Multiple sequence alignment - TraesCS3D01G074200
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 | TraesCS3D01G074200 | chr3D | 100.000 | 3278 | 0 | 0 | 1 | 3278 | 35042702 | 35045979 | 0.000000e+00 | 6054.0 |
1 | TraesCS3D01G074200 | chr3D | 88.636 | 88 | 7 | 3 | 36 | 122 | 547986339 | 547986254 | 1.610000e-18 | 104.0 |
2 | TraesCS3D01G074200 | chr3B | 97.668 | 1801 | 36 | 1 | 648 | 2442 | 58006499 | 58008299 | 0.000000e+00 | 3088.0 |
3 | TraesCS3D01G074200 | chr3B | 92.345 | 614 | 24 | 5 | 2444 | 3039 | 58008340 | 58008948 | 0.000000e+00 | 852.0 |
4 | TraesCS3D01G074200 | chr3B | 88.192 | 271 | 23 | 6 | 273 | 534 | 79291690 | 79291420 | 6.830000e-82 | 315.0 |
5 | TraesCS3D01G074200 | chr3B | 93.333 | 120 | 8 | 0 | 532 | 651 | 58006120 | 58006239 | 9.350000e-41 | 178.0 |
6 | TraesCS3D01G074200 | chr3B | 83.333 | 198 | 8 | 4 | 83 | 280 | 58005951 | 58006123 | 3.390000e-35 | 159.0 |
7 | TraesCS3D01G074200 | chr3B | 92.453 | 106 | 7 | 1 | 118 | 223 | 478325953 | 478325849 | 2.040000e-32 | 150.0 |
8 | TraesCS3D01G074200 | chr3B | 95.122 | 41 | 2 | 0 | 241 | 281 | 787109242 | 787109202 | 7.590000e-07 | 65.8 |
9 | TraesCS3D01G074200 | chr2A | 89.334 | 1622 | 118 | 27 | 709 | 2309 | 32232146 | 32230559 | 0.000000e+00 | 1986.0 |
10 | TraesCS3D01G074200 | chr2A | 86.504 | 1267 | 148 | 17 | 995 | 2251 | 32265147 | 32266400 | 0.000000e+00 | 1371.0 |
11 | TraesCS3D01G074200 | chr2A | 87.778 | 270 | 21 | 9 | 278 | 537 | 703429097 | 703428830 | 4.110000e-79 | 305.0 |
12 | TraesCS3D01G074200 | chr2B | 85.714 | 1372 | 168 | 14 | 911 | 2269 | 48815876 | 48817232 | 0.000000e+00 | 1423.0 |
13 | TraesCS3D01G074200 | chr2B | 85.216 | 832 | 104 | 8 | 1430 | 2254 | 48804186 | 48803367 | 0.000000e+00 | 837.0 |
14 | TraesCS3D01G074200 | chr2D | 85.327 | 1329 | 163 | 23 | 934 | 2251 | 30334248 | 30335555 | 0.000000e+00 | 1345.0 |
15 | TraesCS3D01G074200 | chr2D | 86.957 | 276 | 23 | 9 | 269 | 534 | 371829342 | 371829614 | 6.880000e-77 | 298.0 |
16 | TraesCS3D01G074200 | chr4A | 86.806 | 576 | 59 | 9 | 2465 | 3030 | 621730156 | 621730724 | 7.720000e-176 | 627.0 |
17 | TraesCS3D01G074200 | chr4A | 88.931 | 262 | 20 | 6 | 278 | 530 | 54120259 | 54120520 | 6.830000e-82 | 315.0 |
18 | TraesCS3D01G074200 | chr4A | 89.641 | 251 | 16 | 7 | 278 | 518 | 678553410 | 678553660 | 8.830000e-81 | 311.0 |
19 | TraesCS3D01G074200 | chr3A | 80.454 | 793 | 102 | 25 | 2472 | 3245 | 713554843 | 713554085 | 1.030000e-154 | 556.0 |
20 | TraesCS3D01G074200 | chr3A | 88.123 | 261 | 21 | 7 | 278 | 529 | 429797623 | 429797882 | 5.320000e-78 | 302.0 |
21 | TraesCS3D01G074200 | chr1B | 88.931 | 262 | 19 | 7 | 278 | 529 | 593527726 | 593527987 | 6.830000e-82 | 315.0 |
22 | TraesCS3D01G074200 | chr1B | 80.469 | 128 | 21 | 4 | 13 | 139 | 7162894 | 7163018 | 9.680000e-16 | 95.3 |
23 | TraesCS3D01G074200 | chr1B | 80.315 | 127 | 21 | 4 | 14 | 139 | 7202892 | 7203015 | 3.480000e-15 | 93.5 |
24 | TraesCS3D01G074200 | chr7D | 89.105 | 257 | 17 | 8 | 269 | 514 | 126245063 | 126244807 | 3.180000e-80 | 309.0 |
25 | TraesCS3D01G074200 | chr5A | 88.934 | 244 | 21 | 4 | 277 | 517 | 476663376 | 476663136 | 2.470000e-76 | 296.0 |
26 | TraesCS3D01G074200 | chr5A | 84.848 | 99 | 15 | 0 | 121 | 219 | 569066291 | 569066389 | 2.080000e-17 | 100.0 |
27 | TraesCS3D01G074200 | chr6B | 86.869 | 99 | 12 | 1 | 122 | 220 | 141091468 | 141091565 | 3.460000e-20 | 110.0 |
28 | TraesCS3D01G074200 | chr1D | 86.458 | 96 | 13 | 0 | 122 | 217 | 437684946 | 437684851 | 4.470000e-19 | 106.0 |
29 | TraesCS3D01G074200 | chr1D | 87.500 | 72 | 9 | 0 | 47 | 118 | 288922860 | 288922789 | 2.100000e-12 | 84.2 |
30 | TraesCS3D01G074200 | chr7A | 84.375 | 64 | 7 | 3 | 3177 | 3238 | 40719171 | 40719233 | 3.530000e-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 | TraesCS3D01G074200 | chr3D | 35042702 | 35045979 | 3277 | False | 6054.00 | 6054 | 100.00000 | 1 | 3278 | 1 | chr3D.!!$F1 | 3277 |
1 | TraesCS3D01G074200 | chr3B | 58005951 | 58008948 | 2997 | False | 1069.25 | 3088 | 91.66975 | 83 | 3039 | 4 | chr3B.!!$F1 | 2956 |
2 | TraesCS3D01G074200 | chr2A | 32230559 | 32232146 | 1587 | True | 1986.00 | 1986 | 89.33400 | 709 | 2309 | 1 | chr2A.!!$R1 | 1600 |
3 | TraesCS3D01G074200 | chr2A | 32265147 | 32266400 | 1253 | False | 1371.00 | 1371 | 86.50400 | 995 | 2251 | 1 | chr2A.!!$F1 | 1256 |
4 | TraesCS3D01G074200 | chr2B | 48815876 | 48817232 | 1356 | False | 1423.00 | 1423 | 85.71400 | 911 | 2269 | 1 | chr2B.!!$F1 | 1358 |
5 | TraesCS3D01G074200 | chr2B | 48803367 | 48804186 | 819 | True | 837.00 | 837 | 85.21600 | 1430 | 2254 | 1 | chr2B.!!$R1 | 824 |
6 | TraesCS3D01G074200 | chr2D | 30334248 | 30335555 | 1307 | False | 1345.00 | 1345 | 85.32700 | 934 | 2251 | 1 | chr2D.!!$F1 | 1317 |
7 | TraesCS3D01G074200 | chr4A | 621730156 | 621730724 | 568 | False | 627.00 | 627 | 86.80600 | 2465 | 3030 | 1 | chr4A.!!$F2 | 565 |
8 | TraesCS3D01G074200 | chr3A | 713554085 | 713554843 | 758 | True | 556.00 | 556 | 80.45400 | 2472 | 3245 | 1 | chr3A.!!$R1 | 773 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
679 | 943 | 0.106894 | CTCCCCCGAGGTATTTGCTC | 59.893 | 60.0 | 0.0 | 0.0 | 36.75 | 4.26 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2313 | 2633 | 1.079405 | GCTCATTCGGTCGAACCCA | 60.079 | 57.895 | 8.0 | 0.0 | 36.91 | 4.51 | 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 |
---|---|---|---|---|---|---|---|---|---|
36 | 37 | 2.907917 | TTTTTCCGCCACCACCGG | 60.908 | 61.111 | 0.00 | 0.00 | 46.88 | 5.28 |
100 | 101 | 1.407329 | CGCGACGCTAATATCGTGC | 59.593 | 57.895 | 19.02 | 0.00 | 41.37 | 5.34 |
168 | 169 | 9.918630 | AAAGACAAATAAGATCCAACAATTCTG | 57.081 | 29.630 | 0.00 | 0.00 | 0.00 | 3.02 |
170 | 171 | 9.300681 | AGACAAATAAGATCCAACAATTCTGAA | 57.699 | 29.630 | 0.00 | 0.00 | 0.00 | 3.02 |
195 | 196 | 7.763172 | CTCAGATGTGAGGTAAGTATTTCAC | 57.237 | 40.000 | 12.01 | 0.00 | 45.85 | 3.18 |
200 | 201 | 5.931294 | TGTGAGGTAAGTATTTCACAACCA | 58.069 | 37.500 | 3.89 | 0.00 | 44.81 | 3.67 |
201 | 202 | 5.995282 | TGTGAGGTAAGTATTTCACAACCAG | 59.005 | 40.000 | 3.89 | 0.00 | 44.81 | 4.00 |
202 | 203 | 6.183361 | TGTGAGGTAAGTATTTCACAACCAGA | 60.183 | 38.462 | 3.89 | 0.00 | 44.81 | 3.86 |
203 | 204 | 6.879458 | GTGAGGTAAGTATTTCACAACCAGAT | 59.121 | 38.462 | 0.00 | 0.00 | 39.67 | 2.90 |
204 | 205 | 6.878923 | TGAGGTAAGTATTTCACAACCAGATG | 59.121 | 38.462 | 0.00 | 0.00 | 37.72 | 2.90 |
205 | 206 | 6.779860 | AGGTAAGTATTTCACAACCAGATGT | 58.220 | 36.000 | 0.00 | 0.00 | 37.72 | 3.06 |
227 | 228 | 3.188873 | TGAAATAGCAAACCCGTTTACCG | 59.811 | 43.478 | 0.00 | 0.00 | 0.00 | 4.02 |
233 | 234 | 1.192090 | CAAACCCGTTTACCGTACACG | 59.808 | 52.381 | 9.76 | 9.76 | 39.44 | 4.49 |
280 | 281 | 3.081804 | GGCCACACTGCTTGTTTATACT | 58.918 | 45.455 | 0.00 | 0.00 | 35.67 | 2.12 |
281 | 282 | 3.127030 | GGCCACACTGCTTGTTTATACTC | 59.873 | 47.826 | 0.00 | 0.00 | 35.67 | 2.59 |
282 | 283 | 4.003648 | GCCACACTGCTTGTTTATACTCT | 58.996 | 43.478 | 0.00 | 0.00 | 35.67 | 3.24 |
283 | 284 | 4.093556 | GCCACACTGCTTGTTTATACTCTC | 59.906 | 45.833 | 0.00 | 0.00 | 35.67 | 3.20 |
284 | 285 | 5.482908 | CCACACTGCTTGTTTATACTCTCT | 58.517 | 41.667 | 0.00 | 0.00 | 35.67 | 3.10 |
285 | 286 | 5.934625 | CCACACTGCTTGTTTATACTCTCTT | 59.065 | 40.000 | 0.00 | 0.00 | 35.67 | 2.85 |
286 | 287 | 6.091441 | CCACACTGCTTGTTTATACTCTCTTC | 59.909 | 42.308 | 0.00 | 0.00 | 35.67 | 2.87 |
287 | 288 | 5.864474 | ACACTGCTTGTTTATACTCTCTTCG | 59.136 | 40.000 | 0.00 | 0.00 | 33.09 | 3.79 |
288 | 289 | 5.864474 | CACTGCTTGTTTATACTCTCTTCGT | 59.136 | 40.000 | 0.00 | 0.00 | 0.00 | 3.85 |
289 | 290 | 6.366332 | CACTGCTTGTTTATACTCTCTTCGTT | 59.634 | 38.462 | 0.00 | 0.00 | 0.00 | 3.85 |
290 | 291 | 6.929606 | ACTGCTTGTTTATACTCTCTTCGTTT | 59.070 | 34.615 | 0.00 | 0.00 | 0.00 | 3.60 |
291 | 292 | 7.116519 | ACTGCTTGTTTATACTCTCTTCGTTTC | 59.883 | 37.037 | 0.00 | 0.00 | 0.00 | 2.78 |
292 | 293 | 7.152645 | TGCTTGTTTATACTCTCTTCGTTTCT | 58.847 | 34.615 | 0.00 | 0.00 | 0.00 | 2.52 |
293 | 294 | 7.656137 | TGCTTGTTTATACTCTCTTCGTTTCTT | 59.344 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
294 | 295 | 8.496751 | GCTTGTTTATACTCTCTTCGTTTCTTT | 58.503 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
301 | 302 | 8.760103 | ATACTCTCTTCGTTTCTTTTTAGTCC | 57.240 | 34.615 | 0.00 | 0.00 | 0.00 | 3.85 |
302 | 303 | 5.690857 | ACTCTCTTCGTTTCTTTTTAGTCCG | 59.309 | 40.000 | 0.00 | 0.00 | 0.00 | 4.79 |
303 | 304 | 4.446719 | TCTCTTCGTTTCTTTTTAGTCCGC | 59.553 | 41.667 | 0.00 | 0.00 | 0.00 | 5.54 |
304 | 305 | 4.121317 | TCTTCGTTTCTTTTTAGTCCGCA | 58.879 | 39.130 | 0.00 | 0.00 | 0.00 | 5.69 |
305 | 306 | 4.753107 | TCTTCGTTTCTTTTTAGTCCGCAT | 59.247 | 37.500 | 0.00 | 0.00 | 0.00 | 4.73 |
306 | 307 | 5.927689 | TCTTCGTTTCTTTTTAGTCCGCATA | 59.072 | 36.000 | 0.00 | 0.00 | 0.00 | 3.14 |
307 | 308 | 6.592607 | TCTTCGTTTCTTTTTAGTCCGCATAT | 59.407 | 34.615 | 0.00 | 0.00 | 0.00 | 1.78 |
308 | 309 | 7.760794 | TCTTCGTTTCTTTTTAGTCCGCATATA | 59.239 | 33.333 | 0.00 | 0.00 | 0.00 | 0.86 |
309 | 310 | 7.830940 | TCGTTTCTTTTTAGTCCGCATATAA | 57.169 | 32.000 | 0.00 | 0.00 | 0.00 | 0.98 |
310 | 311 | 7.902032 | TCGTTTCTTTTTAGTCCGCATATAAG | 58.098 | 34.615 | 0.00 | 0.00 | 0.00 | 1.73 |
311 | 312 | 7.010738 | TCGTTTCTTTTTAGTCCGCATATAAGG | 59.989 | 37.037 | 0.00 | 0.00 | 0.00 | 2.69 |
312 | 313 | 7.201582 | CGTTTCTTTTTAGTCCGCATATAAGGT | 60.202 | 37.037 | 0.00 | 0.00 | 0.00 | 3.50 |
313 | 314 | 8.456471 | GTTTCTTTTTAGTCCGCATATAAGGTT | 58.544 | 33.333 | 0.00 | 0.00 | 0.00 | 3.50 |
314 | 315 | 8.570068 | TTCTTTTTAGTCCGCATATAAGGTTT | 57.430 | 30.769 | 0.00 | 0.00 | 0.00 | 3.27 |
315 | 316 | 7.981142 | TCTTTTTAGTCCGCATATAAGGTTTG | 58.019 | 34.615 | 0.00 | 0.00 | 0.00 | 2.93 |
316 | 317 | 6.687081 | TTTTAGTCCGCATATAAGGTTTGG | 57.313 | 37.500 | 0.00 | 0.00 | 0.00 | 3.28 |
317 | 318 | 3.926058 | AGTCCGCATATAAGGTTTGGT | 57.074 | 42.857 | 0.00 | 0.00 | 0.00 | 3.67 |
318 | 319 | 3.805207 | AGTCCGCATATAAGGTTTGGTC | 58.195 | 45.455 | 0.00 | 0.00 | 0.00 | 4.02 |
319 | 320 | 3.199071 | AGTCCGCATATAAGGTTTGGTCA | 59.801 | 43.478 | 0.00 | 0.00 | 0.00 | 4.02 |
320 | 321 | 3.942748 | GTCCGCATATAAGGTTTGGTCAA | 59.057 | 43.478 | 0.00 | 0.00 | 0.00 | 3.18 |
321 | 322 | 4.396790 | GTCCGCATATAAGGTTTGGTCAAA | 59.603 | 41.667 | 0.00 | 0.00 | 0.00 | 2.69 |
322 | 323 | 4.638421 | TCCGCATATAAGGTTTGGTCAAAG | 59.362 | 41.667 | 0.00 | 0.00 | 0.00 | 2.77 |
323 | 324 | 4.398044 | CCGCATATAAGGTTTGGTCAAAGT | 59.602 | 41.667 | 0.00 | 0.00 | 0.00 | 2.66 |
324 | 325 | 5.448632 | CCGCATATAAGGTTTGGTCAAAGTC | 60.449 | 44.000 | 0.00 | 0.00 | 0.00 | 3.01 |
325 | 326 | 5.123186 | CGCATATAAGGTTTGGTCAAAGTCA | 59.877 | 40.000 | 0.00 | 0.00 | 0.00 | 3.41 |
326 | 327 | 6.348950 | CGCATATAAGGTTTGGTCAAAGTCAA | 60.349 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
327 | 328 | 7.029563 | GCATATAAGGTTTGGTCAAAGTCAAG | 58.970 | 38.462 | 0.00 | 0.00 | 0.00 | 3.02 |
328 | 329 | 3.801114 | AAGGTTTGGTCAAAGTCAAGC | 57.199 | 42.857 | 0.00 | 0.00 | 0.00 | 4.01 |
329 | 330 | 3.018423 | AGGTTTGGTCAAAGTCAAGCT | 57.982 | 42.857 | 0.00 | 0.00 | 0.00 | 3.74 |
330 | 331 | 3.365472 | AGGTTTGGTCAAAGTCAAGCTT | 58.635 | 40.909 | 0.00 | 0.00 | 39.52 | 3.74 |
347 | 348 | 7.478520 | TCAAGCTTTGTAGAGTTTGACTAAC | 57.521 | 36.000 | 0.00 | 0.00 | 40.46 | 2.34 |
349 | 350 | 7.769044 | TCAAGCTTTGTAGAGTTTGACTAACTT | 59.231 | 33.333 | 0.00 | 0.00 | 47.00 | 2.66 |
350 | 351 | 8.398665 | CAAGCTTTGTAGAGTTTGACTAACTTT | 58.601 | 33.333 | 0.00 | 1.31 | 47.00 | 2.66 |
351 | 352 | 9.609346 | AAGCTTTGTAGAGTTTGACTAACTTTA | 57.391 | 29.630 | 3.78 | 0.37 | 47.00 | 1.85 |
352 | 353 | 9.780186 | AGCTTTGTAGAGTTTGACTAACTTTAT | 57.220 | 29.630 | 3.78 | 0.00 | 47.00 | 1.40 |
404 | 405 | 9.743581 | ATGAAATCAGTATTATCATATGCACCA | 57.256 | 29.630 | 0.00 | 0.00 | 0.00 | 4.17 |
405 | 406 | 9.743581 | TGAAATCAGTATTATCATATGCACCAT | 57.256 | 29.630 | 0.00 | 0.00 | 0.00 | 3.55 |
407 | 408 | 8.429493 | AATCAGTATTATCATATGCACCATCG | 57.571 | 34.615 | 0.00 | 0.00 | 0.00 | 3.84 |
408 | 409 | 7.169158 | TCAGTATTATCATATGCACCATCGA | 57.831 | 36.000 | 0.00 | 0.00 | 0.00 | 3.59 |
409 | 410 | 7.610865 | TCAGTATTATCATATGCACCATCGAA | 58.389 | 34.615 | 0.00 | 0.00 | 0.00 | 3.71 |
410 | 411 | 8.260114 | TCAGTATTATCATATGCACCATCGAAT | 58.740 | 33.333 | 0.00 | 0.00 | 0.00 | 3.34 |
411 | 412 | 8.333186 | CAGTATTATCATATGCACCATCGAATG | 58.667 | 37.037 | 0.00 | 0.00 | 0.00 | 2.67 |
412 | 413 | 8.043113 | AGTATTATCATATGCACCATCGAATGT | 58.957 | 33.333 | 0.00 | 0.00 | 0.00 | 2.71 |
413 | 414 | 9.313118 | GTATTATCATATGCACCATCGAATGTA | 57.687 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
414 | 415 | 8.969260 | ATTATCATATGCACCATCGAATGTAT | 57.031 | 30.769 | 0.00 | 0.00 | 0.00 | 2.29 |
415 | 416 | 8.791327 | TTATCATATGCACCATCGAATGTATT | 57.209 | 30.769 | 0.00 | 0.00 | 0.00 | 1.89 |
416 | 417 | 7.692460 | ATCATATGCACCATCGAATGTATTT | 57.308 | 32.000 | 0.00 | 0.00 | 0.00 | 1.40 |
417 | 418 | 7.509141 | TCATATGCACCATCGAATGTATTTT | 57.491 | 32.000 | 0.00 | 0.00 | 0.00 | 1.82 |
418 | 419 | 7.584108 | TCATATGCACCATCGAATGTATTTTC | 58.416 | 34.615 | 0.00 | 0.00 | 0.00 | 2.29 |
419 | 420 | 5.833406 | ATGCACCATCGAATGTATTTTCA | 57.167 | 34.783 | 0.00 | 0.00 | 0.00 | 2.69 |
420 | 421 | 5.833406 | TGCACCATCGAATGTATTTTCAT | 57.167 | 34.783 | 0.00 | 0.00 | 0.00 | 2.57 |
421 | 422 | 6.934048 | TGCACCATCGAATGTATTTTCATA | 57.066 | 33.333 | 0.00 | 0.00 | 0.00 | 2.15 |
422 | 423 | 6.724263 | TGCACCATCGAATGTATTTTCATAC | 58.276 | 36.000 | 0.00 | 0.00 | 36.52 | 2.39 |
423 | 424 | 6.542005 | TGCACCATCGAATGTATTTTCATACT | 59.458 | 34.615 | 0.00 | 0.00 | 36.87 | 2.12 |
424 | 425 | 7.713073 | TGCACCATCGAATGTATTTTCATACTA | 59.287 | 33.333 | 0.00 | 0.00 | 36.87 | 1.82 |
425 | 426 | 8.721478 | GCACCATCGAATGTATTTTCATACTAT | 58.279 | 33.333 | 0.00 | 0.00 | 36.87 | 2.12 |
489 | 490 | 9.783256 | AAATTTACTGTGTAGTTTGACTTTGAC | 57.217 | 29.630 | 0.00 | 0.00 | 38.36 | 3.18 |
490 | 491 | 8.732746 | ATTTACTGTGTAGTTTGACTTTGACT | 57.267 | 30.769 | 0.00 | 0.00 | 38.36 | 3.41 |
491 | 492 | 9.826574 | ATTTACTGTGTAGTTTGACTTTGACTA | 57.173 | 29.630 | 0.00 | 0.00 | 38.36 | 2.59 |
492 | 493 | 9.656040 | TTTACTGTGTAGTTTGACTTTGACTAA | 57.344 | 29.630 | 0.00 | 0.00 | 38.36 | 2.24 |
493 | 494 | 9.656040 | TTACTGTGTAGTTTGACTTTGACTAAA | 57.344 | 29.630 | 0.00 | 0.00 | 38.36 | 1.85 |
494 | 495 | 8.732746 | ACTGTGTAGTTTGACTTTGACTAAAT | 57.267 | 30.769 | 0.00 | 0.00 | 31.66 | 1.40 |
495 | 496 | 8.827677 | ACTGTGTAGTTTGACTTTGACTAAATC | 58.172 | 33.333 | 0.00 | 0.00 | 31.66 | 2.17 |
496 | 497 | 8.958119 | TGTGTAGTTTGACTTTGACTAAATCT | 57.042 | 30.769 | 0.00 | 0.00 | 0.00 | 2.40 |
497 | 498 | 9.391006 | TGTGTAGTTTGACTTTGACTAAATCTT | 57.609 | 29.630 | 0.00 | 0.00 | 0.00 | 2.40 |
505 | 506 | 8.322906 | TGACTTTGACTAAATCTTATGTGTGG | 57.677 | 34.615 | 0.00 | 0.00 | 0.00 | 4.17 |
506 | 507 | 8.154203 | TGACTTTGACTAAATCTTATGTGTGGA | 58.846 | 33.333 | 0.00 | 0.00 | 0.00 | 4.02 |
507 | 508 | 8.553459 | ACTTTGACTAAATCTTATGTGTGGAG | 57.447 | 34.615 | 0.00 | 0.00 | 0.00 | 3.86 |
508 | 509 | 8.157476 | ACTTTGACTAAATCTTATGTGTGGAGT | 58.843 | 33.333 | 0.00 | 0.00 | 0.00 | 3.85 |
509 | 510 | 9.653287 | CTTTGACTAAATCTTATGTGTGGAGTA | 57.347 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
520 | 521 | 8.792633 | TCTTATGTGTGGAGTAAAAAGAAATGG | 58.207 | 33.333 | 0.00 | 0.00 | 0.00 | 3.16 |
521 | 522 | 8.698973 | TTATGTGTGGAGTAAAAAGAAATGGA | 57.301 | 30.769 | 0.00 | 0.00 | 0.00 | 3.41 |
522 | 523 | 7.595819 | ATGTGTGGAGTAAAAAGAAATGGAA | 57.404 | 32.000 | 0.00 | 0.00 | 0.00 | 3.53 |
523 | 524 | 7.595819 | TGTGTGGAGTAAAAAGAAATGGAAT | 57.404 | 32.000 | 0.00 | 0.00 | 0.00 | 3.01 |
524 | 525 | 7.432869 | TGTGTGGAGTAAAAAGAAATGGAATG | 58.567 | 34.615 | 0.00 | 0.00 | 0.00 | 2.67 |
525 | 526 | 7.286546 | TGTGTGGAGTAAAAAGAAATGGAATGA | 59.713 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
526 | 527 | 7.809806 | GTGTGGAGTAAAAAGAAATGGAATGAG | 59.190 | 37.037 | 0.00 | 0.00 | 0.00 | 2.90 |
527 | 528 | 7.505585 | TGTGGAGTAAAAAGAAATGGAATGAGT | 59.494 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
528 | 529 | 9.010029 | GTGGAGTAAAAAGAAATGGAATGAGTA | 57.990 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
529 | 530 | 9.010029 | TGGAGTAAAAAGAAATGGAATGAGTAC | 57.990 | 33.333 | 0.00 | 0.00 | 0.00 | 2.73 |
530 | 531 | 9.010029 | GGAGTAAAAAGAAATGGAATGAGTACA | 57.990 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
556 | 557 | 5.869579 | ACAATGAATACAGAGGTGAACAGT | 58.130 | 37.500 | 0.00 | 0.00 | 0.00 | 3.55 |
564 | 565 | 5.312120 | ACAGAGGTGAACAGTTCTATACG | 57.688 | 43.478 | 14.51 | 2.01 | 0.00 | 3.06 |
565 | 566 | 4.106197 | CAGAGGTGAACAGTTCTATACGC | 58.894 | 47.826 | 14.51 | 4.29 | 0.00 | 4.42 |
665 | 929 | 0.242825 | GCTAAAACGCCAAACTCCCC | 59.757 | 55.000 | 0.00 | 0.00 | 0.00 | 4.81 |
679 | 943 | 0.106894 | CTCCCCCGAGGTATTTGCTC | 59.893 | 60.000 | 0.00 | 0.00 | 36.75 | 4.26 |
927 | 1192 | 2.079170 | TCCCACATGCAACAAGGAAA | 57.921 | 45.000 | 0.00 | 0.00 | 0.00 | 3.13 |
940 | 1209 | 6.094881 | TGCAACAAGGAAAGGCTTATATACAC | 59.905 | 38.462 | 0.00 | 0.00 | 0.00 | 2.90 |
1027 | 1306 | 2.732016 | CGGTGGTGACCAAGTCGA | 59.268 | 61.111 | 5.57 | 0.00 | 43.33 | 4.20 |
1104 | 1383 | 2.599281 | TCCTTCGACAGGTCCGCA | 60.599 | 61.111 | 11.73 | 0.00 | 44.37 | 5.69 |
1180 | 1459 | 1.142748 | GAGACCATCAGGACGGCAG | 59.857 | 63.158 | 0.00 | 0.00 | 38.69 | 4.85 |
1623 | 1905 | 2.262603 | CAGGCACTCAGCTGCGTA | 59.737 | 61.111 | 9.41 | 0.00 | 44.79 | 4.42 |
1659 | 1941 | 1.642037 | CGCTCCTCGACTTCACCGTA | 61.642 | 60.000 | 0.00 | 0.00 | 41.67 | 4.02 |
1998 | 2289 | 1.903877 | CGGATCTGCTTGTCCCCAGT | 61.904 | 60.000 | 0.00 | 0.00 | 0.00 | 4.00 |
2478 | 2837 | 1.915769 | AAAGAGCAGGGCCGTCTCT | 60.916 | 57.895 | 20.16 | 20.16 | 38.72 | 3.10 |
2488 | 2847 | 1.407979 | GGGCCGTCTCTAGAAATTCGA | 59.592 | 52.381 | 0.00 | 0.00 | 0.00 | 3.71 |
2491 | 2850 | 2.099427 | GCCGTCTCTAGAAATTCGAGGT | 59.901 | 50.000 | 3.39 | 0.00 | 0.00 | 3.85 |
2550 | 2909 | 5.358298 | AAGTTCCTTACAACGAAAGCATC | 57.642 | 39.130 | 0.00 | 0.00 | 0.00 | 3.91 |
2551 | 2910 | 4.385825 | AGTTCCTTACAACGAAAGCATCA | 58.614 | 39.130 | 0.00 | 0.00 | 0.00 | 3.07 |
2885 | 3263 | 0.455633 | CTCTGCTTTGCGGCATGTTC | 60.456 | 55.000 | 2.28 | 0.00 | 41.63 | 3.18 |
3059 | 3437 | 6.525578 | TTTTTGAGAGAGATAGCGAGGTAA | 57.474 | 37.500 | 0.00 | 0.00 | 0.00 | 2.85 |
3060 | 3438 | 5.502153 | TTTGAGAGAGATAGCGAGGTAAC | 57.498 | 43.478 | 0.00 | 0.00 | 0.00 | 2.50 |
3089 | 3467 | 2.108168 | CCTAATCGGGGACAGAGTTCA | 58.892 | 52.381 | 0.00 | 0.00 | 0.00 | 3.18 |
3094 | 3472 | 0.944311 | CGGGGACAGAGTTCAACACG | 60.944 | 60.000 | 0.00 | 0.00 | 0.00 | 4.49 |
3099 | 3477 | 1.071471 | CAGAGTTCAACACGGCCCT | 59.929 | 57.895 | 0.00 | 0.00 | 0.00 | 5.19 |
3116 | 3520 | 1.817099 | CTTGCGATCAGACCAGGCC | 60.817 | 63.158 | 0.00 | 0.00 | 0.00 | 5.19 |
3147 | 3551 | 4.820716 | CCAAATCCATGCAAACAAAGGAAA | 59.179 | 37.500 | 0.00 | 0.00 | 37.53 | 3.13 |
3149 | 3553 | 6.016108 | CCAAATCCATGCAAACAAAGGAAAAT | 60.016 | 34.615 | 0.00 | 0.00 | 37.53 | 1.82 |
3150 | 3554 | 7.174599 | CCAAATCCATGCAAACAAAGGAAAATA | 59.825 | 33.333 | 0.00 | 0.00 | 37.53 | 1.40 |
3151 | 3555 | 8.566260 | CAAATCCATGCAAACAAAGGAAAATAA | 58.434 | 29.630 | 0.00 | 0.00 | 37.53 | 1.40 |
3152 | 3556 | 8.688747 | AATCCATGCAAACAAAGGAAAATAAA | 57.311 | 26.923 | 0.00 | 0.00 | 37.53 | 1.40 |
3153 | 3557 | 8.688747 | ATCCATGCAAACAAAGGAAAATAAAA | 57.311 | 26.923 | 0.00 | 0.00 | 37.53 | 1.52 |
3157 | 3561 | 9.947669 | CATGCAAACAAAGGAAAATAAAAATCA | 57.052 | 25.926 | 0.00 | 0.00 | 0.00 | 2.57 |
3187 | 3591 | 3.688049 | ATATAGCCTTGGCCCAAAACT | 57.312 | 42.857 | 8.17 | 0.04 | 0.00 | 2.66 |
3188 | 3592 | 4.806952 | ATATAGCCTTGGCCCAAAACTA | 57.193 | 40.909 | 8.17 | 2.56 | 0.00 | 2.24 |
3191 | 3595 | 0.541998 | GCCTTGGCCCAAAACTAGGT | 60.542 | 55.000 | 0.00 | 0.00 | 33.08 | 3.08 |
3203 | 3609 | 6.239772 | GCCCAAAACTAGGTCCCTAAAATTTT | 60.240 | 38.462 | 8.75 | 8.75 | 0.00 | 1.82 |
3204 | 3610 | 7.690797 | GCCCAAAACTAGGTCCCTAAAATTTTT | 60.691 | 37.037 | 9.06 | 0.00 | 0.00 | 1.94 |
3205 | 3611 | 7.659799 | CCCAAAACTAGGTCCCTAAAATTTTTG | 59.340 | 37.037 | 9.06 | 7.07 | 31.94 | 2.44 |
3216 | 3622 | 0.842635 | AAATTTTTGGGCCCTGTGCA | 59.157 | 45.000 | 25.70 | 0.00 | 43.89 | 4.57 |
3245 | 3651 | 2.491152 | CGCACATGGCATTGGACC | 59.509 | 61.111 | 0.00 | 0.00 | 45.17 | 4.46 |
3246 | 3652 | 2.894919 | GCACATGGCATTGGACCC | 59.105 | 61.111 | 0.00 | 0.00 | 43.97 | 4.46 |
3247 | 3653 | 2.724273 | GCACATGGCATTGGACCCC | 61.724 | 63.158 | 0.00 | 0.00 | 43.97 | 4.95 |
3248 | 3654 | 1.000739 | CACATGGCATTGGACCCCT | 59.999 | 57.895 | 0.00 | 0.00 | 0.00 | 4.79 |
3249 | 3655 | 1.000739 | ACATGGCATTGGACCCCTG | 59.999 | 57.895 | 0.00 | 0.00 | 0.00 | 4.45 |
3250 | 3656 | 1.307309 | CATGGCATTGGACCCCTGA | 59.693 | 57.895 | 0.00 | 0.00 | 0.00 | 3.86 |
3251 | 3657 | 1.039233 | CATGGCATTGGACCCCTGAC | 61.039 | 60.000 | 0.00 | 0.00 | 0.00 | 3.51 |
3252 | 3658 | 1.508667 | ATGGCATTGGACCCCTGACA | 61.509 | 55.000 | 0.00 | 1.65 | 31.25 | 3.58 |
3253 | 3659 | 1.076549 | GGCATTGGACCCCTGACAA | 59.923 | 57.895 | 0.00 | 0.00 | 0.00 | 3.18 |
3254 | 3660 | 0.541764 | GGCATTGGACCCCTGACAAA | 60.542 | 55.000 | 0.00 | 0.00 | 0.00 | 2.83 |
3255 | 3661 | 0.890683 | GCATTGGACCCCTGACAAAG | 59.109 | 55.000 | 0.00 | 0.00 | 0.00 | 2.77 |
3256 | 3662 | 1.547675 | GCATTGGACCCCTGACAAAGA | 60.548 | 52.381 | 0.00 | 0.00 | 0.00 | 2.52 |
3257 | 3663 | 2.440409 | CATTGGACCCCTGACAAAGAG | 58.560 | 52.381 | 0.00 | 0.00 | 0.00 | 2.85 |
3258 | 3664 | 0.771127 | TTGGACCCCTGACAAAGAGG | 59.229 | 55.000 | 0.00 | 0.00 | 0.00 | 3.69 |
3259 | 3665 | 0.104672 | TGGACCCCTGACAAAGAGGA | 60.105 | 55.000 | 0.00 | 0.00 | 31.48 | 3.71 |
3260 | 3666 | 1.290134 | GGACCCCTGACAAAGAGGAT | 58.710 | 55.000 | 0.00 | 0.00 | 31.48 | 3.24 |
3261 | 3667 | 2.225779 | TGGACCCCTGACAAAGAGGATA | 60.226 | 50.000 | 0.00 | 0.00 | 31.48 | 2.59 |
3262 | 3668 | 3.049344 | GGACCCCTGACAAAGAGGATAT | 58.951 | 50.000 | 0.00 | 0.00 | 31.48 | 1.63 |
3263 | 3669 | 3.071747 | GGACCCCTGACAAAGAGGATATC | 59.928 | 52.174 | 0.00 | 0.00 | 31.48 | 1.63 |
3264 | 3670 | 2.700897 | ACCCCTGACAAAGAGGATATCG | 59.299 | 50.000 | 0.00 | 0.00 | 31.48 | 2.92 |
3265 | 3671 | 2.700897 | CCCCTGACAAAGAGGATATCGT | 59.299 | 50.000 | 0.00 | 0.00 | 31.48 | 3.73 |
3266 | 3672 | 3.493350 | CCCCTGACAAAGAGGATATCGTG | 60.493 | 52.174 | 1.92 | 0.00 | 31.48 | 4.35 |
3267 | 3673 | 3.384789 | CCCTGACAAAGAGGATATCGTGA | 59.615 | 47.826 | 1.92 | 0.00 | 31.48 | 4.35 |
3268 | 3674 | 4.363999 | CCTGACAAAGAGGATATCGTGAC | 58.636 | 47.826 | 1.92 | 0.00 | 31.48 | 3.67 |
3269 | 3675 | 4.098654 | CCTGACAAAGAGGATATCGTGACT | 59.901 | 45.833 | 1.92 | 0.00 | 31.48 | 3.41 |
3270 | 3676 | 5.299531 | CCTGACAAAGAGGATATCGTGACTA | 59.700 | 44.000 | 1.92 | 0.00 | 31.48 | 2.59 |
3271 | 3677 | 6.015856 | CCTGACAAAGAGGATATCGTGACTAT | 60.016 | 42.308 | 1.92 | 0.00 | 31.48 | 2.12 |
3272 | 3678 | 6.971602 | TGACAAAGAGGATATCGTGACTATC | 58.028 | 40.000 | 1.92 | 0.00 | 0.00 | 2.08 |
3273 | 3679 | 6.546034 | TGACAAAGAGGATATCGTGACTATCA | 59.454 | 38.462 | 1.92 | 0.00 | 0.00 | 2.15 |
3274 | 3680 | 7.068226 | TGACAAAGAGGATATCGTGACTATCAA | 59.932 | 37.037 | 1.92 | 0.00 | 0.00 | 2.57 |
3275 | 3681 | 7.957002 | ACAAAGAGGATATCGTGACTATCAAT | 58.043 | 34.615 | 1.92 | 0.00 | 0.00 | 2.57 |
3276 | 3682 | 8.424918 | ACAAAGAGGATATCGTGACTATCAATT | 58.575 | 33.333 | 1.92 | 0.00 | 0.00 | 2.32 |
3277 | 3683 | 9.914131 | CAAAGAGGATATCGTGACTATCAATTA | 57.086 | 33.333 | 1.92 | 0.00 | 0.00 | 1.40 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
19 | 20 | 2.907917 | CCGGTGGTGGCGGAAAAA | 60.908 | 61.111 | 0.00 | 0.00 | 0.00 | 1.94 |
20 | 21 | 3.835790 | CTCCGGTGGTGGCGGAAAA | 62.836 | 63.158 | 0.00 | 0.00 | 0.00 | 2.29 |
21 | 22 | 4.323477 | CTCCGGTGGTGGCGGAAA | 62.323 | 66.667 | 0.00 | 0.00 | 0.00 | 3.13 |
98 | 99 | 2.747460 | GCATCTCCAACAGGCGCA | 60.747 | 61.111 | 10.83 | 0.00 | 0.00 | 6.09 |
100 | 101 | 3.805267 | GAGCATCTCCAACAGGCG | 58.195 | 61.111 | 0.00 | 0.00 | 0.00 | 5.52 |
168 | 169 | 8.035394 | TGAAATACTTACCTCACATCTGAGTTC | 58.965 | 37.037 | 0.00 | 0.00 | 42.36 | 3.01 |
170 | 171 | 7.039011 | TGTGAAATACTTACCTCACATCTGAGT | 60.039 | 37.037 | 0.00 | 0.00 | 42.36 | 3.41 |
193 | 194 | 5.375417 | TTGCTATTTCACATCTGGTTGTG | 57.625 | 39.130 | 5.68 | 5.68 | 46.70 | 3.33 |
194 | 195 | 5.278957 | GGTTTGCTATTTCACATCTGGTTGT | 60.279 | 40.000 | 0.00 | 0.00 | 0.00 | 3.32 |
195 | 196 | 5.163513 | GGTTTGCTATTTCACATCTGGTTG | 58.836 | 41.667 | 0.00 | 0.00 | 0.00 | 3.77 |
196 | 197 | 4.220602 | GGGTTTGCTATTTCACATCTGGTT | 59.779 | 41.667 | 0.00 | 0.00 | 0.00 | 3.67 |
197 | 198 | 3.763897 | GGGTTTGCTATTTCACATCTGGT | 59.236 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
198 | 199 | 3.181497 | CGGGTTTGCTATTTCACATCTGG | 60.181 | 47.826 | 0.00 | 0.00 | 0.00 | 3.86 |
199 | 200 | 3.440173 | ACGGGTTTGCTATTTCACATCTG | 59.560 | 43.478 | 0.00 | 0.00 | 0.00 | 2.90 |
200 | 201 | 3.686016 | ACGGGTTTGCTATTTCACATCT | 58.314 | 40.909 | 0.00 | 0.00 | 0.00 | 2.90 |
201 | 202 | 4.434713 | AACGGGTTTGCTATTTCACATC | 57.565 | 40.909 | 0.00 | 0.00 | 0.00 | 3.06 |
202 | 203 | 4.864704 | AAACGGGTTTGCTATTTCACAT | 57.135 | 36.364 | 0.00 | 0.00 | 0.00 | 3.21 |
203 | 204 | 4.023021 | GGTAAACGGGTTTGCTATTTCACA | 60.023 | 41.667 | 11.24 | 0.00 | 35.84 | 3.58 |
204 | 205 | 4.478699 | GGTAAACGGGTTTGCTATTTCAC | 58.521 | 43.478 | 11.24 | 0.00 | 35.84 | 3.18 |
205 | 206 | 3.188873 | CGGTAAACGGGTTTGCTATTTCA | 59.811 | 43.478 | 11.24 | 0.00 | 39.42 | 2.69 |
206 | 207 | 3.750512 | CGGTAAACGGGTTTGCTATTTC | 58.249 | 45.455 | 11.24 | 0.00 | 39.42 | 2.17 |
207 | 208 | 3.835378 | CGGTAAACGGGTTTGCTATTT | 57.165 | 42.857 | 11.24 | 0.00 | 39.42 | 1.40 |
227 | 228 | 0.860618 | CGGCTAGCTTCGTCGTGTAC | 60.861 | 60.000 | 15.72 | 0.00 | 0.00 | 2.90 |
280 | 281 | 4.446719 | GCGGACTAAAAAGAAACGAAGAGA | 59.553 | 41.667 | 0.00 | 0.00 | 0.00 | 3.10 |
281 | 282 | 4.210537 | TGCGGACTAAAAAGAAACGAAGAG | 59.789 | 41.667 | 0.00 | 0.00 | 0.00 | 2.85 |
282 | 283 | 4.121317 | TGCGGACTAAAAAGAAACGAAGA | 58.879 | 39.130 | 0.00 | 0.00 | 0.00 | 2.87 |
283 | 284 | 4.461992 | TGCGGACTAAAAAGAAACGAAG | 57.538 | 40.909 | 0.00 | 0.00 | 0.00 | 3.79 |
284 | 285 | 6.730960 | ATATGCGGACTAAAAAGAAACGAA | 57.269 | 33.333 | 0.00 | 0.00 | 0.00 | 3.85 |
285 | 286 | 7.010738 | CCTTATATGCGGACTAAAAAGAAACGA | 59.989 | 37.037 | 0.00 | 0.00 | 0.00 | 3.85 |
286 | 287 | 7.123830 | CCTTATATGCGGACTAAAAAGAAACG | 58.876 | 38.462 | 0.00 | 0.00 | 0.00 | 3.60 |
287 | 288 | 7.982224 | ACCTTATATGCGGACTAAAAAGAAAC | 58.018 | 34.615 | 0.00 | 0.00 | 0.00 | 2.78 |
288 | 289 | 8.570068 | AACCTTATATGCGGACTAAAAAGAAA | 57.430 | 30.769 | 0.00 | 0.00 | 0.00 | 2.52 |
289 | 290 | 8.455682 | CAAACCTTATATGCGGACTAAAAAGAA | 58.544 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
290 | 291 | 7.066525 | CCAAACCTTATATGCGGACTAAAAAGA | 59.933 | 37.037 | 0.00 | 0.00 | 0.00 | 2.52 |
291 | 292 | 7.148137 | ACCAAACCTTATATGCGGACTAAAAAG | 60.148 | 37.037 | 0.00 | 0.00 | 0.00 | 2.27 |
292 | 293 | 6.660094 | ACCAAACCTTATATGCGGACTAAAAA | 59.340 | 34.615 | 0.00 | 0.00 | 0.00 | 1.94 |
293 | 294 | 6.181908 | ACCAAACCTTATATGCGGACTAAAA | 58.818 | 36.000 | 0.00 | 0.00 | 0.00 | 1.52 |
294 | 295 | 5.747342 | ACCAAACCTTATATGCGGACTAAA | 58.253 | 37.500 | 0.00 | 0.00 | 0.00 | 1.85 |
295 | 296 | 5.104859 | TGACCAAACCTTATATGCGGACTAA | 60.105 | 40.000 | 0.00 | 0.00 | 0.00 | 2.24 |
296 | 297 | 4.406326 | TGACCAAACCTTATATGCGGACTA | 59.594 | 41.667 | 0.00 | 0.00 | 0.00 | 2.59 |
297 | 298 | 3.199071 | TGACCAAACCTTATATGCGGACT | 59.801 | 43.478 | 0.00 | 0.00 | 0.00 | 3.85 |
298 | 299 | 3.537580 | TGACCAAACCTTATATGCGGAC | 58.462 | 45.455 | 0.00 | 0.00 | 0.00 | 4.79 |
299 | 300 | 3.916359 | TGACCAAACCTTATATGCGGA | 57.084 | 42.857 | 0.00 | 0.00 | 0.00 | 5.54 |
300 | 301 | 4.398044 | ACTTTGACCAAACCTTATATGCGG | 59.602 | 41.667 | 0.00 | 0.00 | 0.00 | 5.69 |
301 | 302 | 5.123186 | TGACTTTGACCAAACCTTATATGCG | 59.877 | 40.000 | 0.00 | 0.00 | 0.00 | 4.73 |
302 | 303 | 6.509418 | TGACTTTGACCAAACCTTATATGC | 57.491 | 37.500 | 0.00 | 0.00 | 0.00 | 3.14 |
303 | 304 | 7.029563 | GCTTGACTTTGACCAAACCTTATATG | 58.970 | 38.462 | 0.00 | 0.00 | 0.00 | 1.78 |
304 | 305 | 6.948309 | AGCTTGACTTTGACCAAACCTTATAT | 59.052 | 34.615 | 0.00 | 0.00 | 0.00 | 0.86 |
305 | 306 | 6.303839 | AGCTTGACTTTGACCAAACCTTATA | 58.696 | 36.000 | 0.00 | 0.00 | 0.00 | 0.98 |
306 | 307 | 5.140454 | AGCTTGACTTTGACCAAACCTTAT | 58.860 | 37.500 | 0.00 | 0.00 | 0.00 | 1.73 |
307 | 308 | 4.532834 | AGCTTGACTTTGACCAAACCTTA | 58.467 | 39.130 | 0.00 | 0.00 | 0.00 | 2.69 |
308 | 309 | 3.365472 | AGCTTGACTTTGACCAAACCTT | 58.635 | 40.909 | 0.00 | 0.00 | 0.00 | 3.50 |
309 | 310 | 3.018423 | AGCTTGACTTTGACCAAACCT | 57.982 | 42.857 | 0.00 | 0.00 | 0.00 | 3.50 |
310 | 311 | 3.801114 | AAGCTTGACTTTGACCAAACC | 57.199 | 42.857 | 0.00 | 0.00 | 33.71 | 3.27 |
320 | 321 | 6.116126 | AGTCAAACTCTACAAAGCTTGACTT | 58.884 | 36.000 | 13.94 | 3.16 | 41.70 | 3.01 |
321 | 322 | 5.675538 | AGTCAAACTCTACAAAGCTTGACT | 58.324 | 37.500 | 13.94 | 13.94 | 0.00 | 3.41 |
322 | 323 | 5.993106 | AGTCAAACTCTACAAAGCTTGAC | 57.007 | 39.130 | 0.00 | 10.63 | 0.00 | 3.18 |
323 | 324 | 7.272978 | AGTTAGTCAAACTCTACAAAGCTTGA | 58.727 | 34.615 | 0.00 | 0.00 | 45.64 | 3.02 |
324 | 325 | 7.484035 | AGTTAGTCAAACTCTACAAAGCTTG | 57.516 | 36.000 | 0.00 | 0.00 | 45.64 | 4.01 |
378 | 379 | 9.743581 | TGGTGCATATGATAATACTGATTTCAT | 57.256 | 29.630 | 6.97 | 0.00 | 32.44 | 2.57 |
379 | 380 | 9.743581 | ATGGTGCATATGATAATACTGATTTCA | 57.256 | 29.630 | 6.97 | 0.00 | 0.00 | 2.69 |
381 | 382 | 8.886719 | CGATGGTGCATATGATAATACTGATTT | 58.113 | 33.333 | 6.97 | 0.00 | 0.00 | 2.17 |
382 | 383 | 8.260114 | TCGATGGTGCATATGATAATACTGATT | 58.740 | 33.333 | 6.97 | 0.00 | 0.00 | 2.57 |
383 | 384 | 7.785033 | TCGATGGTGCATATGATAATACTGAT | 58.215 | 34.615 | 6.97 | 0.00 | 0.00 | 2.90 |
384 | 385 | 7.169158 | TCGATGGTGCATATGATAATACTGA | 57.831 | 36.000 | 6.97 | 0.00 | 0.00 | 3.41 |
385 | 386 | 7.832503 | TTCGATGGTGCATATGATAATACTG | 57.167 | 36.000 | 6.97 | 0.00 | 0.00 | 2.74 |
386 | 387 | 8.043113 | ACATTCGATGGTGCATATGATAATACT | 58.957 | 33.333 | 6.97 | 0.00 | 33.60 | 2.12 |
387 | 388 | 8.201554 | ACATTCGATGGTGCATATGATAATAC | 57.798 | 34.615 | 6.97 | 0.00 | 33.60 | 1.89 |
389 | 390 | 8.969260 | ATACATTCGATGGTGCATATGATAAT | 57.031 | 30.769 | 6.97 | 0.00 | 33.60 | 1.28 |
390 | 391 | 8.791327 | AATACATTCGATGGTGCATATGATAA | 57.209 | 30.769 | 6.97 | 0.00 | 33.60 | 1.75 |
391 | 392 | 8.791327 | AAATACATTCGATGGTGCATATGATA | 57.209 | 30.769 | 6.97 | 0.00 | 33.60 | 2.15 |
392 | 393 | 7.692460 | AAATACATTCGATGGTGCATATGAT | 57.308 | 32.000 | 6.97 | 0.00 | 33.60 | 2.45 |
393 | 394 | 7.228308 | TGAAAATACATTCGATGGTGCATATGA | 59.772 | 33.333 | 6.97 | 0.00 | 31.80 | 2.15 |
394 | 395 | 7.361894 | TGAAAATACATTCGATGGTGCATATG | 58.638 | 34.615 | 0.00 | 0.00 | 31.80 | 1.78 |
395 | 396 | 7.509141 | TGAAAATACATTCGATGGTGCATAT | 57.491 | 32.000 | 0.00 | 0.00 | 31.80 | 1.78 |
396 | 397 | 6.934048 | TGAAAATACATTCGATGGTGCATA | 57.066 | 33.333 | 0.00 | 0.00 | 31.80 | 3.14 |
397 | 398 | 5.833406 | TGAAAATACATTCGATGGTGCAT | 57.167 | 34.783 | 0.00 | 0.00 | 31.80 | 3.96 |
398 | 399 | 5.833406 | ATGAAAATACATTCGATGGTGCA | 57.167 | 34.783 | 0.00 | 0.00 | 31.80 | 4.57 |
399 | 400 | 6.959361 | AGTATGAAAATACATTCGATGGTGC | 58.041 | 36.000 | 0.00 | 0.00 | 31.80 | 5.01 |
463 | 464 | 9.783256 | GTCAAAGTCAAACTACACAGTAAATTT | 57.217 | 29.630 | 0.00 | 0.00 | 33.48 | 1.82 |
464 | 465 | 9.174166 | AGTCAAAGTCAAACTACACAGTAAATT | 57.826 | 29.630 | 0.00 | 0.00 | 33.48 | 1.82 |
465 | 466 | 8.732746 | AGTCAAAGTCAAACTACACAGTAAAT | 57.267 | 30.769 | 0.00 | 0.00 | 33.48 | 1.40 |
466 | 467 | 9.656040 | TTAGTCAAAGTCAAACTACACAGTAAA | 57.344 | 29.630 | 0.00 | 0.00 | 33.48 | 2.01 |
467 | 468 | 9.656040 | TTTAGTCAAAGTCAAACTACACAGTAA | 57.344 | 29.630 | 0.00 | 0.00 | 33.48 | 2.24 |
468 | 469 | 9.826574 | ATTTAGTCAAAGTCAAACTACACAGTA | 57.173 | 29.630 | 0.00 | 0.00 | 33.48 | 2.74 |
469 | 470 | 8.732746 | ATTTAGTCAAAGTCAAACTACACAGT | 57.267 | 30.769 | 0.00 | 0.00 | 36.19 | 3.55 |
470 | 471 | 9.046296 | AGATTTAGTCAAAGTCAAACTACACAG | 57.954 | 33.333 | 0.00 | 0.00 | 0.00 | 3.66 |
471 | 472 | 8.958119 | AGATTTAGTCAAAGTCAAACTACACA | 57.042 | 30.769 | 0.00 | 0.00 | 0.00 | 3.72 |
479 | 480 | 8.783093 | CCACACATAAGATTTAGTCAAAGTCAA | 58.217 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
480 | 481 | 8.154203 | TCCACACATAAGATTTAGTCAAAGTCA | 58.846 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
481 | 482 | 8.547967 | TCCACACATAAGATTTAGTCAAAGTC | 57.452 | 34.615 | 0.00 | 0.00 | 0.00 | 3.01 |
482 | 483 | 8.157476 | ACTCCACACATAAGATTTAGTCAAAGT | 58.843 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
483 | 484 | 8.553459 | ACTCCACACATAAGATTTAGTCAAAG | 57.447 | 34.615 | 0.00 | 0.00 | 0.00 | 2.77 |
494 | 495 | 8.792633 | CCATTTCTTTTTACTCCACACATAAGA | 58.207 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
495 | 496 | 8.792633 | TCCATTTCTTTTTACTCCACACATAAG | 58.207 | 33.333 | 0.00 | 0.00 | 0.00 | 1.73 |
496 | 497 | 8.698973 | TCCATTTCTTTTTACTCCACACATAA | 57.301 | 30.769 | 0.00 | 0.00 | 0.00 | 1.90 |
497 | 498 | 8.698973 | TTCCATTTCTTTTTACTCCACACATA | 57.301 | 30.769 | 0.00 | 0.00 | 0.00 | 2.29 |
498 | 499 | 7.595819 | TTCCATTTCTTTTTACTCCACACAT | 57.404 | 32.000 | 0.00 | 0.00 | 0.00 | 3.21 |
499 | 500 | 7.286546 | TCATTCCATTTCTTTTTACTCCACACA | 59.713 | 33.333 | 0.00 | 0.00 | 0.00 | 3.72 |
500 | 501 | 7.657336 | TCATTCCATTTCTTTTTACTCCACAC | 58.343 | 34.615 | 0.00 | 0.00 | 0.00 | 3.82 |
501 | 502 | 7.505585 | ACTCATTCCATTTCTTTTTACTCCACA | 59.494 | 33.333 | 0.00 | 0.00 | 0.00 | 4.17 |
502 | 503 | 7.886338 | ACTCATTCCATTTCTTTTTACTCCAC | 58.114 | 34.615 | 0.00 | 0.00 | 0.00 | 4.02 |
503 | 504 | 9.010029 | GTACTCATTCCATTTCTTTTTACTCCA | 57.990 | 33.333 | 0.00 | 0.00 | 0.00 | 3.86 |
504 | 505 | 9.010029 | TGTACTCATTCCATTTCTTTTTACTCC | 57.990 | 33.333 | 0.00 | 0.00 | 0.00 | 3.85 |
513 | 514 | 9.685276 | TCATTGTATTGTACTCATTCCATTTCT | 57.315 | 29.630 | 0.00 | 0.00 | 0.00 | 2.52 |
518 | 519 | 9.898152 | TGTATTCATTGTATTGTACTCATTCCA | 57.102 | 29.630 | 0.00 | 0.00 | 0.00 | 3.53 |
522 | 523 | 9.770097 | CCTCTGTATTCATTGTATTGTACTCAT | 57.230 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
523 | 524 | 8.758829 | ACCTCTGTATTCATTGTATTGTACTCA | 58.241 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
524 | 525 | 9.035607 | CACCTCTGTATTCATTGTATTGTACTC | 57.964 | 37.037 | 0.00 | 0.00 | 0.00 | 2.59 |
525 | 526 | 8.758829 | TCACCTCTGTATTCATTGTATTGTACT | 58.241 | 33.333 | 0.00 | 0.00 | 0.00 | 2.73 |
526 | 527 | 8.942338 | TCACCTCTGTATTCATTGTATTGTAC | 57.058 | 34.615 | 0.00 | 0.00 | 0.00 | 2.90 |
527 | 528 | 9.378551 | GTTCACCTCTGTATTCATTGTATTGTA | 57.621 | 33.333 | 0.00 | 0.00 | 0.00 | 2.41 |
528 | 529 | 7.882791 | TGTTCACCTCTGTATTCATTGTATTGT | 59.117 | 33.333 | 0.00 | 0.00 | 0.00 | 2.71 |
529 | 530 | 8.267620 | TGTTCACCTCTGTATTCATTGTATTG | 57.732 | 34.615 | 0.00 | 0.00 | 0.00 | 1.90 |
530 | 531 | 8.103305 | ACTGTTCACCTCTGTATTCATTGTATT | 58.897 | 33.333 | 0.00 | 0.00 | 0.00 | 1.89 |
531 | 532 | 7.624549 | ACTGTTCACCTCTGTATTCATTGTAT | 58.375 | 34.615 | 0.00 | 0.00 | 0.00 | 2.29 |
532 | 533 | 7.004555 | ACTGTTCACCTCTGTATTCATTGTA | 57.995 | 36.000 | 0.00 | 0.00 | 0.00 | 2.41 |
533 | 534 | 5.869579 | ACTGTTCACCTCTGTATTCATTGT | 58.130 | 37.500 | 0.00 | 0.00 | 0.00 | 2.71 |
534 | 535 | 6.652481 | AGAACTGTTCACCTCTGTATTCATTG | 59.348 | 38.462 | 21.50 | 0.00 | 0.00 | 2.82 |
541 | 542 | 5.163683 | GCGTATAGAACTGTTCACCTCTGTA | 60.164 | 44.000 | 21.50 | 4.82 | 0.00 | 2.74 |
546 | 547 | 2.167900 | GGGCGTATAGAACTGTTCACCT | 59.832 | 50.000 | 21.50 | 8.63 | 0.00 | 4.00 |
556 | 557 | 0.683828 | TGGACCGTGGGCGTATAGAA | 60.684 | 55.000 | 0.00 | 0.00 | 36.15 | 2.10 |
597 | 598 | 2.915659 | AGGTCGTTGGGCTGTCGA | 60.916 | 61.111 | 0.00 | 0.00 | 0.00 | 4.20 |
665 | 929 | 4.003648 | AGTTTTGAGAGCAAATACCTCGG | 58.996 | 43.478 | 0.00 | 0.00 | 43.07 | 4.63 |
927 | 1192 | 3.573110 | GTGACGGAGGTGTATATAAGCCT | 59.427 | 47.826 | 6.16 | 6.16 | 0.00 | 4.58 |
1623 | 1905 | 1.298859 | GCGCGAAGTCCCTGTTGAAT | 61.299 | 55.000 | 12.10 | 0.00 | 0.00 | 2.57 |
1998 | 2289 | 1.380403 | CCTGTTCCGTTGTTGTGCCA | 61.380 | 55.000 | 0.00 | 0.00 | 0.00 | 4.92 |
2313 | 2633 | 1.079405 | GCTCATTCGGTCGAACCCA | 60.079 | 57.895 | 8.00 | 0.00 | 36.91 | 4.51 |
2368 | 2688 | 5.414144 | TCATTCAGAATGTGCGGAAATACAA | 59.586 | 36.000 | 20.49 | 0.00 | 39.87 | 2.41 |
2442 | 2762 | 5.683770 | GCTCTTTGTGGTGGGTAAACAAATT | 60.684 | 40.000 | 1.12 | 0.00 | 41.52 | 1.82 |
2443 | 2763 | 4.202212 | GCTCTTTGTGGTGGGTAAACAAAT | 60.202 | 41.667 | 1.12 | 0.00 | 41.52 | 2.32 |
2447 | 2767 | 2.293399 | CTGCTCTTTGTGGTGGGTAAAC | 59.707 | 50.000 | 0.00 | 0.00 | 0.00 | 2.01 |
2451 | 2810 | 1.151450 | CCTGCTCTTTGTGGTGGGT | 59.849 | 57.895 | 0.00 | 0.00 | 0.00 | 4.51 |
2478 | 2837 | 1.479323 | CACCGGGACCTCGAATTTCTA | 59.521 | 52.381 | 6.32 | 0.00 | 0.00 | 2.10 |
2488 | 2847 | 1.376812 | GAATTTCGCACCGGGACCT | 60.377 | 57.895 | 6.32 | 0.00 | 0.00 | 3.85 |
2491 | 2850 | 1.201181 | CATTTGAATTTCGCACCGGGA | 59.799 | 47.619 | 6.32 | 0.00 | 0.00 | 5.14 |
3037 | 3415 | 5.652891 | AGTTACCTCGCTATCTCTCTCAAAA | 59.347 | 40.000 | 0.00 | 0.00 | 0.00 | 2.44 |
3038 | 3416 | 5.066634 | CAGTTACCTCGCTATCTCTCTCAAA | 59.933 | 44.000 | 0.00 | 0.00 | 0.00 | 2.69 |
3040 | 3418 | 4.130857 | CAGTTACCTCGCTATCTCTCTCA | 58.869 | 47.826 | 0.00 | 0.00 | 0.00 | 3.27 |
3044 | 3422 | 5.182380 | GCTAATCAGTTACCTCGCTATCTCT | 59.818 | 44.000 | 0.00 | 0.00 | 0.00 | 3.10 |
3045 | 3423 | 5.395642 | GCTAATCAGTTACCTCGCTATCTC | 58.604 | 45.833 | 0.00 | 0.00 | 0.00 | 2.75 |
3046 | 3424 | 4.218852 | GGCTAATCAGTTACCTCGCTATCT | 59.781 | 45.833 | 0.00 | 0.00 | 0.00 | 1.98 |
3047 | 3425 | 4.487019 | GGCTAATCAGTTACCTCGCTATC | 58.513 | 47.826 | 0.00 | 0.00 | 0.00 | 2.08 |
3050 | 3428 | 1.413077 | GGGCTAATCAGTTACCTCGCT | 59.587 | 52.381 | 0.00 | 0.00 | 0.00 | 4.93 |
3051 | 3429 | 1.413077 | AGGGCTAATCAGTTACCTCGC | 59.587 | 52.381 | 0.00 | 0.00 | 0.00 | 5.03 |
3052 | 3430 | 4.931661 | TTAGGGCTAATCAGTTACCTCG | 57.068 | 45.455 | 0.00 | 0.00 | 0.00 | 4.63 |
3069 | 3447 | 2.108168 | TGAACTCTGTCCCCGATTAGG | 58.892 | 52.381 | 0.00 | 0.00 | 40.63 | 2.69 |
3070 | 3448 | 3.056107 | TGTTGAACTCTGTCCCCGATTAG | 60.056 | 47.826 | 0.00 | 0.00 | 0.00 | 1.73 |
3071 | 3449 | 2.901192 | TGTTGAACTCTGTCCCCGATTA | 59.099 | 45.455 | 0.00 | 0.00 | 0.00 | 1.75 |
3072 | 3450 | 1.697432 | TGTTGAACTCTGTCCCCGATT | 59.303 | 47.619 | 0.00 | 0.00 | 0.00 | 3.34 |
3073 | 3451 | 1.002087 | GTGTTGAACTCTGTCCCCGAT | 59.998 | 52.381 | 0.00 | 0.00 | 0.00 | 4.18 |
3074 | 3452 | 0.391597 | GTGTTGAACTCTGTCCCCGA | 59.608 | 55.000 | 0.00 | 0.00 | 0.00 | 5.14 |
3075 | 3453 | 0.944311 | CGTGTTGAACTCTGTCCCCG | 60.944 | 60.000 | 0.00 | 0.00 | 0.00 | 5.73 |
3076 | 3454 | 0.602905 | CCGTGTTGAACTCTGTCCCC | 60.603 | 60.000 | 0.00 | 0.00 | 0.00 | 4.81 |
3077 | 3455 | 1.228657 | GCCGTGTTGAACTCTGTCCC | 61.229 | 60.000 | 0.00 | 0.00 | 0.00 | 4.46 |
3084 | 3462 | 2.193536 | GCAAGGGCCGTGTTGAACT | 61.194 | 57.895 | 20.59 | 0.00 | 0.00 | 3.01 |
3089 | 3467 | 2.746277 | GATCGCAAGGGCCGTGTT | 60.746 | 61.111 | 20.59 | 6.38 | 36.38 | 3.32 |
3094 | 3472 | 2.514824 | GGTCTGATCGCAAGGGCC | 60.515 | 66.667 | 0.00 | 0.00 | 36.38 | 5.80 |
3099 | 3477 | 2.268920 | GGCCTGGTCTGATCGCAA | 59.731 | 61.111 | 0.00 | 0.00 | 0.00 | 4.85 |
3116 | 3520 | 1.455383 | GCATGGATTTGGGCCTACCG | 61.455 | 60.000 | 4.53 | 0.00 | 44.64 | 4.02 |
3119 | 3523 | 1.830477 | GTTTGCATGGATTTGGGCCTA | 59.170 | 47.619 | 4.53 | 0.00 | 0.00 | 3.93 |
3157 | 3561 | 8.170121 | TGGGCCAAGGCTATATTTACTATTAT | 57.830 | 34.615 | 2.13 | 0.00 | 41.60 | 1.28 |
3166 | 3570 | 3.994317 | AGTTTTGGGCCAAGGCTATATT | 58.006 | 40.909 | 19.90 | 0.00 | 41.60 | 1.28 |
3172 | 3576 | 0.541998 | ACCTAGTTTTGGGCCAAGGC | 60.542 | 55.000 | 19.90 | 15.58 | 41.06 | 4.35 |
3187 | 3591 | 4.098155 | GGCCCAAAAATTTTAGGGACCTA | 58.902 | 43.478 | 21.76 | 0.00 | 43.97 | 3.08 |
3188 | 3592 | 2.910319 | GGCCCAAAAATTTTAGGGACCT | 59.090 | 45.455 | 21.76 | 0.00 | 43.97 | 3.85 |
3191 | 3595 | 2.909662 | CAGGGCCCAAAAATTTTAGGGA | 59.090 | 45.455 | 27.56 | 0.00 | 44.30 | 4.20 |
3203 | 3609 | 4.641645 | CGACTGCACAGGGCCCAA | 62.642 | 66.667 | 27.56 | 2.42 | 43.89 | 4.12 |
3238 | 3644 | 1.355720 | CCTCTTTGTCAGGGGTCCAAT | 59.644 | 52.381 | 0.00 | 0.00 | 38.60 | 3.16 |
3245 | 3651 | 3.384789 | TCACGATATCCTCTTTGTCAGGG | 59.615 | 47.826 | 0.00 | 0.00 | 0.00 | 4.45 |
3246 | 3652 | 4.098654 | AGTCACGATATCCTCTTTGTCAGG | 59.901 | 45.833 | 0.00 | 0.00 | 0.00 | 3.86 |
3247 | 3653 | 5.255710 | AGTCACGATATCCTCTTTGTCAG | 57.744 | 43.478 | 0.00 | 0.00 | 0.00 | 3.51 |
3248 | 3654 | 6.546034 | TGATAGTCACGATATCCTCTTTGTCA | 59.454 | 38.462 | 0.00 | 0.00 | 0.00 | 3.58 |
3249 | 3655 | 6.971602 | TGATAGTCACGATATCCTCTTTGTC | 58.028 | 40.000 | 0.00 | 0.00 | 0.00 | 3.18 |
3250 | 3656 | 6.961360 | TGATAGTCACGATATCCTCTTTGT | 57.039 | 37.500 | 0.00 | 0.00 | 0.00 | 2.83 |
3251 | 3657 | 8.824159 | AATTGATAGTCACGATATCCTCTTTG | 57.176 | 34.615 | 0.00 | 0.00 | 0.00 | 2.77 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.