Multiple sequence alignment - TraesCS4A01G368400

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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 TraesCS4A01G368400 chr4A 100.000 4263 0 0 1 4263 641294623 641298885 0.000000e+00 7873.0
1 TraesCS4A01G368400 chr4A 77.143 420 74 17 674 1081 116327979 116327570 1.540000e-54 224.0
2 TraesCS4A01G368400 chr1B 99.167 3601 22 5 670 4263 16462191 16458592 0.000000e+00 6477.0
3 TraesCS4A01G368400 chr2B 99.439 3563 16 3 705 4263 587240865 587237303 0.000000e+00 6466.0
4 TraesCS4A01G368400 chr1A 98.999 3597 22 6 670 4263 111985457 111981872 0.000000e+00 6431.0
5 TraesCS4A01G368400 chr5A 98.781 3610 26 6 670 4263 30219 26612 0.000000e+00 6407.0
6 TraesCS4A01G368400 chr7B 98.479 3615 18 6 670 4263 5929447 5925849 0.000000e+00 6336.0
7 TraesCS4A01G368400 chr7B 97.561 123 3 0 3282 3404 581218823 581218701 1.200000e-50 211.0
8 TraesCS4A01G368400 chr3B 99.054 3278 25 4 676 3948 647898545 647901821 0.000000e+00 5877.0
9 TraesCS4A01G368400 chr3B 99.682 314 1 0 3950 4263 647902028 647902341 3.700000e-160 575.0
10 TraesCS4A01G368400 chr6A 95.696 1696 50 4 1597 3289 40918061 40916386 0.000000e+00 2706.0
11 TraesCS4A01G368400 chr6A 96.540 867 19 6 3403 4263 40916387 40915526 0.000000e+00 1424.0
12 TraesCS4A01G368400 chr6A 90.502 937 51 24 676 1601 40919002 40918093 0.000000e+00 1203.0
13 TraesCS4A01G368400 chr4D 97.784 1399 29 2 1597 2993 503520129 503518731 0.000000e+00 2410.0
14 TraesCS4A01G368400 chr4D 91.253 1189 90 8 2111 3292 417821231 417820050 0.000000e+00 1607.0
15 TraesCS4A01G368400 chr4D 97.338 864 17 3 3403 4263 503518054 503517194 0.000000e+00 1463.0
16 TraesCS4A01G368400 chr4D 90.286 350 18 4 679 1026 503520587 503520252 1.090000e-120 444.0
17 TraesCS4A01G368400 chr4D 82.957 487 48 18 937 1389 188707750 188708235 1.430000e-109 407.0
18 TraesCS4A01G368400 chr4D 87.379 206 17 2 1388 1584 188708278 188708483 1.190000e-55 228.0
19 TraesCS4A01G368400 chr5D 92.202 654 39 4 17 670 531288372 531287731 0.000000e+00 915.0
20 TraesCS4A01G368400 chr5B 90.288 659 51 7 1 657 670383586 670382939 0.000000e+00 850.0
21 TraesCS4A01G368400 chr5B 90.738 637 47 4 35 670 670438262 670437637 0.000000e+00 839.0
22 TraesCS4A01G368400 chr5B 88.312 231 20 3 7 234 670466894 670466668 1.950000e-68 270.0
23 TraesCS4A01G368400 chr5B 87.324 71 5 1 564 634 670466668 670466602 1.270000e-10 78.7
24 TraesCS4A01G368400 chrUn 90.895 637 46 4 35 670 256199142 256198517 0.000000e+00 845.0
25 TraesCS4A01G368400 chrUn 90.494 263 21 1 35 297 175705014 175704756 1.130000e-90 344.0
26 TraesCS4A01G368400 chrUn 88.312 231 20 3 7 234 175733814 175733588 1.950000e-68 270.0
27 TraesCS4A01G368400 chrUn 99.187 123 1 0 3282 3404 9343721 9343599 5.550000e-54 222.0
28 TraesCS4A01G368400 chrUn 98.374 123 2 0 3282 3404 9472224 9472346 2.580000e-52 217.0
29 TraesCS4A01G368400 chrUn 87.324 71 5 1 564 634 175733588 175733522 1.270000e-10 78.7
30 TraesCS4A01G368400 chr4B 83.368 487 46 18 937 1389 203203866 203204351 6.590000e-113 418.0
31 TraesCS4A01G368400 chr4B 86.538 208 17 1 1388 1584 203204395 203204602 7.180000e-53 219.0
32 TraesCS4A01G368400 chr6D 85.000 200 18 7 1200 1388 60311011 60310813 4.350000e-45 193.0


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 TraesCS4A01G368400 chr4A 641294623 641298885 4262 False 7873.000000 7873 100.000 1 4263 1 chr4A.!!$F1 4262
1 TraesCS4A01G368400 chr1B 16458592 16462191 3599 True 6477.000000 6477 99.167 670 4263 1 chr1B.!!$R1 3593
2 TraesCS4A01G368400 chr2B 587237303 587240865 3562 True 6466.000000 6466 99.439 705 4263 1 chr2B.!!$R1 3558
3 TraesCS4A01G368400 chr1A 111981872 111985457 3585 True 6431.000000 6431 98.999 670 4263 1 chr1A.!!$R1 3593
4 TraesCS4A01G368400 chr5A 26612 30219 3607 True 6407.000000 6407 98.781 670 4263 1 chr5A.!!$R1 3593
5 TraesCS4A01G368400 chr7B 5925849 5929447 3598 True 6336.000000 6336 98.479 670 4263 1 chr7B.!!$R1 3593
6 TraesCS4A01G368400 chr3B 647898545 647902341 3796 False 3226.000000 5877 99.368 676 4263 2 chr3B.!!$F1 3587
7 TraesCS4A01G368400 chr6A 40915526 40919002 3476 True 1777.666667 2706 94.246 676 4263 3 chr6A.!!$R1 3587
8 TraesCS4A01G368400 chr4D 417820050 417821231 1181 True 1607.000000 1607 91.253 2111 3292 1 chr4D.!!$R1 1181
9 TraesCS4A01G368400 chr4D 503517194 503520587 3393 True 1439.000000 2410 95.136 679 4263 3 chr4D.!!$R2 3584
10 TraesCS4A01G368400 chr4D 188707750 188708483 733 False 317.500000 407 85.168 937 1584 2 chr4D.!!$F1 647
11 TraesCS4A01G368400 chr5D 531287731 531288372 641 True 915.000000 915 92.202 17 670 1 chr5D.!!$R1 653
12 TraesCS4A01G368400 chr5B 670382939 670383586 647 True 850.000000 850 90.288 1 657 1 chr5B.!!$R1 656
13 TraesCS4A01G368400 chr5B 670437637 670438262 625 True 839.000000 839 90.738 35 670 1 chr5B.!!$R2 635
14 TraesCS4A01G368400 chrUn 256198517 256199142 625 True 845.000000 845 90.895 35 670 1 chrUn.!!$R3 635
15 TraesCS4A01G368400 chr4B 203203866 203204602 736 False 318.500000 418 84.953 937 1584 2 chr4B.!!$F1 647

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
652 654 0.031314 CGGTGAGGTGATCGATGGAG 59.969 60.0 0.54 0.00 0.0 3.86 F
658 660 0.033228 GGTGATCGATGGAGCTCTGG 59.967 60.0 14.64 0.00 0.0 3.86 F
659 661 1.035923 GTGATCGATGGAGCTCTGGA 58.964 55.0 14.64 1.59 0.0 3.86 F
660 662 1.035923 TGATCGATGGAGCTCTGGAC 58.964 55.0 14.64 0.00 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1951 2598 5.816777 ACCAAAATTCAGAAAACACACCATG 59.183 36.000 0.00 0.00 0.00 3.66 R
2777 3429 3.637911 TTATAGGAAAGGCCGCAAAGA 57.362 42.857 0.00 0.00 43.43 2.52 R
3172 4236 7.011389 GTGTGCATGCTGAATTTCTACTATACA 59.989 37.037 20.33 5.75 0.00 2.29 R
3869 4979 4.712476 AGCATCAGAACAAAGAGTGAAGT 58.288 39.130 0.00 0.00 0.00 3.01 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
26 28 4.260620 GCACGCGAAACCATATAACTCAAT 60.261 41.667 15.93 0.00 0.00 2.57
28 30 4.272504 ACGCGAAACCATATAACTCAATGG 59.727 41.667 15.93 0.00 46.76 3.16
71 73 6.322456 TGAGGAATGAACTTACGATGATCTCT 59.678 38.462 0.00 0.00 0.00 3.10
76 78 4.142469 TGAACTTACGATGATCTCTGCGAA 60.142 41.667 0.00 0.00 0.00 4.70
137 139 4.308458 CGGGTGACGGCAAGGACA 62.308 66.667 0.00 0.00 39.42 4.02
165 167 4.925861 GCAGGATGAGGAGCGGCC 62.926 72.222 0.00 0.00 39.69 6.13
166 168 4.598894 CAGGATGAGGAGCGGCCG 62.599 72.222 24.05 24.05 43.43 6.13
234 236 2.436115 GCCTTCAGTGGCCGGTAC 60.436 66.667 1.90 2.66 46.82 3.34
297 299 1.198094 TTCCCGGCAACCTCATCTCA 61.198 55.000 0.00 0.00 0.00 3.27
351 353 3.057547 CTGGCGTCTGACCGGAGAG 62.058 68.421 9.46 2.74 35.38 3.20
352 354 2.750637 GGCGTCTGACCGGAGAGA 60.751 66.667 9.46 5.65 0.00 3.10
353 355 2.341101 GGCGTCTGACCGGAGAGAA 61.341 63.158 9.46 0.00 0.00 2.87
354 356 1.153997 GCGTCTGACCGGAGAGAAC 60.154 63.158 9.46 0.77 0.00 3.01
355 357 1.863662 GCGTCTGACCGGAGAGAACA 61.864 60.000 9.46 0.00 0.00 3.18
356 358 0.811915 CGTCTGACCGGAGAGAACAT 59.188 55.000 9.46 0.00 0.00 2.71
360 362 0.904649 TGACCGGAGAGAACATGCAT 59.095 50.000 9.46 0.00 0.00 3.96
425 427 0.313469 CGACATGCGTTCAATCGTCG 60.313 55.000 0.00 0.00 37.22 5.12
469 471 3.393970 CTGGGAGAGCTCGGCCAA 61.394 66.667 24.11 15.70 0.00 4.52
470 472 3.382803 CTGGGAGAGCTCGGCCAAG 62.383 68.421 24.11 20.10 0.00 3.61
471 473 3.077556 GGGAGAGCTCGGCCAAGA 61.078 66.667 24.11 0.00 0.00 3.02
472 474 2.439104 GGGAGAGCTCGGCCAAGAT 61.439 63.158 24.11 0.00 0.00 2.40
473 475 1.068921 GGAGAGCTCGGCCAAGATC 59.931 63.158 19.81 0.00 31.79 2.75
474 476 1.068921 GAGAGCTCGGCCAAGATCC 59.931 63.158 5.05 0.00 32.01 3.36
475 477 1.382420 AGAGCTCGGCCAAGATCCT 60.382 57.895 5.05 0.00 32.01 3.24
476 478 1.068921 GAGCTCGGCCAAGATCCTC 59.931 63.158 0.00 0.00 0.00 3.71
477 479 2.279784 GCTCGGCCAAGATCCTCG 60.280 66.667 2.24 0.00 0.00 4.63
478 480 2.419198 CTCGGCCAAGATCCTCGG 59.581 66.667 2.24 0.00 0.00 4.63
479 481 2.043349 TCGGCCAAGATCCTCGGA 60.043 61.111 2.24 0.00 0.00 4.55
480 482 2.081425 CTCGGCCAAGATCCTCGGAG 62.081 65.000 2.24 0.00 0.00 4.63
481 483 2.825264 GGCCAAGATCCTCGGAGG 59.175 66.667 18.25 18.25 36.46 4.30
490 492 2.362242 TCCTCGGAGGAACAAGTGG 58.638 57.895 24.17 0.00 42.51 4.00
491 493 0.178944 TCCTCGGAGGAACAAGTGGA 60.179 55.000 24.17 0.00 42.51 4.02
492 494 0.247736 CCTCGGAGGAACAAGTGGAG 59.752 60.000 19.57 0.00 37.67 3.86
493 495 1.257743 CTCGGAGGAACAAGTGGAGA 58.742 55.000 0.00 0.00 0.00 3.71
494 496 0.966920 TCGGAGGAACAAGTGGAGAC 59.033 55.000 0.00 0.00 0.00 3.36
495 497 0.679505 CGGAGGAACAAGTGGAGACA 59.320 55.000 0.00 0.00 38.70 3.41
496 498 1.337260 CGGAGGAACAAGTGGAGACAG 60.337 57.143 0.00 0.00 44.46 3.51
497 499 1.002544 GGAGGAACAAGTGGAGACAGG 59.997 57.143 0.00 0.00 44.46 4.00
498 500 1.002544 GAGGAACAAGTGGAGACAGGG 59.997 57.143 0.00 0.00 44.46 4.45
499 501 0.036875 GGAACAAGTGGAGACAGGGG 59.963 60.000 0.00 0.00 44.46 4.79
500 502 0.036875 GAACAAGTGGAGACAGGGGG 59.963 60.000 0.00 0.00 44.46 5.40
501 503 0.401395 AACAAGTGGAGACAGGGGGA 60.401 55.000 0.00 0.00 44.46 4.81
502 504 0.401395 ACAAGTGGAGACAGGGGGAA 60.401 55.000 0.00 0.00 44.46 3.97
503 505 0.326264 CAAGTGGAGACAGGGGGAAG 59.674 60.000 0.00 0.00 44.46 3.46
504 506 0.104409 AAGTGGAGACAGGGGGAAGT 60.104 55.000 0.00 0.00 44.46 3.01
505 507 0.838122 AGTGGAGACAGGGGGAAGTG 60.838 60.000 0.00 0.00 44.46 3.16
506 508 0.836400 GTGGAGACAGGGGGAAGTGA 60.836 60.000 0.00 0.00 44.46 3.41
507 509 0.104672 TGGAGACAGGGGGAAGTGAA 60.105 55.000 0.00 0.00 35.01 3.18
508 510 1.064825 GGAGACAGGGGGAAGTGAAA 58.935 55.000 0.00 0.00 0.00 2.69
509 511 1.271434 GGAGACAGGGGGAAGTGAAAC 60.271 57.143 0.00 0.00 0.00 2.78
510 512 0.771755 AGACAGGGGGAAGTGAAACC 59.228 55.000 0.00 0.00 37.80 3.27
511 513 0.476771 GACAGGGGGAAGTGAAACCA 59.523 55.000 0.00 0.00 37.80 3.67
512 514 0.478507 ACAGGGGGAAGTGAAACCAG 59.521 55.000 0.00 0.00 37.80 4.00
513 515 0.478507 CAGGGGGAAGTGAAACCAGT 59.521 55.000 0.00 0.00 37.80 4.00
514 516 0.478507 AGGGGGAAGTGAAACCAGTG 59.521 55.000 0.00 0.00 37.80 3.66
515 517 0.185175 GGGGGAAGTGAAACCAGTGT 59.815 55.000 0.00 0.00 37.80 3.55
516 518 1.411074 GGGGGAAGTGAAACCAGTGTT 60.411 52.381 0.00 0.00 37.80 3.32
517 519 2.158579 GGGGGAAGTGAAACCAGTGTTA 60.159 50.000 0.00 0.00 37.80 2.41
518 520 3.558033 GGGGAAGTGAAACCAGTGTTAA 58.442 45.455 0.00 0.00 37.80 2.01
519 521 3.317149 GGGGAAGTGAAACCAGTGTTAAC 59.683 47.826 0.00 0.00 37.80 2.01
520 522 3.317149 GGGAAGTGAAACCAGTGTTAACC 59.683 47.826 2.48 0.00 37.80 2.85
521 523 4.204799 GGAAGTGAAACCAGTGTTAACCT 58.795 43.478 2.48 0.00 37.80 3.50
522 524 4.275196 GGAAGTGAAACCAGTGTTAACCTC 59.725 45.833 2.48 0.00 37.80 3.85
523 525 4.497291 AGTGAAACCAGTGTTAACCTCA 57.503 40.909 2.48 0.00 37.80 3.86
524 526 4.196971 AGTGAAACCAGTGTTAACCTCAC 58.803 43.478 2.48 5.00 38.16 3.51
525 527 3.942748 GTGAAACCAGTGTTAACCTCACA 59.057 43.478 2.48 0.00 37.95 3.58
526 528 3.942748 TGAAACCAGTGTTAACCTCACAC 59.057 43.478 2.48 0.00 44.25 3.82
527 529 2.632987 ACCAGTGTTAACCTCACACC 57.367 50.000 2.48 0.00 44.90 4.16
528 530 1.841277 ACCAGTGTTAACCTCACACCA 59.159 47.619 2.48 0.00 44.90 4.17
529 531 2.218603 CCAGTGTTAACCTCACACCAC 58.781 52.381 2.48 0.00 44.90 4.16
530 532 2.218603 CAGTGTTAACCTCACACCACC 58.781 52.381 2.48 0.00 44.90 4.61
531 533 1.142262 AGTGTTAACCTCACACCACCC 59.858 52.381 2.48 0.00 44.90 4.61
532 534 0.107081 TGTTAACCTCACACCACCCG 59.893 55.000 2.48 0.00 0.00 5.28
533 535 0.107268 GTTAACCTCACACCACCCGT 59.893 55.000 0.00 0.00 0.00 5.28
541 543 2.355837 CACCACCCGTGTGTCGAG 60.356 66.667 0.00 0.00 41.09 4.04
542 544 2.836360 ACCACCCGTGTGTCGAGT 60.836 61.111 0.00 0.00 41.09 4.18
543 545 1.529010 ACCACCCGTGTGTCGAGTA 60.529 57.895 0.00 0.00 41.09 2.59
544 546 0.896940 ACCACCCGTGTGTCGAGTAT 60.897 55.000 0.00 0.00 41.09 2.12
545 547 0.457853 CCACCCGTGTGTCGAGTATG 60.458 60.000 0.00 0.00 41.09 2.39
546 548 1.076533 CACCCGTGTGTCGAGTATGC 61.077 60.000 0.00 0.00 42.86 3.14
547 549 1.518572 CCCGTGTGTCGAGTATGCC 60.519 63.158 0.00 0.00 42.86 4.40
548 550 1.511305 CCGTGTGTCGAGTATGCCT 59.489 57.895 0.00 0.00 42.86 4.75
549 551 0.736636 CCGTGTGTCGAGTATGCCTA 59.263 55.000 0.00 0.00 42.86 3.93
550 552 1.337071 CCGTGTGTCGAGTATGCCTAT 59.663 52.381 0.00 0.00 42.86 2.57
551 553 2.385315 CGTGTGTCGAGTATGCCTATG 58.615 52.381 0.00 0.00 42.86 2.23
552 554 2.743938 GTGTGTCGAGTATGCCTATGG 58.256 52.381 0.00 0.00 0.00 2.74
564 566 2.175878 GCCTATGGCTATGTCACCAG 57.824 55.000 0.73 0.00 46.69 4.00
565 567 1.271054 GCCTATGGCTATGTCACCAGG 60.271 57.143 0.73 0.00 46.69 4.45
566 568 2.050144 CCTATGGCTATGTCACCAGGT 58.950 52.381 0.00 0.00 39.88 4.00
567 569 2.037772 CCTATGGCTATGTCACCAGGTC 59.962 54.545 0.00 0.00 39.88 3.85
568 570 1.885049 ATGGCTATGTCACCAGGTCT 58.115 50.000 0.00 0.00 39.88 3.85
569 571 1.656587 TGGCTATGTCACCAGGTCTT 58.343 50.000 0.00 0.00 0.00 3.01
570 572 1.555075 TGGCTATGTCACCAGGTCTTC 59.445 52.381 0.00 0.00 0.00 2.87
571 573 1.555075 GGCTATGTCACCAGGTCTTCA 59.445 52.381 0.00 0.00 0.00 3.02
572 574 2.027192 GGCTATGTCACCAGGTCTTCAA 60.027 50.000 0.00 0.00 0.00 2.69
573 575 3.003480 GCTATGTCACCAGGTCTTCAAC 58.997 50.000 0.00 0.00 0.00 3.18
583 585 2.640346 GGTCTTCAACCGTCTCTCTC 57.360 55.000 0.00 0.00 38.58 3.20
584 586 2.164338 GGTCTTCAACCGTCTCTCTCT 58.836 52.381 0.00 0.00 38.58 3.10
585 587 2.162809 GGTCTTCAACCGTCTCTCTCTC 59.837 54.545 0.00 0.00 38.58 3.20
586 588 3.078837 GTCTTCAACCGTCTCTCTCTCT 58.921 50.000 0.00 0.00 0.00 3.10
587 589 3.126343 GTCTTCAACCGTCTCTCTCTCTC 59.874 52.174 0.00 0.00 0.00 3.20
588 590 3.008594 TCTTCAACCGTCTCTCTCTCTCT 59.991 47.826 0.00 0.00 0.00 3.10
589 591 2.980568 TCAACCGTCTCTCTCTCTCTC 58.019 52.381 0.00 0.00 0.00 3.20
590 592 2.303311 TCAACCGTCTCTCTCTCTCTCA 59.697 50.000 0.00 0.00 0.00 3.27
591 593 2.396590 ACCGTCTCTCTCTCTCTCAC 57.603 55.000 0.00 0.00 0.00 3.51
592 594 1.626321 ACCGTCTCTCTCTCTCTCACA 59.374 52.381 0.00 0.00 0.00 3.58
593 595 2.006888 CCGTCTCTCTCTCTCTCACAC 58.993 57.143 0.00 0.00 0.00 3.82
594 596 2.614229 CCGTCTCTCTCTCTCTCACACA 60.614 54.545 0.00 0.00 0.00 3.72
595 597 3.270027 CGTCTCTCTCTCTCTCACACAT 58.730 50.000 0.00 0.00 0.00 3.21
596 598 4.438148 CGTCTCTCTCTCTCTCACACATA 58.562 47.826 0.00 0.00 0.00 2.29
597 599 4.270084 CGTCTCTCTCTCTCTCACACATAC 59.730 50.000 0.00 0.00 0.00 2.39
598 600 4.270084 GTCTCTCTCTCTCTCACACATACG 59.730 50.000 0.00 0.00 0.00 3.06
599 601 2.939756 TCTCTCTCTCTCACACATACGC 59.060 50.000 0.00 0.00 0.00 4.42
600 602 2.680339 CTCTCTCTCTCACACATACGCA 59.320 50.000 0.00 0.00 0.00 5.24
601 603 2.680339 TCTCTCTCTCACACATACGCAG 59.320 50.000 0.00 0.00 0.00 5.18
602 604 1.745653 TCTCTCTCACACATACGCAGG 59.254 52.381 0.00 0.00 0.00 4.85
603 605 1.745653 CTCTCTCACACATACGCAGGA 59.254 52.381 0.00 0.00 0.00 3.86
604 606 1.745653 TCTCTCACACATACGCAGGAG 59.254 52.381 0.00 0.00 0.00 3.69
605 607 1.474478 CTCTCACACATACGCAGGAGT 59.526 52.381 0.00 0.00 0.00 3.85
606 608 1.893137 TCTCACACATACGCAGGAGTT 59.107 47.619 0.00 0.00 0.00 3.01
607 609 1.995484 CTCACACATACGCAGGAGTTG 59.005 52.381 0.00 0.00 0.00 3.16
608 610 1.616374 TCACACATACGCAGGAGTTGA 59.384 47.619 0.00 0.00 0.00 3.18
609 611 1.995484 CACACATACGCAGGAGTTGAG 59.005 52.381 0.00 0.00 0.00 3.02
610 612 1.002366 CACATACGCAGGAGTTGAGC 58.998 55.000 0.00 0.00 0.00 4.26
611 613 0.898320 ACATACGCAGGAGTTGAGCT 59.102 50.000 0.00 0.00 0.00 4.09
612 614 1.276421 ACATACGCAGGAGTTGAGCTT 59.724 47.619 0.00 0.00 0.00 3.74
613 615 1.662629 CATACGCAGGAGTTGAGCTTG 59.337 52.381 0.00 0.00 0.00 4.01
614 616 0.037326 TACGCAGGAGTTGAGCTTGG 60.037 55.000 0.00 0.00 0.00 3.61
615 617 1.004560 CGCAGGAGTTGAGCTTGGA 60.005 57.895 0.00 0.00 0.00 3.53
616 618 1.294659 CGCAGGAGTTGAGCTTGGAC 61.295 60.000 0.00 0.00 0.00 4.02
617 619 0.250467 GCAGGAGTTGAGCTTGGACA 60.250 55.000 0.00 0.00 0.00 4.02
618 620 1.815408 GCAGGAGTTGAGCTTGGACAA 60.815 52.381 0.00 0.00 0.00 3.18
619 621 2.575532 CAGGAGTTGAGCTTGGACAAA 58.424 47.619 0.00 0.00 0.00 2.83
620 622 3.152341 CAGGAGTTGAGCTTGGACAAAT 58.848 45.455 0.00 0.00 0.00 2.32
621 623 4.326826 CAGGAGTTGAGCTTGGACAAATA 58.673 43.478 0.00 0.00 0.00 1.40
622 624 4.946157 CAGGAGTTGAGCTTGGACAAATAT 59.054 41.667 0.00 0.00 0.00 1.28
623 625 6.115446 CAGGAGTTGAGCTTGGACAAATATA 58.885 40.000 0.00 0.00 0.00 0.86
624 626 6.259608 CAGGAGTTGAGCTTGGACAAATATAG 59.740 42.308 0.00 0.00 0.00 1.31
625 627 5.008118 GGAGTTGAGCTTGGACAAATATAGC 59.992 44.000 0.00 0.00 0.00 2.97
626 628 4.884164 AGTTGAGCTTGGACAAATATAGCC 59.116 41.667 0.00 0.00 32.36 3.93
627 629 3.466836 TGAGCTTGGACAAATATAGCCG 58.533 45.455 0.00 0.00 32.36 5.52
628 630 2.808543 GAGCTTGGACAAATATAGCCGG 59.191 50.000 0.00 0.00 32.36 6.13
629 631 2.172717 AGCTTGGACAAATATAGCCGGT 59.827 45.455 1.90 0.00 32.36 5.28
630 632 2.290641 GCTTGGACAAATATAGCCGGTG 59.709 50.000 1.90 0.00 0.00 4.94
631 633 2.631160 TGGACAAATATAGCCGGTGG 57.369 50.000 1.90 0.00 0.00 4.61
632 634 1.142060 TGGACAAATATAGCCGGTGGG 59.858 52.381 1.90 0.00 0.00 4.61
644 646 3.717294 GGTGGGCGGTGAGGTGAT 61.717 66.667 0.00 0.00 0.00 3.06
645 647 2.125106 GTGGGCGGTGAGGTGATC 60.125 66.667 0.00 0.00 0.00 2.92
646 648 3.770040 TGGGCGGTGAGGTGATCG 61.770 66.667 0.00 0.00 0.00 3.69
647 649 3.458163 GGGCGGTGAGGTGATCGA 61.458 66.667 0.00 0.00 0.00 3.59
648 650 2.797278 GGGCGGTGAGGTGATCGAT 61.797 63.158 0.00 0.00 0.00 3.59
649 651 1.592669 GGCGGTGAGGTGATCGATG 60.593 63.158 0.54 0.00 0.00 3.84
650 652 1.592669 GCGGTGAGGTGATCGATGG 60.593 63.158 0.54 0.00 0.00 3.51
651 653 2.016393 GCGGTGAGGTGATCGATGGA 62.016 60.000 0.54 0.00 0.00 3.41
652 654 0.031314 CGGTGAGGTGATCGATGGAG 59.969 60.000 0.54 0.00 0.00 3.86
653 655 0.249657 GGTGAGGTGATCGATGGAGC 60.250 60.000 0.54 0.00 0.00 4.70
654 656 0.749649 GTGAGGTGATCGATGGAGCT 59.250 55.000 0.54 3.80 0.00 4.09
655 657 1.035923 TGAGGTGATCGATGGAGCTC 58.964 55.000 19.48 19.48 35.29 4.09
656 658 1.327303 GAGGTGATCGATGGAGCTCT 58.673 55.000 14.64 0.00 32.60 4.09
657 659 1.000385 GAGGTGATCGATGGAGCTCTG 60.000 57.143 14.64 1.59 32.60 3.35
658 660 0.033228 GGTGATCGATGGAGCTCTGG 59.967 60.000 14.64 0.00 0.00 3.86
659 661 1.035923 GTGATCGATGGAGCTCTGGA 58.964 55.000 14.64 1.59 0.00 3.86
660 662 1.035923 TGATCGATGGAGCTCTGGAC 58.964 55.000 14.64 0.00 0.00 4.02
661 663 1.327303 GATCGATGGAGCTCTGGACT 58.673 55.000 14.64 0.00 0.00 3.85
662 664 2.158608 TGATCGATGGAGCTCTGGACTA 60.159 50.000 14.64 0.00 0.00 2.59
663 665 2.666272 TCGATGGAGCTCTGGACTAT 57.334 50.000 14.64 0.00 0.00 2.12
664 666 2.234143 TCGATGGAGCTCTGGACTATG 58.766 52.381 14.64 0.00 0.00 2.23
665 667 1.271934 CGATGGAGCTCTGGACTATGG 59.728 57.143 14.64 0.00 0.00 2.74
666 668 2.603021 GATGGAGCTCTGGACTATGGA 58.397 52.381 14.64 0.00 0.00 3.41
667 669 2.079170 TGGAGCTCTGGACTATGGAG 57.921 55.000 14.64 0.00 0.00 3.86
668 670 1.570979 TGGAGCTCTGGACTATGGAGA 59.429 52.381 14.64 0.00 0.00 3.71
697 699 6.259387 CCCTACTAATAAACCACCGATTGTTC 59.741 42.308 0.00 0.00 0.00 3.18
707 709 1.829222 ACCGATTGTTCCTGGTCGTAT 59.171 47.619 0.00 0.00 32.55 3.06
1951 2598 2.352715 GGTTCAACTTGCTATTGGGCAC 60.353 50.000 0.00 0.00 42.27 5.01
2777 3429 5.023452 TGTGACCAGACCTCTATGTATGTT 58.977 41.667 0.00 0.00 0.00 2.71
3172 4236 3.492102 TTTGTCTCAACCAAGCTAGCT 57.508 42.857 12.68 12.68 0.00 3.32
3869 4979 5.243507 TGGCAATTGTTGAAAGCTCTGAATA 59.756 36.000 7.40 0.00 0.00 1.75
4064 5379 5.015515 TGTGGCATCTATTTTGTCCAATCA 58.984 37.500 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 4.272504 CCATTGAGTTATATGGTTTCGCGT 59.727 41.667 5.77 0.00 37.19 6.01
10 11 4.338118 CACCGCCATTGAGTTATATGGTTT 59.662 41.667 0.00 0.00 42.67 3.27
14 15 3.187227 GCTCACCGCCATTGAGTTATATG 59.813 47.826 5.92 0.00 42.26 1.78
297 299 2.048222 CCACCGTGAGTGCGTGAT 60.048 61.111 0.00 0.00 45.83 3.06
408 410 1.588404 GATCGACGATTGAACGCATGT 59.412 47.619 12.40 0.00 36.70 3.21
425 427 1.008881 CATGCATGCACTGGCGATC 60.009 57.895 25.37 0.00 45.35 3.69
466 468 1.195115 TGTTCCTCCGAGGATCTTGG 58.805 55.000 18.16 0.00 45.34 3.61
467 469 2.234908 ACTTGTTCCTCCGAGGATCTTG 59.765 50.000 18.16 14.66 45.34 3.02
468 470 2.234908 CACTTGTTCCTCCGAGGATCTT 59.765 50.000 18.16 3.97 45.34 2.40
469 471 1.827969 CACTTGTTCCTCCGAGGATCT 59.172 52.381 18.16 0.00 45.34 2.75
470 472 1.134670 CCACTTGTTCCTCCGAGGATC 60.135 57.143 18.16 16.95 45.34 3.36
471 473 0.905357 CCACTTGTTCCTCCGAGGAT 59.095 55.000 18.16 0.00 45.34 3.24
472 474 0.178944 TCCACTTGTTCCTCCGAGGA 60.179 55.000 13.54 13.54 44.10 3.71
473 475 0.247736 CTCCACTTGTTCCTCCGAGG 59.752 60.000 8.30 8.30 36.46 4.63
474 476 1.067495 GTCTCCACTTGTTCCTCCGAG 60.067 57.143 0.00 0.00 0.00 4.63
475 477 0.966920 GTCTCCACTTGTTCCTCCGA 59.033 55.000 0.00 0.00 0.00 4.55
476 478 0.679505 TGTCTCCACTTGTTCCTCCG 59.320 55.000 0.00 0.00 0.00 4.63
477 479 1.002544 CCTGTCTCCACTTGTTCCTCC 59.997 57.143 0.00 0.00 0.00 4.30
478 480 1.002544 CCCTGTCTCCACTTGTTCCTC 59.997 57.143 0.00 0.00 0.00 3.71
479 481 1.059913 CCCTGTCTCCACTTGTTCCT 58.940 55.000 0.00 0.00 0.00 3.36
480 482 0.036875 CCCCTGTCTCCACTTGTTCC 59.963 60.000 0.00 0.00 0.00 3.62
481 483 0.036875 CCCCCTGTCTCCACTTGTTC 59.963 60.000 0.00 0.00 0.00 3.18
482 484 0.401395 TCCCCCTGTCTCCACTTGTT 60.401 55.000 0.00 0.00 0.00 2.83
483 485 0.401395 TTCCCCCTGTCTCCACTTGT 60.401 55.000 0.00 0.00 0.00 3.16
484 486 0.326264 CTTCCCCCTGTCTCCACTTG 59.674 60.000 0.00 0.00 0.00 3.16
485 487 0.104409 ACTTCCCCCTGTCTCCACTT 60.104 55.000 0.00 0.00 0.00 3.16
486 488 0.838122 CACTTCCCCCTGTCTCCACT 60.838 60.000 0.00 0.00 0.00 4.00
487 489 0.836400 TCACTTCCCCCTGTCTCCAC 60.836 60.000 0.00 0.00 0.00 4.02
488 490 0.104672 TTCACTTCCCCCTGTCTCCA 60.105 55.000 0.00 0.00 0.00 3.86
489 491 1.064825 TTTCACTTCCCCCTGTCTCC 58.935 55.000 0.00 0.00 0.00 3.71
490 492 1.271434 GGTTTCACTTCCCCCTGTCTC 60.271 57.143 0.00 0.00 0.00 3.36
491 493 0.771755 GGTTTCACTTCCCCCTGTCT 59.228 55.000 0.00 0.00 0.00 3.41
492 494 0.476771 TGGTTTCACTTCCCCCTGTC 59.523 55.000 0.00 0.00 0.00 3.51
493 495 0.478507 CTGGTTTCACTTCCCCCTGT 59.521 55.000 0.00 0.00 0.00 4.00
494 496 0.478507 ACTGGTTTCACTTCCCCCTG 59.521 55.000 0.00 0.00 0.00 4.45
495 497 0.478507 CACTGGTTTCACTTCCCCCT 59.521 55.000 0.00 0.00 0.00 4.79
496 498 0.185175 ACACTGGTTTCACTTCCCCC 59.815 55.000 0.00 0.00 0.00 5.40
497 499 2.067365 AACACTGGTTTCACTTCCCC 57.933 50.000 0.00 0.00 31.83 4.81
498 500 3.317149 GGTTAACACTGGTTTCACTTCCC 59.683 47.826 8.10 0.00 38.45 3.97
499 501 4.204799 AGGTTAACACTGGTTTCACTTCC 58.795 43.478 8.10 0.00 38.45 3.46
500 502 4.879545 TGAGGTTAACACTGGTTTCACTTC 59.120 41.667 8.10 0.00 38.45 3.01
501 503 4.638865 GTGAGGTTAACACTGGTTTCACTT 59.361 41.667 8.10 0.00 37.74 3.16
502 504 4.196971 GTGAGGTTAACACTGGTTTCACT 58.803 43.478 8.10 0.00 37.74 3.41
503 505 3.942748 TGTGAGGTTAACACTGGTTTCAC 59.057 43.478 8.10 9.14 39.65 3.18
504 506 3.942748 GTGTGAGGTTAACACTGGTTTCA 59.057 43.478 8.10 0.00 43.69 2.69
505 507 3.314357 GGTGTGAGGTTAACACTGGTTTC 59.686 47.826 8.10 0.00 45.81 2.78
506 508 3.284617 GGTGTGAGGTTAACACTGGTTT 58.715 45.455 8.10 0.00 45.81 3.27
507 509 2.240160 TGGTGTGAGGTTAACACTGGTT 59.760 45.455 8.10 0.00 45.81 3.67
508 510 1.841277 TGGTGTGAGGTTAACACTGGT 59.159 47.619 8.10 0.00 45.81 4.00
509 511 2.218603 GTGGTGTGAGGTTAACACTGG 58.781 52.381 8.10 0.00 45.81 4.00
510 512 2.218603 GGTGGTGTGAGGTTAACACTG 58.781 52.381 8.10 0.00 45.81 3.66
511 513 1.142262 GGGTGGTGTGAGGTTAACACT 59.858 52.381 8.10 2.06 45.81 3.55
512 514 1.601166 GGGTGGTGTGAGGTTAACAC 58.399 55.000 8.10 1.61 45.81 3.32
513 515 0.107081 CGGGTGGTGTGAGGTTAACA 59.893 55.000 8.10 0.00 0.00 2.41
514 516 0.107268 ACGGGTGGTGTGAGGTTAAC 59.893 55.000 0.00 0.00 0.00 2.01
515 517 0.107081 CACGGGTGGTGTGAGGTTAA 59.893 55.000 0.00 0.00 41.89 2.01
516 518 1.749665 CACGGGTGGTGTGAGGTTA 59.250 57.895 0.00 0.00 41.89 2.85
517 519 2.508928 CACGGGTGGTGTGAGGTT 59.491 61.111 0.00 0.00 41.89 3.50
530 532 0.736636 TAGGCATACTCGACACACGG 59.263 55.000 0.00 0.00 42.82 4.94
531 533 2.385315 CATAGGCATACTCGACACACG 58.615 52.381 0.00 0.00 44.09 4.49
532 534 2.743938 CCATAGGCATACTCGACACAC 58.256 52.381 0.00 0.00 0.00 3.82
539 541 7.026429 TGGTGACATAGCCATAGGCATACTC 62.026 48.000 11.06 0.45 44.29 2.59
540 542 5.246625 TGGTGACATAGCCATAGGCATACT 61.247 45.833 11.06 0.00 44.29 2.12
541 543 3.007940 TGGTGACATAGCCATAGGCATAC 59.992 47.826 11.06 0.24 44.29 2.39
542 544 3.247162 TGGTGACATAGCCATAGGCATA 58.753 45.455 11.06 0.66 44.29 3.14
543 545 2.039480 CTGGTGACATAGCCATAGGCAT 59.961 50.000 11.06 0.00 46.93 4.40
544 546 1.417517 CTGGTGACATAGCCATAGGCA 59.582 52.381 11.06 0.00 46.93 4.75
545 547 1.271054 CCTGGTGACATAGCCATAGGC 60.271 57.143 0.00 0.00 45.48 3.93
546 548 2.037772 GACCTGGTGACATAGCCATAGG 59.962 54.545 2.82 0.00 41.51 2.57
547 549 2.968574 AGACCTGGTGACATAGCCATAG 59.031 50.000 2.82 0.00 41.51 2.23
548 550 3.046283 AGACCTGGTGACATAGCCATA 57.954 47.619 2.82 0.00 41.51 2.74
549 551 1.885049 AGACCTGGTGACATAGCCAT 58.115 50.000 2.82 0.00 41.51 4.40
550 552 1.555075 GAAGACCTGGTGACATAGCCA 59.445 52.381 2.82 0.00 41.51 4.75
551 553 1.555075 TGAAGACCTGGTGACATAGCC 59.445 52.381 2.82 0.00 41.51 3.93
552 554 3.003480 GTTGAAGACCTGGTGACATAGC 58.997 50.000 2.82 0.00 41.51 2.97
553 555 3.600388 GGTTGAAGACCTGGTGACATAG 58.400 50.000 2.82 0.00 45.55 2.23
554 556 2.028476 CGGTTGAAGACCTGGTGACATA 60.028 50.000 2.82 0.00 46.92 2.29
555 557 1.270839 CGGTTGAAGACCTGGTGACAT 60.271 52.381 2.82 0.00 46.92 3.06
556 558 0.105964 CGGTTGAAGACCTGGTGACA 59.894 55.000 2.82 0.00 46.92 3.58
557 559 0.106149 ACGGTTGAAGACCTGGTGAC 59.894 55.000 2.82 0.00 46.92 3.67
558 560 0.391597 GACGGTTGAAGACCTGGTGA 59.608 55.000 2.82 0.00 46.92 4.02
559 561 0.393077 AGACGGTTGAAGACCTGGTG 59.607 55.000 2.82 0.00 46.92 4.17
560 562 0.680061 GAGACGGTTGAAGACCTGGT 59.320 55.000 0.00 0.00 46.92 4.00
561 563 0.969894 AGAGACGGTTGAAGACCTGG 59.030 55.000 0.00 0.00 46.92 4.45
562 564 1.889829 AGAGAGACGGTTGAAGACCTG 59.110 52.381 0.00 0.00 46.92 4.00
563 565 2.164338 GAGAGAGACGGTTGAAGACCT 58.836 52.381 0.00 0.00 46.92 3.85
564 566 2.162809 GAGAGAGAGACGGTTGAAGACC 59.837 54.545 0.00 0.00 45.55 3.85
565 567 3.078837 AGAGAGAGAGACGGTTGAAGAC 58.921 50.000 0.00 0.00 0.00 3.01
566 568 3.008594 AGAGAGAGAGAGACGGTTGAAGA 59.991 47.826 0.00 0.00 0.00 2.87
567 569 3.343617 AGAGAGAGAGAGACGGTTGAAG 58.656 50.000 0.00 0.00 0.00 3.02
568 570 3.244596 TGAGAGAGAGAGAGACGGTTGAA 60.245 47.826 0.00 0.00 0.00 2.69
569 571 2.303311 TGAGAGAGAGAGAGACGGTTGA 59.697 50.000 0.00 0.00 0.00 3.18
570 572 2.418628 GTGAGAGAGAGAGAGACGGTTG 59.581 54.545 0.00 0.00 0.00 3.77
571 573 2.039216 TGTGAGAGAGAGAGAGACGGTT 59.961 50.000 0.00 0.00 0.00 4.44
572 574 1.626321 TGTGAGAGAGAGAGAGACGGT 59.374 52.381 0.00 0.00 0.00 4.83
573 575 2.006888 GTGTGAGAGAGAGAGAGACGG 58.993 57.143 0.00 0.00 0.00 4.79
574 576 2.694213 TGTGTGAGAGAGAGAGAGACG 58.306 52.381 0.00 0.00 0.00 4.18
575 577 4.270084 CGTATGTGTGAGAGAGAGAGAGAC 59.730 50.000 0.00 0.00 0.00 3.36
576 578 4.438148 CGTATGTGTGAGAGAGAGAGAGA 58.562 47.826 0.00 0.00 0.00 3.10
577 579 3.002246 GCGTATGTGTGAGAGAGAGAGAG 59.998 52.174 0.00 0.00 0.00 3.20
578 580 2.939756 GCGTATGTGTGAGAGAGAGAGA 59.060 50.000 0.00 0.00 0.00 3.10
579 581 2.680339 TGCGTATGTGTGAGAGAGAGAG 59.320 50.000 0.00 0.00 0.00 3.20
580 582 2.680339 CTGCGTATGTGTGAGAGAGAGA 59.320 50.000 0.00 0.00 0.00 3.10
581 583 2.223456 CCTGCGTATGTGTGAGAGAGAG 60.223 54.545 0.00 0.00 0.00 3.20
582 584 1.745653 CCTGCGTATGTGTGAGAGAGA 59.254 52.381 0.00 0.00 0.00 3.10
583 585 1.745653 TCCTGCGTATGTGTGAGAGAG 59.254 52.381 0.00 0.00 0.00 3.20
584 586 1.745653 CTCCTGCGTATGTGTGAGAGA 59.254 52.381 0.00 0.00 0.00 3.10
585 587 1.474478 ACTCCTGCGTATGTGTGAGAG 59.526 52.381 0.00 0.00 0.00 3.20
586 588 1.545841 ACTCCTGCGTATGTGTGAGA 58.454 50.000 0.00 0.00 0.00 3.27
587 589 1.995484 CAACTCCTGCGTATGTGTGAG 59.005 52.381 0.00 0.00 0.00 3.51
588 590 1.616374 TCAACTCCTGCGTATGTGTGA 59.384 47.619 0.00 0.00 0.00 3.58
589 591 1.995484 CTCAACTCCTGCGTATGTGTG 59.005 52.381 0.00 0.00 0.00 3.82
590 592 1.673033 GCTCAACTCCTGCGTATGTGT 60.673 52.381 0.00 0.00 0.00 3.72
591 593 1.002366 GCTCAACTCCTGCGTATGTG 58.998 55.000 0.00 0.00 0.00 3.21
592 594 0.898320 AGCTCAACTCCTGCGTATGT 59.102 50.000 0.00 0.00 0.00 2.29
593 595 1.662629 CAAGCTCAACTCCTGCGTATG 59.337 52.381 0.00 0.00 0.00 2.39
594 596 1.406069 CCAAGCTCAACTCCTGCGTAT 60.406 52.381 0.00 0.00 0.00 3.06
595 597 0.037326 CCAAGCTCAACTCCTGCGTA 60.037 55.000 0.00 0.00 0.00 4.42
596 598 1.302033 CCAAGCTCAACTCCTGCGT 60.302 57.895 0.00 0.00 0.00 5.24
597 599 1.004560 TCCAAGCTCAACTCCTGCG 60.005 57.895 0.00 0.00 0.00 5.18
598 600 0.250467 TGTCCAAGCTCAACTCCTGC 60.250 55.000 0.00 0.00 0.00 4.85
599 601 2.260844 TTGTCCAAGCTCAACTCCTG 57.739 50.000 0.00 0.00 0.00 3.86
600 602 3.515602 ATTTGTCCAAGCTCAACTCCT 57.484 42.857 0.00 0.00 0.00 3.69
601 603 5.008118 GCTATATTTGTCCAAGCTCAACTCC 59.992 44.000 0.00 0.00 0.00 3.85
602 604 5.008118 GGCTATATTTGTCCAAGCTCAACTC 59.992 44.000 0.00 0.00 33.67 3.01
603 605 4.884164 GGCTATATTTGTCCAAGCTCAACT 59.116 41.667 0.00 0.00 33.67 3.16
604 606 4.260784 CGGCTATATTTGTCCAAGCTCAAC 60.261 45.833 0.00 0.00 33.67 3.18
605 607 3.876914 CGGCTATATTTGTCCAAGCTCAA 59.123 43.478 0.00 0.00 33.67 3.02
606 608 3.466836 CGGCTATATTTGTCCAAGCTCA 58.533 45.455 0.00 0.00 33.67 4.26
607 609 2.808543 CCGGCTATATTTGTCCAAGCTC 59.191 50.000 0.00 0.00 33.67 4.09
608 610 2.172717 ACCGGCTATATTTGTCCAAGCT 59.827 45.455 0.00 0.00 33.67 3.74
609 611 2.290641 CACCGGCTATATTTGTCCAAGC 59.709 50.000 0.00 0.00 0.00 4.01
610 612 2.878406 CCACCGGCTATATTTGTCCAAG 59.122 50.000 0.00 0.00 0.00 3.61
611 613 2.422235 CCCACCGGCTATATTTGTCCAA 60.422 50.000 0.00 0.00 0.00 3.53
612 614 1.142060 CCCACCGGCTATATTTGTCCA 59.858 52.381 0.00 0.00 0.00 4.02
613 615 1.892209 CCCACCGGCTATATTTGTCC 58.108 55.000 0.00 0.00 0.00 4.02
627 629 3.682292 GATCACCTCACCGCCCACC 62.682 68.421 0.00 0.00 0.00 4.61
628 630 2.125106 GATCACCTCACCGCCCAC 60.125 66.667 0.00 0.00 0.00 4.61
629 631 3.770040 CGATCACCTCACCGCCCA 61.770 66.667 0.00 0.00 0.00 5.36
630 632 2.797278 ATCGATCACCTCACCGCCC 61.797 63.158 0.00 0.00 0.00 6.13
631 633 1.592669 CATCGATCACCTCACCGCC 60.593 63.158 0.00 0.00 0.00 6.13
632 634 1.592669 CCATCGATCACCTCACCGC 60.593 63.158 0.00 0.00 0.00 5.68
633 635 0.031314 CTCCATCGATCACCTCACCG 59.969 60.000 0.00 0.00 0.00 4.94
634 636 0.249657 GCTCCATCGATCACCTCACC 60.250 60.000 0.00 0.00 0.00 4.02
635 637 0.749649 AGCTCCATCGATCACCTCAC 59.250 55.000 0.00 0.00 0.00 3.51
636 638 1.035923 GAGCTCCATCGATCACCTCA 58.964 55.000 0.87 0.00 0.00 3.86
637 639 1.000385 CAGAGCTCCATCGATCACCTC 60.000 57.143 10.93 0.00 0.00 3.85
638 640 1.039068 CAGAGCTCCATCGATCACCT 58.961 55.000 10.93 0.00 0.00 4.00
639 641 0.033228 CCAGAGCTCCATCGATCACC 59.967 60.000 10.93 0.00 0.00 4.02
640 642 1.035923 TCCAGAGCTCCATCGATCAC 58.964 55.000 10.93 0.00 0.00 3.06
641 643 1.035923 GTCCAGAGCTCCATCGATCA 58.964 55.000 10.93 0.00 0.00 2.92
642 644 1.327303 AGTCCAGAGCTCCATCGATC 58.673 55.000 10.93 0.00 0.00 3.69
643 645 2.666272 TAGTCCAGAGCTCCATCGAT 57.334 50.000 10.93 0.00 0.00 3.59
644 646 2.234143 CATAGTCCAGAGCTCCATCGA 58.766 52.381 10.93 0.00 0.00 3.59
645 647 1.271934 CCATAGTCCAGAGCTCCATCG 59.728 57.143 10.93 0.00 0.00 3.84
646 648 2.562298 CTCCATAGTCCAGAGCTCCATC 59.438 54.545 10.93 0.00 0.00 3.51
647 649 2.178764 TCTCCATAGTCCAGAGCTCCAT 59.821 50.000 10.93 0.00 0.00 3.41
648 650 1.570979 TCTCCATAGTCCAGAGCTCCA 59.429 52.381 10.93 0.00 0.00 3.86
649 651 2.373335 TCTCCATAGTCCAGAGCTCC 57.627 55.000 10.93 0.00 0.00 4.70
650 652 3.758554 GAGATCTCCATAGTCCAGAGCTC 59.241 52.174 12.00 5.27 41.19 4.09
651 653 3.766545 GAGATCTCCATAGTCCAGAGCT 58.233 50.000 12.00 0.00 35.61 4.09
665 667 6.294620 CGGTGGTTTATTAGTAGGGAGATCTC 60.295 46.154 14.75 14.75 0.00 2.75
666 668 5.539193 CGGTGGTTTATTAGTAGGGAGATCT 59.461 44.000 0.00 0.00 0.00 2.75
667 669 5.537674 TCGGTGGTTTATTAGTAGGGAGATC 59.462 44.000 0.00 0.00 0.00 2.75
668 670 5.461327 TCGGTGGTTTATTAGTAGGGAGAT 58.539 41.667 0.00 0.00 0.00 2.75
697 699 2.278596 CCGCGACATACGACCAGG 60.279 66.667 8.23 0.00 45.77 4.45
1951 2598 5.816777 ACCAAAATTCAGAAAACACACCATG 59.183 36.000 0.00 0.00 0.00 3.66
2777 3429 3.637911 TTATAGGAAAGGCCGCAAAGA 57.362 42.857 0.00 0.00 43.43 2.52
3172 4236 7.011389 GTGTGCATGCTGAATTTCTACTATACA 59.989 37.037 20.33 5.75 0.00 2.29
3869 4979 4.712476 AGCATCAGAACAAAGAGTGAAGT 58.288 39.130 0.00 0.00 0.00 3.01
4064 5379 2.556622 AGAAAATTTGTTCGTGGCGGAT 59.443 40.909 0.00 0.00 32.50 4.18


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

AutoCloner maintained by Alex Coulton.