9.92 39.27 5.36
1476 1480 4.827087 AGGCAGATGGCGCACTCG 62.827 66.667 10.83 3.08 46.16 4.18
2031 2046 4.818546 TGCCTCTTTTGAGCAAGCTATATC 59.181 41.667 0.00 0.00 44.93 1.63
2142 2158 4.450757 TGTCATTACTCCACATTCACAACG 59.549 41.667 0.00 0.00 0.00 4.10
2148 2164 8.492673 TTCATAACTGTCATTACTCCACATTC 57.507 34.615 0.00 0.00 0.00 2.67
2149 2165 8.862325 TTTCATAACTGTCATTACTCCACATT 57.138 30.769 0.00 0.00 0.00 2.71
2223 2887 4.665833 TTCTCTCTCCAACGAGAAACAA 57.334 40.909 0.00 0.00 44.62 2.83
2250 2915 1.798813 GCCACTACTCCACAACTTTCG 59.201 52.381 0.00 0.00 0.00 3.46
2272 2937 9.046296 CAGTACCAGAAGTTTGATATTCATACC 57.954 37.037 0.00 0.00 30.17 2.73
2297 2962 7.434897 GCATTGTCAACTTCTACATGTTTTTCA 59.565 33.333 2.30 0.00 0.00 2.69
2300 2965 6.804677 TGCATTGTCAACTTCTACATGTTTT 58.195 32.000 2.30 0.00 0.00 2.43
2314 2979 7.171848 CCAAAAAGATCTTCATTGCATTGTCAA 59.828 33.333 20.56 0.00 0.00 3.18
2315 2980 6.647481 CCAAAAAGATCTTCATTGCATTGTCA 59.353 34.615 20.56 0.00 0.00 3.58
2323 2988 6.088016 TCCACACCAAAAAGATCTTCATTG 57.912 37.500 19.64 19.64 0.00 2.82
2324 2989 6.729690 TTCCACACCAAAAAGATCTTCATT 57.270 33.333 8.78 4.57 0.00 2.57
2330 2995 5.299279 TGTCTCTTTCCACACCAAAAAGATC 59.701 40.000 0.00 0.00 38.11 2.75
2347 3012 4.593206 TGACAACTTCCACCTATGTCTCTT 59.407 41.667 5.88 0.00 40.70 2.85
2445 3110 4.932200 GCCCATGAGCTGACTGTTATATAC 59.068 45.833 0.00 0.00 0.00 1.47
2446 3111 4.020218 GGCCCATGAGCTGACTGTTATATA 60.020 45.833 0.00 0.00 0.00 0.86
2447 3112 3.244700 GGCCCATGAGCTGACTGTTATAT 60.245 47.826 0.00 0.00 0.00 0.86
2457 3122 2.364353 TTTTTGGGCCCATGAGCTG 58.636 52.632 29.23 0.00 0.00 4.24
2564 3229 3.927142 CGTGTTTCTCCATACCAGAAGTC 59.073 47.826 0.00 0.00 31.48 3.01
2572 3237 2.921754 CCTTCGACGTGTTTCTCCATAC 59.078 50.000 0.00 0.00 0.00 2.39
2585 3250 0.669318 TGCCTTTGTAGCCTTCGACG 60.669 55.000 0.00 0.00 0.00 5.12
2610 3275 0.759436 AGTGTGGTCTCCCTGTCGTT 60.759 55.000 0.00 0.00 0.00 3.85
2612 3277 1.067776 GTTAGTGTGGTCTCCCTGTCG 60.068 57.143 0.00 0.00 0.00 4.35
2634 3299 4.808895 CGACAAATGATCCGAGTATTCCAA 59.191 41.667 0.00 0.00 0.00 3.53
2658 3323 3.838903 ACAAGAGAAAGTAGGGGGTGTAG 59.161 47.826 0.00 0.00 0.00 2.74
2669 3334 9.041354 AGAGTAATAAGATCCACAAGAGAAAGT 57.959 33.333 0.00 0.00 0.00 2.66
2673 3338 8.260818 CCAAAGAGTAATAAGATCCACAAGAGA 58.739 37.037 0.00 0.00 0.00 3.10
2674 3339 8.043710 ACCAAAGAGTAATAAGATCCACAAGAG 58.956 37.037 0.00 0.00 0.00 2.85
2675 3340 7.918076 ACCAAAGAGTAATAAGATCCACAAGA 58.082 34.615 0.00 0.00 0.00 3.02
2688 3353 4.709886 GGTGCCCAAATACCAAAGAGTAAT 59.290 41.667 0.00 0.00 36.94 1.89
2697 3362 1.562475 GTCTAGGGTGCCCAAATACCA 59.438 52.381 10.26 0.00 38.74 3.25


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

AutoCloner maintained by Alex Coulton.