Multiple sequence alignment - TraesCS2D01G090500

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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 TraesCS2D01G090500 chr2D 100.000 3695 0 0 1 3695 42728558 42732252 0.000000e+00 6824.0
1 TraesCS2D01G090500 chr2D 92.441 2143 92 22 1593 3695 52025173 52023061 0.000000e+00 2996.0
2 TraesCS2D01G090500 chr2D 94.036 503 26 1 1006 1504 52025683 52025181 0.000000e+00 760.0
3 TraesCS2D01G090500 chr2D 87.258 361 20 14 675 1012 30144417 30144774 4.470000e-104 388.0
4 TraesCS2D01G090500 chr2B 93.632 1963 98 11 1006 2949 80538612 80536658 0.000000e+00 2907.0
5 TraesCS2D01G090500 chr2B 81.279 657 71 25 3061 3695 80534265 80533639 5.550000e-133 484.0
6 TraesCS2D01G090500 chr2B 87.252 353 23 7 673 1008 198154035 198154382 2.080000e-102 383.0
7 TraesCS2D01G090500 chr2B 91.803 122 8 2 4 124 80538726 80538606 6.350000e-38 169.0
8 TraesCS2D01G090500 chr2A 92.239 1907 95 22 1012 2897 53291214 53289340 0.000000e+00 2652.0
9 TraesCS2D01G090500 chr2A 91.324 657 52 3 3037 3689 53288625 53287970 0.000000e+00 893.0
10 TraesCS2D01G090500 chr2A 80.952 315 49 10 675 983 136967399 136967090 4.770000e-59 239.0
11 TraesCS2D01G090500 chr2A 91.304 138 12 0 2511 2648 53278321 53278184 4.870000e-44 189.0
12 TraesCS2D01G090500 chr2A 94.118 119 7 0 1 119 53291333 53291215 8.150000e-42 182.0
13 TraesCS2D01G090500 chr4B 93.146 569 34 3 118 681 465750978 465750410 0.000000e+00 830.0
14 TraesCS2D01G090500 chr4B 88.368 576 47 12 117 681 562343762 562344328 0.000000e+00 675.0
15 TraesCS2D01G090500 chr5A 92.820 571 29 10 120 681 538309061 538309628 0.000000e+00 817.0
16 TraesCS2D01G090500 chr5A 81.073 354 47 12 673 1007 451142566 451142918 7.870000e-67 265.0
17 TraesCS2D01G090500 chr1D 91.186 590 27 12 116 681 470209450 470208862 0.000000e+00 778.0
18 TraesCS2D01G090500 chr1D 86.667 360 24 13 675 1011 411729273 411728915 9.690000e-101 377.0
19 TraesCS2D01G090500 chr1D 86.872 358 22 8 675 1007 470207177 470206820 9.690000e-101 377.0
20 TraesCS2D01G090500 chr3D 89.175 582 44 10 116 681 552723242 552723820 0.000000e+00 708.0
21 TraesCS2D01G090500 chr6A 91.423 513 38 5 124 631 22070372 22069861 0.000000e+00 699.0
22 TraesCS2D01G090500 chr6A 79.605 304 45 11 718 1007 507128953 507128653 6.260000e-48 202.0
23 TraesCS2D01G090500 chr3B 87.847 576 47 15 117 681 812568887 812568324 0.000000e+00 654.0
24 TraesCS2D01G090500 chr7A 87.153 576 50 13 120 681 282557753 282557188 1.870000e-177 632.0
25 TraesCS2D01G090500 chr7B 87.002 577 47 13 120 681 601264165 601263602 3.130000e-175 625.0
26 TraesCS2D01G090500 chr7B 87.338 308 22 10 675 965 458856423 458856730 1.640000e-88 337.0
27 TraesCS2D01G090500 chr7B 87.273 55 6 1 3407 3461 573255402 573255349 1.110000e-05 62.1
28 TraesCS2D01G090500 chr5D 87.709 358 19 8 675 1007 267620610 267620253 9.620000e-106 394.0
29 TraesCS2D01G090500 chr5D 84.496 387 33 16 643 1007 385443395 385443014 1.260000e-94 357.0
30 TraesCS2D01G090500 chr5D 93.296 179 8 2 675 852 528689136 528688961 1.020000e-65 261.0
31 TraesCS2D01G090500 chr4D 86.761 355 25 13 675 1007 386123321 386122967 3.480000e-100 375.0
32 TraesCS2D01G090500 chr1A 86.196 326 22 9 705 1007 7645713 7645388 7.650000e-87 331.0
33 TraesCS2D01G090500 chr1A 79.153 307 42 13 723 1008 514133288 514132983 3.770000e-45 193.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G090500 chr2D 42728558 42732252 3694 False 6824.000000 6824 100.000000 1 3695 1 chr2D.!!$F2 3694
1 TraesCS2D01G090500 chr2D 52023061 52025683 2622 True 1878.000000 2996 93.238500 1006 3695 2 chr2D.!!$R1 2689
2 TraesCS2D01G090500 chr2B 80533639 80538726 5087 True 1186.666667 2907 88.904667 4 3695 3 chr2B.!!$R1 3691
3 TraesCS2D01G090500 chr2A 53287970 53291333 3363 True 1242.333333 2652 92.560333 1 3689 3 chr2A.!!$R3 3688
4 TraesCS2D01G090500 chr4B 465750410 465750978 568 True 830.000000 830 93.146000 118 681 1 chr4B.!!$R1 563
5 TraesCS2D01G090500 chr4B 562343762 562344328 566 False 675.000000 675 88.368000 117 681 1 chr4B.!!$F1 564
6 TraesCS2D01G090500 chr5A 538309061 538309628 567 False 817.000000 817 92.820000 120 681 1 chr5A.!!$F2 561
7 TraesCS2D01G090500 chr1D 470206820 470209450 2630 True 577.500000 778 89.029000 116 1007 2 chr1D.!!$R2 891
8 TraesCS2D01G090500 chr3D 552723242 552723820 578 False 708.000000 708 89.175000 116 681 1 chr3D.!!$F1 565
9 TraesCS2D01G090500 chr6A 22069861 22070372 511 True 699.000000 699 91.423000 124 631 1 chr6A.!!$R1 507
10 TraesCS2D01G090500 chr3B 812568324 812568887 563 True 654.000000 654 87.847000 117 681 1 chr3B.!!$R1 564
11 TraesCS2D01G090500 chr7A 282557188 282557753 565 True 632.000000 632 87.153000 120 681 1 chr7A.!!$R1 561
12 TraesCS2D01G090500 chr7B 601263602 601264165 563 True 625.000000 625 87.002000 120 681 1 chr7B.!!$R2 561

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
874 919 0.025001 CAAAACACCGCGCGAGATAG 59.975 55.0 34.63 17.1 0.0 2.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2733 2866 0.95396 GCGTCGTTTCATTCCCCAGT 60.954 55.0 0.0 0.0 0.0 4.0 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
181 182 1.633852 TAATTTACCGCGCGCCGTTT 61.634 50.000 28.67 19.22 34.38 3.60
182 183 2.837694 AATTTACCGCGCGCCGTTTC 62.838 55.000 28.67 0.00 34.38 2.78
242 245 2.648724 CTAAAATGCAGCGCGCGG 60.649 61.111 33.06 27.12 46.97 6.46
506 543 0.108329 TTCCGCCTCCGAAGATGAAC 60.108 55.000 0.00 0.00 36.29 3.18
560 603 2.665185 AAGCTCCGACGGTGTTGC 60.665 61.111 14.79 13.70 0.00 4.17
578 621 0.881118 GCCAAGATCTTCAACGGCAA 59.119 50.000 23.09 0.00 39.38 4.52
583 626 2.069273 AGATCTTCAACGGCAACTTCG 58.931 47.619 0.00 0.00 0.00 3.79
726 771 4.853142 TGGAGGGGTCGCGGCTAT 62.853 66.667 11.94 0.00 0.00 2.97
727 772 2.599578 GGAGGGGTCGCGGCTATA 60.600 66.667 11.94 0.00 0.00 1.31
728 773 2.637383 GGAGGGGTCGCGGCTATAG 61.637 68.421 11.94 0.00 0.00 1.31
729 774 2.600769 AGGGGTCGCGGCTATAGG 60.601 66.667 11.94 0.00 0.00 2.57
730 775 4.374645 GGGGTCGCGGCTATAGGC 62.375 72.222 11.94 16.13 40.90 3.93
731 776 3.303928 GGGTCGCGGCTATAGGCT 61.304 66.667 22.54 0.00 41.46 4.58
733 778 2.049063 GTCGCGGCTATAGGCTGG 60.049 66.667 22.54 14.33 46.77 4.85
734 779 2.203437 TCGCGGCTATAGGCTGGA 60.203 61.111 22.54 16.21 46.77 3.86
735 780 2.259818 CGCGGCTATAGGCTGGAG 59.740 66.667 22.54 9.30 46.77 3.86
736 781 2.565645 CGCGGCTATAGGCTGGAGT 61.566 63.158 22.54 0.00 46.77 3.85
737 782 1.005630 GCGGCTATAGGCTGGAGTG 60.006 63.158 22.54 8.27 46.77 3.51
738 783 1.668294 CGGCTATAGGCTGGAGTGG 59.332 63.158 22.54 3.00 43.23 4.00
739 784 1.821061 CGGCTATAGGCTGGAGTGGG 61.821 65.000 22.54 2.30 43.23 4.61
740 785 1.373059 GCTATAGGCTGGAGTGGGC 59.627 63.158 0.00 0.00 38.06 5.36
741 786 1.668294 CTATAGGCTGGAGTGGGCG 59.332 63.158 0.00 0.00 0.00 6.13
742 787 1.821061 CTATAGGCTGGAGTGGGCGG 61.821 65.000 0.00 0.00 0.00 6.13
771 816 3.434319 GTGCGTCCATGGGTGCAG 61.434 66.667 25.84 9.53 36.32 4.41
772 817 3.952508 TGCGTCCATGGGTGCAGT 61.953 61.111 22.78 0.00 33.18 4.40
773 818 2.672996 GCGTCCATGGGTGCAGTT 60.673 61.111 20.12 0.00 0.00 3.16
774 819 2.690778 GCGTCCATGGGTGCAGTTC 61.691 63.158 20.12 0.00 0.00 3.01
775 820 2.390599 CGTCCATGGGTGCAGTTCG 61.391 63.158 13.02 1.09 0.00 3.95
776 821 2.359850 TCCATGGGTGCAGTTCGC 60.360 61.111 13.02 0.00 42.89 4.70
778 823 3.803082 CATGGGTGCAGTTCGCCG 61.803 66.667 0.00 0.00 46.36 6.46
814 859 2.192443 CGTAGGAGGCGGAGAGGA 59.808 66.667 0.00 0.00 0.00 3.71
815 860 1.894756 CGTAGGAGGCGGAGAGGAG 60.895 68.421 0.00 0.00 0.00 3.69
816 861 1.227946 GTAGGAGGCGGAGAGGAGT 59.772 63.158 0.00 0.00 0.00 3.85
817 862 1.104577 GTAGGAGGCGGAGAGGAGTG 61.105 65.000 0.00 0.00 0.00 3.51
818 863 1.279749 TAGGAGGCGGAGAGGAGTGA 61.280 60.000 0.00 0.00 0.00 3.41
819 864 2.124693 GGAGGCGGAGAGGAGTGAG 61.125 68.421 0.00 0.00 0.00 3.51
820 865 1.379309 GAGGCGGAGAGGAGTGAGT 60.379 63.158 0.00 0.00 0.00 3.41
821 866 1.662438 GAGGCGGAGAGGAGTGAGTG 61.662 65.000 0.00 0.00 0.00 3.51
822 867 2.183046 GCGGAGAGGAGTGAGTGC 59.817 66.667 0.00 0.00 0.00 4.40
823 868 2.487428 CGGAGAGGAGTGAGTGCG 59.513 66.667 0.00 0.00 0.00 5.34
824 869 2.888863 GGAGAGGAGTGAGTGCGG 59.111 66.667 0.00 0.00 0.00 5.69
825 870 2.183046 GAGAGGAGTGAGTGCGGC 59.817 66.667 0.00 0.00 0.00 6.53
826 871 3.691744 GAGAGGAGTGAGTGCGGCG 62.692 68.421 0.51 0.51 0.00 6.46
862 907 4.700365 GCGGGCGCCTCAAAACAC 62.700 66.667 28.56 5.59 34.56 3.32
863 908 4.038080 CGGGCGCCTCAAAACACC 62.038 66.667 28.56 4.75 0.00 4.16
864 909 4.038080 GGGCGCCTCAAAACACCG 62.038 66.667 28.56 0.00 0.00 4.94
865 910 4.700365 GGCGCCTCAAAACACCGC 62.700 66.667 22.15 0.00 43.51 5.68
869 914 3.342627 CCTCAAAACACCGCGCGA 61.343 61.111 34.63 7.50 0.00 5.87
870 915 2.170985 CTCAAAACACCGCGCGAG 59.829 61.111 34.63 25.26 0.00 5.03
871 916 2.279584 TCAAAACACCGCGCGAGA 60.280 55.556 34.63 13.69 0.00 4.04
872 917 1.626654 CTCAAAACACCGCGCGAGAT 61.627 55.000 34.63 15.48 0.00 2.75
873 918 0.388778 TCAAAACACCGCGCGAGATA 60.389 50.000 34.63 4.89 0.00 1.98
874 919 0.025001 CAAAACACCGCGCGAGATAG 59.975 55.000 34.63 17.10 0.00 2.08
875 920 1.693083 AAAACACCGCGCGAGATAGC 61.693 55.000 34.63 0.00 0.00 2.97
876 921 2.829043 AAACACCGCGCGAGATAGCA 62.829 55.000 34.63 0.00 36.85 3.49
877 922 2.582226 CACCGCGCGAGATAGCAA 60.582 61.111 34.63 0.00 36.85 3.91
878 923 2.164663 CACCGCGCGAGATAGCAAA 61.165 57.895 34.63 0.00 36.85 3.68
879 924 1.227263 ACCGCGCGAGATAGCAAAT 60.227 52.632 34.63 0.00 36.85 2.32
880 925 1.215655 ACCGCGCGAGATAGCAAATC 61.216 55.000 34.63 0.00 36.85 2.17
881 926 1.488957 CGCGCGAGATAGCAAATCC 59.511 57.895 28.94 0.00 36.85 3.01
882 927 1.488957 GCGCGAGATAGCAAATCCG 59.511 57.895 12.10 0.00 36.85 4.18
883 928 0.939577 GCGCGAGATAGCAAATCCGA 60.940 55.000 12.10 0.00 36.85 4.55
884 929 0.778815 CGCGAGATAGCAAATCCGAC 59.221 55.000 0.00 5.21 36.85 4.79
885 930 1.140816 GCGAGATAGCAAATCCGACC 58.859 55.000 11.39 0.00 37.05 4.79
886 931 1.538204 GCGAGATAGCAAATCCGACCA 60.538 52.381 11.39 0.00 37.05 4.02
887 932 2.128035 CGAGATAGCAAATCCGACCAC 58.872 52.381 0.00 0.00 0.00 4.16
888 933 2.128035 GAGATAGCAAATCCGACCACG 58.872 52.381 0.00 0.00 39.43 4.94
889 934 0.582005 GATAGCAAATCCGACCACGC 59.418 55.000 0.00 0.00 38.29 5.34
890 935 1.151777 ATAGCAAATCCGACCACGCG 61.152 55.000 3.53 3.53 38.29 6.01
891 936 4.811761 GCAAATCCGACCACGCGC 62.812 66.667 5.73 0.00 38.29 6.86
892 937 4.160635 CAAATCCGACCACGCGCC 62.161 66.667 5.73 0.00 38.29 6.53
902 947 2.047655 CACGCGCCCAACTCCTTA 60.048 61.111 5.73 0.00 0.00 2.69
903 948 1.449601 CACGCGCCCAACTCCTTAT 60.450 57.895 5.73 0.00 0.00 1.73
904 949 0.179094 CACGCGCCCAACTCCTTATA 60.179 55.000 5.73 0.00 0.00 0.98
905 950 0.179092 ACGCGCCCAACTCCTTATAC 60.179 55.000 5.73 0.00 0.00 1.47
906 951 0.104304 CGCGCCCAACTCCTTATACT 59.896 55.000 0.00 0.00 0.00 2.12
907 952 1.583054 GCGCCCAACTCCTTATACTG 58.417 55.000 0.00 0.00 0.00 2.74
908 953 1.583054 CGCCCAACTCCTTATACTGC 58.417 55.000 0.00 0.00 0.00 4.40
909 954 1.583054 GCCCAACTCCTTATACTGCG 58.417 55.000 0.00 0.00 0.00 5.18
910 955 1.583054 CCCAACTCCTTATACTGCGC 58.417 55.000 0.00 0.00 0.00 6.09
911 956 1.209128 CCAACTCCTTATACTGCGCG 58.791 55.000 0.00 0.00 0.00 6.86
912 957 0.577269 CAACTCCTTATACTGCGCGC 59.423 55.000 27.26 27.26 0.00 6.86
913 958 0.870307 AACTCCTTATACTGCGCGCG 60.870 55.000 28.44 28.44 0.00 6.86
914 959 1.299165 CTCCTTATACTGCGCGCGT 60.299 57.895 32.35 26.95 0.00 6.01
915 960 1.540607 CTCCTTATACTGCGCGCGTG 61.541 60.000 32.35 25.26 0.00 5.34
916 961 2.585869 CCTTATACTGCGCGCGTGG 61.586 63.158 32.35 24.76 0.00 4.94
917 962 1.876714 CTTATACTGCGCGCGTGGT 60.877 57.895 32.35 28.68 0.00 4.16
918 963 1.418342 CTTATACTGCGCGCGTGGTT 61.418 55.000 32.35 19.69 0.00 3.67
919 964 0.179142 TTATACTGCGCGCGTGGTTA 60.179 50.000 32.35 17.28 0.00 2.85
920 965 0.031043 TATACTGCGCGCGTGGTTAT 59.969 50.000 32.35 22.33 0.00 1.89
921 966 0.808453 ATACTGCGCGCGTGGTTATT 60.808 50.000 32.35 14.48 0.00 1.40
922 967 1.688422 TACTGCGCGCGTGGTTATTG 61.688 55.000 32.35 14.07 0.00 1.90
923 968 4.453183 TGCGCGCGTGGTTATTGC 62.453 61.111 32.35 11.60 0.00 3.56
929 974 4.530325 CGTGGTTATTGCGCGCCC 62.530 66.667 30.77 22.27 0.00 6.13
930 975 4.530325 GTGGTTATTGCGCGCCCG 62.530 66.667 30.77 0.00 37.57 6.13
968 1013 4.172772 CGCGCGCTAAAATGGCCA 62.173 61.111 30.48 8.56 0.00 5.36
969 1014 2.180518 GCGCGCTAAAATGGCCAA 59.819 55.556 26.67 0.00 0.00 4.52
970 1015 1.445238 GCGCGCTAAAATGGCCAAA 60.445 52.632 26.67 0.00 0.00 3.28
971 1016 0.805711 GCGCGCTAAAATGGCCAAAT 60.806 50.000 26.67 0.00 0.00 2.32
972 1017 1.639280 CGCGCTAAAATGGCCAAATT 58.361 45.000 10.96 10.85 0.00 1.82
973 1018 1.999024 CGCGCTAAAATGGCCAAATTT 59.001 42.857 10.96 17.02 0.00 1.82
974 1019 2.222774 CGCGCTAAAATGGCCAAATTTG 60.223 45.455 23.20 11.40 30.21 2.32
975 1020 2.476018 GCGCTAAAATGGCCAAATTTGC 60.476 45.455 23.20 22.49 30.21 3.68
976 1021 2.222774 CGCTAAAATGGCCAAATTTGCG 60.223 45.455 31.34 31.34 36.36 4.85
977 1022 2.095692 GCTAAAATGGCCAAATTTGCGG 59.904 45.455 23.20 15.84 30.21 5.69
983 1028 4.715892 CCAAATTTGCGGCGCGGT 62.716 61.111 28.09 12.67 0.00 5.68
984 1029 2.177038 CAAATTTGCGGCGCGGTA 59.823 55.556 28.09 15.08 0.00 4.02
985 1030 1.867373 CAAATTTGCGGCGCGGTAG 60.867 57.895 28.09 10.82 0.00 3.18
986 1031 3.677099 AAATTTGCGGCGCGGTAGC 62.677 57.895 28.09 12.29 40.74 3.58
998 1043 4.752879 GGTAGCGCGGCTGTTGGA 62.753 66.667 8.83 0.00 40.10 3.53
999 1044 3.188786 GTAGCGCGGCTGTTGGAG 61.189 66.667 8.83 0.00 40.10 3.86
1000 1045 3.378602 TAGCGCGGCTGTTGGAGA 61.379 61.111 8.83 0.00 40.10 3.71
1001 1046 2.721167 TAGCGCGGCTGTTGGAGAT 61.721 57.895 8.83 0.00 40.10 2.75
1002 1047 2.906182 TAGCGCGGCTGTTGGAGATG 62.906 60.000 8.83 0.00 40.10 2.90
1008 1053 1.093159 GGCTGTTGGAGATGCTCTTG 58.907 55.000 0.00 0.00 0.00 3.02
1076 1168 4.559229 CCGCGCTCGCAGATCTCA 62.559 66.667 14.80 0.00 42.06 3.27
1229 1325 2.662596 CTGCTACTGCCACCGGAA 59.337 61.111 9.46 0.00 38.71 4.30
1233 1329 4.382320 TACTGCCACCGGAACCGC 62.382 66.667 9.46 3.92 38.24 5.68
1435 1531 2.430367 GGAAGTGCGGGAAGTGGT 59.570 61.111 0.00 0.00 0.00 4.16
1513 1609 2.279918 GTCCGTGTCCGTGTGCTT 60.280 61.111 0.00 0.00 0.00 3.91
1514 1610 1.885850 GTCCGTGTCCGTGTGCTTT 60.886 57.895 0.00 0.00 0.00 3.51
1536 1632 4.543590 ATCGTTCTTGTCCTTGACAGAT 57.456 40.909 0.00 0.00 43.69 2.90
1539 1635 5.123227 TCGTTCTTGTCCTTGACAGATTTT 58.877 37.500 0.00 0.00 43.69 1.82
1559 1666 5.826601 TTTTTCCGTTTTTAGTTACCCGT 57.173 34.783 0.00 0.00 0.00 5.28
1560 1667 5.416862 TTTTCCGTTTTTAGTTACCCGTC 57.583 39.130 0.00 0.00 0.00 4.79
1591 1698 2.709475 GAATGTCGCCGCCATGAC 59.291 61.111 0.00 0.00 35.67 3.06
1626 1733 1.066656 TGACGACGACATTAACGCCG 61.067 55.000 0.00 0.00 41.66 6.46
1655 1762 4.803426 GGTGCAGAGGAGACGCGG 62.803 72.222 12.47 0.00 34.13 6.46
1830 1937 3.095278 CGAACTGCGCGTACACGT 61.095 61.111 8.43 0.00 42.22 4.49
2021 2132 2.054687 CTCGATCAGAGCTCTGCATC 57.945 55.000 34.48 30.72 43.46 3.91
2034 2145 3.248841 GCTCTGCATCATTCTGAGATGTG 59.751 47.826 8.22 3.60 43.66 3.21
2054 2165 2.945008 TGCTTTCTGCTTAATGGATCGG 59.055 45.455 0.00 0.00 43.37 4.18
2070 2189 3.400590 GGTCGCGTCGTGTTGGTC 61.401 66.667 5.77 0.00 0.00 4.02
2076 2195 2.661866 GTCGTGTTGGTCGCAGCT 60.662 61.111 0.00 0.00 0.00 4.24
2326 2445 4.344679 ACTCAGATTAATCCAGAGCTCAGG 59.655 45.833 24.60 18.77 34.61 3.86
2535 2668 4.265056 GTGCCGGTGAGGGTGGTT 62.265 66.667 1.90 0.00 41.48 3.67
2655 2788 3.622826 AGGACGGTGGTGTTCGGG 61.623 66.667 0.00 0.00 0.00 5.14
2733 2866 1.142870 GGGTGTGCAGGCTAATGGATA 59.857 52.381 0.00 0.00 0.00 2.59
2891 3057 2.801063 CATCACGCCATGTTCCATTTC 58.199 47.619 0.00 0.00 0.00 2.17
2941 3425 8.443953 ACAAAATCATCCATTAGAGCTTCTAC 57.556 34.615 0.00 0.00 0.00 2.59
2943 3427 8.557864 CAAAATCATCCATTAGAGCTTCTACAG 58.442 37.037 0.00 0.00 0.00 2.74
2976 3460 2.166459 GGATAAAGCAAAACCAGCCTCC 59.834 50.000 0.00 0.00 0.00 4.30
2988 3472 0.736325 CAGCCTCCTAAACGTCCACG 60.736 60.000 0.00 0.00 46.33 4.94
2991 3475 0.108945 CCTCCTAAACGTCCACGGAC 60.109 60.000 6.12 6.12 44.95 4.79
3014 5803 0.594602 TTCGTAGACAGTGACCGGTG 59.405 55.000 14.63 0.00 34.32 4.94
3022 5811 3.311110 GTGACCGGTGAGCCCTCA 61.311 66.667 14.63 0.00 37.24 3.86
3034 5823 2.649831 GCCCTCATATGGCCATGTG 58.350 57.895 30.91 30.91 43.33 3.21
3045 5834 3.055719 CCATGTGCCCGTGTCCAC 61.056 66.667 0.00 0.00 0.00 4.02
3046 5835 2.281414 CATGTGCCCGTGTCCACA 60.281 61.111 0.00 0.00 45.01 4.17
3047 5836 1.896183 CATGTGCCCGTGTCCACAA 60.896 57.895 0.00 0.00 44.22 3.33
3048 5837 1.152860 ATGTGCCCGTGTCCACAAA 60.153 52.632 0.00 0.00 44.22 2.83
3049 5838 0.539438 ATGTGCCCGTGTCCACAAAT 60.539 50.000 0.00 0.00 44.22 2.32
3050 5839 1.169661 TGTGCCCGTGTCCACAAATC 61.170 55.000 0.00 0.00 38.87 2.17
3051 5840 1.963855 TGCCCGTGTCCACAAATCG 60.964 57.895 0.00 0.00 0.00 3.34
3052 5841 2.686816 GCCCGTGTCCACAAATCGG 61.687 63.158 0.00 1.24 40.72 4.18
3053 5842 1.004320 CCCGTGTCCACAAATCGGA 60.004 57.895 8.42 0.00 43.22 4.55
3054 5843 0.392461 CCCGTGTCCACAAATCGGAT 60.392 55.000 8.42 0.00 43.22 4.18
3055 5844 1.134640 CCCGTGTCCACAAATCGGATA 60.135 52.381 8.42 0.00 43.22 2.59
3056 5845 2.484770 CCCGTGTCCACAAATCGGATAT 60.485 50.000 8.42 0.00 43.22 1.63
3057 5846 2.800544 CCGTGTCCACAAATCGGATATC 59.199 50.000 1.91 0.00 43.22 1.63
3058 5847 3.492656 CCGTGTCCACAAATCGGATATCT 60.493 47.826 2.05 0.00 43.22 1.98
3059 5848 3.736252 CGTGTCCACAAATCGGATATCTC 59.264 47.826 2.05 0.00 34.32 2.75
3065 5859 5.696270 TCCACAAATCGGATATCTCAAATCG 59.304 40.000 2.05 0.00 0.00 3.34
3078 5872 3.010138 TCTCAAATCGGACCCCTCAAAAT 59.990 43.478 0.00 0.00 0.00 1.82
3109 5903 3.120546 CCATGCAACGTGAGAAACTACAG 60.121 47.826 0.00 0.00 0.00 2.74
3171 5967 9.436957 ACCTAAATTCCATACGAGCATATAAAG 57.563 33.333 0.00 0.00 0.00 1.85
3210 6006 7.815641 TCAAAAGATTTAGTTCATCATCGCAA 58.184 30.769 0.00 0.00 0.00 4.85
3224 6020 8.437360 TCATCATCGCAACATAGATAAAAACT 57.563 30.769 0.00 0.00 0.00 2.66
3315 6112 2.223157 GCAGTCGCCGTTGCAATTATAA 60.223 45.455 0.59 0.00 40.02 0.98
3316 6113 3.548014 GCAGTCGCCGTTGCAATTATAAT 60.548 43.478 0.59 0.00 40.02 1.28
3377 6174 2.436646 GGGACCGTCGGAGTCGTA 60.437 66.667 20.51 0.00 37.35 3.43
3474 6692 3.458163 ATCGCCATCGGACGGTGT 61.458 61.111 3.36 0.00 35.45 4.16
3499 6839 1.407299 CCGGAGCTTGACATTGGATCA 60.407 52.381 0.00 0.00 0.00 2.92
3562 7338 1.145803 GTGGTTTGACTGCGGTCTAC 58.854 55.000 25.54 21.15 42.54 2.59
3594 7370 0.253394 TGGGGATATGTGTGGGGTCA 60.253 55.000 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 76 3.404141 AAAAACGCGGCGCTTGTGT 62.404 52.632 30.54 17.41 0.00 3.72
89 90 1.503818 GAGTCGTGCGGCTGGAAAAA 61.504 55.000 2.61 0.00 0.00 1.94
90 91 1.959226 GAGTCGTGCGGCTGGAAAA 60.959 57.895 2.61 0.00 0.00 2.29
213 214 1.068610 GCATTTTAGCGTGGCTGTTGA 60.069 47.619 0.00 0.00 40.10 3.18
506 543 2.092699 GTGATGAGGAAAGGGAGGAAGG 60.093 54.545 0.00 0.00 0.00 3.46
560 603 2.154462 AGTTGCCGTTGAAGATCTTGG 58.846 47.619 14.00 8.96 0.00 3.61
583 626 1.611673 CCTCCTCACACACATTCCCAC 60.612 57.143 0.00 0.00 0.00 4.61
709 754 3.440162 TATAGCCGCGACCCCTCCA 62.440 63.158 8.23 0.00 0.00 3.86
710 755 2.599578 TATAGCCGCGACCCCTCC 60.600 66.667 8.23 0.00 0.00 4.30
711 756 2.637383 CCTATAGCCGCGACCCCTC 61.637 68.421 8.23 0.00 0.00 4.30
712 757 2.600769 CCTATAGCCGCGACCCCT 60.601 66.667 8.23 0.15 0.00 4.79
713 758 4.374645 GCCTATAGCCGCGACCCC 62.375 72.222 8.23 0.00 34.35 4.95
714 759 3.303928 AGCCTATAGCCGCGACCC 61.304 66.667 8.23 0.00 45.47 4.46
715 760 2.049063 CAGCCTATAGCCGCGACC 60.049 66.667 8.23 0.00 45.47 4.79
716 761 2.049063 CCAGCCTATAGCCGCGAC 60.049 66.667 8.23 0.00 45.47 5.19
717 762 2.203437 TCCAGCCTATAGCCGCGA 60.203 61.111 8.23 0.00 45.47 5.87
718 763 2.259818 CTCCAGCCTATAGCCGCG 59.740 66.667 0.00 0.00 45.47 6.46
719 764 1.005630 CACTCCAGCCTATAGCCGC 60.006 63.158 0.00 0.00 45.47 6.53
720 765 1.668294 CCACTCCAGCCTATAGCCG 59.332 63.158 0.00 0.00 45.47 5.52
721 766 2.062070 CCCACTCCAGCCTATAGCC 58.938 63.158 0.00 0.00 45.47 3.93
722 767 1.373059 GCCCACTCCAGCCTATAGC 59.627 63.158 0.00 0.00 44.25 2.97
723 768 1.668294 CGCCCACTCCAGCCTATAG 59.332 63.158 0.00 0.00 0.00 1.31
724 769 1.837051 CCGCCCACTCCAGCCTATA 60.837 63.158 0.00 0.00 0.00 1.31
725 770 3.164269 CCGCCCACTCCAGCCTAT 61.164 66.667 0.00 0.00 0.00 2.57
754 799 3.434319 CTGCACCCATGGACGCAC 61.434 66.667 20.35 4.05 33.04 5.34
755 800 3.490031 AACTGCACCCATGGACGCA 62.490 57.895 22.11 22.11 34.65 5.24
796 841 3.597728 CCTCTCCGCCTCCTACGC 61.598 72.222 0.00 0.00 0.00 4.42
797 842 1.894756 CTCCTCTCCGCCTCCTACG 60.895 68.421 0.00 0.00 0.00 3.51
798 843 1.104577 CACTCCTCTCCGCCTCCTAC 61.105 65.000 0.00 0.00 0.00 3.18
799 844 1.227664 CACTCCTCTCCGCCTCCTA 59.772 63.158 0.00 0.00 0.00 2.94
800 845 2.043450 CACTCCTCTCCGCCTCCT 60.043 66.667 0.00 0.00 0.00 3.69
801 846 2.043852 TCACTCCTCTCCGCCTCC 60.044 66.667 0.00 0.00 0.00 4.30
802 847 1.379309 ACTCACTCCTCTCCGCCTC 60.379 63.158 0.00 0.00 0.00 4.70
804 849 2.888863 CACTCACTCCTCTCCGCC 59.111 66.667 0.00 0.00 0.00 6.13
805 850 2.183046 GCACTCACTCCTCTCCGC 59.817 66.667 0.00 0.00 0.00 5.54
806 851 2.487428 CGCACTCACTCCTCTCCG 59.513 66.667 0.00 0.00 0.00 4.63
807 852 2.888863 CCGCACTCACTCCTCTCC 59.111 66.667 0.00 0.00 0.00 3.71
808 853 2.183046 GCCGCACTCACTCCTCTC 59.817 66.667 0.00 0.00 0.00 3.20
809 854 3.753434 CGCCGCACTCACTCCTCT 61.753 66.667 0.00 0.00 0.00 3.69
845 890 4.700365 GTGTTTTGAGGCGCCCGC 62.700 66.667 26.15 17.04 41.06 6.13
846 891 4.038080 GGTGTTTTGAGGCGCCCG 62.038 66.667 26.15 0.00 0.00 6.13
847 892 4.038080 CGGTGTTTTGAGGCGCCC 62.038 66.667 26.15 15.80 31.99 6.13
848 893 4.700365 GCGGTGTTTTGAGGCGCC 62.700 66.667 21.89 21.89 0.00 6.53
852 897 3.295228 CTCGCGCGGTGTTTTGAGG 62.295 63.158 31.69 0.00 0.00 3.86
853 898 1.626654 ATCTCGCGCGGTGTTTTGAG 61.627 55.000 31.69 17.22 0.00 3.02
854 899 0.388778 TATCTCGCGCGGTGTTTTGA 60.389 50.000 31.69 15.99 0.00 2.69
855 900 0.025001 CTATCTCGCGCGGTGTTTTG 59.975 55.000 31.69 10.62 0.00 2.44
856 901 1.693083 GCTATCTCGCGCGGTGTTTT 61.693 55.000 31.69 11.55 0.00 2.43
857 902 2.165301 GCTATCTCGCGCGGTGTTT 61.165 57.895 31.69 16.17 0.00 2.83
858 903 2.582498 GCTATCTCGCGCGGTGTT 60.582 61.111 31.69 19.15 0.00 3.32
859 904 2.829043 TTTGCTATCTCGCGCGGTGT 62.829 55.000 31.69 17.76 0.00 4.16
860 905 1.490693 ATTTGCTATCTCGCGCGGTG 61.491 55.000 31.69 22.51 0.00 4.94
861 906 1.215655 GATTTGCTATCTCGCGCGGT 61.216 55.000 31.69 18.51 0.00 5.68
862 907 1.488957 GATTTGCTATCTCGCGCGG 59.511 57.895 31.69 20.60 0.00 6.46
863 908 1.488957 GGATTTGCTATCTCGCGCG 59.511 57.895 26.76 26.76 0.00 6.86
864 909 0.939577 TCGGATTTGCTATCTCGCGC 60.940 55.000 0.00 0.00 0.00 6.86
865 910 0.778815 GTCGGATTTGCTATCTCGCG 59.221 55.000 0.00 0.00 0.00 5.87
866 911 1.140816 GGTCGGATTTGCTATCTCGC 58.859 55.000 0.00 0.00 0.00 5.03
867 912 2.128035 GTGGTCGGATTTGCTATCTCG 58.872 52.381 0.00 0.00 0.00 4.04
868 913 2.128035 CGTGGTCGGATTTGCTATCTC 58.872 52.381 0.00 0.00 0.00 2.75
869 914 1.806623 GCGTGGTCGGATTTGCTATCT 60.807 52.381 0.00 0.00 37.56 1.98
870 915 0.582005 GCGTGGTCGGATTTGCTATC 59.418 55.000 0.00 0.00 37.56 2.08
871 916 1.151777 CGCGTGGTCGGATTTGCTAT 61.152 55.000 0.00 0.00 37.56 2.97
872 917 1.807981 CGCGTGGTCGGATTTGCTA 60.808 57.895 0.00 0.00 37.56 3.49
873 918 3.118454 CGCGTGGTCGGATTTGCT 61.118 61.111 0.00 0.00 37.56 3.91
874 919 4.811761 GCGCGTGGTCGGATTTGC 62.812 66.667 8.43 0.00 37.56 3.68
875 920 4.160635 GGCGCGTGGTCGGATTTG 62.161 66.667 8.43 0.00 37.56 2.32
884 929 2.869503 ATAAGGAGTTGGGCGCGTGG 62.870 60.000 8.43 0.00 0.00 4.94
885 930 0.179094 TATAAGGAGTTGGGCGCGTG 60.179 55.000 8.43 0.00 0.00 5.34
886 931 0.179092 GTATAAGGAGTTGGGCGCGT 60.179 55.000 8.43 0.00 0.00 6.01
887 932 0.104304 AGTATAAGGAGTTGGGCGCG 59.896 55.000 0.00 0.00 0.00 6.86
888 933 1.583054 CAGTATAAGGAGTTGGGCGC 58.417 55.000 0.00 0.00 0.00 6.53
889 934 1.583054 GCAGTATAAGGAGTTGGGCG 58.417 55.000 0.00 0.00 0.00 6.13
890 935 1.583054 CGCAGTATAAGGAGTTGGGC 58.417 55.000 0.00 0.00 0.00 5.36
891 936 1.583054 GCGCAGTATAAGGAGTTGGG 58.417 55.000 0.30 0.00 0.00 4.12
892 937 1.209128 CGCGCAGTATAAGGAGTTGG 58.791 55.000 8.75 0.00 0.00 3.77
893 938 0.577269 GCGCGCAGTATAAGGAGTTG 59.423 55.000 29.10 0.00 0.00 3.16
894 939 0.870307 CGCGCGCAGTATAAGGAGTT 60.870 55.000 32.61 0.00 0.00 3.01
895 940 1.299165 CGCGCGCAGTATAAGGAGT 60.299 57.895 32.61 0.00 0.00 3.85
896 941 1.299165 ACGCGCGCAGTATAAGGAG 60.299 57.895 32.58 12.91 0.00 3.69
897 942 1.587876 CACGCGCGCAGTATAAGGA 60.588 57.895 32.58 0.00 0.00 3.36
898 943 2.585869 CCACGCGCGCAGTATAAGG 61.586 63.158 32.58 20.65 0.00 2.69
899 944 1.418342 AACCACGCGCGCAGTATAAG 61.418 55.000 32.58 15.32 0.00 1.73
900 945 0.179142 TAACCACGCGCGCAGTATAA 60.179 50.000 32.58 13.31 0.00 0.98
901 946 0.031043 ATAACCACGCGCGCAGTATA 59.969 50.000 32.58 19.87 0.00 1.47
902 947 0.808453 AATAACCACGCGCGCAGTAT 60.808 50.000 32.58 18.81 0.00 2.12
903 948 1.446445 AATAACCACGCGCGCAGTA 60.446 52.632 32.58 17.30 0.00 2.74
904 949 2.740826 AATAACCACGCGCGCAGT 60.741 55.556 32.58 24.73 0.00 4.40
905 950 2.276617 CAATAACCACGCGCGCAG 60.277 61.111 32.58 23.97 0.00 5.18
906 951 4.453183 GCAATAACCACGCGCGCA 62.453 61.111 32.58 11.00 0.00 6.09
912 957 4.530325 GGGCGCGCAATAACCACG 62.530 66.667 34.42 0.00 0.00 4.94
913 958 4.530325 CGGGCGCGCAATAACCAC 62.530 66.667 34.42 12.59 0.00 4.16
951 996 3.675482 TTGGCCATTTTAGCGCGCG 62.675 57.895 28.44 28.44 0.00 6.86
952 997 0.805711 ATTTGGCCATTTTAGCGCGC 60.806 50.000 26.66 26.66 0.00 6.86
953 998 1.639280 AATTTGGCCATTTTAGCGCG 58.361 45.000 6.09 0.00 0.00 6.86
954 999 2.476018 GCAAATTTGGCCATTTTAGCGC 60.476 45.455 19.47 0.00 0.00 5.92
955 1000 2.222774 CGCAAATTTGGCCATTTTAGCG 60.223 45.455 25.26 25.26 35.42 4.26
956 1001 2.095692 CCGCAAATTTGGCCATTTTAGC 59.904 45.455 19.47 14.16 0.00 3.09
957 1002 2.095692 GCCGCAAATTTGGCCATTTTAG 59.904 45.455 19.47 7.65 45.73 1.85
958 1003 2.079925 GCCGCAAATTTGGCCATTTTA 58.920 42.857 19.47 0.00 45.73 1.52
959 1004 0.880441 GCCGCAAATTTGGCCATTTT 59.120 45.000 19.47 7.37 45.73 1.82
960 1005 2.553962 GCCGCAAATTTGGCCATTT 58.446 47.368 19.47 1.35 45.73 2.32
961 1006 4.299756 GCCGCAAATTTGGCCATT 57.700 50.000 19.47 0.00 45.73 3.16
966 1011 3.329688 TACCGCGCCGCAAATTTGG 62.330 57.895 19.47 2.97 0.00 3.28
967 1012 1.867373 CTACCGCGCCGCAAATTTG 60.867 57.895 14.03 14.03 0.00 2.32
968 1013 2.483288 CTACCGCGCCGCAAATTT 59.517 55.556 10.75 0.00 0.00 1.82
969 1014 4.174129 GCTACCGCGCCGCAAATT 62.174 61.111 10.75 0.00 0.00 1.82
981 1026 4.752879 TCCAACAGCCGCGCTACC 62.753 66.667 5.56 0.00 36.40 3.18
982 1027 2.907897 ATCTCCAACAGCCGCGCTAC 62.908 60.000 5.56 0.00 36.40 3.58
983 1028 2.721167 ATCTCCAACAGCCGCGCTA 61.721 57.895 5.56 0.00 36.40 4.26
984 1029 4.087892 ATCTCCAACAGCCGCGCT 62.088 61.111 5.56 0.00 40.77 5.92
985 1030 3.869272 CATCTCCAACAGCCGCGC 61.869 66.667 0.00 0.00 0.00 6.86
986 1031 3.869272 GCATCTCCAACAGCCGCG 61.869 66.667 0.00 0.00 0.00 6.46
987 1032 2.437359 AGCATCTCCAACAGCCGC 60.437 61.111 0.00 0.00 0.00 6.53
988 1033 3.805267 GAGCATCTCCAACAGCCG 58.195 61.111 0.00 0.00 0.00 5.52
1513 1609 5.462530 TCTGTCAAGGACAAGAACGATAA 57.537 39.130 0.33 0.00 42.26 1.75
1514 1610 5.661056 ATCTGTCAAGGACAAGAACGATA 57.339 39.130 0.33 0.00 42.26 2.92
1539 1635 4.511082 CAGACGGGTAACTAAAAACGGAAA 59.489 41.667 0.00 0.00 0.00 3.13
1546 1653 3.132925 GCACACAGACGGGTAACTAAAA 58.867 45.455 0.00 0.00 0.00 1.52
1547 1654 2.758009 GCACACAGACGGGTAACTAAA 58.242 47.619 0.00 0.00 0.00 1.85
1548 1655 1.336148 CGCACACAGACGGGTAACTAA 60.336 52.381 0.00 0.00 0.00 2.24
1549 1656 0.241749 CGCACACAGACGGGTAACTA 59.758 55.000 0.00 0.00 0.00 2.24
1550 1657 1.006571 CGCACACAGACGGGTAACT 60.007 57.895 0.00 0.00 0.00 2.24
1551 1658 2.664436 GCGCACACAGACGGGTAAC 61.664 63.158 0.30 0.00 0.00 2.50
1552 1659 2.356553 GCGCACACAGACGGGTAA 60.357 61.111 0.30 0.00 0.00 2.85
1553 1660 4.710695 CGCGCACACAGACGGGTA 62.711 66.667 8.75 0.00 37.44 3.69
1577 1684 4.758251 CAGGTCATGGCGGCGACA 62.758 66.667 21.84 21.84 33.66 4.35
1626 1733 2.280797 TGCACCTGTGAAGTCGCC 60.281 61.111 0.51 0.00 0.00 5.54
1830 1937 4.351938 CTCGACGTGGTCCCGCAA 62.352 66.667 0.00 0.00 0.00 4.85
1866 1973 2.105128 CAGGTGGAGCGGATCGAC 59.895 66.667 0.00 0.00 36.00 4.20
2021 2132 4.017380 GCAGAAAGCACATCTCAGAATG 57.983 45.455 0.00 0.00 44.79 2.67
2034 2145 2.945668 ACCGATCCATTAAGCAGAAAGC 59.054 45.455 0.00 0.00 46.19 3.51
2054 2165 3.749373 CGACCAACACGACGCGAC 61.749 66.667 15.93 5.54 0.00 5.19
2070 2189 2.103042 GGCAGGAAGTACAGCTGCG 61.103 63.158 15.27 0.00 41.44 5.18
2076 2195 2.048597 CGCACGGCAGGAAGTACA 60.049 61.111 0.00 0.00 0.00 2.90
2326 2445 2.927871 GCAAATGTGTCCCTGTTCATGC 60.928 50.000 0.00 0.00 0.00 4.06
2638 2771 3.622826 CCCGAACACCACCGTCCT 61.623 66.667 0.00 0.00 0.00 3.85
2655 2788 3.160748 GCCAGCTCCTCCTCCCTC 61.161 72.222 0.00 0.00 0.00 4.30
2693 2826 3.764466 CCTTCTCGCAGCCCGACT 61.764 66.667 0.00 0.00 41.89 4.18
2733 2866 0.953960 GCGTCGTTTCATTCCCCAGT 60.954 55.000 0.00 0.00 0.00 4.00
2891 3057 9.713740 GTATAGACTTTGCTTCATTTCAATGAG 57.286 33.333 2.57 0.04 45.35 2.90
2946 3430 1.459450 TTGCTTTATCCGGCTGTTCC 58.541 50.000 0.00 0.00 0.00 3.62
2948 3432 2.029380 GGTTTTGCTTTATCCGGCTGTT 60.029 45.455 0.00 0.00 0.00 3.16
2960 3444 2.628178 GTTTAGGAGGCTGGTTTTGCTT 59.372 45.455 0.00 0.00 0.00 3.91
2991 3475 1.063951 GGTCACTGTCTACGAACGCG 61.064 60.000 3.53 3.53 44.79 6.01
2996 3480 0.250424 TCACCGGTCACTGTCTACGA 60.250 55.000 2.59 0.00 0.00 3.43
2999 3483 1.248785 GGCTCACCGGTCACTGTCTA 61.249 60.000 2.59 0.00 0.00 2.59
3030 5819 0.539438 ATTTGTGGACACGGGCACAT 60.539 50.000 0.00 0.00 0.00 3.21
3031 5820 1.152860 ATTTGTGGACACGGGCACA 60.153 52.632 0.00 0.00 0.00 4.57
3034 5823 2.686816 CCGATTTGTGGACACGGGC 61.687 63.158 0.00 0.00 39.92 6.13
3036 5825 2.303163 TATCCGATTTGTGGACACGG 57.697 50.000 0.00 0.00 44.09 4.94
3039 5828 5.351948 TTGAGATATCCGATTTGTGGACA 57.648 39.130 0.00 0.00 38.60 4.02
3040 5829 6.346919 CGATTTGAGATATCCGATTTGTGGAC 60.347 42.308 0.00 0.00 38.60 4.02
3041 5830 5.696270 CGATTTGAGATATCCGATTTGTGGA 59.304 40.000 0.00 0.00 40.46 4.02
3042 5831 5.106948 CCGATTTGAGATATCCGATTTGTGG 60.107 44.000 0.00 0.00 0.00 4.17
3043 5832 5.696270 TCCGATTTGAGATATCCGATTTGTG 59.304 40.000 0.00 0.00 0.00 3.33
3045 5834 5.120830 GGTCCGATTTGAGATATCCGATTTG 59.879 44.000 0.00 0.00 0.00 2.32
3046 5835 5.238583 GGTCCGATTTGAGATATCCGATTT 58.761 41.667 0.00 0.00 0.00 2.17
3047 5836 4.322801 GGGTCCGATTTGAGATATCCGATT 60.323 45.833 0.00 0.00 0.00 3.34
3048 5837 3.195825 GGGTCCGATTTGAGATATCCGAT 59.804 47.826 0.00 0.00 0.00 4.18
3049 5838 2.561419 GGGTCCGATTTGAGATATCCGA 59.439 50.000 0.00 0.00 0.00 4.55
3050 5839 2.353803 GGGGTCCGATTTGAGATATCCG 60.354 54.545 0.00 0.00 0.00 4.18
3051 5840 2.907042 AGGGGTCCGATTTGAGATATCC 59.093 50.000 0.00 0.00 0.00 2.59
3052 5841 3.578716 TGAGGGGTCCGATTTGAGATATC 59.421 47.826 0.00 0.00 0.00 1.63
3053 5842 3.587498 TGAGGGGTCCGATTTGAGATAT 58.413 45.455 0.00 0.00 0.00 1.63
3054 5843 3.040655 TGAGGGGTCCGATTTGAGATA 57.959 47.619 0.00 0.00 0.00 1.98
3055 5844 1.879575 TGAGGGGTCCGATTTGAGAT 58.120 50.000 0.00 0.00 0.00 2.75
3056 5845 1.651737 TTGAGGGGTCCGATTTGAGA 58.348 50.000 0.00 0.00 0.00 3.27
3057 5846 2.489938 TTTGAGGGGTCCGATTTGAG 57.510 50.000 0.00 0.00 0.00 3.02
3058 5847 2.961531 TTTTGAGGGGTCCGATTTGA 57.038 45.000 0.00 0.00 0.00 2.69
3059 5848 2.097466 CGATTTTGAGGGGTCCGATTTG 59.903 50.000 0.00 0.00 0.00 2.32
3065 5859 0.322546 AGCACGATTTTGAGGGGTCC 60.323 55.000 0.00 0.00 0.00 4.46
3078 5872 0.108377 ACGTTGCATGGATAGCACGA 60.108 50.000 14.86 0.00 42.54 4.35
3171 5967 6.382869 AATCTTTTGATCCGATGAACCATC 57.617 37.500 0.00 0.00 38.40 3.51
3173 5969 6.884295 ACTAAATCTTTTGATCCGATGAACCA 59.116 34.615 0.00 0.00 38.40 3.67
3290 6087 3.345808 GCAACGGCGACTGCAAGA 61.346 61.111 25.71 0.00 45.35 3.02
3315 6112 1.137086 GCCGACACATACACAGAGGAT 59.863 52.381 0.00 0.00 0.00 3.24
3316 6113 0.530744 GCCGACACATACACAGAGGA 59.469 55.000 0.00 0.00 0.00 3.71
3377 6174 2.433145 CGTCCGCATCACACTGCT 60.433 61.111 0.00 0.00 40.06 4.24
3499 6839 0.910088 CCTCTCCTCGTCCCCCTTTT 60.910 60.000 0.00 0.00 0.00 2.27
3562 7338 0.909623 ATCCCCACCTAGACAAACCG 59.090 55.000 0.00 0.00 0.00 4.44
3594 7370 1.224592 GTGCCCATCGGACCATCTT 59.775 57.895 0.00 0.00 0.00 2.40
3645 7436 1.458588 GGCACCCCTCAAACCCAAA 60.459 57.895 0.00 0.00 0.00 3.28


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

AutoCloner maintained by Alex Coulton.