Multiple sequence alignment - TraesCS2D01G415000

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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 TraesCS2D01G415000 chr2D 100.000 2305 0 0 1 2305 528997896 529000200 0.000000e+00 4257.0
1 TraesCS2D01G415000 chr2D 96.364 495 7 4 832 1315 527648319 527647825 0.000000e+00 804.0
2 TraesCS2D01G415000 chr2D 81.794 747 72 30 883 1600 171444944 171444233 3.320000e-158 568.0
3 TraesCS2D01G415000 chr2D 92.369 249 18 1 587 835 257386502 257386255 1.010000e-93 353.0
4 TraesCS2D01G415000 chr2D 88.462 156 16 2 418 573 527648464 527648311 1.090000e-43 187.0
5 TraesCS2D01G415000 chr2D 88.596 114 12 1 460 573 527684518 527684406 1.110000e-28 137.0
6 TraesCS2D01G415000 chr2D 91.228 57 3 2 60 114 627158677 627158733 2.460000e-10 76.8
7 TraesCS2D01G415000 chr2A 94.290 1471 50 15 850 2303 673451994 673453447 0.000000e+00 2220.0
8 TraesCS2D01G415000 chr2A 86.643 554 46 26 831 1377 672645258 672644726 2.550000e-164 588.0
9 TraesCS2D01G415000 chr2A 86.466 532 45 15 883 1401 178170940 178171457 2.000000e-155 558.0
10 TraesCS2D01G415000 chr2A 85.597 486 34 18 104 586 673451547 673451999 5.760000e-131 477.0
11 TraesCS2D01G415000 chr2A 100.000 44 0 0 16 59 673451502 673451545 5.280000e-12 82.4
12 TraesCS2D01G415000 chr2B 82.774 1550 122 74 831 2305 628156949 628158428 0.000000e+00 1249.0
13 TraesCS2D01G415000 chr2B 87.477 551 38 15 836 1377 625009178 625008650 7.040000e-170 606.0
14 TraesCS2D01G415000 chr2B 87.430 533 41 14 883 1402 225691589 225692108 7.090000e-165 590.0
15 TraesCS2D01G415000 chr2B 88.000 450 36 12 105 546 628156505 628156944 1.220000e-142 516.0
16 TraesCS2D01G415000 chr2B 91.534 378 15 6 952 1313 585890226 585890602 2.640000e-139 505.0
17 TraesCS2D01G415000 chr2B 85.961 463 40 11 1318 1767 625261294 625260844 2.680000e-129 472.0
18 TraesCS2D01G415000 chr2B 86.029 408 47 6 1898 2301 625260715 625260314 1.640000e-116 429.0
19 TraesCS2D01G415000 chr2B 83.069 189 31 1 587 775 54777398 54777585 1.100000e-38 171.0
20 TraesCS2D01G415000 chr2B 85.034 147 18 4 428 573 625009318 625009175 1.850000e-31 147.0
21 TraesCS2D01G415000 chr2B 98.333 60 1 0 1 60 628156447 628156506 3.130000e-19 106.0
22 TraesCS2D01G415000 chr7D 89.875 800 36 15 994 1768 134467046 134466267 0.000000e+00 987.0
23 TraesCS2D01G415000 chr7D 94.378 249 14 0 587 835 115193054 115193302 1.290000e-102 383.0
24 TraesCS2D01G415000 chr7D 91.561 237 15 4 1768 2004 134466235 134466004 2.860000e-84 322.0
25 TraesCS2D01G415000 chr7D 86.694 248 33 0 587 834 524554280 524554033 2.260000e-70 276.0
26 TraesCS2D01G415000 chr7D 86.207 87 12 0 748 834 14419770 14419684 6.780000e-16 95.3
27 TraesCS2D01G415000 chr7A 92.029 552 32 5 994 1534 133627440 133626890 0.000000e+00 765.0
28 TraesCS2D01G415000 chr7A 86.111 216 13 6 1569 1768 133626892 133626678 1.390000e-52 217.0
29 TraesCS2D01G415000 chr3D 89.558 249 26 0 587 835 602818049 602817801 1.330000e-82 316.0
30 TraesCS2D01G415000 chr3D 96.078 51 1 1 58 107 362238324 362238374 5.280000e-12 82.4
31 TraesCS2D01G415000 chr6B 87.550 249 31 0 587 835 644387974 644388222 2.900000e-74 289.0
32 TraesCS2D01G415000 chr6B 94.643 56 2 1 60 114 62536785 62536730 4.080000e-13 86.1
33 TraesCS2D01G415000 chr6B 92.857 56 3 1 60 114 610024773 610024718 1.900000e-11 80.5
34 TraesCS2D01G415000 chr4B 87.302 252 32 0 587 838 63796406 63796155 2.900000e-74 289.0
35 TraesCS2D01G415000 chr1D 86.400 250 34 0 587 836 357215525 357215774 8.110000e-70 274.0
36 TraesCS2D01G415000 chr4A 85.039 254 32 5 587 836 73146680 73146931 1.060000e-63 254.0
37 TraesCS2D01G415000 chr5D 96.154 52 1 1 60 110 521630351 521630300 1.470000e-12 84.2
38 TraesCS2D01G415000 chr3A 94.340 53 3 0 54 106 12778926 12778978 5.280000e-12 82.4
39 TraesCS2D01G415000 chr1B 94.444 54 2 1 61 113 187714332 187714279 5.280000e-12 82.4
40 TraesCS2D01G415000 chr6D 94.340 53 2 1 58 109 310891333 310891281 1.900000e-11 80.5
41 TraesCS2D01G415000 chr5B 91.228 57 3 2 60 114 307068643 307068699 2.460000e-10 76.8


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 TraesCS2D01G415000 chr2D 528997896 529000200 2304 False 4257.000000 4257 100.000000 1 2305 1 chr2D.!!$F1 2304
1 TraesCS2D01G415000 chr2D 171444233 171444944 711 True 568.000000 568 81.794000 883 1600 1 chr2D.!!$R1 717
2 TraesCS2D01G415000 chr2D 527647825 527648464 639 True 495.500000 804 92.413000 418 1315 2 chr2D.!!$R4 897
3 TraesCS2D01G415000 chr2A 673451502 673453447 1945 False 926.466667 2220 93.295667 16 2303 3 chr2A.!!$F2 2287
4 TraesCS2D01G415000 chr2A 672644726 672645258 532 True 588.000000 588 86.643000 831 1377 1 chr2A.!!$R1 546
5 TraesCS2D01G415000 chr2A 178170940 178171457 517 False 558.000000 558 86.466000 883 1401 1 chr2A.!!$F1 518
6 TraesCS2D01G415000 chr2B 628156447 628158428 1981 False 623.666667 1249 89.702333 1 2305 3 chr2B.!!$F4 2304
7 TraesCS2D01G415000 chr2B 225691589 225692108 519 False 590.000000 590 87.430000 883 1402 1 chr2B.!!$F2 519
8 TraesCS2D01G415000 chr2B 625260314 625261294 980 True 450.500000 472 85.995000 1318 2301 2 chr2B.!!$R2 983
9 TraesCS2D01G415000 chr2B 625008650 625009318 668 True 376.500000 606 86.255500 428 1377 2 chr2B.!!$R1 949
10 TraesCS2D01G415000 chr7D 134466004 134467046 1042 True 654.500000 987 90.718000 994 2004 2 chr7D.!!$R3 1010
11 TraesCS2D01G415000 chr7A 133626678 133627440 762 True 491.000000 765 89.070000 994 1768 2 chr7A.!!$R1 774

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
673 685 0.106335 CAGATCAGGCGGCTCTCAAT 59.894 55.0 9.32 0.0 0.0 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1535 1613 2.086869 TGAAATTCTAGCTGCACAGGC 58.913 47.619 1.02 0.0 41.68 4.85 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
99 103 8.888579 AAAACATCTTACATTATAGGACGGAG 57.111 34.615 0.00 0.00 0.00 4.63
100 104 6.591750 ACATCTTACATTATAGGACGGAGG 57.408 41.667 0.00 0.00 0.00 4.30
101 105 5.480772 ACATCTTACATTATAGGACGGAGGG 59.519 44.000 0.00 0.00 0.00 4.30
102 106 5.329191 TCTTACATTATAGGACGGAGGGA 57.671 43.478 0.00 0.00 0.00 4.20
103 107 5.322754 TCTTACATTATAGGACGGAGGGAG 58.677 45.833 0.00 0.00 0.00 4.30
104 108 3.614568 ACATTATAGGACGGAGGGAGT 57.385 47.619 0.00 0.00 0.00 3.85
105 109 4.736611 ACATTATAGGACGGAGGGAGTA 57.263 45.455 0.00 0.00 0.00 2.59
117 121 6.183360 GGACGGAGGGAGTATTTGTTATACTT 60.183 42.308 0.00 0.00 35.20 2.24
120 124 7.342799 ACGGAGGGAGTATTTGTTATACTTGTA 59.657 37.037 0.00 0.00 35.20 2.41
143 147 8.240682 TGTAAGCGCACTTATAAATTGTTGATT 58.759 29.630 11.47 0.00 40.43 2.57
160 164 6.282167 TGTTGATTCTGCAAACACAATTGAT 58.718 32.000 13.59 0.00 31.84 2.57
367 373 3.448934 TGCCCCAACCAAACATATGAAT 58.551 40.909 10.38 0.00 0.00 2.57
445 457 1.115467 ACCATGAAACAAACGCCCAA 58.885 45.000 0.00 0.00 0.00 4.12
522 534 2.158696 CCACCCTTCTGATCTCAATCCC 60.159 54.545 0.00 0.00 0.00 3.85
558 570 2.752640 TCTCGCGGATCGACCCAA 60.753 61.111 6.13 0.00 43.16 4.12
572 584 2.268076 CCCAACAAAGCACCTCCCG 61.268 63.158 0.00 0.00 0.00 5.14
573 585 2.268076 CCAACAAAGCACCTCCCGG 61.268 63.158 0.00 0.00 0.00 5.73
575 587 3.133365 AACAAAGCACCTCCCGGCT 62.133 57.895 0.00 0.00 43.46 5.52
576 588 2.747855 CAAAGCACCTCCCGGCTC 60.748 66.667 0.00 0.00 40.01 4.70
602 614 3.756117 CCCCAGGGAAAATATCTAGTGC 58.244 50.000 7.25 0.00 37.50 4.40
603 615 3.395941 CCCCAGGGAAAATATCTAGTGCT 59.604 47.826 7.25 0.00 37.50 4.40
604 616 4.597507 CCCCAGGGAAAATATCTAGTGCTA 59.402 45.833 7.25 0.00 37.50 3.49
605 617 5.513267 CCCCAGGGAAAATATCTAGTGCTAC 60.513 48.000 7.25 0.00 37.50 3.58
606 618 5.513267 CCCAGGGAAAATATCTAGTGCTACC 60.513 48.000 0.00 0.00 0.00 3.18
607 619 5.071788 CCAGGGAAAATATCTAGTGCTACCA 59.928 44.000 0.00 0.00 0.00 3.25
608 620 6.409234 CCAGGGAAAATATCTAGTGCTACCAA 60.409 42.308 0.00 0.00 0.00 3.67
609 621 6.708054 CAGGGAAAATATCTAGTGCTACCAAG 59.292 42.308 0.00 0.00 0.00 3.61
620 632 2.629336 GCTACCAAGCCTTAGATGCT 57.371 50.000 0.00 0.00 43.40 3.79
621 633 3.753294 GCTACCAAGCCTTAGATGCTA 57.247 47.619 0.00 0.00 43.40 3.49
622 634 3.394719 GCTACCAAGCCTTAGATGCTAC 58.605 50.000 0.00 0.00 43.40 3.58
623 635 3.804063 GCTACCAAGCCTTAGATGCTACC 60.804 52.174 0.00 0.00 43.40 3.18
624 636 2.196595 ACCAAGCCTTAGATGCTACCA 58.803 47.619 0.00 0.00 38.34 3.25
625 637 2.780010 ACCAAGCCTTAGATGCTACCAT 59.220 45.455 0.00 0.00 38.34 3.55
626 638 3.144506 CCAAGCCTTAGATGCTACCATG 58.855 50.000 0.00 0.00 38.34 3.66
627 639 3.181451 CCAAGCCTTAGATGCTACCATGA 60.181 47.826 0.00 0.00 38.34 3.07
628 640 4.506271 CCAAGCCTTAGATGCTACCATGAT 60.506 45.833 0.00 0.00 38.34 2.45
629 641 5.280164 CCAAGCCTTAGATGCTACCATGATA 60.280 44.000 0.00 0.00 38.34 2.15
630 642 5.413309 AGCCTTAGATGCTACCATGATAC 57.587 43.478 0.00 0.00 37.28 2.24
631 643 4.081972 AGCCTTAGATGCTACCATGATACG 60.082 45.833 0.00 0.00 37.28 3.06
632 644 4.748892 CCTTAGATGCTACCATGATACGG 58.251 47.826 0.00 0.00 0.00 4.02
633 645 4.382040 CCTTAGATGCTACCATGATACGGG 60.382 50.000 0.00 0.00 0.00 5.28
634 646 1.276421 AGATGCTACCATGATACGGGC 59.724 52.381 0.00 0.00 0.00 6.13
635 647 1.276421 GATGCTACCATGATACGGGCT 59.724 52.381 0.00 0.00 0.00 5.19
636 648 1.128200 TGCTACCATGATACGGGCTT 58.872 50.000 0.00 0.00 0.00 4.35
637 649 1.488812 TGCTACCATGATACGGGCTTT 59.511 47.619 0.00 0.00 0.00 3.51
638 650 2.092646 TGCTACCATGATACGGGCTTTT 60.093 45.455 0.00 0.00 0.00 2.27
639 651 2.290641 GCTACCATGATACGGGCTTTTG 59.709 50.000 0.00 0.00 0.00 2.44
640 652 1.762708 ACCATGATACGGGCTTTTGG 58.237 50.000 0.00 0.00 0.00 3.28
641 653 1.283613 ACCATGATACGGGCTTTTGGA 59.716 47.619 0.00 0.00 0.00 3.53
642 654 1.676006 CCATGATACGGGCTTTTGGAC 59.324 52.381 0.00 0.00 0.00 4.02
643 655 1.676006 CATGATACGGGCTTTTGGACC 59.324 52.381 0.00 0.00 40.58 4.46
648 660 3.053896 GGGCTTTTGGACCGTCGG 61.054 66.667 10.48 10.48 30.75 4.79
649 661 2.031465 GGCTTTTGGACCGTCGGA 59.969 61.111 20.51 0.00 0.00 4.55
650 662 1.376812 GGCTTTTGGACCGTCGGAT 60.377 57.895 20.51 1.57 0.00 4.18
651 663 0.958876 GGCTTTTGGACCGTCGGATT 60.959 55.000 20.51 0.00 0.00 3.01
652 664 0.879090 GCTTTTGGACCGTCGGATTT 59.121 50.000 20.51 0.00 0.00 2.17
653 665 1.268625 GCTTTTGGACCGTCGGATTTT 59.731 47.619 20.51 0.00 0.00 1.82
654 666 2.667448 GCTTTTGGACCGTCGGATTTTC 60.667 50.000 20.51 4.48 0.00 2.29
655 667 2.257691 TTTGGACCGTCGGATTTTCA 57.742 45.000 20.51 0.00 0.00 2.69
656 668 1.803334 TTGGACCGTCGGATTTTCAG 58.197 50.000 20.51 0.00 0.00 3.02
657 669 0.970640 TGGACCGTCGGATTTTCAGA 59.029 50.000 20.51 0.00 0.00 3.27
658 670 1.553248 TGGACCGTCGGATTTTCAGAT 59.447 47.619 20.51 0.00 0.00 2.90
659 671 2.202566 GGACCGTCGGATTTTCAGATC 58.797 52.381 20.51 0.79 0.00 2.75
660 672 2.418197 GGACCGTCGGATTTTCAGATCA 60.418 50.000 20.51 0.00 0.00 2.92
661 673 2.860735 GACCGTCGGATTTTCAGATCAG 59.139 50.000 20.51 0.00 0.00 2.90
662 674 2.205074 CCGTCGGATTTTCAGATCAGG 58.795 52.381 4.91 0.00 0.00 3.86
663 675 1.594862 CGTCGGATTTTCAGATCAGGC 59.405 52.381 0.00 0.00 0.00 4.85
664 676 1.594862 GTCGGATTTTCAGATCAGGCG 59.405 52.381 0.00 0.00 0.00 5.52
665 677 0.940126 CGGATTTTCAGATCAGGCGG 59.060 55.000 0.00 0.00 0.00 6.13
666 678 0.665298 GGATTTTCAGATCAGGCGGC 59.335 55.000 0.00 0.00 0.00 6.53
667 679 1.673168 GATTTTCAGATCAGGCGGCT 58.327 50.000 5.25 5.25 0.00 5.52
668 680 1.601430 GATTTTCAGATCAGGCGGCTC 59.399 52.381 9.32 0.00 0.00 4.70
669 681 0.615331 TTTTCAGATCAGGCGGCTCT 59.385 50.000 9.32 0.00 0.00 4.09
670 682 0.176680 TTTCAGATCAGGCGGCTCTC 59.823 55.000 9.32 9.38 0.00 3.20
671 683 0.972471 TTCAGATCAGGCGGCTCTCA 60.972 55.000 9.32 0.00 0.00 3.27
672 684 0.972471 TCAGATCAGGCGGCTCTCAA 60.972 55.000 9.32 0.00 0.00 3.02
673 685 0.106335 CAGATCAGGCGGCTCTCAAT 59.894 55.000 9.32 0.00 0.00 2.57
674 686 1.342496 CAGATCAGGCGGCTCTCAATA 59.658 52.381 9.32 0.00 0.00 1.90
675 687 2.042464 AGATCAGGCGGCTCTCAATAA 58.958 47.619 9.32 0.00 0.00 1.40
676 688 2.139118 GATCAGGCGGCTCTCAATAAC 58.861 52.381 9.32 0.00 0.00 1.89
677 689 1.195115 TCAGGCGGCTCTCAATAACT 58.805 50.000 9.32 0.00 0.00 2.24
678 690 1.555075 TCAGGCGGCTCTCAATAACTT 59.445 47.619 9.32 0.00 0.00 2.66
679 691 2.027192 TCAGGCGGCTCTCAATAACTTT 60.027 45.455 9.32 0.00 0.00 2.66
680 692 2.096496 CAGGCGGCTCTCAATAACTTTG 59.904 50.000 9.32 0.00 0.00 2.77
681 693 1.202188 GGCGGCTCTCAATAACTTTGC 60.202 52.381 0.00 0.00 0.00 3.68
682 694 1.202188 GCGGCTCTCAATAACTTTGCC 60.202 52.381 0.00 0.00 35.94 4.52
683 695 2.083774 CGGCTCTCAATAACTTTGCCA 58.916 47.619 0.00 0.00 38.87 4.92
684 696 2.159517 CGGCTCTCAATAACTTTGCCAC 60.160 50.000 0.00 0.00 38.87 5.01
685 697 2.819608 GGCTCTCAATAACTTTGCCACA 59.180 45.455 0.00 0.00 38.79 4.17
686 698 3.366374 GGCTCTCAATAACTTTGCCACAC 60.366 47.826 0.00 0.00 38.79 3.82
687 699 3.503748 GCTCTCAATAACTTTGCCACACT 59.496 43.478 0.00 0.00 0.00 3.55
688 700 4.022849 GCTCTCAATAACTTTGCCACACTT 60.023 41.667 0.00 0.00 0.00 3.16
689 701 5.437289 TCTCAATAACTTTGCCACACTTG 57.563 39.130 0.00 0.00 0.00 3.16
690 702 3.976169 TCAATAACTTTGCCACACTTGC 58.024 40.909 0.00 0.00 0.00 4.01
691 703 3.382865 TCAATAACTTTGCCACACTTGCA 59.617 39.130 0.00 0.00 36.84 4.08
692 704 4.118410 CAATAACTTTGCCACACTTGCAA 58.882 39.130 0.00 0.00 46.30 4.08
712 724 2.341846 AAAAGCCTCCGTGAAGTTCA 57.658 45.000 0.08 0.08 0.00 3.18
713 725 2.341846 AAAGCCTCCGTGAAGTTCAA 57.658 45.000 7.25 0.00 0.00 2.69
714 726 2.341846 AAGCCTCCGTGAAGTTCAAA 57.658 45.000 7.25 0.00 0.00 2.69
715 727 2.341846 AGCCTCCGTGAAGTTCAAAA 57.658 45.000 7.25 0.00 0.00 2.44
716 728 2.650322 AGCCTCCGTGAAGTTCAAAAA 58.350 42.857 7.25 0.00 0.00 1.94
717 729 3.222603 AGCCTCCGTGAAGTTCAAAAAT 58.777 40.909 7.25 0.00 0.00 1.82
718 730 3.636764 AGCCTCCGTGAAGTTCAAAAATT 59.363 39.130 7.25 0.00 0.00 1.82
719 731 4.825085 AGCCTCCGTGAAGTTCAAAAATTA 59.175 37.500 7.25 0.00 0.00 1.40
720 732 5.476945 AGCCTCCGTGAAGTTCAAAAATTAT 59.523 36.000 7.25 0.00 0.00 1.28
721 733 5.572896 GCCTCCGTGAAGTTCAAAAATTATG 59.427 40.000 7.25 0.00 0.00 1.90
722 734 5.572896 CCTCCGTGAAGTTCAAAAATTATGC 59.427 40.000 7.25 0.00 0.00 3.14
723 735 6.078202 TCCGTGAAGTTCAAAAATTATGCA 57.922 33.333 7.25 0.00 0.00 3.96
724 736 6.686630 TCCGTGAAGTTCAAAAATTATGCAT 58.313 32.000 7.25 3.79 0.00 3.96
725 737 7.821652 TCCGTGAAGTTCAAAAATTATGCATA 58.178 30.769 7.25 1.16 0.00 3.14
726 738 8.300286 TCCGTGAAGTTCAAAAATTATGCATAA 58.700 29.630 20.95 20.95 0.00 1.90
727 739 8.586273 CCGTGAAGTTCAAAAATTATGCATAAG 58.414 33.333 22.76 10.21 0.00 1.73
728 740 9.128107 CGTGAAGTTCAAAAATTATGCATAAGT 57.872 29.630 22.76 18.37 0.00 2.24
730 742 9.638239 TGAAGTTCAAAAATTATGCATAAGTCC 57.362 29.630 22.76 6.84 0.00 3.85
731 743 9.638239 GAAGTTCAAAAATTATGCATAAGTCCA 57.362 29.630 22.76 1.37 0.00 4.02
732 744 9.643693 AAGTTCAAAAATTATGCATAAGTCCAG 57.356 29.630 22.76 13.57 0.00 3.86
733 745 7.761249 AGTTCAAAAATTATGCATAAGTCCAGC 59.239 33.333 22.76 10.39 0.00 4.85
734 746 7.167924 TCAAAAATTATGCATAAGTCCAGCA 57.832 32.000 22.76 0.00 43.14 4.41
735 747 7.259882 TCAAAAATTATGCATAAGTCCAGCAG 58.740 34.615 22.76 9.43 42.14 4.24
736 748 7.122501 TCAAAAATTATGCATAAGTCCAGCAGA 59.877 33.333 22.76 11.22 42.14 4.26
737 749 7.592885 AAAATTATGCATAAGTCCAGCAGAT 57.407 32.000 22.76 1.89 42.14 2.90
738 750 6.814506 AATTATGCATAAGTCCAGCAGATC 57.185 37.500 22.76 0.00 42.14 2.75
739 751 2.627515 TGCATAAGTCCAGCAGATCC 57.372 50.000 0.00 0.00 33.75 3.36
740 752 1.839354 TGCATAAGTCCAGCAGATCCA 59.161 47.619 0.00 0.00 33.75 3.41
741 753 2.239402 TGCATAAGTCCAGCAGATCCAA 59.761 45.455 0.00 0.00 33.75 3.53
742 754 2.615912 GCATAAGTCCAGCAGATCCAAC 59.384 50.000 0.00 0.00 0.00 3.77
743 755 3.877559 CATAAGTCCAGCAGATCCAACA 58.122 45.455 0.00 0.00 0.00 3.33
744 756 4.458397 CATAAGTCCAGCAGATCCAACAT 58.542 43.478 0.00 0.00 0.00 2.71
745 757 2.706339 AGTCCAGCAGATCCAACATC 57.294 50.000 0.00 0.00 0.00 3.06
746 758 2.194859 AGTCCAGCAGATCCAACATCT 58.805 47.619 0.00 0.00 0.00 2.90
747 759 2.170187 AGTCCAGCAGATCCAACATCTC 59.830 50.000 0.00 0.00 0.00 2.75
748 760 1.487976 TCCAGCAGATCCAACATCTCC 59.512 52.381 0.00 0.00 0.00 3.71
749 761 1.476471 CCAGCAGATCCAACATCTCCC 60.476 57.143 0.00 0.00 0.00 4.30
750 762 0.467384 AGCAGATCCAACATCTCCCG 59.533 55.000 0.00 0.00 0.00 5.14
751 763 0.533755 GCAGATCCAACATCTCCCGG 60.534 60.000 0.00 0.00 0.00 5.73
752 764 1.123077 CAGATCCAACATCTCCCGGA 58.877 55.000 0.73 0.00 0.00 5.14
753 765 1.696336 CAGATCCAACATCTCCCGGAT 59.304 52.381 0.73 0.00 41.00 4.18
759 771 2.029666 CATCTCCCGGATGCCGTC 59.970 66.667 0.73 0.00 46.80 4.79
760 772 3.234730 ATCTCCCGGATGCCGTCC 61.235 66.667 0.73 0.00 46.80 4.79
768 780 3.498676 GGATGCCGTCCGATCTAAG 57.501 57.895 0.00 0.00 37.23 2.18
769 781 0.959553 GGATGCCGTCCGATCTAAGA 59.040 55.000 0.00 0.00 37.23 2.10
770 782 1.340248 GGATGCCGTCCGATCTAAGAA 59.660 52.381 0.00 0.00 37.23 2.52
771 783 2.028930 GGATGCCGTCCGATCTAAGAAT 60.029 50.000 0.00 0.00 37.23 2.40
772 784 2.795175 TGCCGTCCGATCTAAGAATC 57.205 50.000 0.00 0.00 0.00 2.52
773 785 1.340248 TGCCGTCCGATCTAAGAATCC 59.660 52.381 0.00 0.00 0.00 3.01
774 786 1.666311 GCCGTCCGATCTAAGAATCCG 60.666 57.143 0.00 0.00 0.00 4.18
775 787 1.878088 CCGTCCGATCTAAGAATCCGA 59.122 52.381 0.00 0.00 0.00 4.55
776 788 2.350580 CCGTCCGATCTAAGAATCCGAC 60.351 54.545 0.00 0.00 33.35 4.79
777 789 2.289820 CGTCCGATCTAAGAATCCGACA 59.710 50.000 0.00 0.00 35.15 4.35
778 790 3.607310 CGTCCGATCTAAGAATCCGACAG 60.607 52.174 0.00 0.00 35.15 3.51
779 791 2.293677 TCCGATCTAAGAATCCGACAGC 59.706 50.000 0.00 0.00 0.00 4.40
780 792 2.608261 CCGATCTAAGAATCCGACAGCC 60.608 54.545 0.00 0.00 0.00 4.85
781 793 2.608261 CGATCTAAGAATCCGACAGCCC 60.608 54.545 0.00 0.00 0.00 5.19
782 794 1.860641 TCTAAGAATCCGACAGCCCA 58.139 50.000 0.00 0.00 0.00 5.36
783 795 1.757118 TCTAAGAATCCGACAGCCCAG 59.243 52.381 0.00 0.00 0.00 4.45
784 796 1.757118 CTAAGAATCCGACAGCCCAGA 59.243 52.381 0.00 0.00 0.00 3.86
785 797 1.207791 AAGAATCCGACAGCCCAGAT 58.792 50.000 0.00 0.00 0.00 2.90
786 798 0.467384 AGAATCCGACAGCCCAGATG 59.533 55.000 0.00 0.00 0.00 2.90
787 799 0.179000 GAATCCGACAGCCCAGATGT 59.821 55.000 0.00 0.00 33.79 3.06
788 800 0.179000 AATCCGACAGCCCAGATGTC 59.821 55.000 2.96 2.96 44.25 3.06
789 801 1.690219 ATCCGACAGCCCAGATGTCC 61.690 60.000 7.35 0.00 44.78 4.02
790 802 2.202797 CGACAGCCCAGATGTCCG 60.203 66.667 7.35 0.02 44.78 4.79
791 803 2.982130 GACAGCCCAGATGTCCGT 59.018 61.111 1.59 0.00 42.26 4.69
792 804 1.663379 CGACAGCCCAGATGTCCGTA 61.663 60.000 7.35 0.00 44.78 4.02
793 805 0.753262 GACAGCCCAGATGTCCGTAT 59.247 55.000 1.59 0.00 42.26 3.06
794 806 0.753262 ACAGCCCAGATGTCCGTATC 59.247 55.000 0.00 0.00 0.00 2.24
795 807 0.752658 CAGCCCAGATGTCCGTATCA 59.247 55.000 0.00 0.00 0.00 2.15
796 808 0.753262 AGCCCAGATGTCCGTATCAC 59.247 55.000 0.00 0.00 0.00 3.06
797 809 0.597637 GCCCAGATGTCCGTATCACG 60.598 60.000 0.00 0.00 42.11 4.35
814 826 7.217880 CGTATCACGGTAACATTTAATCATCG 58.782 38.462 0.00 0.00 38.08 3.84
815 827 5.977171 TCACGGTAACATTTAATCATCGG 57.023 39.130 0.00 0.00 0.00 4.18
816 828 4.812091 TCACGGTAACATTTAATCATCGGG 59.188 41.667 0.00 0.00 0.00 5.14
817 829 4.812091 CACGGTAACATTTAATCATCGGGA 59.188 41.667 0.00 0.00 0.00 5.14
818 830 5.050363 CACGGTAACATTTAATCATCGGGAG 60.050 44.000 0.00 0.00 0.00 4.30
819 831 4.084013 CGGTAACATTTAATCATCGGGAGC 60.084 45.833 0.00 0.00 0.00 4.70
820 832 4.819630 GGTAACATTTAATCATCGGGAGCA 59.180 41.667 0.00 0.00 0.00 4.26
821 833 4.900635 AACATTTAATCATCGGGAGCAC 57.099 40.909 0.00 0.00 0.00 4.40
822 834 4.156455 ACATTTAATCATCGGGAGCACT 57.844 40.909 0.00 0.00 0.00 4.40
823 835 3.879295 ACATTTAATCATCGGGAGCACTG 59.121 43.478 0.00 0.00 0.00 3.66
824 836 2.620251 TTAATCATCGGGAGCACTGG 57.380 50.000 0.00 0.00 0.00 4.00
825 837 1.788229 TAATCATCGGGAGCACTGGA 58.212 50.000 0.00 0.00 0.00 3.86
826 838 1.135094 AATCATCGGGAGCACTGGAT 58.865 50.000 0.00 0.00 0.00 3.41
827 839 2.015456 ATCATCGGGAGCACTGGATA 57.985 50.000 0.00 0.00 0.00 2.59
828 840 1.040646 TCATCGGGAGCACTGGATAC 58.959 55.000 0.00 0.00 0.00 2.24
829 841 1.043816 CATCGGGAGCACTGGATACT 58.956 55.000 0.00 0.00 37.61 2.12
830 842 1.000283 CATCGGGAGCACTGGATACTC 60.000 57.143 0.00 0.00 37.61 2.59
831 843 0.259065 TCGGGAGCACTGGATACTCT 59.741 55.000 0.00 0.00 37.61 3.24
832 844 0.671251 CGGGAGCACTGGATACTCTC 59.329 60.000 0.00 0.00 37.61 3.20
833 845 1.044611 GGGAGCACTGGATACTCTCC 58.955 60.000 0.00 0.00 45.19 3.71
834 846 1.044611 GGAGCACTGGATACTCTCCC 58.955 60.000 0.00 0.00 44.23 4.30
1330 1372 4.193893 TGTGCTGTGCTGGTGGCT 62.194 61.111 0.00 0.00 42.39 4.75
1412 1459 7.063074 GCGTTTGTGTTCAGTAGTCTGTAATAT 59.937 37.037 0.00 0.00 41.91 1.28
1736 1828 3.134804 CGGGGTTCAGGATCTAAAGATGT 59.865 47.826 0.00 0.00 34.37 3.06
1982 2131 6.648725 AATTGTAAGTCGCTGTCACTAATC 57.351 37.500 0.00 0.00 0.00 1.75
2271 2428 1.234821 TTCGGCCAACAATCTGACAC 58.765 50.000 2.24 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
73 77 9.326413 CTCCGTCCTATAATGTAAGATGTTTTT 57.674 33.333 0.00 0.00 0.00 1.94
74 78 7.931948 CCTCCGTCCTATAATGTAAGATGTTTT 59.068 37.037 0.00 0.00 0.00 2.43
75 79 7.442656 CCTCCGTCCTATAATGTAAGATGTTT 58.557 38.462 0.00 0.00 0.00 2.83
76 80 6.014499 CCCTCCGTCCTATAATGTAAGATGTT 60.014 42.308 0.00 0.00 0.00 2.71
77 81 5.480772 CCCTCCGTCCTATAATGTAAGATGT 59.519 44.000 0.00 0.00 0.00 3.06
78 82 5.715279 TCCCTCCGTCCTATAATGTAAGATG 59.285 44.000 0.00 0.00 0.00 2.90
79 83 5.900437 TCCCTCCGTCCTATAATGTAAGAT 58.100 41.667 0.00 0.00 0.00 2.40
80 84 5.163012 ACTCCCTCCGTCCTATAATGTAAGA 60.163 44.000 0.00 0.00 0.00 2.10
81 85 5.078256 ACTCCCTCCGTCCTATAATGTAAG 58.922 45.833 0.00 0.00 0.00 2.34
82 86 5.070823 ACTCCCTCCGTCCTATAATGTAA 57.929 43.478 0.00 0.00 0.00 2.41
83 87 4.736611 ACTCCCTCCGTCCTATAATGTA 57.263 45.455 0.00 0.00 0.00 2.29
84 88 3.614568 ACTCCCTCCGTCCTATAATGT 57.385 47.619 0.00 0.00 0.00 2.71
85 89 6.014499 ACAAATACTCCCTCCGTCCTATAATG 60.014 42.308 0.00 0.00 0.00 1.90
86 90 6.082707 ACAAATACTCCCTCCGTCCTATAAT 58.917 40.000 0.00 0.00 0.00 1.28
87 91 5.461327 ACAAATACTCCCTCCGTCCTATAA 58.539 41.667 0.00 0.00 0.00 0.98
88 92 5.070823 ACAAATACTCCCTCCGTCCTATA 57.929 43.478 0.00 0.00 0.00 1.31
89 93 3.924922 ACAAATACTCCCTCCGTCCTAT 58.075 45.455 0.00 0.00 0.00 2.57
90 94 3.393426 ACAAATACTCCCTCCGTCCTA 57.607 47.619 0.00 0.00 0.00 2.94
91 95 2.249309 ACAAATACTCCCTCCGTCCT 57.751 50.000 0.00 0.00 0.00 3.85
92 96 4.684484 ATAACAAATACTCCCTCCGTCC 57.316 45.455 0.00 0.00 0.00 4.79
93 97 6.402456 AGTATAACAAATACTCCCTCCGTC 57.598 41.667 0.00 0.00 29.47 4.79
94 98 6.155737 ACAAGTATAACAAATACTCCCTCCGT 59.844 38.462 0.00 0.00 34.04 4.69
95 99 6.579865 ACAAGTATAACAAATACTCCCTCCG 58.420 40.000 0.00 0.00 34.04 4.63
96 100 9.543783 CTTACAAGTATAACAAATACTCCCTCC 57.456 37.037 0.00 0.00 34.04 4.30
97 101 9.043079 GCTTACAAGTATAACAAATACTCCCTC 57.957 37.037 0.00 0.00 34.04 4.30
98 102 7.709613 CGCTTACAAGTATAACAAATACTCCCT 59.290 37.037 0.00 0.00 34.04 4.20
99 103 7.517893 GCGCTTACAAGTATAACAAATACTCCC 60.518 40.741 0.00 0.00 34.04 4.30
100 104 7.010738 TGCGCTTACAAGTATAACAAATACTCC 59.989 37.037 9.73 0.00 34.04 3.85
101 105 7.844653 GTGCGCTTACAAGTATAACAAATACTC 59.155 37.037 9.73 0.00 34.04 2.59
102 106 7.548075 AGTGCGCTTACAAGTATAACAAATACT 59.452 33.333 9.73 0.00 36.48 2.12
103 107 7.681903 AGTGCGCTTACAAGTATAACAAATAC 58.318 34.615 9.73 0.00 0.00 1.89
104 108 7.837202 AGTGCGCTTACAAGTATAACAAATA 57.163 32.000 9.73 0.00 0.00 1.40
105 109 6.737254 AGTGCGCTTACAAGTATAACAAAT 57.263 33.333 9.73 0.00 0.00 2.32
117 121 7.135089 TCAACAATTTATAAGTGCGCTTACA 57.865 32.000 21.44 8.00 39.70 2.41
120 124 7.485913 CAGAATCAACAATTTATAAGTGCGCTT 59.514 33.333 17.97 17.97 38.66 4.68
143 147 6.572167 TGACATATCAATTGTGTTTGCAGA 57.428 33.333 5.13 0.00 0.00 4.26
259 263 5.444663 TGATCCATCTCTCGTCTTATGTG 57.555 43.478 0.00 0.00 0.00 3.21
367 373 7.936847 AGTCTGTTTCACTCATATTTGGTTACA 59.063 33.333 0.00 0.00 0.00 2.41
379 385 9.607988 TTCTATTTTTACAGTCTGTTTCACTCA 57.392 29.630 11.54 0.00 0.00 3.41
403 410 8.241367 TGGTTTCTGTTTTAGTCAGAGTTTTTC 58.759 33.333 0.00 0.00 41.87 2.29
415 426 7.608755 CGTTTGTTTCATGGTTTCTGTTTTAG 58.391 34.615 0.00 0.00 0.00 1.85
445 457 2.648454 GCGCCGTTTGTGGGATTT 59.352 55.556 0.00 0.00 0.00 2.17
522 534 2.444624 CGGTGGAGATGCGACGTTG 61.445 63.158 0.00 0.00 0.00 4.10
576 588 2.018884 ATATTTTCCCTGGGGGCGGG 62.019 60.000 14.00 0.00 43.94 6.13
578 590 0.478507 AGATATTTTCCCTGGGGGCG 59.521 55.000 14.00 0.00 43.94 6.13
579 591 2.716969 ACTAGATATTTTCCCTGGGGGC 59.283 50.000 14.00 0.00 43.94 5.80
580 592 3.498661 GCACTAGATATTTTCCCTGGGGG 60.499 52.174 14.00 0.00 46.11 5.40
581 593 3.395941 AGCACTAGATATTTTCCCTGGGG 59.604 47.826 14.00 2.42 0.00 4.96
582 594 4.713792 AGCACTAGATATTTTCCCTGGG 57.286 45.455 6.33 6.33 0.00 4.45
583 595 5.071788 TGGTAGCACTAGATATTTTCCCTGG 59.928 44.000 0.00 0.00 0.00 4.45
584 596 6.174720 TGGTAGCACTAGATATTTTCCCTG 57.825 41.667 0.00 0.00 0.00 4.45
585 597 6.689177 GCTTGGTAGCACTAGATATTTTCCCT 60.689 42.308 0.00 0.00 46.95 4.20
586 598 5.470437 GCTTGGTAGCACTAGATATTTTCCC 59.530 44.000 0.00 0.00 46.95 3.97
587 599 6.546972 GCTTGGTAGCACTAGATATTTTCC 57.453 41.667 0.00 0.00 46.95 3.13
602 614 3.388024 TGGTAGCATCTAAGGCTTGGTAG 59.612 47.826 10.69 5.41 42.62 3.18
603 615 3.380393 TGGTAGCATCTAAGGCTTGGTA 58.620 45.455 10.69 0.41 42.62 3.25
604 616 2.196595 TGGTAGCATCTAAGGCTTGGT 58.803 47.619 10.69 1.51 42.62 3.67
605 617 3.144506 CATGGTAGCATCTAAGGCTTGG 58.855 50.000 10.69 7.23 42.62 3.61
606 618 4.077300 TCATGGTAGCATCTAAGGCTTG 57.923 45.455 10.69 0.00 42.62 4.01
607 619 4.989875 ATCATGGTAGCATCTAAGGCTT 57.010 40.909 3.96 4.58 42.62 4.35
608 620 4.081972 CGTATCATGGTAGCATCTAAGGCT 60.082 45.833 3.96 0.00 45.18 4.58
609 621 4.177026 CGTATCATGGTAGCATCTAAGGC 58.823 47.826 3.96 0.00 0.00 4.35
610 622 4.382040 CCCGTATCATGGTAGCATCTAAGG 60.382 50.000 3.96 10.78 0.00 2.69
611 623 4.748892 CCCGTATCATGGTAGCATCTAAG 58.251 47.826 3.96 2.75 0.00 2.18
612 624 3.056107 GCCCGTATCATGGTAGCATCTAA 60.056 47.826 3.96 0.00 0.00 2.10
613 625 2.496070 GCCCGTATCATGGTAGCATCTA 59.504 50.000 3.96 0.00 0.00 1.98
614 626 1.276421 GCCCGTATCATGGTAGCATCT 59.724 52.381 3.96 0.00 0.00 2.90
615 627 1.276421 AGCCCGTATCATGGTAGCATC 59.724 52.381 3.96 0.00 0.00 3.91
616 628 1.352083 AGCCCGTATCATGGTAGCAT 58.648 50.000 0.40 0.40 0.00 3.79
617 629 1.128200 AAGCCCGTATCATGGTAGCA 58.872 50.000 0.00 0.00 0.00 3.49
618 630 2.256117 AAAGCCCGTATCATGGTAGC 57.744 50.000 0.00 0.00 0.00 3.58
619 631 2.878406 CCAAAAGCCCGTATCATGGTAG 59.122 50.000 0.00 0.00 0.00 3.18
620 632 2.506231 TCCAAAAGCCCGTATCATGGTA 59.494 45.455 0.00 0.00 0.00 3.25
621 633 1.283613 TCCAAAAGCCCGTATCATGGT 59.716 47.619 0.00 0.00 0.00 3.55
622 634 1.676006 GTCCAAAAGCCCGTATCATGG 59.324 52.381 0.00 0.00 0.00 3.66
623 635 1.676006 GGTCCAAAAGCCCGTATCATG 59.324 52.381 0.00 0.00 0.00 3.07
624 636 1.745827 CGGTCCAAAAGCCCGTATCAT 60.746 52.381 0.00 0.00 37.00 2.45
625 637 0.391927 CGGTCCAAAAGCCCGTATCA 60.392 55.000 0.00 0.00 37.00 2.15
626 638 2.390427 CGGTCCAAAAGCCCGTATC 58.610 57.895 0.00 0.00 37.00 2.24
627 639 4.629779 CGGTCCAAAAGCCCGTAT 57.370 55.556 0.00 0.00 37.00 3.06
630 642 3.419759 CGACGGTCCAAAAGCCCG 61.420 66.667 1.91 0.00 46.93 6.13
631 643 2.814913 ATCCGACGGTCCAAAAGCCC 62.815 60.000 14.79 0.00 0.00 5.19
632 644 0.958876 AATCCGACGGTCCAAAAGCC 60.959 55.000 14.79 0.00 0.00 4.35
633 645 0.879090 AAATCCGACGGTCCAAAAGC 59.121 50.000 14.79 0.00 0.00 3.51
634 646 2.550606 TGAAAATCCGACGGTCCAAAAG 59.449 45.455 14.79 0.00 0.00 2.27
635 647 2.550606 CTGAAAATCCGACGGTCCAAAA 59.449 45.455 14.79 0.00 0.00 2.44
636 648 2.147958 CTGAAAATCCGACGGTCCAAA 58.852 47.619 14.79 0.00 0.00 3.28
637 649 1.345089 TCTGAAAATCCGACGGTCCAA 59.655 47.619 14.79 0.00 0.00 3.53
638 650 0.970640 TCTGAAAATCCGACGGTCCA 59.029 50.000 14.79 5.20 0.00 4.02
639 651 2.202566 GATCTGAAAATCCGACGGTCC 58.797 52.381 14.79 0.64 0.00 4.46
640 652 2.860735 CTGATCTGAAAATCCGACGGTC 59.139 50.000 14.79 4.41 0.00 4.79
641 653 2.418746 CCTGATCTGAAAATCCGACGGT 60.419 50.000 14.79 0.00 0.00 4.83
642 654 2.205074 CCTGATCTGAAAATCCGACGG 58.795 52.381 7.84 7.84 0.00 4.79
643 655 1.594862 GCCTGATCTGAAAATCCGACG 59.405 52.381 0.38 0.00 0.00 5.12
644 656 1.594862 CGCCTGATCTGAAAATCCGAC 59.405 52.381 0.38 0.00 0.00 4.79
645 657 1.473257 CCGCCTGATCTGAAAATCCGA 60.473 52.381 0.38 0.00 0.00 4.55
646 658 0.940126 CCGCCTGATCTGAAAATCCG 59.060 55.000 0.38 0.00 0.00 4.18
647 659 0.665298 GCCGCCTGATCTGAAAATCC 59.335 55.000 0.38 0.00 0.00 3.01
648 660 1.601430 GAGCCGCCTGATCTGAAAATC 59.399 52.381 0.38 0.00 0.00 2.17
649 661 1.211457 AGAGCCGCCTGATCTGAAAAT 59.789 47.619 0.38 0.00 0.00 1.82
650 662 0.615331 AGAGCCGCCTGATCTGAAAA 59.385 50.000 0.38 0.00 0.00 2.29
651 663 0.176680 GAGAGCCGCCTGATCTGAAA 59.823 55.000 0.38 0.00 0.00 2.69
652 664 0.972471 TGAGAGCCGCCTGATCTGAA 60.972 55.000 0.38 0.00 0.00 3.02
653 665 0.972471 TTGAGAGCCGCCTGATCTGA 60.972 55.000 0.38 0.00 0.00 3.27
654 666 0.106335 ATTGAGAGCCGCCTGATCTG 59.894 55.000 0.00 0.00 0.00 2.90
655 667 1.709578 TATTGAGAGCCGCCTGATCT 58.290 50.000 0.00 0.00 0.00 2.75
656 668 2.139118 GTTATTGAGAGCCGCCTGATC 58.861 52.381 0.00 0.00 0.00 2.92
657 669 1.765314 AGTTATTGAGAGCCGCCTGAT 59.235 47.619 0.00 0.00 0.00 2.90
658 670 1.195115 AGTTATTGAGAGCCGCCTGA 58.805 50.000 0.00 0.00 0.00 3.86
659 671 2.029838 AAGTTATTGAGAGCCGCCTG 57.970 50.000 0.00 0.00 0.00 4.85
660 672 2.359900 CAAAGTTATTGAGAGCCGCCT 58.640 47.619 0.00 0.00 0.00 5.52
661 673 1.202188 GCAAAGTTATTGAGAGCCGCC 60.202 52.381 0.00 0.00 0.00 6.13
662 674 1.202188 GGCAAAGTTATTGAGAGCCGC 60.202 52.381 0.00 0.00 0.00 6.53
663 675 2.083774 TGGCAAAGTTATTGAGAGCCG 58.916 47.619 0.00 0.00 43.35 5.52
664 676 2.819608 TGTGGCAAAGTTATTGAGAGCC 59.180 45.455 0.00 0.00 40.93 4.70
665 677 3.503748 AGTGTGGCAAAGTTATTGAGAGC 59.496 43.478 0.00 0.00 0.00 4.09
666 678 5.455392 CAAGTGTGGCAAAGTTATTGAGAG 58.545 41.667 0.00 0.00 0.00 3.20
667 679 4.261572 GCAAGTGTGGCAAAGTTATTGAGA 60.262 41.667 0.00 0.00 0.00 3.27
668 680 3.983344 GCAAGTGTGGCAAAGTTATTGAG 59.017 43.478 0.00 0.00 0.00 3.02
669 681 3.382865 TGCAAGTGTGGCAAAGTTATTGA 59.617 39.130 0.00 0.00 38.54 2.57
670 682 3.715495 TGCAAGTGTGGCAAAGTTATTG 58.285 40.909 0.00 0.00 38.54 1.90
692 704 2.650322 TGAACTTCACGGAGGCTTTTT 58.350 42.857 0.00 0.00 0.00 1.94
693 705 2.341846 TGAACTTCACGGAGGCTTTT 57.658 45.000 0.00 0.00 0.00 2.27
694 706 2.341846 TTGAACTTCACGGAGGCTTT 57.658 45.000 0.00 0.00 0.00 3.51
695 707 2.341846 TTTGAACTTCACGGAGGCTT 57.658 45.000 0.00 0.00 0.00 4.35
696 708 2.341846 TTTTGAACTTCACGGAGGCT 57.658 45.000 0.00 0.00 0.00 4.58
697 709 3.643159 ATTTTTGAACTTCACGGAGGC 57.357 42.857 0.00 0.00 0.00 4.70
698 710 5.572896 GCATAATTTTTGAACTTCACGGAGG 59.427 40.000 0.00 0.00 0.00 4.30
699 711 6.148948 TGCATAATTTTTGAACTTCACGGAG 58.851 36.000 0.00 0.00 0.00 4.63
700 712 6.078202 TGCATAATTTTTGAACTTCACGGA 57.922 33.333 0.00 0.00 0.00 4.69
701 713 6.949578 ATGCATAATTTTTGAACTTCACGG 57.050 33.333 0.00 0.00 0.00 4.94
702 714 9.128107 ACTTATGCATAATTTTTGAACTTCACG 57.872 29.630 19.17 4.89 0.00 4.35
704 716 9.638239 GGACTTATGCATAATTTTTGAACTTCA 57.362 29.630 19.17 0.00 0.00 3.02
705 717 9.638239 TGGACTTATGCATAATTTTTGAACTTC 57.362 29.630 19.17 2.02 0.00 3.01
706 718 9.643693 CTGGACTTATGCATAATTTTTGAACTT 57.356 29.630 19.17 0.00 0.00 2.66
707 719 7.761249 GCTGGACTTATGCATAATTTTTGAACT 59.239 33.333 19.17 0.00 0.00 3.01
708 720 7.545265 TGCTGGACTTATGCATAATTTTTGAAC 59.455 33.333 19.17 6.58 0.00 3.18
709 721 7.609960 TGCTGGACTTATGCATAATTTTTGAA 58.390 30.769 19.17 3.08 0.00 2.69
710 722 7.122501 TCTGCTGGACTTATGCATAATTTTTGA 59.877 33.333 19.17 8.08 36.07 2.69
711 723 7.259882 TCTGCTGGACTTATGCATAATTTTTG 58.740 34.615 19.17 9.93 36.07 2.44
712 724 7.408756 TCTGCTGGACTTATGCATAATTTTT 57.591 32.000 19.17 4.87 36.07 1.94
713 725 7.255730 GGATCTGCTGGACTTATGCATAATTTT 60.256 37.037 19.17 7.27 36.07 1.82
714 726 6.208204 GGATCTGCTGGACTTATGCATAATTT 59.792 38.462 19.17 9.71 36.07 1.82
715 727 5.709164 GGATCTGCTGGACTTATGCATAATT 59.291 40.000 19.17 13.99 36.07 1.40
716 728 5.221986 TGGATCTGCTGGACTTATGCATAAT 60.222 40.000 19.17 9.84 36.07 1.28
717 729 4.102996 TGGATCTGCTGGACTTATGCATAA 59.897 41.667 17.94 17.94 36.07 1.90
718 730 3.647590 TGGATCTGCTGGACTTATGCATA 59.352 43.478 1.16 1.16 36.07 3.14
719 731 2.440627 TGGATCTGCTGGACTTATGCAT 59.559 45.455 3.79 3.79 36.07 3.96
720 732 1.839354 TGGATCTGCTGGACTTATGCA 59.161 47.619 0.00 0.00 35.30 3.96
721 733 2.615912 GTTGGATCTGCTGGACTTATGC 59.384 50.000 0.00 0.00 0.00 3.14
722 734 3.877559 TGTTGGATCTGCTGGACTTATG 58.122 45.455 0.00 0.00 0.00 1.90
723 735 4.411540 AGATGTTGGATCTGCTGGACTTAT 59.588 41.667 0.00 0.00 0.00 1.73
724 736 3.776969 AGATGTTGGATCTGCTGGACTTA 59.223 43.478 0.00 0.00 0.00 2.24
725 737 2.575279 AGATGTTGGATCTGCTGGACTT 59.425 45.455 0.00 0.00 0.00 3.01
726 738 2.170187 GAGATGTTGGATCTGCTGGACT 59.830 50.000 0.00 0.00 0.00 3.85
727 739 2.559440 GAGATGTTGGATCTGCTGGAC 58.441 52.381 0.00 0.00 0.00 4.02
728 740 1.487976 GGAGATGTTGGATCTGCTGGA 59.512 52.381 0.00 0.00 34.27 3.86
729 741 1.476471 GGGAGATGTTGGATCTGCTGG 60.476 57.143 0.00 0.00 36.82 4.85
730 742 1.809271 CGGGAGATGTTGGATCTGCTG 60.809 57.143 0.00 0.00 36.82 4.41
731 743 0.467384 CGGGAGATGTTGGATCTGCT 59.533 55.000 0.00 0.00 36.82 4.24
732 744 0.533755 CCGGGAGATGTTGGATCTGC 60.534 60.000 0.00 0.00 36.02 4.26
733 745 1.123077 TCCGGGAGATGTTGGATCTG 58.877 55.000 0.00 0.00 0.00 2.90
734 746 1.696336 CATCCGGGAGATGTTGGATCT 59.304 52.381 0.00 0.00 46.32 2.75
735 747 2.175878 CATCCGGGAGATGTTGGATC 57.824 55.000 0.00 0.00 46.32 3.36
750 762 0.959553 TCTTAGATCGGACGGCATCC 59.040 55.000 0.00 0.00 45.20 3.51
751 763 2.795175 TTCTTAGATCGGACGGCATC 57.205 50.000 0.00 0.00 0.00 3.91
752 764 2.028930 GGATTCTTAGATCGGACGGCAT 60.029 50.000 0.00 0.00 0.00 4.40
753 765 1.340248 GGATTCTTAGATCGGACGGCA 59.660 52.381 0.00 0.00 0.00 5.69
754 766 1.666311 CGGATTCTTAGATCGGACGGC 60.666 57.143 0.00 0.00 0.00 5.68
755 767 1.878088 TCGGATTCTTAGATCGGACGG 59.122 52.381 0.00 0.00 32.51 4.79
756 768 2.918616 GTCGGATTCTTAGATCGGACG 58.081 52.381 8.97 0.00 42.53 4.79
758 770 2.293677 GCTGTCGGATTCTTAGATCGGA 59.706 50.000 0.00 0.00 34.31 4.55
759 771 2.608261 GGCTGTCGGATTCTTAGATCGG 60.608 54.545 0.00 0.00 0.00 4.18
760 772 2.608261 GGGCTGTCGGATTCTTAGATCG 60.608 54.545 0.00 0.00 0.00 3.69
761 773 2.365617 TGGGCTGTCGGATTCTTAGATC 59.634 50.000 0.00 0.00 0.00 2.75
762 774 2.366916 CTGGGCTGTCGGATTCTTAGAT 59.633 50.000 0.00 0.00 0.00 1.98
763 775 1.757118 CTGGGCTGTCGGATTCTTAGA 59.243 52.381 0.00 0.00 0.00 2.10
764 776 1.757118 TCTGGGCTGTCGGATTCTTAG 59.243 52.381 0.00 0.00 0.00 2.18
765 777 1.860641 TCTGGGCTGTCGGATTCTTA 58.139 50.000 0.00 0.00 0.00 2.10
766 778 1.134280 CATCTGGGCTGTCGGATTCTT 60.134 52.381 0.00 0.00 30.88 2.52
767 779 0.467384 CATCTGGGCTGTCGGATTCT 59.533 55.000 0.00 0.00 30.88 2.40
768 780 0.179000 ACATCTGGGCTGTCGGATTC 59.821 55.000 0.00 0.00 30.88 2.52
769 781 0.179000 GACATCTGGGCTGTCGGATT 59.821 55.000 0.00 0.00 34.24 3.01
770 782 1.690219 GGACATCTGGGCTGTCGGAT 61.690 60.000 0.00 0.00 43.16 4.18
771 783 2.359169 GGACATCTGGGCTGTCGGA 61.359 63.158 0.00 0.00 43.16 4.55
772 784 2.187946 GGACATCTGGGCTGTCGG 59.812 66.667 0.00 0.00 43.16 4.79
773 785 1.663379 TACGGACATCTGGGCTGTCG 61.663 60.000 0.00 0.00 43.16 4.35
774 786 0.753262 ATACGGACATCTGGGCTGTC 59.247 55.000 0.00 0.00 41.83 3.51
775 787 0.753262 GATACGGACATCTGGGCTGT 59.247 55.000 0.00 0.00 0.00 4.40
776 788 0.752658 TGATACGGACATCTGGGCTG 59.247 55.000 0.00 0.00 0.00 4.85
777 789 0.753262 GTGATACGGACATCTGGGCT 59.247 55.000 0.00 0.00 0.00 5.19
778 790 0.597637 CGTGATACGGACATCTGGGC 60.598 60.000 0.00 0.00 38.08 5.36
779 791 3.569916 CGTGATACGGACATCTGGG 57.430 57.895 0.00 0.00 38.08 4.45
789 801 7.217880 CGATGATTAAATGTTACCGTGATACG 58.782 38.462 0.00 0.00 42.11 3.06
790 802 7.359765 CCCGATGATTAAATGTTACCGTGATAC 60.360 40.741 0.00 0.00 0.00 2.24
791 803 6.647481 CCCGATGATTAAATGTTACCGTGATA 59.353 38.462 0.00 0.00 0.00 2.15
792 804 5.468746 CCCGATGATTAAATGTTACCGTGAT 59.531 40.000 0.00 0.00 0.00 3.06
793 805 4.812091 CCCGATGATTAAATGTTACCGTGA 59.188 41.667 0.00 0.00 0.00 4.35
794 806 4.812091 TCCCGATGATTAAATGTTACCGTG 59.188 41.667 0.00 0.00 0.00 4.94
795 807 5.026038 TCCCGATGATTAAATGTTACCGT 57.974 39.130 0.00 0.00 0.00 4.83
796 808 4.084013 GCTCCCGATGATTAAATGTTACCG 60.084 45.833 0.00 0.00 0.00 4.02
797 809 4.819630 TGCTCCCGATGATTAAATGTTACC 59.180 41.667 0.00 0.00 0.00 2.85
798 810 5.527582 AGTGCTCCCGATGATTAAATGTTAC 59.472 40.000 0.00 0.00 0.00 2.50
799 811 5.527214 CAGTGCTCCCGATGATTAAATGTTA 59.473 40.000 0.00 0.00 0.00 2.41
800 812 4.336433 CAGTGCTCCCGATGATTAAATGTT 59.664 41.667 0.00 0.00 0.00 2.71
801 813 3.879295 CAGTGCTCCCGATGATTAAATGT 59.121 43.478 0.00 0.00 0.00 2.71
802 814 3.251729 CCAGTGCTCCCGATGATTAAATG 59.748 47.826 0.00 0.00 0.00 2.32
803 815 3.136443 TCCAGTGCTCCCGATGATTAAAT 59.864 43.478 0.00 0.00 0.00 1.40
804 816 2.503765 TCCAGTGCTCCCGATGATTAAA 59.496 45.455 0.00 0.00 0.00 1.52
805 817 2.115427 TCCAGTGCTCCCGATGATTAA 58.885 47.619 0.00 0.00 0.00 1.40
806 818 1.788229 TCCAGTGCTCCCGATGATTA 58.212 50.000 0.00 0.00 0.00 1.75
807 819 1.135094 ATCCAGTGCTCCCGATGATT 58.865 50.000 0.00 0.00 0.00 2.57
808 820 1.620819 GTATCCAGTGCTCCCGATGAT 59.379 52.381 0.00 0.00 0.00 2.45
809 821 1.040646 GTATCCAGTGCTCCCGATGA 58.959 55.000 0.00 0.00 0.00 2.92
810 822 1.000283 GAGTATCCAGTGCTCCCGATG 60.000 57.143 0.00 0.00 33.88 3.84
811 823 1.133325 AGAGTATCCAGTGCTCCCGAT 60.133 52.381 0.00 0.00 40.09 4.18
812 824 0.259065 AGAGTATCCAGTGCTCCCGA 59.741 55.000 0.00 0.00 40.09 5.14
813 825 0.671251 GAGAGTATCCAGTGCTCCCG 59.329 60.000 0.00 0.00 40.09 5.14
1330 1372 2.951457 TCACACAGAGAAACACGACA 57.049 45.000 0.00 0.00 0.00 4.35
1412 1459 8.128582 GGAGTATTTTCATTGAACGCATAATGA 58.871 33.333 0.00 5.12 40.46 2.57
1535 1613 2.086869 TGAAATTCTAGCTGCACAGGC 58.913 47.619 1.02 0.00 41.68 4.85
1536 1614 3.076621 TGTGAAATTCTAGCTGCACAGG 58.923 45.455 1.02 0.00 33.00 4.00
1907 2040 2.355010 ATCCTTATCAGGCACAAGGC 57.645 50.000 0.00 0.00 40.58 4.35
1982 2131 7.354751 AGTAAGTAATTTCCTGCTCTAGAGG 57.645 40.000 21.23 6.03 0.00 3.69
2090 2247 2.127383 GCCGGTTGCTTTCGAACG 60.127 61.111 1.90 0.00 36.56 3.95
2226 2383 4.009675 GTCATGTTTCCCTATGAACAGCA 58.990 43.478 0.00 0.00 35.29 4.41
2271 2428 5.120830 CCTGTCGAAAGAACATCTAAACAGG 59.879 44.000 3.47 0.00 45.01 4.00


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

AutoCloner maintained by Alex Coulton.