Multiple sequence alignment - TraesCS1A01G237000

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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 TraesCS1A01G237000 chr1A 100.000 2357 0 0 1 2357 420381145 420383501 0.000000e+00 4353.0
1 TraesCS1A01G237000 chr1A 98.438 256 4 0 1 256 540722917 540723172 3.570000e-123 451.0
2 TraesCS1A01G237000 chr1A 97.826 46 1 0 705 750 420381793 420381838 1.940000e-11 80.5
3 TraesCS1A01G237000 chr1A 97.826 46 1 0 649 694 420381849 420381894 1.940000e-11 80.5
4 TraesCS1A01G237000 chr1D 96.425 1790 43 6 257 2028 324623713 324621927 0.000000e+00 2931.0
5 TraesCS1A01G237000 chr1D 90.789 152 13 1 2104 2254 324621754 324621603 3.970000e-48 202.0
6 TraesCS1A01G237000 chr1D 91.525 59 5 0 705 763 324623317 324623259 5.400000e-12 82.4
7 TraesCS1A01G237000 chr1D 96.000 50 1 1 649 697 324623261 324623212 1.940000e-11 80.5
8 TraesCS1A01G237000 chr1B 95.186 1558 44 11 260 1801 436931095 436929553 0.000000e+00 2433.0
9 TraesCS1A01G237000 chr1B 85.522 297 17 6 1799 2086 436929345 436929066 1.070000e-73 287.0
10 TraesCS1A01G237000 chr1B 95.161 62 3 0 2142 2203 436928616 436928555 5.360000e-17 99.0
11 TraesCS1A01G237000 chr1B 93.846 65 3 1 2139 2203 436928743 436928680 1.930000e-16 97.1
12 TraesCS1A01G237000 chr1B 90.769 65 5 1 2139 2203 436928961 436928898 4.170000e-13 86.1
13 TraesCS1A01G237000 chr1B 95.918 49 2 0 705 753 436930701 436930653 1.940000e-11 80.5
14 TraesCS1A01G237000 chr1B 90.164 61 2 1 641 697 436930657 436930597 2.510000e-10 76.8
15 TraesCS1A01G237000 chr1B 90.741 54 4 1 2139 2192 436928838 436928786 1.170000e-08 71.3
16 TraesCS1A01G237000 chr5D 83.158 665 93 14 940 1598 233488891 233489542 7.260000e-165 590.0
17 TraesCS1A01G237000 chr5A 83.175 630 90 12 943 1566 321713135 321713754 1.580000e-156 562.0
18 TraesCS1A01G237000 chr5B 79.832 833 116 32 943 1754 271576681 271575880 5.690000e-156 560.0
19 TraesCS1A01G237000 chr5B 99.611 257 1 0 1 257 288645926 288646182 9.860000e-129 470.0
20 TraesCS1A01G237000 chr6D 98.077 260 5 0 1 260 251231950 251231691 9.930000e-124 453.0
21 TraesCS1A01G237000 chr6D 98.054 257 5 0 1 257 28048644 28048900 4.620000e-122 448.0
22 TraesCS1A01G237000 chr6D 97.692 260 6 0 1 260 179949730 179949471 4.620000e-122 448.0
23 TraesCS1A01G237000 chr2D 97.710 262 4 1 1 260 213697045 213697306 1.280000e-122 449.0
24 TraesCS1A01G237000 chr7D 98.054 257 5 0 1 257 539381823 539382079 4.620000e-122 448.0
25 TraesCS1A01G237000 chr6A 97.692 260 6 0 1 260 588602379 588602120 4.620000e-122 448.0
26 TraesCS1A01G237000 chr4A 97.692 260 5 1 1 259 208931168 208931427 1.660000e-121 446.0
27 TraesCS1A01G237000 chr3D 81.140 228 33 5 471 690 600167322 600167547 8.660000e-40 174.0
28 TraesCS1A01G237000 chr3D 77.570 107 22 1 1200 1306 323246319 323246423 1.960000e-06 63.9


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 TraesCS1A01G237000 chr1A 420381145 420383501 2356 False 1504.666667 4353 98.550667 1 2357 3 chr1A.!!$F2 2356
1 TraesCS1A01G237000 chr1D 324621603 324623713 2110 True 823.975000 2931 93.684750 257 2254 4 chr1D.!!$R1 1997
2 TraesCS1A01G237000 chr1B 436928555 436931095 2540 True 403.850000 2433 92.163375 260 2203 8 chr1B.!!$R1 1943
3 TraesCS1A01G237000 chr5D 233488891 233489542 651 False 590.000000 590 83.158000 940 1598 1 chr5D.!!$F1 658
4 TraesCS1A01G237000 chr5A 321713135 321713754 619 False 562.000000 562 83.175000 943 1566 1 chr5A.!!$F1 623
5 TraesCS1A01G237000 chr5B 271575880 271576681 801 True 560.000000 560 79.832000 943 1754 1 chr5B.!!$R1 811

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
288 293 0.618458 TCATCTGGTAACTGGCACCC 59.382 55.0 0.0 0.0 34.99 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2249 2849 0.250513 AAAACGCTAGGAGGAGGCAG 59.749 55.0 0.0 0.0 0.0 4.85 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
34 35 9.368674 GAGATGACATGTATCTCAAATCCTATG 57.631 37.037 24.95 0.00 46.22 2.23
35 36 9.097946 AGATGACATGTATCTCAAATCCTATGA 57.902 33.333 0.00 0.00 29.05 2.15
36 37 9.368674 GATGACATGTATCTCAAATCCTATGAG 57.631 37.037 0.00 0.00 44.53 2.90
37 38 8.255111 TGACATGTATCTCAAATCCTATGAGT 57.745 34.615 0.00 0.00 43.77 3.41
38 39 9.367160 TGACATGTATCTCAAATCCTATGAGTA 57.633 33.333 0.00 0.00 43.77 2.59
39 40 9.853555 GACATGTATCTCAAATCCTATGAGTAG 57.146 37.037 0.00 0.00 43.77 2.57
54 55 5.688220 ATGAGTAGGAATAGGGAAGGAGA 57.312 43.478 0.00 0.00 0.00 3.71
55 56 5.688220 TGAGTAGGAATAGGGAAGGAGAT 57.312 43.478 0.00 0.00 0.00 2.75
56 57 5.398236 TGAGTAGGAATAGGGAAGGAGATG 58.602 45.833 0.00 0.00 0.00 2.90
57 58 4.164204 AGTAGGAATAGGGAAGGAGATGC 58.836 47.826 0.00 0.00 0.00 3.91
58 59 2.343625 AGGAATAGGGAAGGAGATGCC 58.656 52.381 0.00 0.00 0.00 4.40
59 60 1.352687 GGAATAGGGAAGGAGATGCCC 59.647 57.143 0.00 0.00 42.37 5.36
63 64 3.197664 GGGAAGGAGATGCCCTTTG 57.802 57.895 0.00 0.00 45.97 2.77
64 65 0.625849 GGGAAGGAGATGCCCTTTGA 59.374 55.000 0.00 0.00 45.97 2.69
65 66 1.216427 GGGAAGGAGATGCCCTTTGAT 59.784 52.381 0.00 0.00 45.97 2.57
66 67 2.358615 GGGAAGGAGATGCCCTTTGATT 60.359 50.000 0.00 0.00 45.97 2.57
67 68 2.954989 GGAAGGAGATGCCCTTTGATTC 59.045 50.000 0.00 0.00 45.97 2.52
68 69 3.624777 GAAGGAGATGCCCTTTGATTCA 58.375 45.455 0.00 0.00 45.97 2.57
69 70 3.010200 AGGAGATGCCCTTTGATTCAC 57.990 47.619 0.00 0.00 37.37 3.18
70 71 2.309755 AGGAGATGCCCTTTGATTCACA 59.690 45.455 0.00 0.00 37.37 3.58
71 72 3.053095 AGGAGATGCCCTTTGATTCACAT 60.053 43.478 0.00 0.00 37.37 3.21
72 73 3.317430 GGAGATGCCCTTTGATTCACATC 59.683 47.826 6.23 6.23 35.31 3.06
73 74 3.949754 GAGATGCCCTTTGATTCACATCA 59.050 43.478 13.54 0.00 37.67 3.07
74 75 4.543689 AGATGCCCTTTGATTCACATCAT 58.456 39.130 13.54 2.83 39.28 2.45
75 76 5.698104 AGATGCCCTTTGATTCACATCATA 58.302 37.500 13.54 0.00 39.28 2.15
76 77 5.768662 AGATGCCCTTTGATTCACATCATAG 59.231 40.000 13.54 1.71 39.28 2.23
104 105 7.630242 TTTTTCCATTGAGTCTAGGCTAATG 57.370 36.000 0.00 8.01 0.00 1.90
105 106 5.957771 TTCCATTGAGTCTAGGCTAATGT 57.042 39.130 17.62 0.00 0.00 2.71
106 107 5.957771 TCCATTGAGTCTAGGCTAATGTT 57.042 39.130 17.62 0.00 0.00 2.71
107 108 6.313519 TCCATTGAGTCTAGGCTAATGTTT 57.686 37.500 17.62 0.00 0.00 2.83
108 109 7.432148 TCCATTGAGTCTAGGCTAATGTTTA 57.568 36.000 17.62 7.18 0.00 2.01
109 110 8.034313 TCCATTGAGTCTAGGCTAATGTTTAT 57.966 34.615 17.62 0.00 0.00 1.40
110 111 8.494433 TCCATTGAGTCTAGGCTAATGTTTATT 58.506 33.333 17.62 0.00 0.00 1.40
111 112 9.125026 CCATTGAGTCTAGGCTAATGTTTATTT 57.875 33.333 17.62 0.00 0.00 1.40
114 115 8.732746 TGAGTCTAGGCTAATGTTTATTTTCC 57.267 34.615 0.00 0.00 0.00 3.13
115 116 8.548877 TGAGTCTAGGCTAATGTTTATTTTCCT 58.451 33.333 0.00 0.00 33.86 3.36
129 130 8.748412 TGTTTATTTTCCTATGAAATGTGGAGG 58.252 33.333 0.00 0.00 40.08 4.30
130 131 8.966868 GTTTATTTTCCTATGAAATGTGGAGGA 58.033 33.333 0.00 0.00 40.08 3.71
131 132 9.713684 TTTATTTTCCTATGAAATGTGGAGGAT 57.286 29.630 0.00 0.00 40.08 3.24
133 134 8.930846 ATTTTCCTATGAAATGTGGAGGATAG 57.069 34.615 0.00 0.00 40.08 2.08
134 135 6.439636 TTCCTATGAAATGTGGAGGATAGG 57.560 41.667 0.00 0.00 36.22 2.57
135 136 5.726560 TCCTATGAAATGTGGAGGATAGGA 58.273 41.667 0.00 0.00 39.29 2.94
136 137 6.150332 TCCTATGAAATGTGGAGGATAGGAA 58.850 40.000 0.00 0.00 38.86 3.36
137 138 6.270927 TCCTATGAAATGTGGAGGATAGGAAG 59.729 42.308 0.00 0.00 38.86 3.46
138 139 6.270927 CCTATGAAATGTGGAGGATAGGAAGA 59.729 42.308 0.00 0.00 36.16 2.87
139 140 6.581388 ATGAAATGTGGAGGATAGGAAGAA 57.419 37.500 0.00 0.00 0.00 2.52
140 141 6.581388 TGAAATGTGGAGGATAGGAAGAAT 57.419 37.500 0.00 0.00 0.00 2.40
141 142 6.973642 TGAAATGTGGAGGATAGGAAGAATT 58.026 36.000 0.00 0.00 0.00 2.17
142 143 7.056635 TGAAATGTGGAGGATAGGAAGAATTC 58.943 38.462 0.00 0.00 46.67 2.17
176 177 4.946160 AGGATTCCATTCCTACAAACCA 57.054 40.909 5.29 0.00 44.50 3.67
177 178 5.269554 AGGATTCCATTCCTACAAACCAA 57.730 39.130 5.29 0.00 44.50 3.67
178 179 5.650283 AGGATTCCATTCCTACAAACCAAA 58.350 37.500 5.29 0.00 44.50 3.28
179 180 5.716703 AGGATTCCATTCCTACAAACCAAAG 59.283 40.000 5.29 0.00 44.50 2.77
180 181 5.105351 GGATTCCATTCCTACAAACCAAAGG 60.105 44.000 0.00 0.00 32.68 3.11
181 182 3.773560 TCCATTCCTACAAACCAAAGGG 58.226 45.455 0.00 0.00 41.29 3.95
182 183 2.233676 CCATTCCTACAAACCAAAGGGC 59.766 50.000 0.00 0.00 37.90 5.19
183 184 3.165071 CATTCCTACAAACCAAAGGGCT 58.835 45.455 0.00 0.00 37.90 5.19
184 185 2.579410 TCCTACAAACCAAAGGGCTC 57.421 50.000 0.00 0.00 37.90 4.70
185 186 2.062636 TCCTACAAACCAAAGGGCTCT 58.937 47.619 0.00 0.00 37.90 4.09
186 187 2.445525 TCCTACAAACCAAAGGGCTCTT 59.554 45.455 0.00 0.00 37.90 2.85
187 188 3.653836 TCCTACAAACCAAAGGGCTCTTA 59.346 43.478 0.00 0.00 37.90 2.10
188 189 4.105057 TCCTACAAACCAAAGGGCTCTTAA 59.895 41.667 0.00 0.00 37.90 1.85
189 190 4.459337 CCTACAAACCAAAGGGCTCTTAAG 59.541 45.833 0.00 0.00 37.90 1.85
190 191 3.230976 ACAAACCAAAGGGCTCTTAAGG 58.769 45.455 14.53 14.53 37.90 2.69
191 192 3.117284 ACAAACCAAAGGGCTCTTAAGGA 60.117 43.478 21.19 0.00 37.90 3.36
192 193 3.895041 CAAACCAAAGGGCTCTTAAGGAA 59.105 43.478 21.19 0.00 37.90 3.36
193 194 4.404185 AACCAAAGGGCTCTTAAGGAAT 57.596 40.909 21.19 9.10 37.90 3.01
194 195 4.404185 ACCAAAGGGCTCTTAAGGAATT 57.596 40.909 21.19 0.06 37.90 2.17
195 196 4.752063 ACCAAAGGGCTCTTAAGGAATTT 58.248 39.130 21.19 0.00 37.90 1.82
196 197 5.155161 ACCAAAGGGCTCTTAAGGAATTTT 58.845 37.500 21.19 0.00 37.90 1.82
197 198 5.606749 ACCAAAGGGCTCTTAAGGAATTTTT 59.393 36.000 21.19 0.00 37.90 1.94
227 228 7.713704 AGAAATCCTACCCTATGAAATTCCT 57.286 36.000 0.00 0.00 0.00 3.36
228 229 8.814448 AGAAATCCTACCCTATGAAATTCCTA 57.186 34.615 0.00 0.00 0.00 2.94
229 230 8.661345 AGAAATCCTACCCTATGAAATTCCTAC 58.339 37.037 0.00 0.00 0.00 3.18
230 231 7.947782 AATCCTACCCTATGAAATTCCTACA 57.052 36.000 0.00 0.00 0.00 2.74
231 232 7.947782 ATCCTACCCTATGAAATTCCTACAA 57.052 36.000 0.00 0.00 0.00 2.41
232 233 7.374975 TCCTACCCTATGAAATTCCTACAAG 57.625 40.000 0.00 0.00 0.00 3.16
233 234 7.136885 TCCTACCCTATGAAATTCCTACAAGA 58.863 38.462 0.00 0.00 0.00 3.02
234 235 7.794683 TCCTACCCTATGAAATTCCTACAAGAT 59.205 37.037 0.00 0.00 0.00 2.40
235 236 8.440771 CCTACCCTATGAAATTCCTACAAGATT 58.559 37.037 0.00 0.00 0.00 2.40
236 237 9.495572 CTACCCTATGAAATTCCTACAAGATTC 57.504 37.037 0.00 0.00 0.00 2.52
237 238 7.290813 ACCCTATGAAATTCCTACAAGATTCC 58.709 38.462 0.00 0.00 0.00 3.01
238 239 7.129504 ACCCTATGAAATTCCTACAAGATTCCT 59.870 37.037 0.00 0.00 0.00 3.36
239 240 7.663493 CCCTATGAAATTCCTACAAGATTCCTC 59.337 40.741 0.00 0.00 0.00 3.71
240 241 8.435982 CCTATGAAATTCCTACAAGATTCCTCT 58.564 37.037 0.00 0.00 0.00 3.69
244 245 9.449719 TGAAATTCCTACAAGATTCCTCTAAAC 57.550 33.333 0.00 0.00 0.00 2.01
245 246 8.809468 AAATTCCTACAAGATTCCTCTAAACC 57.191 34.615 0.00 0.00 0.00 3.27
246 247 6.945636 TTCCTACAAGATTCCTCTAAACCA 57.054 37.500 0.00 0.00 0.00 3.67
247 248 6.945636 TCCTACAAGATTCCTCTAAACCAA 57.054 37.500 0.00 0.00 0.00 3.67
248 249 7.324388 TCCTACAAGATTCCTCTAAACCAAA 57.676 36.000 0.00 0.00 0.00 3.28
249 250 7.394816 TCCTACAAGATTCCTCTAAACCAAAG 58.605 38.462 0.00 0.00 0.00 2.77
250 251 6.599638 CCTACAAGATTCCTCTAAACCAAAGG 59.400 42.308 0.00 0.00 0.00 3.11
251 252 6.200878 ACAAGATTCCTCTAAACCAAAGGA 57.799 37.500 0.00 0.00 37.42 3.36
252 253 6.241645 ACAAGATTCCTCTAAACCAAAGGAG 58.758 40.000 0.00 0.00 40.21 3.69
253 254 5.443230 AGATTCCTCTAAACCAAAGGAGG 57.557 43.478 0.00 0.00 44.69 4.30
254 255 3.434940 TTCCTCTAAACCAAAGGAGGC 57.565 47.619 0.00 0.00 43.46 4.70
255 256 1.633945 TCCTCTAAACCAAAGGAGGCC 59.366 52.381 0.00 0.00 43.46 5.19
288 293 0.618458 TCATCTGGTAACTGGCACCC 59.382 55.000 0.00 0.00 34.99 4.61
306 311 4.454847 GCACCCAGGTTTTTCTACTAGTTC 59.545 45.833 0.00 0.00 0.00 3.01
398 404 3.317150 GCTTGTAAGCCCAATTCACAAC 58.683 45.455 5.30 0.00 46.20 3.32
938 945 5.843673 TTGAATAATTGATTGCGCCCTAA 57.156 34.783 4.18 0.00 0.00 2.69
1018 1029 1.339438 TGATGTCTTTCCTGAGGCTGC 60.339 52.381 0.00 0.00 0.00 5.25
1053 1064 3.074687 TGCCCCAATTTGTTAGGTACTCA 59.925 43.478 0.00 0.00 41.75 3.41
1425 1441 1.299089 GCCGTGGTTGCAACTGTTC 60.299 57.895 27.64 12.57 0.00 3.18
1448 1464 5.693104 TCGTCTTGGTGTAGTTAATGTGTTC 59.307 40.000 0.00 0.00 0.00 3.18
1475 1491 5.008619 TGTCAGTGAACAAATGCAATTGT 57.991 34.783 14.42 14.42 45.12 2.71
1516 1533 6.366061 TCGATGATCTATTATCGGCAAAAGTG 59.634 38.462 14.68 0.00 43.71 3.16
1517 1534 6.146184 CGATGATCTATTATCGGCAAAAGTGT 59.854 38.462 8.74 0.00 41.02 3.55
1616 1646 4.517952 TTGTGGCACTGTGGATTAAATG 57.482 40.909 19.83 0.00 0.00 2.32
1691 1721 5.105877 CCGAACATCTCTGTAACAGAAGGTA 60.106 44.000 0.00 0.00 40.18 3.08
1832 2070 2.558359 CAATTTCACGAGCTTTCCCCTT 59.442 45.455 0.00 0.00 0.00 3.95
1886 2124 7.516198 ACCCATTTCATTCTCATTATAGCAC 57.484 36.000 0.00 0.00 0.00 4.40
2028 2268 2.887152 ACTGTTGGGAAGCAACTTCATC 59.113 45.455 9.38 2.22 41.77 2.92
2030 2270 4.202461 ACTGTTGGGAAGCAACTTCATCTA 60.202 41.667 9.38 0.00 41.77 1.98
2033 2312 5.774690 TGTTGGGAAGCAACTTCATCTATTT 59.225 36.000 9.38 0.00 41.77 1.40
2059 2338 6.421377 TGGTATTCATATATTGCACGATGC 57.579 37.500 0.00 0.00 45.29 3.91
2083 2362 2.877097 TGCCACAGAAGCTGGAATAA 57.123 45.000 0.00 0.00 35.51 1.40
2086 2365 3.084786 GCCACAGAAGCTGGAATAACTT 58.915 45.455 0.00 0.00 35.51 2.66
2087 2366 3.127721 GCCACAGAAGCTGGAATAACTTC 59.872 47.826 0.00 0.00 40.08 3.01
2088 2367 4.326826 CCACAGAAGCTGGAATAACTTCA 58.673 43.478 4.94 0.00 41.80 3.02
2089 2368 4.946157 CCACAGAAGCTGGAATAACTTCAT 59.054 41.667 4.94 0.00 41.80 2.57
2090 2369 5.065731 CCACAGAAGCTGGAATAACTTCATC 59.934 44.000 4.94 0.00 41.80 2.92
2091 2370 5.879223 CACAGAAGCTGGAATAACTTCATCT 59.121 40.000 4.94 0.00 41.80 2.90
2092 2371 7.044181 CACAGAAGCTGGAATAACTTCATCTA 58.956 38.462 4.94 0.00 41.80 1.98
2093 2372 7.714377 CACAGAAGCTGGAATAACTTCATCTAT 59.286 37.037 4.94 0.00 41.80 1.98
2095 2374 9.118300 CAGAAGCTGGAATAACTTCATCTATTT 57.882 33.333 4.94 0.00 41.80 1.40
2096 2375 9.336171 AGAAGCTGGAATAACTTCATCTATTTC 57.664 33.333 4.94 0.00 41.80 2.17
2097 2376 9.336171 GAAGCTGGAATAACTTCATCTATTTCT 57.664 33.333 0.00 0.00 39.66 2.52
2098 2377 9.692325 AAGCTGGAATAACTTCATCTATTTCTT 57.308 29.630 0.00 0.00 32.70 2.52
2099 2378 9.692325 AGCTGGAATAACTTCATCTATTTCTTT 57.308 29.630 0.00 0.00 32.70 2.52
2189 2744 2.710096 TTGCCACTGCCTCCTTATAC 57.290 50.000 0.00 0.00 36.33 1.47
2192 2747 1.410004 CCACTGCCTCCTTATACCGA 58.590 55.000 0.00 0.00 0.00 4.69
2228 2828 9.030301 TGTAATATCTAAACACATGTCATGACG 57.970 33.333 19.77 10.04 0.00 4.35
2229 2829 9.031360 GTAATATCTAAACACATGTCATGACGT 57.969 33.333 19.77 17.89 0.00 4.34
2230 2830 8.492673 AATATCTAAACACATGTCATGACGTT 57.507 30.769 18.05 17.07 33.27 3.99
2231 2831 5.839262 TCTAAACACATGTCATGACGTTC 57.161 39.130 18.05 0.00 32.12 3.95
2232 2832 5.538118 TCTAAACACATGTCATGACGTTCT 58.462 37.500 18.05 3.61 32.12 3.01
2233 2833 4.732285 AAACACATGTCATGACGTTCTC 57.268 40.909 18.05 0.00 32.12 2.87
2234 2834 2.328473 ACACATGTCATGACGTTCTCG 58.672 47.619 18.05 9.44 43.34 4.04
2235 2835 1.059692 CACATGTCATGACGTTCTCGC 59.940 52.381 18.05 0.00 41.18 5.03
2236 2836 1.067565 ACATGTCATGACGTTCTCGCT 60.068 47.619 18.05 0.00 41.18 4.93
2237 2837 1.995484 CATGTCATGACGTTCTCGCTT 59.005 47.619 18.05 0.00 41.18 4.68
2238 2838 2.148916 TGTCATGACGTTCTCGCTTT 57.851 45.000 20.54 0.00 41.18 3.51
2239 2839 3.291809 TGTCATGACGTTCTCGCTTTA 57.708 42.857 20.54 0.00 41.18 1.85
2240 2840 3.242518 TGTCATGACGTTCTCGCTTTAG 58.757 45.455 20.54 0.00 41.18 1.85
2241 2841 2.028165 GTCATGACGTTCTCGCTTTAGC 59.972 50.000 10.69 0.00 41.18 3.09
2242 2842 1.992667 CATGACGTTCTCGCTTTAGCA 59.007 47.619 2.29 0.00 42.21 3.49
2243 2843 2.363788 TGACGTTCTCGCTTTAGCAT 57.636 45.000 2.29 0.00 42.21 3.79
2244 2844 2.683968 TGACGTTCTCGCTTTAGCATT 58.316 42.857 2.29 0.00 42.21 3.56
2245 2845 2.411748 TGACGTTCTCGCTTTAGCATTG 59.588 45.455 2.29 0.00 42.21 2.82
2246 2846 1.128692 ACGTTCTCGCTTTAGCATTGC 59.871 47.619 0.00 0.00 42.21 3.56
2247 2847 1.529826 CGTTCTCGCTTTAGCATTGCC 60.530 52.381 4.70 0.00 42.21 4.52
2248 2848 1.468520 GTTCTCGCTTTAGCATTGCCA 59.531 47.619 4.70 0.00 42.21 4.92
2249 2849 1.086696 TCTCGCTTTAGCATTGCCAC 58.913 50.000 4.70 0.00 42.21 5.01
2250 2850 1.089920 CTCGCTTTAGCATTGCCACT 58.910 50.000 4.70 0.00 42.21 4.00
2251 2851 0.804364 TCGCTTTAGCATTGCCACTG 59.196 50.000 4.70 0.00 42.21 3.66
2252 2852 0.799534 CGCTTTAGCATTGCCACTGC 60.800 55.000 4.70 0.00 42.21 4.40
2253 2853 0.459063 GCTTTAGCATTGCCACTGCC 60.459 55.000 4.70 0.00 40.56 4.85
2254 2854 1.180029 CTTTAGCATTGCCACTGCCT 58.820 50.000 4.70 0.00 40.56 4.75
2255 2855 1.133790 CTTTAGCATTGCCACTGCCTC 59.866 52.381 4.70 0.00 40.56 4.70
2256 2856 0.680921 TTAGCATTGCCACTGCCTCC 60.681 55.000 4.70 0.00 40.56 4.30
2257 2857 1.565390 TAGCATTGCCACTGCCTCCT 61.565 55.000 4.70 0.00 40.56 3.69
2258 2858 2.413142 GCATTGCCACTGCCTCCTC 61.413 63.158 0.00 0.00 36.33 3.71
2259 2859 1.751927 CATTGCCACTGCCTCCTCC 60.752 63.158 0.00 0.00 36.33 4.30
2260 2860 1.927527 ATTGCCACTGCCTCCTCCT 60.928 57.895 0.00 0.00 36.33 3.69
2261 2861 0.621571 ATTGCCACTGCCTCCTCCTA 60.622 55.000 0.00 0.00 36.33 2.94
2262 2862 1.267574 TTGCCACTGCCTCCTCCTAG 61.268 60.000 0.00 0.00 36.33 3.02
2263 2863 3.100503 GCCACTGCCTCCTCCTAGC 62.101 68.421 0.00 0.00 0.00 3.42
2264 2864 2.790791 CCACTGCCTCCTCCTAGCG 61.791 68.421 0.00 0.00 0.00 4.26
2265 2865 2.055042 CACTGCCTCCTCCTAGCGT 61.055 63.158 0.00 0.00 0.00 5.07
2266 2866 1.305381 ACTGCCTCCTCCTAGCGTT 60.305 57.895 0.00 0.00 0.00 4.84
2267 2867 0.905337 ACTGCCTCCTCCTAGCGTTT 60.905 55.000 0.00 0.00 0.00 3.60
2268 2868 0.250513 CTGCCTCCTCCTAGCGTTTT 59.749 55.000 0.00 0.00 0.00 2.43
2269 2869 0.690762 TGCCTCCTCCTAGCGTTTTT 59.309 50.000 0.00 0.00 0.00 1.94
2311 2911 9.716507 ATTCTCAATATATAAACACGTGTTTGC 57.283 29.630 42.21 0.00 46.56 3.68
2312 2912 8.487313 TCTCAATATATAAACACGTGTTTGCT 57.513 30.769 42.21 32.93 46.56 3.91
2313 2913 8.600625 TCTCAATATATAAACACGTGTTTGCTC 58.399 33.333 42.21 0.00 46.56 4.26
2314 2914 8.257830 TCAATATATAAACACGTGTTTGCTCA 57.742 30.769 42.21 29.30 46.56 4.26
2315 2915 8.888716 TCAATATATAAACACGTGTTTGCTCAT 58.111 29.630 42.21 32.40 46.56 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 9.368674 CATAGGATTTGAGATACATGTCATCTC 57.631 37.037 24.04 24.04 45.76 2.75
9 10 9.097946 TCATAGGATTTGAGATACATGTCATCT 57.902 33.333 0.00 9.42 35.43 2.90
10 11 9.368674 CTCATAGGATTTGAGATACATGTCATC 57.631 37.037 0.00 4.47 42.63 2.92
11 12 8.878211 ACTCATAGGATTTGAGATACATGTCAT 58.122 33.333 0.00 0.00 42.63 3.06
12 13 8.255111 ACTCATAGGATTTGAGATACATGTCA 57.745 34.615 0.00 0.00 42.63 3.58
13 14 9.853555 CTACTCATAGGATTTGAGATACATGTC 57.146 37.037 0.00 0.00 42.63 3.06
30 31 6.795590 TCTCCTTCCCTATTCCTACTCATAG 58.204 44.000 0.00 0.00 0.00 2.23
31 32 6.798544 TCTCCTTCCCTATTCCTACTCATA 57.201 41.667 0.00 0.00 0.00 2.15
32 33 5.688220 TCTCCTTCCCTATTCCTACTCAT 57.312 43.478 0.00 0.00 0.00 2.90
33 34 5.398236 CATCTCCTTCCCTATTCCTACTCA 58.602 45.833 0.00 0.00 0.00 3.41
34 35 4.221924 GCATCTCCTTCCCTATTCCTACTC 59.778 50.000 0.00 0.00 0.00 2.59
35 36 4.164204 GCATCTCCTTCCCTATTCCTACT 58.836 47.826 0.00 0.00 0.00 2.57
36 37 3.262151 GGCATCTCCTTCCCTATTCCTAC 59.738 52.174 0.00 0.00 0.00 3.18
37 38 3.521727 GGCATCTCCTTCCCTATTCCTA 58.478 50.000 0.00 0.00 0.00 2.94
38 39 2.343625 GGCATCTCCTTCCCTATTCCT 58.656 52.381 0.00 0.00 0.00 3.36
39 40 1.352687 GGGCATCTCCTTCCCTATTCC 59.647 57.143 0.00 0.00 37.08 3.01
40 41 2.869101 GGGCATCTCCTTCCCTATTC 57.131 55.000 0.00 0.00 37.08 1.75
45 46 0.625849 TCAAAGGGCATCTCCTTCCC 59.374 55.000 0.00 0.00 45.67 3.97
46 47 2.744352 ATCAAAGGGCATCTCCTTCC 57.256 50.000 0.00 0.00 45.67 3.46
47 48 3.379688 GTGAATCAAAGGGCATCTCCTTC 59.620 47.826 0.00 0.00 45.67 3.46
49 50 2.309755 TGTGAATCAAAGGGCATCTCCT 59.690 45.455 0.00 0.00 39.17 3.69
50 51 2.726821 TGTGAATCAAAGGGCATCTCC 58.273 47.619 0.00 0.00 0.00 3.71
51 52 3.949754 TGATGTGAATCAAAGGGCATCTC 59.050 43.478 10.68 0.00 35.22 2.75
52 53 3.972133 TGATGTGAATCAAAGGGCATCT 58.028 40.909 10.68 0.00 35.22 2.90
53 54 4.931661 ATGATGTGAATCAAAGGGCATC 57.068 40.909 4.45 4.45 33.83 3.91
54 55 4.831155 CCTATGATGTGAATCAAAGGGCAT 59.169 41.667 0.00 0.00 33.83 4.40
55 56 4.079844 TCCTATGATGTGAATCAAAGGGCA 60.080 41.667 0.00 0.00 33.83 5.36
56 57 4.464008 TCCTATGATGTGAATCAAAGGGC 58.536 43.478 0.00 0.00 33.83 5.19
57 58 7.592885 AAATCCTATGATGTGAATCAAAGGG 57.407 36.000 0.00 0.00 33.83 3.95
80 81 7.175104 ACATTAGCCTAGACTCAATGGAAAAA 58.825 34.615 0.00 0.00 32.20 1.94
81 82 6.721318 ACATTAGCCTAGACTCAATGGAAAA 58.279 36.000 0.00 0.00 32.20 2.29
82 83 6.313519 ACATTAGCCTAGACTCAATGGAAA 57.686 37.500 0.00 0.00 32.20 3.13
83 84 5.957771 ACATTAGCCTAGACTCAATGGAA 57.042 39.130 0.00 0.00 32.20 3.53
84 85 5.957771 AACATTAGCCTAGACTCAATGGA 57.042 39.130 0.00 0.00 32.20 3.41
85 86 8.682936 AATAAACATTAGCCTAGACTCAATGG 57.317 34.615 0.00 0.00 32.20 3.16
88 89 9.174166 GGAAAATAAACATTAGCCTAGACTCAA 57.826 33.333 0.00 0.00 0.00 3.02
89 90 8.548877 AGGAAAATAAACATTAGCCTAGACTCA 58.451 33.333 0.00 0.00 0.00 3.41
90 91 8.966069 AGGAAAATAAACATTAGCCTAGACTC 57.034 34.615 0.00 0.00 0.00 3.36
103 104 8.748412 CCTCCACATTTCATAGGAAAATAAACA 58.252 33.333 6.65 0.00 45.52 2.83
104 105 8.966868 TCCTCCACATTTCATAGGAAAATAAAC 58.033 33.333 6.65 0.00 45.52 2.01
105 106 9.713684 ATCCTCCACATTTCATAGGAAAATAAA 57.286 29.630 6.65 0.00 45.52 1.40
108 109 7.946776 CCTATCCTCCACATTTCATAGGAAAAT 59.053 37.037 6.65 0.00 45.52 1.82
109 110 7.128728 TCCTATCCTCCACATTTCATAGGAAAA 59.871 37.037 6.65 0.00 45.52 2.29
110 111 6.619437 TCCTATCCTCCACATTTCATAGGAAA 59.381 38.462 4.85 4.85 46.36 3.13
111 112 6.150332 TCCTATCCTCCACATTTCATAGGAA 58.850 40.000 3.47 0.00 39.17 3.36
112 113 5.726560 TCCTATCCTCCACATTTCATAGGA 58.273 41.667 2.01 2.01 39.61 2.94
113 114 6.270927 TCTTCCTATCCTCCACATTTCATAGG 59.729 42.308 0.00 0.00 35.93 2.57
114 115 7.308450 TCTTCCTATCCTCCACATTTCATAG 57.692 40.000 0.00 0.00 0.00 2.23
115 116 7.690454 TTCTTCCTATCCTCCACATTTCATA 57.310 36.000 0.00 0.00 0.00 2.15
116 117 6.581388 TTCTTCCTATCCTCCACATTTCAT 57.419 37.500 0.00 0.00 0.00 2.57
117 118 6.581388 ATTCTTCCTATCCTCCACATTTCA 57.419 37.500 0.00 0.00 0.00 2.69
118 119 6.488344 GGAATTCTTCCTATCCTCCACATTTC 59.512 42.308 5.23 0.00 46.57 2.17
119 120 6.368805 GGAATTCTTCCTATCCTCCACATTT 58.631 40.000 5.23 0.00 46.57 2.32
120 121 5.946486 GGAATTCTTCCTATCCTCCACATT 58.054 41.667 5.23 0.00 46.57 2.71
121 122 5.574970 GGAATTCTTCCTATCCTCCACAT 57.425 43.478 5.23 0.00 46.57 3.21
141 142 8.471702 GGAATGGAATCCTATTCCTATGGAGGA 61.472 44.444 23.95 0.00 45.66 3.71
142 143 6.353429 GGAATGGAATCCTATTCCTATGGAGG 60.353 46.154 23.95 0.00 45.66 4.30
143 144 6.657875 GGAATGGAATCCTATTCCTATGGAG 58.342 44.000 23.95 0.00 45.66 3.86
144 145 6.642733 GGAATGGAATCCTATTCCTATGGA 57.357 41.667 23.95 0.29 45.66 3.41
156 157 5.105351 CCTTTGGTTTGTAGGAATGGAATCC 60.105 44.000 0.00 0.00 39.96 3.01
157 158 5.105351 CCCTTTGGTTTGTAGGAATGGAATC 60.105 44.000 0.00 0.00 0.00 2.52
158 159 4.777366 CCCTTTGGTTTGTAGGAATGGAAT 59.223 41.667 0.00 0.00 0.00 3.01
159 160 4.156477 CCCTTTGGTTTGTAGGAATGGAA 58.844 43.478 0.00 0.00 0.00 3.53
160 161 3.773560 CCCTTTGGTTTGTAGGAATGGA 58.226 45.455 0.00 0.00 0.00 3.41
161 162 2.233676 GCCCTTTGGTTTGTAGGAATGG 59.766 50.000 0.00 0.00 0.00 3.16
162 163 3.165071 AGCCCTTTGGTTTGTAGGAATG 58.835 45.455 0.00 0.00 0.00 2.67
163 164 3.076032 AGAGCCCTTTGGTTTGTAGGAAT 59.924 43.478 0.00 0.00 0.00 3.01
164 165 2.445525 AGAGCCCTTTGGTTTGTAGGAA 59.554 45.455 0.00 0.00 0.00 3.36
165 166 2.062636 AGAGCCCTTTGGTTTGTAGGA 58.937 47.619 0.00 0.00 0.00 2.94
166 167 2.586648 AGAGCCCTTTGGTTTGTAGG 57.413 50.000 0.00 0.00 0.00 3.18
167 168 4.459337 CCTTAAGAGCCCTTTGGTTTGTAG 59.541 45.833 3.36 0.00 33.94 2.74
168 169 4.105057 TCCTTAAGAGCCCTTTGGTTTGTA 59.895 41.667 3.36 0.00 33.94 2.41
169 170 3.117284 TCCTTAAGAGCCCTTTGGTTTGT 60.117 43.478 3.36 0.00 33.94 2.83
170 171 3.496331 TCCTTAAGAGCCCTTTGGTTTG 58.504 45.455 3.36 0.00 33.94 2.93
171 172 3.895704 TCCTTAAGAGCCCTTTGGTTT 57.104 42.857 3.36 0.00 33.94 3.27
172 173 3.895704 TTCCTTAAGAGCCCTTTGGTT 57.104 42.857 3.36 0.00 33.94 3.67
173 174 4.404185 AATTCCTTAAGAGCCCTTTGGT 57.596 40.909 3.36 0.00 33.94 3.67
174 175 5.745312 AAAATTCCTTAAGAGCCCTTTGG 57.255 39.130 3.36 0.00 33.94 3.28
201 202 9.411848 AGGAATTTCATAGGGTAGGATTTCTAT 57.588 33.333 0.00 0.00 0.00 1.98
202 203 8.814448 AGGAATTTCATAGGGTAGGATTTCTA 57.186 34.615 0.00 0.00 0.00 2.10
203 204 7.713704 AGGAATTTCATAGGGTAGGATTTCT 57.286 36.000 0.00 0.00 0.00 2.52
204 205 8.437575 TGTAGGAATTTCATAGGGTAGGATTTC 58.562 37.037 0.00 0.00 0.00 2.17
205 206 8.344939 TGTAGGAATTTCATAGGGTAGGATTT 57.655 34.615 0.00 0.00 0.00 2.17
206 207 7.947782 TGTAGGAATTTCATAGGGTAGGATT 57.052 36.000 0.00 0.00 0.00 3.01
207 208 7.794683 TCTTGTAGGAATTTCATAGGGTAGGAT 59.205 37.037 0.00 0.00 0.00 3.24
208 209 7.136885 TCTTGTAGGAATTTCATAGGGTAGGA 58.863 38.462 0.00 0.00 0.00 2.94
209 210 7.374975 TCTTGTAGGAATTTCATAGGGTAGG 57.625 40.000 0.00 0.00 0.00 3.18
210 211 9.495572 GAATCTTGTAGGAATTTCATAGGGTAG 57.504 37.037 0.00 0.00 0.00 3.18
211 212 8.437575 GGAATCTTGTAGGAATTTCATAGGGTA 58.562 37.037 0.00 0.00 0.00 3.69
212 213 7.129504 AGGAATCTTGTAGGAATTTCATAGGGT 59.870 37.037 0.00 0.00 0.00 4.34
213 214 7.521669 AGGAATCTTGTAGGAATTTCATAGGG 58.478 38.462 0.00 0.00 0.00 3.53
214 215 8.435982 AGAGGAATCTTGTAGGAATTTCATAGG 58.564 37.037 0.00 0.00 0.00 2.57
218 219 9.449719 GTTTAGAGGAATCTTGTAGGAATTTCA 57.550 33.333 0.00 0.00 0.00 2.69
219 220 8.894731 GGTTTAGAGGAATCTTGTAGGAATTTC 58.105 37.037 0.00 0.00 0.00 2.17
220 221 8.390921 TGGTTTAGAGGAATCTTGTAGGAATTT 58.609 33.333 0.00 0.00 0.00 1.82
221 222 7.928873 TGGTTTAGAGGAATCTTGTAGGAATT 58.071 34.615 0.00 0.00 0.00 2.17
222 223 7.510675 TGGTTTAGAGGAATCTTGTAGGAAT 57.489 36.000 0.00 0.00 0.00 3.01
223 224 6.945636 TGGTTTAGAGGAATCTTGTAGGAA 57.054 37.500 0.00 0.00 0.00 3.36
224 225 6.945636 TTGGTTTAGAGGAATCTTGTAGGA 57.054 37.500 0.00 0.00 0.00 2.94
225 226 6.599638 CCTTTGGTTTAGAGGAATCTTGTAGG 59.400 42.308 0.00 0.00 32.11 3.18
226 227 7.394816 TCCTTTGGTTTAGAGGAATCTTGTAG 58.605 38.462 0.00 0.00 36.67 2.74
227 228 7.324388 TCCTTTGGTTTAGAGGAATCTTGTA 57.676 36.000 0.00 0.00 36.67 2.41
228 229 6.200878 TCCTTTGGTTTAGAGGAATCTTGT 57.799 37.500 0.00 0.00 36.67 3.16
229 230 6.749923 CTCCTTTGGTTTAGAGGAATCTTG 57.250 41.667 0.00 0.00 39.00 3.02
237 238 4.518249 CTTAGGCCTCCTTTGGTTTAGAG 58.482 47.826 9.68 0.00 34.61 2.43
238 239 3.265995 CCTTAGGCCTCCTTTGGTTTAGA 59.734 47.826 9.68 0.00 34.61 2.10
239 240 3.621558 CCTTAGGCCTCCTTTGGTTTAG 58.378 50.000 9.68 0.00 34.61 1.85
240 241 2.310647 CCCTTAGGCCTCCTTTGGTTTA 59.689 50.000 9.68 0.00 34.61 2.01
241 242 1.077169 CCCTTAGGCCTCCTTTGGTTT 59.923 52.381 9.68 0.00 34.61 3.27
242 243 0.704664 CCCTTAGGCCTCCTTTGGTT 59.295 55.000 9.68 0.00 34.61 3.67
243 244 0.178843 TCCCTTAGGCCTCCTTTGGT 60.179 55.000 9.68 0.00 34.61 3.67
244 245 0.548510 CTCCCTTAGGCCTCCTTTGG 59.451 60.000 9.68 4.23 34.61 3.28
245 246 1.290134 ACTCCCTTAGGCCTCCTTTG 58.710 55.000 9.68 0.00 34.61 2.77
246 247 2.629909 CCTACTCCCTTAGGCCTCCTTT 60.630 54.545 9.68 0.00 34.61 3.11
247 248 1.062044 CCTACTCCCTTAGGCCTCCTT 60.062 57.143 9.68 0.00 34.61 3.36
248 249 0.563672 CCTACTCCCTTAGGCCTCCT 59.436 60.000 9.68 0.00 37.71 3.69
249 250 0.561680 TCCTACTCCCTTAGGCCTCC 59.438 60.000 9.68 0.00 38.92 4.30
250 251 2.158295 TGATCCTACTCCCTTAGGCCTC 60.158 54.545 9.68 0.00 38.92 4.70
251 252 1.866943 TGATCCTACTCCCTTAGGCCT 59.133 52.381 11.78 11.78 38.92 5.19
252 253 2.400467 TGATCCTACTCCCTTAGGCC 57.600 55.000 0.00 0.00 38.92 5.19
253 254 3.513515 CAGATGATCCTACTCCCTTAGGC 59.486 52.174 0.00 0.00 38.92 3.93
254 255 4.093011 CCAGATGATCCTACTCCCTTAGG 58.907 52.174 0.00 0.00 40.26 2.69
255 256 4.746466 ACCAGATGATCCTACTCCCTTAG 58.254 47.826 0.00 0.00 0.00 2.18
288 293 6.214399 AGACACGAACTAGTAGAAAAACCTG 58.786 40.000 3.59 0.00 0.00 4.00
306 311 5.839262 ACACATGTAACATGTTAGACACG 57.161 39.130 18.56 11.74 0.00 4.49
398 404 2.287915 CGGAAAATAGCTGGAATGGTCG 59.712 50.000 0.00 0.00 0.00 4.79
602 608 5.925969 ACATGCTTGTAATAACAACAAAGCC 59.074 36.000 2.92 0.00 40.69 4.35
932 939 5.346181 AGACTACAGTTCAGAATTAGGGC 57.654 43.478 0.00 0.00 0.00 5.19
1053 1064 7.147976 GCTCAAATTTTAAAGGTGAGATGTGT 58.852 34.615 20.47 0.00 38.37 3.72
1131 1145 9.899226 GTCATAGTCAAGAAAGCAAATTAAAGT 57.101 29.630 0.00 0.00 0.00 2.66
1425 1441 5.694910 AGAACACATTAACTACACCAAGACG 59.305 40.000 0.00 0.00 0.00 4.18
1448 1464 3.811497 TGCATTTGTTCACTGACAGAGAG 59.189 43.478 10.08 0.00 0.00 3.20
1464 1480 6.938507 AGGTGTATCATGAACAATTGCATTT 58.061 32.000 5.05 0.00 0.00 2.32
1475 1491 4.215109 TCATCGAGGAGGTGTATCATGAA 58.785 43.478 0.00 0.00 31.45 2.57
1484 1500 5.220951 CCGATAATAGATCATCGAGGAGGTG 60.221 48.000 13.14 0.00 45.32 4.00
1598 1616 3.245229 ACTCCATTTAATCCACAGTGCCA 60.245 43.478 0.00 0.00 0.00 4.92
1691 1721 2.224209 CGGTTCCCTGACACACTAAACT 60.224 50.000 0.00 0.00 0.00 2.66
1756 1786 2.758736 TGTGGCAAAACAGCAAACTT 57.241 40.000 0.00 0.00 35.83 2.66
1791 1821 6.925610 ATTGCTTTATTCTCTACATCGCAA 57.074 33.333 0.00 0.00 38.90 4.85
2033 2312 7.807433 GCATCGTGCAATATATGAATACCAAAA 59.193 33.333 0.00 0.00 44.26 2.44
2059 2338 2.715046 TCCAGCTTCTGTGGCAATAAG 58.285 47.619 0.00 0.00 34.77 1.73
2122 2677 9.502145 CGTAATGAGCAAACATGTGTTTATATT 57.498 29.630 10.49 10.57 45.54 1.28
2133 2688 3.911964 GCGAAAACGTAATGAGCAAACAT 59.088 39.130 0.00 0.00 0.00 2.71
2139 2694 3.181553 GCAAAAGCGAAAACGTAATGAGC 60.182 43.478 0.00 0.00 0.00 4.26
2189 2744 9.931210 GTTTAGATATTACAAAAATGGAGTCGG 57.069 33.333 0.00 0.00 0.00 4.79
2225 2825 2.784665 GCAATGCTAAAGCGAGAACGTC 60.785 50.000 0.00 0.00 45.83 4.34
2226 2826 1.128692 GCAATGCTAAAGCGAGAACGT 59.871 47.619 0.00 0.00 45.83 3.99
2227 2827 1.529826 GGCAATGCTAAAGCGAGAACG 60.530 52.381 4.82 0.00 45.83 3.95
2228 2828 1.468520 TGGCAATGCTAAAGCGAGAAC 59.531 47.619 4.82 0.00 45.83 3.01
2229 2829 1.468520 GTGGCAATGCTAAAGCGAGAA 59.531 47.619 4.82 0.00 45.83 2.87
2230 2830 1.086696 GTGGCAATGCTAAAGCGAGA 58.913 50.000 4.82 0.00 45.83 4.04
2231 2831 1.089920 AGTGGCAATGCTAAAGCGAG 58.910 50.000 4.82 0.00 45.83 5.03
2232 2832 0.804364 CAGTGGCAATGCTAAAGCGA 59.196 50.000 4.82 0.00 45.83 4.93
2233 2833 0.799534 GCAGTGGCAATGCTAAAGCG 60.800 55.000 30.43 0.00 41.57 4.68
2234 2834 0.459063 GGCAGTGGCAATGCTAAAGC 60.459 55.000 34.65 17.29 43.35 3.51
2235 2835 1.133790 GAGGCAGTGGCAATGCTAAAG 59.866 52.381 34.65 1.36 43.35 1.85
2236 2836 1.176527 GAGGCAGTGGCAATGCTAAA 58.823 50.000 34.65 0.00 43.35 1.85
2237 2837 0.680921 GGAGGCAGTGGCAATGCTAA 60.681 55.000 34.65 0.00 43.35 3.09
2238 2838 1.077501 GGAGGCAGTGGCAATGCTA 60.078 57.895 34.65 0.00 43.35 3.49
2239 2839 2.362120 GGAGGCAGTGGCAATGCT 60.362 61.111 34.65 22.54 43.35 3.79
2240 2840 2.362120 AGGAGGCAGTGGCAATGC 60.362 61.111 29.99 29.99 43.71 3.56
2241 2841 1.751927 GGAGGAGGCAGTGGCAATG 60.752 63.158 20.04 11.15 43.71 2.82
2242 2842 0.621571 TAGGAGGAGGCAGTGGCAAT 60.622 55.000 20.04 3.60 43.71 3.56
2243 2843 1.229496 TAGGAGGAGGCAGTGGCAA 60.229 57.895 20.04 0.00 43.71 4.52
2244 2844 1.687146 CTAGGAGGAGGCAGTGGCA 60.687 63.158 20.04 0.00 43.71 4.92
2245 2845 3.100503 GCTAGGAGGAGGCAGTGGC 62.101 68.421 9.02 9.02 40.13 5.01
2246 2846 2.790791 CGCTAGGAGGAGGCAGTGG 61.791 68.421 0.00 0.00 0.00 4.00
2247 2847 1.608717 AACGCTAGGAGGAGGCAGTG 61.609 60.000 0.00 0.00 0.00 3.66
2248 2848 0.905337 AAACGCTAGGAGGAGGCAGT 60.905 55.000 0.00 0.00 0.00 4.40
2249 2849 0.250513 AAAACGCTAGGAGGAGGCAG 59.749 55.000 0.00 0.00 0.00 4.85
2250 2850 0.690762 AAAAACGCTAGGAGGAGGCA 59.309 50.000 0.00 0.00 0.00 4.75
2251 2851 3.553109 AAAAACGCTAGGAGGAGGC 57.447 52.632 0.00 0.00 0.00 4.70
2285 2885 9.716507 GCAAACACGTGTTTATATATTGAGAAT 57.283 29.630 38.07 15.23 45.54 2.40
2286 2886 8.941977 AGCAAACACGTGTTTATATATTGAGAA 58.058 29.630 38.07 0.00 45.54 2.87
2287 2887 8.487313 AGCAAACACGTGTTTATATATTGAGA 57.513 30.769 38.07 0.00 45.54 3.27
2288 2888 8.387354 TGAGCAAACACGTGTTTATATATTGAG 58.613 33.333 38.07 25.45 45.54 3.02
2289 2889 8.257830 TGAGCAAACACGTGTTTATATATTGA 57.742 30.769 38.07 18.30 45.54 2.57
2290 2890 9.502145 AATGAGCAAACACGTGTTTATATATTG 57.498 29.630 38.07 27.68 45.54 1.90
2293 2893 8.322428 CGTAATGAGCAAACACGTGTTTATATA 58.678 33.333 38.07 26.47 45.54 0.86
2294 2894 7.148540 ACGTAATGAGCAAACACGTGTTTATAT 60.149 33.333 38.07 27.90 45.54 0.86
2295 2895 6.145858 ACGTAATGAGCAAACACGTGTTTATA 59.854 34.615 38.07 25.89 45.54 0.98
2296 2896 5.049954 ACGTAATGAGCAAACACGTGTTTAT 60.050 36.000 38.07 30.35 45.54 1.40
2297 2897 4.270566 ACGTAATGAGCAAACACGTGTTTA 59.729 37.500 38.07 26.45 45.54 2.01
2299 2899 2.610374 ACGTAATGAGCAAACACGTGTT 59.390 40.909 27.70 27.70 43.54 3.32
2300 2900 2.206750 ACGTAATGAGCAAACACGTGT 58.793 42.857 17.22 17.22 43.54 4.49
2301 2901 2.941891 ACGTAATGAGCAAACACGTG 57.058 45.000 15.48 15.48 43.54 4.49
2302 2902 3.955771 AAACGTAATGAGCAAACACGT 57.044 38.095 0.00 0.00 46.82 4.49
2303 2903 3.353767 CGAAAACGTAATGAGCAAACACG 59.646 43.478 0.00 0.00 38.52 4.49
2304 2904 3.117346 GCGAAAACGTAATGAGCAAACAC 59.883 43.478 0.00 0.00 0.00 3.32
2305 2905 3.002862 AGCGAAAACGTAATGAGCAAACA 59.997 39.130 0.00 0.00 0.00 2.83
2306 2906 3.551551 AGCGAAAACGTAATGAGCAAAC 58.448 40.909 0.00 0.00 0.00 2.93
2307 2907 3.889196 AGCGAAAACGTAATGAGCAAA 57.111 38.095 0.00 0.00 0.00 3.68
2308 2908 5.320723 CAATAGCGAAAACGTAATGAGCAA 58.679 37.500 0.00 0.00 0.00 3.91
2309 2909 4.726591 GCAATAGCGAAAACGTAATGAGCA 60.727 41.667 0.00 0.00 0.00 4.26
2310 2910 3.719352 GCAATAGCGAAAACGTAATGAGC 59.281 43.478 0.00 0.00 0.00 4.26
2311 2911 4.892655 TGCAATAGCGAAAACGTAATGAG 58.107 39.130 0.00 0.00 46.23 2.90
2312 2912 4.930463 TGCAATAGCGAAAACGTAATGA 57.070 36.364 0.00 0.00 46.23 2.57
2313 2913 5.552472 GCAATGCAATAGCGAAAACGTAATG 60.552 40.000 0.00 0.00 46.23 1.90
2314 2914 4.499040 GCAATGCAATAGCGAAAACGTAAT 59.501 37.500 0.00 0.00 46.23 1.89
2315 2915 3.849145 GCAATGCAATAGCGAAAACGTAA 59.151 39.130 0.00 0.00 46.23 3.18
2336 2936 2.570181 GAGGCAGTGGCAATGTGC 59.430 61.111 20.04 12.48 43.71 4.57


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

AutoCloner maintained by Alex Coulton.