Multiple sequence alignment - TraesCS2D01G188100

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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 TraesCS2D01G188100 chr2D 100.000 2858 0 0 1 2858 131387469 131390326 0.000000e+00 5278.0
1 TraesCS2D01G188100 chr2D 87.430 899 63 22 1 853 476700259 476699365 0.000000e+00 989.0
2 TraesCS2D01G188100 chr2D 99.286 420 3 0 2438 2857 131396923 131397342 0.000000e+00 760.0
3 TraesCS2D01G188100 chr2D 79.601 902 97 38 1 838 520641772 520642650 1.490000e-157 566.0
4 TraesCS2D01G188100 chr3D 95.293 871 27 5 1 869 30422562 30423420 0.000000e+00 1369.0
5 TraesCS2D01G188100 chr3D 97.847 418 9 0 2441 2858 289047813 289047396 0.000000e+00 723.0
6 TraesCS2D01G188100 chr3D 88.491 530 39 11 1826 2349 550511366 550510853 3.130000e-174 621.0
7 TraesCS2D01G188100 chr3D 86.499 437 42 10 1 427 10697030 10697459 5.580000e-127 464.0
8 TraesCS2D01G188100 chr3D 97.872 94 2 0 2348 2441 357138094 357138001 2.280000e-36 163.0
9 TraesCS2D01G188100 chr3D 96.040 101 2 2 2343 2441 494618899 494618799 2.280000e-36 163.0
10 TraesCS2D01G188100 chr3D 92.958 71 4 1 794 864 710366 710297 5.040000e-18 102.0
11 TraesCS2D01G188100 chr2B 91.574 807 39 11 975 1780 185793852 185794630 0.000000e+00 1086.0
12 TraesCS2D01G188100 chr2B 93.765 417 23 2 1 415 558184883 558185298 8.700000e-175 623.0
13 TraesCS2D01G188100 chr2B 83.512 467 51 14 410 853 557826006 557825543 2.050000e-111 412.0
14 TraesCS2D01G188100 chr2B 89.011 91 5 1 860 945 62608282 62608372 1.080000e-19 108.0
15 TraesCS2D01G188100 chr2B 89.286 56 5 1 2287 2341 726687675 726687730 5.110000e-08 69.4
16 TraesCS2D01G188100 chr2B 100.000 29 0 0 947 975 185793805 185793833 1.000000e-03 54.7
17 TraesCS2D01G188100 chr4B 88.852 906 52 13 4 863 189983743 189982841 0.000000e+00 1068.0
18 TraesCS2D01G188100 chr4B 84.848 693 66 13 1 660 568738530 568737844 0.000000e+00 662.0
19 TraesCS2D01G188100 chr4B 91.011 89 8 0 763 851 568737736 568737648 1.390000e-23 121.0
20 TraesCS2D01G188100 chr4B 96.154 52 2 0 796 847 55728403 55728352 5.070000e-13 86.1
21 TraesCS2D01G188100 chr4B 94.231 52 3 0 796 847 42528403 42528454 2.360000e-11 80.5
22 TraesCS2D01G188100 chr4B 94.231 52 3 0 796 847 646986665 646986716 2.360000e-11 80.5
23 TraesCS2D01G188100 chr7B 88.704 903 53 14 4 860 18204860 18203961 0.000000e+00 1057.0
24 TraesCS2D01G188100 chr7B 78.108 909 98 42 3 864 114416258 114415404 1.540000e-132 483.0
25 TraesCS2D01G188100 chr7B 88.406 138 12 2 1880 2014 64476228 64476364 2.280000e-36 163.0
26 TraesCS2D01G188100 chr7B 89.011 91 5 2 860 945 20262764 20262674 1.080000e-19 108.0
27 TraesCS2D01G188100 chr7B 86.869 99 8 1 860 953 556825390 556825292 3.890000e-19 106.0
28 TraesCS2D01G188100 chr7B 86.000 100 9 3 860 954 714409229 714409130 5.040000e-18 102.0
29 TraesCS2D01G188100 chr5B 88.061 913 60 16 1 867 262431265 262432174 0.000000e+00 1037.0
30 TraesCS2D01G188100 chr5B 80.176 797 123 19 991 1773 669690649 669689874 5.350000e-157 564.0
31 TraesCS2D01G188100 chr5B 82.727 550 84 7 1090 1630 669688185 669687638 1.990000e-131 479.0
32 TraesCS2D01G188100 chr5B 82.465 576 41 20 325 860 439450871 439450316 1.560000e-122 449.0
33 TraesCS2D01G188100 chr5B 93.617 282 14 2 4 283 439451126 439450847 4.400000e-113 418.0
34 TraesCS2D01G188100 chr5B 90.441 136 11 2 1880 2014 508817595 508817461 8.140000e-41 178.0
35 TraesCS2D01G188100 chr5B 94.792 96 4 1 1668 1762 669687636 669687541 6.380000e-32 148.0
36 TraesCS2D01G188100 chr5B 86.735 98 7 3 852 945 232293489 232293584 1.400000e-18 104.0
37 TraesCS2D01G188100 chr1A 88.328 891 46 20 1 862 95834829 95833968 0.000000e+00 1016.0
38 TraesCS2D01G188100 chr1A 86.869 99 7 2 860 953 587353804 587353901 3.890000e-19 106.0
39 TraesCS2D01G188100 chr1A 85.859 99 7 2 852 945 301161463 301161367 6.520000e-17 99.0
40 TraesCS2D01G188100 chr5D 87.853 708 67 10 1059 1757 530442363 530441666 0.000000e+00 813.0
41 TraesCS2D01G188100 chr5D 98.082 417 6 2 2442 2858 112121619 112122033 0.000000e+00 725.0
42 TraesCS2D01G188100 chr5D 82.484 805 108 18 975 1770 530491848 530491068 0.000000e+00 675.0
43 TraesCS2D01G188100 chr5D 78.824 935 100 45 1 861 112841978 112841068 9.010000e-150 540.0
44 TraesCS2D01G188100 chr5D 82.126 649 81 17 991 1626 530439048 530438422 9.070000e-145 523.0
45 TraesCS2D01G188100 chr5D 86.164 159 12 10 1828 1979 429590926 429590771 2.280000e-36 163.0
46 TraesCS2D01G188100 chr5D 91.000 100 4 2 1673 1768 530438407 530438309 2.310000e-26 130.0
47 TraesCS2D01G188100 chr6D 98.317 416 7 0 2442 2857 383717719 383718134 0.000000e+00 730.0
48 TraesCS2D01G188100 chr6D 98.925 93 1 0 2349 2441 452393191 452393099 1.760000e-37 167.0
49 TraesCS2D01G188100 chr6D 86.275 102 8 2 860 956 308783932 308783832 3.890000e-19 106.0
50 TraesCS2D01G188100 chr6D 87.912 91 6 2 860 945 83772531 83772441 5.040000e-18 102.0
51 TraesCS2D01G188100 chr6D 87.912 91 6 1 860 945 146175617 146175707 5.040000e-18 102.0
52 TraesCS2D01G188100 chr6D 86.813 91 7 1 860 945 68629363 68629453 2.340000e-16 97.1
53 TraesCS2D01G188100 chr6D 86.813 91 7 2 860 945 152468431 152468521 2.340000e-16 97.1
54 TraesCS2D01G188100 chr1D 98.082 417 8 0 2442 2858 449853306 449853722 0.000000e+00 726.0
55 TraesCS2D01G188100 chr1D 98.082 417 8 0 2442 2858 449854931 449855347 0.000000e+00 726.0
56 TraesCS2D01G188100 chr1D 97.857 420 8 1 2438 2857 407200939 407201357 0.000000e+00 725.0
57 TraesCS2D01G188100 chr1D 82.615 650 91 14 949 1591 321319259 321319893 3.220000e-154 555.0
58 TraesCS2D01G188100 chr1D 85.616 438 44 12 1 427 304629431 304629860 2.610000e-120 442.0
59 TraesCS2D01G188100 chr1D 96.907 97 3 0 2345 2441 400167323 400167227 2.280000e-36 163.0
60 TraesCS2D01G188100 chr1D 84.615 104 10 3 860 958 46330909 46330807 6.520000e-17 99.0
61 TraesCS2D01G188100 chr1D 85.567 97 9 2 860 951 70893301 70893205 2.340000e-16 97.1
62 TraesCS2D01G188100 chr1D 83.810 105 11 3 860 958 442835813 442835917 8.430000e-16 95.3
63 TraesCS2D01G188100 chrUn 97.619 420 10 0 2438 2857 446223925 446224344 0.000000e+00 721.0
64 TraesCS2D01G188100 chrUn 97.895 95 2 0 2347 2441 265482795 265482701 6.330000e-37 165.0
65 TraesCS2D01G188100 chrUn 86.813 91 7 3 860 945 103268470 103268380 2.340000e-16 97.1
66 TraesCS2D01G188100 chrUn 86.813 91 7 1 860 945 124820199 124820109 2.340000e-16 97.1
67 TraesCS2D01G188100 chrUn 85.000 100 10 2 860 954 314206988 314206889 2.340000e-16 97.1
68 TraesCS2D01G188100 chrUn 86.813 91 7 3 860 945 322259955 322260045 2.340000e-16 97.1
69 TraesCS2D01G188100 chrUn 85.714 91 8 2 860 945 282758486 282758576 1.090000e-14 91.6
70 TraesCS2D01G188100 chrUn 85.714 91 8 2 860 945 291518011 291517921 1.090000e-14 91.6
71 TraesCS2D01G188100 chrUn 85.714 91 8 4 860 945 326734024 326733934 1.090000e-14 91.6
72 TraesCS2D01G188100 chrUn 85.714 91 8 4 860 945 355222326 355222236 1.090000e-14 91.6
73 TraesCS2D01G188100 chrUn 85.714 91 8 4 860 945 361886164 361886074 1.090000e-14 91.6
74 TraesCS2D01G188100 chr4D 97.847 418 8 1 2441 2858 309730331 309729915 0.000000e+00 721.0
75 TraesCS2D01G188100 chr4D 86.301 438 41 12 1 427 504556669 504557098 2.590000e-125 459.0
76 TraesCS2D01G188100 chr4D 82.353 102 10 7 5 105 455266407 455266313 6.560000e-12 82.4
77 TraesCS2D01G188100 chr2A 87.461 646 53 16 975 1600 138156061 138156698 0.000000e+00 719.0
78 TraesCS2D01G188100 chr2A 89.425 539 52 3 1813 2349 138161636 138162171 0.000000e+00 675.0
79 TraesCS2D01G188100 chr2A 80.357 896 116 28 1 851 158517724 158518604 2.420000e-175 625.0
80 TraesCS2D01G188100 chr2A 94.969 159 7 1 1622 1779 138161471 138161629 6.110000e-62 248.0
81 TraesCS2D01G188100 chr4A 84.116 724 92 11 1054 1770 641588573 641589280 0.000000e+00 678.0
82 TraesCS2D01G188100 chr4A 81.314 776 122 11 995 1764 641576608 641577366 2.430000e-170 608.0
83 TraesCS2D01G188100 chr4A 87.109 512 56 7 1770 2272 606592632 606592122 3.190000e-159 571.0
84 TraesCS2D01G188100 chr4A 91.176 136 11 1 1880 2014 648473951 648473816 1.750000e-42 183.0
85 TraesCS2D01G188100 chr4A 84.277 159 15 9 1828 1979 706195871 706195716 2.290000e-31 147.0
86 TraesCS2D01G188100 chr6B 86.499 437 41 9 1 427 710357970 710358398 5.580000e-127 464.0
87 TraesCS2D01G188100 chr6B 92.537 67 5 0 794 860 663128019 663128085 2.340000e-16 97.1
88 TraesCS2D01G188100 chr6B 92.308 52 4 0 796 847 11577023 11577074 1.100000e-09 75.0
89 TraesCS2D01G188100 chr3A 84.309 427 51 11 4 427 515916828 515916415 1.230000e-108 403.0
90 TraesCS2D01G188100 chr1B 87.121 264 23 4 173 427 250427583 250427322 3.600000e-74 289.0
91 TraesCS2D01G188100 chr1B 86.090 266 25 6 173 427 617640773 617640509 2.800000e-70 276.0
92 TraesCS2D01G188100 chr1B 89.130 184 18 2 55 237 670676965 670676783 7.970000e-56 228.0
93 TraesCS2D01G188100 chr1B 88.889 99 6 3 860 953 610303993 610303895 1.800000e-22 117.0
94 TraesCS2D01G188100 chr1B 88.889 90 5 3 861 945 444057227 444057316 3.890000e-19 106.0
95 TraesCS2D01G188100 chr1B 88.043 92 6 3 859 945 133022758 133022667 1.400000e-18 104.0
96 TraesCS2D01G188100 chr1B 86.458 96 8 3 860 950 90922850 90922755 1.810000e-17 100.0
97 TraesCS2D01G188100 chr1B 85.859 99 9 3 860 953 581458748 581458650 1.810000e-17 100.0
98 TraesCS2D01G188100 chr1B 94.231 52 3 0 796 847 667647036 667646985 2.360000e-11 80.5
99 TraesCS2D01G188100 chr7D 94.495 109 4 2 2334 2441 77072129 77072022 1.760000e-37 167.0
100 TraesCS2D01G188100 chr7D 97.917 96 2 0 2346 2441 634904338 634904433 1.760000e-37 167.0
101 TraesCS2D01G188100 chr7D 97.849 93 2 0 2349 2441 563056069 563055977 8.190000e-36 161.0
102 TraesCS2D01G188100 chr7D 91.150 113 8 2 2330 2441 185749515 185749626 4.930000e-33 152.0
103 TraesCS2D01G188100 chr7D 87.778 90 7 1 860 945 538520659 538520748 5.040000e-18 102.0
104 TraesCS2D01G188100 chr3B 84.516 155 15 8 1831 1979 174982721 174982872 8.250000e-31 145.0
105 TraesCS2D01G188100 chr6A 87.912 91 6 2 860 945 97092735 97092645 5.040000e-18 102.0
106 TraesCS2D01G188100 chr6A 94.231 52 3 0 796 847 76961081 76961030 2.360000e-11 80.5
107 TraesCS2D01G188100 chr5A 91.176 68 6 0 794 861 430501754 430501821 3.030000e-15 93.5


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 TraesCS2D01G188100 chr2D 131387469 131390326 2857 False 5278.000000 5278 100.000000 1 2858 1 chr2D.!!$F1 2857
1 TraesCS2D01G188100 chr2D 476699365 476700259 894 True 989.000000 989 87.430000 1 853 1 chr2D.!!$R1 852
2 TraesCS2D01G188100 chr2D 520641772 520642650 878 False 566.000000 566 79.601000 1 838 1 chr2D.!!$F3 837
3 TraesCS2D01G188100 chr3D 30422562 30423420 858 False 1369.000000 1369 95.293000 1 869 1 chr3D.!!$F2 868
4 TraesCS2D01G188100 chr3D 550510853 550511366 513 True 621.000000 621 88.491000 1826 2349 1 chr3D.!!$R5 523
5 TraesCS2D01G188100 chr2B 185793805 185794630 825 False 570.350000 1086 95.787000 947 1780 2 chr2B.!!$F4 833
6 TraesCS2D01G188100 chr4B 189982841 189983743 902 True 1068.000000 1068 88.852000 4 863 1 chr4B.!!$R2 859
7 TraesCS2D01G188100 chr4B 568737648 568738530 882 True 391.500000 662 87.929500 1 851 2 chr4B.!!$R3 850
8 TraesCS2D01G188100 chr7B 18203961 18204860 899 True 1057.000000 1057 88.704000 4 860 1 chr7B.!!$R1 856
9 TraesCS2D01G188100 chr7B 114415404 114416258 854 True 483.000000 483 78.108000 3 864 1 chr7B.!!$R3 861
10 TraesCS2D01G188100 chr5B 262431265 262432174 909 False 1037.000000 1037 88.061000 1 867 1 chr5B.!!$F2 866
11 TraesCS2D01G188100 chr5B 439450316 439451126 810 True 433.500000 449 88.041000 4 860 2 chr5B.!!$R2 856
12 TraesCS2D01G188100 chr5B 669687541 669690649 3108 True 397.000000 564 85.898333 991 1773 3 chr5B.!!$R3 782
13 TraesCS2D01G188100 chr1A 95833968 95834829 861 True 1016.000000 1016 88.328000 1 862 1 chr1A.!!$R1 861
14 TraesCS2D01G188100 chr5D 530491068 530491848 780 True 675.000000 675 82.484000 975 1770 1 chr5D.!!$R3 795
15 TraesCS2D01G188100 chr5D 112841068 112841978 910 True 540.000000 540 78.824000 1 861 1 chr5D.!!$R1 860
16 TraesCS2D01G188100 chr5D 530438309 530442363 4054 True 488.666667 813 86.993000 991 1768 3 chr5D.!!$R4 777
17 TraesCS2D01G188100 chr1D 449853306 449855347 2041 False 726.000000 726 98.082000 2442 2858 2 chr1D.!!$F5 416
18 TraesCS2D01G188100 chr1D 321319259 321319893 634 False 555.000000 555 82.615000 949 1591 1 chr1D.!!$F2 642
19 TraesCS2D01G188100 chr2A 138156061 138156698 637 False 719.000000 719 87.461000 975 1600 1 chr2A.!!$F1 625
20 TraesCS2D01G188100 chr2A 158517724 158518604 880 False 625.000000 625 80.357000 1 851 1 chr2A.!!$F2 850
21 TraesCS2D01G188100 chr2A 138161471 138162171 700 False 461.500000 675 92.197000 1622 2349 2 chr2A.!!$F3 727
22 TraesCS2D01G188100 chr4A 641588573 641589280 707 False 678.000000 678 84.116000 1054 1770 1 chr4A.!!$F2 716
23 TraesCS2D01G188100 chr4A 641576608 641577366 758 False 608.000000 608 81.314000 995 1764 1 chr4A.!!$F1 769
24 TraesCS2D01G188100 chr4A 606592122 606592632 510 True 571.000000 571 87.109000 1770 2272 1 chr4A.!!$R1 502

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
557 622 1.239347 GAACCCTCCTGTGTTTGAGC 58.761 55.0 0.0 0.0 0.0 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2552 8469 0.095935 CATTGGAACGCTTCTGCTCG 59.904 55.0 0.0 0.0 36.97 5.03 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
33 34 3.728718 CCACCATGTTCGTTTCTTTTTCG 59.271 43.478 0.00 0.00 0.00 3.46
328 347 2.826725 TGGAACCGGTGTTTCTTTTTGT 59.173 40.909 8.52 0.00 33.97 2.83
378 398 6.796705 AATCTACTACCGAAGTTTTTGTGG 57.203 37.500 0.00 0.00 39.80 4.17
557 622 1.239347 GAACCCTCCTGTGTTTGAGC 58.761 55.000 0.00 0.00 0.00 4.26
856 961 2.586914 GCCGGCGCCTATAAACGT 60.587 61.111 26.68 0.00 0.00 3.99
864 969 4.676196 CGGCGCCTATAAACGTCCTATAAT 60.676 45.833 26.68 0.00 0.00 1.28
865 970 5.173664 GGCGCCTATAAACGTCCTATAATT 58.826 41.667 22.15 0.00 0.00 1.40
866 971 5.640783 GGCGCCTATAAACGTCCTATAATTT 59.359 40.000 22.15 0.00 0.00 1.82
867 972 6.148315 GGCGCCTATAAACGTCCTATAATTTT 59.852 38.462 22.15 0.00 0.00 1.82
868 973 7.308169 GGCGCCTATAAACGTCCTATAATTTTT 60.308 37.037 22.15 0.00 0.00 1.94
869 974 7.532884 GCGCCTATAAACGTCCTATAATTTTTG 59.467 37.037 0.00 0.00 0.00 2.44
870 975 8.553696 CGCCTATAAACGTCCTATAATTTTTGT 58.446 33.333 0.00 0.00 0.00 2.83
871 976 9.659830 GCCTATAAACGTCCTATAATTTTTGTG 57.340 33.333 0.00 0.00 0.00 3.33
916 1021 8.694975 ATGATTGACAATCTAGATATACACGC 57.305 34.615 24.80 2.58 38.72 5.34
917 1022 7.657336 TGATTGACAATCTAGATATACACGCA 58.343 34.615 24.80 4.77 38.72 5.24
918 1023 7.809806 TGATTGACAATCTAGATATACACGCAG 59.190 37.037 24.80 0.00 38.72 5.18
919 1024 6.013842 TGACAATCTAGATATACACGCAGG 57.986 41.667 5.46 0.00 0.00 4.85
920 1025 5.768164 TGACAATCTAGATATACACGCAGGA 59.232 40.000 5.46 0.00 0.00 3.86
921 1026 6.015027 ACAATCTAGATATACACGCAGGAC 57.985 41.667 5.46 0.00 0.00 3.85
922 1027 5.770663 ACAATCTAGATATACACGCAGGACT 59.229 40.000 5.46 0.00 0.00 3.85
923 1028 6.265649 ACAATCTAGATATACACGCAGGACTT 59.734 38.462 5.46 0.00 0.00 3.01
924 1029 5.690997 TCTAGATATACACGCAGGACTTG 57.309 43.478 0.00 0.00 0.00 3.16
925 1030 5.131067 TCTAGATATACACGCAGGACTTGT 58.869 41.667 0.00 0.00 34.65 3.16
926 1031 6.293698 TCTAGATATACACGCAGGACTTGTA 58.706 40.000 0.00 0.00 37.41 2.41
927 1032 5.847111 AGATATACACGCAGGACTTGTAA 57.153 39.130 0.00 0.00 36.67 2.41
928 1033 6.216801 AGATATACACGCAGGACTTGTAAA 57.783 37.500 0.00 0.00 36.67 2.01
929 1034 6.040878 AGATATACACGCAGGACTTGTAAAC 58.959 40.000 0.00 0.00 36.67 2.01
930 1035 2.614829 ACACGCAGGACTTGTAAACT 57.385 45.000 0.00 0.00 0.00 2.66
931 1036 2.210116 ACACGCAGGACTTGTAAACTG 58.790 47.619 0.00 0.00 0.00 3.16
932 1037 2.159014 ACACGCAGGACTTGTAAACTGA 60.159 45.455 0.00 0.00 32.86 3.41
933 1038 2.476619 CACGCAGGACTTGTAAACTGAG 59.523 50.000 0.00 0.00 36.91 3.35
934 1039 2.364324 ACGCAGGACTTGTAAACTGAGA 59.636 45.455 0.00 0.00 35.24 3.27
935 1040 2.731976 CGCAGGACTTGTAAACTGAGAC 59.268 50.000 0.00 0.00 33.42 3.36
936 1041 2.731976 GCAGGACTTGTAAACTGAGACG 59.268 50.000 0.00 0.00 32.86 4.18
937 1042 3.552273 GCAGGACTTGTAAACTGAGACGA 60.552 47.826 0.00 0.00 32.86 4.20
938 1043 4.617959 CAGGACTTGTAAACTGAGACGAA 58.382 43.478 0.00 0.00 32.86 3.85
939 1044 4.681942 CAGGACTTGTAAACTGAGACGAAG 59.318 45.833 0.00 0.00 32.86 3.79
940 1045 3.988517 GGACTTGTAAACTGAGACGAAGG 59.011 47.826 0.00 0.00 0.00 3.46
941 1046 3.988517 GACTTGTAAACTGAGACGAAGGG 59.011 47.826 0.00 0.00 0.00 3.95
942 1047 3.640029 ACTTGTAAACTGAGACGAAGGGA 59.360 43.478 0.00 0.00 0.00 4.20
943 1048 3.936372 TGTAAACTGAGACGAAGGGAG 57.064 47.619 0.00 0.00 0.00 4.30
944 1049 3.228453 TGTAAACTGAGACGAAGGGAGT 58.772 45.455 0.00 0.00 0.00 3.85
945 1050 3.640029 TGTAAACTGAGACGAAGGGAGTT 59.360 43.478 0.00 0.00 0.00 3.01
1109 1239 5.951747 TCATATGTCGATGGATCCTCATGTA 59.048 40.000 14.23 0.00 0.00 2.29
1192 1322 0.936764 CCGTCCGCGATCATCAGAAG 60.937 60.000 8.23 0.00 41.33 2.85
1245 3762 0.830444 AGTGGGTTACGACTCCTGCA 60.830 55.000 0.00 0.00 28.69 4.41
1325 3871 1.885388 CGTCGCCACCAAACTCACA 60.885 57.895 0.00 0.00 0.00 3.58
1413 3959 1.471676 GCTCCTACAGGGACATGAACG 60.472 57.143 0.00 0.00 39.58 3.95
1480 4026 2.970324 GGCGTCCGACAAACTGCA 60.970 61.111 0.00 0.00 0.00 4.41
1713 4271 3.191162 TGGTTGATTTCCATTTGCTCGAG 59.809 43.478 8.45 8.45 0.00 4.04
1716 4274 0.734889 ATTTCCATTTGCTCGAGCGG 59.265 50.000 30.75 24.79 45.83 5.52
1789 7695 1.817447 ACTAGTAGAGTGTCCGTTGCC 59.183 52.381 3.59 0.00 36.87 4.52
1790 7696 1.816835 CTAGTAGAGTGTCCGTTGCCA 59.183 52.381 0.00 0.00 0.00 4.92
1791 7697 0.317479 AGTAGAGTGTCCGTTGCCAC 59.683 55.000 0.00 0.00 0.00 5.01
1792 7698 0.032952 GTAGAGTGTCCGTTGCCACA 59.967 55.000 0.00 0.00 33.99 4.17
1984 7898 9.936759 GATTTCCCTTTATATGAAAAACAACCA 57.063 29.630 0.00 0.00 32.29 3.67
2018 7934 2.030027 AACAGGTCATCCCTCTCACA 57.970 50.000 0.00 0.00 43.86 3.58
2042 7958 2.281070 CTGCACGGACACAAGCCT 60.281 61.111 0.00 0.00 0.00 4.58
2063 7979 5.788450 CCTTTACTCACATCTCACTCAACT 58.212 41.667 0.00 0.00 0.00 3.16
2136 8053 0.678684 TCCTCACCACGATGTCGCTA 60.679 55.000 1.77 0.00 44.43 4.26
2154 8071 0.468648 TATCGCCGTCTCTCTCCTCA 59.531 55.000 0.00 0.00 0.00 3.86
2157 8074 1.098129 CGCCGTCTCTCTCCTCATCA 61.098 60.000 0.00 0.00 0.00 3.07
2242 8159 4.400251 CCGTCCCCTCCACTCCCT 62.400 72.222 0.00 0.00 0.00 4.20
2256 8173 1.427368 ACTCCCTGCCATGGTTTACAA 59.573 47.619 14.67 0.00 0.00 2.41
2269 8186 2.164827 GGTTTACAATTTCGGCCGGATT 59.835 45.455 27.83 21.98 0.00 3.01
2318 8235 3.390521 TGAGCAGCCGGATCCGTT 61.391 61.111 31.22 17.24 37.81 4.44
2344 8261 2.224159 GGGAGGTGCAGAAGGGTCA 61.224 63.158 0.00 0.00 0.00 4.02
2357 8274 3.068562 GGGTCACCCTCACTAGTGT 57.931 57.895 21.99 0.00 41.34 3.55
2358 8275 2.226962 GGGTCACCCTCACTAGTGTA 57.773 55.000 21.99 8.56 41.34 2.90
2359 8276 2.100989 GGGTCACCCTCACTAGTGTAG 58.899 57.143 21.99 16.60 41.34 2.74
2360 8277 2.291411 GGGTCACCCTCACTAGTGTAGA 60.291 54.545 21.99 11.05 41.34 2.59
2361 8278 3.428532 GGTCACCCTCACTAGTGTAGAA 58.571 50.000 21.99 2.26 35.45 2.10
2362 8279 3.193056 GGTCACCCTCACTAGTGTAGAAC 59.807 52.174 21.99 12.42 35.45 3.01
2363 8280 3.193056 GTCACCCTCACTAGTGTAGAACC 59.807 52.174 21.99 3.52 35.45 3.62
2364 8281 2.163815 CACCCTCACTAGTGTAGAACCG 59.836 54.545 21.99 6.96 0.00 4.44
2365 8282 1.749634 CCCTCACTAGTGTAGAACCGG 59.250 57.143 21.99 0.00 0.00 5.28
2366 8283 1.749634 CCTCACTAGTGTAGAACCGGG 59.250 57.143 21.99 8.93 0.00 5.73
2367 8284 1.134560 CTCACTAGTGTAGAACCGGGC 59.865 57.143 21.99 0.00 0.00 6.13
2368 8285 1.183549 CACTAGTGTAGAACCGGGCT 58.816 55.000 15.06 5.20 0.00 5.19
2369 8286 1.549170 CACTAGTGTAGAACCGGGCTT 59.451 52.381 15.06 0.00 0.00 4.35
2370 8287 2.028385 CACTAGTGTAGAACCGGGCTTT 60.028 50.000 15.06 0.00 0.00 3.51
2371 8288 3.194116 CACTAGTGTAGAACCGGGCTTTA 59.806 47.826 15.06 0.00 0.00 1.85
2372 8289 3.446516 ACTAGTGTAGAACCGGGCTTTAG 59.553 47.826 6.32 6.11 0.00 1.85
2373 8290 1.066358 AGTGTAGAACCGGGCTTTAGC 60.066 52.381 6.32 0.00 41.14 3.09
2374 8291 0.108520 TGTAGAACCGGGCTTTAGCG 60.109 55.000 6.32 0.00 43.26 4.26
2382 8299 3.861263 GGCTTTAGCGCCGGTTCG 61.861 66.667 2.29 0.00 40.79 3.95
2383 8300 3.116531 GCTTTAGCGCCGGTTCGT 61.117 61.111 2.29 0.00 0.00 3.85
2384 8301 1.806758 GCTTTAGCGCCGGTTCGTA 60.807 57.895 2.29 0.00 0.00 3.43
2385 8302 1.353609 GCTTTAGCGCCGGTTCGTAA 61.354 55.000 2.29 0.00 0.00 3.18
2386 8303 0.643820 CTTTAGCGCCGGTTCGTAAG 59.356 55.000 2.29 0.00 0.00 2.34
2387 8304 0.737019 TTTAGCGCCGGTTCGTAAGG 60.737 55.000 2.29 0.00 38.47 2.69
2388 8305 2.561549 TTAGCGCCGGTTCGTAAGGG 62.562 60.000 2.29 0.00 38.47 3.95
2391 8308 4.091939 GCCGGTTCGTAAGGGCCT 62.092 66.667 0.00 0.00 39.67 5.19
2392 8309 2.666812 CCGGTTCGTAAGGGCCTT 59.333 61.111 24.44 24.44 38.47 4.35
2393 8310 1.002990 CCGGTTCGTAAGGGCCTTT 60.003 57.895 26.29 5.08 38.47 3.11
2394 8311 0.249955 CCGGTTCGTAAGGGCCTTTA 59.750 55.000 26.29 2.60 38.47 1.85
2395 8312 1.648504 CGGTTCGTAAGGGCCTTTAG 58.351 55.000 26.29 18.30 38.47 1.85
2396 8313 1.066645 CGGTTCGTAAGGGCCTTTAGT 60.067 52.381 26.29 1.50 38.47 2.24
2397 8314 2.353323 GGTTCGTAAGGGCCTTTAGTG 58.647 52.381 26.29 11.88 38.47 2.74
2398 8315 2.289882 GGTTCGTAAGGGCCTTTAGTGT 60.290 50.000 26.29 0.13 38.47 3.55
2399 8316 2.998670 GTTCGTAAGGGCCTTTAGTGTC 59.001 50.000 26.29 7.62 38.47 3.67
2400 8317 1.203052 TCGTAAGGGCCTTTAGTGTCG 59.797 52.381 26.29 17.85 38.47 4.35
2401 8318 1.738030 CGTAAGGGCCTTTAGTGTCGG 60.738 57.143 26.29 1.40 0.00 4.79
2402 8319 1.277273 GTAAGGGCCTTTAGTGTCGGT 59.723 52.381 26.29 0.00 0.00 4.69
2403 8320 0.769247 AAGGGCCTTTAGTGTCGGTT 59.231 50.000 14.48 0.00 0.00 4.44
2404 8321 0.323957 AGGGCCTTTAGTGTCGGTTC 59.676 55.000 0.00 0.00 0.00 3.62
2405 8322 0.323957 GGGCCTTTAGTGTCGGTTCT 59.676 55.000 0.84 0.00 0.00 3.01
2406 8323 1.439679 GGCCTTTAGTGTCGGTTCTG 58.560 55.000 0.00 0.00 0.00 3.02
2407 8324 0.796927 GCCTTTAGTGTCGGTTCTGC 59.203 55.000 0.00 0.00 0.00 4.26
2408 8325 1.876416 GCCTTTAGTGTCGGTTCTGCA 60.876 52.381 0.00 0.00 0.00 4.41
2409 8326 2.489971 CCTTTAGTGTCGGTTCTGCAA 58.510 47.619 0.00 0.00 0.00 4.08
2410 8327 2.223377 CCTTTAGTGTCGGTTCTGCAAC 59.777 50.000 0.00 0.00 0.00 4.17
2424 8341 2.928416 GCAACCGGCACTAAAGAGT 58.072 52.632 0.00 0.00 43.97 3.24
2437 8354 5.408880 ACTAAAGAGTGGAGACTAAAGCC 57.591 43.478 0.00 0.00 33.41 4.35
2438 8355 3.704800 AAAGAGTGGAGACTAAAGCCC 57.295 47.619 0.00 0.00 30.16 5.19
2439 8356 1.574263 AGAGTGGAGACTAAAGCCCC 58.426 55.000 0.00 0.00 30.16 5.80
2440 8357 0.542333 GAGTGGAGACTAAAGCCCCC 59.458 60.000 0.00 0.00 30.16 5.40
2485 8402 3.824414 AAAATTTTCCTACGCTCACCG 57.176 42.857 0.00 0.00 44.21 4.94
2490 8407 1.022735 TTCCTACGCTCACCGAGATC 58.977 55.000 0.00 0.00 41.02 2.75
2557 8474 1.320344 ACCCTTGTAGATCGCGAGCA 61.320 55.000 27.74 13.71 0.00 4.26
2562 8479 0.248661 TGTAGATCGCGAGCAGAAGC 60.249 55.000 27.74 11.40 42.56 3.86
2694 8611 2.114616 TCTCCTCCTTCTTGATCCAGC 58.885 52.381 0.00 0.00 0.00 4.85
2723 8640 2.688477 AGGAGAGGTTGATGGAGATCC 58.312 52.381 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 3.066064 GCAAAATTTTGGGTTGGTTCCAC 59.934 43.478 27.60 6.95 38.57 4.02
378 398 4.051237 GGTTCCAGCAAAAATCTCAACAC 58.949 43.478 0.00 0.00 0.00 3.32
557 622 1.792301 CTGCTCGTCATGGTTGCAG 59.208 57.895 13.32 13.32 43.71 4.41
602 667 2.980233 GCCGCTTGCCTGACAGTT 60.980 61.111 0.93 0.00 0.00 3.16
759 864 5.108385 ACCGTCTGATTGCTTTGTTTTAG 57.892 39.130 0.00 0.00 0.00 1.85
890 995 9.144747 GCGTGTATATCTAGATTGTCAATCATT 57.855 33.333 24.13 9.81 40.42 2.57
891 996 8.306761 TGCGTGTATATCTAGATTGTCAATCAT 58.693 33.333 24.13 13.29 40.42 2.45
892 997 7.657336 TGCGTGTATATCTAGATTGTCAATCA 58.343 34.615 24.13 11.44 40.42 2.57
893 998 7.274468 CCTGCGTGTATATCTAGATTGTCAATC 59.726 40.741 16.47 16.47 38.20 2.67
894 999 7.039714 TCCTGCGTGTATATCTAGATTGTCAAT 60.040 37.037 11.25 0.00 0.00 2.57
895 1000 6.264518 TCCTGCGTGTATATCTAGATTGTCAA 59.735 38.462 11.25 0.00 0.00 3.18
896 1001 5.768164 TCCTGCGTGTATATCTAGATTGTCA 59.232 40.000 11.25 5.09 0.00 3.58
897 1002 6.072397 AGTCCTGCGTGTATATCTAGATTGTC 60.072 42.308 11.25 2.52 0.00 3.18
898 1003 5.770663 AGTCCTGCGTGTATATCTAGATTGT 59.229 40.000 11.25 3.12 0.00 2.71
899 1004 6.260870 AGTCCTGCGTGTATATCTAGATTG 57.739 41.667 11.25 0.00 0.00 2.67
900 1005 6.265649 ACAAGTCCTGCGTGTATATCTAGATT 59.734 38.462 11.25 1.81 38.01 2.40
901 1006 5.770663 ACAAGTCCTGCGTGTATATCTAGAT 59.229 40.000 10.73 10.73 38.01 1.98
902 1007 5.131067 ACAAGTCCTGCGTGTATATCTAGA 58.869 41.667 0.00 0.00 38.01 2.43
903 1008 5.440234 ACAAGTCCTGCGTGTATATCTAG 57.560 43.478 0.00 0.00 38.01 2.43
904 1009 6.947644 TTACAAGTCCTGCGTGTATATCTA 57.052 37.500 0.00 0.00 40.64 1.98
905 1010 5.847111 TTACAAGTCCTGCGTGTATATCT 57.153 39.130 0.00 0.00 40.64 1.98
906 1011 6.019801 CAGTTTACAAGTCCTGCGTGTATATC 60.020 42.308 0.00 0.00 40.64 1.63
907 1012 5.810587 CAGTTTACAAGTCCTGCGTGTATAT 59.189 40.000 0.00 0.00 40.64 0.86
908 1013 5.047872 TCAGTTTACAAGTCCTGCGTGTATA 60.048 40.000 0.00 0.00 40.64 1.47
909 1014 3.994392 CAGTTTACAAGTCCTGCGTGTAT 59.006 43.478 0.00 0.00 40.64 2.29
910 1015 3.068448 TCAGTTTACAAGTCCTGCGTGTA 59.932 43.478 0.00 0.00 40.21 2.90
911 1016 2.159014 TCAGTTTACAAGTCCTGCGTGT 60.159 45.455 0.00 0.00 42.26 4.49
912 1017 2.476619 CTCAGTTTACAAGTCCTGCGTG 59.523 50.000 0.00 0.00 0.00 5.34
913 1018 2.364324 TCTCAGTTTACAAGTCCTGCGT 59.636 45.455 0.00 0.00 0.00 5.24
914 1019 2.731976 GTCTCAGTTTACAAGTCCTGCG 59.268 50.000 0.00 0.00 0.00 5.18
915 1020 2.731976 CGTCTCAGTTTACAAGTCCTGC 59.268 50.000 0.00 0.00 0.00 4.85
916 1021 4.238761 TCGTCTCAGTTTACAAGTCCTG 57.761 45.455 0.00 0.00 0.00 3.86
917 1022 4.262079 CCTTCGTCTCAGTTTACAAGTCCT 60.262 45.833 0.00 0.00 0.00 3.85
918 1023 3.988517 CCTTCGTCTCAGTTTACAAGTCC 59.011 47.826 0.00 0.00 0.00 3.85
919 1024 3.988517 CCCTTCGTCTCAGTTTACAAGTC 59.011 47.826 0.00 0.00 0.00 3.01
920 1025 3.640029 TCCCTTCGTCTCAGTTTACAAGT 59.360 43.478 0.00 0.00 0.00 3.16
921 1026 4.238514 CTCCCTTCGTCTCAGTTTACAAG 58.761 47.826 0.00 0.00 0.00 3.16
922 1027 3.640029 ACTCCCTTCGTCTCAGTTTACAA 59.360 43.478 0.00 0.00 0.00 2.41
923 1028 3.228453 ACTCCCTTCGTCTCAGTTTACA 58.772 45.455 0.00 0.00 0.00 2.41
924 1029 3.938289 ACTCCCTTCGTCTCAGTTTAC 57.062 47.619 0.00 0.00 0.00 2.01
925 1030 4.150359 AGAACTCCCTTCGTCTCAGTTTA 58.850 43.478 0.00 0.00 33.60 2.01
926 1031 2.966516 AGAACTCCCTTCGTCTCAGTTT 59.033 45.455 0.00 0.00 33.60 2.66
927 1032 2.599677 AGAACTCCCTTCGTCTCAGTT 58.400 47.619 0.00 0.00 33.60 3.16
928 1033 2.296073 AGAACTCCCTTCGTCTCAGT 57.704 50.000 0.00 0.00 33.60 3.41
929 1034 4.642885 AGATAAGAACTCCCTTCGTCTCAG 59.357 45.833 0.00 0.00 33.60 3.35
930 1035 4.601084 AGATAAGAACTCCCTTCGTCTCA 58.399 43.478 0.00 0.00 33.60 3.27
931 1036 5.450826 GGAAGATAAGAACTCCCTTCGTCTC 60.451 48.000 0.00 0.00 35.38 3.36
932 1037 4.403113 GGAAGATAAGAACTCCCTTCGTCT 59.597 45.833 0.00 0.00 35.38 4.18
933 1038 4.403113 AGGAAGATAAGAACTCCCTTCGTC 59.597 45.833 0.00 0.00 35.38 4.20
934 1039 4.354662 AGGAAGATAAGAACTCCCTTCGT 58.645 43.478 0.00 0.00 35.38 3.85
935 1040 4.402793 TGAGGAAGATAAGAACTCCCTTCG 59.597 45.833 0.00 0.00 35.38 3.79
936 1041 5.941555 TGAGGAAGATAAGAACTCCCTTC 57.058 43.478 0.00 0.00 34.19 3.46
937 1042 5.069781 CGATGAGGAAGATAAGAACTCCCTT 59.930 44.000 0.00 0.00 0.00 3.95
938 1043 4.586841 CGATGAGGAAGATAAGAACTCCCT 59.413 45.833 0.00 0.00 0.00 4.20
939 1044 4.797933 GCGATGAGGAAGATAAGAACTCCC 60.798 50.000 0.00 0.00 0.00 4.30
940 1045 4.038642 AGCGATGAGGAAGATAAGAACTCC 59.961 45.833 0.00 0.00 0.00 3.85
941 1046 4.981674 CAGCGATGAGGAAGATAAGAACTC 59.018 45.833 0.00 0.00 0.00 3.01
942 1047 4.202202 CCAGCGATGAGGAAGATAAGAACT 60.202 45.833 0.06 0.00 0.00 3.01
943 1048 4.054671 CCAGCGATGAGGAAGATAAGAAC 58.945 47.826 0.06 0.00 0.00 3.01
944 1049 3.706594 ACCAGCGATGAGGAAGATAAGAA 59.293 43.478 0.06 0.00 0.00 2.52
945 1050 3.300388 ACCAGCGATGAGGAAGATAAGA 58.700 45.455 0.06 0.00 0.00 2.10
1109 1239 4.027437 GGATGAGGGTGAGAAGTAGAACT 58.973 47.826 0.00 0.00 0.00 3.01
1222 1352 1.509923 GAGTCGTAACCCACTCCCG 59.490 63.158 0.00 0.00 34.09 5.14
1319 3865 1.227556 GACGTTGGCCACTGTGAGT 60.228 57.895 3.88 0.00 0.00 3.41
1325 3871 2.279918 GACGTGACGTTGGCCACT 60.280 61.111 13.44 0.00 41.37 4.00
1371 3917 2.288025 GGCACTCCCCGAGGTTACA 61.288 63.158 0.00 0.00 33.35 2.41
1372 3918 1.988406 AGGCACTCCCCGAGGTTAC 60.988 63.158 0.00 0.00 33.35 2.50
1480 4026 2.510238 GCGCGAAGGAGACATGCT 60.510 61.111 12.10 0.00 0.00 3.79
1573 4119 3.625897 CCAGTCGGGACAGCCACA 61.626 66.667 1.17 0.00 40.01 4.17
1713 4271 2.774439 ATTCCATTTTATGCGACCGC 57.226 45.000 7.53 7.53 42.35 5.68
1716 4274 3.779759 TGGCAATTCCATTTTATGCGAC 58.220 40.909 0.00 0.00 40.72 5.19
1787 7693 3.058160 ATGCTTGTCGCCTGTGGC 61.058 61.111 0.00 0.00 46.75 5.01
1788 7694 0.673333 TACATGCTTGTCGCCTGTGG 60.673 55.000 8.74 0.00 45.32 4.17
1789 7695 1.129251 CTTACATGCTTGTCGCCTGTG 59.871 52.381 8.74 0.00 45.32 3.66
1790 7696 1.270839 ACTTACATGCTTGTCGCCTGT 60.271 47.619 8.74 0.00 46.92 4.00
1791 7697 1.442769 ACTTACATGCTTGTCGCCTG 58.557 50.000 8.74 0.00 39.76 4.85
1792 7698 2.185004 AACTTACATGCTTGTCGCCT 57.815 45.000 8.74 0.00 37.28 5.52
2008 7924 2.680352 GCGAGGGTGTGAGAGGGA 60.680 66.667 0.00 0.00 0.00 4.20
2042 7958 5.461526 CGAGTTGAGTGAGATGTGAGTAAA 58.538 41.667 0.00 0.00 0.00 2.01
2063 7979 3.986006 GGGTGTCGACCTGTGCGA 61.986 66.667 14.12 0.00 42.66 5.10
2136 8053 0.179004 ATGAGGAGAGAGACGGCGAT 60.179 55.000 16.62 0.11 0.00 4.58
2142 8059 2.318908 AGCCATGATGAGGAGAGAGAC 58.681 52.381 0.00 0.00 0.00 3.36
2154 8071 1.982660 CAGCAGATCCAAGCCATGAT 58.017 50.000 0.00 0.00 0.00 2.45
2157 8074 1.455217 GGCAGCAGATCCAAGCCAT 60.455 57.895 10.23 0.00 44.59 4.40
2242 8159 2.353208 GCCGAAATTGTAAACCATGGCA 60.353 45.455 13.04 0.00 39.70 4.92
2276 8193 1.709147 CCAGATGTGCTAACGGCTGC 61.709 60.000 0.00 0.00 42.39 5.25
2344 8261 2.444421 CGGTTCTACACTAGTGAGGGT 58.556 52.381 29.30 9.39 43.67 4.34
2349 8266 1.183549 AGCCCGGTTCTACACTAGTG 58.816 55.000 21.44 21.44 0.00 2.74
2350 8267 1.934410 AAGCCCGGTTCTACACTAGT 58.066 50.000 0.00 0.00 0.00 2.57
2351 8268 3.737355 GCTAAAGCCCGGTTCTACACTAG 60.737 52.174 0.00 0.00 34.31 2.57
2352 8269 2.167075 GCTAAAGCCCGGTTCTACACTA 59.833 50.000 0.00 0.00 34.31 2.74
2353 8270 1.066358 GCTAAAGCCCGGTTCTACACT 60.066 52.381 0.00 0.00 34.31 3.55
2354 8271 1.366679 GCTAAAGCCCGGTTCTACAC 58.633 55.000 0.00 0.00 34.31 2.90
2355 8272 0.108520 CGCTAAAGCCCGGTTCTACA 60.109 55.000 0.00 0.00 37.91 2.74
2356 8273 1.426816 GCGCTAAAGCCCGGTTCTAC 61.427 60.000 0.00 0.00 37.91 2.59
2357 8274 1.153509 GCGCTAAAGCCCGGTTCTA 60.154 57.895 0.00 0.00 37.91 2.10
2358 8275 2.436115 GCGCTAAAGCCCGGTTCT 60.436 61.111 0.00 0.00 37.91 3.01
2366 8283 1.353609 TTACGAACCGGCGCTAAAGC 61.354 55.000 7.64 0.00 37.78 3.51
2367 8284 0.643820 CTTACGAACCGGCGCTAAAG 59.356 55.000 7.64 0.00 33.86 1.85
2368 8285 0.737019 CCTTACGAACCGGCGCTAAA 60.737 55.000 7.64 0.00 33.86 1.85
2369 8286 1.153784 CCTTACGAACCGGCGCTAA 60.154 57.895 7.64 0.00 33.86 3.09
2370 8287 2.491152 CCTTACGAACCGGCGCTA 59.509 61.111 7.64 0.00 33.86 4.26
2371 8288 4.446413 CCCTTACGAACCGGCGCT 62.446 66.667 7.64 0.00 33.86 5.92
2374 8291 3.617143 AAGGCCCTTACGAACCGGC 62.617 63.158 0.00 0.00 40.85 6.13
2375 8292 0.249955 TAAAGGCCCTTACGAACCGG 59.750 55.000 0.00 0.00 0.00 5.28
2376 8293 1.066645 ACTAAAGGCCCTTACGAACCG 60.067 52.381 0.00 0.00 0.00 4.44
2377 8294 2.289882 ACACTAAAGGCCCTTACGAACC 60.290 50.000 0.00 0.00 0.00 3.62
2378 8295 2.998670 GACACTAAAGGCCCTTACGAAC 59.001 50.000 0.00 0.00 0.00 3.95
2379 8296 2.353011 CGACACTAAAGGCCCTTACGAA 60.353 50.000 0.00 0.00 0.00 3.85
2380 8297 1.203052 CGACACTAAAGGCCCTTACGA 59.797 52.381 0.00 0.00 0.00 3.43
2381 8298 1.636988 CGACACTAAAGGCCCTTACG 58.363 55.000 0.00 0.00 0.00 3.18
2382 8299 1.277273 ACCGACACTAAAGGCCCTTAC 59.723 52.381 0.00 0.00 0.00 2.34
2383 8300 1.648116 ACCGACACTAAAGGCCCTTA 58.352 50.000 0.00 0.00 0.00 2.69
2384 8301 0.769247 AACCGACACTAAAGGCCCTT 59.231 50.000 0.00 0.00 0.00 3.95
2385 8302 0.323957 GAACCGACACTAAAGGCCCT 59.676 55.000 0.00 0.00 0.00 5.19
2386 8303 0.323957 AGAACCGACACTAAAGGCCC 59.676 55.000 0.00 0.00 0.00 5.80
2387 8304 1.439679 CAGAACCGACACTAAAGGCC 58.560 55.000 0.00 0.00 0.00 5.19
2388 8305 0.796927 GCAGAACCGACACTAAAGGC 59.203 55.000 0.00 0.00 0.00 4.35
2389 8306 2.163818 TGCAGAACCGACACTAAAGG 57.836 50.000 0.00 0.00 0.00 3.11
2390 8307 2.223377 GGTTGCAGAACCGACACTAAAG 59.777 50.000 0.00 0.00 42.47 1.85
2391 8308 2.215196 GGTTGCAGAACCGACACTAAA 58.785 47.619 0.00 0.00 42.47 1.85
2392 8309 1.873698 GGTTGCAGAACCGACACTAA 58.126 50.000 0.00 0.00 42.47 2.24
2393 8310 3.599412 GGTTGCAGAACCGACACTA 57.401 52.632 0.00 0.00 42.47 2.74
2394 8311 4.456806 GGTTGCAGAACCGACACT 57.543 55.556 0.00 0.00 42.47 3.55
2406 8323 0.517316 CACTCTTTAGTGCCGGTTGC 59.483 55.000 1.90 0.00 46.28 4.17
2415 8332 4.223255 GGGCTTTAGTCTCCACTCTTTAGT 59.777 45.833 0.00 0.00 35.91 2.24
2416 8333 4.383226 GGGGCTTTAGTCTCCACTCTTTAG 60.383 50.000 0.00 0.00 33.62 1.85
2417 8334 3.518303 GGGGCTTTAGTCTCCACTCTTTA 59.482 47.826 0.00 0.00 33.62 1.85
2418 8335 2.306219 GGGGCTTTAGTCTCCACTCTTT 59.694 50.000 0.00 0.00 33.62 2.52
2419 8336 1.909986 GGGGCTTTAGTCTCCACTCTT 59.090 52.381 0.00 0.00 33.62 2.85
2420 8337 1.574263 GGGGCTTTAGTCTCCACTCT 58.426 55.000 0.00 0.00 33.62 3.24
2421 8338 0.542333 GGGGGCTTTAGTCTCCACTC 59.458 60.000 0.00 0.00 40.90 3.51
2422 8339 0.119358 AGGGGGCTTTAGTCTCCACT 59.881 55.000 2.61 0.00 44.62 4.00
2423 8340 0.253327 CAGGGGGCTTTAGTCTCCAC 59.747 60.000 2.61 0.00 44.62 4.02
2424 8341 0.178873 ACAGGGGGCTTTAGTCTCCA 60.179 55.000 2.61 0.00 44.62 3.86
2425 8342 0.992695 AACAGGGGGCTTTAGTCTCC 59.007 55.000 0.00 0.00 41.76 3.71
2426 8343 1.340114 CCAACAGGGGGCTTTAGTCTC 60.340 57.143 0.00 0.00 0.00 3.36
2427 8344 0.698818 CCAACAGGGGGCTTTAGTCT 59.301 55.000 0.00 0.00 0.00 3.24
2428 8345 3.266240 CCAACAGGGGGCTTTAGTC 57.734 57.895 0.00 0.00 0.00 2.59
2438 8355 0.251916 TGCTACGATTCCCAACAGGG 59.748 55.000 0.00 0.00 44.52 4.45
2439 8356 2.332063 ATGCTACGATTCCCAACAGG 57.668 50.000 0.00 0.00 0.00 4.00
2440 8357 6.377327 AAATTATGCTACGATTCCCAACAG 57.623 37.500 0.00 0.00 0.00 3.16
2552 8469 0.095935 CATTGGAACGCTTCTGCTCG 59.904 55.000 0.00 0.00 36.97 5.03
2694 8611 1.705186 TCAACCTCTCCTTTCCCCTTG 59.295 52.381 0.00 0.00 0.00 3.61
2723 8640 4.156622 CATGCCGTCGTGCTGCTG 62.157 66.667 0.00 0.00 0.00 4.41
2836 10378 2.446802 GGGAGGGAGGGCAGTAGG 60.447 72.222 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.