Multiple sequence alignment - TraesCS4D01G160700
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 | TraesCS4D01G160700 | chr4D | 100.000 | 6402 | 0 | 0 | 1 | 6402 | 238642105 | 238635704 | 0.000000e+00 | 11823 |
1 | TraesCS4D01G160700 | chr4B | 97.010 | 3545 | 76 | 13 | 2868 | 6402 | 360232459 | 360228935 | 0.000000e+00 | 5932 |
2 | TraesCS4D01G160700 | chr4B | 97.140 | 1783 | 45 | 4 | 1 | 1778 | 360235570 | 360233789 | 0.000000e+00 | 3005 |
3 | TraesCS4D01G160700 | chr4B | 93.130 | 655 | 25 | 8 | 1940 | 2582 | 360233790 | 360233144 | 0.000000e+00 | 942 |
4 | TraesCS4D01G160700 | chr4B | 90.281 | 391 | 29 | 5 | 2670 | 3054 | 426143926 | 426144313 | 2.660000e-138 | 503 |
5 | TraesCS4D01G160700 | chr4A | 96.831 | 2840 | 81 | 6 | 3050 | 5884 | 298243581 | 298240746 | 0.000000e+00 | 4737 |
6 | TraesCS4D01G160700 | chr4A | 96.586 | 1787 | 50 | 9 | 1 | 1778 | 298245648 | 298243864 | 0.000000e+00 | 2952 |
7 | TraesCS4D01G160700 | chr4A | 94.291 | 508 | 28 | 1 | 5896 | 6402 | 298240763 | 298240256 | 0.000000e+00 | 776 |
8 | TraesCS4D01G160700 | chr4A | 86.564 | 454 | 47 | 12 | 2594 | 3039 | 74584431 | 74583984 | 7.460000e-134 | 488 |
9 | TraesCS4D01G160700 | chr2A | 88.274 | 452 | 34 | 11 | 2609 | 3054 | 34791173 | 34791611 | 2.050000e-144 | 523 |
10 | TraesCS4D01G160700 | chr2A | 87.826 | 345 | 39 | 2 | 2234 | 2575 | 182826486 | 182826830 | 1.000000e-107 | 401 |
11 | TraesCS4D01G160700 | chr1D | 90.561 | 392 | 26 | 9 | 2670 | 3056 | 138778803 | 138779188 | 5.730000e-140 | 508 |
12 | TraesCS4D01G160700 | chr5A | 87.225 | 454 | 46 | 8 | 2608 | 3054 | 619025143 | 619025591 | 2.060000e-139 | 507 |
13 | TraesCS4D01G160700 | chr5A | 90.281 | 391 | 29 | 5 | 2670 | 3054 | 704516156 | 704515769 | 2.660000e-138 | 503 |
14 | TraesCS4D01G160700 | chr5A | 89.526 | 401 | 32 | 6 | 2670 | 3063 | 216940344 | 216939947 | 3.450000e-137 | 499 |
15 | TraesCS4D01G160700 | chr5A | 86.966 | 445 | 40 | 10 | 2615 | 3054 | 516069979 | 516069548 | 9.650000e-133 | 484 |
16 | TraesCS4D01G160700 | chr5A | 87.536 | 345 | 40 | 3 | 2234 | 2575 | 567688559 | 567688215 | 4.650000e-106 | 396 |
17 | TraesCS4D01G160700 | chr3A | 87.444 | 446 | 42 | 12 | 2608 | 3045 | 50272960 | 50273399 | 9.580000e-138 | 501 |
18 | TraesCS4D01G160700 | chr7B | 92.151 | 344 | 23 | 4 | 1758 | 2100 | 382277454 | 382277114 | 3.470000e-132 | 483 |
19 | TraesCS4D01G160700 | chr7B | 88.218 | 348 | 36 | 5 | 2234 | 2580 | 167717114 | 167716771 | 1.660000e-110 | 411 |
20 | TraesCS4D01G160700 | chr7D | 89.914 | 347 | 30 | 5 | 2231 | 2574 | 617491350 | 617491694 | 5.890000e-120 | 442 |
21 | TraesCS4D01G160700 | chr3D | 90.854 | 328 | 27 | 3 | 1758 | 2084 | 554149785 | 554150110 | 2.740000e-118 | 436 |
22 | TraesCS4D01G160700 | chr5D | 90.000 | 330 | 30 | 3 | 1755 | 2083 | 27095683 | 27095356 | 2.130000e-114 | 424 |
23 | TraesCS4D01G160700 | chr5D | 85.610 | 410 | 41 | 14 | 2234 | 2633 | 415720781 | 415720380 | 1.280000e-111 | 414 |
24 | TraesCS4D01G160700 | chr5D | 88.116 | 345 | 38 | 2 | 2234 | 2575 | 40260821 | 40260477 | 2.150000e-109 | 407 |
25 | TraesCS4D01G160700 | chr5D | 87.571 | 354 | 38 | 5 | 2226 | 2575 | 91975685 | 91975334 | 7.730000e-109 | 405 |
26 | TraesCS4D01G160700 | chr5D | 86.872 | 358 | 41 | 5 | 2234 | 2588 | 80365538 | 80365892 | 4.650000e-106 | 396 |
27 | TraesCS4D01G160700 | chr5B | 89.394 | 330 | 30 | 4 | 1757 | 2084 | 291840777 | 291840451 | 1.660000e-110 | 411 |
28 | TraesCS4D01G160700 | chr5B | 88.450 | 329 | 34 | 3 | 1755 | 2083 | 27316239 | 27316563 | 1.670000e-105 | 394 |
29 | TraesCS4D01G160700 | chr6B | 89.362 | 329 | 29 | 5 | 1758 | 2083 | 67539148 | 67538823 | 5.970000e-110 | 409 |
30 | TraesCS4D01G160700 | chr2D | 89.124 | 331 | 30 | 4 | 1757 | 2083 | 445190010 | 445189682 | 2.150000e-109 | 407 |
31 | TraesCS4D01G160700 | chr6D | 88.724 | 337 | 26 | 9 | 1755 | 2084 | 41542675 | 41542344 | 1.000000e-107 | 401 |
32 | TraesCS4D01G160700 | chr1B | 88.685 | 327 | 34 | 3 | 1758 | 2083 | 589887597 | 589887273 | 4.650000e-106 | 396 |
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 | TraesCS4D01G160700 | chr4D | 238635704 | 238642105 | 6401 | True | 11823.000000 | 11823 | 100.000000 | 1 | 6402 | 1 | chr4D.!!$R1 | 6401 |
1 | TraesCS4D01G160700 | chr4B | 360228935 | 360235570 | 6635 | True | 3293.000000 | 5932 | 95.760000 | 1 | 6402 | 3 | chr4B.!!$R1 | 6401 |
2 | TraesCS4D01G160700 | chr4A | 298240256 | 298245648 | 5392 | True | 2821.666667 | 4737 | 95.902667 | 1 | 6402 | 3 | chr4A.!!$R2 | 6401 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
781 | 787 | 1.024579 | GTGGTCCTAACATGGGCACG | 61.025 | 60.000 | 0.0 | 0.0 | 32.35 | 5.34 | F |
1772 | 1783 | 1.134189 | CCAAATACTCCCTCCGTTCCC | 60.134 | 57.143 | 0.0 | 0.0 | 0.00 | 3.97 | F |
2718 | 2741 | 1.038280 | CGTACTCCCACCCCTCATAC | 58.962 | 60.000 | 0.0 | 0.0 | 0.00 | 2.39 | F |
4118 | 4591 | 0.394899 | ATCACCCTTTGCCTGCTAGC | 60.395 | 55.000 | 8.1 | 8.1 | 0.00 | 3.42 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2661 | 2684 | 2.493278 | CAACCATTTTCCTAGGGTGCAG | 59.507 | 50.000 | 9.46 | 0.00 | 32.66 | 4.41 | R |
3217 | 3689 | 2.299013 | CTGGAAAAGGTTGGGTTAAGCC | 59.701 | 50.000 | 17.01 | 17.01 | 37.49 | 4.35 | R |
4339 | 4812 | 1.533273 | ACCATAGCCGCCTCCGTAT | 60.533 | 57.895 | 0.00 | 0.00 | 0.00 | 3.06 | R |
6043 | 6526 | 2.784347 | TGGTACATCGATTGGCAAACA | 58.216 | 42.857 | 3.01 | 0.00 | 0.00 | 2.83 | 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 |
---|---|---|---|---|---|---|---|---|---|
178 | 180 | 5.644636 | CGTATGGGCTCTGTTTAGGTTTTTA | 59.355 | 40.000 | 0.00 | 0.00 | 0.00 | 1.52 |
237 | 239 | 4.767578 | AGAGGCTCATGTATGTGTTGAT | 57.232 | 40.909 | 18.26 | 0.00 | 0.00 | 2.57 |
258 | 260 | 2.536725 | GACCGAAAGTCCGAAACCC | 58.463 | 57.895 | 0.00 | 0.00 | 39.84 | 4.11 |
685 | 691 | 2.868839 | GCAGTTGATTTTGCCATGTGCT | 60.869 | 45.455 | 7.54 | 0.00 | 42.00 | 4.40 |
689 | 695 | 2.768698 | TGATTTTGCCATGTGCTTTGG | 58.231 | 42.857 | 7.54 | 0.00 | 42.00 | 3.28 |
781 | 787 | 1.024579 | GTGGTCCTAACATGGGCACG | 61.025 | 60.000 | 0.00 | 0.00 | 32.35 | 5.34 |
797 | 803 | 1.323534 | GCACGCAACATAAGTAGGTCG | 59.676 | 52.381 | 0.00 | 0.00 | 0.00 | 4.79 |
822 | 828 | 5.039333 | GGTGAGTGATGCATGCTTTTATTC | 58.961 | 41.667 | 20.33 | 12.00 | 0.00 | 1.75 |
832 | 838 | 5.762711 | TGCATGCTTTTATTCGGAAGCTATA | 59.237 | 36.000 | 20.33 | 0.00 | 46.39 | 1.31 |
1053 | 1064 | 4.566360 | GCTGACTATTCTGTCTCTGCTTTC | 59.434 | 45.833 | 0.00 | 0.00 | 37.79 | 2.62 |
1126 | 1137 | 5.263599 | TGATTATGCTGAAAATGGAGGTGT | 58.736 | 37.500 | 0.00 | 0.00 | 0.00 | 4.16 |
1580 | 1591 | 4.510340 | ACTGGTTCACAAATACGTGTTCTC | 59.490 | 41.667 | 0.00 | 0.00 | 38.12 | 2.87 |
1772 | 1783 | 1.134189 | CCAAATACTCCCTCCGTTCCC | 60.134 | 57.143 | 0.00 | 0.00 | 0.00 | 3.97 |
1776 | 1787 | 1.961133 | TACTCCCTCCGTTCCCAAAT | 58.039 | 50.000 | 0.00 | 0.00 | 0.00 | 2.32 |
1777 | 1788 | 1.961133 | ACTCCCTCCGTTCCCAAATA | 58.039 | 50.000 | 0.00 | 0.00 | 0.00 | 1.40 |
1778 | 1789 | 1.558294 | ACTCCCTCCGTTCCCAAATAC | 59.442 | 52.381 | 0.00 | 0.00 | 0.00 | 1.89 |
1779 | 1790 | 1.838077 | CTCCCTCCGTTCCCAAATACT | 59.162 | 52.381 | 0.00 | 0.00 | 0.00 | 2.12 |
1780 | 1791 | 1.835531 | TCCCTCCGTTCCCAAATACTC | 59.164 | 52.381 | 0.00 | 0.00 | 0.00 | 2.59 |
1781 | 1792 | 1.134189 | CCCTCCGTTCCCAAATACTCC | 60.134 | 57.143 | 0.00 | 0.00 | 0.00 | 3.85 |
1782 | 1793 | 1.134189 | CCTCCGTTCCCAAATACTCCC | 60.134 | 57.143 | 0.00 | 0.00 | 0.00 | 4.30 |
1783 | 1794 | 1.838077 | CTCCGTTCCCAAATACTCCCT | 59.162 | 52.381 | 0.00 | 0.00 | 0.00 | 4.20 |
1784 | 1795 | 1.835531 | TCCGTTCCCAAATACTCCCTC | 59.164 | 52.381 | 0.00 | 0.00 | 0.00 | 4.30 |
1785 | 1796 | 1.134189 | CCGTTCCCAAATACTCCCTCC | 60.134 | 57.143 | 0.00 | 0.00 | 0.00 | 4.30 |
1786 | 1797 | 1.472728 | CGTTCCCAAATACTCCCTCCG | 60.473 | 57.143 | 0.00 | 0.00 | 0.00 | 4.63 |
1787 | 1798 | 1.558294 | GTTCCCAAATACTCCCTCCGT | 59.442 | 52.381 | 0.00 | 0.00 | 0.00 | 4.69 |
1788 | 1799 | 1.961133 | TCCCAAATACTCCCTCCGTT | 58.039 | 50.000 | 0.00 | 0.00 | 0.00 | 4.44 |
1789 | 1800 | 1.835531 | TCCCAAATACTCCCTCCGTTC | 59.164 | 52.381 | 0.00 | 0.00 | 0.00 | 3.95 |
1790 | 1801 | 1.134189 | CCCAAATACTCCCTCCGTTCC | 60.134 | 57.143 | 0.00 | 0.00 | 0.00 | 3.62 |
1791 | 1802 | 1.838077 | CCAAATACTCCCTCCGTTCCT | 59.162 | 52.381 | 0.00 | 0.00 | 0.00 | 3.36 |
1792 | 1803 | 3.036091 | CCAAATACTCCCTCCGTTCCTA | 58.964 | 50.000 | 0.00 | 0.00 | 0.00 | 2.94 |
1793 | 1804 | 3.453353 | CCAAATACTCCCTCCGTTCCTAA | 59.547 | 47.826 | 0.00 | 0.00 | 0.00 | 2.69 |
1794 | 1805 | 4.080751 | CCAAATACTCCCTCCGTTCCTAAA | 60.081 | 45.833 | 0.00 | 0.00 | 0.00 | 1.85 |
1795 | 1806 | 5.397559 | CCAAATACTCCCTCCGTTCCTAAAT | 60.398 | 44.000 | 0.00 | 0.00 | 0.00 | 1.40 |
1796 | 1807 | 6.183361 | CCAAATACTCCCTCCGTTCCTAAATA | 60.183 | 42.308 | 0.00 | 0.00 | 0.00 | 1.40 |
1797 | 1808 | 7.450903 | CAAATACTCCCTCCGTTCCTAAATAT | 58.549 | 38.462 | 0.00 | 0.00 | 0.00 | 1.28 |
1798 | 1809 | 7.628501 | AATACTCCCTCCGTTCCTAAATATT | 57.371 | 36.000 | 0.00 | 0.00 | 0.00 | 1.28 |
1799 | 1810 | 5.970501 | ACTCCCTCCGTTCCTAAATATTT | 57.029 | 39.130 | 5.89 | 5.89 | 0.00 | 1.40 |
1800 | 1811 | 5.681639 | ACTCCCTCCGTTCCTAAATATTTG | 58.318 | 41.667 | 11.05 | 1.40 | 0.00 | 2.32 |
1801 | 1812 | 5.191124 | ACTCCCTCCGTTCCTAAATATTTGT | 59.809 | 40.000 | 11.05 | 0.00 | 0.00 | 2.83 |
1802 | 1813 | 5.677567 | TCCCTCCGTTCCTAAATATTTGTC | 58.322 | 41.667 | 11.05 | 0.00 | 0.00 | 3.18 |
1803 | 1814 | 5.427481 | TCCCTCCGTTCCTAAATATTTGTCT | 59.573 | 40.000 | 11.05 | 0.00 | 0.00 | 3.41 |
1804 | 1815 | 6.069847 | TCCCTCCGTTCCTAAATATTTGTCTT | 60.070 | 38.462 | 11.05 | 0.00 | 0.00 | 3.01 |
1805 | 1816 | 6.602009 | CCCTCCGTTCCTAAATATTTGTCTTT | 59.398 | 38.462 | 11.05 | 0.00 | 0.00 | 2.52 |
1806 | 1817 | 7.201705 | CCCTCCGTTCCTAAATATTTGTCTTTC | 60.202 | 40.741 | 11.05 | 0.00 | 0.00 | 2.62 |
1807 | 1818 | 7.553044 | CCTCCGTTCCTAAATATTTGTCTTTCT | 59.447 | 37.037 | 11.05 | 0.00 | 0.00 | 2.52 |
1808 | 1819 | 9.595823 | CTCCGTTCCTAAATATTTGTCTTTCTA | 57.404 | 33.333 | 11.05 | 0.00 | 0.00 | 2.10 |
1809 | 1820 | 9.595823 | TCCGTTCCTAAATATTTGTCTTTCTAG | 57.404 | 33.333 | 11.05 | 0.00 | 0.00 | 2.43 |
1810 | 1821 | 9.595823 | CCGTTCCTAAATATTTGTCTTTCTAGA | 57.404 | 33.333 | 11.05 | 0.00 | 0.00 | 2.43 |
1823 | 1834 | 8.964476 | TTGTCTTTCTAGAGATTTCAACAAGT | 57.036 | 30.769 | 0.00 | 0.00 | 0.00 | 3.16 |
1824 | 1835 | 8.370493 | TGTCTTTCTAGAGATTTCAACAAGTG | 57.630 | 34.615 | 0.00 | 0.00 | 0.00 | 3.16 |
1825 | 1836 | 8.204160 | TGTCTTTCTAGAGATTTCAACAAGTGA | 58.796 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
1826 | 1837 | 8.491950 | GTCTTTCTAGAGATTTCAACAAGTGAC | 58.508 | 37.037 | 0.00 | 0.00 | 35.39 | 3.67 |
1827 | 1838 | 8.424918 | TCTTTCTAGAGATTTCAACAAGTGACT | 58.575 | 33.333 | 0.00 | 0.00 | 35.39 | 3.41 |
1828 | 1839 | 9.698309 | CTTTCTAGAGATTTCAACAAGTGACTA | 57.302 | 33.333 | 0.00 | 0.00 | 35.39 | 2.59 |
1829 | 1840 | 9.477484 | TTTCTAGAGATTTCAACAAGTGACTAC | 57.523 | 33.333 | 0.00 | 0.00 | 35.39 | 2.73 |
1830 | 1841 | 8.178313 | TCTAGAGATTTCAACAAGTGACTACA | 57.822 | 34.615 | 0.00 | 0.00 | 35.39 | 2.74 |
1831 | 1842 | 8.807118 | TCTAGAGATTTCAACAAGTGACTACAT | 58.193 | 33.333 | 0.00 | 0.00 | 35.39 | 2.29 |
1833 | 1844 | 8.764524 | AGAGATTTCAACAAGTGACTACATAC | 57.235 | 34.615 | 0.00 | 0.00 | 35.39 | 2.39 |
1834 | 1845 | 7.542477 | AGAGATTTCAACAAGTGACTACATACG | 59.458 | 37.037 | 0.00 | 0.00 | 35.39 | 3.06 |
1835 | 1846 | 6.590292 | AGATTTCAACAAGTGACTACATACGG | 59.410 | 38.462 | 0.00 | 0.00 | 35.39 | 4.02 |
1836 | 1847 | 5.456548 | TTCAACAAGTGACTACATACGGA | 57.543 | 39.130 | 0.00 | 0.00 | 35.39 | 4.69 |
1837 | 1848 | 5.055642 | TCAACAAGTGACTACATACGGAG | 57.944 | 43.478 | 0.00 | 0.00 | 0.00 | 4.63 |
1838 | 1849 | 3.505464 | ACAAGTGACTACATACGGAGC | 57.495 | 47.619 | 0.00 | 0.00 | 0.00 | 4.70 |
1839 | 1850 | 2.823747 | ACAAGTGACTACATACGGAGCA | 59.176 | 45.455 | 0.00 | 0.00 | 0.00 | 4.26 |
1840 | 1851 | 3.257375 | ACAAGTGACTACATACGGAGCAA | 59.743 | 43.478 | 0.00 | 0.00 | 0.00 | 3.91 |
1841 | 1852 | 4.242475 | CAAGTGACTACATACGGAGCAAA | 58.758 | 43.478 | 0.00 | 0.00 | 0.00 | 3.68 |
1842 | 1853 | 4.530710 | AGTGACTACATACGGAGCAAAA | 57.469 | 40.909 | 0.00 | 0.00 | 0.00 | 2.44 |
1843 | 1854 | 5.086104 | AGTGACTACATACGGAGCAAAAT | 57.914 | 39.130 | 0.00 | 0.00 | 0.00 | 1.82 |
1844 | 1855 | 4.870426 | AGTGACTACATACGGAGCAAAATG | 59.130 | 41.667 | 0.00 | 0.00 | 0.00 | 2.32 |
1845 | 1856 | 4.868171 | GTGACTACATACGGAGCAAAATGA | 59.132 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
1846 | 1857 | 5.005779 | GTGACTACATACGGAGCAAAATGAG | 59.994 | 44.000 | 0.00 | 0.00 | 0.00 | 2.90 |
1847 | 1858 | 5.086104 | ACTACATACGGAGCAAAATGAGT | 57.914 | 39.130 | 0.00 | 0.00 | 0.00 | 3.41 |
1848 | 1859 | 4.870426 | ACTACATACGGAGCAAAATGAGTG | 59.130 | 41.667 | 0.00 | 0.00 | 0.00 | 3.51 |
1849 | 1860 | 3.937814 | ACATACGGAGCAAAATGAGTGA | 58.062 | 40.909 | 0.00 | 0.00 | 0.00 | 3.41 |
1850 | 1861 | 4.323417 | ACATACGGAGCAAAATGAGTGAA | 58.677 | 39.130 | 0.00 | 0.00 | 0.00 | 3.18 |
1851 | 1862 | 4.943705 | ACATACGGAGCAAAATGAGTGAAT | 59.056 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
1852 | 1863 | 5.065218 | ACATACGGAGCAAAATGAGTGAATC | 59.935 | 40.000 | 0.00 | 0.00 | 0.00 | 2.52 |
1853 | 1864 | 3.679389 | ACGGAGCAAAATGAGTGAATCT | 58.321 | 40.909 | 0.00 | 0.00 | 0.00 | 2.40 |
1854 | 1865 | 4.832248 | ACGGAGCAAAATGAGTGAATCTA | 58.168 | 39.130 | 0.00 | 0.00 | 0.00 | 1.98 |
1855 | 1866 | 4.631813 | ACGGAGCAAAATGAGTGAATCTAC | 59.368 | 41.667 | 0.00 | 0.00 | 0.00 | 2.59 |
1856 | 1867 | 4.631377 | CGGAGCAAAATGAGTGAATCTACA | 59.369 | 41.667 | 0.00 | 0.00 | 0.00 | 2.74 |
1857 | 1868 | 5.446473 | CGGAGCAAAATGAGTGAATCTACAC | 60.446 | 44.000 | 0.00 | 0.00 | 40.60 | 2.90 |
1871 | 1882 | 9.469097 | AGTGAATCTACACTCTAAAGTATGTCT | 57.531 | 33.333 | 0.00 | 0.00 | 46.36 | 3.41 |
1893 | 1904 | 9.990868 | TGTCTATATACATCCATATGTGGTAGT | 57.009 | 33.333 | 8.51 | 10.44 | 45.99 | 2.73 |
1895 | 1906 | 9.642343 | TCTATATACATCCATATGTGGTAGTCC | 57.358 | 37.037 | 8.51 | 0.00 | 45.99 | 3.85 |
1896 | 1907 | 9.421399 | CTATATACATCCATATGTGGTAGTCCA | 57.579 | 37.037 | 8.51 | 1.36 | 45.99 | 4.02 |
1897 | 1908 | 8.860517 | ATATACATCCATATGTGGTAGTCCAT | 57.139 | 34.615 | 8.51 | 3.29 | 45.99 | 3.41 |
1898 | 1909 | 5.912149 | ACATCCATATGTGGTAGTCCATT | 57.088 | 39.130 | 8.51 | 0.00 | 44.79 | 3.16 |
1899 | 1910 | 6.266131 | ACATCCATATGTGGTAGTCCATTT | 57.734 | 37.500 | 8.51 | 0.00 | 44.79 | 2.32 |
1900 | 1911 | 6.064060 | ACATCCATATGTGGTAGTCCATTTG | 58.936 | 40.000 | 8.51 | 0.00 | 44.79 | 2.32 |
1901 | 1912 | 5.966853 | TCCATATGTGGTAGTCCATTTGA | 57.033 | 39.130 | 8.51 | 0.00 | 46.20 | 2.69 |
1902 | 1913 | 6.320434 | TCCATATGTGGTAGTCCATTTGAA | 57.680 | 37.500 | 8.51 | 0.00 | 46.20 | 2.69 |
1903 | 1914 | 6.726379 | TCCATATGTGGTAGTCCATTTGAAA | 58.274 | 36.000 | 8.51 | 0.00 | 46.20 | 2.69 |
1904 | 1915 | 7.353525 | TCCATATGTGGTAGTCCATTTGAAAT | 58.646 | 34.615 | 8.51 | 0.00 | 46.20 | 2.17 |
1905 | 1916 | 7.502226 | TCCATATGTGGTAGTCCATTTGAAATC | 59.498 | 37.037 | 8.51 | 0.00 | 46.20 | 2.17 |
1906 | 1917 | 7.503566 | CCATATGTGGTAGTCCATTTGAAATCT | 59.496 | 37.037 | 0.00 | 0.00 | 46.20 | 2.40 |
1907 | 1918 | 8.562892 | CATATGTGGTAGTCCATTTGAAATCTC | 58.437 | 37.037 | 0.00 | 0.00 | 46.20 | 2.75 |
1908 | 1919 | 6.126863 | TGTGGTAGTCCATTTGAAATCTCT | 57.873 | 37.500 | 0.00 | 0.00 | 46.20 | 3.10 |
1909 | 1920 | 7.252612 | TGTGGTAGTCCATTTGAAATCTCTA | 57.747 | 36.000 | 0.00 | 0.00 | 46.20 | 2.43 |
1910 | 1921 | 7.685481 | TGTGGTAGTCCATTTGAAATCTCTAA | 58.315 | 34.615 | 0.00 | 0.00 | 46.20 | 2.10 |
1911 | 1922 | 8.160765 | TGTGGTAGTCCATTTGAAATCTCTAAA | 58.839 | 33.333 | 0.00 | 0.00 | 46.20 | 1.85 |
1912 | 1923 | 9.010029 | GTGGTAGTCCATTTGAAATCTCTAAAA | 57.990 | 33.333 | 0.00 | 0.00 | 46.20 | 1.52 |
1913 | 1924 | 9.581289 | TGGTAGTCCATTTGAAATCTCTAAAAA | 57.419 | 29.630 | 0.00 | 0.00 | 39.03 | 1.94 |
1917 | 1928 | 9.354673 | AGTCCATTTGAAATCTCTAAAAAGACA | 57.645 | 29.630 | 0.00 | 0.00 | 0.00 | 3.41 |
1918 | 1929 | 9.965824 | GTCCATTTGAAATCTCTAAAAAGACAA | 57.034 | 29.630 | 0.00 | 0.00 | 0.00 | 3.18 |
1935 | 1946 | 7.625828 | AAAGACAAATATTTAGGAACGGAGG | 57.374 | 36.000 | 0.00 | 0.00 | 0.00 | 4.30 |
1936 | 1947 | 5.681639 | AGACAAATATTTAGGAACGGAGGG | 58.318 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
1937 | 1948 | 5.427481 | AGACAAATATTTAGGAACGGAGGGA | 59.573 | 40.000 | 0.00 | 0.00 | 0.00 | 4.20 |
1938 | 1949 | 5.681639 | ACAAATATTTAGGAACGGAGGGAG | 58.318 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
1991 | 2002 | 9.605275 | TGTACTACATACGGATGTATATAGACC | 57.395 | 37.037 | 20.64 | 7.69 | 45.42 | 3.85 |
2024 | 2037 | 6.471146 | AGTGTAGATTCACTCATTTTGCTCT | 58.529 | 36.000 | 0.00 | 0.00 | 44.07 | 4.09 |
2269 | 2291 | 7.671398 | CCCCCTCTATTTTAATATCAATGCACT | 59.329 | 37.037 | 0.00 | 0.00 | 0.00 | 4.40 |
2581 | 2604 | 4.100189 | CCCTCGGTGATGAATAGACTTTCT | 59.900 | 45.833 | 0.00 | 0.00 | 0.00 | 2.52 |
2582 | 2605 | 5.285651 | CCTCGGTGATGAATAGACTTTCTC | 58.714 | 45.833 | 0.00 | 0.00 | 0.00 | 2.87 |
2583 | 2606 | 5.068460 | CCTCGGTGATGAATAGACTTTCTCT | 59.932 | 44.000 | 0.00 | 0.00 | 0.00 | 3.10 |
2584 | 2607 | 6.137794 | TCGGTGATGAATAGACTTTCTCTC | 57.862 | 41.667 | 0.00 | 0.00 | 0.00 | 3.20 |
2585 | 2608 | 5.888724 | TCGGTGATGAATAGACTTTCTCTCT | 59.111 | 40.000 | 0.00 | 0.00 | 0.00 | 3.10 |
2586 | 2609 | 6.038825 | TCGGTGATGAATAGACTTTCTCTCTC | 59.961 | 42.308 | 0.00 | 0.00 | 0.00 | 3.20 |
2587 | 2610 | 6.039270 | CGGTGATGAATAGACTTTCTCTCTCT | 59.961 | 42.308 | 0.00 | 0.00 | 0.00 | 3.10 |
2588 | 2611 | 7.425606 | GGTGATGAATAGACTTTCTCTCTCTC | 58.574 | 42.308 | 0.00 | 0.00 | 0.00 | 3.20 |
2589 | 2612 | 7.285401 | GGTGATGAATAGACTTTCTCTCTCTCT | 59.715 | 40.741 | 0.00 | 0.00 | 0.00 | 3.10 |
2590 | 2613 | 8.345565 | GTGATGAATAGACTTTCTCTCTCTCTC | 58.654 | 40.741 | 0.00 | 0.00 | 0.00 | 3.20 |
2591 | 2614 | 8.274322 | TGATGAATAGACTTTCTCTCTCTCTCT | 58.726 | 37.037 | 0.00 | 0.00 | 0.00 | 3.10 |
2592 | 2615 | 8.682936 | ATGAATAGACTTTCTCTCTCTCTCTC | 57.317 | 38.462 | 0.00 | 0.00 | 0.00 | 3.20 |
2593 | 2616 | 7.861629 | TGAATAGACTTTCTCTCTCTCTCTCT | 58.138 | 38.462 | 0.00 | 0.00 | 0.00 | 3.10 |
2594 | 2617 | 7.987458 | TGAATAGACTTTCTCTCTCTCTCTCTC | 59.013 | 40.741 | 0.00 | 0.00 | 0.00 | 3.20 |
2595 | 2618 | 7.682787 | ATAGACTTTCTCTCTCTCTCTCTCT | 57.317 | 40.000 | 0.00 | 0.00 | 0.00 | 3.10 |
2596 | 2619 | 5.983540 | AGACTTTCTCTCTCTCTCTCTCTC | 58.016 | 45.833 | 0.00 | 0.00 | 0.00 | 3.20 |
2597 | 2620 | 5.723887 | AGACTTTCTCTCTCTCTCTCTCTCT | 59.276 | 44.000 | 0.00 | 0.00 | 0.00 | 3.10 |
2598 | 2621 | 5.983540 | ACTTTCTCTCTCTCTCTCTCTCTC | 58.016 | 45.833 | 0.00 | 0.00 | 0.00 | 3.20 |
2599 | 2622 | 5.723887 | ACTTTCTCTCTCTCTCTCTCTCTCT | 59.276 | 44.000 | 0.00 | 0.00 | 0.00 | 3.10 |
2600 | 2623 | 5.860941 | TTCTCTCTCTCTCTCTCTCTCTC | 57.139 | 47.826 | 0.00 | 0.00 | 0.00 | 3.20 |
2601 | 2624 | 5.136068 | TCTCTCTCTCTCTCTCTCTCTCT | 57.864 | 47.826 | 0.00 | 0.00 | 0.00 | 3.10 |
2602 | 2625 | 5.136828 | TCTCTCTCTCTCTCTCTCTCTCTC | 58.863 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
2603 | 2626 | 5.103728 | TCTCTCTCTCTCTCTCTCTCTCTCT | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
2604 | 2627 | 5.136828 | TCTCTCTCTCTCTCTCTCTCTCTC | 58.863 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
2605 | 2628 | 5.103728 | TCTCTCTCTCTCTCTCTCTCTCTCT | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
2606 | 2629 | 5.136828 | TCTCTCTCTCTCTCTCTCTCTCTC | 58.863 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
2607 | 2630 | 5.103728 | TCTCTCTCTCTCTCTCTCTCTCTCT | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
2608 | 2631 | 6.101881 | TCTCTCTCTCTCTCTCTCTCTCTCTA | 59.898 | 46.154 | 0.00 | 0.00 | 0.00 | 2.43 |
2609 | 2632 | 6.857848 | TCTCTCTCTCTCTCTCTCTCTCTAT | 58.142 | 44.000 | 0.00 | 0.00 | 0.00 | 1.98 |
2610 | 2633 | 7.990055 | TCTCTCTCTCTCTCTCTCTCTCTATA | 58.010 | 42.308 | 0.00 | 0.00 | 0.00 | 1.31 |
2611 | 2634 | 8.619281 | TCTCTCTCTCTCTCTCTCTCTCTATAT | 58.381 | 40.741 | 0.00 | 0.00 | 0.00 | 0.86 |
2612 | 2635 | 9.913310 | CTCTCTCTCTCTCTCTCTCTCTATATA | 57.087 | 40.741 | 0.00 | 0.00 | 0.00 | 0.86 |
2718 | 2741 | 1.038280 | CGTACTCCCACCCCTCATAC | 58.962 | 60.000 | 0.00 | 0.00 | 0.00 | 2.39 |
2841 | 2991 | 8.500773 | TGTCTCATATTTTTGAAGGTTTACGTC | 58.499 | 33.333 | 0.00 | 0.00 | 0.00 | 4.34 |
2871 | 3341 | 8.257306 | ACTGATTTGTTTGTATGTGAAAAAGGT | 58.743 | 29.630 | 0.00 | 0.00 | 0.00 | 3.50 |
3298 | 3770 | 6.099845 | AGTTGTAGGGATTACTCCTATGGTTG | 59.900 | 42.308 | 0.00 | 0.00 | 41.74 | 3.77 |
3512 | 3984 | 2.166459 | TGGATAGTTCGAGTGCTGAAGG | 59.834 | 50.000 | 0.00 | 0.00 | 0.00 | 3.46 |
3595 | 4068 | 8.868916 | GCATGATACGTTTCCATGTTTATTTTT | 58.131 | 29.630 | 18.88 | 0.00 | 39.69 | 1.94 |
3608 | 4081 | 7.416326 | CCATGTTTATTTTTAGTAGCAGGTCCC | 60.416 | 40.741 | 0.00 | 0.00 | 0.00 | 4.46 |
3952 | 4425 | 4.023193 | ACGACTCCTTGTTGCCATAAAAAG | 60.023 | 41.667 | 0.00 | 0.00 | 33.33 | 2.27 |
4118 | 4591 | 0.394899 | ATCACCCTTTGCCTGCTAGC | 60.395 | 55.000 | 8.10 | 8.10 | 0.00 | 3.42 |
4124 | 4597 | 0.671781 | CTTTGCCTGCTAGCGTGTCT | 60.672 | 55.000 | 10.77 | 0.00 | 34.65 | 3.41 |
4339 | 4812 | 5.014858 | ACGAACTGAAACCATCTCTAGGTA | 58.985 | 41.667 | 0.00 | 0.00 | 38.76 | 3.08 |
4455 | 4928 | 4.591498 | TGTTGACCATAGTTCTGTGTAGGT | 59.409 | 41.667 | 0.00 | 0.00 | 0.00 | 3.08 |
4463 | 4936 | 9.662947 | ACCATAGTTCTGTGTAGGTAAATAAAC | 57.337 | 33.333 | 0.00 | 0.00 | 0.00 | 2.01 |
4575 | 5049 | 3.186613 | GCTAGTACAATAATCGCTTGCCC | 59.813 | 47.826 | 0.00 | 0.00 | 0.00 | 5.36 |
4585 | 5059 | 2.960170 | GCTTGCCCTTCTGCTGTG | 59.040 | 61.111 | 0.00 | 0.00 | 0.00 | 3.66 |
4587 | 5061 | 1.228367 | CTTGCCCTTCTGCTGTGGT | 60.228 | 57.895 | 0.00 | 0.00 | 0.00 | 4.16 |
4693 | 5168 | 3.398318 | TGCTGTCTATTACTCCCTCCA | 57.602 | 47.619 | 0.00 | 0.00 | 0.00 | 3.86 |
4745 | 5220 | 7.552687 | ACCAATGTACTGATATGTTGGTTGTAG | 59.447 | 37.037 | 1.98 | 0.00 | 44.95 | 2.74 |
4787 | 5263 | 2.614057 | GGAGGGAGTATCATTTTGTGCG | 59.386 | 50.000 | 0.00 | 0.00 | 36.25 | 5.34 |
4984 | 5460 | 2.305927 | CCAACAGGTATGGTTCCTCTGT | 59.694 | 50.000 | 0.00 | 0.00 | 39.97 | 3.41 |
5328 | 5804 | 0.963355 | TGCCCTGCCGTAAATGTTCC | 60.963 | 55.000 | 0.00 | 0.00 | 0.00 | 3.62 |
5747 | 6226 | 1.342819 | TCACAATTCCAAAAAGGGCCG | 59.657 | 47.619 | 0.00 | 0.00 | 38.24 | 6.13 |
5897 | 6377 | 0.985490 | AGCCCTCTCATCCCAACCTC | 60.985 | 60.000 | 0.00 | 0.00 | 0.00 | 3.85 |
5941 | 6424 | 2.282040 | ACCCTGAGCAGCAGCAAC | 60.282 | 61.111 | 3.17 | 0.00 | 45.49 | 4.17 |
6043 | 6526 | 3.947834 | CCAGGACGCTAAATCTTGGATTT | 59.052 | 43.478 | 9.86 | 9.86 | 44.17 | 2.17 |
6044 | 6527 | 4.201950 | CCAGGACGCTAAATCTTGGATTTG | 60.202 | 45.833 | 13.65 | 6.82 | 44.17 | 2.32 |
6368 | 6852 | 0.821711 | TTGCCTGTCCCGAACCAAAG | 60.822 | 55.000 | 0.00 | 0.00 | 0.00 | 2.77 |
6391 | 6875 | 8.980481 | AAGTGGTTGATAATTTACCTATGGAG | 57.020 | 34.615 | 0.00 | 0.00 | 33.05 | 3.86 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
237 | 239 | 1.269936 | GGTTTCGGACTTTCGGTCTCA | 60.270 | 52.381 | 0.00 | 0.00 | 43.97 | 3.27 |
685 | 691 | 3.806380 | TGTAGGTCAACGCTTAACCAAA | 58.194 | 40.909 | 0.00 | 0.00 | 35.43 | 3.28 |
689 | 695 | 4.435651 | GCAGATTGTAGGTCAACGCTTAAC | 60.436 | 45.833 | 0.00 | 0.00 | 38.97 | 2.01 |
700 | 706 | 3.835395 | GAGGGCTATAGCAGATTGTAGGT | 59.165 | 47.826 | 25.53 | 0.00 | 44.36 | 3.08 |
704 | 710 | 4.989875 | ATTGAGGGCTATAGCAGATTGT | 57.010 | 40.909 | 25.53 | 5.18 | 44.36 | 2.71 |
781 | 787 | 3.119245 | TCACCTCGACCTACTTATGTTGC | 60.119 | 47.826 | 0.00 | 0.00 | 0.00 | 4.17 |
797 | 803 | 1.747709 | AAGCATGCATCACTCACCTC | 58.252 | 50.000 | 21.98 | 0.00 | 0.00 | 3.85 |
1024 | 1035 | 4.039151 | AGACAGAATAGTCAGCGACATG | 57.961 | 45.455 | 10.52 | 0.00 | 40.98 | 3.21 |
1053 | 1064 | 1.227764 | CAGGCCCGACCATGATCTG | 60.228 | 63.158 | 0.00 | 0.00 | 43.14 | 2.90 |
1126 | 1137 | 5.249163 | TCATCACCAGGATTTCTTCTCTTGA | 59.751 | 40.000 | 0.00 | 0.00 | 32.57 | 3.02 |
1580 | 1591 | 3.411446 | TGCAGGAAGGTGTTCATTACTG | 58.589 | 45.455 | 1.22 | 1.22 | 45.66 | 2.74 |
1772 | 1783 | 4.748277 | TTAGGAACGGAGGGAGTATTTG | 57.252 | 45.455 | 0.00 | 0.00 | 0.00 | 2.32 |
1776 | 1787 | 6.384886 | ACAAATATTTAGGAACGGAGGGAGTA | 59.615 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
1777 | 1788 | 5.191124 | ACAAATATTTAGGAACGGAGGGAGT | 59.809 | 40.000 | 0.00 | 0.00 | 0.00 | 3.85 |
1778 | 1789 | 5.681639 | ACAAATATTTAGGAACGGAGGGAG | 58.318 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
1779 | 1790 | 5.427481 | AGACAAATATTTAGGAACGGAGGGA | 59.573 | 40.000 | 0.00 | 0.00 | 0.00 | 4.20 |
1780 | 1791 | 5.681639 | AGACAAATATTTAGGAACGGAGGG | 58.318 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
1781 | 1792 | 7.553044 | AGAAAGACAAATATTTAGGAACGGAGG | 59.447 | 37.037 | 0.00 | 0.00 | 0.00 | 4.30 |
1782 | 1793 | 8.494016 | AGAAAGACAAATATTTAGGAACGGAG | 57.506 | 34.615 | 0.00 | 0.00 | 0.00 | 4.63 |
1783 | 1794 | 9.595823 | CTAGAAAGACAAATATTTAGGAACGGA | 57.404 | 33.333 | 0.00 | 0.00 | 0.00 | 4.69 |
1784 | 1795 | 9.595823 | TCTAGAAAGACAAATATTTAGGAACGG | 57.404 | 33.333 | 0.00 | 0.00 | 0.00 | 4.44 |
1797 | 1808 | 9.396022 | ACTTGTTGAAATCTCTAGAAAGACAAA | 57.604 | 29.630 | 0.00 | 0.00 | 0.00 | 2.83 |
1798 | 1809 | 8.830580 | CACTTGTTGAAATCTCTAGAAAGACAA | 58.169 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
1799 | 1810 | 8.204160 | TCACTTGTTGAAATCTCTAGAAAGACA | 58.796 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
1800 | 1811 | 8.491950 | GTCACTTGTTGAAATCTCTAGAAAGAC | 58.508 | 37.037 | 0.00 | 0.00 | 35.39 | 3.01 |
1801 | 1812 | 8.424918 | AGTCACTTGTTGAAATCTCTAGAAAGA | 58.575 | 33.333 | 0.00 | 0.00 | 35.39 | 2.52 |
1802 | 1813 | 8.600449 | AGTCACTTGTTGAAATCTCTAGAAAG | 57.400 | 34.615 | 0.00 | 0.00 | 35.39 | 2.62 |
1803 | 1814 | 9.477484 | GTAGTCACTTGTTGAAATCTCTAGAAA | 57.523 | 33.333 | 0.00 | 0.00 | 35.39 | 2.52 |
1804 | 1815 | 8.638873 | TGTAGTCACTTGTTGAAATCTCTAGAA | 58.361 | 33.333 | 0.00 | 0.00 | 35.39 | 2.10 |
1805 | 1816 | 8.178313 | TGTAGTCACTTGTTGAAATCTCTAGA | 57.822 | 34.615 | 0.00 | 0.00 | 35.39 | 2.43 |
1806 | 1817 | 8.994429 | ATGTAGTCACTTGTTGAAATCTCTAG | 57.006 | 34.615 | 0.00 | 0.00 | 35.39 | 2.43 |
1807 | 1818 | 9.856488 | GTATGTAGTCACTTGTTGAAATCTCTA | 57.144 | 33.333 | 0.00 | 0.00 | 35.39 | 2.43 |
1808 | 1819 | 7.542477 | CGTATGTAGTCACTTGTTGAAATCTCT | 59.458 | 37.037 | 0.00 | 0.00 | 35.39 | 3.10 |
1809 | 1820 | 7.201444 | CCGTATGTAGTCACTTGTTGAAATCTC | 60.201 | 40.741 | 0.00 | 0.00 | 35.39 | 2.75 |
1810 | 1821 | 6.590292 | CCGTATGTAGTCACTTGTTGAAATCT | 59.410 | 38.462 | 0.00 | 0.00 | 35.39 | 2.40 |
1811 | 1822 | 6.588756 | TCCGTATGTAGTCACTTGTTGAAATC | 59.411 | 38.462 | 0.00 | 0.00 | 35.39 | 2.17 |
1812 | 1823 | 6.460781 | TCCGTATGTAGTCACTTGTTGAAAT | 58.539 | 36.000 | 0.00 | 0.00 | 35.39 | 2.17 |
1813 | 1824 | 5.845103 | TCCGTATGTAGTCACTTGTTGAAA | 58.155 | 37.500 | 0.00 | 0.00 | 35.39 | 2.69 |
1814 | 1825 | 5.456548 | TCCGTATGTAGTCACTTGTTGAA | 57.543 | 39.130 | 0.00 | 0.00 | 35.39 | 2.69 |
1815 | 1826 | 4.617530 | GCTCCGTATGTAGTCACTTGTTGA | 60.618 | 45.833 | 0.00 | 0.00 | 0.00 | 3.18 |
1816 | 1827 | 3.612860 | GCTCCGTATGTAGTCACTTGTTG | 59.387 | 47.826 | 0.00 | 0.00 | 0.00 | 3.33 |
1817 | 1828 | 3.257375 | TGCTCCGTATGTAGTCACTTGTT | 59.743 | 43.478 | 0.00 | 0.00 | 0.00 | 2.83 |
1818 | 1829 | 2.823747 | TGCTCCGTATGTAGTCACTTGT | 59.176 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
1819 | 1830 | 3.503827 | TGCTCCGTATGTAGTCACTTG | 57.496 | 47.619 | 0.00 | 0.00 | 0.00 | 3.16 |
1820 | 1831 | 4.530710 | TTTGCTCCGTATGTAGTCACTT | 57.469 | 40.909 | 0.00 | 0.00 | 0.00 | 3.16 |
1821 | 1832 | 4.530710 | TTTTGCTCCGTATGTAGTCACT | 57.469 | 40.909 | 0.00 | 0.00 | 0.00 | 3.41 |
1822 | 1833 | 4.868171 | TCATTTTGCTCCGTATGTAGTCAC | 59.132 | 41.667 | 0.00 | 0.00 | 0.00 | 3.67 |
1823 | 1834 | 5.079689 | TCATTTTGCTCCGTATGTAGTCA | 57.920 | 39.130 | 0.00 | 0.00 | 0.00 | 3.41 |
1824 | 1835 | 5.005779 | CACTCATTTTGCTCCGTATGTAGTC | 59.994 | 44.000 | 0.00 | 0.00 | 0.00 | 2.59 |
1825 | 1836 | 4.870426 | CACTCATTTTGCTCCGTATGTAGT | 59.130 | 41.667 | 0.00 | 0.00 | 0.00 | 2.73 |
1826 | 1837 | 5.109210 | TCACTCATTTTGCTCCGTATGTAG | 58.891 | 41.667 | 0.00 | 0.00 | 0.00 | 2.74 |
1827 | 1838 | 5.079689 | TCACTCATTTTGCTCCGTATGTA | 57.920 | 39.130 | 0.00 | 0.00 | 0.00 | 2.29 |
1828 | 1839 | 3.937814 | TCACTCATTTTGCTCCGTATGT | 58.062 | 40.909 | 0.00 | 0.00 | 0.00 | 2.29 |
1829 | 1840 | 4.944962 | TTCACTCATTTTGCTCCGTATG | 57.055 | 40.909 | 0.00 | 0.00 | 0.00 | 2.39 |
1830 | 1841 | 5.431765 | AGATTCACTCATTTTGCTCCGTAT | 58.568 | 37.500 | 0.00 | 0.00 | 0.00 | 3.06 |
1831 | 1842 | 4.832248 | AGATTCACTCATTTTGCTCCGTA | 58.168 | 39.130 | 0.00 | 0.00 | 0.00 | 4.02 |
1832 | 1843 | 3.679389 | AGATTCACTCATTTTGCTCCGT | 58.321 | 40.909 | 0.00 | 0.00 | 0.00 | 4.69 |
1833 | 1844 | 4.631377 | TGTAGATTCACTCATTTTGCTCCG | 59.369 | 41.667 | 0.00 | 0.00 | 0.00 | 4.63 |
1834 | 1845 | 5.645497 | AGTGTAGATTCACTCATTTTGCTCC | 59.355 | 40.000 | 0.00 | 0.00 | 44.07 | 4.70 |
1835 | 1846 | 6.734104 | AGTGTAGATTCACTCATTTTGCTC | 57.266 | 37.500 | 0.00 | 0.00 | 44.07 | 4.26 |
1891 | 1902 | 9.354673 | TGTCTTTTTAGAGATTTCAAATGGACT | 57.645 | 29.630 | 0.00 | 0.00 | 0.00 | 3.85 |
1892 | 1903 | 9.965824 | TTGTCTTTTTAGAGATTTCAAATGGAC | 57.034 | 29.630 | 0.00 | 0.00 | 0.00 | 4.02 |
1909 | 1920 | 8.520351 | CCTCCGTTCCTAAATATTTGTCTTTTT | 58.480 | 33.333 | 11.05 | 0.00 | 0.00 | 1.94 |
1910 | 1921 | 7.122204 | CCCTCCGTTCCTAAATATTTGTCTTTT | 59.878 | 37.037 | 11.05 | 0.00 | 0.00 | 2.27 |
1911 | 1922 | 6.602009 | CCCTCCGTTCCTAAATATTTGTCTTT | 59.398 | 38.462 | 11.05 | 0.00 | 0.00 | 2.52 |
1912 | 1923 | 6.069847 | TCCCTCCGTTCCTAAATATTTGTCTT | 60.070 | 38.462 | 11.05 | 0.00 | 0.00 | 3.01 |
1913 | 1924 | 5.427481 | TCCCTCCGTTCCTAAATATTTGTCT | 59.573 | 40.000 | 11.05 | 0.00 | 0.00 | 3.41 |
1914 | 1925 | 5.677567 | TCCCTCCGTTCCTAAATATTTGTC | 58.322 | 41.667 | 11.05 | 0.00 | 0.00 | 3.18 |
1915 | 1926 | 5.191124 | ACTCCCTCCGTTCCTAAATATTTGT | 59.809 | 40.000 | 11.05 | 0.00 | 0.00 | 2.83 |
1916 | 1927 | 5.681639 | ACTCCCTCCGTTCCTAAATATTTG | 58.318 | 41.667 | 11.05 | 1.40 | 0.00 | 2.32 |
1917 | 1928 | 5.970501 | ACTCCCTCCGTTCCTAAATATTT | 57.029 | 39.130 | 5.89 | 5.89 | 0.00 | 1.40 |
1918 | 1929 | 8.731591 | TTATACTCCCTCCGTTCCTAAATATT | 57.268 | 34.615 | 0.00 | 0.00 | 0.00 | 1.28 |
1919 | 1930 | 7.954620 | ACTTATACTCCCTCCGTTCCTAAATAT | 59.045 | 37.037 | 0.00 | 0.00 | 0.00 | 1.28 |
1920 | 1931 | 7.300658 | ACTTATACTCCCTCCGTTCCTAAATA | 58.699 | 38.462 | 0.00 | 0.00 | 0.00 | 1.40 |
1921 | 1932 | 6.141790 | ACTTATACTCCCTCCGTTCCTAAAT | 58.858 | 40.000 | 0.00 | 0.00 | 0.00 | 1.40 |
1922 | 1933 | 5.522641 | ACTTATACTCCCTCCGTTCCTAAA | 58.477 | 41.667 | 0.00 | 0.00 | 0.00 | 1.85 |
1923 | 1934 | 5.103771 | AGACTTATACTCCCTCCGTTCCTAA | 60.104 | 44.000 | 0.00 | 0.00 | 0.00 | 2.69 |
1924 | 1935 | 4.414846 | AGACTTATACTCCCTCCGTTCCTA | 59.585 | 45.833 | 0.00 | 0.00 | 0.00 | 2.94 |
1925 | 1936 | 3.204831 | AGACTTATACTCCCTCCGTTCCT | 59.795 | 47.826 | 0.00 | 0.00 | 0.00 | 3.36 |
1926 | 1937 | 3.564264 | AGACTTATACTCCCTCCGTTCC | 58.436 | 50.000 | 0.00 | 0.00 | 0.00 | 3.62 |
1927 | 1938 | 5.595257 | AAAGACTTATACTCCCTCCGTTC | 57.405 | 43.478 | 0.00 | 0.00 | 0.00 | 3.95 |
1928 | 1939 | 6.370186 | AAAAAGACTTATACTCCCTCCGTT | 57.630 | 37.500 | 0.00 | 0.00 | 0.00 | 4.44 |
1929 | 1940 | 6.894103 | TCTAAAAAGACTTATACTCCCTCCGT | 59.106 | 38.462 | 0.00 | 0.00 | 0.00 | 4.69 |
1930 | 1941 | 7.284944 | TCTCTAAAAAGACTTATACTCCCTCCG | 59.715 | 40.741 | 0.00 | 0.00 | 0.00 | 4.63 |
1931 | 1942 | 8.536340 | TCTCTAAAAAGACTTATACTCCCTCC | 57.464 | 38.462 | 0.00 | 0.00 | 0.00 | 4.30 |
2055 | 2068 | 8.019652 | ACTCCCTCCATTCCTAAATATAAGTCT | 58.980 | 37.037 | 0.00 | 0.00 | 0.00 | 3.24 |
2072 | 2085 | 5.461516 | TGTTGTAGTAGATACTCCCTCCA | 57.538 | 43.478 | 0.00 | 0.00 | 37.73 | 3.86 |
2105 | 2118 | 6.656314 | TGAAATACCTACTGCACATAAACG | 57.344 | 37.500 | 0.00 | 0.00 | 0.00 | 3.60 |
2510 | 2533 | 8.543774 | CCTGAGTTAATCTTACGATCATTTCAC | 58.456 | 37.037 | 0.00 | 0.00 | 0.00 | 3.18 |
2519 | 2542 | 6.829229 | TCTTCACCTGAGTTAATCTTACGA | 57.171 | 37.500 | 0.00 | 0.00 | 0.00 | 3.43 |
2562 | 2585 | 6.039270 | AGAGAGAGAAAGTCTATTCATCACCG | 59.961 | 42.308 | 0.00 | 0.00 | 34.71 | 4.94 |
2581 | 2604 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
2582 | 2605 | 5.139727 | AGAGAGAGAGAGAGAGAGAGAGAG | 58.860 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
2583 | 2606 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
2584 | 2607 | 5.139727 | AGAGAGAGAGAGAGAGAGAGAGAG | 58.860 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
2585 | 2608 | 5.136068 | AGAGAGAGAGAGAGAGAGAGAGA | 57.864 | 47.826 | 0.00 | 0.00 | 0.00 | 3.10 |
2586 | 2609 | 8.821686 | ATATAGAGAGAGAGAGAGAGAGAGAG | 57.178 | 42.308 | 0.00 | 0.00 | 0.00 | 3.20 |
2655 | 2678 | 5.835280 | CCATTTTCCTAGGGTGCAGAATATT | 59.165 | 40.000 | 9.46 | 0.00 | 0.00 | 1.28 |
2661 | 2684 | 2.493278 | CAACCATTTTCCTAGGGTGCAG | 59.507 | 50.000 | 9.46 | 0.00 | 32.66 | 4.41 |
2666 | 2689 | 4.918588 | AGTACACAACCATTTTCCTAGGG | 58.081 | 43.478 | 9.46 | 0.00 | 0.00 | 3.53 |
2718 | 2741 | 9.784531 | AGGTATAAAAGATTCATCTATGTGGTG | 57.215 | 33.333 | 0.00 | 0.00 | 35.76 | 4.17 |
2806 | 2956 | 9.850628 | CTTCAAAAATATGAGACACACATGATT | 57.149 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
2828 | 2978 | 8.308931 | ACAAATCAGTATAGACGTAAACCTTCA | 58.691 | 33.333 | 0.00 | 0.00 | 0.00 | 3.02 |
2846 | 2996 | 8.647143 | ACCTTTTTCACATACAAACAAATCAG | 57.353 | 30.769 | 0.00 | 0.00 | 0.00 | 2.90 |
2978 | 3448 | 7.025365 | TCAATATACCTCGTATACGCATTGAC | 58.975 | 38.462 | 20.42 | 0.00 | 34.41 | 3.18 |
3217 | 3689 | 2.299013 | CTGGAAAAGGTTGGGTTAAGCC | 59.701 | 50.000 | 17.01 | 17.01 | 37.49 | 4.35 |
3595 | 4068 | 5.145564 | AGAATTAATCGGGACCTGCTACTA | 58.854 | 41.667 | 0.00 | 0.00 | 0.00 | 1.82 |
3608 | 4081 | 6.491394 | TGGCACGGAAAATTAGAATTAATCG | 58.509 | 36.000 | 0.00 | 0.00 | 0.00 | 3.34 |
4118 | 4591 | 1.800805 | ACTTTGGCTCATCAGACACG | 58.199 | 50.000 | 0.00 | 0.00 | 37.40 | 4.49 |
4124 | 4597 | 5.129320 | TCTGCTTAGATACTTTGGCTCATCA | 59.871 | 40.000 | 0.00 | 0.00 | 0.00 | 3.07 |
4339 | 4812 | 1.533273 | ACCATAGCCGCCTCCGTAT | 60.533 | 57.895 | 0.00 | 0.00 | 0.00 | 3.06 |
4478 | 4951 | 5.182001 | AGGCAGAACTAGCAATTTACACTTG | 59.818 | 40.000 | 0.00 | 0.00 | 0.00 | 3.16 |
4585 | 5059 | 6.017852 | GCTTAATTGTGATTAGGTGCTAGACC | 60.018 | 42.308 | 0.00 | 0.00 | 46.58 | 3.85 |
4587 | 5061 | 5.753438 | CGCTTAATTGTGATTAGGTGCTAGA | 59.247 | 40.000 | 0.00 | 0.00 | 31.43 | 2.43 |
4745 | 5220 | 7.599245 | CCCTCCGTCTCATAATAAAGATGTTAC | 59.401 | 40.741 | 0.00 | 0.00 | 0.00 | 2.50 |
4765 | 5241 | 2.614057 | GCACAAAATGATACTCCCTCCG | 59.386 | 50.000 | 0.00 | 0.00 | 0.00 | 4.63 |
4859 | 5335 | 6.039616 | TGCAAACAGTACCAAGTGAAAAATC | 58.960 | 36.000 | 0.00 | 0.00 | 0.00 | 2.17 |
4984 | 5460 | 8.962679 | TGTAGTCACTATATACATGTCAACACA | 58.037 | 33.333 | 0.00 | 0.00 | 36.78 | 3.72 |
5328 | 5804 | 4.809426 | GTGACCTTCCAATACATAGGTTCG | 59.191 | 45.833 | 0.00 | 0.00 | 40.97 | 3.95 |
5912 | 6395 | 3.465403 | CAGGGTCTCTGGGCCTCG | 61.465 | 72.222 | 4.53 | 0.00 | 39.76 | 4.63 |
6043 | 6526 | 2.784347 | TGGTACATCGATTGGCAAACA | 58.216 | 42.857 | 3.01 | 0.00 | 0.00 | 2.83 |
6044 | 6527 | 3.057876 | TGTTGGTACATCGATTGGCAAAC | 60.058 | 43.478 | 3.01 | 0.00 | 39.30 | 2.93 |
6217 | 6701 | 1.069935 | GGATAGCTTGGGACGCCTC | 59.930 | 63.158 | 0.00 | 0.00 | 0.00 | 4.70 |
6368 | 6852 | 6.770785 | TGCTCCATAGGTAAATTATCAACCAC | 59.229 | 38.462 | 0.00 | 0.00 | 35.64 | 4.16 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.