Multiple sequence alignment - TraesCS6D01G068400
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 | TraesCS6D01G068400 | chr6D | 100.000 | 4448 | 0 | 0 | 1 | 4448 | 34342354 | 34346801 | 0.000000e+00 | 8215 |
1 | TraesCS6D01G068400 | chr6A | 91.960 | 2276 | 105 | 40 | 631 | 2892 | 38472021 | 38474232 | 0.000000e+00 | 3118 |
2 | TraesCS6D01G068400 | chr6A | 96.429 | 1092 | 31 | 5 | 3157 | 4241 | 38474448 | 38475538 | 0.000000e+00 | 1794 |
3 | TraesCS6D01G068400 | chr6A | 90.855 | 339 | 23 | 6 | 235 | 567 | 38471239 | 38471575 | 8.780000e-122 | 448 |
4 | TraesCS6D01G068400 | chr6A | 97.608 | 209 | 5 | 0 | 4240 | 4448 | 38475622 | 38475830 | 4.230000e-95 | 359 |
5 | TraesCS6D01G068400 | chr6A | 92.050 | 239 | 6 | 2 | 1 | 230 | 38470587 | 38470821 | 1.540000e-84 | 324 |
6 | TraesCS6D01G068400 | chr6A | 92.366 | 131 | 8 | 2 | 2914 | 3043 | 38474224 | 38474353 | 7.600000e-43 | 185 |
7 | TraesCS6D01G068400 | chr6B | 97.152 | 1229 | 22 | 5 | 1934 | 3161 | 71040853 | 71042069 | 0.000000e+00 | 2063 |
8 | TraesCS6D01G068400 | chr6B | 94.946 | 1306 | 44 | 13 | 3157 | 4448 | 71042120 | 71043417 | 0.000000e+00 | 2026 |
9 | TraesCS6D01G068400 | chr6B | 88.012 | 1318 | 80 | 35 | 631 | 1921 | 71039501 | 71040767 | 0.000000e+00 | 1487 |
10 | TraesCS6D01G068400 | chr6B | 85.470 | 585 | 28 | 30 | 2 | 567 | 71038446 | 71038992 | 1.400000e-154 | 556 |
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 | TraesCS6D01G068400 | chr6D | 34342354 | 34346801 | 4447 | False | 8215 | 8215 | 100.000000 | 1 | 4448 | 1 | chr6D.!!$F1 | 4447 |
1 | TraesCS6D01G068400 | chr6A | 38470587 | 38475830 | 5243 | False | 1038 | 3118 | 93.544667 | 1 | 4448 | 6 | chr6A.!!$F1 | 4447 |
2 | TraesCS6D01G068400 | chr6B | 71038446 | 71043417 | 4971 | False | 1533 | 2063 | 91.395000 | 2 | 4448 | 4 | chr6B.!!$F1 | 4446 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
555 | 989 | 1.812571 | ACTACTTTCGCTTGGCCAATG | 59.187 | 47.619 | 20.85 | 15.01 | 0.00 | 2.82 | F |
1405 | 2315 | 0.036388 | CGAGGAGGCTTGGCTTGTTA | 60.036 | 55.000 | 0.00 | 0.00 | 0.00 | 2.41 | F |
1719 | 2629 | 0.319083 | ACGCGGTTGGTATCAAGTCA | 59.681 | 50.000 | 12.47 | 0.00 | 32.92 | 3.41 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1810 | 2720 | 0.678048 | GGTAAGGGCAGCTGAACCAG | 60.678 | 60.000 | 20.43 | 0.0 | 34.12 | 4.00 | R |
3234 | 4359 | 3.451178 | AGTGAGTATACCACGCAGGAAAT | 59.549 | 43.478 | 14.77 | 0.0 | 37.65 | 2.17 | R |
3515 | 4640 | 0.097674 | GCGCATAGAACAGTTGGCAG | 59.902 | 55.000 | 0.30 | 0.0 | 0.00 | 4.85 | 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 |
---|---|---|---|---|---|---|---|---|---|
34 | 35 | 5.378230 | TTGAGGATATGTGCTCCATCTTT | 57.622 | 39.130 | 8.48 | 0.00 | 41.68 | 2.52 |
35 | 36 | 5.378230 | TGAGGATATGTGCTCCATCTTTT | 57.622 | 39.130 | 8.48 | 0.00 | 41.68 | 2.27 |
40 | 41 | 7.293073 | AGGATATGTGCTCCATCTTTTTGTAT | 58.707 | 34.615 | 0.00 | 0.00 | 35.08 | 2.29 |
189 | 201 | 8.613060 | ACTGCCAATATTTGATGATGTACTAG | 57.387 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
218 | 230 | 2.987413 | TTCTACGCCATGTGCTTTTG | 57.013 | 45.000 | 4.92 | 0.00 | 38.05 | 2.44 |
230 | 242 | 5.453198 | CCATGTGCTTTTGTTCCTAAAACCT | 60.453 | 40.000 | 0.00 | 0.00 | 0.00 | 3.50 |
232 | 244 | 6.139048 | TGTGCTTTTGTTCCTAAAACCTAC | 57.861 | 37.500 | 0.00 | 0.00 | 0.00 | 3.18 |
233 | 245 | 5.652891 | TGTGCTTTTGTTCCTAAAACCTACA | 59.347 | 36.000 | 0.00 | 0.00 | 0.00 | 2.74 |
352 | 780 | 3.263425 | TGTGAACTGAAATACTCCCTCCC | 59.737 | 47.826 | 0.00 | 0.00 | 0.00 | 4.30 |
357 | 785 | 3.705072 | ACTGAAATACTCCCTCCCTTACG | 59.295 | 47.826 | 0.00 | 0.00 | 0.00 | 3.18 |
392 | 823 | 6.913873 | TTTGAACTAAGACCACACACTTAC | 57.086 | 37.500 | 0.00 | 0.00 | 0.00 | 2.34 |
555 | 989 | 1.812571 | ACTACTTTCGCTTGGCCAATG | 59.187 | 47.619 | 20.85 | 15.01 | 0.00 | 2.82 |
567 | 1001 | 4.261909 | GCTTGGCCAATGAAGATCCTATTG | 60.262 | 45.833 | 20.85 | 2.71 | 0.00 | 1.90 |
569 | 1003 | 5.645056 | TGGCCAATGAAGATCCTATTGTA | 57.355 | 39.130 | 0.61 | 0.00 | 31.55 | 2.41 |
570 | 1004 | 6.012337 | TGGCCAATGAAGATCCTATTGTAA | 57.988 | 37.500 | 0.61 | 0.00 | 31.55 | 2.41 |
571 | 1005 | 6.430864 | TGGCCAATGAAGATCCTATTGTAAA | 58.569 | 36.000 | 0.61 | 0.00 | 31.55 | 2.01 |
572 | 1006 | 7.068702 | TGGCCAATGAAGATCCTATTGTAAAT | 58.931 | 34.615 | 0.61 | 0.00 | 31.55 | 1.40 |
573 | 1007 | 7.231317 | TGGCCAATGAAGATCCTATTGTAAATC | 59.769 | 37.037 | 0.61 | 0.00 | 31.55 | 2.17 |
607 | 1428 | 4.762289 | AGGGGCAGTTAGATTCTACAAG | 57.238 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
608 | 1429 | 3.118223 | AGGGGCAGTTAGATTCTACAAGC | 60.118 | 47.826 | 0.00 | 0.00 | 0.00 | 4.01 |
631 | 1453 | 3.290710 | ACAAGATTCCGGGAATTCATGG | 58.709 | 45.455 | 22.53 | 12.20 | 31.89 | 3.66 |
640 | 1462 | 3.397482 | CGGGAATTCATGGTTTTTGCAA | 58.603 | 40.909 | 7.93 | 0.00 | 0.00 | 4.08 |
641 | 1463 | 3.812053 | CGGGAATTCATGGTTTTTGCAAA | 59.188 | 39.130 | 8.05 | 8.05 | 0.00 | 3.68 |
642 | 1464 | 4.274459 | CGGGAATTCATGGTTTTTGCAAAA | 59.726 | 37.500 | 20.46 | 20.46 | 0.00 | 2.44 |
723 | 1606 | 9.777575 | TTTTAAGCACACACTTTTAGTTCTTAC | 57.222 | 29.630 | 0.00 | 0.00 | 0.00 | 2.34 |
726 | 1609 | 8.904099 | AAGCACACACTTTTAGTTCTTACTAT | 57.096 | 30.769 | 0.00 | 0.00 | 36.76 | 2.12 |
727 | 1610 | 8.904099 | AGCACACACTTTTAGTTCTTACTATT | 57.096 | 30.769 | 0.00 | 0.00 | 36.76 | 1.73 |
788 | 1689 | 5.979993 | TCCTACAAGTAATTACCATTCGCA | 58.020 | 37.500 | 12.05 | 0.00 | 0.00 | 5.10 |
789 | 1690 | 6.408035 | TCCTACAAGTAATTACCATTCGCAA | 58.592 | 36.000 | 12.05 | 0.00 | 0.00 | 4.85 |
792 | 1693 | 7.696453 | CCTACAAGTAATTACCATTCGCAAAAG | 59.304 | 37.037 | 12.05 | 0.00 | 0.00 | 2.27 |
827 | 1728 | 9.727859 | ACATTTAATTACCCCAAAAATGTTACC | 57.272 | 29.630 | 7.20 | 0.00 | 44.25 | 2.85 |
831 | 1732 | 6.614694 | ATTACCCCAAAAATGTTACCCTTC | 57.385 | 37.500 | 0.00 | 0.00 | 0.00 | 3.46 |
832 | 1733 | 4.207698 | ACCCCAAAAATGTTACCCTTCT | 57.792 | 40.909 | 0.00 | 0.00 | 0.00 | 2.85 |
843 | 1745 | 2.040679 | GTTACCCTTCTAAACCTGGGCA | 59.959 | 50.000 | 0.00 | 0.00 | 43.25 | 5.36 |
1223 | 2128 | 4.373116 | TTCCGCCGACTCAGGTGC | 62.373 | 66.667 | 0.00 | 0.00 | 40.31 | 5.01 |
1258 | 2163 | 0.383949 | CTTCTCCTCGCCTCACTAGC | 59.616 | 60.000 | 0.00 | 0.00 | 0.00 | 3.42 |
1260 | 2165 | 0.749818 | TCTCCTCGCCTCACTAGCAG | 60.750 | 60.000 | 0.00 | 0.00 | 0.00 | 4.24 |
1261 | 2166 | 1.000771 | TCCTCGCCTCACTAGCAGT | 60.001 | 57.895 | 0.00 | 0.00 | 0.00 | 4.40 |
1262 | 2167 | 1.032657 | TCCTCGCCTCACTAGCAGTC | 61.033 | 60.000 | 0.00 | 0.00 | 0.00 | 3.51 |
1275 | 2185 | 7.221067 | CCTCACTAGCAGTCTTTTAAGTATTCG | 59.779 | 40.741 | 0.00 | 0.00 | 0.00 | 3.34 |
1276 | 2186 | 7.600065 | TCACTAGCAGTCTTTTAAGTATTCGT | 58.400 | 34.615 | 0.00 | 0.00 | 0.00 | 3.85 |
1278 | 2188 | 9.350357 | CACTAGCAGTCTTTTAAGTATTCGTTA | 57.650 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
1292 | 2202 | 2.606717 | TCGTTAGTGTACTGCTGTCG | 57.393 | 50.000 | 0.00 | 0.00 | 0.00 | 4.35 |
1298 | 2208 | 1.080772 | TGTACTGCTGTCGCCTTCG | 60.081 | 57.895 | 0.00 | 0.00 | 34.43 | 3.79 |
1302 | 2212 | 4.680237 | TGCTGTCGCCTTCGGTGG | 62.680 | 66.667 | 0.00 | 0.00 | 33.43 | 4.61 |
1303 | 2213 | 4.681978 | GCTGTCGCCTTCGGTGGT | 62.682 | 66.667 | 0.00 | 0.00 | 33.43 | 4.16 |
1304 | 2214 | 2.738521 | CTGTCGCCTTCGGTGGTG | 60.739 | 66.667 | 2.46 | 2.46 | 38.85 | 4.17 |
1307 | 2217 | 2.915659 | TCGCCTTCGGTGGTGTCT | 60.916 | 61.111 | 7.75 | 0.00 | 38.63 | 3.41 |
1309 | 2219 | 2.047179 | GCCTTCGGTGGTGTCTCC | 60.047 | 66.667 | 0.00 | 0.00 | 0.00 | 3.71 |
1310 | 2220 | 2.879233 | GCCTTCGGTGGTGTCTCCA | 61.879 | 63.158 | 0.00 | 0.00 | 45.01 | 3.86 |
1325 | 2235 | 0.535780 | CTCCAGGCAGAAGCACAACA | 60.536 | 55.000 | 0.00 | 0.00 | 44.61 | 3.33 |
1328 | 2238 | 1.336517 | CCAGGCAGAAGCACAACATTG | 60.337 | 52.381 | 0.00 | 0.00 | 44.61 | 2.82 |
1329 | 2239 | 1.610038 | CAGGCAGAAGCACAACATTGA | 59.390 | 47.619 | 0.00 | 0.00 | 44.61 | 2.57 |
1330 | 2240 | 1.884579 | AGGCAGAAGCACAACATTGAG | 59.115 | 47.619 | 0.00 | 0.00 | 44.61 | 3.02 |
1331 | 2241 | 1.881973 | GGCAGAAGCACAACATTGAGA | 59.118 | 47.619 | 0.00 | 0.00 | 44.61 | 3.27 |
1332 | 2242 | 2.490903 | GGCAGAAGCACAACATTGAGAT | 59.509 | 45.455 | 0.00 | 0.00 | 44.61 | 2.75 |
1333 | 2243 | 3.691118 | GGCAGAAGCACAACATTGAGATA | 59.309 | 43.478 | 0.00 | 0.00 | 44.61 | 1.98 |
1334 | 2244 | 4.201891 | GGCAGAAGCACAACATTGAGATAG | 60.202 | 45.833 | 0.00 | 0.00 | 44.61 | 2.08 |
1335 | 2245 | 4.394300 | GCAGAAGCACAACATTGAGATAGT | 59.606 | 41.667 | 0.00 | 0.00 | 41.58 | 2.12 |
1336 | 2246 | 5.582269 | GCAGAAGCACAACATTGAGATAGTA | 59.418 | 40.000 | 0.00 | 0.00 | 41.58 | 1.82 |
1338 | 2248 | 7.201679 | GCAGAAGCACAACATTGAGATAGTATT | 60.202 | 37.037 | 0.00 | 0.00 | 41.58 | 1.89 |
1340 | 2250 | 8.887717 | AGAAGCACAACATTGAGATAGTATTTC | 58.112 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
1341 | 2251 | 7.559590 | AGCACAACATTGAGATAGTATTTCC | 57.440 | 36.000 | 0.00 | 0.00 | 0.00 | 3.13 |
1344 | 2254 | 8.125448 | GCACAACATTGAGATAGTATTTCCTTC | 58.875 | 37.037 | 0.00 | 0.00 | 0.00 | 3.46 |
1352 | 2262 | 9.658799 | TTGAGATAGTATTTCCTTCTTCTTGTG | 57.341 | 33.333 | 0.00 | 0.00 | 0.00 | 3.33 |
1353 | 2263 | 8.260818 | TGAGATAGTATTTCCTTCTTCTTGTGG | 58.739 | 37.037 | 0.00 | 0.00 | 0.00 | 4.17 |
1354 | 2264 | 7.051000 | AGATAGTATTTCCTTCTTCTTGTGGC | 58.949 | 38.462 | 0.00 | 0.00 | 0.00 | 5.01 |
1355 | 2265 | 4.003648 | AGTATTTCCTTCTTCTTGTGGCG | 58.996 | 43.478 | 0.00 | 0.00 | 0.00 | 5.69 |
1358 | 2268 | 3.478857 | TTCCTTCTTCTTGTGGCGTTA | 57.521 | 42.857 | 0.00 | 0.00 | 0.00 | 3.18 |
1359 | 2269 | 3.040147 | TCCTTCTTCTTGTGGCGTTAG | 57.960 | 47.619 | 0.00 | 0.00 | 0.00 | 2.34 |
1361 | 2271 | 3.139077 | CCTTCTTCTTGTGGCGTTAGTT | 58.861 | 45.455 | 0.00 | 0.00 | 0.00 | 2.24 |
1362 | 2272 | 4.039488 | TCCTTCTTCTTGTGGCGTTAGTTA | 59.961 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
1374 | 2284 | 3.742369 | GGCGTTAGTTAAGTGTAGCAACA | 59.258 | 43.478 | 0.00 | 0.00 | 0.00 | 3.33 |
1384 | 2294 | 9.672673 | AGTTAAGTGTAGCAACAGATGAATTAT | 57.327 | 29.630 | 0.00 | 0.00 | 35.91 | 1.28 |
1388 | 2298 | 5.753438 | GTGTAGCAACAGATGAATTATCCGA | 59.247 | 40.000 | 0.00 | 0.00 | 35.91 | 4.55 |
1389 | 2299 | 5.985530 | TGTAGCAACAGATGAATTATCCGAG | 59.014 | 40.000 | 0.00 | 0.00 | 36.40 | 4.63 |
1398 | 2308 | 2.104792 | TGAATTATCCGAGGAGGCTTGG | 59.895 | 50.000 | 0.00 | 0.00 | 40.77 | 3.61 |
1399 | 2309 | 0.398318 | ATTATCCGAGGAGGCTTGGC | 59.602 | 55.000 | 0.00 | 0.00 | 40.77 | 4.52 |
1400 | 2310 | 0.691078 | TTATCCGAGGAGGCTTGGCT | 60.691 | 55.000 | 0.00 | 0.00 | 40.77 | 4.75 |
1401 | 2311 | 0.691078 | TATCCGAGGAGGCTTGGCTT | 60.691 | 55.000 | 0.00 | 0.00 | 40.77 | 4.35 |
1402 | 2312 | 2.262774 | ATCCGAGGAGGCTTGGCTTG | 62.263 | 60.000 | 0.00 | 0.00 | 40.77 | 4.01 |
1404 | 2314 | 1.302832 | CGAGGAGGCTTGGCTTGTT | 60.303 | 57.895 | 0.00 | 0.00 | 0.00 | 2.83 |
1405 | 2315 | 0.036388 | CGAGGAGGCTTGGCTTGTTA | 60.036 | 55.000 | 0.00 | 0.00 | 0.00 | 2.41 |
1406 | 2316 | 1.743996 | GAGGAGGCTTGGCTTGTTAG | 58.256 | 55.000 | 0.00 | 0.00 | 0.00 | 2.34 |
1407 | 2317 | 1.003696 | GAGGAGGCTTGGCTTGTTAGT | 59.996 | 52.381 | 0.00 | 0.00 | 0.00 | 2.24 |
1408 | 2318 | 1.425448 | AGGAGGCTTGGCTTGTTAGTT | 59.575 | 47.619 | 0.00 | 0.00 | 0.00 | 2.24 |
1409 | 2319 | 1.541588 | GGAGGCTTGGCTTGTTAGTTG | 59.458 | 52.381 | 0.00 | 0.00 | 0.00 | 3.16 |
1410 | 2320 | 2.230660 | GAGGCTTGGCTTGTTAGTTGT | 58.769 | 47.619 | 0.00 | 0.00 | 0.00 | 3.32 |
1411 | 2321 | 2.623416 | GAGGCTTGGCTTGTTAGTTGTT | 59.377 | 45.455 | 0.00 | 0.00 | 0.00 | 2.83 |
1412 | 2322 | 3.818773 | GAGGCTTGGCTTGTTAGTTGTTA | 59.181 | 43.478 | 0.00 | 0.00 | 0.00 | 2.41 |
1413 | 2323 | 4.211920 | AGGCTTGGCTTGTTAGTTGTTAA | 58.788 | 39.130 | 0.00 | 0.00 | 0.00 | 2.01 |
1414 | 2324 | 4.647399 | AGGCTTGGCTTGTTAGTTGTTAAA | 59.353 | 37.500 | 0.00 | 0.00 | 0.00 | 1.52 |
1415 | 2325 | 5.128008 | AGGCTTGGCTTGTTAGTTGTTAAAA | 59.872 | 36.000 | 0.00 | 0.00 | 0.00 | 1.52 |
1416 | 2326 | 5.813157 | GGCTTGGCTTGTTAGTTGTTAAAAA | 59.187 | 36.000 | 0.00 | 0.00 | 0.00 | 1.94 |
1494 | 2404 | 6.697019 | GTGTTATAATTGTGTTGATGGATGGC | 59.303 | 38.462 | 0.00 | 0.00 | 0.00 | 4.40 |
1498 | 2408 | 5.999205 | AATTGTGTTGATGGATGGCTTTA | 57.001 | 34.783 | 0.00 | 0.00 | 0.00 | 1.85 |
1505 | 2415 | 4.032960 | TGATGGATGGCTTTACTTGTGT | 57.967 | 40.909 | 0.00 | 0.00 | 0.00 | 3.72 |
1584 | 2494 | 2.355818 | GCAAATAAGGGAGGAAGTCGGT | 60.356 | 50.000 | 0.00 | 0.00 | 0.00 | 4.69 |
1701 | 2611 | 1.222115 | ACAAGAAGAAGGCGTGCGAC | 61.222 | 55.000 | 0.00 | 0.00 | 0.00 | 5.19 |
1719 | 2629 | 0.319083 | ACGCGGTTGGTATCAAGTCA | 59.681 | 50.000 | 12.47 | 0.00 | 32.92 | 3.41 |
1791 | 2701 | 3.684788 | ACATAGCAACCTTCAACGATGAC | 59.315 | 43.478 | 0.00 | 0.00 | 34.61 | 3.06 |
1810 | 2720 | 3.576356 | CGTCGGTGCATGGCATCC | 61.576 | 66.667 | 0.00 | 0.00 | 41.91 | 3.51 |
1832 | 2742 | 0.324943 | GTTCAGCTGCCCTTACCTCA | 59.675 | 55.000 | 9.47 | 0.00 | 0.00 | 3.86 |
1867 | 2791 | 9.113838 | CTCAATGGCTAGTATAATTGTTGAACT | 57.886 | 33.333 | 0.00 | 0.00 | 32.92 | 3.01 |
2012 | 3009 | 4.623886 | GCATCGATAATGGCAGATTCCCTA | 60.624 | 45.833 | 0.00 | 0.00 | 35.77 | 3.53 |
2158 | 3155 | 9.746457 | TTTATTTTATTTTGGGCTTTTGGCTAT | 57.254 | 25.926 | 0.00 | 0.00 | 45.25 | 2.97 |
2199 | 3196 | 4.279671 | TGGTTTTGTGTGTTTCTTGTCAGT | 59.720 | 37.500 | 0.00 | 0.00 | 0.00 | 3.41 |
2205 | 3202 | 4.154015 | TGTGTGTTTCTTGTCAGTGTTCTG | 59.846 | 41.667 | 0.00 | 0.00 | 42.54 | 3.02 |
2321 | 3318 | 8.579850 | TGAATGCTGTTAGTATTGAAAAGGAT | 57.420 | 30.769 | 0.00 | 0.00 | 30.60 | 3.24 |
2885 | 3882 | 8.125978 | TCTCAATGGAAAAGCTTGATAATGTT | 57.874 | 30.769 | 0.00 | 0.00 | 0.00 | 2.71 |
2932 | 3929 | 7.281774 | TGCACATTTTGTATCATGTTTTGGTTT | 59.718 | 29.630 | 0.00 | 0.00 | 30.90 | 3.27 |
3043 | 4042 | 3.137360 | GGGATCAAACTCTATGAAGCCCT | 59.863 | 47.826 | 0.00 | 0.00 | 40.03 | 5.19 |
3056 | 4055 | 4.052518 | GCCCTGTGCTCCCACCAT | 62.053 | 66.667 | 0.00 | 0.00 | 41.35 | 3.55 |
3057 | 4056 | 2.765969 | CCCTGTGCTCCCACCATT | 59.234 | 61.111 | 0.00 | 0.00 | 41.35 | 3.16 |
3058 | 4057 | 1.679977 | CCCTGTGCTCCCACCATTG | 60.680 | 63.158 | 0.00 | 0.00 | 41.35 | 2.82 |
3059 | 4058 | 1.679977 | CCTGTGCTCCCACCATTGG | 60.680 | 63.158 | 0.00 | 0.00 | 41.35 | 3.16 |
3072 | 4071 | 5.395682 | CCACCATTGGGCAGATATTTATG | 57.604 | 43.478 | 7.78 | 0.00 | 39.57 | 1.90 |
3073 | 4072 | 4.221262 | CCACCATTGGGCAGATATTTATGG | 59.779 | 45.833 | 7.78 | 0.00 | 39.57 | 2.74 |
3074 | 4073 | 5.078949 | CACCATTGGGCAGATATTTATGGA | 58.921 | 41.667 | 7.78 | 0.00 | 37.90 | 3.41 |
3075 | 4074 | 5.539574 | CACCATTGGGCAGATATTTATGGAA | 59.460 | 40.000 | 7.78 | 0.00 | 37.90 | 3.53 |
3076 | 4075 | 5.776716 | ACCATTGGGCAGATATTTATGGAAG | 59.223 | 40.000 | 7.78 | 0.00 | 37.90 | 3.46 |
3077 | 4076 | 5.776716 | CCATTGGGCAGATATTTATGGAAGT | 59.223 | 40.000 | 0.00 | 0.00 | 34.39 | 3.01 |
3078 | 4077 | 6.268387 | CCATTGGGCAGATATTTATGGAAGTT | 59.732 | 38.462 | 0.00 | 0.00 | 34.39 | 2.66 |
3079 | 4078 | 6.713762 | TTGGGCAGATATTTATGGAAGTTG | 57.286 | 37.500 | 0.00 | 0.00 | 0.00 | 3.16 |
3080 | 4079 | 4.584325 | TGGGCAGATATTTATGGAAGTTGC | 59.416 | 41.667 | 0.00 | 0.00 | 0.00 | 4.17 |
3081 | 4080 | 4.584325 | GGGCAGATATTTATGGAAGTTGCA | 59.416 | 41.667 | 0.00 | 0.00 | 0.00 | 4.08 |
3082 | 4081 | 5.068987 | GGGCAGATATTTATGGAAGTTGCAA | 59.931 | 40.000 | 0.00 | 0.00 | 0.00 | 4.08 |
3083 | 4082 | 5.979517 | GGCAGATATTTATGGAAGTTGCAAC | 59.020 | 40.000 | 22.17 | 22.17 | 0.00 | 4.17 |
3084 | 4083 | 6.183360 | GGCAGATATTTATGGAAGTTGCAACT | 60.183 | 38.462 | 26.36 | 26.36 | 42.04 | 3.16 |
3085 | 4084 | 7.013274 | GGCAGATATTTATGGAAGTTGCAACTA | 59.987 | 37.037 | 31.31 | 17.32 | 38.57 | 2.24 |
3086 | 4085 | 8.072567 | GCAGATATTTATGGAAGTTGCAACTAG | 58.927 | 37.037 | 31.31 | 4.12 | 38.57 | 2.57 |
3087 | 4086 | 8.072567 | CAGATATTTATGGAAGTTGCAACTAGC | 58.927 | 37.037 | 31.31 | 24.25 | 45.96 | 3.42 |
3102 | 4101 | 6.670077 | GCAACTAGCATAGCTTCTTAAGTT | 57.330 | 37.500 | 1.63 | 0.00 | 44.39 | 2.66 |
3103 | 4102 | 7.078011 | GCAACTAGCATAGCTTCTTAAGTTT | 57.922 | 36.000 | 1.63 | 0.00 | 44.39 | 2.66 |
3104 | 4103 | 7.530863 | GCAACTAGCATAGCTTCTTAAGTTTT | 58.469 | 34.615 | 1.63 | 0.00 | 44.39 | 2.43 |
3105 | 4104 | 8.023706 | GCAACTAGCATAGCTTCTTAAGTTTTT | 58.976 | 33.333 | 1.63 | 0.00 | 44.39 | 1.94 |
3112 | 4111 | 9.840427 | GCATAGCTTCTTAAGTTTTTATGAACA | 57.160 | 29.630 | 16.53 | 0.00 | 32.60 | 3.18 |
3115 | 4114 | 8.232913 | AGCTTCTTAAGTTTTTATGAACACCA | 57.767 | 30.769 | 1.63 | 0.00 | 32.60 | 4.17 |
3116 | 4115 | 8.135529 | AGCTTCTTAAGTTTTTATGAACACCAC | 58.864 | 33.333 | 1.63 | 0.00 | 32.60 | 4.16 |
3117 | 4116 | 7.112984 | GCTTCTTAAGTTTTTATGAACACCACG | 59.887 | 37.037 | 1.63 | 0.00 | 32.60 | 4.94 |
3118 | 4117 | 7.556733 | TCTTAAGTTTTTATGAACACCACGT | 57.443 | 32.000 | 1.63 | 0.00 | 31.94 | 4.49 |
3180 | 4305 | 5.777732 | AGGTTCTACTTGACTCATGTCTTCT | 59.222 | 40.000 | 0.96 | 0.00 | 43.29 | 2.85 |
3232 | 4357 | 1.135527 | CCCCTTGCAGCATGTGTATTG | 59.864 | 52.381 | 0.00 | 0.00 | 39.31 | 1.90 |
3234 | 4359 | 1.202817 | CCTTGCAGCATGTGTATTGCA | 59.797 | 47.619 | 0.00 | 0.94 | 44.09 | 4.08 |
3330 | 4455 | 2.639347 | TGGAGATGTCTGCTTTGAGGAA | 59.361 | 45.455 | 3.22 | 0.00 | 35.18 | 3.36 |
3494 | 4619 | 1.197036 | GGAGAGTGCTTAACGTTTGGC | 59.803 | 52.381 | 5.91 | 12.01 | 0.00 | 4.52 |
3504 | 4629 | 4.687483 | GCTTAACGTTTGGCTTAGTCTACA | 59.313 | 41.667 | 5.91 | 0.00 | 0.00 | 2.74 |
3513 | 4638 | 2.236395 | GGCTTAGTCTACAAGGCAAGGA | 59.764 | 50.000 | 4.47 | 0.00 | 45.29 | 3.36 |
3514 | 4639 | 3.118223 | GGCTTAGTCTACAAGGCAAGGAT | 60.118 | 47.826 | 4.47 | 0.00 | 45.29 | 3.24 |
3515 | 4640 | 4.123506 | GCTTAGTCTACAAGGCAAGGATC | 58.876 | 47.826 | 0.00 | 0.00 | 0.00 | 3.36 |
3628 | 4754 | 4.251268 | GGCTTCAAACTGTACCGTATTCT | 58.749 | 43.478 | 0.00 | 0.00 | 0.00 | 2.40 |
3638 | 4764 | 7.642082 | ACTGTACCGTATTCTCTAATGTTCT | 57.358 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
3752 | 4878 | 2.292569 | CTGATTGGGCATACATGAGTGC | 59.707 | 50.000 | 15.49 | 15.49 | 40.55 | 4.40 |
3832 | 4958 | 7.513781 | TCCAATGTCCAATCTAATCTATCCAGA | 59.486 | 37.037 | 0.00 | 0.00 | 34.56 | 3.86 |
4013 | 5145 | 6.986231 | TGCAGTTTCTAGACCACATACATATG | 59.014 | 38.462 | 0.00 | 0.00 | 39.55 | 1.78 |
4201 | 5340 | 8.964533 | ATCTATAACTATGACCTGGAACTGAT | 57.035 | 34.615 | 0.00 | 0.00 | 0.00 | 2.90 |
4236 | 5375 | 8.708742 | GTGCAAAAGGTTTCTGAAATAATAACC | 58.291 | 33.333 | 6.06 | 2.46 | 38.78 | 2.85 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
34 | 35 | 7.283625 | AGAAATAGGCAACACAACATACAAA | 57.716 | 32.000 | 0.00 | 0.00 | 41.41 | 2.83 |
35 | 36 | 6.892658 | AGAAATAGGCAACACAACATACAA | 57.107 | 33.333 | 0.00 | 0.00 | 41.41 | 2.41 |
40 | 41 | 3.252215 | CGGAAGAAATAGGCAACACAACA | 59.748 | 43.478 | 0.00 | 0.00 | 41.41 | 3.33 |
132 | 142 | 6.199376 | TCAACTTGTACTATGATACAGGGGA | 58.801 | 40.000 | 0.00 | 1.45 | 36.67 | 4.81 |
133 | 143 | 6.479972 | TCAACTTGTACTATGATACAGGGG | 57.520 | 41.667 | 0.00 | 0.00 | 36.67 | 4.79 |
134 | 144 | 6.425114 | GCATCAACTTGTACTATGATACAGGG | 59.575 | 42.308 | 0.00 | 1.06 | 36.67 | 4.45 |
135 | 145 | 7.212976 | AGCATCAACTTGTACTATGATACAGG | 58.787 | 38.462 | 0.00 | 0.00 | 37.96 | 4.00 |
189 | 201 | 4.033358 | CACATGGCGTAGAAAACATCTCTC | 59.967 | 45.833 | 0.00 | 0.00 | 39.71 | 3.20 |
331 | 759 | 3.519913 | AGGGAGGGAGTATTTCAGTTCAC | 59.480 | 47.826 | 0.00 | 0.00 | 0.00 | 3.18 |
332 | 760 | 3.803340 | AGGGAGGGAGTATTTCAGTTCA | 58.197 | 45.455 | 0.00 | 0.00 | 0.00 | 3.18 |
427 | 859 | 8.969260 | AGTTGCATCTTGAAGATTACATCATA | 57.031 | 30.769 | 4.67 | 0.00 | 31.32 | 2.15 |
555 | 989 | 8.841300 | GGTTCCTTGATTTACAATAGGATCTTC | 58.159 | 37.037 | 0.00 | 0.00 | 37.88 | 2.87 |
590 | 1411 | 5.862924 | TGTTGCTTGTAGAATCTAACTGC | 57.137 | 39.130 | 0.00 | 0.00 | 0.00 | 4.40 |
593 | 1414 | 8.178313 | GGAATCTTGTTGCTTGTAGAATCTAAC | 58.822 | 37.037 | 0.00 | 0.00 | 0.00 | 2.34 |
607 | 1428 | 2.491693 | TGAATTCCCGGAATCTTGTTGC | 59.508 | 45.455 | 13.24 | 0.00 | 30.29 | 4.17 |
608 | 1429 | 4.440525 | CCATGAATTCCCGGAATCTTGTTG | 60.441 | 45.833 | 13.24 | 7.18 | 30.29 | 3.33 |
631 | 1453 | 5.526846 | TGGACTGATGGAATTTTGCAAAAAC | 59.473 | 36.000 | 27.10 | 21.82 | 30.51 | 2.43 |
640 | 1462 | 8.750515 | AAACAAAATTTGGACTGATGGAATTT | 57.249 | 26.923 | 10.71 | 0.00 | 32.89 | 1.82 |
641 | 1463 | 7.992033 | TGAAACAAAATTTGGACTGATGGAATT | 59.008 | 29.630 | 10.71 | 0.00 | 34.12 | 2.17 |
642 | 1464 | 7.507829 | TGAAACAAAATTTGGACTGATGGAAT | 58.492 | 30.769 | 10.71 | 0.00 | 34.12 | 3.01 |
760 | 1661 | 9.193133 | CGAATGGTAATTACTTGTAGGAGTATG | 57.807 | 37.037 | 15.05 | 0.00 | 32.51 | 2.39 |
761 | 1662 | 7.871463 | GCGAATGGTAATTACTTGTAGGAGTAT | 59.129 | 37.037 | 15.05 | 0.00 | 32.51 | 2.12 |
762 | 1663 | 7.147863 | TGCGAATGGTAATTACTTGTAGGAGTA | 60.148 | 37.037 | 15.05 | 0.00 | 0.00 | 2.59 |
763 | 1664 | 6.047231 | GCGAATGGTAATTACTTGTAGGAGT | 58.953 | 40.000 | 15.05 | 0.00 | 0.00 | 3.85 |
764 | 1665 | 6.046593 | TGCGAATGGTAATTACTTGTAGGAG | 58.953 | 40.000 | 15.05 | 2.11 | 0.00 | 3.69 |
827 | 1728 | 2.876581 | ACTTTGCCCAGGTTTAGAAGG | 58.123 | 47.619 | 0.00 | 0.00 | 0.00 | 3.46 |
831 | 1732 | 1.618343 | CCCAACTTTGCCCAGGTTTAG | 59.382 | 52.381 | 0.00 | 0.00 | 0.00 | 1.85 |
832 | 1733 | 1.710816 | CCCAACTTTGCCCAGGTTTA | 58.289 | 50.000 | 0.00 | 0.00 | 0.00 | 2.01 |
843 | 1745 | 1.144298 | AGCGACCTAAACCCCAACTTT | 59.856 | 47.619 | 0.00 | 0.00 | 0.00 | 2.66 |
979 | 1884 | 2.520536 | CCGCTGGGATTCTAGGGGG | 61.521 | 68.421 | 12.35 | 0.00 | 46.22 | 5.40 |
1009 | 1914 | 1.394618 | GAGCAGTCGGAGAGTATGGT | 58.605 | 55.000 | 0.00 | 0.00 | 38.70 | 3.55 |
1223 | 2128 | 3.609214 | AAGACAAAATGGGCGCGCG | 62.609 | 57.895 | 28.44 | 28.44 | 0.00 | 6.86 |
1228 | 2133 | 1.740025 | CGAGGAGAAGACAAAATGGGC | 59.260 | 52.381 | 0.00 | 0.00 | 0.00 | 5.36 |
1236 | 2141 | 0.251386 | AGTGAGGCGAGGAGAAGACA | 60.251 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
1261 | 2166 | 9.132521 | GCAGTACACTAACGAATACTTAAAAGA | 57.867 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
1262 | 2167 | 9.136952 | AGCAGTACACTAACGAATACTTAAAAG | 57.863 | 33.333 | 0.00 | 0.00 | 0.00 | 2.27 |
1292 | 2202 | 2.788191 | CTGGAGACACCACCGAAGGC | 62.788 | 65.000 | 0.00 | 0.00 | 46.17 | 4.35 |
1298 | 2208 | 1.768684 | TTCTGCCTGGAGACACCACC | 61.769 | 60.000 | 0.00 | 0.00 | 44.64 | 4.61 |
1302 | 2212 | 0.952984 | GTGCTTCTGCCTGGAGACAC | 60.953 | 60.000 | 0.00 | 0.24 | 38.71 | 3.67 |
1303 | 2213 | 1.372683 | GTGCTTCTGCCTGGAGACA | 59.627 | 57.895 | 0.00 | 0.00 | 38.71 | 3.41 |
1304 | 2214 | 0.250467 | TTGTGCTTCTGCCTGGAGAC | 60.250 | 55.000 | 0.00 | 0.00 | 38.71 | 3.36 |
1307 | 2217 | 0.111061 | ATGTTGTGCTTCTGCCTGGA | 59.889 | 50.000 | 0.00 | 0.00 | 38.71 | 3.86 |
1309 | 2219 | 1.610038 | TCAATGTTGTGCTTCTGCCTG | 59.390 | 47.619 | 0.00 | 0.00 | 38.71 | 4.85 |
1310 | 2220 | 1.884579 | CTCAATGTTGTGCTTCTGCCT | 59.115 | 47.619 | 0.00 | 0.00 | 38.71 | 4.75 |
1311 | 2221 | 1.881973 | TCTCAATGTTGTGCTTCTGCC | 59.118 | 47.619 | 0.00 | 0.00 | 38.71 | 4.85 |
1315 | 2225 | 8.125448 | GGAAATACTATCTCAATGTTGTGCTTC | 58.875 | 37.037 | 0.00 | 0.00 | 0.00 | 3.86 |
1328 | 2238 | 7.225734 | GCCACAAGAAGAAGGAAATACTATCTC | 59.774 | 40.741 | 0.00 | 0.00 | 0.00 | 2.75 |
1329 | 2239 | 7.051000 | GCCACAAGAAGAAGGAAATACTATCT | 58.949 | 38.462 | 0.00 | 0.00 | 0.00 | 1.98 |
1330 | 2240 | 6.018669 | CGCCACAAGAAGAAGGAAATACTATC | 60.019 | 42.308 | 0.00 | 0.00 | 0.00 | 2.08 |
1331 | 2241 | 5.817816 | CGCCACAAGAAGAAGGAAATACTAT | 59.182 | 40.000 | 0.00 | 0.00 | 0.00 | 2.12 |
1332 | 2242 | 5.175859 | CGCCACAAGAAGAAGGAAATACTA | 58.824 | 41.667 | 0.00 | 0.00 | 0.00 | 1.82 |
1333 | 2243 | 4.003648 | CGCCACAAGAAGAAGGAAATACT | 58.996 | 43.478 | 0.00 | 0.00 | 0.00 | 2.12 |
1334 | 2244 | 3.751698 | ACGCCACAAGAAGAAGGAAATAC | 59.248 | 43.478 | 0.00 | 0.00 | 0.00 | 1.89 |
1335 | 2245 | 4.015872 | ACGCCACAAGAAGAAGGAAATA | 57.984 | 40.909 | 0.00 | 0.00 | 0.00 | 1.40 |
1336 | 2246 | 2.863809 | ACGCCACAAGAAGAAGGAAAT | 58.136 | 42.857 | 0.00 | 0.00 | 0.00 | 2.17 |
1338 | 2248 | 2.341846 | AACGCCACAAGAAGAAGGAA | 57.658 | 45.000 | 0.00 | 0.00 | 0.00 | 3.36 |
1340 | 2250 | 2.767505 | ACTAACGCCACAAGAAGAAGG | 58.232 | 47.619 | 0.00 | 0.00 | 0.00 | 3.46 |
1341 | 2251 | 5.465724 | ACTTAACTAACGCCACAAGAAGAAG | 59.534 | 40.000 | 0.00 | 0.00 | 0.00 | 2.85 |
1344 | 2254 | 4.510340 | ACACTTAACTAACGCCACAAGAAG | 59.490 | 41.667 | 0.00 | 0.00 | 0.00 | 2.85 |
1347 | 2257 | 4.143179 | GCTACACTTAACTAACGCCACAAG | 60.143 | 45.833 | 0.00 | 0.00 | 0.00 | 3.16 |
1348 | 2258 | 3.742369 | GCTACACTTAACTAACGCCACAA | 59.258 | 43.478 | 0.00 | 0.00 | 0.00 | 3.33 |
1350 | 2260 | 3.319755 | TGCTACACTTAACTAACGCCAC | 58.680 | 45.455 | 0.00 | 0.00 | 0.00 | 5.01 |
1351 | 2261 | 3.663995 | TGCTACACTTAACTAACGCCA | 57.336 | 42.857 | 0.00 | 0.00 | 0.00 | 5.69 |
1352 | 2262 | 3.742369 | TGTTGCTACACTTAACTAACGCC | 59.258 | 43.478 | 0.00 | 0.00 | 0.00 | 5.68 |
1353 | 2263 | 4.682860 | TCTGTTGCTACACTTAACTAACGC | 59.317 | 41.667 | 0.00 | 0.00 | 0.00 | 4.84 |
1354 | 2264 | 6.584942 | TCATCTGTTGCTACACTTAACTAACG | 59.415 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
1355 | 2265 | 7.884816 | TCATCTGTTGCTACACTTAACTAAC | 57.115 | 36.000 | 0.00 | 0.00 | 0.00 | 2.34 |
1358 | 2268 | 7.986085 | AATTCATCTGTTGCTACACTTAACT | 57.014 | 32.000 | 0.00 | 0.00 | 0.00 | 2.24 |
1359 | 2269 | 9.922305 | GATAATTCATCTGTTGCTACACTTAAC | 57.078 | 33.333 | 0.00 | 0.00 | 0.00 | 2.01 |
1361 | 2271 | 7.438160 | CGGATAATTCATCTGTTGCTACACTTA | 59.562 | 37.037 | 0.00 | 0.00 | 35.57 | 2.24 |
1362 | 2272 | 6.258727 | CGGATAATTCATCTGTTGCTACACTT | 59.741 | 38.462 | 0.00 | 0.00 | 35.57 | 3.16 |
1374 | 2284 | 3.515562 | AGCCTCCTCGGATAATTCATCT | 58.484 | 45.455 | 0.00 | 0.00 | 33.78 | 2.90 |
1384 | 2294 | 2.607750 | AAGCCAAGCCTCCTCGGA | 60.608 | 61.111 | 0.00 | 0.00 | 33.16 | 4.55 |
1388 | 2298 | 1.068121 | ACTAACAAGCCAAGCCTCCT | 58.932 | 50.000 | 0.00 | 0.00 | 0.00 | 3.69 |
1389 | 2299 | 1.541588 | CAACTAACAAGCCAAGCCTCC | 59.458 | 52.381 | 0.00 | 0.00 | 0.00 | 4.30 |
1430 | 2340 | 7.390823 | TGTAGAACAGGATTTACAGTTATGCA | 58.609 | 34.615 | 0.00 | 0.00 | 0.00 | 3.96 |
1436 | 2346 | 7.624549 | ACATGATGTAGAACAGGATTTACAGT | 58.375 | 34.615 | 0.00 | 0.00 | 30.39 | 3.55 |
1542 | 2452 | 4.329545 | GCCACCAGCTTCCCGTCA | 62.330 | 66.667 | 0.00 | 0.00 | 38.99 | 4.35 |
1578 | 2488 | 1.215647 | GGCGATCTCAACACCGACT | 59.784 | 57.895 | 0.00 | 0.00 | 0.00 | 4.18 |
1584 | 2494 | 1.194218 | TCATCCTGGCGATCTCAACA | 58.806 | 50.000 | 0.00 | 0.00 | 0.00 | 3.33 |
1701 | 2611 | 1.651987 | ATGACTTGATACCAACCGCG | 58.348 | 50.000 | 0.00 | 0.00 | 0.00 | 6.46 |
1707 | 2617 | 6.806668 | TTGACCTCATATGACTTGATACCA | 57.193 | 37.500 | 0.00 | 0.00 | 0.00 | 3.25 |
1719 | 2629 | 3.327172 | CCTCTGGCAGATTGACCTCATAT | 59.673 | 47.826 | 19.11 | 0.00 | 0.00 | 1.78 |
1810 | 2720 | 0.678048 | GGTAAGGGCAGCTGAACCAG | 60.678 | 60.000 | 20.43 | 0.00 | 34.12 | 4.00 |
1832 | 2742 | 2.563179 | ACTAGCCATTGAGAACTCACGT | 59.437 | 45.455 | 3.88 | 0.00 | 39.66 | 4.49 |
1867 | 2791 | 1.003580 | GACAGTCCCTTCAGGCAATGA | 59.996 | 52.381 | 0.00 | 0.00 | 35.62 | 2.57 |
1911 | 2835 | 3.197983 | AGGTCAGTAATCACTAGCCAACC | 59.802 | 47.826 | 0.00 | 0.00 | 32.87 | 3.77 |
1978 | 2975 | 5.163814 | GCCATTATCGATGCCTTAACAGATC | 60.164 | 44.000 | 8.54 | 0.00 | 34.25 | 2.75 |
2012 | 3009 | 3.236047 | GGGAATGTTTGGTGTAGGGTTT | 58.764 | 45.455 | 0.00 | 0.00 | 0.00 | 3.27 |
2141 | 3138 | 2.708325 | ACCAATAGCCAAAAGCCCAAAA | 59.292 | 40.909 | 0.00 | 0.00 | 45.47 | 2.44 |
2142 | 3139 | 2.301583 | GACCAATAGCCAAAAGCCCAAA | 59.698 | 45.455 | 0.00 | 0.00 | 45.47 | 3.28 |
2143 | 3140 | 1.899142 | GACCAATAGCCAAAAGCCCAA | 59.101 | 47.619 | 0.00 | 0.00 | 45.47 | 4.12 |
2144 | 3141 | 1.203112 | TGACCAATAGCCAAAAGCCCA | 60.203 | 47.619 | 0.00 | 0.00 | 45.47 | 5.36 |
2145 | 3142 | 1.555967 | TGACCAATAGCCAAAAGCCC | 58.444 | 50.000 | 0.00 | 0.00 | 45.47 | 5.19 |
2146 | 3143 | 4.797275 | GCATATGACCAATAGCCAAAAGCC | 60.797 | 45.833 | 6.97 | 0.00 | 45.47 | 4.35 |
2147 | 3144 | 4.301628 | GCATATGACCAATAGCCAAAAGC | 58.698 | 43.478 | 6.97 | 0.00 | 44.25 | 3.51 |
2148 | 3145 | 4.341806 | TGGCATATGACCAATAGCCAAAAG | 59.658 | 41.667 | 5.99 | 0.00 | 39.78 | 2.27 |
2187 | 3184 | 8.736751 | TTTTTAACAGAACACTGACAAGAAAC | 57.263 | 30.769 | 0.00 | 0.00 | 35.80 | 2.78 |
2188 | 3185 | 9.352784 | CATTTTTAACAGAACACTGACAAGAAA | 57.647 | 29.630 | 0.00 | 0.00 | 35.80 | 2.52 |
2252 | 3249 | 7.816945 | ATGCTGCAAATTAATTAGAACACAC | 57.183 | 32.000 | 6.36 | 0.00 | 0.00 | 3.82 |
2885 | 3882 | 8.138074 | TGTGCAGCATTATAACTGTTTTAACAA | 58.862 | 29.630 | 0.00 | 0.00 | 38.66 | 2.83 |
3050 | 4049 | 4.221262 | CCATAAATATCTGCCCAATGGTGG | 59.779 | 45.833 | 0.00 | 0.00 | 45.53 | 4.61 |
3051 | 4050 | 5.078949 | TCCATAAATATCTGCCCAATGGTG | 58.921 | 41.667 | 0.00 | 0.00 | 35.12 | 4.17 |
3052 | 4051 | 5.337956 | TCCATAAATATCTGCCCAATGGT | 57.662 | 39.130 | 0.00 | 0.00 | 35.12 | 3.55 |
3053 | 4052 | 5.776716 | ACTTCCATAAATATCTGCCCAATGG | 59.223 | 40.000 | 0.00 | 0.00 | 34.91 | 3.16 |
3054 | 4053 | 6.906157 | ACTTCCATAAATATCTGCCCAATG | 57.094 | 37.500 | 0.00 | 0.00 | 0.00 | 2.82 |
3055 | 4054 | 6.239402 | GCAACTTCCATAAATATCTGCCCAAT | 60.239 | 38.462 | 0.00 | 0.00 | 0.00 | 3.16 |
3056 | 4055 | 5.068987 | GCAACTTCCATAAATATCTGCCCAA | 59.931 | 40.000 | 0.00 | 0.00 | 0.00 | 4.12 |
3057 | 4056 | 4.584325 | GCAACTTCCATAAATATCTGCCCA | 59.416 | 41.667 | 0.00 | 0.00 | 0.00 | 5.36 |
3058 | 4057 | 4.584325 | TGCAACTTCCATAAATATCTGCCC | 59.416 | 41.667 | 0.00 | 0.00 | 0.00 | 5.36 |
3059 | 4058 | 5.772825 | TGCAACTTCCATAAATATCTGCC | 57.227 | 39.130 | 0.00 | 0.00 | 0.00 | 4.85 |
3060 | 4059 | 6.799512 | AGTTGCAACTTCCATAAATATCTGC | 58.200 | 36.000 | 26.36 | 0.00 | 35.21 | 4.26 |
3061 | 4060 | 8.072567 | GCTAGTTGCAACTTCCATAAATATCTG | 58.927 | 37.037 | 35.20 | 6.30 | 40.37 | 2.90 |
3062 | 4061 | 8.159344 | GCTAGTTGCAACTTCCATAAATATCT | 57.841 | 34.615 | 35.20 | 10.19 | 40.37 | 1.98 |
3079 | 4078 | 6.670077 | AACTTAAGAAGCTATGCTAGTTGC | 57.330 | 37.500 | 10.09 | 0.00 | 38.25 | 4.17 |
3086 | 4085 | 9.840427 | TGTTCATAAAAACTTAAGAAGCTATGC | 57.160 | 29.630 | 10.09 | 1.35 | 0.00 | 3.14 |
3089 | 4088 | 9.344772 | TGGTGTTCATAAAAACTTAAGAAGCTA | 57.655 | 29.630 | 10.09 | 0.00 | 0.00 | 3.32 |
3090 | 4089 | 8.135529 | GTGGTGTTCATAAAAACTTAAGAAGCT | 58.864 | 33.333 | 10.09 | 0.00 | 0.00 | 3.74 |
3091 | 4090 | 7.112984 | CGTGGTGTTCATAAAAACTTAAGAAGC | 59.887 | 37.037 | 10.09 | 0.00 | 0.00 | 3.86 |
3092 | 4091 | 8.126700 | ACGTGGTGTTCATAAAAACTTAAGAAG | 58.873 | 33.333 | 10.09 | 0.00 | 0.00 | 2.85 |
3093 | 4092 | 7.987649 | ACGTGGTGTTCATAAAAACTTAAGAA | 58.012 | 30.769 | 10.09 | 0.00 | 0.00 | 2.52 |
3094 | 4093 | 7.556733 | ACGTGGTGTTCATAAAAACTTAAGA | 57.443 | 32.000 | 10.09 | 0.00 | 0.00 | 2.10 |
3095 | 4094 | 8.528295 | CAAACGTGGTGTTCATAAAAACTTAAG | 58.472 | 33.333 | 0.00 | 0.00 | 40.84 | 1.85 |
3096 | 4095 | 7.488471 | CCAAACGTGGTGTTCATAAAAACTTAA | 59.512 | 33.333 | 0.00 | 0.00 | 40.84 | 1.85 |
3097 | 4096 | 6.973474 | CCAAACGTGGTGTTCATAAAAACTTA | 59.027 | 34.615 | 0.00 | 0.00 | 40.84 | 2.24 |
3098 | 4097 | 5.808030 | CCAAACGTGGTGTTCATAAAAACTT | 59.192 | 36.000 | 0.00 | 0.00 | 40.84 | 2.66 |
3099 | 4098 | 5.125739 | TCCAAACGTGGTGTTCATAAAAACT | 59.874 | 36.000 | 0.00 | 0.00 | 46.11 | 2.66 |
3100 | 4099 | 5.341617 | TCCAAACGTGGTGTTCATAAAAAC | 58.658 | 37.500 | 0.00 | 0.00 | 46.11 | 2.43 |
3101 | 4100 | 5.578005 | TCCAAACGTGGTGTTCATAAAAA | 57.422 | 34.783 | 0.00 | 0.00 | 46.11 | 1.94 |
3102 | 4101 | 5.578005 | TTCCAAACGTGGTGTTCATAAAA | 57.422 | 34.783 | 0.00 | 0.00 | 46.11 | 1.52 |
3103 | 4102 | 5.776173 | ATTCCAAACGTGGTGTTCATAAA | 57.224 | 34.783 | 0.00 | 0.00 | 46.11 | 1.40 |
3104 | 4103 | 7.392113 | AGAATATTCCAAACGTGGTGTTCATAA | 59.608 | 33.333 | 11.92 | 0.00 | 46.11 | 1.90 |
3105 | 4104 | 6.882140 | AGAATATTCCAAACGTGGTGTTCATA | 59.118 | 34.615 | 11.92 | 0.00 | 46.11 | 2.15 |
3106 | 4105 | 5.710099 | AGAATATTCCAAACGTGGTGTTCAT | 59.290 | 36.000 | 11.92 | 0.00 | 46.11 | 2.57 |
3107 | 4106 | 5.049060 | CAGAATATTCCAAACGTGGTGTTCA | 60.049 | 40.000 | 11.92 | 0.00 | 46.11 | 3.18 |
3108 | 4107 | 5.390613 | CAGAATATTCCAAACGTGGTGTTC | 58.609 | 41.667 | 11.92 | 0.00 | 46.11 | 3.18 |
3109 | 4108 | 4.217550 | CCAGAATATTCCAAACGTGGTGTT | 59.782 | 41.667 | 11.92 | 0.00 | 46.11 | 3.32 |
3110 | 4109 | 3.756434 | CCAGAATATTCCAAACGTGGTGT | 59.244 | 43.478 | 11.92 | 0.00 | 46.11 | 4.16 |
3111 | 4110 | 3.756434 | ACCAGAATATTCCAAACGTGGTG | 59.244 | 43.478 | 18.87 | 6.37 | 46.11 | 4.17 |
3112 | 4111 | 3.756434 | CACCAGAATATTCCAAACGTGGT | 59.244 | 43.478 | 15.52 | 15.52 | 46.11 | 4.16 |
3113 | 4112 | 5.125417 | ATTCACCAGAATATTCCAAACGTGG | 59.875 | 40.000 | 11.92 | 13.43 | 43.45 | 4.94 |
3114 | 4113 | 5.621197 | TTCACCAGAATATTCCAAACGTG | 57.379 | 39.130 | 11.92 | 10.62 | 0.00 | 4.49 |
3115 | 4114 | 6.834168 | AATTCACCAGAATATTCCAAACGT | 57.166 | 33.333 | 11.92 | 0.00 | 43.52 | 3.99 |
3116 | 4115 | 7.090173 | ACAAATTCACCAGAATATTCCAAACG | 58.910 | 34.615 | 11.92 | 0.00 | 43.52 | 3.60 |
3117 | 4116 | 9.573133 | CTACAAATTCACCAGAATATTCCAAAC | 57.427 | 33.333 | 11.92 | 0.00 | 43.52 | 2.93 |
3118 | 4117 | 9.527157 | TCTACAAATTCACCAGAATATTCCAAA | 57.473 | 29.630 | 11.92 | 0.77 | 43.52 | 3.28 |
3180 | 4305 | 9.309516 | CCGTAGCAAAAGAGAAAATATACACTA | 57.690 | 33.333 | 0.00 | 0.00 | 0.00 | 2.74 |
3234 | 4359 | 3.451178 | AGTGAGTATACCACGCAGGAAAT | 59.549 | 43.478 | 14.77 | 0.00 | 37.65 | 2.17 |
3494 | 4619 | 5.355596 | CAGATCCTTGCCTTGTAGACTAAG | 58.644 | 45.833 | 0.00 | 0.00 | 0.00 | 2.18 |
3513 | 4638 | 2.283298 | CGCATAGAACAGTTGGCAGAT | 58.717 | 47.619 | 0.00 | 0.00 | 0.00 | 2.90 |
3514 | 4639 | 1.725641 | CGCATAGAACAGTTGGCAGA | 58.274 | 50.000 | 0.00 | 0.00 | 0.00 | 4.26 |
3515 | 4640 | 0.097674 | GCGCATAGAACAGTTGGCAG | 59.902 | 55.000 | 0.30 | 0.00 | 0.00 | 4.85 |
3628 | 4754 | 8.548025 | TGAACTGGGATTTCATAGAACATTAGA | 58.452 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
3638 | 4764 | 5.887598 | CCACAGATTGAACTGGGATTTCATA | 59.112 | 40.000 | 0.00 | 0.00 | 43.19 | 2.15 |
3692 | 4818 | 2.906354 | ACATACGGTTCATCCAAGCTC | 58.094 | 47.619 | 0.00 | 0.00 | 35.57 | 4.09 |
3832 | 4958 | 6.856757 | ACAGCTAATAAAATCCAGGATCCAT | 58.143 | 36.000 | 15.82 | 0.00 | 0.00 | 3.41 |
4013 | 5145 | 8.616076 | ACTTAGAAGCAAAGCAATATGATACAC | 58.384 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
4201 | 5340 | 2.435372 | ACCTTTTGCACACCTCTGAA | 57.565 | 45.000 | 0.00 | 0.00 | 0.00 | 3.02 |
4236 | 5375 | 3.835378 | TTCAGTTGTGCATGCATACAG | 57.165 | 42.857 | 25.64 | 20.16 | 0.00 | 2.74 |
4241 | 5380 | 1.689984 | TCCTTTCAGTTGTGCATGCA | 58.310 | 45.000 | 18.46 | 18.46 | 0.00 | 3.96 |
4242 | 5381 | 4.357142 | CATATCCTTTCAGTTGTGCATGC | 58.643 | 43.478 | 11.82 | 11.82 | 0.00 | 4.06 |
4291 | 5515 | 3.569701 | GGCAAGACACCAAGATTCAGAAA | 59.430 | 43.478 | 0.00 | 0.00 | 0.00 | 2.52 |
4400 | 5625 | 1.631388 | CCCACACCACCATACCAACTA | 59.369 | 52.381 | 0.00 | 0.00 | 0.00 | 2.24 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.