Multiple sequence alignment - TraesCS2A01G547900
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 | TraesCS2A01G547900 | chr2A | 100.000 | 5589 | 0 | 0 | 1 | 5589 | 755784726 | 755790314 | 0.000000e+00 | 10322 |
1 | TraesCS2A01G547900 | chr2D | 93.110 | 5631 | 254 | 65 | 1 | 5583 | 624549986 | 624555530 | 0.000000e+00 | 8126 |
2 | TraesCS2A01G547900 | chr2B | 91.948 | 5129 | 277 | 73 | 1 | 5082 | 767013661 | 767018700 | 0.000000e+00 | 7059 |
3 | TraesCS2A01G547900 | chr2B | 92.958 | 213 | 9 | 4 | 5349 | 5560 | 767018995 | 767019202 | 7.030000e-79 | 305 |
4 | TraesCS2A01G547900 | chr2B | 92.655 | 177 | 8 | 3 | 5165 | 5336 | 767018714 | 767018890 | 3.340000e-62 | 250 |
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 | TraesCS2A01G547900 | chr2A | 755784726 | 755790314 | 5588 | False | 10322 | 10322 | 100.000000 | 1 | 5589 | 1 | chr2A.!!$F1 | 5588 |
1 | TraesCS2A01G547900 | chr2D | 624549986 | 624555530 | 5544 | False | 8126 | 8126 | 93.110000 | 1 | 5583 | 1 | chr2D.!!$F1 | 5582 |
2 | TraesCS2A01G547900 | chr2B | 767013661 | 767019202 | 5541 | False | 2538 | 7059 | 92.520333 | 1 | 5560 | 3 | chr2B.!!$F1 | 5559 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
229 | 232 | 0.460311 | AGTTACCTTCTCATCCGCCG | 59.540 | 55.0 | 0.00 | 0.00 | 0.00 | 6.46 | F |
514 | 524 | 0.662085 | TAAAAACCGCAACCCACGTC | 59.338 | 50.0 | 0.00 | 0.00 | 0.00 | 4.34 | F |
1402 | 1436 | 0.107703 | CGATGCTAGGGCTTGGTCAA | 60.108 | 55.0 | 0.00 | 0.00 | 39.59 | 3.18 | F |
3153 | 3233 | 0.032952 | CAAAACAGCATGCCAGCAGT | 59.967 | 50.0 | 15.66 | 2.67 | 42.53 | 4.40 | F |
4187 | 4267 | 0.674895 | GAGGAAACGACAGGCTGCAT | 60.675 | 55.0 | 15.89 | 0.00 | 0.00 | 3.96 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1171 | 1205 | 0.106967 | GGCTAGCTTGGAAGGAAGGG | 60.107 | 60.0 | 15.72 | 0.0 | 0.00 | 3.95 | R |
1570 | 1608 | 0.171007 | CGTGATTCATGTTGCCACCC | 59.829 | 55.0 | 0.00 | 0.0 | 0.00 | 4.61 | R |
3352 | 3432 | 0.323087 | AAGCACCAGCATCTGCATCA | 60.323 | 50.0 | 4.79 | 0.0 | 45.49 | 3.07 | R |
4465 | 4545 | 0.030908 | CTTCGGTCGCCTCATACTCC | 59.969 | 60.0 | 0.00 | 0.0 | 0.00 | 3.85 | R |
5435 | 5626 | 1.159285 | CAATCTCGTGGCAAGCAAGA | 58.841 | 50.0 | 0.00 | 0.0 | 0.00 | 3.02 | 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 |
---|---|---|---|---|---|---|---|---|---|
38 | 39 | 4.323562 | GGGGAGTGGAGTTATATGTATGCC | 60.324 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
52 | 53 | 4.955925 | TGTATGCCGGTTTAGAAATGTG | 57.044 | 40.909 | 1.90 | 0.00 | 0.00 | 3.21 |
53 | 54 | 4.580868 | TGTATGCCGGTTTAGAAATGTGA | 58.419 | 39.130 | 1.90 | 0.00 | 0.00 | 3.58 |
68 | 69 | 1.348064 | TGTGAACTCCCACCTACCTG | 58.652 | 55.000 | 0.00 | 0.00 | 36.26 | 4.00 |
82 | 83 | 2.392662 | CTACCTGCCTGAATGGAGAGA | 58.607 | 52.381 | 0.00 | 0.00 | 38.35 | 3.10 |
96 | 97 | 8.203681 | TGAATGGAGAGATGAAGATGATGTAT | 57.796 | 34.615 | 0.00 | 0.00 | 0.00 | 2.29 |
162 | 163 | 2.742428 | ATAGTACACTCCCGCCTACA | 57.258 | 50.000 | 0.00 | 0.00 | 0.00 | 2.74 |
163 | 164 | 2.742428 | TAGTACACTCCCGCCTACAT | 57.258 | 50.000 | 0.00 | 0.00 | 0.00 | 2.29 |
165 | 166 | 0.822164 | GTACACTCCCGCCTACATGT | 59.178 | 55.000 | 2.69 | 2.69 | 0.00 | 3.21 |
166 | 167 | 0.821517 | TACACTCCCGCCTACATGTG | 59.178 | 55.000 | 9.11 | 0.00 | 0.00 | 3.21 |
167 | 168 | 1.192146 | ACACTCCCGCCTACATGTGT | 61.192 | 55.000 | 9.11 | 0.00 | 34.38 | 3.72 |
186 | 187 | 7.754027 | ACATGTGTGTAAAGACGAAGATACTAC | 59.246 | 37.037 | 0.00 | 0.00 | 36.63 | 2.73 |
189 | 190 | 7.040892 | TGTGTGTAAAGACGAAGATACTACACT | 60.041 | 37.037 | 0.00 | 0.00 | 36.99 | 3.55 |
191 | 192 | 7.173735 | TGTGTAAAGACGAAGATACTACACTCA | 59.826 | 37.037 | 9.95 | 0.00 | 36.99 | 3.41 |
192 | 193 | 8.019669 | GTGTAAAGACGAAGATACTACACTCAA | 58.980 | 37.037 | 0.00 | 0.00 | 34.30 | 3.02 |
193 | 194 | 8.737175 | TGTAAAGACGAAGATACTACACTCAAT | 58.263 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
194 | 195 | 9.011407 | GTAAAGACGAAGATACTACACTCAATG | 57.989 | 37.037 | 0.00 | 0.00 | 0.00 | 2.82 |
196 | 197 | 6.787225 | AGACGAAGATACTACACTCAATGTC | 58.213 | 40.000 | 0.00 | 0.00 | 42.09 | 3.06 |
197 | 198 | 6.374613 | AGACGAAGATACTACACTCAATGTCA | 59.625 | 38.462 | 0.00 | 0.00 | 42.09 | 3.58 |
207 | 210 | 4.191544 | ACACTCAATGTCACGATATTGGG | 58.808 | 43.478 | 13.12 | 13.12 | 43.40 | 4.12 |
229 | 232 | 0.460311 | AGTTACCTTCTCATCCGCCG | 59.540 | 55.000 | 0.00 | 0.00 | 0.00 | 6.46 |
236 | 239 | 1.963464 | TTCTCATCCGCCGTTACCCC | 61.963 | 60.000 | 0.00 | 0.00 | 0.00 | 4.95 |
237 | 240 | 2.684294 | TCATCCGCCGTTACCCCA | 60.684 | 61.111 | 0.00 | 0.00 | 0.00 | 4.96 |
238 | 241 | 2.512974 | CATCCGCCGTTACCCCAC | 60.513 | 66.667 | 0.00 | 0.00 | 0.00 | 4.61 |
239 | 242 | 4.151582 | ATCCGCCGTTACCCCACG | 62.152 | 66.667 | 0.00 | 0.00 | 40.02 | 4.94 |
241 | 244 | 4.685467 | CCGCCGTTACCCCACGTT | 62.685 | 66.667 | 0.00 | 0.00 | 38.57 | 3.99 |
242 | 245 | 3.416382 | CGCCGTTACCCCACGTTG | 61.416 | 66.667 | 0.00 | 0.00 | 38.57 | 4.10 |
243 | 246 | 3.729698 | GCCGTTACCCCACGTTGC | 61.730 | 66.667 | 0.00 | 0.00 | 38.57 | 4.17 |
244 | 247 | 3.416382 | CCGTTACCCCACGTTGCG | 61.416 | 66.667 | 0.00 | 0.00 | 38.57 | 4.85 |
245 | 248 | 2.356075 | CGTTACCCCACGTTGCGA | 60.356 | 61.111 | 0.00 | 0.00 | 35.34 | 5.10 |
246 | 249 | 2.377310 | CGTTACCCCACGTTGCGAG | 61.377 | 63.158 | 0.00 | 0.00 | 35.34 | 5.03 |
247 | 250 | 1.005867 | GTTACCCCACGTTGCGAGA | 60.006 | 57.895 | 0.00 | 0.00 | 0.00 | 4.04 |
315 | 319 | 4.766891 | CCCACTAAAATTCAAGAGAAGCCA | 59.233 | 41.667 | 0.00 | 0.00 | 37.14 | 4.75 |
372 | 376 | 5.951747 | TCAAGCTGCAAAATACTAATCCCTT | 59.048 | 36.000 | 1.02 | 0.00 | 0.00 | 3.95 |
373 | 377 | 6.437162 | TCAAGCTGCAAAATACTAATCCCTTT | 59.563 | 34.615 | 1.02 | 0.00 | 0.00 | 3.11 |
389 | 393 | 5.659440 | TCCCTTTGATCCAAAATAAGTGC | 57.341 | 39.130 | 0.00 | 0.00 | 32.75 | 4.40 |
392 | 396 | 4.157656 | CCTTTGATCCAAAATAAGTGCCGA | 59.842 | 41.667 | 0.00 | 0.00 | 32.75 | 5.54 |
393 | 397 | 4.695217 | TTGATCCAAAATAAGTGCCGAC | 57.305 | 40.909 | 0.00 | 0.00 | 0.00 | 4.79 |
397 | 401 | 2.028294 | TCCAAAATAAGTGCCGACGGTA | 60.028 | 45.455 | 16.73 | 8.50 | 0.00 | 4.02 |
398 | 402 | 2.940410 | CCAAAATAAGTGCCGACGGTAT | 59.060 | 45.455 | 16.73 | 2.15 | 0.00 | 2.73 |
399 | 403 | 4.121317 | CCAAAATAAGTGCCGACGGTATA | 58.879 | 43.478 | 16.73 | 1.39 | 0.00 | 1.47 |
404 | 408 | 3.323751 | AAGTGCCGACGGTATAGTTTT | 57.676 | 42.857 | 16.73 | 0.00 | 0.00 | 2.43 |
487 | 497 | 3.994729 | CGTAACCACCACGTATCGA | 57.005 | 52.632 | 0.00 | 0.00 | 34.74 | 3.59 |
511 | 521 | 1.866471 | GCAGTAAAAACCGCAACCCAC | 60.866 | 52.381 | 0.00 | 0.00 | 0.00 | 4.61 |
512 | 522 | 0.664224 | AGTAAAAACCGCAACCCACG | 59.336 | 50.000 | 0.00 | 0.00 | 0.00 | 4.94 |
514 | 524 | 0.662085 | TAAAAACCGCAACCCACGTC | 59.338 | 50.000 | 0.00 | 0.00 | 0.00 | 4.34 |
560 | 570 | 7.455641 | TCAAGTCAAACTTTGTTAACCTTGA | 57.544 | 32.000 | 2.48 | 8.32 | 36.03 | 3.02 |
602 | 612 | 6.845446 | ACACTACTACTCTCTAGATGGTAGGA | 59.155 | 42.308 | 23.92 | 18.96 | 36.81 | 2.94 |
651 | 667 | 4.881850 | AGAGAAAGAGGAAAGAAACGCAAA | 59.118 | 37.500 | 0.00 | 0.00 | 0.00 | 3.68 |
682 | 703 | 5.016173 | TGGAGAGAAGAGAAGAGGAAAGAG | 58.984 | 45.833 | 0.00 | 0.00 | 0.00 | 2.85 |
1170 | 1204 | 1.230314 | CCTCCCCTTCCCTTCCCTT | 60.230 | 63.158 | 0.00 | 0.00 | 0.00 | 3.95 |
1171 | 1205 | 1.282653 | CCTCCCCTTCCCTTCCCTTC | 61.283 | 65.000 | 0.00 | 0.00 | 0.00 | 3.46 |
1172 | 1206 | 1.230182 | TCCCCTTCCCTTCCCTTCC | 60.230 | 63.158 | 0.00 | 0.00 | 0.00 | 3.46 |
1173 | 1207 | 2.317378 | CCCCTTCCCTTCCCTTCCC | 61.317 | 68.421 | 0.00 | 0.00 | 0.00 | 3.97 |
1174 | 1208 | 1.230314 | CCCTTCCCTTCCCTTCCCT | 60.230 | 63.158 | 0.00 | 0.00 | 0.00 | 4.20 |
1240 | 1274 | 0.778815 | CGCGATTGGAGCTCGTAATC | 59.221 | 55.000 | 22.66 | 22.66 | 38.37 | 1.75 |
1269 | 1303 | 3.711059 | ATCGAGTCGCGGGTAGGGT | 62.711 | 63.158 | 7.92 | 0.00 | 41.33 | 4.34 |
1307 | 1341 | 1.661112 | CACCGGAGAGAAAGATTTCGC | 59.339 | 52.381 | 9.46 | 1.32 | 41.92 | 4.70 |
1356 | 1390 | 2.037902 | TGTTCTTTGCCGATGTGTAGGA | 59.962 | 45.455 | 0.00 | 0.00 | 0.00 | 2.94 |
1402 | 1436 | 0.107703 | CGATGCTAGGGCTTGGTCAA | 60.108 | 55.000 | 0.00 | 0.00 | 39.59 | 3.18 |
1406 | 1440 | 1.982226 | TGCTAGGGCTTGGTCAAGTTA | 59.018 | 47.619 | 11.71 | 3.21 | 40.45 | 2.24 |
1414 | 1448 | 3.826729 | GGCTTGGTCAAGTTATGTTCCTT | 59.173 | 43.478 | 11.71 | 0.00 | 40.45 | 3.36 |
1420 | 1454 | 6.065374 | TGGTCAAGTTATGTTCCTTTTGCTA | 58.935 | 36.000 | 0.00 | 0.00 | 0.00 | 3.49 |
1438 | 1472 | 1.963464 | TAGACGGGAATTGGGACGGC | 61.963 | 60.000 | 0.00 | 0.00 | 33.82 | 5.68 |
1441 | 1475 | 2.355115 | GGGAATTGGGACGGCAGT | 59.645 | 61.111 | 0.00 | 0.00 | 0.00 | 4.40 |
1559 | 1597 | 6.335781 | TGCCTTGATTATACCCCTTTTAGT | 57.664 | 37.500 | 0.00 | 0.00 | 0.00 | 2.24 |
1562 | 1600 | 5.469084 | CCTTGATTATACCCCTTTTAGTCGC | 59.531 | 44.000 | 0.00 | 0.00 | 0.00 | 5.19 |
1611 | 1649 | 2.224426 | ACGTCTGTTTGCCCAAGATGTA | 60.224 | 45.455 | 0.00 | 0.00 | 0.00 | 2.29 |
1624 | 1662 | 4.580580 | CCCAAGATGTAGATTTTACCTGGC | 59.419 | 45.833 | 0.00 | 0.00 | 0.00 | 4.85 |
1641 | 1679 | 0.178978 | GGCTCATGGGGAGGATTTCC | 60.179 | 60.000 | 0.00 | 0.00 | 44.22 | 3.13 |
1664 | 1702 | 6.274436 | TCCTGATAGGAATATGTTATTGCCCA | 59.726 | 38.462 | 0.00 | 0.00 | 42.51 | 5.36 |
1692 | 1730 | 4.273318 | GTTATGCTTCCCCTGTCTGAAAT | 58.727 | 43.478 | 0.00 | 0.00 | 0.00 | 2.17 |
1702 | 1740 | 4.298332 | CCCTGTCTGAAATTTTCGTTTGG | 58.702 | 43.478 | 4.76 | 3.66 | 0.00 | 3.28 |
1823 | 1866 | 1.999648 | AAAGGGTGAATGCTTGCTCA | 58.000 | 45.000 | 0.00 | 0.00 | 0.00 | 4.26 |
1824 | 1867 | 1.999648 | AAGGGTGAATGCTTGCTCAA | 58.000 | 45.000 | 0.00 | 0.00 | 0.00 | 3.02 |
1825 | 1868 | 2.226962 | AGGGTGAATGCTTGCTCAAT | 57.773 | 45.000 | 0.00 | 0.00 | 0.00 | 2.57 |
1826 | 1869 | 1.822990 | AGGGTGAATGCTTGCTCAATG | 59.177 | 47.619 | 0.00 | 0.00 | 0.00 | 2.82 |
1827 | 1870 | 1.547372 | GGGTGAATGCTTGCTCAATGT | 59.453 | 47.619 | 0.00 | 0.00 | 0.00 | 2.71 |
1828 | 1871 | 2.416431 | GGGTGAATGCTTGCTCAATGTC | 60.416 | 50.000 | 0.00 | 0.00 | 0.00 | 3.06 |
1829 | 1872 | 2.229543 | GGTGAATGCTTGCTCAATGTCA | 59.770 | 45.455 | 0.00 | 0.00 | 0.00 | 3.58 |
1830 | 1873 | 3.305539 | GGTGAATGCTTGCTCAATGTCAA | 60.306 | 43.478 | 0.00 | 0.00 | 0.00 | 3.18 |
1831 | 1874 | 3.671928 | GTGAATGCTTGCTCAATGTCAAC | 59.328 | 43.478 | 0.00 | 0.00 | 0.00 | 3.18 |
1832 | 1875 | 3.248266 | GAATGCTTGCTCAATGTCAACC | 58.752 | 45.455 | 0.00 | 0.00 | 0.00 | 3.77 |
1833 | 1876 | 1.985473 | TGCTTGCTCAATGTCAACCT | 58.015 | 45.000 | 0.00 | 0.00 | 0.00 | 3.50 |
1834 | 1877 | 1.610038 | TGCTTGCTCAATGTCAACCTG | 59.390 | 47.619 | 0.00 | 0.00 | 0.00 | 4.00 |
1835 | 1878 | 1.610522 | GCTTGCTCAATGTCAACCTGT | 59.389 | 47.619 | 0.00 | 0.00 | 0.00 | 4.00 |
1836 | 1879 | 2.813754 | GCTTGCTCAATGTCAACCTGTA | 59.186 | 45.455 | 0.00 | 0.00 | 0.00 | 2.74 |
1837 | 1880 | 3.253188 | GCTTGCTCAATGTCAACCTGTAA | 59.747 | 43.478 | 0.00 | 0.00 | 0.00 | 2.41 |
1838 | 1881 | 4.787598 | CTTGCTCAATGTCAACCTGTAAC | 58.212 | 43.478 | 0.00 | 0.00 | 0.00 | 2.50 |
1839 | 1882 | 3.814625 | TGCTCAATGTCAACCTGTAACA | 58.185 | 40.909 | 0.00 | 0.00 | 0.00 | 2.41 |
1840 | 1883 | 4.203226 | TGCTCAATGTCAACCTGTAACAA | 58.797 | 39.130 | 0.00 | 0.00 | 0.00 | 2.83 |
1841 | 1884 | 4.036262 | TGCTCAATGTCAACCTGTAACAAC | 59.964 | 41.667 | 0.00 | 0.00 | 0.00 | 3.32 |
1842 | 1885 | 4.275936 | GCTCAATGTCAACCTGTAACAACT | 59.724 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
1963 | 2032 | 5.234466 | ACACTTCTTCTTCTGTTATGCCT | 57.766 | 39.130 | 0.00 | 0.00 | 0.00 | 4.75 |
1991 | 2064 | 7.692908 | TTTTTGCTTCATTTAGTGCTTGTAC | 57.307 | 32.000 | 0.00 | 0.00 | 0.00 | 2.90 |
2038 | 2113 | 7.556844 | TGTCCACATAGGTCTTTTCTATCTTC | 58.443 | 38.462 | 0.00 | 0.00 | 39.02 | 2.87 |
2040 | 2115 | 8.041323 | GTCCACATAGGTCTTTTCTATCTTCAA | 58.959 | 37.037 | 0.00 | 0.00 | 39.02 | 2.69 |
2085 | 2160 | 5.520376 | AAATGCTGTAATGGGCTTATGTC | 57.480 | 39.130 | 0.00 | 0.00 | 0.00 | 3.06 |
2087 | 2162 | 1.873591 | GCTGTAATGGGCTTATGTCCG | 59.126 | 52.381 | 0.00 | 0.00 | 41.88 | 4.79 |
2094 | 2169 | 2.472909 | GGCTTATGTCCGCACCAGC | 61.473 | 63.158 | 0.00 | 0.00 | 34.11 | 4.85 |
2285 | 2360 | 7.112122 | TGCATTACAGACCATGATTTCTTACT | 58.888 | 34.615 | 0.00 | 0.00 | 0.00 | 2.24 |
2320 | 2396 | 8.141298 | TGGTTATTAGTTACCAGTGAGAATCA | 57.859 | 34.615 | 0.00 | 0.00 | 40.51 | 2.57 |
2494 | 2572 | 5.010708 | TCCTTTCCTTTATTTTCCCTGCT | 57.989 | 39.130 | 0.00 | 0.00 | 0.00 | 4.24 |
2495 | 2573 | 4.772100 | TCCTTTCCTTTATTTTCCCTGCTG | 59.228 | 41.667 | 0.00 | 0.00 | 0.00 | 4.41 |
2496 | 2574 | 4.772100 | CCTTTCCTTTATTTTCCCTGCTGA | 59.228 | 41.667 | 0.00 | 0.00 | 0.00 | 4.26 |
2497 | 2575 | 5.423290 | CCTTTCCTTTATTTTCCCTGCTGAT | 59.577 | 40.000 | 0.00 | 0.00 | 0.00 | 2.90 |
2498 | 2576 | 6.070596 | CCTTTCCTTTATTTTCCCTGCTGATT | 60.071 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
2499 | 2577 | 7.124147 | CCTTTCCTTTATTTTCCCTGCTGATTA | 59.876 | 37.037 | 0.00 | 0.00 | 0.00 | 1.75 |
2513 | 2591 | 8.224025 | TCCCTGCTGATTATTATTCACCATAAA | 58.776 | 33.333 | 0.00 | 0.00 | 30.78 | 1.40 |
2531 | 2609 | 9.396022 | CACCATAAAACCTCTTGTAATATCTGT | 57.604 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
2599 | 2677 | 9.326413 | ACAGTAACTAACAAGGCATGATTATAC | 57.674 | 33.333 | 0.00 | 0.00 | 0.00 | 1.47 |
2616 | 2694 | 7.867921 | TGATTATACAAACCCCTGTAGTGATT | 58.132 | 34.615 | 0.00 | 0.00 | 35.32 | 2.57 |
2618 | 2696 | 5.772393 | ATACAAACCCCTGTAGTGATTCA | 57.228 | 39.130 | 0.00 | 0.00 | 35.32 | 2.57 |
2646 | 2726 | 7.807907 | GTCATGGTCTTAATTCGTTTTGACATT | 59.192 | 33.333 | 0.00 | 0.00 | 32.22 | 2.71 |
2647 | 2727 | 8.356657 | TCATGGTCTTAATTCGTTTTGACATTT | 58.643 | 29.630 | 0.00 | 0.00 | 0.00 | 2.32 |
2648 | 2728 | 8.977505 | CATGGTCTTAATTCGTTTTGACATTTT | 58.022 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
2735 | 2815 | 5.481105 | CAATTGATGGTATGTTTGGTGCTT | 58.519 | 37.500 | 0.00 | 0.00 | 0.00 | 3.91 |
2803 | 2883 | 2.356278 | GGCAAGCAGATGGTCCCA | 59.644 | 61.111 | 0.00 | 0.00 | 0.00 | 4.37 |
2806 | 2886 | 2.012902 | GCAAGCAGATGGTCCCATGC | 62.013 | 60.000 | 2.93 | 3.62 | 36.70 | 4.06 |
2839 | 2919 | 2.978156 | AAGGGAACTGCATCAAAGGA | 57.022 | 45.000 | 0.00 | 0.00 | 42.68 | 3.36 |
2851 | 2931 | 3.006217 | GCATCAAAGGAGATAAATGCCCC | 59.994 | 47.826 | 0.00 | 0.00 | 34.80 | 5.80 |
3048 | 3128 | 2.171448 | AGTCAGTTAATAGGGCTGCAGG | 59.829 | 50.000 | 17.12 | 0.00 | 0.00 | 4.85 |
3153 | 3233 | 0.032952 | CAAAACAGCATGCCAGCAGT | 59.967 | 50.000 | 15.66 | 2.67 | 42.53 | 4.40 |
3154 | 3234 | 0.032952 | AAAACAGCATGCCAGCAGTG | 59.967 | 50.000 | 15.66 | 7.49 | 42.53 | 3.66 |
3164 | 3244 | 4.813027 | CATGCCAGCAGTGAATAAAAGTT | 58.187 | 39.130 | 0.00 | 0.00 | 0.00 | 2.66 |
3167 | 3247 | 4.340666 | TGCCAGCAGTGAATAAAAGTTTCA | 59.659 | 37.500 | 0.00 | 0.00 | 0.00 | 2.69 |
3259 | 3339 | 5.127682 | GCAAGATTGGAATCAACCTTACCAT | 59.872 | 40.000 | 2.32 | 0.00 | 34.61 | 3.55 |
3352 | 3432 | 4.379652 | GTTTTGATGTTCTTGTGGCCAAT | 58.620 | 39.130 | 7.24 | 0.00 | 0.00 | 3.16 |
3613 | 3693 | 1.380689 | TCGGCAGAGAGAGACTGGT | 59.619 | 57.895 | 0.00 | 0.00 | 36.09 | 4.00 |
3619 | 3699 | 2.091541 | CAGAGAGAGACTGGTCCTGTC | 58.908 | 57.143 | 18.70 | 18.70 | 33.50 | 3.51 |
3910 | 3990 | 4.135153 | CGGGACAGGCTGTCTCCG | 62.135 | 72.222 | 38.41 | 38.41 | 44.86 | 4.63 |
3914 | 3994 | 1.374758 | GACAGGCTGTCTCCGGTTG | 60.375 | 63.158 | 34.49 | 0.75 | 43.73 | 3.77 |
3974 | 4054 | 2.371179 | GGGCATCATCAAGAGAGGATCA | 59.629 | 50.000 | 0.00 | 0.00 | 42.92 | 2.92 |
3991 | 4071 | 0.897621 | TCAGGCAGAGATCAAGCGAA | 59.102 | 50.000 | 0.00 | 0.00 | 0.00 | 4.70 |
4012 | 4092 | 1.251251 | GTGCTTCAAGTGCCAGGATT | 58.749 | 50.000 | 0.00 | 0.00 | 0.00 | 3.01 |
4035 | 4115 | 1.338960 | TGATGGCAAGCATTCGAGACA | 60.339 | 47.619 | 0.00 | 0.00 | 0.00 | 3.41 |
4091 | 4171 | 1.258676 | AGACTTTGGTCCGGAGTCTC | 58.741 | 55.000 | 15.56 | 0.00 | 45.06 | 3.36 |
4187 | 4267 | 0.674895 | GAGGAAACGACAGGCTGCAT | 60.675 | 55.000 | 15.89 | 0.00 | 0.00 | 3.96 |
4222 | 4302 | 0.737219 | GCTCATCTGCCCACAATGTC | 59.263 | 55.000 | 0.00 | 0.00 | 0.00 | 3.06 |
4294 | 4374 | 2.046292 | GAAGCTGAGAAGGAGGGCTAT | 58.954 | 52.381 | 0.00 | 0.00 | 32.64 | 2.97 |
4320 | 4400 | 7.386025 | TGACAACACTATCAGTTCTGAAGAATG | 59.614 | 37.037 | 6.60 | 6.05 | 36.33 | 2.67 |
4381 | 4461 | 1.519455 | GGTCCCTGCATCTTCGTCG | 60.519 | 63.158 | 0.00 | 0.00 | 0.00 | 5.12 |
4465 | 4545 | 3.465403 | CAGAGGCAGGGGGAGTCG | 61.465 | 72.222 | 0.00 | 0.00 | 0.00 | 4.18 |
4480 | 4560 | 1.102222 | AGTCGGAGTATGAGGCGACC | 61.102 | 60.000 | 0.00 | 0.00 | 0.00 | 4.79 |
4591 | 4671 | 0.892063 | GGGTCGTCTTCTCTTGAGCT | 59.108 | 55.000 | 0.00 | 0.00 | 0.00 | 4.09 |
4630 | 4710 | 2.354343 | GCTTCTTCAGGCCAGGCT | 59.646 | 61.111 | 12.43 | 0.00 | 0.00 | 4.58 |
4655 | 4735 | 3.634397 | TGCTTGATTTCCCCTCTAGTG | 57.366 | 47.619 | 0.00 | 0.00 | 0.00 | 2.74 |
4656 | 4736 | 3.181329 | TGCTTGATTTCCCCTCTAGTGA | 58.819 | 45.455 | 0.00 | 0.00 | 0.00 | 3.41 |
4657 | 4737 | 3.782523 | TGCTTGATTTCCCCTCTAGTGAT | 59.217 | 43.478 | 0.00 | 0.00 | 0.00 | 3.06 |
4658 | 4738 | 4.228210 | TGCTTGATTTCCCCTCTAGTGATT | 59.772 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
4699 | 4780 | 0.537143 | TCTTGTGGCGCTCCATGTTT | 60.537 | 50.000 | 7.64 | 0.00 | 45.62 | 2.83 |
4700 | 4781 | 0.387622 | CTTGTGGCGCTCCATGTTTG | 60.388 | 55.000 | 7.64 | 0.00 | 45.62 | 2.93 |
4803 | 4886 | 3.397482 | GCATTGAGCGAGGTAGATGATT | 58.603 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
4888 | 4975 | 7.382488 | CGTATCCTGGAACTCTGTATTGTATTG | 59.618 | 40.741 | 0.00 | 0.00 | 0.00 | 1.90 |
4893 | 4980 | 7.362056 | CCTGGAACTCTGTATTGTATTGGTTTG | 60.362 | 40.741 | 0.00 | 0.00 | 0.00 | 2.93 |
4976 | 5070 | 1.691219 | TCCAACTTGGAGGGCATCC | 59.309 | 57.895 | 12.10 | 12.10 | 42.67 | 3.51 |
4985 | 5079 | 1.769026 | GGAGGGCATCCTTTCCTTTC | 58.231 | 55.000 | 11.68 | 0.00 | 45.05 | 2.62 |
5082 | 5177 | 6.128742 | GCGAAATCATTTTGCTTCATGAGTTT | 60.129 | 34.615 | 14.35 | 4.46 | 44.79 | 2.66 |
5101 | 5196 | 4.821805 | AGTTTATTTGTGACAGTGTGGGAG | 59.178 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
5126 | 5221 | 3.126514 | CCTGCTGATCATGTTTCTGTGAC | 59.873 | 47.826 | 0.00 | 0.00 | 0.00 | 3.67 |
5158 | 5253 | 8.584157 | CATCTATCTGAATAAGTACCTGCTCTT | 58.416 | 37.037 | 0.00 | 0.00 | 0.00 | 2.85 |
5234 | 5332 | 8.033626 | GCTGTTGGTTGTAGTACTAGTTTATCT | 58.966 | 37.037 | 1.87 | 0.00 | 0.00 | 1.98 |
5259 | 5357 | 3.869832 | CCATGACTATCTGTCTGCAGTTG | 59.130 | 47.826 | 14.67 | 5.36 | 45.54 | 3.16 |
5261 | 5359 | 3.165071 | TGACTATCTGTCTGCAGTTGGA | 58.835 | 45.455 | 14.67 | 10.30 | 45.54 | 3.53 |
5468 | 5659 | 5.983720 | CCACGAGATTGTTAGTGTATTAGGG | 59.016 | 44.000 | 0.00 | 0.00 | 33.14 | 3.53 |
5540 | 5731 | 1.266891 | GCTCGCACGTTAAGCATGTAC | 60.267 | 52.381 | 8.33 | 0.00 | 36.06 | 2.90 |
5541 | 5732 | 2.259618 | CTCGCACGTTAAGCATGTACT | 58.740 | 47.619 | 0.00 | 0.00 | 0.00 | 2.73 |
5542 | 5733 | 3.431856 | CTCGCACGTTAAGCATGTACTA | 58.568 | 45.455 | 0.00 | 0.00 | 0.00 | 1.82 |
5578 | 5769 | 5.513233 | ACTACCTCTGTCCCGAATTAGTTA | 58.487 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
5583 | 5774 | 5.986135 | CCTCTGTCCCGAATTAGTTATCTTG | 59.014 | 44.000 | 0.00 | 0.00 | 0.00 | 3.02 |
5584 | 5775 | 5.914033 | TCTGTCCCGAATTAGTTATCTTGG | 58.086 | 41.667 | 0.00 | 0.00 | 0.00 | 3.61 |
5585 | 5776 | 5.659525 | TCTGTCCCGAATTAGTTATCTTGGA | 59.340 | 40.000 | 0.00 | 0.00 | 0.00 | 3.53 |
5586 | 5777 | 6.326583 | TCTGTCCCGAATTAGTTATCTTGGAT | 59.673 | 38.462 | 0.00 | 0.00 | 0.00 | 3.41 |
5587 | 5778 | 7.507956 | TCTGTCCCGAATTAGTTATCTTGGATA | 59.492 | 37.037 | 0.00 | 0.00 | 0.00 | 2.59 |
5588 | 5779 | 7.667557 | TGTCCCGAATTAGTTATCTTGGATAG | 58.332 | 38.462 | 0.00 | 0.00 | 0.00 | 2.08 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
13 | 14 | 3.042059 | ACATATAACTCCACTCCCCGT | 57.958 | 47.619 | 0.00 | 0.00 | 0.00 | 5.28 |
38 | 39 | 4.069304 | TGGGAGTTCACATTTCTAAACCG | 58.931 | 43.478 | 0.00 | 0.00 | 0.00 | 4.44 |
52 | 53 | 0.910088 | AGGCAGGTAGGTGGGAGTTC | 60.910 | 60.000 | 0.00 | 0.00 | 0.00 | 3.01 |
53 | 54 | 1.161113 | AGGCAGGTAGGTGGGAGTT | 59.839 | 57.895 | 0.00 | 0.00 | 0.00 | 3.01 |
68 | 69 | 3.834489 | TCTTCATCTCTCCATTCAGGC | 57.166 | 47.619 | 0.00 | 0.00 | 37.29 | 4.85 |
96 | 97 | 9.880157 | GTTAGGTAGGAGTGTACATTTTGAATA | 57.120 | 33.333 | 0.00 | 0.00 | 0.00 | 1.75 |
115 | 116 | 1.702957 | ACCTTTGCAGGCAGTTAGGTA | 59.297 | 47.619 | 17.61 | 0.00 | 45.56 | 3.08 |
156 | 157 | 3.581755 | TCGTCTTTACACACATGTAGGC | 58.418 | 45.455 | 0.00 | 0.00 | 42.29 | 3.93 |
162 | 163 | 7.754027 | GTGTAGTATCTTCGTCTTTACACACAT | 59.246 | 37.037 | 6.92 | 0.00 | 39.25 | 3.21 |
163 | 164 | 7.040892 | AGTGTAGTATCTTCGTCTTTACACACA | 60.041 | 37.037 | 12.61 | 0.00 | 40.91 | 3.72 |
165 | 166 | 7.173735 | TGAGTGTAGTATCTTCGTCTTTACACA | 59.826 | 37.037 | 12.61 | 0.00 | 40.91 | 3.72 |
166 | 167 | 7.524912 | TGAGTGTAGTATCTTCGTCTTTACAC | 58.475 | 38.462 | 4.24 | 4.24 | 39.56 | 2.90 |
167 | 168 | 7.677454 | TGAGTGTAGTATCTTCGTCTTTACA | 57.323 | 36.000 | 0.00 | 0.00 | 0.00 | 2.41 |
186 | 187 | 3.561310 | CCCCAATATCGTGACATTGAGTG | 59.439 | 47.826 | 2.53 | 0.00 | 34.69 | 3.51 |
189 | 190 | 4.080582 | ACTTCCCCAATATCGTGACATTGA | 60.081 | 41.667 | 2.53 | 0.00 | 34.69 | 2.57 |
191 | 192 | 4.503714 | ACTTCCCCAATATCGTGACATT | 57.496 | 40.909 | 0.00 | 0.00 | 0.00 | 2.71 |
192 | 193 | 4.503714 | AACTTCCCCAATATCGTGACAT | 57.496 | 40.909 | 0.00 | 0.00 | 0.00 | 3.06 |
193 | 194 | 3.992943 | AACTTCCCCAATATCGTGACA | 57.007 | 42.857 | 0.00 | 0.00 | 0.00 | 3.58 |
194 | 195 | 4.124970 | GGTAACTTCCCCAATATCGTGAC | 58.875 | 47.826 | 0.00 | 0.00 | 0.00 | 3.67 |
229 | 232 | 0.600782 | TTCTCGCAACGTGGGGTAAC | 60.601 | 55.000 | 6.91 | 0.00 | 0.00 | 2.50 |
236 | 239 | 2.679355 | TGGATTTTTCTCGCAACGTG | 57.321 | 45.000 | 0.00 | 0.00 | 0.00 | 4.49 |
237 | 240 | 3.915437 | ATTGGATTTTTCTCGCAACGT | 57.085 | 38.095 | 0.00 | 0.00 | 0.00 | 3.99 |
238 | 241 | 5.390613 | AGTTATTGGATTTTTCTCGCAACG | 58.609 | 37.500 | 0.00 | 0.00 | 0.00 | 4.10 |
239 | 242 | 8.398665 | AGATAGTTATTGGATTTTTCTCGCAAC | 58.601 | 33.333 | 0.00 | 0.00 | 0.00 | 4.17 |
240 | 243 | 8.506168 | AGATAGTTATTGGATTTTTCTCGCAA | 57.494 | 30.769 | 0.00 | 0.00 | 0.00 | 4.85 |
241 | 244 | 9.778741 | ATAGATAGTTATTGGATTTTTCTCGCA | 57.221 | 29.630 | 0.00 | 0.00 | 0.00 | 5.10 |
341 | 345 | 6.276832 | AGTATTTTGCAGCTTGATTGTCAT | 57.723 | 33.333 | 0.00 | 0.00 | 0.00 | 3.06 |
345 | 349 | 6.698766 | GGGATTAGTATTTTGCAGCTTGATTG | 59.301 | 38.462 | 0.00 | 0.00 | 0.00 | 2.67 |
372 | 376 | 3.126171 | CGTCGGCACTTATTTTGGATCAA | 59.874 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
373 | 377 | 2.675844 | CGTCGGCACTTATTTTGGATCA | 59.324 | 45.455 | 0.00 | 0.00 | 0.00 | 2.92 |
426 | 432 | 6.195600 | ACCAATGAACCCGGTATATACATT | 57.804 | 37.500 | 14.70 | 3.39 | 0.00 | 2.71 |
432 | 438 | 3.010361 | ACCAAACCAATGAACCCGGTATA | 59.990 | 43.478 | 0.00 | 0.00 | 31.12 | 1.47 |
462 | 472 | 2.029369 | TGGTGGTTACGTCGGTGC | 59.971 | 61.111 | 0.00 | 0.00 | 0.00 | 5.01 |
487 | 497 | 1.102222 | TTGCGGTTTTTACTGCCCGT | 61.102 | 50.000 | 6.64 | 0.00 | 42.36 | 5.28 |
512 | 522 | 1.209640 | GAGAGACGTGACGGTGGAC | 59.790 | 63.158 | 10.66 | 0.00 | 0.00 | 4.02 |
514 | 524 | 1.380524 | ATAGAGAGACGTGACGGTGG | 58.619 | 55.000 | 10.66 | 0.00 | 0.00 | 4.61 |
578 | 588 | 7.015877 | ACTCCTACCATCTAGAGAGTAGTAGTG | 59.984 | 44.444 | 20.39 | 13.71 | 32.68 | 2.74 |
595 | 605 | 9.822727 | TGTGATGATTCTTATATACTCCTACCA | 57.177 | 33.333 | 0.00 | 0.00 | 0.00 | 3.25 |
651 | 667 | 5.874093 | TCTTCTCTTCTCTCCAATTTTGCT | 58.126 | 37.500 | 0.00 | 0.00 | 0.00 | 3.91 |
682 | 703 | 1.275573 | ACACCGTCCTAGCCTTTTCTC | 59.724 | 52.381 | 0.00 | 0.00 | 0.00 | 2.87 |
734 | 755 | 1.796459 | CGGGGTACAAACAAACTCGAG | 59.204 | 52.381 | 11.84 | 11.84 | 0.00 | 4.04 |
1170 | 1204 | 0.912486 | GCTAGCTTGGAAGGAAGGGA | 59.088 | 55.000 | 7.70 | 0.00 | 0.00 | 4.20 |
1171 | 1205 | 0.106967 | GGCTAGCTTGGAAGGAAGGG | 60.107 | 60.000 | 15.72 | 0.00 | 0.00 | 3.95 |
1172 | 1206 | 0.106967 | GGGCTAGCTTGGAAGGAAGG | 60.107 | 60.000 | 15.72 | 0.00 | 0.00 | 3.46 |
1173 | 1207 | 0.462759 | CGGGCTAGCTTGGAAGGAAG | 60.463 | 60.000 | 15.72 | 0.00 | 0.00 | 3.46 |
1174 | 1208 | 1.602237 | CGGGCTAGCTTGGAAGGAA | 59.398 | 57.895 | 15.72 | 0.00 | 0.00 | 3.36 |
1307 | 1341 | 4.891727 | CCGGGCGATCTTGGGTCG | 62.892 | 72.222 | 0.00 | 0.00 | 41.77 | 4.79 |
1323 | 1357 | 2.354821 | GCAAAGAACATCGTGGATACCC | 59.645 | 50.000 | 0.00 | 0.00 | 0.00 | 3.69 |
1356 | 1390 | 3.057315 | CCAAGAAAGATGGCAATTCACGT | 60.057 | 43.478 | 11.84 | 0.00 | 0.00 | 4.49 |
1402 | 1436 | 4.935808 | CCGTCTAGCAAAAGGAACATAACT | 59.064 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
1406 | 1440 | 2.304761 | TCCCGTCTAGCAAAAGGAACAT | 59.695 | 45.455 | 0.00 | 0.00 | 0.00 | 2.71 |
1414 | 1448 | 1.631388 | TCCCAATTCCCGTCTAGCAAA | 59.369 | 47.619 | 0.00 | 0.00 | 0.00 | 3.68 |
1420 | 1454 | 2.987125 | CCGTCCCAATTCCCGTCT | 59.013 | 61.111 | 0.00 | 0.00 | 0.00 | 4.18 |
1475 | 1509 | 2.226330 | TCAAATGGGTTGTCTTCACCG | 58.774 | 47.619 | 0.00 | 0.00 | 38.47 | 4.94 |
1570 | 1608 | 0.171007 | CGTGATTCATGTTGCCACCC | 59.829 | 55.000 | 0.00 | 0.00 | 0.00 | 4.61 |
1611 | 1649 | 2.091665 | CCCCATGAGCCAGGTAAAATCT | 60.092 | 50.000 | 0.00 | 0.00 | 0.00 | 2.40 |
1624 | 1662 | 2.130193 | TCAGGAAATCCTCCCCATGAG | 58.870 | 52.381 | 0.00 | 0.00 | 46.65 | 2.90 |
1641 | 1679 | 7.448161 | TGTTGGGCAATAACATATTCCTATCAG | 59.552 | 37.037 | 0.00 | 0.00 | 33.43 | 2.90 |
1702 | 1740 | 3.513515 | AGAGATGTTGAGGTCTTCAGGAC | 59.486 | 47.826 | 0.00 | 0.00 | 43.79 | 3.85 |
1743 | 1785 | 7.275183 | TGTAATCTGGACATCTGTTATTGGAG | 58.725 | 38.462 | 0.00 | 0.00 | 0.00 | 3.86 |
1798 | 1841 | 5.016173 | AGCAAGCATTCACCCTTTACATAA | 58.984 | 37.500 | 0.00 | 0.00 | 0.00 | 1.90 |
1815 | 1858 | 1.610522 | ACAGGTTGACATTGAGCAAGC | 59.389 | 47.619 | 14.02 | 14.02 | 41.43 | 4.01 |
1823 | 1866 | 9.515226 | AATACATAGTTGTTACAGGTTGACATT | 57.485 | 29.630 | 0.00 | 0.00 | 37.28 | 2.71 |
1824 | 1867 | 9.515226 | AAATACATAGTTGTTACAGGTTGACAT | 57.485 | 29.630 | 0.00 | 0.00 | 37.28 | 3.06 |
1825 | 1868 | 8.911918 | AAATACATAGTTGTTACAGGTTGACA | 57.088 | 30.769 | 0.00 | 0.00 | 37.28 | 3.58 |
1829 | 1872 | 9.362539 | CGTCTAAATACATAGTTGTTACAGGTT | 57.637 | 33.333 | 0.00 | 0.00 | 37.28 | 3.50 |
1830 | 1873 | 8.526147 | ACGTCTAAATACATAGTTGTTACAGGT | 58.474 | 33.333 | 0.00 | 0.00 | 37.28 | 4.00 |
1831 | 1874 | 8.804743 | CACGTCTAAATACATAGTTGTTACAGG | 58.195 | 37.037 | 0.00 | 0.00 | 37.28 | 4.00 |
1832 | 1875 | 8.804743 | CCACGTCTAAATACATAGTTGTTACAG | 58.195 | 37.037 | 0.00 | 0.00 | 37.28 | 2.74 |
1833 | 1876 | 7.760794 | CCCACGTCTAAATACATAGTTGTTACA | 59.239 | 37.037 | 0.00 | 0.00 | 37.28 | 2.41 |
1834 | 1877 | 7.761249 | ACCCACGTCTAAATACATAGTTGTTAC | 59.239 | 37.037 | 0.00 | 0.00 | 37.28 | 2.50 |
1835 | 1878 | 7.839907 | ACCCACGTCTAAATACATAGTTGTTA | 58.160 | 34.615 | 0.00 | 0.00 | 37.28 | 2.41 |
1836 | 1879 | 6.704310 | ACCCACGTCTAAATACATAGTTGTT | 58.296 | 36.000 | 0.00 | 0.00 | 37.28 | 2.83 |
1837 | 1880 | 6.290294 | ACCCACGTCTAAATACATAGTTGT | 57.710 | 37.500 | 0.00 | 0.00 | 39.98 | 3.32 |
1838 | 1881 | 6.698766 | GGTACCCACGTCTAAATACATAGTTG | 59.301 | 42.308 | 0.00 | 0.00 | 0.00 | 3.16 |
1839 | 1882 | 6.608808 | AGGTACCCACGTCTAAATACATAGTT | 59.391 | 38.462 | 8.74 | 0.00 | 0.00 | 2.24 |
1840 | 1883 | 6.040166 | CAGGTACCCACGTCTAAATACATAGT | 59.960 | 42.308 | 8.74 | 0.00 | 0.00 | 2.12 |
1841 | 1884 | 6.444633 | CAGGTACCCACGTCTAAATACATAG | 58.555 | 44.000 | 8.74 | 0.00 | 0.00 | 2.23 |
1842 | 1885 | 5.221303 | GCAGGTACCCACGTCTAAATACATA | 60.221 | 44.000 | 8.74 | 0.00 | 0.00 | 2.29 |
1991 | 2064 | 7.220300 | GGACATAATACATTAAGATCCTACGCG | 59.780 | 40.741 | 3.53 | 3.53 | 0.00 | 6.01 |
2029 | 2104 | 6.552008 | AGGGTGTTCCAAATTGAAGATAGAA | 58.448 | 36.000 | 0.00 | 0.00 | 38.24 | 2.10 |
2038 | 2113 | 3.831911 | ACCACATAGGGTGTTCCAAATTG | 59.168 | 43.478 | 0.00 | 0.00 | 46.44 | 2.32 |
2040 | 2115 | 3.825908 | ACCACATAGGGTGTTCCAAAT | 57.174 | 42.857 | 0.00 | 0.00 | 46.44 | 2.32 |
2085 | 2160 | 2.549754 | CAAGGATAATTAGCTGGTGCGG | 59.450 | 50.000 | 0.00 | 0.00 | 45.42 | 5.69 |
2087 | 2162 | 2.887152 | CCCAAGGATAATTAGCTGGTGC | 59.113 | 50.000 | 0.00 | 0.00 | 40.05 | 5.01 |
2094 | 2169 | 2.568623 | AGCGCCCCAAGGATAATTAG | 57.431 | 50.000 | 2.29 | 0.00 | 33.47 | 1.73 |
2285 | 2360 | 6.466038 | TGGTAACTAATAACCAAACTCTGGCA | 60.466 | 38.462 | 0.00 | 0.00 | 42.74 | 4.92 |
2320 | 2396 | 2.362077 | ACAAAGCAAGGTCAGCGAAAAT | 59.638 | 40.909 | 0.00 | 0.00 | 37.01 | 1.82 |
2513 | 2591 | 6.299805 | TGCTCACAGATATTACAAGAGGTT | 57.700 | 37.500 | 0.00 | 0.00 | 0.00 | 3.50 |
2531 | 2609 | 6.546772 | TGATAATTATTGATGCCAGTTGCTCA | 59.453 | 34.615 | 0.00 | 0.00 | 42.00 | 4.26 |
2564 | 2642 | 7.717875 | TGCCTTGTTAGTTACTGTTAACAGAAT | 59.282 | 33.333 | 36.14 | 20.52 | 46.59 | 2.40 |
2565 | 2643 | 7.049133 | TGCCTTGTTAGTTACTGTTAACAGAA | 58.951 | 34.615 | 36.14 | 23.58 | 46.59 | 3.02 |
2572 | 2650 | 8.807948 | ATAATCATGCCTTGTTAGTTACTGTT | 57.192 | 30.769 | 0.00 | 0.00 | 0.00 | 3.16 |
2599 | 2677 | 4.398319 | ACTTGAATCACTACAGGGGTTTG | 58.602 | 43.478 | 0.00 | 0.00 | 0.00 | 2.93 |
2616 | 2694 | 7.227711 | TCAAAACGAATTAAGACCATGACTTGA | 59.772 | 33.333 | 12.91 | 7.24 | 0.00 | 3.02 |
2618 | 2696 | 7.012894 | TGTCAAAACGAATTAAGACCATGACTT | 59.987 | 33.333 | 0.00 | 2.24 | 35.64 | 3.01 |
2674 | 2754 | 9.915629 | GTAGAGAAAACAGAATTAGACTTCAGA | 57.084 | 33.333 | 0.00 | 0.00 | 0.00 | 3.27 |
2735 | 2815 | 2.237143 | CTGCAGGTATTCCAGGAGTTGA | 59.763 | 50.000 | 5.57 | 0.00 | 34.84 | 3.18 |
2803 | 2883 | 7.337942 | CAGTTCCCTTTCTGAAAGTAATAGCAT | 59.662 | 37.037 | 24.18 | 4.56 | 36.77 | 3.79 |
2806 | 2886 | 6.655003 | TGCAGTTCCCTTTCTGAAAGTAATAG | 59.345 | 38.462 | 24.18 | 15.70 | 36.77 | 1.73 |
2839 | 2919 | 3.774842 | TGGGAAAAGGGGCATTTATCT | 57.225 | 42.857 | 0.00 | 0.00 | 0.00 | 1.98 |
2851 | 2931 | 1.937546 | GCTGCGGTCCATGGGAAAAG | 61.938 | 60.000 | 13.02 | 5.03 | 31.38 | 2.27 |
3048 | 3128 | 1.067354 | CAGCTGTCCTGGCAAAATTCC | 60.067 | 52.381 | 5.25 | 0.00 | 37.93 | 3.01 |
3088 | 3168 | 1.342074 | TCACTGCACTGGAAGCTAGT | 58.658 | 50.000 | 0.00 | 0.00 | 37.60 | 2.57 |
3130 | 3210 | 1.967762 | CTGGCATGCTGTTTTGTACG | 58.032 | 50.000 | 18.92 | 0.00 | 0.00 | 3.67 |
3153 | 3233 | 8.746052 | TGAAGAGGTTCTGAAACTTTTATTCA | 57.254 | 30.769 | 9.69 | 13.73 | 35.61 | 2.57 |
3154 | 3234 | 8.293157 | CCTGAAGAGGTTCTGAAACTTTTATTC | 58.707 | 37.037 | 9.69 | 11.63 | 34.37 | 1.75 |
3164 | 3244 | 1.273606 | CTCGCCTGAAGAGGTTCTGAA | 59.726 | 52.381 | 0.00 | 0.00 | 42.15 | 3.02 |
3259 | 3339 | 2.919772 | TGTCATCCTGAGGAGGTGTA | 57.080 | 50.000 | 13.39 | 0.00 | 40.76 | 2.90 |
3352 | 3432 | 0.323087 | AAGCACCAGCATCTGCATCA | 60.323 | 50.000 | 4.79 | 0.00 | 45.49 | 3.07 |
3613 | 3693 | 4.042187 | TCTGATCCATCTATCTCGACAGGA | 59.958 | 45.833 | 0.00 | 0.00 | 0.00 | 3.86 |
3619 | 3699 | 6.847400 | ACGTAAATCTGATCCATCTATCTCG | 58.153 | 40.000 | 0.00 | 0.00 | 0.00 | 4.04 |
3691 | 3771 | 1.581954 | CGACTCTCCACTGCGTTCT | 59.418 | 57.895 | 0.00 | 0.00 | 0.00 | 3.01 |
3796 | 3876 | 0.460987 | CTTGCAGACGGGAGCTTAGG | 60.461 | 60.000 | 0.00 | 0.00 | 0.00 | 2.69 |
3910 | 3990 | 4.074970 | CCTGAATATCCATAGGCACAACC | 58.925 | 47.826 | 0.00 | 0.00 | 39.61 | 3.77 |
3914 | 3994 | 3.560025 | CCACCCTGAATATCCATAGGCAC | 60.560 | 52.174 | 0.00 | 0.00 | 0.00 | 5.01 |
3974 | 4054 | 0.459237 | CGTTCGCTTGATCTCTGCCT | 60.459 | 55.000 | 0.00 | 0.00 | 0.00 | 4.75 |
3991 | 4071 | 1.893808 | CCTGGCACTTGAAGCACGT | 60.894 | 57.895 | 0.00 | 0.00 | 0.00 | 4.49 |
4035 | 4115 | 7.116948 | CGAAGTTGAGTGAATCTGTTACATTCT | 59.883 | 37.037 | 1.25 | 0.00 | 32.32 | 2.40 |
4091 | 4171 | 0.673644 | ACACTTCCATTCGCCTTCCG | 60.674 | 55.000 | 0.00 | 0.00 | 38.61 | 4.30 |
4156 | 4236 | 3.852536 | GTCGTTTCCTCTGTAAGATGACG | 59.147 | 47.826 | 0.00 | 0.00 | 45.62 | 4.35 |
4187 | 4267 | 4.454319 | GCCATTGCCATTGCCGCA | 62.454 | 61.111 | 0.00 | 0.00 | 36.33 | 5.69 |
4222 | 4302 | 4.095483 | ACCGCAGCAGATTTATCTTCTTTG | 59.905 | 41.667 | 0.00 | 0.00 | 34.22 | 2.77 |
4294 | 4374 | 6.405278 | TCTTCAGAACTGATAGTGTTGTCA | 57.595 | 37.500 | 5.34 | 0.00 | 39.64 | 3.58 |
4320 | 4400 | 4.662468 | TCATCACCTGATCTACTCTTGC | 57.338 | 45.455 | 0.00 | 0.00 | 31.21 | 4.01 |
4381 | 4461 | 1.571460 | CTCAGCTTTGTCACCGTGC | 59.429 | 57.895 | 0.00 | 0.00 | 0.00 | 5.34 |
4465 | 4545 | 0.030908 | CTTCGGTCGCCTCATACTCC | 59.969 | 60.000 | 0.00 | 0.00 | 0.00 | 3.85 |
4480 | 4560 | 3.736252 | CGGATTTGTACTCATAGCCTTCG | 59.264 | 47.826 | 0.00 | 0.00 | 30.86 | 3.79 |
4489 | 4569 | 5.914898 | TCTCATCTTCGGATTTGTACTCA | 57.085 | 39.130 | 0.00 | 0.00 | 31.35 | 3.41 |
4591 | 4671 | 3.552684 | CGCCAAGAAAATCAAAGCCAGAA | 60.553 | 43.478 | 0.00 | 0.00 | 0.00 | 3.02 |
4599 | 4679 | 3.317711 | TGAAGAAGCGCCAAGAAAATCAA | 59.682 | 39.130 | 2.29 | 0.00 | 0.00 | 2.57 |
4602 | 4682 | 2.229784 | CCTGAAGAAGCGCCAAGAAAAT | 59.770 | 45.455 | 2.29 | 0.00 | 0.00 | 1.82 |
4699 | 4780 | 2.225491 | GGCGCTATCAACTTGAAACACA | 59.775 | 45.455 | 7.64 | 0.00 | 0.00 | 3.72 |
4700 | 4781 | 2.225491 | TGGCGCTATCAACTTGAAACAC | 59.775 | 45.455 | 7.64 | 0.00 | 0.00 | 3.32 |
4770 | 4851 | 3.324846 | TCGCTCAATGCCTGACCTATATT | 59.675 | 43.478 | 0.00 | 0.00 | 38.78 | 1.28 |
4888 | 4975 | 8.784043 | GGGTATCATCATGTTAGTAATCAAACC | 58.216 | 37.037 | 0.00 | 0.00 | 0.00 | 3.27 |
4893 | 4980 | 8.950210 | CAATGGGGTATCATCATGTTAGTAATC | 58.050 | 37.037 | 0.00 | 0.00 | 0.00 | 1.75 |
4976 | 5070 | 6.699575 | TTTCTTCTGTGAAGGAAAGGAAAG | 57.300 | 37.500 | 7.37 | 0.00 | 0.00 | 2.62 |
5014 | 5108 | 2.425143 | TCCAGGCAAATGGAGCTTAG | 57.575 | 50.000 | 0.70 | 0.00 | 44.56 | 2.18 |
5071 | 5166 | 7.588854 | CACACTGTCACAAATAAACTCATGAAG | 59.411 | 37.037 | 0.00 | 0.00 | 0.00 | 3.02 |
5077 | 5172 | 4.819630 | TCCCACACTGTCACAAATAAACTC | 59.180 | 41.667 | 0.00 | 0.00 | 0.00 | 3.01 |
5082 | 5177 | 4.262721 | GGTACTCCCACACTGTCACAAATA | 60.263 | 45.833 | 0.00 | 0.00 | 0.00 | 1.40 |
5101 | 5196 | 4.093998 | CACAGAAACATGATCAGCAGGTAC | 59.906 | 45.833 | 0.00 | 0.00 | 41.31 | 3.34 |
5126 | 5221 | 6.804295 | GGTACTTATTCAGATAGATGTGCTCG | 59.196 | 42.308 | 0.00 | 0.00 | 0.00 | 5.03 |
5158 | 5253 | 8.489489 | AGATCCAGTTATAAGCTCAAAGAATGA | 58.511 | 33.333 | 0.00 | 0.00 | 36.38 | 2.57 |
5259 | 5357 | 7.556844 | TCAGGAATTATACTCAGTTGACTTCC | 58.443 | 38.462 | 0.00 | 0.00 | 0.00 | 3.46 |
5261 | 5359 | 8.986991 | AGATCAGGAATTATACTCAGTTGACTT | 58.013 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
5276 | 5374 | 2.357009 | GCATCGCACAAGATCAGGAATT | 59.643 | 45.455 | 0.00 | 0.00 | 0.00 | 2.17 |
5424 | 5615 | 4.697352 | GTGGCAAGCAAGATCGGATTATAT | 59.303 | 41.667 | 0.00 | 0.00 | 0.00 | 0.86 |
5435 | 5626 | 1.159285 | CAATCTCGTGGCAAGCAAGA | 58.841 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
5438 | 5629 | 2.076100 | CTAACAATCTCGTGGCAAGCA | 58.924 | 47.619 | 0.00 | 0.00 | 0.00 | 3.91 |
5468 | 5659 | 2.223294 | GCATGTGAGCTCTTGAGATTGC | 60.223 | 50.000 | 16.19 | 10.30 | 0.00 | 3.56 |
5541 | 5732 | 9.902684 | GGACAGAGGTAGTATATTATACTGCTA | 57.097 | 37.037 | 22.97 | 6.37 | 32.04 | 3.49 |
5542 | 5733 | 7.835181 | GGGACAGAGGTAGTATATTATACTGCT | 59.165 | 40.741 | 22.97 | 13.75 | 32.04 | 4.24 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.