Multiple sequence alignment - TraesCS5A01G265700

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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 TraesCS5A01G265700 chr5A 100.000 3266 0 0 1 3266 477438444 477435179 0.000000e+00 6032.0
1 TraesCS5A01G265700 chr5A 100.000 170 0 0 3670 3839 477434775 477434606 8.010000e-82 315.0
2 TraesCS5A01G265700 chr5A 85.393 89 12 1 1 89 377127371 377127284 1.470000e-14 91.6
3 TraesCS5A01G265700 chr5D 96.137 3003 73 15 276 3266 376665171 376662200 0.000000e+00 4863.0
4 TraesCS5A01G265700 chr5D 92.029 138 11 0 3680 3817 376662147 376662010 1.090000e-45 195.0
5 TraesCS5A01G265700 chr5D 86.364 88 11 1 1 88 416418449 416418535 1.140000e-15 95.3
6 TraesCS5A01G265700 chr5D 85.057 87 12 1 3 89 27353888 27353973 1.900000e-13 87.9
7 TraesCS5A01G265700 chr5D 84.270 89 13 1 1 89 164604881 164604968 6.830000e-13 86.1
8 TraesCS5A01G265700 chr5D 85.294 68 5 3 132 199 558270628 558270690 8.900000e-07 65.8
9 TraesCS5A01G265700 chr5B 94.784 3010 109 16 276 3266 449753304 449750324 0.000000e+00 4645.0
10 TraesCS5A01G265700 chr5B 96.377 138 4 1 3680 3817 449750271 449750135 3.860000e-55 226.0
11 TraesCS5A01G265700 chr7D 79.771 786 151 3 1070 1854 213374623 213375401 7.200000e-157 564.0
12 TraesCS5A01G265700 chr7B 79.771 786 151 3 1070 1854 188604230 188603452 7.200000e-157 564.0
13 TraesCS5A01G265700 chr7A 79.644 786 152 3 1070 1854 224987659 224988437 3.350000e-155 558.0
14 TraesCS5A01G265700 chr1A 88.889 81 3 4 131 206 454330130 454330209 1.140000e-15 95.3
15 TraesCS5A01G265700 chr1A 84.270 89 14 0 1 89 155857825 155857737 1.900000e-13 87.9
16 TraesCS5A01G265700 chr1A 100.000 36 0 0 133 168 12556180 12556215 2.480000e-07 67.6
17 TraesCS5A01G265700 chr4B 85.393 89 12 1 1 89 142518944 142518857 1.470000e-14 91.6
18 TraesCS5A01G265700 chr4B 84.270 89 14 0 1 89 487272928 487273016 1.900000e-13 87.9
19 TraesCS5A01G265700 chr2D 85.393 89 12 1 1 89 14768283 14768370 1.470000e-14 91.6
20 TraesCS5A01G265700 chr2D 90.278 72 3 3 134 201 347465712 347465783 1.470000e-14 91.6
21 TraesCS5A01G265700 chr6D 84.270 89 14 0 1 89 303059972 303059884 1.900000e-13 87.9
22 TraesCS5A01G265700 chr6D 100.000 36 0 0 133 168 27848393 27848358 2.480000e-07 67.6
23 TraesCS5A01G265700 chr6B 88.000 75 8 1 134 208 14541140 14541067 1.900000e-13 87.9
24 TraesCS5A01G265700 chr1B 100.000 37 0 0 132 168 17642917 17642881 6.880000e-08 69.4
25 TraesCS5A01G265700 chr3D 97.368 38 1 0 131 168 608961863 608961900 8.900000e-07 65.8
26 TraesCS5A01G265700 chr3D 97.297 37 1 0 171 207 119423003 119423039 3.200000e-06 63.9
27 TraesCS5A01G265700 chr1D 88.462 52 3 3 119 168 44612200 44612250 4.140000e-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 TraesCS5A01G265700 chr5A 477434606 477438444 3838 True 3173.5 6032 100.0000 1 3839 2 chr5A.!!$R2 3838
1 TraesCS5A01G265700 chr5D 376662010 376665171 3161 True 2529.0 4863 94.0830 276 3817 2 chr5D.!!$R1 3541
2 TraesCS5A01G265700 chr5B 449750135 449753304 3169 True 2435.5 4645 95.5805 276 3817 2 chr5B.!!$R1 3541
3 TraesCS5A01G265700 chr7D 213374623 213375401 778 False 564.0 564 79.7710 1070 1854 1 chr7D.!!$F1 784
4 TraesCS5A01G265700 chr7B 188603452 188604230 778 True 564.0 564 79.7710 1070 1854 1 chr7B.!!$R1 784
5 TraesCS5A01G265700 chr7A 224987659 224988437 778 False 558.0 558 79.6440 1070 1854 1 chr7A.!!$F1 784

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
375 384 0.460311 AAATACACGAGCGGAGGAGG 59.540 55.0 0.0 0.0 0.00 4.30 F
1359 1379 0.037447 AGAAAGGGAAGCCTGTGAGC 59.963 55.0 0.0 0.0 0.00 4.26 F
1953 1973 0.946221 ACGCACAGAGCAGCAGTAAC 60.946 55.0 0.0 0.0 46.13 2.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1865 1885 0.243365 GACGCCATTGTCAATGCCAA 59.757 50.000 18.52 0.0 38.75 4.52 R
2651 2671 3.045634 TCTCCAGGGACAGAAGTTGAAA 58.954 45.455 0.00 0.0 0.00 2.69 R
3052 3072 3.332919 GGCATGCTACAGATGGTATCAG 58.667 50.000 18.92 0.0 32.12 2.90 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
47 48 9.814899 ATGAATTAAAATGAGTGAACAAACACA 57.185 25.926 0.00 0.00 42.45 3.72
48 49 9.081997 TGAATTAAAATGAGTGAACAAACACAC 57.918 29.630 0.00 0.00 42.45 3.82
54 55 9.651913 AAAATGAGTGAACAAACACACTAAAAT 57.348 25.926 0.00 0.00 45.54 1.82
55 56 8.633075 AATGAGTGAACAAACACACTAAAATG 57.367 30.769 0.00 0.00 45.54 2.32
56 57 7.151999 TGAGTGAACAAACACACTAAAATGT 57.848 32.000 0.00 0.00 45.54 2.71
67 68 6.239908 CACACTAAAATGTGTCTACATGCA 57.760 37.500 0.00 0.00 46.90 3.96
68 69 6.845302 CACACTAAAATGTGTCTACATGCAT 58.155 36.000 0.00 0.00 46.90 3.96
69 70 6.963242 CACACTAAAATGTGTCTACATGCATC 59.037 38.462 0.00 0.00 46.90 3.91
70 71 6.881065 ACACTAAAATGTGTCTACATGCATCT 59.119 34.615 0.00 0.00 46.90 2.90
71 72 8.040727 ACACTAAAATGTGTCTACATGCATCTA 58.959 33.333 0.00 0.00 46.90 1.98
72 73 8.882736 CACTAAAATGTGTCTACATGCATCTAA 58.117 33.333 0.00 0.00 46.54 2.10
73 74 9.618890 ACTAAAATGTGTCTACATGCATCTAAT 57.381 29.630 0.00 0.00 46.54 1.73
76 77 8.510243 AAATGTGTCTACATGCATCTAATTCA 57.490 30.769 0.00 0.00 46.54 2.57
77 78 7.725818 ATGTGTCTACATGCATCTAATTCAG 57.274 36.000 0.00 0.00 45.54 3.02
78 79 6.877236 TGTGTCTACATGCATCTAATTCAGA 58.123 36.000 0.00 0.00 37.79 3.27
79 80 7.330262 TGTGTCTACATGCATCTAATTCAGAA 58.670 34.615 0.00 0.00 36.67 3.02
80 81 7.823799 TGTGTCTACATGCATCTAATTCAGAAA 59.176 33.333 0.00 0.00 36.67 2.52
81 82 8.668353 GTGTCTACATGCATCTAATTCAGAAAA 58.332 33.333 0.00 0.00 36.67 2.29
82 83 8.668353 TGTCTACATGCATCTAATTCAGAAAAC 58.332 33.333 0.00 0.00 36.67 2.43
83 84 8.668353 GTCTACATGCATCTAATTCAGAAAACA 58.332 33.333 0.00 0.00 36.67 2.83
84 85 9.230122 TCTACATGCATCTAATTCAGAAAACAA 57.770 29.630 0.00 0.00 36.67 2.83
85 86 9.499585 CTACATGCATCTAATTCAGAAAACAAG 57.500 33.333 0.00 0.00 36.67 3.16
86 87 7.889469 ACATGCATCTAATTCAGAAAACAAGT 58.111 30.769 0.00 0.00 36.67 3.16
87 88 8.362639 ACATGCATCTAATTCAGAAAACAAGTT 58.637 29.630 0.00 0.00 36.67 2.66
88 89 9.844790 CATGCATCTAATTCAGAAAACAAGTTA 57.155 29.630 0.00 0.00 36.67 2.24
90 91 9.844790 TGCATCTAATTCAGAAAACAAGTTATG 57.155 29.630 0.00 0.00 36.67 1.90
91 92 9.846248 GCATCTAATTCAGAAAACAAGTTATGT 57.154 29.630 0.00 0.00 39.66 2.29
100 101 9.554395 TCAGAAAACAAGTTATGTAGAATGTCA 57.446 29.630 0.00 0.00 42.99 3.58
110 111 9.965824 AGTTATGTAGAATGTCAAAACAAAAGG 57.034 29.630 0.00 0.00 39.30 3.11
111 112 9.959749 GTTATGTAGAATGTCAAAACAAAAGGA 57.040 29.630 0.00 0.00 39.30 3.36
113 114 7.639113 TGTAGAATGTCAAAACAAAAGGAGT 57.361 32.000 0.00 0.00 39.30 3.85
114 115 8.740123 TGTAGAATGTCAAAACAAAAGGAGTA 57.260 30.769 0.00 0.00 39.30 2.59
115 116 8.617809 TGTAGAATGTCAAAACAAAAGGAGTAC 58.382 33.333 0.00 0.00 39.30 2.73
116 117 7.039313 AGAATGTCAAAACAAAAGGAGTACC 57.961 36.000 0.00 0.00 39.30 3.34
117 118 6.833933 AGAATGTCAAAACAAAAGGAGTACCT 59.166 34.615 0.00 0.00 43.26 3.08
118 119 6.635030 ATGTCAAAACAAAAGGAGTACCTC 57.365 37.500 0.00 0.00 41.68 3.85
119 120 5.502079 TGTCAAAACAAAAGGAGTACCTCA 58.498 37.500 0.00 0.00 37.80 3.86
120 121 6.126409 TGTCAAAACAAAAGGAGTACCTCAT 58.874 36.000 0.00 0.00 37.80 2.90
121 122 7.284074 TGTCAAAACAAAAGGAGTACCTCATA 58.716 34.615 0.00 0.00 37.80 2.15
122 123 7.942341 TGTCAAAACAAAAGGAGTACCTCATAT 59.058 33.333 0.00 0.00 37.80 1.78
139 140 8.196378 ACCTCATATAATCAAGTCTTACTCCC 57.804 38.462 0.00 0.00 0.00 4.30
140 141 8.013667 ACCTCATATAATCAAGTCTTACTCCCT 58.986 37.037 0.00 0.00 0.00 4.20
141 142 8.527810 CCTCATATAATCAAGTCTTACTCCCTC 58.472 40.741 0.00 0.00 0.00 4.30
142 143 8.423906 TCATATAATCAAGTCTTACTCCCTCC 57.576 38.462 0.00 0.00 0.00 4.30
143 144 5.793030 ATAATCAAGTCTTACTCCCTCCG 57.207 43.478 0.00 0.00 0.00 4.63
144 145 2.599408 TCAAGTCTTACTCCCTCCGT 57.401 50.000 0.00 0.00 0.00 4.69
145 146 3.726557 TCAAGTCTTACTCCCTCCGTA 57.273 47.619 0.00 0.00 0.00 4.02
146 147 4.038271 TCAAGTCTTACTCCCTCCGTAA 57.962 45.455 0.00 0.00 0.00 3.18
147 148 4.410099 TCAAGTCTTACTCCCTCCGTAAA 58.590 43.478 0.00 0.00 0.00 2.01
148 149 4.461781 TCAAGTCTTACTCCCTCCGTAAAG 59.538 45.833 0.00 0.00 0.00 1.85
149 150 4.313020 AGTCTTACTCCCTCCGTAAAGA 57.687 45.455 0.00 0.00 0.00 2.52
150 151 4.670765 AGTCTTACTCCCTCCGTAAAGAA 58.329 43.478 0.00 0.00 0.00 2.52
151 152 5.082425 AGTCTTACTCCCTCCGTAAAGAAA 58.918 41.667 0.00 0.00 0.00 2.52
152 153 5.720520 AGTCTTACTCCCTCCGTAAAGAAAT 59.279 40.000 0.00 0.00 0.00 2.17
153 154 6.894103 AGTCTTACTCCCTCCGTAAAGAAATA 59.106 38.462 0.00 0.00 0.00 1.40
154 155 7.564292 AGTCTTACTCCCTCCGTAAAGAAATAT 59.436 37.037 0.00 0.00 0.00 1.28
155 156 8.854117 GTCTTACTCCCTCCGTAAAGAAATATA 58.146 37.037 0.00 0.00 0.00 0.86
156 157 9.425248 TCTTACTCCCTCCGTAAAGAAATATAA 57.575 33.333 0.00 0.00 0.00 0.98
157 158 9.694137 CTTACTCCCTCCGTAAAGAAATATAAG 57.306 37.037 0.00 0.00 0.00 1.73
158 159 7.909485 ACTCCCTCCGTAAAGAAATATAAGA 57.091 36.000 0.00 0.00 0.00 2.10
159 160 8.315220 ACTCCCTCCGTAAAGAAATATAAGAA 57.685 34.615 0.00 0.00 0.00 2.52
160 161 8.202811 ACTCCCTCCGTAAAGAAATATAAGAAC 58.797 37.037 0.00 0.00 0.00 3.01
161 162 7.205297 TCCCTCCGTAAAGAAATATAAGAACG 58.795 38.462 0.00 0.00 0.00 3.95
162 163 6.982724 CCCTCCGTAAAGAAATATAAGAACGT 59.017 38.462 0.00 0.00 0.00 3.99
163 164 7.493645 CCCTCCGTAAAGAAATATAAGAACGTT 59.506 37.037 0.00 0.00 0.00 3.99
164 165 8.876790 CCTCCGTAAAGAAATATAAGAACGTTT 58.123 33.333 0.46 0.00 0.00 3.60
191 192 8.166706 AGACAAACGCTTTTATATTTCTGTACG 58.833 33.333 0.00 0.00 0.00 3.67
192 193 7.238571 ACAAACGCTTTTATATTTCTGTACGG 58.761 34.615 0.00 0.00 0.00 4.02
193 194 7.118101 ACAAACGCTTTTATATTTCTGTACGGA 59.882 33.333 0.00 0.00 0.00 4.69
194 195 6.823678 ACGCTTTTATATTTCTGTACGGAG 57.176 37.500 4.23 0.00 0.00 4.63
195 196 5.751990 ACGCTTTTATATTTCTGTACGGAGG 59.248 40.000 4.23 0.00 0.00 4.30
196 197 5.176958 CGCTTTTATATTTCTGTACGGAGGG 59.823 44.000 4.23 0.00 0.00 4.30
197 198 6.285990 GCTTTTATATTTCTGTACGGAGGGA 58.714 40.000 4.23 0.00 0.00 4.20
198 199 6.424207 GCTTTTATATTTCTGTACGGAGGGAG 59.576 42.308 4.23 0.00 0.00 4.30
199 200 7.427989 TTTTATATTTCTGTACGGAGGGAGT 57.572 36.000 4.23 0.00 0.00 3.85
200 201 8.537728 TTTTATATTTCTGTACGGAGGGAGTA 57.462 34.615 4.23 0.00 0.00 2.59
201 202 7.516198 TTATATTTCTGTACGGAGGGAGTAC 57.484 40.000 4.23 0.08 43.34 2.73
205 206 2.519771 TGTACGGAGGGAGTACATGT 57.480 50.000 2.69 2.69 46.38 3.21
206 207 2.811410 TGTACGGAGGGAGTACATGTT 58.189 47.619 2.30 0.00 46.38 2.71
207 208 3.966979 TGTACGGAGGGAGTACATGTTA 58.033 45.455 2.30 0.00 46.38 2.41
208 209 4.343231 TGTACGGAGGGAGTACATGTTAA 58.657 43.478 2.30 0.00 46.38 2.01
209 210 4.400251 TGTACGGAGGGAGTACATGTTAAG 59.600 45.833 2.30 0.00 46.38 1.85
210 211 3.438183 ACGGAGGGAGTACATGTTAAGT 58.562 45.455 2.30 0.00 0.00 2.24
211 212 3.194968 ACGGAGGGAGTACATGTTAAGTG 59.805 47.826 2.30 0.00 0.00 3.16
212 213 3.446161 CGGAGGGAGTACATGTTAAGTGA 59.554 47.826 2.30 0.00 0.00 3.41
213 214 4.081862 CGGAGGGAGTACATGTTAAGTGAA 60.082 45.833 2.30 0.00 0.00 3.18
214 215 5.395324 CGGAGGGAGTACATGTTAAGTGAAT 60.395 44.000 2.30 0.00 0.00 2.57
215 216 6.183360 CGGAGGGAGTACATGTTAAGTGAATA 60.183 42.308 2.30 0.00 0.00 1.75
216 217 7.562135 GGAGGGAGTACATGTTAAGTGAATAA 58.438 38.462 2.30 0.00 0.00 1.40
217 218 8.044908 GGAGGGAGTACATGTTAAGTGAATAAA 58.955 37.037 2.30 0.00 0.00 1.40
218 219 9.444600 GAGGGAGTACATGTTAAGTGAATAAAA 57.555 33.333 2.30 0.00 0.00 1.52
219 220 9.227777 AGGGAGTACATGTTAAGTGAATAAAAC 57.772 33.333 2.30 0.00 0.00 2.43
220 221 9.005777 GGGAGTACATGTTAAGTGAATAAAACA 57.994 33.333 2.30 0.00 36.37 2.83
226 227 9.950680 ACATGTTAAGTGAATAAAACAAGTCTG 57.049 29.630 0.00 0.00 35.63 3.51
229 230 9.997482 TGTTAAGTGAATAAAACAAGTCTGAAC 57.003 29.630 0.00 0.00 0.00 3.18
230 231 9.997482 GTTAAGTGAATAAAACAAGTCTGAACA 57.003 29.630 0.00 0.00 0.00 3.18
236 237 9.311916 TGAATAAAACAAGTCTGAACATTTTGG 57.688 29.630 0.00 0.00 0.00 3.28
237 238 9.313118 GAATAAAACAAGTCTGAACATTTTGGT 57.687 29.630 0.00 0.00 0.00 3.67
238 239 8.871686 ATAAAACAAGTCTGAACATTTTGGTC 57.128 30.769 0.00 0.00 33.88 4.02
239 240 6.530019 AAACAAGTCTGAACATTTTGGTCT 57.470 33.333 0.00 0.00 34.53 3.85
240 241 5.505173 ACAAGTCTGAACATTTTGGTCTG 57.495 39.130 0.00 0.00 34.53 3.51
241 242 4.949856 ACAAGTCTGAACATTTTGGTCTGT 59.050 37.500 0.00 0.00 34.53 3.41
242 243 6.119536 ACAAGTCTGAACATTTTGGTCTGTA 58.880 36.000 0.00 0.00 34.53 2.74
243 244 6.038271 ACAAGTCTGAACATTTTGGTCTGTAC 59.962 38.462 0.00 0.00 34.53 2.90
244 245 5.930135 AGTCTGAACATTTTGGTCTGTACT 58.070 37.500 0.00 0.00 34.53 2.73
245 246 7.062749 AGTCTGAACATTTTGGTCTGTACTA 57.937 36.000 0.00 0.00 34.53 1.82
246 247 7.155328 AGTCTGAACATTTTGGTCTGTACTAG 58.845 38.462 0.00 0.00 34.53 2.57
247 248 7.015292 AGTCTGAACATTTTGGTCTGTACTAGA 59.985 37.037 0.00 0.00 34.53 2.43
248 249 7.819900 GTCTGAACATTTTGGTCTGTACTAGAT 59.180 37.037 0.00 0.00 37.83 1.98
249 250 9.031537 TCTGAACATTTTGGTCTGTACTAGATA 57.968 33.333 0.00 0.00 37.83 1.98
250 251 8.997621 TGAACATTTTGGTCTGTACTAGATAC 57.002 34.615 0.00 0.00 37.83 2.24
251 252 8.590204 TGAACATTTTGGTCTGTACTAGATACA 58.410 33.333 0.00 0.94 41.79 2.29
268 269 8.612145 ACTAGATACAGAAAATAGTTTTGGGGT 58.388 33.333 0.00 0.00 31.94 4.95
269 270 7.703058 AGATACAGAAAATAGTTTTGGGGTG 57.297 36.000 0.00 0.00 31.94 4.61
270 271 7.238710 AGATACAGAAAATAGTTTTGGGGTGT 58.761 34.615 0.00 0.00 31.94 4.16
271 272 7.728532 AGATACAGAAAATAGTTTTGGGGTGTT 59.271 33.333 0.00 0.00 31.94 3.32
272 273 8.943594 ATACAGAAAATAGTTTTGGGGTGTTA 57.056 30.769 0.00 0.00 31.94 2.41
273 274 7.849322 ACAGAAAATAGTTTTGGGGTGTTAT 57.151 32.000 0.00 0.00 31.94 1.89
274 275 8.257602 ACAGAAAATAGTTTTGGGGTGTTATT 57.742 30.769 0.00 0.00 31.94 1.40
289 290 3.671459 GTGTTATTAAACAACGCCTTGGC 59.329 43.478 0.75 0.75 46.84 4.52
290 291 3.570550 TGTTATTAAACAACGCCTTGGCT 59.429 39.130 10.12 0.00 42.60 4.75
291 292 2.723124 ATTAAACAACGCCTTGGCTG 57.277 45.000 10.12 4.81 0.00 4.85
294 297 2.015227 AAACAACGCCTTGGCTGTGG 62.015 55.000 10.12 9.25 0.00 4.17
295 298 4.347453 CAACGCCTTGGCTGTGGC 62.347 66.667 10.12 6.03 45.25 5.01
332 335 1.095228 CACAAGGCAGTTCACACGGT 61.095 55.000 0.00 0.00 0.00 4.83
345 354 2.601666 ACGGTGAGCAGGAGCAGA 60.602 61.111 0.00 0.00 45.49 4.26
359 368 2.038295 GGAGCAGAGGATCCGATGAAAT 59.962 50.000 19.86 7.36 40.28 2.17
375 384 0.460311 AAATACACGAGCGGAGGAGG 59.540 55.000 0.00 0.00 0.00 4.30
376 385 0.683504 AATACACGAGCGGAGGAGGT 60.684 55.000 0.00 0.00 0.00 3.85
377 386 1.102222 ATACACGAGCGGAGGAGGTC 61.102 60.000 0.00 0.00 35.48 3.85
378 387 3.827898 CACGAGCGGAGGAGGTCC 61.828 72.222 0.00 0.00 42.85 4.46
408 417 2.952310 GTTTGTTTGCTCTGTTCCTCCT 59.048 45.455 0.00 0.00 0.00 3.69
446 455 1.900486 TCCCTCGAGTTTCCTTCCTTC 59.100 52.381 12.31 0.00 0.00 3.46
532 542 1.800681 GAACCTGCGAATTTCCCCG 59.199 57.895 0.00 0.00 0.00 5.73
533 543 0.958876 GAACCTGCGAATTTCCCCGT 60.959 55.000 0.00 0.00 0.00 5.28
534 544 0.958876 AACCTGCGAATTTCCCCGTC 60.959 55.000 0.00 0.00 0.00 4.79
535 545 2.461110 CCTGCGAATTTCCCCGTCG 61.461 63.158 0.00 0.00 37.82 5.12
548 559 1.143838 CCGTCGCCAATCATCTCCA 59.856 57.895 0.00 0.00 0.00 3.86
592 603 3.554342 CGCCTCCTCCCCATCCAG 61.554 72.222 0.00 0.00 0.00 3.86
726 738 0.736053 CCTCCTCCGTCTTCTTCTCG 59.264 60.000 0.00 0.00 0.00 4.04
834 854 2.928116 GGTCCGATTAGGTTTGTCTTCG 59.072 50.000 0.00 0.00 41.99 3.79
911 931 3.706855 AAAAATGGCGGCGGGAAT 58.293 50.000 9.78 0.00 0.00 3.01
938 958 1.443407 CATGATTCCCTCGCTCGGT 59.557 57.895 0.00 0.00 0.00 4.69
1144 1164 1.904990 GAAGGACAGGGTCAGGCTCC 61.905 65.000 0.00 0.00 33.68 4.70
1359 1379 0.037447 AGAAAGGGAAGCCTGTGAGC 59.963 55.000 0.00 0.00 0.00 4.26
1490 1510 3.238441 CTCAGAGTAGCGTTGTCAAGAC 58.762 50.000 0.00 0.00 0.00 3.01
1755 1775 2.789409 AGCACATGTCCCCTAACTTC 57.211 50.000 0.00 0.00 0.00 3.01
1865 1885 1.003003 GAGAGAGGAAAGGCTTGTGCT 59.997 52.381 0.00 1.65 39.59 4.40
1941 1961 2.386661 ATGGAACTAGGAACGCACAG 57.613 50.000 0.00 0.00 0.00 3.66
1953 1973 0.946221 ACGCACAGAGCAGCAGTAAC 60.946 55.000 0.00 0.00 46.13 2.50
2334 2354 4.700213 ACAAGTGAAGCTTTACAACACAGT 59.300 37.500 21.91 13.55 34.69 3.55
2651 2671 3.454719 TCATGTGATTGGTGGTGGAAT 57.545 42.857 0.00 0.00 0.00 3.01
2863 2883 8.613060 ACATAGGTAATTTCATCACATAGCTG 57.387 34.615 0.00 0.00 0.00 4.24
2864 2884 8.213679 ACATAGGTAATTTCATCACATAGCTGT 58.786 33.333 0.00 0.00 35.44 4.40
2865 2885 9.060347 CATAGGTAATTTCATCACATAGCTGTT 57.940 33.333 0.00 0.00 31.62 3.16
2866 2886 7.944729 AGGTAATTTCATCACATAGCTGTTT 57.055 32.000 0.00 0.00 31.62 2.83
2867 2887 7.989826 AGGTAATTTCATCACATAGCTGTTTC 58.010 34.615 0.00 0.00 31.62 2.78
2868 2888 7.831193 AGGTAATTTCATCACATAGCTGTTTCT 59.169 33.333 0.00 0.00 31.62 2.52
2869 2889 8.462016 GGTAATTTCATCACATAGCTGTTTCTT 58.538 33.333 0.00 0.00 31.62 2.52
2954 2974 3.203487 TCCTTTTGGTTGTCAGGTTAGGT 59.797 43.478 0.00 0.00 41.38 3.08
3052 3072 4.698583 AAACTTCTCATTCTGATGCTGC 57.301 40.909 0.00 0.00 33.14 5.25
3260 3280 4.041198 TGAGATATGAATGCCATGCTCTCA 59.959 41.667 13.36 13.36 44.31 3.27
3775 3795 9.825972 AAAATTAAGTTCATTACTGTGTCATCG 57.174 29.630 0.00 0.00 37.12 3.84
3802 3822 4.075963 TGGTAGTTACACAGTGAAACCC 57.924 45.455 7.81 0.00 37.80 4.11
3819 3839 5.476091 AAACCCTTGTTTCTTGACAACAA 57.524 34.783 0.00 0.00 40.68 2.83
3820 3840 4.450082 ACCCTTGTTTCTTGACAACAAC 57.550 40.909 0.00 0.00 38.84 3.32
3821 3841 3.829601 ACCCTTGTTTCTTGACAACAACA 59.170 39.130 4.67 4.67 38.84 3.33
3822 3842 4.282195 ACCCTTGTTTCTTGACAACAACAA 59.718 37.500 15.43 15.43 38.84 2.83
3823 3843 4.625311 CCCTTGTTTCTTGACAACAACAAC 59.375 41.667 13.45 3.30 38.84 3.32
3824 3844 5.226396 CCTTGTTTCTTGACAACAACAACA 58.774 37.500 13.45 5.28 38.84 3.33
3825 3845 5.694006 CCTTGTTTCTTGACAACAACAACAA 59.306 36.000 13.45 10.72 38.84 2.83
3826 3846 6.346518 CCTTGTTTCTTGACAACAACAACAAC 60.347 38.462 13.45 0.00 38.84 3.32
3827 3847 5.592054 TGTTTCTTGACAACAACAACAACA 58.408 33.333 5.93 0.00 34.20 3.33
3828 3848 6.042777 TGTTTCTTGACAACAACAACAACAA 58.957 32.000 5.93 0.00 34.20 2.83
3829 3849 6.019479 TGTTTCTTGACAACAACAACAACAAC 60.019 34.615 5.93 0.00 34.20 3.32
3830 3850 5.188327 TCTTGACAACAACAACAACAACA 57.812 34.783 0.00 0.00 32.27 3.33
3831 3851 5.592054 TCTTGACAACAACAACAACAACAA 58.408 33.333 0.00 0.00 32.27 2.83
3832 3852 5.460419 TCTTGACAACAACAACAACAACAAC 59.540 36.000 0.00 0.00 32.27 3.32
3833 3853 4.682787 TGACAACAACAACAACAACAACA 58.317 34.783 0.00 0.00 0.00 3.33
3834 3854 5.109210 TGACAACAACAACAACAACAACAA 58.891 33.333 0.00 0.00 0.00 2.83
3835 3855 5.005779 TGACAACAACAACAACAACAACAAC 59.994 36.000 0.00 0.00 0.00 3.32
3836 3856 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
3837 3857 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
3838 3858 6.128282 ACAACAACAACAACAACAACAACAAA 60.128 30.769 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 9.814899 TGTGTTTGTTCACTCATTTTAATTCAT 57.185 25.926 0.00 0.00 38.90 2.57
22 23 9.081997 GTGTGTTTGTTCACTCATTTTAATTCA 57.918 29.630 0.00 0.00 38.90 2.57
23 24 9.301153 AGTGTGTTTGTTCACTCATTTTAATTC 57.699 29.630 0.00 0.00 40.28 2.17
28 29 9.651913 ATTTTAGTGTGTTTGTTCACTCATTTT 57.348 25.926 1.08 0.00 42.77 1.82
29 30 9.086336 CATTTTAGTGTGTTTGTTCACTCATTT 57.914 29.630 1.08 0.00 42.77 2.32
30 31 8.250332 ACATTTTAGTGTGTTTGTTCACTCATT 58.750 29.630 1.08 0.00 42.77 2.57
31 32 7.701924 CACATTTTAGTGTGTTTGTTCACTCAT 59.298 33.333 1.08 0.00 43.43 2.90
32 33 7.026562 CACATTTTAGTGTGTTTGTTCACTCA 58.973 34.615 1.08 0.00 43.43 3.41
33 34 7.436536 CACATTTTAGTGTGTTTGTTCACTC 57.563 36.000 1.08 0.00 43.43 3.51
46 47 7.312657 AGATGCATGTAGACACATTTTAGTG 57.687 36.000 2.46 0.00 42.98 2.74
47 48 9.618890 ATTAGATGCATGTAGACACATTTTAGT 57.381 29.630 2.46 0.00 42.98 2.24
50 51 8.959548 TGAATTAGATGCATGTAGACACATTTT 58.040 29.630 2.46 0.00 42.98 1.82
51 52 8.510243 TGAATTAGATGCATGTAGACACATTT 57.490 30.769 2.46 0.00 42.98 2.32
52 53 7.989170 TCTGAATTAGATGCATGTAGACACATT 59.011 33.333 2.46 0.21 42.98 2.71
53 54 7.503549 TCTGAATTAGATGCATGTAGACACAT 58.496 34.615 2.46 0.00 46.58 3.21
54 55 6.877236 TCTGAATTAGATGCATGTAGACACA 58.123 36.000 2.46 3.27 39.52 3.72
55 56 7.776933 TTCTGAATTAGATGCATGTAGACAC 57.223 36.000 2.46 0.00 34.80 3.67
56 57 8.668353 GTTTTCTGAATTAGATGCATGTAGACA 58.332 33.333 2.46 5.35 34.80 3.41
57 58 8.668353 TGTTTTCTGAATTAGATGCATGTAGAC 58.332 33.333 2.46 0.65 34.80 2.59
58 59 8.791327 TGTTTTCTGAATTAGATGCATGTAGA 57.209 30.769 2.46 0.00 34.80 2.59
59 60 9.499585 CTTGTTTTCTGAATTAGATGCATGTAG 57.500 33.333 2.46 0.00 34.80 2.74
60 61 9.013229 ACTTGTTTTCTGAATTAGATGCATGTA 57.987 29.630 2.46 0.01 34.80 2.29
61 62 7.889469 ACTTGTTTTCTGAATTAGATGCATGT 58.111 30.769 2.46 1.37 34.80 3.21
62 63 8.752766 AACTTGTTTTCTGAATTAGATGCATG 57.247 30.769 2.46 0.00 34.80 4.06
64 65 9.844790 CATAACTTGTTTTCTGAATTAGATGCA 57.155 29.630 0.00 0.00 34.80 3.96
65 66 9.846248 ACATAACTTGTTTTCTGAATTAGATGC 57.154 29.630 0.00 0.00 33.74 3.91
74 75 9.554395 TGACATTCTACATAACTTGTTTTCTGA 57.446 29.630 0.00 0.00 39.87 3.27
84 85 9.965824 CCTTTTGTTTTGACATTCTACATAACT 57.034 29.630 0.00 0.00 32.33 2.24
85 86 9.959749 TCCTTTTGTTTTGACATTCTACATAAC 57.040 29.630 0.00 0.00 0.00 1.89
87 88 9.349713 ACTCCTTTTGTTTTGACATTCTACATA 57.650 29.630 0.00 0.00 0.00 2.29
88 89 8.237811 ACTCCTTTTGTTTTGACATTCTACAT 57.762 30.769 0.00 0.00 0.00 2.29
89 90 7.639113 ACTCCTTTTGTTTTGACATTCTACA 57.361 32.000 0.00 0.00 0.00 2.74
90 91 8.074370 GGTACTCCTTTTGTTTTGACATTCTAC 58.926 37.037 0.00 0.00 0.00 2.59
91 92 7.996644 AGGTACTCCTTTTGTTTTGACATTCTA 59.003 33.333 0.00 0.00 42.12 2.10
92 93 6.833933 AGGTACTCCTTTTGTTTTGACATTCT 59.166 34.615 0.00 0.00 42.12 2.40
93 94 7.039313 AGGTACTCCTTTTGTTTTGACATTC 57.961 36.000 0.00 0.00 42.12 2.67
113 114 9.310449 GGGAGTAAGACTTGATTATATGAGGTA 57.690 37.037 0.00 0.00 0.00 3.08
114 115 8.013667 AGGGAGTAAGACTTGATTATATGAGGT 58.986 37.037 0.00 0.00 0.00 3.85
115 116 8.429237 AGGGAGTAAGACTTGATTATATGAGG 57.571 38.462 0.00 0.00 0.00 3.86
116 117 8.527810 GGAGGGAGTAAGACTTGATTATATGAG 58.472 40.741 0.00 0.00 0.00 2.90
117 118 7.176865 CGGAGGGAGTAAGACTTGATTATATGA 59.823 40.741 0.00 0.00 0.00 2.15
118 119 7.039644 ACGGAGGGAGTAAGACTTGATTATATG 60.040 40.741 0.00 0.00 0.00 1.78
119 120 7.011382 ACGGAGGGAGTAAGACTTGATTATAT 58.989 38.462 0.00 0.00 0.00 0.86
120 121 6.371278 ACGGAGGGAGTAAGACTTGATTATA 58.629 40.000 0.00 0.00 0.00 0.98
121 122 5.209659 ACGGAGGGAGTAAGACTTGATTAT 58.790 41.667 0.00 0.00 0.00 1.28
122 123 4.607239 ACGGAGGGAGTAAGACTTGATTA 58.393 43.478 0.00 0.00 0.00 1.75
123 124 3.442076 ACGGAGGGAGTAAGACTTGATT 58.558 45.455 0.00 0.00 0.00 2.57
124 125 3.103080 ACGGAGGGAGTAAGACTTGAT 57.897 47.619 0.00 0.00 0.00 2.57
125 126 2.599408 ACGGAGGGAGTAAGACTTGA 57.401 50.000 0.00 0.00 0.00 3.02
126 127 4.461781 TCTTTACGGAGGGAGTAAGACTTG 59.538 45.833 0.00 0.00 35.75 3.16
127 128 4.670765 TCTTTACGGAGGGAGTAAGACTT 58.329 43.478 0.00 0.00 35.75 3.01
128 129 4.313020 TCTTTACGGAGGGAGTAAGACT 57.687 45.455 0.00 0.00 35.75 3.24
129 130 5.397142 TTTCTTTACGGAGGGAGTAAGAC 57.603 43.478 0.00 0.00 35.75 3.01
130 131 7.909485 ATATTTCTTTACGGAGGGAGTAAGA 57.091 36.000 0.00 0.00 35.75 2.10
131 132 9.694137 CTTATATTTCTTTACGGAGGGAGTAAG 57.306 37.037 0.00 0.00 35.75 2.34
132 133 9.425248 TCTTATATTTCTTTACGGAGGGAGTAA 57.575 33.333 0.00 0.00 32.84 2.24
133 134 9.425248 TTCTTATATTTCTTTACGGAGGGAGTA 57.575 33.333 0.00 0.00 0.00 2.59
134 135 7.909485 TCTTATATTTCTTTACGGAGGGAGT 57.091 36.000 0.00 0.00 0.00 3.85
135 136 7.381678 CGTTCTTATATTTCTTTACGGAGGGAG 59.618 40.741 0.00 0.00 0.00 4.30
136 137 7.147846 ACGTTCTTATATTTCTTTACGGAGGGA 60.148 37.037 0.00 0.00 32.54 4.20
137 138 6.982724 ACGTTCTTATATTTCTTTACGGAGGG 59.017 38.462 0.00 0.00 32.54 4.30
138 139 7.998753 ACGTTCTTATATTTCTTTACGGAGG 57.001 36.000 0.00 0.00 32.54 4.30
165 166 8.166706 CGTACAGAAATATAAAAGCGTTTGTCT 58.833 33.333 7.95 0.65 0.00 3.41
166 167 7.424452 CCGTACAGAAATATAAAAGCGTTTGTC 59.576 37.037 7.95 0.00 0.00 3.18
167 168 7.118101 TCCGTACAGAAATATAAAAGCGTTTGT 59.882 33.333 7.95 3.68 0.00 2.83
168 169 7.457868 TCCGTACAGAAATATAAAAGCGTTTG 58.542 34.615 7.95 0.00 0.00 2.93
169 170 7.201582 CCTCCGTACAGAAATATAAAAGCGTTT 60.202 37.037 2.53 2.53 0.00 3.60
170 171 6.257193 CCTCCGTACAGAAATATAAAAGCGTT 59.743 38.462 0.00 0.00 0.00 4.84
171 172 5.751990 CCTCCGTACAGAAATATAAAAGCGT 59.248 40.000 0.00 0.00 0.00 5.07
172 173 5.176958 CCCTCCGTACAGAAATATAAAAGCG 59.823 44.000 0.00 0.00 0.00 4.68
173 174 6.285990 TCCCTCCGTACAGAAATATAAAAGC 58.714 40.000 0.00 0.00 0.00 3.51
174 175 7.498443 ACTCCCTCCGTACAGAAATATAAAAG 58.502 38.462 0.00 0.00 0.00 2.27
175 176 7.427989 ACTCCCTCCGTACAGAAATATAAAA 57.572 36.000 0.00 0.00 0.00 1.52
176 177 7.560991 TGTACTCCCTCCGTACAGAAATATAAA 59.439 37.037 0.00 0.00 41.47 1.40
177 178 7.062322 TGTACTCCCTCCGTACAGAAATATAA 58.938 38.462 0.00 0.00 41.47 0.98
178 179 6.604171 TGTACTCCCTCCGTACAGAAATATA 58.396 40.000 0.00 0.00 41.47 0.86
179 180 5.452255 TGTACTCCCTCCGTACAGAAATAT 58.548 41.667 0.00 0.00 41.47 1.28
180 181 4.858850 TGTACTCCCTCCGTACAGAAATA 58.141 43.478 0.00 0.00 41.47 1.40
181 182 3.705051 TGTACTCCCTCCGTACAGAAAT 58.295 45.455 0.00 0.00 41.47 2.17
182 183 3.159213 TGTACTCCCTCCGTACAGAAA 57.841 47.619 0.00 0.00 41.47 2.52
183 184 2.885135 TGTACTCCCTCCGTACAGAA 57.115 50.000 0.00 0.00 41.47 3.02
187 188 4.400567 ACTTAACATGTACTCCCTCCGTAC 59.599 45.833 0.00 0.00 38.13 3.67
188 189 4.400251 CACTTAACATGTACTCCCTCCGTA 59.600 45.833 0.00 0.00 0.00 4.02
189 190 3.194968 CACTTAACATGTACTCCCTCCGT 59.805 47.826 0.00 0.00 0.00 4.69
190 191 3.446161 TCACTTAACATGTACTCCCTCCG 59.554 47.826 0.00 0.00 0.00 4.63
191 192 5.416271 TTCACTTAACATGTACTCCCTCC 57.584 43.478 0.00 0.00 0.00 4.30
192 193 9.444600 TTTTATTCACTTAACATGTACTCCCTC 57.555 33.333 0.00 0.00 0.00 4.30
193 194 9.227777 GTTTTATTCACTTAACATGTACTCCCT 57.772 33.333 0.00 0.00 0.00 4.20
194 195 9.005777 TGTTTTATTCACTTAACATGTACTCCC 57.994 33.333 0.00 0.00 0.00 4.30
200 201 9.950680 CAGACTTGTTTTATTCACTTAACATGT 57.049 29.630 0.00 0.00 39.82 3.21
203 204 9.997482 GTTCAGACTTGTTTTATTCACTTAACA 57.003 29.630 0.00 0.00 0.00 2.41
204 205 9.997482 TGTTCAGACTTGTTTTATTCACTTAAC 57.003 29.630 0.00 0.00 0.00 2.01
210 211 9.311916 CCAAAATGTTCAGACTTGTTTTATTCA 57.688 29.630 0.00 0.00 0.00 2.57
211 212 9.313118 ACCAAAATGTTCAGACTTGTTTTATTC 57.687 29.630 0.00 0.00 0.00 1.75
212 213 9.313118 GACCAAAATGTTCAGACTTGTTTTATT 57.687 29.630 0.00 0.00 0.00 1.40
213 214 8.695456 AGACCAAAATGTTCAGACTTGTTTTAT 58.305 29.630 0.00 0.00 0.00 1.40
214 215 7.973388 CAGACCAAAATGTTCAGACTTGTTTTA 59.027 33.333 0.00 0.00 0.00 1.52
215 216 6.813152 CAGACCAAAATGTTCAGACTTGTTTT 59.187 34.615 0.00 0.00 0.00 2.43
216 217 6.071391 ACAGACCAAAATGTTCAGACTTGTTT 60.071 34.615 0.00 0.00 0.00 2.83
217 218 5.418840 ACAGACCAAAATGTTCAGACTTGTT 59.581 36.000 0.00 0.00 0.00 2.83
218 219 4.949856 ACAGACCAAAATGTTCAGACTTGT 59.050 37.500 0.00 0.00 0.00 3.16
219 220 5.505173 ACAGACCAAAATGTTCAGACTTG 57.495 39.130 0.00 0.00 0.00 3.16
220 221 6.357367 AGTACAGACCAAAATGTTCAGACTT 58.643 36.000 0.00 0.00 0.00 3.01
221 222 5.930135 AGTACAGACCAAAATGTTCAGACT 58.070 37.500 0.00 0.00 0.00 3.24
222 223 7.152645 TCTAGTACAGACCAAAATGTTCAGAC 58.847 38.462 0.00 0.00 0.00 3.51
223 224 7.297936 TCTAGTACAGACCAAAATGTTCAGA 57.702 36.000 0.00 0.00 0.00 3.27
224 225 9.088512 GTATCTAGTACAGACCAAAATGTTCAG 57.911 37.037 0.00 0.00 35.62 3.02
225 226 8.590204 TGTATCTAGTACAGACCAAAATGTTCA 58.410 33.333 0.00 0.00 38.37 3.18
226 227 8.997621 TGTATCTAGTACAGACCAAAATGTTC 57.002 34.615 0.00 0.00 38.37 3.18
242 243 8.612145 ACCCCAAAACTATTTTCTGTATCTAGT 58.388 33.333 0.00 0.00 0.00 2.57
243 244 8.893727 CACCCCAAAACTATTTTCTGTATCTAG 58.106 37.037 0.00 0.00 0.00 2.43
244 245 8.387813 ACACCCCAAAACTATTTTCTGTATCTA 58.612 33.333 0.00 0.00 0.00 1.98
245 246 7.238710 ACACCCCAAAACTATTTTCTGTATCT 58.761 34.615 0.00 0.00 0.00 1.98
246 247 7.462571 ACACCCCAAAACTATTTTCTGTATC 57.537 36.000 0.00 0.00 0.00 2.24
247 248 7.849322 AACACCCCAAAACTATTTTCTGTAT 57.151 32.000 0.00 0.00 0.00 2.29
248 249 8.943594 ATAACACCCCAAAACTATTTTCTGTA 57.056 30.769 0.00 0.00 0.00 2.74
249 250 7.849322 ATAACACCCCAAAACTATTTTCTGT 57.151 32.000 0.00 0.00 0.00 3.41
255 256 9.767228 GTTGTTTAATAACACCCCAAAACTATT 57.233 29.630 0.00 0.00 43.66 1.73
256 257 8.083462 CGTTGTTTAATAACACCCCAAAACTAT 58.917 33.333 5.51 0.00 43.66 2.12
257 258 7.424001 CGTTGTTTAATAACACCCCAAAACTA 58.576 34.615 5.51 0.00 43.66 2.24
258 259 6.274579 CGTTGTTTAATAACACCCCAAAACT 58.725 36.000 5.51 0.00 43.66 2.66
259 260 5.050904 GCGTTGTTTAATAACACCCCAAAAC 60.051 40.000 5.51 0.00 43.66 2.43
260 261 5.048507 GCGTTGTTTAATAACACCCCAAAA 58.951 37.500 5.51 0.00 43.66 2.44
261 262 4.501058 GGCGTTGTTTAATAACACCCCAAA 60.501 41.667 5.51 0.00 43.66 3.28
262 263 3.005578 GGCGTTGTTTAATAACACCCCAA 59.994 43.478 5.51 0.00 43.66 4.12
263 264 2.557490 GGCGTTGTTTAATAACACCCCA 59.443 45.455 5.51 0.00 43.66 4.96
264 265 2.821378 AGGCGTTGTTTAATAACACCCC 59.179 45.455 7.79 3.74 43.66 4.95
265 266 4.231439 CAAGGCGTTGTTTAATAACACCC 58.769 43.478 10.97 5.81 43.66 4.61
266 267 4.231439 CCAAGGCGTTGTTTAATAACACC 58.769 43.478 17.23 3.88 43.66 4.16
267 268 3.671459 GCCAAGGCGTTGTTTAATAACAC 59.329 43.478 17.23 0.00 43.66 3.32
268 269 3.903360 GCCAAGGCGTTGTTTAATAACA 58.097 40.909 17.23 0.00 42.34 2.41
291 292 1.446907 CTCTCTCCAATGTGTGCCAC 58.553 55.000 0.00 0.00 34.56 5.01
294 297 1.028868 GGCCTCTCTCCAATGTGTGC 61.029 60.000 0.00 0.00 0.00 4.57
295 298 0.325933 TGGCCTCTCTCCAATGTGTG 59.674 55.000 3.32 0.00 0.00 3.82
296 299 0.326264 GTGGCCTCTCTCCAATGTGT 59.674 55.000 3.32 0.00 35.01 3.72
332 335 1.047596 GGATCCTCTGCTCCTGCTCA 61.048 60.000 3.84 0.00 40.48 4.26
345 354 3.553096 GCTCGTGTATTTCATCGGATCCT 60.553 47.826 10.75 0.00 0.00 3.24
354 363 1.134367 CTCCTCCGCTCGTGTATTTCA 59.866 52.381 0.00 0.00 0.00 2.69
355 364 1.536284 CCTCCTCCGCTCGTGTATTTC 60.536 57.143 0.00 0.00 0.00 2.17
359 368 1.748122 GACCTCCTCCGCTCGTGTA 60.748 63.158 0.00 0.00 0.00 2.90
420 429 0.981943 GGAAACTCGAGGGAAGGGAA 59.018 55.000 18.41 0.00 0.00 3.97
421 430 0.116541 AGGAAACTCGAGGGAAGGGA 59.883 55.000 18.41 0.00 32.90 4.20
422 431 0.984995 AAGGAAACTCGAGGGAAGGG 59.015 55.000 18.41 0.00 42.68 3.95
423 432 1.066071 GGAAGGAAACTCGAGGGAAGG 60.066 57.143 18.41 0.00 42.68 3.46
424 433 1.903183 AGGAAGGAAACTCGAGGGAAG 59.097 52.381 18.41 0.00 42.68 3.46
446 455 2.187958 GATGGAAAGGGGGAAAAAGGG 58.812 52.381 0.00 0.00 0.00 3.95
532 542 0.815615 GGGTGGAGATGATTGGCGAC 60.816 60.000 0.00 0.00 0.00 5.19
533 543 0.982852 AGGGTGGAGATGATTGGCGA 60.983 55.000 0.00 0.00 0.00 5.54
534 544 0.533755 GAGGGTGGAGATGATTGGCG 60.534 60.000 0.00 0.00 0.00 5.69
535 545 0.842635 AGAGGGTGGAGATGATTGGC 59.157 55.000 0.00 0.00 0.00 4.52
548 559 0.618968 AGAAGAATGGGCGAGAGGGT 60.619 55.000 0.00 0.00 0.00 4.34
592 603 1.652563 GTTTGGTGGAACGGCAGAC 59.347 57.895 0.00 0.00 38.12 3.51
693 705 1.156322 AGGAGGAGGAGGGAGGAACA 61.156 60.000 0.00 0.00 0.00 3.18
942 962 4.366684 CACCCAACCCCTCCTGGC 62.367 72.222 0.00 0.00 0.00 4.85
944 964 3.661648 CCCACCCAACCCCTCCTG 61.662 72.222 0.00 0.00 0.00 3.86
1035 1055 0.248539 CCTCGAAGTCGGACGAATCC 60.249 60.000 1.89 0.00 42.28 3.01
1144 1164 1.045350 TGCCTCTCCTTGATCCTCCG 61.045 60.000 0.00 0.00 0.00 4.63
1177 1197 3.429141 CAGTTCGGCCTGCTGCAG 61.429 66.667 22.44 22.44 43.89 4.41
1359 1379 2.035449 TCTAATGTTATCCGAGGCACCG 59.965 50.000 0.00 0.00 0.00 4.94
1365 1385 4.747108 CACCAAGCTCTAATGTTATCCGAG 59.253 45.833 0.00 0.00 0.00 4.63
1490 1510 0.463295 ATCCATCAAGCTGTGCTCGG 60.463 55.000 0.00 0.00 38.25 4.63
1755 1775 5.557136 GCGAACATGGTTTCTGATCTTATCG 60.557 44.000 0.00 0.00 0.00 2.92
1865 1885 0.243365 GACGCCATTGTCAATGCCAA 59.757 50.000 18.52 0.00 38.75 4.52
1941 1961 3.422417 TCATACTCGTTACTGCTGCTC 57.578 47.619 0.00 0.00 0.00 4.26
1953 1973 6.421377 TCAAAACCATCAACATCATACTCG 57.579 37.500 0.00 0.00 0.00 4.18
2651 2671 3.045634 TCTCCAGGGACAGAAGTTGAAA 58.954 45.455 0.00 0.00 0.00 2.69
2860 2880 4.994217 AGAGAGAAACAGCTAAGAAACAGC 59.006 41.667 0.00 0.00 39.41 4.40
2861 2881 6.454795 AGAGAGAGAAACAGCTAAGAAACAG 58.545 40.000 0.00 0.00 0.00 3.16
2862 2882 6.412362 AGAGAGAGAAACAGCTAAGAAACA 57.588 37.500 0.00 0.00 0.00 2.83
2863 2883 7.439655 TCAAAGAGAGAGAAACAGCTAAGAAAC 59.560 37.037 0.00 0.00 0.00 2.78
2864 2884 7.500992 TCAAAGAGAGAGAAACAGCTAAGAAA 58.499 34.615 0.00 0.00 0.00 2.52
2865 2885 7.055667 TCAAAGAGAGAGAAACAGCTAAGAA 57.944 36.000 0.00 0.00 0.00 2.52
2866 2886 6.656632 TCAAAGAGAGAGAAACAGCTAAGA 57.343 37.500 0.00 0.00 0.00 2.10
2867 2887 6.928492 AGTTCAAAGAGAGAGAAACAGCTAAG 59.072 38.462 0.00 0.00 0.00 2.18
2868 2888 6.703607 CAGTTCAAAGAGAGAGAAACAGCTAA 59.296 38.462 0.00 0.00 0.00 3.09
2869 2889 6.183360 ACAGTTCAAAGAGAGAGAAACAGCTA 60.183 38.462 0.00 0.00 0.00 3.32
2870 2890 5.055812 CAGTTCAAAGAGAGAGAAACAGCT 58.944 41.667 0.00 0.00 0.00 4.24
2954 2974 4.844349 AACAGAAAGCATAAGAGCCCTA 57.156 40.909 0.00 0.00 34.23 3.53
3052 3072 3.332919 GGCATGCTACAGATGGTATCAG 58.667 50.000 18.92 0.00 32.12 2.90
3774 3794 3.678072 CACTGTGTAACTACCATCAACCG 59.322 47.826 0.00 0.00 38.04 4.44
3775 3795 4.890088 TCACTGTGTAACTACCATCAACC 58.110 43.478 7.79 0.00 38.04 3.77
3802 3822 6.199908 TGTTGTTGTTGTTGTCAAGAAACAAG 59.800 34.615 19.58 0.00 45.49 3.16
3813 3833 4.870426 TGTTGTTGTTGTTGTTGTTGTTGT 59.130 33.333 0.00 0.00 0.00 3.32


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

AutoCloner maintained by Alex Coulton.