Multiple sequence alignment - TraesCS2B01G126700

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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 TraesCS2B01G126700 chr2B 100.000 2480 0 0 1 2480 94935565 94938044 0.000000e+00 4580.0
1 TraesCS2B01G126700 chr2B 92.514 521 34 5 1 517 27671156 27671675 0.000000e+00 741.0
2 TraesCS2B01G126700 chr2B 83.298 467 47 14 76 516 596984370 596984831 3.840000e-108 401.0
3 TraesCS2B01G126700 chr2B 95.455 154 7 0 1 154 26932677 26932524 1.900000e-61 246.0
4 TraesCS2B01G126700 chr2B 89.231 65 7 0 8 72 596984279 596984343 5.680000e-12 82.4
5 TraesCS2B01G126700 chr2A 87.242 1113 74 16 616 1704 61290066 61291134 0.000000e+00 1206.0
6 TraesCS2B01G126700 chr2D 91.441 888 51 11 769 1639 60756416 60757295 0.000000e+00 1195.0
7 TraesCS2B01G126700 chr2D 91.192 386 31 2 133 515 110874005 110873620 2.830000e-144 521.0
8 TraesCS2B01G126700 chr2D 91.964 112 9 0 2369 2480 60757630 60757741 9.180000e-35 158.0
9 TraesCS2B01G126700 chr6B 96.875 608 15 3 1707 2314 663016103 663015500 0.000000e+00 1014.0
10 TraesCS2B01G126700 chr6B 90.805 87 7 1 516 602 367143907 367143992 5.600000e-22 115.0
11 TraesCS2B01G126700 chr7A 96.186 603 23 0 1703 2305 437074369 437074971 0.000000e+00 987.0
12 TraesCS2B01G126700 chr7A 88.010 392 38 5 133 515 215674548 215674157 2.910000e-124 455.0
13 TraesCS2B01G126700 chr1D 95.759 613 23 3 1702 2314 11804481 11803872 0.000000e+00 985.0
14 TraesCS2B01G126700 chr1D 95.098 612 29 1 1703 2314 446755991 446756601 0.000000e+00 963.0
15 TraesCS2B01G126700 chr3D 95.567 609 24 1 1706 2314 581095638 581096243 0.000000e+00 972.0
16 TraesCS2B01G126700 chrUn 95.238 609 26 2 1706 2314 35558896 35558291 0.000000e+00 961.0
17 TraesCS2B01G126700 chrUn 95.066 608 30 0 1707 2314 51420752 51420145 0.000000e+00 957.0
18 TraesCS2B01G126700 chr3B 95.238 609 26 2 1706 2314 6098865 6099470 0.000000e+00 961.0
19 TraesCS2B01G126700 chr3B 93.590 156 8 1 1 154 758196769 758196924 5.330000e-57 231.0
20 TraesCS2B01G126700 chr5D 95.066 608 29 1 1707 2314 552044763 552044157 0.000000e+00 955.0
21 TraesCS2B01G126700 chr1A 99.223 515 4 0 1 515 48794059 48793545 0.000000e+00 929.0
22 TraesCS2B01G126700 chr4B 96.731 520 15 2 1 518 4123289 4122770 0.000000e+00 865.0
23 TraesCS2B01G126700 chr6D 90.018 541 27 11 1 515 42450724 42451263 0.000000e+00 675.0
24 TraesCS2B01G126700 chr7B 89.888 445 40 5 76 516 103621444 103621887 3.580000e-158 568.0
25 TraesCS2B01G126700 chr7D 92.602 392 25 4 121 508 550569260 550568869 5.990000e-156 560.0


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 TraesCS2B01G126700 chr2B 94935565 94938044 2479 False 4580.0 4580 100.0000 1 2480 1 chr2B.!!$F2 2479
1 TraesCS2B01G126700 chr2B 27671156 27671675 519 False 741.0 741 92.5140 1 517 1 chr2B.!!$F1 516
2 TraesCS2B01G126700 chr2B 596984279 596984831 552 False 241.7 401 86.2645 8 516 2 chr2B.!!$F3 508
3 TraesCS2B01G126700 chr2A 61290066 61291134 1068 False 1206.0 1206 87.2420 616 1704 1 chr2A.!!$F1 1088
4 TraesCS2B01G126700 chr2D 60756416 60757741 1325 False 676.5 1195 91.7025 769 2480 2 chr2D.!!$F1 1711
5 TraesCS2B01G126700 chr6B 663015500 663016103 603 True 1014.0 1014 96.8750 1707 2314 1 chr6B.!!$R1 607
6 TraesCS2B01G126700 chr7A 437074369 437074971 602 False 987.0 987 96.1860 1703 2305 1 chr7A.!!$F1 602
7 TraesCS2B01G126700 chr1D 11803872 11804481 609 True 985.0 985 95.7590 1702 2314 1 chr1D.!!$R1 612
8 TraesCS2B01G126700 chr1D 446755991 446756601 610 False 963.0 963 95.0980 1703 2314 1 chr1D.!!$F1 611
9 TraesCS2B01G126700 chr3D 581095638 581096243 605 False 972.0 972 95.5670 1706 2314 1 chr3D.!!$F1 608
10 TraesCS2B01G126700 chrUn 35558291 35558896 605 True 961.0 961 95.2380 1706 2314 1 chrUn.!!$R1 608
11 TraesCS2B01G126700 chrUn 51420145 51420752 607 True 957.0 957 95.0660 1707 2314 1 chrUn.!!$R2 607
12 TraesCS2B01G126700 chr3B 6098865 6099470 605 False 961.0 961 95.2380 1706 2314 1 chr3B.!!$F1 608
13 TraesCS2B01G126700 chr5D 552044157 552044763 606 True 955.0 955 95.0660 1707 2314 1 chr5D.!!$R1 607
14 TraesCS2B01G126700 chr1A 48793545 48794059 514 True 929.0 929 99.2230 1 515 1 chr1A.!!$R1 514
15 TraesCS2B01G126700 chr4B 4122770 4123289 519 True 865.0 865 96.7310 1 518 1 chr4B.!!$R1 517
16 TraesCS2B01G126700 chr6D 42450724 42451263 539 False 675.0 675 90.0180 1 515 1 chr6D.!!$F1 514

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
939 996 0.032403 GCAGTGCACTTTTCATGCCA 59.968 50.0 18.94 0.0 42.69 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2384 2468 1.159285 ATCGTGGTGTGTGCAATGAG 58.841 50.0 0.0 0.0 0.0 2.9 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
249 278 4.944317 GCCTTCAGGAACTAATTAAGTGCT 59.056 41.667 0.00 0.00 36.02 4.40
518 568 2.969821 TGGGCAATGTCCTAGTTGTT 57.030 45.000 5.15 0.00 0.00 2.83
519 569 3.237268 TGGGCAATGTCCTAGTTGTTT 57.763 42.857 5.15 0.00 0.00 2.83
520 570 3.571590 TGGGCAATGTCCTAGTTGTTTT 58.428 40.909 5.15 0.00 0.00 2.43
521 571 3.964031 TGGGCAATGTCCTAGTTGTTTTT 59.036 39.130 5.15 0.00 0.00 1.94
522 572 5.141182 TGGGCAATGTCCTAGTTGTTTTTA 58.859 37.500 5.15 0.00 0.00 1.52
523 573 5.598830 TGGGCAATGTCCTAGTTGTTTTTAA 59.401 36.000 5.15 0.00 0.00 1.52
524 574 6.098409 TGGGCAATGTCCTAGTTGTTTTTAAA 59.902 34.615 5.15 0.00 0.00 1.52
525 575 6.987404 GGGCAATGTCCTAGTTGTTTTTAAAA 59.013 34.615 0.00 0.00 0.00 1.52
526 576 7.659799 GGGCAATGTCCTAGTTGTTTTTAAAAT 59.340 33.333 0.00 0.00 0.00 1.82
527 577 9.051679 GGCAATGTCCTAGTTGTTTTTAAAATT 57.948 29.630 0.55 0.00 0.00 1.82
534 584 9.871175 TCCTAGTTGTTTTTAAAATTAGGAGGT 57.129 29.630 0.55 0.00 38.89 3.85
535 585 9.908152 CCTAGTTGTTTTTAAAATTAGGAGGTG 57.092 33.333 0.55 0.00 37.75 4.00
561 611 3.419264 TGCAAAACAGCAACTGTACTG 57.581 42.857 0.00 8.69 44.62 2.74
562 612 2.119457 GCAAAACAGCAACTGTACTGC 58.881 47.619 14.45 14.45 44.62 4.40
563 613 2.375110 CAAAACAGCAACTGTACTGCG 58.625 47.619 9.85 3.65 44.62 5.18
564 614 0.307760 AAACAGCAACTGTACTGCGC 59.692 50.000 0.00 0.00 44.62 6.09
565 615 1.507141 AACAGCAACTGTACTGCGCC 61.507 55.000 4.18 0.00 44.62 6.53
566 616 2.358737 AGCAACTGTACTGCGCCC 60.359 61.111 4.18 0.00 44.75 6.13
567 617 2.668212 GCAACTGTACTGCGCCCA 60.668 61.111 4.18 0.00 0.00 5.36
568 618 2.966309 GCAACTGTACTGCGCCCAC 61.966 63.158 4.18 0.00 0.00 4.61
569 619 2.357034 AACTGTACTGCGCCCACG 60.357 61.111 4.18 0.00 44.07 4.94
570 620 2.863346 AACTGTACTGCGCCCACGA 61.863 57.895 4.18 0.00 43.93 4.35
571 621 2.809601 CTGTACTGCGCCCACGAC 60.810 66.667 4.18 0.00 43.93 4.34
572 622 3.567478 CTGTACTGCGCCCACGACA 62.567 63.158 4.18 0.96 43.93 4.35
573 623 2.356553 GTACTGCGCCCACGACAA 60.357 61.111 4.18 0.00 43.93 3.18
574 624 1.740296 GTACTGCGCCCACGACAAT 60.740 57.895 4.18 0.00 43.93 2.71
575 625 0.458889 GTACTGCGCCCACGACAATA 60.459 55.000 4.18 0.00 43.93 1.90
576 626 0.246910 TACTGCGCCCACGACAATAA 59.753 50.000 4.18 0.00 43.93 1.40
577 627 0.392461 ACTGCGCCCACGACAATAAT 60.392 50.000 4.18 0.00 43.93 1.28
578 628 0.732571 CTGCGCCCACGACAATAATT 59.267 50.000 4.18 0.00 43.93 1.40
579 629 1.132262 CTGCGCCCACGACAATAATTT 59.868 47.619 4.18 0.00 43.93 1.82
580 630 1.131504 TGCGCCCACGACAATAATTTC 59.868 47.619 4.18 0.00 43.93 2.17
581 631 1.854434 GCGCCCACGACAATAATTTCG 60.854 52.381 0.00 0.00 43.93 3.46
582 632 1.267832 CGCCCACGACAATAATTTCGG 60.268 52.381 2.63 0.00 43.93 4.30
583 633 1.064952 GCCCACGACAATAATTTCGGG 59.935 52.381 2.63 0.00 39.63 5.14
584 634 2.634600 CCCACGACAATAATTTCGGGA 58.365 47.619 1.11 0.00 41.33 5.14
585 635 3.211045 CCCACGACAATAATTTCGGGAT 58.789 45.455 1.11 0.00 41.33 3.85
586 636 3.003275 CCCACGACAATAATTTCGGGATG 59.997 47.826 1.11 0.00 41.33 3.51
587 637 3.003275 CCACGACAATAATTTCGGGATGG 59.997 47.826 1.11 0.00 41.33 3.51
588 638 3.874543 CACGACAATAATTTCGGGATGGA 59.125 43.478 2.63 0.00 41.33 3.41
589 639 4.024893 CACGACAATAATTTCGGGATGGAG 60.025 45.833 2.63 0.00 41.33 3.86
590 640 3.498397 CGACAATAATTTCGGGATGGAGG 59.502 47.826 0.00 0.00 0.00 4.30
591 641 3.821033 GACAATAATTTCGGGATGGAGGG 59.179 47.826 0.00 0.00 0.00 4.30
592 642 3.461831 ACAATAATTTCGGGATGGAGGGA 59.538 43.478 0.00 0.00 0.00 4.20
593 643 4.074970 CAATAATTTCGGGATGGAGGGAG 58.925 47.826 0.00 0.00 0.00 4.30
594 644 1.596496 AATTTCGGGATGGAGGGAGT 58.404 50.000 0.00 0.00 0.00 3.85
595 645 2.489528 ATTTCGGGATGGAGGGAGTA 57.510 50.000 0.00 0.00 0.00 2.59
596 646 2.489528 TTTCGGGATGGAGGGAGTAT 57.510 50.000 0.00 0.00 0.00 2.12
597 647 2.011122 TTCGGGATGGAGGGAGTATC 57.989 55.000 0.00 0.00 0.00 2.24
598 648 0.857675 TCGGGATGGAGGGAGTATCA 59.142 55.000 0.00 0.00 36.25 2.15
599 649 1.219469 TCGGGATGGAGGGAGTATCAA 59.781 52.381 0.00 0.00 36.25 2.57
600 650 2.047061 CGGGATGGAGGGAGTATCAAA 58.953 52.381 0.00 0.00 36.25 2.69
601 651 2.438021 CGGGATGGAGGGAGTATCAAAA 59.562 50.000 0.00 0.00 36.25 2.44
602 652 3.073062 CGGGATGGAGGGAGTATCAAAAT 59.927 47.826 0.00 0.00 36.25 1.82
603 653 4.657013 GGGATGGAGGGAGTATCAAAATC 58.343 47.826 0.00 0.00 36.25 2.17
604 654 4.319177 GGATGGAGGGAGTATCAAAATCG 58.681 47.826 0.00 0.00 36.25 3.34
605 655 3.838244 TGGAGGGAGTATCAAAATCGG 57.162 47.619 0.00 0.00 36.25 4.18
606 656 3.112263 TGGAGGGAGTATCAAAATCGGT 58.888 45.455 0.00 0.00 36.25 4.69
607 657 4.291792 TGGAGGGAGTATCAAAATCGGTA 58.708 43.478 0.00 0.00 36.25 4.02
608 658 4.100498 TGGAGGGAGTATCAAAATCGGTAC 59.900 45.833 0.00 0.00 36.25 3.34
609 659 4.502777 GGAGGGAGTATCAAAATCGGTACC 60.503 50.000 0.16 0.16 36.25 3.34
610 660 4.035112 AGGGAGTATCAAAATCGGTACCA 58.965 43.478 13.54 0.00 36.25 3.25
611 661 4.472108 AGGGAGTATCAAAATCGGTACCAA 59.528 41.667 13.54 0.00 36.25 3.67
612 662 5.045432 AGGGAGTATCAAAATCGGTACCAAA 60.045 40.000 13.54 0.00 36.25 3.28
613 663 5.648960 GGGAGTATCAAAATCGGTACCAAAA 59.351 40.000 13.54 0.00 36.25 2.44
614 664 6.320418 GGGAGTATCAAAATCGGTACCAAAAT 59.680 38.462 13.54 0.00 36.25 1.82
622 672 8.024285 TCAAAATCGGTACCAAAATGTACAATC 58.976 33.333 13.54 0.00 42.31 2.67
632 682 7.090173 ACCAAAATGTACAATCCAATTTCTCG 58.910 34.615 0.00 0.00 0.00 4.04
643 693 9.319143 ACAATCCAATTTCTCGATTTAGTAGAG 57.681 33.333 0.00 0.00 0.00 2.43
645 695 6.281405 TCCAATTTCTCGATTTAGTAGAGGC 58.719 40.000 0.00 0.00 31.22 4.70
656 706 6.766467 CGATTTAGTAGAGGCCCAAAAAGTAT 59.234 38.462 0.00 0.00 0.00 2.12
689 739 7.952671 AGACTTTTGAATTAAAAAGGAGGGTC 58.047 34.615 25.42 16.64 46.74 4.46
704 754 2.569404 GAGGGTCCTTGCCTATATCCTG 59.431 54.545 0.00 0.00 0.00 3.86
705 755 1.630878 GGGTCCTTGCCTATATCCTGG 59.369 57.143 0.00 0.00 0.00 4.45
706 756 2.621070 GGTCCTTGCCTATATCCTGGA 58.379 52.381 0.00 0.00 0.00 3.86
707 757 2.569404 GGTCCTTGCCTATATCCTGGAG 59.431 54.545 1.52 0.00 0.00 3.86
709 759 4.417437 GTCCTTGCCTATATCCTGGAGTA 58.583 47.826 1.52 0.00 0.00 2.59
710 760 5.026790 GTCCTTGCCTATATCCTGGAGTAT 58.973 45.833 1.52 3.58 0.00 2.12
711 761 5.128008 GTCCTTGCCTATATCCTGGAGTATC 59.872 48.000 1.52 0.00 0.00 2.24
712 762 5.026121 CCTTGCCTATATCCTGGAGTATCA 58.974 45.833 1.52 0.00 36.25 2.15
713 763 5.664908 CCTTGCCTATATCCTGGAGTATCAT 59.335 44.000 1.52 0.00 36.25 2.45
714 764 6.407865 CCTTGCCTATATCCTGGAGTATCATG 60.408 46.154 1.52 0.00 36.25 3.07
715 765 5.593786 TGCCTATATCCTGGAGTATCATGT 58.406 41.667 1.52 0.00 36.25 3.21
716 766 6.741724 TGCCTATATCCTGGAGTATCATGTA 58.258 40.000 1.52 0.00 36.25 2.29
717 767 7.189087 TGCCTATATCCTGGAGTATCATGTAA 58.811 38.462 1.52 0.00 36.25 2.41
718 768 7.678171 TGCCTATATCCTGGAGTATCATGTAAA 59.322 37.037 1.52 0.00 36.25 2.01
719 769 7.982354 GCCTATATCCTGGAGTATCATGTAAAC 59.018 40.741 1.52 0.00 36.25 2.01
720 770 8.478877 CCTATATCCTGGAGTATCATGTAAACC 58.521 40.741 1.52 0.00 36.25 3.27
721 771 9.261035 CTATATCCTGGAGTATCATGTAAACCT 57.739 37.037 1.52 0.00 36.25 3.50
722 772 6.831664 ATCCTGGAGTATCATGTAAACCTT 57.168 37.500 1.52 0.00 36.25 3.50
723 773 6.636454 TCCTGGAGTATCATGTAAACCTTT 57.364 37.500 0.00 0.00 36.25 3.11
724 774 7.027874 TCCTGGAGTATCATGTAAACCTTTT 57.972 36.000 0.00 0.00 36.25 2.27
725 775 6.884295 TCCTGGAGTATCATGTAAACCTTTTG 59.116 38.462 0.00 0.00 36.25 2.44
745 795 1.871676 GGGTTTGAAACGTGGAGAGAC 59.128 52.381 1.53 0.00 0.00 3.36
753 803 1.801332 CGTGGAGAGACGTACTGGG 59.199 63.158 0.00 0.00 34.56 4.45
767 817 1.290134 ACTGGGGTCTGAATCCTTCC 58.710 55.000 0.36 0.00 0.00 3.46
789 839 2.332063 TTCCGCTTCCTTGGATCATC 57.668 50.000 0.00 0.00 33.42 2.92
795 845 2.107901 GCTTCCTTGGATCATCTGGGAT 59.892 50.000 0.00 0.00 0.00 3.85
799 849 4.050037 TCCTTGGATCATCTGGGATTTCT 58.950 43.478 0.00 0.00 0.00 2.52
858 914 2.893637 CTGTCACCAAACCTATCCGAG 58.106 52.381 0.00 0.00 0.00 4.63
885 942 2.495964 CGGCACAACGTAAACGCG 60.496 61.111 3.53 3.53 44.43 6.01
892 949 2.088816 CACAACGTAAACGCGAACGATA 59.911 45.455 29.24 8.25 43.93 2.92
906 963 1.311859 ACGATATCTTGTACCGCCGA 58.688 50.000 0.34 0.00 0.00 5.54
919 976 1.280142 CGCCGATAGACGAGACAGG 59.720 63.158 0.00 0.00 45.77 4.00
929 986 2.746359 GAGACAGGGCAGTGCACT 59.254 61.111 15.99 15.99 46.60 4.40
930 987 1.072159 GAGACAGGGCAGTGCACTT 59.928 57.895 19.71 9.58 40.61 3.16
939 996 0.032403 GCAGTGCACTTTTCATGCCA 59.968 50.000 18.94 0.00 42.69 4.92
1143 1206 2.955022 TACTCCTCTACCTCGCGGGC 62.955 65.000 6.13 0.00 39.10 6.13
1352 1418 2.507324 GTGCCTCTCGGAGTTCGC 60.507 66.667 4.69 5.92 39.05 4.70
1549 1615 3.226346 ACGTACGTGTGCATGTAGAAT 57.774 42.857 22.14 0.00 33.84 2.40
1550 1616 3.581755 ACGTACGTGTGCATGTAGAATT 58.418 40.909 22.14 0.00 33.84 2.17
1551 1617 3.366724 ACGTACGTGTGCATGTAGAATTG 59.633 43.478 22.14 0.00 33.84 2.32
1552 1618 3.241963 CGTACGTGTGCATGTAGAATTGG 60.242 47.826 7.22 0.00 33.84 3.16
1553 1619 3.052455 ACGTGTGCATGTAGAATTGGA 57.948 42.857 0.00 0.00 0.00 3.53
1601 1667 3.119096 GCTCGGGCGTTTGTCTCC 61.119 66.667 0.00 0.00 0.00 3.71
1663 1746 5.446709 CAAGGCACATATATTTCTCTTGCG 58.553 41.667 0.00 0.00 0.00 4.85
1687 1770 6.479990 CGTGACATGTGTATAGTTGATCCATT 59.520 38.462 1.15 0.00 0.00 3.16
1698 1781 9.694137 GTATAGTTGATCCATTAGTTGGTACTC 57.306 37.037 0.00 0.00 46.52 2.59
1910 1993 3.759581 TGTAGTAGACAGTCGGGAAGTT 58.240 45.455 0.00 0.00 32.86 2.66
2175 2258 1.293498 GTCTCGCCTTCCTGAGCAA 59.707 57.895 0.00 0.00 32.20 3.91
2185 2268 4.326826 CCTTCCTGAGCAAGACACAAATA 58.673 43.478 0.00 0.00 0.00 1.40
2320 2404 4.269523 GGTGGGAGGCACAGCACA 62.270 66.667 0.00 0.00 36.42 4.57
2321 2405 2.670934 GTGGGAGGCACAGCACAG 60.671 66.667 0.00 0.00 0.00 3.66
2322 2406 4.648626 TGGGAGGCACAGCACAGC 62.649 66.667 0.00 0.00 0.00 4.40
2323 2407 4.648626 GGGAGGCACAGCACAGCA 62.649 66.667 0.00 0.00 0.00 4.41
2324 2408 3.360340 GGAGGCACAGCACAGCAC 61.360 66.667 0.00 0.00 0.00 4.40
2325 2409 2.592574 GAGGCACAGCACAGCACA 60.593 61.111 0.00 0.00 0.00 4.57
2326 2410 2.593725 AGGCACAGCACAGCACAG 60.594 61.111 0.00 0.00 0.00 3.66
2327 2411 2.592574 GGCACAGCACAGCACAGA 60.593 61.111 0.00 0.00 0.00 3.41
2328 2412 1.970114 GGCACAGCACAGCACAGAT 60.970 57.895 0.00 0.00 0.00 2.90
2329 2413 0.674581 GGCACAGCACAGCACAGATA 60.675 55.000 0.00 0.00 0.00 1.98
2330 2414 1.376543 GCACAGCACAGCACAGATAT 58.623 50.000 0.00 0.00 0.00 1.63
2331 2415 1.063616 GCACAGCACAGCACAGATATG 59.936 52.381 0.00 0.00 0.00 1.78
2332 2416 2.624636 CACAGCACAGCACAGATATGA 58.375 47.619 0.00 0.00 0.00 2.15
2333 2417 2.350804 CACAGCACAGCACAGATATGAC 59.649 50.000 0.00 0.00 0.00 3.06
2334 2418 2.027837 ACAGCACAGCACAGATATGACA 60.028 45.455 0.00 0.00 0.00 3.58
2335 2419 3.203716 CAGCACAGCACAGATATGACAT 58.796 45.455 0.00 0.00 0.00 3.06
2336 2420 3.002348 CAGCACAGCACAGATATGACATG 59.998 47.826 0.00 0.00 0.00 3.21
2337 2421 2.941064 GCACAGCACAGATATGACATGT 59.059 45.455 0.00 0.00 0.00 3.21
2338 2422 4.122046 GCACAGCACAGATATGACATGTA 58.878 43.478 0.00 0.00 0.00 2.29
2339 2423 4.025396 GCACAGCACAGATATGACATGTAC 60.025 45.833 0.00 0.00 0.00 2.90
2340 2424 5.111293 CACAGCACAGATATGACATGTACA 58.889 41.667 0.00 0.00 0.00 2.90
2341 2425 5.756833 CACAGCACAGATATGACATGTACAT 59.243 40.000 1.41 1.41 0.00 2.29
2342 2426 6.259387 CACAGCACAGATATGACATGTACATT 59.741 38.462 5.37 0.00 0.00 2.71
2343 2427 6.825213 ACAGCACAGATATGACATGTACATTT 59.175 34.615 5.37 0.00 0.00 2.32
2344 2428 7.130269 CAGCACAGATATGACATGTACATTTG 58.870 38.462 5.37 0.00 0.00 2.32
2345 2429 6.261603 AGCACAGATATGACATGTACATTTGG 59.738 38.462 5.37 0.00 0.00 3.28
2346 2430 6.038603 GCACAGATATGACATGTACATTTGGT 59.961 38.462 5.37 0.79 0.00 3.67
2347 2431 7.633621 CACAGATATGACATGTACATTTGGTC 58.366 38.462 5.37 11.33 0.00 4.02
2348 2432 6.479990 ACAGATATGACATGTACATTTGGTCG 59.520 38.462 5.37 0.00 0.00 4.79
2349 2433 6.479990 CAGATATGACATGTACATTTGGTCGT 59.520 38.462 18.32 18.32 0.00 4.34
2350 2434 7.011389 CAGATATGACATGTACATTTGGTCGTT 59.989 37.037 19.09 12.13 0.00 3.85
2351 2435 5.957842 ATGACATGTACATTTGGTCGTTT 57.042 34.783 5.37 0.00 0.00 3.60
2352 2436 5.759506 TGACATGTACATTTGGTCGTTTT 57.240 34.783 5.37 0.00 0.00 2.43
2353 2437 6.862711 TGACATGTACATTTGGTCGTTTTA 57.137 33.333 5.37 0.00 0.00 1.52
2354 2438 6.893759 TGACATGTACATTTGGTCGTTTTAG 58.106 36.000 5.37 0.00 0.00 1.85
2355 2439 6.706716 TGACATGTACATTTGGTCGTTTTAGA 59.293 34.615 5.37 0.00 0.00 2.10
2356 2440 7.226918 TGACATGTACATTTGGTCGTTTTAGAA 59.773 33.333 5.37 0.00 0.00 2.10
2357 2441 7.932335 ACATGTACATTTGGTCGTTTTAGAAA 58.068 30.769 5.37 0.00 0.00 2.52
2358 2442 8.407064 ACATGTACATTTGGTCGTTTTAGAAAA 58.593 29.630 5.37 0.00 0.00 2.29
2359 2443 9.239002 CATGTACATTTGGTCGTTTTAGAAAAA 57.761 29.630 5.37 0.00 0.00 1.94
2360 2444 9.974980 ATGTACATTTGGTCGTTTTAGAAAAAT 57.025 25.926 1.41 0.00 0.00 1.82
2361 2445 9.239002 TGTACATTTGGTCGTTTTAGAAAAATG 57.761 29.630 0.00 0.00 39.64 2.32
2362 2446 7.172654 ACATTTGGTCGTTTTAGAAAAATGC 57.827 32.000 12.40 0.00 38.58 3.56
2363 2447 6.758886 ACATTTGGTCGTTTTAGAAAAATGCA 59.241 30.769 12.40 0.00 38.58 3.96
2364 2448 7.278868 ACATTTGGTCGTTTTAGAAAAATGCAA 59.721 29.630 0.00 0.00 38.58 4.08
2365 2449 6.820470 TTGGTCGTTTTAGAAAAATGCAAG 57.180 33.333 0.00 0.00 0.00 4.01
2366 2450 4.742659 TGGTCGTTTTAGAAAAATGCAAGC 59.257 37.500 0.00 0.00 0.00 4.01
2367 2451 4.742659 GGTCGTTTTAGAAAAATGCAAGCA 59.257 37.500 0.00 0.00 0.00 3.91
2384 2468 5.095490 GCAAGCATATGGTTAGTTTGTGTC 58.905 41.667 19.18 0.76 33.98 3.67
2385 2469 5.106157 GCAAGCATATGGTTAGTTTGTGTCT 60.106 40.000 19.18 0.00 33.98 3.41
2391 2475 4.829064 TGGTTAGTTTGTGTCTCATTGC 57.171 40.909 0.00 0.00 0.00 3.56
2394 2478 4.036262 GGTTAGTTTGTGTCTCATTGCACA 59.964 41.667 0.00 0.00 42.95 4.57
2398 2482 1.308047 TGTGTCTCATTGCACACACC 58.692 50.000 14.12 0.00 46.26 4.16
2413 2497 1.468127 CACACCACGATTGCAATGCTA 59.532 47.619 18.59 0.00 0.00 3.49
2416 2500 3.181497 ACACCACGATTGCAATGCTATTC 60.181 43.478 18.59 0.39 0.00 1.75
2445 2529 7.403312 TGGACAAAGGGTATCATTAACATTG 57.597 36.000 0.00 0.00 0.00 2.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
249 278 5.475564 GGTTAACTTAAGCATCACCAGGAAA 59.524 40.000 5.42 0.00 36.26 3.13
499 549 2.969821 AACAACTAGGACATTGCCCA 57.030 45.000 0.00 0.00 0.00 5.36
541 591 2.479389 GCAGTACAGTTGCTGTTTTGCA 60.479 45.455 21.52 0.00 42.59 4.08
542 592 2.119457 GCAGTACAGTTGCTGTTTTGC 58.881 47.619 16.09 16.09 42.59 3.68
543 593 2.375110 CGCAGTACAGTTGCTGTTTTG 58.625 47.619 7.11 7.50 42.59 2.44
544 594 1.268539 GCGCAGTACAGTTGCTGTTTT 60.269 47.619 0.30 0.00 42.59 2.43
545 595 0.307760 GCGCAGTACAGTTGCTGTTT 59.692 50.000 0.30 0.00 42.59 2.83
546 596 1.507141 GGCGCAGTACAGTTGCTGTT 61.507 55.000 10.83 0.00 42.59 3.16
548 598 2.680913 GGGCGCAGTACAGTTGCTG 61.681 63.158 10.83 0.00 39.38 4.41
549 599 2.358737 GGGCGCAGTACAGTTGCT 60.359 61.111 10.83 0.00 39.38 3.91
550 600 2.668212 TGGGCGCAGTACAGTTGC 60.668 61.111 10.83 0.00 38.18 4.17
551 601 2.667318 CGTGGGCGCAGTACAGTTG 61.667 63.158 10.83 0.00 0.00 3.16
552 602 2.357034 CGTGGGCGCAGTACAGTT 60.357 61.111 10.83 0.00 0.00 3.16
553 603 3.299977 TCGTGGGCGCAGTACAGT 61.300 61.111 10.83 0.00 38.14 3.55
554 604 2.809601 GTCGTGGGCGCAGTACAG 60.810 66.667 10.83 1.98 38.14 2.74
555 605 2.443260 ATTGTCGTGGGCGCAGTACA 62.443 55.000 10.83 8.89 38.14 2.90
556 606 0.458889 TATTGTCGTGGGCGCAGTAC 60.459 55.000 10.83 6.08 38.14 2.73
557 607 0.246910 TTATTGTCGTGGGCGCAGTA 59.753 50.000 10.83 0.00 38.14 2.74
558 608 0.392461 ATTATTGTCGTGGGCGCAGT 60.392 50.000 10.83 0.00 38.14 4.40
559 609 0.732571 AATTATTGTCGTGGGCGCAG 59.267 50.000 10.83 0.00 38.14 5.18
560 610 1.131504 GAAATTATTGTCGTGGGCGCA 59.868 47.619 10.83 0.00 38.14 6.09
561 611 1.822581 GAAATTATTGTCGTGGGCGC 58.177 50.000 0.00 0.00 38.14 6.53
562 612 1.267832 CCGAAATTATTGTCGTGGGCG 60.268 52.381 8.04 0.00 35.48 6.13
563 613 1.064952 CCCGAAATTATTGTCGTGGGC 59.935 52.381 8.04 0.00 35.48 5.36
564 614 2.634600 TCCCGAAATTATTGTCGTGGG 58.365 47.619 8.04 0.00 35.48 4.61
565 615 3.003275 CCATCCCGAAATTATTGTCGTGG 59.997 47.826 8.04 8.47 35.48 4.94
566 616 3.874543 TCCATCCCGAAATTATTGTCGTG 59.125 43.478 8.04 0.00 35.48 4.35
567 617 4.127171 CTCCATCCCGAAATTATTGTCGT 58.873 43.478 8.04 0.00 35.48 4.34
568 618 3.498397 CCTCCATCCCGAAATTATTGTCG 59.502 47.826 0.00 0.00 37.01 4.35
569 619 3.821033 CCCTCCATCCCGAAATTATTGTC 59.179 47.826 0.00 0.00 0.00 3.18
570 620 3.461831 TCCCTCCATCCCGAAATTATTGT 59.538 43.478 0.00 0.00 0.00 2.71
571 621 4.074970 CTCCCTCCATCCCGAAATTATTG 58.925 47.826 0.00 0.00 0.00 1.90
572 622 3.722101 ACTCCCTCCATCCCGAAATTATT 59.278 43.478 0.00 0.00 0.00 1.40
573 623 3.327439 ACTCCCTCCATCCCGAAATTAT 58.673 45.455 0.00 0.00 0.00 1.28
574 624 2.771688 ACTCCCTCCATCCCGAAATTA 58.228 47.619 0.00 0.00 0.00 1.40
575 625 1.596496 ACTCCCTCCATCCCGAAATT 58.404 50.000 0.00 0.00 0.00 1.82
576 626 2.489528 TACTCCCTCCATCCCGAAAT 57.510 50.000 0.00 0.00 0.00 2.17
577 627 2.326428 GATACTCCCTCCATCCCGAAA 58.674 52.381 0.00 0.00 0.00 3.46
578 628 1.219469 TGATACTCCCTCCATCCCGAA 59.781 52.381 0.00 0.00 0.00 4.30
579 629 0.857675 TGATACTCCCTCCATCCCGA 59.142 55.000 0.00 0.00 0.00 5.14
580 630 1.717032 TTGATACTCCCTCCATCCCG 58.283 55.000 0.00 0.00 0.00 5.14
581 631 4.657013 GATTTTGATACTCCCTCCATCCC 58.343 47.826 0.00 0.00 0.00 3.85
582 632 4.319177 CGATTTTGATACTCCCTCCATCC 58.681 47.826 0.00 0.00 0.00 3.51
583 633 4.202367 ACCGATTTTGATACTCCCTCCATC 60.202 45.833 0.00 0.00 0.00 3.51
584 634 3.716872 ACCGATTTTGATACTCCCTCCAT 59.283 43.478 0.00 0.00 0.00 3.41
585 635 3.112263 ACCGATTTTGATACTCCCTCCA 58.888 45.455 0.00 0.00 0.00 3.86
586 636 3.840124 ACCGATTTTGATACTCCCTCC 57.160 47.619 0.00 0.00 0.00 4.30
587 637 4.100498 TGGTACCGATTTTGATACTCCCTC 59.900 45.833 7.57 0.00 0.00 4.30
588 638 4.035112 TGGTACCGATTTTGATACTCCCT 58.965 43.478 7.57 0.00 0.00 4.20
589 639 4.411256 TGGTACCGATTTTGATACTCCC 57.589 45.455 7.57 0.00 0.00 4.30
590 640 6.746745 TTTTGGTACCGATTTTGATACTCC 57.253 37.500 7.57 0.00 0.00 3.85
591 641 7.758495 ACATTTTGGTACCGATTTTGATACTC 58.242 34.615 7.57 0.00 0.00 2.59
592 642 7.696992 ACATTTTGGTACCGATTTTGATACT 57.303 32.000 7.57 0.00 0.00 2.12
593 643 8.452534 TGTACATTTTGGTACCGATTTTGATAC 58.547 33.333 7.57 4.95 42.31 2.24
594 644 8.563123 TGTACATTTTGGTACCGATTTTGATA 57.437 30.769 7.57 0.00 42.31 2.15
595 645 7.455641 TGTACATTTTGGTACCGATTTTGAT 57.544 32.000 7.57 0.00 42.31 2.57
596 646 6.879276 TGTACATTTTGGTACCGATTTTGA 57.121 33.333 7.57 0.00 42.31 2.69
597 647 7.274686 GGATTGTACATTTTGGTACCGATTTTG 59.725 37.037 7.57 6.22 42.31 2.44
598 648 7.039644 TGGATTGTACATTTTGGTACCGATTTT 60.040 33.333 7.57 0.00 42.31 1.82
599 649 6.434652 TGGATTGTACATTTTGGTACCGATTT 59.565 34.615 7.57 0.00 42.31 2.17
600 650 5.946972 TGGATTGTACATTTTGGTACCGATT 59.053 36.000 7.57 0.00 42.31 3.34
601 651 5.502079 TGGATTGTACATTTTGGTACCGAT 58.498 37.500 7.57 0.00 42.31 4.18
602 652 4.907809 TGGATTGTACATTTTGGTACCGA 58.092 39.130 7.57 1.50 42.31 4.69
603 653 5.630661 TTGGATTGTACATTTTGGTACCG 57.369 39.130 7.57 0.00 42.31 4.02
604 654 8.311109 AGAAATTGGATTGTACATTTTGGTACC 58.689 33.333 4.43 4.43 42.31 3.34
605 655 9.353999 GAGAAATTGGATTGTACATTTTGGTAC 57.646 33.333 0.00 0.00 43.08 3.34
606 656 8.240682 CGAGAAATTGGATTGTACATTTTGGTA 58.759 33.333 0.00 0.00 0.00 3.25
607 657 7.040062 TCGAGAAATTGGATTGTACATTTTGGT 60.040 33.333 0.00 0.00 0.00 3.67
608 658 7.312154 TCGAGAAATTGGATTGTACATTTTGG 58.688 34.615 0.00 0.00 0.00 3.28
609 659 8.915871 ATCGAGAAATTGGATTGTACATTTTG 57.084 30.769 0.00 0.00 0.00 2.44
610 660 9.927668 AAATCGAGAAATTGGATTGTACATTTT 57.072 25.926 0.00 0.00 34.85 1.82
613 663 9.396022 ACTAAATCGAGAAATTGGATTGTACAT 57.604 29.630 0.00 0.00 34.85 2.29
614 664 8.786826 ACTAAATCGAGAAATTGGATTGTACA 57.213 30.769 0.00 0.00 34.85 2.90
622 672 5.467063 GGCCTCTACTAAATCGAGAAATTGG 59.533 44.000 0.00 0.00 0.00 3.16
632 682 9.794719 ATATACTTTTTGGGCCTCTACTAAATC 57.205 33.333 4.53 0.00 0.00 2.17
684 734 2.625639 CAGGATATAGGCAAGGACCCT 58.374 52.381 0.00 0.00 36.47 4.34
689 739 5.026121 TGATACTCCAGGATATAGGCAAGG 58.974 45.833 0.00 0.00 0.00 3.61
704 754 6.451064 CCCAAAAGGTTTACATGATACTCC 57.549 41.667 0.00 0.00 0.00 3.85
719 769 2.166664 TCCACGTTTCAAACCCAAAAGG 59.833 45.455 0.00 0.00 43.78 3.11
720 770 3.129638 TCTCCACGTTTCAAACCCAAAAG 59.870 43.478 0.00 0.00 0.00 2.27
721 771 3.090037 TCTCCACGTTTCAAACCCAAAA 58.910 40.909 0.00 0.00 0.00 2.44
722 772 2.685897 CTCTCCACGTTTCAAACCCAAA 59.314 45.455 0.00 0.00 0.00 3.28
723 773 2.092861 TCTCTCCACGTTTCAAACCCAA 60.093 45.455 0.00 0.00 0.00 4.12
724 774 1.487142 TCTCTCCACGTTTCAAACCCA 59.513 47.619 0.00 0.00 0.00 4.51
725 775 1.871676 GTCTCTCCACGTTTCAAACCC 59.128 52.381 0.00 0.00 0.00 4.11
738 788 0.034283 AGACCCCAGTACGTCTCTCC 60.034 60.000 0.00 0.00 34.15 3.71
745 795 1.486211 AGGATTCAGACCCCAGTACG 58.514 55.000 0.00 0.00 0.00 3.67
767 817 1.340017 TGATCCAAGGAAGCGGAAAGG 60.340 52.381 0.00 0.00 34.22 3.11
799 849 3.120095 CGTGCAGCATTCTTTCTGATTCA 60.120 43.478 0.00 0.00 32.26 2.57
833 889 4.683334 GGTTTGGTGACAGCGCGC 62.683 66.667 26.66 26.66 44.54 6.86
858 914 1.563173 GTTGTGCCGTCGTGTTCTC 59.437 57.895 0.00 0.00 0.00 2.87
885 942 2.049228 CGGCGGTACAAGATATCGTTC 58.951 52.381 0.00 0.00 0.00 3.95
892 949 1.266175 CGTCTATCGGCGGTACAAGAT 59.734 52.381 7.21 0.00 35.71 2.40
906 963 1.107114 CACTGCCCTGTCTCGTCTAT 58.893 55.000 0.00 0.00 0.00 1.98
919 976 0.668401 GGCATGAAAAGTGCACTGCC 60.668 55.000 24.37 24.37 44.25 4.85
929 986 4.757149 CCGGGTTTTAAATTGGCATGAAAA 59.243 37.500 0.00 0.00 0.00 2.29
930 987 4.040461 TCCGGGTTTTAAATTGGCATGAAA 59.960 37.500 0.00 0.00 0.00 2.69
939 996 3.767131 CAGATGGGTCCGGGTTTTAAATT 59.233 43.478 0.00 0.00 0.00 1.82
963 1020 1.874231 GAGCGAGATCGTATGAGGTGA 59.126 52.381 3.94 0.00 42.22 4.02
1143 1206 1.445582 GTACACCCAGACGAAGCGG 60.446 63.158 0.00 0.00 0.00 5.52
1433 1499 1.972223 CAGAGGGGACACGTCGAGT 60.972 63.158 0.00 0.00 38.94 4.18
1480 1546 0.962356 CCTCCTCGCCTTGTTTGCAT 60.962 55.000 0.00 0.00 0.00 3.96
1482 1548 2.335712 CCCTCCTCGCCTTGTTTGC 61.336 63.158 0.00 0.00 0.00 3.68
1524 1590 3.289816 ATGCACACGTACGTTGCGC 62.290 57.895 31.10 26.56 36.05 6.09
1525 1591 1.506891 CATGCACACGTACGTTGCG 60.507 57.895 31.10 20.64 36.05 4.85
1526 1592 0.785378 TACATGCACACGTACGTTGC 59.215 50.000 30.92 30.92 34.86 4.17
1527 1593 2.321263 TCTACATGCACACGTACGTTG 58.679 47.619 20.23 19.78 0.00 4.10
1549 1615 5.695363 CGACGTCTATCTACATCTACTCCAA 59.305 44.000 14.70 0.00 0.00 3.53
1550 1616 5.221402 ACGACGTCTATCTACATCTACTCCA 60.221 44.000 14.70 0.00 0.00 3.86
1551 1617 5.229423 ACGACGTCTATCTACATCTACTCC 58.771 45.833 14.70 0.00 0.00 3.85
1552 1618 6.398830 CGAACGACGTCTATCTACATCTACTC 60.399 46.154 14.70 0.00 37.22 2.59
1553 1619 5.401972 CGAACGACGTCTATCTACATCTACT 59.598 44.000 14.70 0.00 37.22 2.57
1601 1667 0.813610 TGCGAATATGCCCCAGAACG 60.814 55.000 0.00 0.00 0.00 3.95
1639 1705 5.218139 GCAAGAGAAATATATGTGCCTTGC 58.782 41.667 16.75 16.75 45.12 4.01
1663 1746 7.792374 AATGGATCAACTATACACATGTCAC 57.208 36.000 0.00 0.00 28.47 3.67
1786 1869 2.100989 AGGTGGTCTACGGATCTGAAC 58.899 52.381 9.00 3.40 0.00 3.18
1845 1928 3.838271 GAGGGGCGATGACAGCGA 61.838 66.667 18.71 0.00 35.00 4.93
1910 1993 4.077184 CGGGGCCTTAGCACGACA 62.077 66.667 0.84 0.00 46.55 4.35
2175 2258 6.220930 TCGAGCTTTGTTAGTATTTGTGTCT 58.779 36.000 0.00 0.00 0.00 3.41
2264 2348 2.799371 CGTCTCCGGTGGCTCTAC 59.201 66.667 6.55 0.00 0.00 2.59
2314 2398 2.624636 TGTCATATCTGTGCTGTGCTG 58.375 47.619 0.00 0.00 0.00 4.41
2315 2399 3.203716 CATGTCATATCTGTGCTGTGCT 58.796 45.455 0.00 0.00 0.00 4.40
2316 2400 2.941064 ACATGTCATATCTGTGCTGTGC 59.059 45.455 0.00 0.00 0.00 4.57
2317 2401 5.111293 TGTACATGTCATATCTGTGCTGTG 58.889 41.667 0.00 0.00 0.00 3.66
2318 2402 5.343307 TGTACATGTCATATCTGTGCTGT 57.657 39.130 0.00 0.00 0.00 4.40
2319 2403 6.856135 AATGTACATGTCATATCTGTGCTG 57.144 37.500 9.63 0.00 0.00 4.41
2320 2404 6.261603 CCAAATGTACATGTCATATCTGTGCT 59.738 38.462 9.63 0.00 0.00 4.40
2321 2405 6.038603 ACCAAATGTACATGTCATATCTGTGC 59.961 38.462 9.63 0.00 0.00 4.57
2322 2406 7.517259 CGACCAAATGTACATGTCATATCTGTG 60.517 40.741 19.25 0.00 0.00 3.66
2323 2407 6.479990 CGACCAAATGTACATGTCATATCTGT 59.520 38.462 19.25 2.76 0.00 3.41
2324 2408 6.479990 ACGACCAAATGTACATGTCATATCTG 59.520 38.462 19.25 8.59 0.00 2.90
2325 2409 6.582636 ACGACCAAATGTACATGTCATATCT 58.417 36.000 19.25 0.00 0.00 1.98
2326 2410 6.844696 ACGACCAAATGTACATGTCATATC 57.155 37.500 19.25 9.19 0.00 1.63
2327 2411 7.624360 AAACGACCAAATGTACATGTCATAT 57.376 32.000 19.25 6.54 0.00 1.78
2328 2412 7.441890 AAAACGACCAAATGTACATGTCATA 57.558 32.000 19.25 0.00 0.00 2.15
2329 2413 5.957842 AAACGACCAAATGTACATGTCAT 57.042 34.783 19.25 3.16 0.00 3.06
2330 2414 5.759506 AAAACGACCAAATGTACATGTCA 57.240 34.783 19.25 0.46 0.00 3.58
2331 2415 7.124347 TCTAAAACGACCAAATGTACATGTC 57.876 36.000 9.63 11.45 0.00 3.06
2332 2416 7.499321 TTCTAAAACGACCAAATGTACATGT 57.501 32.000 9.63 2.69 0.00 3.21
2333 2417 8.789881 TTTTCTAAAACGACCAAATGTACATG 57.210 30.769 9.63 0.00 0.00 3.21
2334 2418 9.974980 ATTTTTCTAAAACGACCAAATGTACAT 57.025 25.926 1.41 1.41 0.00 2.29
2335 2419 9.239002 CATTTTTCTAAAACGACCAAATGTACA 57.761 29.630 0.00 0.00 0.00 2.90
2336 2420 8.211838 GCATTTTTCTAAAACGACCAAATGTAC 58.788 33.333 0.00 0.00 34.20 2.90
2337 2421 7.921214 TGCATTTTTCTAAAACGACCAAATGTA 59.079 29.630 0.00 0.00 34.20 2.29
2338 2422 6.758886 TGCATTTTTCTAAAACGACCAAATGT 59.241 30.769 0.00 0.00 34.20 2.71
2339 2423 7.171447 TGCATTTTTCTAAAACGACCAAATG 57.829 32.000 0.00 0.00 34.61 2.32
2340 2424 7.518211 GCTTGCATTTTTCTAAAACGACCAAAT 60.518 33.333 0.00 0.00 0.00 2.32
2341 2425 6.237969 GCTTGCATTTTTCTAAAACGACCAAA 60.238 34.615 0.00 0.00 0.00 3.28
2342 2426 5.233263 GCTTGCATTTTTCTAAAACGACCAA 59.767 36.000 0.00 0.00 0.00 3.67
2343 2427 4.742659 GCTTGCATTTTTCTAAAACGACCA 59.257 37.500 0.00 0.00 0.00 4.02
2344 2428 4.742659 TGCTTGCATTTTTCTAAAACGACC 59.257 37.500 0.00 0.00 0.00 4.79
2345 2429 5.881637 TGCTTGCATTTTTCTAAAACGAC 57.118 34.783 0.00 0.00 0.00 4.34
2346 2430 7.275341 CCATATGCTTGCATTTTTCTAAAACGA 59.725 33.333 13.52 0.00 0.00 3.85
2347 2431 7.063308 ACCATATGCTTGCATTTTTCTAAAACG 59.937 33.333 13.52 0.00 0.00 3.60
2348 2432 8.255394 ACCATATGCTTGCATTTTTCTAAAAC 57.745 30.769 13.52 0.00 0.00 2.43
2349 2433 8.845413 AACCATATGCTTGCATTTTTCTAAAA 57.155 26.923 13.52 0.00 0.00 1.52
2350 2434 9.585099 CTAACCATATGCTTGCATTTTTCTAAA 57.415 29.630 13.52 0.00 0.00 1.85
2351 2435 8.748412 ACTAACCATATGCTTGCATTTTTCTAA 58.252 29.630 13.52 0.00 0.00 2.10
2352 2436 8.292444 ACTAACCATATGCTTGCATTTTTCTA 57.708 30.769 13.52 0.00 0.00 2.10
2353 2437 7.174107 ACTAACCATATGCTTGCATTTTTCT 57.826 32.000 13.52 0.00 0.00 2.52
2354 2438 7.832503 AACTAACCATATGCTTGCATTTTTC 57.167 32.000 13.52 0.00 0.00 2.29
2355 2439 7.661027 ACAAACTAACCATATGCTTGCATTTTT 59.339 29.630 13.52 5.04 0.00 1.94
2356 2440 7.118101 CACAAACTAACCATATGCTTGCATTTT 59.882 33.333 13.52 3.08 0.00 1.82
2357 2441 6.591062 CACAAACTAACCATATGCTTGCATTT 59.409 34.615 13.52 3.06 0.00 2.32
2358 2442 6.101332 CACAAACTAACCATATGCTTGCATT 58.899 36.000 13.52 0.00 0.00 3.56
2359 2443 5.185635 ACACAAACTAACCATATGCTTGCAT 59.814 36.000 12.88 12.88 0.00 3.96
2360 2444 4.522405 ACACAAACTAACCATATGCTTGCA 59.478 37.500 0.00 0.00 0.00 4.08
2361 2445 5.059404 ACACAAACTAACCATATGCTTGC 57.941 39.130 0.00 0.00 0.00 4.01
2362 2446 6.149308 TGAGACACAAACTAACCATATGCTTG 59.851 38.462 0.00 0.00 0.00 4.01
2363 2447 6.237901 TGAGACACAAACTAACCATATGCTT 58.762 36.000 0.00 0.00 0.00 3.91
2364 2448 5.804639 TGAGACACAAACTAACCATATGCT 58.195 37.500 0.00 0.00 0.00 3.79
2365 2449 6.683974 ATGAGACACAAACTAACCATATGC 57.316 37.500 0.00 0.00 0.00 3.14
2366 2450 6.968904 GCAATGAGACACAAACTAACCATATG 59.031 38.462 0.00 0.00 0.00 1.78
2367 2451 6.658816 TGCAATGAGACACAAACTAACCATAT 59.341 34.615 0.00 0.00 0.00 1.78
2384 2468 1.159285 ATCGTGGTGTGTGCAATGAG 58.841 50.000 0.00 0.00 0.00 2.90
2385 2469 1.266446 CAATCGTGGTGTGTGCAATGA 59.734 47.619 0.00 0.00 0.00 2.57
2391 2475 1.688793 CATTGCAATCGTGGTGTGTG 58.311 50.000 9.53 0.00 0.00 3.82
2394 2478 1.819928 TAGCATTGCAATCGTGGTGT 58.180 45.000 9.53 0.00 0.00 4.16
2398 2482 6.454583 CCAAAAAGAATAGCATTGCAATCGTG 60.455 38.462 9.53 0.91 0.00 4.35
2413 2497 7.797121 ATGATACCCTTTGTCCAAAAAGAAT 57.203 32.000 0.00 0.00 39.12 2.40
2416 2500 8.364142 TGTTAATGATACCCTTTGTCCAAAAAG 58.636 33.333 0.00 0.00 36.99 2.27
2445 2529 1.575244 TACTCATGCGCATTGCTCTC 58.425 50.000 22.81 0.00 46.63 3.20
2455 2539 7.350779 GAACGATTGTAAAATTACTCATGCG 57.649 36.000 5.05 0.00 34.77 4.73


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

AutoCloner maintained by Alex Coulton.