Multiple sequence alignment - TraesCS4D01G203000
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 | TraesCS4D01G203000 | chr4D | 100.000 | 2849 | 0 | 0 | 1 | 2849 | 349574669 | 349577517 | 0.000000e+00 | 5262.0 |
1 | TraesCS4D01G203000 | chr4D | 96.875 | 32 | 1 | 0 | 2010 | 2041 | 507889170 | 507889201 | 1.000000e-03 | 54.7 |
2 | TraesCS4D01G203000 | chr4B | 88.945 | 2578 | 110 | 56 | 317 | 2837 | 432822890 | 432825349 | 0.000000e+00 | 3020.0 |
3 | TraesCS4D01G203000 | chr4B | 93.976 | 166 | 4 | 4 | 1 | 160 | 432822728 | 432822893 | 2.190000e-61 | 246.0 |
4 | TraesCS4D01G203000 | chr4B | 96.875 | 32 | 1 | 0 | 2010 | 2041 | 586585394 | 586585425 | 1.000000e-03 | 54.7 |
5 | TraesCS4D01G203000 | chr4A | 92.690 | 1368 | 37 | 24 | 660 | 1996 | 115282859 | 115281524 | 0.000000e+00 | 1914.0 |
6 | TraesCS4D01G203000 | chr4A | 86.056 | 502 | 25 | 16 | 2363 | 2837 | 115281005 | 115280522 | 5.480000e-137 | 497.0 |
7 | TraesCS4D01G203000 | chr4A | 96.319 | 163 | 6 | 0 | 1 | 163 | 115283313 | 115283151 | 4.680000e-68 | 268.0 |
8 | TraesCS4D01G203000 | chr4A | 83.062 | 307 | 32 | 10 | 327 | 629 | 115283149 | 115282859 | 7.830000e-66 | 261.0 |
9 | TraesCS4D01G203000 | chr4A | 77.826 | 230 | 24 | 14 | 2061 | 2278 | 115281257 | 115281043 | 1.790000e-22 | 117.0 |
10 | TraesCS4D01G203000 | chr7D | 95.122 | 164 | 8 | 0 | 157 | 320 | 414094770 | 414094933 | 2.820000e-65 | 259.0 |
11 | TraesCS4D01G203000 | chr3A | 93.333 | 165 | 11 | 0 | 156 | 320 | 523738638 | 523738474 | 7.880000e-61 | 244.0 |
12 | TraesCS4D01G203000 | chr3D | 92.353 | 170 | 13 | 0 | 155 | 324 | 46578038 | 46577869 | 2.840000e-60 | 243.0 |
13 | TraesCS4D01G203000 | chr3D | 92.262 | 168 | 12 | 1 | 153 | 320 | 426479791 | 426479957 | 1.320000e-58 | 237.0 |
14 | TraesCS4D01G203000 | chr6B | 92.814 | 167 | 11 | 1 | 155 | 320 | 601199600 | 601199434 | 1.020000e-59 | 241.0 |
15 | TraesCS4D01G203000 | chr2B | 93.252 | 163 | 11 | 0 | 159 | 321 | 291855168 | 291855006 | 1.020000e-59 | 241.0 |
16 | TraesCS4D01G203000 | chr3B | 92.262 | 168 | 12 | 1 | 153 | 320 | 540174924 | 540175090 | 1.320000e-58 | 237.0 |
17 | TraesCS4D01G203000 | chr3B | 100.000 | 32 | 0 | 0 | 2010 | 2041 | 414494765 | 414494796 | 3.070000e-05 | 60.2 |
18 | TraesCS4D01G203000 | chr5B | 90.164 | 183 | 14 | 4 | 153 | 334 | 474318341 | 474318520 | 4.750000e-58 | 235.0 |
19 | TraesCS4D01G203000 | chr1B | 92.216 | 167 | 12 | 1 | 159 | 325 | 183877361 | 183877196 | 4.750000e-58 | 235.0 |
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 | TraesCS4D01G203000 | chr4D | 349574669 | 349577517 | 2848 | False | 5262.0 | 5262 | 100.0000 | 1 | 2849 | 1 | chr4D.!!$F1 | 2848 |
1 | TraesCS4D01G203000 | chr4B | 432822728 | 432825349 | 2621 | False | 1633.0 | 3020 | 91.4605 | 1 | 2837 | 2 | chr4B.!!$F2 | 2836 |
2 | TraesCS4D01G203000 | chr4A | 115280522 | 115283313 | 2791 | True | 611.4 | 1914 | 87.1906 | 1 | 2837 | 5 | chr4A.!!$R1 | 2836 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
668 | 691 | 0.516877 | CAGCACACATACAACCACGG | 59.483 | 55.0 | 0.0 | 0.0 | 0.0 | 4.94 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2215 | 2534 | 0.108329 | ACCACTAAATGAGCGACCGG | 60.108 | 55.0 | 0.0 | 0.0 | 0.0 | 5.28 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
47 | 48 | 5.066593 | GGAAAGAAGAAAAGAAGCTCTCCA | 58.933 | 41.667 | 0.00 | 0.00 | 0.00 | 3.86 |
54 | 55 | 2.869101 | AAGAAGCTCTCCACCCTTTC | 57.131 | 50.000 | 0.00 | 0.00 | 0.00 | 2.62 |
164 | 171 | 9.939802 | TTTCTTCAAAGAGTAAATAGTACTCCC | 57.060 | 33.333 | 0.00 | 0.00 | 43.61 | 4.30 |
165 | 172 | 8.896722 | TCTTCAAAGAGTAAATAGTACTCCCT | 57.103 | 34.615 | 0.00 | 0.00 | 43.61 | 4.20 |
166 | 173 | 8.968969 | TCTTCAAAGAGTAAATAGTACTCCCTC | 58.031 | 37.037 | 0.00 | 0.00 | 43.61 | 4.30 |
167 | 174 | 7.657023 | TCAAAGAGTAAATAGTACTCCCTCC | 57.343 | 40.000 | 0.00 | 0.00 | 43.61 | 4.30 |
168 | 175 | 6.320672 | TCAAAGAGTAAATAGTACTCCCTCCG | 59.679 | 42.308 | 0.00 | 0.00 | 43.61 | 4.63 |
169 | 176 | 5.385628 | AGAGTAAATAGTACTCCCTCCGT | 57.614 | 43.478 | 0.00 | 0.00 | 43.61 | 4.69 |
170 | 177 | 5.764432 | AGAGTAAATAGTACTCCCTCCGTT | 58.236 | 41.667 | 0.00 | 0.00 | 43.61 | 4.44 |
171 | 178 | 5.827267 | AGAGTAAATAGTACTCCCTCCGTTC | 59.173 | 44.000 | 0.00 | 0.00 | 43.61 | 3.95 |
172 | 179 | 4.892345 | AGTAAATAGTACTCCCTCCGTTCC | 59.108 | 45.833 | 0.00 | 0.00 | 0.00 | 3.62 |
173 | 180 | 3.684408 | AATAGTACTCCCTCCGTTCCT | 57.316 | 47.619 | 0.00 | 0.00 | 0.00 | 3.36 |
174 | 181 | 4.803329 | AATAGTACTCCCTCCGTTCCTA | 57.197 | 45.455 | 0.00 | 0.00 | 0.00 | 2.94 |
175 | 182 | 4.803329 | ATAGTACTCCCTCCGTTCCTAA | 57.197 | 45.455 | 0.00 | 0.00 | 0.00 | 2.69 |
176 | 183 | 3.463048 | AGTACTCCCTCCGTTCCTAAA | 57.537 | 47.619 | 0.00 | 0.00 | 0.00 | 1.85 |
177 | 184 | 3.991683 | AGTACTCCCTCCGTTCCTAAAT | 58.008 | 45.455 | 0.00 | 0.00 | 0.00 | 1.40 |
178 | 185 | 5.134725 | AGTACTCCCTCCGTTCCTAAATA | 57.865 | 43.478 | 0.00 | 0.00 | 0.00 | 1.40 |
179 | 186 | 5.713807 | AGTACTCCCTCCGTTCCTAAATAT | 58.286 | 41.667 | 0.00 | 0.00 | 0.00 | 1.28 |
180 | 187 | 6.856757 | AGTACTCCCTCCGTTCCTAAATATA | 58.143 | 40.000 | 0.00 | 0.00 | 0.00 | 0.86 |
181 | 188 | 7.300658 | AGTACTCCCTCCGTTCCTAAATATAA | 58.699 | 38.462 | 0.00 | 0.00 | 0.00 | 0.98 |
182 | 189 | 6.667558 | ACTCCCTCCGTTCCTAAATATAAG | 57.332 | 41.667 | 0.00 | 0.00 | 0.00 | 1.73 |
183 | 190 | 6.141790 | ACTCCCTCCGTTCCTAAATATAAGT | 58.858 | 40.000 | 0.00 | 0.00 | 0.00 | 2.24 |
184 | 191 | 6.267242 | ACTCCCTCCGTTCCTAAATATAAGTC | 59.733 | 42.308 | 0.00 | 0.00 | 0.00 | 3.01 |
185 | 192 | 6.379579 | TCCCTCCGTTCCTAAATATAAGTCT | 58.620 | 40.000 | 0.00 | 0.00 | 0.00 | 3.24 |
186 | 193 | 6.842807 | TCCCTCCGTTCCTAAATATAAGTCTT | 59.157 | 38.462 | 0.00 | 0.00 | 0.00 | 3.01 |
187 | 194 | 7.346436 | TCCCTCCGTTCCTAAATATAAGTCTTT | 59.654 | 37.037 | 0.00 | 0.00 | 0.00 | 2.52 |
188 | 195 | 7.441458 | CCCTCCGTTCCTAAATATAAGTCTTTG | 59.559 | 40.741 | 0.00 | 0.00 | 0.00 | 2.77 |
189 | 196 | 7.985752 | CCTCCGTTCCTAAATATAAGTCTTTGT | 59.014 | 37.037 | 0.00 | 0.00 | 0.00 | 2.83 |
192 | 199 | 8.762426 | CCGTTCCTAAATATAAGTCTTTGTAGC | 58.238 | 37.037 | 0.00 | 0.00 | 0.00 | 3.58 |
193 | 200 | 9.309516 | CGTTCCTAAATATAAGTCTTTGTAGCA | 57.690 | 33.333 | 0.00 | 0.00 | 0.00 | 3.49 |
201 | 208 | 9.686683 | AATATAAGTCTTTGTAGCAATTCCACT | 57.313 | 29.630 | 0.00 | 0.00 | 0.00 | 4.00 |
205 | 212 | 8.723942 | AAGTCTTTGTAGCAATTCCACTATAG | 57.276 | 34.615 | 0.00 | 0.00 | 0.00 | 1.31 |
206 | 213 | 8.079211 | AGTCTTTGTAGCAATTCCACTATAGA | 57.921 | 34.615 | 6.78 | 0.00 | 0.00 | 1.98 |
207 | 214 | 7.982354 | AGTCTTTGTAGCAATTCCACTATAGAC | 59.018 | 37.037 | 6.78 | 0.00 | 31.41 | 2.59 |
208 | 215 | 7.224949 | GTCTTTGTAGCAATTCCACTATAGACC | 59.775 | 40.741 | 6.78 | 0.00 | 0.00 | 3.85 |
209 | 216 | 6.553953 | TTGTAGCAATTCCACTATAGACCA | 57.446 | 37.500 | 6.78 | 0.00 | 0.00 | 4.02 |
210 | 217 | 5.914033 | TGTAGCAATTCCACTATAGACCAC | 58.086 | 41.667 | 6.78 | 0.00 | 0.00 | 4.16 |
211 | 218 | 5.423931 | TGTAGCAATTCCACTATAGACCACA | 59.576 | 40.000 | 6.78 | 0.00 | 0.00 | 4.17 |
212 | 219 | 5.636903 | AGCAATTCCACTATAGACCACAT | 57.363 | 39.130 | 6.78 | 0.00 | 0.00 | 3.21 |
213 | 220 | 6.747414 | AGCAATTCCACTATAGACCACATA | 57.253 | 37.500 | 6.78 | 0.00 | 0.00 | 2.29 |
214 | 221 | 6.525629 | AGCAATTCCACTATAGACCACATAC | 58.474 | 40.000 | 6.78 | 0.00 | 0.00 | 2.39 |
215 | 222 | 5.405571 | GCAATTCCACTATAGACCACATACG | 59.594 | 44.000 | 6.78 | 0.00 | 0.00 | 3.06 |
216 | 223 | 5.723672 | ATTCCACTATAGACCACATACGG | 57.276 | 43.478 | 6.78 | 0.00 | 0.00 | 4.02 |
217 | 224 | 4.442401 | TCCACTATAGACCACATACGGA | 57.558 | 45.455 | 6.78 | 0.00 | 0.00 | 4.69 |
218 | 225 | 4.994282 | TCCACTATAGACCACATACGGAT | 58.006 | 43.478 | 6.78 | 0.00 | 0.00 | 4.18 |
219 | 226 | 4.765339 | TCCACTATAGACCACATACGGATG | 59.235 | 45.833 | 5.94 | 5.94 | 39.16 | 3.51 |
221 | 228 | 5.708697 | CCACTATAGACCACATACGGATGTA | 59.291 | 44.000 | 14.23 | 0.00 | 44.82 | 2.29 |
222 | 229 | 6.377429 | CCACTATAGACCACATACGGATGTAT | 59.623 | 42.308 | 14.23 | 4.48 | 44.82 | 2.29 |
223 | 230 | 7.555195 | CCACTATAGACCACATACGGATGTATA | 59.445 | 40.741 | 14.23 | 6.48 | 44.82 | 1.47 |
224 | 231 | 9.121658 | CACTATAGACCACATACGGATGTATAT | 57.878 | 37.037 | 14.23 | 11.61 | 44.82 | 0.86 |
229 | 236 | 8.226819 | AGACCACATACGGATGTATATAGATG | 57.773 | 38.462 | 14.23 | 0.00 | 44.82 | 2.90 |
230 | 237 | 6.806751 | ACCACATACGGATGTATATAGATGC | 58.193 | 40.000 | 14.23 | 0.00 | 44.82 | 3.91 |
231 | 238 | 6.379988 | ACCACATACGGATGTATATAGATGCA | 59.620 | 38.462 | 14.23 | 0.00 | 44.82 | 3.96 |
232 | 239 | 7.069950 | ACCACATACGGATGTATATAGATGCAT | 59.930 | 37.037 | 14.23 | 0.00 | 44.82 | 3.96 |
233 | 240 | 7.928167 | CCACATACGGATGTATATAGATGCATT | 59.072 | 37.037 | 14.23 | 1.23 | 44.82 | 3.56 |
234 | 241 | 9.317936 | CACATACGGATGTATATAGATGCATTT | 57.682 | 33.333 | 14.23 | 0.00 | 44.82 | 2.32 |
235 | 242 | 9.890629 | ACATACGGATGTATATAGATGCATTTT | 57.109 | 29.630 | 12.79 | 0.00 | 44.77 | 1.82 |
239 | 246 | 9.809096 | ACGGATGTATATAGATGCATTTTAGAG | 57.191 | 33.333 | 11.19 | 0.00 | 38.38 | 2.43 |
240 | 247 | 9.809096 | CGGATGTATATAGATGCATTTTAGAGT | 57.191 | 33.333 | 11.19 | 0.00 | 38.38 | 3.24 |
251 | 258 | 9.624373 | AGATGCATTTTAGAGTGTAGATTCATT | 57.376 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
252 | 259 | 9.875675 | GATGCATTTTAGAGTGTAGATTCATTC | 57.124 | 33.333 | 0.00 | 0.00 | 0.00 | 2.67 |
253 | 260 | 8.791327 | TGCATTTTAGAGTGTAGATTCATTCA | 57.209 | 30.769 | 0.00 | 0.00 | 0.00 | 2.57 |
254 | 261 | 9.399797 | TGCATTTTAGAGTGTAGATTCATTCAT | 57.600 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
262 | 269 | 8.734386 | AGAGTGTAGATTCATTCATTTTGTTCC | 58.266 | 33.333 | 0.00 | 0.00 | 0.00 | 3.62 |
263 | 270 | 7.530010 | AGTGTAGATTCATTCATTTTGTTCCG | 58.470 | 34.615 | 0.00 | 0.00 | 0.00 | 4.30 |
264 | 271 | 7.174946 | AGTGTAGATTCATTCATTTTGTTCCGT | 59.825 | 33.333 | 0.00 | 0.00 | 0.00 | 4.69 |
265 | 272 | 8.447833 | GTGTAGATTCATTCATTTTGTTCCGTA | 58.552 | 33.333 | 0.00 | 0.00 | 0.00 | 4.02 |
266 | 273 | 9.173021 | TGTAGATTCATTCATTTTGTTCCGTAT | 57.827 | 29.630 | 0.00 | 0.00 | 0.00 | 3.06 |
267 | 274 | 9.438291 | GTAGATTCATTCATTTTGTTCCGTATG | 57.562 | 33.333 | 0.00 | 0.00 | 0.00 | 2.39 |
268 | 275 | 8.055279 | AGATTCATTCATTTTGTTCCGTATGT | 57.945 | 30.769 | 0.00 | 0.00 | 0.00 | 2.29 |
269 | 276 | 9.173021 | AGATTCATTCATTTTGTTCCGTATGTA | 57.827 | 29.630 | 0.00 | 0.00 | 0.00 | 2.29 |
270 | 277 | 9.438291 | GATTCATTCATTTTGTTCCGTATGTAG | 57.562 | 33.333 | 0.00 | 0.00 | 0.00 | 2.74 |
271 | 278 | 7.915293 | TCATTCATTTTGTTCCGTATGTAGT | 57.085 | 32.000 | 0.00 | 0.00 | 0.00 | 2.73 |
272 | 279 | 8.330466 | TCATTCATTTTGTTCCGTATGTAGTT | 57.670 | 30.769 | 0.00 | 0.00 | 0.00 | 2.24 |
273 | 280 | 8.788806 | TCATTCATTTTGTTCCGTATGTAGTTT | 58.211 | 29.630 | 0.00 | 0.00 | 0.00 | 2.66 |
280 | 287 | 9.926158 | TTTTGTTCCGTATGTAGTTTATAGTGA | 57.074 | 29.630 | 0.00 | 0.00 | 0.00 | 3.41 |
281 | 288 | 9.926158 | TTTGTTCCGTATGTAGTTTATAGTGAA | 57.074 | 29.630 | 0.00 | 0.00 | 0.00 | 3.18 |
282 | 289 | 9.926158 | TTGTTCCGTATGTAGTTTATAGTGAAA | 57.074 | 29.630 | 0.00 | 0.00 | 0.00 | 2.69 |
428 | 436 | 4.731773 | GCACTGGTAGCTTTATTCATGCAC | 60.732 | 45.833 | 0.00 | 0.00 | 0.00 | 4.57 |
484 | 507 | 5.221581 | ACCCTACTACCTTTGGCAATATACG | 60.222 | 44.000 | 0.00 | 0.00 | 0.00 | 3.06 |
491 | 514 | 1.021202 | TTGGCAATATACGCAGGCAC | 58.979 | 50.000 | 0.00 | 0.00 | 36.22 | 5.01 |
514 | 537 | 7.466996 | GCACGAGTACATACATCTAGTTACTGT | 60.467 | 40.741 | 0.00 | 0.00 | 0.00 | 3.55 |
515 | 538 | 8.396390 | CACGAGTACATACATCTAGTTACTGTT | 58.604 | 37.037 | 0.00 | 0.00 | 0.00 | 3.16 |
553 | 576 | 3.990318 | AGTTACTGTTTGCTTTGCTCC | 57.010 | 42.857 | 0.00 | 0.00 | 0.00 | 4.70 |
582 | 605 | 4.906423 | AGCGTGAATTGTACTCTACTACG | 58.094 | 43.478 | 0.00 | 0.00 | 0.00 | 3.51 |
583 | 606 | 4.394300 | AGCGTGAATTGTACTCTACTACGT | 59.606 | 41.667 | 0.00 | 0.00 | 0.00 | 3.57 |
584 | 607 | 5.582269 | AGCGTGAATTGTACTCTACTACGTA | 59.418 | 40.000 | 0.00 | 0.00 | 0.00 | 3.57 |
585 | 608 | 5.674580 | GCGTGAATTGTACTCTACTACGTAC | 59.325 | 44.000 | 0.00 | 0.00 | 37.19 | 3.67 |
635 | 658 | 7.941795 | AGTGTACTACAACTTCAATACACAC | 57.058 | 36.000 | 13.17 | 0.00 | 43.03 | 3.82 |
650 | 673 | 5.748670 | ATACACACCCACATAACAGTACA | 57.251 | 39.130 | 0.00 | 0.00 | 0.00 | 2.90 |
664 | 687 | 3.399330 | ACAGTACAGCACACATACAACC | 58.601 | 45.455 | 0.00 | 0.00 | 0.00 | 3.77 |
668 | 691 | 0.516877 | CAGCACACATACAACCACGG | 59.483 | 55.000 | 0.00 | 0.00 | 0.00 | 4.94 |
695 | 718 | 5.922960 | AGGTCATCTGATCTACTAGGAGT | 57.077 | 43.478 | 0.78 | 0.00 | 32.86 | 3.85 |
732 | 756 | 1.401552 | GAGTGAGCACAACTGCACAAA | 59.598 | 47.619 | 3.19 | 0.00 | 44.37 | 2.83 |
743 | 767 | 2.233271 | ACTGCACAAAGACAATCCCTG | 58.767 | 47.619 | 0.00 | 0.00 | 0.00 | 4.45 |
823 | 851 | 2.749621 | CTGTTTTCTTGGATTCCTCCCG | 59.250 | 50.000 | 3.95 | 0.00 | 41.29 | 5.14 |
928 | 956 | 3.536434 | TCCTCTATTAACTCACTCCCCCT | 59.464 | 47.826 | 0.00 | 0.00 | 0.00 | 4.79 |
958 | 986 | 4.287781 | TTGCGACCGTCGGAGCAA | 62.288 | 61.111 | 31.89 | 31.89 | 42.14 | 3.91 |
1425 | 1468 | 2.915659 | ACCTGGTGCTCCGACGAA | 60.916 | 61.111 | 0.00 | 0.00 | 36.30 | 3.85 |
1911 | 1971 | 5.467063 | TGTAGTACGTGTGCATGAAAAATGA | 59.533 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
1978 | 2272 | 2.755836 | ATTGCATTATCGGCGTCAAC | 57.244 | 45.000 | 6.85 | 0.00 | 0.00 | 3.18 |
1982 | 2276 | 2.799978 | TGCATTATCGGCGTCAACTATG | 59.200 | 45.455 | 6.85 | 4.98 | 0.00 | 2.23 |
1984 | 2278 | 3.985279 | GCATTATCGGCGTCAACTATGTA | 59.015 | 43.478 | 6.85 | 0.00 | 0.00 | 2.29 |
1991 | 2285 | 3.000925 | CGGCGTCAACTATGTATGTTTCC | 59.999 | 47.826 | 0.00 | 0.00 | 0.00 | 3.13 |
1993 | 2287 | 4.270325 | GGCGTCAACTATGTATGTTTCCTC | 59.730 | 45.833 | 0.00 | 0.00 | 0.00 | 3.71 |
2004 | 2298 | 1.497991 | TGTTTCCTCTTCTTCGCGTG | 58.502 | 50.000 | 5.77 | 0.00 | 0.00 | 5.34 |
2005 | 2299 | 1.202486 | TGTTTCCTCTTCTTCGCGTGT | 60.202 | 47.619 | 5.77 | 0.00 | 0.00 | 4.49 |
2006 | 2300 | 1.456165 | GTTTCCTCTTCTTCGCGTGTC | 59.544 | 52.381 | 5.77 | 0.00 | 0.00 | 3.67 |
2007 | 2301 | 0.959553 | TTCCTCTTCTTCGCGTGTCT | 59.040 | 50.000 | 5.77 | 0.00 | 0.00 | 3.41 |
2008 | 2302 | 1.817357 | TCCTCTTCTTCGCGTGTCTA | 58.183 | 50.000 | 5.77 | 0.00 | 0.00 | 2.59 |
2015 | 2309 | 0.377554 | CTTCGCGTGTCTATCCGTCT | 59.622 | 55.000 | 5.77 | 0.00 | 0.00 | 4.18 |
2024 | 2318 | 5.462398 | GCGTGTCTATCCGTCTCAAAATAAT | 59.538 | 40.000 | 0.00 | 0.00 | 0.00 | 1.28 |
2029 | 2323 | 8.258007 | TGTCTATCCGTCTCAAAATAATTGTCT | 58.742 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
2033 | 2327 | 7.129109 | TCCGTCTCAAAATAATTGTCTCAAC | 57.871 | 36.000 | 0.00 | 0.00 | 0.00 | 3.18 |
2048 | 2343 | 6.241207 | TGTCTCAACTTTATACAAAGCAGC | 57.759 | 37.500 | 0.00 | 0.00 | 44.27 | 5.25 |
2050 | 2345 | 6.430925 | TGTCTCAACTTTATACAAAGCAGCAT | 59.569 | 34.615 | 0.00 | 0.00 | 44.27 | 3.79 |
2054 | 2349 | 9.624697 | CTCAACTTTATACAAAGCAGCATAAAA | 57.375 | 29.630 | 0.00 | 0.00 | 44.27 | 1.52 |
2202 | 2521 | 0.889186 | AAGTGCCGGTCGCTCATTTT | 60.889 | 50.000 | 1.90 | 0.00 | 38.78 | 1.82 |
2203 | 2522 | 0.889186 | AGTGCCGGTCGCTCATTTTT | 60.889 | 50.000 | 1.90 | 0.00 | 38.78 | 1.94 |
2221 | 2540 | 2.281900 | TTTTTGAGGGGCCGGTCG | 60.282 | 61.111 | 1.90 | 0.00 | 0.00 | 4.79 |
2228 | 2547 | 4.796495 | GGGGCCGGTCGCTCATTT | 62.796 | 66.667 | 17.03 | 0.00 | 41.20 | 2.32 |
2246 | 2565 | 5.437060 | TCATTTAGTGGTGATTAAGGAGGC | 58.563 | 41.667 | 0.00 | 0.00 | 0.00 | 4.70 |
2344 | 2687 | 0.999406 | CGGGAACACGAGCTGTATTG | 59.001 | 55.000 | 0.00 | 0.00 | 35.47 | 1.90 |
2354 | 2697 | 2.409715 | CGAGCTGTATTGCGATATGTGG | 59.590 | 50.000 | 0.00 | 0.00 | 38.13 | 4.17 |
2397 | 2740 | 0.391395 | GCTGCTGATCTGCTGTGACT | 60.391 | 55.000 | 25.05 | 0.00 | 36.79 | 3.41 |
2416 | 2759 | 1.339929 | CTCCAAAACAAAACCTCCCGG | 59.660 | 52.381 | 0.00 | 0.00 | 0.00 | 5.73 |
2457 | 2802 | 2.120232 | CGATGTGTTGGAGTATCTCGC | 58.880 | 52.381 | 0.00 | 0.00 | 33.73 | 5.03 |
2610 | 2975 | 4.104417 | GCGCGAGGTGAGACGAGT | 62.104 | 66.667 | 12.10 | 0.00 | 0.00 | 4.18 |
2644 | 3012 | 3.542676 | AACCACCCGCACTCGTGA | 61.543 | 61.111 | 0.39 | 0.00 | 31.36 | 4.35 |
2645 | 3013 | 3.515316 | AACCACCCGCACTCGTGAG | 62.515 | 63.158 | 0.39 | 0.00 | 31.36 | 3.51 |
2650 | 3028 | 4.803426 | CCGCACTCGTGAGCCTCC | 62.803 | 72.222 | 0.39 | 0.00 | 0.00 | 4.30 |
2662 | 3040 | 2.740055 | GCCTCCTGCTGTGTCGTG | 60.740 | 66.667 | 0.00 | 0.00 | 36.87 | 4.35 |
2670 | 3048 | 4.329545 | CTGTGTCGTGGGGGTGGG | 62.330 | 72.222 | 0.00 | 0.00 | 0.00 | 4.61 |
2788 | 3170 | 0.456221 | CAGGCAGTACCACTCCTACG | 59.544 | 60.000 | 0.00 | 0.00 | 43.14 | 3.51 |
2820 | 3202 | 4.074970 | TCTTCATTCTTGCTTTGACCTCC | 58.925 | 43.478 | 0.00 | 0.00 | 0.00 | 4.30 |
2821 | 3203 | 3.795688 | TCATTCTTGCTTTGACCTCCT | 57.204 | 42.857 | 0.00 | 0.00 | 0.00 | 3.69 |
2822 | 3204 | 3.679389 | TCATTCTTGCTTTGACCTCCTC | 58.321 | 45.455 | 0.00 | 0.00 | 0.00 | 3.71 |
2823 | 3205 | 2.568623 | TTCTTGCTTTGACCTCCTCC | 57.431 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
2837 | 3219 | 2.281345 | CTCCCCTGATGCGATGCC | 60.281 | 66.667 | 0.00 | 0.00 | 0.00 | 4.40 |
2838 | 3220 | 3.089217 | TCCCCTGATGCGATGCCA | 61.089 | 61.111 | 0.00 | 0.00 | 0.00 | 4.92 |
2839 | 3221 | 2.114625 | CCCCTGATGCGATGCCAT | 59.885 | 61.111 | 0.00 | 0.00 | 0.00 | 4.40 |
2840 | 3222 | 2.265904 | CCCCTGATGCGATGCCATG | 61.266 | 63.158 | 0.00 | 0.00 | 0.00 | 3.66 |
2841 | 3223 | 2.643272 | CCTGATGCGATGCCATGC | 59.357 | 61.111 | 0.00 | 0.00 | 0.00 | 4.06 |
2842 | 3224 | 2.643272 | CTGATGCGATGCCATGCC | 59.357 | 61.111 | 0.00 | 0.00 | 0.00 | 4.40 |
2843 | 3225 | 2.124236 | TGATGCGATGCCATGCCA | 60.124 | 55.556 | 0.00 | 0.00 | 0.00 | 4.92 |
2844 | 3226 | 1.524008 | CTGATGCGATGCCATGCCAT | 61.524 | 55.000 | 0.00 | 0.00 | 0.00 | 4.40 |
2845 | 3227 | 1.080772 | GATGCGATGCCATGCCATG | 60.081 | 57.895 | 0.00 | 0.00 | 0.00 | 3.66 |
2846 | 3228 | 3.220999 | ATGCGATGCCATGCCATGC | 62.221 | 57.895 | 0.00 | 0.00 | 0.00 | 4.06 |
2847 | 3229 | 4.994201 | GCGATGCCATGCCATGCG | 62.994 | 66.667 | 0.00 | 0.00 | 0.00 | 4.73 |
2848 | 3230 | 3.281395 | CGATGCCATGCCATGCGA | 61.281 | 61.111 | 0.00 | 0.00 | 0.00 | 5.10 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
17 | 18 | 8.876303 | AGCTTCTTTTCTTCTTTCCATTATCT | 57.124 | 30.769 | 0.00 | 0.00 | 0.00 | 1.98 |
121 | 128 | 5.122239 | TGAAGAAAAAGAGCACGTATGGATG | 59.878 | 40.000 | 0.00 | 0.00 | 0.00 | 3.51 |
160 | 167 | 6.494146 | AGACTTATATTTAGGAACGGAGGGAG | 59.506 | 42.308 | 0.00 | 0.00 | 0.00 | 4.30 |
163 | 170 | 7.985752 | ACAAAGACTTATATTTAGGAACGGAGG | 59.014 | 37.037 | 0.00 | 0.00 | 0.00 | 4.30 |
164 | 171 | 8.943909 | ACAAAGACTTATATTTAGGAACGGAG | 57.056 | 34.615 | 0.00 | 0.00 | 0.00 | 4.63 |
166 | 173 | 8.762426 | GCTACAAAGACTTATATTTAGGAACGG | 58.238 | 37.037 | 0.00 | 0.00 | 0.00 | 4.44 |
167 | 174 | 9.309516 | TGCTACAAAGACTTATATTTAGGAACG | 57.690 | 33.333 | 0.00 | 0.00 | 0.00 | 3.95 |
175 | 182 | 9.686683 | AGTGGAATTGCTACAAAGACTTATATT | 57.313 | 29.630 | 0.00 | 0.00 | 0.00 | 1.28 |
179 | 186 | 9.817809 | CTATAGTGGAATTGCTACAAAGACTTA | 57.182 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
180 | 187 | 8.540388 | TCTATAGTGGAATTGCTACAAAGACTT | 58.460 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
181 | 188 | 7.982354 | GTCTATAGTGGAATTGCTACAAAGACT | 59.018 | 37.037 | 0.00 | 0.00 | 34.01 | 3.24 |
182 | 189 | 7.224949 | GGTCTATAGTGGAATTGCTACAAAGAC | 59.775 | 40.741 | 0.00 | 6.22 | 35.01 | 3.01 |
183 | 190 | 7.093068 | TGGTCTATAGTGGAATTGCTACAAAGA | 60.093 | 37.037 | 0.00 | 0.00 | 0.00 | 2.52 |
184 | 191 | 7.011482 | GTGGTCTATAGTGGAATTGCTACAAAG | 59.989 | 40.741 | 0.00 | 0.00 | 0.00 | 2.77 |
185 | 192 | 6.821665 | GTGGTCTATAGTGGAATTGCTACAAA | 59.178 | 38.462 | 0.00 | 0.00 | 0.00 | 2.83 |
186 | 193 | 6.070481 | TGTGGTCTATAGTGGAATTGCTACAA | 60.070 | 38.462 | 0.00 | 0.00 | 0.00 | 2.41 |
187 | 194 | 5.423931 | TGTGGTCTATAGTGGAATTGCTACA | 59.576 | 40.000 | 0.00 | 0.00 | 0.00 | 2.74 |
188 | 195 | 5.914033 | TGTGGTCTATAGTGGAATTGCTAC | 58.086 | 41.667 | 0.00 | 0.00 | 0.00 | 3.58 |
189 | 196 | 6.747414 | ATGTGGTCTATAGTGGAATTGCTA | 57.253 | 37.500 | 0.00 | 0.00 | 0.00 | 3.49 |
190 | 197 | 5.636903 | ATGTGGTCTATAGTGGAATTGCT | 57.363 | 39.130 | 0.00 | 0.00 | 0.00 | 3.91 |
191 | 198 | 5.405571 | CGTATGTGGTCTATAGTGGAATTGC | 59.594 | 44.000 | 0.00 | 0.00 | 0.00 | 3.56 |
192 | 199 | 5.926542 | CCGTATGTGGTCTATAGTGGAATTG | 59.073 | 44.000 | 0.00 | 0.00 | 0.00 | 2.32 |
193 | 200 | 5.836898 | TCCGTATGTGGTCTATAGTGGAATT | 59.163 | 40.000 | 0.00 | 0.00 | 0.00 | 2.17 |
194 | 201 | 5.391256 | TCCGTATGTGGTCTATAGTGGAAT | 58.609 | 41.667 | 0.00 | 0.00 | 0.00 | 3.01 |
195 | 202 | 4.795469 | TCCGTATGTGGTCTATAGTGGAA | 58.205 | 43.478 | 0.00 | 0.00 | 0.00 | 3.53 |
196 | 203 | 4.442401 | TCCGTATGTGGTCTATAGTGGA | 57.558 | 45.455 | 0.00 | 0.00 | 0.00 | 4.02 |
197 | 204 | 4.523173 | ACATCCGTATGTGGTCTATAGTGG | 59.477 | 45.833 | 0.00 | 0.00 | 44.79 | 4.00 |
198 | 205 | 5.707242 | ACATCCGTATGTGGTCTATAGTG | 57.293 | 43.478 | 0.00 | 0.00 | 44.79 | 2.74 |
203 | 210 | 9.338622 | CATCTATATACATCCGTATGTGGTCTA | 57.661 | 37.037 | 3.56 | 0.00 | 45.99 | 2.59 |
204 | 211 | 7.201830 | GCATCTATATACATCCGTATGTGGTCT | 60.202 | 40.741 | 3.56 | 0.00 | 45.99 | 3.85 |
205 | 212 | 6.918569 | GCATCTATATACATCCGTATGTGGTC | 59.081 | 42.308 | 3.56 | 0.00 | 45.99 | 4.02 |
206 | 213 | 6.379988 | TGCATCTATATACATCCGTATGTGGT | 59.620 | 38.462 | 3.56 | 0.00 | 45.99 | 4.16 |
207 | 214 | 6.805713 | TGCATCTATATACATCCGTATGTGG | 58.194 | 40.000 | 3.56 | 0.00 | 45.99 | 4.17 |
208 | 215 | 8.877808 | AATGCATCTATATACATCCGTATGTG | 57.122 | 34.615 | 3.56 | 0.00 | 45.99 | 3.21 |
213 | 220 | 9.809096 | CTCTAAAATGCATCTATATACATCCGT | 57.191 | 33.333 | 0.00 | 0.00 | 0.00 | 4.69 |
214 | 221 | 9.809096 | ACTCTAAAATGCATCTATATACATCCG | 57.191 | 33.333 | 0.00 | 0.00 | 0.00 | 4.18 |
225 | 232 | 9.624373 | AATGAATCTACACTCTAAAATGCATCT | 57.376 | 29.630 | 0.00 | 0.00 | 0.00 | 2.90 |
226 | 233 | 9.875675 | GAATGAATCTACACTCTAAAATGCATC | 57.124 | 33.333 | 0.00 | 0.00 | 0.00 | 3.91 |
227 | 234 | 9.399797 | TGAATGAATCTACACTCTAAAATGCAT | 57.600 | 29.630 | 0.00 | 0.00 | 0.00 | 3.96 |
228 | 235 | 8.791327 | TGAATGAATCTACACTCTAAAATGCA | 57.209 | 30.769 | 0.00 | 0.00 | 0.00 | 3.96 |
236 | 243 | 8.734386 | GGAACAAAATGAATGAATCTACACTCT | 58.266 | 33.333 | 0.00 | 0.00 | 0.00 | 3.24 |
237 | 244 | 7.693951 | CGGAACAAAATGAATGAATCTACACTC | 59.306 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
238 | 245 | 7.174946 | ACGGAACAAAATGAATGAATCTACACT | 59.825 | 33.333 | 0.00 | 0.00 | 0.00 | 3.55 |
239 | 246 | 7.305474 | ACGGAACAAAATGAATGAATCTACAC | 58.695 | 34.615 | 0.00 | 0.00 | 0.00 | 2.90 |
240 | 247 | 7.447374 | ACGGAACAAAATGAATGAATCTACA | 57.553 | 32.000 | 0.00 | 0.00 | 0.00 | 2.74 |
241 | 248 | 9.438291 | CATACGGAACAAAATGAATGAATCTAC | 57.562 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
242 | 249 | 9.173021 | ACATACGGAACAAAATGAATGAATCTA | 57.827 | 29.630 | 0.00 | 0.00 | 0.00 | 1.98 |
243 | 250 | 8.055279 | ACATACGGAACAAAATGAATGAATCT | 57.945 | 30.769 | 0.00 | 0.00 | 0.00 | 2.40 |
244 | 251 | 9.438291 | CTACATACGGAACAAAATGAATGAATC | 57.562 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
245 | 252 | 8.956426 | ACTACATACGGAACAAAATGAATGAAT | 58.044 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
246 | 253 | 8.330466 | ACTACATACGGAACAAAATGAATGAA | 57.670 | 30.769 | 0.00 | 0.00 | 0.00 | 2.57 |
247 | 254 | 7.915293 | ACTACATACGGAACAAAATGAATGA | 57.085 | 32.000 | 0.00 | 0.00 | 0.00 | 2.57 |
248 | 255 | 8.964420 | AAACTACATACGGAACAAAATGAATG | 57.036 | 30.769 | 0.00 | 0.00 | 0.00 | 2.67 |
254 | 261 | 9.926158 | TCACTATAAACTACATACGGAACAAAA | 57.074 | 29.630 | 0.00 | 0.00 | 0.00 | 2.44 |
255 | 262 | 9.926158 | TTCACTATAAACTACATACGGAACAAA | 57.074 | 29.630 | 0.00 | 0.00 | 0.00 | 2.83 |
256 | 263 | 9.926158 | TTTCACTATAAACTACATACGGAACAA | 57.074 | 29.630 | 0.00 | 0.00 | 0.00 | 2.83 |
295 | 302 | 9.257651 | CGTACTCCCTTTGTTCCTAAATATAAG | 57.742 | 37.037 | 0.00 | 0.00 | 0.00 | 1.73 |
296 | 303 | 8.761689 | ACGTACTCCCTTTGTTCCTAAATATAA | 58.238 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
297 | 304 | 8.310122 | ACGTACTCCCTTTGTTCCTAAATATA | 57.690 | 34.615 | 0.00 | 0.00 | 0.00 | 0.86 |
298 | 305 | 7.191593 | ACGTACTCCCTTTGTTCCTAAATAT | 57.808 | 36.000 | 0.00 | 0.00 | 0.00 | 1.28 |
299 | 306 | 6.610075 | ACGTACTCCCTTTGTTCCTAAATA | 57.390 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
300 | 307 | 5.494390 | ACGTACTCCCTTTGTTCCTAAAT | 57.506 | 39.130 | 0.00 | 0.00 | 0.00 | 1.40 |
301 | 308 | 4.961438 | ACGTACTCCCTTTGTTCCTAAA | 57.039 | 40.909 | 0.00 | 0.00 | 0.00 | 1.85 |
302 | 309 | 4.082787 | CGTACGTACTCCCTTTGTTCCTAA | 60.083 | 45.833 | 22.55 | 0.00 | 0.00 | 2.69 |
303 | 310 | 3.440173 | CGTACGTACTCCCTTTGTTCCTA | 59.560 | 47.826 | 22.55 | 0.00 | 0.00 | 2.94 |
304 | 311 | 2.229784 | CGTACGTACTCCCTTTGTTCCT | 59.770 | 50.000 | 22.55 | 0.00 | 0.00 | 3.36 |
305 | 312 | 2.029918 | ACGTACGTACTCCCTTTGTTCC | 60.030 | 50.000 | 21.41 | 0.00 | 0.00 | 3.62 |
306 | 313 | 3.288809 | ACGTACGTACTCCCTTTGTTC | 57.711 | 47.619 | 21.41 | 0.00 | 0.00 | 3.18 |
307 | 314 | 3.191371 | CCTACGTACGTACTCCCTTTGTT | 59.809 | 47.826 | 23.60 | 0.00 | 0.00 | 2.83 |
308 | 315 | 2.749621 | CCTACGTACGTACTCCCTTTGT | 59.250 | 50.000 | 23.60 | 13.45 | 0.00 | 2.83 |
309 | 316 | 2.749621 | ACCTACGTACGTACTCCCTTTG | 59.250 | 50.000 | 23.60 | 11.40 | 0.00 | 2.77 |
310 | 317 | 3.073274 | ACCTACGTACGTACTCCCTTT | 57.927 | 47.619 | 23.60 | 0.00 | 0.00 | 3.11 |
311 | 318 | 2.789409 | ACCTACGTACGTACTCCCTT | 57.211 | 50.000 | 23.60 | 0.00 | 0.00 | 3.95 |
312 | 319 | 3.906720 | TTACCTACGTACGTACTCCCT | 57.093 | 47.619 | 23.60 | 7.28 | 0.00 | 4.20 |
313 | 320 | 6.803154 | ATTATTACCTACGTACGTACTCCC | 57.197 | 41.667 | 23.60 | 0.00 | 0.00 | 4.30 |
314 | 321 | 7.010023 | CGAATTATTACCTACGTACGTACTCC | 58.990 | 42.308 | 23.60 | 0.00 | 0.00 | 3.85 |
315 | 322 | 7.564988 | ACGAATTATTACCTACGTACGTACTC | 58.435 | 38.462 | 23.60 | 3.08 | 32.42 | 2.59 |
316 | 323 | 7.438459 | AGACGAATTATTACCTACGTACGTACT | 59.562 | 37.037 | 23.60 | 13.87 | 34.26 | 2.73 |
317 | 324 | 7.564988 | AGACGAATTATTACCTACGTACGTAC | 58.435 | 38.462 | 23.60 | 15.90 | 34.26 | 3.67 |
318 | 325 | 7.095774 | GGAGACGAATTATTACCTACGTACGTA | 60.096 | 40.741 | 25.41 | 25.41 | 34.26 | 3.57 |
319 | 326 | 6.292919 | GGAGACGAATTATTACCTACGTACGT | 60.293 | 42.308 | 25.98 | 25.98 | 34.26 | 3.57 |
320 | 327 | 6.073548 | AGGAGACGAATTATTACCTACGTACG | 60.074 | 42.308 | 15.01 | 15.01 | 34.26 | 3.67 |
355 | 362 | 8.973228 | CAGGAACTCAACTCAGGATGAAGCAT | 62.973 | 46.154 | 0.00 | 0.00 | 41.80 | 3.79 |
356 | 363 | 7.766155 | CAGGAACTCAACTCAGGATGAAGCA | 62.766 | 48.000 | 0.00 | 0.00 | 41.80 | 3.91 |
428 | 436 | 2.746362 | GAGCAGGTTCTGGATCAAAGTG | 59.254 | 50.000 | 0.00 | 0.00 | 31.21 | 3.16 |
484 | 507 | 2.128035 | GATGTATGTACTCGTGCCTGC | 58.872 | 52.381 | 0.00 | 0.00 | 0.00 | 4.85 |
491 | 514 | 9.784680 | AAAACAGTAACTAGATGTATGTACTCG | 57.215 | 33.333 | 0.00 | 0.00 | 0.00 | 4.18 |
553 | 576 | 2.475111 | AGTACAATTCACGCTTCACACG | 59.525 | 45.455 | 0.00 | 0.00 | 0.00 | 4.49 |
582 | 605 | 4.392921 | ACTCCTGTGCAGTATCATGTAC | 57.607 | 45.455 | 0.00 | 0.00 | 36.46 | 2.90 |
583 | 606 | 4.341235 | GGTACTCCTGTGCAGTATCATGTA | 59.659 | 45.833 | 0.00 | 0.00 | 29.12 | 2.29 |
584 | 607 | 3.133003 | GGTACTCCTGTGCAGTATCATGT | 59.867 | 47.826 | 0.00 | 0.00 | 29.12 | 3.21 |
585 | 608 | 3.132824 | TGGTACTCCTGTGCAGTATCATG | 59.867 | 47.826 | 0.00 | 0.00 | 33.37 | 3.07 |
635 | 658 | 2.742053 | GTGTGCTGTACTGTTATGTGGG | 59.258 | 50.000 | 1.46 | 0.00 | 0.00 | 4.61 |
650 | 673 | 0.394938 | TCCGTGGTTGTATGTGTGCT | 59.605 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
664 | 687 | 0.526211 | TCAGATGACCTTCGTCCGTG | 59.474 | 55.000 | 0.00 | 0.00 | 38.32 | 4.94 |
668 | 691 | 5.180492 | CCTAGTAGATCAGATGACCTTCGTC | 59.820 | 48.000 | 0.00 | 0.00 | 39.66 | 4.20 |
695 | 718 | 1.227249 | CTCACTCTCCCTCCCTCCTA | 58.773 | 60.000 | 0.00 | 0.00 | 0.00 | 2.94 |
732 | 756 | 1.566298 | GCCAGTCCCAGGGATTGTCT | 61.566 | 60.000 | 25.64 | 10.10 | 37.68 | 3.41 |
743 | 767 | 1.064463 | TGATTGATTCCAGCCAGTCCC | 60.064 | 52.381 | 0.00 | 0.00 | 0.00 | 4.46 |
1026 | 1054 | 1.997928 | CTCTCGCTCTCACCATCGCA | 61.998 | 60.000 | 0.00 | 0.00 | 0.00 | 5.10 |
1936 | 2000 | 3.428870 | ACGTAGAATGAAAGCGACACTTG | 59.571 | 43.478 | 0.00 | 0.00 | 39.09 | 3.16 |
1944 | 2008 | 7.475565 | CGATAATGCAATACGTAGAATGAAAGC | 59.524 | 37.037 | 0.08 | 0.00 | 0.00 | 3.51 |
1978 | 2272 | 5.174035 | CGCGAAGAAGAGGAAACATACATAG | 59.826 | 44.000 | 0.00 | 0.00 | 0.00 | 2.23 |
1982 | 2276 | 3.060895 | CACGCGAAGAAGAGGAAACATAC | 59.939 | 47.826 | 15.93 | 0.00 | 0.00 | 2.39 |
1984 | 2278 | 2.069273 | CACGCGAAGAAGAGGAAACAT | 58.931 | 47.619 | 15.93 | 0.00 | 0.00 | 2.71 |
1991 | 2285 | 2.722071 | GGATAGACACGCGAAGAAGAG | 58.278 | 52.381 | 15.93 | 0.00 | 0.00 | 2.85 |
1993 | 2287 | 1.202154 | ACGGATAGACACGCGAAGAAG | 60.202 | 52.381 | 15.93 | 0.00 | 0.00 | 2.85 |
2004 | 2298 | 8.649973 | AGACAATTATTTTGAGACGGATAGAC | 57.350 | 34.615 | 0.00 | 0.00 | 0.00 | 2.59 |
2005 | 2299 | 8.474831 | TGAGACAATTATTTTGAGACGGATAGA | 58.525 | 33.333 | 0.00 | 0.00 | 0.00 | 1.98 |
2006 | 2300 | 8.648557 | TGAGACAATTATTTTGAGACGGATAG | 57.351 | 34.615 | 0.00 | 0.00 | 0.00 | 2.08 |
2007 | 2301 | 8.879759 | GTTGAGACAATTATTTTGAGACGGATA | 58.120 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
2008 | 2302 | 7.607991 | AGTTGAGACAATTATTTTGAGACGGAT | 59.392 | 33.333 | 0.00 | 0.00 | 0.00 | 4.18 |
2024 | 2318 | 6.262049 | TGCTGCTTTGTATAAAGTTGAGACAA | 59.738 | 34.615 | 12.82 | 0.00 | 44.11 | 3.18 |
2037 | 2331 | 7.829725 | TGTCTCAATTTTATGCTGCTTTGTAT | 58.170 | 30.769 | 0.00 | 0.00 | 0.00 | 2.29 |
2041 | 2335 | 6.336842 | ACTGTCTCAATTTTATGCTGCTTT | 57.663 | 33.333 | 0.00 | 0.00 | 0.00 | 3.51 |
2054 | 2349 | 7.310609 | CCCCCATTTCAAAATAACTGTCTCAAT | 60.311 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
2073 | 2368 | 6.980577 | TCTATGAAACAAATACTCCCCCATT | 58.019 | 36.000 | 0.00 | 0.00 | 0.00 | 3.16 |
2076 | 2371 | 6.661805 | TGTTTCTATGAAACAAATACTCCCCC | 59.338 | 38.462 | 19.44 | 0.00 | 37.22 | 5.40 |
2113 | 2416 | 2.257371 | CGCCGTCTTTGTCTCGGA | 59.743 | 61.111 | 7.01 | 0.00 | 46.05 | 4.55 |
2204 | 2523 | 2.281900 | CGACCGGCCCCTCAAAAA | 60.282 | 61.111 | 0.00 | 0.00 | 0.00 | 1.94 |
2211 | 2530 | 3.394635 | TAAATGAGCGACCGGCCCC | 62.395 | 63.158 | 0.00 | 0.00 | 45.17 | 5.80 |
2212 | 2531 | 1.887707 | CTAAATGAGCGACCGGCCC | 60.888 | 63.158 | 0.00 | 0.00 | 45.17 | 5.80 |
2213 | 2532 | 1.153429 | ACTAAATGAGCGACCGGCC | 60.153 | 57.895 | 0.00 | 0.00 | 45.17 | 6.13 |
2214 | 2533 | 1.429148 | CCACTAAATGAGCGACCGGC | 61.429 | 60.000 | 0.00 | 0.00 | 44.05 | 6.13 |
2215 | 2534 | 0.108329 | ACCACTAAATGAGCGACCGG | 60.108 | 55.000 | 0.00 | 0.00 | 0.00 | 5.28 |
2216 | 2535 | 0.999406 | CACCACTAAATGAGCGACCG | 59.001 | 55.000 | 0.00 | 0.00 | 0.00 | 4.79 |
2217 | 2536 | 2.380084 | TCACCACTAAATGAGCGACC | 57.620 | 50.000 | 0.00 | 0.00 | 0.00 | 4.79 |
2218 | 2537 | 5.006746 | CCTTAATCACCACTAAATGAGCGAC | 59.993 | 44.000 | 0.00 | 0.00 | 0.00 | 5.19 |
2219 | 2538 | 5.105106 | TCCTTAATCACCACTAAATGAGCGA | 60.105 | 40.000 | 0.00 | 0.00 | 0.00 | 4.93 |
2220 | 2539 | 5.116180 | TCCTTAATCACCACTAAATGAGCG | 58.884 | 41.667 | 0.00 | 0.00 | 0.00 | 5.03 |
2221 | 2540 | 5.529060 | CCTCCTTAATCACCACTAAATGAGC | 59.471 | 44.000 | 0.00 | 0.00 | 0.00 | 4.26 |
2222 | 2541 | 5.529060 | GCCTCCTTAATCACCACTAAATGAG | 59.471 | 44.000 | 0.00 | 0.00 | 0.00 | 2.90 |
2223 | 2542 | 5.191722 | AGCCTCCTTAATCACCACTAAATGA | 59.808 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2224 | 2543 | 5.297776 | CAGCCTCCTTAATCACCACTAAATG | 59.702 | 44.000 | 0.00 | 0.00 | 0.00 | 2.32 |
2225 | 2544 | 5.440610 | CAGCCTCCTTAATCACCACTAAAT | 58.559 | 41.667 | 0.00 | 0.00 | 0.00 | 1.40 |
2226 | 2545 | 4.843728 | CAGCCTCCTTAATCACCACTAAA | 58.156 | 43.478 | 0.00 | 0.00 | 0.00 | 1.85 |
2227 | 2546 | 3.370527 | GCAGCCTCCTTAATCACCACTAA | 60.371 | 47.826 | 0.00 | 0.00 | 0.00 | 2.24 |
2228 | 2547 | 2.170607 | GCAGCCTCCTTAATCACCACTA | 59.829 | 50.000 | 0.00 | 0.00 | 0.00 | 2.74 |
2246 | 2565 | 1.379044 | GTTCAGGGGTGGATGGCAG | 60.379 | 63.158 | 0.00 | 0.00 | 0.00 | 4.85 |
2322 | 2652 | 4.003788 | CAGCTCGTGTTCCCGGGT | 62.004 | 66.667 | 22.86 | 0.00 | 0.00 | 5.28 |
2323 | 2653 | 1.956629 | ATACAGCTCGTGTTCCCGGG | 61.957 | 60.000 | 16.85 | 16.85 | 40.94 | 5.73 |
2324 | 2654 | 0.108329 | AATACAGCTCGTGTTCCCGG | 60.108 | 55.000 | 0.00 | 0.00 | 40.94 | 5.73 |
2328 | 2671 | 1.346365 | TCGCAATACAGCTCGTGTTC | 58.654 | 50.000 | 0.00 | 0.00 | 40.94 | 3.18 |
2344 | 2687 | 1.797046 | CAGATCAGCACCACATATCGC | 59.203 | 52.381 | 0.00 | 0.00 | 0.00 | 4.58 |
2354 | 2697 | 2.476873 | ATCGACGTACAGATCAGCAC | 57.523 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
2432 | 2775 | 3.960755 | AGATACTCCAACACATCGATCCA | 59.039 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
2433 | 2776 | 4.551388 | GAGATACTCCAACACATCGATCC | 58.449 | 47.826 | 0.00 | 0.00 | 0.00 | 3.36 |
2474 | 2819 | 2.438434 | CGTCAATCAGCCCACCCC | 60.438 | 66.667 | 0.00 | 0.00 | 0.00 | 4.95 |
2605 | 2970 | 0.249489 | GCACCTTCACTCACACTCGT | 60.249 | 55.000 | 0.00 | 0.00 | 0.00 | 4.18 |
2610 | 2975 | 1.153269 | TTGCGCACCTTCACTCACA | 60.153 | 52.632 | 11.12 | 0.00 | 0.00 | 3.58 |
2645 | 3013 | 2.740055 | CACGACACAGCAGGAGGC | 60.740 | 66.667 | 0.00 | 0.00 | 45.30 | 4.70 |
2650 | 3028 | 3.941188 | ACCCCCACGACACAGCAG | 61.941 | 66.667 | 0.00 | 0.00 | 0.00 | 4.24 |
2695 | 3073 | 4.773117 | GGCGGTCGAGTCGTGTCC | 62.773 | 72.222 | 13.12 | 12.30 | 0.00 | 4.02 |
2713 | 3091 | 3.076621 | CCGGTAAGGTAAGACCAAAACC | 58.923 | 50.000 | 0.00 | 1.83 | 41.95 | 3.27 |
2788 | 3170 | 2.399916 | AGAATGAAGACCAGCAGCTC | 57.600 | 50.000 | 0.00 | 0.00 | 0.00 | 4.09 |
2820 | 3202 | 2.281345 | GGCATCGCATCAGGGGAG | 60.281 | 66.667 | 0.00 | 0.00 | 42.26 | 4.30 |
2821 | 3203 | 2.454688 | ATGGCATCGCATCAGGGGA | 61.455 | 57.895 | 0.00 | 0.00 | 43.25 | 4.81 |
2822 | 3204 | 2.114625 | ATGGCATCGCATCAGGGG | 59.885 | 61.111 | 0.00 | 0.00 | 0.00 | 4.79 |
2823 | 3205 | 2.916052 | GCATGGCATCGCATCAGGG | 61.916 | 63.158 | 14.33 | 0.00 | 0.00 | 4.45 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.