Multiple sequence alignment - TraesCS2D01G600200

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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 TraesCS2D01G600200 chr2D 100.000 3425 0 0 1 3425 650961707 650965131 0.000000e+00 6325
1 TraesCS2D01G600200 chr2A 94.127 2622 114 23 736 3346 777066522 777063930 0.000000e+00 3952
2 TraesCS2D01G600200 chr2A 79.894 378 45 21 3038 3409 776590488 776590136 7.340000e-62 248
3 TraesCS2D01G600200 chr2A 83.077 195 21 7 743 932 777066940 777066753 2.110000e-37 167
4 TraesCS2D01G600200 chr2A 90.984 122 8 2 565 683 777066657 777066536 9.840000e-36 161
5 TraesCS2D01G600200 chr2A 96.923 65 2 0 3361 3425 777063825 777063761 3.610000e-20 110
6 TraesCS2D01G600200 chrUn 90.742 2225 109 41 743 2931 23530555 23532718 0.000000e+00 2878
7 TraesCS2D01G600200 chrUn 85.501 469 36 16 1 445 23529900 23530360 8.660000e-126 460
8 TraesCS2D01G600200 chrUn 91.195 159 10 2 567 721 23530410 23530568 2.680000e-51 213
9 TraesCS2D01G600200 chr3D 85.577 104 8 6 95 196 436225360 436225262 6.050000e-18 102


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 TraesCS2D01G600200 chr2D 650961707 650965131 3424 False 6325.000000 6325 100.00000 1 3425 1 chr2D.!!$F1 3424
1 TraesCS2D01G600200 chr2A 777063761 777066940 3179 True 1097.500000 3952 91.27775 565 3425 4 chr2A.!!$R2 2860
2 TraesCS2D01G600200 chrUn 23529900 23532718 2818 False 1183.666667 2878 89.14600 1 2931 3 chrUn.!!$F1 2930

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
227 235 0.039035 AACCATAAAAGGGCCTCGCA 59.961 50.0 6.46 0.0 0.00 5.10 F
550 573 0.106769 TTGCAAGGTGTTCCAGCTCA 60.107 50.0 0.00 0.0 41.59 4.26 F
551 574 0.106769 TGCAAGGTGTTCCAGCTCAA 60.107 50.0 0.00 0.0 41.59 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1539 1590 1.360192 GCAGCTGCAACCGAAAGTT 59.640 52.632 33.36 0.0 41.59 2.66 R
1586 1637 2.224281 ACACGGCTGAGTTGATTCTGAA 60.224 45.455 0.00 0.0 0.00 3.02 R
2482 2534 2.358898 GGAAGTTCACACAGCAACATGT 59.641 45.455 5.01 0.0 0.00 3.21 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
110 112 3.056607 AGTGATAAAAACTGCCATGCCAC 60.057 43.478 0.00 0.00 0.00 5.01
111 113 3.056607 GTGATAAAAACTGCCATGCCACT 60.057 43.478 0.00 0.00 0.00 4.00
112 114 4.157656 GTGATAAAAACTGCCATGCCACTA 59.842 41.667 0.00 0.00 0.00 2.74
114 116 5.421693 TGATAAAAACTGCCATGCCACTAAT 59.578 36.000 0.00 0.00 0.00 1.73
117 119 5.937975 AAAACTGCCATGCCACTAATATT 57.062 34.783 0.00 0.00 0.00 1.28
118 120 4.924305 AACTGCCATGCCACTAATATTG 57.076 40.909 0.00 0.00 0.00 1.90
119 121 4.169059 ACTGCCATGCCACTAATATTGA 57.831 40.909 0.00 0.00 0.00 2.57
124 126 6.339730 TGCCATGCCACTAATATTGAAAAAG 58.660 36.000 0.00 0.00 0.00 2.27
186 190 1.133915 TGCTATGGGATTTTCGGGACC 60.134 52.381 0.00 0.00 0.00 4.46
227 235 0.039035 AACCATAAAAGGGCCTCGCA 59.961 50.000 6.46 0.00 0.00 5.10
303 313 2.047274 CACAGACCCGTTCGCCAT 60.047 61.111 0.00 0.00 0.00 4.40
311 321 1.024579 CCCGTTCGCCATAAAGCAGT 61.025 55.000 0.00 0.00 0.00 4.40
318 328 1.793581 CCATAAAGCAGTCGCGCAA 59.206 52.632 8.75 0.00 45.49 4.85
319 329 0.521242 CCATAAAGCAGTCGCGCAAC 60.521 55.000 8.75 0.00 45.49 4.17
320 330 0.853224 CATAAAGCAGTCGCGCAACG 60.853 55.000 8.75 0.00 45.49 4.10
331 341 2.462503 GCGCAACGAACTATCCCAA 58.537 52.632 0.30 0.00 0.00 4.12
332 342 1.014352 GCGCAACGAACTATCCCAAT 58.986 50.000 0.30 0.00 0.00 3.16
340 350 6.467677 CAACGAACTATCCCAATGATCCTAT 58.532 40.000 0.00 0.00 34.76 2.57
341 351 6.042638 ACGAACTATCCCAATGATCCTATG 57.957 41.667 0.00 0.00 34.76 2.23
354 376 0.968901 TCCTATGTGGCGTCGGTTCT 60.969 55.000 0.00 0.00 35.26 3.01
404 426 2.668632 TTCGCTGCGAAATCCCCT 59.331 55.556 32.41 0.00 43.00 4.79
408 431 2.418083 GCTGCGAAATCCCCTTGGG 61.418 63.158 0.00 0.00 46.11 4.12
438 461 2.805657 GCCGGTTAGCATTTCCGACTAT 60.806 50.000 1.90 0.00 46.05 2.12
445 468 6.708949 GGTTAGCATTTCCGACTATTTATGGA 59.291 38.462 0.00 0.00 0.00 3.41
447 470 6.808008 AGCATTTCCGACTATTTATGGATG 57.192 37.500 0.00 0.00 0.00 3.51
448 471 5.707298 AGCATTTCCGACTATTTATGGATGG 59.293 40.000 0.00 0.00 0.00 3.51
449 472 5.619981 GCATTTCCGACTATTTATGGATGGC 60.620 44.000 0.00 0.00 0.00 4.40
468 491 2.886862 CCAACATGTTTGGCAGTTGA 57.113 45.000 8.77 0.00 42.87 3.18
469 492 3.176552 CCAACATGTTTGGCAGTTGAA 57.823 42.857 8.77 0.00 42.87 2.69
470 493 2.865551 CCAACATGTTTGGCAGTTGAAC 59.134 45.455 8.77 5.61 42.87 3.18
473 496 4.045636 ACATGTTTGGCAGTTGAACTTC 57.954 40.909 0.00 0.00 0.00 3.01
474 497 3.181476 ACATGTTTGGCAGTTGAACTTCC 60.181 43.478 7.08 7.08 31.85 3.46
475 498 1.754226 TGTTTGGCAGTTGAACTTCCC 59.246 47.619 11.41 8.02 30.00 3.97
476 499 1.028905 TTTGGCAGTTGAACTTCCCG 58.971 50.000 11.41 0.00 30.00 5.14
477 500 0.821711 TTGGCAGTTGAACTTCCCGG 60.822 55.000 11.41 0.00 30.00 5.73
478 501 1.228154 GGCAGTTGAACTTCCCGGT 60.228 57.895 2.38 0.00 0.00 5.28
479 502 1.515521 GGCAGTTGAACTTCCCGGTG 61.516 60.000 2.38 0.00 0.00 4.94
481 504 0.107831 CAGTTGAACTTCCCGGTGGA 59.892 55.000 0.00 0.00 39.54 4.02
482 505 1.064825 AGTTGAACTTCCCGGTGGAT 58.935 50.000 0.00 0.00 41.40 3.41
483 506 1.165270 GTTGAACTTCCCGGTGGATG 58.835 55.000 0.00 0.00 41.40 3.51
485 508 1.646912 TGAACTTCCCGGTGGATGTA 58.353 50.000 0.00 0.00 45.60 2.29
486 509 1.979308 TGAACTTCCCGGTGGATGTAA 59.021 47.619 0.00 0.00 45.60 2.41
487 510 2.574369 TGAACTTCCCGGTGGATGTAAT 59.426 45.455 0.00 0.00 45.60 1.89
488 511 3.775866 TGAACTTCCCGGTGGATGTAATA 59.224 43.478 0.00 0.00 45.60 0.98
489 512 3.832615 ACTTCCCGGTGGATGTAATAC 57.167 47.619 0.00 0.00 44.78 1.89
490 513 2.101917 ACTTCCCGGTGGATGTAATACG 59.898 50.000 0.00 0.00 44.78 3.06
492 515 1.409790 TCCCGGTGGATGTAATACGTG 59.590 52.381 0.00 0.00 35.03 4.49
493 516 1.214367 CCGGTGGATGTAATACGTGC 58.786 55.000 0.00 0.00 0.00 5.34
494 517 1.202486 CCGGTGGATGTAATACGTGCT 60.202 52.381 0.00 0.00 0.00 4.40
495 518 1.858458 CGGTGGATGTAATACGTGCTG 59.142 52.381 0.00 0.00 0.00 4.41
496 519 2.737359 CGGTGGATGTAATACGTGCTGT 60.737 50.000 0.00 0.00 0.00 4.40
497 520 2.607635 GGTGGATGTAATACGTGCTGTG 59.392 50.000 0.00 0.00 0.00 3.66
498 521 3.517602 GTGGATGTAATACGTGCTGTGA 58.482 45.455 0.00 0.00 0.00 3.58
499 522 3.306166 GTGGATGTAATACGTGCTGTGAC 59.694 47.826 0.00 0.00 0.00 3.67
500 523 2.864343 GGATGTAATACGTGCTGTGACC 59.136 50.000 0.00 0.00 0.00 4.02
501 524 3.517602 GATGTAATACGTGCTGTGACCA 58.482 45.455 0.00 0.00 0.00 4.02
502 525 2.679450 TGTAATACGTGCTGTGACCAC 58.321 47.619 0.00 0.00 0.00 4.16
503 526 1.997606 GTAATACGTGCTGTGACCACC 59.002 52.381 0.00 0.00 0.00 4.61
504 527 0.394938 AATACGTGCTGTGACCACCA 59.605 50.000 0.00 0.00 0.00 4.17
505 528 0.394938 ATACGTGCTGTGACCACCAA 59.605 50.000 0.00 0.00 0.00 3.67
506 529 0.394938 TACGTGCTGTGACCACCAAT 59.605 50.000 0.00 0.00 0.00 3.16
507 530 0.465460 ACGTGCTGTGACCACCAATT 60.465 50.000 0.00 0.00 0.00 2.32
508 531 0.667993 CGTGCTGTGACCACCAATTT 59.332 50.000 0.00 0.00 0.00 1.82
509 532 1.600164 CGTGCTGTGACCACCAATTTG 60.600 52.381 0.00 0.00 0.00 2.32
510 533 1.039068 TGCTGTGACCACCAATTTGG 58.961 50.000 14.02 14.02 45.02 3.28
524 547 4.775058 CAATTTGGTTGGTCCATCGTAA 57.225 40.909 0.00 0.00 46.60 3.18
525 548 5.323371 CAATTTGGTTGGTCCATCGTAAT 57.677 39.130 0.00 0.00 46.60 1.89
526 549 5.719173 CAATTTGGTTGGTCCATCGTAATT 58.281 37.500 0.00 0.00 46.60 1.40
527 550 5.993748 ATTTGGTTGGTCCATCGTAATTT 57.006 34.783 0.00 0.00 46.60 1.82
528 551 4.775058 TTGGTTGGTCCATCGTAATTTG 57.225 40.909 0.00 0.00 46.60 2.32
529 552 3.085533 TGGTTGGTCCATCGTAATTTGG 58.914 45.455 0.00 0.00 41.93 3.28
530 553 3.244946 TGGTTGGTCCATCGTAATTTGGA 60.245 43.478 0.00 0.00 41.93 3.53
531 554 3.951680 GGTTGGTCCATCGTAATTTGGAT 59.048 43.478 0.02 0.00 43.61 3.41
532 555 4.401202 GGTTGGTCCATCGTAATTTGGATT 59.599 41.667 0.02 0.00 43.61 3.01
533 556 5.339990 GTTGGTCCATCGTAATTTGGATTG 58.660 41.667 0.02 0.00 43.61 2.67
534 557 3.380004 TGGTCCATCGTAATTTGGATTGC 59.620 43.478 0.02 0.00 43.61 3.56
535 558 3.380004 GGTCCATCGTAATTTGGATTGCA 59.620 43.478 0.02 0.00 43.61 4.08
536 559 4.142271 GGTCCATCGTAATTTGGATTGCAA 60.142 41.667 0.00 0.00 43.61 4.08
537 560 5.036737 GTCCATCGTAATTTGGATTGCAAG 58.963 41.667 4.94 0.00 43.61 4.01
538 561 4.097741 TCCATCGTAATTTGGATTGCAAGG 59.902 41.667 4.94 0.00 37.10 3.61
539 562 4.142182 CCATCGTAATTTGGATTGCAAGGT 60.142 41.667 4.94 0.00 34.81 3.50
540 563 4.433186 TCGTAATTTGGATTGCAAGGTG 57.567 40.909 4.94 0.00 0.00 4.00
541 564 3.823873 TCGTAATTTGGATTGCAAGGTGT 59.176 39.130 4.94 0.00 0.00 4.16
542 565 4.279671 TCGTAATTTGGATTGCAAGGTGTT 59.720 37.500 4.94 0.00 0.00 3.32
543 566 4.621034 CGTAATTTGGATTGCAAGGTGTTC 59.379 41.667 4.94 0.00 0.00 3.18
544 567 3.683365 ATTTGGATTGCAAGGTGTTCC 57.317 42.857 4.94 7.20 0.00 3.62
545 568 2.079170 TTGGATTGCAAGGTGTTCCA 57.921 45.000 13.51 13.51 34.74 3.53
546 569 1.619654 TGGATTGCAAGGTGTTCCAG 58.380 50.000 13.51 0.00 32.80 3.86
547 570 0.244721 GGATTGCAAGGTGTTCCAGC 59.755 55.000 4.94 0.00 37.47 4.85
548 571 1.251251 GATTGCAAGGTGTTCCAGCT 58.749 50.000 4.94 0.00 44.48 4.24
549 572 1.200948 GATTGCAAGGTGTTCCAGCTC 59.799 52.381 4.94 0.00 41.59 4.09
550 573 0.106769 TTGCAAGGTGTTCCAGCTCA 60.107 50.000 0.00 0.00 41.59 4.26
551 574 0.106769 TGCAAGGTGTTCCAGCTCAA 60.107 50.000 0.00 0.00 41.59 3.02
552 575 1.032014 GCAAGGTGTTCCAGCTCAAA 58.968 50.000 0.00 0.00 41.59 2.69
553 576 1.408702 GCAAGGTGTTCCAGCTCAAAA 59.591 47.619 0.00 0.00 41.59 2.44
554 577 2.159114 GCAAGGTGTTCCAGCTCAAAAA 60.159 45.455 0.00 0.00 41.59 1.94
587 610 8.460831 AAGACACAACAACTGTTTTTCATTAC 57.539 30.769 0.00 0.00 35.47 1.89
588 612 6.745450 AGACACAACAACTGTTTTTCATTACG 59.255 34.615 0.00 0.00 35.47 3.18
704 736 2.815647 GCACCGACTAGGCAGCAC 60.816 66.667 0.00 0.00 46.52 4.40
707 739 0.602638 CACCGACTAGGCAGCACAAA 60.603 55.000 0.00 0.00 46.52 2.83
708 740 0.107831 ACCGACTAGGCAGCACAAAA 59.892 50.000 0.00 0.00 46.52 2.44
709 741 1.234821 CCGACTAGGCAGCACAAAAA 58.765 50.000 0.00 0.00 0.00 1.94
710 742 1.812571 CCGACTAGGCAGCACAAAAAT 59.187 47.619 0.00 0.00 0.00 1.82
711 743 3.006940 CCGACTAGGCAGCACAAAAATA 58.993 45.455 0.00 0.00 0.00 1.40
712 744 3.438781 CCGACTAGGCAGCACAAAAATAA 59.561 43.478 0.00 0.00 0.00 1.40
713 745 4.083003 CCGACTAGGCAGCACAAAAATAAA 60.083 41.667 0.00 0.00 0.00 1.40
714 746 5.088739 CGACTAGGCAGCACAAAAATAAAG 58.911 41.667 0.00 0.00 0.00 1.85
715 747 5.106712 CGACTAGGCAGCACAAAAATAAAGA 60.107 40.000 0.00 0.00 0.00 2.52
716 748 6.259550 ACTAGGCAGCACAAAAATAAAGAG 57.740 37.500 0.00 0.00 0.00 2.85
717 749 3.917988 AGGCAGCACAAAAATAAAGAGC 58.082 40.909 0.00 0.00 0.00 4.09
718 750 3.321682 AGGCAGCACAAAAATAAAGAGCA 59.678 39.130 0.00 0.00 0.00 4.26
719 751 3.676646 GGCAGCACAAAAATAAAGAGCAG 59.323 43.478 0.00 0.00 0.00 4.24
720 752 3.676646 GCAGCACAAAAATAAAGAGCAGG 59.323 43.478 0.00 0.00 0.00 4.85
721 753 4.559300 GCAGCACAAAAATAAAGAGCAGGA 60.559 41.667 0.00 0.00 0.00 3.86
722 754 5.159209 CAGCACAAAAATAAAGAGCAGGAG 58.841 41.667 0.00 0.00 0.00 3.69
723 755 3.922850 GCACAAAAATAAAGAGCAGGAGC 59.077 43.478 0.00 0.00 42.56 4.70
724 756 4.488879 CACAAAAATAAAGAGCAGGAGCC 58.511 43.478 0.00 0.00 43.56 4.70
725 757 3.511540 ACAAAAATAAAGAGCAGGAGCCC 59.488 43.478 0.00 0.00 43.56 5.19
726 758 2.443958 AAATAAAGAGCAGGAGCCCC 57.556 50.000 0.00 0.00 43.56 5.80
727 759 1.601248 AATAAAGAGCAGGAGCCCCT 58.399 50.000 0.00 0.00 45.74 4.79
728 760 1.135960 ATAAAGAGCAGGAGCCCCTC 58.864 55.000 0.00 0.00 42.02 4.30
729 761 0.252696 TAAAGAGCAGGAGCCCCTCA 60.253 55.000 0.00 0.00 42.02 3.86
730 762 1.136329 AAAGAGCAGGAGCCCCTCAA 61.136 55.000 0.00 0.00 42.02 3.02
731 763 1.136329 AAGAGCAGGAGCCCCTCAAA 61.136 55.000 0.00 0.00 42.02 2.69
732 764 1.136329 AGAGCAGGAGCCCCTCAAAA 61.136 55.000 0.00 0.00 42.02 2.44
733 765 0.251341 GAGCAGGAGCCCCTCAAAAA 60.251 55.000 0.00 0.00 42.02 1.94
734 766 0.411058 AGCAGGAGCCCCTCAAAAAT 59.589 50.000 0.00 0.00 42.02 1.82
735 767 1.640670 AGCAGGAGCCCCTCAAAAATA 59.359 47.619 0.00 0.00 42.02 1.40
736 768 2.042979 AGCAGGAGCCCCTCAAAAATAA 59.957 45.455 0.00 0.00 42.02 1.40
737 769 2.831526 GCAGGAGCCCCTCAAAAATAAA 59.168 45.455 0.00 0.00 42.02 1.40
738 770 3.260632 GCAGGAGCCCCTCAAAAATAAAA 59.739 43.478 0.00 0.00 42.02 1.52
739 771 4.262851 GCAGGAGCCCCTCAAAAATAAAAA 60.263 41.667 0.00 0.00 42.02 1.94
952 994 3.518998 CCGCCAGATCCGTCGTCT 61.519 66.667 0.00 0.00 0.00 4.18
973 1015 0.820871 CGAGCTCAGGTAAGAAGGCT 59.179 55.000 15.40 0.00 0.00 4.58
987 1029 3.407967 GGCTCCGTCCAATCCCCA 61.408 66.667 0.00 0.00 0.00 4.96
988 1030 2.757124 GGCTCCGTCCAATCCCCAT 61.757 63.158 0.00 0.00 0.00 4.00
1021 1063 1.442017 GTCGCAATTCGTTGGTGGC 60.442 57.895 0.00 0.00 39.67 5.01
1022 1064 2.501650 CGCAATTCGTTGGTGGCG 60.502 61.111 0.00 0.00 38.45 5.69
1224 1275 2.274760 CCGTCGGTCTACTCCCCT 59.725 66.667 2.08 0.00 0.00 4.79
1539 1590 2.440796 CCGCCGGTCTACCAGGTA 60.441 66.667 1.90 0.00 35.14 3.08
1554 1605 3.767287 GGTAACTTTCGGTTGCAGC 57.233 52.632 0.00 0.00 41.31 5.25
1557 1608 0.591170 TAACTTTCGGTTGCAGCTGC 59.409 50.000 31.89 31.89 38.75 5.25
2065 2116 1.878775 GTGGCATTGCTCTGTCCAC 59.121 57.895 8.82 3.28 36.71 4.02
2087 2138 1.147824 CTGCATCCGCCCTGAGAAT 59.852 57.895 0.00 0.00 37.32 2.40
2222 2273 1.834896 GGGGAGAAGGAGAAGGTCTTC 59.165 57.143 2.69 2.69 39.55 2.87
2336 2387 3.039202 GCGACCTTGGTTGATGGCG 62.039 63.158 11.03 2.01 0.00 5.69
2342 2394 2.213499 CCTTGGTTGATGGCGATACTC 58.787 52.381 0.00 0.00 0.00 2.59
2377 2429 4.950050 AGGATTACTGCTAGTTGATTCCG 58.050 43.478 0.00 0.00 0.00 4.30
2482 2534 1.922447 AGATGGGGAATGTAAGCACCA 59.078 47.619 0.00 0.00 0.00 4.17
2496 2548 0.595567 GCACCACATGTTGCTGTGTG 60.596 55.000 14.03 7.79 44.04 3.82
2502 2554 3.365832 CACATGTTGCTGTGTGAACTTC 58.634 45.455 0.00 0.00 46.58 3.01
2528 2580 6.017770 CAGCTATATGTAGATACTCGTAGGCC 60.018 46.154 0.00 0.00 0.00 5.19
2543 2597 3.688553 GGCCTTTATCTGAGGACGG 57.311 57.895 0.00 0.00 36.33 4.79
2581 2635 1.863454 GATGGTCTCGCACATGTCATC 59.137 52.381 0.00 0.18 0.00 2.92
2606 2660 6.635755 TCATGAATTCGTCAGGTAACACATA 58.364 36.000 0.00 0.00 40.43 2.29
2629 2683 6.949352 ATCTGAGTTTCACACTGATTGTTT 57.051 33.333 0.00 0.00 35.67 2.83
2684 2738 2.749621 CTCTATGTTCAGTGGGTTTGCC 59.250 50.000 0.00 0.00 0.00 4.52
2761 2819 3.186409 GCAATTTGCGTGAGTAGTGAAGA 59.814 43.478 5.49 0.00 31.71 2.87
2831 2897 6.791867 TCACCTGTGCTGATATTACTAACT 57.208 37.500 0.00 0.00 0.00 2.24
2889 2956 8.841444 ATCAATATTTGCGATTGAGTTTACAC 57.159 30.769 4.56 0.00 44.35 2.90
2931 2998 5.883673 TGGTTTGTTTACTGTTAGCTTCACT 59.116 36.000 0.00 0.00 0.00 3.41
2949 3016 3.054655 TCACTATGTAACCCAGCTTTCCC 60.055 47.826 0.00 0.00 0.00 3.97
2958 3025 1.477558 CCCAGCTTTCCCGCATCTATT 60.478 52.381 0.00 0.00 0.00 1.73
2975 3046 6.666417 CATCTATTTTGTAGAGATGCAAGCC 58.334 40.000 0.00 0.00 39.98 4.35
2995 3066 4.853924 CCATGTCTAAGTTTTGGCTTGT 57.146 40.909 0.00 0.00 0.00 3.16
3001 3072 4.451096 GTCTAAGTTTTGGCTTGTCGATGA 59.549 41.667 0.00 0.00 0.00 2.92
3010 3081 5.484173 TGGCTTGTCGATGATTAATTGTC 57.516 39.130 0.00 0.00 0.00 3.18
3013 3084 6.821160 TGGCTTGTCGATGATTAATTGTCTTA 59.179 34.615 0.00 0.00 0.00 2.10
3030 3101 9.851686 AATTGTCTTATGATTGGTGAGCTTATA 57.148 29.630 0.00 0.00 0.00 0.98
3034 3105 9.149225 GTCTTATGATTGGTGAGCTTATATGAG 57.851 37.037 0.00 0.00 0.00 2.90
3041 3112 7.994425 TTGGTGAGCTTATATGAGACAAAAA 57.006 32.000 0.00 0.00 0.00 1.94
3044 3115 7.828717 TGGTGAGCTTATATGAGACAAAAATCA 59.171 33.333 0.00 0.00 0.00 2.57
3089 3160 4.178545 ACATTAGCACAACAATGGAAGC 57.821 40.909 0.00 0.00 36.63 3.86
3160 3234 6.806388 AAAAAGGCCTTTGCAAGAAATATG 57.194 33.333 31.02 0.00 40.13 1.78
3161 3235 5.488262 AAAGGCCTTTGCAAGAAATATGT 57.512 34.783 29.91 0.00 40.13 2.29
3162 3236 6.603940 AAAGGCCTTTGCAAGAAATATGTA 57.396 33.333 29.91 0.00 40.13 2.29
3164 3238 5.965922 AGGCCTTTGCAAGAAATATGTAAC 58.034 37.500 0.00 0.00 40.13 2.50
3165 3239 5.480073 AGGCCTTTGCAAGAAATATGTAACA 59.520 36.000 0.00 0.00 40.13 2.41
3166 3240 6.014669 AGGCCTTTGCAAGAAATATGTAACAA 60.015 34.615 0.00 0.00 40.13 2.83
3167 3241 6.818142 GGCCTTTGCAAGAAATATGTAACAAT 59.182 34.615 0.00 0.00 40.13 2.71
3169 3243 7.674705 GCCTTTGCAAGAAATATGTAACAATGC 60.675 37.037 0.00 0.00 37.47 3.56
3171 3245 6.188400 TGCAAGAAATATGTAACAATGCGA 57.812 33.333 0.00 0.00 34.16 5.10
3172 3246 6.027131 TGCAAGAAATATGTAACAATGCGAC 58.973 36.000 0.00 0.00 34.16 5.19
3181 3255 5.431420 TGTAACAATGCGACACAAGAAAT 57.569 34.783 0.00 0.00 0.00 2.17
3208 3282 0.824109 TGCTACTGGATCCTTCGTGG 59.176 55.000 14.23 10.35 37.10 4.94
3277 3353 0.615544 ATTGCCATGGGTCCCAACAG 60.616 55.000 16.55 7.78 36.95 3.16
3295 3371 1.211969 GCGTCCACGTCTTCTAGCA 59.788 57.895 0.36 0.00 42.22 3.49
3300 3376 3.128349 GTCCACGTCTTCTAGCAACAAA 58.872 45.455 0.00 0.00 0.00 2.83
3301 3377 3.558418 GTCCACGTCTTCTAGCAACAAAA 59.442 43.478 0.00 0.00 0.00 2.44
3340 3417 8.575649 TTTCTAAGAAGAAAACACTTCCAACT 57.424 30.769 0.00 0.00 46.32 3.16
3341 3418 8.575649 TTCTAAGAAGAAAACACTTCCAACTT 57.424 30.769 0.00 0.00 44.90 2.66
3350 3510 9.495572 AGAAAACACTTCCAACTTTCTATCTAG 57.504 33.333 0.00 0.00 35.20 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
91 93 3.874392 AGTGGCATGGCAGTTTTTATC 57.126 42.857 24.03 8.19 0.00 1.75
110 112 9.075678 AGAGGATGGCATCTTTTTCAATATTAG 57.924 33.333 25.48 0.00 29.34 1.73
111 113 9.425248 AAGAGGATGGCATCTTTTTCAATATTA 57.575 29.630 25.48 0.00 41.99 0.98
112 114 7.909485 AGAGGATGGCATCTTTTTCAATATT 57.091 32.000 25.48 2.24 29.34 1.28
114 116 8.821686 TTAAGAGGATGGCATCTTTTTCAATA 57.178 30.769 25.48 12.56 41.99 1.90
117 119 7.537596 TTTTAAGAGGATGGCATCTTTTTCA 57.462 32.000 25.48 9.70 41.99 2.69
118 120 8.876790 CATTTTTAAGAGGATGGCATCTTTTTC 58.123 33.333 25.48 17.20 41.99 2.29
119 121 7.335171 GCATTTTTAAGAGGATGGCATCTTTTT 59.665 33.333 25.48 21.11 41.99 1.94
124 126 4.099881 TGGCATTTTTAAGAGGATGGCATC 59.900 41.667 19.23 19.23 46.06 3.91
167 171 1.605753 GGTCCCGAAAATCCCATAGC 58.394 55.000 0.00 0.00 0.00 2.97
169 173 1.498264 TCGGTCCCGAAAATCCCATA 58.502 50.000 5.84 0.00 46.01 2.74
186 190 8.024285 TGGTTTTAACTGCCACTTATATTTTCG 58.976 33.333 0.00 0.00 0.00 3.46
196 200 5.011635 CCCTTTTATGGTTTTAACTGCCACT 59.988 40.000 0.00 0.00 34.84 4.00
227 235 1.755393 GAACCCACGACCTCCAGTGT 61.755 60.000 0.00 0.00 36.69 3.55
254 262 0.958876 AAAAATCACGAGGCGGGGTC 60.959 55.000 0.00 0.00 0.00 4.46
284 292 2.280592 GGCGAACGGGTCTGTGTT 60.281 61.111 0.00 0.00 0.00 3.32
290 298 1.022451 TGCTTTATGGCGAACGGGTC 61.022 55.000 0.00 0.00 34.52 4.46
303 313 1.662133 TCGTTGCGCGACTGCTTTA 60.662 52.632 24.75 1.45 45.68 1.85
318 328 5.544176 ACATAGGATCATTGGGATAGTTCGT 59.456 40.000 0.00 0.00 36.00 3.85
319 329 5.871524 CACATAGGATCATTGGGATAGTTCG 59.128 44.000 0.00 0.00 36.00 3.95
320 330 6.176183 CCACATAGGATCATTGGGATAGTTC 58.824 44.000 0.00 0.00 41.22 3.01
331 341 0.318441 CCGACGCCACATAGGATCAT 59.682 55.000 0.00 0.00 41.22 2.45
332 342 1.040893 ACCGACGCCACATAGGATCA 61.041 55.000 0.00 0.00 41.22 2.92
340 350 3.858868 GAGCAGAACCGACGCCACA 62.859 63.158 0.00 0.00 0.00 4.17
341 351 3.112709 GAGCAGAACCGACGCCAC 61.113 66.667 0.00 0.00 0.00 5.01
354 376 1.014044 GTCGCACGAATCTTGGAGCA 61.014 55.000 0.00 0.00 0.00 4.26
385 407 2.399611 GGGATTTCGCAGCGAACG 59.600 61.111 29.56 0.00 45.64 3.95
408 431 2.505557 CTAACCGGCGACCGTCAC 60.506 66.667 9.30 0.00 46.80 3.67
438 461 4.323333 CCAAACATGTTGGCCATCCATAAA 60.323 41.667 12.82 0.00 43.05 1.40
449 472 2.865551 GTTCAACTGCCAAACATGTTGG 59.134 45.455 12.82 15.89 42.37 3.77
451 474 4.432712 GAAGTTCAACTGCCAAACATGTT 58.567 39.130 4.92 4.92 0.00 2.71
452 475 3.181476 GGAAGTTCAACTGCCAAACATGT 60.181 43.478 10.11 0.00 43.85 3.21
453 476 3.383761 GGAAGTTCAACTGCCAAACATG 58.616 45.455 10.11 0.00 43.85 3.21
454 477 2.365293 GGGAAGTTCAACTGCCAAACAT 59.635 45.455 17.19 0.00 46.39 2.71
455 478 1.754226 GGGAAGTTCAACTGCCAAACA 59.246 47.619 17.19 0.00 46.39 2.83
456 479 1.269051 CGGGAAGTTCAACTGCCAAAC 60.269 52.381 17.19 0.00 46.39 2.93
457 480 1.028905 CGGGAAGTTCAACTGCCAAA 58.971 50.000 17.19 0.00 46.39 3.28
458 481 0.821711 CCGGGAAGTTCAACTGCCAA 60.822 55.000 17.19 0.00 46.39 4.52
459 482 1.228124 CCGGGAAGTTCAACTGCCA 60.228 57.895 17.19 0.00 46.39 4.92
460 483 1.228154 ACCGGGAAGTTCAACTGCC 60.228 57.895 5.89 5.89 43.66 4.85
462 485 0.107831 TCCACCGGGAAGTTCAACTG 59.892 55.000 6.32 0.00 41.32 3.16
473 496 1.860676 CACGTATTACATCCACCGGG 58.139 55.000 6.32 0.00 0.00 5.73
474 497 1.202486 AGCACGTATTACATCCACCGG 60.202 52.381 0.00 0.00 0.00 5.28
475 498 1.858458 CAGCACGTATTACATCCACCG 59.142 52.381 0.00 0.00 0.00 4.94
476 499 2.607635 CACAGCACGTATTACATCCACC 59.392 50.000 0.00 0.00 0.00 4.61
477 500 3.306166 GTCACAGCACGTATTACATCCAC 59.694 47.826 0.00 0.00 0.00 4.02
478 501 3.517602 GTCACAGCACGTATTACATCCA 58.482 45.455 0.00 0.00 0.00 3.41
479 502 2.864343 GGTCACAGCACGTATTACATCC 59.136 50.000 0.00 0.00 0.00 3.51
481 504 3.259064 GTGGTCACAGCACGTATTACAT 58.741 45.455 0.00 0.00 36.84 2.29
482 505 2.610976 GGTGGTCACAGCACGTATTACA 60.611 50.000 3.40 0.00 46.75 2.41
483 506 1.997606 GGTGGTCACAGCACGTATTAC 59.002 52.381 3.40 0.00 46.75 1.89
485 508 3.226884 GGTGGTCACAGCACGTATT 57.773 52.632 3.40 0.00 46.75 1.89
492 515 3.892200 CCAAATTGGTGGTCACAGC 57.108 52.632 3.34 0.00 45.13 4.40
509 532 3.349022 TCCAAATTACGATGGACCAACC 58.651 45.455 0.00 0.00 40.74 3.77
516 539 4.142182 ACCTTGCAATCCAAATTACGATGG 60.142 41.667 0.00 0.00 38.09 3.51
517 540 4.799949 CACCTTGCAATCCAAATTACGATG 59.200 41.667 0.00 0.00 31.94 3.84
518 541 4.462483 ACACCTTGCAATCCAAATTACGAT 59.538 37.500 0.00 0.00 31.94 3.73
519 542 3.823873 ACACCTTGCAATCCAAATTACGA 59.176 39.130 0.00 0.00 31.94 3.43
520 543 4.173036 ACACCTTGCAATCCAAATTACG 57.827 40.909 0.00 0.00 31.94 3.18
521 544 4.929211 GGAACACCTTGCAATCCAAATTAC 59.071 41.667 10.52 0.00 31.94 1.89
522 545 4.590647 TGGAACACCTTGCAATCCAAATTA 59.409 37.500 14.84 0.00 37.24 1.40
523 546 3.390639 TGGAACACCTTGCAATCCAAATT 59.609 39.130 14.84 0.00 37.24 1.82
524 547 2.971330 TGGAACACCTTGCAATCCAAAT 59.029 40.909 14.84 0.00 37.24 2.32
525 548 2.364970 CTGGAACACCTTGCAATCCAAA 59.635 45.455 17.20 0.00 39.54 3.28
526 549 1.962807 CTGGAACACCTTGCAATCCAA 59.037 47.619 17.20 4.71 39.54 3.53
527 550 1.619654 CTGGAACACCTTGCAATCCA 58.380 50.000 15.99 15.99 37.83 3.41
528 551 0.244721 GCTGGAACACCTTGCAATCC 59.755 55.000 8.78 8.78 0.00 3.01
529 552 1.200948 GAGCTGGAACACCTTGCAATC 59.799 52.381 0.00 0.00 0.00 2.67
530 553 1.251251 GAGCTGGAACACCTTGCAAT 58.749 50.000 0.00 0.00 0.00 3.56
531 554 0.106769 TGAGCTGGAACACCTTGCAA 60.107 50.000 0.00 0.00 0.00 4.08
532 555 0.106769 TTGAGCTGGAACACCTTGCA 60.107 50.000 0.00 0.00 0.00 4.08
533 556 1.032014 TTTGAGCTGGAACACCTTGC 58.968 50.000 0.00 0.00 0.00 4.01
534 557 3.799281 TTTTTGAGCTGGAACACCTTG 57.201 42.857 0.00 0.00 0.00 3.61
559 582 7.778470 TGAAAAACAGTTGTTGTGTCTTTTT 57.222 28.000 0.00 0.00 40.74 1.94
560 583 7.961325 ATGAAAAACAGTTGTTGTGTCTTTT 57.039 28.000 0.00 0.00 40.74 2.27
561 584 7.961325 AATGAAAAACAGTTGTTGTGTCTTT 57.039 28.000 0.00 0.00 40.74 2.52
562 585 7.272515 CGTAATGAAAAACAGTTGTTGTGTCTT 59.727 33.333 0.00 0.00 40.74 3.01
563 586 6.745450 CGTAATGAAAAACAGTTGTTGTGTCT 59.255 34.615 0.00 0.00 40.74 3.41
564 587 6.743627 TCGTAATGAAAAACAGTTGTTGTGTC 59.256 34.615 0.00 0.00 40.74 3.67
565 588 6.613233 TCGTAATGAAAAACAGTTGTTGTGT 58.387 32.000 0.00 0.00 40.74 3.72
574 597 5.757886 TCTTGCCTTCGTAATGAAAAACAG 58.242 37.500 0.00 0.00 35.79 3.16
587 610 0.591170 TTTTTCCGCTCTTGCCTTCG 59.409 50.000 0.00 0.00 35.36 3.79
588 612 1.068264 CCTTTTTCCGCTCTTGCCTTC 60.068 52.381 0.00 0.00 35.36 3.46
704 736 3.118992 GGGGCTCCTGCTCTTTATTTTTG 60.119 47.826 0.00 0.00 40.19 2.44
707 739 1.925959 AGGGGCTCCTGCTCTTTATTT 59.074 47.619 2.82 0.00 42.98 1.40
708 740 1.492599 GAGGGGCTCCTGCTCTTTATT 59.507 52.381 11.93 0.00 45.05 1.40
709 741 1.135960 GAGGGGCTCCTGCTCTTTAT 58.864 55.000 11.93 0.00 45.05 1.40
710 742 0.252696 TGAGGGGCTCCTGCTCTTTA 60.253 55.000 11.93 0.00 45.05 1.85
711 743 1.136329 TTGAGGGGCTCCTGCTCTTT 61.136 55.000 11.93 0.00 45.05 2.52
712 744 1.136329 TTTGAGGGGCTCCTGCTCTT 61.136 55.000 11.93 0.00 45.05 2.85
713 745 1.136329 TTTTGAGGGGCTCCTGCTCT 61.136 55.000 11.93 0.00 45.05 4.09
714 746 0.251341 TTTTTGAGGGGCTCCTGCTC 60.251 55.000 11.93 0.00 45.05 4.26
715 747 0.411058 ATTTTTGAGGGGCTCCTGCT 59.589 50.000 11.93 0.00 45.05 4.24
716 748 2.143876 TATTTTTGAGGGGCTCCTGC 57.856 50.000 11.93 1.65 45.05 4.85
717 749 5.482163 TTTTTATTTTTGAGGGGCTCCTG 57.518 39.130 11.93 0.00 45.05 3.86
736 768 7.480760 TCTGCCCTGCTCTTTATTTATTTTT 57.519 32.000 0.00 0.00 0.00 1.94
737 769 7.480760 TTCTGCCCTGCTCTTTATTTATTTT 57.519 32.000 0.00 0.00 0.00 1.82
738 770 7.323420 GTTTCTGCCCTGCTCTTTATTTATTT 58.677 34.615 0.00 0.00 0.00 1.40
739 771 6.127338 GGTTTCTGCCCTGCTCTTTATTTATT 60.127 38.462 0.00 0.00 0.00 1.40
740 772 5.360999 GGTTTCTGCCCTGCTCTTTATTTAT 59.639 40.000 0.00 0.00 0.00 1.40
741 773 4.705023 GGTTTCTGCCCTGCTCTTTATTTA 59.295 41.667 0.00 0.00 0.00 1.40
785 818 0.186386 GAGAGGAGAGGGGATCGGAA 59.814 60.000 0.00 0.00 0.00 4.30
786 819 1.847686 GAGAGGAGAGGGGATCGGA 59.152 63.158 0.00 0.00 0.00 4.55
787 820 1.602323 CGAGAGGAGAGGGGATCGG 60.602 68.421 0.00 0.00 0.00 4.18
788 821 0.887387 GACGAGAGGAGAGGGGATCG 60.887 65.000 0.00 0.00 36.32 3.69
789 822 0.538746 GGACGAGAGGAGAGGGGATC 60.539 65.000 0.00 0.00 0.00 3.36
952 994 1.204941 GCCTTCTTACCTGAGCTCGAA 59.795 52.381 9.64 4.35 0.00 3.71
973 1015 2.076184 GGGATGGGGATTGGACGGA 61.076 63.158 0.00 0.00 0.00 4.69
987 1029 1.236628 CGACGGAGTATTCGAGGGAT 58.763 55.000 0.00 0.00 42.19 3.85
988 1030 1.442526 GCGACGGAGTATTCGAGGGA 61.443 60.000 0.00 0.00 42.19 4.20
1021 1063 2.552315 AGCAATCAACACCCTACAAACG 59.448 45.455 0.00 0.00 0.00 3.60
1022 1064 4.584327 AAGCAATCAACACCCTACAAAC 57.416 40.909 0.00 0.00 0.00 2.93
1070 1121 1.439228 CACGTCCCTGCAGATCGAT 59.561 57.895 17.39 0.00 0.00 3.59
1071 1122 2.885113 CACGTCCCTGCAGATCGA 59.115 61.111 17.39 4.53 0.00 3.59
1329 1380 2.048597 TCGGCATCGTCGTTGCTT 60.049 55.556 23.44 0.00 40.03 3.91
1333 1384 1.585521 GATCGTCGGCATCGTCGTT 60.586 57.895 5.54 0.00 45.17 3.85
1539 1590 1.360192 GCAGCTGCAACCGAAAGTT 59.640 52.632 33.36 0.00 41.59 2.66
1575 1626 8.996024 TGAGTTGATTCTGAACGTAATGATAA 57.004 30.769 0.00 0.00 0.00 1.75
1576 1627 7.222805 GCTGAGTTGATTCTGAACGTAATGATA 59.777 37.037 0.00 0.00 0.00 2.15
1577 1628 6.036517 GCTGAGTTGATTCTGAACGTAATGAT 59.963 38.462 0.00 0.00 0.00 2.45
1578 1629 5.348724 GCTGAGTTGATTCTGAACGTAATGA 59.651 40.000 0.00 0.00 0.00 2.57
1586 1637 2.224281 ACACGGCTGAGTTGATTCTGAA 60.224 45.455 0.00 0.00 0.00 3.02
1895 1946 2.842462 AGGTGGGTCGTGAGTGCA 60.842 61.111 0.00 0.00 0.00 4.57
2065 2116 2.664185 CAGGGCGGATGCAGATCG 60.664 66.667 0.00 0.00 45.35 3.69
2087 2138 2.818169 AAACTCCTGCTCACGGGCA 61.818 57.895 0.00 0.00 42.73 5.36
2342 2394 7.426929 AGCAGTAATCCTATAAAATTCAGCG 57.573 36.000 0.00 0.00 0.00 5.18
2377 2429 4.813027 ACATCAACATTCAGCAATGAACC 58.187 39.130 3.92 0.00 41.97 3.62
2482 2534 2.358898 GGAAGTTCACACAGCAACATGT 59.641 45.455 5.01 0.00 0.00 3.21
2496 2548 8.178964 CGAGTATCTACATATAGCTGGAAGTTC 58.821 40.741 0.00 0.00 35.30 3.01
2502 2554 6.017770 GCCTACGAGTATCTACATATAGCTGG 60.018 46.154 0.00 0.00 0.00 4.85
2528 2580 8.494016 AATAAAAGTTCCGTCCTCAGATAAAG 57.506 34.615 0.00 0.00 0.00 1.85
2581 2635 4.929211 TGTGTTACCTGACGAATTCATGAG 59.071 41.667 6.22 0.00 32.17 2.90
2606 2660 6.949352 AAACAATCAGTGTGAAACTCAGAT 57.051 33.333 0.00 0.00 40.60 2.90
2611 2665 6.998074 TCAGGATAAACAATCAGTGTGAAACT 59.002 34.615 0.00 0.00 40.60 2.66
2629 2683 5.912149 ATAAGCATTGGGACTTCAGGATA 57.088 39.130 0.00 0.00 0.00 2.59
2684 2738 4.763793 TCCAGAGAAAGCAAGAGGAAAATG 59.236 41.667 0.00 0.00 0.00 2.32
2761 2819 1.094785 AGTTTGCAGTGTCGCTGTTT 58.905 45.000 14.69 0.00 46.64 2.83
2831 2897 7.843490 AGCAAACTCTTATATACGCAAAAGA 57.157 32.000 0.00 0.00 0.00 2.52
2889 2956 0.922717 CAAGCAACCAAAACTGCACG 59.077 50.000 0.00 0.00 41.17 5.34
2931 2998 1.407712 GCGGGAAAGCTGGGTTACATA 60.408 52.381 0.00 0.00 0.00 2.29
2958 3025 3.689347 ACATGGCTTGCATCTCTACAAA 58.311 40.909 0.00 0.00 0.00 2.83
2975 3046 4.213270 TCGACAAGCCAAAACTTAGACATG 59.787 41.667 0.00 0.00 0.00 3.21
2984 3055 6.586082 ACAATTAATCATCGACAAGCCAAAAC 59.414 34.615 0.00 0.00 0.00 2.43
2994 3065 9.817365 CCAATCATAAGACAATTAATCATCGAC 57.183 33.333 0.00 0.00 0.00 4.20
2995 3066 9.559732 ACCAATCATAAGACAATTAATCATCGA 57.440 29.630 0.00 0.00 0.00 3.59
3001 3072 8.757982 AGCTCACCAATCATAAGACAATTAAT 57.242 30.769 0.00 0.00 0.00 1.40
3010 3081 9.149225 GTCTCATATAAGCTCACCAATCATAAG 57.851 37.037 0.00 0.00 0.00 1.73
3013 3084 7.071069 TGTCTCATATAAGCTCACCAATCAT 57.929 36.000 0.00 0.00 0.00 2.45
3019 3090 8.213518 TGATTTTTGTCTCATATAAGCTCACC 57.786 34.615 0.00 0.00 0.00 4.02
3050 3121 9.304731 TGCTAATGTTTCAATCTTATTGCAATC 57.695 29.630 16.86 0.00 0.00 2.67
3061 3132 6.867816 TCCATTGTTGTGCTAATGTTTCAATC 59.132 34.615 0.00 0.00 33.52 2.67
3089 3160 2.433868 AGCTTTGCTGCAACAATGAG 57.566 45.000 15.72 10.47 37.57 2.90
3141 3215 5.480073 TGTTACATATTTCTTGCAAAGGCCT 59.520 36.000 0.00 0.00 46.24 5.19
3143 3217 7.674705 GCATTGTTACATATTTCTTGCAAAGGC 60.675 37.037 0.00 0.00 46.24 4.35
3144 3218 7.463119 CGCATTGTTACATATTTCTTGCAAAGG 60.463 37.037 0.00 0.00 46.24 3.11
3147 3221 6.526325 GTCGCATTGTTACATATTTCTTGCAA 59.474 34.615 0.00 0.00 0.00 4.08
3148 3222 6.027131 GTCGCATTGTTACATATTTCTTGCA 58.973 36.000 0.00 0.00 0.00 4.08
3149 3223 6.021468 GTGTCGCATTGTTACATATTTCTTGC 60.021 38.462 0.00 0.00 0.00 4.01
3150 3224 7.020602 TGTGTCGCATTGTTACATATTTCTTG 58.979 34.615 0.00 0.00 0.00 3.02
3152 3226 6.735678 TGTGTCGCATTGTTACATATTTCT 57.264 33.333 0.00 0.00 0.00 2.52
3153 3227 7.240674 TCTTGTGTCGCATTGTTACATATTTC 58.759 34.615 0.00 0.00 0.00 2.17
3155 3229 6.735678 TCTTGTGTCGCATTGTTACATATT 57.264 33.333 0.00 0.00 0.00 1.28
3158 3232 5.431420 TTTCTTGTGTCGCATTGTTACAT 57.569 34.783 0.00 0.00 0.00 2.29
3159 3233 4.884458 TTTCTTGTGTCGCATTGTTACA 57.116 36.364 0.00 0.00 0.00 2.41
3160 3234 6.198216 ACAAATTTCTTGTGTCGCATTGTTAC 59.802 34.615 0.00 0.00 0.00 2.50
3161 3235 6.198029 CACAAATTTCTTGTGTCGCATTGTTA 59.802 34.615 9.02 0.00 43.40 2.41
3162 3236 5.005586 CACAAATTTCTTGTGTCGCATTGTT 59.994 36.000 9.02 0.00 43.40 2.83
3164 3238 4.997107 CACAAATTTCTTGTGTCGCATTG 58.003 39.130 9.02 0.00 43.40 2.82
3181 3255 4.574674 AGGATCCAGTAGCAATCACAAA 57.425 40.909 15.82 0.00 0.00 2.83
3235 3311 9.590451 CAATCATTTGTTGTTGCCTCTATATTT 57.410 29.630 0.00 0.00 0.00 1.40
3236 3312 7.707893 GCAATCATTTGTTGTTGCCTCTATATT 59.292 33.333 0.00 0.00 36.86 1.28
3277 3353 0.388134 TTGCTAGAAGACGTGGACGC 60.388 55.000 0.00 0.00 44.43 5.19
3340 3417 6.890268 TGTGCCAGAGTCTAACTAGATAGAAA 59.110 38.462 11.00 0.00 33.86 2.52
3341 3418 6.424032 TGTGCCAGAGTCTAACTAGATAGAA 58.576 40.000 11.00 0.00 33.86 2.10
3350 3510 2.826725 ACCTACTGTGCCAGAGTCTAAC 59.173 50.000 0.00 0.00 35.18 2.34


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

AutoCloner maintained by Alex Coulton.