Multiple sequence alignment - TraesCS7D01G446900

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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 TraesCS7D01G446900 chr7D 100.000 3029 0 0 1 3029 567516312 567513284 0.000000e+00 5594.0
1 TraesCS7D01G446900 chr7D 94.595 37 2 0 2781 2817 33272514 33272478 1.170000e-04 58.4
2 TraesCS7D01G446900 chr7D 94.595 37 2 0 2781 2817 33292231 33292195 1.170000e-04 58.4
3 TraesCS7D01G446900 chr7A 94.207 1191 48 10 859 2040 654110993 654109815 0.000000e+00 1797.0
4 TraesCS7D01G446900 chr7A 84.635 384 33 8 2646 3029 654105497 654105140 2.870000e-95 359.0
5 TraesCS7D01G446900 chr7A 88.356 146 14 3 2362 2506 509758878 509758735 4.010000e-39 172.0
6 TraesCS7D01G446900 chr7A 100.000 43 0 0 2067 2109 654109808 654109766 2.500000e-11 80.5
7 TraesCS7D01G446900 chr7A 87.931 58 6 1 2201 2257 654106290 654106233 1.950000e-07 67.6
8 TraesCS7D01G446900 chr7A 91.304 46 4 0 2779 2824 587968551 587968506 2.520000e-06 63.9
9 TraesCS7D01G446900 chr7A 94.872 39 2 0 2779 2817 161993779 161993741 9.070000e-06 62.1
10 TraesCS7D01G446900 chr7A 92.683 41 2 1 2776 2816 499624130 499624091 1.170000e-04 58.4
11 TraesCS7D01G446900 chr7B 92.332 1265 50 11 809 2065 621404603 621403378 0.000000e+00 1755.0
12 TraesCS7D01G446900 chr7B 88.055 586 45 11 1073 1634 621294424 621295008 0.000000e+00 671.0
13 TraesCS7D01G446900 chr7B 87.934 547 56 9 1082 1625 586715667 586716206 1.180000e-178 636.0
14 TraesCS7D01G446900 chr7B 87.194 531 50 12 1095 1625 586704051 586704563 3.360000e-164 588.0
15 TraesCS7D01G446900 chr7B 91.765 85 7 0 855 939 621404683 621404599 5.300000e-23 119.0
16 TraesCS7D01G446900 chr7B 85.106 94 10 4 2112 2202 252536312 252536220 3.220000e-15 93.5
17 TraesCS7D01G446900 chr6D 84.714 700 87 9 7 690 393928297 393927602 0.000000e+00 682.0
18 TraesCS7D01G446900 chr6D 92.188 64 5 0 629 692 387882075 387882138 1.160000e-14 91.6
19 TraesCS7D01G446900 chr6D 90.625 64 6 0 629 692 335361629 335361692 5.380000e-13 86.1
20 TraesCS7D01G446900 chr3D 83.466 629 95 8 7 631 407219715 407219092 7.280000e-161 577.0
21 TraesCS7D01G446900 chr3D 85.714 532 50 12 1099 1605 437734964 437734434 3.440000e-149 538.0
22 TraesCS7D01G446900 chr3B 87.140 521 51 15 1099 1605 572837710 572837192 7.280000e-161 577.0
23 TraesCS7D01G446900 chr3B 88.591 149 15 2 2358 2506 32468422 32468568 2.400000e-41 180.0
24 TraesCS7D01G446900 chr3B 92.857 56 4 0 635 690 508259480 508259425 6.960000e-12 82.4
25 TraesCS7D01G446900 chr1D 81.766 691 110 9 4 681 32759175 32759862 5.670000e-157 564.0
26 TraesCS7D01G446900 chr1D 88.966 145 15 1 2362 2506 26162000 26162143 8.630000e-41 178.0
27 TraesCS7D01G446900 chr1D 89.130 46 4 1 2772 2817 25233860 25233904 4.220000e-04 56.5
28 TraesCS7D01G446900 chr5B 82.911 632 98 9 4 631 13096842 13096217 7.330000e-156 560.0
29 TraesCS7D01G446900 chr5B 88.966 145 15 1 2362 2506 484894864 484894721 8.630000e-41 178.0
30 TraesCS7D01G446900 chr5B 84.884 86 11 2 2119 2202 315892353 315892268 5.380000e-13 86.1
31 TraesCS7D01G446900 chr5B 79.310 87 15 3 2119 2202 428368048 428367962 1.170000e-04 58.4
32 TraesCS7D01G446900 chr5D 83.417 597 89 9 33 625 322964756 322964166 2.050000e-151 545.0
33 TraesCS7D01G446900 chr5D 88.356 146 15 2 2361 2506 27183280 27183137 1.120000e-39 174.0
34 TraesCS7D01G446900 chr5D 82.114 123 8 5 584 692 521097023 521096901 3.220000e-15 93.5
35 TraesCS7D01G446900 chr3A 85.526 532 51 17 1099 1605 575872144 575871614 1.600000e-147 532.0
36 TraesCS7D01G446900 chr3A 97.059 34 1 0 2119 2152 652668086 652668119 1.170000e-04 58.4
37 TraesCS7D01G446900 chr3A 97.059 34 1 0 2119 2152 652749322 652749355 1.170000e-04 58.4
38 TraesCS7D01G446900 chr2D 80.224 713 115 17 1 690 3038357 3039066 2.080000e-141 512.0
39 TraesCS7D01G446900 chr2D 79.395 529 92 8 178 690 96688951 96688424 1.030000e-94 357.0
40 TraesCS7D01G446900 chr2D 90.385 52 5 0 580 631 383163715 383163664 5.420000e-08 69.4
41 TraesCS7D01G446900 chr4D 80.499 682 116 9 24 690 391646300 391645621 9.690000e-140 507.0
42 TraesCS7D01G446900 chr4D 80.398 704 99 26 1 683 20534851 20534166 1.620000e-137 499.0
43 TraesCS7D01G446900 chr4D 90.476 63 5 1 629 690 324201466 324201528 6.960000e-12 82.4
44 TraesCS7D01G446900 chr1B 80.226 708 110 26 1 692 161987204 161987897 3.490000e-139 505.0
45 TraesCS7D01G446900 chr1B 89.655 145 14 1 2362 2506 61671051 61671194 1.850000e-42 183.0
46 TraesCS7D01G446900 chr6A 79.770 697 114 11 7 687 376504703 376504018 5.870000e-132 481.0
47 TraesCS7D01G446900 chr2B 82.883 222 27 8 2819 3029 510889675 510889454 3.990000e-44 189.0
48 TraesCS7D01G446900 chr2B 81.356 118 9 12 2921 3029 40055560 40055447 1.940000e-12 84.2
49 TraesCS7D01G446900 chr2B 88.462 52 5 1 2508 2558 88205506 88205557 9.070000e-06 62.1
50 TraesCS7D01G446900 chr2B 97.143 35 0 1 2119 2152 731218925 731218891 1.170000e-04 58.4
51 TraesCS7D01G446900 chr5A 89.726 146 12 3 2362 2506 595103874 595103731 1.850000e-42 183.0
52 TraesCS7D01G446900 chr5A 89.474 57 5 1 2119 2174 700789320 700789264 1.510000e-08 71.3
53 TraesCS7D01G446900 chr4B 87.662 154 17 2 2359 2511 2014019 2014171 8.630000e-41 178.0
54 TraesCS7D01G446900 chr1A 88.966 145 15 1 2362 2506 584372945 584373088 8.630000e-41 178.0
55 TraesCS7D01G446900 chr1A 94.643 56 3 0 635 690 243499496 243499441 1.500000e-13 87.9
56 TraesCS7D01G446900 chr2A 77.391 230 30 18 2819 3029 10536353 10536127 1.910000e-22 117.0
57 TraesCS7D01G446900 chr2A 84.783 92 11 3 2118 2207 643440745 643440835 4.160000e-14 89.8
58 TraesCS7D01G446900 chr6B 83.529 85 12 2 2119 2202 439394881 439394964 9.000000e-11 78.7
59 TraesCS7D01G446900 chr6B 90.000 50 4 1 2512 2560 670210894 670210845 2.520000e-06 63.9
60 TraesCS7D01G446900 chr4A 90.000 50 4 1 2779 2827 722887291 722887242 2.520000e-06 63.9


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 TraesCS7D01G446900 chr7D 567513284 567516312 3028 True 5594.000 5594 100.00000 1 3029 1 chr7D.!!$R3 3028
1 TraesCS7D01G446900 chr7A 654105140 654110993 5853 True 576.025 1797 91.69325 859 3029 4 chr7A.!!$R5 2170
2 TraesCS7D01G446900 chr7B 621403378 621404683 1305 True 937.000 1755 92.04850 809 2065 2 chr7B.!!$R2 1256
3 TraesCS7D01G446900 chr7B 621294424 621295008 584 False 671.000 671 88.05500 1073 1634 1 chr7B.!!$F3 561
4 TraesCS7D01G446900 chr7B 586715667 586716206 539 False 636.000 636 87.93400 1082 1625 1 chr7B.!!$F2 543
5 TraesCS7D01G446900 chr7B 586704051 586704563 512 False 588.000 588 87.19400 1095 1625 1 chr7B.!!$F1 530
6 TraesCS7D01G446900 chr6D 393927602 393928297 695 True 682.000 682 84.71400 7 690 1 chr6D.!!$R1 683
7 TraesCS7D01G446900 chr3D 407219092 407219715 623 True 577.000 577 83.46600 7 631 1 chr3D.!!$R1 624
8 TraesCS7D01G446900 chr3D 437734434 437734964 530 True 538.000 538 85.71400 1099 1605 1 chr3D.!!$R2 506
9 TraesCS7D01G446900 chr3B 572837192 572837710 518 True 577.000 577 87.14000 1099 1605 1 chr3B.!!$R2 506
10 TraesCS7D01G446900 chr1D 32759175 32759862 687 False 564.000 564 81.76600 4 681 1 chr1D.!!$F3 677
11 TraesCS7D01G446900 chr5B 13096217 13096842 625 True 560.000 560 82.91100 4 631 1 chr5B.!!$R1 627
12 TraesCS7D01G446900 chr5D 322964166 322964756 590 True 545.000 545 83.41700 33 625 1 chr5D.!!$R2 592
13 TraesCS7D01G446900 chr3A 575871614 575872144 530 True 532.000 532 85.52600 1099 1605 1 chr3A.!!$R1 506
14 TraesCS7D01G446900 chr2D 3038357 3039066 709 False 512.000 512 80.22400 1 690 1 chr2D.!!$F1 689
15 TraesCS7D01G446900 chr2D 96688424 96688951 527 True 357.000 357 79.39500 178 690 1 chr2D.!!$R1 512
16 TraesCS7D01G446900 chr4D 391645621 391646300 679 True 507.000 507 80.49900 24 690 1 chr4D.!!$R2 666
17 TraesCS7D01G446900 chr4D 20534166 20534851 685 True 499.000 499 80.39800 1 683 1 chr4D.!!$R1 682
18 TraesCS7D01G446900 chr1B 161987204 161987897 693 False 505.000 505 80.22600 1 692 1 chr1B.!!$F2 691
19 TraesCS7D01G446900 chr6A 376504018 376504703 685 True 481.000 481 79.77000 7 687 1 chr6A.!!$R1 680

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
839 868 0.037975 TAGAGCGGGTTTGGTTCGTC 60.038 55.0 0.0 0.0 0.0 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2597 6403 0.39034 CTCTCGTTTGCTAGCTGCCA 60.39 55.0 17.23 0.0 42.0 4.92 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
44 45 3.681897 GTGGACATTAGATCGATGATGGC 59.318 47.826 0.54 6.48 0.00 4.40
45 46 3.265791 GGACATTAGATCGATGATGGCC 58.734 50.000 17.45 17.45 40.25 5.36
56 57 0.839277 ATGATGGCCATCCGTCTTGA 59.161 50.000 36.97 20.66 46.39 3.02
111 112 2.650116 CGCCTAGACTGGTGCACCT 61.650 63.158 34.75 17.79 36.82 4.00
117 120 0.317479 AGACTGGTGCACCTTACGAC 59.683 55.000 34.75 19.67 36.82 4.34
234 237 1.136085 CCATGTTTGCGTTCGACGAAT 60.136 47.619 14.27 0.00 46.05 3.34
378 382 2.569354 GCACCATTTGGGCGGACAA 61.569 57.895 0.96 0.00 42.05 3.18
502 506 1.617947 GGATGAGCTTGGGGTCGACT 61.618 60.000 16.46 0.00 42.30 4.18
572 576 3.723554 GGAGATCGCCGGATATGAC 57.276 57.895 5.05 0.00 31.51 3.06
576 580 1.546476 AGATCGCCGGATATGACCTTC 59.454 52.381 5.05 0.00 31.51 3.46
578 582 0.820482 TCGCCGGATATGACCTTCGA 60.820 55.000 5.05 0.00 0.00 3.71
585 589 1.272490 GATATGACCTTCGATGGCGGA 59.728 52.381 16.84 1.97 38.28 5.54
604 619 1.971357 GAAGGGAGTGGAGTGAAGTGA 59.029 52.381 0.00 0.00 0.00 3.41
631 646 1.822114 TTGGTCCGGCGAGTGAATGA 61.822 55.000 9.30 0.00 0.00 2.57
697 726 4.794648 CGGGCGCCCCATTTGAGA 62.795 66.667 39.24 0.00 45.83 3.27
698 727 3.140814 GGGCGCCCCATTTGAGAC 61.141 66.667 36.64 5.01 44.65 3.36
699 728 3.508840 GGCGCCCCATTTGAGACG 61.509 66.667 18.11 0.00 0.00 4.18
700 729 4.179579 GCGCCCCATTTGAGACGC 62.180 66.667 0.00 0.00 39.49 5.19
701 730 2.745884 CGCCCCATTTGAGACGCA 60.746 61.111 0.00 0.00 0.00 5.24
702 731 2.877691 GCCCCATTTGAGACGCAC 59.122 61.111 0.00 0.00 0.00 5.34
703 732 3.039202 GCCCCATTTGAGACGCACG 62.039 63.158 0.00 0.00 0.00 5.34
704 733 1.671054 CCCCATTTGAGACGCACGT 60.671 57.895 0.00 0.00 0.00 4.49
705 734 1.635663 CCCCATTTGAGACGCACGTC 61.636 60.000 15.08 15.08 44.86 4.34
714 743 3.715854 GACGCACGTCTAGGTCAAT 57.284 52.632 15.56 0.00 41.57 2.57
715 744 1.992170 GACGCACGTCTAGGTCAATT 58.008 50.000 15.56 0.00 41.57 2.32
716 745 2.334838 GACGCACGTCTAGGTCAATTT 58.665 47.619 15.56 0.00 41.57 1.82
717 746 2.735134 GACGCACGTCTAGGTCAATTTT 59.265 45.455 15.56 0.00 41.57 1.82
718 747 3.135994 ACGCACGTCTAGGTCAATTTTT 58.864 40.909 0.00 0.00 0.00 1.94
739 768 2.815384 TGACCTGTCACCGACTTGA 58.185 52.632 0.00 0.00 34.14 3.02
740 769 0.387929 TGACCTGTCACCGACTTGAC 59.612 55.000 0.00 5.19 45.34 3.18
741 770 0.319641 GACCTGTCACCGACTTGACC 60.320 60.000 8.67 0.00 44.63 4.02
742 771 1.372997 CCTGTCACCGACTTGACCG 60.373 63.158 8.67 3.72 44.63 4.79
743 772 1.362717 CTGTCACCGACTTGACCGT 59.637 57.895 8.67 0.00 44.63 4.83
744 773 0.663568 CTGTCACCGACTTGACCGTC 60.664 60.000 8.67 0.00 44.63 4.79
745 774 1.372623 GTCACCGACTTGACCGTCC 60.373 63.158 0.00 0.00 40.15 4.79
746 775 2.430244 CACCGACTTGACCGTCCG 60.430 66.667 0.00 0.00 0.00 4.79
747 776 2.908940 ACCGACTTGACCGTCCGT 60.909 61.111 0.00 0.00 0.00 4.69
748 777 2.126580 CCGACTTGACCGTCCGTC 60.127 66.667 0.00 2.43 42.33 4.79
749 778 2.126580 CGACTTGACCGTCCGTCC 60.127 66.667 10.68 0.00 41.18 4.79
750 779 2.126580 GACTTGACCGTCCGTCCG 60.127 66.667 0.00 0.00 41.18 4.79
751 780 2.595463 ACTTGACCGTCCGTCCGA 60.595 61.111 0.00 0.00 41.18 4.55
752 781 2.178521 CTTGACCGTCCGTCCGAG 59.821 66.667 0.00 0.00 41.18 4.63
753 782 3.966026 CTTGACCGTCCGTCCGAGC 62.966 68.421 0.00 0.00 41.18 5.03
757 786 3.580193 CCGTCCGTCCGAGCGTAT 61.580 66.667 0.00 0.00 0.00 3.06
758 787 2.246739 CCGTCCGTCCGAGCGTATA 61.247 63.158 0.00 0.00 0.00 1.47
759 788 1.083144 CGTCCGTCCGAGCGTATAC 60.083 63.158 0.00 0.00 0.00 1.47
760 789 1.083144 GTCCGTCCGAGCGTATACG 60.083 63.158 20.87 20.87 43.27 3.06
761 790 1.227234 TCCGTCCGAGCGTATACGA 60.227 57.895 28.66 4.37 43.02 3.43
762 791 1.203563 CCGTCCGAGCGTATACGAG 59.796 63.158 28.66 17.18 43.02 4.18
763 792 1.438384 CGTCCGAGCGTATACGAGC 60.438 63.158 28.66 16.97 43.02 5.03
764 793 1.438384 GTCCGAGCGTATACGAGCG 60.438 63.158 28.66 25.97 43.02 5.03
765 794 1.884464 TCCGAGCGTATACGAGCGT 60.884 57.895 28.66 9.34 43.02 5.07
766 795 0.597377 TCCGAGCGTATACGAGCGTA 60.597 55.000 28.66 14.35 43.02 4.42
767 796 0.441533 CCGAGCGTATACGAGCGTAT 59.558 55.000 28.66 18.12 43.04 3.06
768 797 1.655597 CCGAGCGTATACGAGCGTATA 59.344 52.381 28.66 16.27 41.12 1.47
779 808 4.785669 ACGAGCGTATACCGTATATAGC 57.214 45.455 15.54 15.54 39.32 2.97
780 809 3.243877 ACGAGCGTATACCGTATATAGCG 59.756 47.826 16.54 10.80 39.32 4.26
781 810 7.762622 ATACGAGCGTATACCGTATATAGCGG 61.763 46.154 18.26 17.05 44.51 5.52
788 817 2.088950 CCGTATATAGCGGGTTTGGG 57.911 55.000 13.01 0.00 44.98 4.12
789 818 1.338389 CCGTATATAGCGGGTTTGGGG 60.338 57.143 13.01 0.00 44.98 4.96
790 819 1.817357 GTATATAGCGGGTTTGGGGC 58.183 55.000 0.00 0.00 0.00 5.80
791 820 0.322322 TATATAGCGGGTTTGGGGCG 59.678 55.000 0.00 0.00 0.00 6.13
792 821 1.702022 ATATAGCGGGTTTGGGGCGT 61.702 55.000 0.00 0.00 0.00 5.68
793 822 2.314415 TATAGCGGGTTTGGGGCGTC 62.314 60.000 0.00 0.00 0.00 5.19
808 837 4.944372 GTCCGGCCGCCGTAGATG 62.944 72.222 29.21 14.35 46.80 2.90
816 845 2.638329 CGCCGTAGATGCGTATAGC 58.362 57.895 0.00 0.00 46.59 2.97
827 856 2.088338 GCGTATAGCGTATAGAGCGG 57.912 55.000 0.00 0.00 43.66 5.52
828 857 1.267932 GCGTATAGCGTATAGAGCGGG 60.268 57.143 0.00 0.00 43.66 6.13
829 858 2.005451 CGTATAGCGTATAGAGCGGGT 58.995 52.381 0.00 0.00 40.04 5.28
830 859 2.417933 CGTATAGCGTATAGAGCGGGTT 59.582 50.000 0.00 0.00 40.04 4.11
831 860 3.120060 CGTATAGCGTATAGAGCGGGTTT 60.120 47.826 0.00 0.00 40.04 3.27
832 861 2.787601 TAGCGTATAGAGCGGGTTTG 57.212 50.000 0.00 0.00 40.04 2.93
833 862 0.104304 AGCGTATAGAGCGGGTTTGG 59.896 55.000 0.00 0.00 40.04 3.28
834 863 0.179092 GCGTATAGAGCGGGTTTGGT 60.179 55.000 0.00 0.00 0.00 3.67
835 864 1.741394 GCGTATAGAGCGGGTTTGGTT 60.741 52.381 0.00 0.00 0.00 3.67
836 865 2.199236 CGTATAGAGCGGGTTTGGTTC 58.801 52.381 0.00 0.00 0.00 3.62
837 866 2.199236 GTATAGAGCGGGTTTGGTTCG 58.801 52.381 0.00 0.00 0.00 3.95
838 867 0.611714 ATAGAGCGGGTTTGGTTCGT 59.388 50.000 0.00 0.00 0.00 3.85
839 868 0.037975 TAGAGCGGGTTTGGTTCGTC 60.038 55.000 0.00 0.00 0.00 4.20
840 869 2.281276 AGCGGGTTTGGTTCGTCC 60.281 61.111 0.00 0.00 0.00 4.79
841 870 3.719144 GCGGGTTTGGTTCGTCCG 61.719 66.667 0.00 0.00 43.13 4.79
842 871 3.045492 CGGGTTTGGTTCGTCCGG 61.045 66.667 0.00 0.00 39.52 5.14
843 872 3.359523 GGGTTTGGTTCGTCCGGC 61.360 66.667 0.00 0.00 39.52 6.13
844 873 3.719144 GGTTTGGTTCGTCCGGCG 61.719 66.667 11.37 11.37 43.01 6.46
845 874 3.719144 GTTTGGTTCGTCCGGCGG 61.719 66.667 22.51 22.51 41.72 6.13
854 883 4.944372 GTCCGGCGGCCGTAGATG 62.944 72.222 36.22 22.34 46.80 2.90
862 891 0.039074 CGGCCGTAGATGCTCTAAGG 60.039 60.000 19.50 15.65 46.84 2.69
887 1042 2.887568 GTGGAGTCAGCATCCGCG 60.888 66.667 0.00 0.00 45.49 6.46
907 1062 4.379243 AAGCCTCGACCTGCCACG 62.379 66.667 0.00 0.00 0.00 4.94
1410 1576 2.203070 GAGACATCCGCCGGCAAT 60.203 61.111 28.98 16.69 0.00 3.56
1528 1727 3.637273 GGCCCACGTCCAAGGACT 61.637 66.667 16.57 2.05 42.54 3.85
1554 1753 2.078849 AACAGATCGTCGTGATGCAA 57.921 45.000 0.00 0.00 37.47 4.08
1560 1759 0.313987 TCGTCGTGATGCAACTCTGT 59.686 50.000 0.00 0.00 0.00 3.41
1619 1818 2.517875 GGCGAAGGATGGCAGCAT 60.518 61.111 4.64 0.00 30.88 3.79
1653 1852 4.514577 CCAGCGTCGCCGGAGAAT 62.515 66.667 14.54 0.00 33.68 2.40
1725 1924 2.676016 AAACAACGTCGACGGCGGTA 62.676 55.000 37.89 0.00 44.95 4.02
1840 2039 3.181491 CGCTTTTGTGACAGGGAAAAAGA 60.181 43.478 10.04 0.00 40.46 2.52
1861 2060 5.006386 AGATTCTCAAGATCCCAAACACAC 58.994 41.667 0.00 0.00 0.00 3.82
1906 2105 1.265365 GGGCTCTAATCGCATTCAAGC 59.735 52.381 0.00 0.00 32.32 4.01
2002 2201 6.183360 TGGTTTTCATCATCTTCAAAAGTGCT 60.183 34.615 0.00 0.00 0.00 4.40
2065 2266 3.190118 GGGATACAAGCATAGCAATGAGC 59.810 47.826 0.00 0.00 41.44 4.26
2110 2311 9.905713 TTTTCAAAGATGCATCTACCTAGTATT 57.094 29.630 28.92 14.15 35.76 1.89
2111 2312 9.905713 TTTCAAAGATGCATCTACCTAGTATTT 57.094 29.630 28.92 13.45 35.76 1.40
2130 2754 5.725325 ATTTAATCTACTACTCCCTCCGC 57.275 43.478 0.00 0.00 0.00 5.54
2133 2757 1.531128 CTACTACTCCCTCCGCCCC 60.531 68.421 0.00 0.00 0.00 5.80
2139 2763 1.376466 CTCCCTCCGCCCCATAATG 59.624 63.158 0.00 0.00 0.00 1.90
2140 2764 1.385347 TCCCTCCGCCCCATAATGT 60.385 57.895 0.00 0.00 0.00 2.71
2142 2766 0.768622 CCCTCCGCCCCATAATGTAA 59.231 55.000 0.00 0.00 0.00 2.41
2143 2767 1.271379 CCCTCCGCCCCATAATGTAAG 60.271 57.143 0.00 0.00 0.00 2.34
2144 2768 1.697432 CCTCCGCCCCATAATGTAAGA 59.303 52.381 0.00 0.00 0.00 2.10
2145 2769 2.550208 CCTCCGCCCCATAATGTAAGAC 60.550 54.545 0.00 0.00 0.00 3.01
2147 2771 2.775384 TCCGCCCCATAATGTAAGACTT 59.225 45.455 0.00 0.00 0.00 3.01
2148 2772 3.201266 TCCGCCCCATAATGTAAGACTTT 59.799 43.478 0.00 0.00 0.00 2.66
2196 2910 8.798748 AAAAGTCGTATATTATGAGACGAAGG 57.201 34.615 2.60 0.00 45.04 3.46
2197 2911 6.497785 AGTCGTATATTATGAGACGAAGGG 57.502 41.667 2.60 0.00 45.04 3.95
2198 2912 6.236409 AGTCGTATATTATGAGACGAAGGGA 58.764 40.000 2.60 0.00 45.04 4.20
2232 5817 7.826744 AGAAGCTGGATTAATTAGGCTATTAGC 59.173 37.037 7.16 7.16 41.46 3.09
2234 5819 7.334858 AGCTGGATTAATTAGGCTATTAGCTC 58.665 38.462 15.02 5.94 41.99 4.09
2237 5822 7.097192 TGGATTAATTAGGCTATTAGCTCGTG 58.903 38.462 15.02 0.00 41.99 4.35
2251 5836 3.648179 GCTCGTGCTCAGTTAAGAATG 57.352 47.619 1.41 0.00 36.03 2.67
2252 5837 2.996621 GCTCGTGCTCAGTTAAGAATGT 59.003 45.455 1.41 0.00 36.03 2.71
2253 5838 4.174009 GCTCGTGCTCAGTTAAGAATGTA 58.826 43.478 1.41 0.00 36.03 2.29
2254 5839 4.031878 GCTCGTGCTCAGTTAAGAATGTAC 59.968 45.833 1.41 0.00 36.03 2.90
2255 5840 5.386958 TCGTGCTCAGTTAAGAATGTACT 57.613 39.130 0.00 0.00 0.00 2.73
2256 5841 6.505044 TCGTGCTCAGTTAAGAATGTACTA 57.495 37.500 0.00 0.00 0.00 1.82
2257 5842 6.552629 TCGTGCTCAGTTAAGAATGTACTAG 58.447 40.000 0.00 0.00 0.00 2.57
2262 6067 6.254589 GCTCAGTTAAGAATGTACTAGCAGTG 59.745 42.308 0.00 0.00 0.00 3.66
2294 6099 8.248117 GTACATATCGTTGTACCTTTGAAACT 57.752 34.615 12.11 0.00 43.97 2.66
2296 6101 6.932400 ACATATCGTTGTACCTTTGAAACTGA 59.068 34.615 0.00 0.00 0.00 3.41
2298 6103 3.558418 TCGTTGTACCTTTGAAACTGAGC 59.442 43.478 0.00 0.00 0.00 4.26
2300 6105 2.858745 TGTACCTTTGAAACTGAGCCC 58.141 47.619 0.00 0.00 0.00 5.19
2309 6114 2.166459 TGAAACTGAGCCCTAGATGACG 59.834 50.000 0.00 0.00 0.00 4.35
2311 6116 0.684479 ACTGAGCCCTAGATGACGCA 60.684 55.000 0.00 0.00 0.00 5.24
2323 6128 2.033299 AGATGACGCACAAAACACTTGG 59.967 45.455 0.00 0.00 0.00 3.61
2335 6140 4.434713 AAACACTTGGACAAACTGACAC 57.565 40.909 0.00 0.00 0.00 3.67
2339 6144 1.334869 CTTGGACAAACTGACACAGCC 59.665 52.381 0.00 0.00 34.37 4.85
2360 6165 1.971695 CCCGGTGGAAAGAACCTGC 60.972 63.158 0.00 0.00 35.39 4.85
2365 6170 2.427506 GGTGGAAAGAACCTGCTGTAG 58.572 52.381 0.00 0.00 34.66 2.74
2390 6195 2.945008 TGTATGCTCTAGCCAATGCAAC 59.055 45.455 0.00 0.00 41.13 4.17
2420 6225 6.428083 ACCGATCTGATAGAAGAGACTAGA 57.572 41.667 0.00 0.00 0.00 2.43
2421 6226 7.016153 ACCGATCTGATAGAAGAGACTAGAT 57.984 40.000 0.00 0.00 0.00 1.98
2424 6229 9.613428 CCGATCTGATAGAAGAGACTAGATAAT 57.387 37.037 0.00 0.00 0.00 1.28
2453 6258 2.404215 ACGTCAACAATCTCCTTCACG 58.596 47.619 0.00 0.00 0.00 4.35
2462 6267 4.373116 TCCTTCACGTGCGGCTCC 62.373 66.667 11.67 0.00 0.00 4.70
2481 6286 1.489230 CCCTTAGGCCTAAACGTGGAT 59.511 52.381 25.14 0.00 0.00 3.41
2483 6288 2.484947 CCTTAGGCCTAAACGTGGATCC 60.485 54.545 25.14 4.20 0.00 3.36
2490 6295 2.747446 CCTAAACGTGGATCCAAAGTGG 59.253 50.000 18.20 13.03 39.43 4.00
2495 6300 1.817740 CGTGGATCCAAAGTGGGTTGT 60.818 52.381 18.20 0.00 38.32 3.32
2507 6312 8.145122 TCCAAAGTGGGTTGTAATTTAATTGTC 58.855 33.333 0.00 0.00 38.32 3.18
2513 6318 7.812669 GTGGGTTGTAATTTAATTGTCCAGAAG 59.187 37.037 0.00 0.00 0.00 2.85
2533 6339 7.364585 CCAGAAGACCAATCTATGAAAGAGACT 60.365 40.741 0.00 0.00 37.74 3.24
2536 6342 7.595819 AGACCAATCTATGAAAGAGACTAGG 57.404 40.000 0.00 0.00 37.74 3.02
2542 6348 9.941325 CAATCTATGAAAGAGACTAGGCAATAT 57.059 33.333 0.00 0.00 37.74 1.28
2571 6377 0.252103 TCTACACCTGGGTCCACCTC 60.252 60.000 0.00 0.00 41.11 3.85
2581 6387 1.276989 GGGTCCACCTCGTGTTATGAA 59.723 52.381 0.00 0.00 35.85 2.57
2586 6392 5.820947 GGTCCACCTCGTGTTATGAATATTT 59.179 40.000 0.00 0.00 0.00 1.40
2597 6403 7.518370 CGTGTTATGAATATTTTCTTAGCGCCT 60.518 37.037 2.29 0.00 33.50 5.52
2601 6407 5.166020 TGAATATTTTCTTAGCGCCTGGCA 61.166 41.667 20.29 0.00 37.11 4.92
2618 6424 1.016130 GCAGCTAGCAAACGAGAGCA 61.016 55.000 18.83 0.00 44.79 4.26
2619 6425 1.432514 CAGCTAGCAAACGAGAGCAA 58.567 50.000 18.83 0.00 37.40 3.91
2620 6426 1.127582 CAGCTAGCAAACGAGAGCAAC 59.872 52.381 18.83 0.00 37.40 4.17
2621 6427 0.093705 GCTAGCAAACGAGAGCAACG 59.906 55.000 10.63 0.00 34.96 4.10
2622 6428 0.093705 CTAGCAAACGAGAGCAACGC 59.906 55.000 0.00 0.00 0.00 4.84
2623 6429 0.319555 TAGCAAACGAGAGCAACGCT 60.320 50.000 0.00 0.00 43.88 5.07
2650 6456 2.361438 GCTAGATACCGTAGCACCAACT 59.639 50.000 0.00 0.00 42.21 3.16
2692 6651 2.799412 CCTAGCAAATGAGCAGATCGAC 59.201 50.000 0.00 0.00 36.85 4.20
2720 6679 8.749026 AAGATCAGATTAAAGCAGATTCACAT 57.251 30.769 0.00 0.00 0.00 3.21
2727 6686 4.970662 AAAGCAGATTCACATAACGCAT 57.029 36.364 0.00 0.00 0.00 4.73
2743 6702 2.287915 ACGCATATCCAATTCAACGCTC 59.712 45.455 0.00 0.00 0.00 5.03
2744 6703 2.287644 CGCATATCCAATTCAACGCTCA 59.712 45.455 0.00 0.00 0.00 4.26
2745 6704 3.058708 CGCATATCCAATTCAACGCTCAT 60.059 43.478 0.00 0.00 0.00 2.90
2746 6705 4.224433 GCATATCCAATTCAACGCTCATG 58.776 43.478 0.00 0.00 0.00 3.07
2768 6727 2.788786 CGTGTCAAAACAACATGGCTTC 59.211 45.455 0.00 0.00 37.08 3.86
2782 6741 1.472276 GGCTTCGCTACGACATGACG 61.472 60.000 15.87 15.87 34.89 4.35
2810 6769 8.410673 TGTGGTAAGCAATCCAAACTATTTTA 57.589 30.769 0.00 0.00 35.38 1.52
2811 6770 8.861086 TGTGGTAAGCAATCCAAACTATTTTAA 58.139 29.630 0.00 0.00 35.38 1.52
2812 6771 9.699703 GTGGTAAGCAATCCAAACTATTTTAAA 57.300 29.630 0.00 0.00 35.38 1.52
2849 6808 3.726144 GCTGAAGCCTGGCCTCCT 61.726 66.667 16.57 0.00 34.31 3.69
2900 6859 6.442112 GTTGCTCTGCTGTTTCTTCTATTTT 58.558 36.000 0.00 0.00 0.00 1.82
2901 6860 6.246420 TGCTCTGCTGTTTCTTCTATTTTC 57.754 37.500 0.00 0.00 0.00 2.29
2902 6861 6.000219 TGCTCTGCTGTTTCTTCTATTTTCT 59.000 36.000 0.00 0.00 0.00 2.52
2903 6862 6.072838 TGCTCTGCTGTTTCTTCTATTTTCTG 60.073 38.462 0.00 0.00 0.00 3.02
2904 6863 6.072783 GCTCTGCTGTTTCTTCTATTTTCTGT 60.073 38.462 0.00 0.00 0.00 3.41
2905 6864 7.521261 GCTCTGCTGTTTCTTCTATTTTCTGTT 60.521 37.037 0.00 0.00 0.00 3.16
2906 6865 8.225603 TCTGCTGTTTCTTCTATTTTCTGTTT 57.774 30.769 0.00 0.00 0.00 2.83
2907 6866 8.345565 TCTGCTGTTTCTTCTATTTTCTGTTTC 58.654 33.333 0.00 0.00 0.00 2.78
2908 6867 8.225603 TGCTGTTTCTTCTATTTTCTGTTTCT 57.774 30.769 0.00 0.00 0.00 2.52
2909 6868 8.131100 TGCTGTTTCTTCTATTTTCTGTTTCTG 58.869 33.333 0.00 0.00 0.00 3.02
2910 6869 8.131731 GCTGTTTCTTCTATTTTCTGTTTCTGT 58.868 33.333 0.00 0.00 0.00 3.41
3009 6968 9.337091 AGTTCATTGCGTGTTTATATACAAAAC 57.663 29.630 0.00 5.84 37.35 2.43
3011 6970 8.888332 TCATTGCGTGTTTATATACAAAACTG 57.112 30.769 11.71 7.20 37.64 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 1.656587 TCTAATGTCCACCTGCACCT 58.343 50.000 0.00 0.00 0.00 4.00
56 57 1.296715 GGATGTCACCGGCTTGTCT 59.703 57.895 0.00 0.00 0.00 3.41
111 112 3.055080 ATTCTCGGGCGCGTCGTAA 62.055 57.895 23.19 12.78 0.00 3.18
227 230 2.525248 CGCACCATGGGATTCGTCG 61.525 63.158 18.09 4.55 31.21 5.12
324 328 2.807045 GTGTCGTCGCTGCCTCAG 60.807 66.667 0.00 0.00 34.12 3.35
492 496 0.684479 CTCCAGATCAGTCGACCCCA 60.684 60.000 13.01 0.00 0.00 4.96
502 506 3.382865 CCGAGTCTTTCATCTCCAGATCA 59.617 47.826 0.00 0.00 31.21 2.92
572 576 2.203070 CCCTTCCGCCATCGAAGG 60.203 66.667 1.31 1.31 39.97 3.46
576 580 2.202932 CACTCCCTTCCGCCATCG 60.203 66.667 0.00 0.00 0.00 3.84
578 582 2.285368 TCCACTCCCTTCCGCCAT 60.285 61.111 0.00 0.00 0.00 4.40
585 589 1.694696 GTCACTTCACTCCACTCCCTT 59.305 52.381 0.00 0.00 0.00 3.95
696 725 1.992170 AATTGACCTAGACGTGCGTC 58.008 50.000 15.92 15.92 44.86 5.19
697 726 2.450609 AAATTGACCTAGACGTGCGT 57.549 45.000 0.00 0.00 0.00 5.24
698 727 3.806316 AAAAATTGACCTAGACGTGCG 57.194 42.857 0.00 0.00 0.00 5.34
721 750 0.387929 GTCAAGTCGGTGACAGGTCA 59.612 55.000 0.00 0.00 46.00 4.02
722 751 3.196613 GTCAAGTCGGTGACAGGTC 57.803 57.895 9.14 0.00 46.00 3.85
727 756 1.372623 GGACGGTCAAGTCGGTGAC 60.373 63.158 10.76 6.33 45.99 3.67
728 757 2.911484 CGGACGGTCAAGTCGGTGA 61.911 63.158 10.76 0.00 41.81 4.02
729 758 2.430244 CGGACGGTCAAGTCGGTG 60.430 66.667 10.76 0.00 41.81 4.94
730 759 2.908940 ACGGACGGTCAAGTCGGT 60.909 61.111 10.76 4.82 45.63 4.69
731 760 2.126580 GACGGACGGTCAAGTCGG 60.127 66.667 16.33 3.67 45.36 4.79
739 768 2.923426 TATACGCTCGGACGGACGGT 62.923 60.000 10.82 0.00 37.37 4.83
740 769 2.246739 TATACGCTCGGACGGACGG 61.247 63.158 10.82 0.00 37.37 4.79
741 770 1.083144 GTATACGCTCGGACGGACG 60.083 63.158 3.19 5.91 37.37 4.79
742 771 1.083144 CGTATACGCTCGGACGGAC 60.083 63.158 13.08 0.00 37.37 4.79
743 772 1.217585 CTCGTATACGCTCGGACGGA 61.218 60.000 20.42 0.00 39.60 4.69
744 773 1.203563 CTCGTATACGCTCGGACGG 59.796 63.158 20.42 0.00 39.60 4.79
745 774 1.438384 GCTCGTATACGCTCGGACG 60.438 63.158 20.42 0.00 39.60 4.79
746 775 1.438384 CGCTCGTATACGCTCGGAC 60.438 63.158 20.42 4.94 39.60 4.79
747 776 0.597377 TACGCTCGTATACGCTCGGA 60.597 55.000 28.66 23.13 39.60 4.55
748 777 0.441533 ATACGCTCGTATACGCTCGG 59.558 55.000 28.66 17.94 39.29 4.63
749 778 3.943220 ATACGCTCGTATACGCTCG 57.057 52.632 25.91 25.91 39.29 5.03
770 799 1.942586 GCCCCAAACCCGCTATATACG 60.943 57.143 0.00 0.00 0.00 3.06
771 800 1.817357 GCCCCAAACCCGCTATATAC 58.183 55.000 0.00 0.00 0.00 1.47
772 801 0.322322 CGCCCCAAACCCGCTATATA 59.678 55.000 0.00 0.00 0.00 0.86
773 802 1.072505 CGCCCCAAACCCGCTATAT 59.927 57.895 0.00 0.00 0.00 0.86
774 803 2.314415 GACGCCCCAAACCCGCTATA 62.314 60.000 0.00 0.00 0.00 1.31
775 804 3.692370 GACGCCCCAAACCCGCTAT 62.692 63.158 0.00 0.00 0.00 2.97
776 805 4.397832 GACGCCCCAAACCCGCTA 62.398 66.667 0.00 0.00 0.00 4.26
799 828 2.638329 CGCTATACGCATCTACGGC 58.362 57.895 0.00 0.00 39.08 5.68
810 839 4.164294 CAAACCCGCTCTATACGCTATAC 58.836 47.826 0.00 0.00 0.00 1.47
811 840 3.192001 CCAAACCCGCTCTATACGCTATA 59.808 47.826 0.00 0.00 0.00 1.31
812 841 2.029290 CCAAACCCGCTCTATACGCTAT 60.029 50.000 0.00 0.00 0.00 2.97
813 842 1.338973 CCAAACCCGCTCTATACGCTA 59.661 52.381 0.00 0.00 0.00 4.26
814 843 0.104304 CCAAACCCGCTCTATACGCT 59.896 55.000 0.00 0.00 0.00 5.07
815 844 0.179092 ACCAAACCCGCTCTATACGC 60.179 55.000 0.00 0.00 0.00 4.42
816 845 2.199236 GAACCAAACCCGCTCTATACG 58.801 52.381 0.00 0.00 0.00 3.06
817 846 2.199236 CGAACCAAACCCGCTCTATAC 58.801 52.381 0.00 0.00 0.00 1.47
818 847 1.826720 ACGAACCAAACCCGCTCTATA 59.173 47.619 0.00 0.00 0.00 1.31
819 848 0.611714 ACGAACCAAACCCGCTCTAT 59.388 50.000 0.00 0.00 0.00 1.98
820 849 0.037975 GACGAACCAAACCCGCTCTA 60.038 55.000 0.00 0.00 0.00 2.43
821 850 1.301479 GACGAACCAAACCCGCTCT 60.301 57.895 0.00 0.00 0.00 4.09
822 851 2.322830 GGACGAACCAAACCCGCTC 61.323 63.158 0.00 0.00 38.79 5.03
823 852 2.281276 GGACGAACCAAACCCGCT 60.281 61.111 0.00 0.00 38.79 5.52
824 853 3.719144 CGGACGAACCAAACCCGC 61.719 66.667 0.00 0.00 38.90 6.13
825 854 3.045492 CCGGACGAACCAAACCCG 61.045 66.667 0.00 0.00 38.90 5.28
826 855 3.359523 GCCGGACGAACCAAACCC 61.360 66.667 5.05 0.00 38.90 4.11
851 880 3.106672 CACGACGTTACCTTAGAGCATC 58.893 50.000 0.00 0.00 0.00 3.91
852 881 2.159282 CCACGACGTTACCTTAGAGCAT 60.159 50.000 0.00 0.00 0.00 3.79
853 882 1.200716 CCACGACGTTACCTTAGAGCA 59.799 52.381 0.00 0.00 0.00 4.26
854 883 1.470098 TCCACGACGTTACCTTAGAGC 59.530 52.381 0.00 0.00 0.00 4.09
855 884 2.746362 ACTCCACGACGTTACCTTAGAG 59.254 50.000 0.00 0.00 0.00 2.43
856 885 2.744202 GACTCCACGACGTTACCTTAGA 59.256 50.000 0.00 0.00 0.00 2.10
857 886 2.485426 TGACTCCACGACGTTACCTTAG 59.515 50.000 0.00 0.00 0.00 2.18
862 891 0.039798 TGCTGACTCCACGACGTTAC 60.040 55.000 0.00 0.00 0.00 2.50
887 1042 2.435059 GGCAGGTCGAGGCTTGAC 60.435 66.667 24.09 24.09 35.60 3.18
929 1084 2.515523 ATCATGTCTGCGCCTGGC 60.516 61.111 9.11 9.11 43.96 4.85
930 1085 1.153309 TCATCATGTCTGCGCCTGG 60.153 57.895 4.18 0.00 0.00 4.45
931 1086 0.461516 AGTCATCATGTCTGCGCCTG 60.462 55.000 4.18 0.00 0.00 4.85
932 1087 0.461516 CAGTCATCATGTCTGCGCCT 60.462 55.000 4.18 0.00 27.93 5.52
933 1088 0.742281 ACAGTCATCATGTCTGCGCC 60.742 55.000 11.36 0.00 37.09 6.53
934 1089 1.926561 TACAGTCATCATGTCTGCGC 58.073 50.000 11.36 0.00 37.09 6.09
1392 1558 3.030168 ATTGCCGGCGGATGTCTCA 62.030 57.895 33.44 14.47 0.00 3.27
1528 1727 3.908213 TCACGACGATCTGTTTCATGAA 58.092 40.909 3.38 3.38 0.00 2.57
1554 1753 2.029623 ACGTTGTACCAGACACAGAGT 58.970 47.619 0.00 0.00 37.96 3.24
1560 1759 3.509967 AGATGATGACGTTGTACCAGACA 59.490 43.478 0.00 0.00 35.78 3.41
1653 1852 2.847234 ACCTCCGTGCTCCCAACA 60.847 61.111 0.00 0.00 0.00 3.33
1707 1906 3.192954 TACCGCCGTCGACGTTGTT 62.193 57.895 33.49 17.86 38.10 2.83
1725 1924 1.304547 CGGACTCACCTCTCCCACT 60.305 63.158 0.00 0.00 36.31 4.00
1751 1950 2.584418 CGACCTCGGCATCTGCAG 60.584 66.667 7.63 7.63 44.36 4.41
1840 2039 4.728772 TGTGTGTTTGGGATCTTGAGAAT 58.271 39.130 0.00 0.00 0.00 2.40
1974 2173 8.706035 CACTTTTGAAGATGATGAAAACCATTC 58.294 33.333 0.00 0.00 35.17 2.67
2046 2247 3.252701 GCTGCTCATTGCTATGCTTGTAT 59.747 43.478 3.00 0.00 43.37 2.29
2109 2310 3.893813 GGCGGAGGGAGTAGTAGATTAAA 59.106 47.826 0.00 0.00 0.00 1.52
2110 2311 3.494332 GGCGGAGGGAGTAGTAGATTAA 58.506 50.000 0.00 0.00 0.00 1.40
2111 2312 2.224967 GGGCGGAGGGAGTAGTAGATTA 60.225 54.545 0.00 0.00 0.00 1.75
2112 2313 1.480869 GGGCGGAGGGAGTAGTAGATT 60.481 57.143 0.00 0.00 0.00 2.40
2114 2315 1.535685 GGGCGGAGGGAGTAGTAGA 59.464 63.158 0.00 0.00 0.00 2.59
2115 2316 1.531128 GGGGCGGAGGGAGTAGTAG 60.531 68.421 0.00 0.00 0.00 2.57
2117 2318 1.661990 TATGGGGCGGAGGGAGTAGT 61.662 60.000 0.00 0.00 0.00 2.73
2118 2319 0.471211 TTATGGGGCGGAGGGAGTAG 60.471 60.000 0.00 0.00 0.00 2.57
2176 2890 6.236409 ACTCCCTTCGTCTCATAATATACGA 58.764 40.000 0.00 0.00 42.12 3.43
2177 2891 6.497785 ACTCCCTTCGTCTCATAATATACG 57.502 41.667 0.00 0.00 36.71 3.06
2178 2892 9.398538 AGATACTCCCTTCGTCTCATAATATAC 57.601 37.037 0.00 0.00 0.00 1.47
2183 2897 7.515586 TCTAAGATACTCCCTTCGTCTCATAA 58.484 38.462 0.00 0.00 0.00 1.90
2187 2901 5.278120 GCTTCTAAGATACTCCCTTCGTCTC 60.278 48.000 0.00 0.00 0.00 3.36
2190 2904 4.339814 CAGCTTCTAAGATACTCCCTTCGT 59.660 45.833 0.00 0.00 0.00 3.85
2191 2905 4.261825 CCAGCTTCTAAGATACTCCCTTCG 60.262 50.000 0.00 0.00 0.00 3.79
2192 2906 4.896482 TCCAGCTTCTAAGATACTCCCTTC 59.104 45.833 0.00 0.00 0.00 3.46
2193 2907 4.884961 TCCAGCTTCTAAGATACTCCCTT 58.115 43.478 0.00 0.00 0.00 3.95
2194 2908 4.544564 TCCAGCTTCTAAGATACTCCCT 57.455 45.455 0.00 0.00 0.00 4.20
2232 5817 5.403246 AGTACATTCTTAACTGAGCACGAG 58.597 41.667 0.00 0.00 0.00 4.18
2234 5819 5.230306 GCTAGTACATTCTTAACTGAGCACG 59.770 44.000 0.00 0.00 0.00 5.34
2237 5822 6.254589 CACTGCTAGTACATTCTTAACTGAGC 59.745 42.308 0.00 0.00 0.00 4.26
2241 5826 6.127310 CCCTCACTGCTAGTACATTCTTAACT 60.127 42.308 0.00 0.00 0.00 2.24
2243 5828 5.720041 ACCCTCACTGCTAGTACATTCTTAA 59.280 40.000 0.00 0.00 0.00 1.85
2250 5835 3.733883 ACTACCCTCACTGCTAGTACA 57.266 47.619 0.00 0.00 0.00 2.90
2251 5836 4.521146 TGTACTACCCTCACTGCTAGTAC 58.479 47.826 8.11 8.11 40.70 2.73
2252 5837 4.849813 TGTACTACCCTCACTGCTAGTA 57.150 45.455 0.00 0.00 0.00 1.82
2253 5838 3.733883 TGTACTACCCTCACTGCTAGT 57.266 47.619 0.00 0.00 0.00 2.57
2254 5839 5.122554 CGATATGTACTACCCTCACTGCTAG 59.877 48.000 0.00 0.00 0.00 3.42
2255 5840 5.001874 CGATATGTACTACCCTCACTGCTA 58.998 45.833 0.00 0.00 0.00 3.49
2256 5841 3.821600 CGATATGTACTACCCTCACTGCT 59.178 47.826 0.00 0.00 0.00 4.24
2257 5842 3.568853 ACGATATGTACTACCCTCACTGC 59.431 47.826 0.00 0.00 0.00 4.40
2272 6077 7.359262 TCAGTTTCAAAGGTACAACGATATG 57.641 36.000 0.00 0.00 0.00 1.78
2294 6099 0.970427 TGTGCGTCATCTAGGGCTCA 60.970 55.000 0.00 0.00 0.00 4.26
2296 6101 0.613260 TTTGTGCGTCATCTAGGGCT 59.387 50.000 0.00 0.00 0.00 5.19
2298 6103 2.159627 GTGTTTTGTGCGTCATCTAGGG 59.840 50.000 0.00 0.00 0.00 3.53
2300 6105 4.457810 CAAGTGTTTTGTGCGTCATCTAG 58.542 43.478 0.00 0.00 0.00 2.43
2309 6114 3.367630 CAGTTTGTCCAAGTGTTTTGTGC 59.632 43.478 0.00 0.00 31.79 4.57
2311 6116 4.279671 TGTCAGTTTGTCCAAGTGTTTTGT 59.720 37.500 0.00 0.00 37.15 2.83
2323 6128 1.279840 GCGGCTGTGTCAGTTTGTC 59.720 57.895 0.00 0.00 33.43 3.18
2339 6144 3.053896 GTTCTTTCCACCGGGGCG 61.054 66.667 6.32 0.00 36.21 6.13
2360 6165 4.339530 TGGCTAGAGCATACACTTCTACAG 59.660 45.833 3.54 0.00 44.36 2.74
2365 6170 3.249559 GCATTGGCTAGAGCATACACTTC 59.750 47.826 3.54 0.00 44.36 3.01
2398 6203 9.613428 ATTATCTAGTCTCTTCTATCAGATCGG 57.387 37.037 0.00 0.00 0.00 4.18
2424 6229 9.309516 GAAGGAGATTGTTGACGTATAAATGTA 57.690 33.333 0.00 0.00 0.00 2.29
2426 6231 8.116753 GTGAAGGAGATTGTTGACGTATAAATG 58.883 37.037 0.00 0.00 0.00 2.32
2428 6233 6.309494 CGTGAAGGAGATTGTTGACGTATAAA 59.691 38.462 0.00 0.00 0.00 1.40
2429 6234 5.803461 CGTGAAGGAGATTGTTGACGTATAA 59.197 40.000 0.00 0.00 0.00 0.98
2431 6236 4.174009 CGTGAAGGAGATTGTTGACGTAT 58.826 43.478 0.00 0.00 0.00 3.06
2432 6237 3.005050 ACGTGAAGGAGATTGTTGACGTA 59.995 43.478 0.00 0.00 37.06 3.57
2434 6239 2.155732 CACGTGAAGGAGATTGTTGACG 59.844 50.000 10.90 0.00 0.00 4.35
2435 6240 2.096218 GCACGTGAAGGAGATTGTTGAC 60.096 50.000 22.23 0.00 0.00 3.18
2436 6241 2.143122 GCACGTGAAGGAGATTGTTGA 58.857 47.619 22.23 0.00 0.00 3.18
2437 6242 1.136252 CGCACGTGAAGGAGATTGTTG 60.136 52.381 22.23 0.00 0.00 3.33
2438 6243 1.148310 CGCACGTGAAGGAGATTGTT 58.852 50.000 22.23 0.00 0.00 2.83
2439 6244 0.670546 CCGCACGTGAAGGAGATTGT 60.671 55.000 22.23 0.00 0.00 2.71
2440 6245 1.970917 GCCGCACGTGAAGGAGATTG 61.971 60.000 27.54 6.70 0.00 2.67
2444 6249 2.811317 GAGCCGCACGTGAAGGAG 60.811 66.667 27.54 9.80 0.00 3.69
2453 6258 4.858680 GGCCTAAGGGAGCCGCAC 62.859 72.222 0.00 0.00 39.87 5.34
2462 6267 2.484947 GGATCCACGTTTAGGCCTAAGG 60.485 54.545 23.96 20.89 0.00 2.69
2481 6286 8.024145 ACAATTAAATTACAACCCACTTTGGA 57.976 30.769 0.00 0.00 40.96 3.53
2483 6288 7.928706 TGGACAATTAAATTACAACCCACTTTG 59.071 33.333 0.00 0.00 0.00 2.77
2490 6295 8.027189 GGTCTTCTGGACAATTAAATTACAACC 58.973 37.037 0.00 0.00 46.16 3.77
2495 6300 9.753674 AGATTGGTCTTCTGGACAATTAAATTA 57.246 29.630 0.00 0.00 46.16 1.40
2507 6312 6.760770 GTCTCTTTCATAGATTGGTCTTCTGG 59.239 42.308 0.00 0.00 35.87 3.86
2513 6318 6.183360 TGCCTAGTCTCTTTCATAGATTGGTC 60.183 42.308 0.00 0.00 30.92 4.02
2542 6348 7.015877 GTGGACCCAGGTGTAGATGTATAAATA 59.984 40.741 0.00 0.00 0.00 1.40
2551 6357 0.417841 AGGTGGACCCAGGTGTAGAT 59.582 55.000 0.00 0.00 36.42 1.98
2554 6360 1.608336 CGAGGTGGACCCAGGTGTA 60.608 63.158 0.00 0.00 36.42 2.90
2559 6365 0.902531 ATAACACGAGGTGGACCCAG 59.097 55.000 0.42 0.00 37.94 4.45
2571 6377 6.573725 GGCGCTAAGAAAATATTCATAACACG 59.426 38.462 7.64 0.00 38.06 4.49
2581 6387 2.880890 CTGCCAGGCGCTAAGAAAATAT 59.119 45.455 7.64 0.00 38.78 1.28
2586 6392 1.613317 TAGCTGCCAGGCGCTAAGAA 61.613 55.000 26.14 12.69 37.57 2.52
2597 6403 0.390340 CTCTCGTTTGCTAGCTGCCA 60.390 55.000 17.23 0.00 42.00 4.92
2601 6407 1.433534 GTTGCTCTCGTTTGCTAGCT 58.566 50.000 17.23 0.00 35.95 3.32
2621 6427 2.258897 GGTATCTAGCCGCCGAGC 59.741 66.667 0.00 0.00 0.00 5.03
2622 6428 2.561885 CGGTATCTAGCCGCCGAG 59.438 66.667 11.51 0.00 46.33 4.63
2628 6434 1.325355 TGGTGCTACGGTATCTAGCC 58.675 55.000 0.14 0.00 36.54 3.93
2629 6435 2.361438 AGTTGGTGCTACGGTATCTAGC 59.639 50.000 0.00 0.00 37.68 3.42
2630 6436 3.630769 TCAGTTGGTGCTACGGTATCTAG 59.369 47.826 0.00 0.00 0.00 2.43
2631 6437 3.623703 TCAGTTGGTGCTACGGTATCTA 58.376 45.455 0.00 0.00 0.00 1.98
2632 6438 2.453521 TCAGTTGGTGCTACGGTATCT 58.546 47.619 0.00 0.00 0.00 1.98
2633 6439 2.928116 GTTCAGTTGGTGCTACGGTATC 59.072 50.000 0.00 0.00 0.00 2.24
2634 6440 2.565834 AGTTCAGTTGGTGCTACGGTAT 59.434 45.455 0.00 0.00 0.00 2.73
2635 6441 1.965643 AGTTCAGTTGGTGCTACGGTA 59.034 47.619 0.00 0.00 0.00 4.02
2636 6442 0.756903 AGTTCAGTTGGTGCTACGGT 59.243 50.000 0.00 0.00 0.00 4.83
2639 6445 2.354805 CCCCTAGTTCAGTTGGTGCTAC 60.355 54.545 0.00 0.00 0.00 3.58
2650 6456 1.073284 GTTCTTGCCACCCCTAGTTCA 59.927 52.381 0.00 0.00 0.00 3.18
2692 6651 8.336806 GTGAATCTGCTTTAATCTGATCTTCAG 58.663 37.037 0.00 0.00 45.59 3.02
2720 6679 3.874543 AGCGTTGAATTGGATATGCGTTA 59.125 39.130 0.00 0.00 0.00 3.18
2727 6686 3.969117 GCATGAGCGTTGAATTGGATA 57.031 42.857 0.00 0.00 0.00 2.59
2743 6702 2.472115 CCATGTTGTTTTGACACGCATG 59.528 45.455 12.46 12.46 35.20 4.06
2744 6703 2.741612 CCATGTTGTTTTGACACGCAT 58.258 42.857 0.00 0.00 0.00 4.73
2745 6704 1.800655 GCCATGTTGTTTTGACACGCA 60.801 47.619 0.00 0.00 0.00 5.24
2746 6705 0.852136 GCCATGTTGTTTTGACACGC 59.148 50.000 0.00 0.00 0.00 5.34
2768 6727 1.555066 CATGCGTCATGTCGTAGCG 59.445 57.895 13.66 1.84 37.12 4.26
2782 6741 3.056607 AGTTTGGATTGCTTACCACATGC 60.057 43.478 0.00 0.00 35.81 4.06
2812 6771 2.255316 CGAAGCCACGTTGTTGTTTTT 58.745 42.857 0.00 0.00 0.00 1.94
2813 6772 1.902840 CGAAGCCACGTTGTTGTTTT 58.097 45.000 0.00 0.00 0.00 2.43
2814 6773 3.615099 CGAAGCCACGTTGTTGTTT 57.385 47.368 0.00 0.00 0.00 2.83
2876 6835 5.619625 AATAGAAGAAACAGCAGAGCAAC 57.380 39.130 0.00 0.00 0.00 4.17
2878 6837 6.000219 AGAAAATAGAAGAAACAGCAGAGCA 59.000 36.000 0.00 0.00 0.00 4.26
2879 6838 6.072783 ACAGAAAATAGAAGAAACAGCAGAGC 60.073 38.462 0.00 0.00 0.00 4.09
2881 6840 7.807977 AACAGAAAATAGAAGAAACAGCAGA 57.192 32.000 0.00 0.00 0.00 4.26
2980 6939 9.900710 TTGTATATAAACACGCAATGAACTTTT 57.099 25.926 0.00 0.00 0.00 2.27


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

AutoCloner maintained by Alex Coulton.