Multiple sequence alignment - TraesCS4B01G260900

Loading Multiple Alignment...

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 TraesCS4B01G260900 chr4B 100.000 3539 0 0 1 3539 529299426 529295888 0.000000e+00 6536.0
1 TraesCS4B01G260900 chr4D 91.534 2693 99 56 900 3538 430794895 430792278 0.000000e+00 3591.0
2 TraesCS4B01G260900 chr4D 93.750 272 14 1 581 852 430795178 430794910 4.250000e-109 405.0
3 TraesCS4B01G260900 chr4A 90.619 2473 120 52 951 3356 32463079 32460652 0.000000e+00 3179.0
4 TraesCS4B01G260900 chr4A 81.703 787 58 28 115 839 32463877 32463115 8.520000e-161 577.0
5 TraesCS4B01G260900 chr4A 86.264 182 9 8 3363 3539 32457922 32457752 2.170000e-42 183.0
6 TraesCS4B01G260900 chr7D 90.794 793 38 18 1254 2021 234344752 234345534 0.000000e+00 1027.0
7 TraesCS4B01G260900 chr3D 90.416 793 41 18 1254 2021 456654126 456654908 0.000000e+00 1011.0
8 TraesCS4B01G260900 chr2B 80.037 536 75 23 1062 1577 659064343 659064866 5.580000e-98 368.0
9 TraesCS4B01G260900 chr2B 96.364 55 2 0 1074 1128 58689432 58689486 1.350000e-14 91.6
10 TraesCS4B01G260900 chr2D 80.466 343 48 16 1243 1577 553330497 553330828 9.810000e-61 244.0
11 TraesCS4B01G260900 chr2D 80.427 281 33 12 1613 1892 553330835 553331094 1.000000e-45 195.0
12 TraesCS4B01G260900 chr2D 80.292 137 19 7 1076 1208 35639076 35639208 2.910000e-16 97.1


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 TraesCS4B01G260900 chr4B 529295888 529299426 3538 True 6536.0 6536 100.000000 1 3539 1 chr4B.!!$R1 3538
1 TraesCS4B01G260900 chr4D 430792278 430795178 2900 True 1998.0 3591 92.642000 581 3538 2 chr4D.!!$R1 2957
2 TraesCS4B01G260900 chr4A 32457752 32463877 6125 True 1313.0 3179 86.195333 115 3539 3 chr4A.!!$R1 3424
3 TraesCS4B01G260900 chr7D 234344752 234345534 782 False 1027.0 1027 90.794000 1254 2021 1 chr7D.!!$F1 767
4 TraesCS4B01G260900 chr3D 456654126 456654908 782 False 1011.0 1011 90.416000 1254 2021 1 chr3D.!!$F1 767
5 TraesCS4B01G260900 chr2B 659064343 659064866 523 False 368.0 368 80.037000 1062 1577 1 chr2B.!!$F2 515
6 TraesCS4B01G260900 chr2D 553330497 553331094 597 False 219.5 244 80.446500 1243 1892 2 chr2D.!!$F2 649

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
895 963 0.03601 ACATCCGAGACCTTGCCAAG 60.036 55.0 0.0 0.0 0.0 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2882 3056 0.318529 CCGAGCTGATGATCAGTCCG 60.319 60.0 22.23 22.22 45.94 4.79 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 7.713764 AAACAATTTGATTTCCCTTCTTTCG 57.286 32.000 2.79 0.00 0.00 3.46
45 46 6.648879 ACAATTTGATTTCCCTTCTTTCGA 57.351 33.333 2.79 0.00 0.00 3.71
46 47 7.049799 ACAATTTGATTTCCCTTCTTTCGAA 57.950 32.000 2.79 0.00 0.00 3.71
47 48 7.496747 ACAATTTGATTTCCCTTCTTTCGAAA 58.503 30.769 10.71 10.71 0.00 3.46
48 49 7.984617 ACAATTTGATTTCCCTTCTTTCGAAAA 59.015 29.630 12.41 0.00 0.00 2.29
49 50 7.946655 ATTTGATTTCCCTTCTTTCGAAAAC 57.053 32.000 12.41 0.00 0.00 2.43
50 51 5.447624 TGATTTCCCTTCTTTCGAAAACC 57.552 39.130 12.41 0.00 0.00 3.27
51 52 5.137551 TGATTTCCCTTCTTTCGAAAACCT 58.862 37.500 12.41 0.00 0.00 3.50
52 53 4.911514 TTTCCCTTCTTTCGAAAACCTG 57.088 40.909 12.41 0.10 0.00 4.00
53 54 2.227194 TCCCTTCTTTCGAAAACCTGC 58.773 47.619 12.41 0.00 0.00 4.85
54 55 1.269723 CCCTTCTTTCGAAAACCTGCC 59.730 52.381 12.41 0.00 0.00 4.85
55 56 1.269723 CCTTCTTTCGAAAACCTGCCC 59.730 52.381 12.41 0.00 0.00 5.36
56 57 2.230660 CTTCTTTCGAAAACCTGCCCT 58.769 47.619 12.41 0.00 0.00 5.19
57 58 1.604604 TCTTTCGAAAACCTGCCCTG 58.395 50.000 12.41 0.00 0.00 4.45
58 59 1.133915 TCTTTCGAAAACCTGCCCTGT 60.134 47.619 12.41 0.00 0.00 4.00
59 60 1.001378 CTTTCGAAAACCTGCCCTGTG 60.001 52.381 12.41 0.00 0.00 3.66
60 61 0.821711 TTCGAAAACCTGCCCTGTGG 60.822 55.000 0.00 0.00 0.00 4.17
61 62 1.228124 CGAAAACCTGCCCTGTGGA 60.228 57.895 0.00 0.00 0.00 4.02
62 63 1.237285 CGAAAACCTGCCCTGTGGAG 61.237 60.000 0.00 0.00 0.00 3.86
63 64 1.527433 GAAAACCTGCCCTGTGGAGC 61.527 60.000 0.00 0.00 0.00 4.70
64 65 3.513750 AAACCTGCCCTGTGGAGCC 62.514 63.158 0.00 0.00 0.00 4.70
69 70 4.299796 GCCCTGTGGAGCCCCAAA 62.300 66.667 0.00 0.00 45.59 3.28
70 71 2.772924 CCCTGTGGAGCCCCAAAT 59.227 61.111 0.00 0.00 45.59 2.32
71 72 1.079073 CCCTGTGGAGCCCCAAATT 59.921 57.895 0.00 0.00 45.59 1.82
72 73 0.545071 CCCTGTGGAGCCCCAAATTT 60.545 55.000 0.00 0.00 45.59 1.82
73 74 0.897621 CCTGTGGAGCCCCAAATTTC 59.102 55.000 0.00 0.00 45.59 2.17
74 75 0.897621 CTGTGGAGCCCCAAATTTCC 59.102 55.000 0.00 0.00 45.59 3.13
75 76 0.189574 TGTGGAGCCCCAAATTTCCA 59.810 50.000 0.00 0.00 45.59 3.53
76 77 1.347062 GTGGAGCCCCAAATTTCCAA 58.653 50.000 0.00 0.00 45.59 3.53
77 78 1.276138 GTGGAGCCCCAAATTTCCAAG 59.724 52.381 0.00 0.00 45.59 3.61
78 79 1.148867 TGGAGCCCCAAATTTCCAAGA 59.851 47.619 0.00 0.00 40.09 3.02
79 80 2.256306 GGAGCCCCAAATTTCCAAGAA 58.744 47.619 0.00 0.00 0.00 2.52
80 81 2.234661 GGAGCCCCAAATTTCCAAGAAG 59.765 50.000 0.00 0.00 0.00 2.85
81 82 3.165071 GAGCCCCAAATTTCCAAGAAGA 58.835 45.455 0.00 0.00 0.00 2.87
82 83 3.578282 GAGCCCCAAATTTCCAAGAAGAA 59.422 43.478 0.00 0.00 0.00 2.52
83 84 4.170449 AGCCCCAAATTTCCAAGAAGAAT 58.830 39.130 0.00 0.00 0.00 2.40
84 85 4.598807 AGCCCCAAATTTCCAAGAAGAATT 59.401 37.500 0.00 0.00 0.00 2.17
99 100 5.893897 GAAGAATTCTCTCATTGCTTGGT 57.106 39.130 8.78 0.00 43.23 3.67
100 101 6.264841 GAAGAATTCTCTCATTGCTTGGTT 57.735 37.500 8.78 0.00 43.23 3.67
101 102 5.893897 AGAATTCTCTCATTGCTTGGTTC 57.106 39.130 0.88 0.00 0.00 3.62
102 103 5.319453 AGAATTCTCTCATTGCTTGGTTCA 58.681 37.500 0.88 0.00 0.00 3.18
103 104 5.950549 AGAATTCTCTCATTGCTTGGTTCAT 59.049 36.000 0.88 0.00 0.00 2.57
104 105 7.114754 AGAATTCTCTCATTGCTTGGTTCATA 58.885 34.615 0.88 0.00 0.00 2.15
105 106 7.613022 AGAATTCTCTCATTGCTTGGTTCATAA 59.387 33.333 0.88 0.00 0.00 1.90
106 107 7.893124 ATTCTCTCATTGCTTGGTTCATAAT 57.107 32.000 0.00 0.00 0.00 1.28
107 108 8.985315 ATTCTCTCATTGCTTGGTTCATAATA 57.015 30.769 0.00 0.00 0.00 0.98
108 109 8.806429 TTCTCTCATTGCTTGGTTCATAATAA 57.194 30.769 0.00 0.00 0.00 1.40
109 110 8.806429 TCTCTCATTGCTTGGTTCATAATAAA 57.194 30.769 0.00 0.00 0.00 1.40
110 111 8.677300 TCTCTCATTGCTTGGTTCATAATAAAC 58.323 33.333 0.00 0.00 0.00 2.01
111 112 8.347004 TCTCATTGCTTGGTTCATAATAAACA 57.653 30.769 0.00 0.00 0.00 2.83
112 113 8.970020 TCTCATTGCTTGGTTCATAATAAACAT 58.030 29.630 0.00 0.00 0.00 2.71
113 114 8.929827 TCATTGCTTGGTTCATAATAAACATG 57.070 30.769 0.00 0.00 0.00 3.21
120 121 9.787532 CTTGGTTCATAATAAACATGGTAACTG 57.212 33.333 0.00 0.00 37.61 3.16
123 124 9.783256 GGTTCATAATAAACATGGTAACTGTTC 57.217 33.333 0.00 0.00 35.84 3.18
141 142 6.624423 ACTGTTCATGTCCATTATTTGCTTC 58.376 36.000 0.00 0.00 0.00 3.86
145 146 6.441093 TCATGTCCATTATTTGCTTCAGAC 57.559 37.500 0.00 0.00 0.00 3.51
164 165 7.285783 TCAGACAAAAGTATAATTTCGGTCG 57.714 36.000 17.37 14.15 34.30 4.79
168 169 5.188194 CAAAAGTATAATTTCGGTCGCTCG 58.812 41.667 0.00 0.00 0.00 5.03
180 181 1.606224 GGTCGCTCGGGTTTACTGAAA 60.606 52.381 0.00 0.00 33.08 2.69
181 182 1.725164 GTCGCTCGGGTTTACTGAAAG 59.275 52.381 0.00 0.00 42.29 2.62
206 207 7.038659 GTCTACATCTAGCACTCTCAATTGTT 58.961 38.462 5.13 0.00 0.00 2.83
245 246 3.585732 TCCCTTGAGTCTAAAAACCGGAT 59.414 43.478 9.46 0.00 0.00 4.18
247 248 5.427481 TCCCTTGAGTCTAAAAACCGGATAT 59.573 40.000 9.46 0.00 0.00 1.63
253 254 7.162761 TGAGTCTAAAAACCGGATATGTTTCA 58.837 34.615 9.46 0.00 34.97 2.69
345 348 1.029681 AAACGTGCTCCAAGTTTCCC 58.970 50.000 3.95 0.00 40.73 3.97
356 359 3.096852 CCAAGTTTCCCCTTAATCCACC 58.903 50.000 0.00 0.00 0.00 4.61
390 393 2.035783 GGGGGCCTTGTGTCCTTC 59.964 66.667 0.84 0.00 0.00 3.46
395 398 1.070786 GCCTTGTGTCCTTCGTGGA 59.929 57.895 0.00 0.00 43.86 4.02
406 418 0.605589 CTTCGTGGACTTCTCTGCCT 59.394 55.000 0.00 0.00 0.00 4.75
431 443 3.561960 CCATCCTCATTCCACACTTTCCA 60.562 47.826 0.00 0.00 0.00 3.53
443 455 3.438087 CACACTTTCCAAGCAGTCCTATG 59.562 47.826 0.00 0.00 0.00 2.23
457 469 7.553881 GCAGTCCTATGCATAGTTCTAAAAA 57.446 36.000 27.75 4.63 45.77 1.94
489 526 8.006298 TCCATTGTTCTTGTAAACTTGACATT 57.994 30.769 0.00 0.00 0.00 2.71
524 562 8.364129 ACAATTTTTCATCATTTTTGTACGCT 57.636 26.923 0.00 0.00 0.00 5.07
533 571 3.444703 TTTTTGTACGCTTGCCACATT 57.555 38.095 0.00 0.00 0.00 2.71
559 597 0.951558 GACCACCAAACACGCTCAAT 59.048 50.000 0.00 0.00 0.00 2.57
571 609 3.199071 ACACGCTCAATATTTCCCCACTA 59.801 43.478 0.00 0.00 0.00 2.74
603 654 1.003118 CTCCCCGGTTTGTCTCATTCA 59.997 52.381 0.00 0.00 0.00 2.57
679 735 1.006220 CCAGAAAAAGGCAACGGGC 60.006 57.895 0.00 0.00 46.39 6.13
807 866 5.510430 GGGAGAGAAATACCACTTCCAATT 58.490 41.667 0.00 0.00 0.00 2.32
819 878 4.036380 CCACTTCCAATTATTAACTCCGGC 59.964 45.833 0.00 0.00 0.00 6.13
826 885 2.389962 TATTAACTCCGGCCACACAC 57.610 50.000 2.24 0.00 0.00 3.82
852 920 1.655329 CGCACGTATCTCTCTCCCC 59.345 63.158 0.00 0.00 0.00 4.81
855 923 1.611519 CACGTATCTCTCTCCCCCTC 58.388 60.000 0.00 0.00 0.00 4.30
857 925 1.422402 ACGTATCTCTCTCCCCCTCTC 59.578 57.143 0.00 0.00 0.00 3.20
858 926 1.702957 CGTATCTCTCTCCCCCTCTCT 59.297 57.143 0.00 0.00 0.00 3.10
859 927 2.290071 CGTATCTCTCTCCCCCTCTCTC 60.290 59.091 0.00 0.00 0.00 3.20
860 928 2.228978 ATCTCTCTCCCCCTCTCTCT 57.771 55.000 0.00 0.00 0.00 3.10
861 929 1.518367 TCTCTCTCCCCCTCTCTCTC 58.482 60.000 0.00 0.00 0.00 3.20
862 930 1.010793 TCTCTCTCCCCCTCTCTCTCT 59.989 57.143 0.00 0.00 0.00 3.10
865 933 0.047176 TCTCCCCCTCTCTCTCTCCT 59.953 60.000 0.00 0.00 0.00 3.69
866 934 0.933700 CTCCCCCTCTCTCTCTCCTT 59.066 60.000 0.00 0.00 0.00 3.36
867 935 1.290732 CTCCCCCTCTCTCTCTCCTTT 59.709 57.143 0.00 0.00 0.00 3.11
868 936 1.289530 TCCCCCTCTCTCTCTCCTTTC 59.710 57.143 0.00 0.00 0.00 2.62
869 937 1.691163 CCCCCTCTCTCTCTCCTTTCC 60.691 61.905 0.00 0.00 0.00 3.13
870 938 1.290732 CCCCTCTCTCTCTCCTTTCCT 59.709 57.143 0.00 0.00 0.00 3.36
871 939 2.292851 CCCCTCTCTCTCTCCTTTCCTT 60.293 54.545 0.00 0.00 0.00 3.36
872 940 2.765699 CCCTCTCTCTCTCCTTTCCTTG 59.234 54.545 0.00 0.00 0.00 3.61
873 941 3.440127 CCTCTCTCTCTCCTTTCCTTGT 58.560 50.000 0.00 0.00 0.00 3.16
874 942 4.570933 CCCTCTCTCTCTCCTTTCCTTGTA 60.571 50.000 0.00 0.00 0.00 2.41
875 943 5.020132 CCTCTCTCTCTCCTTTCCTTGTAA 58.980 45.833 0.00 0.00 0.00 2.41
876 944 5.482175 CCTCTCTCTCTCCTTTCCTTGTAAA 59.518 44.000 0.00 0.00 0.00 2.01
877 945 6.347859 TCTCTCTCTCCTTTCCTTGTAAAC 57.652 41.667 0.00 0.00 0.00 2.01
878 946 5.839063 TCTCTCTCTCCTTTCCTTGTAAACA 59.161 40.000 0.00 0.00 0.00 2.83
879 947 6.498651 TCTCTCTCTCCTTTCCTTGTAAACAT 59.501 38.462 0.00 0.00 0.00 2.71
880 948 6.702329 TCTCTCTCCTTTCCTTGTAAACATC 58.298 40.000 0.00 0.00 0.00 3.06
881 949 5.805728 TCTCTCCTTTCCTTGTAAACATCC 58.194 41.667 0.00 0.00 0.00 3.51
882 950 4.575885 TCTCCTTTCCTTGTAAACATCCG 58.424 43.478 0.00 0.00 0.00 4.18
883 951 4.285003 TCTCCTTTCCTTGTAAACATCCGA 59.715 41.667 0.00 0.00 0.00 4.55
884 952 4.575885 TCCTTTCCTTGTAAACATCCGAG 58.424 43.478 0.00 0.00 0.00 4.63
885 953 4.285003 TCCTTTCCTTGTAAACATCCGAGA 59.715 41.667 0.00 0.00 0.00 4.04
886 954 4.392138 CCTTTCCTTGTAAACATCCGAGAC 59.608 45.833 0.00 0.00 0.00 3.36
887 955 3.604875 TCCTTGTAAACATCCGAGACC 57.395 47.619 0.00 0.00 0.00 3.85
888 956 3.170717 TCCTTGTAAACATCCGAGACCT 58.829 45.455 0.00 0.00 0.00 3.85
889 957 3.581332 TCCTTGTAAACATCCGAGACCTT 59.419 43.478 0.00 0.00 0.00 3.50
890 958 3.684788 CCTTGTAAACATCCGAGACCTTG 59.315 47.826 0.00 0.00 0.00 3.61
891 959 2.695359 TGTAAACATCCGAGACCTTGC 58.305 47.619 0.00 0.00 0.00 4.01
892 960 2.007608 GTAAACATCCGAGACCTTGCC 58.992 52.381 0.00 0.00 0.00 4.52
893 961 0.400213 AAACATCCGAGACCTTGCCA 59.600 50.000 0.00 0.00 0.00 4.92
894 962 0.400213 AACATCCGAGACCTTGCCAA 59.600 50.000 0.00 0.00 0.00 4.52
895 963 0.036010 ACATCCGAGACCTTGCCAAG 60.036 55.000 0.00 0.00 0.00 3.61
896 964 0.036010 CATCCGAGACCTTGCCAAGT 60.036 55.000 3.37 0.00 0.00 3.16
897 965 1.207089 CATCCGAGACCTTGCCAAGTA 59.793 52.381 3.37 0.00 0.00 2.24
898 966 0.895530 TCCGAGACCTTGCCAAGTAG 59.104 55.000 3.37 0.00 0.00 2.57
1048 1117 1.221466 CGCCTCTCAAACGCACAAGA 61.221 55.000 0.00 0.00 0.00 3.02
1357 1444 0.378257 GTACGTCGCTTCCGATACCA 59.622 55.000 0.00 0.00 46.38 3.25
1445 1544 1.274476 CTTGTTGCGCGTGTACGTT 59.726 52.632 8.43 0.00 42.22 3.99
1640 1748 6.971602 TGCTAGTATCGTCTTTCCTATTCTG 58.028 40.000 0.00 0.00 0.00 3.02
1688 1796 4.842531 TCTTCTCCATTGATTGGTGCTA 57.157 40.909 0.00 0.00 46.52 3.49
1701 1813 1.436195 GGTGCTATGCGGCGATCAAA 61.436 55.000 12.98 0.00 34.52 2.69
1775 1887 1.299976 GGTCAAGGCCAAGGACGAT 59.700 57.895 5.01 0.00 32.39 3.73
1989 2119 1.547820 CCGTCGATGGAGATCATGGAT 59.452 52.381 19.48 0.00 41.47 3.41
2010 2140 0.387878 GATCCATCGCAGCTCCTACG 60.388 60.000 0.00 0.00 0.00 3.51
2070 2200 3.435327 CGCTGTCCAAACTAGTTAATGCA 59.565 43.478 8.92 5.73 0.00 3.96
2071 2201 4.436050 CGCTGTCCAAACTAGTTAATGCAG 60.436 45.833 8.92 15.04 0.00 4.41
2110 2241 2.810852 CAACCCTGCACTTTTCTCTCTC 59.189 50.000 0.00 0.00 0.00 3.20
2144 2275 3.609703 CAGTCGGTGGAGGAGGAG 58.390 66.667 0.00 0.00 0.00 3.69
2145 2276 2.055042 CAGTCGGTGGAGGAGGAGG 61.055 68.421 0.00 0.00 0.00 4.30
2146 2277 2.239439 AGTCGGTGGAGGAGGAGGA 61.239 63.158 0.00 0.00 0.00 3.71
2431 2567 9.078753 TGTGTATGTATGTGTAAAATGTACTCG 57.921 33.333 0.00 0.00 0.00 4.18
2491 2632 3.319405 CCAGATGCCTAGTGGTAGTAGTG 59.681 52.174 0.00 0.00 35.27 2.74
2564 2708 7.981789 GTGACAGATGATATGGACTTTTGACTA 59.018 37.037 0.00 0.00 0.00 2.59
2718 2879 4.498894 TGCTCAATTGATCTCCAGTCAT 57.501 40.909 8.96 0.00 0.00 3.06
2721 2882 5.364735 TGCTCAATTGATCTCCAGTCATAGA 59.635 40.000 8.96 0.00 0.00 1.98
2722 2883 5.927689 GCTCAATTGATCTCCAGTCATAGAG 59.072 44.000 8.96 0.00 0.00 2.43
2789 2954 0.108662 TCATGCACGTGTAGCAGAGG 60.109 55.000 18.38 3.56 46.36 3.69
2882 3056 3.005539 TCTGCCTGCCTGGTCTCC 61.006 66.667 0.00 0.00 38.35 3.71
2889 3063 2.680352 GCCTGGTCTCCGGACTGA 60.680 66.667 0.00 0.00 41.82 3.41
2890 3064 2.060980 GCCTGGTCTCCGGACTGAT 61.061 63.158 0.00 0.00 41.82 2.90
2891 3065 2.022240 GCCTGGTCTCCGGACTGATC 62.022 65.000 0.00 0.00 41.82 2.92
2914 3088 1.959226 GCTCGGCTCCGTGACAAAA 60.959 57.895 13.73 0.00 40.74 2.44
2981 3156 1.344438 GATGGATGCGTGTGGGAGATA 59.656 52.381 0.00 0.00 0.00 1.98
3011 3195 0.333652 TGACCCGACCTGACCTGATA 59.666 55.000 0.00 0.00 0.00 2.15
3039 3223 2.588877 GGCGACGTGATCCCCATG 60.589 66.667 0.00 0.00 37.78 3.66
3040 3224 3.272334 GCGACGTGATCCCCATGC 61.272 66.667 0.00 0.00 35.17 4.06
3281 3474 1.202580 CCTGATGGACTGATCGGAACC 60.203 57.143 9.00 11.53 31.19 3.62
3342 3535 2.946990 GTTTCGTTTTGTTCTCCCCTGA 59.053 45.455 0.00 0.00 0.00 3.86
3356 3549 0.037303 CCCTGAGCATTGTGGTGTCT 59.963 55.000 0.00 0.00 0.00 3.41
3357 3550 1.446907 CCTGAGCATTGTGGTGTCTC 58.553 55.000 0.00 0.00 0.00 3.36
3358 3551 1.271001 CCTGAGCATTGTGGTGTCTCA 60.271 52.381 0.00 0.00 33.97 3.27
3360 3553 2.418976 CTGAGCATTGTGGTGTCTCATG 59.581 50.000 0.00 0.00 34.32 3.07
3361 3554 1.131883 GAGCATTGTGGTGTCTCATGC 59.868 52.381 0.00 0.00 0.00 4.06
3362 3555 0.883153 GCATTGTGGTGTCTCATGCA 59.117 50.000 0.00 0.00 34.12 3.96
3363 3556 1.270274 GCATTGTGGTGTCTCATGCAA 59.730 47.619 0.00 0.00 34.12 4.08
3364 3557 2.923605 GCATTGTGGTGTCTCATGCAAC 60.924 50.000 0.00 0.00 34.12 4.17
3410 6327 1.801913 CCGGTCGCTCGTCTGAAAG 60.802 63.158 0.00 0.00 0.00 2.62
3412 6329 1.066114 CGGTCGCTCGTCTGAAAGTC 61.066 60.000 0.00 0.00 33.76 3.01
3413 6330 0.241481 GGTCGCTCGTCTGAAAGTCT 59.759 55.000 0.00 0.00 33.76 3.24
3414 6331 1.332178 GTCGCTCGTCTGAAAGTCTG 58.668 55.000 0.00 0.00 33.76 3.51
3415 6332 1.069159 GTCGCTCGTCTGAAAGTCTGA 60.069 52.381 0.00 0.00 33.76 3.27
3416 6333 1.607148 TCGCTCGTCTGAAAGTCTGAA 59.393 47.619 0.00 0.00 33.76 3.02
3507 6424 6.068670 TGATCGAGACCCTGAACAGATAATA 58.931 40.000 3.19 0.00 0.00 0.98
3509 6426 6.978674 TCGAGACCCTGAACAGATAATATT 57.021 37.500 3.19 0.00 0.00 1.28
3510 6427 7.361457 TCGAGACCCTGAACAGATAATATTT 57.639 36.000 3.19 0.00 0.00 1.40
3511 6428 7.210174 TCGAGACCCTGAACAGATAATATTTG 58.790 38.462 3.19 0.00 0.00 2.32
3512 6429 6.425114 CGAGACCCTGAACAGATAATATTTGG 59.575 42.308 3.19 0.00 0.00 3.28
3513 6430 7.213178 AGACCCTGAACAGATAATATTTGGT 57.787 36.000 3.19 0.00 0.00 3.67
3514 6431 7.283329 AGACCCTGAACAGATAATATTTGGTC 58.717 38.462 2.24 2.24 38.08 4.02
3515 6432 6.055588 ACCCTGAACAGATAATATTTGGTCG 58.944 40.000 4.67 0.74 31.21 4.79
3516 6433 6.126883 ACCCTGAACAGATAATATTTGGTCGA 60.127 38.462 4.67 0.00 31.21 4.20
3517 6434 6.936900 CCCTGAACAGATAATATTTGGTCGAT 59.063 38.462 4.67 0.00 31.21 3.59
3518 6435 7.095060 CCCTGAACAGATAATATTTGGTCGATG 60.095 40.741 4.67 0.00 31.21 3.84
3519 6436 7.657354 CCTGAACAGATAATATTTGGTCGATGA 59.343 37.037 4.67 0.00 31.21 2.92
3523 6440 8.709386 ACAGATAATATTTGGTCGATGATAGC 57.291 34.615 0.00 0.00 0.00 2.97
3525 6442 9.154847 CAGATAATATTTGGTCGATGATAGCAA 57.845 33.333 0.00 0.00 32.84 3.91
3526 6443 9.376075 AGATAATATTTGGTCGATGATAGCAAG 57.624 33.333 0.00 0.00 35.90 4.01
3530 6447 5.991328 TTTGGTCGATGATAGCAAGAATC 57.009 39.130 0.00 0.00 35.90 2.52
3531 6448 4.670896 TGGTCGATGATAGCAAGAATCA 57.329 40.909 0.00 0.00 37.73 2.57
3534 6451 5.294306 TGGTCGATGATAGCAAGAATCAAAC 59.706 40.000 0.00 0.00 36.95 2.93
3535 6452 5.294306 GGTCGATGATAGCAAGAATCAAACA 59.706 40.000 0.00 0.00 36.95 2.83
3538 6455 7.427606 GTCGATGATAGCAAGAATCAAACAAAG 59.572 37.037 0.00 0.00 36.95 2.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 9.423061 CGAAAGAAGGGAAATCAAATTGTTTAT 57.577 29.630 0.00 0.00 0.00 1.40
19 20 8.634444 TCGAAAGAAGGGAAATCAAATTGTTTA 58.366 29.630 0.00 0.00 37.03 2.01
20 21 7.496747 TCGAAAGAAGGGAAATCAAATTGTTT 58.503 30.769 0.00 0.00 37.03 2.83
21 22 7.049799 TCGAAAGAAGGGAAATCAAATTGTT 57.950 32.000 0.00 0.00 37.03 2.83
22 23 6.648879 TCGAAAGAAGGGAAATCAAATTGT 57.351 33.333 0.00 0.00 37.03 2.71
38 39 1.133915 ACAGGGCAGGTTTTCGAAAGA 60.134 47.619 10.98 0.00 39.20 2.52
39 40 1.001378 CACAGGGCAGGTTTTCGAAAG 60.001 52.381 10.98 0.48 0.00 2.62
40 41 1.028905 CACAGGGCAGGTTTTCGAAA 58.971 50.000 6.47 6.47 0.00 3.46
41 42 0.821711 CCACAGGGCAGGTTTTCGAA 60.822 55.000 0.00 0.00 0.00 3.71
42 43 1.228124 CCACAGGGCAGGTTTTCGA 60.228 57.895 0.00 0.00 0.00 3.71
43 44 1.228124 TCCACAGGGCAGGTTTTCG 60.228 57.895 0.00 0.00 0.00 3.46
44 45 1.527433 GCTCCACAGGGCAGGTTTTC 61.527 60.000 0.00 0.00 0.00 2.29
45 46 1.531602 GCTCCACAGGGCAGGTTTT 60.532 57.895 0.00 0.00 0.00 2.43
46 47 2.116125 GCTCCACAGGGCAGGTTT 59.884 61.111 0.00 0.00 0.00 3.27
47 48 3.971702 GGCTCCACAGGGCAGGTT 61.972 66.667 0.00 0.00 0.00 3.50
52 53 3.607084 ATTTGGGGCTCCACAGGGC 62.607 63.158 3.60 0.00 43.94 5.19
53 54 0.545071 AAATTTGGGGCTCCACAGGG 60.545 55.000 3.60 0.00 43.94 4.45
54 55 0.897621 GAAATTTGGGGCTCCACAGG 59.102 55.000 3.60 0.00 43.94 4.00
55 56 0.897621 GGAAATTTGGGGCTCCACAG 59.102 55.000 3.60 0.00 43.94 3.66
56 57 0.189574 TGGAAATTTGGGGCTCCACA 59.810 50.000 3.60 0.00 43.94 4.17
57 58 1.276138 CTTGGAAATTTGGGGCTCCAC 59.724 52.381 3.60 0.00 43.94 4.02
58 59 1.148867 TCTTGGAAATTTGGGGCTCCA 59.851 47.619 0.00 0.00 42.25 3.86
59 60 1.937191 TCTTGGAAATTTGGGGCTCC 58.063 50.000 0.00 0.00 0.00 4.70
60 61 3.165071 TCTTCTTGGAAATTTGGGGCTC 58.835 45.455 0.00 0.00 0.00 4.70
61 62 3.258722 TCTTCTTGGAAATTTGGGGCT 57.741 42.857 0.00 0.00 0.00 5.19
62 63 4.558226 ATTCTTCTTGGAAATTTGGGGC 57.442 40.909 0.00 0.00 0.00 5.80
63 64 6.212187 AGAGAATTCTTCTTGGAAATTTGGGG 59.788 38.462 9.87 0.00 40.87 4.96
64 65 7.039504 TGAGAGAATTCTTCTTGGAAATTTGGG 60.040 37.037 9.87 0.00 40.87 4.12
65 66 7.889469 TGAGAGAATTCTTCTTGGAAATTTGG 58.111 34.615 9.87 0.00 40.87 3.28
66 67 9.924650 AATGAGAGAATTCTTCTTGGAAATTTG 57.075 29.630 9.87 0.00 40.87 2.32
67 68 9.924650 CAATGAGAGAATTCTTCTTGGAAATTT 57.075 29.630 9.87 0.00 40.87 1.82
68 69 8.033626 GCAATGAGAGAATTCTTCTTGGAAATT 58.966 33.333 9.87 2.30 40.87 1.82
69 70 7.396623 AGCAATGAGAGAATTCTTCTTGGAAAT 59.603 33.333 9.87 0.00 40.87 2.17
70 71 6.718454 AGCAATGAGAGAATTCTTCTTGGAAA 59.282 34.615 9.87 0.00 40.87 3.13
71 72 6.243900 AGCAATGAGAGAATTCTTCTTGGAA 58.756 36.000 9.87 0.00 40.87 3.53
72 73 5.813383 AGCAATGAGAGAATTCTTCTTGGA 58.187 37.500 9.87 0.00 40.87 3.53
73 74 6.323266 CAAGCAATGAGAGAATTCTTCTTGG 58.677 40.000 9.87 6.51 40.87 3.61
74 75 6.072064 ACCAAGCAATGAGAGAATTCTTCTTG 60.072 38.462 9.87 11.46 40.87 3.02
75 76 6.008960 ACCAAGCAATGAGAGAATTCTTCTT 58.991 36.000 9.87 5.10 40.87 2.52
76 77 5.568392 ACCAAGCAATGAGAGAATTCTTCT 58.432 37.500 9.87 8.16 44.21 2.85
77 78 5.893897 ACCAAGCAATGAGAGAATTCTTC 57.106 39.130 9.87 9.59 32.53 2.87
78 79 5.771666 TGAACCAAGCAATGAGAGAATTCTT 59.228 36.000 9.87 0.00 32.53 2.52
79 80 5.319453 TGAACCAAGCAATGAGAGAATTCT 58.681 37.500 7.95 7.95 36.01 2.40
80 81 5.633830 TGAACCAAGCAATGAGAGAATTC 57.366 39.130 0.00 0.00 0.00 2.17
81 82 7.707624 TTATGAACCAAGCAATGAGAGAATT 57.292 32.000 0.00 0.00 0.00 2.17
82 83 7.893124 ATTATGAACCAAGCAATGAGAGAAT 57.107 32.000 0.00 0.00 0.00 2.40
83 84 8.806429 TTATTATGAACCAAGCAATGAGAGAA 57.194 30.769 0.00 0.00 0.00 2.87
84 85 8.677300 GTTTATTATGAACCAAGCAATGAGAGA 58.323 33.333 0.00 0.00 0.00 3.10
85 86 8.461222 TGTTTATTATGAACCAAGCAATGAGAG 58.539 33.333 0.00 0.00 0.00 3.20
86 87 8.347004 TGTTTATTATGAACCAAGCAATGAGA 57.653 30.769 0.00 0.00 0.00 3.27
87 88 9.027129 CATGTTTATTATGAACCAAGCAATGAG 57.973 33.333 0.00 0.00 0.00 2.90
88 89 7.980662 CCATGTTTATTATGAACCAAGCAATGA 59.019 33.333 0.00 0.00 0.00 2.57
89 90 7.765360 ACCATGTTTATTATGAACCAAGCAATG 59.235 33.333 0.00 0.00 0.00 2.82
90 91 7.850193 ACCATGTTTATTATGAACCAAGCAAT 58.150 30.769 0.00 0.00 0.00 3.56
91 92 7.238486 ACCATGTTTATTATGAACCAAGCAA 57.762 32.000 0.00 0.00 0.00 3.91
92 93 6.849085 ACCATGTTTATTATGAACCAAGCA 57.151 33.333 0.00 0.00 0.00 3.91
93 94 8.466798 AGTTACCATGTTTATTATGAACCAAGC 58.533 33.333 0.00 0.00 0.00 4.01
94 95 9.787532 CAGTTACCATGTTTATTATGAACCAAG 57.212 33.333 0.00 0.00 0.00 3.61
95 96 9.303116 ACAGTTACCATGTTTATTATGAACCAA 57.697 29.630 0.00 0.00 0.00 3.67
96 97 8.871629 ACAGTTACCATGTTTATTATGAACCA 57.128 30.769 0.00 0.00 0.00 3.67
97 98 9.783256 GAACAGTTACCATGTTTATTATGAACC 57.217 33.333 0.00 0.00 40.86 3.62
110 111 5.902613 AATGGACATGAACAGTTACCATG 57.097 39.130 11.65 11.65 42.32 3.66
111 112 8.469200 CAAATAATGGACATGAACAGTTACCAT 58.531 33.333 0.00 0.00 38.12 3.55
112 113 7.576666 GCAAATAATGGACATGAACAGTTACCA 60.577 37.037 0.00 0.00 0.00 3.25
113 114 6.751888 GCAAATAATGGACATGAACAGTTACC 59.248 38.462 0.00 0.00 0.00 2.85
120 121 6.749118 GTCTGAAGCAAATAATGGACATGAAC 59.251 38.462 0.00 0.00 0.00 3.18
123 124 6.198650 TGTCTGAAGCAAATAATGGACATG 57.801 37.500 0.00 0.00 0.00 3.21
141 142 5.957796 GCGACCGAAATTATACTTTTGTCTG 59.042 40.000 12.84 9.54 0.00 3.51
145 146 5.188194 CGAGCGACCGAAATTATACTTTTG 58.812 41.667 0.00 0.00 0.00 2.44
164 165 3.041508 AGACTTTCAGTAAACCCGAGC 57.958 47.619 0.00 0.00 0.00 5.03
168 169 6.757478 GCTAGATGTAGACTTTCAGTAAACCC 59.243 42.308 0.05 0.00 0.00 4.11
180 181 6.379703 ACAATTGAGAGTGCTAGATGTAGACT 59.620 38.462 13.59 1.80 0.00 3.24
181 182 6.568869 ACAATTGAGAGTGCTAGATGTAGAC 58.431 40.000 13.59 0.00 0.00 2.59
182 183 6.782082 ACAATTGAGAGTGCTAGATGTAGA 57.218 37.500 13.59 0.00 0.00 2.59
183 184 7.840342 AAACAATTGAGAGTGCTAGATGTAG 57.160 36.000 13.59 0.00 0.00 2.74
184 185 8.506437 CAAAAACAATTGAGAGTGCTAGATGTA 58.494 33.333 13.59 0.00 31.84 2.29
185 186 7.365741 CAAAAACAATTGAGAGTGCTAGATGT 58.634 34.615 13.59 0.00 31.84 3.06
186 187 6.805271 CCAAAAACAATTGAGAGTGCTAGATG 59.195 38.462 13.59 0.00 31.84 2.90
187 188 6.071728 CCCAAAAACAATTGAGAGTGCTAGAT 60.072 38.462 13.59 0.00 31.84 1.98
188 189 5.241506 CCCAAAAACAATTGAGAGTGCTAGA 59.758 40.000 13.59 0.00 31.84 2.43
189 190 5.010012 ACCCAAAAACAATTGAGAGTGCTAG 59.990 40.000 13.59 0.00 31.84 3.42
190 191 4.892934 ACCCAAAAACAATTGAGAGTGCTA 59.107 37.500 13.59 0.00 31.84 3.49
191 192 3.706086 ACCCAAAAACAATTGAGAGTGCT 59.294 39.130 13.59 0.00 31.84 4.40
192 193 3.803778 CACCCAAAAACAATTGAGAGTGC 59.196 43.478 13.59 0.00 31.84 4.40
193 194 5.043248 GTCACCCAAAAACAATTGAGAGTG 58.957 41.667 13.59 9.28 31.84 3.51
194 195 4.709397 TGTCACCCAAAAACAATTGAGAGT 59.291 37.500 13.59 0.00 31.84 3.24
195 196 5.261209 TGTCACCCAAAAACAATTGAGAG 57.739 39.130 13.59 0.00 31.84 3.20
196 197 5.867903 ATGTCACCCAAAAACAATTGAGA 57.132 34.783 13.59 0.00 31.84 3.27
226 227 7.611213 AACATATCCGGTTTTTAGACTCAAG 57.389 36.000 0.00 0.00 0.00 3.02
229 230 7.605410 TGAAACATATCCGGTTTTTAGACTC 57.395 36.000 0.00 0.00 38.50 3.36
235 236 6.597832 TTGGATGAAACATATCCGGTTTTT 57.402 33.333 0.00 0.00 45.70 1.94
245 246 8.428063 AGACAATTTGGTTTTGGATGAAACATA 58.572 29.630 0.78 0.00 40.44 2.29
247 248 6.648192 AGACAATTTGGTTTTGGATGAAACA 58.352 32.000 0.78 0.00 40.44 2.83
289 290 9.630098 CAAAACTGTGACAAGCATAGATTTTAT 57.370 29.630 0.00 0.00 38.18 1.40
290 291 8.081633 CCAAAACTGTGACAAGCATAGATTTTA 58.918 33.333 0.00 0.00 38.18 1.52
291 292 6.925165 CCAAAACTGTGACAAGCATAGATTTT 59.075 34.615 0.00 0.00 38.18 1.82
293 294 5.536161 ACCAAAACTGTGACAAGCATAGATT 59.464 36.000 0.00 0.00 37.90 2.40
294 295 5.072741 ACCAAAACTGTGACAAGCATAGAT 58.927 37.500 0.00 0.00 37.90 1.98
295 296 4.460263 ACCAAAACTGTGACAAGCATAGA 58.540 39.130 0.00 0.00 37.90 1.98
296 297 4.836125 ACCAAAACTGTGACAAGCATAG 57.164 40.909 0.00 0.00 41.11 2.23
297 298 4.736168 GCAACCAAAACTGTGACAAGCATA 60.736 41.667 0.00 0.00 0.00 3.14
298 299 3.784338 CAACCAAAACTGTGACAAGCAT 58.216 40.909 0.00 0.00 0.00 3.79
299 300 2.673610 GCAACCAAAACTGTGACAAGCA 60.674 45.455 0.00 0.00 0.00 3.91
300 301 1.926510 GCAACCAAAACTGTGACAAGC 59.073 47.619 0.00 0.00 0.00 4.01
301 302 2.159448 TCGCAACCAAAACTGTGACAAG 60.159 45.455 0.00 0.00 0.00 3.16
327 328 0.822121 GGGGAAACTTGGAGCACGTT 60.822 55.000 0.00 0.00 0.00 3.99
377 380 1.070786 TCCACGAAGGACACAAGGC 59.929 57.895 0.00 0.00 43.07 4.35
390 393 1.739562 GCAGGCAGAGAAGTCCACG 60.740 63.158 0.00 0.00 0.00 4.94
395 398 1.606531 GATGGGCAGGCAGAGAAGT 59.393 57.895 0.00 0.00 0.00 3.01
396 399 1.153005 GGATGGGCAGGCAGAGAAG 60.153 63.158 0.00 0.00 0.00 2.85
397 400 1.617536 AGGATGGGCAGGCAGAGAA 60.618 57.895 0.00 0.00 0.00 2.87
406 418 0.034186 GTGTGGAATGAGGATGGGCA 60.034 55.000 0.00 0.00 0.00 5.36
431 443 6.485830 TTAGAACTATGCATAGGACTGCTT 57.514 37.500 31.87 18.72 42.75 3.91
456 468 8.695456 AGTTTACAAGAACAATGGATCTGTTTT 58.305 29.630 0.87 0.00 37.14 2.43
457 469 8.237811 AGTTTACAAGAACAATGGATCTGTTT 57.762 30.769 0.87 0.00 37.14 2.83
459 471 7.502226 TCAAGTTTACAAGAACAATGGATCTGT 59.498 33.333 0.00 0.00 31.94 3.41
460 472 7.805071 GTCAAGTTTACAAGAACAATGGATCTG 59.195 37.037 0.00 0.00 31.94 2.90
461 473 7.502226 TGTCAAGTTTACAAGAACAATGGATCT 59.498 33.333 0.00 0.00 31.94 2.75
462 474 7.648142 TGTCAAGTTTACAAGAACAATGGATC 58.352 34.615 0.00 0.00 31.94 3.36
463 475 7.581213 TGTCAAGTTTACAAGAACAATGGAT 57.419 32.000 0.00 0.00 31.94 3.41
464 476 7.581213 ATGTCAAGTTTACAAGAACAATGGA 57.419 32.000 0.00 0.00 31.94 3.41
465 477 9.743057 TTAATGTCAAGTTTACAAGAACAATGG 57.257 29.630 0.00 0.00 31.94 3.16
475 512 9.616156 TGTCCTAAAGTTAATGTCAAGTTTACA 57.384 29.630 0.00 0.00 33.96 2.41
506 543 4.233789 GGCAAGCGTACAAAAATGATGAA 58.766 39.130 0.00 0.00 0.00 2.57
508 545 3.364621 GTGGCAAGCGTACAAAAATGATG 59.635 43.478 0.00 0.00 0.00 3.07
559 597 6.502863 AGAGTACCAAAACTAGTGGGGAAATA 59.497 38.462 13.08 0.00 40.75 1.40
571 609 0.981943 CCGGGGAGAGTACCAAAACT 59.018 55.000 0.00 0.00 0.00 2.66
603 654 4.033776 CGAGGGGTGTGGTGGCAT 62.034 66.667 0.00 0.00 0.00 4.40
642 693 1.079819 CTCTCGCGTGTGTGGGATT 60.080 57.895 5.77 0.00 33.83 3.01
644 695 4.357947 GCTCTCGCGTGTGTGGGA 62.358 66.667 5.77 0.00 33.10 4.37
664 715 0.038618 AATCGCCCGTTGCCTTTTTC 60.039 50.000 0.00 0.00 36.24 2.29
783 839 2.500098 TGGAAGTGGTATTTCTCTCCCG 59.500 50.000 0.00 0.00 0.00 5.14
807 866 1.624312 TGTGTGTGGCCGGAGTTAATA 59.376 47.619 5.05 0.00 0.00 0.98
852 920 3.440127 ACAAGGAAAGGAGAGAGAGAGG 58.560 50.000 0.00 0.00 0.00 3.69
855 923 6.102897 TGTTTACAAGGAAAGGAGAGAGAG 57.897 41.667 0.00 0.00 0.00 3.20
857 925 5.877564 GGATGTTTACAAGGAAAGGAGAGAG 59.122 44.000 0.00 0.00 0.00 3.20
858 926 5.568825 CGGATGTTTACAAGGAAAGGAGAGA 60.569 44.000 0.00 0.00 0.00 3.10
859 927 4.631813 CGGATGTTTACAAGGAAAGGAGAG 59.368 45.833 0.00 0.00 0.00 3.20
860 928 4.285003 TCGGATGTTTACAAGGAAAGGAGA 59.715 41.667 0.00 0.00 0.00 3.71
861 929 4.575885 TCGGATGTTTACAAGGAAAGGAG 58.424 43.478 0.00 0.00 0.00 3.69
862 930 4.285003 TCTCGGATGTTTACAAGGAAAGGA 59.715 41.667 0.00 0.00 0.00 3.36
865 933 4.041198 AGGTCTCGGATGTTTACAAGGAAA 59.959 41.667 0.00 0.00 0.00 3.13
866 934 3.581332 AGGTCTCGGATGTTTACAAGGAA 59.419 43.478 0.00 0.00 0.00 3.36
867 935 3.170717 AGGTCTCGGATGTTTACAAGGA 58.829 45.455 0.00 0.00 0.00 3.36
868 936 3.611766 AGGTCTCGGATGTTTACAAGG 57.388 47.619 0.00 0.00 0.00 3.61
869 937 3.125316 GCAAGGTCTCGGATGTTTACAAG 59.875 47.826 0.00 0.00 0.00 3.16
870 938 3.071479 GCAAGGTCTCGGATGTTTACAA 58.929 45.455 0.00 0.00 0.00 2.41
871 939 2.614481 GGCAAGGTCTCGGATGTTTACA 60.614 50.000 0.00 0.00 0.00 2.41
872 940 2.007608 GGCAAGGTCTCGGATGTTTAC 58.992 52.381 0.00 0.00 0.00 2.01
873 941 1.626321 TGGCAAGGTCTCGGATGTTTA 59.374 47.619 0.00 0.00 0.00 2.01
874 942 0.400213 TGGCAAGGTCTCGGATGTTT 59.600 50.000 0.00 0.00 0.00 2.83
875 943 0.400213 TTGGCAAGGTCTCGGATGTT 59.600 50.000 0.00 0.00 0.00 2.71
876 944 0.036010 CTTGGCAAGGTCTCGGATGT 60.036 55.000 19.55 0.00 0.00 3.06
877 945 0.036010 ACTTGGCAAGGTCTCGGATG 60.036 55.000 29.26 3.29 0.00 3.51
878 946 1.482593 CTACTTGGCAAGGTCTCGGAT 59.517 52.381 29.26 9.78 0.00 4.18
879 947 0.895530 CTACTTGGCAAGGTCTCGGA 59.104 55.000 29.26 0.00 0.00 4.55
880 948 0.895530 TCTACTTGGCAAGGTCTCGG 59.104 55.000 29.26 12.92 0.00 4.63
881 949 1.546476 ACTCTACTTGGCAAGGTCTCG 59.454 52.381 29.26 15.91 0.00 4.04
882 950 3.510360 TGTACTCTACTTGGCAAGGTCTC 59.490 47.826 29.26 14.40 0.00 3.36
883 951 3.507411 TGTACTCTACTTGGCAAGGTCT 58.493 45.455 29.26 12.65 0.00 3.85
884 952 3.955650 TGTACTCTACTTGGCAAGGTC 57.044 47.619 29.26 12.41 0.00 3.85
885 953 4.161754 GGTATGTACTCTACTTGGCAAGGT 59.838 45.833 29.26 19.46 0.00 3.50
886 954 4.694339 GGTATGTACTCTACTTGGCAAGG 58.306 47.826 29.26 14.87 0.00 3.61
887 955 4.142227 ACGGTATGTACTCTACTTGGCAAG 60.142 45.833 25.06 25.06 0.00 4.01
888 956 3.765511 ACGGTATGTACTCTACTTGGCAA 59.234 43.478 0.00 0.00 0.00 4.52
889 957 3.129813 CACGGTATGTACTCTACTTGGCA 59.870 47.826 0.00 0.00 0.00 4.92
890 958 3.703420 CACGGTATGTACTCTACTTGGC 58.297 50.000 0.00 0.00 0.00 4.52
891 959 3.380637 AGCACGGTATGTACTCTACTTGG 59.619 47.826 0.00 0.00 0.00 3.61
892 960 4.634184 AGCACGGTATGTACTCTACTTG 57.366 45.455 0.00 0.55 0.00 3.16
893 961 5.188434 TGTAGCACGGTATGTACTCTACTT 58.812 41.667 0.00 0.00 0.00 2.24
894 962 4.774124 TGTAGCACGGTATGTACTCTACT 58.226 43.478 0.00 0.00 0.00 2.57
895 963 4.554330 GCTGTAGCACGGTATGTACTCTAC 60.554 50.000 0.00 0.00 41.59 2.59
896 964 3.562973 GCTGTAGCACGGTATGTACTCTA 59.437 47.826 0.00 0.00 41.59 2.43
897 965 2.358267 GCTGTAGCACGGTATGTACTCT 59.642 50.000 0.00 0.00 41.59 3.24
898 966 2.728922 GCTGTAGCACGGTATGTACTC 58.271 52.381 0.00 0.00 41.59 2.59
951 1019 5.099484 CCGTTTTATAATAAGGCGGTTCC 57.901 43.478 0.00 0.00 33.87 3.62
962 1030 2.353579 GCAGTGGCGACCGTTTTATAAT 59.646 45.455 0.00 0.00 0.00 1.28
1023 1091 2.646175 CGTTTGAGAGGCGAGGGGA 61.646 63.158 0.00 0.00 0.00 4.81
1347 1434 0.539986 GGAGCTTGGTGGTATCGGAA 59.460 55.000 0.00 0.00 0.00 4.30
1535 1642 1.153449 CTCCACTTAATCCGCCGCA 60.153 57.895 0.00 0.00 0.00 5.69
1640 1748 1.264295 AGTTACTCCTCGGTGGGAAC 58.736 55.000 0.00 0.00 34.66 3.62
1688 1796 1.091771 CCTCTGTTTGATCGCCGCAT 61.092 55.000 0.00 0.00 0.00 4.73
1701 1813 1.346068 GAACTCCTTCAGCACCTCTGT 59.654 52.381 0.00 0.00 43.32 3.41
1943 2072 4.277423 ACCGAACGGATCACAAAAGATTTT 59.723 37.500 20.14 0.00 38.96 1.82
2010 2140 5.427082 CAGTTCAATGCGACGAAGATATTC 58.573 41.667 0.00 0.00 0.00 1.75
2024 2154 1.081892 CGAGGACTGGCAGTTCAATG 58.918 55.000 27.10 12.54 0.00 2.82
2070 2200 4.595538 TGACACGGCCGTTTCGCT 62.596 61.111 32.53 13.39 0.00 4.93
2071 2201 4.364409 GTGACACGGCCGTTTCGC 62.364 66.667 34.22 34.22 0.00 4.70
2110 2241 0.591659 CTGGCGCATGATCTGGATTG 59.408 55.000 10.83 0.00 0.00 2.67
2361 2495 3.480225 GATCCGGCCGTGTACTCCG 62.480 68.421 26.12 5.84 42.58 4.63
2363 2497 1.065928 CTGATCCGGCCGTGTACTC 59.934 63.158 26.12 12.95 0.00 2.59
2491 2632 3.871594 CCCATACTTGCACAGTTACTAGC 59.128 47.826 6.82 2.60 36.88 3.42
2564 2708 3.557264 GGTCATTTTGGTTCTCGAGGACT 60.557 47.826 22.99 0.00 0.00 3.85
2718 2879 1.735376 GATGCCCGAACGAGCCTCTA 61.735 60.000 0.00 0.00 0.00 2.43
2721 2882 3.077556 AGATGCCCGAACGAGCCT 61.078 61.111 0.00 0.00 0.00 4.58
2722 2883 2.852495 TTCAGATGCCCGAACGAGCC 62.852 60.000 0.00 0.00 0.00 4.70
2789 2954 1.005975 GTGCACGTGTTCGATGATAGC 60.006 52.381 18.38 0.00 40.62 2.97
2857 3025 1.849823 AGGCAGGCAGAGGAAACCT 60.850 57.895 0.00 0.00 36.03 3.50
2882 3056 0.318529 CCGAGCTGATGATCAGTCCG 60.319 60.000 22.23 22.22 45.94 4.79
2885 3059 0.388659 GAGCCGAGCTGATGATCAGT 59.611 55.000 22.23 10.24 45.94 3.41
2889 3063 2.130426 ACGGAGCCGAGCTGATGAT 61.130 57.895 16.83 0.00 39.88 2.45
2890 3064 2.755876 ACGGAGCCGAGCTGATGA 60.756 61.111 16.83 0.00 39.88 2.92
2891 3065 2.584418 CACGGAGCCGAGCTGATG 60.584 66.667 16.83 0.00 39.88 3.07
2914 3088 2.770048 CCGAATCCCTCCCTGGCT 60.770 66.667 0.00 0.00 0.00 4.75
3011 3195 2.049433 CGTCGCCGGTCAAGTTCT 60.049 61.111 1.90 0.00 0.00 3.01
3215 3408 2.722201 CCTCTCGTGCCCCTGTACC 61.722 68.421 0.00 0.00 0.00 3.34
3250 3443 0.174845 TCCATCAGGTTAACGAGGCG 59.825 55.000 0.00 0.00 35.89 5.52
3342 3535 1.171308 GCATGAGACACCACAATGCT 58.829 50.000 0.00 0.00 0.00 3.79
3356 3549 0.179023 TGCACTGACTGGTTGCATGA 60.179 50.000 0.00 0.00 0.00 3.07
3357 3550 0.669619 TTGCACTGACTGGTTGCATG 59.330 50.000 0.00 0.00 35.33 4.06
3358 3551 0.956633 CTTGCACTGACTGGTTGCAT 59.043 50.000 0.00 0.00 35.33 3.96
3360 3553 1.656441 CCTTGCACTGACTGGTTGC 59.344 57.895 0.00 0.00 0.00 4.17
3361 3554 0.820891 AGCCTTGCACTGACTGGTTG 60.821 55.000 0.00 0.00 0.00 3.77
3362 3555 0.820891 CAGCCTTGCACTGACTGGTT 60.821 55.000 0.00 0.00 37.32 3.67
3363 3556 1.228063 CAGCCTTGCACTGACTGGT 60.228 57.895 0.00 0.00 37.32 4.00
3364 3557 3.664495 CAGCCTTGCACTGACTGG 58.336 61.111 0.00 0.00 37.32 4.00
3410 6327 5.290386 CCGGGAGTATCATTAGTTTCAGAC 58.710 45.833 0.00 0.00 36.25 3.51
3412 6329 4.058817 GCCGGGAGTATCATTAGTTTCAG 58.941 47.826 2.18 0.00 36.25 3.02
3413 6330 3.452990 TGCCGGGAGTATCATTAGTTTCA 59.547 43.478 2.18 0.00 36.25 2.69
3414 6331 4.067972 TGCCGGGAGTATCATTAGTTTC 57.932 45.455 2.18 0.00 36.25 2.78
3415 6332 4.706842 ATGCCGGGAGTATCATTAGTTT 57.293 40.909 2.18 0.00 36.25 2.66
3416 6333 4.389374 CAATGCCGGGAGTATCATTAGTT 58.611 43.478 2.18 0.00 36.25 2.24
3507 6424 6.057533 TGATTCTTGCTATCATCGACCAAAT 58.942 36.000 0.00 0.00 0.00 2.32
3509 6426 5.022282 TGATTCTTGCTATCATCGACCAA 57.978 39.130 0.00 0.00 0.00 3.67
3510 6427 4.670896 TGATTCTTGCTATCATCGACCA 57.329 40.909 0.00 0.00 0.00 4.02
3511 6428 5.294306 TGTTTGATTCTTGCTATCATCGACC 59.706 40.000 0.00 0.00 32.43 4.79
3512 6429 6.349973 TGTTTGATTCTTGCTATCATCGAC 57.650 37.500 0.00 0.00 32.43 4.20
3513 6430 6.983474 TTGTTTGATTCTTGCTATCATCGA 57.017 33.333 0.00 0.00 32.43 3.59
3514 6431 7.660735 CTTTGTTTGATTCTTGCTATCATCG 57.339 36.000 0.00 0.00 32.43 3.84


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

AutoCloner maintained by Alex Coulton.