Multiple sequence alignment - TraesCS3A01G255300

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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 TraesCS3A01G255300 chr3A 100.000 3137 0 0 1 3137 477332628 477329492 0.000000e+00 5794.0
1 TraesCS3A01G255300 chr3D 91.175 1847 97 30 585 2397 357799931 357798117 0.000000e+00 2447.0
2 TraesCS3A01G255300 chr3D 93.089 738 50 1 2400 3137 105147060 105146324 0.000000e+00 1079.0
3 TraesCS3A01G255300 chr3D 93.125 480 28 4 1 479 357800401 357799926 0.000000e+00 699.0
4 TraesCS3A01G255300 chr3B 92.996 1128 46 19 588 1703 459444499 459443393 0.000000e+00 1615.0
5 TraesCS3A01G255300 chr3B 92.756 635 25 2 1783 2399 459443347 459442716 0.000000e+00 898.0
6 TraesCS3A01G255300 chr3B 91.786 487 26 5 1 476 459444980 459444497 0.000000e+00 665.0
7 TraesCS3A01G255300 chr7D 91.599 738 61 1 2400 3137 186436414 186435678 0.000000e+00 1018.0
8 TraesCS3A01G255300 chr7D 90.786 738 67 1 2400 3137 388019446 388020182 0.000000e+00 985.0
9 TraesCS3A01G255300 chr7D 88.587 552 63 0 2586 3137 557454235 557454786 0.000000e+00 671.0
10 TraesCS3A01G255300 chr7D 94.643 112 6 0 481 592 392643334 392643223 1.160000e-39 174.0
11 TraesCS3A01G255300 chr6D 91.218 706 60 1 2434 3137 6337246 6337951 0.000000e+00 959.0
12 TraesCS3A01G255300 chr6D 98.182 110 2 0 478 587 439917031 439917140 3.190000e-45 193.0
13 TraesCS3A01G255300 chr6D 92.683 41 3 0 2521 2561 455893725 455893685 3.380000e-05 60.2
14 TraesCS3A01G255300 chr2A 89.702 738 76 0 2400 3137 385378990 385378253 0.000000e+00 942.0
15 TraesCS3A01G255300 chr2B 87.416 747 92 2 2391 3137 313559509 313560253 0.000000e+00 857.0
16 TraesCS3A01G255300 chr5D 83.824 748 117 4 2390 3136 314896830 314897574 0.000000e+00 708.0
17 TraesCS3A01G255300 chr5B 82.249 738 129 2 2400 3136 137055239 137054503 1.230000e-178 636.0
18 TraesCS3A01G255300 chr5B 96.364 110 4 0 478 587 617823366 617823475 6.910000e-42 182.0
19 TraesCS3A01G255300 chr4B 98.165 109 2 0 480 588 414860853 414860745 1.150000e-44 191.0
20 TraesCS3A01G255300 chr4B 93.913 115 6 1 481 595 87405118 87405231 4.160000e-39 172.0
21 TraesCS3A01G255300 chr7B 97.196 107 3 0 481 587 683101467 683101573 6.910000e-42 182.0
22 TraesCS3A01G255300 chr6B 97.196 107 3 0 481 587 640973341 640973235 6.910000e-42 182.0
23 TraesCS3A01G255300 chr4D 97.196 107 3 0 481 587 67466322 67466428 6.910000e-42 182.0
24 TraesCS3A01G255300 chr4A 97.196 107 3 0 481 587 516936217 516936323 6.910000e-42 182.0


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 TraesCS3A01G255300 chr3A 477329492 477332628 3136 True 5794.000000 5794 100.000000 1 3137 1 chr3A.!!$R1 3136
1 TraesCS3A01G255300 chr3D 357798117 357800401 2284 True 1573.000000 2447 92.150000 1 2397 2 chr3D.!!$R2 2396
2 TraesCS3A01G255300 chr3D 105146324 105147060 736 True 1079.000000 1079 93.089000 2400 3137 1 chr3D.!!$R1 737
3 TraesCS3A01G255300 chr3B 459442716 459444980 2264 True 1059.333333 1615 92.512667 1 2399 3 chr3B.!!$R1 2398
4 TraesCS3A01G255300 chr7D 186435678 186436414 736 True 1018.000000 1018 91.599000 2400 3137 1 chr7D.!!$R1 737
5 TraesCS3A01G255300 chr7D 388019446 388020182 736 False 985.000000 985 90.786000 2400 3137 1 chr7D.!!$F1 737
6 TraesCS3A01G255300 chr7D 557454235 557454786 551 False 671.000000 671 88.587000 2586 3137 1 chr7D.!!$F2 551
7 TraesCS3A01G255300 chr6D 6337246 6337951 705 False 959.000000 959 91.218000 2434 3137 1 chr6D.!!$F1 703
8 TraesCS3A01G255300 chr2A 385378253 385378990 737 True 942.000000 942 89.702000 2400 3137 1 chr2A.!!$R1 737
9 TraesCS3A01G255300 chr2B 313559509 313560253 744 False 857.000000 857 87.416000 2391 3137 1 chr2B.!!$F1 746
10 TraesCS3A01G255300 chr5D 314896830 314897574 744 False 708.000000 708 83.824000 2390 3136 1 chr5D.!!$F1 746
11 TraesCS3A01G255300 chr5B 137054503 137055239 736 True 636.000000 636 82.249000 2400 3136 1 chr5B.!!$R1 736

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
373 376 0.319641 GGCGATCCGACCTATCAACC 60.320 60.0 0.0 0.0 0.0 3.77 F
1710 1760 0.105593 ATGGTACGCAGCTCCTCATG 59.894 55.0 0.0 0.0 0.0 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1800 1850 0.107993 CCCTGAAGAAGCAGCGATGA 60.108 55.0 4.02 0.00 34.56 2.92 R
2561 2633 1.188863 GGGTTCCTCAAAGCATGCAT 58.811 50.0 21.98 4.57 37.09 3.96 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
93 94 5.765176 TCATCTTCACAAGTTTTGAGCATG 58.235 37.500 6.16 6.16 0.00 4.06
99 100 5.531634 TCACAAGTTTTGAGCATGGAATTC 58.468 37.500 0.00 0.00 0.00 2.17
120 121 0.454957 CAAACCGCTGCATTTCTCCG 60.455 55.000 0.00 0.00 0.00 4.63
130 131 2.557924 TGCATTTCTCCGTGCTGAATTT 59.442 40.909 0.00 0.00 41.78 1.82
132 133 3.419915 CATTTCTCCGTGCTGAATTTCG 58.580 45.455 0.00 0.00 0.00 3.46
134 135 2.163818 TCTCCGTGCTGAATTTCGTT 57.836 45.000 0.00 0.00 0.00 3.85
150 151 5.957842 TTTCGTTTGGTCATTCTAAGCAT 57.042 34.783 0.00 0.00 0.00 3.79
151 152 5.545658 TTCGTTTGGTCATTCTAAGCATC 57.454 39.130 0.00 0.00 0.00 3.91
182 183 2.243957 CGTGTCAGCCTCAAACGCA 61.244 57.895 0.00 0.00 0.00 5.24
296 299 2.117206 AAGCGGTGGCCATCCAAA 59.883 55.556 9.72 0.00 45.53 3.28
343 346 1.336755 ACTTGGCCGATTTGTGTTCAC 59.663 47.619 0.00 0.00 0.00 3.18
354 357 1.075979 TGTGTTCACGGCGATGATCG 61.076 55.000 16.62 11.02 43.89 3.69
373 376 0.319641 GGCGATCCGACCTATCAACC 60.320 60.000 0.00 0.00 0.00 3.77
376 379 1.681793 CGATCCGACCTATCAACCACT 59.318 52.381 0.00 0.00 0.00 4.00
397 400 2.865079 TGGACGCCATTACCTCAAAAA 58.135 42.857 0.00 0.00 0.00 1.94
441 457 4.385088 GCCAGGAAAGATTCTTCAGATCCT 60.385 45.833 10.38 10.38 33.34 3.24
459 475 1.859080 CCTACCGCAGAAAACGATAGC 59.141 52.381 0.00 0.00 42.67 2.97
476 492 4.095185 CGATAGCCTGTAGATAGCTGGTAC 59.905 50.000 0.00 0.00 37.45 3.34
479 495 4.400120 AGCCTGTAGATAGCTGGTACTAC 58.600 47.826 0.00 14.27 34.99 2.73
480 496 4.105057 AGCCTGTAGATAGCTGGTACTACT 59.895 45.833 18.38 9.83 36.95 2.57
481 497 5.310068 AGCCTGTAGATAGCTGGTACTACTA 59.690 44.000 18.38 9.15 36.95 1.82
482 498 5.412286 GCCTGTAGATAGCTGGTACTACTAC 59.588 48.000 18.38 16.60 36.95 2.73
483 499 6.744906 GCCTGTAGATAGCTGGTACTACTACT 60.745 46.154 18.38 0.00 36.95 2.57
484 500 7.526860 GCCTGTAGATAGCTGGTACTACTACTA 60.527 44.444 18.38 10.44 36.95 1.82
485 501 7.818930 CCTGTAGATAGCTGGTACTACTACTAC 59.181 44.444 18.38 0.00 36.95 2.73
486 502 7.675062 TGTAGATAGCTGGTACTACTACTACC 58.325 42.308 18.38 0.00 36.95 3.18
487 503 7.512058 TGTAGATAGCTGGTACTACTACTACCT 59.488 40.741 18.38 4.47 36.95 3.08
488 504 7.008021 AGATAGCTGGTACTACTACTACCTC 57.992 44.000 0.00 0.00 35.54 3.85
489 505 6.788957 AGATAGCTGGTACTACTACTACCTCT 59.211 42.308 0.00 0.00 35.54 3.69
490 506 5.038651 AGCTGGTACTACTACTACCTCTG 57.961 47.826 0.00 0.00 35.54 3.35
491 507 4.474287 AGCTGGTACTACTACTACCTCTGT 59.526 45.833 0.00 0.00 35.54 3.41
492 508 5.044993 AGCTGGTACTACTACTACCTCTGTT 60.045 44.000 0.00 0.00 35.54 3.16
493 509 5.296531 GCTGGTACTACTACTACCTCTGTTC 59.703 48.000 0.00 0.00 35.54 3.18
494 510 6.378661 TGGTACTACTACTACCTCTGTTCA 57.621 41.667 0.00 0.00 35.54 3.18
495 511 6.176183 TGGTACTACTACTACCTCTGTTCAC 58.824 44.000 0.00 0.00 35.54 3.18
496 512 6.013032 TGGTACTACTACTACCTCTGTTCACT 60.013 42.308 0.00 0.00 35.54 3.41
497 513 6.883756 GGTACTACTACTACCTCTGTTCACTT 59.116 42.308 0.00 0.00 32.23 3.16
498 514 7.392953 GGTACTACTACTACCTCTGTTCACTTT 59.607 40.741 0.00 0.00 32.23 2.66
499 515 7.836479 ACTACTACTACCTCTGTTCACTTTT 57.164 36.000 0.00 0.00 0.00 2.27
500 516 8.930846 ACTACTACTACCTCTGTTCACTTTTA 57.069 34.615 0.00 0.00 0.00 1.52
501 517 9.531158 ACTACTACTACCTCTGTTCACTTTTAT 57.469 33.333 0.00 0.00 0.00 1.40
507 523 8.027771 ACTACCTCTGTTCACTTTTATAAGACG 58.972 37.037 0.00 0.00 35.30 4.18
508 524 6.756221 ACCTCTGTTCACTTTTATAAGACGT 58.244 36.000 0.00 0.00 35.30 4.34
509 525 7.215085 ACCTCTGTTCACTTTTATAAGACGTT 58.785 34.615 0.00 0.00 35.30 3.99
510 526 7.713942 ACCTCTGTTCACTTTTATAAGACGTTT 59.286 33.333 0.00 0.00 35.30 3.60
511 527 8.557029 CCTCTGTTCACTTTTATAAGACGTTTT 58.443 33.333 0.00 0.00 35.30 2.43
524 540 9.917129 TTATAAGACGTTTTAGACATTCAGACA 57.083 29.630 4.75 0.00 0.00 3.41
525 541 6.526566 AAGACGTTTTAGACATTCAGACAC 57.473 37.500 0.00 0.00 0.00 3.67
526 542 5.844004 AGACGTTTTAGACATTCAGACACT 58.156 37.500 0.00 0.00 0.00 3.55
527 543 5.692204 AGACGTTTTAGACATTCAGACACTG 59.308 40.000 0.00 0.00 0.00 3.66
528 544 5.357257 ACGTTTTAGACATTCAGACACTGT 58.643 37.500 0.00 0.00 32.61 3.55
529 545 5.462398 ACGTTTTAGACATTCAGACACTGTC 59.538 40.000 0.38 0.38 39.63 3.51
530 546 5.107453 CGTTTTAGACATTCAGACACTGTCC 60.107 44.000 5.51 0.00 40.08 4.02
531 547 5.545063 TTTAGACATTCAGACACTGTCCA 57.455 39.130 5.51 0.00 40.08 4.02
532 548 5.545063 TTAGACATTCAGACACTGTCCAA 57.455 39.130 5.51 0.00 40.08 3.53
533 549 4.422073 AGACATTCAGACACTGTCCAAA 57.578 40.909 5.51 1.37 40.08 3.28
534 550 4.780815 AGACATTCAGACACTGTCCAAAA 58.219 39.130 5.51 0.00 40.08 2.44
535 551 4.576463 AGACATTCAGACACTGTCCAAAAC 59.424 41.667 5.51 0.00 40.08 2.43
536 552 4.269183 ACATTCAGACACTGTCCAAAACA 58.731 39.130 5.51 0.00 36.18 2.83
548 564 4.992688 TGTCCAAAACAGTACAAAGCAAG 58.007 39.130 0.00 0.00 32.81 4.01
549 565 3.796717 GTCCAAAACAGTACAAAGCAAGC 59.203 43.478 0.00 0.00 0.00 4.01
550 566 3.699038 TCCAAAACAGTACAAAGCAAGCT 59.301 39.130 0.00 0.00 0.00 3.74
551 567 3.798337 CCAAAACAGTACAAAGCAAGCTG 59.202 43.478 0.00 0.00 0.00 4.24
552 568 4.423732 CAAAACAGTACAAAGCAAGCTGT 58.576 39.130 0.00 0.00 41.51 4.40
553 569 3.971032 AACAGTACAAAGCAAGCTGTC 57.029 42.857 0.00 0.00 39.19 3.51
554 570 3.199880 ACAGTACAAAGCAAGCTGTCT 57.800 42.857 0.00 0.00 35.78 3.41
555 571 2.874701 ACAGTACAAAGCAAGCTGTCTG 59.125 45.455 0.00 0.00 35.78 3.51
556 572 3.133691 CAGTACAAAGCAAGCTGTCTGA 58.866 45.455 0.00 0.00 0.00 3.27
557 573 3.561310 CAGTACAAAGCAAGCTGTCTGAA 59.439 43.478 0.00 0.00 0.00 3.02
558 574 4.035558 CAGTACAAAGCAAGCTGTCTGAAA 59.964 41.667 0.00 0.00 0.00 2.69
559 575 3.427161 ACAAAGCAAGCTGTCTGAAAC 57.573 42.857 0.00 0.00 0.00 2.78
560 576 2.223340 ACAAAGCAAGCTGTCTGAAACG 60.223 45.455 0.00 0.00 0.00 3.60
561 577 1.668419 AAGCAAGCTGTCTGAAACGT 58.332 45.000 0.00 0.00 0.00 3.99
562 578 1.221414 AGCAAGCTGTCTGAAACGTC 58.779 50.000 0.00 0.00 0.00 4.34
563 579 1.202580 AGCAAGCTGTCTGAAACGTCT 60.203 47.619 0.00 0.00 0.00 4.18
564 580 1.599542 GCAAGCTGTCTGAAACGTCTT 59.400 47.619 0.00 0.00 0.00 3.01
565 581 2.800544 GCAAGCTGTCTGAAACGTCTTA 59.199 45.455 0.00 0.00 0.00 2.10
566 582 3.363084 GCAAGCTGTCTGAAACGTCTTAC 60.363 47.826 0.00 0.00 0.00 2.34
567 583 3.728076 AGCTGTCTGAAACGTCTTACA 57.272 42.857 0.00 0.00 0.00 2.41
568 584 4.054780 AGCTGTCTGAAACGTCTTACAA 57.945 40.909 0.00 0.00 0.00 2.41
569 585 4.439057 AGCTGTCTGAAACGTCTTACAAA 58.561 39.130 0.00 0.00 0.00 2.83
570 586 4.873827 AGCTGTCTGAAACGTCTTACAAAA 59.126 37.500 0.00 0.00 0.00 2.44
571 587 5.353123 AGCTGTCTGAAACGTCTTACAAAAA 59.647 36.000 0.00 0.00 0.00 1.94
572 588 5.451342 GCTGTCTGAAACGTCTTACAAAAAC 59.549 40.000 0.00 0.00 0.00 2.43
573 589 6.483385 TGTCTGAAACGTCTTACAAAAACA 57.517 33.333 0.00 0.00 0.00 2.83
574 590 6.900189 TGTCTGAAACGTCTTACAAAAACAA 58.100 32.000 0.00 0.00 0.00 2.83
575 591 7.361127 TGTCTGAAACGTCTTACAAAAACAAA 58.639 30.769 0.00 0.00 0.00 2.83
576 592 7.324135 TGTCTGAAACGTCTTACAAAAACAAAC 59.676 33.333 0.00 0.00 0.00 2.93
577 593 6.520447 TCTGAAACGTCTTACAAAAACAAACG 59.480 34.615 0.00 0.00 35.00 3.60
578 594 5.568296 TGAAACGTCTTACAAAAACAAACGG 59.432 36.000 0.00 0.00 33.26 4.44
579 595 4.943142 ACGTCTTACAAAAACAAACGGA 57.057 36.364 0.00 0.00 33.26 4.69
580 596 4.900664 ACGTCTTACAAAAACAAACGGAG 58.099 39.130 0.00 0.00 33.26 4.63
581 597 4.201841 ACGTCTTACAAAAACAAACGGAGG 60.202 41.667 0.00 0.00 33.26 4.30
582 598 4.603985 GTCTTACAAAAACAAACGGAGGG 58.396 43.478 0.00 0.00 0.00 4.30
583 599 4.336153 GTCTTACAAAAACAAACGGAGGGA 59.664 41.667 0.00 0.00 0.00 4.20
584 600 4.577283 TCTTACAAAAACAAACGGAGGGAG 59.423 41.667 0.00 0.00 0.00 4.30
585 601 2.730382 ACAAAAACAAACGGAGGGAGT 58.270 42.857 0.00 0.00 0.00 3.85
586 602 3.888583 ACAAAAACAAACGGAGGGAGTA 58.111 40.909 0.00 0.00 0.00 2.59
587 603 3.881089 ACAAAAACAAACGGAGGGAGTAG 59.119 43.478 0.00 0.00 0.00 2.57
588 604 3.851458 AAAACAAACGGAGGGAGTAGT 57.149 42.857 0.00 0.00 0.00 2.73
589 605 4.961438 AAAACAAACGGAGGGAGTAGTA 57.039 40.909 0.00 0.00 0.00 1.82
590 606 4.961438 AAACAAACGGAGGGAGTAGTAA 57.039 40.909 0.00 0.00 0.00 2.24
591 607 4.961438 AACAAACGGAGGGAGTAGTAAA 57.039 40.909 0.00 0.00 0.00 2.01
592 608 5.494390 AACAAACGGAGGGAGTAGTAAAT 57.506 39.130 0.00 0.00 0.00 1.40
593 609 5.494390 ACAAACGGAGGGAGTAGTAAATT 57.506 39.130 0.00 0.00 0.00 1.82
594 610 5.872963 ACAAACGGAGGGAGTAGTAAATTT 58.127 37.500 0.00 0.00 0.00 1.82
595 611 5.936372 ACAAACGGAGGGAGTAGTAAATTTC 59.064 40.000 0.00 0.00 0.00 2.17
596 612 5.750352 AACGGAGGGAGTAGTAAATTTCA 57.250 39.130 0.00 0.00 0.00 2.69
815 831 2.237751 CCGTTCCATAGGCGCGAAG 61.238 63.158 12.10 0.00 0.00 3.79
873 892 3.376859 TGCCGATGATTCAACCATACAAC 59.623 43.478 0.00 0.00 0.00 3.32
945 968 2.420043 ACGGCGTTACAGTGCTGT 59.580 55.556 6.77 9.90 45.50 4.40
998 1027 5.192176 AGGAGGCTTCTTCAATCTTTCATC 58.808 41.667 0.00 0.00 0.00 2.92
1041 1070 4.537433 ATCTCCTGCTTCGCCGCC 62.537 66.667 0.00 0.00 0.00 6.13
1098 1127 0.253044 TCTCCCCAGTGTAAGCATGC 59.747 55.000 10.51 10.51 0.00 4.06
1099 1128 0.254178 CTCCCCAGTGTAAGCATGCT 59.746 55.000 16.30 16.30 0.00 3.79
1113 1142 7.011763 GTGTAAGCATGCTATATACATGGATGG 59.988 40.741 25.70 0.00 44.12 3.51
1114 1143 4.458397 AGCATGCTATATACATGGATGGC 58.542 43.478 21.21 3.42 44.12 4.40
1123 1152 0.899717 ACATGGATGGCGCTGGTTTT 60.900 50.000 7.64 0.00 0.00 2.43
1129 1163 2.661537 GGCGCTGGTTTTGTTGGC 60.662 61.111 7.64 0.00 0.00 4.52
1136 1170 2.664916 CTGGTTTTGTTGGCTTGATCG 58.335 47.619 0.00 0.00 0.00 3.69
1147 1181 0.526524 GCTTGATCGTCGTGGAGAGG 60.527 60.000 0.00 0.00 36.16 3.69
1162 1196 1.737008 GAGGGGTTTCTGACGACGC 60.737 63.158 0.00 0.48 0.00 5.19
1181 1215 1.575803 GCGTTTGTGTTTCGTGTTGTC 59.424 47.619 0.00 0.00 0.00 3.18
1182 1216 1.829457 CGTTTGTGTTTCGTGTTGTCG 59.171 47.619 0.00 0.00 0.00 4.35
1183 1217 1.575803 GTTTGTGTTTCGTGTTGTCGC 59.424 47.619 0.00 0.00 0.00 5.19
1185 1219 0.741574 TGTGTTTCGTGTTGTCGCCT 60.742 50.000 0.00 0.00 0.00 5.52
1438 1472 2.669240 CTTCCCGTCCTGAACCCC 59.331 66.667 0.00 0.00 0.00 4.95
1442 1476 2.358247 CCGTCCTGAACCCCGTTG 60.358 66.667 0.00 0.00 0.00 4.10
1453 1487 0.179004 ACCCCGTTGCACTTTCATCA 60.179 50.000 0.00 0.00 0.00 3.07
1454 1488 1.176527 CCCCGTTGCACTTTCATCAT 58.823 50.000 0.00 0.00 0.00 2.45
1455 1489 1.133025 CCCCGTTGCACTTTCATCATC 59.867 52.381 0.00 0.00 0.00 2.92
1456 1490 2.086869 CCCGTTGCACTTTCATCATCT 58.913 47.619 0.00 0.00 0.00 2.90
1457 1491 2.096496 CCCGTTGCACTTTCATCATCTC 59.904 50.000 0.00 0.00 0.00 2.75
1458 1492 2.743664 CCGTTGCACTTTCATCATCTCA 59.256 45.455 0.00 0.00 0.00 3.27
1459 1493 3.181513 CCGTTGCACTTTCATCATCTCAG 60.182 47.826 0.00 0.00 0.00 3.35
1460 1494 3.681417 CGTTGCACTTTCATCATCTCAGA 59.319 43.478 0.00 0.00 0.00 3.27
1461 1495 4.152938 CGTTGCACTTTCATCATCTCAGAA 59.847 41.667 0.00 0.00 0.00 3.02
1464 1498 6.005583 TGCACTTTCATCATCTCAGAAAAC 57.994 37.500 0.00 0.00 31.59 2.43
1470 1504 5.488262 TCATCATCTCAGAAAACCAGTCA 57.512 39.130 0.00 0.00 0.00 3.41
1474 1508 5.436175 TCATCTCAGAAAACCAGTCAAACA 58.564 37.500 0.00 0.00 0.00 2.83
1511 1545 6.530120 TGCAATACTTCTTCCTGTACTGAAA 58.470 36.000 0.60 0.00 0.00 2.69
1516 1550 5.241662 ACTTCTTCCTGTACTGAAATCTGC 58.758 41.667 0.60 0.00 0.00 4.26
1524 1559 5.931146 CCTGTACTGAAATCTGCTATCCATC 59.069 44.000 0.60 0.00 0.00 3.51
1526 1561 6.519382 TGTACTGAAATCTGCTATCCATCTG 58.481 40.000 0.00 0.00 0.00 2.90
1557 1592 2.823758 GGATGGTAGGGCTCCTGGC 61.824 68.421 4.16 0.00 40.90 4.85
1700 1735 1.317431 ACTAGCCGTCATGGTACGCA 61.317 55.000 1.57 0.00 41.51 5.24
1710 1760 0.105593 ATGGTACGCAGCTCCTCATG 59.894 55.000 0.00 0.00 0.00 3.07
1736 1786 6.943899 AATTTCTCCTACCTAGATCATCCC 57.056 41.667 0.00 0.00 0.00 3.85
1754 1804 0.986992 CCTTTTGGACTACGTACGCG 59.013 55.000 16.72 3.53 44.07 6.01
1792 1842 2.476619 GTGACATGGAACTGTTCTCACG 59.523 50.000 19.05 10.95 0.00 4.35
1800 1850 2.533266 ACTGTTCTCACGCATGTCTT 57.467 45.000 0.00 0.00 0.00 3.01
1806 1856 0.299895 CTCACGCATGTCTTCATCGC 59.700 55.000 0.00 0.00 32.34 4.58
1877 1927 3.432467 CCTTCTACCTCTCGCTCTCTACA 60.432 52.174 0.00 0.00 0.00 2.74
1878 1928 4.385825 CTTCTACCTCTCGCTCTCTACAT 58.614 47.826 0.00 0.00 0.00 2.29
1907 1957 1.065928 CGCCTCTTTCGCGGTCTAT 59.934 57.895 6.13 0.00 45.80 1.98
1948 1998 2.098607 TCTTCATCTACGTAAGCACCCG 59.901 50.000 0.00 0.00 45.62 5.28
2003 2071 4.927422 TCGATGTATTGTGCTGACGATTA 58.073 39.130 0.00 0.00 0.00 1.75
2004 2072 4.738252 TCGATGTATTGTGCTGACGATTAC 59.262 41.667 0.00 0.00 0.00 1.89
2040 2108 0.539438 ATTTTCAGCTGCCCAACGGA 60.539 50.000 9.47 0.00 0.00 4.69
2329 2399 3.524095 TTTCCCAAAGAATGCAGAGGA 57.476 42.857 0.00 0.00 33.44 3.71
2330 2400 2.795231 TCCCAAAGAATGCAGAGGAG 57.205 50.000 0.00 0.00 0.00 3.69
2504 2574 1.519751 ATGCCACCAAAGCGCGTTTA 61.520 50.000 9.10 0.00 0.00 2.01
2505 2575 1.728074 GCCACCAAAGCGCGTTTAC 60.728 57.895 9.10 0.00 0.00 2.01
2647 2719 0.320374 AGTGGCCGTTCTTGATCGAA 59.680 50.000 0.00 0.00 0.00 3.71
2652 2724 2.159282 GGCCGTTCTTGATCGAAGTCTA 60.159 50.000 0.00 0.00 32.90 2.59
2683 2755 1.604604 GCTTTGGACACAAGTGGCTA 58.395 50.000 5.96 0.00 39.02 3.93
2740 2812 2.426522 CGGATCATGATTAATGGCCGT 58.573 47.619 18.37 0.00 43.56 5.68
2842 2915 1.839994 CCCCTCTATGCACTCTTCCAA 59.160 52.381 0.00 0.00 0.00 3.53
2843 2916 2.420687 CCCCTCTATGCACTCTTCCAAC 60.421 54.545 0.00 0.00 0.00 3.77
2872 2945 1.077501 GCATGGCCTTCTAGCACCA 60.078 57.895 3.32 0.00 36.43 4.17
2935 3008 1.920574 GATGACGTCGTGGTCTTCATG 59.079 52.381 16.54 0.00 39.55 3.07
3056 3129 2.509548 CCCATTAGATGTTCCCAGGACA 59.490 50.000 0.00 0.00 0.00 4.02
3067 3140 1.063942 TCCCAGGACAAGATCGAGCTA 60.064 52.381 2.34 0.00 0.00 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 3.672808 CCATCTTTCAGACACAGCTTCT 58.327 45.455 0.00 0.00 0.00 2.85
17 18 1.202639 ACACGCCATCTTTCAGACACA 60.203 47.619 0.00 0.00 0.00 3.72
93 94 1.215382 GCAGCGGTTTGGGAATTCC 59.785 57.895 16.74 16.74 0.00 3.01
99 100 0.109132 GAGAAATGCAGCGGTTTGGG 60.109 55.000 0.00 0.00 0.00 4.12
120 121 3.347958 TGACCAAACGAAATTCAGCAC 57.652 42.857 0.00 0.00 0.00 4.40
130 131 3.616821 CGATGCTTAGAATGACCAAACGA 59.383 43.478 0.00 0.00 0.00 3.85
132 133 4.391830 TGTCGATGCTTAGAATGACCAAAC 59.608 41.667 0.00 0.00 0.00 2.93
134 135 4.200838 TGTCGATGCTTAGAATGACCAA 57.799 40.909 0.00 0.00 0.00 3.67
150 151 4.794439 CACGCCTCGCCATGTCGA 62.794 66.667 0.00 0.00 36.94 4.20
182 183 0.673644 CGGAGCGGATGACAAAAGGT 60.674 55.000 0.00 0.00 0.00 3.50
257 259 0.893270 TTGGCCGTCATTTGACCCAG 60.893 55.000 0.00 0.00 41.86 4.45
296 299 1.757682 TGAACTTGTGGCCGAAAAGT 58.242 45.000 10.78 10.78 35.70 2.66
343 346 3.175240 GATCGCCGATCATCGCCG 61.175 66.667 21.52 3.58 42.32 6.46
354 357 0.319641 GGTTGATAGGTCGGATCGCC 60.320 60.000 0.00 0.00 0.00 5.54
373 376 1.338674 TGAGGTAATGGCGTCCAAGTG 60.339 52.381 2.68 0.00 36.95 3.16
376 379 2.570415 TTTGAGGTAATGGCGTCCAA 57.430 45.000 2.68 0.00 36.95 3.53
418 434 3.882288 GGATCTGAAGAATCTTTCCTGGC 59.118 47.826 0.00 0.00 0.00 4.85
441 457 1.479323 AGGCTATCGTTTTCTGCGGTA 59.521 47.619 0.00 0.00 0.00 4.02
459 475 6.771573 AGTAGTAGTACCAGCTATCTACAGG 58.228 44.000 4.02 2.06 36.30 4.00
481 497 8.027771 CGTCTTATAAAAGTGAACAGAGGTAGT 58.972 37.037 0.00 0.00 34.13 2.73
482 498 8.027771 ACGTCTTATAAAAGTGAACAGAGGTAG 58.972 37.037 0.00 0.00 34.13 3.18
483 499 7.889469 ACGTCTTATAAAAGTGAACAGAGGTA 58.111 34.615 0.00 0.00 34.13 3.08
484 500 6.756221 ACGTCTTATAAAAGTGAACAGAGGT 58.244 36.000 0.00 0.00 34.13 3.85
485 501 7.653767 AACGTCTTATAAAAGTGAACAGAGG 57.346 36.000 0.00 0.00 34.13 3.69
498 514 9.917129 TGTCTGAATGTCTAAAACGTCTTATAA 57.083 29.630 0.00 0.00 0.00 0.98
499 515 9.350357 GTGTCTGAATGTCTAAAACGTCTTATA 57.650 33.333 0.00 0.00 0.00 0.98
500 516 8.088981 AGTGTCTGAATGTCTAAAACGTCTTAT 58.911 33.333 0.00 0.00 0.00 1.73
501 517 7.381408 CAGTGTCTGAATGTCTAAAACGTCTTA 59.619 37.037 0.00 0.00 32.44 2.10
502 518 6.201044 CAGTGTCTGAATGTCTAAAACGTCTT 59.799 38.462 0.00 0.00 32.44 3.01
503 519 5.692204 CAGTGTCTGAATGTCTAAAACGTCT 59.308 40.000 0.00 0.00 32.44 4.18
504 520 5.462398 ACAGTGTCTGAATGTCTAAAACGTC 59.538 40.000 3.70 0.00 35.18 4.34
505 521 5.357257 ACAGTGTCTGAATGTCTAAAACGT 58.643 37.500 3.70 0.00 35.18 3.99
506 522 5.107453 GGACAGTGTCTGAATGTCTAAAACG 60.107 44.000 22.18 0.00 42.36 3.60
507 523 5.758296 TGGACAGTGTCTGAATGTCTAAAAC 59.242 40.000 22.18 1.74 42.36 2.43
508 524 5.924356 TGGACAGTGTCTGAATGTCTAAAA 58.076 37.500 22.18 0.00 42.36 1.52
509 525 5.545063 TGGACAGTGTCTGAATGTCTAAA 57.455 39.130 22.18 3.72 42.36 1.85
510 526 5.545063 TTGGACAGTGTCTGAATGTCTAA 57.455 39.130 22.18 12.93 42.36 2.10
511 527 5.545063 TTTGGACAGTGTCTGAATGTCTA 57.455 39.130 22.18 8.90 42.36 2.59
512 528 4.422073 TTTGGACAGTGTCTGAATGTCT 57.578 40.909 22.18 0.00 42.36 3.41
513 529 4.335315 TGTTTTGGACAGTGTCTGAATGTC 59.665 41.667 22.18 4.97 42.07 3.06
514 530 4.269183 TGTTTTGGACAGTGTCTGAATGT 58.731 39.130 22.18 0.00 35.18 2.71
515 531 4.898829 TGTTTTGGACAGTGTCTGAATG 57.101 40.909 22.18 0.00 35.18 2.67
526 542 4.676723 GCTTGCTTTGTACTGTTTTGGACA 60.677 41.667 0.00 0.00 36.65 4.02
527 543 3.796717 GCTTGCTTTGTACTGTTTTGGAC 59.203 43.478 0.00 0.00 0.00 4.02
528 544 3.699038 AGCTTGCTTTGTACTGTTTTGGA 59.301 39.130 0.00 0.00 0.00 3.53
529 545 3.798337 CAGCTTGCTTTGTACTGTTTTGG 59.202 43.478 0.00 0.00 0.00 3.28
530 546 4.423732 ACAGCTTGCTTTGTACTGTTTTG 58.576 39.130 0.00 0.00 38.38 2.44
531 547 4.399303 AGACAGCTTGCTTTGTACTGTTTT 59.601 37.500 0.00 0.00 41.45 2.43
532 548 3.947834 AGACAGCTTGCTTTGTACTGTTT 59.052 39.130 0.00 0.00 41.45 2.83
533 549 3.313526 CAGACAGCTTGCTTTGTACTGTT 59.686 43.478 0.00 0.00 41.45 3.16
534 550 2.874701 CAGACAGCTTGCTTTGTACTGT 59.125 45.455 0.00 0.00 43.93 3.55
535 551 3.133691 TCAGACAGCTTGCTTTGTACTG 58.866 45.455 0.00 0.00 0.00 2.74
536 552 3.475566 TCAGACAGCTTGCTTTGTACT 57.524 42.857 0.00 0.00 0.00 2.73
537 553 4.282873 GTTTCAGACAGCTTGCTTTGTAC 58.717 43.478 0.00 0.00 0.00 2.90
538 554 3.002246 CGTTTCAGACAGCTTGCTTTGTA 59.998 43.478 0.00 0.00 0.00 2.41
539 555 2.223340 CGTTTCAGACAGCTTGCTTTGT 60.223 45.455 0.00 0.00 0.00 2.83
540 556 2.223340 ACGTTTCAGACAGCTTGCTTTG 60.223 45.455 0.00 0.00 0.00 2.77
541 557 2.017049 ACGTTTCAGACAGCTTGCTTT 58.983 42.857 0.00 0.00 0.00 3.51
542 558 1.599542 GACGTTTCAGACAGCTTGCTT 59.400 47.619 0.00 0.00 0.00 3.91
543 559 1.202580 AGACGTTTCAGACAGCTTGCT 60.203 47.619 0.00 0.00 0.00 3.91
544 560 1.221414 AGACGTTTCAGACAGCTTGC 58.779 50.000 0.00 0.00 0.00 4.01
545 561 3.802139 TGTAAGACGTTTCAGACAGCTTG 59.198 43.478 0.00 0.00 0.00 4.01
546 562 4.054780 TGTAAGACGTTTCAGACAGCTT 57.945 40.909 0.00 0.00 0.00 3.74
547 563 3.728076 TGTAAGACGTTTCAGACAGCT 57.272 42.857 0.00 0.00 0.00 4.24
548 564 4.789095 TTTGTAAGACGTTTCAGACAGC 57.211 40.909 0.00 0.00 0.00 4.40
549 565 6.539324 TGTTTTTGTAAGACGTTTCAGACAG 58.461 36.000 0.00 0.00 0.00 3.51
550 566 6.483385 TGTTTTTGTAAGACGTTTCAGACA 57.517 33.333 0.00 0.00 0.00 3.41
551 567 7.459219 CGTTTGTTTTTGTAAGACGTTTCAGAC 60.459 37.037 0.00 0.00 0.00 3.51
552 568 6.520447 CGTTTGTTTTTGTAAGACGTTTCAGA 59.480 34.615 0.00 0.00 0.00 3.27
553 569 6.237097 CCGTTTGTTTTTGTAAGACGTTTCAG 60.237 38.462 0.00 0.00 0.00 3.02
554 570 5.568296 CCGTTTGTTTTTGTAAGACGTTTCA 59.432 36.000 0.00 0.00 0.00 2.69
555 571 5.794448 TCCGTTTGTTTTTGTAAGACGTTTC 59.206 36.000 0.00 0.00 0.00 2.78
556 572 5.697826 TCCGTTTGTTTTTGTAAGACGTTT 58.302 33.333 0.00 0.00 0.00 3.60
557 573 5.294050 TCCGTTTGTTTTTGTAAGACGTT 57.706 34.783 0.00 0.00 0.00 3.99
558 574 4.201841 CCTCCGTTTGTTTTTGTAAGACGT 60.202 41.667 0.00 0.00 0.00 4.34
559 575 4.276460 CCTCCGTTTGTTTTTGTAAGACG 58.724 43.478 0.00 0.00 0.00 4.18
560 576 4.336153 TCCCTCCGTTTGTTTTTGTAAGAC 59.664 41.667 0.00 0.00 0.00 3.01
561 577 4.525024 TCCCTCCGTTTGTTTTTGTAAGA 58.475 39.130 0.00 0.00 0.00 2.10
562 578 4.337274 ACTCCCTCCGTTTGTTTTTGTAAG 59.663 41.667 0.00 0.00 0.00 2.34
563 579 4.271661 ACTCCCTCCGTTTGTTTTTGTAA 58.728 39.130 0.00 0.00 0.00 2.41
564 580 3.888583 ACTCCCTCCGTTTGTTTTTGTA 58.111 40.909 0.00 0.00 0.00 2.41
565 581 2.730382 ACTCCCTCCGTTTGTTTTTGT 58.270 42.857 0.00 0.00 0.00 2.83
566 582 3.881089 ACTACTCCCTCCGTTTGTTTTTG 59.119 43.478 0.00 0.00 0.00 2.44
567 583 4.160642 ACTACTCCCTCCGTTTGTTTTT 57.839 40.909 0.00 0.00 0.00 1.94
568 584 3.851458 ACTACTCCCTCCGTTTGTTTT 57.149 42.857 0.00 0.00 0.00 2.43
569 585 4.961438 TTACTACTCCCTCCGTTTGTTT 57.039 40.909 0.00 0.00 0.00 2.83
570 586 4.961438 TTTACTACTCCCTCCGTTTGTT 57.039 40.909 0.00 0.00 0.00 2.83
571 587 5.494390 AATTTACTACTCCCTCCGTTTGT 57.506 39.130 0.00 0.00 0.00 2.83
572 588 5.935789 TGAAATTTACTACTCCCTCCGTTTG 59.064 40.000 0.00 0.00 0.00 2.93
573 589 6.117975 TGAAATTTACTACTCCCTCCGTTT 57.882 37.500 0.00 0.00 0.00 3.60
574 590 5.750352 TGAAATTTACTACTCCCTCCGTT 57.250 39.130 0.00 0.00 0.00 4.44
575 591 5.952347 ATGAAATTTACTACTCCCTCCGT 57.048 39.130 0.00 0.00 0.00 4.69
618 634 3.877559 CACTGGCAAGATCATTACTGGA 58.122 45.455 0.00 0.00 0.00 3.86
619 635 2.357009 GCACTGGCAAGATCATTACTGG 59.643 50.000 0.00 0.00 40.72 4.00
620 636 2.031314 CGCACTGGCAAGATCATTACTG 59.969 50.000 0.00 0.00 41.24 2.74
621 637 2.283298 CGCACTGGCAAGATCATTACT 58.717 47.619 0.00 0.00 41.24 2.24
730 746 0.735632 CTTGTCTCGCCTCTGCTGAC 60.736 60.000 0.00 0.00 38.36 3.51
742 758 4.127171 TCAGTTAACCAGCAACTTGTCTC 58.873 43.478 0.88 0.00 33.99 3.36
780 796 2.505118 GGAGACGACTGCGAGCAC 60.505 66.667 0.00 0.00 41.64 4.40
793 809 2.792947 GCGCCTATGGAACGGGAGA 61.793 63.158 0.00 0.00 0.00 3.71
815 831 4.016113 ACGCGCCTCTTCATTTATTTTC 57.984 40.909 5.73 0.00 0.00 2.29
945 968 0.250295 CTTTTCCACGTCTGCCTCCA 60.250 55.000 0.00 0.00 0.00 3.86
998 1027 1.053264 CAGGGAGAGGGAGTCCATGG 61.053 65.000 12.30 4.97 41.30 3.66
1098 1127 3.118629 ACCAGCGCCATCCATGTATATAG 60.119 47.826 2.29 0.00 0.00 1.31
1099 1128 2.837591 ACCAGCGCCATCCATGTATATA 59.162 45.455 2.29 0.00 0.00 0.86
1113 1142 1.227234 AAGCCAACAAAACCAGCGC 60.227 52.632 0.00 0.00 0.00 5.92
1114 1143 0.102120 TCAAGCCAACAAAACCAGCG 59.898 50.000 0.00 0.00 0.00 5.18
1123 1152 0.948623 CCACGACGATCAAGCCAACA 60.949 55.000 0.00 0.00 0.00 3.33
1129 1163 0.101399 CCCTCTCCACGACGATCAAG 59.899 60.000 0.00 0.00 0.00 3.02
1136 1170 0.037232 CAGAAACCCCTCTCCACGAC 60.037 60.000 0.00 0.00 0.00 4.34
1147 1181 1.493134 AAACGCGTCGTCAGAAACCC 61.493 55.000 14.44 0.00 39.99 4.11
1162 1196 1.829457 CGACAACACGAAACACAAACG 59.171 47.619 0.00 0.00 35.09 3.60
1183 1217 0.881796 GAAGGTCGGCCTGAAAAAGG 59.118 55.000 10.71 0.00 46.33 3.11
1185 1219 1.953686 CTTGAAGGTCGGCCTGAAAAA 59.046 47.619 10.71 0.55 46.33 1.94
1438 1472 3.681417 TCTGAGATGATGAAAGTGCAACG 59.319 43.478 0.00 0.00 45.86 4.10
1442 1476 5.048504 TGGTTTTCTGAGATGATGAAAGTGC 60.049 40.000 0.00 0.00 32.36 4.40
1453 1487 4.823989 CCTGTTTGACTGGTTTTCTGAGAT 59.176 41.667 0.00 0.00 33.14 2.75
1454 1488 4.199310 CCTGTTTGACTGGTTTTCTGAGA 58.801 43.478 0.00 0.00 33.14 3.27
1455 1489 3.316308 CCCTGTTTGACTGGTTTTCTGAG 59.684 47.826 3.77 0.00 35.67 3.35
1456 1490 3.053991 TCCCTGTTTGACTGGTTTTCTGA 60.054 43.478 3.77 0.00 35.67 3.27
1457 1491 3.287222 TCCCTGTTTGACTGGTTTTCTG 58.713 45.455 3.77 0.00 35.67 3.02
1458 1492 3.662759 TCCCTGTTTGACTGGTTTTCT 57.337 42.857 3.77 0.00 35.67 2.52
1459 1493 3.445805 TGTTCCCTGTTTGACTGGTTTTC 59.554 43.478 3.77 0.00 35.67 2.29
1460 1494 3.436243 TGTTCCCTGTTTGACTGGTTTT 58.564 40.909 3.77 0.00 35.67 2.43
1461 1495 3.094484 TGTTCCCTGTTTGACTGGTTT 57.906 42.857 3.77 0.00 35.67 3.27
1464 1498 2.374184 TGTTGTTCCCTGTTTGACTGG 58.626 47.619 0.00 0.00 37.01 4.00
1470 1504 2.175202 TGCAGTTGTTGTTCCCTGTTT 58.825 42.857 0.00 0.00 0.00 2.83
1474 1508 3.832527 AGTATTGCAGTTGTTGTTCCCT 58.167 40.909 0.00 0.00 0.00 4.20
1511 1545 2.302445 GTGGAGCAGATGGATAGCAGAT 59.698 50.000 0.00 0.00 0.00 2.90
1526 1561 1.153208 CCATCCTCAGCTGTGGAGC 60.153 63.158 33.84 0.00 46.64 4.70
1557 1592 3.288308 AACGCGCAGACCAGGAGAG 62.288 63.158 5.73 0.00 0.00 3.20
1603 1638 1.872237 CGAGTCGGCTGGTCAAAGAAA 60.872 52.381 4.10 0.00 0.00 2.52
1700 1735 5.190357 AGGAGAAATTTTCATGAGGAGCT 57.810 39.130 11.53 0.00 0.00 4.09
1710 1760 7.880713 GGGATGATCTAGGTAGGAGAAATTTTC 59.119 40.741 0.66 0.66 0.00 2.29
1736 1786 1.967762 TCGCGTACGTAGTCCAAAAG 58.032 50.000 17.90 0.00 43.93 2.27
1768 1818 1.070758 AGAACAGTTCCATGTCACGCT 59.929 47.619 9.85 0.00 31.50 5.07
1773 1823 1.461127 GCGTGAGAACAGTTCCATGTC 59.539 52.381 9.85 1.72 31.50 3.06
1774 1824 1.202639 TGCGTGAGAACAGTTCCATGT 60.203 47.619 9.85 0.00 33.96 3.21
1792 1842 0.731417 AAGCAGCGATGAAGACATGC 59.269 50.000 4.02 0.00 36.82 4.06
1800 1850 0.107993 CCCTGAAGAAGCAGCGATGA 60.108 55.000 4.02 0.00 34.56 2.92
1806 1856 2.037136 CCACGCCCTGAAGAAGCAG 61.037 63.158 0.00 0.00 35.66 4.24
1904 1954 1.153489 ACGCAGCAGCACTCCATAG 60.153 57.895 0.82 0.00 42.27 2.23
1907 1957 3.244281 ATCACGCAGCAGCACTCCA 62.244 57.895 0.82 0.00 42.27 3.86
2003 2071 2.550830 ATTCAGACGGCAAGAAGTGT 57.449 45.000 0.00 0.00 0.00 3.55
2004 2072 3.904136 AAATTCAGACGGCAAGAAGTG 57.096 42.857 0.00 0.00 0.00 3.16
2040 2108 1.059913 CTCCCAGGACAACTCCAAGT 58.940 55.000 0.00 0.00 39.39 3.16
2155 2223 5.238583 TCTAGCCAAGCTAAAACTGAGAAC 58.761 41.667 0.00 0.00 40.82 3.01
2253 2321 2.440409 AGGCCAGCAAATCTGTACAAG 58.560 47.619 5.01 0.00 41.25 3.16
2275 2343 4.842574 TGAGCAACATATAAACAGAGGCA 58.157 39.130 0.00 0.00 0.00 4.75
2329 2399 4.968719 GGGAATCAAACAAAATATCCCCCT 59.031 41.667 0.00 0.00 39.29 4.79
2330 2400 5.290493 GGGAATCAAACAAAATATCCCCC 57.710 43.478 0.00 0.00 39.29 5.40
2436 2506 1.200948 GTCTTGTGGCAAGGATCTTGC 59.799 52.381 20.54 20.54 44.22 4.01
2504 2574 1.375326 GGAGAGAACGCCCTTTGGT 59.625 57.895 0.00 0.00 0.00 3.67
2505 2575 0.955919 GTGGAGAGAACGCCCTTTGG 60.956 60.000 0.00 0.00 35.09 3.28
2561 2633 1.188863 GGGTTCCTCAAAGCATGCAT 58.811 50.000 21.98 4.57 37.09 3.96
2652 2724 1.477295 GTCCAAAGCCTAGTCTACGCT 59.523 52.381 0.00 0.00 0.00 5.07
2683 2755 1.203364 AGGAGTCCACAGATCCAGGTT 60.203 52.381 12.86 0.00 35.45 3.50
2740 2812 1.678635 CAAGATTGGCTTGCCGGGA 60.679 57.895 2.18 0.00 46.67 5.14
2872 2945 1.660560 GCATGCCAGAACGAGCCAAT 61.661 55.000 6.36 0.00 0.00 3.16
2935 3008 1.268079 GCCTCAAGTTCAGTTGGCTTC 59.732 52.381 0.00 0.00 37.58 3.86
3056 3129 6.242396 ACATAGTGGATAGTAGCTCGATCTT 58.758 40.000 0.00 0.00 0.00 2.40
3067 3140 3.073062 GGCATCCCAACATAGTGGATAGT 59.927 47.826 0.00 0.00 41.65 2.12


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

AutoCloner maintained by Alex Coulton.