Multiple sequence alignment - TraesCS2A01G454100

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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 TraesCS2A01G454100 chr2A 100.000 2630 0 0 1 2630 703200018 703202647 0.000000e+00 4857.0
1 TraesCS2A01G454100 chr2A 96.875 192 5 1 1 191 599386608 599386417 1.170000e-83 320.0
2 TraesCS2A01G454100 chr2A 96.842 190 6 0 1 190 703190162 703190351 4.220000e-83 318.0
3 TraesCS2A01G454100 chr2A 96.316 190 6 1 1 190 599396383 599396195 7.070000e-81 311.0
4 TraesCS2A01G454100 chr1A 97.974 1925 31 3 713 2630 479205114 479207037 0.000000e+00 3332.0
5 TraesCS2A01G454100 chr1A 97.615 545 12 1 316 859 520949490 520948946 0.000000e+00 933.0
6 TraesCS2A01G454100 chr1A 94.211 190 10 1 1 190 503760381 503760569 3.310000e-74 289.0
7 TraesCS2A01G454100 chr1A 94.211 190 10 1 1 190 503770307 503770495 3.310000e-74 289.0
8 TraesCS2A01G454100 chr6B 98.337 1744 29 0 887 2630 86405262 86403519 0.000000e+00 3061.0
9 TraesCS2A01G454100 chr6B 96.739 552 15 3 309 859 135858205 135857656 0.000000e+00 917.0
10 TraesCS2A01G454100 chr5A 98.337 1744 29 0 887 2630 549967738 549965995 0.000000e+00 3061.0
11 TraesCS2A01G454100 chr5A 93.651 126 8 0 190 315 653857245 653857120 3.460000e-44 189.0
12 TraesCS2A01G454100 chr5A 82.540 126 14 3 196 314 474482507 474482631 1.290000e-18 104.0
13 TraesCS2A01G454100 chr7B 98.222 1744 30 1 887 2630 248270029 248271771 0.000000e+00 3048.0
14 TraesCS2A01G454100 chr7B 98.007 1756 23 1 887 2630 580865166 580866921 0.000000e+00 3038.0
15 TraesCS2A01G454100 chr7B 97.431 545 13 1 315 859 248264633 248265176 0.000000e+00 928.0
16 TraesCS2A01G454100 chr7B 97.426 544 13 1 316 859 47608642 47608100 0.000000e+00 926.0
17 TraesCS2A01G454100 chr7B 87.500 120 15 0 196 315 448731317 448731198 3.530000e-29 139.0
18 TraesCS2A01G454100 chr7B 89.189 111 12 0 196 306 450581710 450581820 3.530000e-29 139.0
19 TraesCS2A01G454100 chr1B 97.600 1750 33 2 887 2630 500914825 500913079 0.000000e+00 2990.0
20 TraesCS2A01G454100 chr1B 97.248 545 13 2 316 859 500916996 500916453 0.000000e+00 922.0
21 TraesCS2A01G454100 chr1B 90.090 111 11 0 196 306 421370237 421370347 7.590000e-31 145.0
22 TraesCS2A01G454100 chr5B 97.494 1756 29 3 887 2630 579534823 579533071 0.000000e+00 2985.0
23 TraesCS2A01G454100 chr5B 98.349 545 8 1 316 859 609134380 609134924 0.000000e+00 955.0
24 TraesCS2A01G454100 chr4B 97.380 1756 34 4 887 2630 468280255 468282010 0.000000e+00 2977.0
25 TraesCS2A01G454100 chrUn 98.165 1635 30 0 996 2630 304155000 304156634 0.000000e+00 2854.0
26 TraesCS2A01G454100 chr3B 93.401 1773 75 31 887 2630 259903607 259905366 0.000000e+00 2588.0
27 TraesCS2A01G454100 chr3B 97.436 546 12 2 316 859 766974732 766974187 0.000000e+00 929.0
28 TraesCS2A01G454100 chr3A 91.937 1786 90 31 887 2629 627956063 627954289 0.000000e+00 2451.0
29 TraesCS2A01G454100 chr3A 98.364 550 8 1 311 859 604320033 604319484 0.000000e+00 965.0
30 TraesCS2A01G454100 chr4A 97.248 545 14 1 316 859 463878984 463879528 0.000000e+00 922.0
31 TraesCS2A01G454100 chr7A 88.986 572 36 21 2075 2629 83253622 83253061 0.000000e+00 682.0
32 TraesCS2A01G454100 chr7A 88.482 191 20 2 1 190 512918193 512918382 2.040000e-56 230.0
33 TraesCS2A01G454100 chr7A 88.482 191 20 2 1 190 512928450 512928639 2.040000e-56 230.0
34 TraesCS2A01G454100 chr7A 90.769 130 12 0 186 315 682990067 682990196 9.680000e-40 174.0
35 TraesCS2A01G454100 chr6A 93.684 190 11 1 1 190 477765247 477765059 1.540000e-72 283.0
36 TraesCS2A01G454100 chr6A 92.105 190 14 1 1 190 477778760 477778572 1.550000e-67 267.0
37 TraesCS2A01G454100 chr2B 92.683 41 3 0 225 265 793586403 793586363 2.830000e-05 60.2


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 TraesCS2A01G454100 chr2A 703200018 703202647 2629 False 4857 4857 100.000 1 2630 1 chr2A.!!$F2 2629
1 TraesCS2A01G454100 chr1A 479205114 479207037 1923 False 3332 3332 97.974 713 2630 1 chr1A.!!$F1 1917
2 TraesCS2A01G454100 chr1A 520948946 520949490 544 True 933 933 97.615 316 859 1 chr1A.!!$R1 543
3 TraesCS2A01G454100 chr6B 86403519 86405262 1743 True 3061 3061 98.337 887 2630 1 chr6B.!!$R1 1743
4 TraesCS2A01G454100 chr6B 135857656 135858205 549 True 917 917 96.739 309 859 1 chr6B.!!$R2 550
5 TraesCS2A01G454100 chr5A 549965995 549967738 1743 True 3061 3061 98.337 887 2630 1 chr5A.!!$R1 1743
6 TraesCS2A01G454100 chr7B 248270029 248271771 1742 False 3048 3048 98.222 887 2630 1 chr7B.!!$F2 1743
7 TraesCS2A01G454100 chr7B 580865166 580866921 1755 False 3038 3038 98.007 887 2630 1 chr7B.!!$F4 1743
8 TraesCS2A01G454100 chr7B 248264633 248265176 543 False 928 928 97.431 315 859 1 chr7B.!!$F1 544
9 TraesCS2A01G454100 chr7B 47608100 47608642 542 True 926 926 97.426 316 859 1 chr7B.!!$R1 543
10 TraesCS2A01G454100 chr1B 500913079 500916996 3917 True 1956 2990 97.424 316 2630 2 chr1B.!!$R1 2314
11 TraesCS2A01G454100 chr5B 579533071 579534823 1752 True 2985 2985 97.494 887 2630 1 chr5B.!!$R1 1743
12 TraesCS2A01G454100 chr5B 609134380 609134924 544 False 955 955 98.349 316 859 1 chr5B.!!$F1 543
13 TraesCS2A01G454100 chr4B 468280255 468282010 1755 False 2977 2977 97.380 887 2630 1 chr4B.!!$F1 1743
14 TraesCS2A01G454100 chrUn 304155000 304156634 1634 False 2854 2854 98.165 996 2630 1 chrUn.!!$F1 1634
15 TraesCS2A01G454100 chr3B 259903607 259905366 1759 False 2588 2588 93.401 887 2630 1 chr3B.!!$F1 1743
16 TraesCS2A01G454100 chr3B 766974187 766974732 545 True 929 929 97.436 316 859 1 chr3B.!!$R1 543
17 TraesCS2A01G454100 chr3A 627954289 627956063 1774 True 2451 2451 91.937 887 2629 1 chr3A.!!$R2 1742
18 TraesCS2A01G454100 chr3A 604319484 604320033 549 True 965 965 98.364 311 859 1 chr3A.!!$R1 548
19 TraesCS2A01G454100 chr4A 463878984 463879528 544 False 922 922 97.248 316 859 1 chr4A.!!$F1 543
20 TraesCS2A01G454100 chr7A 83253061 83253622 561 True 682 682 88.986 2075 2629 1 chr7A.!!$R1 554

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
216 217 0.036952 CTTCGTCCATGGTGTGAGCT 60.037 55.0 12.58 0.0 0.00 4.09 F
225 226 0.106708 TGGTGTGAGCTTGTGGTCTC 59.893 55.0 0.00 0.0 40.98 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1045 2649 1.069022 CCACTTGTTCGGCATGTCTTG 60.069 52.381 0.00 0.0 33.82 3.02 R
1912 3530 1.218047 CCTTAGGCGCTGCACTACA 59.782 57.895 7.64 0.0 0.00 2.74 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
31 32 6.573617 GTTGAGTCAACACCAAATGAAAAG 57.426 37.500 27.37 0.00 43.09 2.27
32 33 4.681744 TGAGTCAACACCAAATGAAAAGC 58.318 39.130 0.00 0.00 0.00 3.51
33 34 4.051237 GAGTCAACACCAAATGAAAAGCC 58.949 43.478 0.00 0.00 0.00 4.35
34 35 3.130633 GTCAACACCAAATGAAAAGCCC 58.869 45.455 0.00 0.00 0.00 5.19
35 36 3.037549 TCAACACCAAATGAAAAGCCCT 58.962 40.909 0.00 0.00 0.00 5.19
36 37 3.069443 TCAACACCAAATGAAAAGCCCTC 59.931 43.478 0.00 0.00 0.00 4.30
37 38 2.676748 ACACCAAATGAAAAGCCCTCA 58.323 42.857 0.00 0.00 0.00 3.86
38 39 3.037549 ACACCAAATGAAAAGCCCTCAA 58.962 40.909 0.00 0.00 0.00 3.02
39 40 3.070015 ACACCAAATGAAAAGCCCTCAAG 59.930 43.478 0.00 0.00 0.00 3.02
40 41 3.321682 CACCAAATGAAAAGCCCTCAAGA 59.678 43.478 0.00 0.00 0.00 3.02
41 42 3.321968 ACCAAATGAAAAGCCCTCAAGAC 59.678 43.478 0.00 0.00 0.00 3.01
42 43 3.306294 CCAAATGAAAAGCCCTCAAGACC 60.306 47.826 0.00 0.00 0.00 3.85
43 44 2.978156 ATGAAAAGCCCTCAAGACCA 57.022 45.000 0.00 0.00 0.00 4.02
44 45 2.746279 TGAAAAGCCCTCAAGACCAA 57.254 45.000 0.00 0.00 0.00 3.67
45 46 3.025322 TGAAAAGCCCTCAAGACCAAA 57.975 42.857 0.00 0.00 0.00 3.28
46 47 3.370104 TGAAAAGCCCTCAAGACCAAAA 58.630 40.909 0.00 0.00 0.00 2.44
47 48 3.966665 TGAAAAGCCCTCAAGACCAAAAT 59.033 39.130 0.00 0.00 0.00 1.82
48 49 4.408596 TGAAAAGCCCTCAAGACCAAAATT 59.591 37.500 0.00 0.00 0.00 1.82
49 50 4.607293 AAAGCCCTCAAGACCAAAATTC 57.393 40.909 0.00 0.00 0.00 2.17
50 51 3.243359 AGCCCTCAAGACCAAAATTCA 57.757 42.857 0.00 0.00 0.00 2.57
51 52 3.575805 AGCCCTCAAGACCAAAATTCAA 58.424 40.909 0.00 0.00 0.00 2.69
52 53 3.575687 AGCCCTCAAGACCAAAATTCAAG 59.424 43.478 0.00 0.00 0.00 3.02
53 54 3.306294 GCCCTCAAGACCAAAATTCAAGG 60.306 47.826 0.00 0.00 0.00 3.61
54 55 3.897505 CCCTCAAGACCAAAATTCAAGGT 59.102 43.478 0.00 0.00 38.63 3.50
55 56 4.344968 CCCTCAAGACCAAAATTCAAGGTT 59.655 41.667 0.00 0.00 35.36 3.50
56 57 5.291971 CCTCAAGACCAAAATTCAAGGTTG 58.708 41.667 0.00 0.00 35.36 3.77
57 58 5.068987 CCTCAAGACCAAAATTCAAGGTTGA 59.931 40.000 0.00 0.00 35.36 3.18
58 59 6.147864 TCAAGACCAAAATTCAAGGTTGAG 57.852 37.500 0.00 0.00 38.61 3.02
59 60 5.890985 TCAAGACCAAAATTCAAGGTTGAGA 59.109 36.000 0.00 0.00 38.61 3.27
60 61 6.379703 TCAAGACCAAAATTCAAGGTTGAGAA 59.620 34.615 0.00 0.00 38.61 2.87
61 62 6.396829 AGACCAAAATTCAAGGTTGAGAAG 57.603 37.500 0.00 0.00 38.61 2.85
62 63 4.948847 ACCAAAATTCAAGGTTGAGAAGC 58.051 39.130 0.00 0.00 38.61 3.86
63 64 4.405358 ACCAAAATTCAAGGTTGAGAAGCA 59.595 37.500 0.00 0.00 38.61 3.91
64 65 4.746611 CCAAAATTCAAGGTTGAGAAGCAC 59.253 41.667 0.00 0.00 38.61 4.40
65 66 5.350633 CAAAATTCAAGGTTGAGAAGCACA 58.649 37.500 0.00 0.00 38.61 4.57
66 67 4.574599 AATTCAAGGTTGAGAAGCACAC 57.425 40.909 0.00 0.00 38.61 3.82
67 68 2.708216 TCAAGGTTGAGAAGCACACA 57.292 45.000 0.00 0.00 32.50 3.72
68 69 3.213206 TCAAGGTTGAGAAGCACACAT 57.787 42.857 0.00 0.00 32.50 3.21
69 70 4.350368 TCAAGGTTGAGAAGCACACATA 57.650 40.909 0.00 0.00 32.50 2.29
70 71 4.713553 TCAAGGTTGAGAAGCACACATAA 58.286 39.130 0.00 0.00 32.50 1.90
71 72 5.129634 TCAAGGTTGAGAAGCACACATAAA 58.870 37.500 0.00 0.00 32.50 1.40
72 73 5.592282 TCAAGGTTGAGAAGCACACATAAAA 59.408 36.000 0.00 0.00 32.50 1.52
73 74 6.265196 TCAAGGTTGAGAAGCACACATAAAAT 59.735 34.615 0.00 0.00 32.50 1.82
74 75 7.446931 TCAAGGTTGAGAAGCACACATAAAATA 59.553 33.333 0.00 0.00 32.50 1.40
75 76 7.944729 AGGTTGAGAAGCACACATAAAATAT 57.055 32.000 0.00 0.00 0.00 1.28
76 77 8.353423 AGGTTGAGAAGCACACATAAAATATT 57.647 30.769 0.00 0.00 0.00 1.28
77 78 8.806146 AGGTTGAGAAGCACACATAAAATATTT 58.194 29.630 0.00 0.00 0.00 1.40
78 79 8.863049 GGTTGAGAAGCACACATAAAATATTTG 58.137 33.333 0.39 0.00 0.00 2.32
79 80 9.410556 GTTGAGAAGCACACATAAAATATTTGT 57.589 29.630 0.39 0.00 0.00 2.83
80 81 9.624697 TTGAGAAGCACACATAAAATATTTGTC 57.375 29.630 0.39 0.00 0.00 3.18
81 82 8.791675 TGAGAAGCACACATAAAATATTTGTCA 58.208 29.630 0.39 0.00 0.00 3.58
82 83 9.793252 GAGAAGCACACATAAAATATTTGTCAT 57.207 29.630 0.39 0.00 0.00 3.06
113 114 9.681062 TTTTTGAGAAGGAGAGTTCTTAAGAAA 57.319 29.630 19.30 1.62 36.89 2.52
114 115 9.681062 TTTTGAGAAGGAGAGTTCTTAAGAAAA 57.319 29.630 19.30 3.29 36.89 2.29
115 116 9.681062 TTTGAGAAGGAGAGTTCTTAAGAAAAA 57.319 29.630 19.30 8.89 36.89 1.94
116 117 9.853177 TTGAGAAGGAGAGTTCTTAAGAAAAAT 57.147 29.630 19.30 8.78 36.89 1.82
117 118 9.853177 TGAGAAGGAGAGTTCTTAAGAAAAATT 57.147 29.630 19.30 8.78 36.89 1.82
134 135 8.966155 AGAAAAATTTAAATAACCTCCTCCCA 57.034 30.769 0.01 0.00 0.00 4.37
135 136 9.387397 AGAAAAATTTAAATAACCTCCTCCCAA 57.613 29.630 0.01 0.00 0.00 4.12
139 140 9.958180 AAATTTAAATAACCTCCTCCCAATTTG 57.042 29.630 0.01 0.00 0.00 2.32
140 141 7.489239 TTTAAATAACCTCCTCCCAATTTGG 57.511 36.000 8.56 8.56 37.25 3.28
141 142 4.965283 AATAACCTCCTCCCAATTTGGA 57.035 40.909 17.24 0.00 40.96 3.53
199 200 2.836479 GTGTGTTACACGTTTGGCTT 57.164 45.000 11.07 0.00 39.53 4.35
200 201 2.711885 GTGTGTTACACGTTTGGCTTC 58.288 47.619 11.07 0.00 39.53 3.86
201 202 1.328069 TGTGTTACACGTTTGGCTTCG 59.672 47.619 11.07 0.00 37.14 3.79
202 203 1.328374 GTGTTACACGTTTGGCTTCGT 59.672 47.619 0.00 0.00 40.99 3.85
203 204 1.593933 TGTTACACGTTTGGCTTCGTC 59.406 47.619 0.00 0.00 38.23 4.20
204 205 1.070376 GTTACACGTTTGGCTTCGTCC 60.070 52.381 0.00 0.00 38.23 4.79
205 206 0.104487 TACACGTTTGGCTTCGTCCA 59.896 50.000 0.00 0.00 38.23 4.02
206 207 0.534203 ACACGTTTGGCTTCGTCCAT 60.534 50.000 0.00 0.00 38.23 3.41
207 208 0.110238 CACGTTTGGCTTCGTCCATG 60.110 55.000 0.00 0.00 38.23 3.66
208 209 1.234615 ACGTTTGGCTTCGTCCATGG 61.235 55.000 4.97 4.97 35.30 3.66
209 210 1.234615 CGTTTGGCTTCGTCCATGGT 61.235 55.000 12.58 0.00 35.77 3.55
210 211 0.240945 GTTTGGCTTCGTCCATGGTG 59.759 55.000 12.58 6.00 35.77 4.17
211 212 0.179004 TTTGGCTTCGTCCATGGTGT 60.179 50.000 12.58 0.00 35.77 4.16
212 213 0.888736 TTGGCTTCGTCCATGGTGTG 60.889 55.000 12.58 2.88 35.77 3.82
213 214 1.003839 GGCTTCGTCCATGGTGTGA 60.004 57.895 12.58 5.43 0.00 3.58
214 215 1.021390 GGCTTCGTCCATGGTGTGAG 61.021 60.000 12.58 7.53 0.00 3.51
215 216 1.639298 GCTTCGTCCATGGTGTGAGC 61.639 60.000 12.58 13.46 0.00 4.26
216 217 0.036952 CTTCGTCCATGGTGTGAGCT 60.037 55.000 12.58 0.00 0.00 4.09
217 218 0.396435 TTCGTCCATGGTGTGAGCTT 59.604 50.000 12.58 0.00 0.00 3.74
218 219 0.320683 TCGTCCATGGTGTGAGCTTG 60.321 55.000 12.58 0.00 0.00 4.01
219 220 0.603707 CGTCCATGGTGTGAGCTTGT 60.604 55.000 12.58 0.00 0.00 3.16
220 221 0.877071 GTCCATGGTGTGAGCTTGTG 59.123 55.000 12.58 0.00 0.00 3.33
221 222 0.250858 TCCATGGTGTGAGCTTGTGG 60.251 55.000 12.58 0.00 0.00 4.17
222 223 0.538057 CCATGGTGTGAGCTTGTGGT 60.538 55.000 2.57 0.00 0.00 4.16
223 224 0.877071 CATGGTGTGAGCTTGTGGTC 59.123 55.000 0.00 0.00 40.79 4.02
224 225 0.767375 ATGGTGTGAGCTTGTGGTCT 59.233 50.000 0.00 0.00 40.98 3.85
225 226 0.106708 TGGTGTGAGCTTGTGGTCTC 59.893 55.000 0.00 0.00 40.98 3.36
226 227 0.106708 GGTGTGAGCTTGTGGTCTCA 59.893 55.000 0.00 0.00 40.42 3.27
227 228 1.475034 GGTGTGAGCTTGTGGTCTCAA 60.475 52.381 0.00 0.00 42.96 3.02
228 229 2.498167 GTGTGAGCTTGTGGTCTCAAT 58.502 47.619 0.00 0.00 42.96 2.57
229 230 2.481952 GTGTGAGCTTGTGGTCTCAATC 59.518 50.000 0.00 0.00 42.96 2.67
230 231 2.079925 GTGAGCTTGTGGTCTCAATCC 58.920 52.381 0.00 0.00 40.57 3.01
231 232 1.699083 TGAGCTTGTGGTCTCAATCCA 59.301 47.619 0.00 0.00 40.98 3.41
232 233 2.106338 TGAGCTTGTGGTCTCAATCCAA 59.894 45.455 0.00 0.00 40.98 3.53
233 234 3.149196 GAGCTTGTGGTCTCAATCCAAA 58.851 45.455 0.00 0.00 37.68 3.28
234 235 3.565307 AGCTTGTGGTCTCAATCCAAAA 58.435 40.909 0.00 0.00 36.68 2.44
235 236 3.960102 AGCTTGTGGTCTCAATCCAAAAA 59.040 39.130 0.00 0.00 36.68 1.94
236 237 4.590222 AGCTTGTGGTCTCAATCCAAAAAT 59.410 37.500 0.00 0.00 36.68 1.82
237 238 4.925646 GCTTGTGGTCTCAATCCAAAAATC 59.074 41.667 0.00 0.00 36.68 2.17
238 239 5.509501 GCTTGTGGTCTCAATCCAAAAATCA 60.510 40.000 0.00 0.00 36.68 2.57
239 240 5.710513 TGTGGTCTCAATCCAAAAATCAG 57.289 39.130 0.00 0.00 36.68 2.90
240 241 5.384336 TGTGGTCTCAATCCAAAAATCAGA 58.616 37.500 0.00 0.00 36.68 3.27
241 242 5.832595 TGTGGTCTCAATCCAAAAATCAGAA 59.167 36.000 0.00 0.00 36.68 3.02
242 243 6.323482 TGTGGTCTCAATCCAAAAATCAGAAA 59.677 34.615 0.00 0.00 36.68 2.52
243 244 6.642540 GTGGTCTCAATCCAAAAATCAGAAAC 59.357 38.462 0.00 0.00 36.68 2.78
244 245 6.323482 TGGTCTCAATCCAAAAATCAGAAACA 59.677 34.615 0.00 0.00 31.50 2.83
245 246 6.865205 GGTCTCAATCCAAAAATCAGAAACAG 59.135 38.462 0.00 0.00 0.00 3.16
246 247 7.428826 GTCTCAATCCAAAAATCAGAAACAGT 58.571 34.615 0.00 0.00 0.00 3.55
247 248 7.922811 GTCTCAATCCAAAAATCAGAAACAGTT 59.077 33.333 0.00 0.00 0.00 3.16
248 249 8.477256 TCTCAATCCAAAAATCAGAAACAGTTT 58.523 29.630 0.00 0.00 0.00 2.66
249 250 8.422973 TCAATCCAAAAATCAGAAACAGTTTG 57.577 30.769 2.34 0.00 0.00 2.93
250 251 7.495279 TCAATCCAAAAATCAGAAACAGTTTGG 59.505 33.333 2.34 6.63 44.08 3.28
252 253 7.123355 TCCAAAAATCAGAAACAGTTTGGAT 57.877 32.000 2.34 3.76 45.52 3.41
253 254 6.985645 TCCAAAAATCAGAAACAGTTTGGATG 59.014 34.615 2.34 0.00 45.52 3.51
254 255 6.985645 CCAAAAATCAGAAACAGTTTGGATGA 59.014 34.615 2.34 5.54 45.04 2.92
255 256 7.170320 CCAAAAATCAGAAACAGTTTGGATGAG 59.830 37.037 2.34 0.00 45.04 2.90
256 257 7.587037 AAAATCAGAAACAGTTTGGATGAGA 57.413 32.000 2.34 0.00 0.00 3.27
257 258 6.566197 AATCAGAAACAGTTTGGATGAGAC 57.434 37.500 2.34 0.00 0.00 3.36
258 259 5.296151 TCAGAAACAGTTTGGATGAGACT 57.704 39.130 2.34 0.00 0.00 3.24
259 260 5.059161 TCAGAAACAGTTTGGATGAGACTG 58.941 41.667 2.34 2.25 44.77 3.51
260 261 4.214971 CAGAAACAGTTTGGATGAGACTGG 59.785 45.833 2.34 0.00 43.81 4.00
261 262 2.867109 ACAGTTTGGATGAGACTGGG 57.133 50.000 7.53 0.00 43.81 4.45
262 263 2.057922 ACAGTTTGGATGAGACTGGGT 58.942 47.619 7.53 0.00 43.81 4.51
263 264 2.443255 ACAGTTTGGATGAGACTGGGTT 59.557 45.455 7.53 0.00 43.81 4.11
264 265 2.816087 CAGTTTGGATGAGACTGGGTTG 59.184 50.000 0.00 0.00 37.67 3.77
265 266 2.711009 AGTTTGGATGAGACTGGGTTGA 59.289 45.455 0.00 0.00 0.00 3.18
266 267 3.138283 AGTTTGGATGAGACTGGGTTGAA 59.862 43.478 0.00 0.00 0.00 2.69
267 268 3.874383 TTGGATGAGACTGGGTTGAAA 57.126 42.857 0.00 0.00 0.00 2.69
268 269 3.874383 TGGATGAGACTGGGTTGAAAA 57.126 42.857 0.00 0.00 0.00 2.29
269 270 4.177537 TGGATGAGACTGGGTTGAAAAA 57.822 40.909 0.00 0.00 0.00 1.94
291 292 7.784633 AAAACATACAATTTGGTTTGGTCTG 57.215 32.000 0.78 0.00 32.92 3.51
292 293 5.467035 ACATACAATTTGGTTTGGTCTGG 57.533 39.130 0.78 0.00 0.00 3.86
293 294 4.283212 ACATACAATTTGGTTTGGTCTGGG 59.717 41.667 0.78 0.00 0.00 4.45
294 295 2.758130 ACAATTTGGTTTGGTCTGGGT 58.242 42.857 0.78 0.00 0.00 4.51
295 296 3.111484 ACAATTTGGTTTGGTCTGGGTT 58.889 40.909 0.78 0.00 0.00 4.11
296 297 3.133901 ACAATTTGGTTTGGTCTGGGTTC 59.866 43.478 0.78 0.00 0.00 3.62
297 298 2.838637 TTTGGTTTGGTCTGGGTTCT 57.161 45.000 0.00 0.00 0.00 3.01
298 299 3.955524 TTTGGTTTGGTCTGGGTTCTA 57.044 42.857 0.00 0.00 0.00 2.10
299 300 3.502123 TTGGTTTGGTCTGGGTTCTAG 57.498 47.619 0.00 0.00 0.00 2.43
300 301 1.073284 TGGTTTGGTCTGGGTTCTAGC 59.927 52.381 0.00 0.00 0.00 3.42
301 302 1.351350 GGTTTGGTCTGGGTTCTAGCT 59.649 52.381 0.00 0.00 0.00 3.32
302 303 2.427506 GTTTGGTCTGGGTTCTAGCTG 58.572 52.381 0.00 0.00 0.00 4.24
303 304 2.024176 TTGGTCTGGGTTCTAGCTGA 57.976 50.000 0.00 0.00 0.00 4.26
304 305 2.254152 TGGTCTGGGTTCTAGCTGAT 57.746 50.000 0.00 0.00 0.00 2.90
305 306 2.551270 TGGTCTGGGTTCTAGCTGATT 58.449 47.619 0.00 0.00 0.00 2.57
306 307 2.501723 TGGTCTGGGTTCTAGCTGATTC 59.498 50.000 0.00 0.00 0.00 2.52
307 308 2.501723 GGTCTGGGTTCTAGCTGATTCA 59.498 50.000 0.00 0.00 0.00 2.57
308 309 3.135530 GGTCTGGGTTCTAGCTGATTCAT 59.864 47.826 0.00 0.00 0.00 2.57
309 310 4.384647 GGTCTGGGTTCTAGCTGATTCATT 60.385 45.833 0.00 0.00 0.00 2.57
370 371 5.042463 TCAAATCACAAACTGACCTGGTA 57.958 39.130 0.00 0.00 0.00 3.25
411 412 4.974721 CCCTTTGGTGTGGCGCCT 62.975 66.667 29.70 0.00 34.70 5.52
476 478 4.019312 TCGCACATCCTGCCAGCA 62.019 61.111 0.00 0.00 43.84 4.41
738 742 5.192927 TCTTGCAAATCCGGAGTATTTGAT 58.807 37.500 25.96 0.00 44.90 2.57
1006 2610 0.451783 CGGTTTTGTAGGCATGGCTC 59.548 55.000 26.96 17.11 0.00 4.70
1045 2649 1.946267 CCACCGTGTGCTAACCAAC 59.054 57.895 0.00 0.00 31.34 3.77
1459 3064 1.905894 GAAGAGGCTTGGAGGAAGAGT 59.094 52.381 0.00 0.00 32.82 3.24
1630 3235 1.475392 GGCCTCGCTCTACTCAGTAGA 60.475 57.143 14.10 14.10 42.04 2.59
1806 3412 9.959749 TGTTTGAATTGTCTTAAGTTATGAACC 57.040 29.630 1.63 0.00 0.00 3.62
1912 3530 1.617850 GCTCTCTGGATCGTCATGGAT 59.382 52.381 0.00 0.00 0.00 3.41
2198 3829 8.832521 CAAACACAAATACCACACTAGTAAGAA 58.167 33.333 0.00 0.00 0.00 2.52
2465 4153 3.412386 GGTTGCCTCTGTTGTCATAGTT 58.588 45.455 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 5.005682 GCTTTTCATTTGGTGTTGACTCAAC 59.994 40.000 14.10 14.10 43.78 3.18
9 10 5.108517 GCTTTTCATTTGGTGTTGACTCAA 58.891 37.500 0.00 0.00 0.00 3.02
10 11 4.441356 GGCTTTTCATTTGGTGTTGACTCA 60.441 41.667 0.00 0.00 0.00 3.41
11 12 4.051237 GGCTTTTCATTTGGTGTTGACTC 58.949 43.478 0.00 0.00 0.00 3.36
12 13 3.181466 GGGCTTTTCATTTGGTGTTGACT 60.181 43.478 0.00 0.00 0.00 3.41
13 14 3.130633 GGGCTTTTCATTTGGTGTTGAC 58.869 45.455 0.00 0.00 0.00 3.18
14 15 3.037549 AGGGCTTTTCATTTGGTGTTGA 58.962 40.909 0.00 0.00 0.00 3.18
15 16 3.181467 TGAGGGCTTTTCATTTGGTGTTG 60.181 43.478 0.00 0.00 0.00 3.33
16 17 3.037549 TGAGGGCTTTTCATTTGGTGTT 58.962 40.909 0.00 0.00 0.00 3.32
17 18 2.676748 TGAGGGCTTTTCATTTGGTGT 58.323 42.857 0.00 0.00 0.00 4.16
18 19 3.321682 TCTTGAGGGCTTTTCATTTGGTG 59.678 43.478 0.00 0.00 0.00 4.17
19 20 3.321968 GTCTTGAGGGCTTTTCATTTGGT 59.678 43.478 0.00 0.00 0.00 3.67
20 21 3.306294 GGTCTTGAGGGCTTTTCATTTGG 60.306 47.826 0.00 0.00 0.00 3.28
21 22 3.321682 TGGTCTTGAGGGCTTTTCATTTG 59.678 43.478 0.00 0.00 0.00 2.32
22 23 3.575805 TGGTCTTGAGGGCTTTTCATTT 58.424 40.909 0.00 0.00 0.00 2.32
23 24 3.243359 TGGTCTTGAGGGCTTTTCATT 57.757 42.857 0.00 0.00 0.00 2.57
24 25 2.978156 TGGTCTTGAGGGCTTTTCAT 57.022 45.000 0.00 0.00 0.00 2.57
25 26 2.746279 TTGGTCTTGAGGGCTTTTCA 57.254 45.000 0.00 0.00 0.00 2.69
26 27 4.607293 ATTTTGGTCTTGAGGGCTTTTC 57.393 40.909 0.00 0.00 0.00 2.29
27 28 4.408596 TGAATTTTGGTCTTGAGGGCTTTT 59.591 37.500 0.00 0.00 0.00 2.27
28 29 3.966665 TGAATTTTGGTCTTGAGGGCTTT 59.033 39.130 0.00 0.00 0.00 3.51
29 30 3.575805 TGAATTTTGGTCTTGAGGGCTT 58.424 40.909 0.00 0.00 0.00 4.35
30 31 3.243359 TGAATTTTGGTCTTGAGGGCT 57.757 42.857 0.00 0.00 0.00 5.19
31 32 3.306294 CCTTGAATTTTGGTCTTGAGGGC 60.306 47.826 0.00 0.00 0.00 5.19
32 33 3.897505 ACCTTGAATTTTGGTCTTGAGGG 59.102 43.478 0.00 0.00 0.00 4.30
33 34 5.068987 TCAACCTTGAATTTTGGTCTTGAGG 59.931 40.000 0.00 0.00 33.55 3.86
34 35 6.039717 TCTCAACCTTGAATTTTGGTCTTGAG 59.960 38.462 14.44 14.44 38.81 3.02
35 36 5.890985 TCTCAACCTTGAATTTTGGTCTTGA 59.109 36.000 0.00 0.00 36.64 3.02
36 37 6.147864 TCTCAACCTTGAATTTTGGTCTTG 57.852 37.500 0.00 0.00 36.64 3.02
37 38 6.683861 GCTTCTCAACCTTGAATTTTGGTCTT 60.684 38.462 0.00 0.00 36.64 3.01
38 39 5.221322 GCTTCTCAACCTTGAATTTTGGTCT 60.221 40.000 0.00 0.00 36.64 3.85
39 40 4.984785 GCTTCTCAACCTTGAATTTTGGTC 59.015 41.667 0.00 0.00 36.64 4.02
40 41 4.405358 TGCTTCTCAACCTTGAATTTTGGT 59.595 37.500 0.00 0.00 36.64 3.67
41 42 4.746611 GTGCTTCTCAACCTTGAATTTTGG 59.253 41.667 0.00 0.00 36.64 3.28
42 43 5.232838 GTGTGCTTCTCAACCTTGAATTTTG 59.767 40.000 0.00 0.00 36.64 2.44
43 44 5.105392 TGTGTGCTTCTCAACCTTGAATTTT 60.105 36.000 0.00 0.00 36.64 1.82
44 45 4.402155 TGTGTGCTTCTCAACCTTGAATTT 59.598 37.500 0.00 0.00 36.64 1.82
45 46 3.953612 TGTGTGCTTCTCAACCTTGAATT 59.046 39.130 0.00 0.00 36.64 2.17
46 47 3.554934 TGTGTGCTTCTCAACCTTGAAT 58.445 40.909 0.00 0.00 36.64 2.57
47 48 2.997980 TGTGTGCTTCTCAACCTTGAA 58.002 42.857 0.00 0.00 36.64 2.69
48 49 2.708216 TGTGTGCTTCTCAACCTTGA 57.292 45.000 0.00 0.00 35.57 3.02
49 50 5.437289 TTTATGTGTGCTTCTCAACCTTG 57.563 39.130 0.00 0.00 0.00 3.61
50 51 6.655078 ATTTTATGTGTGCTTCTCAACCTT 57.345 33.333 0.00 0.00 0.00 3.50
51 52 7.944729 ATATTTTATGTGTGCTTCTCAACCT 57.055 32.000 0.00 0.00 0.00 3.50
52 53 8.863049 CAAATATTTTATGTGTGCTTCTCAACC 58.137 33.333 0.00 0.00 0.00 3.77
53 54 9.410556 ACAAATATTTTATGTGTGCTTCTCAAC 57.589 29.630 0.00 0.00 0.00 3.18
54 55 9.624697 GACAAATATTTTATGTGTGCTTCTCAA 57.375 29.630 0.00 0.00 0.00 3.02
55 56 8.791675 TGACAAATATTTTATGTGTGCTTCTCA 58.208 29.630 0.00 0.00 0.00 3.27
56 57 9.793252 ATGACAAATATTTTATGTGTGCTTCTC 57.207 29.630 0.00 0.00 0.00 2.87
87 88 9.681062 TTTCTTAAGAACTCTCCTTCTCAAAAA 57.319 29.630 17.51 0.00 33.13 1.94
88 89 9.681062 TTTTCTTAAGAACTCTCCTTCTCAAAA 57.319 29.630 17.51 1.69 33.13 2.44
89 90 9.681062 TTTTTCTTAAGAACTCTCCTTCTCAAA 57.319 29.630 17.51 8.04 33.13 2.69
90 91 9.853177 ATTTTTCTTAAGAACTCTCCTTCTCAA 57.147 29.630 17.51 2.30 33.13 3.02
91 92 9.853177 AATTTTTCTTAAGAACTCTCCTTCTCA 57.147 29.630 17.51 0.00 33.13 3.27
108 109 9.387397 TGGGAGGAGGTTATTTAAATTTTTCTT 57.613 29.630 5.91 0.00 0.00 2.52
109 110 8.966155 TGGGAGGAGGTTATTTAAATTTTTCT 57.034 30.769 5.91 0.00 0.00 2.52
113 114 9.958180 CAAATTGGGAGGAGGTTATTTAAATTT 57.042 29.630 5.91 0.00 0.00 1.82
114 115 8.548025 CCAAATTGGGAGGAGGTTATTTAAATT 58.452 33.333 5.91 0.00 32.67 1.82
115 116 7.904022 TCCAAATTGGGAGGAGGTTATTTAAAT 59.096 33.333 12.67 5.89 38.32 1.40
116 117 7.249715 TCCAAATTGGGAGGAGGTTATTTAAA 58.750 34.615 12.67 0.00 38.32 1.52
117 118 6.806217 TCCAAATTGGGAGGAGGTTATTTAA 58.194 36.000 12.67 0.00 38.32 1.52
118 119 6.410222 TCCAAATTGGGAGGAGGTTATTTA 57.590 37.500 12.67 0.00 38.32 1.40
119 120 5.283876 TCCAAATTGGGAGGAGGTTATTT 57.716 39.130 12.67 0.00 38.32 1.40
120 121 4.965283 TCCAAATTGGGAGGAGGTTATT 57.035 40.909 12.67 0.00 38.32 1.40
130 131 8.654997 TCAAATATTTTGTTCTCCAAATTGGGA 58.345 29.630 12.67 0.42 42.45 4.37
131 132 8.845413 TCAAATATTTTGTTCTCCAAATTGGG 57.155 30.769 12.67 3.21 42.45 4.12
174 175 4.235360 CCAAACGTGTAACACACCAAAAA 58.765 39.130 8.07 0.00 45.93 1.94
175 176 3.834610 CCAAACGTGTAACACACCAAAA 58.165 40.909 8.07 0.00 45.93 2.44
176 177 2.415625 GCCAAACGTGTAACACACCAAA 60.416 45.455 8.07 0.00 45.93 3.28
177 178 1.132643 GCCAAACGTGTAACACACCAA 59.867 47.619 8.07 0.00 45.93 3.67
178 179 0.733729 GCCAAACGTGTAACACACCA 59.266 50.000 8.07 0.00 45.93 4.17
179 180 1.018910 AGCCAAACGTGTAACACACC 58.981 50.000 8.07 0.00 45.93 4.16
180 181 2.711885 GAAGCCAAACGTGTAACACAC 58.288 47.619 5.98 5.98 45.26 3.82
181 182 1.328069 CGAAGCCAAACGTGTAACACA 59.672 47.619 0.00 0.00 35.74 3.72
182 183 1.328374 ACGAAGCCAAACGTGTAACAC 59.672 47.619 0.00 0.00 41.17 3.32
183 184 1.593933 GACGAAGCCAAACGTGTAACA 59.406 47.619 0.00 0.00 42.74 2.41
184 185 1.070376 GGACGAAGCCAAACGTGTAAC 60.070 52.381 0.00 0.00 42.74 2.50
185 186 1.219646 GGACGAAGCCAAACGTGTAA 58.780 50.000 0.00 0.00 42.74 2.41
186 187 0.104487 TGGACGAAGCCAAACGTGTA 59.896 50.000 0.00 0.00 42.74 2.90
187 188 0.534203 ATGGACGAAGCCAAACGTGT 60.534 50.000 0.00 0.00 42.16 4.49
188 189 0.110238 CATGGACGAAGCCAAACGTG 60.110 55.000 0.00 0.00 42.16 4.49
189 190 1.234615 CCATGGACGAAGCCAAACGT 61.235 55.000 5.56 0.00 42.16 3.99
190 191 1.234615 ACCATGGACGAAGCCAAACG 61.235 55.000 21.47 0.00 42.16 3.60
191 192 0.240945 CACCATGGACGAAGCCAAAC 59.759 55.000 21.47 0.00 42.16 2.93
192 193 0.179004 ACACCATGGACGAAGCCAAA 60.179 50.000 21.47 0.00 42.16 3.28
193 194 0.888736 CACACCATGGACGAAGCCAA 60.889 55.000 21.47 0.00 42.16 4.52
194 195 1.302431 CACACCATGGACGAAGCCA 60.302 57.895 21.47 0.00 43.23 4.75
195 196 1.003839 TCACACCATGGACGAAGCC 60.004 57.895 21.47 0.00 0.00 4.35
196 197 1.639298 GCTCACACCATGGACGAAGC 61.639 60.000 21.47 17.21 0.00 3.86
197 198 0.036952 AGCTCACACCATGGACGAAG 60.037 55.000 21.47 11.33 0.00 3.79
198 199 0.396435 AAGCTCACACCATGGACGAA 59.604 50.000 21.47 0.00 0.00 3.85
199 200 0.320683 CAAGCTCACACCATGGACGA 60.321 55.000 21.47 10.42 0.00 4.20
200 201 0.603707 ACAAGCTCACACCATGGACG 60.604 55.000 21.47 11.71 0.00 4.79
201 202 0.877071 CACAAGCTCACACCATGGAC 59.123 55.000 21.47 0.02 0.00 4.02
202 203 0.250858 CCACAAGCTCACACCATGGA 60.251 55.000 21.47 0.00 0.00 3.41
203 204 0.538057 ACCACAAGCTCACACCATGG 60.538 55.000 11.19 11.19 0.00 3.66
204 205 0.877071 GACCACAAGCTCACACCATG 59.123 55.000 0.00 0.00 0.00 3.66
205 206 0.767375 AGACCACAAGCTCACACCAT 59.233 50.000 0.00 0.00 0.00 3.55
206 207 0.106708 GAGACCACAAGCTCACACCA 59.893 55.000 0.00 0.00 0.00 4.17
207 208 0.106708 TGAGACCACAAGCTCACACC 59.893 55.000 0.00 0.00 36.31 4.16
208 209 1.953559 TTGAGACCACAAGCTCACAC 58.046 50.000 0.00 0.00 40.57 3.82
209 210 2.550855 GGATTGAGACCACAAGCTCACA 60.551 50.000 0.00 0.00 40.57 3.58
210 211 2.079925 GGATTGAGACCACAAGCTCAC 58.920 52.381 0.00 0.00 40.57 3.51
211 212 1.699083 TGGATTGAGACCACAAGCTCA 59.301 47.619 0.00 0.00 39.24 4.26
212 213 2.479566 TGGATTGAGACCACAAGCTC 57.520 50.000 0.00 0.00 36.57 4.09
213 214 2.957402 TTGGATTGAGACCACAAGCT 57.043 45.000 0.00 0.00 37.13 3.74
214 215 4.320608 TTTTTGGATTGAGACCACAAGC 57.679 40.909 0.00 0.00 37.13 4.01
215 216 6.016024 TCTGATTTTTGGATTGAGACCACAAG 60.016 38.462 0.00 0.00 37.13 3.16
216 217 5.832595 TCTGATTTTTGGATTGAGACCACAA 59.167 36.000 0.00 0.00 37.13 3.33
217 218 5.384336 TCTGATTTTTGGATTGAGACCACA 58.616 37.500 0.00 0.00 37.13 4.17
218 219 5.964958 TCTGATTTTTGGATTGAGACCAC 57.035 39.130 0.00 0.00 37.13 4.16
219 220 6.323482 TGTTTCTGATTTTTGGATTGAGACCA 59.677 34.615 0.00 0.00 35.47 4.02
220 221 6.748132 TGTTTCTGATTTTTGGATTGAGACC 58.252 36.000 0.00 0.00 0.00 3.85
221 222 7.428826 ACTGTTTCTGATTTTTGGATTGAGAC 58.571 34.615 0.00 0.00 0.00 3.36
222 223 7.587037 ACTGTTTCTGATTTTTGGATTGAGA 57.413 32.000 0.00 0.00 0.00 3.27
223 224 8.545420 CAAACTGTTTCTGATTTTTGGATTGAG 58.455 33.333 2.13 0.00 0.00 3.02
224 225 7.495279 CCAAACTGTTTCTGATTTTTGGATTGA 59.505 33.333 2.13 0.00 43.78 2.57
225 226 7.495279 TCCAAACTGTTTCTGATTTTTGGATTG 59.505 33.333 9.07 0.00 44.39 2.67
226 227 7.563906 TCCAAACTGTTTCTGATTTTTGGATT 58.436 30.769 9.07 0.00 44.39 3.01
227 228 7.123355 TCCAAACTGTTTCTGATTTTTGGAT 57.877 32.000 9.07 0.00 44.39 3.41
228 229 6.537453 TCCAAACTGTTTCTGATTTTTGGA 57.463 33.333 9.07 9.07 46.11 3.53
229 230 6.985645 TCATCCAAACTGTTTCTGATTTTTGG 59.014 34.615 2.13 4.80 42.86 3.28
230 231 7.922278 TCTCATCCAAACTGTTTCTGATTTTTG 59.078 33.333 2.13 0.00 0.00 2.44
231 232 7.922811 GTCTCATCCAAACTGTTTCTGATTTTT 59.077 33.333 2.13 0.00 0.00 1.94
232 233 7.286316 AGTCTCATCCAAACTGTTTCTGATTTT 59.714 33.333 2.13 0.00 0.00 1.82
233 234 6.774656 AGTCTCATCCAAACTGTTTCTGATTT 59.225 34.615 2.13 0.00 0.00 2.17
234 235 6.206243 CAGTCTCATCCAAACTGTTTCTGATT 59.794 38.462 2.13 0.00 36.50 2.57
235 236 5.704515 CAGTCTCATCCAAACTGTTTCTGAT 59.295 40.000 2.13 5.98 36.50 2.90
236 237 5.059161 CAGTCTCATCCAAACTGTTTCTGA 58.941 41.667 2.13 3.82 36.50 3.27
237 238 4.214971 CCAGTCTCATCCAAACTGTTTCTG 59.785 45.833 2.13 5.28 38.97 3.02
238 239 4.392940 CCAGTCTCATCCAAACTGTTTCT 58.607 43.478 2.13 0.00 38.97 2.52
239 240 3.503748 CCCAGTCTCATCCAAACTGTTTC 59.496 47.826 2.13 0.00 38.97 2.78
240 241 3.117512 ACCCAGTCTCATCCAAACTGTTT 60.118 43.478 0.00 0.00 38.97 2.83
241 242 2.443255 ACCCAGTCTCATCCAAACTGTT 59.557 45.455 0.00 0.00 38.97 3.16
242 243 2.057922 ACCCAGTCTCATCCAAACTGT 58.942 47.619 0.00 0.00 38.97 3.55
243 244 2.816087 CAACCCAGTCTCATCCAAACTG 59.184 50.000 0.00 0.00 40.05 3.16
244 245 2.711009 TCAACCCAGTCTCATCCAAACT 59.289 45.455 0.00 0.00 0.00 2.66
245 246 3.140325 TCAACCCAGTCTCATCCAAAC 57.860 47.619 0.00 0.00 0.00 2.93
246 247 3.874383 TTCAACCCAGTCTCATCCAAA 57.126 42.857 0.00 0.00 0.00 3.28
247 248 3.874383 TTTCAACCCAGTCTCATCCAA 57.126 42.857 0.00 0.00 0.00 3.53
248 249 3.874383 TTTTCAACCCAGTCTCATCCA 57.126 42.857 0.00 0.00 0.00 3.41
266 267 7.281999 CCAGACCAAACCAAATTGTATGTTTTT 59.718 33.333 0.00 0.00 0.00 1.94
267 268 6.765512 CCAGACCAAACCAAATTGTATGTTTT 59.234 34.615 0.00 0.00 0.00 2.43
268 269 6.287525 CCAGACCAAACCAAATTGTATGTTT 58.712 36.000 0.00 0.00 0.00 2.83
269 270 5.221621 CCCAGACCAAACCAAATTGTATGTT 60.222 40.000 0.00 0.00 0.00 2.71
270 271 4.283212 CCCAGACCAAACCAAATTGTATGT 59.717 41.667 0.00 0.00 0.00 2.29
271 272 4.283212 ACCCAGACCAAACCAAATTGTATG 59.717 41.667 0.00 0.00 0.00 2.39
272 273 4.488770 ACCCAGACCAAACCAAATTGTAT 58.511 39.130 0.00 0.00 0.00 2.29
273 274 3.917300 ACCCAGACCAAACCAAATTGTA 58.083 40.909 0.00 0.00 0.00 2.41
274 275 2.758130 ACCCAGACCAAACCAAATTGT 58.242 42.857 0.00 0.00 0.00 2.71
275 276 3.387699 AGAACCCAGACCAAACCAAATTG 59.612 43.478 0.00 0.00 0.00 2.32
276 277 3.653164 AGAACCCAGACCAAACCAAATT 58.347 40.909 0.00 0.00 0.00 1.82
277 278 3.328535 AGAACCCAGACCAAACCAAAT 57.671 42.857 0.00 0.00 0.00 2.32
278 279 2.838637 AGAACCCAGACCAAACCAAA 57.161 45.000 0.00 0.00 0.00 3.28
279 280 2.488347 GCTAGAACCCAGACCAAACCAA 60.488 50.000 0.00 0.00 0.00 3.67
280 281 1.073284 GCTAGAACCCAGACCAAACCA 59.927 52.381 0.00 0.00 0.00 3.67
281 282 1.351350 AGCTAGAACCCAGACCAAACC 59.649 52.381 0.00 0.00 0.00 3.27
282 283 2.038557 TCAGCTAGAACCCAGACCAAAC 59.961 50.000 0.00 0.00 0.00 2.93
283 284 2.334977 TCAGCTAGAACCCAGACCAAA 58.665 47.619 0.00 0.00 0.00 3.28
284 285 2.024176 TCAGCTAGAACCCAGACCAA 57.976 50.000 0.00 0.00 0.00 3.67
285 286 2.254152 ATCAGCTAGAACCCAGACCA 57.746 50.000 0.00 0.00 0.00 4.02
286 287 2.501723 TGAATCAGCTAGAACCCAGACC 59.498 50.000 0.00 0.00 0.00 3.85
287 288 3.895232 TGAATCAGCTAGAACCCAGAC 57.105 47.619 0.00 0.00 0.00 3.51
288 289 5.441718 AAATGAATCAGCTAGAACCCAGA 57.558 39.130 0.00 0.00 0.00 3.86
289 290 5.163581 CCAAAATGAATCAGCTAGAACCCAG 60.164 44.000 0.00 0.00 0.00 4.45
290 291 4.706476 CCAAAATGAATCAGCTAGAACCCA 59.294 41.667 0.00 0.00 0.00 4.51
291 292 4.949856 TCCAAAATGAATCAGCTAGAACCC 59.050 41.667 0.00 0.00 0.00 4.11
292 293 5.067023 CCTCCAAAATGAATCAGCTAGAACC 59.933 44.000 0.00 0.00 0.00 3.62
293 294 5.449725 GCCTCCAAAATGAATCAGCTAGAAC 60.450 44.000 0.00 0.00 0.00 3.01
294 295 4.641989 GCCTCCAAAATGAATCAGCTAGAA 59.358 41.667 0.00 0.00 0.00 2.10
295 296 4.202441 GCCTCCAAAATGAATCAGCTAGA 58.798 43.478 0.00 0.00 0.00 2.43
296 297 3.949754 TGCCTCCAAAATGAATCAGCTAG 59.050 43.478 0.00 0.00 0.00 3.42
297 298 3.949754 CTGCCTCCAAAATGAATCAGCTA 59.050 43.478 0.00 0.00 0.00 3.32
298 299 2.758979 CTGCCTCCAAAATGAATCAGCT 59.241 45.455 0.00 0.00 0.00 4.24
299 300 2.756760 TCTGCCTCCAAAATGAATCAGC 59.243 45.455 0.00 0.00 0.00 4.26
300 301 5.395682 TTTCTGCCTCCAAAATGAATCAG 57.604 39.130 0.00 0.00 0.00 2.90
301 302 5.481122 TGATTTCTGCCTCCAAAATGAATCA 59.519 36.000 0.00 0.00 0.00 2.57
302 303 5.809051 GTGATTTCTGCCTCCAAAATGAATC 59.191 40.000 0.00 0.00 0.00 2.52
303 304 5.246656 TGTGATTTCTGCCTCCAAAATGAAT 59.753 36.000 0.00 0.00 0.00 2.57
304 305 4.588106 TGTGATTTCTGCCTCCAAAATGAA 59.412 37.500 0.00 0.00 0.00 2.57
305 306 4.151121 TGTGATTTCTGCCTCCAAAATGA 58.849 39.130 0.00 0.00 0.00 2.57
306 307 4.524316 TGTGATTTCTGCCTCCAAAATG 57.476 40.909 0.00 0.00 0.00 2.32
307 308 6.837568 AGATATGTGATTTCTGCCTCCAAAAT 59.162 34.615 0.00 0.00 0.00 1.82
308 309 6.095860 CAGATATGTGATTTCTGCCTCCAAAA 59.904 38.462 0.00 0.00 32.93 2.44
309 310 5.591472 CAGATATGTGATTTCTGCCTCCAAA 59.409 40.000 0.00 0.00 32.93 3.28
426 427 2.343758 CGCTGCACAGTAGGGTGT 59.656 61.111 0.00 0.00 40.89 4.16
476 478 3.736224 CTGGACCAGGGCTGCCAT 61.736 66.667 22.05 11.43 0.00 4.40
514 516 3.137446 CCTAGCTCTTAGGCATTGCAT 57.863 47.619 11.39 5.92 42.50 3.96
738 742 1.153353 GTTGGCTTCGAAATCCACGA 58.847 50.000 15.89 3.17 37.99 4.35
1006 2610 0.530650 CTCGTCATGGAACCGGATGG 60.531 60.000 9.46 0.00 42.84 3.51
1045 2649 1.069022 CCACTTGTTCGGCATGTCTTG 60.069 52.381 0.00 0.00 33.82 3.02
1300 2905 7.125113 GGTGACTGCATAAAAATTTGTTGTTG 58.875 34.615 0.00 0.00 0.00 3.33
1459 3064 2.095461 CATCCTCTCCTTCTGACGACA 58.905 52.381 0.00 0.00 0.00 4.35
1630 3235 1.664965 GTGCACCGAAGCGAAGTCT 60.665 57.895 5.22 0.00 37.31 3.24
1806 3412 3.276882 ACACAAATTTTAAGCCGACGG 57.723 42.857 10.29 10.29 0.00 4.79
1912 3530 1.218047 CCTTAGGCGCTGCACTACA 59.782 57.895 7.64 0.00 0.00 2.74
2198 3829 9.120538 GTGAGGTTATGTTATATGTTGGTGAAT 57.879 33.333 0.00 0.00 0.00 2.57
2308 3966 4.777896 TCCTAAGAAGAAGAAGCTTGCCTA 59.222 41.667 2.10 0.00 0.00 3.93
2465 4153 4.992511 GCCGGTACACGCCCAACA 62.993 66.667 1.90 0.00 42.52 3.33


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

AutoCloner maintained by Alex Coulton.