Multiple sequence alignment - TraesCS6D01G037500
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 | TraesCS6D01G037500 | chr6D | 100.000 | 3025 | 0 | 0 | 1 | 3025 | 15552657 | 15549633 | 0.000000e+00 | 5587 |
1 | TraesCS6D01G037500 | chr6D | 90.816 | 1557 | 103 | 18 | 1493 | 3024 | 15586383 | 15584842 | 0.000000e+00 | 2047 |
2 | TraesCS6D01G037500 | chr6D | 93.158 | 570 | 36 | 2 | 1490 | 2059 | 15640509 | 15641075 | 0.000000e+00 | 833 |
3 | TraesCS6D01G037500 | chr6D | 89.648 | 483 | 39 | 7 | 1 | 477 | 15600312 | 15599835 | 3.340000e-169 | 604 |
4 | TraesCS6D01G037500 | chr6D | 88.155 | 515 | 36 | 9 | 953 | 1467 | 15639951 | 15640440 | 9.340000e-165 | 590 |
5 | TraesCS6D01G037500 | chr6D | 91.932 | 409 | 16 | 9 | 473 | 876 | 15599929 | 15599533 | 9.470000e-155 | 556 |
6 | TraesCS6D01G037500 | chr6D | 90.000 | 340 | 23 | 5 | 864 | 1195 | 15589836 | 15589500 | 2.150000e-116 | 429 |
7 | TraesCS6D01G037500 | chr6D | 88.095 | 336 | 25 | 3 | 569 | 893 | 15639599 | 15639930 | 4.730000e-103 | 385 |
8 | TraesCS6D01G037500 | chrUn | 89.609 | 1636 | 99 | 36 | 1013 | 2606 | 319198050 | 319196444 | 0.000000e+00 | 2013 |
9 | TraesCS6D01G037500 | chrUn | 91.087 | 1178 | 77 | 11 | 1677 | 2837 | 348953558 | 348954724 | 0.000000e+00 | 1568 |
10 | TraesCS6D01G037500 | chrUn | 91.605 | 941 | 57 | 9 | 1677 | 2606 | 459176789 | 459177718 | 0.000000e+00 | 1280 |
11 | TraesCS6D01G037500 | chrUn | 89.730 | 964 | 64 | 18 | 1161 | 2123 | 76408988 | 76409917 | 0.000000e+00 | 1199 |
12 | TraesCS6D01G037500 | chrUn | 92.893 | 591 | 32 | 5 | 809 | 1396 | 441169748 | 441169165 | 0.000000e+00 | 850 |
13 | TraesCS6D01G037500 | chrUn | 87.840 | 699 | 58 | 12 | 2335 | 3025 | 76413671 | 76414350 | 0.000000e+00 | 795 |
14 | TraesCS6D01G037500 | chrUn | 91.981 | 424 | 24 | 4 | 743 | 1159 | 76417691 | 76417271 | 1.210000e-163 | 586 |
15 | TraesCS6D01G037500 | chrUn | 91.981 | 424 | 24 | 4 | 743 | 1159 | 311042688 | 311042268 | 1.210000e-163 | 586 |
16 | TraesCS6D01G037500 | chrUn | 87.315 | 473 | 34 | 15 | 1013 | 1477 | 347746851 | 347746397 | 4.470000e-143 | 518 |
17 | TraesCS6D01G037500 | chrUn | 91.282 | 195 | 17 | 0 | 2831 | 3025 | 404648240 | 404648434 | 1.790000e-67 | 267 |
18 | TraesCS6D01G037500 | chrUn | 92.568 | 148 | 11 | 0 | 2690 | 2837 | 322192708 | 322192561 | 2.360000e-51 | 213 |
19 | TraesCS6D01G037500 | chrUn | 92.568 | 148 | 11 | 0 | 2690 | 2837 | 425808720 | 425808573 | 2.360000e-51 | 213 |
20 | TraesCS6D01G037500 | chrUn | 93.519 | 108 | 6 | 1 | 2151 | 2257 | 76413454 | 76413561 | 3.120000e-35 | 159 |
21 | TraesCS6D01G037500 | chr6B | 90.058 | 1388 | 98 | 16 | 1394 | 2759 | 27485855 | 27484486 | 0.000000e+00 | 1762 |
22 | TraesCS6D01G037500 | chr6B | 89.409 | 1388 | 108 | 16 | 1394 | 2759 | 27532445 | 27531075 | 0.000000e+00 | 1712 |
23 | TraesCS6D01G037500 | chr6B | 89.345 | 1389 | 108 | 17 | 1394 | 2759 | 27419655 | 27418284 | 0.000000e+00 | 1709 |
24 | TraesCS6D01G037500 | chr6B | 89.170 | 1385 | 110 | 16 | 1397 | 2759 | 27455720 | 27454354 | 0.000000e+00 | 1690 |
25 | TraesCS6D01G037500 | chr6B | 91.604 | 929 | 53 | 13 | 474 | 1396 | 27486814 | 27485905 | 0.000000e+00 | 1260 |
26 | TraesCS6D01G037500 | chr6B | 91.604 | 929 | 53 | 13 | 474 | 1396 | 27533404 | 27532495 | 0.000000e+00 | 1260 |
27 | TraesCS6D01G037500 | chr6B | 91.955 | 895 | 50 | 11 | 505 | 1396 | 27420580 | 27419705 | 0.000000e+00 | 1234 |
28 | TraesCS6D01G037500 | chr6B | 91.844 | 895 | 51 | 11 | 505 | 1396 | 27456648 | 27455773 | 0.000000e+00 | 1229 |
29 | TraesCS6D01G037500 | chr6A | 86.642 | 1078 | 59 | 42 | 470 | 1480 | 16337043 | 16338102 | 0.000000e+00 | 1114 |
30 | TraesCS6D01G037500 | chr6A | 91.238 | 719 | 42 | 10 | 1490 | 2204 | 16338168 | 16338869 | 0.000000e+00 | 959 |
31 | TraesCS6D01G037500 | chr6A | 89.648 | 483 | 37 | 9 | 1 | 477 | 16336665 | 16337140 | 1.200000e-168 | 603 |
32 | TraesCS6D01G037500 | chr6A | 89.664 | 387 | 28 | 4 | 2461 | 2837 | 16287984 | 16287600 | 1.630000e-132 | 483 |
33 | TraesCS6D01G037500 | chr6A | 91.282 | 195 | 17 | 0 | 2831 | 3025 | 16286333 | 16286139 | 1.790000e-67 | 267 |
34 | TraesCS6D01G037500 | chr1B | 80.903 | 864 | 87 | 39 | 592 | 1417 | 405674160 | 405673337 | 7.170000e-171 | 610 |
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 | TraesCS6D01G037500 | chr6D | 15549633 | 15552657 | 3024 | True | 5587.000000 | 5587 | 100.000000 | 1 | 3025 | 1 | chr6D.!!$R1 | 3024 |
1 | TraesCS6D01G037500 | chr6D | 15584842 | 15589836 | 4994 | True | 1238.000000 | 2047 | 90.408000 | 864 | 3024 | 2 | chr6D.!!$R2 | 2160 |
2 | TraesCS6D01G037500 | chr6D | 15639599 | 15641075 | 1476 | False | 602.666667 | 833 | 89.802667 | 569 | 2059 | 3 | chr6D.!!$F1 | 1490 |
3 | TraesCS6D01G037500 | chr6D | 15599533 | 15600312 | 779 | True | 580.000000 | 604 | 90.790000 | 1 | 876 | 2 | chr6D.!!$R3 | 875 |
4 | TraesCS6D01G037500 | chrUn | 319196444 | 319198050 | 1606 | True | 2013.000000 | 2013 | 89.609000 | 1013 | 2606 | 1 | chrUn.!!$R3 | 1593 |
5 | TraesCS6D01G037500 | chrUn | 348953558 | 348954724 | 1166 | False | 1568.000000 | 1568 | 91.087000 | 1677 | 2837 | 1 | chrUn.!!$F1 | 1160 |
6 | TraesCS6D01G037500 | chrUn | 459176789 | 459177718 | 929 | False | 1280.000000 | 1280 | 91.605000 | 1677 | 2606 | 1 | chrUn.!!$F3 | 929 |
7 | TraesCS6D01G037500 | chrUn | 441169165 | 441169748 | 583 | True | 850.000000 | 850 | 92.893000 | 809 | 1396 | 1 | chrUn.!!$R7 | 587 |
8 | TraesCS6D01G037500 | chrUn | 76408988 | 76414350 | 5362 | False | 717.666667 | 1199 | 90.363000 | 1161 | 3025 | 3 | chrUn.!!$F4 | 1864 |
9 | TraesCS6D01G037500 | chr6B | 27484486 | 27486814 | 2328 | True | 1511.000000 | 1762 | 90.831000 | 474 | 2759 | 2 | chr6B.!!$R3 | 2285 |
10 | TraesCS6D01G037500 | chr6B | 27531075 | 27533404 | 2329 | True | 1486.000000 | 1712 | 90.506500 | 474 | 2759 | 2 | chr6B.!!$R4 | 2285 |
11 | TraesCS6D01G037500 | chr6B | 27418284 | 27420580 | 2296 | True | 1471.500000 | 1709 | 90.650000 | 505 | 2759 | 2 | chr6B.!!$R1 | 2254 |
12 | TraesCS6D01G037500 | chr6B | 27454354 | 27456648 | 2294 | True | 1459.500000 | 1690 | 90.507000 | 505 | 2759 | 2 | chr6B.!!$R2 | 2254 |
13 | TraesCS6D01G037500 | chr6A | 16336665 | 16338869 | 2204 | False | 892.000000 | 1114 | 89.176000 | 1 | 2204 | 3 | chr6A.!!$F1 | 2203 |
14 | TraesCS6D01G037500 | chr6A | 16286139 | 16287984 | 1845 | True | 375.000000 | 483 | 90.473000 | 2461 | 3025 | 2 | chr6A.!!$R1 | 564 |
15 | TraesCS6D01G037500 | chr1B | 405673337 | 405674160 | 823 | True | 610.000000 | 610 | 80.903000 | 592 | 1417 | 1 | chr1B.!!$R1 | 825 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
897 | 923 | 0.178964 | GGCCTGCCTATAAATGCCCA | 60.179 | 55.0 | 0.0 | 0.0 | 32.74 | 5.36 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2389 | 8981 | 0.033642 | GCTCTAATCCACGGGGTAGC | 59.966 | 60.0 | 2.12 | 2.65 | 34.93 | 3.58 | 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 |
---|---|---|---|---|---|---|---|---|---|
66 | 67 | 3.661936 | GCGTCTTTTCATCGAACTGTGTC | 60.662 | 47.826 | 0.00 | 0.00 | 0.00 | 3.67 |
69 | 70 | 3.981416 | TCTTTTCATCGAACTGTGTCTCG | 59.019 | 43.478 | 0.00 | 0.00 | 36.39 | 4.04 |
70 | 71 | 3.364889 | TTTCATCGAACTGTGTCTCGT | 57.635 | 42.857 | 0.00 | 0.00 | 36.46 | 4.18 |
172 | 179 | 4.495911 | TTTGTCTAATGTTTGCGATGCA | 57.504 | 36.364 | 0.00 | 0.00 | 36.47 | 3.96 |
176 | 183 | 2.422832 | TCTAATGTTTGCGATGCATGCA | 59.577 | 40.909 | 25.04 | 25.04 | 38.76 | 3.96 |
186 | 193 | 0.939419 | GATGCATGCATCGCACACTA | 59.061 | 50.000 | 37.33 | 7.21 | 43.04 | 2.74 |
212 | 219 | 3.502920 | CTCCAAGAGTGTGTGATACGTC | 58.497 | 50.000 | 0.00 | 0.00 | 0.00 | 4.34 |
220 | 227 | 4.801891 | AGTGTGTGATACGTCGTTTGTAT | 58.198 | 39.130 | 1.78 | 0.00 | 35.30 | 2.29 |
227 | 234 | 4.386350 | TGATACGTCGTTTGTATGTTGGTG | 59.614 | 41.667 | 1.78 | 0.00 | 32.84 | 4.17 |
253 | 260 | 2.096762 | CGATGGTGCTTACATGCATACG | 60.097 | 50.000 | 0.00 | 0.00 | 45.23 | 3.06 |
260 | 267 | 1.930503 | CTTACATGCATACGCGTTGGA | 59.069 | 47.619 | 20.78 | 17.21 | 42.97 | 3.53 |
261 | 268 | 2.232756 | TACATGCATACGCGTTGGAT | 57.767 | 45.000 | 20.78 | 18.73 | 42.97 | 3.41 |
289 | 297 | 3.748048 | GCACATTCTGCAGTAGTGAGAAA | 59.252 | 43.478 | 27.51 | 10.41 | 46.29 | 2.52 |
326 | 334 | 3.911868 | ACATGCATGCACGTACAAAATT | 58.088 | 36.364 | 25.37 | 0.00 | 0.00 | 1.82 |
393 | 401 | 9.871238 | AAGGACTATAATTGGTTATACATAGCG | 57.129 | 33.333 | 0.00 | 0.00 | 32.84 | 4.26 |
394 | 402 | 8.475639 | AGGACTATAATTGGTTATACATAGCGG | 58.524 | 37.037 | 0.00 | 0.00 | 32.84 | 5.52 |
395 | 403 | 8.472413 | GGACTATAATTGGTTATACATAGCGGA | 58.528 | 37.037 | 0.00 | 0.00 | 32.84 | 5.54 |
398 | 406 | 9.477484 | CTATAATTGGTTATACATAGCGGATCC | 57.523 | 37.037 | 0.00 | 0.00 | 32.84 | 3.36 |
399 | 407 | 5.755409 | ATTGGTTATACATAGCGGATCCA | 57.245 | 39.130 | 13.41 | 0.00 | 0.00 | 3.41 |
400 | 408 | 5.755409 | TTGGTTATACATAGCGGATCCAT | 57.245 | 39.130 | 13.41 | 1.69 | 0.00 | 3.41 |
401 | 409 | 6.860790 | TTGGTTATACATAGCGGATCCATA | 57.139 | 37.500 | 13.41 | 4.23 | 0.00 | 2.74 |
402 | 410 | 7.432148 | TTGGTTATACATAGCGGATCCATAT | 57.568 | 36.000 | 13.41 | 6.61 | 0.00 | 1.78 |
403 | 411 | 7.432148 | TGGTTATACATAGCGGATCCATATT | 57.568 | 36.000 | 13.41 | 3.89 | 0.00 | 1.28 |
404 | 412 | 7.857456 | TGGTTATACATAGCGGATCCATATTT | 58.143 | 34.615 | 13.41 | 5.33 | 0.00 | 1.40 |
405 | 413 | 7.985184 | TGGTTATACATAGCGGATCCATATTTC | 59.015 | 37.037 | 13.41 | 0.00 | 0.00 | 2.17 |
406 | 414 | 7.985184 | GGTTATACATAGCGGATCCATATTTCA | 59.015 | 37.037 | 13.41 | 0.00 | 0.00 | 2.69 |
407 | 415 | 9.547753 | GTTATACATAGCGGATCCATATTTCAT | 57.452 | 33.333 | 13.41 | 5.15 | 0.00 | 2.57 |
408 | 416 | 9.764363 | TTATACATAGCGGATCCATATTTCATC | 57.236 | 33.333 | 13.41 | 0.00 | 0.00 | 2.92 |
409 | 417 | 6.053632 | ACATAGCGGATCCATATTTCATCA | 57.946 | 37.500 | 13.41 | 0.00 | 0.00 | 3.07 |
410 | 418 | 6.656902 | ACATAGCGGATCCATATTTCATCAT | 58.343 | 36.000 | 13.41 | 0.00 | 0.00 | 2.45 |
411 | 419 | 7.795047 | ACATAGCGGATCCATATTTCATCATA | 58.205 | 34.615 | 13.41 | 0.00 | 0.00 | 2.15 |
412 | 420 | 7.712639 | ACATAGCGGATCCATATTTCATCATAC | 59.287 | 37.037 | 13.41 | 0.00 | 0.00 | 2.39 |
413 | 421 | 6.305272 | AGCGGATCCATATTTCATCATACT | 57.695 | 37.500 | 13.41 | 0.00 | 0.00 | 2.12 |
414 | 422 | 6.344500 | AGCGGATCCATATTTCATCATACTC | 58.656 | 40.000 | 13.41 | 0.00 | 0.00 | 2.59 |
415 | 423 | 6.070596 | AGCGGATCCATATTTCATCATACTCA | 60.071 | 38.462 | 13.41 | 0.00 | 0.00 | 3.41 |
416 | 424 | 6.595326 | GCGGATCCATATTTCATCATACTCAA | 59.405 | 38.462 | 13.41 | 0.00 | 0.00 | 3.02 |
417 | 425 | 7.119699 | GCGGATCCATATTTCATCATACTCAAA | 59.880 | 37.037 | 13.41 | 0.00 | 0.00 | 2.69 |
418 | 426 | 9.002600 | CGGATCCATATTTCATCATACTCAAAA | 57.997 | 33.333 | 13.41 | 0.00 | 0.00 | 2.44 |
427 | 435 | 6.748333 | TCATCATACTCAAAAGAAAGCTGG | 57.252 | 37.500 | 0.00 | 0.00 | 0.00 | 4.85 |
428 | 436 | 6.475504 | TCATCATACTCAAAAGAAAGCTGGA | 58.524 | 36.000 | 0.00 | 0.00 | 0.00 | 3.86 |
429 | 437 | 6.372659 | TCATCATACTCAAAAGAAAGCTGGAC | 59.627 | 38.462 | 0.00 | 0.00 | 0.00 | 4.02 |
430 | 438 | 5.620206 | TCATACTCAAAAGAAAGCTGGACA | 58.380 | 37.500 | 0.00 | 0.00 | 0.00 | 4.02 |
431 | 439 | 6.240894 | TCATACTCAAAAGAAAGCTGGACAT | 58.759 | 36.000 | 0.00 | 0.00 | 0.00 | 3.06 |
432 | 440 | 4.843220 | ACTCAAAAGAAAGCTGGACATG | 57.157 | 40.909 | 0.00 | 0.00 | 0.00 | 3.21 |
433 | 441 | 4.464008 | ACTCAAAAGAAAGCTGGACATGA | 58.536 | 39.130 | 0.00 | 0.00 | 0.00 | 3.07 |
434 | 442 | 5.075493 | ACTCAAAAGAAAGCTGGACATGAT | 58.925 | 37.500 | 0.00 | 0.00 | 0.00 | 2.45 |
435 | 443 | 5.537674 | ACTCAAAAGAAAGCTGGACATGATT | 59.462 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
436 | 444 | 6.716628 | ACTCAAAAGAAAGCTGGACATGATTA | 59.283 | 34.615 | 0.00 | 0.00 | 0.00 | 1.75 |
437 | 445 | 7.094463 | ACTCAAAAGAAAGCTGGACATGATTAG | 60.094 | 37.037 | 0.00 | 0.00 | 0.00 | 1.73 |
438 | 446 | 5.573337 | AAAGAAAGCTGGACATGATTAGC | 57.427 | 39.130 | 0.00 | 5.72 | 36.45 | 3.09 |
439 | 447 | 4.226427 | AGAAAGCTGGACATGATTAGCA | 57.774 | 40.909 | 17.35 | 0.00 | 38.59 | 3.49 |
440 | 448 | 4.197750 | AGAAAGCTGGACATGATTAGCAG | 58.802 | 43.478 | 17.35 | 0.00 | 38.59 | 4.24 |
441 | 449 | 3.920231 | AAGCTGGACATGATTAGCAGA | 57.080 | 42.857 | 17.35 | 0.00 | 38.59 | 4.26 |
442 | 450 | 3.920231 | AGCTGGACATGATTAGCAGAA | 57.080 | 42.857 | 17.35 | 0.00 | 38.59 | 3.02 |
443 | 451 | 3.539604 | AGCTGGACATGATTAGCAGAAC | 58.460 | 45.455 | 17.35 | 0.00 | 38.59 | 3.01 |
444 | 452 | 3.199508 | AGCTGGACATGATTAGCAGAACT | 59.800 | 43.478 | 17.35 | 0.07 | 38.59 | 3.01 |
445 | 453 | 4.406972 | AGCTGGACATGATTAGCAGAACTA | 59.593 | 41.667 | 17.35 | 0.00 | 38.59 | 2.24 |
446 | 454 | 5.071519 | AGCTGGACATGATTAGCAGAACTAT | 59.928 | 40.000 | 17.35 | 0.00 | 38.59 | 2.12 |
447 | 455 | 6.268617 | AGCTGGACATGATTAGCAGAACTATA | 59.731 | 38.462 | 17.35 | 0.00 | 38.59 | 1.31 |
448 | 456 | 6.589523 | GCTGGACATGATTAGCAGAACTATAG | 59.410 | 42.308 | 0.00 | 0.00 | 36.24 | 1.31 |
449 | 457 | 6.459066 | TGGACATGATTAGCAGAACTATAGC | 58.541 | 40.000 | 0.00 | 0.00 | 0.00 | 2.97 |
450 | 458 | 6.041979 | TGGACATGATTAGCAGAACTATAGCA | 59.958 | 38.462 | 0.00 | 0.00 | 0.00 | 3.49 |
451 | 459 | 6.367422 | GGACATGATTAGCAGAACTATAGCAC | 59.633 | 42.308 | 0.00 | 0.00 | 0.00 | 4.40 |
452 | 460 | 6.820335 | ACATGATTAGCAGAACTATAGCACA | 58.180 | 36.000 | 0.00 | 0.00 | 0.00 | 4.57 |
453 | 461 | 6.927936 | ACATGATTAGCAGAACTATAGCACAG | 59.072 | 38.462 | 0.00 | 0.00 | 0.00 | 3.66 |
454 | 462 | 6.715347 | TGATTAGCAGAACTATAGCACAGA | 57.285 | 37.500 | 0.00 | 0.00 | 0.00 | 3.41 |
455 | 463 | 6.507900 | TGATTAGCAGAACTATAGCACAGAC | 58.492 | 40.000 | 0.00 | 0.00 | 0.00 | 3.51 |
456 | 464 | 6.322456 | TGATTAGCAGAACTATAGCACAGACT | 59.678 | 38.462 | 0.00 | 0.00 | 0.00 | 3.24 |
457 | 465 | 6.531503 | TTAGCAGAACTATAGCACAGACTT | 57.468 | 37.500 | 0.00 | 0.00 | 0.00 | 3.01 |
458 | 466 | 5.413309 | AGCAGAACTATAGCACAGACTTT | 57.587 | 39.130 | 0.00 | 0.00 | 0.00 | 2.66 |
459 | 467 | 5.799213 | AGCAGAACTATAGCACAGACTTTT | 58.201 | 37.500 | 0.00 | 0.00 | 0.00 | 2.27 |
460 | 468 | 6.234177 | AGCAGAACTATAGCACAGACTTTTT | 58.766 | 36.000 | 0.00 | 0.00 | 0.00 | 1.94 |
461 | 469 | 6.148480 | AGCAGAACTATAGCACAGACTTTTTG | 59.852 | 38.462 | 0.00 | 0.00 | 0.00 | 2.44 |
462 | 470 | 6.310197 | CAGAACTATAGCACAGACTTTTTGC | 58.690 | 40.000 | 0.00 | 0.00 | 36.45 | 3.68 |
463 | 471 | 5.997746 | AGAACTATAGCACAGACTTTTTGCA | 59.002 | 36.000 | 0.00 | 0.00 | 38.81 | 4.08 |
464 | 472 | 6.486657 | AGAACTATAGCACAGACTTTTTGCAA | 59.513 | 34.615 | 0.00 | 0.00 | 38.81 | 4.08 |
465 | 473 | 6.633500 | ACTATAGCACAGACTTTTTGCAAA | 57.367 | 33.333 | 8.05 | 8.05 | 38.81 | 3.68 |
466 | 474 | 6.438763 | ACTATAGCACAGACTTTTTGCAAAC | 58.561 | 36.000 | 12.39 | 0.00 | 38.81 | 2.93 |
467 | 475 | 3.591196 | AGCACAGACTTTTTGCAAACA | 57.409 | 38.095 | 12.39 | 4.32 | 38.81 | 2.83 |
468 | 476 | 4.127566 | AGCACAGACTTTTTGCAAACAT | 57.872 | 36.364 | 12.39 | 0.00 | 38.81 | 2.71 |
469 | 477 | 4.506758 | AGCACAGACTTTTTGCAAACATT | 58.493 | 34.783 | 12.39 | 0.00 | 38.81 | 2.71 |
470 | 478 | 4.937015 | AGCACAGACTTTTTGCAAACATTT | 59.063 | 33.333 | 12.39 | 0.00 | 38.81 | 2.32 |
471 | 479 | 5.412286 | AGCACAGACTTTTTGCAAACATTTT | 59.588 | 32.000 | 12.39 | 0.00 | 38.81 | 1.82 |
484 | 492 | 8.430801 | TTGCAAACATTTTAATATACATGGCC | 57.569 | 30.769 | 0.00 | 0.00 | 0.00 | 5.36 |
511 | 522 | 7.048629 | TCCACATTTCATACAAAAGAAAGCA | 57.951 | 32.000 | 0.00 | 0.00 | 37.19 | 3.91 |
528 | 539 | 5.996513 | AGAAAGCAGGACATGATTAGCATAG | 59.003 | 40.000 | 0.00 | 0.00 | 36.22 | 2.23 |
584 | 595 | 8.618702 | AATATCTGAAATGGCTAGAATCAGTG | 57.381 | 34.615 | 0.00 | 0.00 | 38.83 | 3.66 |
739 | 765 | 1.653114 | GTATTGTACGCGCGTAAACCA | 59.347 | 47.619 | 40.68 | 31.04 | 31.86 | 3.67 |
759 | 785 | 1.972660 | GCCGGTGCCTGTATTCCTCT | 61.973 | 60.000 | 1.90 | 0.00 | 0.00 | 3.69 |
897 | 923 | 0.178964 | GGCCTGCCTATAAATGCCCA | 60.179 | 55.000 | 0.00 | 0.00 | 32.74 | 5.36 |
958 | 985 | 7.817418 | ACACAAACAAACAGGAATAGTACAT | 57.183 | 32.000 | 0.00 | 0.00 | 0.00 | 2.29 |
1028 | 1097 | 2.104967 | CATCTCCACCAATGCCATTGT | 58.895 | 47.619 | 15.83 | 2.15 | 38.59 | 2.71 |
1076 | 1151 | 3.095278 | CGTCACGTCCGTCCGTTG | 61.095 | 66.667 | 0.00 | 0.00 | 39.45 | 4.10 |
1155 | 1230 | 3.702048 | GCCACCTGGTACGGAGCA | 61.702 | 66.667 | 7.36 | 0.00 | 36.31 | 4.26 |
1236 | 1324 | 5.038683 | CGCACATTTTCATGCATCAACTAT | 58.961 | 37.500 | 0.00 | 0.00 | 42.17 | 2.12 |
1473 | 4428 | 2.029918 | GTCAAACTCAAACCTCCCATGC | 60.030 | 50.000 | 0.00 | 0.00 | 0.00 | 4.06 |
1474 | 4429 | 1.962807 | CAAACTCAAACCTCCCATGCA | 59.037 | 47.619 | 0.00 | 0.00 | 0.00 | 3.96 |
1475 | 4430 | 2.564062 | CAAACTCAAACCTCCCATGCAT | 59.436 | 45.455 | 0.00 | 0.00 | 0.00 | 3.96 |
1476 | 4431 | 1.843368 | ACTCAAACCTCCCATGCATG | 58.157 | 50.000 | 20.19 | 20.19 | 0.00 | 4.06 |
1508 | 4519 | 2.271800 | GTCCTTCAGATTCGATGCGTT | 58.728 | 47.619 | 0.00 | 0.00 | 0.00 | 4.84 |
1697 | 4713 | 3.241530 | TTCAGGAGGGTGCGCTGT | 61.242 | 61.111 | 9.73 | 0.00 | 0.00 | 4.40 |
2040 | 5056 | 8.989131 | AGTTCTACTGATTTTGGCTTACCTATA | 58.011 | 33.333 | 0.00 | 0.00 | 36.63 | 1.31 |
2044 | 5060 | 9.654663 | CTACTGATTTTGGCTTACCTATATACC | 57.345 | 37.037 | 0.00 | 0.00 | 36.63 | 2.73 |
2054 | 5073 | 5.393243 | GCTTACCTATATACCTGCTTCTCCG | 60.393 | 48.000 | 0.00 | 0.00 | 0.00 | 4.63 |
2101 | 5120 | 3.779183 | TGCTCCTGGATTTCTCTTCTCAT | 59.221 | 43.478 | 0.00 | 0.00 | 0.00 | 2.90 |
2147 | 8688 | 5.935789 | TGTAAGTGATAAGGCCTTGTACAAC | 59.064 | 40.000 | 28.77 | 21.33 | 0.00 | 3.32 |
2166 | 8707 | 2.504367 | ACGCAATGCAAGGTCTTTAGT | 58.496 | 42.857 | 5.91 | 0.00 | 0.00 | 2.24 |
2267 | 8816 | 4.827284 | AGACACCACTGTTATCCAAAAAGG | 59.173 | 41.667 | 0.00 | 0.00 | 39.47 | 3.11 |
2382 | 8973 | 1.312371 | GCATGTTGCCGGGCTCTTTA | 61.312 | 55.000 | 21.46 | 2.58 | 37.42 | 1.85 |
2383 | 8974 | 1.173043 | CATGTTGCCGGGCTCTTTAA | 58.827 | 50.000 | 21.46 | 2.18 | 0.00 | 1.52 |
2385 | 8976 | 1.917872 | TGTTGCCGGGCTCTTTAATT | 58.082 | 45.000 | 21.46 | 0.00 | 0.00 | 1.40 |
2389 | 8981 | 0.938008 | GCCGGGCTCTTTAATTCTCG | 59.062 | 55.000 | 12.87 | 0.00 | 0.00 | 4.04 |
2413 | 9005 | 1.141881 | CCGTGGATTAGAGCTGCGT | 59.858 | 57.895 | 0.00 | 0.00 | 0.00 | 5.24 |
2444 | 9036 | 6.636044 | CGAGTAATATGTCGGTTTTCTACCTC | 59.364 | 42.308 | 0.00 | 0.00 | 45.40 | 3.85 |
2446 | 9038 | 8.757982 | AGTAATATGTCGGTTTTCTACCTCTA | 57.242 | 34.615 | 0.00 | 0.00 | 45.40 | 2.43 |
2452 | 9044 | 7.001099 | TGTCGGTTTTCTACCTCTATTTCTT | 57.999 | 36.000 | 0.00 | 0.00 | 45.40 | 2.52 |
2621 | 9240 | 4.222124 | ACACCAGGATATCACCAAACTC | 57.778 | 45.455 | 4.83 | 0.00 | 0.00 | 3.01 |
2866 | 10768 | 3.840831 | GCAGGACACATGCTACTCA | 57.159 | 52.632 | 0.00 | 0.00 | 40.59 | 3.41 |
2871 | 10773 | 3.102972 | AGGACACATGCTACTCAGACAT | 58.897 | 45.455 | 0.00 | 0.00 | 0.00 | 3.06 |
2872 | 10774 | 3.118847 | AGGACACATGCTACTCAGACATG | 60.119 | 47.826 | 0.00 | 0.00 | 45.28 | 3.21 |
2878 | 10780 | 7.278135 | ACACATGCTACTCAGACATGAATTAT | 58.722 | 34.615 | 0.00 | 0.00 | 43.04 | 1.28 |
2887 | 10789 | 7.089538 | ACTCAGACATGAATTATATCAGAGCG | 58.910 | 38.462 | 0.00 | 0.00 | 34.23 | 5.03 |
2899 | 10801 | 0.241213 | TCAGAGCGACAAAGACCGAG | 59.759 | 55.000 | 0.00 | 0.00 | 0.00 | 4.63 |
2948 | 10850 | 0.811281 | GGCGCAAAAGCTATGTCCTT | 59.189 | 50.000 | 10.83 | 0.00 | 37.29 | 3.36 |
2957 | 10859 | 2.307768 | AGCTATGTCCTTAGCAGCGTA | 58.692 | 47.619 | 12.88 | 0.00 | 45.72 | 4.42 |
2980 | 10882 | 1.271840 | TTCTATGAGGGCACGGGCTT | 61.272 | 55.000 | 10.74 | 0.00 | 40.87 | 4.35 |
3007 | 10909 | 2.281761 | CCACCCACACACCTCTGC | 60.282 | 66.667 | 0.00 | 0.00 | 0.00 | 4.26 |
3019 | 10921 | 0.549469 | ACCTCTGCCATCATGCATGA | 59.451 | 50.000 | 30.47 | 30.47 | 41.16 | 3.07 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
12 | 13 | 3.650409 | GCGATCCTCGACAAGATGT | 57.350 | 52.632 | 0.00 | 0.00 | 43.74 | 3.06 |
69 | 70 | 0.522495 | GTGCAAACCGTGTGTGTCAC | 60.522 | 55.000 | 0.00 | 0.00 | 43.03 | 3.67 |
70 | 71 | 1.649390 | GGTGCAAACCGTGTGTGTCA | 61.649 | 55.000 | 0.00 | 0.00 | 0.00 | 3.58 |
154 | 160 | 2.785477 | GCATGCATCGCAAACATTAGAC | 59.215 | 45.455 | 14.21 | 0.00 | 43.62 | 2.59 |
172 | 179 | 0.583438 | GCGAATAGTGTGCGATGCAT | 59.417 | 50.000 | 0.00 | 0.00 | 41.91 | 3.96 |
176 | 183 | 0.459899 | TGGAGCGAATAGTGTGCGAT | 59.540 | 50.000 | 0.00 | 0.00 | 0.00 | 4.58 |
186 | 193 | 1.344438 | TCACACACTCTTGGAGCGAAT | 59.656 | 47.619 | 0.00 | 0.00 | 32.04 | 3.34 |
212 | 219 | 2.349060 | CGTCACCACCAACATACAAACG | 60.349 | 50.000 | 0.00 | 0.00 | 0.00 | 3.60 |
220 | 227 | 0.533978 | CACCATCGTCACCACCAACA | 60.534 | 55.000 | 0.00 | 0.00 | 0.00 | 3.33 |
227 | 234 | 1.665679 | CATGTAAGCACCATCGTCACC | 59.334 | 52.381 | 0.00 | 0.00 | 0.00 | 4.02 |
253 | 260 | 1.597742 | ATGTGCTATGGATCCAACGC | 58.402 | 50.000 | 20.67 | 22.91 | 0.00 | 4.84 |
280 | 288 | 6.244552 | AGCTCCATCATTGATTTCTCACTA | 57.755 | 37.500 | 0.00 | 0.00 | 0.00 | 2.74 |
286 | 294 | 5.919141 | GCATGTAAGCTCCATCATTGATTTC | 59.081 | 40.000 | 0.00 | 0.00 | 0.00 | 2.17 |
289 | 297 | 4.466827 | TGCATGTAAGCTCCATCATTGAT | 58.533 | 39.130 | 0.00 | 0.00 | 34.99 | 2.57 |
326 | 334 | 5.404466 | AAATTTTGATTCTTGATCGGCCA | 57.596 | 34.783 | 2.24 | 0.00 | 37.60 | 5.36 |
367 | 375 | 9.871238 | CGCTATGTATAACCAATTATAGTCCTT | 57.129 | 33.333 | 0.00 | 0.00 | 34.57 | 3.36 |
381 | 389 | 8.942338 | TGAAATATGGATCCGCTATGTATAAC | 57.058 | 34.615 | 7.39 | 0.00 | 0.00 | 1.89 |
382 | 390 | 9.764363 | GATGAAATATGGATCCGCTATGTATAA | 57.236 | 33.333 | 7.39 | 0.00 | 0.00 | 0.98 |
383 | 391 | 8.923270 | TGATGAAATATGGATCCGCTATGTATA | 58.077 | 33.333 | 7.39 | 0.00 | 0.00 | 1.47 |
384 | 392 | 7.795047 | TGATGAAATATGGATCCGCTATGTAT | 58.205 | 34.615 | 7.39 | 0.00 | 0.00 | 2.29 |
385 | 393 | 7.181569 | TGATGAAATATGGATCCGCTATGTA | 57.818 | 36.000 | 7.39 | 0.00 | 0.00 | 2.29 |
386 | 394 | 6.053632 | TGATGAAATATGGATCCGCTATGT | 57.946 | 37.500 | 7.39 | 1.87 | 0.00 | 2.29 |
387 | 395 | 7.930325 | AGTATGATGAAATATGGATCCGCTATG | 59.070 | 37.037 | 7.39 | 0.00 | 0.00 | 2.23 |
388 | 396 | 8.027524 | AGTATGATGAAATATGGATCCGCTAT | 57.972 | 34.615 | 7.39 | 4.06 | 0.00 | 2.97 |
389 | 397 | 7.124147 | TGAGTATGATGAAATATGGATCCGCTA | 59.876 | 37.037 | 7.39 | 1.53 | 0.00 | 4.26 |
390 | 398 | 6.070596 | TGAGTATGATGAAATATGGATCCGCT | 60.071 | 38.462 | 7.39 | 0.00 | 0.00 | 5.52 |
391 | 399 | 6.108687 | TGAGTATGATGAAATATGGATCCGC | 58.891 | 40.000 | 7.39 | 0.00 | 0.00 | 5.54 |
392 | 400 | 8.552083 | TTTGAGTATGATGAAATATGGATCCG | 57.448 | 34.615 | 7.39 | 0.00 | 0.00 | 4.18 |
401 | 409 | 8.248945 | CCAGCTTTCTTTTGAGTATGATGAAAT | 58.751 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
402 | 410 | 7.448161 | TCCAGCTTTCTTTTGAGTATGATGAAA | 59.552 | 33.333 | 0.00 | 0.00 | 0.00 | 2.69 |
403 | 411 | 6.942005 | TCCAGCTTTCTTTTGAGTATGATGAA | 59.058 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
404 | 412 | 6.372659 | GTCCAGCTTTCTTTTGAGTATGATGA | 59.627 | 38.462 | 0.00 | 0.00 | 0.00 | 2.92 |
405 | 413 | 6.149973 | TGTCCAGCTTTCTTTTGAGTATGATG | 59.850 | 38.462 | 0.00 | 0.00 | 0.00 | 3.07 |
406 | 414 | 6.240894 | TGTCCAGCTTTCTTTTGAGTATGAT | 58.759 | 36.000 | 0.00 | 0.00 | 0.00 | 2.45 |
407 | 415 | 5.620206 | TGTCCAGCTTTCTTTTGAGTATGA | 58.380 | 37.500 | 0.00 | 0.00 | 0.00 | 2.15 |
408 | 416 | 5.947228 | TGTCCAGCTTTCTTTTGAGTATG | 57.053 | 39.130 | 0.00 | 0.00 | 0.00 | 2.39 |
409 | 417 | 6.240894 | TCATGTCCAGCTTTCTTTTGAGTAT | 58.759 | 36.000 | 0.00 | 0.00 | 0.00 | 2.12 |
410 | 418 | 5.620206 | TCATGTCCAGCTTTCTTTTGAGTA | 58.380 | 37.500 | 0.00 | 0.00 | 0.00 | 2.59 |
411 | 419 | 4.464008 | TCATGTCCAGCTTTCTTTTGAGT | 58.536 | 39.130 | 0.00 | 0.00 | 0.00 | 3.41 |
412 | 420 | 5.640189 | ATCATGTCCAGCTTTCTTTTGAG | 57.360 | 39.130 | 0.00 | 0.00 | 0.00 | 3.02 |
413 | 421 | 6.349611 | GCTAATCATGTCCAGCTTTCTTTTGA | 60.350 | 38.462 | 7.60 | 0.00 | 0.00 | 2.69 |
414 | 422 | 5.803967 | GCTAATCATGTCCAGCTTTCTTTTG | 59.196 | 40.000 | 7.60 | 0.00 | 0.00 | 2.44 |
415 | 423 | 5.477984 | TGCTAATCATGTCCAGCTTTCTTTT | 59.522 | 36.000 | 13.55 | 0.00 | 35.05 | 2.27 |
416 | 424 | 5.012239 | TGCTAATCATGTCCAGCTTTCTTT | 58.988 | 37.500 | 13.55 | 0.00 | 35.05 | 2.52 |
417 | 425 | 4.592942 | TGCTAATCATGTCCAGCTTTCTT | 58.407 | 39.130 | 13.55 | 0.00 | 35.05 | 2.52 |
418 | 426 | 4.080695 | TCTGCTAATCATGTCCAGCTTTCT | 60.081 | 41.667 | 13.55 | 0.00 | 35.05 | 2.52 |
419 | 427 | 4.194640 | TCTGCTAATCATGTCCAGCTTTC | 58.805 | 43.478 | 13.55 | 0.00 | 35.05 | 2.62 |
420 | 428 | 4.226427 | TCTGCTAATCATGTCCAGCTTT | 57.774 | 40.909 | 13.55 | 0.00 | 35.05 | 3.51 |
421 | 429 | 3.920231 | TCTGCTAATCATGTCCAGCTT | 57.080 | 42.857 | 13.55 | 0.00 | 35.05 | 3.74 |
422 | 430 | 3.199508 | AGTTCTGCTAATCATGTCCAGCT | 59.800 | 43.478 | 13.55 | 0.00 | 35.05 | 4.24 |
423 | 431 | 3.539604 | AGTTCTGCTAATCATGTCCAGC | 58.460 | 45.455 | 7.83 | 7.83 | 34.56 | 4.85 |
424 | 432 | 6.589523 | GCTATAGTTCTGCTAATCATGTCCAG | 59.410 | 42.308 | 0.84 | 0.00 | 32.72 | 3.86 |
425 | 433 | 6.041979 | TGCTATAGTTCTGCTAATCATGTCCA | 59.958 | 38.462 | 0.84 | 0.00 | 32.72 | 4.02 |
426 | 434 | 6.367422 | GTGCTATAGTTCTGCTAATCATGTCC | 59.633 | 42.308 | 0.84 | 0.00 | 32.72 | 4.02 |
427 | 435 | 6.925718 | TGTGCTATAGTTCTGCTAATCATGTC | 59.074 | 38.462 | 0.84 | 0.00 | 32.72 | 3.06 |
428 | 436 | 6.820335 | TGTGCTATAGTTCTGCTAATCATGT | 58.180 | 36.000 | 0.84 | 0.00 | 32.72 | 3.21 |
429 | 437 | 7.116090 | GTCTGTGCTATAGTTCTGCTAATCATG | 59.884 | 40.741 | 0.84 | 0.00 | 32.72 | 3.07 |
430 | 438 | 7.015098 | AGTCTGTGCTATAGTTCTGCTAATCAT | 59.985 | 37.037 | 0.84 | 0.00 | 32.72 | 2.45 |
431 | 439 | 6.322456 | AGTCTGTGCTATAGTTCTGCTAATCA | 59.678 | 38.462 | 0.84 | 0.00 | 32.72 | 2.57 |
432 | 440 | 6.744112 | AGTCTGTGCTATAGTTCTGCTAATC | 58.256 | 40.000 | 0.84 | 0.00 | 32.72 | 1.75 |
433 | 441 | 6.723298 | AGTCTGTGCTATAGTTCTGCTAAT | 57.277 | 37.500 | 0.84 | 0.00 | 32.72 | 1.73 |
434 | 442 | 6.531503 | AAGTCTGTGCTATAGTTCTGCTAA | 57.468 | 37.500 | 0.84 | 0.00 | 32.72 | 3.09 |
435 | 443 | 6.531503 | AAAGTCTGTGCTATAGTTCTGCTA | 57.468 | 37.500 | 0.84 | 0.00 | 0.00 | 3.49 |
436 | 444 | 5.413309 | AAAGTCTGTGCTATAGTTCTGCT | 57.587 | 39.130 | 0.84 | 0.06 | 0.00 | 4.24 |
437 | 445 | 6.310197 | CAAAAAGTCTGTGCTATAGTTCTGC | 58.690 | 40.000 | 0.84 | 0.00 | 0.00 | 4.26 |
438 | 446 | 6.073058 | TGCAAAAAGTCTGTGCTATAGTTCTG | 60.073 | 38.462 | 0.84 | 0.16 | 39.09 | 3.02 |
439 | 447 | 5.997746 | TGCAAAAAGTCTGTGCTATAGTTCT | 59.002 | 36.000 | 0.84 | 0.00 | 39.09 | 3.01 |
440 | 448 | 6.241207 | TGCAAAAAGTCTGTGCTATAGTTC | 57.759 | 37.500 | 0.84 | 0.00 | 39.09 | 3.01 |
441 | 449 | 6.633500 | TTGCAAAAAGTCTGTGCTATAGTT | 57.367 | 33.333 | 0.00 | 0.00 | 39.09 | 2.24 |
442 | 450 | 6.039270 | TGTTTGCAAAAAGTCTGTGCTATAGT | 59.961 | 34.615 | 14.67 | 0.00 | 39.09 | 2.12 |
443 | 451 | 6.437928 | TGTTTGCAAAAAGTCTGTGCTATAG | 58.562 | 36.000 | 14.67 | 0.00 | 39.09 | 1.31 |
444 | 452 | 6.384258 | TGTTTGCAAAAAGTCTGTGCTATA | 57.616 | 33.333 | 14.67 | 0.00 | 39.09 | 1.31 |
445 | 453 | 5.261209 | TGTTTGCAAAAAGTCTGTGCTAT | 57.739 | 34.783 | 14.67 | 0.00 | 39.09 | 2.97 |
446 | 454 | 4.710423 | TGTTTGCAAAAAGTCTGTGCTA | 57.290 | 36.364 | 14.67 | 0.00 | 39.09 | 3.49 |
447 | 455 | 3.591196 | TGTTTGCAAAAAGTCTGTGCT | 57.409 | 38.095 | 14.67 | 0.00 | 39.09 | 4.40 |
448 | 456 | 4.863152 | AATGTTTGCAAAAAGTCTGTGC | 57.137 | 36.364 | 14.67 | 0.00 | 38.78 | 4.57 |
458 | 466 | 8.887717 | GGCCATGTATATTAAAATGTTTGCAAA | 58.112 | 29.630 | 8.05 | 8.05 | 0.00 | 3.68 |
459 | 467 | 7.223582 | CGGCCATGTATATTAAAATGTTTGCAA | 59.776 | 33.333 | 2.24 | 0.00 | 0.00 | 4.08 |
460 | 468 | 6.699204 | CGGCCATGTATATTAAAATGTTTGCA | 59.301 | 34.615 | 2.24 | 0.00 | 0.00 | 4.08 |
461 | 469 | 6.920758 | TCGGCCATGTATATTAAAATGTTTGC | 59.079 | 34.615 | 2.24 | 0.00 | 0.00 | 3.68 |
462 | 470 | 9.128107 | GATCGGCCATGTATATTAAAATGTTTG | 57.872 | 33.333 | 2.24 | 0.00 | 0.00 | 2.93 |
463 | 471 | 8.303876 | GGATCGGCCATGTATATTAAAATGTTT | 58.696 | 33.333 | 2.24 | 0.00 | 36.34 | 2.83 |
464 | 472 | 7.450014 | TGGATCGGCCATGTATATTAAAATGTT | 59.550 | 33.333 | 2.24 | 0.00 | 43.33 | 2.71 |
465 | 473 | 6.945435 | TGGATCGGCCATGTATATTAAAATGT | 59.055 | 34.615 | 2.24 | 0.00 | 43.33 | 2.71 |
466 | 474 | 7.389803 | TGGATCGGCCATGTATATTAAAATG | 57.610 | 36.000 | 2.24 | 0.00 | 43.33 | 2.32 |
481 | 489 | 2.571212 | TGTATGAAATGTGGATCGGCC | 58.429 | 47.619 | 0.00 | 0.00 | 37.10 | 6.13 |
484 | 492 | 7.008628 | GCTTTCTTTTGTATGAAATGTGGATCG | 59.991 | 37.037 | 0.00 | 0.00 | 32.65 | 3.69 |
491 | 499 | 7.147312 | TGTCCTGCTTTCTTTTGTATGAAATG | 58.853 | 34.615 | 0.00 | 0.00 | 32.65 | 2.32 |
511 | 522 | 7.969690 | ACTATAGCTATGCTAATCATGTCCT | 57.030 | 36.000 | 16.77 | 0.00 | 44.62 | 3.85 |
528 | 539 | 7.117812 | TGTTTGCAAGAAAGTCTGTACTATAGC | 59.882 | 37.037 | 0.00 | 0.00 | 33.75 | 2.97 |
564 | 575 | 3.314635 | GGCACTGATTCTAGCCATTTCAG | 59.685 | 47.826 | 0.00 | 0.00 | 46.26 | 3.02 |
583 | 594 | 2.469826 | CGCACGTTATATCTTCAGGCA | 58.530 | 47.619 | 0.00 | 0.00 | 0.00 | 4.75 |
584 | 595 | 1.792949 | CCGCACGTTATATCTTCAGGC | 59.207 | 52.381 | 0.00 | 0.00 | 0.00 | 4.85 |
706 | 721 | 6.563196 | GCGCGTACAATACAATCACATATTGA | 60.563 | 38.462 | 8.43 | 0.00 | 39.96 | 2.57 |
739 | 765 | 1.972660 | GAGGAATACAGGCACCGGCT | 61.973 | 60.000 | 0.00 | 0.00 | 40.87 | 5.52 |
759 | 785 | 2.391926 | TGGCTACGGAGGGAATCATA | 57.608 | 50.000 | 0.00 | 0.00 | 0.00 | 2.15 |
897 | 923 | 1.224592 | GGACGGGATGACATTGCCT | 59.775 | 57.895 | 0.00 | 0.00 | 0.00 | 4.75 |
958 | 985 | 7.567622 | ACCTTCTTGCTAACCTTGTAGGATATA | 59.432 | 37.037 | 0.00 | 0.00 | 37.67 | 0.86 |
976 | 1033 | 4.188247 | TGGTCGACTATGAACCTTCTTG | 57.812 | 45.455 | 16.46 | 0.00 | 0.00 | 3.02 |
1076 | 1151 | 2.356553 | TGTCGTAGTTGGCCGCAC | 60.357 | 61.111 | 0.00 | 0.00 | 0.00 | 5.34 |
1236 | 1324 | 5.819379 | AGCACTATTACTAGCACTACGTACA | 59.181 | 40.000 | 0.00 | 0.00 | 0.00 | 2.90 |
1295 | 1408 | 3.872771 | GGTACTGGTTCACGTTCTTGAAA | 59.127 | 43.478 | 0.00 | 0.00 | 37.24 | 2.69 |
1473 | 4428 | 3.622612 | TGAAGGACGAATACATGCACATG | 59.377 | 43.478 | 9.06 | 9.06 | 44.15 | 3.21 |
1474 | 4429 | 3.872696 | TGAAGGACGAATACATGCACAT | 58.127 | 40.909 | 0.00 | 0.00 | 0.00 | 3.21 |
1475 | 4430 | 3.056179 | TCTGAAGGACGAATACATGCACA | 60.056 | 43.478 | 0.00 | 0.00 | 0.00 | 4.57 |
1476 | 4431 | 3.521560 | TCTGAAGGACGAATACATGCAC | 58.478 | 45.455 | 0.00 | 0.00 | 0.00 | 4.57 |
1508 | 4519 | 2.909965 | GAAGGGTTGTTGGCGGCA | 60.910 | 61.111 | 7.97 | 7.97 | 0.00 | 5.69 |
1697 | 4713 | 0.254747 | CCTTCATGCCCGGGAAGTTA | 59.745 | 55.000 | 29.31 | 0.00 | 39.04 | 2.24 |
1963 | 4979 | 1.144057 | CAGTAGGCCGGGATGACAC | 59.856 | 63.158 | 2.18 | 0.00 | 0.00 | 3.67 |
2040 | 5056 | 1.982660 | TCGATCGGAGAAGCAGGTAT | 58.017 | 50.000 | 16.41 | 0.00 | 43.58 | 2.73 |
2044 | 5060 | 3.084686 | CGATCGATCGGAGAAGCAG | 57.915 | 57.895 | 34.54 | 8.20 | 45.93 | 4.24 |
2066 | 5085 | 2.419159 | CCAGGAGCATCAACTCAATCGA | 60.419 | 50.000 | 0.00 | 0.00 | 38.50 | 3.59 |
2071 | 5090 | 3.265221 | AGAAATCCAGGAGCATCAACTCA | 59.735 | 43.478 | 0.00 | 0.00 | 38.50 | 3.41 |
2101 | 5120 | 5.703592 | ACAATGAACAATAGGTAGCGTTTGA | 59.296 | 36.000 | 14.22 | 0.00 | 0.00 | 2.69 |
2147 | 8688 | 2.483877 | TCACTAAAGACCTTGCATTGCG | 59.516 | 45.455 | 3.84 | 0.00 | 0.00 | 4.85 |
2166 | 8707 | 7.769970 | CCGGTACCTTTTTACAAATATACCTCA | 59.230 | 37.037 | 10.90 | 0.00 | 33.66 | 3.86 |
2187 | 8728 | 7.147915 | ACACCGATACTTAAGAAATTACCGGTA | 60.148 | 37.037 | 11.16 | 11.16 | 43.63 | 4.02 |
2223 | 8765 | 7.544566 | GTGTCTAAGTAAGCTTATGTGCTACAA | 59.455 | 37.037 | 9.88 | 0.00 | 43.24 | 2.41 |
2267 | 8816 | 2.022195 | GGTTTTCCTTAAGCCCCGATC | 58.978 | 52.381 | 0.00 | 0.00 | 36.94 | 3.69 |
2382 | 8973 | 0.974010 | TCCACGGGGTAGCGAGAATT | 60.974 | 55.000 | 2.12 | 0.00 | 34.93 | 2.17 |
2383 | 8974 | 0.759436 | ATCCACGGGGTAGCGAGAAT | 60.759 | 55.000 | 2.12 | 0.00 | 34.93 | 2.40 |
2385 | 8976 | 0.106569 | TAATCCACGGGGTAGCGAGA | 60.107 | 55.000 | 2.12 | 0.00 | 34.93 | 4.04 |
2389 | 8981 | 0.033642 | GCTCTAATCCACGGGGTAGC | 59.966 | 60.000 | 2.12 | 2.65 | 34.93 | 3.58 |
2594 | 9213 | 4.878968 | TGGTGATATCCTGGTGTTCTAGA | 58.121 | 43.478 | 0.00 | 0.00 | 0.00 | 2.43 |
2692 | 9317 | 6.887545 | ACATACACCCGAATGAATAGGAAAAA | 59.112 | 34.615 | 0.00 | 0.00 | 0.00 | 1.94 |
2809 | 9438 | 2.494059 | TGACCTGCTAACTGCTTTGTC | 58.506 | 47.619 | 0.00 | 0.00 | 43.37 | 3.18 |
2866 | 10768 | 6.986250 | TGTCGCTCTGATATAATTCATGTCT | 58.014 | 36.000 | 0.00 | 0.00 | 0.00 | 3.41 |
2871 | 10773 | 6.701841 | GGTCTTTGTCGCTCTGATATAATTCA | 59.298 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
2872 | 10774 | 6.129062 | CGGTCTTTGTCGCTCTGATATAATTC | 60.129 | 42.308 | 0.00 | 0.00 | 0.00 | 2.17 |
2878 | 10780 | 2.089201 | TCGGTCTTTGTCGCTCTGATA | 58.911 | 47.619 | 0.00 | 0.00 | 0.00 | 2.15 |
2887 | 10789 | 1.149148 | GTGCCTTCTCGGTCTTTGTC | 58.851 | 55.000 | 0.00 | 0.00 | 34.25 | 3.18 |
2899 | 10801 | 1.648467 | GCCCTTGTCATCGTGCCTTC | 61.648 | 60.000 | 0.00 | 0.00 | 0.00 | 3.46 |
2948 | 10850 | 4.262036 | CCCTCATAGAAACATACGCTGCTA | 60.262 | 45.833 | 0.00 | 0.00 | 0.00 | 3.49 |
2957 | 10859 | 1.134098 | CCCGTGCCCTCATAGAAACAT | 60.134 | 52.381 | 0.00 | 0.00 | 0.00 | 2.71 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.