Multiple sequence alignment - TraesCS6D01G127400

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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 TraesCS6D01G127400 chr6D 100.000 3422 0 0 1 3422 91069949 91073370 0.000000e+00 6320.0
1 TraesCS6D01G127400 chr6D 81.599 663 90 16 12 660 157659662 157660306 1.410000e-143 520.0
2 TraesCS6D01G127400 chr6D 93.023 86 4 2 2584 2668 470575013 470575097 1.290000e-24 124.0
3 TraesCS6D01G127400 chr6A 96.395 1609 58 0 923 2531 109486248 109487856 0.000000e+00 2651.0
4 TraesCS6D01G127400 chr6A 96.748 492 11 4 2735 3222 109488016 109488506 0.000000e+00 815.0
5 TraesCS6D01G127400 chr6A 86.878 724 57 10 54 746 109485532 109486248 0.000000e+00 776.0
6 TraesCS6D01G127400 chr6A 95.480 177 7 1 3247 3422 109488677 109488853 7.230000e-72 281.0
7 TraesCS6D01G127400 chr6A 94.845 97 2 2 2631 2727 109487854 109487947 7.650000e-32 148.0
8 TraesCS6D01G127400 chr6A 95.556 45 2 0 873 917 608715094 608715138 4.740000e-09 73.1
9 TraesCS6D01G127400 chr6A 100.000 36 0 0 2796 2831 109487980 109488015 2.200000e-07 67.6
10 TraesCS6D01G127400 chr6A 88.636 44 4 1 2810 2852 109487953 109487996 6.000000e-03 52.8
11 TraesCS6D01G127400 chr6B 95.515 1650 67 3 934 2583 174947781 174949423 0.000000e+00 2630.0
12 TraesCS6D01G127400 chr6B 88.055 586 41 10 2684 3242 174949438 174950021 0.000000e+00 667.0
13 TraesCS6D01G127400 chr6B 93.976 83 5 0 2585 2667 146454870 146454788 3.590000e-25 126.0
14 TraesCS6D01G127400 chr6B 90.244 82 5 3 667 746 174947689 174947769 1.680000e-18 104.0
15 TraesCS6D01G127400 chr1A 86.853 502 56 7 1 492 549624682 549624181 1.390000e-153 553.0
16 TraesCS6D01G127400 chr1A 78.119 521 82 16 59 563 521346611 521347115 5.550000e-78 302.0
17 TraesCS6D01G127400 chr1A 90.083 121 12 0 759 879 575592185 575592305 1.270000e-34 158.0
18 TraesCS6D01G127400 chr5D 82.315 622 93 9 26 634 479911598 479912215 1.090000e-144 523.0
19 TraesCS6D01G127400 chr7D 81.250 608 97 16 62 659 54263081 54262481 3.090000e-130 475.0
20 TraesCS6D01G127400 chr7D 96.000 75 2 1 2592 2666 529677744 529677671 1.670000e-23 121.0
21 TraesCS6D01G127400 chr4B 79.747 632 102 11 14 634 639139867 639140483 5.240000e-118 435.0
22 TraesCS6D01G127400 chr4B 88.430 121 13 1 759 879 659160731 659160850 9.900000e-31 145.0
23 TraesCS6D01G127400 chr4B 95.556 45 2 0 873 917 58051642 58051598 4.740000e-09 73.1
24 TraesCS6D01G127400 chr4B 95.556 45 2 0 873 917 481527746 481527702 4.740000e-09 73.1
25 TraesCS6D01G127400 chr3A 79.160 595 95 18 26 608 621206826 621207403 5.360000e-103 385.0
26 TraesCS6D01G127400 chr7B 77.338 631 116 17 17 629 113538400 113537779 7.030000e-92 348.0
27 TraesCS6D01G127400 chr5A 90.909 121 10 1 759 879 580457709 580457828 9.830000e-36 161.0
28 TraesCS6D01G127400 chr5A 88.430 121 14 0 759 879 117627349 117627469 2.750000e-31 147.0
29 TraesCS6D01G127400 chr5A 88.430 121 14 0 759 879 150983400 150983520 2.750000e-31 147.0
30 TraesCS6D01G127400 chr5A 96.296 81 3 0 2584 2664 55159059 55158979 2.140000e-27 134.0
31 TraesCS6D01G127400 chr4A 89.256 121 12 1 759 879 727265076 727264957 2.130000e-32 150.0
32 TraesCS6D01G127400 chr4A 93.333 75 2 3 2592 2664 603323682 603323609 1.300000e-19 108.0
33 TraesCS6D01G127400 chr3D 88.430 121 14 0 759 879 238999441 238999561 2.750000e-31 147.0
34 TraesCS6D01G127400 chr3D 94.000 50 2 1 869 917 3081224 3081175 1.320000e-09 75.0
35 TraesCS6D01G127400 chr3D 95.556 45 2 0 873 917 92877528 92877484 4.740000e-09 73.1
36 TraesCS6D01G127400 chr2B 88.430 121 14 0 759 879 800062844 800062964 2.750000e-31 147.0
37 TraesCS6D01G127400 chr4D 87.603 121 15 0 759 879 35067054 35066934 1.280000e-29 141.0
38 TraesCS6D01G127400 chr4D 95.556 45 2 0 873 917 490615926 490615882 4.740000e-09 73.1
39 TraesCS6D01G127400 chr2D 77.481 262 38 13 139 389 147956654 147956403 1.660000e-28 137.0
40 TraesCS6D01G127400 chr2A 97.260 73 2 0 2592 2664 615347650 615347722 1.290000e-24 124.0
41 TraesCS6D01G127400 chr7A 94.937 79 2 2 2584 2661 475977189 475977266 4.640000e-24 122.0
42 TraesCS6D01G127400 chr5B 92.683 82 4 2 2585 2666 702567665 702567744 2.160000e-22 117.0
43 TraesCS6D01G127400 chr5B 95.556 45 2 0 873 917 17718269 17718313 4.740000e-09 73.1
44 TraesCS6D01G127400 chr1D 92.683 82 5 1 2587 2667 30101103 30101022 2.160000e-22 117.0
45 TraesCS6D01G127400 chr1D 95.556 45 2 0 873 917 103480748 103480704 4.740000e-09 73.1
46 TraesCS6D01G127400 chrUn 95.556 45 2 0 873 917 391833100 391833056 4.740000e-09 73.1
47 TraesCS6D01G127400 chr3B 83.099 71 9 3 2556 2623 607525681 607525751 1.030000e-05 62.1


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 TraesCS6D01G127400 chr6D 91069949 91073370 3421 False 6320.000000 6320 100.000000 1 3422 1 chr6D.!!$F1 3421
1 TraesCS6D01G127400 chr6D 157659662 157660306 644 False 520.000000 520 81.599000 12 660 1 chr6D.!!$F2 648
2 TraesCS6D01G127400 chr6A 109485532 109488853 3321 False 684.485714 2651 94.140286 54 3422 7 chr6A.!!$F2 3368
3 TraesCS6D01G127400 chr6B 174947689 174950021 2332 False 1133.666667 2630 91.271333 667 3242 3 chr6B.!!$F1 2575
4 TraesCS6D01G127400 chr1A 549624181 549624682 501 True 553.000000 553 86.853000 1 492 1 chr1A.!!$R1 491
5 TraesCS6D01G127400 chr1A 521346611 521347115 504 False 302.000000 302 78.119000 59 563 1 chr1A.!!$F1 504
6 TraesCS6D01G127400 chr5D 479911598 479912215 617 False 523.000000 523 82.315000 26 634 1 chr5D.!!$F1 608
7 TraesCS6D01G127400 chr7D 54262481 54263081 600 True 475.000000 475 81.250000 62 659 1 chr7D.!!$R1 597
8 TraesCS6D01G127400 chr4B 639139867 639140483 616 False 435.000000 435 79.747000 14 634 1 chr4B.!!$F1 620
9 TraesCS6D01G127400 chr3A 621206826 621207403 577 False 385.000000 385 79.160000 26 608 1 chr3A.!!$F1 582
10 TraesCS6D01G127400 chr7B 113537779 113538400 621 True 348.000000 348 77.338000 17 629 1 chr7B.!!$R1 612

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
738 788 0.111253 GGGAAGGTGGGATAGCATGG 59.889 60.0 0.00 0.00 0.00 3.66 F
1329 1380 0.729140 GCCTGTTCGAACAAATGCGG 60.729 55.0 29.32 25.63 38.66 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1539 1590 0.256752 TCCATGCAACCAGATCCCTG 59.743 55.000 0.0 0.0 40.09 4.45 R
2653 2704 1.144057 GTGGCATGTACTCCCTCCG 59.856 63.158 0.0 0.0 0.00 4.63 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
39 41 1.600636 CCGTCACCATGGCACTGTT 60.601 57.895 13.04 0.00 0.00 3.16
171 178 4.832608 GGCATGTCGGTCGGGGAC 62.833 72.222 0.00 0.00 34.99 4.46
276 294 2.639839 ACTCCAAGACACCTGCATACTT 59.360 45.455 0.00 0.00 0.00 2.24
326 345 2.283388 CCAAGCACCAGCCACCAT 60.283 61.111 0.00 0.00 43.56 3.55
420 442 2.426431 TCACTAGGGTGGGGAAGAAA 57.574 50.000 0.00 0.00 43.17 2.52
618 666 0.174389 GCAGAGAAGATCGCCTCACA 59.826 55.000 16.20 0.00 32.07 3.58
661 711 3.203716 GTGAGAGAAAAGTTGGAACCGT 58.796 45.455 0.00 0.00 0.00 4.83
664 714 4.334481 TGAGAGAAAAGTTGGAACCGTTTC 59.666 41.667 7.65 7.65 35.38 2.78
665 715 4.266714 AGAGAAAAGTTGGAACCGTTTCA 58.733 39.130 14.21 0.00 36.58 2.69
736 786 2.056906 GCGGGAAGGTGGGATAGCAT 62.057 60.000 0.00 0.00 0.00 3.79
738 788 0.111253 GGGAAGGTGGGATAGCATGG 59.889 60.000 0.00 0.00 0.00 3.66
740 790 0.846693 GAAGGTGGGATAGCATGGGT 59.153 55.000 0.00 0.00 0.00 4.51
741 791 2.054799 GAAGGTGGGATAGCATGGGTA 58.945 52.381 0.00 0.00 0.00 3.69
742 792 1.435256 AGGTGGGATAGCATGGGTAC 58.565 55.000 0.00 0.00 0.00 3.34
743 793 1.061346 AGGTGGGATAGCATGGGTACT 60.061 52.381 0.00 0.00 0.00 2.73
744 794 2.181419 AGGTGGGATAGCATGGGTACTA 59.819 50.000 0.00 0.00 0.00 1.82
746 796 3.197983 GGTGGGATAGCATGGGTACTATC 59.802 52.174 8.71 8.71 42.62 2.08
747 797 4.097418 GTGGGATAGCATGGGTACTATCT 58.903 47.826 14.13 0.00 42.83 1.98
748 798 4.160626 GTGGGATAGCATGGGTACTATCTC 59.839 50.000 14.13 12.02 43.72 2.75
749 799 4.045974 TGGGATAGCATGGGTACTATCTCT 59.954 45.833 15.04 0.00 43.78 3.10
750 800 4.647399 GGGATAGCATGGGTACTATCTCTC 59.353 50.000 14.13 2.97 41.33 3.20
751 801 4.647399 GGATAGCATGGGTACTATCTCTCC 59.353 50.000 14.13 1.49 42.83 3.71
752 802 2.520069 AGCATGGGTACTATCTCTCCG 58.480 52.381 0.00 0.00 0.00 4.63
753 803 2.158445 AGCATGGGTACTATCTCTCCGT 60.158 50.000 0.00 0.00 0.00 4.69
754 804 2.628657 GCATGGGTACTATCTCTCCGTT 59.371 50.000 0.00 0.00 0.00 4.44
755 805 3.305471 GCATGGGTACTATCTCTCCGTTC 60.305 52.174 0.00 0.00 0.00 3.95
756 806 3.947612 TGGGTACTATCTCTCCGTTCT 57.052 47.619 0.00 0.00 0.00 3.01
757 807 4.246712 TGGGTACTATCTCTCCGTTCTT 57.753 45.455 0.00 0.00 0.00 2.52
758 808 4.607239 TGGGTACTATCTCTCCGTTCTTT 58.393 43.478 0.00 0.00 0.00 2.52
759 809 5.021458 TGGGTACTATCTCTCCGTTCTTTT 58.979 41.667 0.00 0.00 0.00 2.27
760 810 5.482878 TGGGTACTATCTCTCCGTTCTTTTT 59.517 40.000 0.00 0.00 0.00 1.94
761 811 5.811100 GGGTACTATCTCTCCGTTCTTTTTG 59.189 44.000 0.00 0.00 0.00 2.44
762 812 6.396450 GGTACTATCTCTCCGTTCTTTTTGT 58.604 40.000 0.00 0.00 0.00 2.83
763 813 7.363268 GGGTACTATCTCTCCGTTCTTTTTGTA 60.363 40.741 0.00 0.00 0.00 2.41
764 814 7.701501 GGTACTATCTCTCCGTTCTTTTTGTAG 59.298 40.741 0.00 0.00 0.00 2.74
765 815 7.463961 ACTATCTCTCCGTTCTTTTTGTAGA 57.536 36.000 0.00 0.00 0.00 2.59
766 816 7.540299 ACTATCTCTCCGTTCTTTTTGTAGAG 58.460 38.462 0.00 0.00 0.00 2.43
767 817 6.591750 ATCTCTCCGTTCTTTTTGTAGAGA 57.408 37.500 0.00 0.00 41.43 3.10
768 818 6.591750 TCTCTCCGTTCTTTTTGTAGAGAT 57.408 37.500 0.00 0.00 34.58 2.75
769 819 6.994221 TCTCTCCGTTCTTTTTGTAGAGATT 58.006 36.000 0.00 0.00 34.58 2.40
770 820 7.442656 TCTCTCCGTTCTTTTTGTAGAGATTT 58.557 34.615 0.00 0.00 34.58 2.17
771 821 7.599245 TCTCTCCGTTCTTTTTGTAGAGATTTC 59.401 37.037 0.00 0.00 34.58 2.17
772 822 7.214381 TCTCCGTTCTTTTTGTAGAGATTTCA 58.786 34.615 0.00 0.00 0.00 2.69
773 823 7.385205 TCTCCGTTCTTTTTGTAGAGATTTCAG 59.615 37.037 0.00 0.00 0.00 3.02
774 824 6.990349 TCCGTTCTTTTTGTAGAGATTTCAGT 59.010 34.615 0.00 0.00 0.00 3.41
775 825 8.145767 TCCGTTCTTTTTGTAGAGATTTCAGTA 58.854 33.333 0.00 0.00 0.00 2.74
776 826 8.936864 CCGTTCTTTTTGTAGAGATTTCAGTAT 58.063 33.333 0.00 0.00 0.00 2.12
777 827 9.746711 CGTTCTTTTTGTAGAGATTTCAGTATG 57.253 33.333 0.00 0.00 37.54 2.39
780 830 9.436957 TCTTTTTGTAGAGATTTCAGTATGGAC 57.563 33.333 0.00 0.00 36.16 4.02
781 831 8.561738 TTTTTGTAGAGATTTCAGTATGGACC 57.438 34.615 0.00 0.00 36.16 4.46
782 832 6.867519 TTGTAGAGATTTCAGTATGGACCA 57.132 37.500 0.00 0.00 36.16 4.02
783 833 6.222038 TGTAGAGATTTCAGTATGGACCAC 57.778 41.667 0.00 0.00 36.16 4.16
784 834 5.719563 TGTAGAGATTTCAGTATGGACCACA 59.280 40.000 0.00 0.00 36.16 4.17
785 835 5.965033 AGAGATTTCAGTATGGACCACAT 57.035 39.130 0.00 0.00 43.68 3.21
786 836 7.563556 TGTAGAGATTTCAGTATGGACCACATA 59.436 37.037 0.00 0.00 41.03 2.29
787 837 7.623999 AGAGATTTCAGTATGGACCACATAT 57.376 36.000 0.00 0.00 43.55 1.78
788 838 7.448420 AGAGATTTCAGTATGGACCACATATG 58.552 38.462 0.00 0.00 43.55 1.78
789 839 6.537355 AGATTTCAGTATGGACCACATATGG 58.463 40.000 7.80 0.00 43.55 2.74
790 840 5.966853 TTTCAGTATGGACCACATATGGA 57.033 39.130 7.80 0.00 43.01 3.41
791 841 6.514012 TTTCAGTATGGACCACATATGGAT 57.486 37.500 7.80 0.00 43.01 3.41
792 842 5.488262 TCAGTATGGACCACATATGGATG 57.512 43.478 7.80 0.00 43.01 3.51
793 843 4.907269 TCAGTATGGACCACATATGGATGT 59.093 41.667 7.80 0.62 43.01 3.06
794 844 6.081356 TCAGTATGGACCACATATGGATGTA 58.919 40.000 7.80 0.00 43.01 2.29
795 845 6.730507 TCAGTATGGACCACATATGGATGTAT 59.269 38.462 7.80 0.00 43.01 2.29
796 846 7.093333 TCAGTATGGACCACATATGGATGTATC 60.093 40.741 7.80 0.00 43.01 2.24
841 891 8.798859 AGATTTACTCATTTTGCTCTGTATGT 57.201 30.769 0.00 0.00 0.00 2.29
842 892 9.890629 AGATTTACTCATTTTGCTCTGTATGTA 57.109 29.630 0.00 0.00 0.00 2.29
844 894 9.672673 ATTTACTCATTTTGCTCTGTATGTAGT 57.327 29.630 0.00 0.00 0.00 2.73
845 895 8.703604 TTACTCATTTTGCTCTGTATGTAGTC 57.296 34.615 0.00 0.00 0.00 2.59
846 896 6.109359 ACTCATTTTGCTCTGTATGTAGTCC 58.891 40.000 0.00 0.00 0.00 3.85
847 897 6.048732 TCATTTTGCTCTGTATGTAGTCCA 57.951 37.500 0.00 0.00 0.00 4.02
848 898 6.653020 TCATTTTGCTCTGTATGTAGTCCAT 58.347 36.000 0.00 0.00 37.58 3.41
849 899 7.791029 TCATTTTGCTCTGTATGTAGTCCATA 58.209 34.615 0.00 0.00 34.86 2.74
850 900 7.928167 TCATTTTGCTCTGTATGTAGTCCATAG 59.072 37.037 0.00 0.00 36.71 2.23
851 901 6.791867 TTTGCTCTGTATGTAGTCCATAGT 57.208 37.500 0.00 0.00 36.71 2.12
852 902 5.774498 TGCTCTGTATGTAGTCCATAGTG 57.226 43.478 0.00 0.00 36.71 2.74
853 903 5.445964 TGCTCTGTATGTAGTCCATAGTGA 58.554 41.667 0.00 0.00 36.71 3.41
854 904 5.891551 TGCTCTGTATGTAGTCCATAGTGAA 59.108 40.000 0.00 0.00 36.71 3.18
855 905 6.379988 TGCTCTGTATGTAGTCCATAGTGAAA 59.620 38.462 0.00 0.00 36.71 2.69
856 906 7.069950 TGCTCTGTATGTAGTCCATAGTGAAAT 59.930 37.037 0.00 0.00 36.71 2.17
857 907 7.596995 GCTCTGTATGTAGTCCATAGTGAAATC 59.403 40.741 0.00 0.00 36.71 2.17
858 908 8.768501 TCTGTATGTAGTCCATAGTGAAATCT 57.231 34.615 0.00 0.00 36.71 2.40
859 909 8.851145 TCTGTATGTAGTCCATAGTGAAATCTC 58.149 37.037 0.00 0.00 36.71 2.75
860 910 7.952671 TGTATGTAGTCCATAGTGAAATCTCC 58.047 38.462 0.00 0.00 36.71 3.71
861 911 7.785028 TGTATGTAGTCCATAGTGAAATCTCCT 59.215 37.037 0.00 0.00 36.71 3.69
862 912 6.716934 TGTAGTCCATAGTGAAATCTCCTC 57.283 41.667 0.00 0.00 0.00 3.71
863 913 6.194967 TGTAGTCCATAGTGAAATCTCCTCA 58.805 40.000 0.00 0.00 0.00 3.86
864 914 6.667848 TGTAGTCCATAGTGAAATCTCCTCAA 59.332 38.462 0.00 0.00 0.00 3.02
865 915 6.627087 AGTCCATAGTGAAATCTCCTCAAA 57.373 37.500 0.00 0.00 0.00 2.69
866 916 6.648192 AGTCCATAGTGAAATCTCCTCAAAG 58.352 40.000 0.00 0.00 0.00 2.77
867 917 6.441924 AGTCCATAGTGAAATCTCCTCAAAGA 59.558 38.462 0.00 0.00 0.00 2.52
868 918 6.536941 GTCCATAGTGAAATCTCCTCAAAGAC 59.463 42.308 0.00 0.00 0.00 3.01
869 919 6.441924 TCCATAGTGAAATCTCCTCAAAGACT 59.558 38.462 0.00 0.00 0.00 3.24
870 920 7.038017 TCCATAGTGAAATCTCCTCAAAGACTT 60.038 37.037 0.00 0.00 0.00 3.01
871 921 8.260818 CCATAGTGAAATCTCCTCAAAGACTTA 58.739 37.037 0.00 0.00 0.00 2.24
872 922 9.829507 CATAGTGAAATCTCCTCAAAGACTTAT 57.170 33.333 0.00 0.00 0.00 1.73
882 932 9.488762 TCTCCTCAAAGACTTATATTTAGTCCA 57.511 33.333 11.85 0.00 42.35 4.02
902 952 8.367660 AGTCCATACTGAAATCTCTACAAAGA 57.632 34.615 0.00 0.00 33.57 2.52
903 953 8.254508 AGTCCATACTGAAATCTCTACAAAGAC 58.745 37.037 0.00 0.00 33.57 3.01
904 954 8.254508 GTCCATACTGAAATCTCTACAAAGACT 58.745 37.037 0.00 0.00 0.00 3.24
905 955 8.816894 TCCATACTGAAATCTCTACAAAGACTT 58.183 33.333 0.00 0.00 0.00 3.01
991 1042 3.614399 GGATATGCCTTCCGGACTG 57.386 57.895 1.83 0.00 0.00 3.51
1329 1380 0.729140 GCCTGTTCGAACAAATGCGG 60.729 55.000 29.32 25.63 38.66 5.69
1539 1590 0.810648 TGTTCGATGAAATGCAGGCC 59.189 50.000 0.00 0.00 0.00 5.19
1629 1680 4.637977 GCTGAGGTCTTTAAGGAAATGAGG 59.362 45.833 0.00 0.00 0.00 3.86
1734 1785 2.925162 CTAAGGGGCTGCACGGCTAC 62.925 65.000 0.50 0.00 38.46 3.58
1872 1923 3.009143 AGGACCTACTTTCATGGACAACC 59.991 47.826 0.00 0.00 0.00 3.77
1908 1959 1.133790 GCTTCTCATGGACATGGCAAC 59.866 52.381 11.98 0.00 39.24 4.17
2041 2092 6.723052 GGGGATATCAATCTTCAATTCCATGT 59.277 38.462 4.83 0.00 32.29 3.21
2049 2100 4.893608 TCTTCAATTCCATGTCGAGTGAA 58.106 39.130 0.00 0.00 0.00 3.18
2054 2105 5.812127 TCAATTCCATGTCGAGTGAATACAG 59.188 40.000 0.00 0.00 0.00 2.74
2060 2111 2.894765 TGTCGAGTGAATACAGGGTCAA 59.105 45.455 0.00 0.00 0.00 3.18
2157 2208 5.695816 GCTTATTGACAACATGCCTTTTGAA 59.304 36.000 0.00 0.00 0.00 2.69
2211 2262 4.643334 AGTGCATGCAGTGTCAATAATGAT 59.357 37.500 26.95 0.00 38.01 2.45
2420 2471 7.279615 TCAGAAGTTCCTTTCATGAGTTTGTA 58.720 34.615 0.00 0.00 0.00 2.41
2434 2485 4.518970 TGAGTTTGTAATTTGGAGGTGAGC 59.481 41.667 0.00 0.00 0.00 4.26
2466 2517 4.818534 TCAATTGAGTTGCTCTTGTCAC 57.181 40.909 3.38 0.00 37.74 3.67
2562 2613 8.722480 TGATTCTCATGGTTATGTAAGTTGAG 57.278 34.615 0.00 0.00 35.73 3.02
2583 2634 6.437928 TGAGAAATGAATGTGTAAGTTGCAC 58.562 36.000 16.28 16.28 37.37 4.57
2584 2635 5.772521 AGAAATGAATGTGTAAGTTGCACC 58.227 37.500 19.66 6.74 36.11 5.01
2585 2636 5.536161 AGAAATGAATGTGTAAGTTGCACCT 59.464 36.000 19.66 8.68 36.11 4.00
2586 2637 5.376854 AATGAATGTGTAAGTTGCACCTC 57.623 39.130 19.66 16.00 36.11 3.85
2587 2638 4.085357 TGAATGTGTAAGTTGCACCTCT 57.915 40.909 19.66 5.65 36.11 3.69
2588 2639 3.814842 TGAATGTGTAAGTTGCACCTCTG 59.185 43.478 19.66 0.00 36.11 3.35
2589 2640 1.593196 TGTGTAAGTTGCACCTCTGC 58.407 50.000 19.66 0.00 44.52 4.26
2590 2641 1.140852 TGTGTAAGTTGCACCTCTGCT 59.859 47.619 19.66 0.00 44.57 4.24
2591 2642 1.801178 GTGTAAGTTGCACCTCTGCTC 59.199 52.381 12.62 0.00 44.57 4.26
2592 2643 1.270839 TGTAAGTTGCACCTCTGCTCC 60.271 52.381 0.00 0.00 44.57 4.70
2593 2644 1.055849 TAAGTTGCACCTCTGCTCCA 58.944 50.000 0.00 0.00 44.57 3.86
2594 2645 0.183492 AAGTTGCACCTCTGCTCCAA 59.817 50.000 0.00 0.00 44.57 3.53
2595 2646 0.183492 AGTTGCACCTCTGCTCCAAA 59.817 50.000 0.00 0.00 44.57 3.28
2596 2647 1.032014 GTTGCACCTCTGCTCCAAAA 58.968 50.000 0.00 0.00 44.57 2.44
2597 2648 1.615392 GTTGCACCTCTGCTCCAAAAT 59.385 47.619 0.00 0.00 44.57 1.82
2598 2649 2.819608 GTTGCACCTCTGCTCCAAAATA 59.180 45.455 0.00 0.00 44.57 1.40
2599 2650 3.153369 TGCACCTCTGCTCCAAAATAA 57.847 42.857 0.00 0.00 44.57 1.40
2600 2651 3.084039 TGCACCTCTGCTCCAAAATAAG 58.916 45.455 0.00 0.00 44.57 1.73
2601 2652 3.084786 GCACCTCTGCTCCAAAATAAGT 58.915 45.455 0.00 0.00 40.63 2.24
2602 2653 3.119708 GCACCTCTGCTCCAAAATAAGTG 60.120 47.826 0.00 0.00 40.63 3.16
2603 2654 4.074970 CACCTCTGCTCCAAAATAAGTGT 58.925 43.478 0.00 0.00 0.00 3.55
2604 2655 4.154918 CACCTCTGCTCCAAAATAAGTGTC 59.845 45.833 0.00 0.00 0.00 3.67
2605 2656 4.042187 ACCTCTGCTCCAAAATAAGTGTCT 59.958 41.667 0.00 0.00 0.00 3.41
2606 2657 4.633565 CCTCTGCTCCAAAATAAGTGTCTC 59.366 45.833 0.00 0.00 0.00 3.36
2607 2658 5.227569 TCTGCTCCAAAATAAGTGTCTCA 57.772 39.130 0.00 0.00 0.00 3.27
2608 2659 5.620206 TCTGCTCCAAAATAAGTGTCTCAA 58.380 37.500 0.00 0.00 0.00 3.02
2609 2660 5.470098 TCTGCTCCAAAATAAGTGTCTCAAC 59.530 40.000 0.00 0.00 0.00 3.18
2610 2661 5.376625 TGCTCCAAAATAAGTGTCTCAACT 58.623 37.500 0.00 0.00 0.00 3.16
2611 2662 5.827797 TGCTCCAAAATAAGTGTCTCAACTT 59.172 36.000 0.00 0.00 42.89 2.66
2612 2663 6.321181 TGCTCCAAAATAAGTGTCTCAACTTT 59.679 34.615 0.00 0.00 40.77 2.66
2613 2664 7.500892 TGCTCCAAAATAAGTGTCTCAACTTTA 59.499 33.333 0.00 0.00 40.77 1.85
2614 2665 8.017946 GCTCCAAAATAAGTGTCTCAACTTTAG 58.982 37.037 0.00 0.00 40.77 1.85
2615 2666 8.974060 TCCAAAATAAGTGTCTCAACTTTAGT 57.026 30.769 0.00 0.00 40.77 2.24
2623 2674 8.788325 AAGTGTCTCAACTTTAGTACAACTTT 57.212 30.769 0.00 0.00 37.05 2.66
2624 2675 8.197988 AGTGTCTCAACTTTAGTACAACTTTG 57.802 34.615 0.00 0.00 0.00 2.77
2625 2676 7.822822 AGTGTCTCAACTTTAGTACAACTTTGT 59.177 33.333 0.00 0.00 44.86 2.83
2626 2677 9.090692 GTGTCTCAACTTTAGTACAACTTTGTA 57.909 33.333 0.00 0.00 42.35 2.41
2651 2702 8.166422 ACTAAAGTTGAGACACTTATTTTGGG 57.834 34.615 0.00 0.00 35.87 4.12
2652 2703 7.996644 ACTAAAGTTGAGACACTTATTTTGGGA 59.003 33.333 0.00 0.00 35.87 4.37
2653 2704 6.635030 AAGTTGAGACACTTATTTTGGGAC 57.365 37.500 0.00 0.00 35.10 4.46
2657 2708 3.933332 GAGACACTTATTTTGGGACGGAG 59.067 47.826 0.00 0.00 0.00 4.63
2733 2784 8.693625 TGCTGGATAGAGATCAATATCTGTATG 58.306 37.037 9.12 0.00 44.56 2.39
2951 3079 6.324770 GTCCTCATATGGGGTTTGATTTTCAT 59.675 38.462 21.37 0.00 0.00 2.57
3033 3174 8.960591 TCTGTTTTAGATTCCCATGAGAATTTC 58.039 33.333 3.75 0.00 36.60 2.17
3190 3331 5.000591 TGATTTTCATGCGAACTGGTAAGA 58.999 37.500 0.00 0.00 0.00 2.10
3198 3339 2.662156 GCGAACTGGTAAGAAAGTCTCG 59.338 50.000 0.00 0.00 33.77 4.04
3202 3343 4.506886 ACTGGTAAGAAAGTCTCGTCAG 57.493 45.455 0.00 0.00 0.00 3.51
3222 3363 5.178809 GTCAGTTACTTTTACGACAAGGCAT 59.821 40.000 0.00 0.00 0.00 4.40
3242 3383 6.051717 GGCATCACTATCTCTTCTTTGCTTA 58.948 40.000 0.00 0.00 0.00 3.09
3244 3385 7.307870 GGCATCACTATCTCTTCTTTGCTTATG 60.308 40.741 0.00 0.00 0.00 1.90
3245 3386 7.440556 GCATCACTATCTCTTCTTTGCTTATGA 59.559 37.037 0.00 0.00 0.00 2.15
3272 3559 9.847706 AGTAGATATCAGCGTATTATGTCAAAG 57.152 33.333 5.32 0.00 0.00 2.77
3293 3580 5.126699 AGAAAAGTACTCCCTCCGAGATA 57.873 43.478 0.00 0.00 41.63 1.98
3298 3585 0.927767 ACTCCCTCCGAGATACCAGT 59.072 55.000 0.00 0.00 41.63 4.00
3337 3624 4.799564 ACTGTGTTGAAATTGTTGTGGT 57.200 36.364 0.00 0.00 0.00 4.16
3389 3677 9.672673 GCATATTATACCTGTGGAATCATAAGT 57.327 33.333 0.00 0.00 0.00 2.24
3398 3686 6.032956 TGTGGAATCATAAGTACGTTGACT 57.967 37.500 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 38 5.417580 AGGCTACTTGTGTTTTTCTTCAACA 59.582 36.000 0.00 0.00 0.00 3.33
39 41 4.578928 GGAGGCTACTTGTGTTTTTCTTCA 59.421 41.667 0.00 0.00 0.00 3.02
171 178 1.077212 CTGGCAGACTTGGGGATGG 60.077 63.158 9.42 0.00 0.00 3.51
276 294 2.264480 CATCGTCGGCTGGTCCAA 59.736 61.111 0.00 0.00 34.01 3.53
326 345 6.543100 ACTTTGGTTTTGACGATGTTAGGTTA 59.457 34.615 0.00 0.00 0.00 2.85
420 442 4.378563 CGCGTCGGAATAAGATGACTCTAT 60.379 45.833 0.00 0.00 0.00 1.98
447 470 3.243805 TGTTGCATTTGTGGTGGAATCAG 60.244 43.478 0.00 0.00 29.68 2.90
618 666 2.816958 CGCTCTGCACAGGCGATT 60.817 61.111 21.28 0.00 44.79 3.34
637 687 3.315470 GGTTCCAACTTTTCTCTCACCAC 59.685 47.826 0.00 0.00 0.00 4.16
661 711 4.927267 ACTCACCCAGGTTATCATGAAA 57.073 40.909 0.00 0.00 0.00 2.69
664 714 4.220693 TCAACTCACCCAGGTTATCATG 57.779 45.455 0.00 0.00 0.00 3.07
665 715 4.289672 AGTTCAACTCACCCAGGTTATCAT 59.710 41.667 0.00 0.00 0.00 2.45
719 769 0.111253 CCATGCTATCCCACCTTCCC 59.889 60.000 0.00 0.00 0.00 3.97
736 786 3.947612 AGAACGGAGAGATAGTACCCA 57.052 47.619 0.00 0.00 0.00 4.51
738 788 6.396450 ACAAAAAGAACGGAGAGATAGTACC 58.604 40.000 0.00 0.00 0.00 3.34
740 790 8.571461 TCTACAAAAAGAACGGAGAGATAGTA 57.429 34.615 0.00 0.00 0.00 1.82
741 791 7.393796 TCTCTACAAAAAGAACGGAGAGATAGT 59.606 37.037 0.00 0.00 34.50 2.12
742 792 7.763356 TCTCTACAAAAAGAACGGAGAGATAG 58.237 38.462 0.00 0.00 34.50 2.08
743 793 7.698506 TCTCTACAAAAAGAACGGAGAGATA 57.301 36.000 0.00 0.00 34.50 1.98
744 794 6.591750 TCTCTACAAAAAGAACGGAGAGAT 57.408 37.500 0.00 0.00 34.50 2.75
746 796 7.385205 TGAAATCTCTACAAAAAGAACGGAGAG 59.615 37.037 0.00 0.00 32.96 3.20
747 797 7.214381 TGAAATCTCTACAAAAAGAACGGAGA 58.786 34.615 0.00 0.00 33.77 3.71
748 798 7.171678 ACTGAAATCTCTACAAAAAGAACGGAG 59.828 37.037 0.00 0.00 0.00 4.63
749 799 6.990349 ACTGAAATCTCTACAAAAAGAACGGA 59.010 34.615 0.00 0.00 0.00 4.69
750 800 7.190920 ACTGAAATCTCTACAAAAAGAACGG 57.809 36.000 0.00 0.00 0.00 4.44
751 801 9.746711 CATACTGAAATCTCTACAAAAAGAACG 57.253 33.333 0.00 0.00 0.00 3.95
754 804 9.436957 GTCCATACTGAAATCTCTACAAAAAGA 57.563 33.333 0.00 0.00 0.00 2.52
755 805 8.669243 GGTCCATACTGAAATCTCTACAAAAAG 58.331 37.037 0.00 0.00 0.00 2.27
756 806 8.160765 TGGTCCATACTGAAATCTCTACAAAAA 58.839 33.333 0.00 0.00 0.00 1.94
757 807 7.606456 GTGGTCCATACTGAAATCTCTACAAAA 59.394 37.037 0.00 0.00 0.00 2.44
758 808 7.103641 GTGGTCCATACTGAAATCTCTACAAA 58.896 38.462 0.00 0.00 0.00 2.83
759 809 6.212589 TGTGGTCCATACTGAAATCTCTACAA 59.787 38.462 0.00 0.00 0.00 2.41
760 810 5.719563 TGTGGTCCATACTGAAATCTCTACA 59.280 40.000 0.00 0.00 0.00 2.74
761 811 6.222038 TGTGGTCCATACTGAAATCTCTAC 57.778 41.667 0.00 0.00 0.00 2.59
762 812 8.588472 CATATGTGGTCCATACTGAAATCTCTA 58.412 37.037 0.00 0.00 38.83 2.43
763 813 5.965033 ATGTGGTCCATACTGAAATCTCT 57.035 39.130 0.00 0.00 29.82 3.10
764 814 6.652481 CCATATGTGGTCCATACTGAAATCTC 59.348 42.308 0.00 0.00 38.83 2.75
765 815 6.329986 TCCATATGTGGTCCATACTGAAATCT 59.670 38.462 8.51 0.00 46.16 2.40
766 816 6.533730 TCCATATGTGGTCCATACTGAAATC 58.466 40.000 8.51 0.00 46.16 2.17
767 817 6.514012 TCCATATGTGGTCCATACTGAAAT 57.486 37.500 8.51 0.00 46.16 2.17
768 818 5.966853 TCCATATGTGGTCCATACTGAAA 57.033 39.130 8.51 0.00 46.16 2.69
769 819 5.369404 ACATCCATATGTGGTCCATACTGAA 59.631 40.000 8.51 0.00 44.79 3.02
770 820 4.907269 ACATCCATATGTGGTCCATACTGA 59.093 41.667 8.51 0.00 44.79 3.41
771 821 5.233083 ACATCCATATGTGGTCCATACTG 57.767 43.478 8.51 0.00 44.79 2.74
772 822 6.962311 AGATACATCCATATGTGGTCCATACT 59.038 38.462 8.51 1.10 45.99 2.12
773 823 7.093333 TGAGATACATCCATATGTGGTCCATAC 60.093 40.741 8.51 0.00 45.99 2.39
774 824 6.959366 TGAGATACATCCATATGTGGTCCATA 59.041 38.462 8.51 0.00 45.99 2.74
775 825 5.786975 TGAGATACATCCATATGTGGTCCAT 59.213 40.000 8.51 0.00 45.99 3.41
776 826 5.154418 TGAGATACATCCATATGTGGTCCA 58.846 41.667 8.51 0.00 45.99 4.02
777 827 5.745312 TGAGATACATCCATATGTGGTCC 57.255 43.478 8.51 0.00 45.99 4.46
778 828 8.314021 TGTATTGAGATACATCCATATGTGGTC 58.686 37.037 8.51 0.00 45.99 4.02
779 829 8.206126 TGTATTGAGATACATCCATATGTGGT 57.794 34.615 8.51 0.00 45.99 4.16
815 865 9.890629 ACATACAGAGCAAAATGAGTAAATCTA 57.109 29.630 0.00 0.00 0.00 1.98
816 866 8.798859 ACATACAGAGCAAAATGAGTAAATCT 57.201 30.769 0.00 0.00 0.00 2.40
818 868 9.672673 ACTACATACAGAGCAAAATGAGTAAAT 57.327 29.630 0.00 0.00 0.00 1.40
819 869 9.151471 GACTACATACAGAGCAAAATGAGTAAA 57.849 33.333 0.00 0.00 0.00 2.01
820 870 7.764443 GGACTACATACAGAGCAAAATGAGTAA 59.236 37.037 0.00 0.00 0.00 2.24
821 871 7.093509 TGGACTACATACAGAGCAAAATGAGTA 60.094 37.037 0.00 0.00 0.00 2.59
822 872 6.109359 GGACTACATACAGAGCAAAATGAGT 58.891 40.000 0.00 0.00 0.00 3.41
823 873 6.108687 TGGACTACATACAGAGCAAAATGAG 58.891 40.000 0.00 0.00 0.00 2.90
824 874 6.048732 TGGACTACATACAGAGCAAAATGA 57.951 37.500 0.00 0.00 0.00 2.57
825 875 6.932356 ATGGACTACATACAGAGCAAAATG 57.068 37.500 0.00 0.00 38.26 2.32
826 876 7.712639 CACTATGGACTACATACAGAGCAAAAT 59.287 37.037 0.00 0.00 41.03 1.82
827 877 7.041721 CACTATGGACTACATACAGAGCAAAA 58.958 38.462 0.00 0.00 41.03 2.44
828 878 6.379988 TCACTATGGACTACATACAGAGCAAA 59.620 38.462 0.00 0.00 41.03 3.68
829 879 5.891551 TCACTATGGACTACATACAGAGCAA 59.108 40.000 0.00 0.00 41.03 3.91
830 880 5.445964 TCACTATGGACTACATACAGAGCA 58.554 41.667 0.00 0.00 41.03 4.26
831 881 6.392625 TTCACTATGGACTACATACAGAGC 57.607 41.667 0.00 0.00 41.03 4.09
832 882 8.855110 AGATTTCACTATGGACTACATACAGAG 58.145 37.037 0.00 0.00 41.03 3.35
833 883 8.768501 AGATTTCACTATGGACTACATACAGA 57.231 34.615 0.00 0.00 41.03 3.41
834 884 8.085296 GGAGATTTCACTATGGACTACATACAG 58.915 40.741 0.00 0.00 41.03 2.74
835 885 7.785028 AGGAGATTTCACTATGGACTACATACA 59.215 37.037 0.00 0.00 41.03 2.29
836 886 8.184304 AGGAGATTTCACTATGGACTACATAC 57.816 38.462 0.00 0.00 41.03 2.39
837 887 8.004801 TGAGGAGATTTCACTATGGACTACATA 58.995 37.037 0.00 0.00 41.03 2.29
838 888 6.841229 TGAGGAGATTTCACTATGGACTACAT 59.159 38.462 0.00 0.00 43.68 2.29
839 889 6.194967 TGAGGAGATTTCACTATGGACTACA 58.805 40.000 0.00 0.00 0.00 2.74
840 890 6.716934 TGAGGAGATTTCACTATGGACTAC 57.283 41.667 0.00 0.00 0.00 2.73
841 891 7.619698 TCTTTGAGGAGATTTCACTATGGACTA 59.380 37.037 0.00 0.00 0.00 2.59
842 892 6.441924 TCTTTGAGGAGATTTCACTATGGACT 59.558 38.462 0.00 0.00 0.00 3.85
843 893 6.536941 GTCTTTGAGGAGATTTCACTATGGAC 59.463 42.308 0.00 0.00 0.00 4.02
844 894 6.441924 AGTCTTTGAGGAGATTTCACTATGGA 59.558 38.462 0.00 0.00 0.00 3.41
845 895 6.648192 AGTCTTTGAGGAGATTTCACTATGG 58.352 40.000 0.00 0.00 0.00 2.74
846 896 9.829507 ATAAGTCTTTGAGGAGATTTCACTATG 57.170 33.333 0.00 0.00 29.76 2.23
856 906 9.488762 TGGACTAAATATAAGTCTTTGAGGAGA 57.511 33.333 14.54 0.00 42.48 3.71
876 926 9.475620 TCTTTGTAGAGATTTCAGTATGGACTA 57.524 33.333 0.00 0.00 36.16 2.59
877 927 8.254508 GTCTTTGTAGAGATTTCAGTATGGACT 58.745 37.037 0.00 0.00 36.16 3.85
878 928 8.254508 AGTCTTTGTAGAGATTTCAGTATGGAC 58.745 37.037 0.00 0.00 36.16 4.02
879 929 8.367660 AGTCTTTGTAGAGATTTCAGTATGGA 57.632 34.615 0.00 0.00 36.16 3.41
991 1042 2.757056 GCGGGGCCATGTAAACGAC 61.757 63.158 4.39 0.00 0.00 4.34
1539 1590 0.256752 TCCATGCAACCAGATCCCTG 59.743 55.000 0.00 0.00 40.09 4.45
1629 1680 0.690762 TTGCAACCTCCTCACTACCC 59.309 55.000 0.00 0.00 0.00 3.69
1734 1785 1.302511 CAACCCCACCTTCTCCACG 60.303 63.158 0.00 0.00 0.00 4.94
1872 1923 3.094572 AGAAGCCAACCCTGAAATCATG 58.905 45.455 0.00 0.00 0.00 3.07
2041 2092 2.232941 GGTTGACCCTGTATTCACTCGA 59.767 50.000 0.00 0.00 0.00 4.04
2060 2111 6.209391 GCAACCATAATGCTTAATATCTGGGT 59.791 38.462 0.00 0.00 40.64 4.51
2076 2127 3.668141 AGATCCACCATGCAACCATAA 57.332 42.857 0.00 0.00 0.00 1.90
2144 2195 4.190772 CAAGTTTGGTTCAAAAGGCATGT 58.809 39.130 0.00 0.00 35.03 3.21
2211 2262 3.491766 ACTAGTTCCCCAATCTCCAGA 57.508 47.619 0.00 0.00 0.00 3.86
2420 2471 1.339727 GGGTACGCTCACCTCCAAATT 60.340 52.381 2.05 0.00 38.73 1.82
2434 2485 4.621034 GCAACTCAATTGAAAATGGGTACG 59.379 41.667 9.88 0.00 41.23 3.67
2466 2517 4.926238 GCGATGACTTCCTAATCCATACAG 59.074 45.833 0.00 0.00 0.00 2.74
2505 2556 7.652909 TCTTGAAACAAGCAACATTTGATAAGG 59.347 33.333 6.62 0.00 0.00 2.69
2552 2603 9.337396 ACTTACACATTCATTTCTCAACTTACA 57.663 29.630 0.00 0.00 0.00 2.41
2555 2606 7.649306 GCAACTTACACATTCATTTCTCAACTT 59.351 33.333 0.00 0.00 0.00 2.66
2556 2607 7.141363 GCAACTTACACATTCATTTCTCAACT 58.859 34.615 0.00 0.00 0.00 3.16
2557 2608 6.917477 TGCAACTTACACATTCATTTCTCAAC 59.083 34.615 0.00 0.00 0.00 3.18
2558 2609 6.917477 GTGCAACTTACACATTCATTTCTCAA 59.083 34.615 0.00 0.00 37.96 3.02
2559 2610 6.437928 GTGCAACTTACACATTCATTTCTCA 58.562 36.000 0.00 0.00 37.96 3.27
2560 2611 5.858581 GGTGCAACTTACACATTCATTTCTC 59.141 40.000 0.00 0.00 39.87 2.87
2561 2612 5.536161 AGGTGCAACTTACACATTCATTTCT 59.464 36.000 0.00 0.00 39.87 2.52
2562 2613 5.772521 AGGTGCAACTTACACATTCATTTC 58.227 37.500 0.00 0.00 39.87 2.17
2583 2634 4.583871 AGACACTTATTTTGGAGCAGAGG 58.416 43.478 0.00 0.00 0.00 3.69
2584 2635 5.240891 TGAGACACTTATTTTGGAGCAGAG 58.759 41.667 0.00 0.00 0.00 3.35
2585 2636 5.227569 TGAGACACTTATTTTGGAGCAGA 57.772 39.130 0.00 0.00 0.00 4.26
2586 2637 5.471456 AGTTGAGACACTTATTTTGGAGCAG 59.529 40.000 0.00 0.00 0.00 4.24
2587 2638 5.376625 AGTTGAGACACTTATTTTGGAGCA 58.623 37.500 0.00 0.00 0.00 4.26
2588 2639 5.948992 AGTTGAGACACTTATTTTGGAGC 57.051 39.130 0.00 0.00 0.00 4.70
2589 2640 9.057089 ACTAAAGTTGAGACACTTATTTTGGAG 57.943 33.333 0.00 0.00 35.87 3.86
2590 2641 8.974060 ACTAAAGTTGAGACACTTATTTTGGA 57.026 30.769 0.00 0.00 35.87 3.53
2597 2648 9.880157 AAAGTTGTACTAAAGTTGAGACACTTA 57.120 29.630 0.00 0.00 35.87 2.24
2598 2649 8.665685 CAAAGTTGTACTAAAGTTGAGACACTT 58.334 33.333 0.00 0.00 38.74 3.16
2599 2650 7.822822 ACAAAGTTGTACTAAAGTTGAGACACT 59.177 33.333 0.00 0.00 40.16 3.55
2600 2651 7.971455 ACAAAGTTGTACTAAAGTTGAGACAC 58.029 34.615 0.00 0.00 40.16 3.67
2625 2676 9.280174 CCCAAAATAAGTGTCTCAACTTTAGTA 57.720 33.333 0.00 0.00 40.77 1.82
2626 2677 7.996644 TCCCAAAATAAGTGTCTCAACTTTAGT 59.003 33.333 0.00 0.00 40.77 2.24
2627 2678 8.290325 GTCCCAAAATAAGTGTCTCAACTTTAG 58.710 37.037 0.00 0.00 40.77 1.85
2628 2679 7.041644 CGTCCCAAAATAAGTGTCTCAACTTTA 60.042 37.037 0.00 0.00 40.77 1.85
2629 2680 6.238648 CGTCCCAAAATAAGTGTCTCAACTTT 60.239 38.462 0.00 0.00 40.77 2.66
2630 2681 5.238650 CGTCCCAAAATAAGTGTCTCAACTT 59.761 40.000 0.00 0.00 42.89 2.66
2631 2682 4.755123 CGTCCCAAAATAAGTGTCTCAACT 59.245 41.667 0.00 0.00 0.00 3.16
2632 2683 4.083484 CCGTCCCAAAATAAGTGTCTCAAC 60.083 45.833 0.00 0.00 0.00 3.18
2633 2684 4.069304 CCGTCCCAAAATAAGTGTCTCAA 58.931 43.478 0.00 0.00 0.00 3.02
2634 2685 3.325425 TCCGTCCCAAAATAAGTGTCTCA 59.675 43.478 0.00 0.00 0.00 3.27
2635 2686 3.933332 CTCCGTCCCAAAATAAGTGTCTC 59.067 47.826 0.00 0.00 0.00 3.36
2649 2700 2.029307 GCATGTACTCCCTCCGTCCC 62.029 65.000 0.00 0.00 0.00 4.46
2651 2702 1.327690 TGGCATGTACTCCCTCCGTC 61.328 60.000 0.00 0.00 0.00 4.79
2652 2703 1.305802 TGGCATGTACTCCCTCCGT 60.306 57.895 0.00 0.00 0.00 4.69
2653 2704 1.144057 GTGGCATGTACTCCCTCCG 59.856 63.158 0.00 0.00 0.00 4.63
2657 2708 2.389715 AGAGTAGTGGCATGTACTCCC 58.610 52.381 25.01 11.18 44.27 4.30
2733 2784 6.560253 ACGATATTGTCATTCTTATTGCCC 57.440 37.500 0.00 0.00 0.00 5.36
2764 2877 7.094805 GCAAATGTGTCATCCAAACTTACTCTA 60.095 37.037 0.00 0.00 0.00 2.43
2951 3079 9.616156 TTAACTCAAAGTACAAGTGGAAACATA 57.384 29.630 0.00 0.00 46.14 2.29
3190 3331 6.416161 GTCGTAAAAGTAACTGACGAGACTTT 59.584 38.462 0.00 0.00 42.63 2.66
3198 3339 4.508861 TGCCTTGTCGTAAAAGTAACTGAC 59.491 41.667 0.00 0.00 0.00 3.51
3202 3343 5.178809 AGTGATGCCTTGTCGTAAAAGTAAC 59.821 40.000 0.00 0.00 0.00 2.50
3222 3363 8.535335 ACTTCATAAGCAAAGAAGAGATAGTGA 58.465 33.333 12.97 0.00 40.85 3.41
3244 3385 9.841880 TTGACATAATACGCTGATATCTACTTC 57.158 33.333 3.98 0.00 0.00 3.01
3272 3559 4.037803 GGTATCTCGGAGGGAGTACTTTTC 59.962 50.000 4.96 0.00 43.60 2.29
3293 3580 2.031120 CAAAATGGGTGACACACTGGT 58.969 47.619 9.71 0.00 34.40 4.00
3298 3585 4.097135 CACAGTAACAAAATGGGTGACACA 59.903 41.667 8.08 0.00 0.00 3.72
3389 3677 4.097437 ACAGAAGTTCAGTCAGTCAACGTA 59.903 41.667 5.50 0.00 0.00 3.57
3392 3680 5.563842 CAAACAGAAGTTCAGTCAGTCAAC 58.436 41.667 5.50 0.00 36.84 3.18
3398 3686 6.942532 ATAAAGCAAACAGAAGTTCAGTCA 57.057 33.333 5.50 0.00 36.84 3.41


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

AutoCloner maintained by Alex Coulton.